Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_pilon, whole genome shotgun sequence
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: 12876159
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 46 of 54
Found at i:10924400 original size:65 final size:65
Alignment explanation
Indices: 10924325--10924455 Score: 262
Period size: 65 Copynumber: 2.0 Consensus size: 65
10924315 ATTGGAAATC
10924325 AAAGACAAGTTATTAAGTGCAAACCGCAAAAGATTGAAGTAGTAAAGGTAGCAAGAGAAATTTGA
1 AAAGACAAGTTATTAAGTGCAAACCGCAAAAGATTGAAGTAGTAAAGGTAGCAAGAGAAATTTGA
10924390 AAAGACAAGTTATTAAGTGCAAACCGCAAAAGATTGAAGTAGTAAAGGTAGCAAGAGAAATTTGA
1 AAAGACAAGTTATTAAGTGCAAACCGCAAAAGATTGAAGTAGTAAAGGTAGCAAGAGAAATTTGA
10924455 A
1 A
10924456 GATATATGTT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.48, C:0.09, G:0.23, T:0.20
Consensus pattern (65 bp):
AAAGACAAGTTATTAAGTGCAAACCGCAAAAGATTGAAGTAGTAAAGGTAGCAAGAGAAATTTGA
Found at i:10926016 original size:30 final size:30
Alignment explanation
Indices: 10925965--10926037 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
10925955 GAAAGTGACT
*
10925965 TGAACTATGTGGAAAAAAGCTACGTGATTACA
1 TGAA-TATGT-GAAAAAAGCTACGAGATTACA
* * * *
10925997 TGATTATGTGAAAGAAGCTATGAGATTATA
1 TGAATATGTGAAAAAAGCTACGAGATTACA
10926027 TGAATATGTGA
1 TGAATATGTGA
10926038 TATGAATGTG
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
30 27 0.77
31 5 0.14
32 3 0.09
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (30 bp):
TGAATATGTGAAAAAAGCTACGAGATTACA
Found at i:10928785 original size:7 final size:6
Alignment explanation
Indices: 10928753--10928864 Score: 60
Period size: 6 Copynumber: 19.3 Consensus size: 6
10928743 TATTTTTCTA
* * * *
10928753 TTTTTC TTCTTC TTTTTC TATTT- TTTCTC -TTTTC TTTTTC TATCTT-
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC T-TTTTC
* * * *
10928799 TTTTTC TTTTTA TTTTT- TTATT- TTTTTA TATTTTC TCTTTT- TTTGTC
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC T-TTTTC T-TTTTC TTTTTC
10928846 -TTTTC TTTTT- TATTTTC TT
1 TTTTTC TTTTTC T-TTTTC TT
10928865 CTATCTCCTT
Statistics
Matches: 81, Mismatches: 15, Indels: 20
0.70 0.13 0.17
Matches are distributed among these distances:
5 26 0.32
6 42 0.52
7 13 0.16
ACGTcount: A:0.06, C:0.13, G:0.01, T:0.79
Consensus pattern (6 bp):
TTTTTC
Found at i:10928791 original size:15 final size:14
Alignment explanation
Indices: 10928745--10928855 Score: 57
Period size: 14 Copynumber: 7.4 Consensus size: 14
10928735 ACTTGATTTA
*
10928745 TTTTTCTATTTTTC
1 TTTTTCTTTTTTTC
*
10928759 TTCTTCTTTTTCTAT-
1 TTTTTCTTTTT-T-TC
10928774 TTTTTCTCTTTTCTT-
1 TTTTTCT-TTTT-TTC
10928789 TTTCTATCTTTTTTTC
1 TTT-T-TCTTTTTTTC
* *
10928805 TTTTTATTTTTTTA
1 TTTTTCTTTTTTTC
10928819 TTTTT-TTATATTTTC
1 TTTTTCTT-T-TTTTC
*
10928834 TCTTTTTTTGTCTTTTC
1 T-TTTTCTT-T-TTTTC
10928851 TTTTT
1 TTTTT
10928856 TATTTTCTTC
Statistics
Matches: 79, Mismatches: 8, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
13 2 0.03
14 23 0.29
15 19 0.24
16 23 0.29
17 12 0.15
ACGTcount: A:0.06, C:0.14, G:0.01, T:0.79
Consensus pattern (14 bp):
TTTTTCTTTTTTTC
Found at i:10928809 original size:32 final size:32
Alignment explanation
Indices: 10928753--10928855 Score: 104
Period size: 32 Copynumber: 3.2 Consensus size: 32
10928743 TATTTTTCTA
10928753 TTTTTCT-TCTTCTTTTTCTATTTTTTCTCTTTTC
1 TTTTTCTATCTT-TTTTTCT-TTTTTT-TCTTTTC
*
10928787 TTTTTCTATCTTTTTTTCTTTTTATTT-TTTTA
1 TTTTTCTATCTTTTTTTCTTTTT-TTTCTTTTC
* * *
10928819 TTTTTTTAT-ATTTTCTCTTTTTTTGTCTTTTC
1 TTTTTCTATCTTTTTTTCTTTTTTT-TCTTTTC
10928851 TTTTT
1 TTTTT
10928856 TATTTTCTTC
Statistics
Matches: 60, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
30 2 0.03
31 12 0.20
32 21 0.35
33 5 0.08
34 16 0.27
35 4 0.07
ACGTcount: A:0.06, C:0.14, G:0.01, T:0.80
Consensus pattern (32 bp):
TTTTTCTATCTTTTTTTCTTTTTTTTCTTTTC
Found at i:10928841 original size:17 final size:15
Alignment explanation
Indices: 10928765--10928856 Score: 62
Period size: 16 Copynumber: 5.8 Consensus size: 15
10928755 TTTCTTCTTC
* *
10928765 TTTTTCTATTTTTTC
1 TTTTTCTTTTTTTTA
*
10928780 TCTTTTC-TTTTTCTA
1 T-TTTTCTTTTTTTTA
10928795 TCTTTT-TTTCTTTTTA
1 T-TTTTCTTT-TTTTTA
*
10928811 TTTTTTTATTTTTTTA
1 TTTTTCT-TTTTTTTA
*
10928827 TATTTTCTCTTTTTTTG
1 T-TTTTCT-TTTTTTTA
10928844 TCTTTTCTTTTTT
1 T-TTTTCTTTTTT
10928857 ATTTTCTTCT
Statistics
Matches: 63, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
15 18 0.29
16 24 0.38
17 21 0.33
ACGTcount: A:0.07, C:0.12, G:0.01, T:0.80
Consensus pattern (15 bp):
TTTTTCTTTTTTTTA
Found at i:10940604 original size:22 final size:22
Alignment explanation
Indices: 10940579--10940654 Score: 75
Period size: 22 Copynumber: 3.5 Consensus size: 22
10940569 AAATAACATA
* * *
10940579 TAAACGAACAATAAATGAATGC
1 TAAACGAACACTAAACGAATCC
*
10940601 TAAAGGAACACTAAACGAATCC
1 TAAACGAACACTAAACGAATCC
*
10940623 TAAATGAACACTAAAC--ATACTC
1 TAAACGAACACTAAACGAAT-C-C
10940645 TAAACGAACA
1 TAAACGAACA
10940655 TATTCGTGAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
20 2 0.04
21 1 0.02
22 43 0.93
ACGTcount: A:0.53, C:0.20, G:0.11, T:0.17
Consensus pattern (22 bp):
TAAACGAACACTAAACGAATCC
Found at i:10940670 original size:23 final size:23
Alignment explanation
Indices: 10940643--10940687 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
10940633 CTAAACATAC
10940643 TCTAAACGAAC-ATATTCGTGAAT
1 TCTAAACGAACAAT-TTCGTGAAT
*
10940666 TCTAAATGAACAATTTCGTGAA
1 TCTAAACGAACAATTTCGTGAA
10940688 CATAAAAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.31
Consensus pattern (23 bp):
TCTAAACGAACAATTTCGTGAAT
Found at i:10941571 original size:29 final size:29
Alignment explanation
Indices: 10941536--10941605 Score: 88
Period size: 30 Copynumber: 2.4 Consensus size: 29
10941526 TCATTCTAAA
*
10941536 TTAATCCTCAAAC-TCTTGAACATTTCATT
1 TTAATCC-CAAACTTCTTGAACATTTCAAT
* *
10941565 TTCATCCCCAAACTTTTTGAACATTTCAAT
1 TTAAT-CCCAAACTTCTTGAACATTTCAAT
10941595 TTAATCCCAAA
1 TTAATCCCAAA
10941606 TTATACGTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
29 15 0.43
30 20 0.57
ACGTcount: A:0.33, C:0.26, G:0.03, T:0.39
Consensus pattern (29 bp):
TTAATCCCAAACTTCTTGAACATTTCAAT
Found at i:10941880 original size:60 final size:61
Alignment explanation
Indices: 10941767--10941882 Score: 157
Period size: 60 Copynumber: 1.9 Consensus size: 61
10941757 GGGGACTAAT
* * **
10941767 TTAGAATGAGATCCATAGTTTGTGGGATAAAATTGAAATGTTTAAAAGTTTAAGGATTATA
1 TTAGAATGAGATCAATAGTTTGAGGGATAAAATTGAAATGTTTAAAAAATTAAGGATTATA
10941828 TTAGAATGAGAGT-AATAGTTT-AGGGATAAAA-TGAAAATGTTTAAAAAATTAAGGA
1 TTAGAATGAGA-TCAATAGTTTGAGGGATAAAATTG-AAATGTTTAAAAAATTAAGGA
10941883 CCAATTTAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
59 2 0.04
60 28 0.57
61 18 0.37
62 1 0.02
ACGTcount: A:0.44, C:0.02, G:0.22, T:0.33
Consensus pattern (61 bp):
TTAGAATGAGATCAATAGTTTGAGGGATAAAATTGAAATGTTTAAAAAATTAAGGATTATA
Found at i:10944127 original size:20 final size:18
Alignment explanation
Indices: 10944083--10944129 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 18
10944073 ATAATATTTT
*
10944083 ATATTATATTTTGTATTG
1 ATATTATATTTTGTAATG
10944101 A-ATTTATATTTGATGTAATG
1 ATA-TTATATTT--TGTAATG
10944121 ATATTATAT
1 ATATTATAT
10944130 AAATTTATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
17 1 0.04
18 9 0.38
20 13 0.54
21 1 0.04
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (18 bp):
ATATTATATTTTGTAATG
Found at i:10946722 original size:22 final size:20
Alignment explanation
Indices: 10946697--10946742 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
10946687 ATATGATACT
10946697 ATTACTAGTTATATAAGGATTA
1 ATTACTAGTTAT-TAA-GATTA
* *
10946719 ATTATTAGTTATTAATATTA
1 ATTACTAGTTATTAAGATTA
10946739 ATTA
1 ATTA
10946743 TGTGAGTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 8 0.36
21 3 0.14
22 11 0.50
ACGTcount: A:0.41, C:0.02, G:0.09, T:0.48
Consensus pattern (20 bp):
ATTACTAGTTATTAAGATTA
Found at i:10952162 original size:19 final size:19
Alignment explanation
Indices: 10952140--10952185 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
10952130 TTGCATCTGT
*
10952140 ATTTTATTTTTCGCATTGC
1 ATTTTATTTTTCGCATTAC
*
10952159 ATTTTATCTTTCGCATTAC
1 ATTTTATTTTTCGCATTAC
*
10952178 ATTCTATT
1 ATTTTATT
10952186 CATTCATAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.20, C:0.17, G:0.07, T:0.57
Consensus pattern (19 bp):
ATTTTATTTTTCGCATTAC
Found at i:10959585 original size:130 final size:132
Alignment explanation
Indices: 10959420--10959729 Score: 317
Period size: 130 Copynumber: 2.4 Consensus size: 132
10959410 AGCAGTGAAG
* *
10959420 CAAATCAAGTTTGATTCAATAATT-CCTGAAGAGCAACGAAGTGAATAAAAAAATTTCAAGATCT
1 CAAATCAAGTTCGATTCAAT-CTTCCCTGAAGAGCAACGAAGTGAATAAAAAAATTTCAAG-TCT
* * * * * *
10959484 GAT-TACCCGAAA-AACA-T-AAGTAGATTCTTCTTATTTCATATTTGGCCTTCTTGAAGAACAA
64 AATCTACCCGAAAGAACAGTGAAGCAGATGCTTCTTATTTCAGATTTGGCATTCATGAAGAACAA
10959545 CAAAA
129 -AAAA
* * * * ** *
10959550 CAAATCAAGTTCGATTCAATCTTCCCTCAGGAGCAACAAAGTGAATCAAAATTTTTCGAGTCTAA
1 CAAATCAAGTTCGATTCAATCTTCCCTGAAGAGCAACGAAGTGAATAAAAAAATTTCAAGTCTAA
* * ** * * * * *
10959615 TCTCCCCTAAAGAGTAGTGTAGCAGATGCTTTTTCTTTTAGATTTGGTATTCATGAAGAACAAAA
66 TCTACCCGAAAGAACAGTGAAGCAGATGCTTCTTATTTCAGATTTGGCATTCATGAAGAACAAAA
10959680 AA
131 AA
* *
10959682 -AAAGCAAGTTCGATTCAATCTTCCCTGAAGAGCATCGAAGTGAATAAA
1 CAAATCAAGTTCGATTCAATCTTCCCTGAAGAGCAACGAAGTGAATAAA
10959730 TAATTATCTC
Statistics
Matches: 145, Mismatches: 30, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
129 7 0.05
130 55 0.38
131 44 0.30
132 5 0.03
133 34 0.23
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.29
Consensus pattern (132 bp):
CAAATCAAGTTCGATTCAATCTTCCCTGAAGAGCAACGAAGTGAATAAAAAAATTTCAAGTCTAA
TCTACCCGAAAGAACAGTGAAGCAGATGCTTCTTATTTCAGATTTGGCATTCATGAAGAACAAAA
AA
Found at i:10959910 original size:17 final size:18
Alignment explanation
Indices: 10959885--10959919 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
10959875 CGCATGCAGT
10959885 AAAAAATGAA-AAAAAGG
1 AAAAAATGAAGAAAAAGG
*
10959902 AAAATATGAAGAAAAAGG
1 AAAAAATGAAGAAAAAGG
10959920 GAGAGCAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.71, C:0.00, G:0.20, T:0.09
Consensus pattern (18 bp):
AAAAAATGAAGAAAAAGG
Found at i:10960343 original size:159 final size:161
Alignment explanation
Indices: 10960075--10960394 Score: 626
Period size: 159 Copynumber: 2.0 Consensus size: 161
10960065 GTGAGCATCC
10960075 AAATACCGAAAAGTGGAAAAAAGAGCGTTGAAAGGTAAACACCTTACCTTTCCCGTAGGGAGAAG
1 AAATACCGAAAAGTGGAAAAAAGAGCGTTGAAAGGTAAACACCTTACCTTTCCCGTAGGGAGAAG
10960140 CTCACTGTCGTCGCCCGGAGCCAAATCACTTTTGAGTCGTTAGAGGTAACCCATTTTTTGAGTCT
66 CTCACTGTCGTCGCCCGGAGCCAAATCACTTTTGAGTCGTTAGAGGTAACCCATTTTTTGAGTCT
10960205 CTTGGTTATTTTTGGGATTCAAG-TTTGAAG
131 CTTGGTTATTTTTGGGATTCAAGTTTTGAAG
10960235 AAAT-CCGAAAAGTGGAAAAAAGAGCGTTGAAAGGTAAACACCTTACCTTTCCCGTAGGGAGAAG
1 AAATACCGAAAAGTGGAAAAAAGAGCGTTGAAAGGTAAACACCTTACCTTTCCCGTAGGGAGAAG
10960299 CTCACTGTCGTCGCCCGGAGCCAAATCACTTTTGAGTCGTTAGAGGTAACCCATTTTTTGAGTCT
66 CTCACTGTCGTCGCCCGGAGCCAAATCACTTTTGAGTCGTTAGAGGTAACCCATTTTTTGAGTCT
10960364 CTTGGTTATTTTTGGGATTCAAGTTTTGAAG
131 CTTGGTTATTTTTGGGATTCAAGTTTTGAAG
10960395 GGAAGAGTGT
Statistics
Matches: 159, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
159 148 0.93
160 11 0.07
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (161 bp):
AAATACCGAAAAGTGGAAAAAAGAGCGTTGAAAGGTAAACACCTTACCTTTCCCGTAGGGAGAAG
CTCACTGTCGTCGCCCGGAGCCAAATCACTTTTGAGTCGTTAGAGGTAACCCATTTTTTGAGTCT
CTTGGTTATTTTTGGGATTCAAGTTTTGAAG
Found at i:10960568 original size:59 final size:59
Alignment explanation
Indices: 10960502--10960623 Score: 244
Period size: 59 Copynumber: 2.1 Consensus size: 59
10960492 GAGAGAAAGG
10960502 GGGTATATAATGAGGGAATGGCATAAAGTTAGAAAAGAAAAGGGGTATAAAATGAATTA
1 GGGTATATAATGAGGGAATGGCATAAAGTTAGAAAAGAAAAGGGGTATAAAATGAATTA
10960561 GGGTATATAATGAGGGAATGGCATAAAGTTAGAAAAGAAAAGGGGTATAAAATGAATTA
1 GGGTATATAATGAGGGAATGGCATAAAGTTAGAAAAGAAAAGGGGTATAAAATGAATTA
10960620 GGGT
1 GGGT
10960624 TTGGATTTTT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 63 1.00
ACGTcount: A:0.46, C:0.02, G:0.30, T:0.22
Consensus pattern (59 bp):
GGGTATATAATGAGGGAATGGCATAAAGTTAGAAAAGAAAAGGGGTATAAAATGAATTA
Found at i:10961394 original size:29 final size:29
Alignment explanation
Indices: 10961349--10961432 Score: 132
Period size: 29 Copynumber: 2.9 Consensus size: 29
10961339 CTGATGAGTT
* * *
10961349 TCACCTTTTTCTGTTCTTTTGTCATACCC
1 TCACCTTTTTATATTCTTTAGTCATACCC
*
10961378 TCACCTTTTTATATTCTTTAGTCATGCCC
1 TCACCTTTTTATATTCTTTAGTCATACCC
10961407 TCACCTTTTTATATTCTTTAGTCATA
1 TCACCTTTTTATATTCTTTAGTCATA
10961433 ATAGGTTTAT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 50 1.00
ACGTcount: A:0.17, C:0.26, G:0.06, T:0.51
Consensus pattern (29 bp):
TCACCTTTTTATATTCTTTAGTCATACCC
Found at i:10963340 original size:20 final size:20
Alignment explanation
Indices: 10963315--10963409 Score: 61
Period size: 20 Copynumber: 4.8 Consensus size: 20
10963305 CAAGAATCAC
10963315 TCTAGTATCAGTACTGTAAT
1 TCTAGTATCAGTACTGTAAT
* * *
10963335 TCTAGTATTAATATTGTAAT
1 TCTAGTATCAGTACTGTAAT
* * *
10963355 TCCTA-TACCGGTACTATAAT
1 T-CTAGTATCAGTACTGTAAT
* *
10963375 T-TCATTA-CTGGTACTGTAAT
1 TCT-AGTATC-AGTACTGTAAT
*
10963395 TCTAGTATCAATACT
1 TCTAGTATCAGTACT
10963410 TTAAGTCCAA
Statistics
Matches: 56, Mismatches: 13, Indels: 12
0.69 0.16 0.15
Matches are distributed among these distances:
18 1 0.02
19 2 0.04
20 48 0.86
21 5 0.09
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.42
Consensus pattern (20 bp):
TCTAGTATCAGTACTGTAAT
Found at i:10963448 original size:60 final size:60
Alignment explanation
Indices: 10963315--10963449 Score: 150
Period size: 60 Copynumber: 2.2 Consensus size: 60
10963305 CAAGAATCAC
* * * * * **
10963315 TCTAGTATCAGTACTGTAATTCTAGTATTAATATTGTAATTCCTATACCGGTACTATAAT
1 TCTATTATCGGTACTGTAATTCTAGTATCAATATTGTAAGTCCAATACCAATACTATAAT
*
10963375 T-TCATTA-CTGGTACTGTAATTCTAGTATCAATACTT-TAAGTCCAATACCAATATTATAAT
1 TCT-ATTATC-GGTACTGTAATTCTAGTATCAATA-TTGTAAGTCCAATACCAATACTATAAT
10963435 TCTATTATCGGTACT
1 TCTATTATCGGTACT
10963450 ATTATCTAGG
Statistics
Matches: 62, Mismatches: 8, Indels: 10
0.77 0.10 0.12
Matches are distributed among these distances:
59 2 0.03
60 56 0.90
61 4 0.06
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.41
Consensus pattern (60 bp):
TCTATTATCGGTACTGTAATTCTAGTATCAATATTGTAAGTCCAATACCAATACTATAAT
Found at i:10966199 original size:12 final size:12
Alignment explanation
Indices: 10966184--10966217 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
10966174 CTTTACTTTG
*
10966184 TCTTCTACTTCA
1 TCTTCTTCTTCA
10966196 TCTTCTTCTTCA
1 TCTTCTTCTTCA
10966208 T-TTCTTCTTC
1 TCTTCTTCTTC
10966218 TCCAGTAAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.09, C:0.32, G:0.00, T:0.59
Consensus pattern (12 bp):
TCTTCTTCTTCA
Found at i:10967031 original size:21 final size:21
Alignment explanation
Indices: 10967005--10967074 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
10966995 AGAGTGTTGT
*
10967005 TATCCATAACAAATGATTTGG
1 TATCCATAACAAATGAATTGG
* *
10967026 TATCCATATA-AGATGAACTGG
1 TATCCATA-ACAAATGAATTGG
* * *
10967047 TATCCATATCTAATGAGTTGG
1 TATCCATAACAAATGAATTGG
10967068 TATCCAT
1 TATCCAT
10967075 TCTAGATGAA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
21 38 0.97
22 1 0.03
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (21 bp):
TATCCATAACAAATGAATTGG
Found at i:10967053 original size:42 final size:42
Alignment explanation
Indices: 10967005--10967112 Score: 114
Period size: 42 Copynumber: 2.6 Consensus size: 42
10966995 AGAGTGTTGT
**
10967005 TATCCATAACAAATGATTTGGTATCCATAT-AAGATGAACTGG
1 TATCCATAACAAATGATTTGGTATCCAT-TCAAGATGAACTAC
* * * *
10967047 TATCCATATCTAATGAGTTGGTATCCATTCTAGATGAACTAC
1 TATCCATAACAAATGATTTGGTATCCATTCAAGATGAACTAC
*
10967089 TATCCA-AACCAAA-GATTGGGTATC
1 TATCCATAA-CAAATGATTTGGTATC
10967113 TATACCGAAT
Statistics
Matches: 54, Mismatches: 10, Indels: 5
0.78 0.14 0.07
Matches are distributed among these distances:
41 11 0.20
42 43 0.80
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (42 bp):
TATCCATAACAAATGATTTGGTATCCATTCAAGATGAACTAC
Found at i:10967083 original size:21 final size:22
Alignment explanation
Indices: 10967017--10967084 Score: 79
Period size: 21 Copynumber: 3.2 Consensus size: 22
10967007 TCCATAACAA
* *
10967017 ATGATTTGGTATCCATAT-AAG
1 ATGAATTGGTATCCATATCTAG
*
10967038 ATGAACTGGTATCCATATCTA-
1 ATGAATTGGTATCCATATCTAG
*
10967059 ATGAGTTGGTATCCAT-TCTAG
1 ATGAATTGGTATCCATATCTAG
10967080 ATGAA
1 ATGAA
10967085 CTACTATCCA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
20 4 0.10
21 34 0.87
22 1 0.03
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.35
Consensus pattern (22 bp):
ATGAATTGGTATCCATATCTAG
Found at i:10992869 original size:28 final size:27
Alignment explanation
Indices: 10992824--10992877 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
10992814 ACCTGATAAT
10992824 TTATATAAAATTTTAAAAAA-ATAAAA
1 TTATATAAAATTTTAAAAAACATAAAA
*
10992850 TTATATATATATTTTAAAAAAACATAAA
1 TTATATA-AAATTTT-AAAAAACATAAA
10992878 TTTTGAATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 7 0.29
27 6 0.25
28 6 0.25
29 5 0.21
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (27 bp):
TTATATAAAATTTTAAAAAACATAAAA
Found at i:10992878 original size:28 final size:27
Alignment explanation
Indices: 10992819--10992879 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
10992809 TTAGCACCTG
* *
10992819 ATAATTTATATAAAATTTTAAAAAAAT
1 ATAAATTATATAAAATTTTAAAAAAAC
*
10992846 A-AAATTATATATATATTTTAAAAAAAC
1 ATAAATTATATA-AAATTTTAAAAAAAC
10992873 ATAAATT
1 ATAAATT
10992880 TTGAATCAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 9 0.31
27 15 0.52
28 5 0.17
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (27 bp):
ATAAATTATATAAAATTTTAAAAAAAC
Found at i:10994133 original size:2 final size:2
Alignment explanation
Indices: 10994126--10994155 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
10994116 AAGTCGATGC
10994126 AT 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 AT
10994156 TCAAGGGATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10995317 original size:21 final size:22
Alignment explanation
Indices: 10995284--10995327 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
10995274 AAACATTCTG
10995284 TTAAAATATTATTTAAT-TATT
1 TTAAAATATTATTTAATATATT
*
10995305 TTAAACATA-TATTTTATATATT
1 TTAAA-ATATTATTTAATATATT
10995327 T
1 T
10995328 GTTTTTAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
TTAAAATATTATTTAATATATT
Found at i:11004522 original size:20 final size:20
Alignment explanation
Indices: 11004493--11004530 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
11004483 AGTCCTTATA
*
11004493 ATATGCATATTACATGATTT
1 ATATGAATATTACATGATTT
*
11004513 ATATGAATATTATATGAT
1 ATATGAATATTACATGAT
11004531 CCACATCTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.05, G:0.11, T:0.45
Consensus pattern (20 bp):
ATATGAATATTACATGATTT
Found at i:11007838 original size:63 final size:63
Alignment explanation
Indices: 11007756--11007881 Score: 189
Period size: 63 Copynumber: 2.0 Consensus size: 63
11007746 GTAACATCCT
* * *
11007756 AATTTGGTATGACCCAAAGATCGAATGACCAAAGCATTATACGAGACCATCGAAGTGGCTAAC
1 AATTTGGTATGACCCAAAGATCGAAGGACCAAAGCATCATACGAGACCATCGAAGTGACTAAC
* * * *
11007819 AATTTGGTCTGATCTAAAGATTGAAGGACCAAAGCATCATACGAGACCATCGAAGTGACTAAC
1 AATTTGGTATGACCCAAAGATCGAAGGACCAAAGCATCATACGAGACCATCGAAGTGACTAAC
11007882 CCAAAATTTT
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
63 56 1.00
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.21
Consensus pattern (63 bp):
AATTTGGTATGACCCAAAGATCGAAGGACCAAAGCATCATACGAGACCATCGAAGTGACTAAC
Found at i:11015287 original size:20 final size:21
Alignment explanation
Indices: 11015249--11015287 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
11015239 TGCAATTCCA
**
11015249 ATAAAGAGGATGATGAAGAAG
1 ATAAAGAGGATGACCAAGAAG
11015270 ATAAAGA-GATGACCAAGA
1 ATAAAGAGGATGACCAAGA
11015288 TTTTTAAGAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.54, C:0.05, G:0.28, T:0.13
Consensus pattern (21 bp):
ATAAAGAGGATGACCAAGAAG
Found at i:11016572 original size:25 final size:25
Alignment explanation
Indices: 11016542--11016589 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
11016532 AATATTTTTA
*
11016542 TTTGGTTA-TTTGGATTTTTTATGAC
1 TTTGG-TACTTTGGATTTTGTATGAC
*
11016567 TTTGGTACTTTGTATTTTGTATG
1 TTTGGTACTTTGGATTTTGTATG
11016590 GATTTAAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 18 0.90
ACGTcount: A:0.15, C:0.04, G:0.21, T:0.60
Consensus pattern (25 bp):
TTTGGTACTTTGGATTTTGTATGAC
Found at i:11022022 original size:21 final size:21
Alignment explanation
Indices: 11021995--11022066 Score: 126
Period size: 21 Copynumber: 3.4 Consensus size: 21
11021985 AAAACCCAGA
11021995 AAAATGGTAGTCTAAGTATTG
1 AAAATGGTAGTCTAAGTATTG
*
11022016 AAGATGGTAGTCTAAGTATTG
1 AAAATGGTAGTCTAAGTATTG
11022037 AAAATGGTAGTCTAAGTATTG
1 AAAATGGTAGTCTAAGTATTG
*
11022058 AAAAAGGTA
1 AAAATGGTA
11022067 AAAATAATAA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 48 1.00
ACGTcount: A:0.40, C:0.04, G:0.25, T:0.31
Consensus pattern (21 bp):
AAAATGGTAGTCTAAGTATTG
Found at i:11023864 original size:7 final size:7
Alignment explanation
Indices: 11023845--11024030 Score: 92
Period size: 7 Copynumber: 27.0 Consensus size: 7
11023835 TATTAATTAG
11023845 TATT-TA
1 TATTATA
11023851 TATTATA
1 TATTATA
*
11023858 TAGTATA
1 TATTATA
11023865 T-TTATA
1 TATTATA
11023871 TA-TATTA
1 TATTA-TA
*
11023878 TATTATG
1 TATTATA
*
11023885 TAGTATA
1 TATTATA
11023892 T-TATATA
1 TAT-TATA
11023899 TATTATA
1 TATTATA
11023906 TA-TA-A
1 TATTATA
11023911 TATTATA
1 TATTATA
*
11023918 TAGTTTACA
1 TA--TTATA
11023927 TATTATA
1 TATTATA
11023934 TA--ATA
1 TATTATA
11023939 T-TTATA
1 TATTATA
11023945 -ATTTATA
1 TA-TTATA
*
11023952 TAGTATA
1 TATTATA
*
11023959 TATTATG
1 TATTATA
*
11023966 TAGTATTA
1 TATTA-TA
11023974 TATTATA
1 TATTATA
*
11023981 TA-TATGT
1 TATTAT-A
11023988 TATT-TA
1 TATTATA
11023994 TATT-TA
1 TATTATA
* *
11024000 TACATAAA
1 TA-TTATA
*
11024008 TATTATT
1 TATTATA
11024015 TATATATTA
1 TAT-TA-TA
11024024 TATTATA
1 TATTATA
11024031 CTCAATATAA
Statistics
Matches: 136, Mismatches: 22, Indels: 43
0.68 0.11 0.21
Matches are distributed among these distances:
5 7 0.05
6 29 0.21
7 73 0.54
8 17 0.12
9 10 0.07
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.54
Consensus pattern (7 bp):
TATTATA
Found at i:11023864 original size:12 final size:11
Alignment explanation
Indices: 11023849--11024030 Score: 103
Period size: 11 Copynumber: 16.4 Consensus size: 11
11023839 AATTAGTATT
11023849 TATATTATATA
1 TATATTATATA
11023860 GTATATT-TATA
1 -TATATTATATA
11023871 TATATTATATTA
1 TATATTATA-TA
*
11023883 TGTAGTATATTATA
1 TATA-T-TA-TATA
11023897 TATATTATATA
1 TATATTATATA
11023908 TAATATTATATA
1 T-ATATTATATA
* *
11023920 -GT-TTACATA
1 TATATTATATA
11023929 T-TA-TATAATA
1 TATATTAT-ATA
* * *
11023939 TTTATAATTTA
1 TATATTATATA
*
11023950 TATAGTATATA
1 TATATTATATA
11023961 T-TATGTAGTAT-
1 TATAT-TA-TATA
11023972 TATATTATATA
1 TATATTATATA
* *
11023983 TATGTTATTTA
1 TATATTATATA
11023994 TAT-TTATACATA
1 TATATTAT--ATA
* *
11024006 AATATTATTTA
1 TATATTATATA
11024017 TATATTATAT-
1 TATATTATATA
11024027 TATA
1 TATA
11024031 CTCAATATAA
Statistics
Matches: 133, Mismatches: 19, Indels: 38
0.70 0.10 0.20
Matches are distributed among these distances:
9 9 0.07
10 24 0.18
11 50 0.38
12 35 0.26
13 6 0.05
14 7 0.05
15 2 0.02
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (11 bp):
TATATTATATA
Found at i:11024025 original size:81 final size:81
Alignment explanation
Indices: 11023848--11024025 Score: 190
Period size: 81 Copynumber: 2.2 Consensus size: 81
11023838 TAATTAGTAT
*
11023848 TTATATTATATAGTAT-ATTTATATATATTATATTATGTAGTATATTATATATATTATATATAAT
1 TTAT-TTATATATTATAATTTATATATATTATATTATGTAGTATATTATATATATTATATATAAT
** *
11023912 ATTATATAGTTTACATA
65 ATTATATAGCATAAATA
*
11023929 TTATATA-ATATTTATAATTTATATAGTA-TATATTATGTAGTATTATATTATATATATGT-TAT
1 TTATTTATATA-TTATAATTTATATA-TATTATATTATGTAG---TATATTATATATAT-TATAT
*
11023991 -TTATATT-TATA-CATAAATA
60 ATAATATTATATAGCATAAATA
11024010 TTATTTATATATTATA
1 TTATTTATATATTATA
11024026 TTATACTCAA
Statistics
Matches: 82, Mismatches: 7, Indels: 16
0.78 0.07 0.15
Matches are distributed among these distances:
79 3 0.04
80 5 0.06
81 41 0.50
82 9 0.11
83 6 0.07
84 17 0.21
85 1 0.01
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.54
Consensus pattern (81 bp):
TTATTTATATATTATAATTTATATATATTATATTATGTAGTATATTATATATATTATATATAATA
TTATATAGCATAAATA
Found at i:11024055 original size:30 final size:29
Alignment explanation
Indices: 11023988--11024055 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 29
11023978 ATATATATGT
*
11023988 TATTTATATTTATACATAAATATTATTTA
1 TATTTATATTTATACATAAATAATATTTA
11024017 TATATTATA-TTATAC-TCAATATAATATTTAA
1 TAT-TTATATTTATACAT-AA-ATAATATTT-A
11024048 TATTTATA
1 TATTTATA
11024056 CATCATTAGT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
28 1 0.03
29 11 0.32
30 18 0.53
31 4 0.12
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (29 bp):
TATTTATATTTATACATAAATAATATTTA
Found at i:11024937 original size:20 final size:21
Alignment explanation
Indices: 11024917--11024956 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
11024907 ATGAAATCTG
11024917 GGTTG-GT-AGTAACGATACT
1 GGTTGAGTAAGTAACGATACT
*
11024936 GGTTGAGTAAGTACCGATACT
1 GGTTGAGTAAGTAACGATACT
11024957 ATAAAGCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 2 0.11
21 11 0.61
ACGTcount: A:0.28, C:0.12, G:0.30, T:0.30
Consensus pattern (21 bp):
GGTTGAGTAAGTAACGATACT
Found at i:11031445 original size:34 final size:33
Alignment explanation
Indices: 11031395--11031474 Score: 101
Period size: 34 Copynumber: 2.4 Consensus size: 33
11031385 AACCAATTAT
* *
11031395 ATAAA-AATAAATTATTTAAATGTATTAAAA-A
1 ATAAATAAAAAATTATTTAAATGGATTAAAATA
11031426 TATAATATAAAAAATTATTTAAATGGATTAAAATA
1 -ATAA-ATAAAAAATTATTTAAATGGATTAAAATA
*
11031461 ATAAATAAATAATT
1 ATAAATAAAAAATT
11031475 TCATTCAAGC
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
32 4 0.10
33 10 0.24
34 27 0.64
35 1 0.02
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (33 bp):
ATAAATAAAAAATTATTTAAATGGATTAAAATA
Found at i:11031545 original size:19 final size:19
Alignment explanation
Indices: 11031521--11031557 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
11031511 ATATCAATCT
11031521 TAATTAAAATAATATAAAC
1 TAATTAAAATAATATAAAC
11031540 TAATTAAAATAATATAAA
1 TAATTAAAATAATATAAA
11031558 AATCATTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (19 bp):
TAATTAAAATAATATAAAC
Found at i:11031547 original size:9 final size:10
Alignment explanation
Indices: 11031521--11031558 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
11031511 ATATCAATCT
11031521 TAAT-TAAAA
1 TAATATAAAA
*
11031530 TAATATAAAC
1 TAATATAAAA
11031540 TAAT-TAAAA
1 TAATATAAAA
11031549 TAATATAAAA
1 TAATATAAAA
11031559 ATCATTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 12 0.48
10 13 0.52
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (10 bp):
TAATATAAAA
Found at i:11033828 original size:32 final size:32
Alignment explanation
Indices: 11033787--11033883 Score: 169
Period size: 32 Copynumber: 3.0 Consensus size: 32
11033777 TGAGATTGCT
11033787 ACGTTTGGACATGGCATTGGATGTTACGAACA
1 ACGTTTGGACATGGCATTGGATGTTACGAACA
*
11033819 ACGTTTGGAC-TGGGTATTGGATGTTACGAACA
1 ACGTTTGGACAT-GGCATTGGATGTTACGAACA
11033851 ACGTTTGGACATGGCATTGGATGTTACGAACA
1 ACGTTTGGACATGGCATTGGATGTTACGAACA
11033883 A
1 A
11033884 ACTCCCCATA
Statistics
Matches: 61, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
31 1 0.02
32 59 0.97
33 1 0.02
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.29
Consensus pattern (32 bp):
ACGTTTGGACATGGCATTGGATGTTACGAACA
Found at i:11046919 original size:3 final size:3
Alignment explanation
Indices: 11046906--11046969 Score: 58
Period size: 3 Copynumber: 20.7 Consensus size: 3
11046896 AGTTTGCATA
* * *
11046906 TAT TTT TAT TAT TAC TAT TATT TAT TAT TAC TAT TAT TAT TAT ATAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT -TAT
*
11046953 TAA TA- TATT TAT TAT TA
1 TAT TAT TA-T TAT TAT TA
11046970 CAAATAATAC
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
2 2 0.04
3 40 0.80
4 8 0.16
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:11046935 original size:19 final size:17
Alignment explanation
Indices: 11046909--11046970 Score: 76
Period size: 16 Copynumber: 3.7 Consensus size: 17
11046899 TTGCATATAT
11046909 TTTTATTATTACTATTA
1 TTTTATTATTACTATTA
11046926 -TTTATTATTACTATTA
1 TTTTATTATTACTATTA
*
11046942 TTATTATATATTAATA-TA
1 TT-TTAT-TATTACTATTA
11046960 -TTTATTATTAC
1 TTTTATTATTAC
11046971 AAATAATACA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
15 5 0.12
16 20 0.50
17 2 0.05
18 6 0.15
19 7 0.17
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTATTATTACTATTA
Found at i:11046940 original size:22 final size:22
Alignment explanation
Indices: 11046903--11046954 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
11046893 CCGAGTTTGC
* *
11046903 ATATATTTTTATTATTACTATT
1 ATATATTATTACTATTACTATT
* *
11046925 ATTTATTATTACTATTATTATT
1 ATATATTATTACTATTACTATT
11046947 ATATATTA
1 ATATATTA
11046955 ATATATTTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (22 bp):
ATATATTATTACTATTACTATT
Found at i:11046964 original size:22 final size:22
Alignment explanation
Indices: 11046915--11046969 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
11046905 ATATTTTTAT
* * *
11046915 TATTACTATTATTTATTATTAC
1 TATTATTATTATATATTAATAC
11046937 TATTATTATTATATATTAATA-
1 TATTATTATTATATATTAATAC
11046958 TATTTATTATTA
1 TA-TTATTATTA
11046970 CAAATAATAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 2 0.07
22 27 0.93
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (22 bp):
TATTATTATTATATATTAATAC
Found at i:11049824 original size:45 final size:48
Alignment explanation
Indices: 11049752--11049840 Score: 130
Period size: 45 Copynumber: 1.9 Consensus size: 48
11049742 TATTGCTTTA
* * *
11049752 TTTTCCGAAATAAATGCATGTGAACTAGAAATCATGCGGTTAGGTTAT
1 TTTTCCGAAACAAATGCATGTGAACTAGAAAGCATGAGGTTAGGTTAT
11049800 TTTTCC-AAACAAA-GCATG-GAACTAGAAAGCATGAGGTTAGG
1 TTTTCCGAAACAAATGCATGTGAACTAGAAAGCATGAGGTTAGG
11049841 ATGTATATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
45 21 0.55
46 5 0.13
47 6 0.16
48 6 0.16
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.28
Consensus pattern (48 bp):
TTTTCCGAAACAAATGCATGTGAACTAGAAAGCATGAGGTTAGGTTAT
Found at i:11051994 original size:29 final size:29
Alignment explanation
Indices: 11051952--11052044 Score: 107
Period size: 29 Copynumber: 3.2 Consensus size: 29
11051942 TTGACCAGTT
* ** *
11051952 CTATTATGGGAATTAATTCAATTTTGGTG
1 CTATTATAGGAATTAATTCAAAATGGGTG
11051981 CTATTATAGGAATTAATTCAAAATGGGTG
1 CTATTATAGGAATTAATTCAAAATGGGTG
*
11052010 CTATT-TTGGTAATTAATTCGAAAATGGGTG
1 CTATTATAGG-AATTAATTC-AAAATGGGTG
*
11052040 ATATT
1 CTATT
11052045 TCTATAAAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
28 3 0.05
29 39 0.70
30 14 0.25
ACGTcount: A:0.32, C:0.06, G:0.20, T:0.41
Consensus pattern (29 bp):
CTATTATAGGAATTAATTCAAAATGGGTG
Found at i:11053040 original size:42 final size:41
Alignment explanation
Indices: 11052981--11053188 Score: 335
Period size: 42 Copynumber: 5.0 Consensus size: 41
11052971 GAAGTATTAT
11052981 CAGGTCCCTTTGCTGTGTGCGAAGGTAAGCCTTACAGTTTAC
1 CAGGTCCCTTTGCTGTGTGC-AAGGTAAGCCTTACAGTTTAC
*
11053023 CAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCC
1 CAGGTCCCTTTGCTGTGTGCAA-GGTAAGCCTTACAGTTTAC
11053065 CAGGTCCCTTTGCTGTGTGCGAAGGTAAGCCTTACAGTTTAC
1 CAGGTCCCTTTGCTGTGTGC-AAGGTAAGCCTTACAGTTTAC
*
11053107 CAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCC
1 CAGGTCCCTTTGCTGTGTGCAA-GGTAAGCCTTACAGTTTAC
* *
11053149 CAGGTCCTTTTGCTGTGTGCAAGGATAAACCTTACAGTTT
1 CAGGTCCCTTTGCTGTGTGCAAGG-TAAGCCTTACAGTTT
11053189 TCCTAAGCTC
Statistics
Matches: 157, Mismatches: 5, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
41 6 0.04
42 149 0.95
43 2 0.01
ACGTcount: A:0.19, C:0.24, G:0.25, T:0.32
Consensus pattern (41 bp):
CAGGTCCCTTTGCTGTGTGCAAGGTAAGCCTTACAGTTTAC
Found at i:11053122 original size:84 final size:84
Alignment explanation
Indices: 11052981--11053188 Score: 382
Period size: 84 Copynumber: 2.5 Consensus size: 84
11052971 GAAGTATTAT
11052981 CAGGTCCCTTTGCTGTGTGCGAAGGTAAGCCTTACAGTTTACCAGGTCCCTTTGCTGTGTGCAAG
1 CAGGTCCCTTTGCTGTGTGCGAAGGTAAGCCTTACAGTTTACCAGGTCCCTTTGCTGTGTGCAAG
11053046 GGTAAGCCTTACAGTTTCC
66 GGTAAGCCTTACAGTTTCC
11053065 CAGGTCCCTTTGCTGTGTGCGAAGGTAAGCCTTACAGTTTACCAGGTCCCTTTGCTGTGTGCAAG
1 CAGGTCCCTTTGCTGTGTGCGAAGGTAAGCCTTACAGTTTACCAGGTCCCTTTGCTGTGTGCAAG
11053130 GGTAAGCCTTACAGTTTCC
66 GGTAAGCCTTACAGTTTCC
* *
11053149 CAGGTCCTTTTGCTGTGTGC-AAGGATAAACCTTACAGTTT
1 CAGGTCCCTTTGCTGTGTGCGAAGG-TAAGCCTTACAGTTT
11053189 TCCTAAGCTC
Statistics
Matches: 121, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
83 4 0.03
84 117 0.97
ACGTcount: A:0.19, C:0.24, G:0.25, T:0.32
Consensus pattern (84 bp):
CAGGTCCCTTTGCTGTGTGCGAAGGTAAGCCTTACAGTTTACCAGGTCCCTTTGCTGTGTGCAAG
GGTAAGCCTTACAGTTTCC
Found at i:11058386 original size:49 final size:49
Alignment explanation
Indices: 11058330--11058427 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
11058320 GGAGTCAATG
11058330 GAGATTCAATTTCCTCATCTGTTTTCATAAGGTAAATATCGAGGATGAA
1 GAGATTCAATTTCCTCATCTGTTTTCATAAGGTAAATATCGAGGATGAA
11058379 GAGATTCAATTTCCTCATCTGTTTTCATAAGGTAAATATCGAGGATGAA
1 GAGATTCAATTTCCTCATCTGTTTTCATAAGGTAAATATCGAGGATGAA
11058428 TTTCTTGTAG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (49 bp):
GAGATTCAATTTCCTCATCTGTTTTCATAAGGTAAATATCGAGGATGAA
Found at i:11059224 original size:13 final size:13
Alignment explanation
Indices: 11059202--11059256 Score: 76
Period size: 13 Copynumber: 4.3 Consensus size: 13
11059192 GACCGGTCAC
*
11059202 GACCCAACCCGTT
1 GACCCGACCCGTT
11059215 GACCCGACCCGTT
1 GACCCGACCCGTT
*
11059228 GACCCGACCCATT
1 GACCCGACCCGTT
*
11059241 GACCCTA-CCGTT
1 GACCCGACCCGTT
11059253 GACC
1 GACC
11059257 GGTGCTATTC
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
12 8 0.21
13 30 0.79
ACGTcount: A:0.20, C:0.45, G:0.18, T:0.16
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:11060349 original size:42 final size:41
Alignment explanation
Indices: 11060290--11060619 Score: 468
Period size: 42 Copynumber: 7.8 Consensus size: 41
11060280 GAAGTATTAT
11060290 CAGGTCCCTTTGCTGTGTGCGAAGGTAAGCCTTACAGTTTAC
1 CAGGTCCCTTTGCTGTGTGC-AAGGTAAGCCTTACAGTTTAC
*
11060332 CAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCC
1 CAGGTCCCTTTGCTGTGTGCAA-GGTAAGCCTTACAGTTTAC
11060374 CAGGTCCCTTTGCTGTGTGCGAAGGTAAGCCTTACAGTTTAC
1 CAGGTCCCTTTGCTGTGTGC-AAGGTAAGCCTTACAGTTTAC
*
11060416 CAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCC
1 CAGGTCCCTTTGCTGTGTGCAA-GGTAAGCCTTACAGTTTAC
11060458 CAGGTCCCTTTGCTGTGTGCGAAGGTAAGCCTTACAGTTTAC
1 CAGGTCCCTTTGCTGTGTGC-AAGGTAAGCCTTACAGTTTAC
*
11060500 CAGGTCCCTTTGCTGTGTGCAAAGGGTAAGCCTTACAGTTTCC
1 CAGGTCCCTTTGCTGTGTGC-AA-GGTAAGCCTTACAGTTTAC
* *
11060543 CAGGTCCCTTTGC--TGTGCAAGGATAAACCTTACAGTTTTC
1 CAGGTCCCTTTGCTGTGTGCAAGG-TAAGCCTTACAGTTTAC
* *
11060583 CTAGG-CTCCTCTGCTTTGTGCACAGGTTAAGCCTTAC
1 C-AGGTC-CCTTTGCTGTGTGCA-AGG-TAAGCCTTAC
11060620 TGGTGTATAG
Statistics
Matches: 266, Mismatches: 11, Indels: 20
0.90 0.04 0.07
Matches are distributed among these distances:
39 2 0.01
40 19 0.07
41 18 0.07
42 174 0.65
43 41 0.15
44 12 0.05
ACGTcount: A:0.18, C:0.25, G:0.25, T:0.31
Consensus pattern (41 bp):
CAGGTCCCTTTGCTGTGTGCAAGGTAAGCCTTACAGTTTAC
Found at i:11060431 original size:84 final size:84
Alignment explanation
Indices: 11060290--11060619 Score: 542
Period size: 84 Copynumber: 3.9 Consensus size: 84
11060280 GAAGTATTAT
11060290 CAGGTCCCTTTGCTGTGTGCGAAGGTAAGCCTTACAGTTTACCAGGTCCCTTTGCTGTGTGCAAG
1 CAGGTCCCTTTGCTGTGTGCGAAGGTAAGCCTTACAGTTTACCAGGTCCCTTTGCTGTGTGCAAG
11060355 GGTAAGCCTTACAGTTTCC
66 GGTAAGCCTTACAGTTTCC
11060374 CAGGTCCCTTTGCTGTGTGCGAAGGTAAGCCTTACAGTTTACCAGGTCCCTTTGCTGTGTGCAAG
1 CAGGTCCCTTTGCTGTGTGCGAAGGTAAGCCTTACAGTTTACCAGGTCCCTTTGCTGTGTGCAAG
11060439 GGTAAGCCTTACAGTTTCC
66 GGTAAGCCTTACAGTTTCC
11060458 CAGGTCCCTTTGCTGTGTGCGAAGGTAAGCCTTACAGTTTACCAGGTCCCTTTGCTGTGTGCAAA
1 CAGGTCCCTTTGCTGTGTGCGAAGGTAAGCCTTACAGTTTACCAGGTCCCTTTGCTGTGTGC-AA
11060523 GGGTAAGCCTTACAGTTTCC
65 GGGTAAGCCTTACAGTTTCC
* * * *
11060543 CAGGTCCCTTTGC--TGTGC-AAGGATAAACCTTACAGTTTTCCTAGG-CTCCTCTGCTTTGTGC
1 CAGGTCCCTTTGCTGTGTGCGAAGG-TAAGCCTTACAGTTTACC-AGGTC-CCTTTGCTGTGTGC
*
11060604 ACAGGTTAAGCCTTAC
63 A-AGGGTAAGCCTTAC
11060620 TGGTGTATAG
Statistics
Matches: 236, Mismatches: 5, Indels: 10
0.94 0.02 0.04
Matches are distributed among these distances:
82 4 0.02
83 23 0.10
84 174 0.74
85 35 0.15
ACGTcount: A:0.18, C:0.25, G:0.25, T:0.31
Consensus pattern (84 bp):
CAGGTCCCTTTGCTGTGTGCGAAGGTAAGCCTTACAGTTTACCAGGTCCCTTTGCTGTGTGCAAG
GGTAAGCCTTACAGTTTCC
Found at i:11064137 original size:21 final size:22
Alignment explanation
Indices: 11064111--11064172 Score: 81
Period size: 23 Copynumber: 2.8 Consensus size: 22
11064101 CATTCATTAG
11064111 AGAAGAAAAAAAAGAAAAAAGA
1 AGAAGAAAAAAAAGAAAAAAGA
*
11064133 A-AAGAAAAAAGAAGTGAAAAAGA
1 AGAAGAAAAAA-AAG-AAAAAAGA
*
11064156 AGAAGAAAAAAGAGAAA
1 AGAAGAAAAAAAAGAAA
11064173 TTGAATCCAG
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
21 9 0.26
22 6 0.18
23 10 0.29
24 9 0.26
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (22 bp):
AGAAGAAAAAAAAGAAAAAAGA
Found at i:11064140 original size:11 final size:12
Alignment explanation
Indices: 11064111--11064168 Score: 66
Period size: 12 Copynumber: 4.8 Consensus size: 12
11064101 CATTCATTAG
11064111 AGAAGAAAA-AAA
1 AGAA-AAAAGAAA
11064123 AGAAAAAAGAAA
1 AGAAAAAAGAAA
*
11064135 AGAAAAAAGAAG
1 AGAAAAAAGAAA
*
11064147 TG-AAAAAGAAGA
1 AGAAAAAAGAA-A
11064159 AGAAAAAAGA
1 AGAAAAAAGA
11064169 GAAATTGAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
11 12 0.31
12 20 0.51
13 7 0.18
ACGTcount: A:0.78, C:0.00, G:0.21, T:0.02
Consensus pattern (12 bp):
AGAAAAAAGAAA
Found at i:11065738 original size:41 final size:40
Alignment explanation
Indices: 11065662--11065803 Score: 105
Period size: 41 Copynumber: 3.5 Consensus size: 40
11065652 TCAACTTGGA
* * *
11065662 ATGTTGGAGTATTTTAAAGGCCCATTTTAACCAGAAATAGA-
1 ATGTTGG-GCATTTTGAAGGCCCATTTCAACCAGAAAT-GAT
**
11065703 ATGTTGTGGCATTTTGAAGGCCCATTTCAGTCAGAAATGATCT
1 ATGTTG-GGCATTTTGAAGGCCCATTTCAACCAGAAATGA--T
* * **
11065746 ATGTTGGGCATTGTGAAGGCTCACATCAA-CATGAAA--A-
1 ATGTTGGGCATTTTGAAGGCCCATTTCAACCA-GAAATGAT
11065783 ATGTTGGGGCATTTTGAAGGC
1 ATGTT-GGGCATTTTGAAGGC
11065804 TCACATTAAC
Statistics
Matches: 84, Mismatches: 11, Indels: 15
0.76 0.10 0.14
Matches are distributed among these distances:
37 5 0.06
38 14 0.17
40 3 0.04
41 33 0.39
42 23 0.27
43 6 0.07
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (40 bp):
ATGTTGGGCATTTTGAAGGCCCATTTCAACCAGAAATGAT
Found at i:11065840 original size:40 final size:38
Alignment explanation
Indices: 11065751--11065840 Score: 92
Period size: 38 Copynumber: 2.3 Consensus size: 38
11065741 GATCTATGTT
* * *
11065751 GGGCAT-TGTGAAGGCTCACATCAACATGAAAAATGTTG
1 GGGCATGT-TGAAGGCTCACATCAACAAGAAAAATGCTA
* *
11065789 GGGCATTTTGAAGGCTCACATTAACAAGAAGCAAATGCTA
1 GGGCATGTTGAAGGCTCACATCAACAAGAA--AAATGCTA
*
11065829 GGGTATGTTGAA
1 GGGCATGTTGAA
11065841 AGCCCCTATC
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
38 26 0.60
39 1 0.02
40 16 0.37
ACGTcount: A:0.34, C:0.14, G:0.27, T:0.24
Consensus pattern (38 bp):
GGGCATGTTGAAGGCTCACATCAACAAGAAAAATGCTA
Found at i:11066747 original size:119 final size:119
Alignment explanation
Indices: 11066550--11066786 Score: 384
Period size: 119 Copynumber: 2.0 Consensus size: 119
11066540 CCGGGTTATC
* * * *
11066550 TGTAAAACCTCAGGGTAGGATGTTTTCTTATGAAAATGAGAAAATGATTTTCAAAGTTTCTCATT
1 TGTAAAACCTCAAGGTAGGATGTTTTCATATGAAAATGAGAAAACGATTTTCAAAGTTTATCATT
* *
11066615 TAATGTTCTAGAAAATTAAATCCTCCGGGTAATTTATAAAACCTCTAGGTCATA
66 TAATGTTCAAGAAAATTAAATCCCCCGGGTAATTTATAAAACCTCTAGGTCATA
*
11066669 TGTAAAACCTCAAGGTAGGATGTTTTCATATGAAAATGAGAAAGCGATTTTCAAAGTTTATCATT
1 TGTAAAACCTCAAGGTAGGATGTTTTCATATGAAAATGAGAAAACGATTTTCAAAGTTTATCATT
* * *
11066734 TAATGTTCAAGAAAATTAAATCCCCCGGGTGATTTGTAAAACCTCTGGGTCAT
66 TAATGTTCAAGAAAATTAAATCCCCCGGGTAATTTATAAAACCTCTAGGTCAT
11066787 CTATAAATCC
Statistics
Matches: 108, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
119 108 1.00
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (119 bp):
TGTAAAACCTCAAGGTAGGATGTTTTCATATGAAAATGAGAAAACGATTTTCAAAGTTTATCATT
TAATGTTCAAGAAAATTAAATCCCCCGGGTAATTTATAAAACCTCTAGGTCATA
Found at i:11066783 original size:20 final size:20
Alignment explanation
Indices: 11066760--11066838 Score: 88
Period size: 20 Copynumber: 4.0 Consensus size: 20
11066750 TAAATCCCCC
11066760 GGGTGATTTGTAAAACCTCT
1 GGGTGATTTGTAAAACCTCT
* * * *
11066780 GGGTCATCTATAAATCCT-T
1 GGGTGATTTGTAAAACCTCT
* *
11066799 CGGGTAATTTGTAAATCCTCT
1 -GGGTGATTTGTAAAACCTCT
11066820 GGGTGATTTGTAAAACCTC
1 GGGTGATTTGTAAAACCTC
11066839 CAGGTTATCT
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
19 1 0.02
20 46 0.96
21 1 0.02
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (20 bp):
GGGTGATTTGTAAAACCTCT
Found at i:11066849 original size:60 final size:60
Alignment explanation
Indices: 11066750--11066898 Score: 183
Period size: 60 Copynumber: 2.5 Consensus size: 60
11066740 TCAAGAAAAT
* ** ** *
11066750 TAAATCCCCCGGGTGATTTGTAAAACCTCTGGGTCATCTATAAATCCTTCGGGTAATTTG
1 TAAATCCTCCGGGTGATTTGTAAAACCTCCAGGTCATCTATAAATCCACCGGGTAATATG
* *
11066810 TAAATCCTCTGGGTGATTTGTAAAACCTCCAGGTTATCTATAAATCCACCGGGTAATATG
1 TAAATCCTCCGGGTGATTTGTAAAACCTCCAGGTCATCTATAAATCCACCGGGTAATATG
* * *
11066870 TCAAA-CCTCCAGGTCATCTGTAAAACCTC
1 T-AAATCCTCCGGGTGATTTGTAAAACCTC
11066899 TGGGTATGAT
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
60 73 0.96
61 3 0.04
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.31
Consensus pattern (60 bp):
TAAATCCTCCGGGTGATTTGTAAAACCTCCAGGTCATCTATAAATCCACCGGGTAATATG
Found at i:11066853 original size:20 final size:20
Alignment explanation
Indices: 11066768--11066898 Score: 73
Period size: 20 Copynumber: 6.5 Consensus size: 20
11066758 CCGGGTGATT
** *
11066768 TGTAAAACCTCTGGGTCATC
1 TGTAAAACCTCCAGGTAATC
* * * * *
11066788 TATAAATCCTTCGGGTAATT
1 TGTAAAACCTCCAGGTAATC
* ** * *
11066808 TGTAAATCCTCTGGGTGATT
1 TGTAAAACCTCCAGGTAATC
*
11066828 TGTAAAACCTCCAGGTTATC
1 TGTAAAACCTCCAGGTAATC
* * * * *
11066848 TATAAATCCACCGGGTAATA
1 TGTAAAACCTCCAGGTAATC
* *
11066868 TGTCAAACCTCCAGGTCATC
1 TGTAAAACCTCCAGGTAATC
11066888 TGTAAAACCTC
1 TGTAAAACCTC
11066899 TGGGTATGAT
Statistics
Matches: 82, Mismatches: 29, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 82 1.00
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (20 bp):
TGTAAAACCTCCAGGTAATC
Found at i:11066854 original size:40 final size:40
Alignment explanation
Indices: 11066810--11066904 Score: 118
Period size: 40 Copynumber: 2.4 Consensus size: 40
11066800 GGGTAATTTG
* * *
11066810 TAAATCCTCTGGGTGATTTGTAAAACCTCCAGGTTATCTA
1 TAAATCCTCTGGGTAATATGTAAAACCTCCAGGTCATCTA
* * * *
11066850 TAAATCCACCGGGTAATATGTCAAACCTCCAGGTCATCTG
1 TAAATCCTCTGGGTAATATGTAAAACCTCCAGGTCATCTA
*
11066890 TAAAACCTCTGGGTA
1 TAAATCCTCTGGGTA
11066905 TGATGTTTTT
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.29
Consensus pattern (40 bp):
TAAATCCTCTGGGTAATATGTAAAACCTCCAGGTCATCTA
Found at i:11067125 original size:3 final size:3
Alignment explanation
Indices: 11067050--11067106 Score: 80
Period size: 3 Copynumber: 19.0 Consensus size: 3
11067040 AGTTTGCATA
* *
11067050 TAT TAT TAT TAT TAC TA- TAT TAT TAC TAT TATT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT
11067095 TAT TAT TAT TAT
1 TAT TAT TAT TAT
11067107 ATATGAATAT
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
2 2 0.04
3 44 0.90
4 3 0.06
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:11067850 original size:20 final size:17
Alignment explanation
Indices: 11067827--11067876 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 17
11067817 AGCGGTGGTC
11067827 AATAGTGACCGACGGCAGTG
1 AATAGTGACCGAC-G--GTG
11067847 AATAGTGACAC-ACGGTG
1 AATAGTGAC-CGACGGTG
11067864 AATAGTGACCGAC
1 AATAGTGACCGAC
11067877 AGTGGCCAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
16 1 0.04
17 14 0.50
19 1 0.04
20 11 0.39
21 1 0.04
ACGTcount: A:0.34, C:0.20, G:0.30, T:0.16
Consensus pattern (17 bp):
AATAGTGACCGACGGTG
Found at i:11067955 original size:18 final size:18
Alignment explanation
Indices: 11067933--11067979 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
11067923 TCCCTCCGAT
11067933 GAGGGAGTTTAGAGAGAA
1 GAGGGAGTTTAGAGAGAA
*
11067951 TAGGGAGTTTAGAGAGAA
1 GAGGGAGTTTAGAGAGAA
11067969 GAGGGAGTTTA
1 GAGGGAGTTTA
11067980 TCTCTCTCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.36, C:0.00, G:0.43, T:0.21
Consensus pattern (18 bp):
GAGGGAGTTTAGAGAGAA
Found at i:11070463 original size:5 final size:5
Alignment explanation
Indices: 11070453--11070481 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
11070443 AAAGATAAAT
11070453 ATTAG ATTAG ATTAG ATTAG ATTAG ATTA
1 ATTAG ATTAG ATTAG ATTAG ATTAG ATTA
11070482 TTTAATCCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.17, T:0.41
Consensus pattern (5 bp):
ATTAG
Found at i:11071879 original size:16 final size:16
Alignment explanation
Indices: 11071858--11071915 Score: 80
Period size: 16 Copynumber: 3.6 Consensus size: 16
11071848 ACTTGACCCA
* * *
11071858 TTGACTTTAATTAAAG
1 TTGACTTTGATCAACG
*
11071874 TTGACTTTGACCAACG
1 TTGACTTTGATCAACG
11071890 TTGACTTTGATCAACG
1 TTGACTTTGATCAACG
11071906 TTGACTTTGA
1 TTGACTTTGA
11071916 CCAAAATTTG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.40
Consensus pattern (16 bp):
TTGACTTTGATCAACG
Found at i:11071909 original size:32 final size:32
Alignment explanation
Indices: 11071858--11071919 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
11071848 ACTTGACCCA
*
11071858 TTGACTTTAATTAAAGTTGACTTTGACCAACG
1 TTGACTTTAATCAAAGTTGACTTTGACCAACG
* *
11071890 TTGACTTTGATCAACGTTGACTTTGACCAA
1 TTGACTTTAATCAAAGTTGACTTTGACCAA
11071920 AATTTGACTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (32 bp):
TTGACTTTAATCAAAGTTGACTTTGACCAACG
Found at i:11079406 original size:21 final size:21
Alignment explanation
Indices: 11079379--11079458 Score: 79
Period size: 21 Copynumber: 3.7 Consensus size: 21
11079369 TTGTGCATAA
11079379 TGCATCGATACACTATGAAGG
1 TGCATCGATACACTATGAAGG
* * *
11079400 GGCATCGATGCATCCCTATGAATG
1 TGCATCGAT--A-CACTATGAAGG
*
11079424 TGCATCGATACACCATGAAGG
1 TGCATCGATACACTATGAAGG
* *
11079445 TGCACCGATGCACT
1 TGCATCGATACACT
11079459 CCTTGAATGT
Statistics
Matches: 46, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
21 27 0.59
22 1 0.02
23 1 0.02
24 17 0.37
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.23
Consensus pattern (21 bp):
TGCATCGATACACTATGAAGG
Found at i:11079443 original size:45 final size:44
Alignment explanation
Indices: 11079379--11079473 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 44
11079369 TTGTGCATAA
* *
11079379 TGCATCGATACACTATGAAGGGGCATCGATGCA-TCCCTATGAATG
1 TGCATCGATACACCATGAAGGGGCACCGATGCACT-CCT-TGAATG
*
11079424 TGCATCGATACACCATGAAGGTGCACCGATGCACTCCTTGAATG
1 TGCATCGATACACCATGAAGGGGCACCGATGCACTCCTTGAATG
11079468 TGCATC
1 TGCATC
11079474 AATGCACTCA
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
44 12 0.26
45 33 0.72
46 1 0.02
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.24
Consensus pattern (44 bp):
TGCATCGATACACCATGAAGGGGCACCGATGCACTCCTTGAATG
Found at i:11079470 original size:23 final size:23
Alignment explanation
Indices: 11079401--11079482 Score: 80
Period size: 23 Copynumber: 3.6 Consensus size: 23
11079391 CTATGAAGGG
11079401 GCATCGATGCA-TCCCTATGAATGT
1 GCATCGATGCACT-CCT-TGAATGT
* * *
11079425 GCATCGAT--ACACCATGAAGGT
1 GCATCGATGCACTCCTTGAATGT
*
11079446 GCACCGATGCACTCCTTGAATGT
1 GCATCGATGCACTCCTTGAATGT
*
11079469 GCATCAATGCACTC
1 GCATCGATGCACTC
11079483 AGCAGTGCAT
Statistics
Matches: 46, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
21 13 0.28
22 3 0.07
23 22 0.48
24 8 0.17
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (23 bp):
GCATCGATGCACTCCTTGAATGT
Found at i:11081488 original size:27 final size:27
Alignment explanation
Indices: 11081440--11081497 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
11081430 ACTTTGAATG
* * *
11081440 TTTGAACTTATATTTATATATTTGGTT
1 TTTGAACTTATATTGATATATTAGATT
* *
11081467 TTTGAACTTATATTGGTTTATTAGATT
1 TTTGAACTTATATTGATATATTAGATT
11081494 TTTG
1 TTTG
11081498 CATCATTTAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.24, C:0.03, G:0.14, T:0.59
Consensus pattern (27 bp):
TTTGAACTTATATTGATATATTAGATT
Found at i:11084058 original size:53 final size:53
Alignment explanation
Indices: 11083978--11084084 Score: 205
Period size: 53 Copynumber: 2.0 Consensus size: 53
11083968 ACTAACGTAA
11083978 CAAAATGGTAATTCACAAACTCATTATGAATACCATGAATGCACACATAGTGC
1 CAAAATGGTAATTCACAAACTCATTATGAATACCATGAATGCACACATAGTGC
*
11084031 CAAAATGGTAATTCACAAACTCATTATGAATACCATGGATGCACACATAGTGC
1 CAAAATGGTAATTCACAAACTCATTATGAATACCATGAATGCACACATAGTGC
11084084 C
1 C
11084085 GAAAGTACAC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.24
Consensus pattern (53 bp):
CAAAATGGTAATTCACAAACTCATTATGAATACCATGAATGCACACATAGTGC
Found at i:11084640 original size:29 final size:29
Alignment explanation
Indices: 11084571--11084628 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
11084561 CACATACAAT
11084571 ATAAAATACAATGTTAGTATACTTTCTAA
1 ATAAAATACAATGTTAGTATACTTTCTAA
*
11084600 ATAAAAAACAATGTTAGTATACTTTCTAA
1 ATAAAATACAATGTTAGTATACTTTCTAA
11084629 CATTTATACA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.36
Consensus pattern (29 bp):
ATAAAATACAATGTTAGTATACTTTCTAA
Found at i:11085779 original size:158 final size:160
Alignment explanation
Indices: 11085491--11085809 Score: 615
Period size: 158 Copynumber: 2.0 Consensus size: 160
11085481 GAGTAAAAAA
11085491 ACAAAGTTCTAGCCTAATCCTTTTTCCTTATTTATCACTTAAATAATATCTTTAGAAATGAATAT
1 ACAAAGTTCTAGCCTAATCCTTTTTCCTTATTTATCACTTAAATAATATCTTTAGAAATGAATAT
11085556 TAAATTCATTTCCTGTTAAAAGATTATAATACCCTCTATTCTTTCGTCCTTACTAATAAGTCTTA
66 TAAATTCATTTCCTGTTAAAAGATTATAATACCCTCTATTCTTTCGTCCTTACTAATAAGTCTTA
11085621 ATCTCAATTTCC-AAA-AGTCCTTGTACTT
131 ATCTCAATTTCCAAAATAGTCCTTGTACTT
11085649 ACAAAGTTCTAGCCTAATCCTTTTTCCTTATTTATCACTTAAATAATATCTTTAGAAATGAATAT
1 ACAAAGTTCTAGCCTAATCCTTTTTCCTTATTTATCACTTAAATAATATCTTTAGAAATGAATAT
11085714 TAAATTCATTTCCTGTTAAAAGATTATAATACCCTCTATTCTTTCGTCCTTACTAATAAGTCTTA
66 TAAATTCATTTCCTGTTAAAAGATTATAATACCCTCTATTCTTTCGTCCTTACTAATAAGTCTTA
11085779 ATCTCAATTTCCAAAATTAGTCCTTGTACTT
131 ATCTCAATTTCCAAAA-TAGTCCTTGTACTT
11085810 TTCAATTTAT
Statistics
Matches: 158, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
158 142 0.90
159 3 0.02
161 13 0.08
ACGTcount: A:0.32, C:0.19, G:0.06, T:0.42
Consensus pattern (160 bp):
ACAAAGTTCTAGCCTAATCCTTTTTCCTTATTTATCACTTAAATAATATCTTTAGAAATGAATAT
TAAATTCATTTCCTGTTAAAAGATTATAATACCCTCTATTCTTTCGTCCTTACTAATAAGTCTTA
ATCTCAATTTCCAAAATAGTCCTTGTACTT
Found at i:11086606 original size:46 final size:46
Alignment explanation
Indices: 11086547--11086638 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
11086537 ATGGATCATT
11086547 GGATTTGAAGATTTATTTCCATGTTAAATTTGGACCGTTGGATTAA
1 GGATTTGAAGATTTATTTCCATGTTAAATTTGGACCGTTGGATTAA
*
11086593 GGATTTGAAGATTTATTTCCATGTTAAATTTGGATCGTTGGATTAA
1 GGATTTGAAGATTTATTTCCATGTTAAATTTGGACCGTTGGATTAA
11086639 AGTGACAAGA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.28, C:0.08, G:0.22, T:0.42
Consensus pattern (46 bp):
GGATTTGAAGATTTATTTCCATGTTAAATTTGGACCGTTGGATTAA
Found at i:11088419 original size:21 final size:21
Alignment explanation
Indices: 11088394--11088473 Score: 90
Period size: 21 Copynumber: 3.7 Consensus size: 21
11088384 TTTTTCTAAG
11088394 AGTACTTTGTGTACTTGGAGT
1 AGTACTTTGTGTACTTGGAGT
11088415 AGTACTTTGTGTACTATGGTAAG-
1 AGTACTTTGTGTACT-TGG--AGT
* * **
11088438 AATATTTTGTGTACTTATAGT
1 AGTACTTTGTGTACTTGGAGT
11088459 AGTACTTTGTGTACT
1 AGTACTTTGTGTACT
11088474 ATGACACTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
20 2 0.04
21 28 0.57
22 4 0.08
23 13 0.27
24 2 0.04
ACGTcount: A:0.24, C:0.09, G:0.23, T:0.45
Consensus pattern (21 bp):
AGTACTTTGTGTACTTGGAGT
Found at i:11088453 original size:44 final size:44
Alignment explanation
Indices: 11088390--11088476 Score: 138
Period size: 44 Copynumber: 2.0 Consensus size: 44
11088380 TGCATTTTTC
* *
11088390 TAAGAGTACTTTGTGTACTTGGAGTAGTACTTTGTGTACTATGG
1 TAAGAATACTTTGTGTACTTAGAGTAGTACTTTGTGTACTATGG
* *
11088434 TAAGAATATTTTGTGTACTTATAGTAGTACTTTGTGTACTATG
1 TAAGAATACTTTGTGTACTTAGAGTAGTACTTTGTGTACTATG
11088477 ACACTTTGTG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.25, C:0.08, G:0.23, T:0.44
Consensus pattern (44 bp):
TAAGAATACTTTGTGTACTTAGAGTAGTACTTTGTGTACTATGG
Found at i:11089125 original size:49 final size:49
Alignment explanation
Indices: 11089067--11089167 Score: 202
Period size: 49 Copynumber: 2.1 Consensus size: 49
11089057 ATTTATAGAA
11089067 ACAAAATTTTACTGGTTTTCAAATGCGAAAATGTTTTAAAAGTCATGTG
1 ACAAAATTTTACTGGTTTTCAAATGCGAAAATGTTTTAAAAGTCATGTG
11089116 ACAAAATTTTACTGGTTTTCAAATGCGAAAATGTTTTAAAAGTCATGTG
1 ACAAAATTTTACTGGTTTTCAAATGCGAAAATGTTTTAAAAGTCATGTG
11089165 ACA
1 ACA
11089168 TCTGTGACTC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 52 1.00
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (49 bp):
ACAAAATTTTACTGGTTTTCAAATGCGAAAATGTTTTAAAAGTCATGTG
Found at i:11094410 original size:53 final size:53
Alignment explanation
Indices: 11094348--11094457 Score: 184
Period size: 53 Copynumber: 2.1 Consensus size: 53
11094338 CTAAGGTATT
*
11094348 GAAATGGTAATTCACAAACTCATTGTGAATACCATGAATGCACACATAGTGCC
1 GAAATGGTAATTCACAAACTCATTATGAATACCATGAATGCACACATAGTGCC
* * *
11094401 GAAATGGTAATTCACAAACTCATTATGAATATCATGGATGCACACATAGTGTC
1 GAAATGGTAATTCACAAACTCATTATGAATACCATGAATGCACACATAGTGCC
11094454 GAAA
1 GAAA
11094458 GTACACATAG
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.25
Consensus pattern (53 bp):
GAAATGGTAATTCACAAACTCATTATGAATACCATGAATGCACACATAGTGCC
Found at i:11096269 original size:3 final size:3
Alignment explanation
Indices: 11096261--11096291 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
11096251 TTTTATGTTA
11096261 AAT AAT AAT AAAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT
11096292 GCCACATCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:11097538 original size:17 final size:17
Alignment explanation
Indices: 11097507--11097539 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
11097497 AAATATTAGT
11097507 TTATTATTTATTTTAAA
1 TTATTATTTATTTTAAA
11097524 TTATT-TTTATATTTAA
1 TTATTATTTAT-TTTAA
11097540 TAATAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTATTATTTATTTTAAA
Found at i:11107777 original size:51 final size:51
Alignment explanation
Indices: 11107718--11107912 Score: 248
Period size: 51 Copynumber: 3.8 Consensus size: 51
11107708 AGATGTACAT
*
11107718 ACTTACACCAGTGTAAGTATGTGTTAAGTGTTACACTTTTTTATTTTATTT
1 ACTTACACCAGTGTAAGTATGTGTTAAGTGTTACACTTTTTTATTTTATTC
* * * *
11107769 ACTTACACCGGTGAAAGTATGTGTTAAGTGTTATATTTTTTTTATTTTATTC
1 ACTTACACCAGTGTAAGTATGTGTTAAGTGTTACA-CTTTTTTATTTTATTC
* * * *
11107821 ATTTACACCAGTGT-AGTATGTGTTAAGTGATACACTTGTTTATTTTATCC
1 ACTTACACCAGTGTAAGTATGTGTTAAGTGTTACACTTTTTTATTTTATTC
* * * * *
11107871 ACTTACATCGGTGTAAATATGTGTTAAGTGCTACATTTTTTT
1 ACTTACACCAGTGTAAGTATGTGTTAAGTGTTACACTTTTTT
11107913 GTAGTATGAA
Statistics
Matches: 122, Mismatches: 20, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
50 24 0.20
51 73 0.60
52 25 0.20
ACGTcount: A:0.26, C:0.12, G:0.15, T:0.47
Consensus pattern (51 bp):
ACTTACACCAGTGTAAGTATGTGTTAAGTGTTACACTTTTTTATTTTATTC
Found at i:11107909 original size:102 final size:103
Alignment explanation
Indices: 11107720--11107912 Score: 300
Period size: 102 Copynumber: 1.9 Consensus size: 103
11107710 ATGTACATAC
* * **
11107720 TTACACCAGTGTAAGTATGTGTTAAGTGTTACACTTTTTTATTTTATTTACTTACACCGGTGAAA
1 TTACACCAGTGTAAGTATGTGTTAAGTGATACACTTGTTTATTTTATCCACTTACACCGGTGAAA
* *
11107785 GTATGTGTTAAGTGTTATATTTTTTTTATTTTATTCAT
66 GTATGTGTTAAGTGCTACATTTTTTTTATTTTATTCAT
*
11107823 TTACACCAGTGT-AGTATGTGTTAAGTGATACACTTGTTTATTTTATCCACTTACATCGGTGTAA
1 TTACACCAGTGTAAGTATGTGTTAAGTGATACACTTGTTTATTTTATCCACTTACACCGGTG-AA
11107887 A-TATGTGTTAAGTGCTACATTTTTTT
65 AGTATGTGTTAAGTGCTACATTTTTTT
11107913 GTAGTATGAA
Statistics
Matches: 82, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
102 67 0.82
103 15 0.18
ACGTcount: A:0.25, C:0.11, G:0.16, T:0.48
Consensus pattern (103 bp):
TTACACCAGTGTAAGTATGTGTTAAGTGATACACTTGTTTATTTTATCCACTTACACCGGTGAAA
GTATGTGTTAAGTGCTACATTTTTTTTATTTTATTCAT
Found at i:11109961 original size:24 final size:25
Alignment explanation
Indices: 11109914--11109964 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
11109904 TTCAAAGTTT
11109914 AATATGATCAAACAAAAACTATGGA
1 AATATGATCAAACAAAAACTATGGA
* *
11109939 AATATGGTCAAAC-GAAACTATGGA
1 AATATGATCAAACAAAAACTATGGA
11109963 AA
1 AA
11109965 GACTCATAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 12 0.50
25 12 0.50
ACGTcount: A:0.53, C:0.12, G:0.16, T:0.20
Consensus pattern (25 bp):
AATATGATCAAACAAAAACTATGGA
Found at i:11114046 original size:39 final size:38
Alignment explanation
Indices: 11114003--11114117 Score: 122
Period size: 39 Copynumber: 2.9 Consensus size: 38
11113993 ACCTTATTGC
* *
11114003 AGACTCCTCTTCTTTGTGCATGAGGTAAGTCCTTACCGT
1 AGACTCCTCTGCTTTGTGCA-AAGGTAAGTCCTTACCGT
* **
11114042 AGACTCCTATGCTTTGTGCACATTGTAAGTCCTTACCGT
1 AGACTCCTCTGCTTTGTGCA-AAGGTAAGTCCTTACCGT
* * * *
11114081 AGGCTCCGCTGCTTTATGCACAAGGTAAGTTCTTACC
1 AGACTCCTCTGCTTTGTGCA-AAGGTAAGTCCTTACC
11114118 CCAAGCCCTT
Statistics
Matches: 63, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 63 1.00
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.34
Consensus pattern (38 bp):
AGACTCCTCTGCTTTGTGCAAAGGTAAGTCCTTACCGT
Found at i:11118831 original size:20 final size:20
Alignment explanation
Indices: 11118802--11118882 Score: 110
Period size: 20 Copynumber: 4.0 Consensus size: 20
11118792 AACAGAATGT
11118802 CCAGGGGGTACAGATTCCCC
1 CCAGGGGGTACAGATTCCCC
*
11118822 CC-GAGGGGTACCGATTCCCC
1 CCAG-GGGGTACAGATTCCCC
* *
11118842 CTAGGGGGAACAGATTCCCC
1 CCAGGGGGTACAGATTCCCC
*
11118862 CCAGGGGGTACTGATTCCCC
1 CCAGGGGGTACAGATTCCCC
11118882 C
1 C
11118883 TGTCTAATGG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
19 1 0.02
20 50 0.96
21 1 0.02
ACGTcount: A:0.19, C:0.36, G:0.30, T:0.16
Consensus pattern (20 bp):
CCAGGGGGTACAGATTCCCC
Found at i:11118848 original size:40 final size:40
Alignment explanation
Indices: 11118804--11118883 Score: 126
Period size: 40 Copynumber: 2.0 Consensus size: 40
11118794 CAGAATGTCC
*
11118804 AGGGGGTACAGATTCCCCCC-GAGGGGTACCGATTCCCCCT
1 AGGGGGAACAGATTCCCCCCAG-GGGGTACCGATTCCCCCT
*
11118844 AGGGGGAACAGATTCCCCCCAGGGGGTACTGATTCCCCCT
1 AGGGGGAACAGATTCCCCCCAGGGGGTACCGATTCCCCCT
11118884 GTCTAATGGT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 36 0.97
41 1 0.03
ACGTcount: A:0.19, C:0.34, G:0.30, T:0.17
Consensus pattern (40 bp):
AGGGGGAACAGATTCCCCCCAGGGGGTACCGATTCCCCCT
Found at i:11122145 original size:19 final size:19
Alignment explanation
Indices: 11122121--11122259 Score: 100
Period size: 19 Copynumber: 7.7 Consensus size: 19
11122111 GAATGTCCAG
11122121 GGGGTACAGATTCCCCCCA
1 GGGGTACAGATTCCCCCCA
**
11122140 GGGGTACCTATTCCCCCCA
1 GGGGTACAGATTCCCCCCA
* *
11122159 GGGGGAACAGATT-CCCCAA
1 -GGGGTACAGATTCCCCCCA
11122178 GGGGT---G--T----CCA
1 GGGGTACAGATTCCCCCCA
11122188 GGGGTACAGATTCCCCCCA
1 GGGGTACAGATTCCCCCCA
**
11122207 GGGGTACCTATTCCCCCCA
1 GGGGTACAGATTCCCCCCA
* *
11122226 GGGGGAACAGATTCCCCTCAA
1 -GGGGTACAGATTCCCC-CCA
*
11122247 GGGGTACCGATTC
1 GGGGTACAGATTC
11122260 TCTCCTGTCT
Statistics
Matches: 92, Mismatches: 16, Indels: 23
0.70 0.12 0.18
Matches are distributed among these distances:
10 7 0.08
13 2 0.02
15 2 0.02
18 4 0.04
19 42 0.46
20 33 0.36
21 2 0.02
ACGTcount: A:0.21, C:0.33, G:0.29, T:0.17
Consensus pattern (19 bp):
GGGGTACAGATTCCCCCCA
Found at i:11122197 original size:67 final size:70
Alignment explanation
Indices: 11122114--11122251 Score: 255
Period size: 67 Copynumber: 2.0 Consensus size: 70
11122104 GAAAACAGAA
11122114 TGTCCAGGGGGTACAGATTCCCCCCAGGGGTACCTATTCCCCCCAGGGGGAACAGATT-CCC-CA
1 TGTCCAGGGGGTACAGATTCCCCCCAGGGGTACCTATTCCCCCCAGGGGGAACAGATTCCCCTCA
11122177 AGGGG
66 AGGGG
11122182 TGTCCA-GGGGTACAGATTCCCCCCAGGGGTACCTATTCCCCCCAGGGGGAACAGATTCCCCTCA
1 TGTCCAGGGGGTACAGATTCCCCCCAGGGGTACCTATTCCCCCCAGGGGGAACAGATTCCCCTCA
11122246 AGGGG
66 AGGGG
11122251 T
1 T
11122252 ACCGATTCTC
Statistics
Matches: 68, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
67 51 0.75
68 9 0.13
69 8 0.12
ACGTcount: A:0.20, C:0.33, G:0.30, T:0.17
Consensus pattern (70 bp):
TGTCCAGGGGGTACAGATTCCCCCCAGGGGTACCTATTCCCCCCAGGGGGAACAGATTCCCCTCA
AGGGG
Found at i:11122630 original size:34 final size:32
Alignment explanation
Indices: 11122591--11122660 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
11122581 TTTTGTAAAG
*
11122591 GGGAAAGGTTATAGCTTAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTATAGCTTAGCCCG-G-AAAAACTA
* *
11122625 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTATAGCTTAGCCCGGAAAAACTA
11122657 GGGA
1 GGGA
11122661 GTTTGTAAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 11 0.33
33 1 0.03
34 21 0.64
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.21
Consensus pattern (32 bp):
GGGAAAGGTTATAGCTTAGCCCGGAAAAACTA
Found at i:11125652 original size:21 final size:21
Alignment explanation
Indices: 11125628--11125669 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
11125618 ATCAGATTGT
11125628 CCAAGGGGTACAAATTCCCCC
1 CCAAGGGGTACAAATTCCCCC
11125649 CCAAGGGGTACAAATTCCCCC
1 CCAAGGGGTACAAATTCCCCC
11125670 TGTGGGTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.38, G:0.19, T:0.14
Consensus pattern (21 bp):
CCAAGGGGTACAAATTCCCCC
Found at i:11129358 original size:14 final size:14
Alignment explanation
Indices: 11129339--11129366 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
11129329 AAGTACGAGT
11129339 GTTTTATATCTTAC
1 GTTTTATATCTTAC
11129353 GTTTTATATCTTAC
1 GTTTTATATCTTAC
11129367 TGGAATTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.14, G:0.07, T:0.57
Consensus pattern (14 bp):
GTTTTATATCTTAC
Found at i:11129421 original size:14 final size:15
Alignment explanation
Indices: 11129363--11129425 Score: 83
Period size: 15 Copynumber: 4.3 Consensus size: 15
11129353 GTTTTATATC
**
11129363 TTACTGGAATTTGAA
1 TTACTGGAAAATGAA
11129378 TTACTGGAAAATGAA
1 TTACTGGAAAATGAA
**
11129393 TTACTGGAATTTGAA
1 TTACTGGAAAATGAA
11129408 TT-CTGGAAAATGAA
1 TTACTGGAAAATGAA
11129422 TTAC
1 TTAC
11129426 ATTTCTGTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
14 12 0.29
15 29 0.71
ACGTcount: A:0.38, C:0.08, G:0.19, T:0.35
Consensus pattern (15 bp):
TTACTGGAAAATGAA
Found at i:11129423 original size:29 final size:30
Alignment explanation
Indices: 11129363--11129425 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 30
11129353 GTTTTATATC
11129363 TTACTGGAATTTGAATTACTGGAAAATGAA
1 TTACTGGAATTTGAATTACTGGAAAATGAA
11129393 TTACTGGAATTTGAATT-CTGGAAAATGAA
1 TTACTGGAATTTGAATTACTGGAAAATGAA
11129422 TTAC
1 TTAC
11129426 ATTTCTGTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.38, C:0.08, G:0.19, T:0.35
Consensus pattern (30 bp):
TTACTGGAATTTGAATTACTGGAAAATGAA
Found at i:11129431 original size:20 final size:20
Alignment explanation
Indices: 11129408--11129477 Score: 113
Period size: 20 Copynumber: 3.5 Consensus size: 20
11129398 GGAATTTGAA
11129408 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
* *
11129428 TTCTGTAAAATGAATTATAT
1 TTCTGGAAAATGAATTACAT
*
11129448 TTCTAGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
11129468 TTCTGGAAAA
1 TTCTGGAAAA
11129478 CATCTGGAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.41, C:0.09, G:0.13, T:0.37
Consensus pattern (20 bp):
TTCTGGAAAATGAATTACAT
Found at i:11129685 original size:28 final size:27
Alignment explanation
Indices: 11129644--11129708 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 27
11129634 TTTACTAAAA
* *
11129644 TATTATTGAAATATATAAATAATATTAT
1 TATTATT-AAATATATAAAAAAAATTAT
11129672 TCATTATTAAATATATAAAAAAAATTAT
1 T-ATTATTAAATATATAAAAAAAATTAT
11129700 TATATATTA
1 TAT-TATTA
11129709 TTAAAATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 2 0.06
28 25 0.76
29 6 0.18
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (27 bp):
TATTATTAAATATATAAAAAAAATTAT
Found at i:11129709 original size:31 final size:30
Alignment explanation
Indices: 11129643--11129747 Score: 105
Period size: 29 Copynumber: 3.5 Consensus size: 30
11129633 CTTTACTAAA
11129643 ATATTATTGAAATATAT--AAATAATATTAT
1 ATATTATT-AAATATATAAAAATAATATTAT
*
11129672 -TCATTATTAAATATATAAAAAAAATTATTAT
1 AT-ATTATTAAATATATAAAAATAA-TATTAT
11129703 ATATTATTAAA-ATA-AAAATATAATATCT-T
1 ATATTATTAAATATATAAAA-ATAATAT-TAT
11129732 ATATTATTATAATATA
1 ATATTATTA-AATATA
11129748 ATTGATTATT
Statistics
Matches: 65, Mismatches: 2, Indels: 16
0.78 0.02 0.19
Matches are distributed among these distances:
28 9 0.14
29 23 0.35
30 14 0.22
31 18 0.28
32 1 0.02
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (30 bp):
ATATTATTAAATATATAAAAATAATATTAT
Found at i:11129719 original size:24 final size:23
Alignment explanation
Indices: 11129674--11129733 Score: 61
Period size: 24 Copynumber: 2.7 Consensus size: 23
11129664 AATATTATTC
*
11129674 ATTATTAAATA-TA-TAAAAAAA
1 ATTATTATATATTATTAAAAAAA
11129695 ATTATTATATATTATTAAAATAAA
1 ATTATTATATATTATTAAAA-AAA
* * *
11129719 AATATAATATCTTAT
1 ATTATTATATATTAT
11129734 ATTATTATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 10 0.31
22 2 0.06
23 5 0.16
24 15 0.47
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
ATTATTATATATTATTAAAAAAA
Found at i:11129786 original size:22 final size:23
Alignment explanation
Indices: 11129761--11129804 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
11129751 GATTATTTTA
11129761 TATAATATTAAAAATA-TAATAT
1 TATAATATTAAAAATATTAATAT
* *
11129783 TATATTATTATAAATATTAATA
1 TATAATATTAAAAATATTAATA
11129805 AATATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TATAATATTAAAAATATTAATAT
Found at i:11129809 original size:22 final size:22
Alignment explanation
Indices: 11129765--11129821 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
11129755 ATTTTATATA
* *
11129765 ATATTAAAAATA-TAATATTAT
1 ATATTATAAATATTAATATAAT
11129786 ATTATTATAAATATTAATA-AAT
1 A-TATTATAAATATTAATATAAT
*
11129808 ATATTTTAAATATT
1 ATATTATAAATATT
11129822 TTAATAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 13 0.42
22 13 0.42
23 5 0.16
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATATTATAAATATTAATATAAT
Found at i:11129820 original size:52 final size:51
Alignment explanation
Indices: 11129701--11129821 Score: 133
Period size: 54 Copynumber: 2.3 Consensus size: 51
11129691 AAAAATTATT
**
11129701 ATATATTATTAAA-A-TAAAAATATAATATCTTATATTATTATAATATAATTG
1 ATATATT-TTAAATATTAAAAATATAATA-CTTATATTATTATAATATAATAA
11129752 AT-TATTTTATATAATATTAAAAATATAATA-TTATATTATTATAAATATTAATAA
1 ATATA-TTT-TA-AATATTAAAAATATAATACTTATATTATTAT-AATA-TAATAA
11129806 ATATATTTTAAATATT
1 ATATATTTTAAATATT
11129822 TTAATAATTA
Statistics
Matches: 60, Mismatches: 2, Indels: 15
0.78 0.03 0.19
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 20 0.33
53 7 0.12
54 22 0.37
55 2 0.03
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (51 bp):
ATATATTTTAAATATTAAAAATATAATACTTATATTATTATAATATAATAA
Found at i:11130062 original size:42 final size:42
Alignment explanation
Indices: 11130010--11130129 Score: 222
Period size: 42 Copynumber: 2.9 Consensus size: 42
11130000 ATGAATTACA
* *
11130010 TTCCGAAAAACGAATTACGTGAAACAAACACGGGAAAACGTT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
11130052 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
11130094 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAA
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAA
11130130 TTCGGGGAAA
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 76 1.00
ACGTcount: A:0.45, C:0.19, G:0.20, T:0.16
Consensus pattern (42 bp):
TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
Found at i:11132388 original size:25 final size:26
Alignment explanation
Indices: 11132356--11132405 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
11132346 TTATATTAGG
*
11132356 ATAAATTTATAAAATTATA-AAAAAT
1 ATAAATTTAGAAAATTATAGAAAAAT
*
11132381 ATAAATTTAGAAAATTTTAGAAAAA
1 ATAAATTTAGAAAATTATAGAAAAA
11132406 AAATAATTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (26 bp):
ATAAATTTAGAAAATTATAGAAAAAT
Found at i:11132663 original size:21 final size:21
Alignment explanation
Indices: 11132634--11132678 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
11132624 TGGTAAAAAA
*
11132634 TTACATAAAACATTATTATTT
1 TTACATAAAACATTAATATTT
* *
11132655 TTACCTAAAACATTAATGTTT
1 TTACATAAAACATTAATATTT
11132676 TTA
1 TTA
11132679 ACATTTCCAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.40, C:0.11, G:0.02, T:0.47
Consensus pattern (21 bp):
TTACATAAAACATTAATATTT
Found at i:11139825 original size:82 final size:82
Alignment explanation
Indices: 11139646--11139949 Score: 248
Period size: 82 Copynumber: 3.7 Consensus size: 82
11139636 TAATAGAGTG
* *
11139646 GTAATTTAGCGGCGTTTGT-AACTCAAACGCCGCAATAGA-GTTGTTTATAGTGGCGTTTCTTCA
1 GTAATTTAGCGGCGTTTGTCAA--AAAACGCCGCAATA-ATGTTGTTTATAGTGGCGTTTGTTCA
**
11139709 ACAAACGCCGCA-ATAGTTT
63 ACAAACGCCGCATATAGTAA
* * * *
11139728 GTTAATGTCGCGGCGTTTGT-ATAAAAACGTCGCGATAATGTTGTTTATAGTGGCGTTTGTTCAA
1 G-TAATTTAGCGGCGTTTGTCA-AAAAACGCCGCAATAATGTTGTTTATAGTGGCGTTTGTTCAA
*
11139792 CAAACGACGCTATATAG-AA
64 CAAACGCCGC-ATATAGTAA
* * * ** * *
11139811 GTAATTTAGTGGCGTTTATCAAAGAAACGTCGCAATAGGGTT-TTTTTAGTGGCGTTTGTACAA-
1 GTAATTTAGCGGCGTTTGTCAAA-AAACGCCGCAATAATGTTGTTTATAGTGGCGTTTGTTCAAC
11139874 AAAGCGCCGCAATATAGTAA
65 AAA-CGCCGC-ATATAGTAA
* * * * * * *
11139894 -AAATTTAGTGGCGTTTTTCCTACAAACACCGCAAT-ATGTTGTTTATCGTGGCGTTT
1 GTAATTTAGCGGCGTTTGT-CAAAAAACGCCGCAATAATGTTGTTTATAGTGGCGTTT
11139950 TTTAGAAACG
Statistics
Matches: 181, Mismatches: 30, Indels: 22
0.78 0.13 0.09
Matches are distributed among these distances:
81 7 0.04
82 130 0.72
83 39 0.22
84 5 0.03
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (82 bp):
GTAATTTAGCGGCGTTTGTCAAAAAACGCCGCAATAATGTTGTTTATAGTGGCGTTTGTTCAACA
AACGCCGCATATAGTAA
Found at i:11140392 original size:22 final size:22
Alignment explanation
Indices: 11140364--11140408 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
11140354 AAGTGTTTTT
*
11140364 TTGCTTTCGAATAGTAAAATAA
1 TTGCTTTCGAATAGGAAAATAA
*
11140386 TTGCTTTCTAATAGGAAAATAA
1 TTGCTTTCGAATAGGAAAATAA
11140408 T
1 T
11140409 ACCTTCTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (22 bp):
TTGCTTTCGAATAGGAAAATAA
Found at i:11140417 original size:21 final size:22
Alignment explanation
Indices: 11140373--11140417 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
11140363 TTTGCTTTCG
* * *
11140373 AATAGTAAAATAATTGCTTTCT
1 AATAGGAAAATAATTACCTTCT
11140395 AATAGGAAAATAA-TACCTTCT
1 AATAGGAAAATAATTACCTTCT
11140416 AA
1 AA
11140418 AAACGTGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.47, C:0.11, G:0.09, T:0.33
Consensus pattern (22 bp):
AATAGGAAAATAATTACCTTCT
Found at i:11141750 original size:41 final size:41
Alignment explanation
Indices: 11141702--11141812 Score: 141
Period size: 41 Copynumber: 2.7 Consensus size: 41
11141692 TAAATATGAT
* *
11141702 TAATTTAGTGGCGTTTGTGAGAAAACGCCGCAATATCCTTC
1 TAATTTAGTGGCGTTTGTGAAAAAACGCCGCAATATCCCTC
* ** *
11141743 TACTTTAGTGGCGTTTGTGACCAAACGCCGCAATATCCCTG
1 TAATTTAGTGGCGTTTGTGAAAAAACGCCGCAATATCCCTC
* * *
11141784 TAATTTAGAGGTGTTTGTAAAAAAACGCC
1 TAATTTAGTGGCGTTTGTGAAAAAACGCC
11141813 TTTATATCCA
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 59 1.00
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.31
Consensus pattern (41 bp):
TAATTTAGTGGCGTTTGTGAAAAAACGCCGCAATATCCCTC
Found at i:11150261 original size:43 final size:44
Alignment explanation
Indices: 11150212--11150396 Score: 212
Period size: 44 Copynumber: 4.2 Consensus size: 44
11150202 TTTTTGTTAC
* * *
11150212 AAACGCCGCTATATACCA-ACCTTTAGCGGCGTTTGTATACTAA
1 AAACGCCGCTATATACCAGATCTTTAGCGGCATTTGTATCCTAA
* * *
11150255 AAACGCCGCTATATACCAGATCATTAGCGACGTTTGTATCCT-A
1 AAACGCCGCTATATACCAGATCTTTAGCGGCATTTGTATCCTAA
* * *
11150298 AAACGCCGCTATATACCAGATCTTTATCTGCATTTTTATCCTAA
1 AAACGCCGCTATATACCAGATCTTTAGCGGCATTTGTATCCTAA
* * * * * *
11150342 AAACGCCACTATATACCAAATTTTTAGCAGCATTTTTATTCTAA
1 AAACGCCGCTATATACCAGATCTTTAGCGGCATTTGTATCCTAA
*
11150386 AAACACCGCTA
1 AAACGCCGCTA
11150397 AATGTAAAAA
Statistics
Matches: 122, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
43 55 0.45
44 67 0.55
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.31
Consensus pattern (44 bp):
AAACGCCGCTATATACCAGATCTTTAGCGGCATTTGTATCCTAA
Found at i:11150386 original size:87 final size:87
Alignment explanation
Indices: 11150212--11150396 Score: 212
Period size: 87 Copynumber: 2.1 Consensus size: 87
11150202 TTTTTGTTAC
* * *
11150212 AAACGCCGCTATATACCAACCTTTAGCGGCGTTTGTATACTAAAAACGCCGCTATATACCAGATC
1 AAACGCCGCTATATACCAACCTTTAGCGGCATTTGTATACTAAAAACGCCACTATATACCAAATC
*
11150277 ATTAGCGACGTTTGTATCCT-A
66 ATTAGCGACATTTGTATCCTAA
* * * * *
11150298 AAACGCCGCTATATACCAGATCTTTATCTGCATTTTTATCCTAAAAACGCCACTATATACCAAAT
1 AAACGCCGCTATATACCA-ACCTTTAGCGGCATTTGTATACTAAAAACGCCACTATATACCAAAT
** * *
11150363 TTTTAGC-AGCATTTTTATTCTAA
65 CATTAGCGA-CATTTGTATCCTAA
*
11150386 AAACACCGCTA
1 AAACGCCGCTA
11150397 AATGTAAAAA
Statistics
Matches: 82, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
86 19 0.23
87 52 0.63
88 11 0.13
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.31
Consensus pattern (87 bp):
AAACGCCGCTATATACCAACCTTTAGCGGCATTTGTATACTAAAAACGCCACTATATACCAAATC
ATTAGCGACATTTGTATCCTAA
Found at i:11150501 original size:70 final size:70
Alignment explanation
Indices: 11150383--11150519 Score: 229
Period size: 70 Copynumber: 2.0 Consensus size: 70
11150373 ATTTTTATTC
* * *
11150383 TAAAAACACCGCTAAATGTAAAAACCTATTGCGGCGTTTTTAATACAAACGCCGCTAAATGTCAA
1 TAAAAACACCGCGAAATGTAAAAACCTATTGCGGCATTTTTAACACAAACGCCGCTAAATGTCAA
11150448 AATCT
66 AATCT
* *
11150453 TAAAAACACCGCGAAATGTGAAAACCTATTGCGGCATTTTTAACACAAACGTCGCTAAATGTCAA
1 TAAAAACACCGCGAAATGTAAAAACCTATTGCGGCATTTTTAACACAAACGCCGCTAAATGTCAA
11150518 AA
66 AA
11150520 CCTATTGCTA
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
70 62 1.00
ACGTcount: A:0.41, C:0.21, G:0.14, T:0.24
Consensus pattern (70 bp):
TAAAAACACCGCGAAATGTAAAAACCTATTGCGGCATTTTTAACACAAACGCCGCTAAATGTCAA
AATCT
Found at i:11150527 original size:43 final size:42
Alignment explanation
Indices: 11150456--11150595 Score: 154
Period size: 43 Copynumber: 3.3 Consensus size: 42
11150446 AAAATCTTAA
* * * *
11150456 AAACACCGCGAAATGTGAAAACCTATTGCGGCATTTTTAACAC
1 AAACGCCGCTAAATGTCAAAACCTATTGCGGCGTTTTTAA-AC
* ** *
11150499 AAACGTCGCTAAATGTCAAAACCTATTGCTACGTTTGTAAGAC
1 AAACGCCGCTAAATGTCAAAACCTATTGCGGCGTTTTTAA-AC
* * *
11150542 AAATGCCGCTAAATATCAGAACCTATTGCGGCGTTTTTAGAAC
1 AAACGCCGCTAAATGTCAAAACCTATTGCGGCGTTTTTA-AAC
11150585 AAACGCCGCTA
1 AAACGCCGCTA
11150596 TATATCGTTA
Statistics
Matches: 79, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
43 78 0.99
44 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (42 bp):
AAACGCCGCTAAATGTCAAAACCTATTGCGGCGTTTTTAAAC
Found at i:11151610 original size:12 final size:12
Alignment explanation
Indices: 11151593--11151620 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
11151583 ATTGGGTTTT
11151593 CATTCAAATTAA
1 CATTCAAATTAA
11151605 CATTCAAATTAA
1 CATTCAAATTAA
11151617 CATT
1 CATT
11151621 GGTAATGAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.46, C:0.18, G:0.00, T:0.36
Consensus pattern (12 bp):
CATTCAAATTAA
Found at i:11151882 original size:21 final size:22
Alignment explanation
Indices: 11151841--11151885 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 22
11151831 CTGACGTGAC
11151841 GTCCAGTCAGTAACTTCTAGAAG
1 GTCCAGTCAGTAAC-TCTAGAAG
11151864 GTCCAGTCAGTAA-TCTAGAAG
1 GTCCAGTCAGTAACTCTAGAAG
11151885 G
1 G
11151886 ACGGGCGGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 9 0.41
23 13 0.59
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.24
Consensus pattern (22 bp):
GTCCAGTCAGTAACTCTAGAAG
Found at i:11155806 original size:24 final size:22
Alignment explanation
Indices: 11155779--11155835 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 22
11155769 GCAACCCATT
11155779 TTTATTTTTCGTTTACA-TAATTTG
1 TTTATTTTT--TTTA-ATTAATTTG
11155803 TTTATTTATTTTTAATTTAATTTG
1 TTTATTT-TTTTTAA-TTAATTTG
11155827 TTTATTTTT
1 TTTATTTTT
11155836 GTTATGTGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
22 1 0.03
23 6 0.20
24 21 0.70
25 2 0.07
ACGTcount: A:0.21, C:0.04, G:0.05, T:0.70
Consensus pattern (22 bp):
TTTATTTTTTTTAATTAATTTG
Found at i:11158645 original size:55 final size:55
Alignment explanation
Indices: 11158471--11158626 Score: 231
Period size: 55 Copynumber: 2.8 Consensus size: 55
11158461 ATCTGCGTGC
* * *
11158471 TACAGGCACTCTGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCA
1 TACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCG
* *
11158526 TACAAGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGACGAATAACCG
1 TACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCG
* * * *
11158581 TACAGGCACTTTGTGTGAAAATCCATGGAATTCATCATAAGTTGAT
1 TACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGAT
11158627 TTACTACCGT
Statistics
Matches: 90, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
55 90 1.00
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (55 bp):
TACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCG
Found at i:11178438 original size:17 final size:17
Alignment explanation
Indices: 11178412--11178444 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11178402 CAAAAAACAT
11178412 AAAATATGACTTTTTGA
1 AAAATATGACTTTTTGA
*
11178429 AAAATTTGACTTTTTG
1 AAAATATGACTTTTTG
11178445 GTCAACGGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.45
Consensus pattern (17 bp):
AAAATATGACTTTTTGA
Found at i:11185129 original size:28 final size:28
Alignment explanation
Indices: 11185072--11185129 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
11185062 CATTAATTAA
* *
11185072 AATTAAATTTTATTTTTAATAGAATTAT
1 AATTAAATTATATTTTTAATAGAATGAT
*
11185100 AATTAAATTATATTTTTTATTA-AATGAT
1 AATTAAATTATA-TTTTTAATAGAATGAT
11185128 AA
1 AA
11185130 ACTACAGAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 18 0.69
29 8 0.31
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (28 bp):
AATTAAATTATATTTTTAATAGAATGAT
Done.