Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007925.1 Hibiscus syriacus cultivar Beakdansim tig00110331_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: 1316088
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 7
Found at i:585783 original size:25 final size:25
Alignment explanation
Indices: 585755--585881 Score: 157
Period size: 25 Copynumber: 5.4 Consensus size: 25
585745 CAAAAGATGT
585755 ATACCTAAATATGTAGTTATTGTAC
1 ATACCTAAATATGTAGTTATTGTAC
585780 ATACCTAAATATGTAGTTATTGTAC
1 ATACCTAAATATGTAGTTATTGTAC
585805 ATACCTAAAT-T-TA---A-TGATA-
1 ATACCTAAATATGTAGTTATTG-TAC
*
585824 ATA--TATACT-TGTAGTTATTGTAC
1 ATACCTA-AATATGTAGTTATTGTAC
585847 ATACCTAAATATGTAGTTATTGTAC
1 ATACCTAAATATGTAGTTATTGTAC
585872 ATACCTAAAT
1 ATACCTAAAT
585882 TTAATGATAA
Statistics
Matches: 89, Mismatches: 2, Indels: 22
0.79 0.02 0.19
Matches are distributed among these distances:
17 2 0.02
18 3 0.03
19 7 0.08
20 3 0.03
22 3 0.03
23 7 0.08
24 3 0.03
25 61 0.69
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (25 bp):
ATACCTAAATATGTAGTTATTGTAC
Found at i:585849 original size:67 final size:67
Alignment explanation
Indices: 585766--585928 Score: 326
Period size: 67 Copynumber: 2.4 Consensus size: 67
585756 TACCTAAATA
585766 TGTAGTTATTGTACATACCTAAATATGTAGTTATTGTACATACCTAAATTTAATGATAATATATA
1 TGTAGTTATTGTACATACCTAAATATGTAGTTATTGTACATACCTAAATTTAATGATAATATATA
585831 CT
66 CT
585833 TGTAGTTATTGTACATACCTAAATATGTAGTTATTGTACATACCTAAATTTAATGATAATATATA
1 TGTAGTTATTGTACATACCTAAATATGTAGTTATTGTACATACCTAAATTTAATGATAATATATA
585898 CT
66 CT
585900 TGTAGTTATTGTACATACCTAAATATGTA
1 TGTAGTTATTGTACATACCTAAATATGTA
585929 CTGCGAATTT
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 96 1.00
ACGTcount: A:0.37, C:0.10, G:0.11, T:0.42
Consensus pattern (67 bp):
TGTAGTTATTGTACATACCTAAATATGTAGTTATTGTACATACCTAAATTTAATGATAATATATA
CT
Found at i:586585 original size:16 final size:17
Alignment explanation
Indices: 586564--586597 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
586554 CACAAGTATG
586564 AACTA-TTAACGCAGCA
1 AACTATTTAACGCAGCA
586580 AACTATTTAACGCAGCA
1 AACTATTTAACGCAGCA
586597 A
1 A
586598 GCAGGGGGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.44, C:0.24, G:0.12, T:0.21
Consensus pattern (17 bp):
AACTATTTAACGCAGCA
Found at i:588801 original size:182 final size:182
Alignment explanation
Indices: 588329--588995 Score: 1127
Period size: 181 Copynumber: 3.7 Consensus size: 182
588319 CTTAAATTAC
588329 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
*
588394 ATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTCTATTTAAACCGG-T
66 ATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTCTATTTATACCGGTT
588458 -TATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAATGT
131 ATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAATGT
588509 CGACACTTTTTTAAATGGTATCGACACATTTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
1 CGACACTTTTTTAAATGGTATCGACACA-TTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
* *
588574 TATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACTGGTCTATTGATACCGGT
65 TATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTCTATTTATACCGGT
*
588639 TATATTACAAAATTATCTATTACATTATAAATCTAGGTTCCGATGTGTAAATGT
130 TATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGT-AATGT
*
588693 CGACACTTTTTTAAATGGTATCGACACATTTTT-TTTCAATCTGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
* *
588757 ATTAGAAAGTATCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
66 ATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTCTATTTATACCGGTT
* *
588822 ATATTAC-AAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAATGT
131 ATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAATGT
*
588873 CGACAC-TTTTGACAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
1 CGACACTTTTTTA-AATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
* * *
588936 TATTA-AAAGTGTCGATATAGGTTGTAGACCTATTCGCGCAT-AAATCGGTATATTT-TACCG
65 TATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTCTATTTATACCG
588996 ATAGCATTGC
Statistics
Matches: 464, Mismatches: 17, Indels: 15
0.94 0.03 0.03
Matches are distributed among these distances:
177 5 0.01
178 13 0.03
179 55 0.12
180 76 0.16
181 133 0.29
182 99 0.21
183 50 0.11
184 33 0.07
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.35
Consensus pattern (182 bp):
CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
ATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTCTATTTATACCGGTT
ATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAATGT
Found at i:589422 original size:22 final size:23
Alignment explanation
Indices: 589373--589435 Score: 92
Period size: 22 Copynumber: 2.8 Consensus size: 23
589363 ACAATAACCA
589373 CTACCTATTACATTATATAAACG
1 CTACCTATTACATTATATAAACG
* *
589396 ATACCTATTACATT-TATAAGCG
1 CTACCTATTACATTATATAAACG
*
589418 CTACCTATTACATCATAT
1 CTACCTATTACATTATAT
589436 TTTTACCTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 19 0.54
23 16 0.46
ACGTcount: A:0.37, C:0.22, G:0.05, T:0.37
Consensus pattern (23 bp):
CTACCTATTACATTATATAAACG
Found at i:589815 original size:16 final size:16
Alignment explanation
Indices: 589790--589823 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
589780 GTCTATTACA
*
589790 TTTTTCAATCGACACT
1 TTTTTAAATCGACACT
589806 TTTTTAAATCGACACT
1 TTTTTAAATCGACACT
589822 TT
1 TT
589824 GTTGTGGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.26, C:0.21, G:0.06, T:0.47
Consensus pattern (16 bp):
TTTTTAAATCGACACT
Found at i:590853 original size:3 final size:3
Alignment explanation
Indices: 590845--590910 Score: 60
Period size: 3 Copynumber: 22.0 Consensus size: 3
590835 ACTTGTTTGG
* * * * * *
590845 ATC ATC ATC TTC ATC ATC ATC ATC TTC ATC GTC AGC TTC ATC GTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* *
590893 ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC
590911 GTCAGCTTCA
Statistics
Matches: 47, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.23, C:0.33, G:0.06, T:0.38
Consensus pattern (3 bp):
ATC
Found at i:590862 original size:12 final size:12
Alignment explanation
Indices: 590858--590927 Score: 95
Period size: 12 Copynumber: 5.8 Consensus size: 12
590848 ATCATCTTCA
*
590858 TCATCATCATCT
1 TCATCGTCATCT
*
590870 TCATCGTCAGCT
1 TCATCGTCATCT
*
590882 TCATCGTCATCA
1 TCATCGTCATCT
590894 TCATCGTCATCT
1 TCATCGTCATCT
*
590906 TCATCGTCAGCT
1 TCATCGTCATCT
*
590918 TCATCTTCAT
1 TCATCGTCAT
590928 TGACCGCTTG
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 50 1.00
ACGTcount: A:0.20, C:0.33, G:0.09, T:0.39
Consensus pattern (12 bp):
TCATCGTCATCT
Found at i:590895 original size:36 final size:36
Alignment explanation
Indices: 590846--590927 Score: 128
Period size: 36 Copynumber: 2.3 Consensus size: 36
590836 CTTGTTTGGA
*
590846 TCATCATCTTCATCATCATCATCTTCATCGTCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGTCAGCT
* *
590882 TCATCGTCATCATCATCGTCATCTTCATCGTCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGTCAGCT
*
590918 TCATCTTCAT
1 TCATCATCAT
590928 TGACCGCTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.21, C:0.33, G:0.07, T:0.39
Consensus pattern (36 bp):
TCATCATCATCATCATCATCATCTTCATCGTCAGCT
Found at i:590925 original size:6 final size:6
Alignment explanation
Indices: 590858--590927 Score: 68
Period size: 6 Copynumber: 11.7 Consensus size: 6
590848 ATCATCTTCA
* * * * * *
590858 TCATCA TCATCT TCATCG TCAGCT TCATCG TCATCA TCATCG TCATCT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
* *
590906 TCATCG TCAGCT TCATCT TCAT
1 TCATCT TCATCT TCATCT TCAT
590928 TGACCGCTTG
Statistics
Matches: 51, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 51 1.00
ACGTcount: A:0.20, C:0.33, G:0.09, T:0.39
Consensus pattern (6 bp):
TCATCT
Found at i:593178 original size:196 final size:199
Alignment explanation
Indices: 592367--593522 Score: 1902
Period size: 197 Copynumber: 5.9 Consensus size: 199
592357 TTTAAATTAG
*
592367 TATCGACACAAACTAAAAAAGTGTCGACACGTTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
592432 CTTGTA-CGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTCGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
592496 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
592561 AAAA
196 AAAA
*
592565 TATCGACACAAACTAAACAAGTGTCGACAC-TTA-TTAGAC--ATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
592626 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATATTTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
* * *
592691 CGACACTTTTTATATATGGATCGACACTTTATGGTTGTAGCCTGTTTGCCATTCATTCTGG-ACA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAAC-
592755 AAAAA
195 AAAAA
* * *
592760 TATCGACACAAACTAAAAACGTGTCGACACATTATTTAGACCTATTATCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* * *
592825 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTTGATG-TTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGTTTTTGGGA
* * * *
592889 TCGACAC-TTTT-TATATGGATCGACACTTTACGGTTGCACCCTGTTTGCCATTAATTATGG-AC
130 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAAC
592951 TAAAAA
195 -AAAAA
*
592957 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTAATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
593022 CTTGTACCGGTTAGATTG-AAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
593086 CGACACTTTTTAT-TATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAAC-
131 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
593149 AAAA
196 AAAA
593153 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
593218 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGTTTTTGGGA
* *
593283 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTAGACC
130 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAAC
593348 AAAAA
195 AAAAA
*
593353 TATGGACACAAACT-AAAAAGTGTCGACACATTATTTAGACATA-T-TCTC-TAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* *
593414 CTTGTACCGGTTAGATTGAAAAA-TATATATTACATTATACTTTTGGGTTTCGATGTTTTTAGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGG-TTCGATGTTTTTGGGA
*
593478 TCGACAC-TTTTATATATGGTTCGACACTTTATGGTTGCA-CCTGTT
130 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
593523 GGCCATATTG
Statistics
Matches: 903, Mismatches: 39, Indels: 37
0.92 0.04 0.04
Matches are distributed among these distances:
193 6 0.01
194 61 0.07
195 197 0.22
196 174 0.19
197 217 0.24
198 67 0.07
199 159 0.18
200 22 0.02
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.36
Consensus pattern (199 bp):
TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
AAAA
Found at i:593265 original size:393 final size:395
Alignment explanation
Indices: 592367--593528 Score: 1922
Period size: 393 Copynumber: 3.0 Consensus size: 395
592357 TTTAAATTAG
*
592367 TATCGACACAAACTAAAAAAGTGTCGACACGTTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* *
592432 CTTGTA-CGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGTTTTTCGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
592495 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAAC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGG-AC
*
592560 AAAAATATCGACACAAACTAAACAAGTGTCGACAC-TTA-TTAGAC--ATTCTCTCATAAAACCG
195 AAAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCT-ATAAAACCG
*
592621 GTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATATTTTT
259 GTATACTTGTACCGGTTAGATTG-AAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTT
*
592686 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGTAGCCTGTTTGCCATTCATTCTG
323 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCA-CCTGTTTGCCATTCATTCTG
592751 GACAAAAAA
387 GACAAAAAA
* * *
592760 TATCGACACAAACTAAAAACGTGTCGACACATTATTTAGACCTATTATCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* *
592825 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTTGATG-TTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
* * * *
592889 TCGACAC-TTTT-TATATGGATCGACACTTTACGGTTGCACCCTGTTTGCCATTAATTATGGACT
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAC-
592952 AAAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTAATAAAACCG
195 AAAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCT-ATAAAACCG
593017 GTATACTTGTACCGGTTAGATTGAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTG
259 GTATACTTGTACCGGTTAGATTGAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTG
*
593082 GGATCGACACTTTTTAT-TATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGG
324 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCA-CCTGTTTGCCATTCATTCTGG
*
593146 A-ACAAAA
388 ACAAAAAA
593153 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
593218 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
*
593283 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTAGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGA-C
*
593348 AAAAATATGGACACAAACT-AAAAAGTGTCGACACATTATTTAGACATATTCTC--TAAAACCGG
195 AAAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTATAAAACCGG
* * *
593410 TATACTTGTACCGGTTAGATTGAAAAATATATATTACATTATACTTTTGGGTTTCGATGTTTTTA
260 TATACTTGTACCGGTTAGATTGAAAATTACATATTACATTATACTTTTGGG-TTCGATGTTTTTG
* *
593475 GGATCGACAC-TTTTATATATGGTTCGACACTTTATGGTTGCACCTGTTGGCCAT
324 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCTGTTTGCCAT
593529 ATTGTAAATT
Statistics
Matches: 720, Mismatches: 36, Indels: 27
0.92 0.05 0.03
Matches are distributed among these distances:
391 2 0.00
392 153 0.21
393 240 0.33
394 120 0.17
395 102 0.14
396 102 0.14
397 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.36
Consensus pattern (395 bp):
TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACA
AAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTATAAAACCGGT
ATACTTGTACCGGTTAGATTGAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGG
ATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCTGTTTGCCATTCATTCTGGACA
AAAAA
Found at i:593661 original size:18 final size:19
Alignment explanation
Indices: 593638--593681 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
593628 TTTTATTCAC
593638 ATACAAAA-TATAAATCGT
1 ATACAAAATTATAAATCGT
*
593656 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
593675 ATACAAA
1 ATACAAA
593682 TTAACCTACA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.30
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:594272 original size:4 final size:4
Alignment explanation
Indices: 594263--594303 Score: 82
Period size: 4 Copynumber: 10.2 Consensus size: 4
594253 AATGTCCTTT
594263 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA C
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA C
594304 CAATCTCTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (4 bp):
CATA
Found at i:595522 original size:33 final size:33
Alignment explanation
Indices: 595485--595550 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
595475 CATCTTAATA
*
595485 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
595518 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
595551 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:597812 original size:20 final size:20
Alignment explanation
Indices: 597789--597835 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
597779 ATTTTACCGA
597789 TTTTATCAT-TTTGATACCTG
1 TTTTATCATATTT-ATACCTG
*
597809 TTTTATCATATTTTTACCTG
1 TTTTATCATATTTATACCTG
*
597829 TTATATC
1 TTTTATC
597836 GTTGTGGATC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 21 0.88
21 3 0.12
ACGTcount: A:0.21, C:0.15, G:0.06, T:0.57
Consensus pattern (20 bp):
TTTTATCATATTTATACCTG
Found at i:598005 original size:19 final size:20
Alignment explanation
Indices: 597961--598006 Score: 60
Period size: 19 Copynumber: 2.3 Consensus size: 20
597951 TCCGGTAACG
597961 TTTACCGGTTTTAATCATTT
1 TTTACCGGTTTTAATCATTT
597981 TGTTACC-GTTTT-ATCATATT
1 T-TTACCGGTTTTAATCAT-TT
598001 TTTACC
1 TTTACC
598007 TGATATTCGT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 10 0.42
20 9 0.38
21 5 0.21
ACGTcount: A:0.20, C:0.17, G:0.09, T:0.54
Consensus pattern (20 bp):
TTTACCGGTTTTAATCATTT
Found at i:598049 original size:179 final size:178
Alignment explanation
Indices: 597749--598214 Score: 582
Period size: 179 Copynumber: 2.6 Consensus size: 178
597739 CGTACTTACG
* * * * * *
597749 AAAGTATAGACACTTTC-A-ATATCCGGTATCATTTTACCGATTTTATCATTTTGATACCTGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAAC-GTTTACCGGTTTTATCATTTTGTTACCGGTTT
* * *
597812 TATCATATTTTTACCTGTTATATCGTTGTGGATCGATATATTTTTTTAAAGTATCGACACATTAT
65 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
* *
597877 AGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTTGATCCTTATAT
130 AGGAGCTAAAA-TGCTTCTCTTTTAAATTCACAAAGTGTCG-TCCTTATAT
*
597928 AAAGTATCGACACGTTCAATATATCCGGTAACGTTTACCGGTTTTAATCATTTTGTTACC-GTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTACCGGTTTT-ATCATTTTGTTACCGGTTT
* *
597992 TATCATATTTTTACCTGATAT-TCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTAT
65 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
** *
598056 AGGATTTAAAATGCTTCTCTTTTAAATTCACGAAGTGTCGTCCTTATAT
130 AGGAGCTAAAATGCTTCTCTTTTAAATTCACAAAGTGTCGTCCTTATAT
* * * * * * * * *
598105 TAAGTACCGACACTTTAAATGTATCTGATAGCGCTTTACCGGTTTTATCATTTCTATAACCGGTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACG-TTTACCGGTTTTATCATTT-TGTTACCGGTT
* * *
598170 TTGTCATAGTTTTACCTGTTATATCG-TTTGGATCGACACATTTTT
64 TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTT
598215 AATTTGGATC
Statistics
Matches: 250, Mismatches: 30, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
177 41 0.16
178 44 0.18
179 102 0.41
180 39 0.16
181 24 0.10
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.43
Consensus pattern (178 bp):
AAAGTATCGACACTTTCAATATATCCGGTAACGTTTACCGGTTTTATCATTTTGTTACCGGTTTT
ATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTATA
GGAGCTAAAATGCTTCTCTTTTAAATTCACAAAGTGTCGTCCTTATAT
Found at i:598738 original size:225 final size:226
Alignment explanation
Indices: 598281--598769 Score: 901
Period size: 225 Copynumber: 2.2 Consensus size: 226
598271 ACCTACTTTT
598281 ATAAGTATGGACACTTTTATAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAA
1 ATAAGTATGGACACTTTTATAAAATGATATATAC-TTTTTTAAAGTTATGTAATTTATGTTTCAA
598346 TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAA
65 TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAA
598411 AATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCA
130 AATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCA
* *
598476 AATATAATAATAAATATGTTTTCCACAGTGAA
195 AAGATAATAATAAATATATTTTCCACAGTGAA
598508 ATAAGTATGGACACTTTTATAAAATGATATATACTTTTTTAAAGTTATGTAATTTATGTTTCAA-
1 ATAAGTATGGACACTTTTATAAAATGATATATACTTTTTTAAAGTTATGTAATTTATGTTTCAAT
598572 TTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAA
66 TTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAA
*
598637 ATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCA
131 ATTATTTGATT-ATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCA
598702 AAGATAATAATAAATATATTTT-CACAGTGAA
195 AAGATAATAATAAATATATTTTCCACAGTGAA
* *
598733 ATAAGTATGGACACTTTTATAAAAGGATAGATACTTT
1 ATAAGTATGGACACTTTTATAAAATGATATATACTTT
598770 ACAATATAAC
Statistics
Matches: 256, Mismatches: 5, Indels: 4
0.97 0.02 0.02
Matches are distributed among these distances:
225 120 0.47
226 102 0.40
227 34 0.13
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.44
Consensus pattern (226 bp):
ATAAGTATGGACACTTTTATAAAATGATATATACTTTTTTAAAGTTATGTAATTTATGTTTCAAT
TTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAA
ATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAA
AGATAATAATAAATATATTTTCCACAGTGAA
Found at i:602039 original size:13 final size:13
Alignment explanation
Indices: 602021--602047 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
602011 TCCAGCACAA
602021 TTTAAAATTTAAT
1 TTTAAAATTTAAT
602034 TTTAAAATTTAAT
1 TTTAAAATTTAAT
602047 T
1 T
602048 ATATATATAT
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTAAAATTTAAT
Found at i:608741 original size:31 final size:31
Alignment explanation
Indices: 608706--608766 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
608696 TCGCGAGCCT
* *
608706 AAAATTTTCAAGCTCGACTCAAACTCGAAAG
1 AAAATATTCAAACTCGACTCAAACTCGAAAG
*
608737 AAAATATTGAAACTCGACTCAAACTCGAAA
1 AAAATATTCAAACTCGACTCAAACTCGAAA
608767 AGGCTCGAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.46, C:0.21, G:0.11, T:0.21
Consensus pattern (31 bp):
AAAATATTCAAACTCGACTCAAACTCGAAAG
Found at i:608853 original size:23 final size:23
Alignment explanation
Indices: 608795--608869 Score: 80
Period size: 23 Copynumber: 3.2 Consensus size: 23
608785 AATTCAAGAG
* * *
608795 CTCGATTGAAGCTCGAGACTCGAG
1 CTCGATTCAAGCTCGA-ACTTGAA
* *
608819 CTCGATTGAAGCTC-AATTTTGAA
1 CTCGATTCAAGCTCGAA-CTTGAA
608842 CTCGATTCAAGCTCGAACTTGAA
1 CTCGATTCAAGCTCGAACTTGAA
608865 CTCGA
1 CTCGA
608870 ATTTGAGCTC
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
22 1 0.02
23 27 0.61
24 16 0.36
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (23 bp):
CTCGATTCAAGCTCGAACTTGAA
Found at i:608882 original size:35 final size:35
Alignment explanation
Indices: 608836--608913 Score: 129
Period size: 35 Copynumber: 2.2 Consensus size: 35
608826 GAAGCTCAAT
**
608836 TTTGAACTCGATTCAAGCTCGAACTTGAACTCGAA
1 TTTGAACTCGATTCAAGCTCGAACTCAAACTCGAA
*
608871 TTTGAGCTCGATTCAAGCTCGAACTCAAACTCGAA
1 TTTGAACTCGATTCAAGCTCGAACTCAAACTCGAA
608906 TTTGAACT
1 TTTGAACT
608914 TACAAAAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (35 bp):
TTTGAACTCGATTCAAGCTCGAACTCAAACTCGAA
Found at i:608891 original size:11 final size:11
Alignment explanation
Indices: 608793--608892 Score: 55
Period size: 11 Copynumber: 8.6 Consensus size: 11
608783 AAAATTCAAG
608793 AGCTCGATTGA
1 AGCTCGATTGA
*
608804 AGCTCGAGACTCG-
1 AGCTC--GA-TTGA
608817 AGCTCGATTGA
1 AGCTCGATTGA
*
608828 AGCTCAATTTTGA
1 AGCTCGA--TTGA
*
608841 A-CTCGATTCA
1 AGCTCGATTGA
608851 AGCTCGAACTTGA
1 AGCTCG-A-TTGA
608864 A-CTCGAATTTG-
1 AGCTCG-A-TTGA
*
608875 AGCTCGATTCA
1 AGCTCGATTGA
608886 AGCTCGA
1 AGCTCGA
608893 ACTCAAACTC
Statistics
Matches: 70, Mismatches: 8, Indels: 22
0.70 0.08 0.22
Matches are distributed among these distances:
10 8 0.11
11 26 0.37
12 18 0.26
13 16 0.23
14 2 0.03
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (11 bp):
AGCTCGATTGA
Found at i:609158 original size:16 final size:16
Alignment explanation
Indices: 609127--609158 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
609117 ATTGAAACTC
*
609127 GACTCGAACTCGAAAA
1 GACTCGAACTCAAAAA
609143 GACTCGAACTCAAAAA
1 GACTCGAACTCAAAAA
609159 TATTTCAAGA
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:0.47, C:0.25, G:0.16, T:0.12
Consensus pattern (16 bp):
GACTCGAACTCAAAAA
Found at i:609182 original size:11 final size:11
Alignment explanation
Indices: 609168--609219 Score: 52
Period size: 11 Copynumber: 4.5 Consensus size: 11
609158 ATATTTCAAG
*
609168 AGCTCGATTAA
1 AGCTCGATTCA
609179 AGCTCAAGACTT-A
1 AGCTC--GA-TTCA
609192 AGCTCGATTCA
1 AGCTCGATTCA
*
609203 AGCTTGATTCA
1 AGCTCGATTCA
609214 AGCTCG
1 AGCTCG
609220 GCTGTTTGCC
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
10 2 0.06
11 23 0.66
13 8 0.23
14 2 0.06
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (11 bp):
AGCTCGATTCA
Found at i:609460 original size:2 final size:2
Alignment explanation
Indices: 609453--609486 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
609443 GTCTTCATCG
609453 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
609487 ACTCAAACAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:611287 original size:21 final size:22
Alignment explanation
Indices: 611263--611319 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
611253 TGAATTTAGG
611263 GTTTAGGGTTTAGGATTTA-AA
1 GTTTAGGGTTTAGGATTTAGAA
* * *
611284 GTTTAGAGTTTATGATTTAGAT
1 GTTTAGGGTTTAGGATTTAGAA
*
611306 TTTTAGGGTTTAGG
1 GTTTAGGGTTTAGG
611320 CCTTAGGGTT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
21 17 0.59
22 12 0.41
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (22 bp):
GTTTAGGGTTTAGGATTTAGAA
Found at i:611452 original size:11 final size:11
Alignment explanation
Indices: 611431--611498 Score: 61
Period size: 11 Copynumber: 6.3 Consensus size: 11
611421 TAGTTGTATT
611431 ATATAATTTTTA
1 ATAT-ATTTTTA
611443 ATATATTTTTA
1 ATATATTTTTA
611454 A-A-ATTTTATA
1 ATATATTTT-TA
***
611464 AT-TATCAATA
1 ATATATTTTTA
*
611474 ATGTATTTTTA
1 ATATATTTTTA
611485 ATATATTTTTA
1 ATATATTTTTA
611496 ATA
1 ATA
611499 ATGTAATTTT
Statistics
Matches: 45, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
9 5 0.11
10 8 0.18
11 28 0.62
12 4 0.09
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (11 bp):
ATATATTTTTA
Found at i:617206 original size:22 final size:20
Alignment explanation
Indices: 617168--617207 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
617158 ATTTGAAGTT
*
617168 TAAAAAAAAATTGAAAGATC
1 TAAAAAAAAATTAAAAGATC
617188 TAAAACAAAAATTTAAAAGA
1 TAAAA-AAAAA-TTAAAAGA
617208 AGAAGCGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 5 0.29
22 7 0.41
ACGTcount: A:0.68, C:0.05, G:0.07, T:0.20
Consensus pattern (20 bp):
TAAAAAAAAATTAAAAGATC
Found at i:618131 original size:42 final size:42
Alignment explanation
Indices: 618048--618243 Score: 243
Period size: 42 Copynumber: 4.6 Consensus size: 42
618038 ATCATCATAA
* * *
618048 TAGGTTATGATGTTTAGCGGCATTTTTCTCTA-AAACGCCGCAG
1 TAGGTTTTGATGTTTTGCGGC-GTTTTCTC-ACAAACGCCGCAG
* *
618091 TA-GTTGTTGATGTTTTGCGGCGTTTTCACACAAATGCCGCAG
1 TAGGTT-TTGATGTTTTGCGGCGTTTTCTCACAAACGCCGCAG
*
618133 TAGGTTTTGATGTTTTGCGGTGTTTTTCTCACAAACGCCGCAG
1 TAGGTTTTGATGTTTTGCGGCG-TTTTCTCACAAACGCCGCAG
* * * *
618176 TAGGTATTGATGTTTTTCGGCGTTTTCTTACAAACGCCGTAG
1 TAGGTTTTGATGTTTTGCGGCGTTTTCTCACAAACGCCGCAG
*
618218 TAGGTTTTGATGTTTTACGGCGTTTT
1 TAGGTTTTGATGTTTTGCGGCGTTTT
618244 TACTAAAAAT
Statistics
Matches: 134, Mismatches: 15, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
41 1 0.01
42 78 0.58
43 55 0.41
ACGTcount: A:0.18, C:0.17, G:0.25, T:0.40
Consensus pattern (42 bp):
TAGGTTTTGATGTTTTGCGGCGTTTTCTCACAAACGCCGCAG
Found at i:618169 original size:85 final size:85
Alignment explanation
Indices: 618048--618244 Score: 270
Period size: 85 Copynumber: 2.3 Consensus size: 85
618038 ATCATCATAA
* * * * *
618048 TAGGTTATGATGTTTAGCGGCATTTTTCTCTAAAACGCCGCAGTAGTTGTTGATGTTTTGCGGCG
1 TAGGTTTTGATGTTTTGCGGCGTTTTTCTCTAAAACGCCGCAGTAGGTATTGATGTTTTGCGGCG
*
618113 TTTTCACACAAATGCCGCAG
66 TTTTCACACAAACGCCGCAG
* *
618133 TAGGTTTTGATGTTTTGCGGTGTTTTTCTC-ACAAACGCCGCAGTAGGTATTGATGTTTTTCGGC
1 TAGGTTTTGATGTTTTGCGGCGTTTTTCTCTA-AAACGCCGCAGTAGGTATTGATGTTTTGCGGC
** *
618197 GTTTTCTTACAAACGCCGTAG
65 GTTTTCACACAAACGCCGCAG
*
618218 TAGGTTTTGATGTTTTACGGCGTTTTT
1 TAGGTTTTGATGTTTTGCGGCGTTTTT
618245 ACTAAAAATG
Statistics
Matches: 98, Mismatches: 13, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
84 1 0.01
85 97 0.99
ACGTcount: A:0.18, C:0.17, G:0.25, T:0.40
Consensus pattern (85 bp):
TAGGTTTTGATGTTTTGCGGCGTTTTTCTCTAAAACGCCGCAGTAGGTATTGATGTTTTGCGGCG
TTTTCACACAAACGCCGCAG
Found at i:618721 original size:30 final size:30
Alignment explanation
Indices: 618678--618735 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
618668 TGTGTTGCCG
* *
618678 CTGCTTCTTTCTCTACTTCCGC-TGCTTCTA
1 CTGCTGCTCTCTCTACTTCC-CTTGCTTCTA
*
618708 CTGCTGCTCTCTCTGCTTCCCTTGCTTC
1 CTGCTGCTCTCTCTACTTCCCTTGCTTC
618736 ATTTTCCGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.03, C:0.40, G:0.12, T:0.45
Consensus pattern (30 bp):
CTGCTGCTCTCTCTACTTCCCTTGCTTCTA
Found at i:621786 original size:35 final size:36
Alignment explanation
Indices: 621669--621808 Score: 230
Period size: 36 Copynumber: 3.9 Consensus size: 36
621659 TGAATAAGAA
*
621669 GAACGAAAGGAAGCATCAACACTTTCGATTCAAAGT
1 GAACGAAAGGAAGCATCGACACTTTCGATTCAAAGT
*
621705 GAACGGAAGGAAGCATCGACACTTTCGATTCAAAGT
1 GAACGAAAGGAAGCATCGACACTTTCGATTCAAAGT
621741 GAACGAAAGGAAGCATCGACACTTTCGATTC-AAGT
1 GAACGAAAGGAAGCATCGACACTTTCGATTCAAAGT
*
621776 GAACGGAAGGAAGCATC-AGCACTTTCGATTCAA
1 GAACGAAAGGAAGCATCGA-CACTTTCGATTCAA
621809 TTGTTCATCT
Statistics
Matches: 98, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
34 1 0.01
35 32 0.33
36 65 0.66
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.19
Consensus pattern (36 bp):
GAACGAAAGGAAGCATCGACACTTTCGATTCAAAGT
Found at i:621805 original size:71 final size:72
Alignment explanation
Indices: 621669--621808 Score: 248
Period size: 71 Copynumber: 2.0 Consensus size: 72
621659 TGAATAAGAA
621669 GAACGAAAGGAAGCATCAACACTTTCGATTCAAAGTGAACGGAAGGAAGCATCGACACTTTCGAT
1 GAACGAAAGGAAGCATCAACACTTTCGATTCAAAGTGAACGGAAGGAAGCATCGACACTTTCGAT
621734 TCAAAGT
66 TCAAAGT
*
621741 GAACGAAAGGAAGCATCGACACTTTCGATTC-AAGTGAACGGAAGGAAGCATC-AGCACTTTCGA
1 GAACGAAAGGAAGCATCAACACTTTCGATTCAAAGTGAACGGAAGGAAGCATCGA-CACTTTCGA
621804 TTCAA
65 TTCAA
621809 TTGTTCATCT
Statistics
Matches: 66, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
70 1 0.02
71 35 0.53
72 30 0.45
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.19
Consensus pattern (72 bp):
GAACGAAAGGAAGCATCAACACTTTCGATTCAAAGTGAACGGAAGGAAGCATCGACACTTTCGAT
TCAAAGT
Found at i:625477 original size:13 final size:13
Alignment explanation
Indices: 625459--625484 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
625449 TAAATAATTT
625459 ACAAAAAAAAAAA
1 ACAAAAAAAAAAA
625472 ACAAAAAAAAAAA
1 ACAAAAAAAAAAA
625485 CTCTATCAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (13 bp):
ACAAAAAAAAAAA
Found at i:626829 original size:2 final size:2
Alignment explanation
Indices: 626822--626877 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
626812 AAATATTTAA
626822 AT AT AT AT AT AT 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 AT AT AT AT AT AT
626864 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
626878 TGCCGTTTAC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:627090 original size:31 final size:31
Alignment explanation
Indices: 627049--627131 Score: 112
Period size: 31 Copynumber: 2.7 Consensus size: 31
627039 TATTGCTTAG
* *
627049 CTCGACTCGACTCGAAAACTCTGAAATTGAA
1 CTCGACTCGACTCGAAAACTCTAAAATGGAA
* * * *
627080 TTTGACTCGACTCGAAAATTTTAAAATGGAA
1 CTCGACTCGACTCGAAAACTCTAAAATGGAA
627111 CTCGACTCGACTCGAAAACTC
1 CTCGACTCGACTCGAAAACTC
627132 GCGAGCTTAA
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.25
Consensus pattern (31 bp):
CTCGACTCGACTCGAAAACTCTAAAATGGAA
Found at i:628159 original size:93 final size:93
Alignment explanation
Indices: 628062--628234 Score: 328
Period size: 93 Copynumber: 1.9 Consensus size: 93
628052 TACTTAAATA
628062 GAAGTGATCATAATACCGTAAATATCATTTATCATAAAATAATAAATACTTATATAGAAGGGGAG
1 GAAGTGATCATAATACCGTAAATATCATTTATCATAAAATAATAAATACTTATATAGAAGGGGAG
628127 GGGTAAAAGGAAAATAAAAAATAATAAT
66 GGGTAAAAGGAAAATAAAAAATAATAAT
* *
628155 GAAGTGATGATAATACCGTAAATATCATTTATCATAAAATAATAAGTACTTATATAGAAGGGGAG
1 GAAGTGATCATAATACCGTAAATATCATTTATCATAAAATAATAAATACTTATATAGAAGGGGAG
628220 GGGTAAAAGGAAAAT
66 GGGTAAAAGGAAAAT
628235 GTATGATTTT
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
93 78 1.00
ACGTcount: A:0.49, C:0.06, G:0.18, T:0.26
Consensus pattern (93 bp):
GAAGTGATCATAATACCGTAAATATCATTTATCATAAAATAATAAATACTTATATAGAAGGGGAG
GGGTAAAAGGAAAATAAAAAATAATAAT
Found at i:628448 original size:17 final size:17
Alignment explanation
Indices: 628418--628474 Score: 80
Period size: 16 Copynumber: 3.4 Consensus size: 17
628408 TTTCCAAAAG
628418 AAAATTTTATTTTTTTAA
1 AAAATTTTA-TTTTTTAA
628436 AAAATTTTA-TTTTTAA
1 AAAATTTTATTTTTTAA
**
628452 ATGATTTTATTTTTTAA
1 AAAATTTTATTTTTTAA
628469 AAAATT
1 AAAATT
628475 CTAAATTGAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
16 14 0.41
17 11 0.32
18 9 0.26
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (17 bp):
AAAATTTTATTTTTTAA
Found at i:629829 original size:20 final size:23
Alignment explanation
Indices: 629777--629829 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
629767 TCTAAGAAGA
629777 TGAACGATAAAATGTTTTTCCTT
1 TGAACGATAAAATGTTTTTCCTT
*
629800 TG-ACGGTAAAATG-TTTT-CTT
1 TGAACGATAAAATGTTTTTCCTT
629820 TGAAC-ATAAA
1 TGAACGATAAA
629830 CTTTTCTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 9 0.33
21 6 0.22
22 10 0.37
23 2 0.07
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.40
Consensus pattern (23 bp):
TGAACGATAAAATGTTTTTCCTT
Found at i:635254 original size:3 final size:3
Alignment explanation
Indices: 635246--635299 Score: 58
Period size: 3 Copynumber: 18.0 Consensus size: 3
635236 CATTTAAATT
* *
635246 TTA TTA TTA TTA TTA -AA TTTA TTA TTA CTAA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA -TTA TTA TTA TTA TTA TTA
635292 TTA -TA TTA
1 TTA TTA TTA
635300 ATATATATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
2 3 0.07
3 37 0.86
4 3 0.07
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:642886 original size:202 final size:203
Alignment explanation
Indices: 642540--642945 Score: 757
Period size: 202 Copynumber: 2.0 Consensus size: 203
642530 AAAGTTCATT
642540 TTAATCGTACATGGATTTCTAAGTAAAAGAGAATATCTTCAGAATTCATTCCGCCTCTCAAGATT
1 TTAATCGTACATGGATTTCTAAGTAAAAGAGAATATCTTCAGAATTCATTCCGCCTCTCAAGATT
642605 GATTTTTATTTGCAAAAATTGGTTTTTAAAATCTTTAATGCATGATATGAAAATGATAAAAGGAG
66 GATTTTTATTTGCAAAAATTGGTTTTTAAAATCTTTAATGCATGATATGAAAATGATAAAAGGAG
642670 GTTCAAGATAAATTTAAAAAAAAA-ATCTTTGAAACCAAAGGAGGATTCGAGTTGAAAACCTGAA
131 GTTCAAGATAAATTTAAAAAAAAACATCTTTGAAACCAAAGGAGGATTCGAGTTGAAAACCTGAA
642734 AAGGCGGC
196 AAGGCGGC
642742 TTAATCGTACATGGATTTCTAAGTAAAAGAGAATATCTTCAGAATTCATTCC-CCTCTCAAGATT
1 TTAATCGTACATGGATTTCTAAGTAAAAGAGAATATCTTCAGAATTCATTCCGCCTCTCAAGATT
642806 GATTTTTATTTGCAAAAATTGGTTTTTAAAATCTTTAATGCATGATATGAAAAATGATAAAA-G-
66 GATTTTTATTTGCAAAAATTGGTTTTTAAAATCTTTAATGCATGATATG-AAAATGATAAAAGGA
642869 GGTTCAAGATATAAATTTAAAAAAAAACATCTTTGAAACCAAAGGAGGATTCGAGTTGAAAACCT
130 GGTTCAAG--ATAAATTTAAAAAAAAACATCTTTGAAACCAAAGGAGGATTCGAGTTGAAAACCT
642934 GAAAAGGCGGC
193 GAAAAGGCGGC
642945 T
1 T
642946 CGAATATTGA
Statistics
Matches: 200, Mismatches: 0, Indels: 7
0.97 0.00 0.03
Matches are distributed among these distances:
200 8 0.04
201 62 0.31
202 81 0.41
203 49 0.25
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (203 bp):
TTAATCGTACATGGATTTCTAAGTAAAAGAGAATATCTTCAGAATTCATTCCGCCTCTCAAGATT
GATTTTTATTTGCAAAAATTGGTTTTTAAAATCTTTAATGCATGATATGAAAATGATAAAAGGAG
GTTCAAGATAAATTTAAAAAAAAACATCTTTGAAACCAAAGGAGGATTCGAGTTGAAAACCTGAA
AAGGCGGC
Found at i:644768 original size:115 final size:115
Alignment explanation
Indices: 644566--644853 Score: 549
Period size: 115 Copynumber: 2.5 Consensus size: 115
644556 AATTTGGAAG
* *
644566 AGGAGACTCAATAGCATCTCCTGAAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATAAAACC
1 AGGAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATAAAACC
644631 ACAGAACCAATCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATA
66 ACAGAACCAATCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATA
644681 AGGAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATAAAACC
1 AGGAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATAAAACC
644746 ACAGAACCAATCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATA
66 ACAGAACCAATCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATA
*
644796 AGGAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGTA
1 AGGAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTA
644854 AAATCAATCA
Statistics
Matches: 170, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
115 170 1.00
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.33
Consensus pattern (115 bp):
AGGAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATAAAACC
ACAGAACCAATCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATA
Found at i:644883 original size:196 final size:196
Alignment explanation
Indices: 644681--645049 Score: 702
Period size: 196 Copynumber: 1.9 Consensus size: 196
644671 AGTAGAAATA
* *
644681 AGGAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATAAAACC
1 AGGAGACTCAATAGCATCTCCTGAAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATAAAACC
644746 ACAGAACCAATCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTCAATAGC
66 ACAGAACCAATCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTCAATAGC
644811 ATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGTAAAATCAATCATTGAATTTGGAA
131 ATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGTAAAATCAATCATTGAATTTGGAA
644876 G
196 G
*
644877 AGGAGACTCAATAGCATCTCCTGAAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACC
1 AGGAGACTCAATAGCATCTCCTGAAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATAAAACC
644942 ACAGAACCAATCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTCAATAGC
66 ACAGAACCAATCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTCAATAGC
*
645007 ATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTA
131 ATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGTA
645050 TAAAACCACA
Statistics
Matches: 169, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
196 169 1.00
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.34
Consensus pattern (196 bp):
AGGAGACTCAATAGCATCTCCTGAAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATAAAACC
ACAGAACCAATCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTCAATAGC
ATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGTAAAATCAATCATTGAATTTGGAA
G
Found at i:645063 original size:311 final size:311
Alignment explanation
Indices: 644495--645164 Score: 1313
Period size: 311 Copynumber: 2.2 Consensus size: 311
644485 GAATGTGCTC
*
644495 ATAGTATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGTAAAATCAATCATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGTAAAATCAATCATTGAATT
644560 TGGAAGAGGAGACTCAATAGCATCTCCTGAAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAT
66 TGGAAGAGGAGACTCAATAGCATCTCCTGAAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAT
644625 AAAACCACAGAACCAATCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTC
131 AAAACCACAGAACCAATCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTC
644690 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATAAAACCACAGAACCA
196 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATAAAACCACAGAACCA
644755 ATCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTCA
261 ATCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTCA
644806 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGTAAAATCAATCATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGTAAAATCAATCATTGAATT
644871 TGGAAGAGGAGACTCAATAGCATCTCCTGAAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAT
66 TGGAAGAGGAGACTCAATAGCATCTCCTGAAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAT
*
644936 GAAACCACAGAACCAATCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTC
131 AAAACCACAGAACCAATCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTC
645001 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATAAAACCACAGAACCA
196 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATAAAACCACAGAACCA
645066 ATCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTCA
261 ATCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTCA
*
645117 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGTA
645165 TGAACTCCAA
Statistics
Matches: 356, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
311 356 1.00
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.34
Consensus pattern (311 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGTAAAATCAATCATTGAATT
TGGAAGAGGAGACTCAATAGCATCTCCTGAAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAT
AAAACCACAGAACCAATCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTC
AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATAAAACCACAGAACCA
ATCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTCA
Found at i:645079 original size:115 final size:114
Alignment explanation
Indices: 644877--645315 Score: 745
Period size: 115 Copynumber: 3.8 Consensus size: 114
644867 AATTTGGAAG
* *
644877 AGGAGACTCAATAGCATCTCCTGAAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACC
1 AGGAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACC
644942 ACAGAACCAATCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATA
66 -CAGAACCAATCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATA
*
644992 AGGAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATAAAACC
1 AGGAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACC
645057 ACAGAACCAATCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATA
66 -CAGAACCAATCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATA
645107 AGGAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATG-AACT
1 AGGAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAAC-
* * *
645171 CCAAAATCAATCATTGGATTTGAAAGATGAATTTGCTCATGGTAGAAATA
65 CCAGAACCAATCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATA
* * *
645221 AGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTCGGTATGAATCC
1 AGGAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACC
* *
645286 CAGAACCAATCATTGGAATTGAAAGGTGAA
66 CAGAACCAATCATTGGATTTGAAAGATGAA
645316 CTACATGATT
Statistics
Matches: 308, Mismatches: 14, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
114 134 0.44
115 174 0.56
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.32
Consensus pattern (114 bp):
AGGAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACC
CAGAACCAATCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATA
Found at i:647875 original size:22 final size:22
Alignment explanation
Indices: 647840--647894 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
647830 ATCTACACTC
* *
647840 TTCAAAGATAATAGATTCTTTT
1 TTCAAAGATGATAGATTCTCTT
*
647862 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
647884 TTCAAAGATGA
1 TTCAAAGATGA
647895 AAGCTTTATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.36, C:0.09, G:0.13, T:0.42
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:648890 original size:74 final size:76
Alignment explanation
Indices: 648559--649330 Score: 1330
Period size: 74 Copynumber: 10.4 Consensus size: 76
648549 ATTTCCCACA
648559 TGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAGCCTTC-GGAGC-TTTTGATGTTTTCAAAGCC
1 TGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
648621 TTCGGGTCATC
66 TTCGGGTCATC
*
648632 TGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAAAGCC
1 TGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
648697 TTCGGGTCATC
66 TTCGGGTCATC
648708 TGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
1 TGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
648773 TTCGGGTCAT-
66 TTCGGGTCATC
648783 TGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTGATGTTTTCAAAGCC
1 TGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
648847 TTCGGGTCATC
66 TTCGGGTCATC
*
648858 TGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAGCCTTCGGGATCTTTTTGATGTTTTCAAAGCC
1 TGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
648922 -TCGGGTCATC
66 TTCGGGTCATC
648932 TGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCC-TCGGGAGCTTTTTGATGTTTTCAAAGCC
1 TGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
648996 -TC-GGTCATC
66 TTCGGGTCATC
*
649005 TGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAAAGCC
1 TGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
649070 TTCGGGTCATC
66 TTCGGGTCATC
*
649081 TGTAAGTCCTTCAGTGCATGA--TTT-C-AAAAGCCTTCGGGATCTTTTTGATGTTTTCAAAGCC
1 TGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
649142 TTCGGGTCATC
66 TTCGGGTCATC
*
649153 TGTAAGTCCTTCAGTGCATGATGTTT--AAAAAGCCTTCGGGATC-TTTTGATGTTTTCAAAGCC
1 TGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
649215 TTCGGGTCATC
66 TTCGGGTCATC
*
649226 TGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC-GGAGCTTTTTGATGGTTTCAAAG-C
1 TGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
649289 TTCGGGTCATC
66 TTCGGGTCATC
* * *
649300 TGTAAGCCCTTCCGTGCATGATGTTTTCAAA
1 TGTAAGTCCTTCAGTGCATGATGTTTCCAAA
649331 CATTTCCATC
Statistics
Matches: 674, Mismatches: 10, Indels: 29
0.95 0.01 0.04
Matches are distributed among these distances:
72 68 0.10
73 128 0.19
74 214 0.32
75 132 0.20
76 132 0.20
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (76 bp):
TGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
TTCGGGTCATC
Found at i:648957 original size:149 final size:151
Alignment explanation
Indices: 648559--649330 Score: 1333
Period size: 149 Copynumber: 5.2 Consensus size: 151
648549 ATTTCCCACA
*
648559 TGTAAGTCCTTCAGTGCATGATGTTTCCAAAAGCCTTC-GGAGC-TTTTGATGTTTTCAAAGCCT
1 TGTAAGTCCTTCAGTGCATGATGTTTCCAAAAGCCTTCGGGATCTTTTTGATGTTTTCAAAGCCT
*
648622 TCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGT
66 TCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGT
648687 TTTCAAAGCCTTCGGGTCATC
131 TTTCAAAGCCTTCGGGTCATC
*
648708 TGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
1 TGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAGCCTTCGGGATCTTTTTGATGTTTTCAAAGCC
648773 TTCGGGTCAT-TGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTGATG
65 TTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATG
648836 TTTTCAAAGCCTTCGGGTCATC
130 TTTTCAAAGCCTTCGGGTCATC
648858 TGTAAGTCCTTCAGTGCATGATGTTTCCAAAAGCCTTCGGGATCTTTTTGATGTTTTCAAAGCC-
1 TGTAAGTCCTTCAGTGCATGATGTTTCCAAAAGCCTTCGGGATCTTTTTGATGTTTTCAAAGCCT
648922 TCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCC-TCGGGAGCTTTTTGATGT
66 TCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGT
648986 TTTCAAAGCC-TC-GGTCATC
131 TTTCAAAGCCTTCGGGTCATC
649005 TGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAAAGCC
1 TGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAGCCTTCGGGATCTTTTTGATGTTTTCAAAGCC
*
649070 TTCGGGTCATCTGTAAGTCCTTCAGTGCATGA--TTT-C-AAAAGCCTTCGGGATCTTTTTGATG
65 TTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATG
649131 TTTTCAAAGCCTTCGGGTCATC
130 TTTTCAAAGCCTTCGGGTCATC
*
649153 TGTAAGTCCTTCAGTGCATGATGTTT-AAAAAGCCTTCGGGATC-TTTTGATGTTTTCAAAGCCT
1 TGTAAGTCCTTCAGTGCATGATGTTTCCAAAAGCCTTCGGGATCTTTTTGATGTTTTCAAAGCCT
*
649216 TCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC-GGAGCTTTTTGATGG
66 TCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGT
649280 TTTCAAAG-CTTCGGGTCATC
131 TTTCAAAGCCTTCGGGTCATC
* * *
649300 TGTAAGCCCTTCCGTGCATGATGTTTTCAAA
1 TGTAAGTCCTTCAGTGCATGATGTTTCCAAA
649331 CATTTCCATC
Statistics
Matches: 599, Mismatches: 9, Indels: 31
0.94 0.01 0.05
Matches are distributed among these distances:
145 58 0.10
146 44 0.07
147 79 0.13
148 113 0.19
149 159 0.27
150 68 0.11
151 49 0.08
152 29 0.05
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (151 bp):
TGTAAGTCCTTCAGTGCATGATGTTTCCAAAAGCCTTCGGGATCTTTTTGATGTTTTCAAAGCCT
TCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGT
TTTCAAAGCCTTCGGGTCATC
Found at i:649464 original size:16 final size:15
Alignment explanation
Indices: 649443--649492 Score: 64
Period size: 16 Copynumber: 3.2 Consensus size: 15
649433 ATTTTTTCAT
649443 TTAAATTTTATTATTA
1 TTAAA-TTTATTATTA
649459 TTAAATTTATTATTTA
1 TTAAATTTATTA-TTA
* *
649475 CTAAATATATTATTA
1 TTAAATTTATTATTA
649490 TTA
1 TTA
649493 TATATTAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
15 12 0.40
16 18 0.60
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (15 bp):
TTAAATTTATTATTA
Found at i:652221 original size:13 final size:14
Alignment explanation
Indices: 652191--652221 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
652181 AACAAAATGA
652191 TTATTTCATTTTTG
1 TTATTTCATTTTTG
652205 TTATTTCATTTTT-
1 TTATTTCATTTTTG
652218 TTAT
1 TTAT
652222 CAAAGCATGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.16, C:0.06, G:0.03, T:0.74
Consensus pattern (14 bp):
TTATTTCATTTTTG
Found at i:656041 original size:17 final size:17
Alignment explanation
Indices: 656019--656080 Score: 52
Period size: 17 Copynumber: 3.4 Consensus size: 17
656009 GTTGAACAAG
656019 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
* * *
656036 TTCTTCTCCCTCATCGGATGAG
1 TTCTTCT-CATTAT--GA--AC
656058 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
656075 TTCTTC
1 TTCTTC
656081 ATTGAAAATG
Statistics
Matches: 34, Mismatches: 6, Indels: 10
0.68 0.12 0.20
Matches are distributed among these distances:
17 14 0.41
18 4 0.12
19 2 0.06
20 2 0.06
21 4 0.12
22 8 0.24
ACGTcount: A:0.18, C:0.27, G:0.10, T:0.45
Consensus pattern (17 bp):
TTCTTCTCATTATGAAC
Found at i:660179 original size:15 final size:15
Alignment explanation
Indices: 660159--660194 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
660149 TTATTTTCAT
660159 TCTTTTGGATATAAA
1 TCTTTTGGATATAAA
660174 TCTTTTGGATATAAA
1 TCTTTTGGATATAAA
*
660189 TGTTTT
1 TCTTTT
660195 ATTTTAAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.28, C:0.06, G:0.14, T:0.53
Consensus pattern (15 bp):
TCTTTTGGATATAAA
Found at i:662449 original size:22 final size:21
Alignment explanation
Indices: 662423--662480 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
662413 TTGGTGCAGA
662423 GGGAATCGATACCCTCATGA-AG
1 GGGAATCGATACCC-CAT-ATAG
* * *
662445 GGGAACCGATTCCCCCTATAG
1 GGGAATCGATACCCCATATAG
662466 GGGAATCGATACCCC
1 GGGAATCGATACCCC
662481 CTGGGGGTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 1 0.03
21 17 0.57
22 12 0.40
ACGTcount: A:0.28, C:0.29, G:0.26, T:0.17
Consensus pattern (21 bp):
GGGAATCGATACCCCATATAG
Found at i:667770 original size:115 final size:115
Alignment explanation
Indices: 667588--667796 Score: 321
Period size: 115 Copynumber: 1.8 Consensus size: 115
667578 TTCTTTAATA
* *
667588 GACGAACCAAGGACGAACAAGTTCTTCTCATTAGAAAGTTCTTCTCTCTTTCGGATGTGTTCTTC
1 GACGAACCAAGGACGAACAAGTTCTTCTCATTAGAAAGTTCTTCTCCCTTTCGGATGAGTTCTTC
* * *
667653 TCATTATGAACCCTTCCATTGGAAATGTTGATCCACCTTCTTATGTGATG
66 TCATTATGAACCATTCAATTAGAAATGTTGATCCACCTTCTTATGTGATG
* * * *
667703 GACGAACGAAGGTCGAACAAGTTCTTCTCATTAGGAATTTCTTCTCCCTCTT-GGATGAGTTCTT
1 GACGAACCAAGGACGAACAAGTTCTTCTCATTAGAAAGTTCTTCTCCCT-TTCGGATGAGTTCTT
667767 CTCATTATGAACCATTCAATTAGAAATGTT
65 CTCATTATGAACCATTCAATTAGAAATGTT
667797 TAGCCTATTT
Statistics
Matches: 84, Mismatches: 9, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
115 82 0.98
116 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (115 bp):
GACGAACCAAGGACGAACAAGTTCTTCTCATTAGAAAGTTCTTCTCCCTTTCGGATGAGTTCTTC
TCATTATGAACCATTCAATTAGAAATGTTGATCCACCTTCTTATGTGATG
Found at i:668097 original size:21 final size:21
Alignment explanation
Indices: 668073--668115 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
668063 TTGCAAATGC
668073 CTAAATATGCATGCATGATGT
1 CTAAATATGCATGCATGATGT
668094 CTAAATATGCATGCATGATGT
1 CTAAATATGCATGCATGATGT
668115 C
1 C
668116 ATTTTAGTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.33
Consensus pattern (21 bp):
CTAAATATGCATGCATGATGT
Found at i:668185 original size:17 final size:18
Alignment explanation
Indices: 668163--668200 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
668153 TACTTTATTC
*
668163 TCTTTG-CTGAGTCTTTA
1 TCTTTGTCTGAGTCTTCA
*
668180 TCTTTGTTTGAGTCTTCA
1 TCTTTGTCTGAGTCTTCA
668198 TCT
1 TCT
668201 CGTGACAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.11, C:0.18, G:0.16, T:0.55
Consensus pattern (18 bp):
TCTTTGTCTGAGTCTTCA
Found at i:672613 original size:67 final size:67
Alignment explanation
Indices: 672530--672666 Score: 265
Period size: 67 Copynumber: 2.0 Consensus size: 67
672520 CCATCATGGT
*
672530 ATCTACCCAACATGCTTTTATTAGATAACAATAATACCTGGACATGCGTTCTACTCGATATGCTT
1 ATCTACCCAACATGCTTTTATTAGATAACAATAATACCCGGACATGCGTTCTACTCGATATGCTT
672595 TA
66 TA
672597 ATCTACCCAACATGCTTTTATTAGATAACAATAATACCCGGACATGCGTTCTACTCGATATGCTT
1 ATCTACCCAACATGCTTTTATTAGATAACAATAATACCCGGACATGCGTTCTACTCGATATGCTT
672662 TA
66 TA
672664 ATC
1 ATC
672667 AAGAAATTAA
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 69 1.00
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.34
Consensus pattern (67 bp):
ATCTACCCAACATGCTTTTATTAGATAACAATAATACCCGGACATGCGTTCTACTCGATATGCTT
TA
Found at i:672643 original size:32 final size:32
Alignment explanation
Indices: 672539--672643 Score: 95
Period size: 33 Copynumber: 3.2 Consensus size: 32
672529 TATCTACCCA
*
672539 ACATGCTTTTATTAGATAACAATAATACCTGG
1 ACATGCTTTTATTAGATAACAATAATACCCGG
* * * * ** *
672571 ACATGCGTTCTACTCGATATGCTTTAATCTACCC-A
1 ACATGC-TTTTATTAGATA-ACAATAA--TACCCGG
672606 ACATGCTTTTATTAGATAACAATAATACCCGG
1 ACATGCTTTTATTAGATAACAATAATACCCGG
672638 ACATGC
1 ACATGC
672644 GTTCTACTCG
Statistics
Matches: 53, Mismatches: 15, Indels: 10
0.68 0.19 0.13
Matches are distributed among these distances:
31 5 0.09
32 12 0.23
33 13 0.25
34 13 0.25
35 6 0.11
36 4 0.08
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.32
Consensus pattern (32 bp):
ACATGCTTTTATTAGATAACAATAATACCCGG
Found at i:678395 original size:18 final size:18
Alignment explanation
Indices: 678372--678431 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 18
678362 CTGGAGTGTA
678372 TCGATGCATAAAATGCAT
1 TCGATGCATAAAATGCAT
*
678390 TCGATGTTTCCATAAAATTC--
1 TCGATG----CATAAAATGCAT
*
678410 TGGATGCATAAAATGCAT
1 TCGATGCATAAAATGCAT
678428 TCGA
1 TCGA
678432 AATGGGGTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 12
0.67 0.08 0.25
Matches are distributed among these distances:
16 9 0.28
18 9 0.28
20 5 0.16
22 9 0.28
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.32
Consensus pattern (18 bp):
TCGATGCATAAAATGCAT
Found at i:679070 original size:27 final size:27
Alignment explanation
Indices: 679031--679087 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
679021 CTAAATGATG
* *
679031 CAAAAATCTAATAAACCAA-TATAAGTT
1 CAAAAACCAAATAAA-CAATTATAAGTT
* *
679058 CAAAAACCAAATATATAATTATAAGTT
1 CAAAAACCAAATAAACAATTATAAGTT
679085 CAA
1 CAA
679088 TCATTCAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 2 0.08
27 23 0.92
ACGTcount: A:0.56, C:0.14, G:0.04, T:0.26
Consensus pattern (27 bp):
CAAAAACCAAATAAACAATTATAAGTT
Found at i:681105 original size:23 final size:23
Alignment explanation
Indices: 681075--681157 Score: 100
Period size: 23 Copynumber: 3.7 Consensus size: 23
681065 ATGCACTGCT
681075 GAGTGCATCGATGCACATTCAAG
1 GAGTGCATCGATGCACATTCAAG
* * *
681098 GAGTGCATCGGTGCACCTTC-AT
1 GAGTGCATCGATGCACATTCAAG
*
681120 G-GTGTATCGATGCACATTCATAG
1 GAGTGCATCGATGCACATTCA-AG
681143 GA-TGCATCGATGCAC
1 GAGTGCATCGATGCAC
681158 TGGATAGTGT
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
21 15 0.31
22 2 0.04
23 32 0.65
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (23 bp):
GAGTGCATCGATGCACATTCAAG
Found at i:682787 original size:19 final size:19
Alignment explanation
Indices: 682765--682802 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
682755 ACCCTTGAGA
*
682765 AACAAGTTTAGCCTTGTTC
1 AACAAGTCTAGCCTTGTTC
682784 AACAAGTCTAGCCTTGTTC
1 AACAAGTCTAGCCTTGTTC
682803 CTCACTATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (19 bp):
AACAAGTCTAGCCTTGTTC
Found at i:685616 original size:16 final size:16
Alignment explanation
Indices: 685597--685632 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
685587 AGCTTCGATA
*
685597 ATTGTCGTCTTCTTTG
1 ATTGTCGTATTCTTTG
*
685613 ATTGTCGTATTCTTTT
1 ATTGTCGTATTCTTTG
685629 ATTG
1 ATTG
685633 CCATGATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.11, C:0.14, G:0.17, T:0.58
Consensus pattern (16 bp):
ATTGTCGTATTCTTTG
Found at i:687018 original size:65 final size:64
Alignment explanation
Indices: 686944--687093 Score: 205
Period size: 65 Copynumber: 2.3 Consensus size: 64
686934 CTAAGGGTGT
** * *
686944 ATCGATGCATAAAATGCATTCAATGTTT-CA-AACAAGCCTGGAGTGTGTTGATGCATGGTATGT
1 ATCGATGCATAAAATGCATTCAATGTTTCCATAA-AAGCCTGG-GTGCATCGATGCATGGCA-GT
687007 GC
63 GC
**
687009 ATCGATGCATAAAATGCATTCAATGTTTCCATAAAATTCTGGGTGCATCGATGCATGGCAGTGC
1 ATCGATGCATAAAATGCATTCAATGTTTCCATAAAAGCCTGGGTGCATCGATGCATGGCAGTGC
687073 ATCGATGCATAAAATGCATTC
1 ATCGATGCATAAAATGCATTC
687094 GAAATGAGGT
Statistics
Matches: 77, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
64 25 0.32
65 42 0.55
66 8 0.10
67 2 0.03
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (64 bp):
ATCGATGCATAAAATGCATTCAATGTTTCCATAAAAGCCTGGGTGCATCGATGCATGGCAGTGC
Found at i:689347 original size:10 final size:10
Alignment explanation
Indices: 689327--689372 Score: 56
Period size: 10 Copynumber: 4.3 Consensus size: 10
689317 TTTAATCATC
689327 TCTCATTTTTT
1 TCTC-TTTTTT
689338 TCTCTTTTTT
1 TCTCTTTTTT
689348 TCTTCTTCTTTT
1 TC-TCTT-TTTT
*
689360 TCTTTTTTTT
1 TCTCTTTTTT
689370 TCT
1 TCT
689373 TATTTTTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
10 15 0.47
11 11 0.34
12 6 0.19
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (10 bp):
TCTCTTTTTT
Found at i:689367 original size:19 final size:19
Alignment explanation
Indices: 689343--689394 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 19
689333 TTTTTTCTCT
* *
689343 TTTTTTCTTCTTCTTTTTC
1 TTTTTTCTTCTTATTTTTA
*
689362 TTTTTTTTTCTTATTTTTA
1 TTTTTTCTTCTTATTTTTA
*
689381 -TTTTTATTCTTATT
1 TTTTTTCTTCTTATT
689395 CTTCTATTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
18 13 0.45
19 16 0.55
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.81
Consensus pattern (19 bp):
TTTTTTCTTCTTATTTTTA
Found at i:689373 original size:10 final size:11
Alignment explanation
Indices: 689331--689419 Score: 58
Period size: 12 Copynumber: 7.7 Consensus size: 11
689321 ATCATCTCTC
689331 ATTTTTTTC-T
1 ATTTTTTTCTT
*
689341 CTTTTTTTCTT
1 ATTTTTTTCTT
*
689352 CTTCTTTTTCTT
1 ATT-TTTTTCTT
689364 -TTTTTTTCTT
1 ATTTTTTTCTT
*
689374 ATTTTTATTTTT
1 ATTTTT-TTCTT
*
689386 ATTCTTATTCTTCT
1 ATT-TTTTTC-T-T
689400 ATTTCTTTT-TT
1 ATTT-TTTTCTT
689411 ATATTTTTT
1 AT-TTTTTT
689420 TAGCTCTTAT
Statistics
Matches: 65, Mismatches: 5, Indels: 17
0.75 0.06 0.20
Matches are distributed among these distances:
10 16 0.25
11 18 0.28
12 20 0.31
13 4 0.06
14 7 0.11
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (11 bp):
ATTTTTTTCTT
Found at i:692234 original size:45 final size:45
Alignment explanation
Indices: 692182--692339 Score: 298
Period size: 45 Copynumber: 3.5 Consensus size: 45
692172 ACAAAATTTC
*
692182 TTACCAATATATTTACCATTTATCCCATAAGCTCGTAAGCTTATT
1 TTACCAATATACTTACCATTTATCCCATAAGCTCGTAAGCTTATT
692227 TTACCAATATACTTACCATTTATCCCATAAGCTCGTAAGCTTATT
1 TTACCAATATACTTACCATTTATCCCATAAGCTCGTAAGCTTATT
*
692272 TTACCAATATACTTACCATTTATCACATAAGCTCGTAAGCTTATT
1 TTACCAATATACTTACCATTTATCCCATAAGCTCGTAAGCTTATT
692317 TTACCAATATACTTACCATTTAT
1 TTACCAATATACTTACCATTTAT
692340 TCCAATAAAC
Statistics
Matches: 111, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 111 1.00
ACGTcount: A:0.32, C:0.23, G:0.06, T:0.39
Consensus pattern (45 bp):
TTACCAATATACTTACCATTTATCCCATAAGCTCGTAAGCTTATT
Found at i:692272 original size:25 final size:25
Alignment explanation
Indices: 692199--692272 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
692189 TATATTTACC
692199 ATTTATCCCATAAGCTCGTAAGCTT
1 ATTTATCCCATAAGCTCGTAAGCTT
* *
692224 ATTT-TACCAATATA-CT--T-A-C-C
1 ATTTAT-CCCATA-AGCTCGTAAGCTT
692244 ATTTATCCCATAAGCTCGTAAGCTT
1 ATTTATCCCATAAGCTCGTAAGCTT
692269 ATTT
1 ATTT
692273 TACCAATATA
Statistics
Matches: 36, Mismatches: 4, Indels: 18
0.62 0.07 0.31
Matches are distributed among these distances:
19 1 0.03
20 11 0.31
21 2 0.06
22 2 0.06
23 2 0.06
24 2 0.06
25 15 0.42
26 1 0.03
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (25 bp):
ATTTATCCCATAAGCTCGTAAGCTT
Found at i:697410 original size:43 final size:43
Alignment explanation
Indices: 697346--697434 Score: 151
Period size: 43 Copynumber: 2.1 Consensus size: 43
697336 CTCGACCTTT
* *
697346 TTCGGATTGGGTGCGACTTTGTTATCGATTAAGGCTGGGGATG
1 TTCGGATTGGGTGCGAATTTGTTATCGATCAAGGCTGGGGATG
*
697389 TTCGGATTGGGTGCGAATTTGTTATTGATCAAGGCTGGGGATG
1 TTCGGATTGGGTGCGAATTTGTTATCGATCAAGGCTGGGGATG
697432 TTC
1 TTC
697435 TCTTTCTTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.17, C:0.11, G:0.36, T:0.36
Consensus pattern (43 bp):
TTCGGATTGGGTGCGAATTTGTTATCGATCAAGGCTGGGGATG
Found at i:706629 original size:34 final size:34
Alignment explanation
Indices: 706586--706660 Score: 107
Period size: 34 Copynumber: 2.2 Consensus size: 34
706576 AACACAATCA
*
706586 TCAATTACATTCTAAACC-CAAAATCCAAAATGCT
1 TCAATTACATTCTAAACCTC-AAATCCAAAATACT
**
706620 TCAATTACATTCTAAACCTCAAATTTAAAATACT
1 TCAATTACATTCTAAACCTCAAATCCAAAATACT
706654 TCAATTA
1 TCAATTA
706661 TATGCCCAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
34 36 0.97
35 1 0.03
ACGTcount: A:0.44, C:0.23, G:0.01, T:0.32
Consensus pattern (34 bp):
TCAATTACATTCTAAACCTCAAATCCAAAATACT
Found at i:709122 original size:19 final size:20
Alignment explanation
Indices: 709086--709133 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
709076 TCTAAATCCT
* *
709086 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATTCCATTTTAG
709106 TTTTCAAAA-TCCATTTTAG
1 TTTTCAAAATTCCATTTTAG
*
709125 CTTTCAAAA
1 TTTTCAAAA
709134 GAAAATCATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.31, C:0.15, G:0.06, T:0.48
Consensus pattern (20 bp):
TTTTCAAAATTCCATTTTAG
Found at i:709156 original size:23 final size:24
Alignment explanation
Indices: 709111--709157 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
709101 TTTGGTTTTC
*
709111 AAAATCCATTTTAGCTTTCAAAAG
1 AAAATCCATTTTAACTTTCAAAAG
*
709135 AAAAT-CATTTTCAACTTTAAAAA
1 AAAATCCATTTT-AACTTTCAAAA
709158 TTAGAAATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.47, C:0.15, G:0.04, T:0.34
Consensus pattern (24 bp):
AAAATCCATTTTAACTTTCAAAAG
Found at i:710308 original size:21 final size:19
Alignment explanation
Indices: 710262--710309 Score: 51
Period size: 22 Copynumber: 2.4 Consensus size: 19
710252 TTTTCTTTTT
710262 TAAAAAAATCATAAGACCA
1 TAAAAAAATCATAAGACCA
* *
710281 TATAAAAATATCCATACGATCA
1 TA-AAAAA-AT-CATAAGACCA
710303 TAAAAAA
1 TAAAAAA
710310 GAAATAAGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 2 0.08
20 5 0.21
21 7 0.29
22 10 0.42
ACGTcount: A:0.60, C:0.15, G:0.04, T:0.21
Consensus pattern (19 bp):
TAAAAAAATCATAAGACCA
Found at i:714815 original size:54 final size:54
Alignment explanation
Indices: 714733--714841 Score: 200
Period size: 54 Copynumber: 2.0 Consensus size: 54
714723 AATATTTATA
* *
714733 CCTATATATCAAAGGAATCCTTAAGGGGTTTCCTGTGGGAGTCTTCTTCTTCTT
1 CCTATATATCAAAGGAATCCTTAAGGGGTTTCCTGTGAGACTCTTCTTCTTCTT
714787 CCTATATATCAAAGGAATCCTTAAGGGGTTTCCTGTGAGACTCTTCTTCTTCTT
1 CCTATATATCAAAGGAATCCTTAAGGGGTTTCCTGTGAGACTCTTCTTCTTCTT
714841 C
1 C
714842 TTCTCATTTC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.21, C:0.22, G:0.18, T:0.39
Consensus pattern (54 bp):
CCTATATATCAAAGGAATCCTTAAGGGGTTTCCTGTGAGACTCTTCTTCTTCTT
Found at i:720751 original size:13 final size:13
Alignment explanation
Indices: 720735--720760 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
720725 ATTATACACT
720735 CAAATTAGTAACA
1 CAAATTAGTAACA
720748 CAAATTAGTAACA
1 CAAATTAGTAACA
720761 GACGCAAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.08, T:0.23
Consensus pattern (13 bp):
CAAATTAGTAACA
Found at i:721047 original size:18 final size:19
Alignment explanation
Indices: 721010--721047 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
721000 TATTAAAAAA
* *
721010 ACATTGTAGGTTATAGTAT
1 ACATTGTAGCTTAGAGTAT
721029 ACATTGTAGCTT-GAGTAT
1 ACATTGTAGCTTAGAGTAT
721047 A
1 A
721048 AAATACTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (19 bp):
ACATTGTAGCTTAGAGTAT
Found at i:727387 original size:2 final size:2
Alignment explanation
Indices: 727382--727406 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
727372 TCTCTCTCTC
727382 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
727407 GAAAACAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:729818 original size:6 final size:6
Alignment explanation
Indices: 729809--729838 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
729799 TCTCAATTCT
*
729809 CTAACT CTAACC CTAACC CTAACC CTAACC
1 CTAACC CTAACC CTAACC CTAACC CTAACC
729839 TCTCTTGCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.33, C:0.47, G:0.00, T:0.20
Consensus pattern (6 bp):
CTAACC
Found at i:731061 original size:17 final size:17
Alignment explanation
Indices: 731041--731076 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
731031 TTAAATTACA
731041 AAAAACCCTAAATATCT
1 AAAAACCCTAAATATCT
* *
731058 AAAAATCCTAAATCTCT
1 AAAAACCCTAAATATCT
731075 AA
1 AA
731077 CCCTAAACCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.22, G:0.00, T:0.25
Consensus pattern (17 bp):
AAAAACCCTAAATATCT
Found at i:731063 original size:27 final size:27
Alignment explanation
Indices: 730959--731051 Score: 177
Period size: 27 Copynumber: 3.4 Consensus size: 27
730949 TATATTTATA
730959 AAAAAACCCTAATTTTTCTTAAATTAC
1 AAAAAACCCTAATTTTTCTTAAATTAC
*
730986 AAAAAACCCTAATTTTTCTTAAATTAT
1 AAAAAACCCTAATTTTTCTTAAATTAC
731013 AAAAAACCCTAATTTTTCTTAAATTAC
1 AAAAAACCCTAATTTTTCTTAAATTAC
731040 AAAAAACCCTAA
1 AAAAAACCCTAA
731052 ATATCTAAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 64 1.00
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.34
Consensus pattern (27 bp):
AAAAAACCCTAATTTTTCTTAAATTAC
Found at i:736544 original size:19 final size:17
Alignment explanation
Indices: 736502--736546 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 17
736492 ATAAATGTTA
736502 AAATATTT-TTTTTAAT
1 AAATATTTATTTTTAAT
736518 AAATATTTATTTATTATAT
1 AAATATTTATTT-TTA-AT
*
736537 ATATATTTAT
1 AAATATTTAT
736547 GACTACATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 8 0.32
17 3 0.12
18 3 0.12
19 11 0.44
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
AAATATTTATTTTTAAT
Found at i:737502 original size:20 final size:20
Alignment explanation
Indices: 737477--737515 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
737467 CTCTGTTTTC
* *
737477 TGTCTCTCTTTGTCTCTGTG
1 TGTCTCTCTATCTCTCTGTG
737497 TGTCTCTCTATCTCTCTGT
1 TGTCTCTCTATCTCTCTGT
737516 CTCTGTCTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.03, C:0.28, G:0.15, T:0.54
Consensus pattern (20 bp):
TGTCTCTCTATCTCTCTGTG
Found at i:737895 original size:12 final size:11
Alignment explanation
Indices: 737877--737955 Score: 67
Period size: 12 Copynumber: 7.2 Consensus size: 11
737867 TTATATATAT
737877 ATTTAAT-AT-
1 ATTTAATAATA
737886 ATTTAATAATA
1 ATTTAATAATA
*
737897 ATAATAATAATA
1 AT-TTAATAATA
*
737909 ATATTTATAATA
1 AT-TTAATAATA
737921 A--TAATAATA
1 ATTTAATAATA
*
737930 ATAATAATAATA
1 AT-TTAATAATA
737942 ATTATAATAATA
1 ATT-TAATAATA
737954 AT
1 AT
737956 AAATAAATCA
Statistics
Matches: 58, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
9 15 0.26
10 2 0.03
11 2 0.03
12 39 0.67
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
ATTTAATAATA
Found at i:737897 original size:3 final size:3
Alignment explanation
Indices: 737889--737957 Score: 111
Period size: 3 Copynumber: 23.0 Consensus size: 3
737879 TTAATATATT
* *
737889 TAA TAA TAA TAA TAA TAA TAA TAT TTA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
737937 TAA TAA TTA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
737958 ATAAATCAAT
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:737968 original size:15 final size:14
Alignment explanation
Indices: 737890--737968 Score: 65
Period size: 15 Copynumber: 5.5 Consensus size: 14
737880 TAATATATTT
737890 AATAATAAT-AAT-
1 AATAATAATAAATA
**
737902 AATAATAATATTTA
1 AATAATAATAAATA
737916 TAATAATAAT-AATAA
1 -AATAATAATAAAT-A
*
737931 TAATAATAATAATTA
1 -AATAATAATAAATA
737946 TAATAATAATAAATA
1 -AATAATAATAAATA
737961 AATCAATA
1 AAT-AATA
737969 TGGGTAAAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 9
0.79 0.09 0.13
Matches are distributed among these distances:
12 9 0.16
13 1 0.02
14 4 0.07
15 39 0.71
16 2 0.04
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.35
Consensus pattern (14 bp):
AATAATAATAAATA
Found at i:738507 original size:225 final size:221
Alignment explanation
Indices: 738206--738849 Score: 698
Period size: 225 Copynumber: 2.9 Consensus size: 221
738196 TTGAATAAGC
* * *
738206 TCTTCTTATTATGAACTTCCTCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTGGAAAT
1 TCTTCTCATTATGAACTTCCTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTACTCTGGAAAT
* *
738271 TTTAATCCATCAAGTGATAGATTTGAGCGAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTT
66 TATAATCCATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTT
* *
738336 CATCCTTCTTCAGAT-GATTTCTTCTCATTATGAACTCCT-CTGGAAAAGCTGACCCATCAAGTG
131 CATCCTTC-TCAGATAGAGTTCTTCTCATTATGAACT-CTACTGGAAAAGCTGACCCATCAAATG
* * * *
738399 ATGGATTTGAGCAAAAAGTTGCACAAAT
194 ATGAATTTAAACAAAAAGTTGAACAAAT
738427 TCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAC-CTG
1 TCTTCTCATTATGAACTTC--C-TC-TTCTTCAGATGAGTTCTTCTCATTATGAACT-TACTCTG
738491 GAAATTATAATCCATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
61 GAAATTATAATCCATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
* * * * *
738556 TTCTTCTTCCTTCTCAGATGACGAGTTCTTCTTATTATGAACTCTACCTGGTAATGCTGATCCAT
126 TTCTTCATCCTTCTCAGAT-A-GAGTTCTTCTCATTATGAACTCTA-CTGGAAAAGCTGACCCAT
*
738621 CAAATGATGAATTTAAACAAAATGTTGAACAAAT
188 CAAATGATGAATTTAAACAAAAAGTTGAACAAAT
*** *
738655 TC-T-TCA-T-T---C-T--TC-AGAT--GACGAGTTCTTCTCATTATGAACTCTAC-CT-GACA
1 TCTTCTCATTATGAACTTCCTCTTCTTCAGATGAGTTCTTCTCATTATGAACT-TACTCTGGA-A
* * *
738705 ATGT-TAATCCATCAAATGAT-GAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACT
64 AT-TATAATCCATCAAGTGATAG-ATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACT
* * * * *
738768 TCTTCTTCCTTCTTCAGATGACGAGTTCTTCTTATTATGAACTCTACCTGGTAATGCTGATCCAT
127 TCTTCATCCTTC-TCAGAT-A-GAGTTCTTCTCATTATGAACTCTA-CTGGAAAAGCTGACCCAT
** *
738833 TGAATGATGGATTTAAA
188 CAAATGATGAATTTAAA
738850 TCTTTGCTAA
Statistics
Matches: 382, Mismatches: 27, Indels: 37
0.86 0.06 0.08
Matches are distributed among these distances:
210 3 0.01
211 98 0.26
212 67 0.18
213 1 0.00
215 2 0.01
220 1 0.00
221 19 0.05
223 1 0.00
224 9 0.02
225 109 0.29
226 7 0.02
227 20 0.05
228 45 0.12
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.38
Consensus pattern (221 bp):
TCTTCTCATTATGAACTTCCTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTACTCTGGAAAT
TATAATCCATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTT
CATCCTTCTCAGATAGAGTTCTTCTCATTATGAACTCTACTGGAAAAGCTGACCCATCAAATGAT
GAATTTAAACAAAAAGTTGAACAAAT
Found at i:738560 original size:113 final size:114
Alignment explanation
Indices: 738189--738659 Score: 586
Period size: 112 Copynumber: 4.2 Consensus size: 114
738179 GTGACAGAGT
* ** * *
738189 CAAAAGGTTGAATAAGCTCTTCTTATTATGAACTTC--C-T-CTTCTTCAGATGAGTTCTTCTTA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* **
738250 TTATGAACT-TTCTCTGGAAATTTTAATCCATCAAGTGATAGATTTGAG
66 TTATGAACTCTACTCTGGAAATGCTAATCCATCAAGTGATAGATTTGAG
* * *
738298 CGAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGATTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * *
738363 TTATGAACTC--CTCTGGAAAAGCTGACCCATCAAGTGATGGATTTGAG
66 TTATGAACTCTACTCTGGAAATGCTAATCCATCAAGTGATAGATTTGAG
* * *
738410 CAAAAAGTTGCACAAATTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
**
738475 TTATGAACTCTAC-CTGGAAATTATAATCCATCAAGTGATAGATTTGAG
66 TTATGAACTCTACTCTGGAAATGCTAATCCATCAAGTGATAGATTTGAG
738523 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTC-TCAGATGACGAGTTCTTC
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTC
* * * * * *
738587 TTATTATGAACTCTAC-CTGGTAATGCTGATCCATCAAATGAT-GAATTTAAA
63 TCATTATGAACTCTACTCTGGAAATGCTAATCCATCAAGTGATAG-ATTTGAG
*
738638 CAAAATGTTGAACAAATTCTTC
1 CAAAAGGTTGAACAAATTCTTC
738660 ATTCTTCAGA
Statistics
Matches: 314, Mismatches: 37, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
109 31 0.10
111 1 0.00
112 107 0.34
113 102 0.32
114 2 0.01
115 71 0.23
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (114 bp):
CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTCTACTCTGGAAATGCTAATCCATCAAGTGATAGATTTGAG
Found at i:738680 original size:96 final size:95
Alignment explanation
Indices: 738559--738755 Score: 322
Period size: 96 Copynumber: 2.1 Consensus size: 95
738549 TATGAACTTC
* * ** *
738559 TTCTTCCTTCTCAGATGACGAGTTCTTCTTATTATGAACTCTACCTGGTAATGCTGATCCATCAA
1 TTCTTCATTCTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGACAATGCTAATCCATCAA
*
738624 ATGATGAATTTAAACAAAATGTTGAACAAA
66 ATGATGAATTTAAACAAAAGGTTGAACAAA
*
738654 TTCTTCATTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGACAATGTTAATCCATCA
1 TTCTTCATTC-TCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGACAATGCTAATCCATCA
738719 AATGATGAATTTAAACAAAAGGTTGAACAAA
65 AATGATGAATTTAAACAAAAGGTTGAACAAA
738750 TTCTTC
1 TTCTTC
738756 TCATTATGAA
Statistics
Matches: 94, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
95 9 0.10
96 85 0.90
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (95 bp):
TTCTTCATTCTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGACAATGCTAATCCATCAA
ATGATGAATTTAAACAAAAGGTTGAACAAA
Found at i:739709 original size:115 final size:115
Alignment explanation
Indices: 739532--739962 Score: 751
Period size: 115 Copynumber: 3.8 Consensus size: 115
739522 GATCATGCAG
* * * * *
739532 TTCATCTTTTAATTCCAATGATTGGTTCTGTAG-TTCCTACCAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTCAAATCCAATGATTGGTTCTGTGGTTTCATACTAAACCAGATCAGATAACTCAAAG
739596 AACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTACTATGAGCAAA
66 AACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTACTATGAGCAAA
739646 TTCATCTTTCAAATCCAATGATTGGTTCTGTGGTTTCATACTAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTCAAATCCAATGATTGGTTCTGTGGTTTCATACTAAACCAGATCAGATAACTCAAAG
739711 AACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTACTATGAGCAAA
66 AACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTACTATGAGCAAA
*
739761 TTCATCTTTCAAATTCAATGATTGGTTCTGTGGTTTCATACTAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTCAAATCCAATGATTGGTTCTGTGGTTTCATACTAAACCAGATCAGATAACTCAAAG
*
739826 AACACTTCCAGAAGATGCTATTAAGTCTCCTTTATCTT-T-CTATGAGCAAA
66 AACACTTCCAGAAGATGCTATTGAGTCTCC-TTAT-TTCTACTATGAGCAAA
*
739876 TTCATCTTTCAAATTCAATGATTGGTTCTGTGGTTTCATACTAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTCAAATCCAATGATTGGTTCTGTGGTTTCATACTAAACCAGATCAGATAACTCAAAG
739941 AACACTTCCAGAAGATGCTATT
66 AACACTTCCAGAAGATGCTATT
739963 AGCACATTTA
Statistics
Matches: 307, Mismatches: 7, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
114 30 0.10
115 270 0.88
116 5 0.02
117 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.34
Consensus pattern (115 bp):
TTCATCTTTCAAATCCAATGATTGGTTCTGTGGTTTCATACTAAACCAGATCAGATAACTCAAAG
AACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTACTATGAGCAAA
Found at i:741038 original size:1 final size:1
Alignment explanation
Indices: 741034--741094 Score: 59
Period size: 1 Copynumber: 61.0 Consensus size: 1
741024 TTTCTTCTTC
* * * * * * *
741034 TTTTTTTTTTTCTCTTTTTTTTTTTTTCTTTTTTTCTTTTCTTTCTTTTTTCTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
741095 CTTCAAGCAT
Statistics
Matches: 46, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 46 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (1 bp):
T
Found at i:741049 original size:17 final size:15
Alignment explanation
Indices: 741022--741093 Score: 90
Period size: 16 Copynumber: 4.5 Consensus size: 15
741012 TGACCCCCCC
* *
741022 TTTTTCTTCTTCTTT
1 TTTTTTTTCTTTTTT
741037 TTTTTTTTCTCTTTTT
1 TTTTTTTTCT-TTTTT
741053 TTTTTTTTCTTTTTT
1 TTTTTTTTCTTTTTT
741068 TCTTTTCTTTCTTTTTT
1 T-TTTT-TTTCTTTTTT
741085 CTTTTTTTT
1 -TTTTTTTT
741094 TCTTCAAGCA
Statistics
Matches: 51, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
15 15 0.29
16 21 0.41
17 14 0.27
18 1 0.02
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (15 bp):
TTTTTTTTCTTTTTT
Found at i:741070 original size:24 final size:25
Alignment explanation
Indices: 741024--741097 Score: 93
Period size: 24 Copynumber: 3.1 Consensus size: 25
741014 ACCCCCCCTT
741024 TTTC-TTCTTCTTTT-TTTTTTTCTC
1 TTTCTTTCTT-TTTTCTTTTTTTCTC
*
741048 TTT-TTTTTTTTTTCTTTTTTTCT-
1 TTTCTTTCTTTTTTCTTTTTTTCTC
*
741071 TTTCTTTCTTTTTTCTTTTTTTTTC
1 TTTCTTTCTTTTTTCTTTTTTTCTC
741096 TT
1 TT
741098 CAAGCATAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
23 7 0.16
24 34 0.79
25 2 0.05
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (25 bp):
TTTCTTTCTTTTTTCTTTTTTTCTC
Found at i:741095 original size:17 final size:16
Alignment explanation
Indices: 741022--741097 Score: 98
Period size: 17 Copynumber: 4.5 Consensus size: 16
741012 TGACCCCCCC
741022 TTTTTCTTCTTCTTTTTT
1 TTTTTCTT-TT-TTTTTT
*
741040 TTTTTCTCTTTTTTTT
1 TTTTTCTTTTTTTTTT
741056 TTTTTCTTTTTTTCTTT
1 TTTTTCTTTTTTT-TTT
*
741073 TCTTTCTTTTTTCTTTT
1 TTTTTCTTTTTT-TTTT
741090 TTTTTCTT
1 TTTTTCTT
741098 CAAGCATAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
16 18 0.35
17 26 0.50
18 8 0.15
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (16 bp):
TTTTTCTTTTTTTTTT
Found at i:751717 original size:21 final size:19
Alignment explanation
Indices: 751691--751748 Score: 59
Period size: 21 Copynumber: 3.1 Consensus size: 19
751681 ATGAAATATT
751691 AATAATATATATAAATACTAA
1 AATAATAT-TATAAATA-TAA
*
751712 AATAATATGTATATATATAA
1 AATAATAT-TATAAATATAA
751732 AA-AA-ATTATAAAT-TAA
1 AATAATATTATAAATATAA
751748 A
1 A
751749 TATATGAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
16 4 0.12
17 6 0.18
18 2 0.06
19 2 0.06
20 5 0.15
21 15 0.44
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (19 bp):
AATAATATTATAAATATAA
Found at i:753392 original size:19 final size:19
Alignment explanation
Indices: 753358--753394 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
753348 TCTCGTTTTA
* *
753358 TGTCTCTCTTTGTCTCTGG
1 TGTCTCTCTGTCTCTCTGG
753377 TGTCTCTCTGTCTCTCTG
1 TGTCTCTCTGTCTCTCTG
753395 TCTCTGTCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.00, C:0.30, G:0.19, T:0.51
Consensus pattern (19 bp):
TGTCTCTCTGTCTCTCTGG
Found at i:753753 original size:3 final size:3
Alignment explanation
Indices: 753747--753809 Score: 53
Period size: 3 Copynumber: 22.0 Consensus size: 3
753737 TTTATATATT
* * *
753747 TAA TAA TAA T-A TAA TAA TAT TTA TTA TAA TAA TAA TAA TAA CT-A
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
*
753791 TTA TAA T-A TAA T-A TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
753810 ACCTAACTGA
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
2 7 0.14
3 42 0.84
4 1 0.02
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:753766 original size:21 final size:21
Alignment explanation
Indices: 753742--753809 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 21
753732 TATTATTTAT
753742 ATATTTAATAATAATATAATA
1 ATATTTAATAATAATATAATA
753763 ATATTTATTATAATAATAATAATA
1 ATATTTA--ATAATAAT-ATAATA
753787 ACTATTATAAT-ATAATATAATA
1 A-TATT-TAATAATAATATAATA
753809 A
1 A
753810 ACCTAACTGA
Statistics
Matches: 42, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
21 7 0.17
22 7 0.17
23 13 0.31
24 9 0.21
25 4 0.10
26 2 0.05
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (21 bp):
ATATTTAATAATAATATAATA
Found at i:753999 original size:3 final size:3
Alignment explanation
Indices: 753991--754038 Score: 78
Period size: 3 Copynumber: 16.0 Consensus size: 3
753981 TTAATATATT
* *
753991 TAA TAA TAA TAA TAA TAA TAA TAT TTA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
754039 ATAAATCAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:754000 original size:15 final size:15
Alignment explanation
Indices: 753982--754028 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
753972 TATATATATT
753982 TAATATATTTAATAA
1 TAATATATTTAATAA
753997 TAATA-A--TAATAA
1 TAATATATTTAATAA
754009 TAATAT-TTATAATAA
1 TAATATATT-TAATAA
754024 TAATA
1 TAATA
754029 ATAATAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
12 11 0.39
14 1 0.04
15 16 0.57
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TAATATATTTAATAA
Found at i:754023 original size:12 final size:12
Alignment explanation
Indices: 753966--754037 Score: 62
Period size: 12 Copynumber: 6.2 Consensus size: 12
753956 TTTTTATTAT
753966 TATTTAT-AT-A
1 TATTTATAATAA
753976 TATATT-TAAT-A
1 TAT-TTATAATAA
753987 TATTTAATAATAA
1 TATTT-ATAATAA
* *
754000 TAATAATAATAA
1 TATTTATAATAA
754012 TATTTATAATAA
1 TATTTATAATAA
* *
754024 TAATAATAATAA
1 TATTTATAATAA
754036 TA
1 TA
754038 AATAAATCAA
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
10 6 0.12
11 8 0.16
12 33 0.65
13 4 0.08
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
TATTTATAATAA
Found at i:755391 original size:85 final size:83
Alignment explanation
Indices: 755167--755516 Score: 409
Period size: 82 Copynumber: 4.2 Consensus size: 83
755157 CCTTGTAGAC
* * *
755167 AATCTAAACTATTCACATCATTTGCTTGTCATTGATATTTCACATCAACTCATATAAACTGAAAT
1 AATCTACACTATTCACATCATTTACTTGTCATTGATATTTCACATCAACTCAGATAAACTGAAAT
* *
755232 ATTTTATAGAAAT-AGGG
66 ATTTCATAGAAATCAGAG
* * * *
755249 AATCTACACTATTCACGTCCTTTCAC-TGTCATTGATATTTCACATCAGCTCAGATAAATTGAAA
1 AATCTACACTATTCACATCATTT-ACTTGTCATTGATATTTCACATCAACTCAGATAAACTGAAA
*
755313 TAATTTCCATTGAAATCAGAG
65 T-ATTT-CATAGAAATCAGAG
* * *
755334 AATCTACACTATTTACATCATTTACTTGTCATTGATATTTCATATCAACTTAGATAAACTGAAAT
1 AATCTACACTATTCACATCATTTACTTGTCATTGATATTTCACATCAACTCAGATAAACTGAAAT
* * *
755399 ATTTTA-AAAAATCAGGG
66 ATTTCATAGAAATCAGAG
* * ** * * *
755416 AATCTATATTATTCATGTCCTTTTCTTGTCATTGATATTTCACATAAACTCAGATAAACTGAAAT
1 AATCTACACTATTCACATCATTTACTTGTCATTGATATTTCACATCAACTCAGATAAACTGAAAT
* *
755481 AATTTTCATTGAAATCAAAG
66 -A-TTTCATAGAAATCAGAG
755501 AATCTACACTATTCAC
1 AATCTACACTATTCAC
755517 GTCCTTTGCT
Statistics
Matches: 221, Mismatches: 39, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
82 119 0.54
83 7 0.03
84 17 0.08
85 78 0.35
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (83 bp):
AATCTACACTATTCACATCATTTACTTGTCATTGATATTTCACATCAACTCAGATAAACTGAAAT
ATTTCATAGAAATCAGAG
Found at i:755457 original size:167 final size:167
Alignment explanation
Indices: 755167--755516 Score: 524
Period size: 167 Copynumber: 2.1 Consensus size: 167
755157 CCTTGTAGAC
* * *
755167 AATCTAAACTATTCACATCATTTGCTTGTCATTGATATTTCACATCAACTCATATAAACTGAAAT
1 AATCTACACTATTCACATCATTTACTTGTCATTGATATTTCACATCAACTCAGATAAACTGAAAT
* * *
755232 ATTTTATAGAAATAGGGAATCTACACTATTCACGTCCTTTCACTGTCATTGATATTTCACATCAG
66 ATTTTATAAAAATAGGGAATCTACACTATTCACGTCCTTTCACTGTCATTGATATTTCACATAAA
* *
755297 CTCAGATAAATTGAAATAATTTCCATTGAAATCAGAG
131 CTCAGATAAACTGAAATAATTTCCATTGAAATCAAAG
* * *
755334 AATCTACACTATTTACATCATTTACTTGTCATTGATATTTCATATCAACTTAGATAAACTGAAAT
1 AATCTACACTATTCACATCATTTACTTGTCATTGATATTTCACATCAACTCAGATAAACTGAAAT
* * * *
755399 ATTTTA-AAAAATCAGGGAATCTATATTATTCATGTCCTTTTC-TTGTCATTGATATTTCACATA
66 ATTTTATAAAAAT-AGGGAATCTACACTATTCACGTCC-TTTCACTGTCATTGATATTTCACATA
*
755462 AACTCAGATAAACTGAAATAATTTTCATTGAAATCAAAG
129 AACTCAGATAAACTGAAATAATTTCCATTGAAATCAAAG
755501 AATCTACACTATTCAC
1 AATCTACACTATTCAC
755517 GTCCTTTGCT
Statistics
Matches: 164, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
166 5 0.03
167 155 0.95
168 4 0.02
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (167 bp):
AATCTACACTATTCACATCATTTACTTGTCATTGATATTTCACATCAACTCAGATAAACTGAAAT
ATTTTATAAAAATAGGGAATCTACACTATTCACGTCCTTTCACTGTCATTGATATTTCACATAAA
CTCAGATAAACTGAAATAATTTCCATTGAAATCAAAG
Found at i:763045 original size:183 final size:183
Alignment explanation
Indices: 762735--763119 Score: 652
Period size: 183 Copynumber: 2.1 Consensus size: 183
762725 ATTAAATTTT
* *
762735 AAATATTAAATATATTATATATAACATATGGGCTCAACCCAAATCATTAAAAATCCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGGGCTCAACCCAAACCATTAAAAACCCAATTAATAA
762800 TTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAATTATATAAAATTTT
66 TTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAATTATATAAAATTTT
*
762865 TATTTTATAATTATATATTATTTAAATTAATTGTAAACTGTTTTTT-AATTAAA
131 TATTTTATAATTATATATTATTTAAATTAATTATAAACT-TTTTTTGAATTAAA
*
762918 AAATATTAAATATATTATATATAACATATGGGCT-AAGCCCAAACCATTTAAAACCCAATTAATA
1 AAATATTAAATATATTATATATAACATATGGGCTCAA-CCCAAACCATTAAAAACCCAATTAATA
* *
762982 ATTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAATTTATCTAAAATTT
65 ATTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAATTATATAAAATTT
*
763047 TTATTTTATAATTATTTATTATTTAAATTAATTATAAACTTTTTTTGAATTAAA
130 TTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTGAATTAAA
*
763101 AAATATTTAAT-T-TTATATA
1 AAATATTAAATATATTATATA
763120 AATTAGAAAA
Statistics
Matches: 192, Mismatches: 8, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
181 7 0.04
182 9 0.05
183 176 0.92
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.42
Consensus pattern (183 bp):
AAATATTAAATATATTATATATAACATATGGGCTCAACCCAAACCATTAAAAACCCAATTAATAA
TTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAATTATATAAAATTTT
TATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTGAATTAAA
Found at i:763267 original size:15 final size:15
Alignment explanation
Indices: 763247--763275 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
763237 AAAAAAAGTT
763247 TGGTTAATTCGGTTA
1 TGGTTAATTCGGTTA
763262 TGGTTAATTCGGTT
1 TGGTTAATTCGGTT
763276 CGATCGACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.07, G:0.28, T:0.48
Consensus pattern (15 bp):
TGGTTAATTCGGTTA
Found at i:765008 original size:75 final size:75
Alignment explanation
Indices: 764881--765032 Score: 268
Period size: 75 Copynumber: 2.0 Consensus size: 75
764871 TAATCCCATC
* * * *
764881 AAAATTTCATCATAAAACATTTGTATGAAAAACAAACAATCTCAGATTATGTCACACTATATCAT
1 AAAATGTCATCATAAAACATTAGTATGAAAAACAAACAATCTCAGATCATGTCACAATATATCAT
764946 TCTCGAGACT
66 TCTCGAGACT
764956 AAAATGTCATCATAAAACATTAGTATGAAAAACAAACAATCTCAGATCATGTCACAATATATCAT
1 AAAATGTCATCATAAAACATTAGTATGAAAAACAAACAATCTCAGATCATGTCACAATATATCAT
765021 TCTCGAGACT
66 TCTCGAGACT
765031 AA
1 AA
765033 GAAAAATAAG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
75 73 1.00
ACGTcount: A:0.45, C:0.18, G:0.09, T:0.28
Consensus pattern (75 bp):
AAAATGTCATCATAAAACATTAGTATGAAAAACAAACAATCTCAGATCATGTCACAATATATCAT
TCTCGAGACT
Found at i:803518 original size:22 final size:22
Alignment explanation
Indices: 803493--803542 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
803483 GTCCCGAAAG
803493 ACCTATGTAAATCTCCTGAAGA
1 ACCTATGTAAATCTCCTGAAGA
* * * *
803515 ACCTATGTATATGTTCTGAAGG
1 ACCTATGTAAATCTCCTGAAGA
803537 ACCTAT
1 ACCTAT
803543 ATAACCCTCG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (22 bp):
ACCTATGTAAATCTCCTGAAGA
Found at i:809277 original size:16 final size:16
Alignment explanation
Indices: 809256--809288 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
809246 TTAGCTTCAG
809256 CACATCTTCATGTACT
1 CACATCTTCATGTACT
809272 CACATCTTCATGTACT
1 CACATCTTCATGTACT
809288 C
1 C
809289 CTTGATGTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.33, G:0.06, T:0.36
Consensus pattern (16 bp):
CACATCTTCATGTACT
Found at i:811866 original size:36 final size:36
Alignment explanation
Indices: 811824--811933 Score: 157
Period size: 36 Copynumber: 3.0 Consensus size: 36
811814 CATATCACAT
*
811824 ATTACATTAAGGAGATAAAAACAACGAACCTTACAC
1 ATTACATTAAGGAGATAAAAACAACAAACCTTACAC
*
811860 ATTACATTAAGGATATAAAAACAACAAACCTTACAC
1 ATTACATTAAGGAGATAAAAACAACAAACCTTACAC
* * * *
811896 ATTACATTAAAGTGATAAAAATAAAAAAACCTTACAC
1 ATTACATTAAGGAGATAAAAA-CAACAAACCTTACAC
811933 A
1 A
811934 ATCCTTAAAC
Statistics
Matches: 66, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
36 52 0.79
37 14 0.21
ACGTcount: A:0.54, C:0.17, G:0.07, T:0.22
Consensus pattern (36 bp):
ATTACATTAAGGAGATAAAAACAACAAACCTTACAC
Found at i:812059 original size:36 final size:36
Alignment explanation
Indices: 812018--812126 Score: 164
Period size: 36 Copynumber: 3.0 Consensus size: 36
812008 CATATCACAT
*
812018 ATTACATTAAGGAGATAAAAACAACGAACCTTACAC
1 ATTACATTAAGGAGATAAAAACAACAAACCTTACAC
*
812054 ATTACATTAAGGATATAAAAACAACAAACCTTACAC
1 ATTACATTAAGGAGATAAAAACAACAAACCTTACAC
* * * *
812090 ATTACATTAAAGTGATAAAAATAAAAAACCTTACAC
1 ATTACATTAAGGAGATAAAAACAACAAACCTTACAC
812126 A
1 A
812127 ATCCTTAAAC
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 66 1.00
ACGTcount: A:0.53, C:0.17, G:0.07, T:0.22
Consensus pattern (36 bp):
ATTACATTAAGGAGATAAAAACAACAAACCTTACAC
Found at i:812157 original size:194 final size:194
Alignment explanation
Indices: 811789--812176 Score: 760
Period size: 194 Copynumber: 2.0 Consensus size: 194
811779 TTTAAGATCA
811789 CATTAACTTAATGTTTCACATTTATCATATCACATATTACATTAAGGAGATAAAAACAACGAACC
1 CATTAACTTAATGTTTCACATTTATCATATCACATATTACATTAAGGAGATAAAAACAACGAACC
811854 TTACACATTACATTAAGGATATAAAAACAACAAACCTTACACATTACATTAAAGTGATAAAAATA
66 TTACACATTACATTAAGGATATAAAAACAACAAACCTTACACATTACATTAAAGTGATAAAAATA
811919 AAAAAACCTTACACAATCCTTAAACATTAAATAAAACCTAAACATATCACTATTCTCTGAAAGT
131 AAAAAACCTTACACAATCCTTAAACATTAAATAAAACCTAAACATATCACTATTCTCTGAAAGT
811983 CATTAACTTAATGTTTCACATTTATCATATCACATATTACATTAAGGAGATAAAAACAACGAACC
1 CATTAACTTAATGTTTCACATTTATCATATCACATATTACATTAAGGAGATAAAAACAACGAACC
812048 TTACACATTACATTAAGGATATAAAAACAACAAACCTTACACATTACATTAAAGTGATAAAAAT-
66 TTACACATTACATTAAGGATATAAAAACAACAAACCTTACACATTACATTAAAGTGATAAAAATA
812112 AAAAAACCTTACACAATCCTTAAACATTAAATAAAACCATAAACATATCACTATTCTCTGAAAGT
131 AAAAAACCTTACACAATCCTTAAACATTAAATAAAACC-TAAACATATCACTATTCTCTGAAAGT
812177 TTTGATCGTT
Statistics
Matches: 193, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
193 38 0.20
194 155 0.80
ACGTcount: A:0.48, C:0.19, G:0.06, T:0.28
Consensus pattern (194 bp):
CATTAACTTAATGTTTCACATTTATCATATCACATATTACATTAAGGAGATAAAAACAACGAACC
TTACACATTACATTAAGGATATAAAAACAACAAACCTTACACATTACATTAAAGTGATAAAAATA
AAAAAACCTTACACAATCCTTAAACATTAAATAAAACCTAAACATATCACTATTCTCTGAAAGT
Found at i:812502 original size:28 final size:28
Alignment explanation
Indices: 812461--812516 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
812451 TTCTTTATAT
* *
812461 TTTCATGATTAACTTATCTAGTTGAATA
1 TTTCATGATCAACTCATCTAGTTGAATA
*
812489 TTTCATTATCAACTCATCTAGTTGAATA
1 TTTCATGATCAACTCATCTAGTTGAATA
812517 GTAGTCATGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.32, C:0.14, G:0.09, T:0.45
Consensus pattern (28 bp):
TTTCATGATCAACTCATCTAGTTGAATA
Found at i:814748 original size:12 final size:12
Alignment explanation
Indices: 814731--814768 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
814721 AAAAACCAAA
814731 TATATTTATTTT
1 TATATTTATTTT
814743 TATATTTATTTT
1 TATATTTATTTT
814755 T-TATCATTATTTT
1 TATAT--TTATTTT
814768 T
1 T
814769 GAACTTAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 3 0.12
12 13 0.54
13 8 0.33
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (12 bp):
TATATTTATTTT
Found at i:814757 original size:13 final size:13
Alignment explanation
Indices: 814731--814768 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
814721 AAAAACCAAA
814731 TATATTTA-TTTT
1 TATATTTATTTTT
814743 TATATTTATTTTT
1 TATATTTATTTTT
814756 TATCA-TTATTTTT
1 TAT-ATTTATTTTT
814769 GAACTTAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 8 0.33
13 15 0.62
14 1 0.04
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (13 bp):
TATATTTATTTTT
Found at i:815936 original size:26 final size:28
Alignment explanation
Indices: 815888--815941 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 28
815878 ATAAGAAATA
*
815888 TTTTATAATTTAAAAAATTAT-AATTTC
1 TTTTATAATTTAAAAAAGTATAAATTTC
815915 TTTTATAATTT-AAAAAGTATAAATTTC
1 TTTTATAATTTAAAAAAGTATAAATTTC
815942 ATATATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 8 0.32
27 17 0.68
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (28 bp):
TTTTATAATTTAAAAAAGTATAAATTTC
Found at i:815956 original size:27 final size:27
Alignment explanation
Indices: 815891--815957 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
815881 AGAAATATTT
* * *
815891 TATAATTTAAAAAATTATAATTTCTTT
1 TATAATTTAAAAAAGTATAATTTCATA
815918 TATAATTT-AAAAAGTATAAATTTCATA
1 TATAATTTAAAAAAGTAT-AATTTCATA
*
815945 TAT-TTTTAAAAAA
1 TATAATTTAAAAAA
815958 ATTATTCACT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
26 11 0.32
27 23 0.68
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.46
Consensus pattern (27 bp):
TATAATTTAAAAAAGTATAATTTCATA
Found at i:816215 original size:21 final size:21
Alignment explanation
Indices: 816191--816253 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
816181 TTATCTTTAC
*
816191 ATTCTTTTTTTATTGAATTTT
1 ATTCATTTTTTATTGAATTTT
* * **
816212 ATTCACTTTTAATTCTATTTT
1 ATTCATTTTTTATTGAATTTT
* *
816233 AAT-GTTTTTTATTGAATTTT
1 ATTCATTTTTTATTGAATTTT
816253 A
1 A
816254 AATATATGAG
Statistics
Matches: 31, Mismatches: 11, Indels: 1
0.72 0.26 0.02
Matches are distributed among these distances:
20 13 0.42
21 18 0.58
ACGTcount: A:0.24, C:0.06, G:0.05, T:0.65
Consensus pattern (21 bp):
ATTCATTTTTTATTGAATTTT
Found at i:824374 original size:50 final size:51
Alignment explanation
Indices: 824270--824383 Score: 153
Period size: 50 Copynumber: 2.3 Consensus size: 51
824260 ATAACTACTG
* * * *
824270 AATAAAATAATAATAAATTAAAGATAATGTTTTGATTATATCATAATTCCT
1 AATAAAATAATAATAAACTAAAGAAAATGTTTTAAATATATCATAATTCCT
824321 AATAAAATAATAATAAACTAAA-AAACAT-TTTTAAATATAT-ATTAATTCCT
1 AATAAAATAATAATAAACTAAAGAAA-ATGTTTTAAATATATCA-TAATTCCT
824371 AATAAAATAATAA
1 AATAAAATAATAA
824384 ATCAAATCCT
Statistics
Matches: 57, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
49 1 0.02
50 33 0.58
51 23 0.40
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.36
Consensus pattern (51 bp):
AATAAAATAATAATAAACTAAAGAAAATGTTTTAAATATATCATAATTCCT
Done.