Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005836.1 Hibiscus syriacus cultivar Beakdansim tig00013680_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: 991970
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 6
Found at i:632977 original size:21 final size:21
Alignment explanation
Indices: 632942--632998 Score: 73
Period size: 20 Copynumber: 2.8 Consensus size: 21
632932 ATTTATCTTT
*
632942 TAAATTTTA-TAAAAATTATA
1 TAAATTTTATTAAAAATCATA
632962 TAAATTTTATTAAAAATCATA
1 TAAATTTTATTAAAAATCATA
* *
632983 TATA-TATATTAAAAAT
1 TAAATTTTATTAAAAAT
632999 AATAAAGTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 20 0.61
21 13 0.39
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (21 bp):
TAAATTTTATTAAAAATCATA
Found at i:633011 original size:20 final size:20
Alignment explanation
Indices: 632951--633014 Score: 58
Period size: 20 Copynumber: 3.0 Consensus size: 20
632941 TTAAATTTTA
*
632951 TAAAAATTATATAAAT-TTTAT
1 TAAAAA-TA-ATAAATATATAT
* *
632972 TAAAAATCATATATATATAT
1 TAAAAATAATAAATATATAT
632992 TAAAAATAATAAAGTAATATAT
1 TAAAAATAATAAA-T-ATATAT
633014 T
1 T
633015 TTTGAATAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
19 5 0.14
20 16 0.46
21 7 0.20
22 7 0.20
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (20 bp):
TAAAAATAATAAATATATAT
Found at i:633026 original size:23 final size:23
Alignment explanation
Indices: 632996--633047 Score: 104
Period size: 23 Copynumber: 2.3 Consensus size: 23
632986 ATATATTAAA
632996 AATAATAAAGTAATATATTTTTG
1 AATAATAAAGTAATATATTTTTG
633019 AATAATAAAGTAATATATTTTTG
1 AATAATAAAGTAATATATTTTTG
633042 AATAAT
1 AATAAT
633048 TTTTATATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (23 bp):
AATAATAAAGTAATATATTTTTG
Found at i:633222 original size:17 final size:17
Alignment explanation
Indices: 633200--633357 Score: 264
Period size: 17 Copynumber: 9.4 Consensus size: 17
633190 CCAAACACAA
*
633200 TAATGTAACATTCTCAG
1 TAATGTAACATTCCCAG
*
633217 TAATGTAACATTCTCAG
1 TAATGTAACATTCCCAG
*
633234 TAATGTAACATTTCCAG
1 TAATGTAACATTCCCAG
*
633251 TAATGTAACATTCACAG
1 TAATGTAACATTCCCAG
633268 TAATGTAACATTCCCAG
1 TAATGTAACATTCCCAG
633285 TAATGTAACATTCCCAG
1 TAATGTAACATTCCCAG
633302 TAATGTAACATTCCCAG
1 TAATGTAACATTCCCAG
633319 TAATGTAACATT-CCAG
1 TAATGTAACATTCCCAG
*
633335 TAATGTAACATTCCCAA
1 TAATGTAACATTCCCAG
633352 TAATGT
1 TAATGT
633358 GTTAGGTAAT
Statistics
Matches: 134, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
16 16 0.12
17 118 0.88
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.32
Consensus pattern (17 bp):
TAATGTAACATTCCCAG
Found at i:646183 original size:14 final size:14
Alignment explanation
Indices: 646166--646210 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
646156 ATAAGCAGAT
*
646166 ATTTATACGCAGGG
1 ATTTATTCGCAGGG
*
646180 ATTTATTCGCATGG
1 ATTTATTCGCAGGG
*
646194 ATTTATTTGCAGGG
1 ATTTATTCGCAGGG
646208 ATT
1 ATT
646211 ACTTCCCATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.24, C:0.11, G:0.24, T:0.40
Consensus pattern (14 bp):
ATTTATTCGCAGGG
Found at i:646247 original size:13 final size:13
Alignment explanation
Indices: 646229--646255 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
646219 TTACAGACGC
646229 GCATATGAAGACT
1 GCATATGAAGACT
646242 GCATATGAAGACT
1 GCATATGAAGACT
646255 G
1 G
646256 TTCAACTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (13 bp):
GCATATGAAGACT
Found at i:647282 original size:145 final size:145
Alignment explanation
Indices: 647019--647288 Score: 398
Period size: 145 Copynumber: 1.9 Consensus size: 145
647009 CAACTATTTG
* *
647019 ACAATAAACACTCATTCACCCTTACAAAAGTTATAATCAAACTCGAGACATAAAAAAATAACAAT
1 ACAATAAACACTCATTCACCCCTACAAAAGTTATAATCAAACTCGAAACATAAAAAAATAACAAT
* * *
647084 GATTAACACATAGATACAAGGACAATAGATAGAAACAATAAAGAATCTTCCTAGTTTAACTGTTT
66 AATTAACACATAGATACAAGGAAAATAGATAGAAACAATAAAGAAGCTTCCTAGTTTAACTGTTT
647149 TTATCACTATTGTTC
131 TTATCACTATTGTTC
* * * * *
647164 ACAATCAACACTCCTTCACCCCTACAAATGTTATACTCAAACTCGAAACATAAGAAAATAACAAT
1 ACAATAAACACTCATTCACCCCTACAAAAGTTATAATCAAACTCGAAACATAAAAAAATAACAAT
* * **
647229 AATTAACACATAGGTACATA-GAAAATAGATAGATACAATTGAGAAGCTTCCTAGTTTAAC
66 AATTAACACATAGATACA-AGGAAAATAGATAGAAACAATAAAGAAGCTTCCTAGTTTAAC
647289 ATCGCATAGC
Statistics
Matches: 110, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
145 109 0.99
146 1 0.01
ACGTcount: A:0.46, C:0.19, G:0.09, T:0.26
Consensus pattern (145 bp):
ACAATAAACACTCATTCACCCCTACAAAAGTTATAATCAAACTCGAAACATAAAAAAATAACAAT
AATTAACACATAGATACAAGGAAAATAGATAGAAACAATAAAGAAGCTTCCTAGTTTAACTGTTT
TTATCACTATTGTTC
Found at i:648326 original size:87 final size:87
Alignment explanation
Indices: 648180--648342 Score: 281
Period size: 87 Copynumber: 1.9 Consensus size: 87
648170 TATGTTATAT
* *
648180 TATTTAACTGGAAATATTATCAAGTACAATAACATATTAGGTAACATTTATATAATGTAATAGAT
1 TATTTAACGGGAAATATTATCAAGTACAATAACATATTAGGTAACACTTATATAATGTAATAGAT
648245 AGCGCTTATATAATAAAATAGG
66 AGCGCTTATATAATAAAATAGG
* * *
648267 TATTTAACGGGAAATATTATCAAGTATAATAACATATTAGGTAGCGCTTATATAATGTAATAGAT
1 TATTTAACGGGAAATATTATCAAGTACAATAACATATTAGGTAACACTTATATAATGTAATAGAT
648332 AGCGCTTATAT
66 AGCGCTTATAT
648343 TGACCTATTT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 71 1.00
ACGTcount: A:0.42, C:0.09, G:0.14, T:0.35
Consensus pattern (87 bp):
TATTTAACGGGAAATATTATCAAGTACAATAACATATTAGGTAACACTTATATAATGTAATAGAT
AGCGCTTATATAATAAAATAGG
Found at i:652068 original size:120 final size:120
Alignment explanation
Indices: 651855--652101 Score: 431
Period size: 120 Copynumber: 2.1 Consensus size: 120
651845 TTTTTCTTCC
*
651855 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCT
651920 AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
66 AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
* * *
651975 ATTCTGGACATAAAGTTCTGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCT
* * *
652040 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATA
66 AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
652095 ATTCTGG
1 ATTCTGG
652102 GTTCCGATGT
Statistics
Matches: 120, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
120 120 1.00
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (120 bp):
ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCT
AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
Found at i:652245 original size:303 final size:303
Alignment explanation
Indices: 651691--652284 Score: 1116
Period size: 303 Copynumber: 2.0 Consensus size: 303
651681 TAAAATTAGC
*
651691 GACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTA
1 GACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTA
651756 TACCAGTTATATTACAAAATTATCTACTACAATATAATTCTGGGTTCCGATGTGTAAATGTCGAC
66 TACCAGTTATATTACAAAATTATCTACTACAATATAATTCTGGGTTCCGATGTGTAAATGTCGAC
651821 ACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATTA
131 ACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATTA
651886 AAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATAT
196 AAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATAT
651951 TACAAAATTATCTAGTACATTATAATTCTGGACATAAAGTTCT
261 TACAAAATTATCTAGTACATTATAATTCTGGACATAAAGTTCT
651994 GACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTA
1 GACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTA
* * *
652059 TACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGAC
66 TACCAGTTATATTACAAAATTATCTACTACAATATAATTCTGGGTTCCGATGTGTAAATGTCGAC
652124 ACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATTA
131 ACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATTA
* * *
652189 AAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTTATAT
196 AAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATAT
*
652254 TACAAAATTATCTATTACATTATAATTCTGG
261 TACAAAATTATCTAGTACATTATAATTCTGG
652285 GTTCCGATGT
Statistics
Matches: 283, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
303 283 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.34
Consensus pattern (303 bp):
GACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTA
TACCAGTTATATTACAAAATTATCTACTACAATATAATTCTGGGTTCCGATGTGTAAATGTCGAC
ACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATTA
AAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATAT
TACAAAATTATCTAGTACATTATAATTCTGGACATAAAGTTCT
Found at i:652283 original size:183 final size:183
Alignment explanation
Indices: 651975--652928 Score: 1716
Period size: 183 Copynumber: 5.2 Consensus size: 183
651965 GTACATTATA
* * *
651975 ATTCTGGACATAAAGTTCTGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
652040 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
66 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
652105 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
131 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
652158 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
652223 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
66 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
* *
652288 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCAACATATTTTTCTTCC
131 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
*
652341 ATTTTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
* *
652406 CATAAAACCGATATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTTTGGGTT
66 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
652471 CCGATGTGTAAATGTCGACAC-TTTTGACAAGGTATCGACACATTTTTCTTCC
131 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
652523 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
652588 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
66 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
652653 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
131 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
652706 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
* ** * *
652771 CATAAAATCGGTATATTTATACCTATTATATTACAAAATTATCTATTTCATTATAATTATGGGTT
66 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
* * *
652836 CCGATGTTTTTTCAAT-T-GACACTTTTTGAAAAGGTATCGACACATTTTTCTTCC
131 CCGATG---TGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
652890 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGT
652929 GAAAACTTTG
Statistics
Matches: 746, Mismatches: 21, Indels: 7
0.96 0.03 0.01
Matches are distributed among these distances:
182 177 0.24
183 488 0.65
184 75 0.10
185 1 0.00
186 5 0.01
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.36
Consensus pattern (183 bp):
ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
Found at i:652650 original size:365 final size:366
Alignment explanation
Indices: 651975--652928 Score: 1716
Period size: 365 Copynumber: 2.6 Consensus size: 366
651965 GTACATTATA
* * *
651975 ATTCTGGACATAAAGTTCTGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
*
652040 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
66 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTT
652105 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATA
131 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATA
652170 AAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGT
196 AAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGT
652235 ATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAA
261 ATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAA
*
652300 TGTCGACACTTTTTGACAAGGTATCAACATATTTTTCTTCC
326 TGTCGACACTTTTTGACAAGGTATCAACACATTTTTCTTCC
*
652341 ATTTTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
* *
652406 CATAAAACCGATATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTTTGGGTT
66 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTT
652471 CCGATGTGTAAATGTCGACAC-TTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATA
131 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATA
652535 AAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGT
196 AAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGT
652600 ATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAA
261 ATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAA
*
652665 TGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
326 TGTCGACACTTTTTGACAAGGTATCAACACATTTTTCTTCC
652706 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
* ** *
652771 CATAAAATCGGTATATTTATACCTATTATATTACAAAATTATCTATTTCATTATAATTATGGGTT
66 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTT
* * *
652836 CCGATGTTTTTTCAAT-T-GACACTTTTTGAAAAGGTATCGACACATTTTTCTTCCATTCTGGAC
131 CCGATG---TGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGAC
652899 ATAAAGTACCGACACAATATTAAAAAGTGT
193 ATAAAGTACCGACACAATATTAAAAAGTGT
652929 GAAAACTTTG
Statistics
Matches: 566, Mismatches: 18, Indels: 7
0.96 0.03 0.01
Matches are distributed among these distances:
365 341 0.60
366 150 0.27
367 70 0.12
368 5 0.01
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.36
Consensus pattern (366 bp):
ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTT
CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATA
AAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGT
ATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAA
TGTCGACACTTTTTGACAAGGTATCAACACATTTTTCTTCC
Found at i:654145 original size:3 final size:3
Alignment explanation
Indices: 654137--654181 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
654127 ACTTGTTTGG
* * * *
654137 ATC ATC ATC ATC ATC ATC ATC TTC ATC GTC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
654182 GTCAGCTTCA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.24, C:0.33, G:0.04, T:0.38
Consensus pattern (3 bp):
ATC
Found at i:654168 original size:18 final size:18
Alignment explanation
Indices: 654141--654198 Score: 80
Period size: 18 Copynumber: 3.2 Consensus size: 18
654131 GTTTGGATCA
*
654141 TCATCATCATCATCATCT
1 TCATCGTCATCATCATCT
*
654159 TCATCGTCATCGTCATCT
1 TCATCGTCATCATCATCT
* *
654177 TCATCGTCAGCTTCATCT
1 TCATCGTCATCATCATCT
654195 TCAT
1 TCAT
654199 TGACCGCTTG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.21, C:0.33, G:0.07, T:0.40
Consensus pattern (18 bp):
TCATCGTCATCATCATCT
Found at i:654196 original size:6 final size:6
Alignment explanation
Indices: 654141--654198 Score: 62
Period size: 6 Copynumber: 9.7 Consensus size: 6
654131 GTTTGGATCA
* * * * * *
654141 TCATCA TCATCA TCATCT TCATCG TCATCG TCATCT TCATCG TCAGCT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
654189 TCATCT TCAT
1 TCATCT TCAT
654199 TGACCGCTTG
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.21, C:0.33, G:0.07, T:0.40
Consensus pattern (6 bp):
TCATCT
Found at i:656100 original size:179 final size:179
Alignment explanation
Indices: 655800--656169 Score: 677
Period size: 179 Copynumber: 2.1 Consensus size: 179
655790 TTTATATATT
*
655800 GATCGACACTTTATGGTTGCACCCTGTTTGCCATTCAATCTGGACCAAAAATATCGGCACAAACT
1 GATCGACACTTTATGGTTGCACCCTGTTTGCCATTCAATCTGGACCAAAAATATCGACACAAACT
*
655865 ACAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAG
66 ACAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGATTAG
*
655930 ATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGG
131 ATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCG
* *
655979 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
1 GATCGACACTTTATGGTTGCACCCTGTTTGCCATTCAATCTGGACCAAAAATATCGACACAAACT
*
656044 ACAAAAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATACTTGTACCGATTAG
66 ACAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGATTAG
*
656109 ATTGAAAAATTACCTATTACATTATACTTATGGGTTTTGATGTTTATCG
131 ATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCG
656158 GATCGACACTTT
1 GATCGACACTTT
656170 TTATATATGA
Statistics
Matches: 184, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
179 184 1.00
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (179 bp):
GATCGACACTTTATGGTTGCACCCTGTTTGCCATTCAATCTGGACCAAAAATATCGACACAAACT
ACAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGATTAG
ATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCG
Found at i:656266 original size:20 final size:21
Alignment explanation
Indices: 656232--656279 Score: 80
Period size: 20 Copynumber: 2.3 Consensus size: 21
656222 ACCAAAAATA
*
656232 TCGACACAAACTACAAAAGTG
1 TCGATACAAACTACAAAAGTG
656253 TCGATACAAA-TACAAAAGTG
1 TCGATACAAACTACAAAAGTG
656273 TCGATAC
1 TCGATAC
656280 TTTTATGTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.46, C:0.21, G:0.15, T:0.19
Consensus pattern (21 bp):
TCGATACAAACTACAAAAGTG
Found at i:656713 original size:182 final size:181
Alignment explanation
Indices: 656362--656835 Score: 736
Period size: 182 Copynumber: 2.6 Consensus size: 181
656352 CGTACTTACG
* *
656362 AAAGTATCGACACTTTCAATATATCCGGTATCGTTTTACCGGTTTTATCATTTTGATACTGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* *
656427 TATCATATTTTTACCTGTTATATCGTTGTGGATCGATATATATTTTTAAAGTATCGACACATTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACAT-TTTTTAAAGTATCGACACATTAT
*
656492 AGGTGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCTTTATA-T
130 AGGTGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
656543 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* *
656608 TATCATATTTTTTACCTGGTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTA
66 TATCATA-TTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTT-AAAGTATCGACACATTA
*
656673 TAGGAT-TTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
129 TAGG-TGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* * * * * **
656726 AAAGTACCGACACTTTAAATGTATCCGGTAGCGCTTTACCGGTTTTATCATTTCAATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * *
656791 TGTCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTT
656836 AATTTGGATC
Statistics
Matches: 270, Mismatches: 19, Indels: 7
0.91 0.06 0.02
Matches are distributed among these distances:
181 75 0.28
182 129 0.48
183 66 0.24
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (181 bp):
AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAGTATCGACACATTATA
GGTGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
Found at i:657265 original size:6 final size:6
Alignment explanation
Indices: 657246--657288 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
657236 TTACCCTAAA
* *
657246 AATTAC AATT-T AATTAT AATTAT AATTAT AATTA- AATTTT AAT
1 AATTAT AATTAT AATTAT AATTAT AATTAT AATTAT AATTAT AAT
657289 AAATGATTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 8 0.24
6 25 0.76
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (6 bp):
AATTAT
Found at i:658142 original size:16 final size:16
Alignment explanation
Indices: 658118--658149 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
658108 TGCCTCCTTG
*
658118 CCGTTGTCCCTTCTCC
1 CCGTCGTCCCTTCTCC
658134 CCGTCGTCCCTTCTCC
1 CCGTCGTCCCTTCTCC
658150 ATCTGTGGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.00, C:0.53, G:0.12, T:0.34
Consensus pattern (16 bp):
CCGTCGTCCCTTCTCC
Found at i:658311 original size:14 final size:14
Alignment explanation
Indices: 658292--658323 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
658282 ATTGTATTAC
658292 AAGTTTCAAAAGTT
1 AAGTTTCAAAAGTT
658306 AAGTTTCAAAAGTT
1 AAGTTTCAAAAGTT
658320 AAGT
1 AAGT
658324 GACAAAAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.16, T:0.34
Consensus pattern (14 bp):
AAGTTTCAAAAGTT
Found at i:659884 original size:2 final size:2
Alignment explanation
Indices: 659877--659906 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
659867 ACTATGGTTA
659877 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
659907 TATTTTTAAT
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:660624 original size:503 final size:512
Alignment explanation
Indices: 659699--660714 Score: 1734
Period size: 503 Copynumber: 2.0 Consensus size: 512
659689 ATTTTTTTTT
659699 ATTTTTTTCAAGGAATATCAAAATTTTCTCTACAAAATAAAAGTAAATTAAAACTCACATTAGAA
1 ATTTTTTTCAAGGAATATCAAAATTTTCTCTACAAAATAAAAGTAAATTAAAACTCACATTAGAA
659764 TTAATATGTACGATATAACAATATAATTGTACTAATAAAATAAAATATAAAATTAAAATAGCATA
66 TTAATATGTACGATATAACAATATAATTGTACTAATAAAATAAAATATAAAATTAAAATAGCATA
659829 TAAATTCAGTAAATCACTTAACAATAATATTTGTAATCACTATGGTTAATATATATATATATATA
131 TAAATTCAGTAAATCACTTAACAATAATATTTGTAATCACTATGGTTAATATATATATATATATA
*
659894 TATATATATATATTATTTTTAATTAATTTATTTTTTATTTTTTATATTTATATATTTTGAATTTT
196 TATATATATATATTATTTTTAATTAATTTATTTTTTA-----TATATTTATATATTTTAAATTTT
659959 GAATTTAAAATATTTTTTAAAATCAAATAAATACCTCAACTTAAAAAATAAATAATATGATTTTC
256 GAATTTAAAATATTTTTTAAAATCAAATAAATACCTCAACTTAAAAAATAAATAATATGATTTTC
* *
660024 GAACTCAATAAAAAATCAATTTAGTTCATATGTCACGTCACCAACAATTGTGGATTATCATGTCA
321 GAACTCAATAAAAAATCAATTCAGTTCATATGTCACATCACCAACAATTGTGGATTATCATGTCA
*
660089 GTATAGTAAACCGTCACGTTAATACCATGAAGTGTCATGTTAGTACAGTAAC-AGTCGCGATATA
386 GTATAGTAAACCGTCACGTTAATACCATGAAGTG-CATGTTAGTACAGTAACGA-TCACGATATA
660153 AATAATTGATCAAAGGACCACATTAA-TTTTT-TTTCTAAATTTAAAAATAATATTATACCCCC
449 AATAATTGATCAAAGGACCACATTAATTTTTTCTTTCTAAATTTAAAAATAATATTATACCCCC
660215 ATTTTTTTCAAGGAATATCAAAATTTTCTCTACAAAATAAAAGTAAATTAAAACTCACATTAGAA
1 ATTTTTTTCAAGGAATATCAAAATTTTCTCTACAAAATAAAAGTAAATTAAAACTCACATTAGAA
*
660280 TTAATATGTACGAATATAACAATATAATTGTACTAATAAAATAAAATATAAAATTAAAATACGCC
66 TTAATATGTACG-ATATAACAATATAATTGTACTAATAAAATAAAATATAAAATTAAAATA-GCA
* * **
660345 TCTAAATTCAGTAAATCATTTAACAATAATATTTGTAATCGTTATGGTT-A-A-A-ATATATATA
129 TATAAATTCAGTAAATCACTTAACAATAATATTTGTAATCACTATGGTTAATATATATATATATA
*
660406 TATATATATAT-TA-T-TTTTT-ATTAATTTA-TTTTTA-ATTTTTATATATTTTAAATTTTGAA
194 TATATATATATATATTATTTTTAATTAATTTATTTTTTATATATTTATATATTTTAAATTTTGAA
660465 TTTAAAATATTTTTTAAAATCAAATAAATACCTCAACTTAAAAAATAAATAATATGATTTTCGAA
259 TTTAAAATATTTTTTAAAATCAAATAAATACCTCAACTTAAAAAATAAATAATATGATTTTCGAA
660530 CTCAATAAAAAATCAATTCAGTTCATATGTCACATCACCAACAATTGTGGATTATCATGTCAGTA
324 CTCAATAAAAAATCAATTCAGTTCATATGTCACATCACCAACAATTGTGGATTATCATGTCAGTA
* *
660595 TAGTAGACCGTCACGTTAATACCATGAAGTGCATGTTAGTACAGTAACGATCACGATATCAATAA
389 TAGTAAACCGTCACGTTAATACCATGAAGTGCATGTTAGTACAGTAACGATCACGATATAAATAA
*
660660 TTGATCAAAGGACCACATTAATTTTTTTCTTTCTAAATTTTAAAATAATATTATA
454 TTGATCAAAGGACCACATTAA-TTTTTTCTTTCTAAATTTAAAAATAATATTATA
660715 TAAAAATAAT
Statistics
Matches: 481, Mismatches: 13, Indels: 23
0.93 0.03 0.04
Matches are distributed among these distances:
502 51 0.11
503 182 0.38
504 5 0.01
505 25 0.05
509 6 0.01
510 9 0.02
511 5 0.01
512 1 0.00
513 2 0.00
514 20 0.04
515 1 0.00
516 78 0.16
517 49 0.10
518 47 0.10
ACGTcount: A:0.43, C:0.11, G:0.08, T:0.38
Consensus pattern (512 bp):
ATTTTTTTCAAGGAATATCAAAATTTTCTCTACAAAATAAAAGTAAATTAAAACTCACATTAGAA
TTAATATGTACGATATAACAATATAATTGTACTAATAAAATAAAATATAAAATTAAAATAGCATA
TAAATTCAGTAAATCACTTAACAATAATATTTGTAATCACTATGGTTAATATATATATATATATA
TATATATATATATTATTTTTAATTAATTTATTTTTTATATATTTATATATTTTAAATTTTGAATT
TAAAATATTTTTTAAAATCAAATAAATACCTCAACTTAAAAAATAAATAATATGATTTTCGAACT
CAATAAAAAATCAATTCAGTTCATATGTCACATCACCAACAATTGTGGATTATCATGTCAGTATA
GTAAACCGTCACGTTAATACCATGAAGTGCATGTTAGTACAGTAACGATCACGATATAAATAATT
GATCAAAGGACCACATTAATTTTTTCTTTCTAAATTTAAAAATAATATTATACCCCC
Found at i:667766 original size:23 final size:23
Alignment explanation
Indices: 667740--667790 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
667730 GTTATTAATC
667740 TTTGCAAAACTAACTTTCTTTTG
1 TTTGCAAAACTAACTTTCTTTTG
*
667763 TTTGCAAAACTAACTTTTTTTTG
1 TTTGCAAAACTAACTTTCTTTTG
667786 TTTGC
1 TTTGC
667791 CAAAGATGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.24, C:0.16, G:0.10, T:0.51
Consensus pattern (23 bp):
TTTGCAAAACTAACTTTCTTTTG
Found at i:680408 original size:17 final size:16
Alignment explanation
Indices: 680386--680419 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
680376 TTTGATAATA
680386 TTATTTTAATAATGTTT
1 TTATTTTAATAAT-TTT
*
680403 TTATTTTGATAATTTT
1 TTATTTTAATAATTTT
680419 T
1 T
680420 ATAGACGAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (16 bp):
TTATTTTAATAATTTT
Found at i:681863 original size:31 final size:30
Alignment explanation
Indices: 681798--681867 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
681788 TAATTTTATT
* *
681798 AATTTTTGATTAATTACATTTAGATCCCTG
1 AATTTTTGAATAATTACATTTAGATCCCTA
* *
681828 AATTTTTGAATATTTATATTTTAG-TCCCTA
1 AATTTTTGAATAATTACA-TTTAGATCCCTA
*
681858 AAATTTTGAA
1 AATTTTTGAA
681868 AAGTTATAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
30 29 0.85
31 5 0.15
ACGTcount: A:0.33, C:0.10, G:0.09, T:0.49
Consensus pattern (30 bp):
AATTTTTGAATAATTACATTTAGATCCCTA
Found at i:681875 original size:30 final size:31
Alignment explanation
Indices: 681816--681875 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
681806 ATTAATTACA
* * * *
681816 TTTAGATCCCTGAATTTTTGAATATTTATAT
1 TTTAGATCCCTAAAATTTTGAAAAGTTATAT
681847 TTTAG-TCCCTAAAATTTTGAAAAGTTATA
1 TTTAGATCCCTAAAATTTTGAAAAGTTATA
681876 AATTGATATG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.47
Consensus pattern (31 bp):
TTTAGATCCCTAAAATTTTGAAAAGTTATAT
Found at i:682465 original size:8 final size:8
Alignment explanation
Indices: 682452--682495 Score: 79
Period size: 8 Copynumber: 5.4 Consensus size: 8
682442 CTTAGGGACG
682452 AAAATGAA
1 AAAATGAA
682460 AAAATGAA
1 AAAATGAA
682468 AAAATGAAA
1 AAAATG-AA
682477 AAAATGAA
1 AAAATGAA
682485 AAAATGAA
1 AAAATGAA
682493 AAA
1 AAA
682496 TAATTGATGA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
8 27 0.77
9 8 0.23
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.11
Consensus pattern (8 bp):
AAAATGAA
Found at i:682480 original size:17 final size:17
Alignment explanation
Indices: 682452--682495 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
682442 CTTAGGGACG
682452 AAAATG-AAAAAATGAA
1 AAAATGAAAAAAATGAA
682468 AAAATGAAAAAAATGAA
1 AAAATGAAAAAAATGAA
682485 AAAATGAAAAA
1 AAAATGAAAAA
682496 TAATTGATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 6 0.22
17 21 0.78
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.11
Consensus pattern (17 bp):
AAAATGAAAAAAATGAA
Found at i:682748 original size:31 final size:30
Alignment explanation
Indices: 682706--682798 Score: 95
Period size: 28 Copynumber: 3.1 Consensus size: 30
682696 GAATTCAATT
*
682706 GTTAAATTGATATTTTATCTAAAGTTTTAGG
1 GTTAAAATGATATTTTATCTAAAG-TTTAGG
*
682737 GTTAAAATGATATTTTATTTTAAA--TT-GG
1 GTTAAAATGATATTTTA-TCTAAAGTTTAGG
* *
682765 GTCAAAAT-AGTATTTTATCTAAAGTTAAGG
1 GTTAAAATGA-TATTTTATCTAAAGTTTAGG
682795 GTTA
1 GTTA
682799 GATAAAAAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
27 6 0.12
28 16 0.31
29 3 0.06
30 5 0.10
31 16 0.31
32 5 0.10
ACGTcount: A:0.35, C:0.03, G:0.16, T:0.45
Consensus pattern (30 bp):
GTTAAAATGATATTTTATCTAAAGTTTAGG
Found at i:686460 original size:22 final size:22
Alignment explanation
Indices: 686434--686476 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
686424 TAATAAATTA
686434 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
686456 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
686477 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:686485 original size:22 final size:22
Alignment explanation
Indices: 686436--686484 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
686426 ATAAATTATT
**
686436 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
686458 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
686481 TAAA
1 TAAA
686485 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:686494 original size:32 final size:32
Alignment explanation
Indices: 686456--686742 Score: 189
Period size: 32 Copynumber: 10.4 Consensus size: 32
686446 CAATCCATAT
686456 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
686488 TTTAAAATAAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
686518 --T--AATAAATCAATCC--A-T-AT------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
686536 TTTAAAATAAATCAATCTATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
686568 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
686590 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
686622 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
686644 TTTAAAATAAATCAATACATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
686676 TTTAAAATAAATCAAT-C-TA-T-A-CAACTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
686703 --T--AATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
686731 TTTAAAATAAAT
1 TTTAAAATAAAT
686743 TATTTTAAAA
Statistics
Matches: 203, Mismatches: 7, Indels: 90
0.68 0.02 0.30
Matches are distributed among these distances:
20 1 0.00
22 45 0.22
23 16 0.08
24 5 0.02
25 4 0.02
26 22 0.11
27 5 0.02
28 12 0.06
29 1 0.00
30 6 0.03
31 6 0.03
32 80 0.39
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:686529 original size:80 final size:80
Alignment explanation
Indices: 686439--686588 Score: 291
Period size: 80 Copynumber: 1.9 Consensus size: 80
686429 AATTATTTAA
686439 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
686504 CCATACAACTACAAT
66 CCATACAACTACAAT
*
686519 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
686584 CCATA
66 CCATA
686589 TTTTAAAATA
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 69 1.00
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.33
Consensus pattern (80 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
CCATACAACTACAAT
Found at i:686588 original size:54 final size:54
Alignment explanation
Indices: 686519--686742 Score: 353
Period size: 54 Copynumber: 4.1 Consensus size: 54
686509 CAACTACAAT
686519 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAA
*
686573 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAA
686627 AATAAATCAATCCATATTTTAAAATAAATCAATAC-ATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAAT-CTATACTAATAAATTATTTAA
* *** *
686681 AATAAATCAATCTATACAACTATAATAAATCAAT-TCATACTAATAAATTATTTAA
1 AATAAATCAATCCATA-TTTTAAAATAAATCAATCT-ATACTAATAAATTATTTAA
686736 AATAAAT
1 AATAAAT
686743 TATTTTAAAA
Statistics
Matches: 160, Mismatches: 6, Indels: 7
0.92 0.03 0.04
Matches are distributed among these distances:
54 120 0.75
55 40 0.25
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (54 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAA
Found at i:686594 original size:22 final size:22
Alignment explanation
Indices: 686568--686610 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
686558 TAATAAATTA
686568 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
686590 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
686611 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:686619 original size:22 final size:22
Alignment explanation
Indices: 686570--686618 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
686560 ATAAATTATT
**
686570 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
686592 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
686615 TAAA
1 TAAA
686619 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:686648 original size:22 final size:22
Alignment explanation
Indices: 686622--686664 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
686612 TAATAAATTA
*
686622 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATACATAT
686644 TTTAAAATAAATCAATACATA
1 TTTAAAATAAATCAATACATA
686665 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATACATAT
Found at i:686673 original size:22 final size:22
Alignment explanation
Indices: 686624--686672 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
686614 ATAAATTATT
* **
686624 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATACATATAA
686646 TAAAATAAATCAATACATACTAA
1 TAAAATAAATCAATACATA-TAA
686669 TAAA
1 TAAA
686673 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATACATATAA
Found at i:686736 original size:27 final size:27
Alignment explanation
Indices: 686651--686736 Score: 79
Period size: 27 Copynumber: 3.1 Consensus size: 27
686641 TATTTTAAAA
*
686651 TAAATCAATACATACTAATAAATTATT
1 TAAATCAATTCATACTAATAAATTATT
* * *
686678 TAAAAT-AAATCA-ATCT-ATACAACTATAA
1 T-AAATCAATTCATA-CTAATA-AATTAT-T
686706 TAAATCAATTCATACTAATAAATTATT
1 TAAATCAATTCATACTAATAAATTATT
686733 TAAA
1 TAAA
686737 ATAAATTATT
Statistics
Matches: 45, Mismatches: 7, Indels: 14
0.68 0.11 0.21
Matches are distributed among these distances:
26 4 0.09
27 20 0.44
28 17 0.38
29 4 0.09
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (27 bp):
TAAATCAATTCATACTAATAAATTATT
Found at i:686739 original size:14 final size:15
Alignment explanation
Indices: 686722--686807 Score: 79
Period size: 14 Copynumber: 5.5 Consensus size: 15
686712 AATTCATACT
686722 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
686736 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
686751 AATAAATCAATCTATATTTTAT
1 AAT--A--AA--T-TATTTTAA
686773 AAT-AATTATTTTAA
1 AATAAATTATTTTAA
686787 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
686801 AATAAAT
1 AATAAAT
686808 AACCTTATTA
Statistics
Matches: 61, Mismatches: 2, Indels: 18
0.75 0.02 0.22
Matches are distributed among these distances:
14 31 0.51
15 14 0.23
17 3 0.05
19 2 0.03
21 1 0.02
22 10 0.16
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:686841 original size:50 final size:48
Alignment explanation
Indices: 686725--686843 Score: 118
Period size: 50 Copynumber: 2.4 Consensus size: 48
686715 TCATACTAAT
* *
686725 AAATTATTTAAAATAAATTATTTTAAAATAAATCAATCTATATTTTATA
1 AAATTATTT-TAATAAATTATTTTAAAATAAATCAACCTATATTTTATA
686774 ATAATTATTTTAAAATAAATTA-TTTAAAATAAAT-AACCT-TATTAAATTATTTA
1 A-AATTATTTT--AATAAATTATTTTAAAATAAATCAACCTATATT---TTA--TA
686827 AAATTATTTTAATAAAT
1 AAATTATTTTAATAAAT
686844 AACCATATTT
Statistics
Matches: 60, Mismatches: 2, Indels: 15
0.78 0.03 0.19
Matches are distributed among these distances:
48 4 0.07
49 5 0.08
50 27 0.45
51 12 0.20
52 9 0.15
53 3 0.05
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.45
Consensus pattern (48 bp):
AAATTATTTTAATAAATTATTTTAAAATAAATCAACCTATATTTTATA
Found at i:693393 original size:16 final size:15
Alignment explanation
Indices: 693350--693391 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
693340 TTCATTCATT
693350 TCATTTT-GTTTAAA
1 TCATTTTAGTTTAAA
* *
693364 TTATTTTAAATTTAAA
1 TCATTTT-AGTTTAAA
693380 TCATTTTAGTTT
1 TCATTTTAGTTT
693392 TAGAATATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
14 6 0.27
15 4 0.18
16 12 0.55
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.60
Consensus pattern (15 bp):
TCATTTTAGTTTAAA
Found at i:694552 original size:12 final size:12
Alignment explanation
Indices: 694537--694569 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
694527 AAAAAATATG
694537 GAAAAAGAAGAA
1 GAAAAAGAAGAA
694549 GAAAAAGAAGAA
1 GAAAAAGAAGAA
694561 -AAAAAGAAG
1 GAAAAAGAAG
694570 GATACTTGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
GAAAAAGAAGAA
Found at i:701156 original size:20 final size:19
Alignment explanation
Indices: 701092--701160 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 19
701082 AATGAAGGTA
701092 TGCATCGATGCACTATACAG
1 TGCATCGATGCACT-TACAG
* *
701112 TGTATCGATGCATCCTTAACGG
1 TGCATCGATGCA--CTT-ACAG
*
701134 TGCATCGATGCACTTACTTG
1 TGCATCGATGCACTTAC-AG
701154 TGCATCG
1 TGCATCG
701161 GTGTACAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
19 2 0.05
20 22 0.54
21 1 0.02
22 16 0.39
ACGTcount: A:0.23, C:0.25, G:0.22, T:0.30
Consensus pattern (19 bp):
TGCATCGATGCACTTACAG
Found at i:701261 original size:65 final size:63
Alignment explanation
Indices: 701132--701275 Score: 155
Period size: 64 Copynumber: 2.3 Consensus size: 63
701122 CATCCTTAAC
* * * * * *
701132 GGTGCATCGATGCACTTACTTGTGCATCGGTGTACAAAATACATTCGATGTTTTTGTATCAAGG
1 GGTGCATCGATGCACTGACTTATGCATCGATGCACAAAATACATTCGATGTTTTTATAT-AAAG
* * * *
701196 GAGTGCATCGATGCAC-GACTTATGCATCGATGCACTAATTGCATTCGATGTTTCTTATTTAAAG
1 G-GTGCATCGATGCACTGACTTATGCATCGATGCACAAAATACATTCGATGTTT-TTATATAAAG
*
701260 GGTGTATCGATGCACT
1 GGTGCATCGATGCACT
701276 TTGAATGTGC
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
63 13 0.20
64 35 0.53
65 18 0.27
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (63 bp):
GGTGCATCGATGCACTGACTTATGCATCGATGCACAAAATACATTCGATGTTTTTATATAAAG
Found at i:701291 original size:21 final size:21
Alignment explanation
Indices: 701265--701312 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
701255 TAAAGGGTGT
701265 ATCGATGCACTTTGAATGTGC
1 ATCGATGCACTTTGAATGTGC
701286 ATCGATGCACTTTGAATGTGC
1 ATCGATGCACTTTGAATGTGC
701307 ATCGAT
1 ATCGAT
701313 ACACCTTACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (21 bp):
ATCGATGCACTTTGAATGTGC
Found at i:705387 original size:30 final size:30
Alignment explanation
Indices: 705353--705425 Score: 128
Period size: 30 Copynumber: 2.4 Consensus size: 30
705343 TCCTGAAGAC
705353 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
705383 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
* *
705413 CTGTCCATAGGTC
1 CTATCCAGAGGTC
705426 CCGAAGAACC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:705449 original size:31 final size:31
Alignment explanation
Indices: 705411--705475 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
705401 GATCCTCGGT
*
705411 AACTGTCCATAGGTCCCGAAGAACCTAGGTA
1 AACTGTCCATAGGTCCCGAAGAACATAGGTA
* * **
705442 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATAGGTCCCGAAGAACATAGGTA
705473 AAC
1 AAC
705476 CCTCGACTCT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (31 bp):
AACTGTCCATAGGTCCCGAAGAACATAGGTA
Found at i:710937 original size:21 final size:21
Alignment explanation
Indices: 710911--710950 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
710901 ATTTTGCACT
710911 GAGTGTACCGATACACCTAGA
1 GAGTGTACCGATACACCTAGA
*
710932 GAGTGTACTGATACACCTA
1 GAGTGTACCGATACACCTA
710951 TGCTCCTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.23
Consensus pattern (21 bp):
GAGTGTACCGATACACCTAGA
Found at i:711930 original size:30 final size:30
Alignment explanation
Indices: 711877--711952 Score: 91
Period size: 30 Copynumber: 2.5 Consensus size: 30
711867 AACTTTGGTC
* * *
711877 AAATTTATGAGTTAAATTGATATTTTATCTA
1 AAATTTAAGAGTTAAAATAATA-TTTATCTA
711908 AAATTTAAG-GTTAAAATAATATTTATCTA
1 AAATTTAAGAGTTAAAATAATATTTATCTA
* *
711937 AAGTTTAGGAGTTAAA
1 AAATTTAAGAGTTAAA
711953 TTAAAAATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
29 15 0.38
30 16 0.41
31 8 0.21
ACGTcount: A:0.43, C:0.03, G:0.12, T:0.42
Consensus pattern (30 bp):
AAATTTAAGAGTTAAAATAATATTTATCTA
Found at i:711953 original size:29 final size:30
Alignment explanation
Indices: 711877--711953 Score: 86
Period size: 29 Copynumber: 2.6 Consensus size: 30
711867 AACTTTGGTC
* *
711877 AAATTTATGAGTTAAATTGATATTTTATCTA
1 AAATTTAAGAGTTAAA-TAATATTTTATCTA
711908 AAATTTAAG-GTTAAAATAATA-TTTATCTA
1 AAATTTAAGAGTT-AAATAATATTTTATCTA
* *
711937 AAGTTTAGGAGTTAAAT
1 AAATTTAAGAGTTAAAT
711954 TAAAAATTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
29 19 0.47
30 10 0.25
31 11 0.28
ACGTcount: A:0.43, C:0.03, G:0.12, T:0.43
Consensus pattern (30 bp):
AAATTTAAGAGTTAAATAATATTTTATCTA
Found at i:712236 original size:33 final size:33
Alignment explanation
Indices: 712190--712262 Score: 103
Period size: 34 Copynumber: 2.2 Consensus size: 33
712180 GTTATATTTT
712190 TTATATTTAG-TTTTTAATGTTATATTTTGTAAA
1 TTAT-TTTAGTTTTTTAATGTTATATTTTGTAAA
*
712223 TTATTTTATGTTTTTTAATGTTATCTTTTGTAAA
1 TTATTTTA-GTTTTTTAATGTTATATTTTGTAAA
*
712257 TAATTT
1 TTATTT
712263 ATTCTTTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
32 4 0.11
33 5 0.14
34 27 0.75
ACGTcount: A:0.27, C:0.01, G:0.08, T:0.63
Consensus pattern (33 bp):
TTATTTTAGTTTTTTAATGTTATATTTTGTAAA
Found at i:712264 original size:33 final size:35
Alignment explanation
Indices: 712200--712274 Score: 109
Period size: 34 Copynumber: 2.2 Consensus size: 35
712190 TTATATTTAG
* *
712200 TTTTTAATGTTATATTTTGTAAATTATTTTA-TGT
1 TTTTTAATGTTATATTTTGTAAATTAATTTATTCT
*
712234 TTTTTAATGTTATCTTTTGTAAA-TAATTTATTCT
1 TTTTTAATGTTATATTTTGTAAATTAATTTATTCT
712268 TTTTTAA
1 TTTTTAA
712275 ATATAAAAAG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
33 6 0.16
34 31 0.84
ACGTcount: A:0.27, C:0.03, G:0.07, T:0.64
Consensus pattern (35 bp):
TTTTTAATGTTATATTTTGTAAATTAATTTATTCT
Found at i:713651 original size:43 final size:42
Alignment explanation
Indices: 713475--713652 Score: 162
Period size: 43 Copynumber: 4.2 Consensus size: 42
713465 TTTTTAAACA
* *
713475 AAAAACGCCGCAATAGGTGTTGATATTTAGCAGCGTTTTTAT
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCT
* * * **
713517 GACAAACGCCGCAATAGGTGTTGATATTTAGAGGCATTTTTAG
1 -AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCT
* * *
713560 ATAAAA-GCCGCAATATGT-TATGATGTTTAGCGACGTTTTTCT
1 A-AAAACGCCGCAATAGGTGT-TGATATTTAGCGGCGTTTTTCT
* * * * *
713602 CTAAAACGCCGCAGTAGGTTTTGATGTTTTGCGGCGTTTTTGCT
1 -AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTT-CT
713646 AAAAACG
1 AAAAACG
713653 TCAGTAAAGG
Statistics
Matches: 110, Mismatches: 19, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
41 1 0.01
42 32 0.29
43 74 0.67
44 3 0.03
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (42 bp):
AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCT
Found at i:714780 original size:22 final size:22
Alignment explanation
Indices: 714755--714809 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
714745 TAACTGTCTA
* *
714755 AAACATCATTCCCTTAATTATG
1 AAACAACATTCCCTTAATTACG
714777 AAACAACATTCCCTTAATTACG
1 AAACAACATTCCCTTAATTACG
*
714799 AAACAATATTC
1 AAACAACATTC
714810 GTGTTCAGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.42, C:0.24, G:0.04, T:0.31
Consensus pattern (22 bp):
AAACAACATTCCCTTAATTACG
Found at i:714832 original size:21 final size:22
Alignment explanation
Indices: 714806--714851 Score: 76
Period size: 21 Copynumber: 2.1 Consensus size: 22
714796 ACGAAACAAT
*
714806 ATTCGTGTTCAGTAAAAAAC-A
1 ATTCGTGTTCACTAAAAAACTA
714827 ATTCGTGTTCACTAAAAAACTA
1 ATTCGTGTTCACTAAAAAACTA
714849 ATT
1 ATT
714852 GCTCGTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (22 bp):
ATTCGTGTTCACTAAAAAACTA
Found at i:716957 original size:41 final size:41
Alignment explanation
Indices: 716905--717051 Score: 190
Period size: 41 Copynumber: 3.6 Consensus size: 41
716895 AAATGTCACT
* * *
716905 ATTGATT-ACACTATTGTGGCGTTTGT-TAAAAAACACCACT
1 ATTGATTAACACTATTGCGGCGTTTGTCT-AAAAACGCCACC
* * *
716945 ATTGATTAACACTATTGCGACGTTTCTCTAAAAATGCCACC
1 ATTGATTAACACTATTGCGGCGTTTGTCTAAAAACGCCACC
* *
716986 ATTGATTAACATTATTGCGGCGTTTGTCTAAAAACGGCACC
1 ATTGATTAACACTATTGCGGCGTTTGTCTAAAAACGCCACC
*
717027 ATTGATTAACGCTATTGCGGCGTTT
1 ATTGATTAACACTATTGCGGCGTTT
717052 AAGGAATAGA
Statistics
Matches: 92, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
40 7 0.08
41 84 0.91
42 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (41 bp):
ATTGATTAACACTATTGCGGCGTTTGTCTAAAAACGCCACC
Found at i:717008 original size:82 final size:81
Alignment explanation
Indices: 716893--717051 Score: 212
Period size: 82 Copynumber: 2.0 Consensus size: 81
716883 GTTTATACAA
* * * *
716893 AAAAATGTCACTATTGATTACACTATTGTGGCGTTTGT-TAAAAAACACCACTATTGATTAACAC
1 AAAAATGCCACCATTGATTACACTATTGCGGCGTTTGTCT-AAAAACACCACCATTGATTAACAC
716957 TATTGCGACGTTTCTCT
65 TATTGCGACGTTTCTCT
* ** *
716974 AAAAATGCCACCATTGATTAACATTATTGCGGCGTTTGTCTAAAAACGGCACCATTGATTAACGC
1 AAAAATGCCACCATTGATT-ACACTATTGCGGCGTTTGTCTAAAAACACCACCATTGATTAACAC
*
717039 TATTGCGGCGTTT
65 TATTGCGACGTTT
717052 AAGGAATAGA
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
81 17 0.25
82 49 0.73
83 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.33
Consensus pattern (81 bp):
AAAAATGCCACCATTGATTACACTATTGCGGCGTTTGTCTAAAAACACCACCATTGATTAACACT
ATTGCGACGTTTCTCT
Found at i:717125 original size:42 final size:42
Alignment explanation
Indices: 717079--717215 Score: 145
Period size: 42 Copynumber: 3.3 Consensus size: 42
717069 ATATGTGTAA
**
717079 TCTATTACGGCGTTTGTGGTATAAACACCGCTAATTTACCAC
1 TCTATTACGGCGTTTGTGGTATAAACGTCGCTAATTTACCAC
* * * *
717121 TCTATTGCGGCATTT-TGGCTA-AAACGTCGCAAAATTTA-TAC
1 TCTATTACGGCGTTTGTGG-TATAAACGTCGC-TAATTTACCAC
*** *
717162 TCTATTGTAGCGTTTGTGGTATAAATGTCGCTAATTTACCAC
1 TCTATTACGGCGTTTGTGGTATAAACGTCGCTAATTTACCAC
717204 TCTATTACGGCG
1 TCTATTACGGCG
717216 CTTTTTTGTA
Statistics
Matches: 75, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
41 32 0.43
42 43 0.57
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (42 bp):
TCTATTACGGCGTTTGTGGTATAAACGTCGCTAATTTACCAC
Found at i:718911 original size:22 final size:21
Alignment explanation
Indices: 718886--718949 Score: 89
Period size: 22 Copynumber: 3.1 Consensus size: 21
718876 TTATTACACT
718886 TATGTCCCGAAGGACCACTATA
1 TATGTCCCGAAGGACCACT-TA
718908 TATGTCCCGAAGGACCAC---
1 TATGTCCCGAAGGACCACTTA
718926 TATGTCCCGAAGGACCACTGTA
1 TATGTCCCGAAGGACCACT-TA
718948 TA
1 TA
718950 CCCTCGACTC
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
18 18 0.47
22 20 0.53
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (21 bp):
TATGTCCCGAAGGACCACTTA
Found at i:718931 original size:18 final size:18
Alignment explanation
Indices: 718886--718944 Score: 82
Period size: 18 Copynumber: 3.1 Consensus size: 18
718876 TTATTACACT
718886 TATGTCCCGAAGGACCAC
1 TATGTCCCGAAGGACCAC
718904 TATATATGTCCCGAAGGACCAC
1 ----TATGTCCCGAAGGACCAC
718926 TATGTCCCGAAGGACCAC
1 TATGTCCCGAAGGACCAC
718944 T
1 T
718945 GTATACCCTC
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
18 19 0.51
22 18 0.49
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (18 bp):
TATGTCCCGAAGGACCAC
Found at i:723075 original size:34 final size:30
Alignment explanation
Indices: 723037--723105 Score: 95
Period size: 30 Copynumber: 2.2 Consensus size: 30
723027 TTGATATAAC
723037 AATTTAAGGCAAAATGGTTTTTGGACTTGAATTG
1 AATTTAA--CAAAAT-GTTTTTGGACTT-AATTG
723071 AATTT-ACAAAATGTTTTTGGACTTAATTG
1 AATTTAACAAAATGTTTTTGGACTTAATTG
723100 AATTTA
1 AATTTA
723106 TTCAAAGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
29 10 0.29
30 12 0.35
31 6 0.18
33 1 0.03
34 5 0.15
ACGTcount: A:0.35, C:0.06, G:0.17, T:0.42
Consensus pattern (30 bp):
AATTTAACAAAATGTTTTTGGACTTAATTG
Found at i:723116 original size:29 final size:30
Alignment explanation
Indices: 723046--723105 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
723036 CAATTTAAGG
723046 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAAT-GTTTTTGGACTTGAATTGAATTTA
723077 CAAAATGTTTTTGGACTT-AATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
723106 TTCAAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 12 0.41
31 6 0.21
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTGAATTTA
Found at i:723211 original size:21 final size:20
Alignment explanation
Indices: 723185--723283 Score: 101
Period size: 21 Copynumber: 4.8 Consensus size: 20
723175 AGGGTGTCAA
723185 AGTGCATCCATGCACCCCTGC
1 AGTGCATCCATGCA-CCCTGC
* *
723206 AGTGCATCCATGTATCCCTGT
1 AGTGCATCCATGCA-CCCTGC
723227 AGTGCATCCATGCA-CCTGCAC
1 AGTGCATCCATGCACCCTG--C
* * *
723248 TAGTGCATCGATGCACCATAC
1 -AGTGCATCCATGCACCCTGC
723269 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
723284 TCAAACACCG
Statistics
Matches: 65, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
19 4 0.06
20 14 0.22
21 32 0.49
22 13 0.20
23 2 0.03
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (20 bp):
AGTGCATCCATGCACCCTGC
Found at i:723328 original size:20 final size:20
Alignment explanation
Indices: 723303--723376 Score: 121
Period size: 20 Copynumber: 3.7 Consensus size: 20
723293 GAATGCAATT
723303 TGTGCATCGATGCATCCTTC
1 TGTGCATCGATGCATCCTTC
723323 TGTGCATCGATGCATCCTTC
1 TGTGCATCGATGCATCCTTC
*
723343 TGTGCATCGATGCATCCTGC
1 TGTGCATCGATGCATCCTTC
* *
723363 TGTGTATCCATGCA
1 TGTGCATCGATGCA
723377 CGAAGGCTGC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.16, C:0.28, G:0.22, T:0.34
Consensus pattern (20 bp):
TGTGCATCGATGCATCCTTC
Found at i:726631 original size:34 final size:30
Alignment explanation
Indices: 726593--726661 Score: 95
Period size: 30 Copynumber: 2.2 Consensus size: 30
726583 TTGATATAAC
726593 AATTTAAGGCAAAATGGTTTTTGGACTTGAATTG
1 AATTTAA--CAAAAT-GTTTTTGGACTT-AATTG
726627 AATTT-ACAAAATGTTTTTGGACTTAATTG
1 AATTTAACAAAATGTTTTTGGACTTAATTG
726656 AATTTA
1 AATTTA
726662 TTCAAAGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
29 10 0.29
30 12 0.35
31 6 0.18
33 1 0.03
34 5 0.15
ACGTcount: A:0.35, C:0.06, G:0.17, T:0.42
Consensus pattern (30 bp):
AATTTAACAAAATGTTTTTGGACTTAATTG
Found at i:726672 original size:29 final size:30
Alignment explanation
Indices: 726602--726661 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
726592 CAATTTAAGG
726602 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAAT-GTTTTTGGACTTGAATTGAATTTA
726633 CAAAATGTTTTTGGACTT-AATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
726662 TTCAAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 12 0.41
31 6 0.21
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTGAATTTA
Found at i:726767 original size:21 final size:20
Alignment explanation
Indices: 726741--726839 Score: 119
Period size: 21 Copynumber: 4.8 Consensus size: 20
726731 AGGGTGTCAA
726741 AGTGCATCCATGCACCCCTGC
1 AGTGCATCCATGCA-CCCTGC
*
726762 AGTGCATCCATGCATCCTTGC
1 AGTGCATCCATGCA-CCCTGC
726783 AGTGCATCCATGCA-CCTGCAC
1 AGTGCATCCATGCACCCTG--C
* *
726804 TAGTGCATCGATGCACCATGC
1 -AGTGCATCCATGCACCCTGC
726825 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
726840 TCAAACACCG
Statistics
Matches: 68, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
19 3 0.04
20 14 0.21
21 35 0.51
22 13 0.19
23 3 0.04
ACGTcount: A:0.22, C:0.35, G:0.20, T:0.22
Consensus pattern (20 bp):
AGTGCATCCATGCACCCTGC
Found at i:726775 original size:13 final size:14
Alignment explanation
Indices: 726772--726839 Score: 54
Period size: 13 Copynumber: 4.9 Consensus size: 14
726762 AGTGCATCCA
*
726772 TGCATCCTTGCA-G
1 TGCATCCATGCACG
*
726785 TGCATCCATGCACC
1 TGCATCCATGCACG
*
726799 TGCA-CTAGTGCATCG
1 TGCATCCA-TGCA-CG
726814 ATGCA-CCATGCA-G
1 -TGCATCCATGCACG
726827 TGCATCCATGCAC
1 TGCATCCATGCAC
726840 TCAAACACCG
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
12 4 0.09
13 21 0.48
14 8 0.18
15 5 0.11
16 6 0.14
ACGTcount: A:0.22, C:0.34, G:0.21, T:0.24
Consensus pattern (14 bp):
TGCATCCATGCACG
Found at i:726864 original size:34 final size:34
Alignment explanation
Indices: 726825--726906 Score: 137
Period size: 34 Copynumber: 2.4 Consensus size: 34
726815 TGCACCATGC
* *
726825 AGTGCATCCATGCACTCAAACACCGAATGTAATT
1 AGTGCATCCATGCACTCAAACAACGAATGCAATT
726859 AGTGCATCCATGCACTCAAACAACGAATGCAATT
1 AGTGCATCCATGCACTCAAACAACGAATGCAATT
*
726893 AGTGCATCGATGCA
1 AGTGCATCCATGCA
726907 TCCTTCAGTG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 45 1.00
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (34 bp):
AGTGCATCCATGCACTCAAACAACGAATGCAATT
Found at i:726957 original size:20 final size:20
Alignment explanation
Indices: 726894--726967 Score: 87
Period size: 20 Copynumber: 3.6 Consensus size: 20
726884 AATGCAATTA
*
726894 GTGCATCGATGCATCCT-TCA
1 GTGCATCGATGCATCCTGT-T
**
726914 GTGCATCGATGCATCAAGGTT
1 GTGCATCGATGCATC-CTGTT
726935 GTGCATCGATGCATCCTGTT
1 GTGCATCGATGCATCCTGTT
*
726955 GTGCATCCATGCA
1 GTGCATCGATGCA
726968 CGAAGGCTGC
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
20 30 0.65
21 15 0.33
22 1 0.02
ACGTcount: A:0.20, C:0.26, G:0.24, T:0.30
Consensus pattern (20 bp):
GTGCATCGATGCATCCTGTT
Found at i:729885 original size:21 final size:21
Alignment explanation
Indices: 729859--729899 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
729849 TAATGAACAG
729859 TGCTACAGTGCATCGATGCAT
1 TGCTACAGTGCATCGATGCAT
*
729880 TGCTACAGTGCGTCGATGCA
1 TGCTACAGTGCATCGATGCA
729900 CAAAAATATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (21 bp):
TGCTACAGTGCATCGATGCAT
Found at i:730559 original size:22 final size:22
Alignment explanation
Indices: 730531--730577 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
730521 GAATGACCAC
* *
730531 TATGTCCCGAAGGACTACTGTA
1 TATGTCCCAAAGGACCACTGTA
730553 TATGTCCCAAAGGACCACTGTA
1 TATGTCCCAAAGGACCACTGTA
730575 TAT
1 TAT
730578 CCCTCGACTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (22 bp):
TATGTCCCAAAGGACCACTGTA
Found at i:734452 original size:59 final size:59
Alignment explanation
Indices: 734389--734599 Score: 309
Period size: 59 Copynumber: 3.6 Consensus size: 59
734379 TTACCAAATG
*
734389 GCACTATATGTGATAAAATGATAAGGAAATCATATTGAATGTATGAATTTCCATATGGA
1 GCACTATATGTGCTAAAATGATAAGGAAATCATATTGAATGTATGAATTTCCATATGGA
* *
734448 GCACTATATGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGAATTTCCATATGGA
1 GCACTATATGTGCTAAAATGATAAGGAAATCATATTGAATGTATGAATTTCCATATGGA
* * *
734507 GCACTGA-GTGTGCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCATATAGG-
1 GCACT-ATATGTGCTAAAATGATAAGGAAATCATATTGAATGTATGAATTTCCATAT-GGA
* * *
734566 GCATTATATGTGCTAAAATGGTAAGGGAATCATA
1 GCACTATATGTGCTAAAATGATAAGGAAATCATA
734600 CAGAGTGTAT
Statistics
Matches: 137, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
58 1 0.01
59 133 0.97
60 3 0.02
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (59 bp):
GCACTATATGTGCTAAAATGATAAGGAAATCATATTGAATGTATGAATTTCCATATGGA
Found at i:734528 original size:118 final size:118
Alignment explanation
Indices: 734389--734701 Score: 373
Period size: 118 Copynumber: 2.7 Consensus size: 118
734379 TTACCAAATG
* *
734389 GCACTATA-TGTGATAAAATGATAAGGAAATCATATTGAATGTATGAATTTCCATAT-GGAGCAC
1 GCACTA-AGTGTGCTAAAATGATAAGGAAATCATATTGAATATATGAATTTCCATATAGG-GCAC
* * ***
734452 TATATGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGAATTTCCATATGGA
64 TATATGTGCTAAAATGATAAGGAAATCATACAGAGTGTATGAATTTCCAGAAAAA
* * *
734507 GCACTGAGTGTGCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCATATAGGGCATTA
1 GCACTAAGTGTGCTAAAATGATAAGGAAATCATATTGAATATATGAATTTCCATATAGGGCACTA
* * * *
734572 TATGTGCTAAAATGGTAAGGGAATCATACAGAGTGTATGGATTTCTAGAAAAA
66 TATGTGCTAAAATGATAAGGAAATCATACAGAGTGTATGAATTTCCAGAAAAA
* * * * * * *
734625 GCACTAAGGGTGCTACAAGGATAAGGAAATCATACT-AACAATATGAATTTTCATATATGGCACT
1 GCACTAAGTGTGCTAAAATGATAAGGAAATCATATTGAA-TATATGAATTTCCATATAGGGCACT
734689 -TCATGTGCTAAAA
65 AT-ATGTGCTAAAA
734702 ATGGTAAAGG
Statistics
Matches: 167, Mismatches: 24, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
117 4 0.02
118 161 0.96
119 2 0.01
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (118 bp):
GCACTAAGTGTGCTAAAATGATAAGGAAATCATATTGAATATATGAATTTCCATATAGGGCACTA
TATGTGCTAAAATGATAAGGAAATCATACAGAGTGTATGAATTTCCAGAAAAA
Found at i:734611 original size:59 final size:59
Alignment explanation
Indices: 734389--734660 Score: 307
Period size: 59 Copynumber: 4.6 Consensus size: 59
734379 TTACCAAATG
* *
734389 GCACTATATGTGATAAAATGATAAGGAAATCATATTGAATGTATGAATTTCCATATGGA
1 GCACTATATGTGCTAAAATGATAAGGAAATCATACTGAATGTATGAATTTCCATATGGA
*
734448 GCACTATATGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGAATTTCCATATGGA
1 GCACTATATGTGCTAAAATGATAAGGAAATCATACTGAATGTATGAATTTCCATATGGA
* * * *
734507 GCACTGA-GTGTGCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCATATAGG-
1 GCACT-ATATGTGCTAAAATGATAAGGAAATCATACTGAATGTATGAATTTCCATAT-GGA
* * * * * * * * ***
734566 GCATTATATGTGCTAAAATGGTAAGGGAATCATACAGAGTGTATGGATTTCTAGAAAAA
1 GCACTATATGTGCTAAAATGATAAGGAAATCATACTGAATGTATGAATTTCCATATGGA
* * *
734625 GCACTA-AGGGTGCTACAAGGATAAGGAAATCATACT
1 GCACTATA-TGTGCTAAAATGATAAGGAAATCATACT
734661 AACAATATGA
Statistics
Matches: 180, Mismatches: 28, Indels: 10
0.83 0.13 0.05
Matches are distributed among these distances:
58 2 0.01
59 175 0.97
60 3 0.02
ACGTcount: A:0.39, C:0.11, G:0.22, T:0.29
Consensus pattern (59 bp):
GCACTATATGTGCTAAAATGATAAGGAAATCATACTGAATGTATGAATTTCCATATGGA
Found at i:734747 original size:60 final size:60
Alignment explanation
Indices: 734683--734815 Score: 221
Period size: 60 Copynumber: 2.2 Consensus size: 60
734673 TTTCATATAT
* * * *
734683 GGCACTTCATGTGCTAAAAATGGTAAAGGGATCATACTAATGGTATGGGTTCTTGAATAG
1 GGCACTTCATGTGCTAAAAATGGTAAAAGAATCATACTAATGGTATGGATTCTCGAATAG
734743 GGCACTTCATGTGCTAAAAATGGTAAAAGAATCATACTAATGGTATGGATTCTCGAATAG
1 GGCACTTCATGTGCTAAAAATGGTAAAAGAATCATACTAATGGTATGGATTCTCGAATAG
*
734803 GGCACTTCGTGTG
1 GGCACTTCATGTG
734816 GAAATCATAT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 68 1.00
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.29
Consensus pattern (60 bp):
GGCACTTCATGTGCTAAAAATGGTAAAAGAATCATACTAATGGTATGGATTCTCGAATAG
Found at i:735185 original size:45 final size:44
Alignment explanation
Indices: 734965--735181 Score: 344
Period size: 44 Copynumber: 4.9 Consensus size: 44
734955 TGATGCAAAC
734965 TATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGAAAT
1 TATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGAAAT
* * *
735009 TATAGTAAGTATATTGGTAAAACAAGCTTACGAGCTTGTAAAAT
1 TATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGAAAT
*
735053 TATAGTAAGTATAATGGTAAAATAAGCTTACGAGCTTATGAAAT
1 TATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGAAAT
* * * *
735097 TATAGTAAGTATATTGGTAAAATAAACTTACGAGCTTAGGGATT
1 TATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGAAAT
*
735141 TAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
1 T-ATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
735182 GATTAAATGG
Statistics
Matches: 157, Mismatches: 15, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
44 121 0.77
45 36 0.23
ACGTcount: A:0.40, C:0.07, G:0.19, T:0.33
Consensus pattern (44 bp):
TATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGAAAT
Found at i:748367 original size:12 final size:11
Alignment explanation
Indices: 748352--748415 Score: 64
Period size: 12 Copynumber: 5.9 Consensus size: 11
748342 TATTGTTGTT
748352 ATTATTATTAAA
1 ATTATTATT-AA
748364 ATTATTATT--
1 ATTATTATTAA
748373 ATTATTA-TAA
1 ATTATTATTAA
*
748383 A-TATTATTATT
1 ATTATTATTA-A
748394 ATTATTATTAA
1 ATTATTATTAA
748405 ATATATTATTA
1 AT-TATTATTA
748416 CAAGCCCAAG
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
8 1 0.02
9 12 0.27
10 3 0.07
11 3 0.07
12 25 0.57
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
ATTATTATTAA
Found at i:748373 original size:18 final size:18
Alignment explanation
Indices: 748350--748398 Score: 82
Period size: 18 Copynumber: 2.7 Consensus size: 18
748340 TCTATTGTTG
748350 TTATTATTATTA-AAATTA
1 TTATTATTATTATAAA-TA
748368 TTATTATTATTATAAATA
1 TTATTATTATTATAAATA
748386 TTATTATTATTAT
1 TTATTATTATTAT
748399 TATTAAATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
18 27 0.90
19 3 0.10
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTATTATTATTATAAATA
Found at i:748376 original size:21 final size:21
Alignment explanation
Indices: 748350--748415 Score: 100
Period size: 21 Copynumber: 3.1 Consensus size: 21
748340 TCTATTGTTG
748350 TTATTATTATTAAAATTATTA
1 TTATTATTATTAAAATTATTA
748371 TTATTATTA-TAAATATTATTA
1 TTATTATTATTAAA-ATTATTA
748392 TTATTATTATT-AAATATATTA
1 TTATTATTATTAAAAT-TATTA
748413 TTA
1 TTA
748416 CAAGCCCAAG
Statistics
Matches: 42, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.14
21 35 0.83
22 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
TTATTATTATTAAAATTATTA
Found at i:748415 original size:3 final size:3
Alignment explanation
Indices: 748350--748403 Score: 72
Period size: 3 Copynumber: 18.0 Consensus size: 3
748340 TCTATTGTTG
** * *
748350 TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA TAA ATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
748398 TTA TTA
1 TTA TTA
748404 AATATATTAT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:749839 original size:16 final size:16
Alignment explanation
Indices: 749818--749859 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
749808 TTACTTTTAA
749818 ATTTATTT-TAAATATT
1 ATTTATTTAT-AATATT
749834 ATTTATTTATAATATT
1 ATTTATTTATAATATT
749850 AATTT-TTTAT
1 -ATTTATTTAT
749860 TACTTTTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 19 0.79
17 5 0.21
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
ATTTATTTATAATATT
Found at i:749878 original size:17 final size:17
Alignment explanation
Indices: 749856--749889 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
749846 TATTAATTTT
749856 TTATTACTTTT-ATATTA
1 TTATTA-TTTTCATATTA
749873 TTATTATTTTCATATTA
1 TTATTATTTTCATATTA
749890 GTCACATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATTATTTTCATATTA
Found at i:749906 original size:2 final size:2
Alignment explanation
Indices: 749899--749924 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
749889 AGTCACATAA
749899 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
749925 TAAATAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:750048 original size:33 final size:33
Alignment explanation
Indices: 750011--750079 Score: 79
Period size: 33 Copynumber: 2.1 Consensus size: 33
750001 TTTTAAATAA
750011 TTAAA-TATTATAAAAATT-ATAATTTAGTTTTAT
1 TTAAATTATT-TAAAAATTAAT-ATTTAGTTTTAT
** *
750044 TTAAATTATTTAAATTTTAATATTTATTTTTAT
1 TTAAATTATTTAAAAATTAATATTTAGTTTTAT
750077 TTA
1 TTA
750080 TTAATATCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
33 25 0.81
34 6 0.19
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (33 bp):
TTAAATTATTTAAAAATTAATATTTAGTTTTAT
Found at i:750734 original size:11 final size:11
Alignment explanation
Indices: 750684--750726 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
750674 ATATACTTAT
750684 TATTTTTATAA
1 TATTTTTATAA
* *
750695 TATTTATATGTA
1 TATTTTTAT-AA
750707 TATTTTTATAA
1 TATTTTTATAA
750718 TATTTTTAT
1 TATTTTTAT
750727 TTTATTTTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 18 0.67
12 9 0.33
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (11 bp):
TATTTTTATAA
Found at i:753084 original size:7 final size:7
Alignment explanation
Indices: 753049--753089 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
753039 TTTTCATATA
753049 TGCATTT
1 TGCATTT
753056 T-CATTT
1 TGCATTT
753062 TGCATCTT
1 TGCAT-TT
753070 TGCATTT
1 TGCATTT
*
753077 TTCATTT
1 TGCATTT
753084 TGCATT
1 TGCATT
753090 CATACTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 6 0.20
7 17 0.57
8 7 0.23
ACGTcount: A:0.15, C:0.17, G:0.10, T:0.59
Consensus pattern (7 bp):
TGCATTT
Found at i:757492 original size:114 final size:114
Alignment explanation
Indices: 757292--757505 Score: 356
Period size: 114 Copynumber: 1.9 Consensus size: 114
757282 CTCGTAGCAT
* * *
757292 AAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATTTGATTTAGTATA
1 AAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATCTGATTCAGTAGA
*
757357 AACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTGCTCATAGTAG
66 AACCCCAAAACCAATCATTGGAATTGAAAGATGAATTTGCTCATAGTAG
* * *
757406 AAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTCAGTAGG
1 AAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATCTGATTCAGTAGA
*
757471 AACCCCAGAACCAATCATTGGAATTGAAAGATGAA
66 AACCCCAAAACCAATCATTGGAATTGAAAGATGAA
757506 ATGCATGATC
Statistics
Matches: 92, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
114 92 1.00
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.30
Consensus pattern (114 bp):
AAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATCTGATTCAGTAGA
AACCCCAAAACCAATCATTGGAATTGAAAGATGAATTTGCTCATAGTAG
Found at i:760117 original size:22 final size:22
Alignment explanation
Indices: 760088--760140 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
760078 ATCTACACTC
760088 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
760110 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
760132 TTCAAAGAT
1 TTCAAAGAT
760141 TAAAGCTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:760937 original size:167 final size:167
Alignment explanation
Indices: 760660--760986 Score: 541
Period size: 167 Copynumber: 2.0 Consensus size: 167
760650 AGAATGAGCA
*
760660 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTTCAAAAACATAATGAGAAAACGA
1 TTATCTTGAGATTGGGGCATGTTACCCAATCAACAGGTTATTT-AAAAACATAATGAGAAAACGA
* * * * *
760725 TTTCCATAGTTTCTCTTTTTTATCTTTTCTAAAATGAAATTGTTGAAAAGTAATAAAACGATTTT
65 TTTCCAAAGTTTCTCTATTTAATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTC
760790 CTTAGTTTTTTTTACTTAGTAAACTATTTCCAACAACC
130 CTTAGTTTTTTTTACTTAGTAAACTATTTCCAACAACC
* *
760828 TTATCTTGAGATTGGGGCATGTTACCCAATTAACAGGTTATCTT-GAAACATAATGAGAAAACGA
1 TTATCTTGAGATTGGGGCATGTTACCCAATCAACAGGTTAT-TTAAAAACATAATGAGAAAACGA
760892 TTTCCAAAGTTTCTC-ATTTAATCTTTTCTAAAAATGAAATTGTTGAAAAGTAAGAAAACGATTT
65 TTTCCAAAGTTTCTCTATTTAATCTTTTCT-AAAATGAAATTGTTGAAAAGTAAGAAAACGATTT
760956 CCTTAGTTTTTTTTACTTAGTAAACTATTTC
129 CCTTAGTTTTTTTTACTTAGTAAACTATTTC
760987 ACACATCTGT
Statistics
Matches: 149, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
166 12 0.08
167 96 0.64
168 39 0.26
169 2 0.01
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.39
Consensus pattern (167 bp):
TTATCTTGAGATTGGGGCATGTTACCCAATCAACAGGTTATTTAAAAACATAATGAGAAAACGAT
TTCCAAAGTTTCTCTATTTAATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTCC
TTAGTTTTTTTTACTTAGTAAACTATTTCCAACAACC
Found at i:761087 original size:75 final size:75
Alignment explanation
Indices: 760990--761169 Score: 324
Period size: 75 Copynumber: 2.4 Consensus size: 75
760980 CTATTTCACA
760990 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
761055 ACCTTAGAGT
66 ACCTTAGAGT
* *
761065 TATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
761130 ACCTTAGGGT
66 ACCTTAGAGT
*
761140 CATCTGTAAGTCCTTCAGTGCATGATGTTT
1 CATCTGTAAGTCCTACAGTGCATGATGTTT
761170 TTAAGACCTC
Statistics
Matches: 100, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
75 100 1.00
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.36
Consensus pattern (75 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
ACCTTAGAGT
Found at i:761345 original size:15 final size:15
Alignment explanation
Indices: 761325--761377 Score: 72
Period size: 15 Copynumber: 3.5 Consensus size: 15
761315 CCATTGTTGT
761325 TATTATTATTATAAA
1 TATTATTATTATAAA
* *
761340 TATTATTATTATTAT
1 TATTATTATTATAAA
761355 TATTATTATTA-AATA
1 TATTATTATTATAA-A
761370 TATTATTA
1 TATTATTA
761378 CAAGCCCAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
14 1 0.03
15 32 0.97
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TATTATTATTATAAA
Found at i:761373 original size:12 final size:13
Alignment explanation
Indices: 761328--761377 Score: 59
Period size: 12 Copynumber: 3.8 Consensus size: 13
761318 TTGTTGTTAT
761328 TATTATTA-TAAA
1 TATTATTATTAAA
*
761340 TATTATTATTATTAT
1 TATTATTATTA--AA
761355 TATTATTATTAAA
1 TATTATTATTAAA
761368 TA-TATTATTA
1 TATTATTATTA
761378 CAAGCCCAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
12 16 0.48
13 5 0.15
15 12 0.36
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
TATTATTATTAAA
Found at i:761377 original size:3 final size:3
Alignment explanation
Indices: 761324--761365 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
761314 TCCATTGTTG
* *
761324 TTA TTA TTA TTA TAA ATA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
761366 AATATATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:762802 original size:16 final size:16
Alignment explanation
Indices: 762781--762813 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
762771 TTACTTTTAA
762781 ATTTATTT-TAAATATT
1 ATTTATTTAT-AATATT
762797 ATTTATTTATAATATT
1 ATTTATTTATAATATT
762813 A
1 A
762814 ATTTGTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 15 0.94
17 1 0.06
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
ATTTATTTATAATATT
Found at i:762841 original size:17 final size:17
Alignment explanation
Indices: 762819--762852 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
762809 TATTAATTTG
762819 TTATTACTTTT-ATATTA
1 TTATTA-TTTTCATATTA
762836 TTATTATTTTCATATTA
1 TTATTATTTTCATATTA
762853 GTCACATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATTATTTTCATATTA
Found at i:762879 original size:2 final size:2
Alignment explanation
Indices: 762866--762911 Score: 65
Period size: 2 Copynumber: 23.0 Consensus size: 2
762856 ACATAAATAA
* * *
762866 AT AT AT AA AT AT AT AT AA AT AT AT AT AT AT AT TT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
762908 AT AT
1 AT AT
762912 TTTAAATAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:763047 original size:31 final size:33
Alignment explanation
Indices: 763006--763068 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
762996 ATAATTAAAT
763006 ATTATAAAAATTAT-A-ATTTAGTTTTATTTAA
1 ATTATAAAAATTATAATATTTAGTTTTATTTAA
* * *
763037 ATTATTAAAATTTTAATATTTATTTTTATTTA
1 ATTATAAAAATTATAATATTTAGTTTTATTTA
763069 TTAATATCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 12 0.44
32 1 0.04
33 14 0.52
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (33 bp):
ATTATAAAAATTATAATATTTAGTTTTATTTAA
Found at i:763794 original size:18 final size:16
Alignment explanation
Indices: 763762--763792 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
763752 TCAAGCTCGA
763762 CTCGAACTCAAAAAAG
1 CTCGAACTCAAAAAAG
763778 CTCGAACTCAAAAAA
1 CTCGAACTCAAAAAA
763793 AAAATCAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.26, G:0.10, T:0.13
Consensus pattern (16 bp):
CTCGAACTCAAAAAAG
Found at i:763856 original size:48 final size:49
Alignment explanation
Indices: 763775--763880 Score: 187
Period size: 48 Copynumber: 2.2 Consensus size: 49
763765 GAACTCAAAA
763775 AAGCTCGAACTCAAAAAAAAAATCAAGAGCTCGACCGAAGCTCGAGACTC
1 AAGCTCGAACTC-AAAAAAAAATCAAGAGCTCGACCGAAGCTCGAGACTC
*
763825 AAGCTCGAACTC-AAAAAAAATCAAGAGCTCGACCGAAGCTTGAGACTC
1 AAGCTCGAACTCAAAAAAAAATCAAGAGCTCGACCGAAGCTCGAGACTC
763873 AAGCTCGA
1 AAGCTCGA
763881 TTGAAACTCG
Statistics
Matches: 55, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
48 43 0.78
50 12 0.22
ACGTcount: A:0.42, C:0.25, G:0.19, T:0.13
Consensus pattern (49 bp):
AAGCTCGAACTCAAAAAAAAATCAAGAGCTCGACCGAAGCTCGAGACTC
Found at i:763910 original size:34 final size:33
Alignment explanation
Indices: 763871--763948 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 33
763861 AGCTTGAGAC
**
763871 TCAAGCTCGA-TTGAAACTCGATTTTGAGCTCGTT
1 TCAAGCTCGATTTG-AACTCGA-TTCAAGCTCGTT
*
763905 TCAAGCTCGAATTTGAGCTCGATTCAAGCTCGTT
1 TCAAGCTCG-ATTTGAACTCGATTCAAGCTCGTT
*
763939 TGAAGCTCGA
1 TCAAGCTCGA
763949 AGACAGGTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
33 1 0.03
34 27 0.71
35 7 0.18
36 3 0.08
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (33 bp):
TCAAGCTCGATTTGAACTCGATTCAAGCTCGTT
Found at i:763911 original size:11 final size:11
Alignment explanation
Indices: 763897--763947 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
763887 CTCGATTTTG
763897 AGCTCGTTTCA
1 AGCTCGTTTCA
*
763908 AGCTCGAATTT-G
1 AGCTCG--TTTCA
*
763920 AGCTCGATTCA
1 AGCTCGTTTCA
*
763931 AGCTCGTTTGA
1 AGCTCGTTTCA
763942 AGCTCG
1 AGCTCG
763948 AAGACAGGTT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
10 2 0.06
11 21 0.66
12 6 0.19
13 3 0.09
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.31
Consensus pattern (11 bp):
AGCTCGTTTCA
Found at i:763913 original size:23 final size:23
Alignment explanation
Indices: 763874--763948 Score: 91
Period size: 23 Copynumber: 3.3 Consensus size: 23
763864 TTGAGACTCA
* * *
763874 AGCTCGATTGAAACTCGATTTTG
1 AGCTCGATTCAAGCTCGAATTTG
*
763897 AGCTCGTTTCAAGCTCGAATTTG
1 AGCTCGATTCAAGCTCGAATTTG
763920 AGCTCGATTCAAGCTCG--TTTG
1 AGCTCGATTCAAGCTCGAATTTG
763941 AAGCTCGA
1 -AGCTCGA
763949 AGACAGGTTA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
21 4 0.09
22 7 0.15
23 35 0.76
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (23 bp):
AGCTCGATTCAAGCTCGAATTTG
Found at i:766101 original size:11 final size:11
Alignment explanation
Indices: 766085--766147 Score: 60
Period size: 11 Copynumber: 5.9 Consensus size: 11
766075 GTATTATAGA
766085 ATTTTTAATAT
1 ATTTTTAATAT
766096 ATTTTTAA-AT
1 ATTTTTAATAT
766106 -TTTTATAAT-T
1 ATTTT-TAATAT
*** *
766116 ATCAATAGTAT
1 ATTTTTAATAT
766127 ATTTTTAATAT
1 ATTTTTAATAT
766138 ATTTTTAATA
1 ATTTTTAATA
766148 ATGTAATTTT
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
9 4 0.10
10 9 0.22
11 27 0.68
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (11 bp):
ATTTTTAATAT
Found at i:767747 original size:18 final size:19
Alignment explanation
Indices: 767707--767747 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
767697 TAATATTTTG
767707 TTTTAAATTTATTTAAGTA
1 TTTTAAATTTATTTAAGTA
*
767726 -TTTAAATTTTTTTAA-TA
1 TTTTAAATTTATTTAAGTA
767743 TTTTA
1 TTTTA
767748 TTTAATTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (19 bp):
TTTTAAATTTATTTAAGTA
Found at i:770141 original size:35 final size:32
Alignment explanation
Indices: 770106--770186 Score: 83
Period size: 35 Copynumber: 2.3 Consensus size: 32
770096 TTTGGTTAAT
770106 TTTGTT-TATTACCATTTAATATCAGTTATTGTAA
1 TTTGTTATATTACCATTTAATA-C--TTATTGTAA
770140 TTTGTTTATCATTTACCATTTAATACTTATTGTAA
1 TTTG-TTAT-A-TTACCATTTAATACTTATTGTAA
*
770175 GTTTGTTGTATT
1 -TTTGTTATATT
770187 TAAAATTATA
Statistics
Matches: 41, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
33 2 0.05
34 5 0.12
35 14 0.34
36 5 0.12
37 2 0.05
38 13 0.32
ACGTcount: A:0.26, C:0.09, G:0.10, T:0.56
Consensus pattern (32 bp):
TTTGTTATATTACCATTTAATACTTATTGTAA
Found at i:779917 original size:31 final size:32
Alignment explanation
Indices: 779861--779922 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
779851 ATGCACCATC
779861 AGAAAAAAAGGAAAAAAAATAGTTCG-AAAAG
1 AGAAAAAAAGGAAAAAAAATAGTTCGCAAAAG
779892 AGAAAAAAA-G-AAAAAAATGATGTTCGCAAAA
1 AGAAAAAAAGGAAAAAAAAT-A-GTTCGCAAAA
779923 AAAAACATGG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
29 8 0.29
30 2 0.07
31 14 0.50
32 4 0.14
ACGTcount: A:0.66, C:0.05, G:0.18, T:0.11
Consensus pattern (32 bp):
AGAAAAAAAGGAAAAAAAATAGTTCGCAAAAG
Found at i:785556 original size:32 final size:32
Alignment explanation
Indices: 785515--785588 Score: 121
Period size: 32 Copynumber: 2.3 Consensus size: 32
785505 GAGTCGAGGG
* * *
785515 TTACCTATGTCCTTCGGGACATATGGACATGA
1 TTACCTATGTCCTTCAGAACATATGGACAGGA
785547 TTACCTATGTCCTTCAGAACATATGGACAGGA
1 TTACCTATGTCCTTCAGAACATATGGACAGGA
785579 TTACCTATGT
1 TTACCTATGT
785589 ATGGACAGGT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (32 bp):
TTACCTATGTCCTTCAGAACATATGGACAGGA
Found at i:787715 original size:15 final size:16
Alignment explanation
Indices: 787688--787758 Score: 60
Period size: 15 Copynumber: 4.6 Consensus size: 16
787678 ATTACTTTAG
*
787688 TTAATATAT-ATATTT
1 TTAATATTTAATATTT
787703 TTAAT-TTTAATATTT
1 TTAATATTTAATATTT
787718 TTAATATTT-AT-TTT
1 TTAATATTTAATATTT
* *
787732 TCTGTATATTTTATATTT
1 T-T-AATATTTAATATTT
*
787750 TAAATATTT
1 TTAATATTT
787759 TTCTAAAAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
14 6 0.13
15 19 0.41
16 15 0.33
17 2 0.04
18 4 0.09
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (16 bp):
TTAATATTTAATATTT
Found at i:787759 original size:16 final size:16
Alignment explanation
Indices: 787696--787759 Score: 62
Period size: 15 Copynumber: 4.1 Consensus size: 16
787686 AGTTAATATA
787696 TATATTTTTAAT-TTT
1 TATATTTTTAATATTT
*
787711 AATATTTTTAATA-TT
1 TATATTTTTAATATTT
*
787726 TAT-TTTTCTGTATATTT
1 TATATTTT-T-AATATTT
*
787743 TATATTTTAAATATTT
1 TATATTTTTAATATTT
787759 T
1 T
787760 TCTAAAAATT
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
14 4 0.10
15 16 0.41
16 10 0.26
17 5 0.13
18 4 0.10
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (16 bp):
TATATTTTTAATATTT
Found at i:788190 original size:21 final size:21
Alignment explanation
Indices: 788164--788205 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
788154 AAAACACTTC
788164 AAATCCCTAAA-CTCAACCTTA
1 AAATCCCTAAACCT-AACCTTA
*
788185 AAATCCTTAAACCTAACCTTA
1 AAATCCCTAAACCTAACCTTA
788206 CCATCTTCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.43, C:0.31, G:0.00, T:0.26
Consensus pattern (21 bp):
AAATCCCTAAACCTAACCTTA
Found at i:788508 original size:20 final size:18
Alignment explanation
Indices: 788461--788510 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
788451 ATTAGATTTT
*
788461 TTTTAAGATTTTAAAAAA
1 TTTTAAGTTTTTAAAAAA
**
788479 TTTTGGGTTTTTAAATATAA
1 TTTTAAGTTTTTAAA-A-AA
788499 TTTTAAGTTTTT
1 TTTTAAGTTTTT
788511 TTTTAATAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
18 12 0.48
19 1 0.04
20 12 0.48
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (18 bp):
TTTTAAGTTTTTAAAAAA
Found at i:797220 original size:25 final size:26
Alignment explanation
Indices: 797181--797229 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
797171 ATTTTTGTTT
797181 AAAAATATTTGAAAATTTGAAAATTA
1 AAAAATATTTGAAAATTTGAAAATTA
*
797207 AAAAATATTT-AAAATTTTAAAAT
1 AAAAATATTTGAAAATTTGAAAAT
797230 AATATATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (26 bp):
AAAAATATTTGAAAATTTGAAAATTA
Found at i:797246 original size:20 final size:18
Alignment explanation
Indices: 797200--797247 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 18
797190 TGAAAATTTG
*
797200 AAAATTAAAAAATATTTA
1 AAAATTAAAAAATATATA
*
797218 AAATTTTAAAATAATATATA
1 AAA-ATTAAAA-AATATATA
797238 AAAAGTTAAA
1 AAAA-TTAAA
797248 CTTTAAAGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 3 0.12
19 6 0.25
20 15 0.62
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (18 bp):
AAAATTAAAAAATATATA
Found at i:797627 original size:21 final size:21
Alignment explanation
Indices: 797585--797637 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
797575 ATTCTGACTA
797585 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* *
797606 TCGCGTTGCGATTAT-CCTAAT
1 TCGCATTGCGATT-TCCCAAAT
*
797627 TCGCAATGCGA
1 TCGCATTGCGA
797638 ATACGTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 26 0.96
22 1 0.04
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:797652 original size:20 final size:20
Alignment explanation
Indices: 797627--797720 Score: 143
Period size: 20 Copynumber: 4.7 Consensus size: 20
797617 TTATCCTAAT
797627 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
797647 TCGCAACGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
797667 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAA-TACGTAAA
797688 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
797708 TCGCAATGCGAAT
1 TCGCAATGCGAAT
797721 CTGACTATCG
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
20 47 0.72
21 18 0.28
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.20
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:797658 original size:41 final size:40
Alignment explanation
Indices: 797613--797720 Score: 144
Period size: 41 Copynumber: 2.6 Consensus size: 40
797603 AATTCGCGTT
* * *
797613 GCGATTATCCTAATTCGCAATGCGAATACGTAAATCGCAAC
1 GCGATTA-CGTAAATCGCAATGCGAATACGAAAATCGCAAC
* *
797654 GCGATTACGTAAATCGCAATGCGAATTAGGAAAATCGCAAT
1 GCGATTACGTAAATCGCAATGCGAA-TACGAAAATCGCAAC
*
797695 GCGAATACGTAAATCGCAATGCGAAT
1 GCGATTACGTAAATCGCAATGCGAAT
797721 CTGACTATCG
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
40 17 0.28
41 43 0.72
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.22
Consensus pattern (40 bp):
GCGATTACGTAAATCGCAATGCGAATACGAAAATCGCAAC
Found at i:798336 original size:19 final size:20
Alignment explanation
Indices: 798295--798339 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
798285 GAGAATGACT
**
798295 ATCGCAACGCGAAAATGAAA
1 ATCGCAACGCGAAAACCAAA
798315 ATCGCAACGCG-AAACCAAA
1 ATCGCAACGCGAAAACCAAA
798334 ATCGCA
1 ATCGCA
798340 TTGCGATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.47, C:0.27, G:0.18, T:0.09
Consensus pattern (20 bp):
ATCGCAACGCGAAAACCAAA
Done.