Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008082.1 Hibiscus syriacus cultivar Beakdansim tig00110584_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: 6025995
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 28
Found at i:2101111 original size:15 final size:15
Alignment explanation
Indices: 2101086--2101117 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2101076 TAATACTCTT
2101086 ATTTTTAATATTATA
1 ATTTTTAATATTATA
*
2101101 ATTTTTAATATTTTA
1 ATTTTTAATATTATA
2101116 AT
1 AT
2101118 AATATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
ATTTTTAATATTATA
Found at i:2101454 original size:23 final size:23
Alignment explanation
Indices: 2101428--2101475 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
2101418 ATAAAGTACA
*
2101428 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
** *
2101451 ATAATGTAATAGGTAGCGTTTAT
1 ATAACATAATAGGTAGCGCTTAT
2101474 AT
1 AT
2101476 TGACCTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.35
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:2101981 original size:23 final size:23
Alignment explanation
Indices: 2101942--2102014 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
2101932 ATACTTTACA
* *
2101942 ATATAAGCACTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
* *
2101965 ATATAAACGTTATCTATTACATT
1 ATATAAACGCTACCTATTACATT
* *
2101988 ATATAAGCGCTACCTATTACATC
1 ATATAAACGCTACCTATTACATT
2102011 ATAT
1 ATAT
2102015 TTTTACCTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.37
Consensus pattern (23 bp):
ATATAAACGCTACCTATTACATT
Found at i:2102452 original size:482 final size:483
Alignment explanation
Indices: 2101549--2102836 Score: 2185
Period size: 482 Copynumber: 2.7 Consensus size: 483
2101539 TTATAATATG
*
2101549 TTGAAAGTGTCTATACTTTTTATAAAAATGATCGATACTTTTTTTTAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCTATACTTTTTATAAAAAGGATCGATAC-TTTTTTTAAAGTTATGTAATTTATGT
* *
2101614 TTCAATTTTTTAATAGTG-TTCA-GTTTT---TCTACCAATATTAATTTAATAATTTCATTTGCA
65 TTCAATTTTTT-TTAGTGTTTCATGTTTTCCACCTA-CAATATTAATTTAATAATTT-ATTTGCA
*
2101674 CAAAATATTATTTGATTGTTTTGATATTTTATAAAATA-ATTTTAGAATTTAAATTTAACAATAT
127 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATA-TTTAGAATTTAAATTTAACAATAT
2101738 AACC-AAGAT-ATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
191 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
*
2101801 TCGTAACGTAAAAATAAATCATTAGACGCATATAATTACTAAATTAATATCTTAAAACTCACTCA
256 CCGTAACGTAAAAATAAATCATTAGACGCATATAATTACTAAATTAATATCTTAAAACTCACTCA
* *
2101866 AAAGATAACTTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATA
321 AAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGAATA
* * *
2101931 GATACTTTACAATATAAGCACTACCTATTACATTATATAAACGTTATCTATTACATTATA-TAAG
386 AATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATTAA-
2101995 CGCTACCTATTACATCATATTTTTACCTATTATA
450 CGCTACCTATTACATCATATTTTTACCTATTATA
2102029 TTGAAAGTGTCTATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCTATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
2102094 TCAATTTTTTTTAGTTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTA-TTGCACAA
66 TCAATTTTTTTTAG-TGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTATTTGCACAA
2102158 AAAATTA-TTGATTGTTTTGATA-TTTATAAAATATATTTAGAATTTAAATTTAACAATATTAAC
130 AAAATTATTTGATTGTTTTGATATTTTATAAAATATATTTAGAATTTAAATTTAACAATA-TAAC
**
2102221 CAAAGATAATAATAAATATGTAATATATATGTTTATTGTCCTTAATTTAATAATAATATATACCG
194 CAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATACCG
2102286 TAACGTAAAAATAAATCATTAGACGCATATAATTACTAAATTAATATCTTAAAACTCACTCAAAA
259 TAACGTAAAAATAAATCATTAGACGCATATAATTACTAAATTAATATCTTAAAACTCACTCAAAA
* *
2102351 GATAACCTTAAATTAATGTTTTCCATAGTGAAAAAAGTATGGACACTTTTATAAAAATAATAAAT
324 GATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGAATAAAT
2102416 ACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATTAACGCT
389 ACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATTAACGCT
*
2102481 ACCTATTACATCATATTTTTACGTATTATA
454 ACCTATTACATCATATTTTTACCTATTATA
2102511 TTGAAAGTGTCTATACTTTTTATAAAAAGGATCGATAC-TTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCTATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
*
2102575 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAAT--TTCATTTGCACA
66 TCAATTTTTTT--TAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTATTTGCACA
*
2102638 AAAAATTATTTGATTGTTTTGATATTTTATAAAATAT-TATTAGTATTTAAATTTAACAATATAA
129 AAAAATTATTTGATTGTTTTGATATTTTATAAAATATAT-TTAGAATTTAAATTTAACAATATAA
2102702 CCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATACC
193 CCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATACC
* *
2102767 GTAACGTAAAAAATAAATCATTAGATGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
258 GTAACGT-AAAAATAAATCATTAGACGCATATAATTACTAAATTAATATCTTAAAACTCACTCAA
2102832 AAGAT
322 AAGAT
2102837 GTACATACCT
Statistics
Matches: 769, Mismatches: 21, Indels: 33
0.93 0.03 0.04
Matches are distributed among these distances:
478 3 0.00
479 73 0.09
480 65 0.08
481 76 0.10
482 430 0.56
483 119 0.15
484 3 0.00
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.42
Consensus pattern (483 bp):
TTGAAAGTGTCTATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
TCAATTTTTTTTAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTATTTGCACAAA
AAATTATTTGATTGTTTTGATATTTTATAAAATATATTTAGAATTTAAATTTAACAATATAACCA
AAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTA
ACGTAAAAATAAATCATTAGACGCATATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGA
TAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGAATAAATAC
TTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATTAACGCTAC
CTATTACATCATATTTTTACCTATTATA
Found at i:2102459 original size:23 final size:23
Alignment explanation
Indices: 2102424--2102496 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
2102414 ATACTTTACA
* *
2102424 ATATAAGCACTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
2102447 ATATAAACGCTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
* *
2102470 ATATTAACGCTACCTATTACATC
1 ATATAAACGCTACCTATTACATT
2102493 ATAT
1 ATAT
2102497 TTTTACGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.38, C:0.22, G:0.04, T:0.36
Consensus pattern (23 bp):
ATATAAACGCTACCTATTACATT
Found at i:2102497 original size:23 final size:23
Alignment explanation
Indices: 2102433--2102497 Score: 112
Period size: 23 Copynumber: 2.8 Consensus size: 23
2102423 AATATAAGCA
*
2102433 CTACCTATTACATTATATAAACG
1 CTACCTATTACATTATATTAACG
2102456 CTACCTATTACATTATATTAACG
1 CTACCTATTACATTATATTAACG
*
2102479 CTACCTATTACATCATATT
1 CTACCTATTACATTATATT
2102498 TTTACGTATT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.35, C:0.23, G:0.03, T:0.38
Consensus pattern (23 bp):
CTACCTATTACATTATATTAACG
Found at i:2105351 original size:183 final size:183
Alignment explanation
Indices: 2105043--2105611 Score: 1005
Period size: 183 Copynumber: 3.1 Consensus size: 183
2105033 TAAAATTACC
2105043 GACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTA
1 GACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTA
2105108 TACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGAC
66 TACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGAC
* * ***
2105173 ACTTTTTGACAAT-GCATCGACACATTTTTCTTCCAATCTGGACATAAAGTTTT
131 ACTTTTTTA-AATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACA
2105226 GACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTA
1 GACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTA
*
2105291 TACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGATTCCGATGTGTAAATGTCGAC
66 TACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGAC
*
2105356 ACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACC
131 ACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACA
* *
2105409 GACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAACCCGGTATATTTA
1 GACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTA
*
2105474 TACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGAT
66 TACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGAC
* *
2105539 ACTTTTTTAAATGGTATCGACACATTTTTCTTCTATTCTGGACATAAAGTACA
131 ACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACA
*
2105592 AACACAATATTAAAAAGTGT
1 GACACAATATTAAAAAGTGT
2105612 GAAAACTATG
Statistics
Matches: 370, Mismatches: 15, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
182 3 0.01
183 367 0.99
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (183 bp):
GACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTA
TACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGAC
ACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACA
Found at i:2106848 original size:18 final size:18
Alignment explanation
Indices: 2106822--2106910 Score: 115
Period size: 18 Copynumber: 4.9 Consensus size: 18
2106812 CTTGTTTGGT
*
2106822 TCATCATCATCATCATCA
1 TCATCATCATCGTCATCA
* * *
2106840 TCGTCATCATCTTCATCG
1 TCATCATCATCGTCATCA
* *
2106858 TCAGCTTCATCGTCATCA
1 TCATCATCATCGTCATCA
*
2106876 TCATCATCATCGTCATCT
1 TCATCATCATCGTCATCA
2106894 TCATCATCATCGTCATC
1 TCATCATCATCGTCATC
2106911 GTCAGCTTCA
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 60 1.00
ACGTcount: A:0.24, C:0.34, G:0.07, T:0.36
Consensus pattern (18 bp):
TCATCATCATCGTCATCA
Found at i:2106921 original size:12 final size:11
Alignment explanation
Indices: 2106850--2106922 Score: 55
Period size: 12 Copynumber: 6.6 Consensus size: 11
2106840 TCGTCATCAT
2106850 CTTCATCGTCA
1 CTTCATCGTCA
2106861 GCTTCATCGTCA
1 -CTTCATCGTCA
*
2106873 --TCATCATCA
1 CTTCATCGTCA
2106882 --TCATCGTCA
1 CTTCATCGTCA
*
2106891 TCTTCATCATCA
1 -CTTCATCGTCA
*
2106903 TCGTCATCGTCA
1 -CTTCATCGTCA
2106915 GCTTCATC
1 -CTTCATC
2106923 TTCATTGACC
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
9 16 0.31
12 35 0.69
ACGTcount: A:0.21, C:0.34, G:0.10, T:0.36
Consensus pattern (11 bp):
CTTCATCGTCA
Found at i:2106921 original size:18 final size:18
Alignment explanation
Indices: 2106826--2106927 Score: 98
Period size: 18 Copynumber: 5.7 Consensus size: 18
2106816 TTTGGTTCAT
* *
2106826 CATCATCATCATCATC-G
1 CATCATCGTCATCGTCAG
*
2106843 TCATCATCTTCATCGTCAG
1 -CATCATCGTCATCGTCAG
* * *
2106862 CTTCATCGTCATCATCAT
1 CATCATCGTCATCGTCAG
* *
2106880 CATCATCGTCATCTTCAT
1 CATCATCGTCATCGTCAG
2106898 CATCATCGTCATCGTCAG
1 CATCATCGTCATCGTCAG
* *
2106916 CTTCATCTTCAT
1 CATCATCGTCAT
2106928 TGACCGCTTG
Statistics
Matches: 71, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
18 70 0.99
19 1 0.01
ACGTcount: A:0.23, C:0.33, G:0.08, T:0.36
Consensus pattern (18 bp):
CATCATCGTCATCGTCAG
Found at i:2106927 original size:6 final size:6
Alignment explanation
Indices: 2106822--2106910 Score: 97
Period size: 6 Copynumber: 14.8 Consensus size: 6
2106812 CTTGTTTGGT
* * * * * *
2106822 TCATCA TCATCA TCATCA TCGTCA TCATCT TCATCG TCAGCT TCATCG
1 TCATCA TCATCA TCATCA TCATCA TCATCA TCATCA TCATCA TCATCA
* * *
2106870 TCATCA TCATCA TCATCG TCATCT TCATCA TCATCG TCATC
1 TCATCA TCATCA TCATCA TCATCA TCATCA TCATCA TCATC
2106911 GTCAGCTTCA
Statistics
Matches: 70, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 70 1.00
ACGTcount: A:0.24, C:0.34, G:0.07, T:0.36
Consensus pattern (6 bp):
TCATCA
Found at i:2108717 original size:200 final size:200
Alignment explanation
Indices: 2108374--2109546 Score: 2099
Period size: 200 Copynumber: 5.9 Consensus size: 200
2108364 TTTAAATTAG
* * * *
2108374 TATCGACA-AAACATTAAACAGTGTCGATACA-TATTATATACCA-ATTCTCTCATAAAACCGGT
1 TATCGACACAAAC-TAAAAAAGTGTCGACACATTATT-TAGA-CATATTCTCTCATAAAACCGGT
* * *
2108436 ATACTTGTACCGGTTAGATTGAAAAACTACATATTACATTGTACTTTTGGTTTTCGATGTTTATG
63 ATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTG
* *
2108501 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCAGCCTGTTTGCCATTCATTCTGG
128 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGG
2108566 ACCAAAAA
193 ACCAAAAA
* *
2108574 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACCTATTATCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* *
2108639 ATTGTACCAGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
2108704 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
2108769 AAAAA
196 AAAAA
2108774 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
2108839 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
*
2108904 TCGACAC-TTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTAGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
2108968 AAAAA
196 AAAAA
2108973 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
2109038 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATG-TTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
2109102 TCGACAC-TTTT-TATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
2109165 AAAAA
196 AAAAA
2109170 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
2109235 CTTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
* *
2109300 TCGACACTTTTTATATATGGATTGACACTTTATGGTTGCACCCTATTTTCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
2109365 AAAAA
196 AAAAA
*
2109370 TATCGACACAAACTAAAAATGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
2109435 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
*
2109500 TCGACACTTTTTATATATGGTTCGACACTTTATGGTTGCACCCTGTT
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
2109547 GGCCATATTG
Statistics
Matches: 940, Mismatches: 27, Indels: 12
0.96 0.03 0.01
Matches are distributed among these distances:
197 176 0.19
198 34 0.04
199 187 0.20
200 535 0.57
201 8 0.01
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (200 bp):
TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
AAAAA
Found at i:2109509 original size:596 final size:600
Alignment explanation
Indices: 2108374--2109546 Score: 2117
Period size: 596 Copynumber: 2.0 Consensus size: 600
2108364 TTTAAATTAG
* * * *
2108374 TATCGACAAAACATTAAACAGTGTCGATACATATTATATACCAATTCTCTCATAAAACCGGTATA
1 TATCGACAAAACATAAAAAAGTGTCGACACATATTATAGACCAATTCTCTCATAAAACCGGTATA
*
2108439 CTTGTACCGGTTAGATTGAAAAACTACATATTACATTGTACTTTTGGTTTTCGATGTTTATGGGA
66 CTTGTACCGGTTAGATTGAAAAACTACATATTACATTATACTTTTGGTTTTCGATGTTTATGGGA
*
2108504 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCAGCCTGTTTGCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACC
*
2108569 AAAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACCTATTATCTCATAAAACCG
196 AAAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTATCTCATAAAACCG
*
2108634 GTATAATTGTACCAGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTT
261 GTATAATTGTACCAGTTAGATTAAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTT
*
2108699 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCT
326 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTATTTTCCATTCATTCT
2108764 GGACCAAAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAA
391 GGACCAAAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAA
2108829 AACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGAT
456 AACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGAT
2108894 GTTTTTGGGATCGACAC-TTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTC
521 GTTTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTC
2108958 ATTCTAGACCAAAAA
586 ATTCTAGACCAAAAA
2108973 TATCGACACAAAC-TAAAAAAGTGTCGACACATTATT-TAGA-CATATTCTCTCATAAAACCGGT
1 TATCGACA-AAACATAAAAAAGTGTCGACACA-TATTATAGACCA-ATTCTCTCATAAAACCGGT
*
2109035 ATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTT-TG
63 ATACTTGTACCGGTTAGATTGAAAAACTACATATTACATTATACTTTTGGTTTTCGATGTTTATG
*
2109099 GGATCGACAC-TTTT-TATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGG
128 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGG
*
2109162 ACCAAAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAA
193 ACCAAAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTATCTCATAAAA
* *
2109227 CCGGTATACTTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGTTTTCGATGT
258 CCGGTATAATTGTACCAGTTAGATTAAAAAATTACATATTACATTATACTTTTGGTTTTCGATGT
*
2109292 TTTTGGGATCGACACTTTTTATATATGGATTGACACTTTATGGTTGCACCCTATTTTCCATTCAT
323 TTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTATTTTCCATTCAT
*
2109357 TCTGGACCAAAAATATCGACACAAACTAAAAATGTGTCGACACATTATTTAGACATATTCTCTCA
388 TCTGGACCAAAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCA
2109422 TAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTC
453 TAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTC
*
2109487 GATGTTTTTGGGATCGACACTTTTTATATATGGTTCGACACTTTATGGTTGCACCCTGTT
518 GATGTTTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
2109547 GGCCATATTG
Statistics
Matches: 553, Mismatches: 17, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
596 384 0.69
597 42 0.08
598 14 0.03
599 105 0.19
600 8 0.01
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (600 bp):
TATCGACAAAACATAAAAAAGTGTCGACACATATTATAGACCAATTCTCTCATAAAACCGGTATA
CTTGTACCGGTTAGATTGAAAAACTACATATTACATTATACTTTTGGTTTTCGATGTTTATGGGA
TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACC
AAAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTATCTCATAAAACCG
GTATAATTGTACCAGTTAGATTAAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTT
TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTATTTTCCATTCATTCT
GGACCAAAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAA
AACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGAT
GTTTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTC
ATTCTAGACCAAAAA
Found at i:2111523 original size:33 final size:33
Alignment explanation
Indices: 2111486--2111551 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
2111476 CATCTTAATA
*
2111486 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
2111519 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
2111552 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:2111610 original size:21 final size:21
Alignment explanation
Indices: 2111586--2111649 Score: 101
Period size: 21 Copynumber: 3.0 Consensus size: 21
2111576 CCCTTATGCA
* *
2111586 TCTCAAGTGTATCTTCGACTC
1 TCTCAAGTTTCTCTTCGACTC
2111607 TCTCAAGTTTCTCTTCGACTC
1 TCTCAAGTTTCTCTTCGACTC
*
2111628 TATCAAGTTTCTCTTCGACTC
1 TCTCAAGTTTCTCTTCGACTC
2111649 T
1 T
2111650 TGATTGTCTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.17, C:0.30, G:0.11, T:0.42
Consensus pattern (21 bp):
TCTCAAGTTTCTCTTCGACTC
Found at i:2112478 original size:129 final size:129
Alignment explanation
Indices: 2112248--2112512 Score: 521
Period size: 129 Copynumber: 2.1 Consensus size: 129
2112238 GCCAAATTGA
*
2112248 AATCCTAGATAACATGAAGTCCTGATTCAATTTTCCCTCACATCGTGTACACCTTGGATCGAAAA
1 AATCCTAAATAACATGAAGTCCTGATTCAATTTTCCCTCACATCGTGTACACCTTGGATCGAAAA
2112313 TTAGCCACTTGGAAGGTTCCATAGAGTTGGGACAATTTTGTATGAATCGCCACACCTGCAGTTT
66 TTAGCCACTTGGAAGGTTCCATAGAGTTGGGACAATTTTGTATGAATCGCCACACCTGCAGTTT
2112377 AATCCTAAATAACATGAAGTCCTGATTCAATTTTCCCTCACATCGTGTACACCTTGGATCGAAAA
1 AATCCTAAATAACATGAAGTCCTGATTCAATTTTCCCTCACATCGTGTACACCTTGGATCGAAAA
2112442 TTAGCCACTTGGAAGGTTCCATAGAGTTGGGACAATTTTGTATGAATCGCCACACCTGCAGTTT
66 TTAGCCACTTGGAAGGTTCCATAGAGTTGGGACAATTTTGTATGAATCGCCACACCTGCAGTTT
2112506 AATCCTA
1 AATCCTA
2112513 CGTTGACAAG
Statistics
Matches: 135, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
129 135 1.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (129 bp):
AATCCTAAATAACATGAAGTCCTGATTCAATTTTCCCTCACATCGTGTACACCTTGGATCGAAAA
TTAGCCACTTGGAAGGTTCCATAGAGTTGGGACAATTTTGTATGAATCGCCACACCTGCAGTTT
Found at i:2114689 original size:34 final size:38
Alignment explanation
Indices: 2114601--2114697 Score: 121
Period size: 39 Copynumber: 2.6 Consensus size: 38
2114591 TAACAAAGCA
*
2114601 TAACCGATTCATAACAGCTCAACACCTAAGCACAACAAC
1 TAACCGA-TCATAACAGCTCAGCACCTAAGCACAACAAC
**
2114640 TAACCGATTCATAACAGCTCAGCACCTAAGCACAGTAAC
1 TAACCGA-TCATAACAGCTCAGCACCTAAGCACAACAAC
2114679 T-ACC-A-C-TAACAGCTCAGCA
1 TAACCGATCATAACAGCTCAGCA
2114698 ACACTGCCTT
Statistics
Matches: 55, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
34 13 0.24
35 1 0.02
37 1 0.02
38 3 0.05
39 37 0.67
ACGTcount: A:0.40, C:0.33, G:0.10, T:0.16
Consensus pattern (38 bp):
TAACCGATCATAACAGCTCAGCACCTAAGCACAACAAC
Found at i:2126857 original size:26 final size:26
Alignment explanation
Indices: 2126803--2126857 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
2126793 TAACAATCCA
*
2126803 TAACCGATTCATAACAGCTCAGCAAC
1 TAACCGATTCATAACAGCTCAACAAC
* * *
2126829 TAACTGATTCATAACAGCTTAACACC
1 TAACCGATTCATAACAGCTCAACAAC
2126855 TAA
1 TAA
2126858 GCACAGTAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.40, C:0.27, G:0.09, T:0.24
Consensus pattern (26 bp):
TAACCGATTCATAACAGCTCAACAAC
Found at i:2130855 original size:576 final size:574
Alignment explanation
Indices: 2129717--2130875 Score: 1614
Period size: 576 Copynumber: 2.0 Consensus size: 574
2129707 TTCGACAATA
* * * *
2129717 CCATTTTGTTAAGGATTGTTAACACAAAAACTAATTTTCCCTATCCCATTTTCTCTAAAAAAAAC
1 CCATTTTGTTAAGGAGTGTCAACACAAAAACTAATTTGCACTATCCCATTTTCTCTAAAAAAAAC
*
2129782 TTTCAATGTTGTAGAAAAATACTCTCCCCCATTATCAGATTGAACAATTTGTATTTGAGTTTAAA
66 TTCCAATGTTGTAGAAAAATACTCTCCCCCATTATCAGATTGAACAATTTGTATTTGAGTTTAAA
* * * * *
2129847 ATTGGGTTTCAGCCATATAATAAAAACGTTTGGAGACATTTATAGTTTCTGAATTTTATTTTAGT
131 ATTGGGTTTCAGCCATAGAATAAAAACGTTTGAAGACATTAACAGTTTCTGAATTTTATTTTAAT
* *
2129912 AAGTAAGTCGAGGTACTTCGACTATGATCGTCAATAAAAGTGATAAACCATCTAAACAATTAATA
196 AAGTAAGTCAAGGTACTTCGAATATGATCGTCAATAAAAGTGATAAACCATCTAAACAATTAATA
* * * **
2129977 TTGTTGACTTTAGAAGGGATCCAAATATCACTATGTGTTAGGGAAAATAGTTTAGAGGGTGTATA
261 TTCTTGACTTTAGAAGGGATCCAAATATCACTATGTATTAGGGAAAACAACTTAGAGGGTGTATA
** * * * *
2130042 TATTGAAGTAAGATAATGACTTTTTGTGTGCTTAGCAAGTTGGCATATAGAACAATTAAAAGTAT
326 TATAAAAGCAAGATAATGACTTTTTGTGTGCTTAACAAGTTGGCAAATAGAACAATGAAAAGTAT
* *
2130107 TTGGTTTTTTTATTAATGAATAAATGTGAGAACAACTTGGCTAAATACAAAAAACTAGGGTAACC
391 TTGGTTTTTTTACTAATGAATAAATATGAGAACAACTTGGCTAAATACAAAAAACTAGGGTAACC
* *
2130172 CAACCAAAATGCCATAGCAACACATAATTAGAGTTTTCTAAAGTAGTAGAAAAATCTGAACAAAA
456 CAACCAAAATGCCATAGCAACACATAATTAGAGTTTTCTAAAGCAGTAGAAAAATCTGAAAAAAA
*
2130237 AATCAGTAGGATTATTTGGAGAAGATCGAATATGACGTGTTTGAAGAGTGTAAAGT
521 AATCAGTAGGATTATTTGAAGAAGA-C-AATATGACGTGTTTGAAGAGTGTAAAGT
* * * *
2130293 TCATTTTGTTGAGGAGTGTCAACACAAGAACTAATTTGCACTATCCC-TTTTCTGTAAAAAAAAA
1 CCATTTTGTTAAGGAGTGTCAACACAAAAACTAATTTGCACTATCCCATTTTCTCT--AAAAAAA
* * * *
2130357 AC-TCCCATTTTGTAGCAAAATACTCT-CCCCATTATCAGATTGAACAATTTGTATTTGAGTTTG
64 ACTTCCAATGTTGTAGAAAAATACTCTCCCCCATTATCAGATTGAACAATTTGTATTTGAGTTTA
* * * *
2130420 AAATTGGGTTTC-GATCATAGAATAAAAATGTTTGAAGACATTAACAGTTTCTGATTTTTCTTTT
129 AAATTGGGTTTCAG-CCATAGAATAAAAACGTTTGAAGACATTAACAGTTTCTGAATTTTATTTT
* * *
2130484 AATAAGTAAGTCAAGGTACTTTGAATATGATCGTCAATAAAAGTTATAAACCATCTACAACCATT
193 AATAAGTAAGTCAAGGTACTTCGAATATGATCGTCAATAAAAGTGATAAACCATCTA-AACAATT
*
2130549 AATATTCTTGACTTTAGAAGGGCA-CTAAATATCACTATGTATTAGGGAAAACAACTTAGAGGGG
257 AATATTCTTGACTTTAGAAGGG-ATCCAAATATCACTATGTATTAGGGAAAACAACTTAGA-GGG
* * *
2130613 TGTATATGTAAAAGCATGATAATGGCTTTTTGTGTGCTTAACAAGTTGGCAAATAGAACAATGAA
320 TGTATATATAAAAGCAAGATAATGACTTTTTGTGTGCTTAACAAGTTGGCAAATAGAACAATGAA
* * * *
2130678 AAGTATTTGG-TTTTTTACTAATGAATAAATATGGGAACAACTTGTCTAAATAGAAAATACTAGG
385 AAGTATTTGGTTTTTTTACTAATGAATAAATATGAGAACAACTTGGCTAAATACAAAAAACTAGG
* * * *
2130742 GTAACCCAACCGAAAGTGTCATATCAACACATCATTAGAGTTTTCTAAAGCAGTAGAAAAA-CTA
450 GTAACCCAACC-AAAATGCCATAGCAACACATAATTAGAGTTTTCTAAAGCAGTAGAAAAATCT-
* * ** *
2130806 GAAGAAAAAGAATCAGTATGATTATTTGAAGAGGA-AATATGTTGTGTTTGAAGAGTGTAGAGT
513 GAA-AAAAA-AATCAGTAGGATTATTTGAAGAAGACAATATGACGTGTTTGAAGAGTGTAAAGT
2130869 CCATTTT
1 CCATTTT
2130876 ATAGTCTAGC
Statistics
Matches: 512, Mismatches: 61, Indels: 20
0.86 0.10 0.03
Matches are distributed among these distances:
574 1 0.00
575 149 0.29
576 210 0.41
577 126 0.25
578 4 0.01
579 22 0.04
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (574 bp):
CCATTTTGTTAAGGAGTGTCAACACAAAAACTAATTTGCACTATCCCATTTTCTCTAAAAAAAAC
TTCCAATGTTGTAGAAAAATACTCTCCCCCATTATCAGATTGAACAATTTGTATTTGAGTTTAAA
ATTGGGTTTCAGCCATAGAATAAAAACGTTTGAAGACATTAACAGTTTCTGAATTTTATTTTAAT
AAGTAAGTCAAGGTACTTCGAATATGATCGTCAATAAAAGTGATAAACCATCTAAACAATTAATA
TTCTTGACTTTAGAAGGGATCCAAATATCACTATGTATTAGGGAAAACAACTTAGAGGGTGTATA
TATAAAAGCAAGATAATGACTTTTTGTGTGCTTAACAAGTTGGCAAATAGAACAATGAAAAGTAT
TTGGTTTTTTTACTAATGAATAAATATGAGAACAACTTGGCTAAATACAAAAAACTAGGGTAACC
CAACCAAAATGCCATAGCAACACATAATTAGAGTTTTCTAAAGCAGTAGAAAAATCTGAAAAAAA
AATCAGTAGGATTATTTGAAGAAGACAATATGACGTGTTTGAAGAGTGTAAAGT
Found at i:2131835 original size:112 final size:112
Alignment explanation
Indices: 2131628--2131837 Score: 311
Period size: 113 Copynumber: 1.9 Consensus size: 112
2131618 CCGAAGTGCT
* * *
2131628 GAAATGGTCATTCACCTTTTATGAATATCATGAGTGGCACCTTTTATGTCGATAATACACCGTTA
1 GAAATGGTAATTCACCTTTTATGAATATCATGAGTGGCACCCTTTATGCCGATAATACACCGTTA
2131693 TGCATTTAACAAAATATATCGATAATCTTTCATACACGAAGTATGTC
66 TGCATTTAACAAAATATATCGATAATCTTTCATACACGAAGTATGTC
* *
2131740 GAAATGGTAATTCACCTTTTTATGAATA-CTATGGGTGGCACCCTTTATGCCGATAATGA-ATCG
1 GAAATGGTAATTCACC-TTTTATGAATATC-ATGAGTGGCACCCTTTATGCCGATAAT-ACACCG
2131803 TTATGCA-TTAACAAAATCA-ATCGATAATCTTTCAT
63 TTATGCATTTAACAAAAT-ATATCGATAATCTTTCAT
2131838 TAGTGGCACC
Statistics
Matches: 89, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
112 42 0.47
113 46 0.52
114 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.35
Consensus pattern (112 bp):
GAAATGGTAATTCACCTTTTATGAATATCATGAGTGGCACCCTTTATGCCGATAATACACCGTTA
TGCATTTAACAAAATATATCGATAATCTTTCATACACGAAGTATGTC
Found at i:2135827 original size:3 final size:3
Alignment explanation
Indices: 2135819--2135901 Score: 148
Period size: 3 Copynumber: 27.3 Consensus size: 3
2135809 AGTCTAAAAA
2135819 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
2135867 ATT ATT ATT AATT ATT ATT ATT ATT ATT AAT ATT A
1 ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT A
2135902 CATATTACAT
Statistics
Matches: 77, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
3 74 0.96
4 3 0.04
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:2135975 original size:18 final size:20
Alignment explanation
Indices: 2135937--2135975 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
2135927 TACCGAAGCC
2135937 CAGATAACACTCAAGCCCAA
1 CAGATAACACTCAAGCCCAA
*
2135957 CAGATTACA-TCAA-CCCAA
1 CAGATAACACTCAAGCCCAA
2135975 C
1 C
2135976 CTTAAAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 4 0.22
20 8 0.44
ACGTcount: A:0.44, C:0.36, G:0.08, T:0.13
Consensus pattern (20 bp):
CAGATAACACTCAAGCCCAA
Found at i:2137199 original size:30 final size:30
Alignment explanation
Indices: 2137156--2137264 Score: 137
Period size: 30 Copynumber: 3.6 Consensus size: 30
2137146 TTAGTTTATG
* * * *
2137156 TTTTTGCTATTTTAATCCTTTAAATGTCTA
1 TTTTCGCTATTTTAGTCCTTTAAGTTTCTA
*
2137186 TTTTCGTTATTTTAGTCCTTTAAGTTTCTA
1 TTTTCGCTATTTTAGTCCTTTAAGTTTCTA
*
2137216 TTTTGGCTATTTTAGTCCTTTAAGTTTCTA
1 TTTTCGCTATTTTAGTCCTTTAAGTTTCTA
** *
2137246 TTTTTTCTATTTTGGTCCT
1 TTTTCGCTATTTTAGTCCT
2137265 CAAGTTTATG
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 69 1.00
ACGTcount: A:0.17, C:0.14, G:0.10, T:0.60
Consensus pattern (30 bp):
TTTTCGCTATTTTAGTCCTTTAAGTTTCTA
Found at i:2137212 original size:60 final size:59
Alignment explanation
Indices: 2137148--2137276 Score: 152
Period size: 60 Copynumber: 2.2 Consensus size: 59
2137138 TAGCCATTTT
* *
2137148 AGTTTATGTTTTTGCTATTTTAATCCTTTAAATGTCTATTTTCGT-TATTTTAGTCCTTTA
1 AGTTTATGTTTTGGCTATTTTAATCCTTTAAATGTCTATTTT-GTCTATTTTAGTCC-TCA
* * * * * * *
2137208 AGTTTCTATTTTGGCTATTTTAGTCCTTTAAGTTTCTATTTTTTCTATTTTGGTCCTCA
1 AGTTTATGTTTTGGCTATTTTAATCCTTTAAATGTCTATTTTGTCTATTTTAGTCCTCA
2137267 AGTTTATGTT
1 AGTTTATGTT
2137277 AATCATATGT
Statistics
Matches: 57, Mismatches: 11, Indels: 3
0.80 0.15 0.04
Matches are distributed among these distances:
59 11 0.19
60 46 0.81
ACGTcount: A:0.18, C:0.12, G:0.12, T:0.58
Consensus pattern (59 bp):
AGTTTATGTTTTGGCTATTTTAATCCTTTAAATGTCTATTTTGTCTATTTTAGTCCTCA
Found at i:2138047 original size:14 final size:15
Alignment explanation
Indices: 2138017--2138049 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
2138007 TTTTGTCTAA
2138017 AAAATGATTTTTCTT
1 AAAATGATTTTTCTT
*
2138032 AAAATTATTTTT-TT
1 AAAATGATTTTTCTT
2138046 AAAA
1 AAAA
2138050 GACGTTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (15 bp):
AAAATGATTTTTCTT
Found at i:2142608 original size:30 final size:32
Alignment explanation
Indices: 2142536--2142612 Score: 99
Period size: 31 Copynumber: 2.5 Consensus size: 32
2142526 CTTGAGGCAA
* *
2142536 TTTCTCTGGAAACACAAA--ATCTTTGAGTTTG
1 TTTCTCTTGAAACA-AAACCATCTTTGAGTTCG
2142567 TTTCTCTTGAAACAAAACCATCTTTGAG-TCG
1 TTTCTCTTGAAACAAAACCATCTTTGAGTTCG
2142598 TTTC-CTTGAAACAAA
1 TTTCTCTTGAAACAAA
2142613 TTTTGTCTCT
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
30 14 0.33
31 19 0.45
32 9 0.21
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.36
Consensus pattern (32 bp):
TTTCTCTTGAAACAAAACCATCTTTGAGTTCG
Found at i:2142997 original size:131 final size:132
Alignment explanation
Indices: 2142684--2143059 Score: 409
Period size: 131 Copynumber: 2.8 Consensus size: 132
2142674 CCATTATCCT
* * * * * * *
2142684 TAAATATGGCATGTCATCCTCATCACATAGGAACCGTGTCATCCCCCAACCAAACCTCCTCATCA
1 TAAAGATGGCATGACGTCATCATCACGTAGGAACCGTGTCATCCCCCGACCAGACCTCCTCATCA
* * * ** *
2142749 CGTAGGAGTAGTGTCACCCCTT--ATAACCAGCCGTCATCATTGCGTAGGAATCGTGTTATCACC
66 CATAGGAGTCGTGTCA-CCCTTAGATAACCAGACGTCATCATCACGTAGGAACCGTGTTATCA--
2142812 CTCCC
128 CTCCC
* * * *
2142817 TAAAGATGGCATGACGTCCTCATCAAGTAGGAACTGTGTCATCCCCCGACCAGACCTCCTCATCG
1 TAAAGATGGCATGACGTCATCATCACGTAGGAACCGTGTCATCCCCCGACCAGACCTCCTCATCA
* * * * *
2142882 CATAGGAGCCGTGTCACCCTTAGATAAACAGTCGTCCTCATCACGTAGGAACCGTGTTATCA-TT
66 CATAGGAGTCGTGTCACCCTTAGATAACCAGACGTCATCATCACGTAGGAACCGTGTTATCACTC
2142946 CC
131 CC
* * * * *
2142948 TAAAGATGATC-TGCCGTCATCATCACGTAGGAACCGTGTAATCCACCGACCAGATCTCCTCATC
1 TAAAGATG-GCATGACGTCATCATCACGTAGGAACCGTGTCATCCCCCGACCAGACCTCCTCATC
* * * *
2143012 TCATAGGAGTCGTGTCACCCTTAGACAACCAGACCTCTTCATCACGTA
65 ACATAGGAGTCGTGTCACCCTTAGATAACCAGACGTCATCATCACGTA
2143060 TGAGTCGTGT
Statistics
Matches: 206, Mismatches: 34, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
131 98 0.48
132 6 0.03
133 69 0.33
134 33 0.16
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (132 bp):
TAAAGATGGCATGACGTCATCATCACGTAGGAACCGTGTCATCCCCCGACCAGACCTCCTCATCA
CATAGGAGTCGTGTCACCCTTAGATAACCAGACGTCATCATCACGTAGGAACCGTGTTATCACTC
CC
Found at i:2143231 original size:3 final size:3
Alignment explanation
Indices: 2143223--2143278 Score: 60
Period size: 3 Copynumber: 17.7 Consensus size: 3
2143213 TCTACAAAAA
2143223 TAT TAT TAT TAT TAT TA- TATT TATT TATT TATT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TA-T TA-T TA-T TA-T TAT TAT TAT TAT TAT
*
2143271 TAA TAT TA
1 TAT TAT TA
2143279 CATATTACAT
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
2 2 0.04
3 33 0.67
4 14 0.29
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:2144710 original size:30 final size:30
Alignment explanation
Indices: 2144685--2144754 Score: 104
Period size: 30 Copynumber: 2.3 Consensus size: 30
2144675 GTTTTTGTTG
2144685 TTTTAGTCCTTTAAGTTTCCATTTTTTCTA
1 TTTTAGTCCTTTAAGTTTCCATTTTTTCTA
***
2144715 TTTTAGTCCTTTAAGTTTTTGTTTTTTCTA
1 TTTTAGTCCTTTAAGTTTCCATTTTTTCTA
*
2144745 TTTTGGTCCT
1 TTTTAGTCCT
2144755 CACGTTTCTG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.13, C:0.14, G:0.10, T:0.63
Consensus pattern (30 bp):
TTTTAGTCCTTTAAGTTTCCATTTTTTCTA
Found at i:2144761 original size:29 final size:30
Alignment explanation
Indices: 2144685--2144766 Score: 94
Period size: 30 Copynumber: 2.8 Consensus size: 30
2144675 GTTTTTGTTG
* **
2144685 TTTTAGTCCTTTAAGTTTCCATTTTTTCTA
1 TTTTAGTCCTTCAAGTTTCTGTTTTTTCTA
* *
2144715 TTTTAGTCCTTTAAGTTTTTGTTTTTTCTA
1 TTTTAGTCCTTCAAGTTTCTGTTTTTTCTA
* *
2144745 TTTTGGTCC-TCACGTTTCTGTT
1 TTTTAGTCCTTCAAGTTTCTGTT
2144767 AATCATATGT
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
29 10 0.22
30 35 0.78
ACGTcount: A:0.12, C:0.16, G:0.11, T:0.61
Consensus pattern (30 bp):
TTTTAGTCCTTCAAGTTTCTGTTTTTTCTA
Found at i:2145906 original size:41 final size:42
Alignment explanation
Indices: 2145840--2145924 Score: 118
Period size: 41 Copynumber: 2.0 Consensus size: 42
2145830 CACATAGGGT
*
2145840 TATAATATTATTATTTTAATTAGTAATTAATATAATTAATAA
1 TATAATATTATTATTTTAATAAGTAATTAATATAATTAATAA
* * * *
2145882 TATATTATTCTTA-TTTAATAAGTAATTTATATAATTTATAA
1 TATAATATTATTATTTTAATAAGTAATTAATATAATTAATAA
2145923 TA
1 TA
2145925 ACTTTATTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
41 27 0.71
42 11 0.29
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (42 bp):
TATAATATTATTATTTTAATAAGTAATTAATATAATTAATAA
Found at i:2149143 original size:36 final size:36
Alignment explanation
Indices: 2149102--2149170 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
2149092 AAAAACAACC
* *
2149102 ATTGAACACGAATCAAACCCAAGTTCATTTACAGCA
1 ATTGAACACAAATCAAACCCAAATTCATTTACAGCA
2149138 ATTGAACACAAATCAAACCCAAATTCATTTACA
1 ATTGAACACAAATCAAACCCAAATTCATTTACA
2149171 CAGCCTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.45, C:0.25, G:0.07, T:0.23
Consensus pattern (36 bp):
ATTGAACACAAATCAAACCCAAATTCATTTACAGCA
Found at i:2157957 original size:20 final size:19
Alignment explanation
Indices: 2157925--2157980 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
2157915 GTTGAAACTC
2157925 AAAGTTTCAAAACTATAAG
1 AAAGTTTCAAAACTATAAG
* * *
2157944 AAATGTTTCGAAACTTTTATG
1 AAA-GTTTCAAAAC-TATAAG
2157965 AAAGTTTCAAAACTAT
1 AAAGTTTCAAAACTAT
2157981 TGACAATATT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
19 5 0.17
20 18 0.60
21 7 0.23
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.34
Consensus pattern (19 bp):
AAAGTTTCAAAACTATAAG
Found at i:2179999 original size:19 final size:20
Alignment explanation
Indices: 2179975--2180014 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
2179965 TATCCTTTCT
2179975 TTATTTCATTTCATT-CTTA
1 TTATTTCATTTCATTACTTA
*
2179994 TTATTTCTTTTCATTACTTA
1 TTATTTCATTTCATTACTTA
2180014 T
1 T
2180015 ATTATTATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.20, C:0.15, G:0.00, T:0.65
Consensus pattern (20 bp):
TTATTTCATTTCATTACTTA
Found at i:2180314 original size:13 final size:13
Alignment explanation
Indices: 2180298--2180342 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
2180288 AGAAAAAGAC
*
2180298 AAAAAAAGAAGAG
1 AAAAAAAGAAAAG
*
2180311 AAAAATCAGAAAAG
1 AAAAA-AAGAAAAG
*
2180325 AATAAAAGAAAAG
1 AAAAAAAGAAAAG
2180338 AAAAA
1 AAAAA
2180343 GAATTCAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
13 16 0.62
14 10 0.38
ACGTcount: A:0.78, C:0.02, G:0.16, T:0.04
Consensus pattern (13 bp):
AAAAAAAGAAAAG
Found at i:2184605 original size:19 final size:20
Alignment explanation
Indices: 2184581--2184620 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
2184571 TATCTTTTCT
2184581 TTATTTCATTTCATT-CTTA
1 TTATTTCATTTCATTACTTA
*
2184600 TTATTTCTTTTCATTACTTA
1 TTATTTCATTTCATTACTTA
2184620 T
1 T
2184621 ATTATTATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.20, C:0.15, G:0.00, T:0.65
Consensus pattern (20 bp):
TTATTTCATTTCATTACTTA
Found at i:2189650 original size:110 final size:111
Alignment explanation
Indices: 2189421--2189759 Score: 511
Period size: 110 Copynumber: 3.1 Consensus size: 111
2189411 AAAAATATTT
* * *
2189421 ATACTTTCAACATATCAGGTAAATTTTACCGGTTTTGTCATAATGAAACTGATTTTTTCATATTT
1 ATACTTTCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGGTTTTGTCATATTT
* * * *
2189486 TTATCTGTTATATTGTAAAGTATATATCCTTTTTATAAAAAGATCG
66 TTACCTGTTATATTGTAAAGTATCTATACTTTTTATAAAAGGATCG
*
2189532 ATACTTTCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGGTTTTGTAATA-TT
1 ATACTTTCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGGTTTTGTCATATTT
2189596 TTACCTGTTATATTGTAAAGTATCTATACTTTTTATAAAAGGATCG
66 TTACCTGTTATATTGTAAAGTATCTATACTTTTTATAAAAGGATCG
* * * *
2189642 ATAGTTTCAACATATTAGGTAAATTTTACCCTTTTTGTCATATTGAAACTGGTTTTGTCATATTT
1 ATACTTTCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGGTTTTGTCATATTT
** * *
2189707 TTACCTGTTATATTGTAAAACATCGATACATTTTTAT-AAAGTATCG
66 TTACCTGTTATATTGTAAAGTATCTATAC-TTTTTATAAAAGGATCG
2189753 ATACTTT
1 ATACTTT
2189760 ATAGGTGCTA
Statistics
Matches: 208, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
110 101 0.49
111 100 0.48
112 7 0.03
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.45
Consensus pattern (111 bp):
ATACTTTCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGGTTTTGTCATATTT
TTACCTGTTATATTGTAAAGTATCTATACTTTTTATAAAAGGATCG
Found at i:2190339 original size:26 final size:27
Alignment explanation
Indices: 2190310--2190362 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 27
2190300 TGTAGGTGGA
*
2190310 AAACATGAA-ACACTATTAAAAAATTG
1 AAACATAAATACACTATTAAAAAATTG
2190336 AAACATAAATTACACTATTAAAAAATT
1 AAACATAAA-TACACTATTAAAAAATT
2190363 AAAAACAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 8 0.33
28 16 0.67
ACGTcount: A:0.58, C:0.11, G:0.04, T:0.26
Consensus pattern (27 bp):
AAACATAAATACACTATTAAAAAATTG
Found at i:2190527 original size:112 final size:111
Alignment explanation
Indices: 2190390--2190787 Score: 577
Period size: 111 Copynumber: 3.6 Consensus size: 111
2190380 TTTTATCGGG
* * *
2190390 TTTGTCATA-TTTTACATGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGGATCGATACTTT
1 TTTGTCATATTTTTACCTGTTATATTGTAAAGTATCGATCATTTTTATAAAAGGATCGATACTTT
* * *
2190454 CAACATATAAGGTAAATTTTACCATTTTTTGTCATAATTAAACTGGT
66 CAACATATCAGGTAAATTTTACCA-TTTTTGTCATAATGAAACTAGT
* **
2190501 TTTATCATATTTTTACCTGTTATATTGTAAAGTATATATCATTTTTATAAAAGGATCGATACTTT
1 TTTGTCATATTTTTACCTGTTATATTGTAAAGTATCGATCATTTTTATAAAAGGATCGATACTTT
*
2190566 CAACATATCAGGTAAATTTTACCATTTTTGTCATAATGAAACTAAT
66 CAACATATCAGGTAAATTTTACCATTTTTGTCATAATGAAACTAGT
* * *
2190612 TTTGTCATATTTTTAACTGTTATATTGCAAAGT-TCGATCATTTTTATAAAAAAGATCGATACTT
1 TTTGTCATATTTTTACCTGTTATATTGTAAAGTATCGATCATTTTTAT-AAAAGGATCGATACTT
** * *
2190676 TCAACATATCAGGTAAATTTTACCGGTTTTGTCATAATGAAATTTGT
65 TCAACATATCAGGTAAATTTTACCATTTTTGTCATAATGAAACTAGT
* *
2190723 TTTGTCATATTTTTACCTGTTATATTGTAAAATATCGATACATTTTTAT-AAAGTATCGATACTT
1 TTTGTCATATTTTTACCTGTTATATTGTAAAGTATCGAT-CATTTTTATAAAAGGATCGATACTT
2190787 T
65 T
2190788 ATAGGCGCTA
Statistics
Matches: 259, Mismatches: 24, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
110 12 0.05
111 158 0.61
112 80 0.31
113 9 0.03
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.45
Consensus pattern (111 bp):
TTTGTCATATTTTTACCTGTTATATTGTAAAGTATCGATCATTTTTATAAAAGGATCGATACTTT
CAACATATCAGGTAAATTTTACCATTTTTGTCATAATGAAACTAGT
Found at i:2191230 original size:133 final size:133
Alignment explanation
Indices: 2191091--2191359 Score: 407
Period size: 133 Copynumber: 2.0 Consensus size: 133
2191081 TCTATTTTAA
* *
2191091 TATATAAGCGCTACATACTACGTTTTATAAG-AGCTACCTAATATGTTATTGTGCTTAATAATGT
1 TATATAAGCGCTACATACTACATTATATAAGCA-CTACCTAATATGTTATTGTGCTTAATAATGT
* *
2191155 TT-CTAGTAATTAACATATTTTATTATATAAGAGCTACCTATTACATTATATAAGCGCTACCTAT
65 TTAC-AGTAATTAACATATTTTATTATATAAGAGCTACATATTACATTATATAAGCGCTACCTAA
2191219 TACAT
129 TACAT
* * * *
2191224 TATATAAGCGCTACCTATTACATTATATAAGCACTACCTAATATGTTATTGTGTTTGATAATGTT
1 TATATAAGCGCTACATACTACATTATATAAGCACTACCTAATATGTTATTGTGCTTAATAATGTT
* *
2191289 TACAGTAATTAACATATTTTATTATATAAGCGCTACATATTACATTATATAAGCGGTACCTAATA
66 TACAGTAATTAACATATTTTATTATATAAGAGCTACATATTACATTATATAAGCGCTACCTAATA
*
2191354 TAT
131 CAT
2191357 TAT
1 TAT
2191360 TGTGTTTGAT
Statistics
Matches: 123, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
133 121 0.98
134 2 0.02
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.40
Consensus pattern (133 bp):
TATATAAGCGCTACATACTACATTATATAAGCACTACCTAATATGTTATTGTGCTTAATAATGTT
TACAGTAATTAACATATTTTATTATATAAGAGCTACATATTACATTATATAAGCGCTACCTAATA
CAT
Found at i:2191243 original size:46 final size:46
Alignment explanation
Indices: 2191176--2191263 Score: 158
Period size: 46 Copynumber: 1.9 Consensus size: 46
2191166 AACATATTTT
*
2191176 ATTATATAAGAGCTACCTATTACATTATATAAGCGCTACCTATTAC
1 ATTATATAAGAGCTACCTATTACATTATATAAGCACTACCTATTAC
*
2191222 ATTATATAAGCGCTACCTATTACATTATATAAGCACTACCTA
1 ATTATATAAGAGCTACCTATTACATTATATAAGCACTACCTA
2191264 ATATGTTATT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.38, C:0.20, G:0.08, T:0.34
Consensus pattern (46 bp):
ATTATATAAGAGCTACCTATTACATTATATAAGCACTACCTATTAC
Found at i:2191272 original size:23 final size:23
Alignment explanation
Indices: 2191176--2191263 Score: 142
Period size: 23 Copynumber: 3.8 Consensus size: 23
2191166 AACATATTTT
2191176 ATTATATAAG-AGCTACCTATTAC
1 ATTATATAAGCA-CTACCTATTAC
*
2191199 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCACTACCTATTAC
*
2191222 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCACTACCTATTAC
2191245 ATTATATAAGCACTACCTA
1 ATTATATAAGCACTACCTA
2191264 ATATGTTATT
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
23 62 1.00
ACGTcount: A:0.38, C:0.20, G:0.08, T:0.34
Consensus pattern (23 bp):
ATTATATAAGCACTACCTATTAC
Found at i:2191335 original size:23 final size:23
Alignment explanation
Indices: 2191300--2191343 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
2191290 ACAGTAATTA
**
2191300 ACATATTTTATTATATAAGCGCT
1 ACATATTACATTATATAAGCGCT
2191323 ACATATTACATTATATAAGCG
1 ACATATTACATTATATAAGCG
2191344 GTACCTAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.39
Consensus pattern (23 bp):
ACATATTACATTATATAAGCGCT
Found at i:2191358 original size:23 final size:23
Alignment explanation
Indices: 2191308--2191359 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
2191298 TAACATATTT
*
2191308 TATTATATAAGCGCTACATATTA
1 TATTATATAAGCGCTACATAATA
* * *
2191331 CATTATATAAGCGGTACCTAATA
1 TATTATATAAGCGCTACATAATA
2191354 TATTAT
1 TATTAT
2191360 TGTGTTTGAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.38
Consensus pattern (23 bp):
TATTATATAAGCGCTACATAATA
Found at i:2194640 original size:13 final size:14
Alignment explanation
Indices: 2194616--2194650 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
2194606 TCAAAGGAAA
*
2194616 TCAACGGCCAACGG
1 TCAACGGTCAACGG
2194630 TC-ACGGTCAACGG
1 TCAACGGTCAACGG
2194643 TCAACGGT
1 TCAACGGT
2194651 TGGGTCGGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.26, C:0.31, G:0.29, T:0.14
Consensus pattern (14 bp):
TCAACGGTCAACGG
Found at i:2194663 original size:17 final size:17
Alignment explanation
Indices: 2194641--2194673 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2194631 CACGGTCAAC
*
2194641 GGTCAACGGTTGGGTCG
1 GGTCAACGGTCGGGTCG
2194658 GGTCAACGGTCGGGTC
1 GGTCAACGGTCGGGTC
2194674 CCGTCGGTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.12, C:0.21, G:0.45, T:0.21
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:2194668 original size:7 final size:7
Alignment explanation
Indices: 2194616--2194650 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
2194606 TCAAAGGAAA
2194616 TCAACGG
1 TCAACGG
*
2194623 CCAACGG
1 TCAACGG
2194630 TC-ACGG
1 TCAACGG
2194636 TCAACGG
1 TCAACGG
2194643 TCAACGG
1 TCAACGG
2194650 T
1 T
2194651 TGGGTCGGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.26, C:0.31, G:0.29, T:0.14
Consensus pattern (7 bp):
TCAACGG
Found at i:2194720 original size:10 final size:10
Alignment explanation
Indices: 2194707--2194759 Score: 54
Period size: 10 Copynumber: 5.3 Consensus size: 10
2194697 GGTCAGATCG
2194707 GGTCAAAACT
1 GGTCAAAACT
* *
2194717 GGTCGAAACC
1 GGTCAAAACT
* *
2194727 AGTCAAAACC
1 GGTCAAAACT
2194737 GGTTCAAAACT
1 GG-TCAAAACT
2194748 GGTC-AAACT
1 GGTCAAAACT
2194757 GGT
1 GGT
2194760 TTTCAGCCAC
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
9 8 0.22
10 19 0.53
11 9 0.25
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.19
Consensus pattern (10 bp):
GGTCAAAACT
Found at i:2200241 original size:17 final size:18
Alignment explanation
Indices: 2200219--2200252 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2200209 TTACTACAGA
2200219 AGATAA-AACTTAGAGTT
1 AGATAAGAACTTAGAGTT
*
2200236 AGATAAGAACTTGGAGT
1 AGATAAGAACTTAGAGT
2200253 CTCGAACACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.44, C:0.06, G:0.24, T:0.26
Consensus pattern (18 bp):
AGATAAGAACTTAGAGTT
Found at i:2204047 original size:17 final size:18
Alignment explanation
Indices: 2204025--2204066 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
2204015 ATATGTATAT
2204025 AATTATTT-ATAAAATTA
1 AATTATTTAATAAAATTA
*
2204042 AATTATTTAATAAATTTA
1 AATTATTTAATAAAATTA
2204060 AA-TATTT
1 AATTATTT
2204067 TTTCATTCGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
AATTATTTAATAAAATTA
Found at i:2208349 original size:173 final size:167
Alignment explanation
Indices: 2208038--2208489 Score: 506
Period size: 173 Copynumber: 2.6 Consensus size: 167
2208028 GATCCAAATT
* * * * *
2208038 AAAATGTGTCGATCCAAAACGATATAAAGGTAAAACTATGACAAA-C-TATAGAAATGATAAAAC
1 AAAATGTATCGATCCAAAACGATATACAGGTAAAAATATGATAAATCGTAT-CAAATGATAAAAC
* * *
2208101 CGGTAAAGCGCTATCGGATACATTTAAAGTGTC-AGT-CTTTAATATAAGGATCGACACTTCGTG
65 CGGTAAA-CGATACCGGATATATTT-AAGTGTCGA-TAC-TT--TATAAGGATCGACACTTCGTG
* *
2208164 AATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTATCAATACTTTTA
124 AATTTAAAAGAGAAACAGTTTTAAAGCCTAT--A--ATCAATAC-TTTA
*
2208213 AAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAATCGGTATCAAATAATAAAA
1 AAAATGTATCGATCCAAAACGATATA-CAGGTAAAAATATGATAAATC-GTATCAAATGATAAAA
* *
2208278 CCGGTAAACGTTACCGGATATATTTAAGTGTCGATACTTTATAAGG-TCGACACTTTGTGAATTT
64 CCGGTAAACGATACCGGATATATTTAAGTGTCGATACTTTATAAGGATCGACACTTCGTGAATTT
** *
2208342 AAAAGAGAAACAGTTTTAGCGCCTATAATCGATACTTTA
129 AAAAGAGAAACAGTTTTAAAGCCTATAATCAATACTTTA
* *
2208381 AAAATATATCGATCCACAACGATATAACAGGT-AAAA-AT-ATAAATCGTATCAAAATGATAAAA
1 AAAATGTATCGATCCAAAACGATAT-ACAGGTAAAAATATGATAAATCGTATC-AAATGATAAAA
* *
2208443 CCGGTAAAATGATACCGGATATATTAAAGTGTCGATACTTTCATAAG
64 CCGGT-AAACGATACCGGATATATTTAAGTGTCGATACTTT-ATAAG
2208490 TACGTGAATA
Statistics
Matches: 246, Mismatches: 21, Indels: 28
0.83 0.07 0.09
Matches are distributed among these distances:
164 5 0.02
165 22 0.09
166 34 0.14
167 9 0.04
168 32 0.13
169 8 0.03
171 1 0.00
173 39 0.16
174 7 0.03
175 25 0.10
176 26 0.11
177 17 0.07
178 18 0.07
179 3 0.01
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.28
Consensus pattern (167 bp):
AAAATGTATCGATCCAAAACGATATACAGGTAAAAATATGATAAATCGTATCAAATGATAAAACC
GGTAAACGATACCGGATATATTTAAGTGTCGATACTTTATAAGGATCGACACTTCGTGAATTTAA
AAGAGAAACAGTTTTAAAGCCTATAATCAATACTTTA
Found at i:2210605 original size:21 final size:20
Alignment explanation
Indices: 2210578--2210629 Score: 88
Period size: 21 Copynumber: 2.6 Consensus size: 20
2210568 AAAGACAATC
2210578 AAGAGTCGAAGAGAAACTTG
1 AAGAGTCGAAGAGAAACTTG
2210598 ATAGAGTCGAAGAGAAACTTG
1 A-AGAGTCGAAGAGAAACTTG
2210619 -AGAGTCGAAGA
1 AAGAGTCGAAGA
2210630 TACACTTGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 11 0.35
20 1 0.03
21 19 0.61
ACGTcount: A:0.44, C:0.10, G:0.31, T:0.15
Consensus pattern (20 bp):
AAGAGTCGAAGAGAAACTTG
Found at i:2210624 original size:19 final size:19
Alignment explanation
Indices: 2210579--2210641 Score: 90
Period size: 19 Copynumber: 3.2 Consensus size: 19
2210569 AAGACAATCA
2210579 AGAGTCGAAGAGAAACTTG
1 AGAGTCGAAGAGAAACTTG
2210598 ATAGAGTCGAAGAGAAACTTG
1 --AGAGTCGAAGAGAAACTTG
* *
2210619 AGAGTCGAAGATACACTTG
1 AGAGTCGAAGAGAAACTTG
2210638 AGAG
1 AGAG
2210642 GCATAAGGGG
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
19 21 0.52
21 19 0.47
ACGTcount: A:0.41, C:0.11, G:0.30, T:0.17
Consensus pattern (19 bp):
AGAGTCGAAGAGAAACTTG
Found at i:2210713 original size:33 final size:33
Alignment explanation
Indices: 2210671--2210739 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
2210661 GAAAAGTAGA
*
2210671 TGAAGTGGTGAAAGAAGTAGAGGTGTTGAGGGG
1 TGAAGTGGTGAAAGAAGTAGAGGTGTTAAGGGG
* *
2210704 TGAAGTGGTGAAAGAAGTTGGGGTGTTAAGGGG
1 TGAAGTGGTGAAAGAAGTAGAGGTGTTAAGGGG
2210737 TGA
1 TGA
2210740 TATTAAGATG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
TGAAGTGGTGAAAGAAGTAGAGGTGTTAAGGGG
Found at i:2215011 original size:45 final size:46
Alignment explanation
Indices: 2214916--2215022 Score: 155
Period size: 45 Copynumber: 2.3 Consensus size: 46
2214906 TGCACATACC
* **
2214916 ATGCATCAATGCACTCAGGGTTTTATGAAAACATCGAATGCATTTG
1 ATGCATCGATGCACTCAGACTTTTATGAAAACATCGAATGCATTTG
*
2214962 ATGCATCGATGCACTCAGACTATTT-TG-AAACATCGAATGCATTTT
1 ATGCATCGATGCACTCAGACT-TTTATGAAAACATCGAATGCATTTG
2215007 ATGCATCGATGCACTC
1 ATGCATCGATGCACTC
2215023 TTAGTGCACC
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
45 33 0.59
46 20 0.36
47 3 0.05
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.31
Consensus pattern (46 bp):
ATGCATCGATGCACTCAGACTTTTATGAAAACATCGAATGCATTTG
Found at i:2215110 original size:53 final size:53
Alignment explanation
Indices: 2215027--2215141 Score: 203
Period size: 53 Copynumber: 2.2 Consensus size: 53
2215017 GCACTCTTAG
*
2215027 TGCACCGATGCACTAAGGGTCCAACAGTCAAAATATTTGAATTTTACACTTGA
1 TGCACCGATACACTAAGGGTCCAACAGTCAAAATATTTGAATTTTACACTTGA
* *
2215080 TGCACCGATATACTAAGGGTCCAACGGTCAAAATATTTGAATTTTACACTTGA
1 TGCACCGATACACTAAGGGTCCAACAGTCAAAATATTTGAATTTTACACTTGA
2215133 TGCACCGAT
1 TGCACCGAT
2215142 GCACCTTGGG
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 59 1.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (53 bp):
TGCACCGATACACTAAGGGTCCAACAGTCAAAATATTTGAATTTTACACTTGA
Found at i:2220939 original size:28 final size:27
Alignment explanation
Indices: 2220857--2220939 Score: 77
Period size: 28 Copynumber: 3.1 Consensus size: 27
2220847 ATTTTTATTT
2220857 AATATTTAATAATTTATC-AATTTGAAAA
1 AATATTTAATAATTTATCAAATTTG--AA
* *
2220885 AATATTTATTTTATTT-T-AAATTT--A
1 AATATTTA-ATAATTTATCAAATTTGAA
2220909 AATATTTAATAATTTATCAAACTTTGAA
1 AATATTTAATAATTTATCAAA-TTTGAA
2220937 AAT
1 AAT
2220940 GGTTATTAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 14
0.71 0.06 0.23
Matches are distributed among these distances:
23 5 0.11
24 10 0.23
25 3 0.07
26 3 0.07
28 18 0.41
29 5 0.11
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (27 bp):
AATATTTAATAATTTATCAAATTTGAA
Found at i:2220939 original size:52 final size:51
Alignment explanation
Indices: 2220824--2220939 Score: 153
Period size: 52 Copynumber: 2.2 Consensus size: 51
2220814 TTATTTATTT
*
2220824 ATTTGAAACATATATTCATTTTTATTTTTATTTAATATTTAATAATTTATCA
1 ATTTGAAA-ATATATTCATTTTTATTTTAATTTAATATTTAATAATTTATCA
* *
2220876 ATTTGAAAAAATATTTA-TTTTATTTTAAATTTAAATATTTAATAATTTATCAA
1 ATTTGAAAATATATTCATTTTTATTTT-AATTT-AATATTTAATAATTTATC-A
2220929 ACTTTGAAAAT
1 A-TTTGAAAAT
2220940 GGTTATTAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
50 9 0.16
51 11 0.20
52 26 0.46
53 2 0.04
54 8 0.14
ACGTcount: A:0.41, C:0.04, G:0.03, T:0.52
Consensus pattern (51 bp):
ATTTGAAAATATATTCATTTTTATTTTAATTTAATATTTAATAATTTATCA
Found at i:2220989 original size:31 final size:31
Alignment explanation
Indices: 2220944--2221014 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
2220934 GAAAATGGTT
* * * *
2220944 ATTAAATATT-TTGAACTATTACAAAATCGTC
1 ATTAAAT-TTATTGAACAATAAAAAAATCATC
*
2220975 ATTACATTTATTGAACAATAAAAAAATCATC
1 ATTAAATTTATTGAACAATAAAAAAATCATC
2221006 ATTAAATTT
1 ATTAAATTT
2221015 TATCAAGATT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
30 2 0.06
31 31 0.94
ACGTcount: A:0.46, C:0.11, G:0.04, T:0.38
Consensus pattern (31 bp):
ATTAAATTTATTGAACAATAAAAAAATCATC
Found at i:2224860 original size:24 final size:22
Alignment explanation
Indices: 2224829--2224878 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 22
2224819 AACAATTTTA
2224829 AATGTAATGATT-TTATAAAATAT
1 AATGTAATG-TTATTA-AAAATAT
2224852 AATGATAATGTTGATTAAAAATAT
1 AATG-TAATGTT-ATTAAAAATAT
2224876 AAT
1 AAT
2224879 AATTCATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
23 6 0.25
24 15 0.62
25 3 0.12
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (22 bp):
AATGTAATGTTATTAAAAATAT
Found at i:2225215 original size:20 final size:20
Alignment explanation
Indices: 2225186--2225223 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2225176 GGTTGGTAGG
*
2225186 GCGAATAGACATGTATGTTA
1 GCGAAAAGACATGTATGTTA
2225206 GCGAAAAGACATGTATGT
1 GCGAAAAGACATGTATGT
2225224 CAGTAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.11, G:0.26, T:0.26
Consensus pattern (20 bp):
GCGAAAAGACATGTATGTTA
Found at i:2226615 original size:23 final size:23
Alignment explanation
Indices: 2226569--2226616 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
2226559 ACCGCCACCG
** * *
2226569 TTGACCGTTGATTGATGTTGACT
1 TTGACCGTTGACCGACGTTAACT
2226592 TTGACCGTTGACCGACGTTAACT
1 TTGACCGTTGACCGACGTTAACT
2226615 TT
1 TT
2226617 TTAAAACCTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.40
Consensus pattern (23 bp):
TTGACCGTTGACCGACGTTAACT
Found at i:2235048 original size:43 final size:43
Alignment explanation
Indices: 2234987--2235068 Score: 137
Period size: 43 Copynumber: 1.9 Consensus size: 43
2234977 TTTAGAGAAA
* * *
2234987 TTAGGAGTGAAAGTTATCCCCTATATGTAAAGTTTTGTTGAAG
1 TTAGGACTGAAAGCTATCCCCTATATATAAAGTTTTGTTGAAG
2235030 TTAGGACTGAAAGCTATCCCCTATATATAAAGTTTTGTT
1 TTAGGACTGAAAGCTATCCCCTATATATAAAGTTTTGTT
2235069 TGATACACGG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (43 bp):
TTAGGACTGAAAGCTATCCCCTATATATAAAGTTTTGTTGAAG
Found at i:2235171 original size:15 final size:14
Alignment explanation
Indices: 2235143--2235185 Score: 61
Period size: 15 Copynumber: 3.0 Consensus size: 14
2235133 TTTTCATACA
2235143 TGCAT-TTTCATTT
1 TGCATCTTTCATTT
2235156 TGCATCTTTGCATTT
1 TGCATCTTT-CATTT
2235171 TGCATCTTTACATTT
1 TGCATCTTT-CATTT
2235186 GTACTTTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
13 5 0.19
14 3 0.11
15 19 0.70
ACGTcount: A:0.16, C:0.19, G:0.09, T:0.56
Consensus pattern (14 bp):
TGCATCTTTCATTT
Found at i:2235174 original size:7 final size:7
Alignment explanation
Indices: 2235143--2235185 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
2235133 TTTTCATACA
2235143 TGCATTT
1 TGCATTT
2235150 T-CATTT
1 TGCATTT
2235156 TGCATCTT
1 TGCAT-TT
2235164 TGCATTT
1 TGCATTT
2235171 TGCATCTT
1 TGCAT-TT
*
2235179 TACATTT
1 TGCATTT
2235186 GTACTTTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
6 6 0.19
7 13 0.41
8 13 0.41
ACGTcount: A:0.16, C:0.19, G:0.09, T:0.56
Consensus pattern (7 bp):
TGCATTT
Found at i:2235289 original size:35 final size:34
Alignment explanation
Indices: 2235250--2235319 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 34
2235240 CATTCACATA
*
2235250 TTTACATTTGTATTTGCATTTTGCATCTTTGCATT
1 TTTACATTTGTATTTACATTTT-CATCTTTGCATT
* * *
2235285 TTTACGTTTTTATTTACATTTTCATTTTTGCATT
1 TTTACATTTGTATTTACATTTTCATCTTTGCATT
2235319 T
1 T
2235320 ATATCTTTGC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
34 12 0.39
35 19 0.61
ACGTcount: A:0.17, C:0.13, G:0.09, T:0.61
Consensus pattern (34 bp):
TTTACATTTGTATTTACATTTTCATCTTTGCATT
Found at i:2238072 original size:10 final size:10
Alignment explanation
Indices: 2238057--2238111 Score: 78
Period size: 10 Copynumber: 5.7 Consensus size: 10
2238047 TTAAAGAATA
2238057 AAAAAAAAGG
1 AAAAAAAAGG
2238067 --AAAAAAGG
1 AAAAAAAAGG
2238075 AAAAAAAAGG
1 AAAAAAAAGG
*
2238085 AAAAAAAAAG
1 AAAAAAAAGG
*
2238095 AAAAAAAAAG
1 AAAAAAAAGG
2238105 AAAAAAA
1 AAAAAAA
2238112 GAAAAAATTG
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
8 8 0.19
10 34 0.81
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (10 bp):
AAAAAAAAGG
Found at i:2238080 original size:18 final size:18
Alignment explanation
Indices: 2238057--2238118 Score: 88
Period size: 18 Copynumber: 3.3 Consensus size: 18
2238047 TTAAAGAATA
*
2238057 AAAAAAAAGGAAAAAAGG
1 AAAAAAAAGGAAAAAAAG
2238075 AAAAAAAAGGAAAAAAAAAG
1 AAAAAAAAGG--AAAAAAAG
*
2238095 AAAAAAAAAGAAAAAAAG
1 AAAAAAAAGGAAAAAAAG
2238113 AAAAAA
1 AAAAAA
2238119 TTGAATCAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
18 24 0.60
20 16 0.40
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (18 bp):
AAAAAAAAGGAAAAAAAG
Found at i:2242969 original size:22 final size:22
Alignment explanation
Indices: 2242941--2243085 Score: 245
Period size: 22 Copynumber: 6.6 Consensus size: 22
2242931 ACATCTATAT
2242941 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
2242963 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
2242985 TCTTCAAAGATAATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
* *
2243007 TCTTCAAACATGATAGATTCTT
1 TCTTCAAAGATGATAGATTCTC
*
2243029 TCTTCAAAGATGATAGATTATC
1 TCTTCAAAGATGATAGATTCTC
*
2243051 TCTTCAAAGATGATAGATTATC
1 TCTTCAAAGATGATAGATTCTC
2243073 TCTTCAAAGATGA
1 TCTTCAAAGATGA
2243086 AAGCTATTGG
Statistics
Matches: 116, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 116 1.00
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.37
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTC
Found at i:2243811 original size:45 final size:45
Alignment explanation
Indices: 2243744--2244183 Score: 718
Period size: 45 Copynumber: 9.8 Consensus size: 45
2243734 CTATTTCCCA
*
2243744 CATCTGTAAGCCCTTCAATGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*
2243789 CATCTGTAAGCCCTTCAGTGCATAATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* *
2243834 CATCTGTAAGCCCTTCAGTTCATGATGTTTTCAAAACATTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* *
2243879 CATCTGTAAGCCCTTCAGTGCATGATATTTTCAAAACCTTCAGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
2243924 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* * *
2243969 CATCTATAAGTCCCTTTAGTGTATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAG-CCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*
2244015 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCAGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* *
2244060 CATCTGTAATCCATTCAGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* *
2244105 CATCTGTAAGCCCTTCAGTGCATGATGATTTCAAAACCTTCGGCT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* * *
2244150 CATCTGTAAACCCCTCATTGCATGATGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAA
2244184 CATTTCCATC
Statistics
Matches: 365, Mismatches: 29, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 323 0.88
46 42 0.12
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (45 bp):
CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
Found at i:2244047 original size:181 final size:180
Alignment explanation
Indices: 2243744--2244183 Score: 700
Period size: 181 Copynumber: 2.4 Consensus size: 180
2243734 CTATTTCCCA
* *
2243744 CATCTGTAAGCCCTTCAATGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTG
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTATAAGCCCTTCAGTG
*
2243809 CATAATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTTCATGATGTTTTCAAAACATT
66 CATAATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACATT
* *
2243874 CGGGTCATCTGTAAGCCCTTCAGTGCATGATATTTTCAAAACCTTCAGGT
131 CAGGTCATCTGTAAGCCATTCAGTGCATGATATTTTCAAAACCTTCAGGT
*
2243924 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTATAAGTCCCTTTAGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTATAAG-CCCTTCAGT
* * *
2243989 GTATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCT
65 GCATAATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACAT
* * *
2244054 TCAGGTCATCTGTAATCCATTCAGTGCATGATGTTTTCAAAACCTTCGGGT
130 TCAGGTCATCTGTAAGCCATTCAGTGCATGATATTTTCAAAACCTTCAGGT
* * * * * *
2244105 CATCTGTAAGCCCTTCAGTGCATGATGATTTCAAAACCTTCGGCTCATCTGTAAACCCCTCATTG
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTATAAGCCCTTCAGTG
*
2244170 CATGATGTTTTCAA
66 CATAATGTTTTCAA
2244184 CATTTCCATC
Statistics
Matches: 239, Mismatches: 20, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
180 73 0.31
181 166 0.69
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (180 bp):
CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTATAAGCCCTTCAGTG
CATAATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACATT
CAGGTCATCTGTAAGCCATTCAGTGCATGATATTTTCAAAACCTTCAGGT
Found at i:2244174 original size:226 final size:226
Alignment explanation
Indices: 2243765--2244183 Score: 725
Period size: 226 Copynumber: 1.9 Consensus size: 226
2243755 CCTTCAATGC
2243765 ATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATAATGTTTTCAAAACCTTC
1 ATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATAATGTTTTCAAAACCTTC
* * *
2243830 GGGTCATCTGTAAGCCCTTCAGTTCATGATGTTTTCAAAACATTCGGGTCATCTGTAAGCCCTTC
66 AGGTCATCTGTAAGCCATTCAGTGCATGATGTTTTCAAAACATTCGGGTCATCTGTAAGCCCTTC
* *
2243895 AGTGCATGATATTTTCAAAACCTTCAGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAA
131 AGTGCATGATATTTTCAAAACCTTCAGGTCATCTGTAAACCCCTCAGTGCATGATGTTTTCAAAA
2243960 CCTTCGGGTCATCTATAAGTCCCTTTAGTGT
196 CCTTCGGGTCATCTATAAGTCCCTTTAGTGT
*
2243991 ATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTC
1 ATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATAATGTTTTCAAAACCTTC
* *
2244056 AGGTCATCTGTAATCCATTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTC
66 AGGTCATCTGTAAGCCATTCAGTGCATGATGTTTTCAAAACATTCGGGTCATCTGTAAGCCCTTC
*
2244121 AGTGCATGATGA-TTTCAAAACCTTC-GGCTCATCTGTAAACCCCTCATTGCATGATGTTTTCAA
131 AGTGCATGAT-ATTTTCAAAACCTTCAGG-TCATCTGTAAACCCCTCAGTGCATGATGTTTTCAA
2244184 CATTTCCATC
Statistics
Matches: 182, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
225 2 0.01
226 179 0.98
227 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (226 bp):
ATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATAATGTTTTCAAAACCTTC
AGGTCATCTGTAAGCCATTCAGTGCATGATGTTTTCAAAACATTCGGGTCATCTGTAAGCCCTTC
AGTGCATGATATTTTCAAAACCTTCAGGTCATCTGTAAACCCCTCAGTGCATGATGTTTTCAAAA
CCTTCGGGTCATCTATAAGTCCCTTTAGTGT
Found at i:2244318 original size:3 final size:3
Alignment explanation
Indices: 2244310--2244372 Score: 74
Period size: 3 Copynumber: 20.7 Consensus size: 3
2244300 TCATTTCATT
** *
2244310 TTA TTA TTA TTA TTA TTA AAA TTA TCA TTA TTA TTA TATA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
2244355 TATA TTA TTA TTA TTA TT
1 T-TA TTA TTA TTA TTA TT
2244373 TAAATAAATA
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
2 2 0.04
3 43 0.84
4 6 0.12
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:2244383 original size:28 final size:28
Alignment explanation
Indices: 2244330--2244383 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
2244320 TATTATTAAA
* *
2244330 ATTATCATTATTATTATATATTATATAT
1 ATTATCATTATTATTAAATATAATATAT
*
2244358 ATTATTATTATTATTTAAATA-AATAT
1 ATTATCATTATTA-TTAAATATAATAT
2244384 TACAAGGCCC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
28 16 0.73
29 6 0.27
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (28 bp):
ATTATCATTATTATTAAATATAATATAT
Found at i:2245906 original size:21 final size:22
Alignment explanation
Indices: 2245877--2245950 Score: 98
Period size: 22 Copynumber: 3.4 Consensus size: 22
2245867 TTAACAAAAA
2245877 ATTACTTTTATAAATTATATAT
1 ATTACTTTTATAAATTATATAT
*
2245899 ATTA-TTTTAATAAA-TAAATAT
1 ATTACTTTT-ATAAATTATATAT
*
2245920 TTTACTTTTATAAATTATATAT
1 ATTACTTTTATAAATTATATAT
*
2245942 ATTATTTTT
1 ATTACTTTT
2245951 TAATGTTTTA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
21 18 0.41
22 26 0.59
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (22 bp):
ATTACTTTTATAAATTATATAT
Found at i:2246482 original size:21 final size:22
Alignment explanation
Indices: 2246452--2246526 Score: 102
Period size: 21 Copynumber: 3.5 Consensus size: 22
2246442 TTTATGATAT
2246452 TTTTAATAAATAAATATTTTAC
1 TTTTAATAAATAAATATTTTAC
* *
2246474 TTTT-ATAAATTATATATATTA-
1 TTTTAATAAA-TAAATATTTTAC
2246495 TTTTAATAAATAAATATTTTAC
1 TTTTAATAAATAAATATTTTAC
2246517 TTTT-ATAAAT
1 TTTTAATAAAT
2246527 TATATATATT
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
21 24 0.52
22 22 0.48
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (22 bp):
TTTTAATAAATAAATATTTTAC
Found at i:2246490 original size:22 final size:22
Alignment explanation
Indices: 2246452--2246542 Score: 98
Period size: 22 Copynumber: 4.2 Consensus size: 22
2246442 TTTATGATAT
*
2246452 TTTTAATAAATAAATATTTTAC
1 TTTTAATAAATAAATATATTAC
*
2246474 TTTT-ATAAATTATATATATTA-
1 TTTTAATAAA-TAAATATATTAC
*
2246495 TTTTAATAAATAAATATTTTAC
1 TTTTAATAAATAAATATATTAC
* *
2246517 TTTT-ATAAATTATATATATTAT
1 TTTTAATAAA-TAAATATATTAC
2246539 TTTT
1 TTTT
2246543 TAATTTTTTA
Statistics
Matches: 58, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
21 23 0.40
22 35 0.60
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTTAATAAATAAATATATTAC
Found at i:2246507 original size:43 final size:43
Alignment explanation
Indices: 2246452--2246541 Score: 180
Period size: 43 Copynumber: 2.1 Consensus size: 43
2246442 TTTATGATAT
2246452 TTTTAATAAATAAATATTTTACTTTTATAAATTATATATATTA
1 TTTTAATAAATAAATATTTTACTTTTATAAATTATATATATTA
2246495 TTTTAATAAATAAATATTTTACTTTTATAAATTATATATATTA
1 TTTTAATAAATAAATATTTTACTTTTATAAATTATATATATTA
2246538 TTTT
1 TTTT
2246542 TTAATTTTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (43 bp):
TTTTAATAAATAAATATTTTACTTTTATAAATTATATATATTA
Found at i:2246541 original size:21 final size:20
Alignment explanation
Indices: 2246448--2246541 Score: 91
Period size: 21 Copynumber: 4.5 Consensus size: 20
2246438 CCATTTTATG
*
2246448 ATATT-TTTAATAAATAAAT
1 ATATTATTTTATAAATAAAT
* *
2246467 ATTTTACTTTTATAAATTATAT
1 ATATTA-TTTTATAAA-TAAAT
2246489 ATATTATTTTAATAAATAAAT
1 ATATTATTTT-ATAAATAAAT
* *
2246510 ATTTTACTTTTATAAATTATAT
1 ATATTA-TTTTATAAA-TAAAT
2246532 ATATTATTTT
1 ATATTATTTT
2246542 TTAATTTTTT
Statistics
Matches: 61, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
19 4 0.07
21 30 0.49
22 27 0.44
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (20 bp):
ATATTATTTTATAAATAAAT
Found at i:2246562 original size:18 final size:18
Alignment explanation
Indices: 2246545--2246578 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2246535 TTATTTTTTA
2246545 ATTT-TTTATTAATATTT
1 ATTTATTTATTAATATTT
2246562 ATTTATTTATTAATATT
1 ATTTATTTATTAATATT
2246579 AAGAAATAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
ATTTATTTATTAATATTT
Found at i:2246699 original size:11 final size:13
Alignment explanation
Indices: 2246660--2246701 Score: 52
Period size: 11 Copynumber: 3.3 Consensus size: 13
2246650 TAAAAATAAA
2246660 AATATATTAATATT
1 AATATATT-ATATT
*
2246674 AATATATTTTATT
1 AATATATTATATT
2246687 AA-A-ATTATATT
1 AATATATTATATT
2246698 AATA
1 AATA
2246702 AATTTGAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
11 9 0.36
12 2 0.08
13 6 0.24
14 8 0.32
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
AATATATTATATT
Found at i:2246795 original size:593 final size:588
Alignment explanation
Indices: 2245637--2246811 Score: 2043
Period size: 588 Copynumber: 2.0 Consensus size: 588
2245627 AATTCCACAA
2245637 TTTTAAATTATTTTATTTTAGTCATTATTTAATAAAATTTTATTCTATTTCTATATTGTCATTTA
1 TTTTAAATTATTTTATTTTAGTCATTATTTAATAAAATTTTATTCTATTTCTATATTGTCATTTA
2245702 TTTTTCAATATGTTTAAATTAGTACTTTATTTATTTATTATTATTTATATTTTATTCACTAATAT
66 TTTTTCAATATGTTTAAATTAGTACTTTATTTATTTATTATTATTTATATTTTATTCACTAATAT
*
2245767 TTATATGAAATACCATATAATAATTTCATAATATTTATTTATTTTTAATATTAAGAAAGGTCAGT
131 TTATATGAAATACCATATAATAATTTCATAATATTTATTTATTTTTAATATTAAGAAAGGACAGT
* *
2245832 TTTAAAGCAACTGGATGTCCATTTTCTGATATTTTTTAACAAAAAATTACTTTTATAAATTATAT
196 CTTAAAGCAACTGGATGTCCATTTTATGATATTTTTTAACAAAAAATTACTTTTATAAATTATAT
2245897 ATATTATTTTAATAAATAAATATTTTACTTTTATAAATTATATATATTATTTTTTAATGTTTTAT
261 ATATTATTTTAATAAATAAATATTTTACTTTTATAAATTATATATATTATTTTTTAATGTTTTAT
** * *
2245962 TAATATTTATTTACTTTTAATATTAAGAAATGGGCTGTCTTAAAGCACCTAGAAGTCATTTTCTG
326 TAATATTTATTTACTTTTAATATTAAGAAATAAGCTGTCTTAAAGCACCTAGAAATCATTTTCTA
*
2246027 ATATTTCTAAGTAAATAAATATCTTATTTATAAAAATAAAAAATTATATATATTAATATATTTTC
391 ATATTTCTAAGTAAATAAATATCTTATTTATAAAAATAAAAAATTATATATATTAATATATTTTA
2246092 TTAAAATTATATTAATAAATTCGAAATAACAAGATTATGAATTAAATATATTTTTGAATTTTTAG
456 TTAAAATTATATTAATAAATTCGAAATAACAAGATTATGAATTAAATATATTTTTGAATTTTTAG
2246157 AATTTCCAATAATAGAAACAATTTATAATTAATGAGTACCAATTTTGAGCGTTGTGGGGGTGCTT
521 AATTTCCAATAATAGAAACAATTTATAATTAATGAGTACCAATTTTGAGCGTTGTGGGGGTGCTT
2246222 CAG
586 CAG
* * *
2246225 TTTTAAATTATTTTATTTTAGTCATTATTTAATATAATTTTATTTTATTTCTATATTTTCATTTA
1 TTTTAAATTATTTTATTTTAGTCATTATTTAATAAAATTTTATTCTATTTCTATATTGTCATTTA
2246290 TTTTTCAATATGTTTAAATTAGTACTTTATTTATTTATTATTATTTATATTTT-TCTCACTAATA
66 TTTTTCAATATGTTTAAATTAGTACTTTATTTATTTATTATTATTTATATTTTAT-TCACTAATA
*
2246354 TTTATATGAAATACCATATAATAATTTCATAATATTTATTTATTTTTAATATTAAGAAATGACAG
130 TTTATATGAAATACCATATAATAATTTCATAATATTTATTTATTTTTAATATTAAGAAAGGACAG
*
2246419 TCTTAAAGCAACTGGATGTCCATTTTATGATATTTTTAATAA-ATAAATATTTTACTTTTATAAA
195 TCTTAAAGCAACTGGATGTCCATTTTATGATATTTTT--TAACA-AAA-A-ATTACTTTTATAAA
*
2246483 TTATATATATTATTTTAATAAATAAATATTTTACTTTTATAAATTATATATATTATTTTTTAATT
255 TTATATATATTATTTTAATAAATAAATATTTTACTTTTATAAATTATATATATTATTTTTTAATG
* *
2246548 TTTTATTAATATTTATTTATTTATTAATATTAAGAAATAAGCTGTCTTAAAGCACCTAGAAATCC
320 TTTTATTAATATTTATTTACTT-TTAATATTAAGAAATAAGCTGTCTTAAAGCACCTAGAAATCA
*
2246613 TTTTTTAATATTTCTAAGTAAATAAATATCTTATTTATAAAAAT-AAAAA-TATATTAATATTAA
384 TTTTCTAATATTTCTAAGTAAATAAATATCTTATTTATAAAAATAAAAAATTATA-T-ATATTAA
* *
2246676 TATATTTTATTAAAATTATATTAATAAATTTGAAATAACAGGATTATGAATTAAATATATTTTTG
447 TATATTTTATTAAAATTATATTAATAAATTCGAAATAACAAGATTATGAATTAAATATATTTTTG
* * *
2246741 AATTTTTAGAATTTCCAATAATATAGACAATTTATAATTAATGAGTACCAATTTTGGGCGTTGTG
512 AATTTTTAGAATTTCCAATAATAGAAACAATTTATAATTAATGAGTACCAATTTTGAGCGTTGTG
2246806 GGGGTG
577 GGGGTG
2246812 TTAATCCTTC
Statistics
Matches: 556, Mismatches: 22, Indels: 13
0.94 0.04 0.02
Matches are distributed among these distances:
587 1 0.00
588 222 0.40
589 1 0.00
590 6 0.01
591 5 0.01
592 104 0.19
593 217 0.39
ACGTcount: A:0.38, C:0.06, G:0.07, T:0.49
Consensus pattern (588 bp):
TTTTAAATTATTTTATTTTAGTCATTATTTAATAAAATTTTATTCTATTTCTATATTGTCATTTA
TTTTTCAATATGTTTAAATTAGTACTTTATTTATTTATTATTATTTATATTTTATTCACTAATAT
TTATATGAAATACCATATAATAATTTCATAATATTTATTTATTTTTAATATTAAGAAAGGACAGT
CTTAAAGCAACTGGATGTCCATTTTATGATATTTTTTAACAAAAAATTACTTTTATAAATTATAT
ATATTATTTTAATAAATAAATATTTTACTTTTATAAATTATATATATTATTTTTTAATGTTTTAT
TAATATTTATTTACTTTTAATATTAAGAAATAAGCTGTCTTAAAGCACCTAGAAATCATTTTCTA
ATATTTCTAAGTAAATAAATATCTTATTTATAAAAATAAAAAATTATATATATTAATATATTTTA
TTAAAATTATATTAATAAATTCGAAATAACAAGATTATGAATTAAATATATTTTTGAATTTTTAG
AATTTCCAATAATAGAAACAATTTATAATTAATGAGTACCAATTTTGAGCGTTGTGGGGGTGCTT
CAG
Found at i:2247775 original size:145 final size:144
Alignment explanation
Indices: 2247512--2247801 Score: 449
Period size: 145 Copynumber: 2.0 Consensus size: 144
2247502 AAAATACATA
2247512 AACCTTAATTTGAATGTTTATGCTTGTGCTTTCACTTACAAATTATATCTATCTAACAATCGATA
1 AACCTTAATTTGAATGTTTATGCTTGTGCTTTCACTTACAAATTATATCTATCTAACAATCGATA
* *
2247577 TTTATGTTATATGCAAAACATTTTATAGTGTTTTAAGCATATGAACCTTTGATAGTCCATTTTTT
66 TCTATGTTAAATGCAAAACATTTTATAGTGTTTTAAGCATATGAACCTTTGATAGTCCA-TTTTT
*
2247642 TTCATAAAGTATGAT
130 TGCATAAAGTATGAT
* * *
2247657 AACCTTAATTTGAATGTTTATG-TATGTTCTTTCACTTACAAATTATATCTCTCTAACAAAT-TA
1 AACCTTAATTTGAATGTTTATGCT-TGTGCTTTCACTTACAAATTATATCTATCTAAC-AATCGA
* * * *
2247720 TATCTATGTTAAATGCATACCATTTTATAGTGTTTTATGCATATGAGCCTTTGATAGTCCATTTT
64 TATCTATGTTAAATGCAAAACATTTTATAGTGTTTTAAGCATATGAACCTTTGATAGTCCATTTT
2247785 TTGCATAAAGTATGAT
129 TTGCATAAAGTATGAT
2247801 A
1 A
2247802 GACTTGGATT
Statistics
Matches: 133, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
144 21 0.16
145 109 0.82
146 3 0.02
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.44
Consensus pattern (144 bp):
AACCTTAATTTGAATGTTTATGCTTGTGCTTTCACTTACAAATTATATCTATCTAACAATCGATA
TCTATGTTAAATGCAAAACATTTTATAGTGTTTTAAGCATATGAACCTTTGATAGTCCATTTTTT
GCATAAAGTATGAT
Found at i:2248313 original size:20 final size:20
Alignment explanation
Indices: 2248288--2248325 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2248278 AAGTTAATAG
* *
2248288 AAGTATCACTACTCCCATGA
1 AAGTATCAATACTACCATGA
2248308 AAGTATCAATACTACCAT
1 AAGTATCAATACTACCAT
2248326 TCATTTTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.26, G:0.08, T:0.26
Consensus pattern (20 bp):
AAGTATCAATACTACCATGA
Found at i:2251669 original size:21 final size:21
Alignment explanation
Indices: 2251630--2251671 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2251620 GAAGTACCGT
*
2251630 ATATATGTTCCAAAGGATTAC
1 ATATATGTCCCAAAGGATTAC
* *
2251651 ATATATGTCCCGAATGATTAC
1 ATATATGTCCCAAAGGATTAC
2251672 GTAGAACCCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (21 bp):
ATATATGTCCCAAAGGATTAC
Found at i:2251803 original size:15 final size:15
Alignment explanation
Indices: 2251785--2251822 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
2251775 CACATATGAT
2251785 CATAGCTCCTTATCA
1 CATAGCTCCTTATCA
* *
2251800 CATAACTTCTTATCA
1 CATAGCTCCTTATCA
2251815 CATAGCTC
1 CATAGCTC
2251823 ATATAACATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.29, C:0.32, G:0.05, T:0.34
Consensus pattern (15 bp):
CATAGCTCCTTATCA
Found at i:2254851 original size:35 final size:35
Alignment explanation
Indices: 2254778--2254852 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 35
2254768 CGTCACGTCC
* **
2254778 AGTAAGGCCCTGATCACACAACCGAGGAACCGGTA
1 AGTAAGGCCCTGAGCACACAACCGAGGAACCGCCA
** *
2254813 AGTAAGGCCCTGAGCACACAGTCGAGGAACCTCCA
1 AGTAAGGCCCTGAGCACACAACCGAGGAACCGCCA
2254848 AGTAA
1 AGTAA
2254853 TCTTCCTCCA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.35, C:0.28, G:0.25, T:0.12
Consensus pattern (35 bp):
AGTAAGGCCCTGAGCACACAACCGAGGAACCGCCA
Found at i:2254957 original size:24 final size:24
Alignment explanation
Indices: 2254930--2255020 Score: 130
Period size: 24 Copynumber: 3.8 Consensus size: 24
2254920 CATAATTCAA
2254930 GTCAAGTATCATATCAGAATCCAG
1 GTCAAGTATCATATCAGAATCCAG
* * *
2254954 GTCATGTATCAGATCAGAATCCAT
1 GTCAAGTATCATATCAGAATCCAG
2254978 GTCAA-TATCATATCAGAATCCAG
1 GTCAAGTATCATATCAGAATCCAG
* *
2255001 GTCAGGTATCATAACAGAAT
1 GTCAAGTATCATATCAGAAT
2255021 TCAAATTTGA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
23 20 0.34
24 38 0.66
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.26
Consensus pattern (24 bp):
GTCAAGTATCATATCAGAATCCAG
Found at i:2255000 original size:47 final size:48
Alignment explanation
Indices: 2254930--2255020 Score: 148
Period size: 47 Copynumber: 1.9 Consensus size: 48
2254920 CATAATTCAA
* *
2254930 GTCAAGTATCATATCAGAATCCAGGTCATGTATCAGATCAGAATCCAT
1 GTCAAGTATCATATCAGAATCCAGGTCAGGTATCAGAACAGAATCCAT
*
2254978 GTCAA-TATCATATCAGAATCCAGGTCAGGTATCATAACAGAAT
1 GTCAAGTATCATATCAGAATCCAGGTCAGGTATCAGAACAGAAT
2255021 TCAAATTTGA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
47 35 0.88
48 5 0.12
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.26
Consensus pattern (48 bp):
GTCAAGTATCATATCAGAATCCAGGTCAGGTATCAGAACAGAATCCAT
Found at i:2264667 original size:20 final size:22
Alignment explanation
Indices: 2264642--2264693 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
2264632 TTCTATTTGA
2264642 TATCAATA-TC-ATGTAATA-AG
1 TATCAATACTCGATG-AATAGAG
2264662 TATCAATACTCGATGAATAGAG
1 TATCAATACTCGATGAATAGAG
*
2264684 TATCGATACT
1 TATCAATACT
2264694 ACCCAACCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 8 0.29
21 6 0.21
22 14 0.50
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (22 bp):
TATCAATACTCGATGAATAGAG
Found at i:2269654 original size:25 final size:25
Alignment explanation
Indices: 2269625--2269675 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
2269615 AACCTTAACC
* *
2269625 AATATTTAAATTATAAAACAATTTT
1 AATATATAAATAATAAAACAATTTT
* *
2269650 AATATATAAATAATAATATAATTTT
1 AATATATAAATAATAAAACAATTTT
2269675 A
1 A
2269676 TAATCATTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (25 bp):
AATATATAAATAATAAAACAATTTT
Found at i:2273623 original size:49 final size:49
Alignment explanation
Indices: 2273551--2273700 Score: 189
Period size: 49 Copynumber: 3.1 Consensus size: 49
2273541 GCACATGTCT
* * * * *
2273551 GAATGAGATTGAATCACATGTTATGGTAAA-CTACAAGTTTACAAGTTTC
1 GAATGAAATTAAATCATATGTTATGATAAATC-AAAAGTTTACAAGTTTC
*
2273600 GAATGAAATTAAATCATATGTTATGATAAATCAAAAGTTTACAAGTTTT
1 GAATGAAATTAAATCATATGTTATGATAAATCAAAAGTTTACAAGTTTC
* *
2273649 GAATGTGAA-TAAATCATATGTTCTGATAAATCAAAAGTTTACAAG-TTC
1 GAATG-AAATTAAATCATATGTTATGATAAATCAAAAGTTTACAAGTTTC
2273697 GAAT
1 GAAT
2273701 ATTTTAATTA
Statistics
Matches: 90, Mismatches: 9, Indels: 5
0.87 0.09 0.05
Matches are distributed among these distances:
48 6 0.07
49 81 0.90
50 3 0.03
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.34
Consensus pattern (49 bp):
GAATGAAATTAAATCATATGTTATGATAAATCAAAAGTTTACAAGTTTC
Found at i:2276424 original size:91 final size:88
Alignment explanation
Indices: 2276259--2276431 Score: 310
Period size: 91 Copynumber: 1.9 Consensus size: 88
2276249 TTTTATATAC
2276259 TTATATTGAGATAATAACACATATTTCTCTATTTTTTATATCTCTTATTCTTATTATTATTCTGG
1 TTATATTGAGATAATAACACATATTTCTCTATTTTTTATATCTCTTATTCTTATTATTATTCTGG
2276324 TTGTTTAGTTCTTTTTAGTATTT
66 TTGTTTAGTTCTTTTTAGTATTT
*
2276347 TTATATTGAGATAATAACACATATTTCTCTATTTATTTTTATATCTCTTATTCTTATTATTATTG
1 TTATATTGAGATAATAACACATATTTCTCTA--T-TTTTTATATCTCTTATTCTTATTATTATTC
2276412 TGGTTGTTTAGTTCTTTTTA
63 TGGTTGTTTAGTTCTTTTTA
2276432 TTTCATAACA
Statistics
Matches: 81, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
88 31 0.38
90 1 0.01
91 49 0.60
ACGTcount: A:0.24, C:0.10, G:0.08, T:0.58
Consensus pattern (88 bp):
TTATATTGAGATAATAACACATATTTCTCTATTTTTTATATCTCTTATTCTTATTATTATTCTGG
TTGTTTAGTTCTTTTTAGTATTT
Found at i:2284918 original size:43 final size:43
Alignment explanation
Indices: 2284857--2285002 Score: 121
Period size: 43 Copynumber: 3.2 Consensus size: 43
2284847 CAGAGCCAAT
2284857 TTCAACTTCACAACGAAGGATATTGGACCCCAGACAACGCAAG
1 TTCAACTTCACAACGAAGGATATTGGACCCCAGACAACGCAAG
* *** *** * * * *
2284900 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAACAATTTCCCAAT
1 TTCAACTTCACAACGAA-GGA-TATTGG-ACCCCA-GACAA---CGCAAG
*
2284950 TTCAACTTCACAACGAAGGATATTGGACCCCAGACAATGCAAG
1 TTCAACTTCACAACGAAGGATATTGGACCCCAGACAACGCAAG
2284993 TTCAACTTCA
1 TTCAACTTCA
2285003 TGACGAATGG
Statistics
Matches: 73, Mismatches: 23, Indels: 14
0.66 0.21 0.13
Matches are distributed among these distances:
43 29 0.40
44 3 0.04
45 3 0.04
46 6 0.08
47 6 0.08
48 3 0.04
49 3 0.04
50 20 0.27
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (43 bp):
TTCAACTTCACAACGAAGGATATTGGACCCCAGACAACGCAAG
Found at i:2285225 original size:106 final size:104
Alignment explanation
Indices: 2284539--2285703 Score: 1176
Period size: 106 Copynumber: 11.6 Consensus size: 104
2284529 AGGTTTTTCC
* * *
2284539 CAGAGTCAATTTTAACTTCACAACGAAGGATATTGGACTCAAGACAGTACAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGTTCAACTTCACG
*
2284604 ACGAAGGGACTGCTGACTGTCAACAAACAACTTC-CAATTT
66 ACGAAGGGACCGCTGACTGTCAAC-AA-AACTTCTCAATTT
* * * *
2284644 CAGAGCCAATTTCAAC-TCACAACGAAGGATATTGGACCCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGTTCAACTTCACG
* * * * * *
2284708 AC----GG--C-AT-A-TAT--GCATATCTT-TGCAGGTTTTT
66 ACGAAGGGACCGCTGACTGTCAACAAAACTTCT-CA---ATTT
* * *
2284739 CCCAGAGTCAATTTTAACTTCACAACGAAGGATATTGGACTCAAGACAGTACAAGTTCAACTTCA
1 --CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGTTCAACTTCA
*
2284804 CGACGAAGGGACTGCTGACTGTCAACAAACAACTTCTCAATTT
64 CGACGAAGGGACCGCTGACTGTCAAC-AA-AACTTCTCAATTT
* * * *
2284847 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACCCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGTTCAACTTCACG
** *
2284912 ACGAAGGGACCGCTGGTTGTC-A-ATAA-----CAATTT
66 ACGAAGGGACCGCTGACTGTCAACAAAACTTCTCAATTT
* * *** *
2284944 C----CCAATTTCAACTTCACAACGAAGGATATTGGACCCCAGACAATGCAAGTTCAACTTCATG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGTTCAACTTCACG
* ** *
2285005 ACGAATGGACCGCTGGTTGTC-A-ATAA-----CAATTT
66 ACGAAGGGACCGCTGACTGTCAACAAAACTTCTCAATTT
*
2285037 C----CCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGTACAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGTTCAACTTCACG
2285098 ACGAAGGGACCGCTGACTGTCAACAAACAGCTTCTCAATTT
66 ACGAAGGGACCGCTGACTGTCAACAAA-A-CTTCTCAATTT
* * * *
2285139 CAGAGCCAATTTCAACTTCACAACGAAGGATATTAGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGTTCAACTTCACG
** *
2285204 ACGAAGGGACCGCTGGTTGTCAA-TAAA-----CAATTT
66 ACGAAGGGACCGCTGACTGTCAACAAAACTTCTCAATTT
*
2285237 C----CCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGTACAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGTTCAACTTCACG
* *
2285298 ATGAAGAGACCGCTGACTGT---C--AACTTCTCAATTT
66 ACGAAGGGACCGCTGACTGTCAACAAAACTTCTCAATTT
* * *
2285332 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCTAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGTTCAACTTCACG
** * *
2285397 ACGAAGGGACCGCTGGTTGTTAA-TAAA-----CAATTT
66 ACGAAGGGACCGCTGACTGTCAACAAAACTTCTCAATTT
*
2285430 C----CCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGTACAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGTTCAACTTCACG
2285491 ACGAAGGGACCGCTGACTGTCAACAAACAACTTCTCAATTT
66 ACGAAGGGACCGCTGACTGTCAAC-AA-AACTTCTCAATTT
* * *
2285532 TAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGTTCAACTTCACG
** * *
2285597 ACGAAGGGACCGCTGGTTGTCAATAAACAATTTCTC-ATTT
66 ACGAAGGGACCGCTGACTGTCAA-CAA-AACTTCTCAATTT
* *
2285637 GCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGGCTCAAGACAGCACAAGTTCAACTTCAC
1 -CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGTTCAACTTCAC
2285702 GA
65 GA
2285704 TGAGGGATTT
Statistics
Matches: 899, Mismatches: 97, Indels: 127
0.80 0.09 0.11
Matches are distributed among these distances:
90 2 0.00
91 4 0.00
92 3 0.00
93 164 0.18
94 148 0.16
95 14 0.02
96 3 0.00
97 24 0.03
98 59 0.07
99 72 0.08
100 2 0.00
102 17 0.02
103 3 0.00
104 46 0.05
105 22 0.02
106 302 0.34
107 2 0.00
108 3 0.00
109 1 0.00
110 1 0.00
111 6 0.01
112 1 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (104 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGTTCAACTTCACG
ACGAAGGGACCGCTGACTGTCAACAAAACTTCTCAATTT
Found at i:2285414 original size:193 final size:194
Alignment explanation
Indices: 2284741--2285703 Score: 1242
Period size: 200 Copynumber: 4.8 Consensus size: 194
2284731 AGGTTTTTCC
* * * ***
2284741 CAGAGTCAATTTTAACTTCACAACGAAGGATATTGGACTCAAGACAGTACAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* ** *
2284806 ACGAAGGGACTGCTGACTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAAC
66 ACGAAGGGACCGCTGGTTGTC-A-ATA-AA-----CAATTTC----CCAATTTCAACTTCACAAC
* * *** **
2284871 GAAGGATATTGGACCCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGT-CAA
119 GAAGGATATTGGACTCAAGACAGTACAAGTTCAACTTCACGACGAAGGGACCGCTGACTGTACAA
**
2284935 --TAACAATTT
184 CTTCTCAATTT
* * *
2284944 C----CCAATTTCAACTTCACAACGAAGGATATTGGACCCCAGACAATGCAAGTTCAACTTCATG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
2285005 ACGAATGGACCGCTGGTTGTCAAT-AACAATTTCCCAATTTCAACTTCACAACGAAGGATATTGG
66 ACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAACTTCACAACGAAGGATATTGG
2285069 ACTCAAGACAGTACAAGTTCAACTTCACGACGAAGGGACCGCTGACTGTCAACAAACAGCTTCTC
131 ACTCAAGACAGTACAAGTTCAACTTCACGACGAAGGGACCGCTGACTGT--AC--A-A-CTTCTC
2285134 AATTT
190 AATTT
*
2285139 CAGAGCCAATTTCAACTTCACAACGAAGGATATTAGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
2285204 ACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAACTTCACAACGAAGGATATTGG
66 ACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAACTTCACAACGAAGGATATTGG
* *
2285269 ACTCAAGACAGTACAAGTTCAACTTCACGATGAAGAGACCGCTGACTGT-CAACTTCTCAATTT
131 ACTCAAGACAGTACAAGTTCAACTTCACGACGAAGGGACCGCTGACTGTACAACTTCTCAATTT
*
2285332 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCTAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
2285397 ACGAAGGGACCGCTGGTTGTTAATAAACAATTTCCCAATTTCAACTTCACAACGAAGGATATTGG
66 ACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAACTTCACAACGAAGGATATTGG
2285462 ACTCAAGACAGTACAAGTTCAACTTCACGACGAAGGGACCGCTGACTGTCAACAAACAACTTCTC
131 ACTCAAGACAGTACAAGTTCAACTTCACGACGAAGGGACCGCTGACTGT------ACAACTTCTC
2285527 AATTT
190 AATTT
* *
2285532 TAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
2285597 ACGAAGGGACCGCTGGTTGTCAATAAACAATTTCTCATTTGCAGAGCCAATTTCAACTTCACAGC
66 ACGAAGGGACCGCTGGTTGTCAATAAAC-A------ATTT-C----CCAATTTCAACTTCACAAC
* *
2285662 GAAGGATATTGGGCTCAAGACAGCACAAGTTCAACTTCACGA
119 GAAGGATATTGGACTCAAGACAGTACAAGTTCAACTTCACGA
2285704 TGAGGGATTT
Statistics
Matches: 687, Mismatches: 40, Indels: 57
0.88 0.05 0.07
Matches are distributed among these distances:
186 73 0.11
189 1 0.00
190 7 0.01
191 1 0.00
192 1 0.00
193 185 0.27
194 1 0.00
195 11 0.02
197 2 0.00
198 1 0.00
199 149 0.22
200 190 0.28
201 1 0.00
203 1 0.00
207 4 0.01
208 1 0.00
212 58 0.08
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.23
Consensus pattern (194 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAACTTCACAACGAAGGATATTGG
ACTCAAGACAGTACAAGTTCAACTTCACGACGAAGGGACCGCTGACTGTACAACTTCTCAATTT
Found at i:2285486 original size:393 final size:387
Alignment explanation
Indices: 2284741--2285706 Score: 1376
Period size: 393 Copynumber: 2.4 Consensus size: 387
2284731 AGGTTTTTCC
* * * **
2284741 CAGAGTCAATTTTAACTTCACAACGAAGGATATTGGACTCAAGACAGTACAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACG
* ** *
2284806 ACGAAGGGACTGCTGACTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAAC
66 ACGAAGGGACCGCTGGTTGTC-A-ATA-AA-----CAATTTC--A-CCAATTTCAACTTCACAAC
* * * * * * **
2284871 GAAGGATATTGGACCCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAT
120 GAAGGATATTGGACTCAAGACAGCACAAGTTCAACTTCACGATGAAGAGACCGCTGACTGTCAAT
*
2284936 AACAATTTCCCAATTTCAACTTCACAACGAAGGATATTGGACCCCAGACAATGCAAGTTCAACTT
185 AACAATTTCCCAATTTCAACTTCACAACGAAGGATATTGGACCCCAGACAACGCAAGTTCAACTT
* *
2285001 CATGACGAATGGACCGCTGGTTGTCAATAACAATTTCCCAATTTCAACTTCACAACGAAGGATAT
250 CACGACGAAGGGACCGCTGGTTGTCAATAACAATTTCCCAATTTCAACTTCACAACGAAGGATAT
*
2285066 TGGACTCAAGACAGTACAAGTTCAACTTCACGACGAAGGGACCGCTGACTGTCAACAAACAGCTT
315 TGGACTCAAGACAGTACAAGTTCAACTTCACGACGAAGGGACCGCTGACTGTCAACAAACAACTT
2285131 CTCAATTT
380 CTCAATTT
* *
2285139 CAGAGCCAATTTCAACTTCACAACGAAGGATATTAGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACG
2285204 ACGAAGGGACCGCTGGTTGTCAATAAACAATTTC-CCAATTTCAACTTCACAACGAAGGATATTG
66 ACGAAGGGACCGCTGGTTGTCAATAAACAATTTCACCAATTTCAACTTCACAACGAAGGATATTG
* **
2285268 GACTCAAGACAGTACAAGTTCAACTTCACGATGAAGAGACCGCTGACTGTCAACTTCTCAATTTC
131 GACTCAAGACAGCACAAGTTCAACTTCACGATGAAGAGACCGCTGACTGTCAA--TAACAATTTC
* *
2285333 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCTAGACAACGCAAGTTCAACTTCACGA
194 ----CCAATTTCAACTTCACAACGAAGGATATTGGACCCCAGACAACGCAAGTTCAACTTCACGA
*
2285398 CGAAGGGACCGCTGGTTGTTAATAAACAATTTCCCAATTTCAACTTCACAACGAAGGATATTGGA
255 CGAAGGGACCGCTGGTTGTCAAT-AACAATTTCCCAATTTCAACTTCACAACGAAGGATATTGGA
2285463 CTCAAGACAGTACAAGTTCAACTTCACGACGAAGGGACCGCTGACTGTCAACAAACAACTTCTCA
319 CTCAAGACAGTACAAGTTCAACTTCACGACGAAGGGACCGCTGACTGTCAACAAACAACTTCTCA
2285528 ATTT
384 ATTT
*
2285532 TAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACG
*
2285597 ACGAAGGGACCGCTGGTTGTCAATAAACAATTTCTCATTTGCAGAGCCAATTTCAACTTCACAGC
66 ACGAAGGGACCGCTGGTTGTCAATAAAC-A------ATTT-C--A-CCAATTTCAACTTCACAAC
*
2285662 GAAGGATATTGGGCTCAAGACAGCACAAGTTCAACTTCACGATGA
120 GAAGGATATTGGACTCAAGACAGCACAAGTTCAACTTCACGATGA
2285707 GGGATTTCGT
Statistics
Matches: 514, Mismatches: 35, Indels: 31
0.89 0.06 0.05
Matches are distributed among these distances:
386 74 0.14
388 8 0.02
390 7 0.01
392 78 0.15
393 199 0.39
394 1 0.00
395 2 0.00
396 2 0.00
397 1 0.00
398 76 0.15
400 4 0.01
401 1 0.00
405 61 0.12
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.23
Consensus pattern (387 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAATAAACAATTTCACCAATTTCAACTTCACAACGAAGGATATTG
GACTCAAGACAGCACAAGTTCAACTTCACGATGAAGAGACCGCTGACTGTCAATAACAATTTCCC
AATTTCAACTTCACAACGAAGGATATTGGACCCCAGACAACGCAAGTTCAACTTCACGACGAAGG
GACCGCTGGTTGTCAATAACAATTTCCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGA
CAGTACAAGTTCAACTTCACGACGAAGGGACCGCTGACTGTCAACAAACAACTTCTCAATTT
Found at i:2287108 original size:2 final size:2
Alignment explanation
Indices: 2287093--2287127 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
2287083 TACTCTATTT
2287093 TA TA T- TA T- TA 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 TA TA TA TA TA TA T
2287128 GTATTTTTCC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:2295889 original size:37 final size:37
Alignment explanation
Indices: 2295847--2295919 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
2295837 GAAGGTTAAC
2295847 GAAGGAGGAAGAAGAAGATTAACGGAGGTAGCATGCT
1 GAAGGAGGAAGAAGAAGATTAACGGAGGTAGCATGCT
2295884 GAAGGAGGAAGAAGAAGATTAACGGAGGTAGCATGC
1 GAAGGAGGAAGAAGAAGATTAACGGAGGTAGCATGC
2295920 CACTTCAGCC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.41, C:0.08, G:0.38, T:0.12
Consensus pattern (37 bp):
GAAGGAGGAAGAAGAAGATTAACGGAGGTAGCATGCT
Found at i:2300220 original size:28 final size:28
Alignment explanation
Indices: 2300182--2300286 Score: 86
Period size: 28 Copynumber: 3.5 Consensus size: 28
2300172 TATTAATTTT
*
2300182 ATCATTAAATTTTAAAGAGTTCTAATTA
1 ATCATTAAATTTTAAAGAGTTATAATTA
* *
2300210 ATCATTGAATTTTAGATA-ATTTATATATTAA
1 ATCATTAAATTTTA-A-AGAGTTATA-ATT-A
*
2300241 TTTTATCATTAAATTTTAAAGAGTTTTAATTA
1 ----ATCATTAAATTTTAAAGAGTTATAATTA
*
2300273 ATCATTGAATTTTA
1 ATCATTAAATTTTA
2300287 GATAGTATTT
Statistics
Matches: 61, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
28 26 0.43
29 6 0.10
30 4 0.07
31 1 0.02
32 1 0.02
33 4 0.07
34 6 0.10
35 13 0.21
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.49
Consensus pattern (28 bp):
ATCATTAAATTTTAAAGAGTTATAATTA
Found at i:2300241 original size:63 final size:63
Alignment explanation
Indices: 2300163--2300290 Score: 247
Period size: 63 Copynumber: 2.0 Consensus size: 63
2300153 AATTAAATGT
2300163 TAATTTATATATTAATTTTATCATTAAATTTTAAAGAGTTCTAATTAATCATTGAATTTTAGA
1 TAATTTATATATTAATTTTATCATTAAATTTTAAAGAGTTCTAATTAATCATTGAATTTTAGA
*
2300226 TAATTTATATATTAATTTTATCATTAAATTTTAAAGAGTTTTAATTAATCATTGAATTTTAGA
1 TAATTTATATATTAATTTTATCATTAAATTTTAAAGAGTTCTAATTAATCATTGAATTTTAGA
2300289 TA
1 TA
2300291 GTATTTTTTT
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (63 bp):
TAATTTATATATTAATTTTATCATTAAATTTTAAAGAGTTCTAATTAATCATTGAATTTTAGA
Found at i:2305968 original size:20 final size:20
Alignment explanation
Indices: 2305927--2305968 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
2305917 GTAAAAATTG
* *
2305927 ATATTTGAATACTTTGAGTA
1 ATATTTGAATACTTCGAATA
2305947 ATATTTGAAATA-TTCGAATA
1 ATATTTG-AATACTTCGAATA
2305967 AT
1 AT
2305969 TGAATCGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.43
Consensus pattern (20 bp):
ATATTTGAATACTTCGAATA
Found at i:2305998 original size:19 final size:19
Alignment explanation
Indices: 2305971--2306010 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
2305961 CGAATAATTG
*
2305971 AATCGAATATAATAAT-TTA
1 AATCAAATATAA-AATCTTA
2305990 AATCAAATATAAAATCTTA
1 AATCAAATATAAAATCTTA
2306009 AA
1 AA
2306011 ATTACTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 3 0.16
19 16 0.84
ACGTcount: A:0.57, C:0.07, G:0.03, T:0.33
Consensus pattern (19 bp):
AATCAAATATAAAATCTTA
Found at i:2306438 original size:17 final size:17
Alignment explanation
Indices: 2306413--2306460 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
2306403 AAGATCAAAC
2306413 ATCCAAAACACACAAAAT
1 ATCC-AAACACACAAAAT
*
2306431 ATCCAAACA-ACCAAAT
1 ATCCAAACACACAAAAT
*
2306447 ATTCAAA-ACACAAA
1 ATCCAAACACACAAA
2306461 TCCATCAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 1 0.04
16 16 0.62
17 5 0.19
18 4 0.15
ACGTcount: A:0.60, C:0.27, G:0.00, T:0.12
Consensus pattern (17 bp):
ATCCAAACACACAAAAT
Found at i:2306448 original size:16 final size:17
Alignment explanation
Indices: 2306408--2306461 Score: 51
Period size: 16 Copynumber: 3.3 Consensus size: 17
2306398 CATTAAAGAT
*
2306408 CAAACATCCAAAACACAC
1 CAAATATCC-AAACACAC
*
2306426 AAAATATCCAAACA-AC
1 CAAATATCCAAACACAC
*
2306442 CAAATATTCAAA-ACA-
1 CAAATATCCAAACACAC
2306457 CAAAT
1 CAAAT
2306462 CCATCAAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
15 6 0.19
16 13 0.42
17 5 0.16
18 7 0.23
ACGTcount: A:0.59, C:0.28, G:0.00, T:0.13
Consensus pattern (17 bp):
CAAATATCCAAACACAC
Found at i:2308518 original size:19 final size:19
Alignment explanation
Indices: 2308494--2308530 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
2308484 TTCATCCCCT
2308494 TACATATAATTAACTCACC
1 TACATATAATTAACTCACC
**
2308513 TACATATGCTTAACTCAC
1 TACATATAATTAACTCAC
2308531 TTTCTACTCA
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:0.38, C:0.27, G:0.03, T:0.32
Consensus pattern (19 bp):
TACATATAATTAACTCACC
Found at i:2309008 original size:22 final size:22
Alignment explanation
Indices: 2308983--2309037 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
2308973 ACCATACTAC
2308983 CCTTTTAATCCTTCCATAATTA
1 CCTTTTAATCCTTCCATAATTA
2309005 CCTTTTAATCCTTCCATAATTA
1 CCTTTTAATCCTTCCATAATTA
2309027 CCTTTTAATCC
1 CCTTTTAATCC
2309038 AATACTGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.25, C:0.29, G:0.00, T:0.45
Consensus pattern (22 bp):
CCTTTTAATCCTTCCATAATTA
Found at i:2311034 original size:21 final size:21
Alignment explanation
Indices: 2311009--2311075 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
2310999 CATACAATGG
*
2311009 TATCGATACCCGTTGAAGAAG
1 TATCGATACCCGTTGAAGAAA
*
2311030 TATCGGTA-CCGTT-AAGAACAA
1 TATCGATACCCGTTGAAG-A-AA
*
2311051 TATCGATACCCATTGAAGAAA
1 TATCGATACCCGTTGAAGAAA
2311072 TATC
1 TATC
2311076 AGTACTATGC
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
19 3 0.08
20 6 0.16
21 21 0.55
22 5 0.13
23 3 0.08
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.25
Consensus pattern (21 bp):
TATCGATACCCGTTGAAGAAA
Found at i:2316630 original size:22 final size:22
Alignment explanation
Indices: 2316602--2316658 Score: 105
Period size: 22 Copynumber: 2.6 Consensus size: 22
2316592 GGGAGCGTAT
2316602 GGGTATCGGTACTCCTTTATAA
1 GGGTATCGGTACTCCTTTATAA
2316624 GGGTATCGGTACTCCTTTATAA
1 GGGTATCGGTACTCCTTTATAA
*
2316646 GGGTATCGATACT
1 GGGTATCGGTACT
2316659 ACCTGTAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.35
Consensus pattern (22 bp):
GGGTATCGGTACTCCTTTATAA
Found at i:2317128 original size:19 final size:19
Alignment explanation
Indices: 2317081--2317119 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
2317071 GAAATATTCG
*
2317081 AATAA-TTAAATCGAATAT
1 AATAATTTAAATCAAATAT
2317099 AATAATTTAAATCAAATAT
1 AATAATTTAAATCAAATAT
2317118 AA
1 AA
2317120 GATCTTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (19 bp):
AATAATTTAAATCAAATAT
Found at i:2317951 original size:27 final size:28
Alignment explanation
Indices: 2317883--2317951 Score: 72
Period size: 27 Copynumber: 2.5 Consensus size: 28
2317873 AAAAATTAAA
*
2317883 ATAATATTTAAAATTTTAAATAAAATTTT
1 ATAAAATTTAAAATTTT-AATAAAATTTT
* * *
2317912 A-AAAA-ATAGAATTTT-ATAGAATTTT
1 ATAAAATTTAAAATTTTAATAAAATTTT
2317937 ATAAAATTTAAAATT
1 ATAAAATTTAAAATT
2317952 AATTTTAACT
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
25 10 0.31
26 4 0.12
27 14 0.44
28 3 0.09
29 1 0.03
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (28 bp):
ATAAAATTTAAAATTTTAATAAAATTTT
Found at i:2318056 original size:31 final size:31
Alignment explanation
Indices: 2318021--2318082 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
2318011 AACTGATGTC
*
2318021 ATATGTAAACAATAAAGGTTAAGTGTTTTTA
1 ATATGTAAACAATAAAGGTTAAATGTTTTTA
*
2318052 ATATGTAAACATTAAAGGTTAAATGTTTTTA
1 ATATGTAAACAATAAAGGTTAAATGTTTTTA
2318083 GAAATAAACT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.42, C:0.03, G:0.15, T:0.40
Consensus pattern (31 bp):
ATATGTAAACAATAAAGGTTAAATGTTTTTA
Found at i:2319338 original size:20 final size:20
Alignment explanation
Indices: 2319305--2319346 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
2319295 CCGCCATGGA
*
2319305 CGGCGTCGGACACCGTTCAT
1 CGGCGCCGGACACCGTTCAT
*
2319325 CGGCGCCGGCCACCGTTCAT
1 CGGCGCCGGACACCGTTCAT
2319345 CG
1 CG
2319347 ACGGTGAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.12, C:0.40, G:0.31, T:0.17
Consensus pattern (20 bp):
CGGCGCCGGACACCGTTCAT
Found at i:2320092 original size:13 final size:13
Alignment explanation
Indices: 2320074--2320109 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
2320064 ATATATACAC
*
2320074 TATATAATGTAAG
1 TATATAATATAAG
*
2320087 TATATATTATAAG
1 TATATAATATAAG
2320100 TATATAATAT
1 TATATAATAT
2320110 GTATATACCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.44
Consensus pattern (13 bp):
TATATAATATAAG
Found at i:2321695 original size:7 final size:7
Alignment explanation
Indices: 2321678--2321719 Score: 50
Period size: 7 Copynumber: 5.7 Consensus size: 7
2321668 ACCCACCTTA
2321678 TTTTC-T
1 TTTTCTT
2321684 TTTTCTT
1 TTTTCTT
2321691 TTTTCTTT
1 TTTTC-TT
2321699 TTTCCTCTT
1 TTT--TCTT
2321708 TTTTCTT
1 TTTTCTT
2321715 TTTTC
1 TTTTC
2321720 AGTTTAAGGC
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
6 5 0.16
7 15 0.47
8 5 0.16
9 5 0.16
10 2 0.06
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (7 bp):
TTTTCTT
Found at i:2321709 original size:17 final size:17
Alignment explanation
Indices: 2321687--2321719 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
2321677 ATTTTCTTTT
2321687 TCTTTTTTCTTTTTTCC
1 TCTTTTTTCTTTTTTCC
2321704 TCTTTTTTCTTTTTTC
1 TCTTTTTTCTTTTTTC
2321720 AGTTTAAGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (17 bp):
TCTTTTTTCTTTTTTCC
Found at i:2329489 original size:14 final size:14
Alignment explanation
Indices: 2329470--2329504 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
2329460 CTTTAGCTAT
2329470 TCTTTCAAAGTCTC
1 TCTTTCAAAGTCTC
* *
2329484 TCTTTCGAGGTCTC
1 TCTTTCAAAGTCTC
2329498 TCTTTCA
1 TCTTTCA
2329505 TCCTACCCCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.14, C:0.29, G:0.11, T:0.46
Consensus pattern (14 bp):
TCTTTCAAAGTCTC
Found at i:2332918 original size:381 final size:381
Alignment explanation
Indices: 2332215--2332989 Score: 1532
Period size: 381 Copynumber: 2.0 Consensus size: 381
2332205 GTTTAGTTTA
*
2332215 TTATTATTTTATTCATTAGTTATTTAGGACCTTTAGAACTCAGCCCCTATATAAAGGAGGCTTCA
1 TTATTATCTTATTCATTAGTTATTTAGGACCTTTAGAACTCAGCCCCTATATAAAGGAGGCTTCA
2332280 TTCTACTTTGTAAATCAGATTTCTTTGATTAATAATACAACGAGAGTTCGTTTTTGCAAGTGCTG
66 TTCTACTTTGTAAATCAGATTTCTTTGATTAATAATACAACGAGAGTTCGTTTTTGCAAGTGCTG
2332345 ATTGCCTTGTGCCTTCGAAGCTTCTTCTCCTGGAGTTCTTTCAAGTTCTTGTGAGGGAGATTAAT
131 ATTGCCTTGTGCCTTCGAAGCTTCTTCTCCTGGAGTTCTTTCAAGTTCTTGTGAGGGAGATTAAT
2332410 CTTCACACTCCAATTTGCCTTTTCATCGCGACTAGGAGGGTTGGTTAGAGCCATTTATCGTGTTT
196 CTTCACACTCCAATTTGCCTTTTCATCGCGACTAGGAGGGTTGGTTAGAGCCATTTATCGTGTTT
2332475 GCCTTTTCATTGCGACTAGGAGGGCTCGATAGGACACTTATCCATCTATTTTTCCACAAATCCAT
261 GCCTTTTCATTGCGACTAGGAGGGCTCGATAGGACACTTATCCATCTATTTTTCCACAAATCCAT
2332540 CCGCACCATCAATCATCTTTACCGTTCACCTTCATAAGGGAGATCTTTTGATTTCT
326 CCGCACCATCAATCATCTTTACCGTTCACCTTCATAAGGGAGATCTTTTGATTTCT
*
2332596 TTATTATCTTATTCATTAGTTATTTAGGACCTTTAGAACTCATCCCCTATATAAAGGAGGCTTCA
1 TTATTATCTTATTCATTAGTTATTTAGGACCTTTAGAACTCAGCCCCTATATAAAGGAGGCTTCA
2332661 TTCTACTTTGTAAATCAGATTTCTTTGATTAATAATACAACGAGAGTTCGTTTTTGCAAGTGCTG
66 TTCTACTTTGTAAATCAGATTTCTTTGATTAATAATACAACGAGAGTTCGTTTTTGCAAGTGCTG
2332726 ATTGCCTTGTGCCTTCGAAGCTTCTTCTCCTGGAGTTCTTTCAAGTTCTTGTGAGGGAGATTAAT
131 ATTGCCTTGTGCCTTCGAAGCTTCTTCTCCTGGAGTTCTTTCAAGTTCTTGTGAGGGAGATTAAT
2332791 CTTCACACTCCAATTTGCCTTTTCATCGCGACTAGGAGGGTTGGTTAGAGCCATTTATCGTGTTT
196 CTTCACACTCCAATTTGCCTTTTCATCGCGACTAGGAGGGTTGGTTAGAGCCATTTATCGTGTTT
2332856 GCCTTTTCATTGCGACTAGGAGGGCTCGATAGGACACTTATCCATCTATTTTTCCACAAATCCAT
261 GCCTTTTCATTGCGACTAGGAGGGCTCGATAGGACACTTATCCATCTATTTTTCCACAAATCCAT
2332921 CCGCACCATCAATCATCTTTACCGTTCACCTTCATAAGGGAGATCTTTTGATTTCT
326 CCGCACCATCAATCATCTTTACCGTTCACCTTCATAAGGGAGATCTTTTGATTTCT
2332977 TTATTATCTTATT
1 TTATTATCTTATT
2332990 TCATCTTTCA
Statistics
Matches: 392, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
381 392 1.00
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.38
Consensus pattern (381 bp):
TTATTATCTTATTCATTAGTTATTTAGGACCTTTAGAACTCAGCCCCTATATAAAGGAGGCTTCA
TTCTACTTTGTAAATCAGATTTCTTTGATTAATAATACAACGAGAGTTCGTTTTTGCAAGTGCTG
ATTGCCTTGTGCCTTCGAAGCTTCTTCTCCTGGAGTTCTTTCAAGTTCTTGTGAGGGAGATTAAT
CTTCACACTCCAATTTGCCTTTTCATCGCGACTAGGAGGGTTGGTTAGAGCCATTTATCGTGTTT
GCCTTTTCATTGCGACTAGGAGGGCTCGATAGGACACTTATCCATCTATTTTTCCACAAATCCAT
CCGCACCATCAATCATCTTTACCGTTCACCTTCATAAGGGAGATCTTTTGATTTCT
Found at i:2334080 original size:13 final size:13
Alignment explanation
Indices: 2334061--2334112 Score: 56
Period size: 13 Copynumber: 4.2 Consensus size: 13
2334051 AAACGAGAAC
2334061 AAAAAT-AATAAA
1 AAAAATAAATAAA
*
2334073 ATAAAATAAATCAA
1 A-AAAATAAATAAA
*
2334087 AAAAGT-AA-AAA
1 AAAAATAAATAAA
2334098 AAAAATAAATAAA
1 AAAAATAAATAAA
2334111 AA
1 AA
2334113 CGTCGGATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
11 7 0.22
12 5 0.16
13 14 0.44
14 6 0.19
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.15
Consensus pattern (13 bp):
AAAAATAAATAAA
Found at i:2334100 original size:12 final size:11
Alignment explanation
Indices: 2334061--2334112 Score: 50
Period size: 11 Copynumber: 4.4 Consensus size: 11
2334051 AAACGAGAAC
2334061 AAAAATAATAAA
1 AAAAATAA-AAA
2334073 ATAAAATAAATCAA
1 A-AAAATAAA--AA
*
2334087 AAAAGTAAAAA
1 AAAAATAAAAA
*
2334098 AAAAATAAATA
1 AAAAATAAAAA
2334109 AAAA
1 AAAA
2334113 CGTCGGATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
11 15 0.44
12 2 0.06
13 14 0.41
14 3 0.09
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.15
Consensus pattern (11 bp):
AAAAATAAAAA
Done.