Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167915.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_18, 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: 20765110
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 90000 characters in sequence are not A, C, G, or T
File 58 of 117
Found at i:12997840 original size:36 final size:35
Alignment explanation
Indices: 12997800--12997919 Score: 109
Period size: 36 Copynumber: 3.3 Consensus size: 35
12997790 AGTCTCGGTT
12997800 ATCCTTATTTTTTAACTTACTAG-TCTAGTCCCTA-TC
1 ATCCTTATTTTTTAACTTA-TAGTTC-AGT-CCTAGTC
*
12997836 ATCCTTATTTTTCTAACTTATGGTTCAGTCCTAGTC
1 ATCCTTATTTTT-TAACTTATAGTTCAGTCCTAGTC
* * * * * * *
12997872 ATCTTTATTTTTTGACTTGTCGGTTCAATCCCAATC
1 ATCCTTATTTTTTAACTTAT-AGTTCAGTCCTAGTC
12997908 ATCCTTATTTTT
1 ATCCTTATTTTT
12997920 GACCTGCAAT
Statistics
Matches: 72, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
35 10 0.14
36 53 0.74
37 9 0.12
ACGTcount: A:0.20, C:0.23, G:0.08, T:0.49
Consensus pattern (35 bp):
ATCCTTATTTTTTAACTTATAGTTCAGTCCTAGTC
Found at i:12998222 original size:17 final size:18
Alignment explanation
Indices: 12998200--12998240 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
12998190 CTTTATATCA
12998200 AAAAAAT-AAAAAAAAAC
1 AAAAAATGAAAAAAAAAC
**
12998217 AAAAAATGAATGAAAAAC
1 AAAAAATGAAAAAAAAAC
12998235 AAAAAA
1 AAAAAA
12998241 AAATTCTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.83, C:0.05, G:0.05, T:0.07
Consensus pattern (18 bp):
AAAAAATGAAAAAAAAAC
Found at i:13000969 original size:20 final size:21
Alignment explanation
Indices: 13000930--13000969 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
13000920 AAAATCCTTA
* *
13000930 TGTGAATCCCAACCCTTTTGG
1 TGTGAATCACAACACTTTTGG
13000951 TGTGAATCACAA-ACTTTTG
1 TGTGAATCACAACACTTTTG
13000970 AAAAATCATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (21 bp):
TGTGAATCACAACACTTTTGG
Found at i:13000970 original size:51 final size:50
Alignment explanation
Indices: 13000911--13001072 Score: 150
Period size: 51 Copynumber: 3.2 Consensus size: 50
13000901 ATGTATCCCA
*
13000911 AAAC-TTTGAAAAATCCTTATGTGAATCCCAACCCTTTTGGTGTGAATCAC
1 AAACTTTTGAAAAATCCTTATGTGAA-CCCAACCTTTTTGGTGTGAATCAC
* * * * *
13000961 AAACTTTTGAAAAATCATAATGTGAACCCCAGCCTTTTTAGTGTGAATCCC
1 AAACTTTTGAAAAATCCTTATGTGAA-CCCAACCTTTTTGGTGTGAATCAC
* * ** *
13001012 GAACCTTCAAAAAAT-CTTAGTGTGAA-CCATAGCCTTTTTGGTGTGAATCTC
1 AAACTTTTGAAAAATCCTTA-TGTGAACCCA-A-CCTTTTTGGTGTGAATCAC
*
13001063 GAACTTTTGA
1 AAACTTTTGA
13001073 GGAATCCTGG
Statistics
Matches: 89, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
49 3 0.03
50 6 0.07
51 80 0.90
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.33
Consensus pattern (50 bp):
AAACTTTTGAAAAATCCTTATGTGAACCCAACCTTTTTGGTGTGAATCAC
Found at i:13002299 original size:63 final size:63
Alignment explanation
Indices: 13002224--13002383 Score: 171
Period size: 63 Copynumber: 2.5 Consensus size: 63
13002214 ATTTAGCATT
* * * *
13002224 AAAAAACACCTTAAATAATCCTTTTATAATTTTATAAATGGATTATGTAAGGCGTTTATATA-T
1 AAAAAATACCTTAAATAATCCTTTTAT-ATTTTATAAATAGATTATGTAAGGCATTTATATACA
* * * * * * *
13002287 AGAAAATGCCTTAAATAAT-CTATTTATATTTGCATAAATAGATTATTTAAGGTATTTTTGTACA
1 AAAAAATACCTTAAATAATCCT-TTTATATTT-TATAAATAGATTATGTAAGGCATTTATATACA
*
13002351 AAAAAATACCTTAAATAATCATTTTATATTTTA
1 AAAAAATACCTTAAATAATCCTTTTATATTTTA
13002384 AGGTTTAGGG
Statistics
Matches: 78, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
62 6 0.08
63 45 0.58
64 26 0.33
65 1 0.01
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.41
Consensus pattern (63 bp):
AAAAAATACCTTAAATAATCCTTTTATATTTTATAAATAGATTATGTAAGGCATTTATATACA
Found at i:13002534 original size:63 final size:63
Alignment explanation
Indices: 13002404--13002537 Score: 164
Period size: 64 Copynumber: 2.1 Consensus size: 63
13002394 TTTAGGGTTA
* **
13002404 ATATTTTTATAAAAAGATTATTTAAGGTATTTTTTTGTACAGAAGCATCTTAAATAACCCTTTT
1 ATATTTTTATAAAAAGATTATTTAAGGCA-TTTTTTGTACAGAAAAATCTTAAATAACCCTTTT
** * *
13002468 ATATTTTTATAAATGGATTATTTAAGGCA-TTTTTGTACA-AAAAATACATTAAATAATCTTTTT
1 ATATTTTTATAAAAAGATTATTTAAGGCATTTTTTGTACAGAAAAAT-C-TTAAATAACCCTTTT
13002531 ATATTTT
1 ATATTTT
13002538 AGGGTTTAGG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
61 4 0.07
62 11 0.18
63 20 0.33
64 26 0.43
ACGTcount: A:0.37, C:0.07, G:0.08, T:0.47
Consensus pattern (63 bp):
ATATTTTTATAAAAAGATTATTTAAGGCATTTTTTGTACAGAAAAATCTTAAATAACCCTTTT
Found at i:13002544 original size:155 final size:154
Alignment explanation
Indices: 13002296--13002654 Score: 495
Period size: 155 Copynumber: 2.3 Consensus size: 154
13002286 TAGAAAATGC
* ** * * *
13002296 CTTAAATAATCTATTTATATTTGCATAAATAGATTATTTAAGGTATTTTTGTACAAAAAAATACC
1 CTTAAATAACCT-TTTATATTTTTATAAATGGATTATTTAAGGCATTTTTGTACAAAAAAATACA
*
13002361 TTAAATAATCATTTTATATTTTAAGGTTTAGGGTTTAGGGTTAATATTTTTATAAAAAGATTATT
65 TTAAATAATCATTTTATATTTTAAGGTTTAGGGTTTAGAGTTAATATTTTTATAAAAAGATTATT
* * * * *
13002426 TAAGGTATTTTTTTGTACAGAAGCAT
130 TAAGGCATTTCTATCTACA-AAACAT
13002452 CTTAAATAACCCTTTTATATTTTTATAAATGGATTATTTAAGGCATTTTTGTAC-AAAAAATACA
1 CTTAAATAA-CCTTTTATATTTTTATAAATGGATTATTTAAGGCATTTTTGTACAAAAAAATACA
* * *
13002516 TTAAATAATCTTTTTATATTTTAGGGTTTAGGGTTTAGAGTTAATATTTTTATAAAATGATTATT
65 TTAAATAATCATTTTATATTTTAAGGTTTAGGGTTTAGAGTTAATATTTTTATAAAAAGATTATT
* *
13002581 TAAGGCATTTCTATCTAGAAAATAT
130 TAAGGCATTTCTATCTACAAAACAT
* * *
13002606 CTTAAATAATCATTTTATATTTTTATAAAAGTATTATTTAAGGCATTTT
1 CTTAAATAA-CCTTTTATATTTTTATAAATGGATTATTTAAGGCATTTT
13002655 CTATACAGAA
Statistics
Matches: 181, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
154 49 0.27
155 84 0.46
156 46 0.25
157 2 0.01
ACGTcount: A:0.37, C:0.06, G:0.11, T:0.46
Consensus pattern (154 bp):
CTTAAATAACCTTTTATATTTTTATAAATGGATTATTTAAGGCATTTTTGTACAAAAAAATACAT
TAAATAATCATTTTATATTTTAAGGTTTAGGGTTTAGAGTTAATATTTTTATAAAAAGATTATTT
AAGGCATTTCTATCTACAAAACAT
Found at i:13002672 original size:63 final size:63
Alignment explanation
Indices: 13002559--13002679 Score: 185
Period size: 63 Copynumber: 1.9 Consensus size: 63
13002549 TTTAGAGTTA
13002559 ATATTTTTATAAAATGATTATTTAAGGCATTTCTATCTAGAAAATATCTTAAATAATCATTTT
1 ATATTTTTATAAAATGATTATTTAAGGCATTTCTATCTAGAAAATATCTTAAATAATCATTTT
*
13002622 ATATTTTTATAAAA-GTATTATTTAAGGCATTTTCTATAC-AG-AAATGTCTTAAATAATC
1 ATATTTTTATAAAATG-ATTATTTAAGGCA-TTTCTAT-CTAGAAAATATCTTAAATAATC
13002680 CCCTTATAAA
Statistics
Matches: 54, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
62 1 0.02
63 43 0.80
64 9 0.17
65 1 0.02
ACGTcount: A:0.40, C:0.08, G:0.07, T:0.45
Consensus pattern (63 bp):
ATATTTTTATAAAATGATTATTTAAGGCATTTCTATCTAGAAAATATCTTAAATAATCATTTT
Found at i:13004746 original size:34 final size:34
Alignment explanation
Indices: 13004682--13004759 Score: 93
Period size: 34 Copynumber: 2.3 Consensus size: 34
13004672 CATTAAAAAG
* ** *
13004682 ATGTTGTTTAATGGTGGTTTTAGGTGAATTTTTT
1 ATGTTGTTTGATGGTGGTTTTAGGCAAATTTTTA
* *
13004716 ATGTTGTTTGATGTTGGTTTTTGGCAAATTTTTA
1 ATGTTGTTTGATGGTGGTTTTAGGCAAATTTTTA
*
13004750 AAGTTGTTTG
1 ATGTTGTTTG
13004760 GTTGCGTTTA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.18, C:0.01, G:0.26, T:0.55
Consensus pattern (34 bp):
ATGTTGTTTGATGGTGGTTTTAGGCAAATTTTTA
Found at i:13005012 original size:131 final size:131
Alignment explanation
Indices: 13004778--13005035 Score: 473
Period size: 131 Copynumber: 2.0 Consensus size: 131
13004768 TAATGATGAA
*
13004778 CAAATGGTAGAATATTCAAACCAAATTCAAAGTTTTTTCATATTTAGTCCATTTTCCTCTTGTAT
1 CAAATGGTAGAATATTCAAACCAAATTCAAAGTTTTTTCATATTTAATCCATTTTCCTCTTGTAT
*
13004843 TTTCATGCATAACATGTTTGTGATTTAATTTTGAAAAT-CTCTTGGTTTATAATTATTTTTCAAG
66 TTTCATGCATAACATGTTTGTGATTTAATTTTGAAAATCCT-TTAGTTTATAATTATTTTTCAAG
13004907 GT
130 GT
*
13004909 CAAATGGTGGAATATTCAAACCAAATTCAAAGTTTTTTCATATTTAATCCATTTTCCTCTTGTAT
1 CAAATGGTAGAATATTCAAACCAAATTCAAAGTTTTTTCATATTTAATCCATTTTCCTCTTGTAT
13004974 TTTCATGCATAACATGTTTGTGATTTAATTTTGAAAATCCTTTAGTTTATAATTATTTTTCA
66 TTTCATGCATAACATGTTTGTGATTTAATTTTGAAAATCCTTTAGTTTATAATTATTTTTCA
13005036 CGATCATGCT
Statistics
Matches: 123, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
131 121 0.98
132 2 0.02
ACGTcount: A:0.30, C:0.13, G:0.10, T:0.46
Consensus pattern (131 bp):
CAAATGGTAGAATATTCAAACCAAATTCAAAGTTTTTTCATATTTAATCCATTTTCCTCTTGTAT
TTTCATGCATAACATGTTTGTGATTTAATTTTGAAAATCCTTTAGTTTATAATTATTTTTCAAGG
T
Found at i:13005128 original size:14 final size:13
Alignment explanation
Indices: 13005108--13005182 Score: 60
Period size: 13 Copynumber: 5.5 Consensus size: 13
13005098 TCCATTTCCA
*
13005108 TGAAACCTTAAAT
1 TGAAACCCTAAAT
13005121 TCGAAACCCTAAATTT
1 T-GAAACCCTAAA--T
* *
13005137 TTAAACCTTAAAT
1 TGAAACCCTAAAT
*
13005150 TAAAACCCTAAAT
1 TGAAACCCTAAAT
** *
13005163 CAAAACCCTAAAA
1 TGAAACCCTAAAT
13005176 TGAAACC
1 TGAAACC
13005183 TTAACCCTAA
Statistics
Matches: 50, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
13 29 0.58
14 10 0.20
15 9 0.18
16 2 0.04
ACGTcount: A:0.48, C:0.23, G:0.04, T:0.25
Consensus pattern (13 bp):
TGAAACCCTAAAT
Found at i:13005148 original size:15 final size:15
Alignment explanation
Indices: 13005109--13005150 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
13005099 CCATTTCCAT
13005109 GAAACCTTAAA-TTC
1 GAAACCTTAAATTTC
* *
13005123 GAAACCCTAAATTTT
1 GAAACCTTAAATTTC
*
13005138 TAAACCTTAAATT
1 GAAACCTTAAATT
13005151 AAAACCCTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.43, C:0.19, G:0.05, T:0.33
Consensus pattern (15 bp):
GAAACCTTAAATTTC
Found at i:13005194 original size:13 final size:13
Alignment explanation
Indices: 13005178--13005265 Score: 65
Period size: 13 Copynumber: 6.7 Consensus size: 13
13005168 CCCTAAAATG
*
13005178 AAACCTTAACCCT
1 AAACCTAAACCCT
13005191 AAACCCTAAACCCT
1 AAA-CCTAAACCCT
* *
13005205 AACCCTAAACCCAA
1 AAACCTAAACCC-T
*
13005219 AAACCTAAA-ACT
1 AAACCTAAACCCT
* *
13005231 ATAACCTAGACCCC
1 A-AACCTAAACCCT
13005245 AAA-CT-AACCCT
1 AAACCTAAACCCT
13005256 AAACCCTAAA
1 AAA-CCTAAA
13005266 TCTTAAATTA
Statistics
Matches: 57, Mismatches: 11, Indels: 13
0.70 0.14 0.16
Matches are distributed among these distances:
11 7 0.12
12 3 0.05
13 24 0.42
14 23 0.40
ACGTcount: A:0.47, C:0.38, G:0.01, T:0.15
Consensus pattern (13 bp):
AAACCTAAACCCT
Found at i:13005197 original size:7 final size:7
Alignment explanation
Indices: 13005185--13005265 Score: 66
Period size: 7 Copynumber: 12.3 Consensus size: 7
13005175 ATGAAACCTT
13005185 AACCCTA
1 AACCCTA
13005192 AACCCTA
1 AACCCTA
13005199 AACCCT-
1 AACCCTA
13005205 AACCCTA
1 AACCCTA
*
13005212 AACCCAA
1 AACCCTA
*
13005219 AAACCTA
1 AACCCTA
*
13005226 AA-ACTA
1 AACCCTA
13005232 TAA-CCTA
1 -AACCCTA
* *
13005239 GACCCCA
1 AACCCTA
13005246 AA--CT-
1 AACCCTA
13005250 AACCCTA
1 AACCCTA
13005257 AACCCTA
1 AACCCTA
13005264 AA
1 AA
13005266 TCTTAAATTA
Statistics
Matches: 59, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
4 2 0.03
5 1 0.02
6 12 0.20
7 44 0.75
ACGTcount: A:0.47, C:0.38, G:0.01, T:0.14
Consensus pattern (7 bp):
AACCCTA
Found at i:13006642 original size:36 final size:37
Alignment explanation
Indices: 13006595--13006666 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
13006585 ATTAATATTT
13006595 TATTTGCATGATTATT-TATATTATTGCATGATAATG
1 TATTTGCATGATTATTATATATTATTGCATGATAATG
*
13006631 TATTTGCATGATTATTATATATTATTGCATTATAAT
1 TATTTGCATGATTATTATATATTATTGCATGATAAT
13006667 TAATAATTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
36 16 0.47
37 18 0.53
ACGTcount: A:0.32, C:0.06, G:0.11, T:0.51
Consensus pattern (37 bp):
TATTTGCATGATTATTATATATTATTGCATGATAATG
Found at i:13006659 original size:21 final size:21
Alignment explanation
Indices: 13006584--13006684 Score: 81
Period size: 21 Copynumber: 5.0 Consensus size: 21
13006574 GTGGTTTAAC
*
13006584 TATTAATATTTTATTTGCATGAT
1 TATT-ATATATTA-TTGCATGAT
13006607 TATT-TATATTATTGCATGA-
1 TATTATATATTATTGCATGAT
*
13006626 TA--ATGTA-T-TTGCATGAT
1 TATTATATATTATTGCATGAT
*
13006643 TATTATATATTATTGCATTAT
1 TATTATATATTATTGCATGAT
* *
13006664 AATTA-ATAATTTTTGCATGAT
1 TATTATAT-ATTATTGCATGAT
13006685 ATTTTATTGT
Statistics
Matches: 64, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
16 8 0.12
17 3 0.05
18 3 0.05
19 6 0.09
20 11 0.17
21 29 0.45
23 4 0.06
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.52
Consensus pattern (21 bp):
TATTATATATTATTGCATGAT
Found at i:13006725 original size:37 final size:38
Alignment explanation
Indices: 13006683--13006759 Score: 120
Period size: 37 Copynumber: 2.1 Consensus size: 38
13006673 TTTTTGCATG
**
13006683 ATATTTTATTGTATGATTTATTGCATGGTATGAT-TTT
1 ATATTTTATTACATGATTTATTGCATGGTATGATATTT
*
13006720 ATATTTTATTACATGATTTATTGTATGGTATGATATTT
1 ATATTTTATTACATGATTTATTGCATGGTATGATATTT
13006758 AT
1 AT
13006760 TATACGGTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
37 31 0.86
38 5 0.14
ACGTcount: A:0.27, C:0.03, G:0.14, T:0.56
Consensus pattern (38 bp):
ATATTTTATTACATGATTTATTGCATGGTATGATATTT
Found at i:13006752 original size:17 final size:17
Alignment explanation
Indices: 13006693--13006753 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
13006683 ATATTTTATT
*
13006693 GTATGATTTATTGCATG
1 GTATGATTTATTGTATG
* *
13006710 GTATGATTTTATATTTTATT
1 GTATGA--TT-TATTGTATG
**
13006730 ACATGATTTATTGTATG
1 GTATGATTTATTGTATG
13006747 GTATGAT
1 GTATGAT
13006754 ATTTATTATA
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
17 18 0.56
18 2 0.06
19 2 0.06
20 10 0.31
ACGTcount: A:0.26, C:0.03, G:0.18, T:0.52
Consensus pattern (17 bp):
GTATGATTTATTGTATG
Found at i:13007157 original size:37 final size:37
Alignment explanation
Indices: 13007115--13007191 Score: 120
Period size: 37 Copynumber: 2.1 Consensus size: 37
13007105 CACACCTAGA
*
13007115 TAAAAAAGATTGGTGGCGACTCTATA-AACTTTGTATC
1 TAAAAAAGATTGGTGGCAACTCTATAGAA-TTTGTATC
*
13007152 TAAAAAAGATTGGTGGCAACTCTATAGAATTTGTGTC
1 TAAAAAAGATTGGTGGCAACTCTATAGAATTTGTATC
13007189 TAA
1 TAA
13007192 TAGGTAGGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
37 35 0.95
38 2 0.05
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.32
Consensus pattern (37 bp):
TAAAAAAGATTGGTGGCAACTCTATAGAATTTGTATC
Found at i:13010011 original size:21 final size:21
Alignment explanation
Indices: 13009985--13010115 Score: 84
Period size: 21 Copynumber: 6.2 Consensus size: 21
13009975 TCTATTGCAA
*
13009985 TATGATGAGGATAAAGCTCAG
1 TATGATGAAGATAAAGCTCAG
* * *
13010006 TATGATAAAGATAAAGTTTAG
1 TATGATGAAGATAAAGCTCAG
* * *
13010027 TTTGATGAAGATAAAGAT-GG
1 TATGATGAAGATAAAGCTCAG
*** * ** *
13010047 TATTGATTCTGATATATTTTAG
1 TA-TGATGAAGATAAAGCTCAG
*
13010069 TATGATGAAGATAAAGTTCAG
1 TATGATGAAGATAAAGCTCAG
* * *
13010090 TATGACGAAGATAAAGTTTAG
1 TATGATGAAGATAAAGCTCAG
13010111 TATGA
1 TATGA
13010116 CAAAGATTAA
Statistics
Matches: 84, Mismatches: 24, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
20 2 0.02
21 79 0.94
22 3 0.04
ACGTcount: A:0.40, C:0.04, G:0.23, T:0.34
Consensus pattern (21 bp):
TATGATGAAGATAAAGCTCAG
Found at i:13010104 original size:84 final size:84
Alignment explanation
Indices: 13009985--13010164 Score: 243
Period size: 84 Copynumber: 2.1 Consensus size: 84
13009975 TCTATTGCAA
* * * **
13009985 TATGATGAGGATAAAGCTCAGTATGATAAAGATAAAGTTTAGTTTGATGAAGATAAAGATGGTAT
1 TATGATGAAGATAAAGCTCAGTATGACAAAGATAAAGTTTAGTATGACAAAGATAAAGATGGTAT
*
13010050 TGATTCTGATATATTTTAG
66 TGATTCTGATACATTTTAG
* * *
13010069 TATGATGAAGATAAAGTTCAGTATGACGAAGATAAAGTTTAGTATGACAAAGATTAAGATGGTAT
1 TATGATGAAGATAAAGCTCAGTATGACAAAGATAAAGTTTAGTATGACAAAGATAAAGATGGTAT
* * *
13010134 TGATTTTTATCCATTTTAG
66 TGATTCTGATACATTTTAG
*
13010153 TATGACGAAGAT
1 TATGATGAAGAT
13010165 GGTATTGATT
Statistics
Matches: 83, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
84 83 1.00
ACGTcount: A:0.38, C:0.05, G:0.22, T:0.35
Consensus pattern (84 bp):
TATGATGAAGATAAAGCTCAGTATGACAAAGATAAAGTTTAGTATGACAAAGATAAAGATGGTAT
TGATTCTGATACATTTTAG
Found at i:13010110 original size:42 final size:42
Alignment explanation
Indices: 13009985--13010115 Score: 138
Period size: 42 Copynumber: 3.1 Consensus size: 42
13009975 TCTATTGCAA
* *
13009985 TATGATGAGGATAAAGCTCAGTATGATAAAGATAAAGTTTAG
1 TATGATGAAGATAAAGATCAGTATGATAAAGATAAAGTTTAG
* * *** * *
13010027 TTTGATGAAGATAAAGAT-GGTATTGATTCTGATATATTTTAG
1 TATGATGAAGATAAAGATCAGTA-TGATAAAGATAAAGTTTAG
* **
13010069 TATGATGAAGATAAAGTTCAGTATGACGAAGATAAAGTTTAG
1 TATGATGAAGATAAAGATCAGTATGATAAAGATAAAGTTTAG
13010111 TATGA
1 TATGA
13010116 CAAAGATTAA
Statistics
Matches: 69, Mismatches: 18, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
41 3 0.04
42 63 0.91
43 3 0.04
ACGTcount: A:0.40, C:0.04, G:0.23, T:0.34
Consensus pattern (42 bp):
TATGATGAAGATAAAGATCAGTATGATAAAGATAAAGTTTAG
Found at i:13010116 original size:21 final size:21
Alignment explanation
Indices: 13010064--13010122 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
13010054 TCTGATATAT
*
13010064 TTTAGTATGATGAAGATAAAG
1 TTTAGTATGACGAAGATAAAG
*
13010085 TTCAGTATGACGAAGATAAAG
1 TTTAGTATGACGAAGATAAAG
*
13010106 TTTAGTATGACAAAGAT
1 TTTAGTATGACGAAGAT
13010123 TAAGATGGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.42, C:0.05, G:0.22, T:0.31
Consensus pattern (21 bp):
TTTAGTATGACGAAGATAAAG
Found at i:13010152 original size:42 final size:40
Alignment explanation
Indices: 13010106--13010199 Score: 124
Period size: 36 Copynumber: 2.4 Consensus size: 40
13010096 GAAGATAAAG
*
13010106 TTTAGTATGACAAAGATTAAGATGGTATTGATTTTTATCCAT
1 TTTAGTATGACAAAGA--AAGATGGTATTGATTTTGATCCAT
13010148 TTTAGTATGAC---G-AAGATGGTATTGATTTTGATCCAT
1 TTTAGTATGACAAAGAAAGATGGTATTGATTTTGATCCAT
*
13010184 TTGAGTATGACAAAGA
1 TTTAGTATGACAAAGA
13010200 GCCTTATAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
36 33 0.72
39 2 0.04
42 11 0.24
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.39
Consensus pattern (40 bp):
TTTAGTATGACAAAGAAAGATGGTATTGATTTTGATCCAT
Found at i:13010171 original size:36 final size:36
Alignment explanation
Indices: 13010124--13010199 Score: 125
Period size: 36 Copynumber: 2.1 Consensus size: 36
13010114 GACAAAGATT
* * *
13010124 AAGATGGTATTGATTTTTATCCATTTTAGTATGACG
1 AAGATGGTATTGATTTTGATCCATTTGAGTATGACA
13010160 AAGATGGTATTGATTTTGATCCATTTGAGTATGACA
1 AAGATGGTATTGATTTTGATCCATTTGAGTATGACA
13010196 AAGA
1 AAGA
13010200 GCCTTATAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (36 bp):
AAGATGGTATTGATTTTGATCCATTTGAGTATGACA
Found at i:13011211 original size:15 final size:15
Alignment explanation
Indices: 13011193--13011226 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
13011183 AATGTGGAAA
*
13011193 AAAAGAGAAAAAGAT
1 AAAAGAGAAAAAAAT
*
13011208 AAAAGATAAAAAAAT
1 AAAAGAGAAAAAAAT
13011223 AAAA
1 AAAA
13011227 AAATGATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (15 bp):
AAAAGAGAAAAAAAT
Found at i:13012513 original size:47 final size:47
Alignment explanation
Indices: 13012415--13012565 Score: 196
Period size: 48 Copynumber: 3.2 Consensus size: 47
13012405 TTTGAGGTAA
* * *
13012415 GAATTTTAAAGTTTCAAACTTTTGTTGAGAAGAAGCTTTCATGGACAT
1 GAATTTTAAAGTTTCAAACTTTTGTT-AAAAGAAGCTTTCTTGGTCAT
* * *
13012463 GAATTTTAAATTTTCAAATTTTTGTTAAAAGAAGCTTTCTTAGTCAT
1 GAATTTTAAAGTTTCAAACTTTTGTTAAAAGAAGCTTTCTTGGTCAT
* *
13012510 GAATTTTAAAGTTTCAAGCCTTTGTTAAGAA-AGAGCTTTCTTGGTCAT
1 GAATTTTAAAGTTTCAAACTTTTGTTAA-AAGA-AGCTTTCTTGGTCAT
13012558 GAATTTTA
1 GAATTTTA
13012566 TTTAAAGTTT
Statistics
Matches: 90, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
47 42 0.47
48 48 0.53
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (47 bp):
GAATTTTAAAGTTTCAAACTTTTGTTAAAAGAAGCTTTCTTGGTCAT
Found at i:13012659 original size:42 final size:41
Alignment explanation
Indices: 13012606--13012758 Score: 138
Period size: 42 Copynumber: 3.8 Consensus size: 41
13012596 GTATTTATTT
*
13012606 AAAGTTGAAGCCTCGATGGAAAAGTACTTTTATTTTTTTAAA
1 AAAGTTGAAGCCTCGATGGAAGAGTACTTTTATTTTTTT-AA
* * * *
13012648 AAAGTTCAAGCCTC-AGTGGAGGAGTGC-TTTA--TTTTT-C
1 AAAGTTGAAGCCTCGA-TGGAAGAGTACTTTTATTTTTTTAA
* * *
13012685 AAAGTTGAAGCCTCGGTGGAAGAGTATTTATTTTTTTTTTTAA
1 AAAGTTGAAGCCTCGATGGAAGAGTA-CT-TTTATTTTTTTAA
* *
13012728 AAAGGTGAACCCTCGATGGAAGAGTA-TTTTA
1 AAAGTTGAAGCCTCGATGGAAGAGTACTTTTA
13012759 AGTTTTTGAA
Statistics
Matches: 87, Mismatches: 16, Indels: 18
0.72 0.13 0.15
Matches are distributed among these distances:
37 21 0.24
39 5 0.06
40 6 0.07
41 6 0.07
42 26 0.30
43 23 0.26
ACGTcount: A:0.31, C:0.11, G:0.22, T:0.37
Consensus pattern (41 bp):
AAAGTTGAAGCCTCGATGGAAGAGTACTTTTATTTTTTTAA
Found at i:13012720 original size:37 final size:36
Alignment explanation
Indices: 13012597--13012720 Score: 113
Period size: 37 Copynumber: 3.2 Consensus size: 36
13012587 TGTAGGGGAG
* *
13012597 TATTTATTTAAAGTTGAAGCCTCGATGGAAAAGTACTTT
1 TATTT-TTTAAAGTTGAAGCCTCGGTGGAAGAGTA--TT
* * * *
13012636 TATTTTTTTAAAAAAGTTCAAGCCTCAGTGGAGGAGTGCTT
1 TA-TTTTTT---AAAGTTGAAGCCTCGGTGGAAGAGT-ATT
*
13012677 TATTTTTCAAAGTTGAAGCCTCGGTGGAAGAGTATT
1 TATTTTTTAAAGTTGAAGCCTCGGTGGAAGAGTATT
13012713 TATTTTTT
1 TATTTTTT
13012721 TTTTTAAAAA
Statistics
Matches: 68, Mismatches: 12, Indels: 13
0.73 0.13 0.14
Matches are distributed among these distances:
36 9 0.13
37 22 0.32
39 5 0.07
40 8 0.12
41 4 0.06
42 20 0.29
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.40
Consensus pattern (36 bp):
TATTTTTTAAAGTTGAAGCCTCGGTGGAAGAGTATT
Found at i:13013041 original size:7 final size:7
Alignment explanation
Indices: 13013017--13013083 Score: 50
Period size: 7 Copynumber: 9.9 Consensus size: 7
13013007 TAAAAGCCCA
13013017 AATTTTT
1 AATTTTT
*
13013024 CAATTTGT
1 -AATTTTT
13013032 AATTTTT
1 AATTTTT
*
13013039 AATTTTC
1 AATTTTT
*
13013046 AA-TTTC
1 AATTTTT
*
13013052 AA-TTGT
1 AATTTTT
13013058 AATTTTT
1 AATTTTT
*
13013065 TATTTTT
1 AATTTTT
*
13013072 GA-TTTT
1 AATTTTT
13013078 AATTTT
1 AATTTT
13013084 GATTTTAATG
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
6 15 0.31
7 27 0.56
8 6 0.12
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.64
Consensus pattern (7 bp):
AATTTTT
Found at i:13013077 original size:12 final size:12
Alignment explanation
Indices: 13013062--13013092 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
13013052 AATTGTAATT
*
13013062 TTTTATTTTTGA
1 TTTTAATTTTGA
13013074 TTTTAATTTTGA
1 TTTTAATTTTGA
13013086 TTTTAAT
1 TTTTAAT
13013093 GTATTGATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (12 bp):
TTTTAATTTTGA
Found at i:13013425 original size:17 final size:18
Alignment explanation
Indices: 13013403--13013436 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13013393 GTAATATAGA
13013403 AAGCAA-TCAAAACCAAT
1 AAGCAATTCAAAACCAAT
*
13013420 AAGCAATTCAAAGCCAA
1 AAGCAATTCAAAACCAA
13013437 ATTCCACAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.56, C:0.24, G:0.09, T:0.12
Consensus pattern (18 bp):
AAGCAATTCAAAACCAAT
Found at i:13014415 original size:23 final size:22
Alignment explanation
Indices: 13014389--13014451 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 22
13014379 ATGGTTTGAC
13014389 TATTAATATTTTATTTGCATGAT
1 TATTAATA-TTTATTTGCATGAT
*
13014412 TATTTATA-TTA-TTGCATGA-
1 TATTAATATTTATTTGCATGAT
13014431 TAGTTAATA--TATTTGCATGAT
1 TA-TTAATATTTATTTGCATGAT
13014452 ATTTTATATT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
19 4 0.11
20 21 0.60
21 3 0.09
23 7 0.20
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.52
Consensus pattern (22 bp):
TATTAATATTTATTTGCATGAT
Found at i:13014426 original size:20 final size:19
Alignment explanation
Indices: 13014403--13014537 Score: 82
Period size: 20 Copynumber: 6.9 Consensus size: 19
13014393 AATATTTTAT
13014403 TTGCATGATTATTTATATTA
1 TTGCATGA-TATTTATATTA
*
13014423 TTGCATGATAGTTA-ATATA
1 TTGCATGATATTTATAT-TA
13014442 TTTGCATGATATTTTATATTA
1 -TTGCATGATA-TTTATATTA
* *
13014463 TTACATGATA-ATATA-T-
1 TTGCATGATATTTATATTA
* * *
13014479 TTGTATGATTATTATAAACTA
1 TTGCATGA-TATT-TATATTA
* *
13014500 TTGCATGATAATTAATAATTT
1 TTGCATGAT-ATTTAT-ATTA
*
13014521 TTGCATAATATTT-TATT
1 TTGCATGATATTTATATT
13014538 GTATGATTTA
Statistics
Matches: 89, Mismatches: 15, Indels: 24
0.70 0.12 0.19
Matches are distributed among these distances:
16 6 0.07
17 3 0.03
18 9 0.10
19 11 0.12
20 33 0.37
21 25 0.28
22 2 0.02
ACGTcount: A:0.35, C:0.05, G:0.10, T:0.50
Consensus pattern (19 bp):
TTGCATGATATTTATATTA
Found at i:13014449 original size:40 final size:39
Alignment explanation
Indices: 13014400--13014526 Score: 136
Period size: 40 Copynumber: 3.2 Consensus size: 39
13014390 ATTAATATTT
13014400 TATTTGCATGATTATTTATATTATTGCATGATAGTTAATA
1 TATTTGCATGATTATTTATATTATTGCATGATA-TTAATA
*
13014440 TATTTGCATGA-TATTTTATATTATTACATG--A-TAATA
1 TATTTGCATGATTA-TTTATATTATTGCATGATATTAATA
* * *
13014476 TATTTGTATGATTATTATAAACTATTGCATGATAATTAATAA
1 TATTTGCATGATTATT-TATATTATTGCATGAT-ATTAAT-A
*
13014518 TTTTTGCAT
1 TATTTGCAT
13014527 AATATTTTAT
Statistics
Matches: 72, Mismatches: 7, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
36 17 0.24
37 13 0.18
38 1 0.01
39 2 0.03
40 27 0.38
41 4 0.06
42 8 0.11
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.50
Consensus pattern (39 bp):
TATTTGCATGATTATTTATATTATTGCATGATATTAATA
Found at i:13014558 original size:17 final size:17
Alignment explanation
Indices: 13014538--13014582 Score: 63
Period size: 19 Copynumber: 2.5 Consensus size: 17
13014528 ATATTTTATT
*
13014538 GTATGATTTATTGCATG
1 GTATGATTTATTACATG
13014555 GTATGACATTTATTACATG
1 GTATG--ATTTATTACATG
13014574 GTATGATTT
1 GTATGATTT
13014583 CATATTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 9 0.36
19 16 0.64
ACGTcount: A:0.27, C:0.07, G:0.20, T:0.47
Consensus pattern (17 bp):
GTATGATTTATTACATG
Found at i:13014567 original size:19 final size:19
Alignment explanation
Indices: 13014543--13014579 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
13014533 TTATTGTATG
*
13014543 ATTTATTGCATGGTATGAC
1 ATTTATTACATGGTATGAC
13014562 ATTTATTACATGGTATGA
1 ATTTATTACATGGTATGA
13014580 TTTCATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.08, G:0.19, T:0.43
Consensus pattern (19 bp):
ATTTATTACATGGTATGAC
Found at i:13015381 original size:24 final size:24
Alignment explanation
Indices: 13015354--13015399 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
13015344 TTATTTACAA
* *
13015354 AATCATACAATATATTACAAAACT
1 AATCACACAAAATATTACAAAACT
13015378 AATCACACAAAATATTACAAAA
1 AATCACACAAAATATTACAAAA
13015400 AAATCCTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.59, C:0.17, G:0.00, T:0.24
Consensus pattern (24 bp):
AATCACACAAAATATTACAAAACT
Found at i:13016596 original size:18 final size:19
Alignment explanation
Indices: 13016544--13016613 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 19
13016534 TTTTTTTACC
*
13016544 AAATAATAATGATAATAATA
1 AAATAAAAATGA-AATAATA
*
13016564 AAATTAAAATGGAAATAA-A
1 AAATAAAAAT-GAAATAATA
13016583 AAATAAAAATGAAATACAATA
1 AAATAAAAATGAAAT--AATA
13016604 ATAATAAAAA
1 A-AATAAAAA
13016614 CATGAATAAC
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
18 5 0.12
19 10 0.24
20 15 0.36
21 4 0.10
22 8 0.19
ACGTcount: A:0.70, C:0.01, G:0.06, T:0.23
Consensus pattern (19 bp):
AAATAAAAATGAAATAATA
Found at i:13017165 original size:10 final size:10
Alignment explanation
Indices: 13017150--13017183 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
13017140 ATTAAATTTA
13017150 ATAAATAAAT
1 ATAAATAAAT
13017160 ATAAATAAAT
1 ATAAATAAAT
*
13017170 GTAAATTAAAT
1 ATAAA-TAAAT
13017181 ATA
1 ATA
13017184 TTTATAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 14 0.67
11 7 0.33
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (10 bp):
ATAAATAAAT
Found at i:13024059 original size:23 final size:24
Alignment explanation
Indices: 13024033--13024095 Score: 69
Period size: 23 Copynumber: 2.7 Consensus size: 24
13024023 ATTTGTTTAA
*
13024033 TTTTAAAAAATTCAAAAT-T-TATT
1 TTTTAAAAAATT-AAAATATGAATT
*
13024056 TTTTTAAAAA-TAAAATATGAATT
1 TTTTAAAAAATTAAAATATGAATT
13024079 TATTTAAAAAATTAAAA
1 T-TTTAAAAAATTAAAA
13024096 AAAGTAACCA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
21 5 0.15
22 2 0.06
23 13 0.39
24 8 0.24
25 5 0.15
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (24 bp):
TTTTAAAAAATTAAAATATGAATT
Found at i:13024171 original size:16 final size:16
Alignment explanation
Indices: 13024150--13024189 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
13024140 CCTATCGGGG
13024150 AAAGAGAAAGGGAAAAA
1 AAAGAGAAA-GGAAAAA
*
13024167 AAGAGGGAAAGGAAAAA
1 AA-AGAGAAAGGAAAAA
13024184 AAAGAG
1 AAAGAG
13024190 GATAGGGGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 3 0.15
17 11 0.55
18 6 0.30
ACGTcount: A:0.68, C:0.00, G:0.33, T:0.00
Consensus pattern (16 bp):
AAAGAGAAAGGAAAAA
Found at i:13024178 original size:18 final size:18
Alignment explanation
Indices: 13024155--13024190 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
13024145 CGGGGAAAGA
*
13024155 GAAAGGGAAAAAAAGAGG
1 GAAAGGAAAAAAAAGAGG
13024173 GAAAGGAAAAAAAAGAGG
1 GAAAGGAAAAAAAAGAGG
13024191 ATAGGGGGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (18 bp):
GAAAGGAAAAAAAAGAGG
Found at i:13024458 original size:22 final size:21
Alignment explanation
Indices: 13024428--13024488 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 21
13024418 ATATTATTTT
13024428 TAATATAAATATAAAAT-TAAA
1 TAATATAAA-ATAAAATATAAA
*
13024449 TATATATAAAA-ATATATATAAA
1 TA-ATATAAAATA-AAATATAAA
13024471 TAATTATAAAATAAAATA
1 TAA-TATAAAATAAAATA
13024489 ATTAATTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
20 1 0.03
21 7 0.21
22 24 0.73
23 1 0.03
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (21 bp):
TAATATAAAATAAAATATAAA
Found at i:13024478 original size:12 final size:13
Alignment explanation
Indices: 13024447--13024484 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 13
13024437 TATAAAATTA
13024447 AATATATATAAA-
1 AATATATATAAAT
13024459 AATATATATAAAT
1 AATATATATAAAT
13024472 AAT-TATA-AAAT
1 AATATATATAAAT
13024483 AA
1 AA
13024485 AATAATTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 6 0.24
12 16 0.64
13 3 0.12
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
AATATATATAAAT
Found at i:13025155 original size:25 final size:25
Alignment explanation
Indices: 13025123--13025171 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
13025113 TAGCTTATCA
13025123 AATTATTTTTAATTAT-TTTTAATTC
1 AATTATTTTT-ATTATCTTTTAATTC
*
13025148 AATTATTTTTATTTTCTTTTAATT
1 AATTATTTTTATTATCTTTTAATT
13025172 GTTTATGGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (25 bp):
AATTATTTTTATTATCTTTTAATTC
Found at i:13026981 original size:43 final size:43
Alignment explanation
Indices: 13026928--13027009 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 43
13026918 CCAACCAAAA
* *
13026928 CCAAGTACCCTCATCCTCTCTCTCCTAGACCCATCCAACTAAG
1 CCAAGCACCCTCATCCTCTCTCTCCTAAACCCATCCAACTAAG
* *
13026971 CCAAGCACCCTCATCCTCTCTTTCCTAAACCTATCCAAC
1 CCAAGCACCCTCATCCTCTCTCTCCTAAACCCATCCAAC
13027010 CAATGGTGCG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.26, C:0.45, G:0.05, T:0.24
Consensus pattern (43 bp):
CCAAGCACCCTCATCCTCTCTCTCCTAAACCCATCCAACTAAG
Found at i:13027718 original size:2 final size:2
Alignment explanation
Indices: 13027713--13027753 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
13027703 AAATAAGAAA
13027713 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
13027754 TTTATCAATG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:13027957 original size:21 final size:23
Alignment explanation
Indices: 13027921--13027973 Score: 74
Period size: 22 Copynumber: 2.4 Consensus size: 23
13027911 GAGATTCCTT
*
13027921 TTTCTTTTTCT-TTTTTTAAATA
1 TTTCTTTTTCTATTTTTAAAATA
13027943 TTTCTTTTT-TATTTTTAAAATA
1 TTTCTTTTTCTATTTTTAAAATA
*
13027965 TTACTTTTT
1 TTTCTTTTT
13027974 AAAAAAATCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 1 0.04
22 27 0.96
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.72
Consensus pattern (23 bp):
TTTCTTTTTCTATTTTTAAAATA
Found at i:13028121 original size:21 final size:24
Alignment explanation
Indices: 13028096--13028144 Score: 68
Period size: 21 Copynumber: 2.2 Consensus size: 24
13028086 ATTCCCTTTC
13028096 TTTTTCTT-TTTTT-AAATA-TAT
1 TTTTTCTTATTTTTAAAATATTAT
*
13028117 TTTTTTTTATTTTTAAAATATTAT
1 TTTTTCTTATTTTTAAAATATTAT
13028141 TTTT
1 TTTT
13028145 AAAAAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 7 0.29
22 5 0.21
23 5 0.21
24 7 0.29
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (24 bp):
TTTTTCTTATTTTTAAAATATTAT
Found at i:13028153 original size:173 final size:173
Alignment explanation
Indices: 13027818--13028164 Score: 619
Period size: 173 Copynumber: 2.0 Consensus size: 173
13027808 CTAGTAGATC
13027818 TACTTCAATCTATCATGAAGCAGTCAATCGGCACTTGTCACCACTCCCTATCTTTCCCCTATCTT
1 TACTTCAATCTATCATGAAGCAGTCAATCGGCACTTGTCACCACTCCCTATCTTTCCCCTATCTT
* *
13027883 CTCTTTCCCCCATTTCCATTATCTCCACGAGATTCCTTTTTCTTTTTCTTTTTTTAAATATTTCT
66 CTCTTTCCCCCATTTCCATTATCTCCACCAGATTCCTCTTTCTTTTTCTTTTTTTAAATATTTCT
13027948 TTTTTATTTTTAAAATATTACTTTTTAAAAAAATCTAGATTTT
131 TTTTTATTTTTAAAATATTACTTTTTAAAAAAATCTAGATTTT
13027991 TACTTCAATCTATCATGAAGCAGTCAATCGGCACTTGTCACCACTCCCTATCTTTCCCCTATCTT
1 TACTTCAATCTATCATGAAGCAGTCAATCGGCACTTGTCACCACTCCCTATCTTTCCCCTATCTT
*
13028056 CTCTTT-CCCCATTTCCATTATCTCCACCAGATTCC-CTTTCTTTTTCTTTTTTTAAATATATTT
66 CTCTTTCCCCCATTTCCATTATCTCCACCAGATTCCTCTTTCTTTTTCTTTTTTTAAATAT-TTC
13028119 TTTTTTATTTTTAAAATATTA-TTTTTAAAAAAAAATCTAGATTTT
130 TTTTTTATTTTTAAAATATTACTTTTT--AAAAAAATCTAGATTTT
13028164 T
1 T
13028165 TGTTAAAAAA
Statistics
Matches: 168, Mismatches: 3, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
171 28 0.17
172 51 0.30
173 89 0.53
ACGTcount: A:0.24, C:0.24, G:0.05, T:0.47
Consensus pattern (173 bp):
TACTTCAATCTATCATGAAGCAGTCAATCGGCACTTGTCACCACTCCCTATCTTTCCCCTATCTT
CTCTTTCCCCCATTTCCATTATCTCCACCAGATTCCTCTTTCTTTTTCTTTTTTTAAATATTTCT
TTTTTATTTTTAAAATATTACTTTTTAAAAAAATCTAGATTTT
Found at i:13028710 original size:19 final size:18
Alignment explanation
Indices: 13028683--13028718 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
13028673 TTTTTATAAA
13028683 AAAATTATTAAAATAATT
1 AAAATTATTAAAATAATT
13028701 AAAATATATTAAAATAAT
1 AAAAT-TATTAAAATAAT
13028719 ATTATTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAATTATTAAAATAATT
Found at i:13028722 original size:11 final size:10
Alignment explanation
Indices: 13028683--13028722 Score: 57
Period size: 9 Copynumber: 4.1 Consensus size: 10
13028673 TTTTTATAAA
13028683 AAAAT-TATT
1 AAAATATATT
13028692 AAAATA-ATT
1 AAAATATATT
13028701 AAAATATATT
1 AAAATATATT
13028711 AAAATAATATT
1 AAAAT-ATATT
13028722 A
1 A
13028723 TTTTAATATT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
9 14 0.50
10 8 0.29
11 6 0.21
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
AAAATATATT
Found at i:13028747 original size:25 final size:26
Alignment explanation
Indices: 13028709--13028761 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
13028699 TTAAAATATA
* *
13028709 TTAAAATAATATT-ATTTTAATATTT
1 TTAAAATAATATTAAATTAAATATTT
13028734 TTAAAATTAA-ATTAAATTAAATATTT
1 TTAAAA-TAATATTAAATTAAATATTT
13028760 TT
1 TT
13028762 TATTAATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 9 0.38
26 15 0.62
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (26 bp):
TTAAAATAATATTAAATTAAATATTT
Found at i:13045310 original size:16 final size:15
Alignment explanation
Indices: 13045286--13045320 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
13045276 TGATTGTGTA
*
13045286 TTTAGTTTTTATTGAT
1 TTTAATTTTTATT-AT
13045302 TTTAATTTTTATTAT
1 TTTAATTTTTATTAT
13045317 TTTA
1 TTTA
13045321 TTATATGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (15 bp):
TTTAATTTTTATTAT
Found at i:13052240 original size:24 final size:23
Alignment explanation
Indices: 13052190--13052241 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
13052180 ATTTTTTTTG
*
13052190 TTTTTTATTTGTTTAAATCATTGA
1 TTTTTTATTTGTTTAAA-CATTAA
13052214 TTTTTTATTTGATTTGAAA-ATTAA
1 TTTTTTATTTG-TTT-AAACATTAA
13052238 TTTT
1 TTTT
13052242 AGGATAAATC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 19 0.76
25 3 0.12
26 3 0.12
ACGTcount: A:0.27, C:0.02, G:0.08, T:0.63
Consensus pattern (23 bp):
TTTTTTATTTGTTTAAACATTAA
Found at i:13052429 original size:18 final size:17
Alignment explanation
Indices: 13052406--13052452 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 17
13052396 ATATTGGAAG
13052406 ATTTTGAAATAAAAAACA
1 ATTTTGAAATAAAAAA-A
*
13052424 ATTTTG-AA-AAAATAA
1 ATTTTGAAATAAAAAAA
*
13052439 ATTTTGAAGTAAAA
1 ATTTTGAAATAAAA
13052453 CCTTATCAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
15 7 0.28
16 6 0.24
17 6 0.24
18 6 0.24
ACGTcount: A:0.57, C:0.02, G:0.09, T:0.32
Consensus pattern (17 bp):
ATTTTGAAATAAAAAAA
Found at i:13053061 original size:14 final size:14
Alignment explanation
Indices: 13053042--13053070 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
13053032 TTTCTAATAA
13053042 TTCTAATAGTTAAT
1 TTCTAATAGTTAAT
13053056 TTCTAATAGTTAAT
1 TTCTAATAGTTAAT
13053070 T
1 T
13053071 CTTAAATTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.52
Consensus pattern (14 bp):
TTCTAATAGTTAAT
Found at i:13056898 original size:71 final size:69
Alignment explanation
Indices: 13056727--13056902 Score: 176
Period size: 71 Copynumber: 2.5 Consensus size: 69
13056717 CATTTGATTT
* * *
13056727 ATGATTTGGACATGCCTTTGCATCATTTAGTGAACATTTGAATCATTGCTTTTAATATTTCATTA
1 ATGA-TTGGACATGCATTTGCATCATTTAGTGAGCATTTGAATCATTGCTTTTAATATTGCATTA
13056792 GCATC
65 GCATC
* * * * * *
13056797 ATTG-TTAGAAAAATACATATGCACCGTTTAGTGAGCATTTGAATCATTG-TTTTGAATATTGCA
1 A-TGATT-G-GACATGCATTTGCATCATTTAGTGAGCATTTGAATCATTGCTTTT-AATATTGCA
*
13056860 TTGGCATC
62 TTAGCATC
*
13056868 ATGACTTGGATCATGCATTTGTATCATTTAGTGAG
1 ATGA-TTGGA-CATGCATTTGCATCATTTAGTGAG
13056903 TATCTAAATT
Statistics
Matches: 82, Mismatches: 17, Indels: 13
0.73 0.15 0.12
Matches are distributed among these distances:
69 2 0.02
70 9 0.11
71 69 0.84
72 2 0.02
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.40
Consensus pattern (69 bp):
ATGATTGGACATGCATTTGCATCATTTAGTGAGCATTTGAATCATTGCTTTTAATATTGCATTAG
CATC
Found at i:13057665 original size:22 final size:22
Alignment explanation
Indices: 13057637--13057688 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
13057627 AAATGGTTTG
13057637 TAAGACCTCCAAGCATAATCTC
1 TAAGACCTCCAAGCATAATCTC
* * *
13057659 TAAGACCTCTAGGCATAATCTT
1 TAAGACCTCCAAGCATAATCTC
*
13057681 TAAAACCT
1 TAAGACCT
13057689 TTGAGTATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.37, C:0.27, G:0.10, T:0.27
Consensus pattern (22 bp):
TAAGACCTCCAAGCATAATCTC
Found at i:13057796 original size:32 final size:32
Alignment explanation
Indices: 13057755--13057822 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 32
13057745 ATCATATCAC
* ** *
13057755 TTTTTGACCTTAGTTTGGTTTGATTACCTTTA
1 TTTTCGACCTTAGTTCAGTTTGATCACCTTTA
13057787 TTTTCGACCTTAGTTCAGTTTGATCACCTTTA
1 TTTTCGACCTTAGTTCAGTTTGATCACCTTTA
13057819 TTTT
1 TTTT
13057823 TTACTTTGGC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.16, C:0.16, G:0.13, T:0.54
Consensus pattern (32 bp):
TTTTCGACCTTAGTTCAGTTTGATCACCTTTA
Found at i:13057861 original size:26 final size:26
Alignment explanation
Indices: 13057809--13057861 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
13057799 GTTCAGTTTG
* * *
13057809 ATCACCTTTATTTTTTACTTTGGCTC
1 ATCACCTTTATTTTTGACCTTGACTC
13057835 ATCA-CTTTCATTTTTGACCTTGACTC
1 ATCACCTTT-ATTTTTGACCTTGACTC
13057861 A
1 A
13057862 ATCTGGTCAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.19, C:0.25, G:0.08, T:0.49
Consensus pattern (26 bp):
ATCACCTTTATTTTTGACCTTGACTC
Found at i:13057903 original size:32 final size:32
Alignment explanation
Indices: 13057836--13057912 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
13057826 CTTTGGCTCA
*
13057836 TCACTTTCATTTTTGACCTTGACTCAATCTGG
1 TCACTTTCATTTTTGACCTTGACTCAATCTAG
* ** * *
13057868 TCACTTTCATTTTTTACCTTGGTTTAGTCTAG
1 TCACTTTCATTTTTGACCTTGACTCAATCTAG
*
13057900 TCACCTTCATTTT
1 TCACTTTCATTTT
13057913 CAATCTTCTT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.17, C:0.23, G:0.10, T:0.49
Consensus pattern (32 bp):
TCACTTTCATTTTTGACCTTGACTCAATCTAG
Found at i:13057987 original size:33 final size:33
Alignment explanation
Indices: 13057948--13058036 Score: 142
Period size: 33 Copynumber: 2.7 Consensus size: 33
13057938 TCATTTTGAT
* *
13057948 TCAATCCAAGTCATTTTATTTTTTTACTTTGGC
1 TCAATCCAAGTCATATCATTTTTTTACTTTGGC
13057981 TCAATCCAAGTCATATCATTTTTTTACTTTGGC
1 TCAATCCAAGTCATATCATTTTTTTACTTTGGC
**
13058014 TTGATCCAAGTCATATCATTTTT
1 TCAATCCAAGTCATATCATTTTT
13058037 CACACTTTGA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 52 1.00
ACGTcount: A:0.24, C:0.19, G:0.09, T:0.48
Consensus pattern (33 bp):
TCAATCCAAGTCATATCATTTTTTTACTTTGGC
Found at i:13058206 original size:33 final size:32
Alignment explanation
Indices: 13058169--13058264 Score: 102
Period size: 33 Copynumber: 2.9 Consensus size: 32
13058159 TTTTTTTTCA
* *
13058169 ACTTTGGTTTAATCCAAGTCATTTTACTTTTTT
1 ACTTTAGTTTAATACAAGTCATTTTA-TTTTTT
* * **
13058202 ACTTTAGCTTAGTTTAAGTCATTTTATTTTTT
1 ACTTTAGTTTAATACAAGTCATTTTATTTTTT
* *
13058234 AGCTTTAGTTCAATACAGGTCATTTTATTTT
1 A-CTTTAGTTTAATACAAGTCATTTTATTTT
13058265 AAACTTTTGT
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
32 7 0.14
33 44 0.86
ACGTcount: A:0.23, C:0.12, G:0.10, T:0.54
Consensus pattern (32 bp):
ACTTTAGTTTAATACAAGTCATTTTATTTTTT
Found at i:13058703 original size:24 final size:23
Alignment explanation
Indices: 13058670--13058748 Score: 70
Period size: 24 Copynumber: 3.3 Consensus size: 23
13058660 GTCCATTTTA
13058670 TTTTATTTTTATTTAATTTATTTC
1 TTTT-TTTTTATTTAATTTATTTC
* ** *
13058694 TTTTTCTTTTCTTTAATGAATTTG
1 TTTTT-TTTTATTTAATTTATTTC
* *
13058718 ATTTTTTTTATTTTAATTTATAT-
1 TTTTTTTTTA-TTTAATTTATTTC
13058741 TTTTTTTT
1 TTTTTTTT
13058749 GTTTTATTAT
Statistics
Matches: 43, Mismatches: 10, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
23 12 0.28
24 31 0.72
ACGTcount: A:0.19, C:0.04, G:0.03, T:0.75
Consensus pattern (23 bp):
TTTTTTTTTATTTAATTTATTTC
Found at i:13058760 original size:24 final size:23
Alignment explanation
Indices: 13058719--13058767 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
13058709 ATGAATTTGA
13058719 TTTTTTTTATTTTAATTTAT-AT
1 TTTTTTTTATTTTAATTTATCAT
*
13058741 TTTTTTTTGTTTTATTATTTATCAT
1 TTTTTTTTATTTTA--ATTTATCAT
13058766 TT
1 TT
13058768 GGATATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 13 0.57
24 6 0.26
25 4 0.17
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.78
Consensus pattern (23 bp):
TTTTTTTTATTTTAATTTATCAT
Found at i:13060681 original size:4 final size:4
Alignment explanation
Indices: 13060668--13060706 Score: 51
Period size: 4 Copynumber: 9.0 Consensus size: 4
13060658 GATTTGGTAA
13060668 ATTT ATTTT ATTT AATCTT ATTT ATTT ATTT ATTT ATTT
1 ATTT A-TTT ATTT -AT-TT ATTT ATTT ATTT ATTT ATTT
13060707 GGATTACAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
4 22 0.69
5 8 0.25
6 2 0.06
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (4 bp):
ATTT
Found at i:13060981 original size:15 final size:15
Alignment explanation
Indices: 13060960--13060993 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
13060950 AGTTTTGTAG
13060960 TAAAAAAAT-AATTT
1 TAAAAAAATAAATTT
*
13060974 TGAAAAAATAAATTT
1 TAAAAAAATAAATTT
13060989 TAAAA
1 TAAAA
13060994 TAAAACCTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (15 bp):
TAAAAAAATAAATTT
Found at i:13067320 original size:2 final size:2
Alignment explanation
Indices: 13067313--13067339 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
13067303 GAAAATTTAC
13067313 AT 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 A
13067340 GACAACTTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13067940 original size:15 final size:15
Alignment explanation
Indices: 13067917--13067946 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13067907 AAGCAAAGCG
*
13067917 AAAATAAAAAAAAAA
1 AAAAGAAAAAAAAAA
13067932 AAAAGAAAAAAAAAA
1 AAAAGAAAAAAAAAA
13067947 GGGCGTCATT
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:0.93, C:0.00, G:0.03, T:0.03
Consensus pattern (15 bp):
AAAAGAAAAAAAAAA
Found at i:13069311 original size:357 final size:356
Alignment explanation
Indices: 13068639--13070090 Score: 1936
Period size: 357 Copynumber: 4.1 Consensus size: 356
13068629 TTATTTGATA
* * * * *
13068639 TGATTATTAAA-G-ATGTCTTTATTATGATA-CGCCTTCAATATACTACGATAGTAATGAAAGTC
1 TGATTATTAAAGGCATCT-TTTATTAT-AAACCGCCTTCAATATACCACGATGGTAATGAAAGGC
** * *
13068701 ATTTATTAGAAAATGCACTTTCAATATACCTTTAAACTTAGTAATCCATTAGTGAAGGCGTTTGT
64 ATTTATTAGAAAATGTGCCTTCAATATACCTTTAAACTTAGTAATCCATTACTGAAGGCGTTTGT
* * * *
13068766 TAATAATAGACGCCTTCAAAATTTTCTCACTAAATATTTTGAGAATTATTAAAGGCATCTTCTAT
129 TAATAACAGACGCCTTCAAAATTTTCTCACTAAATATTTTGAGAATTATTAAAGACGTCTTCTAC
* * * * * **
13068831 TGTCAAATGCCTTCTATATACCGTCACACAAATTCTAACATTGTTATTGAAGGTGTATATTTAAG
194 TGTCAAATGCCTTCTATATACCGCCACACAAATTTTAACACTGTTATTGAAGGCGTACATCCAAG
* * * *
13068896 ATAGATGCCTTTAATAATTTCTATCATAGTTTGTAGATAATAACTGAAGGTGGTTGCAGAAAACA
259 AAAGACGCCTTTAATAATTCCTATCACAGTTTGTAGATAATAACTGAAGGTGGTTGCAGAAAACA
13068961 ACGCCTTCAATAATTTT-TCTCAAAAAATTTTCG
324 ACGCCTTCAATAATTTTCT-TCAAAAAATTTTCG
* * ** * * * *
13068994 TGAATTTTTAAAGGCGTCTTTTATTATAAATTGCTTTCAATATACCAAGATGGTAATGGAAGGCG
1 TG-ATTATTAAAGGCATCTTTTATTATAAACCGCCTTCAATATACCACGATGGTAATGAAAGGCA
13069059 TTTATTAGAAAAATGTGCCTTCAATATACCTTTAAACTTAGTAATCCATTACTGAAGGCGTTTGT
65 TTTATTAG-AAAATGTGCCTTCAATATACCTTTAAACTTAGTAATCCATTACTGAAGGCGTTTGT
* * ** **
13069124 TAATAACAGACGCTTTCAAAATTTTCTTACTAAATA-TTTGCTAATTATTAAAGGTGTCTTCTAC
129 TAATAACAGACGCCTTCAAAATTTTCTCACTAAATATTTTGAGAATTATTAAAGACGTCTTCTAC
* * * * * **
13069188 TGTCCAATGCCTTCTATATATCGCCACATAAATTTTAACACTGTTATCGAAGGCGTATATTTAAG
194 TGTCAAATGCCTTCTATATACCGCCACACAAATTTTAACACTGTTATTGAAGGCGTACATCCAAG
* * * *
13069253 ATAGACGCCTTTAATAATTCCTATCATAATTTGTAGATAATAACTAAAGGTGGTTGCAGAAAACA
259 AAAGACGCCTTTAATAATTCCTATCACAGTTTGTAGATAATAACTGAAGGTGGTTGCAGAAAACA
* *
13069318 ACACCTTCAATAATTTTCTTCAAAAAAATTTCG
324 ACGCCTTCAATAATTTTCTTCAAAAAATTTTCG
* * *
13069351 TGGATTTTTAAAGGTATCTTTTATTATAAACCGCCTTCAATATACCATGATGGTAATGAAAGGCA
1 T-GATTATTAAAGGCATCTTTTATTATAAACCGCCTTCAATATACCACGATGGTAATGAAAGGCA
* * * *
13069416 TTTATTAGAAAATGTGCCTTCAATATACCTATAAAATTAATAATCTATTACTGAAGGCGTTTGTT
65 TTTATTAGAAAATGTGCCTTCAATATACCTTTAAACTTAGTAATCCATTACTGAAGGCGTTTGTT
*
13069481 AATAACAGACGCCTTC-AAATTTTCTCACTACAT-TTTTGAGAATTATTAAAGACGTCTTCTACT
130 AATAACAGACGCCTTCAAAATTTTCTCACTAAATATTTTGAGAATTATTAAAGACGTCTTCTACT
* * * *
13069544 G-CATAATACCTT-TATATACTGCCACACAAATTTTAATACTGTTATTGAAGGCATACATCCAAG
195 GTCA-AATGCCTTCTATATACCGCCACACAAATTTTAACACTGTTATTGAAGGCGTACATCCAAG
*
13069607 AAAGACGCCTTTAATAATTCATATCACAGTTTGTAGATAATAACTGAAGGTGGTTGCAGAAAACA
259 AAAGACGCCTTTAATAATTCCTATCACAGTTTGTAGATAATAACTGAAGGTGGTTGCAGAAAACA
*
13069672 ACGCCTTCAATAATTTTCCTCAAAAAA-TTTCG
324 ACGCCTTCAATAATTTTCTTCAAAAAATTTTCG
* * * *
13069704 CGTATTATTAAAGACATCTTTTATTATAAACCGCCTTCAATATACCACGATGGTAATGGAAGGCG
1 TG-ATTATTAAAGGCATCTTTTATTATAAACCGCCTTCAATATACCACGATGGTAATGAAAGGCA
* * * *
13069769 TTTATTAGAAAAAGTGCATTCAATATACCTTTAAACTTAGTAATCCATTATTGAAGGCATTTGTT
65 TTTATTAGAAAATGTGCCTTCAATATACCTTTAAACTTAGTAATCCATTACTGAAGGCGTTTGTT
* * * * *
13069834 AATAACAGACACCTTCAAATTTTTCCCACTAAATATTTTGAAAATTATTAAATACGTCTTCTACT
130 AATAACAGACGCCTTCAAAATTTTCTCACTAAATATTTTGAGAATTATTAAAGACGTCTTCTACT
* * * * *
13069899 GTAAAATGCCTTTTATATACCACTACACAAATTTTAACACTGTTATTGAAGGCGTACATCCAAAA
195 GTCAAATGCCTTCTATATACCGCCACACAAATTTTAACACTGTTATTGAAGGCGTACATCCAAGA
* * * **
13069964 AAGATGCCTTTAATAATTTCTATCACAGTTTGTACATAATAACTGAAGACGGTTGCAGAAAACAA
260 AAGACGCCTTTAATAATTCCTATCACAGTTTGTAGATAATAACTGAAGGTGGTTGCAGAAAACAA
*
13070029 CGCCTTCAATAATTTTCTTCAAAAATTTTTACG
325 CGCCTTCAATAATTTTCTTCAAAAAATTTT-CG
*
13070062 -GATTATTAAAGGCGTCTTTTATTATAAAC
1 TGATTATTAAAGGCATCTTTTATTATAAAC
13070091 TGCTTTCATT
Statistics
Matches: 967, Mismatches: 114, Indels: 31
0.87 0.10 0.03
Matches are distributed among these distances:
352 1 0.00
353 133 0.14
354 142 0.15
355 86 0.09
356 234 0.24
357 280 0.29
358 91 0.09
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (356 bp):
TGATTATTAAAGGCATCTTTTATTATAAACCGCCTTCAATATACCACGATGGTAATGAAAGGCAT
TTATTAGAAAATGTGCCTTCAATATACCTTTAAACTTAGTAATCCATTACTGAAGGCGTTTGTTA
ATAACAGACGCCTTCAAAATTTTCTCACTAAATATTTTGAGAATTATTAAAGACGTCTTCTACTG
TCAAATGCCTTCTATATACCGCCACACAAATTTTAACACTGTTATTGAAGGCGTACATCCAAGAA
AGACGCCTTTAATAATTCCTATCACAGTTTGTAGATAATAACTGAAGGTGGTTGCAGAAAACAAC
GCCTTCAATAATTTTCTTCAAAAAATTTTCG
Found at i:13070020 original size:710 final size:713
Alignment explanation
Indices: 13068668--13070090 Score: 2016
Period size: 710 Copynumber: 2.0 Consensus size: 713
13068658 TATTATGATA
* * * *
13068668 CGCCTTCAATATACTACGATAGTAATGAAAGTCATTTATTAGAAAATGCACTTTCAATATACCTT
1 CGCCTTCAATATACCACGATAGTAATGAAAGGCATTTATTAGAAAATGCACCTTCAATATACCTA
* * * *
13068733 TAAACTTAGTAATCCATTAGTGAAGGCGTTTGTTAATAATAGACGCCTTCAAAATTTTCTCACTA
66 TAAAATTAATAATCCATTACTGAAGGCGTTTGTTAATAACAGACGCCTTCAAAATTTTCTCACTA
* * * *
13068798 AATATTTTGAGAATTATTAAAGGCATCTTCTATTGTCAAATGCCTTCTATATACCGTCACACAAA
131 AATATTTTGAGAATTATTAAAGACATCTTCTACTGTCAAATACCTTCTATATACCGCCACACAAA
* ** * ** * * *
13068863 TTCTAACATTGTTATTGAAGGTGTATATTTAAGATAGATGCCTTTAATAATTTCTATCATAGTTT
196 TTCTAACACTGTTATTGAAGGCATACATCCAAGAAAGACGCCTTTAATAATTTCTATCACAGTTT
*
13068928 GTAGATAATAACTGAAGGTGGTTGCAGAAAACAACGCCTTCAATAATTTTTCTCAAAAAATTTTC
261 GTAGATAATAACTGAAGGTGGTTGCAGAAAACAACGCCTTCAATAATTTTCCTCAAAAAATTTTC
* * * * ** *
13068993 GTGAATTTTTAAAGGCGTCTTTTATTATAAATTGCTTTCAATATACCAAGATGGTAATGGAAGGC
326 GCGAATTATTAAAGACATCTTTTATTATAAACCGCCTTCAATATACCAAGATGGTAATGGAAGGC
* *
13069058 GTTTATTAGAAAAATGTGCCTTCAATATACCTTTAAACTTAGTAATCCATTACTGAAGGCGTTTG
391 GTTTATTAGAAAAATGTGCATTCAATATACCTTTAAACTTAGTAATCCATTACTGAAGGCATTTG
* * ** ** **
13069123 TTAATAACAGACGCTTTCAAAATTTTCTTACTAAATATTTGCTAATTATTAAAGGTGTCTTCTAC
456 TTAATAACAGACACCTTCAAAATTTTCCCACTAAATATTTGAAAATTATTAAAGACGTCTTCTAC
** * * * * ** *
13069188 TGTCCAATGCCTTCTATATATCGCCACATAAATTTTAACACTGTTATCGAAGGCGTATATTTAAG
521 TGTAAAATGCCTTCTATATACCACCACACAAATTTTAACACTGTTATCGAAGGCGTACATCCAAA
* * * **
13069253 ATAGACGCCTTTAATAATTCCTATCATAATTTGTAGATAATAACTAAAGGTGGTTGCAGAAAACA
586 AAAGACGCCTTTAATAATTCCTATCACAATTTGTACATAATAACTAAAGACGGTTGCAGAAAACA
* *
13069318 ACACCTTCAATAATTTTCTTCAAAAAAATTT-CGTGGATTTTTAAAGGTATCTTTTATTATAAAC
651 ACACCTTCAATAATTTTCTTCAAAAAAATTTAC--GGATTATTAAAGGCATCTTTTATTATAAAC
* * **
13069382 CGCCTTCAATATACCATGATGGTAATGAAAGGCATTTATTAGAAAATGTGCCTTCAATATACCTA
1 CGCCTTCAATATACCACGATAGTAATGAAAGGCATTTATTAGAAAATGCACCTTCAATATACCTA
*
13069447 TAAAATTAATAATCTATTACTGAAGGCGTTTGTTAATAACAGACGCCTTC-AAATTTTCTCACTA
66 TAAAATTAATAATCCATTACTGAAGGCGTTTGTTAATAACAGACGCCTTCAAAATTTTCTCACTA
* * *
13069511 CAT-TTTTGAGAATTATTAAAGACGTCTTCTACTG-CATAATACCTT-TATATACTGCCACACAA
131 AATATTTTGAGAATTATTAAAGACATCTTCTACTGTCA-AATACCTTCTATATACCGCCACACAA
* *
13069573 ATTTTAATACTGTTATTGAAGGCATACATCCAAGAAAGACGCCTTTAATAA-TTCATATCACAGT
195 ATTCTAACACTGTTATTGAAGGCATACATCCAAGAAAGACGCCTTTAATAATTTC-TATCACAGT
13069637 TTGTAGATAATAACTGAAGGTGGTTGCAGAAAACAACGCCTTCAATAATTTTCCTCAAAAAA-TT
259 TTGTAGATAATAACTGAAGGTGGTTGCAGAAAACAACGCCTTCAATAATTTTCCTCAAAAAATTT
* *
13069701 TCGCGTATTATTAAAGACATCTTTTATTATAAACCGCCTTCAATATACCACGATGGTAATGGAAG
324 TCGCGAATTATTAAAGACATCTTTTATTATAAACCGCCTTCAATATACCAAGATGGTAATGGAAG
*
13069766 GCGTTTATTAGAAAAA-GTGCATTCAATATACCTTTAAACTTAGTAATCCATTATTGAAGGCATT
389 GCGTTTATTAGAAAAATGTGCATTCAATATACCTTTAAACTTAGTAATCCATTACTGAAGGCATT
* *
13069830 TGTTAATAACAGACACCTTCAAATTTTTCCCACTAAATATTTTGAAAATTATTAAATACGTCTTC
454 TGTTAATAACAGACACCTTCAAAATTTTCCCACTAAATA-TTTGAAAATTATTAAAGACGTCTTC
* * *
13069895 TACTGTAAAATGCCTTTTATATACCACTACACAAATTTTAACACTGTTATTGAAGGCGTACATCC
518 TACTGTAAAATGCCTTCTATATACCACCACACAAATTTTAACACTGTTATCGAAGGCGTACATCC
* * * *
13069960 AAAAAAGATGCCTTTAATAATTTCTATCACAGTTTGTACATAATAACTGAAGACGGTTGCAGAAA
583 AAAAAAGACGCCTTTAATAATTCCTATCACAATTTGTACATAATAACTAAAGACGGTTGCAGAAA
* ** *
13070025 ACAACGCCTTCAATAATTTTCTTCAAAAATTTTTACGGATTATTAAAGGCGTCTTTTATTATAAA
648 ACAACACCTTCAATAATTTTCTTCAAAAAAATTTACGGATTATTAAAGGCATCTTTTATTATAAA
13070090 C
713 C
13070091 TGCTTTCATT
Statistics
Matches: 624, Mismatches: 81, Indels: 13
0.87 0.11 0.02
Matches are distributed among these distances:
709 106 0.17
710 237 0.38
711 128 0.21
712 35 0.06
713 16 0.03
714 102 0.16
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (713 bp):
CGCCTTCAATATACCACGATAGTAATGAAAGGCATTTATTAGAAAATGCACCTTCAATATACCTA
TAAAATTAATAATCCATTACTGAAGGCGTTTGTTAATAACAGACGCCTTCAAAATTTTCTCACTA
AATATTTTGAGAATTATTAAAGACATCTTCTACTGTCAAATACCTTCTATATACCGCCACACAAA
TTCTAACACTGTTATTGAAGGCATACATCCAAGAAAGACGCCTTTAATAATTTCTATCACAGTTT
GTAGATAATAACTGAAGGTGGTTGCAGAAAACAACGCCTTCAATAATTTTCCTCAAAAAATTTTC
GCGAATTATTAAAGACATCTTTTATTATAAACCGCCTTCAATATACCAAGATGGTAATGGAAGGC
GTTTATTAGAAAAATGTGCATTCAATATACCTTTAAACTTAGTAATCCATTACTGAAGGCATTTG
TTAATAACAGACACCTTCAAAATTTTCCCACTAAATATTTGAAAATTATTAAAGACGTCTTCTAC
TGTAAAATGCCTTCTATATACCACCACACAAATTTTAACACTGTTATCGAAGGCGTACATCCAAA
AAAGACGCCTTTAATAATTCCTATCACAATTTGTACATAATAACTAAAGACGGTTGCAGAAAACA
ACACCTTCAATAATTTTCTTCAAAAAAATTTACGGATTATTAAAGGCATCTTTTATTATAAAC
Found at i:13079033 original size:22 final size:21
Alignment explanation
Indices: 13079005--13079060 Score: 80
Period size: 22 Copynumber: 2.7 Consensus size: 21
13078995 ATTATTTTCA
13079005 AATATAAATATAAAATTAAAT
1 AATATAAATATAAAATTAAAT
*
13079026 ATATATAAATATAAAATTAAGT
1 A-ATATAAATATAAAATTAAAT
13079048 AAT-TAAATA-AAAA
1 AATATAAATATAAAA
13079061 CTAATTTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
19 4 0.12
20 6 0.18
21 3 0.09
22 20 0.61
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (21 bp):
AATATAAATATAAAATTAAAT
Found at i:13081755 original size:20 final size:22
Alignment explanation
Indices: 13081738--13081881 Score: 59
Period size: 20 Copynumber: 6.5 Consensus size: 22
13081728 ATTAAATTTA
13081738 ATAATATTATATTTAATTTATAT
1 ATAA-ATTATATTTAATTTATAT
* *
13081761 ATAAATTATATATATAAATTAAAGAT
1 ATAAATTATAT-T-T-AATT-TATAT
* *
13081787 AAAAATTATA--TAA---AAAT
1 ATAAATTATATTTAATTTATAT
* * **
13081804 AAAAATTAAATTTAATAAAATAT
1 ATAAATTATATTTAAT-TTATAT
*
13081827 ATAATATTTATTTTTAATTTATAT
1 ATAA-A-TTATATTTAATTTATAT
* *
13081851 ATATATGA-A-TTAATTTATAT
1 ATAAATTATATTTAATTTATAT
*
13081871 ATAATTTATAT
1 ATAAATTATAT
13081882 ATATATATAT
Statistics
Matches: 90, Mismatches: 17, Indels: 29
0.66 0.12 0.21
Matches are distributed among these distances:
17 12 0.13
19 3 0.03
20 16 0.18
21 3 0.03
22 10 0.11
23 12 0.13
24 9 0.10
25 13 0.14
26 12 0.13
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (22 bp):
ATAAATTATATTTAATTTATAT
Found at i:13081813 original size:24 final size:26
Alignment explanation
Indices: 13081763--13081809 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
13081753 ATTTATATAT
*
13081763 AAATTATATATATAAATTAAAGATAA
1 AAATTATATATATAAATTAAAAATAA
13081789 AAATTATATA-A-AAA-TAAAAAT
1 AAATTATATATATAAATTAAAAAT
13081810 TAAATTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 6 0.30
24 3 0.15
25 1 0.05
26 10 0.50
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (26 bp):
AAATTATATATATAAATTAAAAATAA
Found at i:13081853 original size:2 final size:2
Alignment explanation
Indices: 13081846--13081917 Score: 53
Period size: 2 Copynumber: 37.5 Consensus size: 2
13081836 ATTTTTAATT
* *
13081846 TA TA TA TA TA TGA -A T- TA -A TT TA TA TA TA -A TT TA TA TA TA
1 TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
13081885 TA TA TA TA AA TA AA AA TT TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13081918 GAATTTTGAT
Statistics
Matches: 55, Mismatches: 10, Indels: 10
0.73 0.13 0.13
Matches are distributed among these distances:
1 4 0.07
2 50 0.91
3 1 0.02
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (2 bp):
TA
Found at i:13081922 original size:20 final size:19
Alignment explanation
Indices: 13081841--13081923 Score: 73
Period size: 20 Copynumber: 4.3 Consensus size: 19
13081831 TATTTATTTT
13081841 TAATTTATATATATATGA-A
1 TAATTTATATATATAT-ATA
*
13081860 TTAATTTATATATA-ATTTA
1 -TAATTTATATATATATATA
* *
13081879 T-ATATATATATATAAATAA
1 TAATTTATATATATATAT-A
*
13081898 AAATTTATATATATATATA
1 TAATTTATATATATATATA
13081917 TGAATTT
1 T-AATTT
13081924 TGATCTAAGT
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
17 10 0.20
18 3 0.06
19 5 0.10
20 32 0.64
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.49
Consensus pattern (19 bp):
TAATTTATATATATATATA
Found at i:13085224 original size:22 final size:21
Alignment explanation
Indices: 13085183--13085237 Score: 76
Period size: 22 Copynumber: 2.6 Consensus size: 21
13085173 TTATTAAATT
13085183 TATATATATTATTATTTATTC
1 TATATATATTATTATTTATTC
13085204 TATATATATT-TTAAATTTATTC
1 TATATATATTATT--ATTTATTC
*
13085226 TATATATGTTAT
1 TATATATATTAT
13085238 GACTATATAG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 2 0.07
21 10 0.33
22 17 0.57
23 1 0.03
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (21 bp):
TATATATATTATTATTTATTC
Found at i:13091483 original size:15 final size:15
Alignment explanation
Indices: 13091463--13091492 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13091453 AATGAGCTTC
13091463 AAAATATCAAAAATA
1 AAAATATCAAAAATA
*
13091478 AAAATATTAAAAATA
1 AAAATATCAAAAATA
13091493 TTAAGCTTTG
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:0.73, C:0.03, G:0.00, T:0.23
Consensus pattern (15 bp):
AAAATATCAAAAATA
Found at i:13096781 original size:26 final size:23
Alignment explanation
Indices: 13096739--13096794 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
13096729 TTTTTTTTTC
* *
13096739 TTTTTTTTTAAAGCAAATCAATTT
1 TTTTTTTTTAAAACAAAAC-ATTT
13096763 TTTTTTTCTTAGAAACAAAACATTT
1 TTTTTTT-TTA-AAACAAAACATTT
*
13096788 TATTTTT
1 TTTTTTT
13096795 GGATTAAGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 7 0.26
25 13 0.48
26 7 0.26
ACGTcount: A:0.32, C:0.09, G:0.04, T:0.55
Consensus pattern (23 bp):
TTTTTTTTTAAAACAAAACATTT
Found at i:13097244 original size:7 final size:7
Alignment explanation
Indices: 13097232--13097368 Score: 67
Period size: 7 Copynumber: 20.9 Consensus size: 7
13097222 GTTTCAGGTT
13097232 GGGTTTA
1 GGGTTTA
13097239 GGGTTTA
1 GGGTTTA
* *
13097246 AGATTTA
1 GGGTTTA
*
13097253 AGGTTTA
1 GGGTTTA
13097260 --GTTTA
1 GGGTTTA
13097265 GGGTTT-
1 GGGTTTA
*
13097271 GGGCTTA
1 GGGTTTA
13097278 GGGTTTA
1 GGGTTTA
*
13097285 AGGTTT-
1 GGGTTTA
* *
13097291 GAGCTTA
1 GGGTTTA
13097298 GGGTTTA
1 GGGTTTA
* *
13097305 AGGTTCA
1 GGGTTTA
*
13097312 -AGTTTA
1 GGGTTTA
*
13097318 AGGTTTA
1 GGGTTTA
** *
13097325 AAGTCTA
1 GGGTTTA
13097332 -GGTTTA
1 GGGTTTA
13097338 GGGTTT-
1 GGGTTTA
*
13097344 GGATTTA
1 GGGTTTA
13097351 GGG-TT-
1 GGGTTTA
*
13097356 GGTTTTA
1 GGGTTTA
13097363 GGGTTT
1 GGGTTT
13097369 CATGGAAAAT
Statistics
Matches: 97, Mismatches: 24, Indels: 18
0.70 0.17 0.13
Matches are distributed among these distances:
5 7 0.07
6 25 0.26
7 65 0.67
ACGTcount: A:0.20, C:0.03, G:0.34, T:0.43
Consensus pattern (7 bp):
GGGTTTA
Found at i:13097257 original size:39 final size:38
Alignment explanation
Indices: 13097214--13097309 Score: 95
Period size: 39 Copynumber: 2.4 Consensus size: 38
13097204 TTCAGGGTTT
*
13097214 AGGTTAGAGTTTCAGGTTGGGTTTAGGGTTTAAGATTTA
1 AGGTTAGAGTTT-AGGTTGGGCTTAGGGTTTAAGATTTA
* * *
13097253 AGGTT-TAGTTTAGGGTTTGGGCTTAGGGTTTAAGGTTTG
1 AGGTTAGAGTTTA-GG-TTGGGCTTAGGGTTTAAGATTTA
* *
13097292 AGCTTAGGGTTTAAGGTT
1 AGGTTAGAGTTT-AGGTT
13097310 CAAGTTTAAG
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
37 1 0.02
38 7 0.15
39 31 0.67
40 6 0.13
41 1 0.02
ACGTcount: A:0.20, C:0.03, G:0.35, T:0.42
Consensus pattern (38 bp):
AGGTTAGAGTTTAGGTTGGGCTTAGGGTTTAAGATTTA
Found at i:13097289 original size:20 final size:20
Alignment explanation
Indices: 13097217--13097309 Score: 84
Period size: 20 Copynumber: 4.8 Consensus size: 20
13097207 AGGGTTTAGG
* * *
13097217 TTAGAGTTTCAGG-TTGGGT
1 TTAGGGTTTAAGGTTTGGGC
* * *
13097236 TTAGGGTTTAAGATTTAAGGT
1 TTAGGGTTTAAGGTTT-GGGC
*
13097257 TTA--GTTTAGGGTTTGGGC
1 TTAGGGTTTAAGGTTTGGGC
*
13097275 TTAGGGTTTAAGGTTTGAGC
1 TTAGGGTTTAAGGTTTGGGC
13097295 TTAGGGTTTAAGGTT
1 TTAGGGTTTAAGGTT
13097310 CAAGTTTAAG
Statistics
Matches: 60, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
18 5 0.08
19 19 0.32
20 30 0.50
21 6 0.10
ACGTcount: A:0.19, C:0.03, G:0.34, T:0.43
Consensus pattern (20 bp):
TTAGGGTTTAAGGTTTGGGC
Found at i:13097317 original size:33 final size:31
Alignment explanation
Indices: 13097232--13097324 Score: 98
Period size: 33 Copynumber: 2.8 Consensus size: 31
13097222 GTTTCAGGTT
*
13097232 GGGTTTAGGGTTTAAGATTTAAGGTTTAGTTTA
1 GGGTTTAGGG-TTAAG-TTTAAGGTTTAGCTTA
*
13097265 GGGTTT-GGGCTTAGGGTTTAAGGTTTGAGCTTA
1 GGGTTTAGGG-TTA-AGTTTAAGGTTT-AGCTTA
*
13097298 GGGTTTAAGGTTCAAGTTTAAGGTTTA
1 GGGTTTAGGGTT-AAGTTTAAGGTTTA
13097325 AAGTCTAGGT
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
32 17 0.33
33 31 0.61
34 3 0.06
ACGTcount: A:0.22, C:0.03, G:0.33, T:0.42
Consensus pattern (31 bp):
GGGTTTAGGGTTAAGTTTAAGGTTTAGCTTA
Found at i:13097322 original size:20 final size:20
Alignment explanation
Indices: 13097273--13097325 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
13097263 TAGGGTTTGG
* **
13097273 GCTTAGGGTTTAAGGTTTGA
1 GCTTAAGGTTTAAGGTTCAA
*
13097293 GCTTAGGGTTTAAGGTTCAA
1 GCTTAAGGTTTAAGGTTCAA
*
13097313 GTTTAAGGTTTAA
1 GCTTAAGGTTTAA
13097326 AGTCTAGGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.25, C:0.06, G:0.30, T:0.40
Consensus pattern (20 bp):
GCTTAAGGTTTAAGGTTCAA
Found at i:13097350 original size:13 final size:13
Alignment explanation
Indices: 13097334--13097368 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
13097324 AAAGTCTAGG
13097334 TTTAGGGTTTGGA
1 TTTAGGGTTTGGA
*
13097347 TTTAGGG-TTGGT
1 TTTAGGGTTTGGA
13097359 TTTAGGGTTT
1 TTTAGGGTTT
13097369 CATGGAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.11, C:0.00, G:0.37, T:0.51
Consensus pattern (13 bp):
TTTAGGGTTTGGA
Found at i:13099302 original size:20 final size:20
Alignment explanation
Indices: 13099277--13099325 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
13099267 ATTTAATCTT
13099277 ATTTGACTTA-TTTGGACTAA
1 ATTTGACTTAGTTT-GACTAA
13099297 ATTTGA-TTAGGTTTGACTAA
1 ATTTGACTTA-GTTTGACTAA
*
13099317 GTTTGACTT
1 ATTTGACTT
13099326 TAGAGCATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 3 0.12
20 17 0.68
21 5 0.20
ACGTcount: A:0.27, C:0.08, G:0.18, T:0.47
Consensus pattern (20 bp):
ATTTGACTTAGTTTGACTAA
Found at i:13100007 original size:41 final size:42
Alignment explanation
Indices: 13099816--13100044 Score: 150
Period size: 42 Copynumber: 5.6 Consensus size: 42
13099806 TATAATATAA
* * * *
13099816 TAAATGATTCACAGTTT-GAAGGACTCTGGATTCACAGTAGAG
1 TAAATAATTCACAGTTTGGAA-GACTCTAGATTCATAGCAGAG
* * * *
13099858 TAAACAATTCACAATTTGGAAGTCTTTAGATTCATAGCAGAG
1 TAAATAATTCACAGTTTGGAAGACTCTAGATTCATAGCAGAG
* ** * * * * * *
13099900 TAAATGATTCACAACTTGGAGGACTTTGGATTCAAAACAAAG
1 TAAATAATTCACAGTTTGGAAGACTCTAGATTCATAGCAGAG
* * * *
13099942 TAAACAA-TCTATA-CTT---AGA-TCTAGATTTATAGCAGAG
1 TAAATAATTC-ACAGTTTGGAAGACTCTAGATTCATAGCAGAG
* *
13099979 TAAATAATTCATAG-TTGGAAGACTCTAGATTCATAGTAGAG
1 TAAATAATTCACAGTTTGGAAGACTCTAGATTCATAGCAGAG
* * *
13100020 TATATGATTCACAGTTTGGAGGACT
1 TAAATAATTCACAGTTTGGAAGACT
13100045 TTGGTTTTAC
Statistics
Matches: 144, Mismatches: 34, Indels: 18
0.73 0.17 0.09
Matches are distributed among these distances:
37 23 0.16
38 4 0.03
40 3 0.02
41 32 0.22
42 79 0.55
43 3 0.02
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.31
Consensus pattern (42 bp):
TAAATAATTCACAGTTTGGAAGACTCTAGATTCATAGCAGAG
Found at i:13100319 original size:41 final size:42
Alignment explanation
Indices: 13099985--13100387 Score: 202
Period size: 42 Copynumber: 9.7 Consensus size: 42
13099975 AGAGTAAATA
* * * * *
13099985 ATTCATAGTTGGAAGACTC-TAGATTCATAGTAGAGTATATG
1 ATTCATAGTTGGAAGACTCTTAGATTCACAATAAAGTAAACG
* * * * * * * *
13100026 ATTCACAGTTTGGAGGACT-TTGGTTTTACAA-CAGGATAAACA
1 ATTCATAG-TTGGAAGACTCTTAGATTCACAATAAAG-TAAACG
* * * * * * *
13100068 ATTTATGGTTTGGAGGACTCTCAG-TTCACAAGAAAGTAAGCA
1 ATTCATAG-TTGGAAGACTCTTAGATTCACAATAAAGTAAACG
* * * * *
13100110 ATTTATAGTTGAAAGACT-TTAGGTTCACAATGAAGGAAACG
1 ATTCATAGTTGGAAGACTCTTAGATTCACAATAAAGTAAACG
* * * * * * * *
13100151 ATTCACAGTTTAGAGGAATC-TAGATTCATAACAAAATAAATG
1 ATTCATAG-TTGGAAGACTCTTAGATTCACAATAAAGTAAACG
* * * * *
13100193 ATTCATAGTTTAGAGGACT-TTGGATTCATAATAAAGTAAATG
1 ATTCATAG-TTGGAAGACTCTTAGATTCACAATAAAGTAAACG
** * * * *
13100235 ATTCATAGTTTATAAGA-TTTTGGATTCACAATAGAGTACACG
1 ATTCATAG-TTGGAAGACTCTTAGATTCACAATAAAGTAAACG
* *
13100277 ATTCATAGTTGGAAGACTCTAAG-TTCACAACAAAGTAAACG
1 ATTCATAGTTGGAAGACTCTTAGATTCACAATAAAGTAAACG
* * * *
13100318 ATTCACAATTGGAAGACTC-TAG-TTCGCAATAAAGTAAA-T
1 ATTCATAGTTGGAAGACTCTTAGATTCACAATAAAGTAAACG
13100357 AGTTCATAGTTGGAAGACT-TTAGATTCACAA
1 A-TTCATAGTTGGAAGACTCTTAGATTCACAA
13100388 CAATGATTAA
Statistics
Matches: 276, Mismatches: 72, Indels: 28
0.73 0.19 0.07
Matches are distributed among these distances:
39 1 0.00
40 37 0.13
41 80 0.29
42 154 0.56
43 4 0.01
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (42 bp):
ATTCATAGTTGGAAGACTCTTAGATTCACAATAAAGTAAACG
Found at i:13100353 original size:40 final size:41
Alignment explanation
Indices: 13100259--13100355 Score: 133
Period size: 41 Copynumber: 2.4 Consensus size: 41
13100249 AGATTTTGGA
* * * *
13100259 TTCACAATAGAGTACACGATTCATAGTTGGAAGACTCTAAG
1 TTCACAATAAAGTAAACGATTCACAATTGGAAGACTCTAAG
*
13100300 TTCACAACAAAGTAAACGATTCACAATTGGAAGACTCT-AG
1 TTCACAATAAAGTAAACGATTCACAATTGGAAGACTCTAAG
*
13100340 TTCGCAATAAAGTAAA
1 TTCACAATAAAGTAAA
13100356 TAGTTCATAG
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
40 16 0.33
41 33 0.67
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.25
Consensus pattern (41 bp):
TTCACAATAAAGTAAACGATTCACAATTGGAAGACTCTAAG
Found at i:13100370 original size:40 final size:41
Alignment explanation
Indices: 13100276--13100390 Score: 137
Period size: 40 Copynumber: 2.8 Consensus size: 41
13100266 TAGAGTACAC
*
13100276 GATTCATAGTTGGAAGACTCTAAGTTCACAACAAAGTAAAC
1 GATTCATAGTTGGAAGACTCTAAGTTCACAACAAAGTAAAA
* * * *
13100317 GATTCACAATTGGAAGACTCT-AGTTCGCAATAAAGTAAATA
1 GATTCATAGTTGGAAGACTCTAAGTTCACAACAAAGTAAA-A
*
13100358 G-TTCATAGTTGGAAGACT-TTAGATTCACAACAA
1 GATTCATAGTTGGAAGACTCTAAG-TTCACAACAA
13100391 TGATTAAAGT
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
39 1 0.02
40 33 0.53
41 28 0.45
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.27
Consensus pattern (41 bp):
GATTCATAGTTGGAAGACTCTAAGTTCACAACAAAGTAAAA
Found at i:13100610 original size:17 final size:17
Alignment explanation
Indices: 13100588--13100649 Score: 72
Period size: 17 Copynumber: 3.6 Consensus size: 17
13100578 GCAAGAACCC
13100588 AAGATTCACAAATTCCA
1 AAGATTCACAAATTCCA
* *
13100605 AAGATTCA-TAATGACCA
1 AAGATTCACAAAT-TCCA
* *
13100622 AAGATCCACAAACTCCA
1 AAGATTCACAAATTCCA
13100639 AAGATTCACAA
1 AAGATTCACAA
13100650 GAGTTAAGGA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
16 3 0.08
17 31 0.86
18 2 0.06
ACGTcount: A:0.48, C:0.24, G:0.08, T:0.19
Consensus pattern (17 bp):
AAGATTCACAAATTCCA
Found at i:13100718 original size:53 final size:54
Alignment explanation
Indices: 13100638--13100751 Score: 151
Period size: 53 Copynumber: 2.1 Consensus size: 54
13100628 CACAAACTCC
* * *
13100638 AAAGATTCACAAGAGTTAAGGACTTGTAAATTTTAAAGTCTT-GTAA-AAGGGTT
1 AAAGATTCACAAGAGTCAAAGACTTGTAAATTTCAAAGT-TTAGTAAGAAGGGTT
* * *
13100691 AAAGATTCATAAGAGTCAAAGATTTGTAAATTTCAAAGTTTAGTAAGATGGGTT
1 AAAGATTCACAAGAGTCAAAGACTTGTAAATTTCAAAGTTTAGTAAGAAGGGTT
13100745 AAAGATT
1 AAAGATT
13100752 TGCAAATTTC
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
52 2 0.04
53 38 0.72
54 13 0.25
ACGTcount: A:0.41, C:0.06, G:0.20, T:0.32
Consensus pattern (54 bp):
AAAGATTCACAAGAGTCAAAGACTTGTAAATTTCAAAGTTTAGTAAGAAGGGTT
Found at i:13100726 original size:17 final size:17
Alignment explanation
Indices: 13100706--13100764 Score: 50
Period size: 17 Copynumber: 3.3 Consensus size: 17
13100696 TTCATAAGAG
13100706 TCAAAGATTTGTAAATT
1 TCAAAGATTTGTAAATT
13100723 TCAAAG-TTTAGTAAGATGGGT
1 TCAAAGATTT-GTAA-AT---T
*
13100744 T-AAAGATTTGCAAATT
1 TCAAAGATTTGTAAATT
13100760 TCAAA
1 TCAAA
13100765 TATTCATAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 14
0.69 0.02 0.29
Matches are distributed among these distances:
16 5 0.15
17 13 0.38
18 2 0.06
19 2 0.06
20 7 0.21
21 5 0.15
ACGTcount: A:0.41, C:0.07, G:0.17, T:0.36
Consensus pattern (17 bp):
TCAAAGATTTGTAAATT
Found at i:13100830 original size:71 final size:71
Alignment explanation
Indices: 13100695--13100831 Score: 172
Period size: 71 Copynumber: 1.9 Consensus size: 71
13100685 AGGGTTAAAG
* **
13100695 ATTCATAAGAGTCAAAGATTTGTAAATTTCAAAGTTTAGTAAGATGGGTTAAAGATTTGCAAATT
1 ATTCATAAGAGTCAAAGATTTGAAAATTTCAAAGTTTAGTAAGATGGGTTAAAGATTCACAAATT
13100760 TCAAAT
66 TCAAAT
* * *
13100766 ATTCATAAGAGTTAAAGGTTT-AAAGATTTCAAAAGTTT-GTAAGA-GTGGTTAAAGATTCATAA
1 ATTCATAAGAGTCAAAGATTTGAAA-ATTTC-AAAGTTTAGTAAGATG-GGTTAAAGATTCACAA
13100828 ATTT
63 ATTT
13100832 GAAAGATTTG
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
70 3 0.05
71 47 0.82
72 7 0.12
ACGTcount: A:0.41, C:0.06, G:0.18, T:0.36
Consensus pattern (71 bp):
ATTCATAAGAGTCAAAGATTTGAAAATTTCAAAGTTTAGTAAGATGGGTTAAAGATTCACAAATT
TCAAAT
Found at i:13100847 original size:71 final size:71
Alignment explanation
Indices: 13100691--13100853 Score: 161
Period size: 71 Copynumber: 2.3 Consensus size: 71
13100681 TAAAAGGGTT
* * * * **
13100691 AAAGATTCATAAGAGTCAAAGATTTGTAA-ATTTCAAAGTTTAGTAAGATGGGTTAAAGATTTGC
1 AAAGATTCACAAGAGTAAAAGGTTT-AAAGATTTCAAAGTTTAGTAAGATGGGTTAAAGATTCAC
13100755 AAATTTC
65 AAATTTC
* * *
13100762 AAATATTCATAAGAGTTAAAGGTTTAAAGATTTCAAAAGTTT-GTAAGA-GTGGTTAAAGATTCA
1 AAAGATTCACAAGAGTAAAAGGTTTAAAGATTTC-AAAGTTTAGTAAGATG-GGTTAAAGATTCA
* *
13100825 TAAATTTG
64 CAAATTTC
**
13100833 AAAGATTTGCAAGAGTAAAAG
1 AAAGATTCACAAGAGTAAAAG
13100854 ATTGTAACTT
Statistics
Matches: 76, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
70 3 0.04
71 66 0.87
72 7 0.09
ACGTcount: A:0.43, C:0.06, G:0.19, T:0.33
Consensus pattern (71 bp):
AAAGATTCACAAGAGTAAAAGGTTTAAAGATTTCAAAGTTTAGTAAGATGGGTTAAAGATTCACA
AATTTC
Found at i:13102647 original size:14 final size:15
Alignment explanation
Indices: 13102615--13102648 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
13102605 TTAATTAATT
13102615 ATTTATTACAACAAA
1 ATTTATTACAACAAA
*
13102630 ATTTATTCCAAC-AA
1 ATTTATTACAACAAA
13102644 ATTTA
1 ATTTA
13102649 AATATTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.38
Consensus pattern (15 bp):
ATTTATTACAACAAA
Found at i:13103770 original size:25 final size:23
Alignment explanation
Indices: 13103736--13103800 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 23
13103726 TAGCCCCTAC
13103736 TTTTTTATTTTTTCTTCTATTTGTA
1 TTTTTTATTTTTT-TT-TATTTGTA
*
13103761 TTTTTTATTTGTCTTTTTATTTGTT
1 TTTTTTATTT-T-TTTTTATTTGTA
13103786 TTGTTTTATTTTTTT
1 TT-TTTTATTTTTTT
13103801 ATTAATTAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
24 3 0.08
25 20 0.56
26 11 0.31
27 2 0.06
ACGTcount: A:0.09, C:0.05, G:0.06, T:0.80
Consensus pattern (23 bp):
TTTTTTATTTTTTTTTATTTGTA
Found at i:13104289 original size:49 final size:50
Alignment explanation
Indices: 13104201--13104680 Score: 363
Period size: 51 Copynumber: 9.5 Consensus size: 50
13104191 TTTTCTTGGT
* * *
13104201 AGAGGCTCAATAACTTTAAAAAAAATCTCATC-TGGAAAAAGCTCCTCTAAGC
1 AGAGGCTCAACAACTTT---AAAAATTTTATCTTGGAAAAAGCTCCTCTAAGC
* *
13104253 AGAGAG-TCAACAACTTTAAAAATTTTATCTT-TAAAAAGCAT-TTCTAAGC
1 AGAG-GCTCAACAACTTTAAAAATTTTATCTTGGAAAAAGC-TCCTCTAAGC
* ** * * * *
13104302 AAAGGCTCAACAACTTTTTTTTTTTAAATCTTTATCTTAGAAAAAGTTCTTCTAAGT
1 AGAGGCTCAACAAC------TTTAAAAAT-TTTATCTTGGAAAAAGCTCCTCTAAGC
* * * * ** * *
13104359 AGAAGCTTAACAACTTTAAAAATTCTCATCTTGGAAAAGGCTTTTCTACGT
1 AGAGGCTCAACAACTTTAAAAATT-TTATCTTGGAAAAAGCTCCTCTAAGC
* *
13104410 AGAGGCTCAACAACTTTAAAAATTCTTATCTTGGAAAAAGCTCATCTAAAC
1 AGAGGCTCAACAACTTTAAAAATT-TTATCTTGGAAAAAGCTCCTCTAAGC
* * *
13104461 AGAGGCTCAACAACTTT-AAAATCTGATCTT-GAAAAAGGCTCATCTAAGC
1 AGAGGCTCAACAACTTTAAAAATTTTATCTTGGAAAAA-GCTCCTCTAAGC
* * *
13104510 AGAGGCTCAACAACTTTAAAAATTTCAACTT-GAAAAAGCTCCTCTAAGT
1 AGAGGCTCAACAACTTTAAAAATTTTATCTTGGAAAAAGCTCCTCTAAGC
* * *
13104559 AGAGGTTC-ACAACTTT-AAAATCTCATCTT-GAAAAAGGCTCCTCTAAGC
1 AGAGGCTCAACAACTTTAAAAATTTTATCTTGGAAAAA-GCTCCTCTAAGC
* * * * * *
13104607 AGATGTTTAACAAC-TTAGAAAGTTCTTATCTTGGAAAAATCTCCTCTAAGT
1 AGAGGCTCAACAACTTTA-AAAATT-TTATCTTGGAAAAAGCTCCTCTAAGC
* *
13104658 AGAGGTTTAACAAC-TTAAAAATT
1 AGAGGCTCAACAACTTTAAAAATT
13104681 CTGTTTCCTT
Statistics
Matches: 354, Mismatches: 52, Indels: 46
0.78 0.12 0.10
Matches are distributed among these distances:
47 17 0.05
48 34 0.10
49 91 0.26
50 33 0.09
51 118 0.33
52 20 0.06
53 1 0.00
55 7 0.02
56 9 0.03
57 24 0.07
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.31
Consensus pattern (50 bp):
AGAGGCTCAACAACTTTAAAAATTTTATCTTGGAAAAAGCTCCTCTAAGC
Found at i:13109348 original size:10 final size:11
Alignment explanation
Indices: 13109325--13109367 Score: 50
Period size: 11 Copynumber: 3.5 Consensus size: 11
13109315 TTTTATTGAC
13109325 TTTATTATTTT
1 TTTATTATTTT
13109336 TTTATTATTTTT
1 TTTATTA-TTTT
13109348 TATTAAATTATTTT
1 T-TT--ATTATTTT
13109362 TTTATT
1 TTTATT
13109368 GAAGAAAAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
11 10 0.36
12 5 0.18
13 4 0.14
14 5 0.18
15 4 0.14
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTATTATTTT
Found at i:13111305 original size:3 final size:3
Alignment explanation
Indices: 13111297--13111349 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
13111287 AAAGTTATGC
13111297 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
13111345 ATA AT
1 ATA AT
13111350 GATGATGATT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:13112048 original size:24 final size:25
Alignment explanation
Indices: 13112016--13112063 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
13112006 TCATCAATGA
13112016 TTATCATTTATA-AA-GAATGTTATT
1 TTATCATTT-TAGAAGGAATGTTATT
*
13112040 TTATTATTTTAGAAGGAATGTTAT
1 TTATCATTTTAGAAGGAATGTTAT
13112064 GATAAATCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 2 0.10
24 10 0.48
25 9 0.43
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.50
Consensus pattern (25 bp):
TTATCATTTTAGAAGGAATGTTATT
Found at i:13112112 original size:28 final size:28
Alignment explanation
Indices: 13112080--13112135 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
13112070 TCTTAAATAG
13112080 AAAGACTATATTTAAATTCTGCTTTTAT
1 AAAGACTATATTTAAATTCTGCTTTTAT
13112108 AAAGACTATATTTAAATTCTGCTTTTAT
1 AAAGACTATATTTAAATTCTGCTTTTAT
13112136 GTTGGAGACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.36, C:0.11, G:0.07, T:0.46
Consensus pattern (28 bp):
AAAGACTATATTTAAATTCTGCTTTTAT
Found at i:13112802 original size:18 final size:18
Alignment explanation
Indices: 13112781--13112819 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
13112771 CAAAATTCAT
13112781 AAAA-ACTCAAGAATTTGC
1 AAAATACTC-AGAATTTGC
*
13112799 AAAATACTCAGGATTTGC
1 AAAATACTCAGAATTTGC
13112817 AAA
1 AAA
13112820 GGTTCCAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.15, G:0.13, T:0.23
Consensus pattern (18 bp):
AAAATACTCAGAATTTGC
Found at i:13112927 original size:18 final size:19
Alignment explanation
Indices: 13112879--13112929 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 19
13112869 CAAAGATCCT
*
13112879 AAGATTCACAAAGA-TTCA
1 AAGATTCGCAAAGATTTCA
* * *
13112897 AAAATTTGTAAAGATTTC-
1 AAGATTCGCAAAGATTTCA
13112915 AAGATTCGCAAAGAT
1 AAGATTCGCAAAGAT
13112930 CCAAAGGTTC
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
18 22 0.88
19 3 0.12
ACGTcount: A:0.47, C:0.12, G:0.14, T:0.27
Consensus pattern (19 bp):
AAGATTCGCAAAGATTTCA
Found at i:13118801 original size:34 final size:34
Alignment explanation
Indices: 13118749--13118818 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
13118739 AGATAAATCT
*
13118749 TAATGCAAATGAACTTCTTTCTTGGTTGCATGGA
1 TAATACAAATGAACTTCTTTCTTGGTTGCATGGA
*
13118783 TAATACAAGTGAACTTCTTTCTTGGTTGCATGGA
1 TAATACAAATGAACTTCTTTCTTGGTTGCATGGA
13118817 TA
1 TA
13118819 GGTGGCATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (34 bp):
TAATACAAATGAACTTCTTTCTTGGTTGCATGGA
Found at i:13118885 original size:56 final size:56
Alignment explanation
Indices: 13118799--13118914 Score: 187
Period size: 56 Copynumber: 2.1 Consensus size: 56
13118789 AAGTGAACTT
* * * *
13118799 CTTTCTTGGTTGCATGGATAGGTGGCATTAGACAAAGATGCTTTGGCTATATCTTC
1 CTTTCTTGGTTGAATGGATAAGTGGCATTAGACAAAAATGCTTTCGCTATATCTTC
*
13118855 CTTTCTTGGTTGAATGGATAAGTGGCATTAGACAAAAATGCTTTCGCTATATCTTT
1 CTTTCTTGGTTGAATGGATAAGTGGCATTAGACAAAAATGCTTTCGCTATATCTTC
13118911 CTTT
1 CTTT
13118915 ACATAGTAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.23, C:0.16, G:0.22, T:0.40
Consensus pattern (56 bp):
CTTTCTTGGTTGAATGGATAAGTGGCATTAGACAAAAATGCTTTCGCTATATCTTC
Found at i:13120086 original size:17 final size:17
Alignment explanation
Indices: 13120064--13120100 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
13120054 TTTCTTTTTA
13120064 TTTTTC-TTTTTTTTCAT
1 TTTTTCATTTTTTTTC-T
13120081 TTTTTCATTTTTTTTCT
1 TTTTTCATTTTTTTTCT
13120098 TTT
1 TTT
13120101 GATTTTTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.05, C:0.11, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTTTCATTTTTTTTCT
Found at i:13124610 original size:21 final size:20
Alignment explanation
Indices: 13124563--13124634 Score: 58
Period size: 21 Copynumber: 3.6 Consensus size: 20
13124553 TTAAAAAAGT
* *
13124563 AAAAAAAT-AAAACAAAA-T
1 AAAAAAATAAAAATAAAACC
*
13124581 AACAAAATAAAAATTAAAACC
1 AAAAAAATAAAAA-TAAAACC
***
13124602 AAAAAAATAGAAAATAAATTT
1 AAAAAAATA-AAAATAAAACC
13124623 AAAAAAATAAAA
1 AAAAAAATAAAA
13124635 CGAAAAAAGA
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
18 7 0.16
19 4 0.09
20 7 0.16
21 21 0.49
22 4 0.09
ACGTcount: A:0.78, C:0.06, G:0.01, T:0.15
Consensus pattern (20 bp):
AAAAAAATAAAAATAAAACC
Found at i:13125587 original size:6 final size:6
Alignment explanation
Indices: 13125549--13125662 Score: 99
Period size: 6 Copynumber: 19.5 Consensus size: 6
13125539 TTTTTCTAAA
* * * * *
13125549 AAAATA AAAATT AAAA-C AAAAGT AAAA-T AAAATT AAAATG AACATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
* * ** *
13125595 AAAATT AAAGTC AAAATT AAAATT AAAATT AGCATT AAAATT AAAATC
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
* *
13125643 AAAATC AAAA-T CAAATT AAA
1 AAAATT AAAATT AAAATT AAA
13125663 CCAAAACCAA
Statistics
Matches: 86, Mismatches: 19, Indels: 6
0.77 0.17 0.05
Matches are distributed among these distances:
5 12 0.14
6 74 0.86
ACGTcount: A:0.66, C:0.06, G:0.04, T:0.25
Consensus pattern (6 bp):
AAAATT
Found at i:13125676 original size:23 final size:23
Alignment explanation
Indices: 13125632--13125674 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
13125622 ATTAGCATTA
* *
13125632 AAATTAAAATCAAAATCAAAATC
1 AAATTAAAACCAAAACCAAAATC
13125655 AAATT-AAACCAAAACCAAAA
1 AAATTAAAACCAAAACCAAAA
13125675 ATTTTTGGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.67, C:0.16, G:0.00, T:0.16
Consensus pattern (23 bp):
AAATTAAAACCAAAACCAAAATC
Found at i:13127013 original size:120 final size:120
Alignment explanation
Indices: 13126800--13127039 Score: 444
Period size: 120 Copynumber: 2.0 Consensus size: 120
13126790 GGAAAAAGTA
13126800 AAAGACAAGACACCAATTTTAAATTAAGAAGCATAGCTACAGTTCAATTAGGTAGCATTAATCAA
1 AAAGACAAGACACCAATTTTAAATTAAGAAGCATAGCTACAGTTCAATTAGGTAGCATTAATCAA
*
13126865 GGCTATTAATGACACAGGATTGTTGAAAATGGATCAAGAATAAACAATCTAGGTT
66 GGCCATTAATGACACAGGATTGTTGAAAATGGATCAAGAATAAACAATCTAGGTT
* *
13126920 AAAGACAAGGCACCAATTTTAAATTAAGAAGCATAGCTACAGTTTAATTAGGTAGCATTAATCAA
1 AAAGACAAGACACCAATTTTAAATTAAGAAGCATAGCTACAGTTCAATTAGGTAGCATTAATCAA
*
13126985 GGCCATTAATGACACAGGATTGTTGAAAATGGATCAGGAATAAACAATCTAGGTT
66 GGCCATTAATGACACAGGATTGTTGAAAATGGATCAAGAATAAACAATCTAGGTT
13127040 CCTCCTGATG
Statistics
Matches: 116, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 116 1.00
ACGTcount: A:0.42, C:0.13, G:0.18, T:0.26
Consensus pattern (120 bp):
AAAGACAAGACACCAATTTTAAATTAAGAAGCATAGCTACAGTTCAATTAGGTAGCATTAATCAA
GGCCATTAATGACACAGGATTGTTGAAAATGGATCAAGAATAAACAATCTAGGTT
Found at i:13127182 original size:10 final size:10
Alignment explanation
Indices: 13127169--13127203 Score: 63
Period size: 10 Copynumber: 3.6 Consensus size: 10
13127159 AGAAAAAAGA
13127169 GAAAAATAAT
1 GAAAAATAAT
13127179 GAAAAATAAT
1 GAAAAATAAT
13127189 G-AAAATAAT
1 GAAAAATAAT
13127198 GAAAAA
1 GAAAAA
13127204 AGTTAGAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 9 0.38
10 15 0.62
ACGTcount: A:0.71, C:0.00, G:0.11, T:0.17
Consensus pattern (10 bp):
GAAAAATAAT
Found at i:13127183 original size:9 final size:9
Alignment explanation
Indices: 13127171--13127202 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
13127161 AAAAAAGAGA
13127171 AAAATAATG
1 AAAATAATG
13127180 AAAAATAATG
1 -AAAATAATG
13127190 AAAATAATG
1 AAAATAATG
13127199 AAAA
1 AAAA
13127203 AAGTTAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 13 0.59
10 9 0.41
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.19
Consensus pattern (9 bp):
AAAATAATG
Found at i:13127184 original size:19 final size:19
Alignment explanation
Indices: 13127155--13127205 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
13127145 GAGCAAGAGG
13127155 AATAA-GAAAAAAGA-GAAA
1 AATAATGAAAAAAGATG-AA
13127173 AATAATGAAAAATA-ATGAA
1 AATAATGAAAAA-AGATGAA
13127192 AATAATGAAAAAAG
1 AATAATGAAAAAAG
13127206 TTAGAAATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
18 6 0.21
19 21 0.72
20 2 0.07
ACGTcount: A:0.73, C:0.00, G:0.14, T:0.14
Consensus pattern (19 bp):
AATAATGAAAAAAGATGAA
Found at i:13127774 original size:48 final size:48
Alignment explanation
Indices: 13127709--13127970 Score: 203
Period size: 48 Copynumber: 5.4 Consensus size: 48
13127699 AAACTTTTTC
* *
13127709 AAAAGAGAATTTTAAAGTTTC-AAGCCTCTATTTATAAGAGCATTTCAA
1 AAAAGAGATTTTTAAAGTTTCTAA-CCTCTATTTAGAAGAGCATTTCAA
* * * *
13127757 AAAAGAGATTTTTAAAGTTCCTAACCTCTATATAGAAAAGCTTTTCAA
1 AAAAGAGATTTTTAAAGTTTCTAACCTCTATTTAGAAGAGCATTTCAA
* * * *
13127805 AAAAGAAATTTTTAAAGTTTCCAAGCCTTTATTTAGAGGAGC-TTTCCAA
1 AAAAGAGATTTTTAAAGTTTCTAA-CCTCTATTTAGAAGAGCATTT-CAA
* * * * *
13127854 AAATGAAAATTTTAAAGTTTCCTAATCTCTATTTA-AA-ATCACTTTTC-A
1 AAAAGAGATTTTTAAAGTTT-CTAACCTCTATTTAGAAGAGCA--TTTCAA
* * * * * *
13127902 AAAA-TGACTTTTAAAGTTTCTATGCCTTTATTTAGAGGAGCTTTTTCAA
1 AAAAGAGATTTTTAAAGTTTCTA-ACCTCTATTTAGAAGAGC-ATTTCAA
* *
13127951 ATATGAGATTTTTAAAGTTT
1 AAAAGAGATTTTTAAAGTTT
13127971 TCAACCTTTT
Statistics
Matches: 167, Mismatches: 34, Indels: 24
0.74 0.15 0.11
Matches are distributed among these distances:
46 3 0.02
47 22 0.13
48 73 0.44
49 50 0.30
50 19 0.11
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (48 bp):
AAAAGAGATTTTTAAAGTTTCTAACCTCTATTTAGAAGAGCATTTCAA
Found at i:13127825 original size:96 final size:92
Alignment explanation
Indices: 13127704--13127969 Score: 300
Period size: 97 Copynumber: 2.8 Consensus size: 92
13127694 CTAACAAACT
* * * * *
13127704 TTTTCAAAAGAGAATTTTAAAGTTTCAAGCCTCTATTTATAAGAGCATTTCAAAAAAGAGATTTT
1 TTTTCAAAAAAGAATTTTAAAGTTTCAAGCCTTTATTTAGAGGAGC-TTTCAAAAATGAGATTTT
13127769 TAAAGTTCCTAACCTCTATATAGAAA-AGC
65 TAAAGTTCCTAACCTCTATATA-AAACA-C
* *
13127798 TTTTCAAAAAAGAAATTTTTAAAGTTTCCAAGCCTTTATTTAGAGGAGCTTTCCAAAAATGAAAA
1 TTTTCAAAAAAG-AA-TTTTAAAGTTT-CAAGCCTTTATTTAGAGGAGCTTT-CAAAAATGAGAT
* *
13127863 TTTTAAAGTTTCCTAATCTCTATTTAAAATCAC
62 TTTTAAAG-TTCCTAACCTCTATATAAAA-CAC
* * * *
13127896 TTTTCAAAAATGACTTTTAAAGTTTCTATGCCTTTATTTAGAGGAGCTTTTTCAAATATGAGATT
1 TTTTCAAAAAAGAATTTTAAAGTTTC-AAGCCTTTATTTAGAGGAGC--TTTCAAAAATGAGATT
13127961 TTTAAAGTT
63 TTTAAAGTT
13127970 TTCAACCTTT
Statistics
Matches: 147, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
94 11 0.07
95 3 0.02
96 46 0.31
97 56 0.38
98 30 0.20
99 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (92 bp):
TTTTCAAAAAAGAATTTTAAAGTTTCAAGCCTTTATTTAGAGGAGCTTTCAAAAATGAGATTTTT
AAAGTTCCTAACCTCTATATAAAACAC
Found at i:13127855 original size:49 final size:48
Alignment explanation
Indices: 13127704--13127977 Score: 220
Period size: 49 Copynumber: 5.7 Consensus size: 48
13127694 CTAACAAACT
* *
13127704 TTTTCAAAAGAG-AA-TTTTAAAGTTT-CAAGCCTCTATTTATAAGAGC
1 TTTTCAAAAAAGAAATTTTTAAAGTTTCCAA-CCTCTATTTAGAAGAGC
* * * *
13127750 ATTTCAAAAAAGAGATTTTTAAAG-TTCCTAACCTCTATATAGAAAAGC
1 TTTTCAAAAAAGAAATTTTTAAAGTTTCC-AACCTCTATTTAGAAGAGC
* *
13127798 TTTTCAAAAAAGAAATTTTTAAAGTTTCCAAGCCTTTATTTAGAGGAGC
1 TTTTCAAAAAAGAAATTTTTAAAGTTTCCAA-CCTCTATTTAGAAGAGC
* * * * * *
13127847 TTTCCAAAAATGAAAATTTTAAAGTTTCCTAATCTCTATTTAAAATCA-C
1 TTTTCAAAAAAGAAATTTTTAAAGTTTCC-AACCTCTATTTAGAA-GAGC
* * * * * *
13127896 TTTTCAAAAATG--ACTTTTAAAGTTTCTATGCCTTTATTTAGAGGAGC
1 TTTTCAAAAAAGAAATTTTTAAAGTTTCCA-ACCTCTATTTAGAAGAGC
* * * *
13127943 TTTTTCAAATATGAGATTTTTAAAGTTTTCAACCT
1 -TTTTCAAAAAAGAAATTTTTAAAGTTTCCAACCT
13127978 TTTATTTATA
Statistics
Matches: 181, Mismatches: 34, Indels: 23
0.76 0.14 0.10
Matches are distributed among these distances:
46 12 0.07
47 26 0.14
48 58 0.32
49 69 0.38
50 16 0.09
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.39
Consensus pattern (48 bp):
TTTTCAAAAAAGAAATTTTTAAAGTTTCCAACCTCTATTTAGAAGAGC
Found at i:13130492 original size:19 final size:19
Alignment explanation
Indices: 13130470--13130636 Score: 86
Period size: 19 Copynumber: 9.1 Consensus size: 19
13130460 CCAAAACCCT
*
13130470 ACCCTAAACCAAACCTTAA
1 ACCCTAAACCAAACCCTAA
* *
13130489 ACCCTAAGCCAACCCCTAA
1 ACCCTAAACCAAACCCTAA
13130508 ACCCTAAACCAAA--CT--
1 ACCCTAAACCAAACCCTAA
* *
13130523 --CCTAAATCATAA--CTAT
1 ACCCTAAACCA-AACCCTAA
*
13130539 ACCTCAAAACCAAAACCCTAA
1 ACC-CTAAACC-AAACCCTAA
* * *
13130560 A--CTAACCCCCAACCTCCAA
1 ACCCTAA-ACCAAACC-CTAA
*
13130579 AGCCTAAACCAAACCCTAA
1 ACCCTAAACCAAACCCTAA
*
13130598 AGCCTAAACCAAACCCTAA
1 ACCCTAAACCAAACCCTAA
* * *
13130617 AGCCT-AATCAAACACTAA
1 ACCCTAAACCAAACCCTAA
13130635 AC
1 AC
13130637 TCCAATCGAA
Statistics
Matches: 116, Mismatches: 19, Indels: 27
0.72 0.12 0.17
Matches are distributed among these distances:
13 8 0.07
14 4 0.03
17 2 0.02
18 20 0.17
19 67 0.58
20 7 0.06
21 8 0.07
ACGTcount: A:0.46, C:0.38, G:0.02, T:0.14
Consensus pattern (19 bp):
ACCCTAAACCAAACCCTAA
Done.