Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 52 of 349
Found at i:15101184 original size:23 final size:23
Alignment explanation
Indices: 15101154--15101202 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
15101144 TGATTACGGC
*
15101154 TTAATTAAATTAACT-AATCATGT
1 TTAATTAAATTAA-TAAAACATGT
*
15101177 TTAATTAATTTAATAAAACATGT
1 TTAATTAAATTAATAAAACATGT
15101200 TTA
1 TTA
15101203 TCGATTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 1 0.04
23 22 0.96
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (23 bp):
TTAATTAAATTAATAAAACATGT
Found at i:15107150 original size:18 final size:18
Alignment explanation
Indices: 15107127--15107166 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
15107117 GATCGGCCTT
*
15107127 GCCTGTGTGGCCCATACG
1 GCCTGTATGGCCCATACG
15107145 GCCTGTATGGCCCATACG
1 GCCTGTATGGCCCATACG
15107163 GCCT
1 GCCT
15107167 TGCCTAAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.12, C:0.35, G:0.30, T:0.23
Consensus pattern (18 bp):
GCCTGTATGGCCCATACG
Found at i:15111696 original size:16 final size:16
Alignment explanation
Indices: 15111675--15111709 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
15111665 CTCACGTTCT
* *
15111675 TTTCTTTTTCTTTTTC
1 TTTCTTTCTCTTTTAC
15111691 TTTCTTTCTCTTTTAC
1 TTTCTTTCTCTTTTAC
15111707 TTT
1 TTT
15111710 TGTTTTTGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTCTTTCTCTTTTAC
Found at i:15112833 original size:21 final size:21
Alignment explanation
Indices: 15112808--15112850 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
15112798 GGTTACGTTT
*
15112808 ATGATGAGGAGGAACTTCTGG
1 ATGATGAGAAGGAACTTCTGG
*
15112829 ATGATGAGAAGGAAGTTCTGG
1 ATGATGAGAAGGAACTTCTGG
15112850 A
1 A
15112851 AGACTATGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.07, G:0.37, T:0.23
Consensus pattern (21 bp):
ATGATGAGAAGGAACTTCTGG
Found at i:15115695 original size:37 final size:37
Alignment explanation
Indices: 15115645--15115727 Score: 166
Period size: 37 Copynumber: 2.2 Consensus size: 37
15115635 TGTTACAAAT
15115645 TTGGTGTGTGGGTTGGATGGGTACTTGATTACCCTAA
1 TTGGTGTGTGGGTTGGATGGGTACTTGATTACCCTAA
15115682 TTGGTGTGTGGGTTGGATGGGTACTTGATTACCCTAA
1 TTGGTGTGTGGGTTGGATGGGTACTTGATTACCCTAA
15115719 TTGGTGTGT
1 TTGGTGTGT
15115728 TAGGCGGGAC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.14, C:0.10, G:0.36, T:0.40
Consensus pattern (37 bp):
TTGGTGTGTGGGTTGGATGGGTACTTGATTACCCTAA
Found at i:15119051 original size:28 final size:28
Alignment explanation
Indices: 15119016--15119076 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 28
15119006 TAAGTGTAAT
* *
15119016 ATTAAACAAATTGTTTTAATAAAAATAC
1 ATTAAACAAATTGGTTCAATAAAAATAC
*
15119044 ATTAAACAAATTGGTTCAATAAAAATCC
1 ATTAAACAAATTGGTTCAATAAAAATAC
15119072 ATTAA
1 ATTAA
15119077 TTACATCAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.52, C:0.10, G:0.05, T:0.33
Consensus pattern (28 bp):
ATTAAACAAATTGGTTCAATAAAAATAC
Found at i:15120216 original size:14 final size:13
Alignment explanation
Indices: 15120177--15120218 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 13
15120167 ATTATTATTT
15120177 AATTAAATAATTG
1 AATTAAATAATTG
15120190 AAGTTCAAA-AATTG
1 AA-TT-AAATAATTG
15120204 AATTAAATTAATTG
1 AATTAAA-TAATTG
15120218 A
1 A
15120219 TCATTGTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
12 3 0.12
13 4 0.16
14 15 0.60
15 3 0.12
ACGTcount: A:0.52, C:0.02, G:0.10, T:0.36
Consensus pattern (13 bp):
AATTAAATAATTG
Found at i:15136063 original size:55 final size:54
Alignment explanation
Indices: 15135984--15136088 Score: 165
Period size: 55 Copynumber: 1.9 Consensus size: 54
15135974 TAATACGAGC
* *
15135984 GTGCGACACACCGTGCCCACCACCCATGGTCGAAACTGTAAAAATAACATGGGT
1 GTGCGACACACCATGCCCACCACCCATGGTCAAAACTGTAAAAATAACATGGGT
* *
15136038 GTGCGACACACCCATGCCCACCACCCGTGGTCAAAACTGTCAAAATAACAT
1 GTGCGACACA-CCATGCCCACCACCCATGGTCAAAACTGTAAAAATAACAT
15136089 AGGCGTGCAC
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
54 10 0.22
55 36 0.78
ACGTcount: A:0.32, C:0.32, G:0.19, T:0.16
Consensus pattern (54 bp):
GTGCGACACACCATGCCCACCACCCATGGTCAAAACTGTAAAAATAACATGGGT
Found at i:15143565 original size:25 final size:25
Alignment explanation
Indices: 15143537--15143588 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
15143527 TTTGGAGCCA
15143537 TTTATATTGGTTAAAATGCTTCGTT
1 TTTATATTGGTTAAAATGCTTCGTT
*
15143562 TTTATATTGGTTAAAATGGTTCGTT
1 TTTATATTGGTTAAAATGCTTCGTT
15143587 TT
1 TT
15143589 AGCAGTAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.23, C:0.06, G:0.17, T:0.54
Consensus pattern (25 bp):
TTTATATTGGTTAAAATGCTTCGTT
Found at i:15143723 original size:6 final size:6
Alignment explanation
Indices: 15143712--15143738 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
15143702 AATATAATTT
15143712 TTTAAA TTTAAA TTTAAA TTTAAA TTT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTT
15143739 TTTATTATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:15145787 original size:41 final size:41
Alignment explanation
Indices: 15145720--15145970 Score: 252
Period size: 41 Copynumber: 6.1 Consensus size: 41
15145710 GGAGATAGTG
* * * * *
15145720 TATCAGGCCTTGAGTCTAGTAGGCTTCGTGTCAGTGTGTTA
1 TATCAGGCTTTGTGCCTAGCAGGCTTCGTGTCAGTGTATTA
* *
15145761 TATCAGGCTTTGTGCCTAGCAAGCTTCGTGCCAGTGTATTA
1 TATCAGGCTTTGTGCCTAGCAGGCTTCGTGTCAGTGTATTA
* * * *
15145802 TATTAGGCTTTATGCCTAGCAAGCTTCGTGTC-GATATATTA
1 TATCAGGCTTTGTGCCTAGCAGGCTTCGTGTCAG-TGTATTA
* * ** * *
15145843 TATCAGGCTTTATGCCTAGTAGGCTTTATTTCGGTGTATTA
1 TATCAGGCTTTGTGCCTAGCAGGCTTCGTGTCAGTGTATTA
* ** * *
15145884 TATCAGGCTTTGTGCCTAGTAGGCTTTATGTCAATGTGTTA
1 TATCAGGCTTTGTGCCTAGCAGGCTTCGTGTCAGTGTATTA
* * * *
15145925 TATCAGGCTTTGAGCCTAGCAGGCTTCGTGCCAGTGTCTTG
1 TATCAGGCTTTGTGCCTAGCAGGCTTCGTGTCAGTGTATTA
15145966 TATCA
1 TATCA
15145971 AGTAAGTTGT
Statistics
Matches: 177, Mismatches: 31, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
40 1 0.01
41 175 0.99
42 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.38
Consensus pattern (41 bp):
TATCAGGCTTTGTGCCTAGCAGGCTTCGTGTCAGTGTATTA
Found at i:15145970 original size:123 final size:123
Alignment explanation
Indices: 15145718--15145956 Score: 284
Period size: 123 Copynumber: 1.9 Consensus size: 123
15145708 TTGGAGATAG
* * *
15145718 TGTATCAGGCCTTGAGTCTAGTAGGCTTCGTGTCAGTGTGTTATATCAGGCTTTGTGCCTAGCAA
1 TGTATCAGGCCTTGAGCCTAGTAGGCTTCATGTCAGTGTATTATATCAGGCTTTGTGCCTAGCAA
* * * *
15145783 GCTTCGTGCCAGTGTATTATATTAGGCTTTATGCCTAGCAAGCTTCGTGTCGATATAT
66 GCTTCATGCCAATGTATTATATCAGGCTTTATGCCTAGCAAGCTTCGTGCCGATATAT
* * * * * *
15145841 TATATCAGG-CTTTATGCCTAGTAGGCTTTATTTCGGTGTATTATATCAGGCTTTGTGCCTAGTA
1 TGTATCAGGCCTTGA-GCCTAGTAGGCTTCATGTCAGTGTATTATATCAGGCTTTGTGCCTAGCA
* * * * *
15145905 GGCTTTATGTCAATGTGTTATATCAGGCTTTGA-GCCTAGCAGGCTTCGTGCC
65 AGCTTCATGCCAATGTATTATATCAGGCTTT-ATGCCTAGCAAGCTTCGTGCC
15145957 AGTGTCTTGT
Statistics
Matches: 96, Mismatches: 18, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
122 4 0.04
123 91 0.95
124 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.38
Consensus pattern (123 bp):
TGTATCAGGCCTTGAGCCTAGTAGGCTTCATGTCAGTGTATTATATCAGGCTTTGTGCCTAGCAA
GCTTCATGCCAATGTATTATATCAGGCTTTATGCCTAGCAAGCTTCGTGCCGATATAT
Found at i:15150656 original size:26 final size:27
Alignment explanation
Indices: 15150603--15150657 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
15150593 CATACCATAA
15150603 TTACCTTTTTACTTAACAAATTTGTTT
1 TTACCTTTTTACTTAACAAATTTGTTT
15150630 TTACCTTTTTACTTAACAAATTT-TTT
1 TTACCTTTTTACTTAACAAATTTGTTT
15150656 TT
1 TT
15150658 CTTCAAATAG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 5 0.18
27 23 0.82
ACGTcount: A:0.25, C:0.15, G:0.02, T:0.58
Consensus pattern (27 bp):
TTACCTTTTTACTTAACAAATTTGTTT
Found at i:15166166 original size:14 final size:13
Alignment explanation
Indices: 15166146--15166177 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
15166136 AATATTTGAC
15166146 TTGTTCTTAATTA
1 TTGTTCTTAATTA
15166159 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
15166173 TTGTT
1 TTGTT
15166178 TTGATGTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:15166613 original size:26 final size:26
Alignment explanation
Indices: 15166584--15166637 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
15166574 TTTTTCTTTC
15166584 TATGCATTCTTAGTTAGTAATTAGTT
1 TATGCATTCTTAGTTAGTAATTAGTT
15166610 TATGCATTCTTAGTTAGTAATTAGTT
1 TATGCATTCTTAGTTAGTAATTAGTT
15166636 TA
1 TA
15166638 GACAACCAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.28, C:0.07, G:0.15, T:0.50
Consensus pattern (26 bp):
TATGCATTCTTAGTTAGTAATTAGTT
Found at i:15167880 original size:46 final size:46
Alignment explanation
Indices: 15167816--15167912 Score: 115
Period size: 46 Copynumber: 2.1 Consensus size: 46
15167806 GTTCGATTAT
* *
15167816 ATATTGGCACTTATTGTGCG-AGACCAAAATAGCTTCGGCTATATAA
1 ATATTAGCACTTAGTGTGCGTA-ACCAAAATAGCTTCGGCTATATAA
*** * *
15167862 ATATTAGCACTTAGTGTGCGTAATTGAGATAGCTTCGGCTATATAT
1 ATATTAGCACTTAGTGTGCGTAACCAAAATAGCTTCGGCTATATAA
15167908 ATATT
1 ATATT
15167913 GTAACACCCC
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
46 42 0.98
47 1 0.02
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35
Consensus pattern (46 bp):
ATATTAGCACTTAGTGTGCGTAACCAAAATAGCTTCGGCTATATAA
Found at i:15171122 original size:26 final size:26
Alignment explanation
Indices: 15171091--15171198 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
15171081 TGAAATGCCC
*
15171091 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
15171117 ATCATGGAACATTTACCTAACCCGTT
1 ATCATGGAACATTTACCTAACCCATT
* *
15171143 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
15171169 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
15171195 ATCA
1 ATCA
15171199 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:15176072 original size:16 final size:17
Alignment explanation
Indices: 15176054--15176101 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 17
15176044 AAGCCCCCCC
15176054 AAAAAAAACCTAACCCAA
1 AAAAAAAACCTAACCC-A
15176072 AAAAAAAACCTAACCCCCCA
1 AAAAAAAACCTAA---CCCA
15176092 AAAAAAAACC
1 AAAAAAAACC
15176102 AAGAAACCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 13 0.48
20 11 0.41
21 3 0.11
ACGTcount: A:0.65, C:0.31, G:0.00, T:0.04
Consensus pattern (17 bp):
AAAAAAAACCTAACCCA
Found at i:15176077 original size:18 final size:19
Alignment explanation
Indices: 15176054--15176101 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 19
15176044 AAGCCCCCCC
15176054 AAAAAAAACCTAA-CCCAA
1 AAAAAAAACCTAACCCCAA
*
15176072 AAAAAAAACCTAACCCCCCA
1 AAAAAAAACCTAA-CCCCAA
15176092 AAAAAAAACC
1 AAAAAAAACC
15176102 AAGAAACCCT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 13 0.48
20 14 0.52
ACGTcount: A:0.65, C:0.31, G:0.00, T:0.04
Consensus pattern (19 bp):
AAAAAAAACCTAACCCCAA
Found at i:15176884 original size:37 final size:37
Alignment explanation
Indices: 15176842--15176941 Score: 91
Period size: 37 Copynumber: 2.6 Consensus size: 37
15176832 CTAATATTTT
15176842 CTTTTATTGTAGATATTATTATTATTATTAT-TACATA
1 CTTTTATT-TAGATATTATTATTATTATTATGTACATA
*
15176879 CTTTTATTATATGCATA-TATATATGTATTTTTATGTACATA
1 CTTTTATT-TA-G-ATATTAT-TAT-TATTATTATGTACATA
*
15176920 -TTATTATTT-TATATTATTATTA
1 CTT-TTATTTAGATATTATTATTA
15176942 CCAAATATAT
Statistics
Matches: 53, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
36 2 0.04
37 16 0.30
38 7 0.13
39 6 0.11
40 11 0.21
41 11 0.21
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (37 bp):
CTTTTATTTAGATATTATTATTATTATTATGTACATA
Found at i:15179819 original size:26 final size:26
Alignment explanation
Indices: 15179783--15179890 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
15179773 TGAAATGCCC
* *
15179783 ATCATGGAACATTTACCTAAACCTTT
1 ATCATGGAACATTTACCTAACCCATT
* *
15179809 ATCATGGAACATTTACTTAACCCGTT
1 ATCATGGAACATTTACCTAACCCATT
* *
15179835 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
15179861 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
15179887 ATCA
1 ATCA
15179891 ATTTGTACCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.34, C:0.23, G:0.08, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:15181423 original size:41 final size:41
Alignment explanation
Indices: 15181353--15181527 Score: 244
Period size: 41 Copynumber: 4.3 Consensus size: 41
15181343 ATAAAATTTT
* * ***
15181353 CTAGGC-ATAAAGCCTAGTACAATACACCGGCACGGAGCCTG
1 CTAGGCAAT-AAGCCTAATATAATACACCGGCATAAAGCCTG
* *
15181394 CTAGGCAATAGGCCTAATATAATATACCGGCATAAAGCCTG
1 CTAGGCAATAAGCCTAATATAATACACCGGCATAAAGCCTG
*
15181435 CTAGGCAATAAGCCTGATATAATACACCGGCATAAAGCCTG
1 CTAGGCAATAAGCCTAATATAATACACCGGCATAAAGCCTG
* *
15181476 CTAGGCAATAAGCCTGATATAATACACTGGCATAAAGCCTG
1 CTAGGCAATAAGCCTAATATAATACACCGGCATAAAGCCTG
15181517 CTAGGCAATAA
1 CTAGGCAATAA
15181528 AACCTGAATA
Statistics
Matches: 122, Mismatches: 11, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
41 120 0.98
42 2 0.02
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.19
Consensus pattern (41 bp):
CTAGGCAATAAGCCTAATATAATACACCGGCATAAAGCCTG
Found at i:15182740 original size:13 final size:13
Alignment explanation
Indices: 15182722--15182746 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15182712 TATAAACACC
15182722 AAAAATATTTTTA
1 AAAAATATTTTTA
15182735 AAAAATATTTTT
1 AAAAATATTTTT
15182747 CTAACTCGGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AAAAATATTTTTA
Found at i:15185787 original size:13 final size:13
Alignment explanation
Indices: 15185769--15185793 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15185759 TGTGGGTGCA
15185769 CATGGCCGTGTCG
1 CATGGCCGTGTCG
15185782 CATGGCCGTGTC
1 CATGGCCGTGTC
15185794 TTGCTTTGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.32, G:0.36, T:0.24
Consensus pattern (13 bp):
CATGGCCGTGTCG
Found at i:15187914 original size:13 final size:13
Alignment explanation
Indices: 15187896--15187924 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
15187886 TTTAGTTTAA
15187896 TTAGTTAATTAGT
1 TTAGTTAATTAGT
15187909 TTAGTTAATTAGT
1 TTAGTTAATTAGT
15187922 TTA
1 TTA
15187925 ATAAACAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:15190012 original size:28 final size:27
Alignment explanation
Indices: 15189957--15190067 Score: 136
Period size: 27 Copynumber: 4.1 Consensus size: 27
15189947 AGCATGGCTG
* *
15189957 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
15189983 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAATTGTGGCAGAGCCA
*
15190011 CCAGAACAGA-AATATGTTGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* *
15190038 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
15190065 CCA
1 CCA
15190068 AGACGCTTCC
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 8 0.11
27 47 0.64
28 18 0.25
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:15190048 original size:54 final size:54
Alignment explanation
Indices: 15189957--15190067 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
15189947 AGCATGGCTG
* *
15189957 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* *
15190011 CCAGAACAGAAATATGTTG-CAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATG-TGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
15190065 CCA
1 CCA
15190068 AGACGCTTCC
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
54 33 0.65
55 16 0.31
56 2 0.04
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:15196701 original size:40 final size:40
Alignment explanation
Indices: 15196610--15196744 Score: 155
Period size: 41 Copynumber: 3.3 Consensus size: 40
15196600 ACATAAAATT
* *
15196610 TGCTAGGC-ATAAAGCCTAGTATAATACACCGGCACAGAGCC
1 TGCTAGGCAAT-AAGCCTAATATAATACACCGGCATA-AGCC
* * * *
15196651 TACTAGGCAATAGGTCTAATATAATATACCGGCATAAGCC
1 TGCTAGGCAATAAGCCTAATATAATACACCGGCATAAGCC
* *
15196691 TGCTAGGCAATAAGCCTGATATAATACAGCGGCATAAAGCC
1 TGCTAGGCAATAAGCCTAATATAATACACCGGCAT-AAGCC
*
15196732 TGCTAGCCAATAA
1 TGCTAGGCAATAA
15196745 AGCCCGAATA
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
40 33 0.42
41 44 0.56
42 2 0.03
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (40 bp):
TGCTAGGCAATAAGCCTAATATAATACACCGGCATAAGCC
Found at i:15208166 original size:55 final size:55
Alignment explanation
Indices: 15208024--15208233 Score: 225
Period size: 55 Copynumber: 3.9 Consensus size: 55
15208014 GTATCCTTTT
* * * *
15208024 GAAACTTACCATTGACATGCCTCGACATGGTCTTACATGGTATCC-TAGCCTTAT-
1 GAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTTG-CTTATA
* * *
15208078 G-AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGACTTATA
1 GAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTTG-CTTATA
* * * *
15208132 GAAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTT-CCT-TA
1 GAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTTGCTTATA
* *
15208185 GAAACCTTACCAATTTCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 GAAA-CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
15208234 AAACCCCAAT
Statistics
Matches: 130, Mismatches: 20, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
52 2 0.02
53 47 0.36
54 11 0.08
55 65 0.50
56 5 0.04
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (55 bp):
GAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTTGCTTATA
Found at i:15214940 original size:46 final size:46
Alignment explanation
Indices: 15214815--15214979 Score: 181
Period size: 48 Copynumber: 3.5 Consensus size: 46
15214805 TTCAGTTATG
* *
15214815 TATTGGCACTTTGTGTGCGAGATTGAAATAGCTTCGACTACATATATA
1 TATTGGCACTTAGTGTGCGAGATTGAAATAGCTTCGACT--ATATAAA
* *
15214863 TATTGGCACTTAGTGTGCGAGACTAAAATAGCTTCGACTATATAAA
1 TATTGGCACTTAGTGTGCGAGATTGAAATAGCTTCGACTATATAAA
*
15214909 TATTGGCACTTAGTGTGCGTA-ATTGAGATAGCTTCTG-CTATATATACA
1 TATTGGCACTTAGTGTGCG-AGATTGAAATAGCTTC-GACTATATA-A-A
* * * *
15214957 CACTGGCACTTAGCGTACGAGAT
1 TATTGGCACTTAGTGTGCGAGAT
15214980 CAATAGAGTT
Statistics
Matches: 101, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
46 43 0.43
47 4 0.04
48 54 0.53
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (46 bp):
TATTGGCACTTAGTGTGCGAGATTGAAATAGCTTCGACTATATAAA
Found at i:15214993 original size:94 final size:94
Alignment explanation
Indices: 15214815--15214997 Score: 219
Period size: 94 Copynumber: 1.9 Consensus size: 94
15214805 TTCAGTTATG
* * * * * *
15214815 TATTGGCACTTTGTGTGCGAGATTGAAATAGCTTCGACTACATATATATATTGGCACTTAGTGTG
1 TATTGGCACTTAGTGTGCGAGATTGAAATAGCTTCGACTACATATACACACTGGCACTTAGCGTA
*
15214880 CGAGACTAAAATAGCTTCGACTATATAAA
66 CGAGACTAAAAGAGCTTCGACTATATAAA
* *
15214909 TATTGGCACTTAGTGTGCGTA-ATTGAGATAGCTTCTG-CTATATATACACACTGGCACTTAGCG
1 TATTGGCACTTAGTGTGCG-AGATTGAAATAGCTTC-GACTACATATACACACTGGCACTTAGCG
* *
15214972 TACGAGA-TCAATAGAGTTTCGACTAT
64 TACGAGACT-AAAAGAGCTTCGACTAT
15214998 TTATTTGGCA
Statistics
Matches: 75, Mismatches: 11, Indels: 6
0.82 0.12 0.07
Matches are distributed among these distances:
93 1 0.01
94 72 0.96
95 2 0.03
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (94 bp):
TATTGGCACTTAGTGTGCGAGATTGAAATAGCTTCGACTACATATACACACTGGCACTTAGCGTA
CGAGACTAAAAGAGCTTCGACTATATAAA
Found at i:15217080 original size:16 final size:16
Alignment explanation
Indices: 15217061--15217091 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15217051 CTTCTTCACT
15217061 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
15217077 TACTTACTTACTTAA
1 TACTCACTTACTTAA
15217092 TGAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:15217097 original size:20 final size:20
Alignment explanation
Indices: 15217058--15217097 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
15217048 AAACTTCTTC
* *
15217058 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATGAAAT
*
15217078 ACTTACTTACTTAATGAAAT
1 ACTTACTCACTTAATGAAAT
15217098 TTATTAATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.20, G:0.03, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATGAAAT
Found at i:15217446 original size:55 final size:55
Alignment explanation
Indices: 15217277--15217510 Score: 247
Period size: 55 Copynumber: 4.4 Consensus size: 55
15217267 CATGAATTGT
* * * *
15217277 CATGGTCTTACATGGTATCC-T---TT-T-GAAACTTACCATTGACATGTCTCGA
1 CATGGTCTTACATGGTATCCTTGCCTTATAGAAACTTACCAATGCCATGCCTTGA
* *
15217326 CATGGTCTTACATGGTATCCTTGCCTTAT-G-AACTCACCAATGCCATGCCTTGG
1 CATGGTCTTACATGGTATCCTTGCCTTATAGAAACTTACCAATGCCATGCCTTGA
* * * *
15217379 TATGGTCTTACATGGGA-CCTTTGCCTTATAGAAACTTATCAATGCCATGTCTTGA
1 CATGGTCTTACATGGTATCC-TTGCCTTATAGAAACTTACCAATGCCATGCCTTGA
* * *
15217434 CATGGTCTTACATGATATCCTTGCC-T-TAGAAACCTTACCAATTTCCATGCCTTGG
1 CATGGTCTTACATGGTATCCTTGCCTTATAGAAA-CTTACCAA-TGCCATGCCTTGA
15217489 CATGGTCTTACATGGTATCCTT
1 CATGGTCTTACATGGTATCCTT
15217511 AAACCCCAAT
Statistics
Matches: 154, Mismatches: 20, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
49 20 0.13
50 1 0.01
52 2 0.01
53 49 0.32
54 11 0.07
55 69 0.45
56 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.35
Consensus pattern (55 bp):
CATGGTCTTACATGGTATCCTTGCCTTATAGAAACTTACCAATGCCATGCCTTGA
Found at i:15220136 original size:26 final size:27
Alignment explanation
Indices: 15220086--15220139 Score: 69
Period size: 26 Copynumber: 2.0 Consensus size: 27
15220076 TTGCCTCAAG
15220086 TTCAAATCTTTTTGAGTCATCAAATAT
1 TTCAAATCTTTTTGAGTCATCAAATAT
15220113 TTCAAA-CTTTTGTGA-TCAGT-AAATAT
1 TTCAAATCTTTT-TGAGTCA-TCAAATAT
15220139 T
1 T
15220140 CAGCACTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
26 15 0.60
27 10 0.40
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.44
Consensus pattern (27 bp):
TTCAAATCTTTTTGAGTCATCAAATAT
Found at i:15232223 original size:26 final size:26
Alignment explanation
Indices: 15232187--15232237 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
15232177 TCGCAACCCG
*
15232187 ACTGACACTAGTATTTCTAGGATATA
1 ACTGACACTAGCATTTCTAGGATATA
*
15232213 ACTGGCACTAGCATTTCTAGGATAT
1 ACTGACACTAGCATTTCTAGGATAT
15232238 CTCGGAGGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (26 bp):
ACTGACACTAGCATTTCTAGGATATA
Found at i:15234297 original size:48 final size:48
Alignment explanation
Indices: 15234242--15234344 Score: 206
Period size: 48 Copynumber: 2.1 Consensus size: 48
15234232 TGGCTAAGGA
15234242 GTATATGTATATTATGATGCTTATATGTTTATATTGTTAAGTTTATTT
1 GTATATGTATATTATGATGCTTATATGTTTATATTGTTAAGTTTATTT
15234290 GTATATGTATATTATGATGCTTATATGTTTATATTGTTAAGTTTATTT
1 GTATATGTATATTATGATGCTTATATGTTTATATTGTTAAGTTTATTT
15234338 GTATATG
1 GTATATG
15234345 GCTTACTAAG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 55 1.00
ACGTcount: A:0.27, C:0.02, G:0.16, T:0.55
Consensus pattern (48 bp):
GTATATGTATATTATGATGCTTATATGTTTATATTGTTAAGTTTATTT
Found at i:15243341 original size:3 final size:3
Alignment explanation
Indices: 15243333--15243358 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
15243323 AAAATAGGAA
15243333 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
15243359 AACTAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:15245685 original size:6 final size:6
Alignment explanation
Indices: 15245674--15245702 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
15245664 ATATCAATCC
15245674 AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
15245703 AGAATGCCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:15247823 original size:25 final size:25
Alignment explanation
Indices: 15247787--15247842 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 25
15247777 GTGTTCTTGG
*
15247787 TTCTTTTTTATTTT-TATTTAGTTT-T
1 TTCTTTTGTATTTTCT-TTTA-TTTCT
15247812 TTCTTTTGTATTTTCTTTTATTTCT
1 TTCTTTTGTATTTTCTTTTATTTCT
15247837 TTCTTT
1 TTCTTT
15247843 CTCTTCGCGA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 3 0.11
25 24 0.86
26 1 0.04
ACGTcount: A:0.09, C:0.09, G:0.04, T:0.79
Consensus pattern (25 bp):
TTCTTTTGTATTTTCTTTTATTTCT
Found at i:15248838 original size:3 final size:3
Alignment explanation
Indices: 15248832--15248911 Score: 56
Period size: 3 Copynumber: 26.7 Consensus size: 3
15248822 CATCATCATC
* * * * *
15248832 ATT ATT ATT GA-T ATT ATT ATT ATT ATT ATT GTT ACTT TTT GTC ACT
1 ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT
* * *
15248878 ATT GTC ATT ATT A-T ATT ATT ACT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
15248912 ACTTATATTC
Statistics
Matches: 58, Mismatches: 15, Indels: 8
0.72 0.19 0.10
Matches are distributed among these distances:
2 3 0.05
3 52 0.90
4 3 0.05
ACGTcount: A:0.29, C:0.06, G:0.05, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:15252154 original size:13 final size:13
Alignment explanation
Indices: 15252138--15252162 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15252128 CCATTACCAG
15252138 AAATAATAATAAC
1 AAATAATAATAAC
15252151 AAATAATAATAA
1 AAATAATAATAA
15252163 ATATCTAAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (13 bp):
AAATAATAATAAC
Found at i:15252492 original size:2 final size:2
Alignment explanation
Indices: 15252473--15252554 Score: 146
Period size: 2 Copynumber: 41.0 Consensus size: 2
15252463 TCTCCATGCA
* *
15252473 CT CT CA CT CT CA CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
15252515 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
15252555 TTTCTGGCAA
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 76 1.00
ACGTcount: A:0.02, C:0.50, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:15268364 original size:20 final size:20
Alignment explanation
Indices: 15268302--15268358 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
15268292 TAATTTATCC
15268302 ATTTA-TTTTATTTTTTTAA
1 ATTTATTTTTATTTTTTTAA
** *
15268321 ATTTATTTTTACATTTTTGA
1 ATTTATTTTTATTTTTTTAA
*
15268341 ATTTGTTTTTATTTTTTT
1 ATTTATTTTTATTTTTTT
15268359 TTATTTTTCG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
19 5 0.16
20 26 0.84
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.74
Consensus pattern (20 bp):
ATTTATTTTTATTTTTTTAA
Found at i:15279433 original size:6 final size:6
Alignment explanation
Indices: 15279422--15279448 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
15279412 TTTGAATCCC
15279422 TTTTAT TTTTAT TTTTAT TTTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTT
15279449 CCCTTATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:15288231 original size:93 final size:93
Alignment explanation
Indices: 15288125--15288296 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
15288115 GCCCATAAGT
* * *
15288125 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
15288190 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
15288218 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
15288283 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
15288297 CAAGCATCCT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:15288292 original size:46 final size:46
Alignment explanation
Indices: 15288117--15288292 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
15288107 TGTAACCTGC
* * *
15288117 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
15288163 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
15288209 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
15288256 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
15288293 TGCCCAAGCA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 2 0.02
46 70 0.64
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:15291368 original size:15 final size:14
Alignment explanation
Indices: 15291340--15291366 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15291330 TTTTGCTAGT
15291340 TAGACAATTTTTTC
1 TAGACAATTTTTTC
15291354 TAGACAATTTTTT
1 TAGACAATTTTTT
15291367 TCAATTCGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.11, G:0.07, T:0.52
Consensus pattern (14 bp):
TAGACAATTTTTTC
Found at i:15292182 original size:13 final size:13
Alignment explanation
Indices: 15292164--15292190 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
15292154 GAAATAATCG
15292164 CACACGGGCGTGT
1 CACACGGGCGTGT
15292177 CACACGGGCGTGT
1 CACACGGGCGTGT
15292190 C
1 C
15292191 CCTCCCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:15292486 original size:79 final size:79
Alignment explanation
Indices: 15292355--15292514 Score: 320
Period size: 79 Copynumber: 2.0 Consensus size: 79
15292345 AGACTGAAGA
15292355 TTTCCCCTCAATTTCCCTTCAGGAGTTTTGGGTTTTCTTTATGTTTTGTATTCATTATTCTTCTG
1 TTTCCCCTCAATTTCCCTTCAGGAGTTTTGGGTTTTCTTTATGTTTTGTATTCATTATTCTTCTG
15292420 AGATGTTTTCCTTT
66 AGATGTTTTCCTTT
15292434 TTTCCCCTCAATTTCCCTTCAGGAGTTTTGGGTTTTCTTTATGTTTTGTATTCATTATTCTTCTG
1 TTTCCCCTCAATTTCCCTTCAGGAGTTTTGGGTTTTCTTTATGTTTTGTATTCATTATTCTTCTG
15292499 AGATGTTTTCCTTT
66 AGATGTTTTCCTTT
15292513 TT
1 TT
15292515 AGTTATGGAC
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 81 1.00
ACGTcount: A:0.12, C:0.19, G:0.14, T:0.55
Consensus pattern (79 bp):
TTTCCCCTCAATTTCCCTTCAGGAGTTTTGGGTTTTCTTTATGTTTTGTATTCATTATTCTTCTG
AGATGTTTTCCTTT
Found at i:15296023 original size:93 final size:93
Alignment explanation
Indices: 15295915--15296178 Score: 422
Period size: 93 Copynumber: 2.8 Consensus size: 93
15295905 CCCATAAGCG
* * *
15295915 AACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 AACTCAGACTCAACTCAACGAG-TTCGGACGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
15295979 CGAGCTCGGATGCCTAGTTACATCTCACA
65 CGAGCTCGGATGCCTAGTTACATCTCACA
* *
15296008 AACTCAGACTCAACTCAATGAGTTCGGATGTTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
1 AACTCAGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
* *
15296073 GAGCTCGGATGCCTAGTTACATCTTACG
66 GAGCTCGGATGCCTAGTTACATCTCACA
*
15296101 AACTCAGACTCAACTCAACGAGTTCAGACGTTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
1 AACTCAGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
* *
15296166 AAGTTCGGATGCC
66 GAGCTCGGATGCC
15296179 CAAATATCCT
Statistics
Matches: 158, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
92 2 0.01
93 156 0.99
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (93 bp):
AACTCAGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCACA
Found at i:15296035 original size:47 final size:47
Alignment explanation
Indices: 15295961--15296122 Score: 181
Period size: 47 Copynumber: 3.5 Consensus size: 47
15295951 TCCATAAGTG
*
15295961 AACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACA
1 AACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACA
* * ** *
15296008 AACTCAGACTCAACTCAATGAGTTCGGATG--T--TCGCATC-CATAA
1 AACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCA-CA
* *
15296051 GTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTTACG
1 ---AACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACA
15296101 AACTCAGACTCAACTCAACGAG
1 AACTCAGACTCAACTCAACGAG
15296123 TTCAGACGTT
Statistics
Matches: 93, Mismatches: 13, Indels: 18
0.75 0.10 0.15
Matches are distributed among these distances:
42 2 0.02
43 6 0.06
45 1 0.01
46 28 0.30
47 49 0.53
48 1 0.01
50 5 0.05
51 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.22
Consensus pattern (47 bp):
AACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACA
Found at i:15296171 original size:46 final size:46
Alignment explanation
Indices: 15295906--15296171 Score: 192
Period size: 46 Copynumber: 5.7 Consensus size: 46
15295896 TGTAACCTGC
* * * *
15295906 CCATAAGCGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAG-TTCAGACGTTCGCAT
* * * *
15295952 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTC--A-GAC--GTTCGCAT
* * * *
15296002 CTCA-CA---AACTCAGACTCAACTCAATGAGTTCGGATGTTCGCAT
1 C-CATAAGTGAACTCAGACTCAACTCAACGAGTTCAGACGTTCGCAT
* * *
15296045 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTC--A-GAC--GTTCGCAT
* *
15296095 -C-TTA-CGAACTCAGACTCAACTCAACGAGTTCAGACGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCAGACGTTCGCAT
*
15296138 CCATAAGTGAACTCAGACTCAACTCAACAAGTTC
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTC
15296172 GGATGCCCAA
Statistics
Matches: 171, Mismatches: 28, Indels: 42
0.71 0.12 0.17
Matches are distributed among these distances:
42 8 0.05
43 8 0.05
44 4 0.02
45 4 0.02
46 78 0.46
47 47 0.27
48 2 0.01
49 4 0.02
50 8 0.05
51 8 0.05
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGTTCAGACGTTCGCAT
Found at i:15306983 original size:45 final size:45
Alignment explanation
Indices: 15306919--15307139 Score: 297
Period size: 45 Copynumber: 5.0 Consensus size: 45
15306909 ATATCGTACA
* *
15306919 ATACTATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCAGTGAG
1 ATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAG
*
15306964 ATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAACGCCGGTGAG
1 ATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAG
** **
15307009 ATACTATTCGGGCCTTCAAGCCTAGCAGGCTATAATAACGGTGAG
1 ATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAG
* *
15307054 ATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGATGAA
1 ATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAG
* * *
15307099 ATGA-TA-TCGGG-CTTCGAGCCTAGCAGGC-AAAATACCGGTGA
1 AT-ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
15307140 ATGAATTCGG
Statistics
Matches: 157, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
42 10 0.06
43 16 0.10
44 5 0.03
45 125 0.80
46 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (45 bp):
ATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAG
Found at i:15307699 original size:16 final size:18
Alignment explanation
Indices: 15307668--15307700 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
15307658 AACTCGTCAC
15307668 ACTATCTATCATTTTGGT
1 ACTATCTATCATTTTGGT
15307686 ACTA-CTAT-ATTTTGG
1 ACTATCTATCATTTTGG
15307701 AGCTAGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.48
Consensus pattern (18 bp):
ACTATCTATCATTTTGGT
Found at i:15313099 original size:40 final size:40
Alignment explanation
Indices: 15313005--15313229 Score: 240
Period size: 40 Copynumber: 5.6 Consensus size: 40
15312995 TATTCGAATG
*
15313005 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GTGACT
* * * *
15313046 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* * * *
15313086 ATATCCGGGCTAAGACCCGAAGGCATTTCTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* * *
15313126 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* *
15313166 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* * *
15313206 ACATCCGGGCTAAAACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
15313230 CTTGTGCAAG
Statistics
Matches: 155, Mismatches: 24, Indels: 11
0.82 0.13 0.06
Matches are distributed among these distances:
39 1 0.01
40 124 0.80
41 29 0.19
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:15313185 original size:80 final size:80
Alignment explanation
Indices: 15313005--15313265 Score: 303
Period size: 80 Copynumber: 3.3 Consensus size: 80
15312995 TATTCGAATG
* * * * * *
15313005 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTA-GTGACTATATCCGGGCTAAAACCCGAAGGC
*
15313070 ATTCGTGCGAGTTGCT
65 ATTCGTGCGAGTCGCT
* * * *
15313086 ATATCCGGGCTAAGACCCGAAGGCATTTCTGCTAGCGATTATATCCGGGCTAAAACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACTATATCCGGGCTAAAACCCGAAGGCA
* *
15313151 TTTGTGCTAG-CGACT
66 TTCGTGCGAGTCG-CT
* * *
15313166 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAAACCCGAAGGCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACTATATCCGGGCTAAAACCCGAAGGCA
* * *
15313231 TT-GTGCAAGTAGTT
66 TTCGTGCGAGTCGCT
*
15313245 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
15313266 ATTACTTGAG
Statistics
Matches: 155, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
78 14 0.09
79 14 0.09
80 96 0.62
81 31 0.20
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACTATATCCGGGCTAAAACCCGAAGGCA
TTCGTGCGAGTCGCT
Found at i:15313224 original size:120 final size:121
Alignment explanation
Indices: 15313005--15313229 Score: 303
Period size: 120 Copynumber: 1.9 Consensus size: 121
15312995 TATTCGAATG
** * *
15313005 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
* * * *
15313070 ATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTCTGCTAGCGATT
66 ATTCATGCGAGTTGCCACATCCGGGCTAAAACCCGAAGGCATTTCTGCTAGCGATT
* *
15313126 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAGG
* *
15313189 CATTTATGCTAG-TGACCACATCCGGGCTAAAACCCGAAGGC
65 CATTCATGCGAGTTG-CCACATCCGGGCTAAAACCCGAAGGC
15313230 CTTGTGCAAG
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
119 3 0.03
120 56 0.62
121 31 0.34
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (121 bp):
ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
ATTCATGCGAGTTGCCACATCCGGGCTAAAACCCGAAGGCATTTCTGCTAGCGATT
Found at i:15322186 original size:5 final size:5
Alignment explanation
Indices: 15322176--15322203 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
15322166 GCAACTCACA
15322176 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
15322204 GAATTCTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:15327978 original size:11 final size:11
Alignment explanation
Indices: 15327962--15327986 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
15327952 AAAGTTTCCT
15327962 TTAGATAAGCA
1 TTAGATAAGCA
15327973 TTAGATAAGCA
1 TTAGATAAGCA
15327984 TTA
1 TTA
15327987 AGAAAAACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.08, G:0.16, T:0.32
Consensus pattern (11 bp):
TTAGATAAGCA
Found at i:15329401 original size:24 final size:25
Alignment explanation
Indices: 15329361--15329409 Score: 91
Period size: 24 Copynumber: 2.0 Consensus size: 25
15329351 GATTTTCTAT
15329361 TCTCTCTCTTTTTTTACATTATAAG
1 TCTCTCTCTTTTTTTACATTATAAG
15329386 TCTCTCT-TTTTTTTACATTATAAG
1 TCTCTCTCTTTTTTTACATTATAAG
15329410 ATAATTGTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.20, C:0.18, G:0.04, T:0.57
Consensus pattern (25 bp):
TCTCTCTCTTTTTTTACATTATAAG
Found at i:15333876 original size:2 final size:2
Alignment explanation
Indices: 15333869--15333910 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
15333859 AATGCAGAAA
15333869 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
15333911 GGAAAAAAGG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:15335655 original size:6 final size:7
Alignment explanation
Indices: 15335626--15335656 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
15335616 AGGAAAAAAA
15335626 TTATATT
1 TTATATT
15335633 TTATATT
1 TTATATT
15335640 TTATATT
1 TTATATT
15335647 TTA-ATT
1 TTATATT
15335653 TTAT
1 TTAT
15335657 TTGATTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TTATATT
Found at i:15336173 original size:32 final size:32
Alignment explanation
Indices: 15336108--15336176 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 32
15336098 TACAAATTTC
* *
15336108 TAATTTTTTTAATTTCAACTTTCATATTCAAT
1 TAATTTTTTTAATTTCAACTTACAAATTCAAT
15336140 TAATTTTTTTAATTTCAAC-TACAAGAATT-AAT
1 TAATTTTTTTAATTTCAACTTAC-A-AATTCAAT
15336172 TAATT
1 TAATT
15336177 AATTTAAAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 2 0.06
32 28 0.85
33 3 0.09
ACGTcount: A:0.36, C:0.10, G:0.01, T:0.52
Consensus pattern (32 bp):
TAATTTTTTTAATTTCAACTTACAAATTCAAT
Found at i:15342177 original size:44 final size:44
Alignment explanation
Indices: 15342114--15342201 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
15342104 CCCAAACGAG
* *
15342114 AGTCTTACAAACATTCACAAATTTTAGCTTCCCGAGTGAGCCAT
1 AGTCTTACAAACATTCACAAATCTTAGCTTCCCAAGTGAGCCAT
15342158 AGTCTTACAAACATTCACAAATCTTAGCTTCCCAAGTGAGCCAT
1 AGTCTTACAAACATTCACAAATCTTAGCTTCCCAAGTGAGCCAT
15342202 TTTGGCAAGT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.28
Consensus pattern (44 bp):
AGTCTTACAAACATTCACAAATCTTAGCTTCCCAAGTGAGCCAT
Found at i:15349941 original size:24 final size:23
Alignment explanation
Indices: 15349884--15349941 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
15349874 ACCATTAAAT
*
15349884 ATTTGTAATTAGTATTTTAAAAA
1 ATTTGTAATTAATATTTTAAAAA
* * *
15349907 AATT-TAATTAATAATTTTAACAC
1 ATTTGTAATTAAT-ATTTTAAAAA
15349930 ATTTGTAATTAA
1 ATTTGTAATTAA
15349942 GCACCAAGAA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
22 7 0.25
23 14 0.50
24 7 0.25
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (23 bp):
ATTTGTAATTAATATTTTAAAAA
Found at i:15351127 original size:14 final size:14
Alignment explanation
Indices: 15351108--15351134 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15351098 GATCGTACGA
15351108 TACATAGACATAAT
1 TACATAGACATAAT
15351122 TACATAGACATAA
1 TACATAGACATAA
15351135 ACATACTGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.15, G:0.07, T:0.26
Consensus pattern (14 bp):
TACATAGACATAAT
Found at i:15360297 original size:42 final size:42
Alignment explanation
Indices: 15360210--15360299 Score: 101
Period size: 42 Copynumber: 2.1 Consensus size: 42
15360200 ATGATTGTTG
* *
15360210 AATTGAATATATATATATATTGAGAAAATGTGTTTATTGTCA
1 AATTGAATATATATATATATTGAGAAAATGTATATATTGTCA
* * * * *
15360252 AATTGAATATATGTTTATATGTGATAATATGTATATA-TGTGA
1 AATTGAATATATATATATAT-TGAGAAAATGTATATATTGTCA
15360294 AATTGA
1 AATTGA
15360300 GACATTGGTT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
42 28 0.70
43 12 0.30
ACGTcount: A:0.40, C:0.01, G:0.16, T:0.43
Consensus pattern (42 bp):
AATTGAATATATATATATATTGAGAAAATGTATATATTGTCA
Found at i:15362574 original size:25 final size:26
Alignment explanation
Indices: 15362545--15362602 Score: 84
Period size: 25 Copynumber: 2.3 Consensus size: 26
15362535 GGACACACCA
*
15362545 CAGCTCA-CATGAGTTTTCCGTTATT
1 CAGCTCAGCATGAGCTTTCCGTTATT
*
15362570 TAGCT-AGCATGAGCTTTCCGTTATT
1 CAGCTCAGCATGAGCTTTCCGTTATT
15362595 CAGCTCAG
1 CAGCTCAG
15362603 AAGAACTTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 1 0.04
25 25 0.89
26 2 0.07
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.36
Consensus pattern (26 bp):
CAGCTCAGCATGAGCTTTCCGTTATT
Found at i:15376076 original size:69 final size:69
Alignment explanation
Indices: 15375994--15376153 Score: 207
Period size: 69 Copynumber: 2.3 Consensus size: 69
15375984 CTTTTTAAGT
* * * **
15375994 ATTAAAATT--ATTTTTAATGAAATTAGTAAAGAATTGAGCTATAAGAGTATTCTTTGCTCAATG
1 ATTAAAATTAAATTTTTAATGAAAATAGTAAAGAAGTGAACTATAAGAGTATTCTTTAATCAATG
15376057 AAGG
66 AAGG
**
15376061 ATTAAAATTAAATTTTTAATGAAAATAGTAAAGAAGTGAACTATGTGAGTATTCTTTAATCAATG
1 ATTAAAATTAAATTTTTAATGAAAATAGTAAAGAAGTGAACTATAAGAGTATTCTTTAATCAATG
**
15376126 TGGG
66 AAGG
* *
15376130 ATTAAAATTAACTTTTTTATGAAA
1 ATTAAAATTAAATTTTTAATGAAA
15376154 GTAGGGAAGA
Statistics
Matches: 80, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
67 9 0.11
69 71 0.89
ACGTcount: A:0.42, C:0.05, G:0.15, T:0.38
Consensus pattern (69 bp):
ATTAAAATTAAATTTTTAATGAAAATAGTAAAGAAGTGAACTATAAGAGTATTCTTTAATCAATG
AAGG
Found at i:15378113 original size:20 final size:20
Alignment explanation
Indices: 15378088--15378127 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
15378078 TAAATTTTGG
*
15378088 ATTTATTTTTAATTATCTTT
1 ATTTATTTGTAATTATCTTT
*
15378108 ATTTATTTGTATTTATCTTT
1 ATTTATTTGTAATTATCTTT
15378128 TAAAATTTAA
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:0.23, C:0.05, G:0.03, T:0.70
Consensus pattern (20 bp):
ATTTATTTGTAATTATCTTT
Found at i:15381057 original size:38 final size:38
Alignment explanation
Indices: 15381006--15381082 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
15380996 ATGTAAGTGT
15381006 TGGTGAGAAAGTATCTGCAGTGTTACAGGGGAAAATGC
1 TGGTGAGAAAGTATCTGCAGTGTTACAGGGGAAAATGC
15381044 TGGTGAGAAAGTATCTGCAGTGTTACAGGGGAAAATGC
1 TGGTGAGAAAGTATCTGCAGTGTTACAGGGGAAAATGC
15381082 T
1 T
15381083 AGCAAAATGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.31, C:0.10, G:0.34, T:0.25
Consensus pattern (38 bp):
TGGTGAGAAAGTATCTGCAGTGTTACAGGGGAAAATGC
Found at i:15384635 original size:5 final size:5
Alignment explanation
Indices: 15384615--15384669 Score: 69
Period size: 5 Copynumber: 11.0 Consensus size: 5
15384605 AGGCAACTCA
*
15384615 ATTTT ATTTT -TATTT ATTTT ATTTT ATTTT ATTTT ATTATT -TATT ATTTT
1 ATTTT ATTTT AT-TTT ATTTT ATTTT ATTTT ATTTT ATT-TT ATTTT ATTTT
15384665 ATTTT
1 ATTTT
15384670 TGGATGTTGA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
4 3 0.07
5 38 0.86
6 3 0.07
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
ATTTT
Found at i:15384635 original size:15 final size:15
Alignment explanation
Indices: 15384615--15384670 Score: 80
Period size: 15 Copynumber: 3.7 Consensus size: 15
15384605 AGGCAACTCA
15384615 ATTTTATTTTTATTT
1 ATTTTATTTTTATTT
15384630 ATTTTA-TTTTATTTT
1 ATTTTATTTTTA-TTT
15384645 ATTTTATTATTTA-TT
1 ATTTTATT-TTTATTT
15384660 ATTTTATTTTT
1 ATTTTATTTTT
15384671 GGATGTTGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
14 8 0.21
15 25 0.66
16 1 0.03
17 4 0.11
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (15 bp):
ATTTTATTTTTATTT
Found at i:15387486 original size:96 final size:96
Alignment explanation
Indices: 15387308--15387490 Score: 233
Period size: 96 Copynumber: 1.9 Consensus size: 96
15387298 TTTTTAAGAA
** ** *
15387308 TATGTTGGGCTGAGTAACCAGGGTGAGGTACTTGGTTGTCATCTCTCTTCATGTCAAAAGGTTCG
1 TATGTTGGGCTGAGTAACCAGGGTGAGGTACTTGACTGTCATCTCTCTTCACATCAAAAGGTTCA
*
15387373 ATATGTTCTTAAGAAAAATAAAAATTAGGAG
66 ATATGTTCTTAACAAAAATAAAAATTAGGAG
*** * * *
15387404 TATGTTGGGCTGAGTAATTGGGGTGAGGTGCTTGACTGTCATCTCTTTTCGCATCAAAAGGTTCA
1 TATGTTGGGCTGAGTAACCAGGGTGAGGTACTTGACTGTCATCTCTCTTCACATCAAAAGGTTCA
*
15387469 ATATATT-TCTAACAAAAATAAA
66 ATATGTTCT-TAACAAAAATAAA
15387491 TAAATTAAAT
Statistics
Matches: 73, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
95 1 0.01
96 72 0.99
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.33
Consensus pattern (96 bp):
TATGTTGGGCTGAGTAACCAGGGTGAGGTACTTGACTGTCATCTCTCTTCACATCAAAAGGTTCA
ATATGTTCTTAACAAAAATAAAAATTAGGAG
Found at i:15388125 original size:14 final size:13
Alignment explanation
Indices: 15388106--15388143 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
15388096 ATTTAATATT
15388106 TAATTATATTAGGA
1 TAATTAT-TTAGGA
*
15388120 TAATTATTAAGGA
1 TAATTATTTAGGA
15388133 TAATTATTTAG
1 TAATTATTTAG
15388144 ATTTAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (13 bp):
TAATTATTTAGGA
Found at i:15388182 original size:20 final size:20
Alignment explanation
Indices: 15388157--15388196 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
15388147 TAAATTTTAG
*
15388157 ATTTATTTTTAGTTATCTTT
1 ATTTATTTGTAGTTATCTTT
*
15388177 ATTTATTTGTATTTATCTTT
1 ATTTATTTGTAGTTATCTTT
15388197 TAGAATTTAA
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:0.20, C:0.05, G:0.05, T:0.70
Consensus pattern (20 bp):
ATTTATTTGTAGTTATCTTT
Found at i:15397268 original size:30 final size:32
Alignment explanation
Indices: 15397234--15397297 Score: 78
Period size: 30 Copynumber: 2.0 Consensus size: 32
15397224 ATGAAAAACA
** *
15397234 ATTATAATTAATAGTAACA-AAAA-TAATTTT
1 ATTATAAAAAATAATAACATAAAATTAATTTT
15397264 ATTATAAAAAATAATAACATTAAAATTAATTTT
1 ATTATAAAAAATAATAACA-TAAAATTAATTTT
15397297 A
1 A
15397298 AATAAAGTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 16 0.57
32 4 0.14
33 8 0.29
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (32 bp):
ATTATAAAAAATAATAACATAAAATTAATTTT
Found at i:15400337 original size:20 final size:20
Alignment explanation
Indices: 15400312--15400350 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
15400302 AATTAGATTA
15400312 AAATTAGATACTGATAAATG
1 AAATTAGATACTGATAAATG
15400332 AAATTAGATACTGATAAAT
1 AAATTAGATACTGATAAAT
15400351 AAAAAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.51, C:0.05, G:0.13, T:0.31
Consensus pattern (20 bp):
AAATTAGATACTGATAAATG
Found at i:15401222 original size:16 final size:16
Alignment explanation
Indices: 15401201--15401232 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
15401191 ACTAAGCACC
*
15401201 ATGTGCTTACCTCGTT
1 ATGTGCTTACCCCGTT
15401217 ATGTGCTTACCCCGTT
1 ATGTGCTTACCCCGTT
15401233 CTCTTTTTCC
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:0.12, C:0.28, G:0.19, T:0.41
Consensus pattern (16 bp):
ATGTGCTTACCCCGTT
Found at i:15405601 original size:19 final size:19
Alignment explanation
Indices: 15405565--15405601 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
15405555 TAATTAGGCT
* *
15405565 TTAATTAAGTGAATTTAGC
1 TTAATTAAGAGAAATTAGC
15405584 TTAATTAAGAGAAATTAG
1 TTAATTAAGAGAAATTAG
15405602 GAAAAAAAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.16, T:0.38
Consensus pattern (19 bp):
TTAATTAAGAGAAATTAGC
Found at i:15407520 original size:23 final size:23
Alignment explanation
Indices: 15407476--15407520 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
15407466 TTATAATTGA
* *
15407476 AAAGTGATTTTAAATTCGAAATG
1 AAAGTGATTTGAAATTCAAAATG
15407499 AAAGTGATTTGAGAATT-AAAAT
1 AAAGTGATTTGA-AATTCAAAAT
15407521 ACCTTATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.47, C:0.02, G:0.18, T:0.33
Consensus pattern (23 bp):
AAAGTGATTTGAAATTCAAAATG
Found at i:15419887 original size:29 final size:30
Alignment explanation
Indices: 15419839--15419930 Score: 159
Period size: 30 Copynumber: 3.1 Consensus size: 30
15419829 ATAATCATGT
15419839 TATCTGTTTCCGTTATATTCTTTTTATAAG
1 TATCTGTTTCCGTTATATTCTTTTTATAAG
15419869 TATCTGTTT-CGTTATATTCTTTTTATAAG
1 TATCTGTTTCCGTTATATTCTTTTTATAAG
* *
15419898 TATCTATTTCCGTTATATCCTTTTTATAAG
1 TATCTGTTTCCGTTATATTCTTTTTATAAG
15419928 TAT
1 TAT
15419931 GTCATATTTT
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
29 28 0.47
30 31 0.53
ACGTcount: A:0.22, C:0.13, G:0.09, T:0.57
Consensus pattern (30 bp):
TATCTGTTTCCGTTATATTCTTTTTATAAG
Found at i:15425965 original size:7 final size:7
Alignment explanation
Indices: 15425953--15425991 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
15425943 TATTCATGTC
15425953 CCTTCCA
1 CCTTCCA
15425960 CCTTCCA
1 CCTTCCA
15425967 CCTTCCA
1 CCTTCCA
15425974 CCTTCCA
1 CCTTCCA
15425981 CCTTCCA
1 CCTTCCA
15425988 CCTT
1 CCTT
15425992 TTAGCCGTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.13, C:0.56, G:0.00, T:0.31
Consensus pattern (7 bp):
CCTTCCA
Found at i:15431723 original size:21 final size:19
Alignment explanation
Indices: 15431695--15431737 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
15431685 TCGAAACTAA
*
15431695 TTCGGAAACTCTGAGAATTT
1 TTCGGAAACTCT-AAAATTT
*
15431715 TTCGTGAAATTCTAAAATTT
1 TTCG-GAAACTCTAAAATTT
15431735 TTC
1 TTC
15431738 TCCTATATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (19 bp):
TTCGGAAACTCTAAAATTT
Found at i:15433871 original size:25 final size:25
Alignment explanation
Indices: 15433842--15433892 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
15433832 GAAAATAATG
*
15433842 AAGAAATATCTAGATTTCTCATGAT
1 AAGAAATATATAGATTTCTCATGAT
15433867 AAGAAATATATAGATTTCTCATGAT
1 AAGAAATATATAGATTTCTCATGAT
15433892 A
1 A
15433893 TTTCAATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.35
Consensus pattern (25 bp):
AAGAAATATATAGATTTCTCATGAT
Found at i:15434968 original size:45 final size:45
Alignment explanation
Indices: 15434892--15435009 Score: 139
Period size: 45 Copynumber: 2.6 Consensus size: 45
15434882 TGACACAGTT
* * * * * *
15434892 CGCACGTATGAGTCCGCCATATCTATTAATCTTCTTTTATGAATC
1 CGCATGTATGAGTCCACTATATCTATGAATCTACTTCTATGAATC
* *
15434937 CGTATGTATGAGTCCACTATATTTATGAATCTACTTCTATGAATC
1 CGCATGTATGAGTCCACTATATCTATGAATCTACTTCTATGAATC
*
15434982 CGCATGAATGAG-CTCACTATATCTATGA
1 CGCATGTATGAGTC-CACTATATCTATGA
15435010 GTATTCTTCT
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
44 1 0.02
45 60 0.98
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.36
Consensus pattern (45 bp):
CGCATGTATGAGTCCACTATATCTATGAATCTACTTCTATGAATC
Found at i:15436555 original size:7 final size:7
Alignment explanation
Indices: 15436543--15436576 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
15436533 CAAATTAATA
*
15436543 AAATATT
1 AAATATC
15436550 AAATATC
1 AAATATC
*
15436557 AATTATC
1 AAATATC
15436564 AAATATC
1 AAATATC
15436571 AAATAT
1 AAATAT
15436577 TATTGTAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (7 bp):
AAATATC
Found at i:15436831 original size:40 final size:40
Alignment explanation
Indices: 15436778--15436856 Score: 133
Period size: 40 Copynumber: 2.0 Consensus size: 40
15436768 AATAGAAGTT
*
15436778 AAAAAAATTGATGGTCAATCACATAGCG-CTACGTGGCATA
1 AAAAAAATTGATGGTCAATCACATAACGTC-ACGTGGCATA
15436818 AAAAAAATTGATGGTCAATCACATAACGTCACGTGGCAT
1 AAAAAAATTGATGGTCAATCACATAACGTCACGTGGCAT
15436857 CTTTTTTTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
40 36 0.97
41 1 0.03
ACGTcount: A:0.41, C:0.18, G:0.19, T:0.23
Consensus pattern (40 bp):
AAAAAAATTGATGGTCAATCACATAACGTCACGTGGCATA
Found at i:15436988 original size:18 final size:20
Alignment explanation
Indices: 15436952--15436989 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
15436942 AAAAATTCAT
*
15436952 AAAATATATATAATGTAGAA
1 AAAAAATATATAATGTAGAA
15436972 AAAAAATATA-AAT-TAGAA
1 AAAAAATATATAATGTAGAA
15436990 GAGAAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 3 0.18
20 9 0.53
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (20 bp):
AAAAAATATATAATGTAGAA
Found at i:15437095 original size:20 final size:19
Alignment explanation
Indices: 15437046--15437087 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
15437036 GAAATTAGTT
15437046 AAAATTAATAATA--TTATA
1 AAAATT-ATAATATTTTATA
15437064 AAAATTATAATATTTTATA
1 AAAATTATAATATTTTATA
15437083 AAAAT
1 AAAAT
15437088 ATTTAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 6 0.27
18 6 0.27
19 10 0.45
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
AAAATTATAATATTTTATA
Found at i:15437104 original size:20 final size:19
Alignment explanation
Indices: 15437050--15437105 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
15437040 TTAGTTAAAA
15437050 TTAATAATATTATAAAAATT
1 TTAATAA-ATTATAAAAATT
* **
15437070 ATAATATTTTATAAAAATAT
1 TTAATAAATTATAAAAAT-T
*
15437090 TTAATAAATTGTAAAA
1 TTAATAAATTATAAAA
15437106 TTATGAAAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
19 10 0.36
20 18 0.64
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (19 bp):
TTAATAAATTATAAAAATT
Found at i:15440354 original size:12 final size:12
Alignment explanation
Indices: 15440337--15440378 Score: 68
Period size: 12 Copynumber: 3.6 Consensus size: 12
15440327 CCTAAGATTA
15440337 TATTTTATTATG
1 TATTTTATTATG
*
15440349 TATTTTACTAT-
1 TATTTTATTATG
15440360 TATTTTATTATG
1 TATTTTATTATG
15440372 TATTTTA
1 TATTTTA
15440379 CTATCTAGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 10 0.37
12 17 0.63
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.67
Consensus pattern (12 bp):
TATTTTATTATG
Found at i:15440363 original size:23 final size:23
Alignment explanation
Indices: 15440337--15440382 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
15440327 CCTAAGATTA
15440337 TATTTTATTATGTATTTTACTAT
1 TATTTTATTATGTATTTTACTAT
15440360 TATTTTATTATGTATTTTACTAT
1 TATTTTATTATGTATTTTACTAT
15440383 CTAGTCATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.65
Consensus pattern (23 bp):
TATTTTATTATGTATTTTACTAT
Found at i:15449368 original size:15 final size:15
Alignment explanation
Indices: 15449334--15449367 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
15449324 TGGCATAATA
*
15449334 ATTTGCTAACTTTGT
1 ATTTTCTAACTTTGT
15449349 ATTTTCTAACTTT-T
1 ATTTTCTAACTTTGT
15449363 ATTTT
1 ATTTT
15449368 TAAGAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.21, C:0.12, G:0.06, T:0.62
Consensus pattern (15 bp):
ATTTTCTAACTTTGT
Found at i:15449524 original size:25 final size:26
Alignment explanation
Indices: 15449473--15449524 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
15449463 AACTTTTTCA
* **
15449473 TATTTTAAATAAATTTTTATAGTTTT
1 TATTTTAAATAAATTTTTACACATTT
15449499 TATTTTAAAT-AATTTTTACACATTT
1 TATTTTAAATAAATTTTTACACATTT
15449524 T
1 T
15449525 TATATTTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (26 bp):
TATTTTAAATAAATTTTTACACATTT
Found at i:15449524 original size:26 final size:26
Alignment explanation
Indices: 15449446--15449527 Score: 78
Period size: 26 Copynumber: 3.1 Consensus size: 26
15449436 TTTTCACAAA
* *
15449446 ATTTTAAATAA-TTCTACAACTTTTTCAT
1 ATTTTAAATAATTTTTAC-ACATTTT--T
* *
15449474 ATTTTAAATAAATTTTTATA-GTTTTT
1 ATTTTAAAT-AATTTTTACACATTTTT
15449500 ATTTTAAATAATTTTTACACATTTTT
1 ATTTTAAATAATTTTTACACATTTTT
15449526 AT
1 AT
15449528 ATTTTTAAAG
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
25 9 0.20
26 17 0.37
28 13 0.28
29 3 0.07
30 4 0.09
ACGTcount: A:0.35, C:0.07, G:0.01, T:0.56
Consensus pattern (26 bp):
ATTTTAAATAATTTTTACACATTTTT
Found at i:15451385 original size:21 final size:20
Alignment explanation
Indices: 15451361--15451410 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
15451351 TATAAACGTG
* *
15451361 AAACAACACCAAAACAGTGA
1 AAACAACACAAAAACAATGA
15451381 CAAACAACAACAAAAACAATGA
1 -AAACAAC-ACAAAAACAATGA
15451403 AAACAACA
1 AAACAACA
15451411 GCAAGAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 1 0.04
21 14 0.54
22 11 0.42
ACGTcount: A:0.66, C:0.24, G:0.06, T:0.04
Consensus pattern (20 bp):
AAACAACACAAAAACAATGA
Found at i:15454707 original size:22 final size:22
Alignment explanation
Indices: 15454659--15454707 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
15454649 TTCCTTGAAA
*
15454659 ATAAAAAACATTGTTGAAAATT
1 ATAAAAAACATTGTTGAAAAAT
* *
15454681 TTAAAAATA-ATTTTTGAAAAAT
1 ATAAAAA-ACATTGTTGAAAAAT
15454703 ATAAA
1 ATAAA
15454708 TGTGAAAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (22 bp):
ATAAAAAACATTGTTGAAAAAT
Found at i:15456633 original size:25 final size:29
Alignment explanation
Indices: 15456592--15456650 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 29
15456582 AGAAAATTTG
*
15456592 TTTATTTGTATTTAAAA-T-T-TTATATA
1 TTTATTTGTATTGAAAAGTATATTATATA
15456618 TTTATTT-TATTGAAAAGTATATTATATA
1 TTTATTTGTATTGAAAAGTATATTATATA
15456646 TTTAT
1 TTTAT
15456651 AAGAAGATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 8 0.28
26 8 0.28
27 1 0.03
28 12 0.41
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (29 bp):
TTTATTTGTATTGAAAAGTATATTATATA
Found at i:15456643 original size:26 final size:26
Alignment explanation
Indices: 15456592--15456648 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 26
15456582 AGAAAATTTG
* * *
15456592 TTTATTTGTATTTAAAATTTTATATA
1 TTTATTTGTATTGAAAAGTATATATA
15456618 TTTATTT-TATTGAAAAGTATAT-TA
1 TTTATTTGTATTGAAAAGTATATATA
*
15456642 TATATTT
1 TTTATTT
15456649 ATAAGAAGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 8 0.30
25 12 0.44
26 7 0.26
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (26 bp):
TTTATTTGTATTGAAAAGTATATATA
Found at i:15459142 original size:16 final size:17
Alignment explanation
Indices: 15459111--15459144 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
15459101 TTTATTTAAT
15459111 TATATTCAATAATTTTA
1 TATATTCAATAATTTTA
*
15459128 TATATTTAA-AATTTTA
1 TATATTCAATAATTTTA
15459144 T
1 T
15459145 TAGTTAATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
TATATTCAATAATTTTA
Found at i:15467262 original size:11 final size:12
Alignment explanation
Indices: 15467246--15467281 Score: 58
Period size: 11 Copynumber: 3.2 Consensus size: 12
15467236 AGAAAAAAAA
15467246 GAAGAGAG-AGG
1 GAAGAGAGAAGG
15467257 GAAGAGAGAAGG
1 GAAGAGAGAAGG
15467269 G-AGAGAGAAGG
1 GAAGAGAGAAGG
15467280 GA
1 GA
15467282 GGGGGGAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 19 0.83
12 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:15467403 original size:13 final size:12
Alignment explanation
Indices: 15467357--15467408 Score: 50
Period size: 12 Copynumber: 4.0 Consensus size: 12
15467347 GAAAAGGTAA
*
15467357 ATTTTTTTTAAT
1 ATTTTTTTTTAT
15467369 ATTTGTTTTGTATAT
1 ATTT-TTTT-T-TAT
*
15467384 ATATTTTTATTAT
1 AT-TTTTTTTTAT
15467397 ATTTTTTTTTAT
1 ATTTTTTTTTAT
15467409 TATGATGTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
12 13 0.39
13 9 0.27
14 2 0.06
15 7 0.21
16 2 0.06
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.73
Consensus pattern (12 bp):
ATTTTTTTTTAT
Found at i:15468709 original size:89 final size:88
Alignment explanation
Indices: 15468444--15468855 Score: 457
Period size: 88 Copynumber: 4.7 Consensus size: 88
15468434 TGGTGTGTGA
* * * * * * *
15468444 TCCTGA-GCTCAACTCACTTCTCGCGATATGAGTTGA-CTCTTTAAAAACATACATT--AAAACA
1 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAAACA
* * *
15468505 GAAATTGAAAATAGCGCAGCACGCGAG
66 AAAATTGAAAATA-C-C-TCA-GCGTG
* * * * * *
15468532 T-C-AAGGCTCAACTCACTTCTCACAATATGAGTTGATTTTTTTGAAAACAGAATTTGCAAATCA
1 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAAACA
**
15468595 TCAATTGAAAATACCTCAGCGTG
66 AAAATTGAAAATACCTCAGCGTG
*
15468618 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAGGACAGAAATTGAAAAAC
1 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA-AACAGAAATTGAAAAAC
15468683 AAAAATTGAAAATACCTCAGCGTG
65 AAAAATTGAAAATACCTCAGCGTG
*
15468707 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAACATAAATTGGAGAAAA
1 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATT-GA-AAAA
* * *
15468770 CAGAAATTGAAATTACCTCAGCATG
64 CAAAAATTGAAAATACCTCAGCGTG
* *
15468795 TCCTGAGGCTCAACTCACCTCTCGCAGTATGAGTTGA--TTTTTGACAAACAGTAATTGAAAA
1 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA-AAACAGAAATTGAAAA
15468856 TACCACAGCG
Statistics
Matches: 283, Mismatches: 31, Indels: 21
0.84 0.09 0.06
Matches are distributed among these distances:
86 14 0.05
87 45 0.16
88 126 0.45
89 82 0.29
90 16 0.06
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (88 bp):
TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAAACA
AAAATTGAAAATACCTCAGCGTG
Found at i:15468886 original size:73 final size:73
Alignment explanation
Indices: 15468767--15468909 Score: 214
Period size: 73 Copynumber: 2.0 Consensus size: 73
15468757 AAATTGGAGA
* * * * *
15468767 AAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAGTATGAGTTGA
1 AAACAGAAATTGAAAATACCACAGCATGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
15468832 TTTTTGAC
66 TTTTTGAC
* * *
15468840 AAACAGTAATTGAAAATACCACAGCGTGCCCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGA
1 AAACAGAAATTGAAAATACCACAGCATGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
15468905 TTTTT
66 TTTTT
15468910 TGAATAGAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
73 62 1.00
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (73 bp):
AAACAGAAATTGAAAATACCACAGCATGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTTGAC
Found at i:15478311 original size:15 final size:17
Alignment explanation
Indices: 15478283--15478314 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
15478273 TTGTATATAT
15478283 TATATTTATATTATGTA
1 TATATTTATATTATGTA
15478300 TATATTT-T-TTATGTA
1 TATATTTATATTATGTA
15478315 CATTTCCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (17 bp):
TATATTTATATTATGTA
Found at i:15480834 original size:24 final size:24
Alignment explanation
Indices: 15480791--15480840 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
15480781 TTCCTTTCTT
*
15480791 TTGCATTCATTCCATACATTTGCA
1 TTGCATTCATTCCATACATTGGCA
*
15480815 TTGCATTGCATTGCAT-CATTGGCA
1 TTGCATT-CATTCCATACATTGGCA
15480839 TT
1 TT
15480841 AAACTTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.42
Consensus pattern (24 bp):
TTGCATTCATTCCATACATTGGCA
Found at i:15488408 original size:72 final size:73
Alignment explanation
Indices: 15488210--15488921 Score: 1049
Period size: 72 Copynumber: 9.7 Consensus size: 73
15488200 TGATGTTTTT
*
15488210 ATTTCTG-TTTCAAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
1 ATTTCTGTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
15488274 GTAATTTCA
65 GTAATTTCA
* * *
15488283 ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCGGGACACGTTGAG
1 ATTTCTGTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
15488348 GTAATTTCA
65 GTAATTTCA
*
15488357 ATTTCTGTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGG
1 ATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
15488421 TAATTTCA
66 TAATTTCA
* * * ** * *
15488429 ATTTCTGTTTTC-AAAATTCAACTTATATTACGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 ATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
*
15488493 TATTTTCA
66 TAATTTCA
* *
15488501 ATTTTTGTCTTTCAAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
1 ATTTCTGT-TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
15488566 GGTAATTTCA
64 GGTAATTTCA
* **
15488576 ATTTCTGTTGTTAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAG
1 ATTTCTGTT-TTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
15488641 GTAATTTCA
65 GTAATTTCA
* * ** * *
15488650 ATTTCTGTTTTC-AAAATTCAACTCATATTGCAAGAAATGAGTTGAGCCTCAAGACATGCTGAGG
1 ATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
*
15488714 TATTTTCA
66 TAATTTCA
* *
15488722 ATTTTTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGA
1 ATTTCTG-TTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
15488787 GGTAATTTCA
64 GGTAATTTCA
*
15488797 ATTTCTGTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GAGACACGCTAAG
1 ATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-GACACGCTGAG
15488860 GTAATTTCA
65 GTAATTTCA
*
15488869 ATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 ATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
15488922 ATCACACATG
Statistics
Matches: 580, Mismatches: 48, Indels: 21
0.89 0.07 0.03
Matches are distributed among these distances:
71 1 0.00
72 258 0.44
73 55 0.09
74 148 0.26
75 118 0.20
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (73 bp):
ATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
TAATTTCA
Found at i:15488663 original size:221 final size:217
Alignment explanation
Indices: 15488210--15488916 Score: 1110
Period size: 221 Copynumber: 3.2 Consensus size: 217
15488200 TGATGTTTTT
* * ** *
15488210 ATTTCTG-TTTCAAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
1 ATTTCTGTTTTC--AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAG
* * *
15488274 GTAATTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCGGGA
64 GTATTTTCAATTTTTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGA
*
15488339 CACGTTGAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
129 CACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
15488404 CTCGGGACACGCTGAGGTAATTTCA
194 CTC-GGACACGCTGAGGTAATTTCA
* * *
15488429 ATTTCTGTTTTCAAAATTCAACTTATATTACGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT
1 ATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGT
* *
15488494 ATTTTCAATTTTTGTCTTTCAAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGAC
66 ATTTTCAATTTTTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGAC
* **
15488559 ACGCTGAGGTAATTTCAATTTCTGTTGTTAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAG
130 ACGCTGAGGTAATTTCAATTTCTGTT-TT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
15488624 CCTCAGGACACGCTGAGGTAATTTCA
193 CCTC-GGACACGCTGAGGTAATTTCA
* *
15488650 ATTTCTGTTTTCAAAATTCAACTCATATTGCAAGAAATGAGTTGAGCCTCAAGACATGCTGAGGT
1 ATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGT
15488715 ATTTTCAATTTTTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGAC
66 ATTTTCAATTTTTG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGAC
15488780 ACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
130 ACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
*
15488845 TCGAGACACGCTAAGGTAATTTCA
195 TCG-GACACGCTGAGGTAATTTCA
* **
15488869 ATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 ATTTCTGTTTTC-AAAATTCAACTCATATTGCGAGAAATGAGTTGAGC
15488917 TTCAGATCAC
Statistics
Matches: 448, Mismatches: 33, Indels: 13
0.91 0.07 0.03
Matches are distributed among these distances:
218 59 0.13
219 145 0.32
220 39 0.09
221 204 0.46
222 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (217 bp):
ATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGT
ATTTTCAATTTTTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACA
CGCTGAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
CGGACACGCTGAGGTAATTTCA
Found at i:15488815 original size:293 final size:290
Alignment explanation
Indices: 15488210--15488921 Score: 1070
Period size: 293 Copynumber: 2.4 Consensus size: 290
15488200 TGATGTTTTT
15488210 ATTTCTG-TTTCAAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
1 ATTTCTGTTTTC-AAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
* *
15488274 GTAATTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCGGGA
65 GTAATTTCAATTTCTGTTTT-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
* * **
15488339 CACGTTGAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
129 CACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCAAGAAATGAGTTGAGC
** * *
15488404 CTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTTATATTACGAGAAATGA
194 CTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATATTACGAGAAATGA
* *
15488469 GTTGAGCCTCAAGACACGTTGAGGTATTTTCA
259 GTTGAGCCTCAAGACACGCTGAGGTAATTTCA
*
15488501 ATTTTTGTCTTTCAAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
1 ATTTCTGT-TTTC-AAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
**
15488566 GGTAATTTCAATTTCTGTTGTTAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGG
64 GGTAATTTCAATTTCTGTT-TTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
*
15488631 ACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCAAGAAATGAGTTGAG
128 ACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCAAGAAATGAGTTGAG
* * * * *
15488696 CCTCAAGACATGCTGAGGTATTTTCAATTTTTGTTTTTCAAAAAAATCAACTCATATTGCGAGAG
193 CCTCAAGACACGCTGAGGTAATTTCAATTTCTG-TTTTC--AAAAATCAACTCATATTACGAGAA
* **
15488761 GTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCA
255 ATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCA
* *
15488797 ATTTCTGTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GAGACACGCTAAG
1 ATTTCTGTTTTCAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAG-GACACGCTGAG
* *
15488860 GTAATTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
65 GTAATTTCAATTTCTGTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
15488922 ATCACACATG
Statistics
Matches: 383, Mismatches: 31, Indels: 13
0.90 0.07 0.03
Matches are distributed among these distances:
291 6 0.02
292 41 0.11
293 267 0.70
294 7 0.02
295 4 0.01
296 58 0.15
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (290 bp):
ATTTCTGTTTTCAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
TAATTTCAATTTCTGTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
CGCTGAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCAAGAAATGAGTTGAGCCT
CAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATATTACGAGAAATGAGT
TGAGCCTCAAGACACGCTGAGGTAATTTCA
Found at i:15490726 original size:15 final size:17
Alignment explanation
Indices: 15490698--15490729 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
15490688 TTGTATATAT
15490698 TATATTTATATTATGTA
1 TATATTTATATTATGTA
15490715 TATATTT-T-TTATGTA
1 TATATTTATATTATGTA
15490730 CGTTTCCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (17 bp):
TATATTTATATTATGTA
Found at i:15498892 original size:39 final size:40
Alignment explanation
Indices: 15498836--15498927 Score: 145
Period size: 39 Copynumber: 2.4 Consensus size: 40
15498826 AAATTAATAA
*
15498836 ATAAAAAATTTAAAATAAGTATGAAAAATAATTAT-TTTT
1 ATAATAAATTTAAAATAAGTATGAAAAATAATTATCTTTT
15498875 ATAATAAATTTAAAATAAGTATGAAAAATAATTATCTTTT
1 ATAATAAATTTAAAATAAGTATGAAAAATAATTATCTTTT
*
15498915 -T-ATAATTTTAAAA
1 ATAATAAATTTAAAA
15498928 ATGAAACATA
Statistics
Matches: 50, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
38 11 0.22
39 35 0.70
40 4 0.08
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.40
Consensus pattern (40 bp):
ATAATAAATTTAAAATAAGTATGAAAAATAATTATCTTTT
Found at i:15500013 original size:25 final size:26
Alignment explanation
Indices: 15499970--15500034 Score: 105
Period size: 26 Copynumber: 2.5 Consensus size: 26
15499960 CCTCCCCAAA
* *
15499970 AAAAAACCTAACCAAAAAAAAAAAAG
1 AAAAAACCTAACCCAAAAAGAAAAAG
15499996 AAAAAACCTAACCCAAAAAGAAAAAG
1 AAAAAACCTAACCCAAAAAGAAAAAG
15500022 -AAAAACCTAACCC
1 AAAAAACCTAACCC
15500035 CCTCCCCCAA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
25 13 0.35
26 24 0.65
ACGTcount: A:0.69, C:0.22, G:0.05, T:0.05
Consensus pattern (26 bp):
AAAAAACCTAACCCAAAAAGAAAAAG
Found at i:15502565 original size:11 final size:12
Alignment explanation
Indices: 15502542--15502576 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
15502532 ATTCATTTGA
15502542 CATTCATGCATT
1 CATTCATGCATT
15502554 CATTCATG-ATT
1 CATTCATGCATT
*
15502565 CATTCATACATT
1 CATTCATGCATT
15502577 GCATATCCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.29, C:0.23, G:0.06, T:0.43
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:15509986 original size:65 final size:67
Alignment explanation
Indices: 15509825--15509994 Score: 202
Period size: 69 Copynumber: 2.5 Consensus size: 67
15509815 CTTTTCAAGG
* * *
15509825 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGTATTTTTAATTTTGT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGTATTTTT-ATTATGT
15509890 TTT
65 TTT
* ** *
15509893 CAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTA-TTTT-TTATG
1 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGA-GTATTTTTATTATG
15509956 TTTT
64 TTTT
** *
15509960 -AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
15509995 TTAATTTTTG
Statistics
Matches: 89, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
65 31 0.35
67 8 0.09
69 47 0.53
70 3 0.03
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.34
Consensus pattern (67 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGTATTTTTATTATGTT
TT
Found at i:15510104 original size:71 final size:71
Alignment explanation
Indices: 15509997--15510182 Score: 243
Period size: 71 Copynumber: 2.6 Consensus size: 71
15509987 TTAAGCCTTT
* *
15509997 AATTTTTGTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTC-GGGCACGCTGAGGT
1 AATTTTTGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGATGAGGT
* *
15510061 ATTTTC
66 AATCTC
* ** *
15510067 AATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGATGAGG
1 AATTTTTGT-TTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGATGAGG
15510132 TAATCTC
65 TAATCTC
* *
15510139 AATTTCTGTTTTCAAGAATCAACTCATA-TGCGA-AGGTGGGTTGA
1 AATTTTTGTTTTCAA-AATCAACTCATATTGCGAGAGGTGAGTTGA
15510183 ACCTTTTAAT
Statistics
Matches: 100, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
70 19 0.19
71 47 0.47
72 34 0.34
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (71 bp):
AATTTTTGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGATGAGGT
AATCTC
Found at i:15510501 original size:3 final size:3
Alignment explanation
Indices: 15510487--15510527 Score: 50
Period size: 3 Copynumber: 13.7 Consensus size: 3
15510477 AGGCAACTTT
15510487 AAG AAG AA- AAG AAG AAG AAGG AAG AAG AA- AGAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AA-G AAG AAG AAG A-AG AAG AAG AA
15510528 AGAAAAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
2 3 0.09
3 27 0.79
4 4 0.12
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:15510521 original size:16 final size:16
Alignment explanation
Indices: 15510487--15510532 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 16
15510477 AGGCAACTTT
15510487 AAGAAGAAA-AGAAGAAG
1 AAGAAGAAAGA-AAG-AG
15510504 AAGGAAG-AAGAAAGAG
1 AA-GAAGAAAGAAAGAG
15510520 AAGAAGAAAGAAA
1 AAGAAGAAAGAAA
15510533 AAAAAAGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 4 0.15
16 10 0.38
17 7 0.27
18 5 0.19
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (16 bp):
AAGAAGAAAGAAAGAG
Found at i:15510523 original size:19 final size:21
Alignment explanation
Indices: 15510487--15510541 Score: 71
Period size: 19 Copynumber: 2.8 Consensus size: 21
15510477 AGGCAACTTT
*
15510487 AAGAAGAAAAGAAGAAGAAGG
1 AAGAAGAAAAGAAGAAGAAGA
15510508 AAGAAG-AAAG-AGAAGAAGA
1 AAGAAGAAAAGAAGAAGAAGA
*
15510527 AAGAA-AAAAAAAGAA
1 AAGAAGAAAAGAAGAA
15510542 AAAATCCTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
19 16 0.53
20 8 0.27
21 6 0.20
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (21 bp):
AAGAAGAAAAGAAGAAGAAGA
Done.