Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1152
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: 123515
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Found at i:88 original size:18 final size:18
Alignment explanation
Indices: 65--103 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
55 GCCATGTTCA
*
65 TAACATCACAAGGGTAGC
1 TAACATCACAAAGGTAGC
83 TAACATCACAAAGGTAGC
1 TAACATCACAAAGGTAGC
101 TAA
1 TAA
104 AATCTCCATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.44, C:0.21, G:0.18, T:0.18
Consensus pattern (18 bp):
TAACATCACAAAGGTAGC
Found at i:9468 original size:112 final size:113
Alignment explanation
Indices: 9246--9461 Score: 274
Period size: 112 Copynumber: 1.9 Consensus size: 113
9236 AACTTGGAAG
* * * *
9246 AACATCAAGCTTATCTGATTTTTGAAGAAATTCGTATCTTATACATTCTGATCCATTCGTGCCCA
1 AACATCAAACTTATCTGACTTTTGAAGAAATTCATATCTTATACATTCTGATCCATCCGTGCCCA
* * *
9311 GGAAAATGGGGCACGTATCCAATGAGTTTCGAAAATTTTGAGCCTAAC
66 GGAAAATGAGGCACGTACCCAATCAGTTTCGAAAATTTTGAGCCTAAC
* * * *
9359 AACATCAAATTTATCTGACTTTTG-AGAAATTTATATTTTATACATTCCT-ATCCATCCGTGCCT
1 AACATCAAACTTATCTGACTTTTGAAGAAATTCATATCTTATACATT-CTGATCCATCCGTGCCC
* * * *
9422 AGGAAAATGAGGCATGTACCCTATCAGTTTTGAAATTTTT
65 AGGAAAATGAGGCACGTACCCAATCAGTTTCGAAAATTTT
9462 AGGCCTACCA
Statistics
Matches: 87, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
112 64 0.74
113 23 0.26
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (113 bp):
AACATCAAACTTATCTGACTTTTGAAGAAATTCATATCTTATACATTCTGATCCATCCGTGCCCA
GGAAAATGAGGCACGTACCCAATCAGTTTCGAAAATTTTGAGCCTAAC
Found at i:9816 original size:88 final size:88
Alignment explanation
Indices: 9691--9879 Score: 211
Period size: 88 Copynumber: 2.1 Consensus size: 88
9681 CCACATTCGC
** * * * * * * *
9691 ATTTGCATCATTTTATATGCATTTGTTTCTTTGTTGATGTTTGCATTTGCATCGTTTCAC-CTAT
1 ATTTGCATCATTCCATATGCAATTGCTTCTTTATTGATGCTTCCATTTGCATCATTTCACGC-AC
** *
9755 ATTTGCATTTTAGATAACAATAGT
65 ATCAGCACTTTAGATAACAATAGT
9779 ATTTGCATCATTCCATATGCAATTGCCTT-TTTATTGATGCTTCCATTTGCATCATTTCACGCAC
1 ATTTGCATCATTCCATATGCAATTG-CTTCTTTATTGATGCTTCCATTTGCATCATTTCACGCAC
* *
9843 ATCAGCACTTTAGATGACATTAGT
65 ATCAGCACTTTAGATAACAATAGT
*
9867 ATTTGCATTATTC
1 ATTTGCATCATTC
9880 TATAAGCATT
Statistics
Matches: 84, Mismatches: 15, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
88 81 0.96
89 3 0.04
ACGTcount: A:0.24, C:0.18, G:0.13, T:0.46
Consensus pattern (88 bp):
ATTTGCATCATTCCATATGCAATTGCTTCTTTATTGATGCTTCCATTTGCATCATTTCACGCACA
TCAGCACTTTAGATAACAATAGT
Found at i:9900 original size:88 final size:88
Alignment explanation
Indices: 9719--9901 Score: 197
Period size: 88 Copynumber: 2.1 Consensus size: 88
9709 GCATTTGTTT
* * * * * ** *
9719 CTTTGTTGATGTTTGCATTTGCATCGTTTCACCTATATTTGCATTTTAGATAACAATAGTATTTG
1 CTTTATTGATGCTTCCATTTGCATCATTTCACCTACATCAGCACTTTAGATAACAATAGTATTTG
* * *
9784 CATCATTCCATATGCAATTGCCT
66 CATCATTCCATAAGCAATTACCA
* * *
9807 TTTTATTGATGCTTCCATTTGCATCATTTCACGC-ACATCAGCACTTTAGATGACATTAGTATTT
1 CTTTATTGATGCTTCCATTTGCATCATTTCAC-CTACATCAGCACTTTAGATAACAATAGTATTT
* * *
9871 GCATTATTCTATAAGCATTTACCA
65 GCATCATTCCATAAGCAATTACCA
9895 CTTTATT
1 CTTTATT
9902 AATGGCTGCA
Statistics
Matches: 76, Mismatches: 18, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
88 75 0.99
89 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.12, T:0.44
Consensus pattern (88 bp):
CTTTATTGATGCTTCCATTTGCATCATTTCACCTACATCAGCACTTTAGATAACAATAGTATTTG
CATCATTCCATAAGCAATTACCA
Found at i:10777 original size:78 final size:78
Alignment explanation
Indices: 10630--10916 Score: 360
Period size: 78 Copynumber: 3.7 Consensus size: 78
10620 CCGCCCATAT
* * * * *
10630 ATTCCTAATCATACCCTATTCATTCAACCACTAGATGGTATTGATGCATCATATGACCATAAA-A
1 ATTCCCAATCATATCCTCTTCATTCAACCACTAGATGGTATTGATGCATCACATGACCACAAAGA
10694 GGTGCAGACCACAC
66 -GTGCAGACCACAC
* * * *
10708 ATTCCCAGTCATATCCTCTTCATGCAACCACTAGATGGTATTAATGCATCACATGGCCACAAAGA
1 ATTCCCAATCATATCCTCTTCATTCAACCACTAGATGGTATTGATGCATCACATGACCACAAAGA
*
10773 GTGCAGACTACAC
66 GTGCAGACCACAC
* * * * * *
10786 ATTCCCAACCATATCCCCTTCATTCAATCATTAGATGGTATTGATACATCACATGACCACAAAGG
1 ATTCCCAATCATATCCTCTTCATTCAACCACTAGATGGTATTGATGCATCACATGACCACAAAGA
* *
10851 GTGTAAACCACAC
66 GTGCAGACCACAC
* * * *
10864 ATTCCCAATCATATCCTCTTCATTCTACCACTAGATGTTATTGTTGTATCACA
1 ATTCCCAATCATATCCTCTTCATTCAACCACTAGATGGTATTGATGCATCACA
10917 AAACCTGATT
Statistics
Matches: 176, Mismatches: 32, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
78 175 0.99
79 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.12, T:0.28
Consensus pattern (78 bp):
ATTCCCAATCATATCCTCTTCATTCAACCACTAGATGGTATTGATGCATCACATGACCACAAAGA
GTGCAGACCACAC
Found at i:11736 original size:81 final size:81
Alignment explanation
Indices: 11537--12187 Score: 731
Period size: 81 Copynumber: 8.0 Consensus size: 81
11527 AACTCTGTTC
* *
11537 TTTGACGTGATGGTTCTCACCTTGGTCAAACATCGTTTCATTATCATTTGACTGTATCTAGTCAA
1 TTTGACGTGATGGTTCTCACCTTGGTCAAACATCTTTTCATTATCGTTTGACTGTATCTAGTCAA
* **
11602 ACTCATTTTCGTTACCA
66 ACTC-TTTTCATTACTG
* * * *
11619 TTTGACGTGATGATTTTCACCTTGGTCAAACATCTTTTCATTATTGTTTGACTGCATCTAGTCAA
1 TTTGACGTGATGGTTCTCACCTTGGTCAAACATCTTTTCATTATCGTTTGACTGTATCTAGTCAA
*
11684 ACTTTTTTCATTACTG
66 ACTCTTTTCATTACTG
* * * * *
11700 TTTGACGTAACGGTTCTCGCCTTGTTCAAACATCTTTTCATTATCGTTTGA-TCGTATCTGGTCA
1 TTTGACGTGATGGTTCTCACCTTGGTCAAACATCTTTTCATTATCGTTTGACT-GTATCTAGTCA
11764 AACTCATTTTCATTACTG
65 AACTC-TTTTCATTACTG
* **
11782 TTTGACATGATGGTTCTTGCCTTGGTCAAACATCTTTTCATTATCGTTTGACTGTATCTAGTCAA
1 TTTGACGTGATGGTTCTCACCTTGGTCAAACATCTTTTCATTATCGTTTGACTGTATCTAGTCAA
*
11847 ACTCTTTTCATTCCTG
66 ACTCTTTTCATTACTG
* * * * *
11863 TTTGGCGTGATAGTTCTCACCCTGGTCAAACATCTTTTCATTATCGTTTAACTGTATC-CGATCA
1 TTTGACGTGATGGTTCTCACCTTGGTCAAACATCTTTTCATTATCGTTTGACTGTATCTAG-TCA
11927 AACTCTTTTCATTA-TCG
65 AACTCTTTTCATTACT-G
* * * * *
11944 TTTGACGTAATAGTTCT-AGCCTTAGTCAAACATCTTTTTTTTCATTATCGTTTGACTATATCCA
1 TTTGACGTGATGGTTCTCA-CCTTGGTCAAACATC----TTTTCATTATCGTTTGACTGTATCTA
*
12008 ATCAAACTCTTTTCATTA-TCG
61 GTCAAACTCTTTTCATTACT-G
* * * * * * *
12029 TTTAACATGTTGGTTCTCGCCTTGGTCAAACATCTTTTCATTACCATTTGACTGTATC-CGATCA
1 TTTGACGTGATGGTTCTCACCTTGGTCAAACATCTTTTCATTATCGTTTGACTGTATCTAG-TCA
12093 AACTCTTTTCATTACTG
65 AACTCTTTTCATTACTG
* * * * * * *
12110 TTTGACATAACGGTTCTCAACC-TGGTCGAACATCTTTTCATTATCATTTGACTGCATCTGGTCA
1 TTTGACGTGATGGTTCTC-ACCTTGGTCAAACATCTTTTCATTATCGTTTGACTGTATCTAGTCA
*
12174 AACGCTTTTCATTA
65 AACTCTTTTCATTA
12188 TCTTTTCATT
Statistics
Matches: 487, Mismatches: 66, Indels: 33
0.83 0.11 0.06
Matches are distributed among these distances:
80 4 0.01
81 275 0.56
82 139 0.29
83 1 0.00
85 68 0.14
ACGTcount: A:0.23, C:0.22, G:0.13, T:0.42
Consensus pattern (81 bp):
TTTGACGTGATGGTTCTCACCTTGGTCAAACATCTTTTCATTATCGTTTGACTGTATCTAGTCAA
ACTCTTTTCATTACTG
Found at i:11749 original size:46 final size:41
Alignment explanation
Indices: 11679--11834 Score: 105
Period size: 46 Copynumber: 3.7 Consensus size: 41
11669 ACTGCATCTA
*
11679 GTCAAACTTTTTTCATTA-CTGTTTGACGTAACGGTTCTCGCCTT
1 GTCAAACTCTTTTCATTATC-GTTTGAC-T-ACGGTTCT-GCCTT
11723 GTTCAAACATCTTTTCATTATCGTTTGA-T-C-GTATCTG----
1 G-TCAAAC-TCTTTTCATTATCGTTTGACTACGGT-TCTGCCTT
*
11760 GTCAAACTCATTTTCATTA-CTGTTTGACATGATGGTTCTTGCCTT
1 GTCAAACTC-TTTTCATTATC-GTTTGAC-T-ACGGTTC-TGCCTT
11805 GGTCAAACATCTTTTCATTATCGTTTGACT
1 -GTCAAAC-TCTTTTCATTATCGTTTGACT
11835 GTATCTAGTC
Statistics
Matches: 91, Mismatches: 2, Indels: 37
0.70 0.02 0.28
Matches are distributed among these distances:
35 3 0.03
36 21 0.23
37 1 0.01
38 1 0.01
40 2 0.02
41 7 0.08
42 4 0.04
44 2 0.02
45 7 0.08
46 39 0.43
47 4 0.04
ACGTcount: A:0.21, C:0.21, G:0.15, T:0.44
Consensus pattern (41 bp):
GTCAAACTCTTTTCATTATCGTTTGACTACGGTTCTGCCTT
Found at i:11772 original size:163 final size:162
Alignment explanation
Indices: 11423--12187 Score: 809
Period size: 163 Copynumber: 4.7 Consensus size: 162
11413 CAATTTGTTA
* * * * * * *
11423 ATCATTTGAGTGTATTTGGTCAAAATCCTTTTCGTTACTGTTTGGCGTGATGGTTCTCGCCTTGG
1 ATCATTTGACTGTATCTGGTCAAACT-CTTTTCATTACTGTTTGACGTGATGGTTTTCACCTTGG
* * *
11488 TCAAACATCTTTTCATTATCGTTTAACTATATCTAGTCAAACTC---T-GTT-C--TTTGACGTG
65 TCAAACATCTTTTCATTATCGTTTGACTGTATCTAGTCAAACTCTTTTCATTACTGTTTGACGTG
*
11546 ATGGTTCTCACCTTGGTCAAACATCGTTTCATT
130 ATGGTTCTCACCTTGGTCAAACATCTTTTCATT
* * ** *
11579 ATCATTTGACTGTATCTAGTCAAACTCATTTTCGTTACCATTTGACGTGATGATTTTCACCTTGG
1 ATCATTTGACTGTATCTGGTCAAACTC-TTTTCATTACTGTTTGACGTGATGGTTTTCACCTTGG
* * * *
11644 TCAAACATCTTTTCATTATTGTTTGACTGCATCTAGTCAAACTTTTTTCATTACTGTTTGACGTA
65 TCAAACATCTTTTCATTATCGTTTGACTGTATCTAGTCAAACTCTTTTCATTACTGTTTGACGTG
* * *
11709 ACGGTTCTCGCCTTGTTCAAACATCTTTTCATT
130 ATGGTTCTCACCTTGGTCAAACATCTTTTCATT
* * *
11742 ATCGTTTGA-TCGTATCTGGTCAAACTCATTTTCATTACTGTTTGACATGATGGTTCTT-GCCTT
1 ATCATTTGACT-GTATCTGGTCAAACTC-TTTTCATTACTGTTTGACGTGATGGTT-TTCACCTT
* *
11805 GGTCAAACATCTTTTCATTATCGTTTGACTGTATCTAGTCAAACTCTTTTCATTCCTGTTTGGCG
63 GGTCAAACATCTTTTCATTATCGTTTGACTGTATCTAGTCAAACTCTTTTCATTACTGTTTGACG
* *
11870 TGATAGTTCTCACCCTGGTCAAACATCTTTTCATT
128 TGATGGTTCTCACCTTGGTCAAACATCTTTTCATT
* * * * * * * *
11905 ATCGTTTAACTGTATCCGATCAAACTCTTTTCATTA-TCGTTTGACGTAATAGTTCT-AGCCTTA
1 ATCATTTGACTGTATCTGGTCAAACTCTTTTCATTACT-GTTTGACGTGATGGTTTTCA-CCTTG
* * *
11968 GTCAAACATCTTTTTTTTCATTATCGTTTGACTATATCCAATCAAACTCTTTTCATTA-TCGTTT
64 GTCAAACATC----TTTTCATTATCGTTTGACTGTATCTAGTCAAACTCTTTTCATTACT-GTTT
* * * *
12032 AACATGTTGGTTCTCGCCTTGGTCAAACATCTTTTCATT
124 GACGTGATGGTTCTCACCTTGGTCAAACATCTTTTCATT
* * * * * * *
12071 ACCATTTGACTGTATCCGATCAAACTCTTTTCATTACTGTTTGACATAACGGTTCTCAACC-TGG
1 ATCATTTGACTGTATCTGGTCAAACTCTTTTCATTACTGTTTGACGTGATGGTTTTC-ACCTTGG
* * * * *
12135 TCGAACATCTTTTCATTATCATTTGACTGCATCTGGTCAAACGCTTTTCATTA
65 TCAAACATCTTTTCATTATCGTTTGACTGTATCTAGTCAAACTCTTTTCATTA
12188 TCTTTTCATT
Statistics
Matches: 513, Mismatches: 75, Indels: 36
0.82 0.12 0.06
Matches are distributed among these distances:
155 1 0.00
156 92 0.18
159 1 0.00
160 2 0.00
161 3 0.01
162 74 0.14
163 198 0.39
164 3 0.01
165 1 0.00
166 134 0.26
167 3 0.01
168 1 0.00
ACGTcount: A:0.22, C:0.21, G:0.14, T:0.42
Consensus pattern (162 bp):
ATCATTTGACTGTATCTGGTCAAACTCTTTTCATTACTGTTTGACGTGATGGTTTTCACCTTGGT
CAAACATCTTTTCATTATCGTTTGACTGTATCTAGTCAAACTCTTTTCATTACTGTTTGACGTGA
TGGTTCTCACCTTGGTCAAACATCTTTTCATT
Found at i:11855 original size:35 final size:36
Alignment explanation
Indices: 11806--11949 Score: 116
Period size: 35 Copynumber: 3.8 Consensus size: 36
11796 TCTTGCCTTG
11806 GTCAAACATCTTTTCATTATCGTTTGACTGTATCTA
1 GTCAAACATCTTTTCATTATCGTTTGACTGTATCTA
* *
11842 GTCAAAC-TCTTTTCATT-CCTGTTTGGCGTGATAGTTCTCA
1 GTCAAACATCTTTTCATTATC-GTTTGAC-TG-TA--TCT-A
* *
11882 CCCTGGTCAAACATCTTTTCATTATCGTTTAACTGTATC-C
1 -----GTCAAACATCTTTTCATTATCGTTTGACTGTATCTA
11922 GATCAAAC-TCTTTTCATTATCGTTTGAC
1 G-TCAAACATCTTTTCATTATCGTTTGAC
11950 GTAATAGTTC
Statistics
Matches: 87, Mismatches: 7, Indels: 29
0.71 0.06 0.24
Matches are distributed among these distances:
34 1 0.01
35 36 0.41
36 15 0.17
37 2 0.02
39 3 0.03
40 1 0.01
42 2 0.02
44 2 0.02
45 9 0.10
46 15 0.17
47 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.12, T:0.42
Consensus pattern (36 bp):
GTCAAACATCTTTTCATTATCGTTTGACTGTATCTA
Found at i:12191 original size:46 final size:46
Alignment explanation
Indices: 12141--12234 Score: 152
Period size: 46 Copynumber: 2.0 Consensus size: 46
12131 CTGGTCGAAC
12141 ATCTTTTCATTATCATTTGACTGCATCTGGTCAAACGCTTTTCATT
1 ATCTTTTCATTATCATTTGACTGCATCTGGTCAAACGCTTTTCATT
* * * *
12187 ATCTTTTCATTATCGTTTGATTGTATCTGGTCAAACTCTTTTCATT
1 ATCTTTTCATTATCATTTGACTGCATCTGGTCAAACGCTTTTCATT
12233 AT
1 AT
12235 TGTATGACGT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.21, C:0.19, G:0.11, T:0.49
Consensus pattern (46 bp):
ATCTTTTCATTATCATTTGACTGCATCTGGTCAAACGCTTTTCATT
Found at i:12262 original size:127 final size:127
Alignment explanation
Indices: 12060--12314 Score: 305
Period size: 127 Copynumber: 2.0 Consensus size: 127
12050 TTGGTCAAAC
*
12060 ATCTTTTCATTACCATTTGACTGTATCCGATCAAACTCTTTTCATTACTGTTTGACATAACGGTT
1 ATCTTTTCATTACCATTTGACTGTATCCGATCAAACTCTTTTCATTACTGTATGACATAACGGTT
* * * * *
12125 CTCAACCTGGTCGAACATCTTTTCATTATCATTTGACTGCATCTGGTCAAACGCTTTTCATT
66 CTCAACCTGGTCAAACATCTCTTCATCATCATTTGACTACATCTAGTCAAACGCTTTTCATT
* * * * * * * * *
12187 ATCTTTTCATTATCGTTTGATTGTATCTGGTCAAACTCTTTTCATTATTGTATGACGTGATGGTT
1 ATCTTTTCATTACCATTTGACTGTATCCGATCAAACTCTTTTCATTACTGTATGACATAACGGTT
* * * * * *
12252 TTC-GCTCTGGTCAAATATCTCTTCATCATCGTTTGACTATATCTAGTCAAACTCTTTTCATT
66 CTCAAC-CTGGTCAAACATCTCTTCATCATCATTTGACTACATCTAGTCAAACGCTTTTCATT
12314 A
1 A
12315 CTATTTGACA
Statistics
Matches: 106, Mismatches: 21, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
126 1 0.01
127 105 0.99
ACGTcount: A:0.23, C:0.21, G:0.13, T:0.44
Consensus pattern (127 bp):
ATCTTTTCATTACCATTTGACTGTATCCGATCAAACTCTTTTCATTACTGTATGACATAACGGTT
CTCAACCTGGTCAAACATCTCTTCATCATCATTTGACTACATCTAGTCAAACGCTTTTCATT
Found at i:12283 original size:81 final size:80
Alignment explanation
Indices: 12186--13210 Score: 870
Period size: 81 Copynumber: 12.7 Consensus size: 80
12176 CGCTTTTCAT
* * *
12186 TATCTTTTCATTATCGTTTGATTGTATCTGGTCAAACTCTTTTCATTATTGTATGACGTGATGGT
1 TATCTTTTCATTATCGTTTGATTGTATCTGGTCAAACTCTTTTCATTACTGTTTGACATGATGGT
12251 TTTCGCTCTGGTCAAA
66 TTTCGC-CTGGTCAAA
* * * * * * * *
12267 TATCTCTTCATCATCGTTTGACTATATCTAGTCAAACTCTTTTCATTACTATTTGACATGATAGC
1 TATCTTTTCATTATCGTTTGATTGTATCTGGTCAAACTCTTTTCATTACTGTTTGACATGATGGT
**
12332 TTTCGCCCTAATCAAA
66 TTTCG-CCTGGTCAAA
* * ** * *
12348 TATCTTTTCATTATTGTTTGATTGTATCTAGTCAAACTCCTTTTTGTTATTGTTTGACATAATGG
1 TATCTTTTCATTATCGTTTGATTGTATCTGGTCAAACT-CTTTTCATTACTGTTTGACATGATGG
*
12413 TTTTCGCCTTGGTTAAA
65 TTTTCGCC-TGGTCAAA
* * * * * * *
12430 TATATTTTCATTATCATTTGACTGCATCTGGTCAAACTCTTTTCATTACTGTTTGACATAACGAT
1 TATCTTTTCATTATCGTTTGATTGTATCTGGTCAAACTCTTTTCATTACTGTTTGACATGATG-G
*
12495 TCTTTC-CCTGGTTAAA
65 T-TTTCGCCTGGTCAAA
* * * * * * *
12511 CATCTTTTCATTATTGTTTAATTGTAACGGGTCAAACCCTTTTCATTACTATTTGACATGATGGT
1 TATCTTTTCATTATCGTTTGATTGTATCTGGTCAAACTCTTTTCATTACTGTTTGACATGATGGT
*
12576 TCTTAC-ACTGG-----
66 T-TT-CGCCTGGTCAAA
* * * * ** *
12587 -ATCTTTTCATTATCATTTGACTATATTTGGTCAAACTTCTTTTTGTTACTGTTTGACATAATGG
1 TATCTTTTCATTATCGTTTGATTGTATCTGGTCAAAC-TCTTTTCATTACTGTTTGACATGATGG
* *
12651 TTCTCACCCTGGTCAAA
65 TTTTC-GCCTGGTCAAA
* * * * * *
12668 CT-TCTTTTCATTATCATTTGACTGTATCTGATCAAACTCTTTTTATT-CTTGTTTGACGTAATG
1 -TATCTTTTCATTATCGTTTGATTGTATCTGGTCAAACTCTTTTCATTAC-TGTTTGACATGATG
* * *
12731 GTTCTCATCCTAGTCAAA
64 GTTTTC-GCCTGGTCAAA
* * * * * * *
12749 CATCTTTTCATTATCGTTTGAATGTATCTAGTCAAACT-TTTTCATTACTATTTGACGTTACGGT
1 TATCTTTTCATTATCGTTTGATTGTATCTGGTCAAACTCTTTTCATTACTGTTTGACATGATGGT
* *
12813 TCTCGCCTTAGTCAAA
66 TTTCGCC-TGGTCAAA
* * * * * *
12829 CATCTTTTCATTATCATTTGATTGTATTTGGTCAAACTCCTTTTCGTTACTGTTTGATAGGATGG
1 TATCTTTTCATTATCGTTTGATTGTATCTGGTCAAACT-CTTTTCATTACTGTTTGACATGATGG
*
12894 TTTTCACCTTGGTCAAA
65 TTTTCGCC-TGGTCAAA
* * ** * * * **
12911 CATATTTTTTTTATCGTTTAATTATATCTAGTCAAACTCTTTTCATT-CTTGTTTGATGTGATGG
1 TATCTTTTCATTATCGTTTGATTGTATCTGGTCAAACTCTTTTCATTAC-TGTTTGACATGATGG
*
12975 TTCTCGCCCTGGTCAAA
65 TTTTCG-CCTGGTCAAA
** * *
12992 TATCTTTTCATTATCGTTTGATTACATCTGGTCAAACTTTTTTCATTACTGTTTGACATAATGGT
1 TATCTTTTCATTATCGTTTGATTGTATCTGGTCAAACTCTTTTCATTACTGTTTGACATGATGGT
*
13057 TCTCGTCCTGGTCAAA
66 TTTCG-CCTGGTCAAA
** * * * * * *
13073 TATCTTCCCATTATCGTTTGACTATATCTGGTCAAACTTTTTTCATTACTGTCTAACGTGATGGT
1 TATCTTTTCATTATCGTTTGATTGTATCTGGTCAAACTCTTTTCATTACTGTTTGACATGATGGT
13138 TCTT-GCCTCGGTCAAA
66 T-TTCGCCT-GGTCAAA
* * * * * * *
13154 CATCTTTTCATTATTGTTTAAATATATCTGGTCAAACTTTTTTCATTCCTGTTTGAC
1 TATCTTTTCATTATCGTTTGATTGTATCTGGTCAAACTCTTTTCATTACTGTTTGAC
13211 TGTATCTGGT
Statistics
Matches: 773, Mismatches: 143, Indels: 56
0.80 0.15 0.06
Matches are distributed among these distances:
74 1 0.00
75 29 0.04
76 28 0.04
79 3 0.00
80 74 0.10
81 470 0.61
82 164 0.21
83 4 0.01
ACGTcount: A:0.23, C:0.19, G:0.13, T:0.46
Consensus pattern (80 bp):
TATCTTTTCATTATCGTTTGATTGTATCTGGTCAAACTCTTTTCATTACTGTTTGACATGATGGT
TTTCGCCTGGTCAAA
Found at i:12355 original size:208 final size:208
Alignment explanation
Indices: 11982--12384 Score: 463
Period size: 208 Copynumber: 1.9 Consensus size: 208
11972 AACATCTTTT
* *
11982 TTTTCATTATCGTTTGACTATATCCAATCAAACTCTTTTCATTATCGTTTAACATGTTGGTTCTC
1 TTTTCATTATCGTTTGACTATATCCAATCAAACTCTTTTCATTATCGTATAACATGATGGTTCTC
* * * * *
12047 GCCTTGGTCAAACATCTTTTCATTACCATTTGACTGTATCCGATCAAACTCTTTTCATTACTGTT
66 GCCTTGGTCAAACATCTCTTCATCACCATTTGACTATATCAGATCAAACTCTTTTCATTACTATT
* ** * *
12112 TGACATAACGGTTCTCAACCTGGTCGAACATCTTTTCATTATCATTTGACTGCATCTGGTCAAAC
131 TGACATAACGCTTCTCAACCTAATCAAACATCTTTTCATTATCATTTGACTGCATCTAGTCAAAC
12177 GCTTTTCATTATC
196 GCTTTTCATTATC
* * *** * * * *
12190 TTTTCATTATCGTTTGATTGTATCTGGTCAAACTCTTTTCATTATTGTATGACGTGATGGTTTTC
1 TTTTCATTATCGTTTGACTATATCCAATCAAACTCTTTTCATTATCGTATAACATGATGGTTCTC
* * *
12255 G-CTCTGGTCAAATATCTCTTCATCATCGTTTGACTATATCTAG-TCAAACTCTTTTCATTACTA
66 GCCT-TGGTCAAACATCTCTTCATCACCATTTGACTATATC-AGATCAAACTCTTTTCATTACTA
** * ** * *
12318 TTTGACATGATA-GCTT-TCGCCCTAATCAAATATCTTTTCATTATTGTTTGATTGTATCTAGTC
129 TTTGACAT-A-ACGCTTCTCAACCTAATCAAACATCTTTTCATTATCATTTGACTGCATCTAGTC
12381 AAAC
192 AAAC
12385 TCCTTTTTGT
Statistics
Matches: 160, Mismatches: 31, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
207 2 0.01
208 152 0.95
209 5 0.03
210 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.12, T:0.43
Consensus pattern (208 bp):
TTTTCATTATCGTTTGACTATATCCAATCAAACTCTTTTCATTATCGTATAACATGATGGTTCTC
GCCTTGGTCAAACATCTCTTCATCACCATTTGACTATATCAGATCAAACTCTTTTCATTACTATT
TGACATAACGCTTCTCAACCTAATCAAACATCTTTTCATTATCATTTGACTGCATCTAGTCAAAC
GCTTTTCATTATC
Found at i:12478 original size:163 final size:161
Alignment explanation
Indices: 12186--13210 Score: 969
Period size: 162 Copynumber: 6.4 Consensus size: 161
12176 CGCTTTTCAT
* * * *
12186 TATCTTTTCATTATCGTTTGATTGTATCTGGTCAAACTCTTTTCATTATTGTATGACGTGATGGT
1 TATCTTTTCATTATCGTTTGATTGTATCTGGTCAAACTCTTTTCATTACTGTTTGACATAATGGT
* *
12251 TTTCGCTCTGGTCAAATATCTCTTCATCATCGTTTGACTATATCTAGTCAAACTCTTTTCATTAC
66 TTTCGC-CTGGTCAAATATCTTTTCATTATCGTTTGACTATATCTAGTCAAACTCTTTTCATTAC
* * **
12316 TATTTGACATGATAGCTT-TCGCCCTAATCAAA
130 TGTTTGACATGAT-GGTTCTCGCCCTGGTCAAA
* * ** *
12348 TATCTTTTCATTATTGTTTGATTGTATCTAGTCAAACTCCTTTTTGTTATTGTTTGACATAATGG
1 TATCTTTTCATTATCGTTTGATTGTATCTGGTCAAACT-CTTTTCATTACTGTTTGACATAATGG
* * * ** *
12413 TTTTCGCCTTGGTTAAATATATTTTCATTATCATTTGACTGCATCTGGTCAAACTCTTTTCATTA
65 TTTTCGCC-TGGTCAAATATCTTTTCATTATCGTTTGACTATATCTAGTCAAACTCTTTTCATTA
* * * ** *
12478 CTGTTTGACATAACGATTCTTTCCCTGGTTAAA
129 CTGTTTGACATGATGGTTCTCGCCCTGGTCAAA
* * * * * * * *
12511 CATCTTTTCATTATTGTTTAATTGTAACGGGTCAAACCCTTTTCATTACTATTTGACATGATGGT
1 TATCTTTTCATTATCGTTTGATTGTATCTGGTCAAACTCTTTTCATTACTGTTTGACATAATGGT
* * * * **
12576 TCTTAC-ACTGG------ATCTTTTCATTATCATTTGACTATATTTGGTCAAACTTCTTTTTGTT
66 T-TT-CGCCTGGTCAAATATCTTTTCATTATCGTTTGACTATATCTAGTCAAAC-TCTTTTCATT
* *
12634 ACTGTTTGACATAATGGTTCTCACCCTGGTCAAA
128 ACTGTTTGACATGATGGTTCTCGCCCTGGTCAAA
* * * * *
12668 CT-TCTTTTCATTATCATTTGACTGTATCTGATCAAACTCTTTTTATT-CTTGTTTGACGTAATG
1 -TATCTTTTCATTATCGTTTGATTGTATCTGGTCAAACTCTTTTCATTAC-TGTTTGACATAATG
* * * * * *
12731 GTTCTCATCCTAGTCAAACATCTTTTCATTATCGTTTGAATGTATCTAGTCAAACT-TTTTCATT
64 GTTTTC-GCCTGGTCAAATATCTTTTCATTATCGTTTGACTATATCTAGTCAAACTCTTTTCATT
* * * * * *
12795 ACTATTTGACGTTACGGTTCTCGCCTTAGTCAAA
128 ACTGTTTGACATGATGGTTCTCGCCCTGGTCAAA
* * * * * **
12829 CATCTTTTCATTATCATTTGATTGTATTTGGTCAAACTCCTTTTCGTTACTGTTTGATAGGATGG
1 TATCTTTTCATTATCGTTTGATTGTATCTGGTCAAACT-CTTTTCATTACTGTTTGACATAATGG
* * * ** * *
12894 TTTTCACCTTGGTCAAACATATTTTTTTTATCGTTTAATTATATCTAGTCAAACTCTTTTCATT-
65 TTTTCGCC-TGGTCAAATATCTTTTCATTATCGTTTGACTATATCTAGTCAAACTCTTTTCATTA
**
12958 CTTGTTTGATGTGATGGTTCTCGCCCTGGTCAAA
129 C-TGTTTGACATGATGGTTCTCGCCCTGGTCAAA
** *
12992 TATCTTTTCATTATCGTTTGATTACATCTGGTCAAACTTTTTTCATTACTGTTTGACATAATGGT
1 TATCTTTTCATTATCGTTTGATTGTATCTGGTCAAACTCTTTTCATTACTGTTTGACATAATGGT
* ** * *
13057 TCTCGTCCTGGTCAAATATCTTCCCATTATCGTTTGACTATATCTGGTCAAACTTTTTTCATTAC
66 TTTCG-CCTGGTCAAATATCTTTTCATTATCGTTTGACTATATCTAGTCAAACTCTTTTCATTAC
* * * *
13122 TGTCTAACGTGATGGTTCTTG-CCTCGGTCAAA
130 TGTTTGACATGATGGTTCTCGCCCT-GGTCAAA
* * * * * * *
13154 CATCTTTTCATTATTGTTTAAATATATCTGGTCAAACTTTTTTCATTCCTGTTTGAC
1 TATCTTTTCATTATCGTTTGATTGTATCTGGTCAAACTCTTTTCATTACTGTTTGAC
13211 TGTATCTGGT
Statistics
Matches: 704, Mismatches: 134, Indels: 50
0.79 0.15 0.06
Matches are distributed among these distances:
155 1 0.00
156 34 0.05
157 90 0.13
161 71 0.10
162 274 0.39
163 233 0.33
164 1 0.00
ACGTcount: A:0.23, C:0.19, G:0.13, T:0.46
Consensus pattern (161 bp):
TATCTTTTCATTATCGTTTGATTGTATCTGGTCAAACTCTTTTCATTACTGTTTGACATAATGGT
TTTCGCCTGGTCAAATATCTTTTCATTATCGTTTGACTATATCTAGTCAAACTCTTTTCATTACT
GTTTGACATGATGGTTCTCGCCCTGGTCAAA
Found at i:12885 original size:481 final size:481
Alignment explanation
Indices: 12188--13059 Score: 1140
Period size: 481 Copynumber: 1.8 Consensus size: 481
12178 CTTTTCATTA
* * * * *
12188 TCTTTTCATTATCGTTTGATTGTATCTGGTCAAACTCTTTTCATTATTGTATGACGTGATGGTTT
1 TCTTTTCATTATCATTTGACTGTATCTGATCAAACTCTTTTCATTATTGTATGACGTAATGGTTC
* * *
12253 TCGCTCTGGTCAAATATCTCTTCATCATCGTTTGACTATATCTAGTCAAACTCTTTTCATTACTA
66 TCGCTCTAGTCAAACATCTCTTCATCATCGTTTGAATATATCTAGTCAAACTCTTTTCATTACTA
* **
12318 TTTGACATGATAGCTTTCGCCCTAATCAAATATCTTTTCATTATTGTTTGATTGTATCTAGTCAA
131 TTTGACA-GATAGCTTTCGCCCTAATCAAACATCTTTTCATTATCATTTGATTGTATCTAGTCAA
* * * * * *
12383 ACTCCTTTTTGTTATTGTTTGACATAATGGTTTTCGCCTTGGTTAAATATATTTTCATTATCATT
195 ACTCCTTTTCGTTACTGTTTGACAGAATGGTTTTCACCTTGGTCAAACATATTTTCATTATCATT
* * * ** *
12448 TGACTGCATCTGGTCAAACTCTTTTCATTAC-TGTTTGACATAACGATTCTTTCCCTGGTTAAAC
260 TAACTACATCTAGTCAAACTCTTTTCATT-CTTGTTTGACATAACGATTCTCGCCCTGGTCAAAC
* ** *
12512 ATCTTTTCATTATTGTTTAATTGTAACGGGTCAAACCCTTTTCATTACTATTTGACATGATGGTT
324 ATCTTTTCATTATCGTTTAATTACAACGGGTCAAACCCTTTTCATTACTATTTGACATAATGGTT
12577 CTTACACTGGATCTTTTCATTATCATTTGACTATATTTGGTCAAACTTCTTTTTGTTACTGTTTG
389 CTTACACTGGATCTTTTCATTATCATTTGACTATATTTGGTCAAACTTCTTTTTGTTACTGTTTG
12642 ACATAATGGTTCTCACCCTGGTCAAACT
454 ACATAATGGTTCTCACCCTGGTCAAACT
* * *
12670 TCTTTTCATTATCATTTGACTGTATCTGATCAAACTCTTTTTATTCTTGTTTGACGTAATGGTTC
1 TCTTTTCATTATCATTTGACTGTATCTGATCAAACTCTTTTCATTATTGTATGACGTAATGGTTC
* * * *
12735 TC-ATCCTAGTCAAACATCTTTTCATTATCGTTTGAATGTATCTAGTCAAACT-TTTTCATTACT
66 TCGCT-CTAGTCAAACATCTCTTCATCATCGTTTGAATATATCTAGTCAAACTCTTTTCATTACT
* * * * * *
12798 ATTTGAC-GTTACGGTTCTCGCCTTAGTCAAACATCTTTTCATTATCATTTGATTGTATTTGGTC
130 ATTTGACAGATA-GCTT-TCGCCCTAATCAAACATCTTTTCATTATCATTTGATTGTATCTAGTC
* * ** *
12862 AAACTCCTTTTCGTTACTGTTTGATAGGATGGTTTTCACCTTGGTCAAACATATTTTTTTTATCG
193 AAACTCCTTTTCGTTACTGTTTGACAGAATGGTTTTCACCTTGGTCAAACATATTTTCATTATCA
* * ** * * *
12927 TTTAATTATATCTAGTCAAACTCTTTTCATTCTTGTTTGATGTGATGGTTCTCGCCCTGGTCAAA
258 TTTAACTACATCTAGTCAAACTCTTTTCATTCTTGTTTGACATAACGATTCTCGCCCTGGTCAAA
* * * * ** *
12992 TATCTTTTCATTATCGTTTGATTACATCTGGTCAAACTTTTTTCATTACTGTTTGACATAATGGT
323 CATCTTTTCATTATCGTTTAATTACAACGGGTCAAACCCTTTTCATTACTATTTGACATAATGGT
13057 TCT
388 TCT
13060 CGTCCTGGTC
Statistics
Matches: 327, Mismatches: 59, Indels: 9
0.83 0.15 0.02
Matches are distributed among these distances:
479 3 0.01
480 4 0.01
481 220 0.67
482 100 0.31
ACGTcount: A:0.23, C:0.18, G:0.13, T:0.46
Consensus pattern (481 bp):
TCTTTTCATTATCATTTGACTGTATCTGATCAAACTCTTTTCATTATTGTATGACGTAATGGTTC
TCGCTCTAGTCAAACATCTCTTCATCATCGTTTGAATATATCTAGTCAAACTCTTTTCATTACTA
TTTGACAGATAGCTTTCGCCCTAATCAAACATCTTTTCATTATCATTTGATTGTATCTAGTCAAA
CTCCTTTTCGTTACTGTTTGACAGAATGGTTTTCACCTTGGTCAAACATATTTTCATTATCATTT
AACTACATCTAGTCAAACTCTTTTCATTCTTGTTTGACATAACGATTCTCGCCCTGGTCAAACAT
CTTTTCATTATCGTTTAATTACAACGGGTCAAACCCTTTTCATTACTATTTGACATAATGGTTCT
TACACTGGATCTTTTCATTATCATTTGACTATATTTGGTCAAACTTCTTTTTGTTACTGTTTGAC
ATAATGGTTCTCACCCTGGTCAAACT
Found at i:13200 original size:35 final size:35
Alignment explanation
Indices: 13147--13234 Score: 104
Period size: 35 Copynumber: 2.5 Consensus size: 35
13137 TTCTTGCCTC
* *
13147 GGTCAAACATCTTTTCATTATTGTTTAAATATATCT
1 GGTCAAAC-TTTTTTCATTACTGTTTAAATATATCT
* * * *
13183 GGTCAAACTTTTTTCATTCCTGTTTGACTGTATCT
1 GGTCAAACTTTTTTCATTACTGTTTAAATATATCT
*
13218 GGTTAAACTTTTTTCAT
1 GGTCAAACTTTTTTCAT
13235 CCTCATTCGA
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
35 37 0.82
36 8 0.18
ACGTcount: A:0.24, C:0.16, G:0.11, T:0.49
Consensus pattern (35 bp):
GGTCAAACTTTTTTCATTACTGTTTAAATATATCT
Found at i:13436 original size:85 final size:85
Alignment explanation
Indices: 13337--13628 Score: 374
Period size: 85 Copynumber: 3.4 Consensus size: 85
13327 GTTGACTTTC
* * * * *
13337 TTATCTTTTGTTTACCTGTCAGCTTAGTCCCGGGTAAATCCTTTTATCTTTTGTTGACTAATCGA
1 TTATCCTTTGTTTACCTATCAGCTTAGTCCCAGGTAAATCCTTTTATCCTTTGTTGACTTATCGA
13402 TTCAATCCCGATCAACTTCT
66 TTCAATCCCGATCAACTTCT
* * * * *
13422 TTATCCTTTGTTTACCTATCGGCTTAGTCTCAGGTAAATCATTTTATCCTATGTTGACTTGTC-A
1 TTATCCTTTGTTTACCTATCAGCTTAGTCCCAGGTAAATCCTTTTATCCTTTGTTGACTTATCGA
* *
13486 GTTCAATCCCAATCAATTTCT
66 -TTCAATCCCGATCAACTTCT
* * *
13507 TTATCCTTTATTTACCTATC-GACTCAGTCCCTGGTAAATCCTTTTATCCTTTGTTGACTTATCG
1 TTATCCTTTGTTTACCTATCAG-CTTAGTCCCAGGTAAATCCTTTTATCCTTTGTTGACTTATCG
* *
13571 ATTCAATCTCGGTCAACTTCT
65 ATTCAATCCCGATCAACTTCT
*
13592 TTATCCTTTGTTTA-CTAATCAGCTTAGTCCCAAGTAA
1 TTATCCTTTGTTTACCT-ATCAGCTTAGTCCCAGGTAA
13629 CCACTTTCGT
Statistics
Matches: 175, Mismatches: 27, Indels: 10
0.83 0.13 0.05
Matches are distributed among these distances:
84 4 0.02
85 169 0.97
86 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.12, T:0.43
Consensus pattern (85 bp):
TTATCCTTTGTTTACCTATCAGCTTAGTCCCAGGTAAATCCTTTTATCCTTTGTTGACTTATCGA
TTCAATCCCGATCAACTTCT
Found at i:13601 original size:42 final size:42
Alignment explanation
Indices: 13379--13603 Score: 161
Period size: 42 Copynumber: 5.3 Consensus size: 42
13369 GGTAAATCCT
* * *
13379 TTTATCTTTTGTTGACTAATCGATTCAATCCCGATCAACTTC
1 TTTATCCTTTGTTGACTTATCGATTCAATCCCGGTCAACTTC
* * * * * * *
13421 TTTATCCTTTGTTTACCTATCGGCTT-AGTCTCAGGTAAATCAT-
1 TTTATCCTTTGTTGACTTATC-GATTCAATC-CCGGTCAA-CTTC
* * ** *
13464 TTTATCCTATGTTGACTTGTC-AGTTCAATCCCAATCAATTTC
1 TTTATCCTTTGTTGACTTATCGA-TTCAATCCCGGTCAACTTC
* * * * * * *
13506 TTTATCCTTTATTTACCTATCGACTCAGTCCCTGGT-AAATCC
1 TTTATCCTTTGTTGACTTATCGATTCAATCCC-GGTCAACTTC
*
13548 TTTTATCCTTTGTTGACTTATCGATTCAATCTCGGTCAACTTC
1 -TTTATCCTTTGTTGACTTATCGATTCAATCCCGGTCAACTTC
13591 TTTATCCTTTGTT
1 TTTATCCTTTGTT
13604 TACTAATCAG
Statistics
Matches: 132, Mismatches: 41, Indels: 20
0.68 0.21 0.10
Matches are distributed among these distances:
41 1 0.01
42 69 0.52
43 60 0.45
44 2 0.02
ACGTcount: A:0.21, C:0.24, G:0.11, T:0.45
Consensus pattern (42 bp):
TTTATCCTTTGTTGACTTATCGATTCAATCCCGGTCAACTTC
Found at i:13726 original size:26 final size:26
Alignment explanation
Indices: 13684--13737 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
13674 TCTTTTTGAC
*
13684 TTAGGTTTAGCTCTGGTCAATGTCTT
1 TTAGGTTTACCTCTGGTCAATGTCTT
*
13710 TTAGGTTTTACCT-TGGTCAATTTCTT
1 TTAGG-TTTACCTCTGGTCAATGTCTT
13736 TT
1 TT
13738 CGAACTTAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 19 0.76
27 6 0.24
ACGTcount: A:0.15, C:0.15, G:0.19, T:0.52
Consensus pattern (26 bp):
TTAGGTTTACCTCTGGTCAATGTCTT
Found at i:15302 original size:150 final size:149
Alignment explanation
Indices: 15022--15365 Score: 340
Period size: 150 Copynumber: 2.3 Consensus size: 149
15012 AATCCTAGAA
* * * * * *
15022 AACTTGAAAAAGTAAAAACAAACCCACTT-CTAATTCACACCTTCGACGTGGAAGTGGACCTAGT
1 AACTTAAAAAAGTAAAAACAAACCCA-TTCCTAATTCATACCTTCAACGTAGAAGCGGACCCAGT
** * * *
15086 AGTTTCATAAGACTAGGTTTCGGTGAAAATGCTTAAGAGTCCCTAAGGTCTACCATCGACTTAGA
65 AGTTTCATAAGACTAGGTTTAAGTGAAAATGCTTAAAAATCCCTAAGGTCTACCATCAACTTAGA
*
15151 AGTG-TCTAGTGATCTTAAGG
130 AGTGCTC-AGTGATCCTAAGG
* *
15171 GACTTAAAATAAGTAAAAACAAACCCATTCCTAATTCATACCTTCAACGTAGAAGCGGACCCGGT
1 AACTTAAAA-AAGTAAAAACAAACCCATTCCTAATTCATACCTTCAACGTAGAAGCGGACCCAGT
* * * * * * * *
15236 AGTTTTATAGGCCTAGGTTTTAAG-GAAAATGC-TAAAATATTCCTAAGGTTTTCTATTAACTTA
65 AGTTTCATAAGACTAGG-TTTAAGTGAAAATGCTTAAAA-ATCCCTAAGGTCTACCATCAACTTA
*
15299 GAAGTGCTCGGTGATCCTAAGG
128 GAAGTGCTCAGTGATCCTAAGG
* * * *
15321 AAC-TAGAAAAAGTAAAAA-AGAACCTACTCCTTATTCATACTTTCA
1 AACTTA-AAAAAGTAAAAACA-AACCCATTCCTAATTCATACCTTCA
15366 GTATAGAAGT
Statistics
Matches: 160, Mismatches: 28, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
148 1 0.01
149 45 0.28
150 108 0.68
151 6 0.04
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (149 bp):
AACTTAAAAAAGTAAAAACAAACCCATTCCTAATTCATACCTTCAACGTAGAAGCGGACCCAGTA
GTTTCATAAGACTAGGTTTAAGTGAAAATGCTTAAAAATCCCTAAGGTCTACCATCAACTTAGAA
GTGCTCAGTGATCCTAAGG
Found at i:17442 original size:166 final size:163
Alignment explanation
Indices: 17257--17683 Score: 480
Period size: 165 Copynumber: 2.6 Consensus size: 163
17247 GATATAATAG
* * * *
17257 GAATTTAATAACAATATTTGATGAATTTCAAAAATTTTAAATCGAGAAAAGTCCCCTAAAGAACA
1 GAATTAAATAATAATATTTGATGAATTT-AAAAATTTTAAATCGAGAAAAATCCCCTAAA-AAAA
* * ** *
17322 TTTACGGAGTAGAAAACTCGGTATTTC-AGAAATAAGATAATTTCAAGGTAAAAATGAAAAATTA
64 TTTACGGAGTAGAAAACTCCGTATTTCGA-AAATAAGAGAATTTCAAGAAAAAAAT-AAAAAATA
* * *
17386 ATGAAATAAAATGAAATTTTTAAAACTAATTTATTAT
127 AAGAAATAAAAGGAAATTTTCAAAACTAATTTATTAT
* * * * * * ** *
17423 GAATTAAATGATGATATTTGATGAATAATAAAAATTATAAACCAAGAAAAATCTCCCCGAAAATA
1 GAATTAAATAATAATATTTGATGAAT-TTAAAAATTTTAAATCGAGAAAAATC-CCCTAAAAAAA
*
17488 TTTACGGAGTAGAAAACTCCGTATTTCGAAAATAGGAGAATTTCAAGAAAAAAATAAAAAATAAA
64 TTTACGGAGTAGAAAACTCCGTATTTCGAAAATAAGAGAATTTCAAGAAAAAAATAAAAAATAAA
*
17553 GAAATGAAAGGAAATTTTCAAAACTAATTTATTAT
129 GAAATAAAAGGAAATTTTCAAAACTAATTTATTAT
* * * * **
17588 GAATTAAATAATAATATTTGATTAATTTTAAAATTTATAAATAGATAAAAATCCTTTCAAAAAAA
1 GAATTAAATAATAATATTTGATGAATTTAAAAATTT-TAAATCGAGAAAAATCCCCT-AAAAAAA
* * *
17653 TTTACAGAGAAGAAAACTCTGTATTT-GAAAA
64 TTTACGGAGTAGAAAACTCCGTATTTCGAAAA
17684 CAGAAGGAAT
Statistics
Matches: 216, Mismatches: 40, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
164 13 0.06
165 103 0.48
166 93 0.43
167 7 0.03
ACGTcount: A:0.50, C:0.08, G:0.11, T:0.30
Consensus pattern (163 bp):
GAATTAAATAATAATATTTGATGAATTTAAAAATTTTAAATCGAGAAAAATCCCCTAAAAAAATT
TACGGAGTAGAAAACTCCGTATTTCGAAAATAAGAGAATTTCAAGAAAAAAATAAAAAATAAAGA
AATAAAAGGAAATTTTCAAAACTAATTTATTAT
Found at i:17628 original size:165 final size:166
Alignment explanation
Indices: 17257--17628 Score: 464
Period size: 166 Copynumber: 2.2 Consensus size: 166
17247 GATATAATAG
* * * * * * *
17257 GAATTTAATAACAATATTTGATGAATTTCAAAAATTT-TAAATCGAGAAAAGTCCCCTAAAGAAC
1 GAATTAAATAATAATATTTGATGAATTT-TAAAATTTATAAACCAAGAAAAATCCCCCAAAGAAC
* * ** *
17321 ATTTACGGAGTAGAAAACTCGGTATTTCAGAAATAAGATAATTTCAAGGTAAAAATGAAAAATTA
65 ATTTACGGAGTAGAAAACTCCGTATTTCAGAAATAAGAGAATTTCAAGAAAAAAATGAAAAAATA
* * *
17386 ATGAAATAAAATGAAATTTTTAAAACTAATTTATTAT
130 AAGAAATAAAAGGAAATTTTCAAAACTAATTTATTAT
* * ** * * *
17423 GAATTAAATGATGATATTTGATGAATAATAAAAATTATAAACCAAGAAAAATCTCCCCGAA-AAT
1 GAATTAAATAATAATATTTGATGAATTTTAAAATTTATAAACCAAGAAAAATC-CCCCAAAGAAC
*
17487 ATTTACGGAGTAGAAAACTCCGTATTTC-GAAAATAGGAGAATTTCAAGAAAAAAAT-AAAAAAT
65 ATTTACGGAGTAGAAAACTCCGTATTTCAG-AAATAAGAGAATTTCAAGAAAAAAATGAAAAAAT
*
17550 AAAGAAATGAAAGGAAATTTTCAAAACTAATTTATTAT
129 AAAGAAATAAAAGGAAATTTTCAAAACTAATTTATTAT
*
17588 GAATTAAATAATAATATTTGATTAATTTTAAAATTTATAAA
1 GAATTAAATAATAATATTTGATGAATTTTAAAATTTATAAA
17629 TAGATAAAAA
Statistics
Matches: 173, Mismatches: 30, Indels: 7
0.82 0.14 0.03
Matches are distributed among these distances:
165 82 0.47
166 86 0.50
167 5 0.03
ACGTcount: A:0.50, C:0.08, G:0.12, T:0.31
Consensus pattern (166 bp):
GAATTAAATAATAATATTTGATGAATTTTAAAATTTATAAACCAAGAAAAATCCCCCAAAGAACA
TTTACGGAGTAGAAAACTCCGTATTTCAGAAATAAGAGAATTTCAAGAAAAAAATGAAAAAATAA
AGAAATAAAAGGAAATTTTCAAAACTAATTTATTAT
Found at i:17738 original size:165 final size:165
Alignment explanation
Indices: 17270--17787 Score: 446
Period size: 165 Copynumber: 3.1 Consensus size: 165
17260 TTTAATAACA
* * * * * * * * *
17270 ATATTTGATGAATTTCAAAAATTT-TAAATCGAGAAAAGTC-CCCTAAAGAACATTTACGGAGTA
1 ATATTTGATTAATTT-TAAAATTTATAAACCAAGAAAAATCTCCCCAAA-AAAATTTACAGAGAA
* * ** *
17333 GAAAACTCGGTATTTCAGAAATA-AG-ATAATTTCAAGGTAAAAATGAAAAATTAATGAAATAAA
64 GAAAACTCCGTATTTC-GAAA-ACAGAAGAATTTCAAGAAAAAAAT-AAAAAATAATGAAATAAA
*
17396 ATGAAATTTTT-AAAACTAATTTATTATGAATTAAATGATG
126 AAG-AATTTTTCAAAACTAATTTATTATGAATTAAATGATG
* ** * * * * *
17436 ATATTTGATGAATAATAAAAATTATAAACCAAGAAAAATCTCCCCGAAAATATTTACGGAGTAGA
1 ATATTTGATTAATTTTAAAATTTATAAACCAAGAAAAATCTCCCCAAAAAAATTTACAGAGAAGA
* * * * *
17501 AAACTCCGTATTTCGAAAATAGGAGAATTTCAAGAAAAAAATAAAAAATAAAGAAATGAAAGGAA
66 AAACTCCGTATTTCGAAAACAGAAGAATTTCAAGAAAAAAATAAAAAATAATGAAATAAAAAGAA
* * *
17566 ATTTTCAAAACTAATTTATTATGAATTAAATAATA
131 TTTTTCAAAACTAATTTATTATGAATTAAATGATG
* * **
17601 ATATTTGATTAATTTTAAAATTTATAAA-TAGATAAAAATC-CTTTCAAAAAAATTTACAGAGAA
1 ATATTTGATTAATTTTAAAATTTATAAACCA-AGAAAAATCTC-CCCAAAAAAATTTACAGAGAA
* * * * *
17664 GAAAACTCTGTATTT-GAAAACAGAAGGAA-TTCTAA-AAGAAAATCAATAACTCATGAAATAAA
64 GAAAACTCCGTATTTCGAAAACAGAA-GAATTTC-AAGAAAAAAAT-AAAAAATAATGAAATAAA
* *
17726 AAGAATTTTTCAAAACTGATTTAATGAT-AATTAAATGATG
126 AAGAATTTTTCAAAACTAATTT-ATTATGAATTAAATGATG
* * *
17766 ATATTTAAATAATTTTGAAATT
1 ATATTTGATTAATTTTAAAATT
17788 AAAAACTTGA
Statistics
Matches: 290, Mismatches: 51, Indels: 23
0.80 0.14 0.06
Matches are distributed among these distances:
164 27 0.09
165 183 0.63
166 75 0.26
167 5 0.02
ACGTcount: A:0.50, C:0.08, G:0.11, T:0.31
Consensus pattern (165 bp):
ATATTTGATTAATTTTAAAATTTATAAACCAAGAAAAATCTCCCCAAAAAAATTTACAGAGAAGA
AAACTCCGTATTTCGAAAACAGAAGAATTTCAAGAAAAAAATAAAAAATAATGAAATAAAAAGAA
TTTTTCAAAACTAATTTATTATGAATTAAATGATG
Found at i:20302 original size:51 final size:51
Alignment explanation
Indices: 20236--20350 Score: 142
Period size: 51 Copynumber: 2.3 Consensus size: 51
20226 AATAACAGGA
* * * * * * **
20236 TTGGAGTATCTCCGATTGTGAGAAATTGGTGTTTTGGAACTAAAATCG-GAG
1 TTGGAGTATCCCCGATTGTGAAAAATTGATATTTTAGAAATAAAGCCGAG-G
20287 TTGGAGTATCCCCGATTGTGAAAAATTGATATTTTAGAAATAAAGCCGAGG
1 TTGGAGTATCCCCGATTGTGAAAAATTGATATTTTAGAAATAAAGCCGAGG
20338 TTGGAGTATCCCC
1 TTGGAGTATCCCC
20351 TCAAAAATAA
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
51 54 0.98
52 1 0.02
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.31
Consensus pattern (51 bp):
TTGGAGTATCCCCGATTGTGAAAAATTGATATTTTAGAAATAAAGCCGAGG
Found at i:20369 original size:79 final size:79
Alignment explanation
Indices: 20286--20547 Score: 398
Period size: 79 Copynumber: 3.3 Consensus size: 79
20276 TAAAATCGGA
* * *
20286 GTTGGAGTATCCCCGATTGTGAAAAATTGATATTTTAGAAATAAAGCCGAGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
*
20351 TCAAAAATAACGGG
66 TCGAAAATAACGGG
* *
20365 GTTGGAGTATCCTCGATTATGAAAAATTGATATCTTAGAAATAAAACCGGGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
*
20430 TCGGAAATAACGGG
66 TCGAAAATAACGGG
* * *
20444 GTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTGTCCCC
1 GTTGGAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
**
20509 TCGAAAATAATTGG
66 TCGAAAATAACGGG
* *
20523 GTTGGAATATCCCCGATTGTGAAAA
1 GTTGGAGTATCCCCGATTATGAAAA
20548 GTCGGTGCTT
Statistics
Matches: 165, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
79 165 1.00
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.27
Consensus pattern (79 bp):
GTTGGAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
TCGAAAATAACGGG
Found at i:20564 original size:79 final size:79
Alignment explanation
Indices: 20286--20587 Score: 397
Period size: 79 Copynumber: 3.8 Consensus size: 79
20276 TAAAATCGGA
* *
20286 GTTGGAGTATCCCCGATTGTGAAAAATTGATATTTTAGAAATAAAGCCGAGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAACCGAGGTTGGAGTATCCCC
*
20351 TCAAAAATAACGGG
66 TCGAAAATAACGGG
* * *
20365 GTTGGAGTATCCTCGATTATGAAAAATTGATATCTTAGAAATAAAACCGGGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAACCGAGGTTGGAGTATCCCC
*
20430 TCGGAAATAACGGG
66 TCGAAAATAACGGG
* * * *
20444 GTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTGTCCCC
1 GTTGGAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAACCGAGGTTGGAGTATCCCC
**
20509 TCGAAAATAATTGG
66 TCGAAAATAACGGG
* * * * * ** * * *
20523 GTTGGAATATCCCCGATTGTGAAAAGTCGGTGCTTTGGAAATAAAATCGAAGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAACCGAGGTTGGAGTATCCCC
20588 GATTATGGAA
Statistics
Matches: 194, Mismatches: 29, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
79 194 1.00
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.27
Consensus pattern (79 bp):
GTTGGAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAACCGAGGTTGGAGTATCCCC
TCGAAAATAACGGG
Found at i:20579 original size:51 final size:51
Alignment explanation
Indices: 20523--20643 Score: 163
Period size: 51 Copynumber: 2.4 Consensus size: 51
20513 AAATAATTGG
* * * * *
20523 GTTGGAATATCCCCGATTGT-GAAAAGTCGGTGCTTTGGAAATAAAATCGAA
1 GTTGGAGTATCCCCGATTATGGAAAA-TAGGCGCTTTAGAAATAAAATCGAA
* *
20574 GTTGGAGTATCCCCGATTATGGAAAATAGGCGTTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGGAAAATAGGCGCTTTAGAAATAAAATCGAA
20625 GTTGGAGTATCCCCGATTA
1 GTTGGAGTATCCCCGATTA
20644 AGAGAAATTG
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
51 57 0.92
52 5 0.08
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGGAAAATAGGCGCTTTAGAAATAAAATCGAA
Found at i:20660 original size:51 final size:51
Alignment explanation
Indices: 20560--20691 Score: 160
Period size: 51 Copynumber: 2.6 Consensus size: 51
20550 CGGTGCTTTG
* * *
20560 GAAATAAAATCGAAGTTGGAGTATCCCCGATTATGGAAAATAGGCGTTTTA
1 GAAATAAAATCGGAGTTGGAGTATCCCCGATTAAGGAAAATAGACGTTTTA
* * *
20611 GAAATAAAATCGGAGTTGGAGTATCCCCGATTAA-GAGAAATTGATGTTTTG
1 GAAATAAAATCGGAGTTGGAGTATCCCCGATTAAGGA-AAATAGACGTTTTA
* *
20662 GAAATGAAACCGG-GATTGGAGTATCCCCGA
1 GAAATAAAATCGGAG-TTGGAGTATCCCCGA
20692 GATAAAAAAT
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
50 3 0.04
51 68 0.96
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.26
Consensus pattern (51 bp):
GAAATAAAATCGGAGTTGGAGTATCCCCGATTAAGGAAAATAGACGTTTTA
Found at i:23163 original size:19 final size:18
Alignment explanation
Indices: 23139--23224 Score: 65
Period size: 19 Copynumber: 4.8 Consensus size: 18
23129 AGCGATACAT
23139 TGTATCGATACAAGACTTA
1 TGTATCGATACAA-ACTTA
23158 TGTATCGATAC--A-TTA
1 TGTATCGATACAAACTTA
*
23173 --TATCCATACAACACTTA
1 TGTATCGATACAA-ACTTA
* *
23190 TGTATCGATACATTTACTGTT
1 TGTATCGATACA--AACT-TA
23211 TGTATCGATACAAA
1 TGTATCGATACAAA
23225 TTGTTTGAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 18
0.70 0.07 0.24
Matches are distributed among these distances:
13 8 0.15
15 3 0.06
16 2 0.04
17 3 0.06
19 21 0.40
20 3 0.06
21 13 0.25
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:23182 original size:32 final size:32
Alignment explanation
Indices: 23131--23203 Score: 119
Period size: 32 Copynumber: 2.3 Consensus size: 32
23121 AGCTTCGTAG
* * *
23131 CGATACATTGTATCGATACAAGACTTATGTAT
1 CGATACATTATATCCATACAACACTTATGTAT
23163 CGATACATTATATCCATACAACACTTATGTAT
1 CGATACATTATATCCATACAACACTTATGTAT
23195 CGATACATT
1 CGATACATT
23204 TACTGTTTGT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.34
Consensus pattern (32 bp):
CGATACATTATATCCATACAACACTTATGTAT
Found at i:25586 original size:17 final size:16
Alignment explanation
Indices: 25544--25589 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
25534 GATCAACATC
*
25544 AATTACAAATTTTAGG
1 AATTACAGATTTTAGG
* *
25560 AATCATAGATTTCTAGG
1 AATTACAGATTT-TAGG
25577 AATTACAGATTTT
1 AATTACAGATTTT
25590 TGTAATCGTA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
16 10 0.42
17 14 0.58
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (16 bp):
AATTACAGATTTTAGG
Found at i:25780 original size:2 final size:2
Alignment explanation
Indices: 25775--25811 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
25765 AAATGAAAAA
* *
25775 AT AT AT AT GT GT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
25812 CTGCTAGGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (2 bp):
AT
Found at i:31052 original size:14 final size:15
Alignment explanation
Indices: 31027--31081 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 15
31017 TAATATATTA
*
31027 ATTTTATATTTTTTT
1 ATTTTATATTTTGTT
31042 ATTTT-TATTTTGTT
1 ATTTTATATTTTGTT
31056 ATTTTAATAATTTT-TT
1 ATTTT-AT-ATTTTGTT
*
31072 ATATTATATT
1 ATTTTATATT
31082 ATTAATTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
14 16 0.46
15 7 0.20
16 7 0.20
17 5 0.14
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (15 bp):
ATTTTATATTTTGTT
Found at i:31090 original size:29 final size:30
Alignment explanation
Indices: 31022--31091 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 30
31012 CTTGATAATA
* * * *
31022 TATTAATTTTATATTTTTTTATTTTTATTT
1 TATTAATTTAATAATTTTTTATTATTATAT
* *
31052 TGTTATTTTAATAATTTTTTA-TATTATAT
1 TATTAATTTAATAATTTTTTATTATTATAT
31081 TATTAATTTAA
1 TATTAATTTAA
31092 GTTTAACATA
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.30, C:0.00, G:0.01, T:0.69
Consensus pattern (30 bp):
TATTAATTTAATAATTTTTTATTATTATAT
Found at i:33065 original size:21 final size:21
Alignment explanation
Indices: 33041--33090 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
33031 AGTAGTGTTG
*
33041 AAATTAATTATTATAATAATA
1 AAATTAAATATTATAATAATA
*
33062 AAATTAAATATTATAATTATA
1 AAATTAAATATTATAATAATA
*
33083 AGATTAAA
1 AAATTAAA
33091 ATTTACTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (21 bp):
AAATTAAATATTATAATAATA
Found at i:33712 original size:17 final size:17
Alignment explanation
Indices: 33673--33716 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
33663 AATATTAAAT
33673 TTAAAAAATAAATTTAA
1 TTAAAAAATAAATTTAA
** * *
33690 ACAAAAATTAAATTTAC
1 TTAAAAAATAAATTTAA
33707 TTAAAAAATA
1 TTAAAAAATA
33717 TAATAGACAT
Statistics
Matches: 20, Mismatches: 7, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.32
Consensus pattern (17 bp):
TTAAAAAATAAATTTAA
Found at i:34785 original size:20 final size:19
Alignment explanation
Indices: 34762--34874 Score: 50
Period size: 20 Copynumber: 5.6 Consensus size: 19
34752 GTATATAAAA
34762 TATTTTATATTTATATAATT
1 TATTTTATATTTATAT-ATT
* * * * *
34782 TATTTAAAAATAATTTAATT
1 TATTTTATATTTATAT-ATT
*
34802 TATATATAAATATTTATATATT
1 TAT-T-TTA-TATTTATATATT
*
34824 TATATTATA-TTATAATTATT
1 TATTTTATATTTAT-A-TATT
*
34844 TTTTATTATATTTA-ATATT
1 TATT-TTATATTTATATATT
*
34863 TTTTTTAATATT
1 TATTTT-ATATT
34875 ATCAGGTCTC
Statistics
Matches: 72, Mismatches: 13, Indels: 17
0.71 0.13 0.17
Matches are distributed among these distances:
18 6 0.08
19 16 0.22
20 27 0.38
21 6 0.08
22 12 0.17
23 5 0.07
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TATTTTATATTTATATATT
Found at i:34810 original size:16 final size:15
Alignment explanation
Indices: 34773--34822 Score: 57
Period size: 14 Copynumber: 3.3 Consensus size: 15
34763 ATTTTATATT
34773 TATATAATTTATTTA
1 TATATAATTTATTTA
* *
34788 AAAATAATTTAATTTA
1 TATATAATTT-ATTTA
*
34804 TATATAA-ATATTTA
1 TATATAATTTATTTA
34818 TATAT
1 TATAT
34823 TTATATTATA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
14 10 0.34
15 9 0.31
16 10 0.34
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATATAATTTATTTA
Found at i:34816 original size:30 final size:30
Alignment explanation
Indices: 34758--34817 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
34748 TATCGTATAT
* **
34758 AAAATATTTTATATTTATATAATTTATTTA
1 AAAATAATTTATATTTATATAAAATATTTA
34788 AAAATAATTTA-ATTTATATATAAATATTTA
1 AAAATAATTTATATTTATATA-AAATATTTA
34818 TATATTTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 9 0.35
30 17 0.65
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (30 bp):
AAAATAATTTATATTTATATAAAATATTTA
Found at i:34837 original size:16 final size:16
Alignment explanation
Indices: 34818--34862 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
34808 TAAATATTTA
34818 TATATTTATATTATAT
1 TATATTTATATTATAT
* * *
34834 TATAATTATTTTTTAT
1 TATATTTATATTATAT
34850 TATATTTAATATT
1 TATATTT-ATATT
34863 TTTTTTAATA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
16 19 0.83
17 4 0.17
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TATATTTATATTATAT
Found at i:34852 original size:21 final size:20
Alignment explanation
Indices: 34826--34876 Score: 70
Period size: 19 Copynumber: 2.5 Consensus size: 20
34816 TATATATTTA
34826 TATTATATTATAATTATTTTT
1 TATTATATTATAA-TATTTTT
34847 TATTATATT-TAATATTTTT
1 TATTATATTATAATATTTTT
34866 T-TTAATATTAT
1 TATT-ATATTAT
34877 CAGGTCTCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
18 2 0.07
19 13 0.46
20 4 0.14
21 9 0.32
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TATTATATTATAATATTTTT
Found at i:34864 original size:19 final size:19
Alignment explanation
Indices: 34811--34866 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 19
34801 TTATATATAA
*
34811 ATATTT-ATATATTTATATT
1 ATATTTAATAT-TTTTTATT
34830 ATATTATAATTATTTTTTATT
1 ATATT-TAA-TATTTTTTATT
34851 ATATTTAATATTTTTT
1 ATATTTAATATTTTTT
34867 TTAATATTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 13 0.39
20 4 0.12
21 13 0.39
22 3 0.09
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
ATATTTAATATTTTTTATT
Found at i:34873 original size:19 final size:18
Alignment explanation
Indices: 34811--34874 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 18
34801 TTATATATAA
* *
34811 ATATTTATATATTTATATT
1 ATATTTA-ATATTTTTTTT
34830 ATATTATAATTATTTTTTATT
1 ATATT-TAA-TATTTTTT-TT
34851 ATATTTAATATTTTTTTT
1 ATATTTAATATTTTTTTT
34869 AATATT
1 -ATATT
34875 ATCAGGTCTC
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
18 2 0.05
19 19 0.49
20 11 0.28
21 7 0.18
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
ATATTTAATATTTTTTTT
Found at i:34969 original size:2 final size:2
Alignment explanation
Indices: 34962--34989 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
34952 AATTAAAAAC
34962 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34990 TCTTTTCTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:39485 original size:17 final size:18
Alignment explanation
Indices: 39446--39485 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
39436 CATTCAGTGA
*
39446 AAAAAGAAAAAAAGAGGG
1 AAAAAGAAAAAAAGAAGG
39464 AAAAAG-AAAAAAGAAAGG
1 AAAAAGAAAAAAAG-AAGG
39482 AAAA
1 AAAA
39486 TAGGGTGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.78, C:0.00, G:0.23, T:0.00
Consensus pattern (18 bp):
AAAAAGAAAAAAAGAAGG
Found at i:40927 original size:48 final size:48
Alignment explanation
Indices: 40864--40957 Score: 188
Period size: 48 Copynumber: 2.0 Consensus size: 48
40854 ATTCTTCATA
40864 TTAATCATTCAAGAAGTTGCACCGCATTTCAAAAGAATATTTCATTGG
1 TTAATCATTCAAGAAGTTGCACCGCATTTCAAAAGAATATTTCATTGG
40912 TTAATCATTCAAGAAGTTGCACCGCATTTCAAAAGAATATTTCATT
1 TTAATCATTCAAGAAGTTGCACCGCATTTCAAAAGAATATTTCATT
40958 CGTTGGATTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (48 bp):
TTAATCATTCAAGAAGTTGCACCGCATTTCAAAAGAATATTTCATTGG
Found at i:45958 original size:20 final size:20
Alignment explanation
Indices: 45933--45985 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
45923 CCAATGACTT
**
45933 GTATCGATACATTTTTTCAA
1 GTATCGATACATTTAGTCAA
*
45953 GTATCGATACATTTAGTCAT
1 GTATCGATACATTTAGTCAA
45973 GTATCGATACATT
1 GTATCGATACATT
45986 GTATCGATAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.42
Consensus pattern (20 bp):
GTATCGATACATTTAGTCAA
Found at i:51825 original size:21 final size:21
Alignment explanation
Indices: 51800--51875 Score: 75
Period size: 21 Copynumber: 3.7 Consensus size: 21
51790 TTTTACAATT
51800 TGTATCGATACAAACAATAAA
1 TGTATCGATACAAACAATAAA
* * * *
51821 TGTATCGATACATA-AGTGAG
1 TGTATCGATACAAACAATAAA
**
51841 TGTATCGATACATGC-ATGAAA
1 TGTATCGATACAAACAAT-AAA
51862 TGTATCGATACAAA
1 TGTATCGATACAAA
51876 ACTACTCTGC
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
20 17 0.40
21 26 0.60
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACAAACAATAAA
Found at i:51921 original size:20 final size:20
Alignment explanation
Indices: 51893--51932 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
51883 TGCATTCTGT
*
51893 AAAGGAAATGTATCGATACA
1 AAAGGAAATGTATCAATACA
*
51913 AAAGTAAATGTATCAATACA
1 AAAGGAAATGTATCAATACA
51933 TTATTCATTG
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:0.53, C:0.10, G:0.15, T:0.23
Consensus pattern (20 bp):
AAAGGAAATGTATCAATACA
Found at i:51996 original size:20 final size:20
Alignment explanation
Indices: 51971--52025 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
51961 TTTTGACCTA
51971 AATGTATCAATACATTCTTC
1 AATGTATCAATACATTCTTC
*
51991 AATGTATCGATACATTCTTC
1 AATGTATCAATACATTCTTC
52011 AATGTATCAATACAT
1 AATGTATCAATACAT
52026 GCAGGCAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.36, C:0.18, G:0.07, T:0.38
Consensus pattern (20 bp):
AATGTATCAATACATTCTTC
Found at i:57934 original size:36 final size:36
Alignment explanation
Indices: 57894--57968 Score: 132
Period size: 36 Copynumber: 2.1 Consensus size: 36
57884 CAAGGAATGA
*
57894 GATAGCCTCAGGGAAGTTCTTTAGAGCCAGACTAAG
1 GATAGCCTCAGGGAAGATCTTTAGAGCCAGACTAAG
*
57930 GATAGCCTCAGGGAAGATCTTTAGAGCCAGACTACG
1 GATAGCCTCAGGGAAGATCTTTAGAGCCAGACTAAG
57966 GAT
1 GAT
57969 TACATAGCAC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.21
Consensus pattern (36 bp):
GATAGCCTCAGGGAAGATCTTTAGAGCCAGACTAAG
Found at i:61156 original size:21 final size:21
Alignment explanation
Indices: 61130--61186 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
61120 AAAAAAATTA
61130 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
61151 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
61172 AATGTATCGATACAT
1 AATGTATCGATACAT
61187 CCTACAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:61266 original size:19 final size:19
Alignment explanation
Indices: 61242--61309 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
61232 AATTCAATAA
61242 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
61261 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
61276 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
61293 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
61310 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:61280 original size:32 final size:32
Alignment explanation
Indices: 61244--61306 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
61234 TTCAATAATT
*
61244 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
61276 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
61307 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:61281 original size:13 final size:13
Alignment explanation
Indices: 61263--61287 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61253 ACATAAGTTT
61263 TGTATCGATACAA
1 TGTATCGATACAA
61276 TGTATCGATACA
1 TGTATCGATACA
61288 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:61367 original size:13 final size:13
Alignment explanation
Indices: 61349--61374 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
61339 CATTTTTCTG
61349 TGTATCGATACAT
1 TGTATCGATACAT
61362 TGTATCGATACAT
1 TGTATCGATACAT
61375 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:61371 original size:33 final size:33
Alignment explanation
Indices: 61329--61395 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
61319 GCCAAGGAAA
***
61329 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
61362 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
61395 T
1 T
61396 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:63913 original size:28 final size:27
Alignment explanation
Indices: 63846--63918 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
63836 CTTCACAATC
* *
63846 GGGGACACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCATA
*
63873 GGGGATACTCCAACCCCGTTATTTC-TGA
1 GGGGATACTCCAACCCCGTTA-ATCAT-A
63901 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
63919 ACTTTATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
27 21 0.51
28 20 0.49
ACGTcount: A:0.23, C:0.34, G:0.22, T:0.21
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCATA
Found at i:63963 original size:51 final size:51
Alignment explanation
Indices: 63901--64071 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
63891 TTATTTCTGA
* * *
63901 GGGGATACTCCAACCCCGACTTTATTTTCAAAATATCGATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
* * * *
63952 GGGGATACTCCAACCCCGATTTTATTTTCACAACACCAATTTCTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTT-TTC-ATAATC
** * * *
64005 GGGGATACTCCAATTCCGATTTTATTTCTAAAAATACCAATTTTTTACAATC
1 GGGGATACTCCAACCCCGATTTTATTT-TCAAAATACCAATTTTTCATAATC
*
64057 GAGGATACTCCAACC
1 GGGGATACTCCAACC
64072 TCGTTATTTC
Statistics
Matches: 98, Mismatches: 19, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 37 0.38
52 18 0.18
53 31 0.32
54 12 0.12
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
Found at i:64090 original size:28 final size:28
Alignment explanation
Indices: 64054--64135 Score: 87
Period size: 28 Copynumber: 2.9 Consensus size: 28
64044 ATTTTTTACA
*
64054 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
* * *
64082 ATCGGGGATACTTCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
*
64110 --CGAGGGAACACTCCAACCTCGTTATT
1 ATCG-GGG-ATACTCCAACCTCGTTATT
64136 ATCTCCAAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
26 2 0.05
27 3 0.07
28 39 0.89
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.28
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTATTTC
Found at i:64125 original size:212 final size:212
Alignment explanation
Indices: 63736--64127 Score: 547
Period size: 212 Copynumber: 1.8 Consensus size: 212
63726 AATTCTCCAC
* * **
63736 AATCGAGGATATTCCAACTCCGATTTTACTTTCAAAACATTAATTTTCTATAATCGGGGATACTC
1 AATCGAGGATACTCCAACCCCGATTTTACTTTCAAAACACCAATTTTCTATAATCGGGGATACTC
*
63801 CAACTCCGATTTTATTTCCAAAAAAACACCAATTTCTTCACAATCGGGGACACTCCAACCCCGTT
66 CAACTCCGATTTTATTTCCAAAAAAACACCAATTTCTTCACAATCGAGGACACTCCAACCCCGTT
* * * *
63866 AATCATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGACTTTATTTTCA
131 AATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGAACACTCCAACCCCGACTTTATTTTCA
63931 AAATATCGATTTTTCAT
196 AAATATCGATTTTTCAT
* * * *
63948 AATCGGGGATACTCCAACCCCGATTTTATTTTCACAACACCAATTTCTCCTTTAATCGGGGATAC
1 AATCGAGGATACTCCAACCCCGATTTTACTTTCAAAACACCAATTT-T-CTATAATCGGGGATAC
* * * * * *
64013 TCCAATTCCGATTTTATTT-C-TAAAAATACCAATTT-TTTACAATCGAGGATACTCCAACCTCG
64 TCCAACTCCGATTTTATTTCCAAAAAAACACCAATTTCTTCACAATCGAGGACACTCCAACCCCG
* *
64075 TTATTTCATCGGGGATACTTCAACCCCGTTACTTCCGAGGGAACACTCCAACC
129 TTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGAACACTCCAACC
64128 TCGTTATTAT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
211 26 0.17
212 95 0.61
213 2 0.01
214 33 0.21
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.31
Consensus pattern (212 bp):
AATCGAGGATACTCCAACCCCGATTTTACTTTCAAAACACCAATTTTCTATAATCGGGGATACTC
CAACTCCGATTTTATTTCCAAAAAAACACCAATTTCTTCACAATCGAGGACACTCCAACCCCGTT
AATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGAACACTCCAACCCCGACTTTATTTTCA
AAATATCGATTTTTCAT
Found at i:70232 original size:15 final size:15
Alignment explanation
Indices: 70213--70251 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
70203 AAAAAACCAA
*
70213 TAAAAACAA-AAAAG
1 TAAAAAAAACAAAAG
70227 TAAAAAAAACAAAAG
1 TAAAAAAAACAAAAG
70242 TAAAAGAAAA
1 TAAAA-AAAA
70252 ACCAAAAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.36
15 10 0.45
16 4 0.18
ACGTcount: A:0.79, C:0.05, G:0.08, T:0.08
Consensus pattern (15 bp):
TAAAAAAAACAAAAG
Found at i:71271 original size:14 final size:14
Alignment explanation
Indices: 71254--71295 Score: 75
Period size: 14 Copynumber: 3.0 Consensus size: 14
71244 ATTAGACTTC
71254 ACATCATGCATTCA
1 ACATCATGCATTCA
*
71268 ACATCATGCATTCC
1 ACATCATGCATTCA
71282 ACATCATGCATTCA
1 ACATCATGCATTCA
71296 CATTACCATC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.33, C:0.31, G:0.07, T:0.29
Consensus pattern (14 bp):
ACATCATGCATTCA
Found at i:72017 original size:28 final size:28
Alignment explanation
Indices: 71944--72028 Score: 84
Period size: 28 Copynumber: 3.0 Consensus size: 28
71934 TCTTTTATCG
* *
71944 TTTTAAAG-TCCATAAGTCAGTGGCAACC
1 TTTTAAAGCT-CACAAGTTAGTGGCAACC
* * *
71972 TTTTCAAAGCCCTCAAGTTAGTGGCACCC
1 TTTT-AAAGCTCACAAGTTAGTGGCAACC
72001 TTTTAAAGCTCACAAGTT-GATGGCAACC
1 TTTTAAAGCTCACAAGTTAG-TGGCAACC
72029 CTCTCAAAAG
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
27 1 0.02
28 23 0.50
29 22 0.48
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (28 bp):
TTTTAAAGCTCACAAGTTAGTGGCAACC
Found at i:72029 original size:29 final size:30
Alignment explanation
Indices: 71944--72030 Score: 85
Period size: 29 Copynumber: 3.0 Consensus size: 30
71934 TCTTTTATCG
* * *
71944 TTTT-AAAGTCCATAAGTCAGTGGCAA-CC
1 TTTTCAAAGCCCACAAGTTAGTGGCAACCC
*
71972 TTTTCAAAGCCCTCAAGTTAGTGGC-ACCC
1 TTTTCAAAGCCCACAAGTTAGTGGCAACCC
*
72001 TTTT-AAAGCTCACAAGTT-GATGGCAACCC
1 TTTTCAAAGCCCACAAGTTAG-TGGCAACCC
72030 T
1 T
72031 CTCAAAAGTC
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
27 1 0.02
28 21 0.43
29 27 0.55
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (30 bp):
TTTTCAAAGCCCACAAGTTAGTGGCAACCC
Found at i:76035 original size:14 final size:14
Alignment explanation
Indices: 76016--76045 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
76006 TGTGAATGAA
76016 ATTTGATTTATAAC
1 ATTTGATTTATAAC
*
76030 ATTTGATTTATTAC
1 ATTTGATTTATAAC
76044 AT
1 AT
76046 GCACATTTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (14 bp):
ATTTGATTTATAAC
Found at i:82235 original size:53 final size:53
Alignment explanation
Indices: 82178--82278 Score: 166
Period size: 53 Copynumber: 1.9 Consensus size: 53
82168 ATTAAAAAAA
*
82178 TAAAGATAATTACATCAACAAATTTAAGCCTAAGTTTCCTCAAGTGCTCATAT
1 TAAAGATAATTACATCAACAAATTTAAGCCTAAATTTCCTCAAGTGCTCATAT
* * *
82231 TAAAGATAATTGCATCAATAAATTTAAGCTTAAATTTCCTCAAGTGCT
1 TAAAGATAATTACATCAACAAATTTAAGCCTAAATTTCCTCAAGTGCT
82279 TATGTTTGAC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 44 1.00
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.34
Consensus pattern (53 bp):
TAAAGATAATTACATCAACAAATTTAAGCCTAAATTTCCTCAAGTGCTCATAT
Found at i:82994 original size:9 final size:9
Alignment explanation
Indices: 82979--83020 Score: 68
Period size: 9 Copynumber: 4.7 Consensus size: 9
82969 GTAATTTTTT
82979 ATAAA-TTA
1 ATAAATTTA
82987 ATTAAATTTA
1 A-TAAATTTA
82997 ATAAATTTA
1 ATAAATTTA
83006 ATAAATTTA
1 ATAAATTTA
83015 ATAAAT
1 ATAAAT
83021 AATAATATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
8 1 0.03
9 27 0.84
10 4 0.12
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (9 bp):
ATAAATTTA
Found at i:83034 original size:18 final size:17
Alignment explanation
Indices: 82979--83025 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 17
82969 GTAATTTTTT
82979 ATAAATTAATTAAATTTA
1 ATAAATTAA-TAAATTTA
82997 ATAAATTTAATAAATTTA
1 ATAAA-TTAATAAATTTA
83015 ATAAA-TAATAA
1 ATAAATTAATAA
83026 TATATTAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.21
18 18 0.64
19 4 0.14
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATAAATTAATAAATTTA
Found at i:83177 original size:22 final size:22
Alignment explanation
Indices: 83151--83212 Score: 56
Period size: 23 Copynumber: 2.7 Consensus size: 22
83141 TTTATTATTT
83151 TTTAATAAAATTAAAAATAA-TA
1 TTTAATAAAATTAAAAA-AATTA
**
83173 TTTAATTAACTTTAAAAAAATTTA
1 TTTAA-TAAAATTAAAAAAA-TTA
83197 TATTAAT-AAATTAAAA
1 T-TTAATAAAATTAAAA
83213 TATTAATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
22 7 0.22
23 17 0.53
24 4 0.12
25 4 0.12
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
TTTAATAAAATTAAAAAAATTA
Found at i:83178 original size:113 final size:113
Alignment explanation
Indices: 83050--83442 Score: 426
Period size: 113 Copynumber: 3.4 Consensus size: 113
83040 GTTTTTAATA
* *
83050 AAAAATTATATTTAATTAACTTTAAAAAAATTACATTAATAAATTAAACTATTATTTATTTTTTA
1 AAAAATAATATTTAATTAACTTTAAAAAAATTACATTAATAAATTAAAATATTATTTATTTTTT-
*
83115 AAAATAAAAAATTAAATTAAAAAGTGT-TTATTATTTTTTAATAAAATT
65 AAAATAAAAAATTAAATTAAAAAGTTTATTATTATTTTTTAATAAAATT
*
83163 AAAAATAATATTTAATTAACTTTAAAAAAATTTATATTAATAAATTAAAATATTAATTT-TTTTT
1 AAAAATAATATTTAATTAACTTTAAAAAAA-TTACATTAATAAATTAAAATATT-ATTTATTTTT
83227 TAAAATAAAAAATTAAATTAAAAAGGATTTATTATTATTATTATTATTTAATAAAATT
64 TAAAATAAAAAATTAAATTAAAAA-G---T-TTATTATTA-T-TT-TTTAATAAAATT
* * *
83285 -AAAA-AA-ATTTAATTAAGTTTAAAAAAATTACATTAACAAATTAAAATATTAATTATTATATT
1 AAAAATAATATTTAATTAACTTTAAAAAAATTACATTAATAAATTAAAATATTATTTATT-T-TT
* * * * *** *
83347 TTATATAAATAA--AAAGT--ATTTTTTATTATTATTTTTTAATAAAATA
64 TAAAATAAAAAATTAAATTAAAAAGTTTATTATTATTTTTTAATAAAATT
* * * *
83393 AAAAATGATATTTAATTAAATTTTAAAAAATTTACATTAAAAAATTAAAA
1 AAAAATAATATTTAATT-AACTTTAAAAAAATTACATTAATAAATTAAAA
83443 AAATAACATT
Statistics
Matches: 242, Mismatches: 20, Indels: 37
0.81 0.07 0.12
Matches are distributed among these distances:
108 11 0.05
109 6 0.02
110 2 0.01
111 17 0.07
112 30 0.12
113 52 0.21
114 28 0.12
115 4 0.02
116 1 0.00
117 4 0.02
118 28 0.12
119 27 0.11
120 14 0.06
121 6 0.02
122 12 0.05
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (113 bp):
AAAAATAATATTTAATTAACTTTAAAAAAATTACATTAATAAATTAAAATATTATTTATTTTTTA
AAATAAAAAATTAAATTAAAAAGTTTATTATTATTTTTTAATAAAATT
Found at i:83294 original size:19 final size:20
Alignment explanation
Indices: 83272--83313 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
83262 TATTATTATT
83272 ATTTAA-TAAAATTAAAAAA
1 ATTTAATTAAAATTAAAAAA
**
83291 ATTTAATTAAGTTTAAAAAA
1 ATTTAATTAAAATTAAAAAA
83311 ATT
1 ATT
83314 ACATTAACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (20 bp):
ATTTAATTAAAATTAAAAAA
Found at i:83443 original size:22 final size:23
Alignment explanation
Indices: 83415--83469 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
83405 TAATTAAATT
* *
83415 TTAAAAAATTTACA-TTAAAAAA
1 TTAAAAAAATAACATTTAAAAAA
**
83437 TTAAAAAAATAACATTTAAGGAA
1 TTAAAAAAATAACATTTAAAAAA
83460 TTAAAAAAAT
1 TTAAAAAAAT
83470 TATAATTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 12 0.43
23 16 0.57
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.29
Consensus pattern (23 bp):
TTAAAAAAATAACATTTAAAAAA
Found at i:83800 original size:15 final size:15
Alignment explanation
Indices: 83780--83809 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
83770 ATAAAAAACT
83780 TTTTTTAATTTAAAA
1 TTTTTTAATTTAAAA
*
83795 TTTTTTATTTTAAAA
1 TTTTTTAATTTAAAA
83810 AACATAATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTTTTAATTTAAAA
Found at i:83929 original size:16 final size:15
Alignment explanation
Indices: 83898--83927 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
83888 TTATAATAAA
83898 AAAACTTTTTATTTT
1 AAAACTTTTTATTTT
*
83913 AAAATTTTTTATTTT
1 AAAACTTTTTATTTT
83928 TATAAAAACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (15 bp):
AAAACTTTTTATTTT
Found at i:83988 original size:123 final size:124
Alignment explanation
Indices: 83764--84112 Score: 451
Period size: 124 Copynumber: 2.9 Consensus size: 124
83754 AAAAAATATT
*
83764 ATTATAAT-AAAAAACTTTTTTTAATTTAAAATTTTTTATTTTA-AAAAACATAATAATTAATAT
1 ATTATAATAAAAAAAC--TTTTTATTTTAAAATTTTTTATTTTATAAAAACATAATAATTAATAT
83827 TTTAATTTGTTAATGTAAATTTTTTAAACTTAATTAAATATTATTTTTATTTTATT-AAAA
64 TTTAATTTGTTAATGTAAATTTTTTAAACTTAATTAAATATTATTTTTATTTTATTAAAAA
83887 ATTATAATAAAAAAACTTTTTATTTTAAAATTTTTTATTTTTATAAAAACATAATAATTAATATT
1 ATTATAATAAAAAAACTTTTTATTTTAAAATTTTTTA-TTTTATAAAAACATAATAATTAATATT
* * *
83952 TTAATTTGTTAATGT-AATTTTCTAAACTTAATTAAATATTATTAATAATTTTATTAAAAA
65 TTAATTTGTTAATGTAAATTTTTTAAACTTAATTAAATATTATT-TTTATTTTATTAAAAA
* * *
84012 ATAATAATAATAAACCTTTTT-TATTT-AAA-TTTTTA-TTT-TAAAAA-AT--TAA-T-A-A-T
1 ATTATAATAAAAAAACTTTTTAT-TTTAAAATTTTTTATTTTATAAAAACATAATAATTAATATT
* *
84065 TTAATTTGTTAATATAAATTTTTTTAAAGTTAATTAAATATTATTTTT
65 TTAATTTGTTAATGTAAA-TTTTTTAAACTTAATTAAATATTATTTTT
84113 TATTAAAAAT
Statistics
Matches: 206, Mismatches: 12, Indels: 25
0.85 0.05 0.10
Matches are distributed among these distances:
113 15 0.07
114 4 0.02
115 25 0.12
116 1 0.00
117 3 0.01
119 2 0.01
120 6 0.03
121 3 0.01
122 20 0.10
123 46 0.22
124 56 0.27
125 25 0.12
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.52
Consensus pattern (124 bp):
ATTATAATAAAAAAACTTTTTATTTTAAAATTTTTTATTTTATAAAAACATAATAATTAATATTT
TAATTTGTTAATGTAAATTTTTTAAACTTAATTAAATATTATTTTTATTTTATTAAAAA
Found at i:84911 original size:87 final size:90
Alignment explanation
Indices: 84607--85160 Score: 496
Period size: 93 Copynumber: 6.0 Consensus size: 90
84597 TATTGTATAA
* * * * * * * *
84607 ATTGTAAATGTCAGATTGTAAGAAATAGACTAATGCATGGACTATATCTGAGAATCGAATTTTTT
1 ATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAAATTCTTT
*
84672 TTTGT-GAAAAAAAAAAGTTGATTG
66 TTTATAGAAAAAAAAAAGTTGATTG
* * *
84696 ATTGTAAATGTCAGATTGCAAGGATTAGACTAATGCATGAATTATATATGAGAAT-TAATTCTTT
1 ATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAAATTCTTT
*
84760 CTTATAGAAAAAAAAAGAAAAGTTGATTG
66 TTTATAG---AAAAAA-AAAAGTTGATTG
* * *
84789 ATTGTAAATGTCAGACTACAAGGATTAGACAAATGCATGAATTATATTTGAGAATCAAATT-TTT
1 ATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAAATTCTTT
*
84853 TTTAT-G-AAAAAAAAAGTTGACTG
66 TTTATAGAAAAAAAAAAGTTGATTG
* *
84876 ATTGTAAATGTCAAACTGCAAGGATTGGACTAATGCATGAATTATATCTGAGAATCAAATTCTTT
1 ATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAAATTCTTT
84941 TTTATAGAAAAAAAAAAGAAAGATTGATTGATTTG
66 TTTATAG----AAAAAA-AAA-A--G-TTGA-TTG
* * * * *
84976 ATTGTAAATGTCAGACTGTAAGGATTAGACTAATGTATGAATTATA-CATGATAATTGAATTTCT
1 ATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATC-TGAGAA-TCAAATTCT
* * * *
85040 TTTGGTCTA-AGAAAGAAAAGTTTG-TTG
64 TTT-TTATAGAAAAAAAAAAG-TTGATTG
* * * * * * * * * *
85067 ATTATAAGTATGACACTGCAAAGATTA-ACTAATGCATAAATTATATTTGAGAATCATATTCCTT
1 ATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAAATTCTTT
* **
85131 TTGATAGAAAAGCCGAAAAGTTGATTG
66 TTTATAGAAAA--AAAAAAGTTGATTG
85158 ATT
1 ATT
85161 ATAGATATCA
Statistics
Matches: 383, Mismatches: 55, Indels: 52
0.78 0.11 0.11
Matches are distributed among these distances:
87 67 0.17
88 25 0.07
89 62 0.16
90 24 0.06
91 35 0.09
92 7 0.02
93 74 0.19
94 9 0.02
95 4 0.01
96 4 0.01
97 4 0.01
98 1 0.00
99 5 0.01
100 49 0.13
101 10 0.03
102 3 0.01
ACGTcount: A:0.41, C:0.08, G:0.17, T:0.34
Consensus pattern (90 bp):
ATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAAATTCTTT
TTTATAGAAAAAAAAAAGTTGATTG
Found at i:84911 original size:180 final size:188
Alignment explanation
Indices: 84607--85141 Score: 594
Period size: 180 Copynumber: 2.9 Consensus size: 188
84597 TATTGTATAA
* * * * * *
84607 ATTGTAAATGTCAGATTGTAAGAAATAGACTAATGCATGGACTATATCTGAGAATCGAATTTTTT
1 ATTGTAAATGTCAGACTGTAAGGATTAGACTAATGCATGAATTATATCTGAGAATCGAAATTTTT
* * * *
84672 TTTGTGAAAAAAAAAAGTTGATTGATTGTAAATGTCAGATTGCAAGGATTAGACTAATGCATGAA
66 TTTATGAAAAAAAAAAGTTGACTGATTGTAAATGTCAAACTGCAAGGATTAGACTAATGCATGAA
*
84737 TTATATATGAGAAT-TAATTCTTTCTTATAG-AAAAAAAAAGAAA-A-G-TTGA-TTG
131 TTATATATGAGAATCAAATTCTTTCTTATAGAAAAAAAAAAGAAAGATGATTGATTTG
** * *
84789 ATTGTAAATGTCAGACTACAAGGATTAGACAAATGCATGAATTATATTTGAGAATC-AAATTTTT
1 ATTGTAAATGTCAGACTGTAAGGATTAGACTAATGCATGAATTATATCTGAGAATCGAAATTTTT
*
84853 TTTATG-AAAAAAAAAGTTGACTGATTGTAAATGTCAAACTGCAAGGATTGGACTAATGCATGAA
66 TTTATGAAAAAAAAAAGTTGACTGATTGTAAATGTCAAACTGCAAGGATTAGACTAATGCATGAA
* *
84917 TTATATCTGAGAATCAAATTCTTTTTTATAGAAAAAAAAAAGAAAGATTGATTGATTTG
131 TTATATATGAGAATCAAATTCTTTCTTATAGAAAAAAAAAAGAAAGA-TGATTGATTTG
* * *
84976 ATTGTAAATGTCAGACTGTAAGGATTAGACTAATGTATGAATTATA-CATGATAATTG-AATTTC
1 ATTGTAAATGTCAGACTGTAAGGATTAGACTAATGCATGAATTATATC-TGAGAATCGAAATTT-
* * * * * * * * *
85039 TTTTGGTCT-AAGAAAGAAAAGTTTG-TTGATTATAAGTATGACACTGCAAAGATTA-ACTAATG
64 TTTT--TATGAA-AAAAAAAAG-TTGACTGATTGTAAATGTCAAACTGCAAGGATTAGACTAATG
* * * *
85101 CATAAATTATATTTGAGAATCATATTCCTTT-TGATAGAAAA
125 CATGAATTATATATGAGAATCAAATT-CTTTCTTATAGAAAA
85142 GCCGAAAAGT
Statistics
Matches: 298, Mismatches: 39, Indels: 24
0.83 0.11 0.07
Matches are distributed among these distances:
180 67 0.22
181 26 0.09
182 60 0.20
183 1 0.00
185 1 0.00
186 4 0.01
187 56 0.19
188 4 0.01
190 42 0.14
191 34 0.11
192 3 0.01
ACGTcount: A:0.41, C:0.08, G:0.17, T:0.34
Consensus pattern (188 bp):
ATTGTAAATGTCAGACTGTAAGGATTAGACTAATGCATGAATTATATCTGAGAATCGAAATTTTT
TTTATGAAAAAAAAAAGTTGACTGATTGTAAATGTCAAACTGCAAGGATTAGACTAATGCATGAA
TTATATATGAGAATCAAATTCTTTCTTATAGAAAAAAAAAAGAAAGATGATTGATTTG
Found at i:88261 original size:297 final size:297
Alignment explanation
Indices: 87727--88381 Score: 1018
Period size: 297 Copynumber: 2.2 Consensus size: 297
87717 AAGTTGAGGA
* *
87727 AAATTTTTTCTTGGTCATTTTACAGATAAAGGAAAGCTCATATTTAAGTCGCTACCGAAAAATAA
1 AAATTTTTTCTTGGTCATTTTACAGATAAAGGAAAACTCATATTTAAGTCGTTACCGAAAAATAA
* ** *
87792 AATGTGTGCGTATATAAATTTGAAATAAGTCATTATCGAAAAAAGTAATCTATTGTTGGCTAATA
66 AATGTGTGCGTATATAAATCTGAAATAAGTCATTATCGAAAAAAGTAAAATATTGTTGGCTAACA
* *
87857 TAAATTTAAGTTCTATCAATTATAAAAATAATACATGTACAATATTAATTAATTTTAAAAAAATA
131 TAAAGTTAAGTTCTATCAATTATAAAAATAATACATATACAATATTAATTAATTTTAAAAAAATA
* *
87922 AATTTGTATAATTTATAAATAAATTAAAAATAATTTATAAATAAAAAGTAATAAT-TCT-TACAC
196 AATTTGTATAATTTATAAATAAATTAAAAATAATTTATAAATAAAAAATAATAATATATGT--AC
* *
87985 AATATTAATTAATTTTAATAAAAATAATACATGTACAAT
259 AATATTAATTAATTTTAACAAAAATAATACATATACAAT
* ** *
88024 AAATTTTTTCTTTGTCATTTTACAGATAAAGGAAAACTTGTATTTAAGTCGTTACGGAAAAATAA
1 AAATTTTTTCTTGGTCATTTTACAGATAAAGGAAAACTCATATTTAAGTCGTTACCGAAAAATAA
* * * *
88089 AATGTGTGTGTCTGTAAATCTGAAATAAGTCATTAT-GAAAAAAGTAAAATCTTGTTGGCTAACA
66 AATGTGTGCGTATATAAATCTGAAATAAGTCATTATCGAAAAAAGTAAAATATTGTTGGCTAACA
* *
88153 TAAAGTTAAGTTCTATCGATTATAAAAATAATACATATACAATATTATTTAATTTTAATAAAAAT
131 TAAAGTTAAGTTCTATCAATTATAAAAATAATACATATACAATATTAATTAATTTTAA-AAAAAT
88218 AAATTTGTATAATTTATAAATAAATTAAAAATAATTTATAAATAAAAAATAATAATATATGTACA
195 AAATTTGTATAATTTATAAATAAATTAAAAATAATTTATAAATAAAAAATAATAATATATGTACA
88283 ATATTAATTAATTTTAACAAAAATAATACATATACAAT
260 ATATTAATTAATTTTAACAAAAATAATACATATACAAT
* *
88321 -AATTTTTTCTTGGTCATTTTAC---TAAAAGAAAACTCATATTTAAGTCATTACCGAAAAATAA
1 AAATTTTTTCTTGGTCATTTTACAGATAAAGGAAAACTCATATTTAAGTCGTTACCGAAAAATAA
88382 TACATGTAAA
Statistics
Matches: 327, Mismatches: 28, Indels: 10
0.90 0.08 0.03
Matches are distributed among these distances:
293 34 0.10
296 99 0.30
297 191 0.58
298 2 0.01
299 1 0.00
ACGTcount: A:0.47, C:0.08, G:0.09, T:0.37
Consensus pattern (297 bp):
AAATTTTTTCTTGGTCATTTTACAGATAAAGGAAAACTCATATTTAAGTCGTTACCGAAAAATAA
AATGTGTGCGTATATAAATCTGAAATAAGTCATTATCGAAAAAAGTAAAATATTGTTGGCTAACA
TAAAGTTAAGTTCTATCAATTATAAAAATAATACATATACAATATTAATTAATTTTAAAAAAATA
AATTTGTATAATTTATAAATAAATTAAAAATAATTTATAAATAAAAAATAATAATATATGTACAA
TATTAATTAATTTTAACAAAAATAATACATATACAAT
Found at i:88704 original size:20 final size:20
Alignment explanation
Indices: 88681--88736 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 20
88671 TTTAAAAAAA
88681 TAATTAATATTTTAATTT-A-T
1 TAATTAATATTTT--TTTAAGT
88701 TAATGTAA-ATTTTTTTAAGT
1 TAAT-TAATATTTTTTTAAGT
88721 TAATTAAATATTTTTT
1 TAATT-AATATTTTTT
88737 ATTATAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
18 3 0.10
19 2 0.06
20 16 0.52
21 10 0.32
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.59
Consensus pattern (20 bp):
TAATTAATATTTTTTTAAGT
Found at i:88737 original size:20 final size:20
Alignment explanation
Indices: 88700--88737 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
88690 TTTTAATTTA
88700 TTAATGTAAATTTTTTTAAG
1 TTAATGTAAATTTTTTTAAG
88720 TTAAT-TAAATATTTTTTA
1 TTAATGTAAAT-TTTTTTA
88738 TTATAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (20 bp):
TTAATGTAAATTTTTTTAAG
Found at i:88789 original size:65 final size:69
Alignment explanation
Indices: 88654--88797 Score: 188
Period size: 68 Copynumber: 2.1 Consensus size: 69
88644 ATAAACCCTT
* * * *
88654 TTAATTTATTTTTTTATTTTAAAAAAATAATTAATATTTTAATTTATTAATGTAAATTTTTTTAA
1 TTAATATA-TTTTTTATTATAAAAAAATAATTAATATATTAATTTATTAATGTAAATTTTTTAAA
88719 GTTAA
65 GTTAA
* * *
88724 TTAA-ATATTTTTTATTATAAAATAATAATTAATATATT-A-TTATTTAT-TAAATTTTTTAAAT
1 TTAATATATTTTTTATTATAAAAAAATAATTAATATATTAATTTATTAATGTAAATTTTTTAAAG
88785 TTAA
66 TTAA
88789 TTAATATAT
1 TTAATATAT
88798 AAAAAATTAC
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
65 20 0.30
66 11 0.17
67 1 0.02
68 28 0.42
69 2 0.03
70 4 0.06
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.56
Consensus pattern (69 bp):
TTAATATATTTTTTATTATAAAAAAATAATTAATATATTAATTTATTAATGTAAATTTTTTAAAG
TTAA
Found at i:93147 original size:11 final size:12
Alignment explanation
Indices: 93133--93188 Score: 53
Period size: 11 Copynumber: 4.6 Consensus size: 12
93123 ACATTTAAAA
93133 ATAAA-ATTAAT
1 ATAAATATTAAT
*
93144 ATAAATATGATAT
1 ATAAATATTA-AT
93157 ATAATATTATTAAT
1 ATAA-A-TATTAAT
*
93171 ATAAA-AATAAT
1 ATAAATATTAAT
93182 ATAAATA
1 ATAAATA
93189 CGGTATAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
11 15 0.41
12 4 0.11
13 7 0.19
14 7 0.19
15 4 0.11
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (12 bp):
ATAAATATTAAT
Found at i:93162 original size:27 final size:26
Alignment explanation
Indices: 93131--93188 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
93121 ACACATTTAA
* *
93131 AAATAAAATTAATATAAATATGATAT
1 AAATAAAATTAATATAAAAATAATAT
**
93157 ATAATATTATTAATATAAAAATAATAT
1 A-AATAAAATTAATATAAAAATAATAT
93184 AAATA
1 AAATA
93189 CGGTATAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 5 0.19
27 22 0.81
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (26 bp):
AAATAAAATTAATATAAAAATAATAT
Found at i:94782 original size:16 final size:16
Alignment explanation
Indices: 94757--94795 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
94747 AAAATAATAT
94757 TAAATAATAT-AAATACA
1 TAAAT-ATATCAAA-ACA
94774 TAAATATATCAAAACA
1 TAAATATATCAAAACA
94790 TAAATA
1 TAAATA
94796 CGATATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (16 bp):
TAAATATATCAAAACA
Found at i:94882 original size:22 final size:23
Alignment explanation
Indices: 94857--94932 Score: 68
Period size: 22 Copynumber: 3.3 Consensus size: 23
94847 ACAAAAGAAT
**
94857 ATAAATACGATAT-ATATAAAAA
1 ATAAATAAAATATAATATAAAAA
*
94879 ATAATTAAAATATAATAT-AAAA
1 ATAAATAAAATATAATATAAAAA
*
94901 ATATCAT-AAATATAATATAAAATA
1 ATA-AATAAAATATAATATAAAA-A
94925 TATAAATA
1 -ATAAATA
94933 TGTCAAAATA
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
22 28 0.67
23 8 0.19
24 3 0.07
25 3 0.07
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (23 bp):
ATAAATAAAATATAATATAAAAA
Found at i:94887 original size:11 final size:12
Alignment explanation
Indices: 94870--94922 Score: 51
Period size: 11 Copynumber: 4.7 Consensus size: 12
94860 AATACGATAT
94870 ATATAAAAAATA
1 ATATAAAAAATA
*
94882 AT-TAAAATATA
1 ATATAAAAAATA
94893 ATAT-AAAAAT-
1 ATATAAAAAATA
*
94903 ATCAT-AAATATA
1 AT-ATAAAAAATA
94915 ATATAAAA
1 ATATAAAA
94923 TATATAAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
10 2 0.06
11 24 0.71
12 8 0.24
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (12 bp):
ATATAAAAAATA
Found at i:95306 original size:33 final size:32
Alignment explanation
Indices: 95242--95306 Score: 78
Period size: 32 Copynumber: 2.0 Consensus size: 32
95232 TTTTTTTTAA
* **
95242 AAAAAATAATAAATTTTTAATTAAATTTAATT
1 AAAAAATAATAAATTATTAATTAAAAATAATT
95274 AAAAAATATATAAA-TATTAATATAAAAATAATT
1 AAAAAATA-ATAAATTATTAAT-TAAAAATAATT
95307 TTTTAATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
32 14 0.50
33 14 0.50
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (32 bp):
AAAAAATAATAAATTATTAATTAAAAATAATT
Found at i:95375 original size:13 final size:13
Alignment explanation
Indices: 95357--95381 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
95347 GAATGAAATT
95357 AAATTTAAATTTA
1 AAATTTAAATTTA
95370 AAATTTAAATTT
1 AAATTTAAATTT
95382 TTTTAAATGA
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):
AAATTTAAATTTA
Found at i:96621 original size:22 final size:21
Alignment explanation
Indices: 96591--96631 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 21
96581 TTAAAATTAT
96591 AAATGATAATTATAAATATATCA
1 AAATGATAA-TA-AAATATATCA
96614 AAAT-ATAATAAAATATAT
1 AAATGATAATAAAATATAT
96632 AATAAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.44
21 2 0.11
22 4 0.22
23 4 0.22
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (21 bp):
AAATGATAATAAAATATATCA
Found at i:96703 original size:21 final size:23
Alignment explanation
Indices: 96678--96735 Score: 59
Period size: 21 Copynumber: 2.6 Consensus size: 23
96668 TTTAATTTTA
96678 AATTTTATAAATAAAATTT-TTT
1 AATTTTATAAATAAAATTTATTT
* **
96700 -ATTTTTTATTTAAAATTTAATTT
1 AATTTTATAAATAAAATTT-ATTT
96723 AATTTTA-AAATAA
1 AATTTTATAAATAA
96736 TCAAAATCTA
Statistics
Matches: 27, Mismatches: 6, Indels: 5
0.71 0.16 0.13
Matches are distributed among these distances:
21 15 0.56
23 7 0.26
24 5 0.19
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
AATTTTATAAATAAAATTTATTT
Found at i:101664 original size:46 final size:46
Alignment explanation
Indices: 101608--101706 Score: 198
Period size: 46 Copynumber: 2.2 Consensus size: 46
101598 CCTAAACTTG
101608 AAAAAAACTTCAAGCAAGAACTCTTGACCATACAAGATTACAAATA
1 AAAAAAACTTCAAGCAAGAACTCTTGACCATACAAGATTACAAATA
101654 AAAAAAACTTCAAGCAAGAACTCTTGACCATACAAGATTACAAATA
1 AAAAAAACTTCAAGCAAGAACTCTTGACCATACAAGATTACAAATA
101700 AAAAAAA
1 AAAAAAA
101707 TCAACCGATC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 53 1.00
ACGTcount: A:0.56, C:0.18, G:0.08, T:0.18
Consensus pattern (46 bp):
AAAAAAACTTCAAGCAAGAACTCTTGACCATACAAGATTACAAATA
Found at i:101812 original size:51 final size:51
Alignment explanation
Indices: 101752--101848 Score: 131
Period size: 51 Copynumber: 1.9 Consensus size: 51
101742 ACAATGTCCA
* *
101752 CACTAGTTGGTACCTATATAAGGAGGTTAAATCCTATAAAATTTAAGTCTG
1 CACTAGTTGGTACCTATATAAGGAGATTAAATCCTATAAAACTTAAGTCTG
* * * * *
101803 CACTAGTTGGTACTTGTATAGGGAGATTAAGTCTTATAAAACTTAA
1 CACTAGTTGGTACCTATATAAGGAGATTAAATCCTATAAAACTTAA
101849 AGTTCACACT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 39 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.34
Consensus pattern (51 bp):
CACTAGTTGGTACCTATATAAGGAGATTAAATCCTATAAAACTTAAGTCTG
Found at i:101924 original size:51 final size:52
Alignment explanation
Indices: 101810--101926 Score: 139
Period size: 52 Copynumber: 2.3 Consensus size: 52
101800 CTGCACTAGT
* * *
101810 TGGTACTTGTATAGGGAGATTAAGTCTTATAAAACTTAAAGTTCACACTAGC
1 TGGTACTTGTATAGGGAGATCAAGCCTTATAAAACTTAAAGTTCACACTAAC
*** * *
101862 TAACACCTGTATAGGGAGATCAAGCCTTATAGAA--TATAAGTTCACACTAAC
1 TGGTACTTGTATAGGGAGATCAAGCCTTATAAAACTTA-AAGTTCACACTAAC
101913 TGGTACTTGTATAG
1 TGGTACTTGTATAG
101927 AAAGGATAAA
Statistics
Matches: 52, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
50 2 0.04
51 23 0.44
52 27 0.52
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (52 bp):
TGGTACTTGTATAGGGAGATCAAGCCTTATAAAACTTAAAGTTCACACTAAC
Found at i:102005 original size:60 final size:60
Alignment explanation
Indices: 101912--102031 Score: 204
Period size: 60 Copynumber: 2.0 Consensus size: 60
101902 TTCACACTAA
* * *
101912 CTGGTACTTGTATAGAAAGGATAAACCTTATAGAATCTATAAAATTCAAGTCCATATTAG
1 CTGGTACCTGTATAGAAAGAATAAACCTTATAGAACCTATAAAATTCAAGTCCATATTAG
*
101972 CTGGTACCTGTATAGAAAGAATAAGCCTTATAGAACCTATAAAATTCAAGTCCATATTAG
1 CTGGTACCTGTATAGAAAGAATAAACCTTATAGAACCTATAAAATTCAAGTCCATATTAG
102032 TTGACACTTG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (60 bp):
CTGGTACCTGTATAGAAAGAATAAACCTTATAGAACCTATAAAATTCAAGTCCATATTAG
Found at i:102061 original size:60 final size:60
Alignment explanation
Indices: 101920--102070 Score: 187
Period size: 60 Copynumber: 2.5 Consensus size: 60
101910 AACTGGTACT
* * **
101920 TGTATAGAAAGGATAAACCTTATAGAATCTATAAAATTCAAGTCCATATTAGCTGGTACC
1 TGTATAGAAAGAATAAACCTTATAGAACCTATAAAATTCAAGTCCATATTAGCTGACACC
* * *
101980 TGTATAGAAAGAATAAGCCTTATAGAACCTATAAAATTCAAGTCCATATTAGTTGACACT
1 TGTATAGAAAGAATAAACCTTATAGAACCTATAAAATTCAAGTCCATATTAGCTGACACC
* ** *
102040 TGTGTAGGGAG-ATCAAACCTTATAAAACCTA
1 TGTATAGAAAGAAT-AAACCTTATAGAACCTA
102071 AAGTTCACAC
Statistics
Matches: 78, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
59 2 0.03
60 76 0.97
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.29
Consensus pattern (60 bp):
TGTATAGAAAGAATAAACCTTATAGAACCTATAAAATTCAAGTCCATATTAGCTGACACC
Found at i:102542 original size:19 final size:19
Alignment explanation
Indices: 102507--102558 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
102497 TCAATTACAT
*
102507 AAAAT-TTTAAAT-TATAA
1 AAAATATTTAAATAAATAA
102524 AAAATATTTAAATAAATAA
1 AAAATATTTAAATAAATAA
* *
102543 TAATTATTTAATATAA
1 AAAATATTTAA-ATAA
102559 TTTAATTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
17 5 0.17
18 7 0.24
19 13 0.45
20 4 0.14
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
AAAATATTTAAATAAATAA
Found at i:102588 original size:22 final size:21
Alignment explanation
Indices: 102548--102598 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
102538 AATAATAATT
102548 ATTTAATATAATTTAATTTAA
1 ATTTAATATAATTTAATTTAA
102569 ATTT-ATATAATTATTAATTT-A
1 ATTTAATATAA-T-TTAATTTAA
*
102590 ATTAAATAT
1 ATTTAATAT
102599 TTATAAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 6 0.23
21 9 0.35
22 11 0.42
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
ATTTAATATAATTTAATTTAA
Found at i:102603 original size:26 final size:27
Alignment explanation
Indices: 102552--102611 Score: 81
Period size: 26 Copynumber: 2.3 Consensus size: 27
102542 ATAATTATTT
102552 AATA-TAATTTAATTTAAATTTATATA
1 AATATTAATTTAATTTAAATTTATATA
*
102578 ATTATTAATTTAA-TTAAATATT-TATA
1 AATATTAATTTAATTTAAAT-TTATATA
102604 AATATTAA
1 AATATTAA
102612 AAGTTTTTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 20 0.67
27 10 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (27 bp):
AATATTAATTTAATTTAAATTTATATA
Found at i:103118 original size:2 final size:2
Alignment explanation
Indices: 103111--103147 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
103101 CCCACCCTTA
103111 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
103148 TATCTATTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:104707 original size:31 final size:32
Alignment explanation
Indices: 104669--104741 Score: 103
Period size: 33 Copynumber: 2.3 Consensus size: 32
104659 AAGACAAATA
* *
104669 TACCATCAAAA-ATTGCTCAAATAATTTAGTT
1 TACCATCAAAAGATTGCTCAAATAATTCAATT
*
104700 TACCATCAAAATGATTGCTGAAATAATTCAATT
1 TACCATCAAAA-GATTGCTCAAATAATTCAATT
104733 TACCATCAA
1 TACCATCAA
104742 TATTTTACAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
31 11 0.30
33 26 0.70
ACGTcount: A:0.42, C:0.18, G:0.07, T:0.33
Consensus pattern (32 bp):
TACCATCAAAAGATTGCTCAAATAATTCAATT
Found at i:105522 original size:22 final size:21
Alignment explanation
Indices: 105497--105564 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
105487 AAAATAATTC
*
105497 AAAAATAACTTCAAAAAAATA
1 AAAAAAAACTTCAAAAAAATA
*
105518 AAAAACAAACAT-AAGAAAAATA
1 AAAAA-AAACTTCAA-AAAAATA
* *
105540 AAAAAAAAATTCAAAAAAATG
1 AAAAAAAACTTCAAAAAAATA
105561 AAAA
1 AAAA
105565 CATAAAAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
21 21 0.54
22 18 0.46
ACGTcount: A:0.76, C:0.07, G:0.03, T:0.13
Consensus pattern (21 bp):
AAAAAAAACTTCAAAAAAATA
Found at i:107219 original size:21 final size:22
Alignment explanation
Indices: 107178--107219 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
107168 ACATATTAGG
*
107178 TTTATGTTTTTCATTATTTTTT
1 TTTATGTTTTTCATTAGTTTTT
107200 TTTAT-TTTTTCAATT-GTTTT
1 TTTATGTTTTTC-ATTAGTTTT
107220 AATTTTTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.14, C:0.05, G:0.05, T:0.76
Consensus pattern (22 bp):
TTTATGTTTTTCATTAGTTTTT
Found at i:107236 original size:17 final size:18
Alignment explanation
Indices: 107195--107236 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
107185 TTTTCATTAT
*
107195 TTTTTTTTATTTTTTCAA
1 TTTTTTTAATTTTTTCAA
* *
107213 TTGTTTTAATTTTTT-GA
1 TTTTTTTAATTTTTTCAA
107230 TTTTTTT
1 TTTTTTT
107237 TTTACATTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.14, C:0.02, G:0.05, T:0.79
Consensus pattern (18 bp):
TTTTTTTAATTTTTTCAA
Found at i:109714 original size:21 final size:21
Alignment explanation
Indices: 109688--109727 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
109678 ATTTTTGTTT
109688 AATTTATTTTTTAATTTTAAA
1 AATTTATTTTTTAATTTTAAA
*
109709 AATTTATTTTTTCATTTTA
1 AATTTATTTTTTAATTTTA
109728 GAAGTTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (21 bp):
AATTTATTTTTTAATTTTAAA
Found at i:110061 original size:165 final size:161
Alignment explanation
Indices: 109883--110421 Score: 514
Period size: 163 Copynumber: 3.3 Consensus size: 161
109873 AAAATTTTTT
* * * *
109883 AAATATTATTATTTAAATACCATTAAATCATTTTTGAAAAATTCATTCATTTTTATACGTTTTTC
1 AAATATTATTATTTAAATTCTATTAAATCAGTTTTAAAAAATTCATTCATTTTTATA-GTTTTTC
* * * *
109948 ATTTTTCCTTGAAATTTTTCTATTTTCGAAAAATGAAATTTTCTATTCCGTAAATGTTTTCAAGA
65 ATTTTT--TTGAAATTCTTCTATTTTCGAAAAATG-AGTTTTCTACTCTGTAAATGTTTTCAAGA
110013 GGATTTTTCTTAGTTTATAATTTTTAAAATTCATC
127 GGATTTTTCTTAGTTTATAATTTTTAAAATTCATC
* * * *
110048 AAATATTATTATTTAATTTGTACTAAATCAGTTTTAAAAAATTCATTCATTTTTGTGAGTTTTTC
1 AAATATTATTATTTAAATTCTATTAAATCAGTTTTAAAAAATTCATTCATTTTTAT-AGTTTTTC
* * * * * * *
110113 ATTTTTTTTAGATTCCTCTATGTTCGAAAAATGGAGTTTTTTGCTCTGTAAATGTTTTCGTAG-G
65 ATTTTTTTGAAATTCTTCTATTTTCGAAAAAT-GAGTTTTCTACTCTGTAAATGTTTTC-AAGAG
* * *
110177 GATTTTT-TTAAGTTTTTAAATTTTT-AAATTTATT
128 GATTTTTCTT-AGTTTAT-AATTTTTAAAATTCATC
* * **
110211 AAATATTATTAGTT-AATTCATATTAAATCAGTTTCAAAAAATTCATTTGTTTTTATAAGTTTTT
1 AAATATTATTATTTAAATTC-TATTAAATCAGTTTTAAAAAATTCATTCATTTTTAT-AGTTTTT
* * * **
110275 TATTTTTTTTTTGAAA-TCTTCTTATTTTTGAAAAACTGAGTTTTCTACTCTATAAATGTTTTTG
64 CA---TTTTTTTGAAATTCTTC-TATTTTCGAAAAA-TGAGTTTTCTACTCTGTAAATGTTTTCA
* * * *
110339 GGAGGATTTTTCTTGGTTTAAAATTTTTAATATTCATC
124 AGAGGATTTTTCTTAGTTTATAATTTTTAAAATTCATC
* * * * * *
110377 TAATATTGTCA-TTAAATTCATGTTCAATCAGTTTTGAAAAATTCA
1 AAATATTATTATTTAAATTC-TATTAAATCAGTTTTAAAAAATTCA
110422 AATTATTTCA
Statistics
Matches: 303, Mismatches: 56, Indels: 29
0.78 0.14 0.07
Matches are distributed among these distances:
162 5 0.02
163 114 0.38
164 10 0.03
165 75 0.25
166 96 0.32
167 3 0.01
ACGTcount: A:0.31, C:0.09, G:0.09, T:0.51
Consensus pattern (161 bp):
AAATATTATTATTTAAATTCTATTAAATCAGTTTTAAAAAATTCATTCATTTTTATAGTTTTTCA
TTTTTTTGAAATTCTTCTATTTTCGAAAAATGAGTTTTCTACTCTGTAAATGTTTTCAAGAGGAT
TTTTCTTAGTTTATAATTTTTAAAATTCATC
Found at i:110200 original size:7 final size:8
Alignment explanation
Indices: 110181--110214 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
110171 CGTAGGGATT
*
110181 TTTTTAAG
1 TTTTTAAA
110189 TTTTTAAA
1 TTTTTAAA
110197 TTTTTAAA
1 TTTTTAAA
110205 TTTATTAAA
1 TTT-TTAAA
110214 T
1 T
110215 ATTATTAGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
8 18 0.75
9 6 0.25
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (8 bp):
TTTTTAAA
Found at i:110575 original size:14 final size:14
Alignment explanation
Indices: 110556--110585 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
110546 TGAGAATTGA
110556 TTTTAATTTTAAAT
1 TTTTAATTTTAAAT
110570 TTTTAATTTTAAAT
1 TTTTAATTTTAAAT
110584 TT
1 TT
110586 ACTTTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTTAATTTTAAAT
Found at i:112131 original size:29 final size:29
Alignment explanation
Indices: 111993--112226 Score: 100
Period size: 29 Copynumber: 8.0 Consensus size: 29
111983 TAACCTTTTT
* * *
111993 AAAGTTTTTGGGTAAATCTGTAATTTTTAA
1 AAAGTTTTAGGGTCAATATGTAA-TTTTAA
* * * * * **
112023 AAACTTTAAAGGTTAATGTGTAATTTTTT
1 AAAGTTTTAGGGTCAATATGTAATTTTAA
* ***
112052 AAAGTTTT-GTTGTCAATCCATAATTTTAA
1 AAAGTTTTAG-GGTCAATATGTAATTTTAA
** * *
112081 AAAG-TTTAGAAATTAATGTGTAATTTTAA
1 AAAGTTTTAG-GGTCAATATGTAATTTTAA
* *
112110 AAAGTTTTAGGGTCAATATGTAATTGTGA
1 AAAGTTTTAGGGTCAATATGTAATTTTAA
* * *
112139 AAAGTTTAAGGGACAA-AGTGTAATTTTGA
1 AAAGTTTTAGGGTCAATA-TGTAATTTTAA
* * * *
112168 GAAGTTTAAGGG-CTAATTTGTAATTTTGA
1 AAAGTTTTAGGGTC-AATATGTAATTTTAA
* * **
112197 AATG-TCTAGAAATCAATATGTAATTTTAA
1 AAAGTTTTAG-GGTCAATATGTAATTTTAA
112226 A
1 A
112227 GAGTCTAAAG
Statistics
Matches: 152, Mismatches: 44, Indels: 17
0.71 0.21 0.08
Matches are distributed among these distances:
28 8 0.05
29 121 0.80
30 23 0.15
ACGTcount: A:0.38, C:0.04, G:0.17, T:0.41
Consensus pattern (29 bp):
AAAGTTTTAGGGTCAATATGTAATTTTAA
Found at i:112134 original size:58 final size:58
Alignment explanation
Indices: 111993--112288 Score: 170
Period size: 58 Copynumber: 5.1 Consensus size: 58
111983 TAACCTTTTT
* * * * * **
111993 AAAGTTTTTGGGTAAATCTGTAATTTTTAAAAACTTTA-AAGGTTAATGTGTAATTTTTT
1 AAAGTTTTAGGGTCAATCTGTAA-TTTTAAAAAGTTTAGAA-ATCAATGTGTAATTTTAA
* ** *
112052 AAAGTTTT-GTTGTCAATCCATAATTTTAAAAAGTTTAGAAATTAATGTGTAATTTTAA
1 AAAGTTTTAG-GGTCAATCTGTAATTTTAAAAAGTTTAGAAATCAATGTGTAATTTTAA
* * * ** * *
112110 AAAGTTTTAGGGTCAATATGTAATTGTGAAAAGTTTAAGGGA-CAAAGTGTAATTTTGA
1 AAAGTTTTAGGGTCAATCTGTAATTTTAAAAAGTTT-AGAAATCAATGTGTAATTTTAA
* * * * * * *
112168 GAAGTTTAAGGG-CTAATTTGTAATTTTGAAATGTCTAGAAATCAATATGTAATTTTAA
1 AAAGTTTTAGGGTC-AATCTGTAATTTTAAAAAGTTTAGAAATCAATGTGTAATTTTAA
* * * * ** * * * * * *
112226 AGAGTCTAAAGGTCAAAGTATAATTTTGAAAAGCTTA-ATAGTCAATGTGCAATTTTGA
1 AAAGTTTTAGGGTCAATCTGTAATTTTAAAAAGTTTAGA-AATCAATGTGTAATTTTAA
112284 AAAGT
1 AAAGT
112289 CTAGAAACTT
Statistics
Matches: 184, Mismatches: 45, Indels: 17
0.75 0.18 0.07
Matches are distributed among these distances:
57 5 0.03
58 155 0.84
59 24 0.13
ACGTcount: A:0.38, C:0.05, G:0.18, T:0.39
Consensus pattern (58 bp):
AAAGTTTTAGGGTCAATCTGTAATTTTAAAAAGTTTAGAAATCAATGTGTAATTTTAA
Found at i:112213 original size:87 final size:87
Alignment explanation
Indices: 112122--112295 Score: 208
Period size: 87 Copynumber: 2.0 Consensus size: 87
112112 AGTTTTAGGG
* * * * * *
112122 TCAATATGTAATTGTGAAA-AGTTTAAGGGACAAAGTGTAATTTTGAGAAGTTTAAG-GGCTAAT
1 TCAATATGTAATT-TGAAAGAGTCTAAAGGACAAAGTATAATTTTGAAAAGCTTAAGAGTC-AAT
* * *
112185 TTGTAATTTTGAAATGTCTAGAAA
64 GTGCAATTTTGAAAAGTCTAGAAA
* * *
112209 TCAATATGTAATTTTAAAGAGTCTAAAGGTCAAAGTATAATTTTGAAAAGCTTAATAGTCAATGT
1 TCAATATGTAATTTGAAAGAGTCTAAAGGACAAAGTATAATTTTGAAAAGCTTAAGAGTCAATGT
112274 GCAATTTTGAAAAGTCTAGAAA
66 GCAATTTTGAAAAGTCTAGAAA
112296 CTTATTCGCG
Statistics
Matches: 73, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
86 4 0.05
87 67 0.92
88 2 0.03
ACGTcount: A:0.40, C:0.06, G:0.19, T:0.34
Consensus pattern (87 bp):
TCAATATGTAATTTGAAAGAGTCTAAAGGACAAAGTATAATTTTGAAAAGCTTAAGAGTCAATGT
GCAATTTTGAAAAGTCTAGAAA
Found at i:112714 original size:154 final size:155
Alignment explanation
Indices: 112401--112793 Score: 437
Period size: 154 Copynumber: 2.6 Consensus size: 155
112391 GGTTACTATG
* * * * *
112401 ATACTTTCACATCGAATGTATACTTAA-GAGATATTTTGGTAATTTTTCCTAAAAT-TGAGTCTT
1 ATACTTTCACGTCGAAAGTATACTTAAGGAGACATTTTGGTAATTTTTCCT-AGATCCGAGTCTT
* * ** **
112464 AAGTAGTCA-TGGGGTCACTTTTTTGTTAAAGGTCTACACTTAGGATAGGTTCACCCTTTTACAA
65 AGGTAGTCACT--GGTCACTTTTATGCCAAAGGTCTACACTTAGGATAGAATCACCCTTTTACAA
*
112528 ACCTTTCATATCTTTTAGAGTTACCTGG
128 ACCTTTCATATCTTTTAGAGTTACCTGA
* *
112556 ATACTTTCACGTCGAAGGTATACTTAAGGAG-CATTTTGGTAATTTTTCCTAGATCCGAGTCTTG
1 ATACTTTCACGTCGAAAGTATACTTAAGGAGACATTTTGGTAATTTTTCCTAGATCCGAGTCTTA
* * * * *
112620 GGTAGTCACTGGTCGCTTTTATGCCAAAGGTCTACACTTAGGATATAATCGCCCTTTTACAATCT
66 GGTAGTCACTGGTCACTTTTATGCCAAAGGTCTACACTTAGGATAGAATCACCCTTTTACAAACC
*
112685 TTTCATGTCTTTTA-AGGTTACC-GAA
131 TTTCATATCTTTTAGA-GTTACCTG-A
* * * *
112710 ATACTTTCACGTCGAAAGTATA-TTCAAGG-GACATTTTGATAATTTTT-TTAGAACCGAGTCCT
1 ATACTTTCACGTCGAAAGTATACTT-AAGGAGACATTTTGGTAATTTTTCCTAGATCCGAGTCTT
112772 AGGT-GTCACTTGGTCACTTTTA
65 AGGTAGTCAC-TGGTCACTTTTA
112794 CGTTAAAGTT
Statistics
Matches: 204, Mismatches: 26, Indels: 18
0.82 0.10 0.07
Matches are distributed among these distances:
152 5 0.02
153 31 0.15
154 107 0.52
155 57 0.28
156 4 0.02
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (155 bp):
ATACTTTCACGTCGAAAGTATACTTAAGGAGACATTTTGGTAATTTTTCCTAGATCCGAGTCTTA
GGTAGTCACTGGTCACTTTTATGCCAAAGGTCTACACTTAGGATAGAATCACCCTTTTACAAACC
TTTCATATCTTTTAGAGTTACCTGA
Done.