Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001547.1 Hibiscus syriacus cultivar Beakdansim tig00003041_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: 10425128
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 21 of 51
Found at i:4101368 original size:23 final size:23
Alignment explanation
Indices: 4101342--4101389 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
4101332 ATAAAGTACA
*
4101342 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
4101365 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
4101388 AT
1 AT
4101390 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:4101839 original size:23 final size:23
Alignment explanation
Indices: 4101813--4101875 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
4101803 ATATAACCAC
4101813 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
4101836 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
4101859 TACCTATTACATCATAT
1 TACCTATTACATTATAT
4101876 GTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:4102329 original size:23 final size:23
Alignment explanation
Indices: 4102303--4102365 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
4102293 ATATAACCAC
4102303 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
4102326 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
4102349 TACCTATTACATCATAT
1 TACCTATTACATTATAT
4102366 GTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:4102569 original size:490 final size:487
Alignment explanation
Indices: 4101640--4102708 Score: 2063
Period size: 490 Copynumber: 2.2 Consensus size: 487
4101630 TTATTTAGAA
4101640 TTTTTAATTTAATAATATATAT--CGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTA
1 TTTTTAATTTAATAATATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTA
*
4101703 AATTAATATCTTAAAGCTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGT
66 AATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGT
4101768 ATAGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAA
131 ATAGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAA
4101833 CGATACCTATTACATTATATAAGCGCTACCTATTACATCATATGTTTACCTATTATATTGAAAGT
196 CGATACCTATTACATTATATAAGCGCTACCTATTACATCATATGTTTACCTATTATATTGAAAGT
4101898 GTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAATTT
261 GTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAATTT
4101963 TTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAATAT
326 TTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAATAT
4102028 TATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAACATTAACCAAA
391 TATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAACATTAACCAAA
4102093 GATAATAATAAATATGTAATATATATGTTTATTG
456 GATAATAATAAATATGT-A-ATATATGTTTATTG
4102127 TTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
1 TTTTTAATTTAATAAT-ATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
*
4102192 AAATTAATATTTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
65 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
*
4102257 TATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAA
130 TATAGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAA
4102322 ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATGTTTACCTATTATATTGAAAG
195 ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATGTTTACCTATTATATTGAAAG
4102387 TGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAATT
260 TGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAATT
4102452 TTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAATA
325 TTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAATA
4102517 TTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAACATTAACCAA
390 TTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAACATTAACCAA
4102582 AGATAATAATAAATATGTAATATATGTTTATTG
455 AGATAATAATAAATATGTAATATATGTTTATTG
4102615 TTTTTAATTTAATAATA-ATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTA
1 TTTTTAATTTAATAATATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTA
4102679 AATTAATATCTTAAAACTCACTCAAAAGAT
66 AATTAATATCTTAAAACTCACTCAAAAGAT
4102709 GTATATACCT
Statistics
Matches: 575, Mismatches: 4, Indels: 7
0.98 0.01 0.01
Matches are distributed among these distances:
486 76 0.13
487 17 0.03
488 36 0.06
489 1 0.00
490 445 0.77
ACGTcount: A:0.41, C:0.12, G:0.08, T:0.39
Consensus pattern (487 bp):
TTTTTAATTTAATAATATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTA
AATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGT
ATAGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAA
CGATACCTATTACATTATATAAGCGCTACCTATTACATCATATGTTTACCTATTATATTGAAAGT
GTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAATTT
TTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAATAT
TATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAACATTAACCAAA
GATAATAATAAATATGTAATATATGTTTATTG
Found at i:4102764 original size:25 final size:25
Alignment explanation
Indices: 4102707--4102772 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
4102697 CACTCAAAAG
*
4102707 ATGTATATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
***
4102732 ACAAACATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
*
4102757 TTGTACATACCTAAAT
1 ATGTACATACCTAAAT
4102773 TTAATGATAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (25 bp):
ATGTACATACCTAAATATGTAGTTA
Found at i:4105438 original size:22 final size:22
Alignment explanation
Indices: 4105404--4105448 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
4105394 TAATATGTTG
*
4105404 AAAGTATCCATACTTTTTATAA
1 AAAGGATCCATACTTTTTATAA
* *
4105426 AAAGGATCGATACTTTTTTTAA
1 AAAGGATCCATACTTTTTATAA
4105448 A
1 A
4105449 GATATGTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (22 bp):
AAAGGATCCATACTTTTTATAA
Found at i:4105786 original size:23 final size:23
Alignment explanation
Indices: 4105760--4105818 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
4105750 AACCACTACC
4105760 TATTACATTATATAAACGATACA
1 TATTACATTATATAAACGATACA
* * *
4105783 TATTACATTATATAAGCGCTACC
1 TATTACATTATATAAACGATACA
*
4105806 TATTACATCATAT
1 TATTACATTATAT
4105819 TTTTACCTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (23 bp):
TATTACATTATATAAACGATACA
Found at i:4107427 original size:9 final size:9
Alignment explanation
Indices: 4107413--4107456 Score: 52
Period size: 9 Copynumber: 4.6 Consensus size: 9
4107403 CTTGTTTGGA
4107413 TCATCATCT
1 TCATCATCT
4107422 TCATCATCAT
1 TCATCATC-T
*
4107432 CATCATCATCG
1 --TCATCATCT
4107443 TCATCATCT
1 TCATCATCT
4107452 TCATC
1 TCATC
4107457 GTCAGCTTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
9 21 0.70
10 1 0.03
12 8 0.27
ACGTcount: A:0.25, C:0.34, G:0.02, T:0.39
Consensus pattern (9 bp):
TCATCATCT
Found at i:4107429 original size:12 final size:12
Alignment explanation
Indices: 4107416--4107504 Score: 88
Period size: 12 Copynumber: 7.4 Consensus size: 12
4107406 GTTTGGATCA
* *
4107416 TCATCTTCATCA
1 TCATCGTCATCT
* *
4107428 TCATCATCATCA
1 TCATCGTCATCT
* *
4107440 TCGTCATCATCT
1 TCATCGTCATCT
*
4107452 TCATCGTCAGCT
1 TCATCGTCATCT
* *
4107464 TCATCGTCGTCA
1 TCATCGTCATCT
4107476 TCATCGTCATCT
1 TCATCGTCATCT
*
4107488 TCATCGTCAGCT
1 TCATCGTCATCT
4107500 TCATC
1 TCATC
4107505 TTCTGCGACC
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 65 1.00
ACGTcount: A:0.20, C:0.34, G:0.09, T:0.37
Consensus pattern (12 bp):
TCATCGTCATCT
Found at i:4107431 original size:6 final size:6
Alignment explanation
Indices: 4107412--4107492 Score: 72
Period size: 6 Copynumber: 13.5 Consensus size: 6
4107402 ACTTGTTTGG
* * * *
4107412 ATCATC ATCTTC ATCATC ATCATC ATCATC GTCATC ATCTTC ATCGTC
1 ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC
* * * * * *
4107460 AGCTTC ATCGTC GTCATC ATCGTC ATCTTC ATC
1 ATCATC ATCATC ATCATC ATCATC ATCATC ATC
4107493 GTCAGCTTCA
Statistics
Matches: 60, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 60 1.00
ACGTcount: A:0.22, C:0.33, G:0.07, T:0.37
Consensus pattern (6 bp):
ATCATC
Found at i:4107468 original size:36 final size:36
Alignment explanation
Indices: 4107428--4107504 Score: 118
Period size: 36 Copynumber: 2.1 Consensus size: 36
4107418 ATCTTCATCA
*
4107428 TCATCATCATCATCGTCATCATCTTCATCGTCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGTCAGCT
* * *
4107464 TCATCGTCGTCATCATCGTCATCTTCATCGTCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGTCAGCT
4107500 TCATC
1 TCATC
4107505 TTCTGCGACC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.19, C:0.34, G:0.10, T:0.36
Consensus pattern (36 bp):
TCATCATCATCATCATCATCATCTTCATCGTCAGCT
Found at i:4107482 original size:9 final size:9
Alignment explanation
Indices: 4107425--4107486 Score: 61
Period size: 9 Copynumber: 6.6 Consensus size: 9
4107415 ATCATCTTCA
*
4107425 TCATCATCA
1 TCATCATCG
4107434 TCATCATCG
1 TCATCATCG
*
4107443 TCATCATCT
1 TCATCATCG
*
4107452 TCATCGTCAG
1 TCATCATC-G
*
4107462 CTTCATCGTCG
1 --TCATCATCG
4107473 TCATCATCG
1 TCATCATCG
4107482 TCATC
1 TCATC
4107487 TTCATCGTCA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
9 36 0.80
11 1 0.02
12 8 0.18
ACGTcount: A:0.21, C:0.34, G:0.10, T:0.35
Consensus pattern (9 bp):
TCATCATCG
Found at i:4107507 original size:6 final size:6
Alignment explanation
Indices: 4107416--4107507 Score: 67
Period size: 6 Copynumber: 15.3 Consensus size: 6
4107406 GTTTGGATCA
* * * * * * *
4107416 TCATCT TCATCA TCATCA TCATCA TCGTCA TCATCT TCATCG TCAGCT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
* * * * * *
4107464 TCATCG TCGTCA TCATCG TCATCT TCATCG TCAGCT TCATCT TC
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TC
4107508 TGCGACCGCT
Statistics
Matches: 68, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 68 1.00
ACGTcount: A:0.20, C:0.34, G:0.09, T:0.38
Consensus pattern (6 bp):
TCATCT
Found at i:4109601 original size:198 final size:199
Alignment explanation
Indices: 4108980--4110939 Score: 3715
Period size: 199 Copynumber: 9.9 Consensus size: 199
4108970 TTTAAATTAG
*
4108980 TATCGACACAAACTAAAA-AGTGTCGACACATTATTTATACATATTCTCTCATAAAAACCGGTAT
1 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCAT-AAAACCGGTAT
4109044 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGA
65 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGA
4109109 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAC
130 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAC
4109174 AAAAA
195 AAAAA
4109179 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
4109244 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
4109309 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACA
4109374 AAAA
196 AAAA
4109378 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
4109443 CTTGTACCGGTTAGATTG-AAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
*
4109507 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACA
4109572 AAAA
196 AAAA
4109576 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
4109641 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATG-TTTTTGGGA
4109706 TCGACAC-TTTT-TATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAC
130 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAC
4109769 -AAAA
195 AAAAA
4109773 TATCGACAC-AACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCAT-AAACCGGTATA
1 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
4109836 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
4109901 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACA
4109966 AAAA
196 AAAA
4109970 TATCGACACAAACTAAAA-AGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
4110034 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
*
4110099 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACA
4110164 AAAA
196 AAAA
4110168 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
4110233 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
*
4110298 CGACACTTTTTATATACGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACA
4110363 AAAA
196 AAAA
4110367 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* *
4110432 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTATGAGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
* *
4110497 CGACACTTTTTATATACGGATCGGCACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACA
4110562 AAAA
196 AAAA
4110566 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCAT-AAACC-GTATA
1 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
4110629 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
4110694 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACA
4110759 AAAA
196 AAAA
4110763 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
4110828 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGTTTTTGGGA
* * *
4110893 TCGACAATTTTTATATATTGATCGACACTTTATGGTTGCACCCTGTT
130 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
4110940 GGCCATATTG
Statistics
Matches: 1732, Mismatches: 17, Indels: 23
0.98 0.01 0.01
Matches are distributed among these distances:
194 16 0.01
195 70 0.04
196 95 0.05
197 248 0.14
198 428 0.25
199 766 0.44
200 109 0.06
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (199 bp):
TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACA
AAAA
Found at i:4111104 original size:19 final size:19
Alignment explanation
Indices: 4111057--4111106 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
4111047 ATTATATTCA
*
4111057 TATACAAAAATATAAATCG
1 TATACAAAATTATAAATCG
*
4111076 TATACAAAATTATAAATCT
1 TATACAAAATTATAAATCG
4111095 TATACAAAATTA
1 TATACAAAATTA
4111107 ACCCTACATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.32
Consensus pattern (19 bp):
TATACAAAATTATAAATCG
Found at i:4112931 original size:32 final size:32
Alignment explanation
Indices: 4112895--4112958 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
4112885 CATCTTAATA
*
4112895 TCACCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCTCAACACCCCAACTTCTTTCACCACT
* *
4112927 TCACCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCTCAACACCCCAACTTCTTTCACCACT
4112959 CCATCTATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.23, C:0.47, G:0.00, T:0.30
Consensus pattern (32 bp):
TCACCCTCAACACCCCAACTTCTTTCACCACT
Found at i:4115300 original size:20 final size:19
Alignment explanation
Indices: 4115250--4115305 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
4115240 TCCGGTATCA
*
4115250 TTTTACCGGTTTTATCATT
1 TTTTACCTGTTTTATCATT
* *
4115269 TTGATACATGTTTTATCATAT
1 TT-TTACCTGTTTTATCAT-T
*
4115290 TTTTACCTGTTATATC
1 TTTTACCTGTTTTATC
4115306 GTTGTGGATC
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
19 2 0.07
20 24 0.83
21 3 0.10
ACGTcount: A:0.21, C:0.14, G:0.09, T:0.55
Consensus pattern (19 bp):
TTTTACCTGTTTTATCATT
Found at i:4115473 original size:19 final size:19
Alignment explanation
Indices: 4115430--4115474 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 19
4115420 TCCGGTAACG
*
4115430 TTTTA-CGGTTTTATCATT
1 TTTTACCGGTTTTATCATA
4115448 TTGTTACCGGTTTTATCATA
1 TT-TTACCGGTTTTATCATA
4115468 TTTTACC
1 TTTTACC
4115475 TGGTATATCG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 2 0.08
19 8 0.33
20 14 0.58
ACGTcount: A:0.18, C:0.16, G:0.11, T:0.56
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATA
Found at i:4116226 original size:230 final size:229
Alignment explanation
Indices: 4115523--4116240 Score: 1268
Period size: 224 Copynumber: 3.1 Consensus size: 229
4115513 ACTTTTATAC
4115523 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
* *
4115588 TTTTTAATAGTGTTTAATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
66 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC-ACAAA
4115653 ATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAA
130 ATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAA
*
4115718 AGATAATAATAAATATGTTTTCCACGGTGAAATAA
195 AGATAATAATAAATATGTTTTCCACAGTGAAATAA
*
4115753 GTATGAACACTTTTATAAAAATGATATATAC-TTTTTTAAAGTTATGTAATTTATGTTTCAA-TT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
4115816 TTTTT--TAGTGTTTCATGTTTTCCACCTACAAT-TTAATTTAATAATTTCATTTACACACAAAA
66 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACAAAA
*
4115878 TTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
131 TTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
4115943 GATAATAATAAATATGTTTTCCACAGTGAAATAA
196 GATAATAATAAATATGTTTTCCACAGTGAAATAA
4115977 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
4116042 TTTTTAATAGTGTTTCATGTTTTCCACCTACAAATATTAATTTAATAATTTCATTTACACACAAA
66 TTTTTAATAGTGTTTCATGTTTTCCACCTAC-AATATTAATTTAATAATTTCATTTACACACAAA
*
4116107 ATTATTTAATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCA
130 ATTATTTGATT-TTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCA
* * *
4116172 AAGATAGTAATAAATATATTTT-TACAGTGAAATAA
194 AAGATAATAATAAATATGTTTTCCACAGTGAAATAA
* *
4116207 GTATGGACACTTTTATAAAAAGGATAGATACTTT
1 GTATGGACACTTTTATAAAAATGATATATACTTT
4116241 ACAATATAAC
Statistics
Matches: 468, Mismatches: 13, Indels: 14
0.95 0.03 0.03
Matches are distributed among these distances:
224 132 0.28
225 54 0.12
226 33 0.07
228 31 0.07
229 33 0.07
230 113 0.24
231 72 0.15
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (229 bp):
GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACAAAA
TTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
GATAATAATAAATATGTTTTCCACAGTGAAATAA
Found at i:4116504 original size:11 final size:12
Alignment explanation
Indices: 4116488--4116516 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
4116478 TCCGGTACTG
4116488 CCGTATATTAA-
1 CCGTATATTAAC
4116499 CCGTATATTAAC
1 CCGTATATTAAC
4116511 CCGTAT
1 CCGTAT
4116517 TTCCTGAGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.34
Consensus pattern (12 bp):
CCGTATATTAAC
Found at i:4119166 original size:15 final size:15
Alignment explanation
Indices: 4119066--4119157 Score: 175
Period size: 15 Copynumber: 6.1 Consensus size: 15
4119056 GGACACAATA
4119066 GTATACTTGTATAGG
1 GTATACTTGTATAGG
4119081 GTATACTTGTATAGG
1 GTATACTTGTATAGG
4119096 GTATACTTGTATAGG
1 GTATACTTGTATAGG
*
4119111 GCATACTTGTATAGG
1 GTATACTTGTATAGG
4119126 GTATACTTGTATAGG
1 GTATACTTGTATAGG
4119141 GTATACTTGTATAGG
1 GTATACTTGTATAGG
4119156 GT
1 GT
4119158 TTCTTTGTAA
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 75 1.00
ACGTcount: A:0.26, C:0.08, G:0.27, T:0.39
Consensus pattern (15 bp):
GTATACTTGTATAGG
Found at i:4123191 original size:2 final size:2
Alignment explanation
Indices: 4123180--4123216 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
4123170 TATAATATGG
4123180 AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4123217 GAAAGATTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:4125506 original size:43 final size:43
Alignment explanation
Indices: 4125439--4125524 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
4125429 TGGCTTTAGA
* *
4125439 GAAGTTAGGAGGGAAAGTTATCCCCTATATGTAAAGTTTTGTT
1 GAAGTTAGGACGGAAAGATATCCCCTATATGTAAAGTTTTGTT
* *
4125482 GAAGTTAGGACTGAAAGATGTCCCCTATATGTAAAGTTTTGTT
1 GAAGTTAGGACGGAAAGATATCCCCTATATGTAAAGTTTTGTT
4125525 TGATGCACGA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.30, C:0.10, G:0.24, T:0.35
Consensus pattern (43 bp):
GAAGTTAGGACGGAAAGATATCCCCTATATGTAAAGTTTTGTT
Found at i:4125721 original size:20 final size:20
Alignment explanation
Indices: 4125687--4125733 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
4125677 TATTACGTTC
*
4125687 ACATATTTACATTTGTATTT
1 ACATTTTTACATTTGTATTT
* *
4125707 GCATTTTTACGTTTGTATTT
1 ACATTTTTACATTTGTATTT
4125727 ACATTTT
1 ACATTTT
4125734 CATATTTTCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.23, C:0.11, G:0.09, T:0.57
Consensus pattern (20 bp):
ACATTTTTACATTTGTATTT
Found at i:4126029 original size:43 final size:42
Alignment explanation
Indices: 4125961--4126045 Score: 107
Period size: 43 Copynumber: 2.0 Consensus size: 42
4125951 GGAGATAATT
* * *
4125961 GATCAAGTAAAAAAATTACAGGGTGATTCAAATAAACAAATG
1 GATCAAGAAAAAAAATTACAAGGTGAGTCAAATAAACAAATG
* * *
4126003 GATCAAGCAAAAAAAATTCCAAGGTGAGTCAAATGAGCAAATG
1 GATCAAG-AAAAAAAATTACAAGGTGAGTCAAATAAACAAATG
4126046 ACAAGACTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 7 0.19
43 29 0.81
ACGTcount: A:0.51, C:0.12, G:0.19, T:0.19
Consensus pattern (42 bp):
GATCAAGAAAAAAAATTACAAGGTGAGTCAAATAAACAAATG
Found at i:4128114 original size:72 final size:72
Alignment explanation
Indices: 4127996--4128130 Score: 200
Period size: 72 Copynumber: 1.9 Consensus size: 72
4127986 ATATAATAAA
*
4127996 GCTTGAGTTATCCCCCTAAAGCAATTGGTTAATAGCCCCGGATTTATGGATAATATTCAGCTAGT
1 GCTTGAGTTATCCCCCTAAAGCAATTGGTTAATAGCCCCAGATTTATGGATAATATTCAGCTAGT
4128061 TTGTTAT
66 TTGTTAT
* * * * *
4128068 GCTTGAGTTGTCCCTCTAGAGCAATTGGTTAATCG-CCCAGACTTTATGGATATTATTCAGCTA
1 GCTTGAGTTATCCCCCTAAAGCAATTGGTTAATAGCCCCAGA-TTTATGGATAATATTCAGCTA
4128131 ACTTATTATA
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
71 5 0.09
72 51 0.91
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (72 bp):
GCTTGAGTTATCCCCCTAAAGCAATTGGTTAATAGCCCCAGATTTATGGATAATATTCAGCTAGT
TTGTTAT
Found at i:4132091 original size:54 final size:54
Alignment explanation
Indices: 4132026--4132169 Score: 182
Period size: 54 Copynumber: 2.6 Consensus size: 54
4132016 CAGAAATCAC
*
4132026 AGAAAAGGATGAATGTGTTGTCAAATGCTTTAC-AAACATCTGGCCAGAAGCCACA
1 AGAAAA-GATGAATGTGTTGTCAAATGCTTTACGAAA-ATCCGGCCAGAAGCCACA
* * * *
4132081 AGAAAAGATGAATGTGTTATCAAAAGCTTTACGAAAATCCGGGCAGAAGCCACG
1 AGAAAAGATGAATGTGTTGTCAAATGCTTTACGAAAATCCGGCCAGAAGCCACA
* * * *
4132135 AGAAAGGATGAATGTATTGTCACATGTTTTACGAA
1 AGAAAAGATGAATGTGTTGTCAAATGCTTTACGAA
4132170 CCAGTGATAA
Statistics
Matches: 77, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
54 68 0.88
55 9 0.12
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.23
Consensus pattern (54 bp):
AGAAAAGATGAATGTGTTGTCAAATGCTTTACGAAAATCCGGCCAGAAGCCACA
Found at i:4133028 original size:102 final size:103
Alignment explanation
Indices: 4132860--4133057 Score: 319
Period size: 102 Copynumber: 1.9 Consensus size: 103
4132850 ATTCGATGGG
*
4132860 TCAACATTTCCAGATAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAATAAGTTCATAA
1 TCAACATTTCCAGATAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
4132925 TGAGAAGAACTTGTTCAAC-TTTAGCTTGATCGATAGA
66 TGAGAAGAACTTGTTCAACATTTAGCTTGATCGATAGA
* * *
4132962 TCAATATTTCCAGGTAGAGTTCATAATG-GAAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
1 TCAACATTTCCAGATAAAGTTCATAATGAG-AAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
* *
4133026 ATGAGAAGAGCTTGTTCAACATTTTGCTTGAT
65 ATGAGAAGAACTTGTTCAACATTTAGCTTGAT
4133058 TCCATTTCCA
Statistics
Matches: 88, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
101 1 0.01
102 77 0.88
103 10 0.11
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.28
Consensus pattern (103 bp):
TCAACATTTCCAGATAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
TGAGAAGAACTTGTTCAACATTTAGCTTGATCGATAGA
Found at i:4133123 original size:124 final size:122
Alignment explanation
Indices: 4132967--4133878 Score: 900
Period size: 121 Copynumber: 7.6 Consensus size: 122
4132957 ATAGATCAAT
*
4132967 ATTTCCAGGTAGAGTTCATAATG-GAAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAG
1 ATTTCCAGATAGAGTTCATAATGAGAAA-AACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAG
* * * * * * * *
4133031 AAGAGCTTGTTCAACATTTTGCTTGATTCCATTTC-CAGAAAGAGATAGAGCAGCA-GAGCC
65 AAGAACTTGTTCAACCTTTTGCTCGATT-C-TATCACA-AAAGAGATAGATCAACACCA-AC
* * *
4133091 ATTGCCAGATAGAGTTTATAATGAGAAAAACTCATCTGAAGACGAAGAAGAAGTTCATAATGAGA
1 ATTTCCAGATAGAGTTCATAATGAGAAAAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGA
*** *
4133156 AGAACTTGTTCAACCTTTTGCTCGAATTC-AT--C--ATTCGATGGAT------CAAC
66 AGAACTTGTTCAACCTTTTGCTCG-ATTCTATCACAAAAGAGATAGATCAACACCAAC
* * * * * * *
4133203 ATTGCCAGGTAGAGTTCATAATGAGAAGAACTCAGCTGAAGAAGGAATAAGAAGGTCACAATGAG
1 ATTTCCAGATAGAGTTCATAATGAGAAAAACTCATCTGAAG-AGGAAGAAGAAGTTCATAATGAG
* ** * *
4133268 AAGAACTTGTTTAACCTTTTGCTCGAATTC-ATCAC----TCGATGGAT------CATC
65 AAGAACTTGTTCAACCTTTTGCTCG-ATTCTATCACAAAAGAGATAGATCAACACCAAC
* * * * * *
4133316 ATTGCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAACGAGA
1 ATTTCCAGATAGAGTTCATAATGAGAAAAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGA
* * *
4133381 AGAACTTGTTTAACC-TTTGCAT-GAATCTATCACAGAAGGAGATAGATCAACACCAAC
66 AGAACTTGTTCAACCTTTTGC-TCGATTCTATCACA-AAAGAGATAGATCAACACCAAC
* * * * *
4133438 ATTTCCAAAGAAAGTTCATAATGAGAAGAACTCATCTAAAGAGGAAGAAGAAGTTCATAATGAGA
1 ATTTCCAGATAGAGTTCATAATGAGAAAAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGA
* * * *
4133503 AGAACTTATTCAACC-TTTGCTTGATTCTATCACAAAAATAGATAGATCAACATCAAC
66 AGAACTTGTTCAACCTTTTGCTCGATTCTATCAC-AAAAGAGATAGATCAACACCAAC
* * *
4133560 ATTTCCACA-AGAGTTCATAATGAGAATAACTCATCTGAAGAAGG-AGAAGAAGTTCATAATAAG
1 ATTTCCAGATAGAGTTCATAATGAGAAAAACTCATCTGAAG-AGGAAGAAGAAGTTCATAATGAG
* * *
4133623 AAGAACTTGTTCAACCTTTTTCTCGACTCTATCACAAAAGGAGATAGATCAGCACCAAC
65 AAGAACTTGTTCAACCTTTTGCTCGATTCTATCACAAAA-GAGATAGATCAACACCAAC
* * *
4133682 ATTTCCAGAGAAAAATTCATAATGAGAAAAACTCATCTGAAGA-G--GAAGAAGTTCATAATGAG
1 ATTTCCAGA-TAGAGTTCATAATGAGAAAAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAG
* *
4133744 AAGAACTTGTTCAACCTTTTTCTCGACTCTATCACAGAAAGAGATAGATCAACACCAAC
65 AAGAACTTGTTCAACCTTTTGCTCGATTCTATCACA-AAAGAGATAGATCAACACCAAC
* * * *
4133803 ATTTCCAGAGAATAATTCATAATGAGAAAAACTCATCTGAAGAGGAAGACGAAGTTCATAATGAG
1 ATTTCCAGA-TAGAGTTCATAATGAGAAAAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAG
4133868 AAGAACTTGTT
65 AAGAACTTGTT
4133879 TGACCTTAAC
Statistics
Matches: 689, Mismatches: 70, Indels: 58
0.84 0.09 0.07
Matches are distributed among these distances:
110 3 0.00
111 11 0.02
112 74 0.11
113 99 0.14
115 1 0.00
116 6 0.01
118 6 0.01
121 180 0.26
122 166 0.24
123 2 0.00
124 134 0.19
125 7 0.01
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.25
Consensus pattern (122 bp):
ATTTCCAGATAGAGTTCATAATGAGAAAAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGA
AGAACTTGTTCAACCTTTTGCTCGATTCTATCACAAAAGAGATAGATCAACACCAAC
Found at i:4133514 original size:20 final size:20
Alignment explanation
Indices: 4133452--4133514 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
4133442 CCAAAGAAAG
*
4133452 TTCATAATGAGAAGAACTCA
1 TTCATAATGAGAAGAACTAA
* *
4133472 -TC-TAAAGAGGAAGAA-GAA
1 TTCATAATGA-GAAGAACTAA
*
4133490 GTTCATAATGAGAAGAACTTA
1 -TTCATAATGAGAAGAACTAA
4133511 TTCA
1 TTCA
4133515 ACCTTTGCTT
Statistics
Matches: 32, Mismatches: 6, Indels: 10
0.67 0.12 0.21
Matches are distributed among these distances:
18 6 0.19
19 8 0.25
20 12 0.38
21 6 0.19
ACGTcount: A:0.46, C:0.11, G:0.19, T:0.24
Consensus pattern (20 bp):
TTCATAATGAGAAGAACTAA
Found at i:4133859 original size:245 final size:243
Alignment explanation
Indices: 4133315--4133878 Score: 796
Period size: 243 Copynumber: 2.3 Consensus size: 243
4133305 GATGGATCAT
* * * *
4133315 CATTGCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAACGAG
1 CATTTCCAGAGAAAGTTCATAATGAGAAAAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAG
* *
4133380 AAGAACTTGTTTAACCTTTGCATGAATCTATCACAGAAGGAGATAGATCAACACCAACATTTCCA
66 AAGAACTTGTTCAACCTTTGCATGAATCTATCACAAAAGGAGATAGATCAACACCAACATTTCCA
* *
4133445 AAGAAAGTTCATAATGAGAAGAACTCATCTAAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTT
131 AAGAAAATTCATAATGAGAAAAACTCATCTAAAGAGG-AGAAGAAGTTCATAATGAGAAGAACTT
* * * *
4133510 ATTCAACCTTTGCTTGATTCTATCACAAAAATAGATAGATCAACATCAA
195 ATTCAACCTTTGCTCGACTCTATCACAAAAAGAGATAGATCAACACCAA
* * * *
4133559 CATTTCCACA-AGAGTTCATAATGAGAATAACTCATCTGAAGAAGG-AGAAGAAGTTCATAATAA
1 CATTTCCAGAGAAAGTTCATAATGAGAAAAACTCATCTGAAG-AGGAAGAAGAAGTTCATAATGA
* * *
4133622 GAAGAACTTGTTCAACCTTTTTC-TCGACTCTATCACAAAAGGAGATAGATCAGCACCAACATTT
65 GAAGAACTTGTTCAACC-TTTGCAT-GAATCTATCACAAAAGGAGATAGATCAACACCAACATTT
* *
4133686 CCAGAGAAAAATTCATAATGAGAAAAACTCATCTGAAGA-G-GAAGAAGTTCATAATGAGAAGAA
128 CCAAAG-AAAATTCATAATGAGAAAAACTCATCTAAAGAGGAGAAGAAGTTCATAATGAGAAGAA
* * *
4133749 CTTGTTCAACCTTTTTCTCGACTCTATCACAGAAAGAGATAGATCAACACCAA
192 CTTATTCAACC-TTTGCTCGACTCTATCACAAAAAGAGATAGATCAACACCAA
* *
4133802 CATTTCCAGAGAATAATTCATAATGAGAAAAACTCATCTGAAGAGGAAGACGAAGTTCATAATGA
1 CATTTCCAGAGAA-AGTTCATAATGAGAAAAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGA
4133867 GAAGAACTTGTT
65 GAAGAACTTGTT
4133879 TGACCTTAAC
Statistics
Matches: 283, Mismatches: 29, Indels: 15
0.87 0.09 0.05
Matches are distributed among these distances:
242 33 0.12
243 105 0.37
244 61 0.22
245 84 0.30
ACGTcount: A:0.42, C:0.16, G:0.17, T:0.24
Consensus pattern (243 bp):
CATTTCCAGAGAAAGTTCATAATGAGAAAAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAG
AAGAACTTGTTCAACCTTTGCATGAATCTATCACAAAAGGAGATAGATCAACACCAACATTTCCA
AAGAAAATTCATAATGAGAAAAACTCATCTAAAGAGGAGAAGAAGTTCATAATGAGAAGAACTTA
TTCAACCTTTGCTCGACTCTATCACAAAAAGAGATAGATCAACACCAA
Found at i:4134170 original size:137 final size:137
Alignment explanation
Indices: 4133818--4134296 Score: 549
Period size: 137 Copynumber: 3.5 Consensus size: 137
4133808 CAGAGAATAA
* * * * **
4133818 TTCATAATGAGAAAAACTCATCTGAAGAGGAAGACGAAGTTCATAATGAGAAGAACTTGTTTGAC
1 TTCACAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTATTCAAC
** * * * * * * *
4133883 CTTAACTTGATTCATCACCTATGGAGTTGAATGAAAGAAAAACCTCTCTTGAGGATTAACATTT-
66 CTTTCCTTAATTCATCACATATGAAGTTGAATCAAAG--ACACCTCTTTTGAGGATCAACATTTC
*
4133947 TCAG-AGAAAG
129 T-AGAAG-GAG
* * *
4133957 TTCATAATAAGAAGAA-TGCATCTGAAGA-G--GAAGAAGTTCATAATGAGAAGAACTTGTTCAA
1 TTCACAATGAGAAGAACT-CATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTATTCAA
* *
4134018 CCTTGCCTTAATTCATCACATATGAAGTTGAATCAACGACACCTCTTTTGAGGATCAACATTTCT
65 CCTTTCCTTAATTCATCACATATGAAGTTGAATCAAAGACACCTCTTTTGAGGATCAACATTTCT
4134083 AGAAGGAG
130 AGAAGGAG
*
4134091 TTCACAATGAGAAGAACTCATCTGAAGAGAAAGAAGAAGTTCATAATGAGAAGAACTTATTCAAC
1 TTCACAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTATTCAAC
* * * * ** *
4134156 CTTTCCTTAATTCATCATATATGAAATTGAATCAATGGCACCTCTTTTGAGGATCAGTATTTCCA
66 CTTTCCTTAATTCATCACATATGAAGTTGAATCAAAGACACCTCTTTTGAGGATCAACATTTCTA
*
4134221 AAAGGAG
131 GAAGGAG
* * * *
4134228 TTCACAATGTGAAGAGCTCATCTGAAGAGGAAGAAGAAGTTCATAATCTA-AAGAACTTATTCAG
1 TTCACAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAAT-GAGAAGAACTTATTCAA
4134292 CCTTT
65 CCTTT
4134297 TACTCGACTT
Statistics
Matches: 298, Mismatches: 34, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
134 50 0.17
135 4 0.01
136 60 0.20
137 157 0.53
138 3 0.01
139 24 0.08
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (137 bp):
TTCACAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTATTCAAC
CTTTCCTTAATTCATCACATATGAAGTTGAATCAAAGACACCTCTTTTGAGGATCAACATTTCTA
GAAGGAG
Found at i:4135670 original size:2 final size:2
Alignment explanation
Indices: 4135653--4135685 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
4135643 AGTCATATTA
*
4135653 AT AT AT GT AT AT -T AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4135686 GAAAGATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
AT
Found at i:4140661 original size:4 final size:4
Alignment explanation
Indices: 4140624--4140649 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
4140614 TGAGATAAAG
4140624 ATAA ATAA ATAA ATAA ATAA ATAA AT
1 ATAA ATAA ATAA ATAA ATAA ATAA AT
4140650 TGAAAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
ATAA
Found at i:4141419 original size:20 final size:20
Alignment explanation
Indices: 4141391--4141429 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4141381 AATAATGAAA
4141391 AGATAATTCCTAAAAATAAG
1 AGATAATTCCTAAAAATAAG
* *
4141411 AGATGATTCCTAAAGATAA
1 AGATAATTCCTAAAAATAA
4141430 TTCTTGAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.51, C:0.10, G:0.13, T:0.26
Consensus pattern (20 bp):
AGATAATTCCTAAAAATAAG
Found at i:4142721 original size:91 final size:92
Alignment explanation
Indices: 4142586--4142758 Score: 278
Period size: 91 Copynumber: 1.9 Consensus size: 92
4142576 GGTTCACTAG
* * * *
4142586 TAGATTTATAAATGGGTAGGATTTTTGGGAAAAATTGGGTTTAATCCTAGGTG-CCCATATCACA
1 TAGATTTATAAATGGGCAGGACTTTTGGAAAAAATTGGGTTTAATCCTAAGTGACCC-TATCACA
4142650 TTAAAACATTATGCCCAAGGTTCAATTT
65 TTAAAACATTATGCCCAAGGTTCAATTT
4142678 TAGATTTATAAATGGGCAGG-CTTTTGGAAAAAATTGGGTTTAATCCTAAGTGACCCTATCACAT
1 TAGATTTATAAATGGGCAGGACTTTTGGAAAAAATTGGGTTTAATCCTAAGTGACCCTATCACAT
*
4142742 TAAAACATTATGTCCAA
66 TAAAACATTATGCCCAA
4142759 CATGTAGCCT
Statistics
Matches: 75, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
91 53 0.71
92 22 0.29
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (92 bp):
TAGATTTATAAATGGGCAGGACTTTTGGAAAAAATTGGGTTTAATCCTAAGTGACCCTATCACAT
TAAAACATTATGCCCAAGGTTCAATTT
Found at i:4145616 original size:15 final size:15
Alignment explanation
Indices: 4145596--4145635 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
4145586 TAAATATCTG
4145596 ATAAAATAAAATGAA
1 ATAAAATAAAATGAA
* *
4145611 ATAAAATAAATTTAA
1 ATAAAATAAAATGAA
*
4145626 ATGAAATAAA
1 ATAAAATAAA
4145636 GTGTGTTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (15 bp):
ATAAAATAAAATGAA
Found at i:4147298 original size:13 final size:13
Alignment explanation
Indices: 4147280--4147305 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4147270 AATTTTCTAA
4147280 AGCAAACAATTAT
1 AGCAAACAATTAT
4147293 AGCAAACAATTAT
1 AGCAAACAATTAT
4147306 TTTTCTGTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.08, T:0.23
Consensus pattern (13 bp):
AGCAAACAATTAT
Found at i:4151338 original size:28 final size:28
Alignment explanation
Indices: 4151284--4151336 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
4151274 TGGATAAGTA
*
4151284 TGAGAAAATATAGGGATTCAGATAAATG
1 TGAGAAAATATAGGGATTAAGATAAATG
4151312 TGAGAAAATATAGGGA-TAAGATAAA
1 TGAGAAAATATAGGGATTAAGATAAA
4151337 ATTGGGGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 8 0.33
28 16 0.67
ACGTcount: A:0.51, C:0.02, G:0.25, T:0.23
Consensus pattern (28 bp):
TGAGAAAATATAGGGATTAAGATAAATG
Found at i:4152053 original size:20 final size:20
Alignment explanation
Indices: 4152024--4152061 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4152014 AAATAAAAAT
*
4152024 AAAAGCAAAGAAAACTTTGA
1 AAAAGAAAAGAAAACTTTGA
*
4152044 AAAAGAAAAGAAACCTTT
1 AAAAGAAAAGAAAACTTT
4152062 TATAAAACCC
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:0.61, C:0.11, G:0.13, T:0.16
Consensus pattern (20 bp):
AAAAGAAAAGAAAACTTTGA
Found at i:4159295 original size:44 final size:44
Alignment explanation
Indices: 4159240--4159323 Score: 150
Period size: 44 Copynumber: 1.9 Consensus size: 44
4159230 AAAACAAAAG
* *
4159240 CAAATAGAATATATATTTTAACAAATGTAAGCTTGTGAAGCTTA
1 CAAAGAGAATATATATTTTAACAAATGCAAGCTTGTGAAGCTTA
4159284 CAAAGAGAATATATATTTTAACAAATGCAAGCTTGTGAAG
1 CAAAGAGAATATATATTTTAACAAATGCAAGCTTGTGAAG
4159324 TTTGCTCACA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.31
Consensus pattern (44 bp):
CAAAGAGAATATATATTTTAACAAATGCAAGCTTGTGAAGCTTA
Found at i:4159598 original size:3 final size:3
Alignment explanation
Indices: 4159590--4159619 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
4159580 ATTTGTTTAA
4159590 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4159620 CTACATATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:4161438 original size:3 final size:3
Alignment explanation
Indices: 4161430--4161537 Score: 207
Period size: 3 Copynumber: 36.0 Consensus size: 3
4161420 CGTCTCTGTT
4161430 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4161478 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
4161526 TTA TTG TTA TTA
1 TTA TTA TTA TTA
4161538 CAGACAAGTT
Statistics
Matches: 103, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 103 1.00
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:4161953 original size:23 final size:23
Alignment explanation
Indices: 4161909--4161951 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
4161899 TATGTTTTTA
*
4161909 TCTACCTTTATGTCACATTTTCT
1 TCTACCTTTATGACACATTTTCT
*
4161932 TCTACCTTT-TGACACGTTTT
1 TCTACCTTTATGACACATTTT
4161952 TCGATCGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.16, C:0.26, G:0.07, T:0.51
Consensus pattern (23 bp):
TCTACCTTTATGACACATTTTCT
Found at i:4162208 original size:2 final size:2
Alignment explanation
Indices: 4162201--4162225 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4162191 CAGATCTATT
4162201 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
4162226 TCGAGTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4166718 original size:10 final size:10
Alignment explanation
Indices: 4166705--4166742 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
4166695 TGTGGAACCT
4166705 TATGGAAGAG
1 TATGGAAGAG
4166715 TATGGAAGAG
1 TATGGAAGAG
* *
4166725 CATGGAAGAA
1 TATGGAAGAG
4166735 TATGGAAG
1 TATGGAAG
4166743 GGAGAGGAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.42, C:0.03, G:0.37, T:0.18
Consensus pattern (10 bp):
TATGGAAGAG
Found at i:4177434 original size:30 final size:30
Alignment explanation
Indices: 4177375--4177435 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
4177365 AAACGGAGTT
* *
4177375 AGAAAATTTATTTTCAGGCGTTAAGTTTAA
1 AGAAAATTTATTTTCAGGCGTCAAATTTAA
*
4177405 AGAAAATTTATTTT-AGAGTGTCAAATTTAA
1 AGAAAATTTATTTTCAG-GCGTCAAATTTAA
4177435 A
1 A
4177436 AATTGTATGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 2 0.07
30 25 0.93
ACGTcount: A:0.41, C:0.05, G:0.15, T:0.39
Consensus pattern (30 bp):
AGAAAATTTATTTTCAGGCGTCAAATTTAA
Found at i:4177586 original size:24 final size:24
Alignment explanation
Indices: 4177537--4177587 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
4177527 AAGTTTATTT
* **
4177537 ATTTATAAATATTTTTTATATTAA
1 ATTTATAAATATTTTTTAAAAAAA
4177561 ATTTATAAATATTTTTTAAAAAAA
1 ATTTATAAATATTTTTTAAAAAAA
4177585 ATT
1 ATT
4177588 CGGGGTGTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
ATTTATAAATATTTTTTAAAAAAA
Found at i:4194389 original size:13 final size:13
Alignment explanation
Indices: 4194371--4194395 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4194361 GGTCAAAGAA
4194371 AGTCAACGGTCAC
1 AGTCAACGGTCAC
4194384 AGTCAACGGTCA
1 AGTCAACGGTCA
4194396 ACGGTCGGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.28, G:0.24, T:0.16
Consensus pattern (13 bp):
AGTCAACGGTCAC
Found at i:4194427 original size:10 final size:10
Alignment explanation
Indices: 4194410--4194479 Score: 56
Period size: 10 Copynumber: 7.1 Consensus size: 10
4194400 TCGGGTCGGG
4194410 TCAAACCGGT
1 TCAAACCGGT
*
4194420 TCAGACCGG-
1 TCAAACCGGT
4194429 TCAAACCGGT
1 TCAAACCGGT
*
4194439 TCGAACCGG-
1 TCAAACCGGT
*
4194448 TCAAAACTGGT
1 TC-AAACCGGT
*
4194459 TGAAAACCGG-
1 T-CAAACCGGT
*
4194469 TCAGACCGGT
1 TCAAACCGGT
4194479 T
1 T
4194480 TTCCAGCCCT
Statistics
Matches: 46, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
9 16 0.35
10 23 0.50
11 7 0.15
ACGTcount: A:0.29, C:0.27, G:0.26, T:0.19
Consensus pattern (10 bp):
TCAAACCGGT
Found at i:4194430 original size:19 final size:19
Alignment explanation
Indices: 4194408--4194479 Score: 76
Period size: 19 Copynumber: 3.7 Consensus size: 19
4194398 GGTCGGGTCG
4194408 GGTCAAACCGGTTC-AGACC
1 GGTCAAACCGGTTCGA-ACC
4194427 GGTCAAACCGGTTCGAACC
1 GGTCAAACCGGTTCGAACC
*
4194446 GGTCAAAACTGGTT-GAAAACC
1 GGTC-AAACCGGTTCG--AACC
*
4194467 GGTCAGACCGGTT
1 GGTCAAACCGGTT
4194480 TTCCAGCCCT
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
19 22 0.48
20 16 0.35
21 8 0.17
ACGTcount: A:0.28, C:0.26, G:0.28, T:0.18
Consensus pattern (19 bp):
GGTCAAACCGGTTCGAACC
Found at i:4208460 original size:29 final size:28
Alignment explanation
Indices: 4208402--4208460 Score: 73
Period size: 29 Copynumber: 2.1 Consensus size: 28
4208392 TTTGTACCCC
* *
4208402 TATTTTTGCATCTTTACATTTGCATGTA
1 TATTTTTGCATCTTTACATTAGCATATA
* *
4208430 TATTTTTGCATCTTTTGCATTAGTATATA
1 TATTTTTGCATC-TTTACATTAGCATATA
4208459 TA
1 TA
4208461 CATTGTGCAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 12 0.46
29 14 0.54
ACGTcount: A:0.24, C:0.12, G:0.10, T:0.54
Consensus pattern (28 bp):
TATTTTTGCATCTTTACATTAGCATATA
Found at i:4209007 original size:16 final size:16
Alignment explanation
Indices: 4208983--4209016 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
4208973 ACAAAATGAC
4208983 AAGACTGAAAACTGAT
1 AAGACTGAAAACTGAT
*
4208999 AAGATTGAAAACTGAT
1 AAGACTGAAAACTGAT
4209015 AA
1 AA
4209017 AACAAGAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.53, C:0.09, G:0.18, T:0.21
Consensus pattern (16 bp):
AAGACTGAAAACTGAT
Found at i:4210854 original size:76 final size:76
Alignment explanation
Indices: 4210636--4211024 Score: 240
Period size: 76 Copynumber: 5.1 Consensus size: 76
4210626 AATACAGAGG
* * * * * *
4210636 ATTTATCTCACTTGAGATTGTTTTTCTTAAAA-CAGACTTTGTCTCA-CATGAGACAGTTTTTAC
1 ATTTATTTCACTCGAGATTGTTTTTCTTAAAAGAAGA-TTTGTCT-AGCTTGAGATAG-TTTCAC
* *
4210699 TCAAAACAAGAA-T
63 TCGAAACAAGAAGA
* * * * * * * * * *
4210712 ATTTATTTCACTCAAGATTTTTTTTTTTAAAACAAGATATGTCTCGTTTGAGACGATTTTTACTC
1 ATTTATTTCACTCGAGATTGTTTTTCTTAAAAGAAGATTTGTCTAGCTTGAGA-TAGTTTCACTC
4210777 GAAACAAGAA-A
65 GAAACAAGAAGA
* *
4210788 ATTTATTTCACTCAAGATTGTTTTTCTTAAAAGAAGATTTTGTCTAGCTTGAGATAGTTTCCCTC
1 ATTTATTTCACTCGAGATTGTTTTTCTTAAAAGAAGA-TTTGTCTAGCTTGAGATAGTTTCACTC
4210853 GAAAC-AGAAGA
65 GAAACAAGAAGA
* * * ** * * *
4210864 TTTTATCTT-GCTCGAGATAGTTTCCCTCGAAACAAAAGATTTTATCTCA-CTTGAGATAGTTTC
1 ATTTAT-TTCACTCGAGATTGTTTTTCT-TAAA-AGAAGA-TTTGTCT-AGCTTGAGATAGTTTC
*
4210927 CCTCGAAAC-AGAAGA
61 ACTCGAAACAAGAAGA
* * * ** * * * *
4210942 TTTTATCTT-GCTCGAGATAGTTTCCCTCGAAACAGAAGATTTATCTCGCTTGAGATAGTTTCGC
1 ATTTAT-TTCACTCGAGATTGTTTTTCT-TAAA-AGAAGATTTGTCTAGCTTGAGATAGTTTCAC
4211006 TCGAAACAA-AAGA
63 TCGAAACAAGAAGA
*
4211019 TTTTAT
1 ATTTAT
4211025 AAAACTAAGC
Statistics
Matches: 266, Mismatches: 36, Indels: 21
0.82 0.11 0.07
Matches are distributed among these distances:
75 4 0.02
76 120 0.45
77 61 0.23
78 80 0.30
79 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (76 bp):
ATTTATTTCACTCGAGATTGTTTTTCTTAAAAGAAGATTTGTCTAGCTTGAGATAGTTTCACTCG
AAACAAGAAGA
Found at i:4210881 original size:39 final size:39
Alignment explanation
Indices: 4210819--4211024 Score: 315
Period size: 39 Copynumber: 5.3 Consensus size: 39
4210809 TTTTCTTAAA
* *
4210819 AGAAGATTTTGTCTAGCTTGAGATAGTTTCCCTCGAAAC
1 AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAAC
* *
4210858 AGAAGATTTTATCTTGCTCGAGATAGTTTCCCTCGAAAC
1 AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAAC
* *
4210897 AAAAGATTTTATCTCACTTGAGATAGTTTCCCTCGAAAC
1 AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAAC
* *
4210936 AGAAGATTTTATCTTGCTCGAGATAGTTTCCCTCGAAAC
1 AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAAC
*
4210975 AGAAGA-TTTATCTCGCTTGAGATAGTTTCGCTCGAAAC
1 AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAAC
*
4211013 AAAAGATTTTAT
1 AGAAGATTTTAT
4211025 AAAACTAAGC
Statistics
Matches: 151, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
38 34 0.23
39 117 0.77
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.33
Consensus pattern (39 bp):
AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAAC
Found at i:4211257 original size:21 final size:20
Alignment explanation
Indices: 4211207--4211257 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 20
4211197 TGCGTATTCG
* **
4211207 TAAGTCCTTCGAGCCATCTA
1 TAAGTCCTTCGAGCAAGATA
*
4211227 T-AGTCTTTCGAGCAAGATGA
1 TAAGTCCTTCGAGCAAGAT-A
4211247 TAAGTCCTTCG
1 TAAGTCCTTCG
4211258 GGCCATCCAT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
19 13 0.54
20 3 0.12
21 8 0.33
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (20 bp):
TAAGTCCTTCGAGCAAGATA
Found at i:4211465 original size:42 final size:41
Alignment explanation
Indices: 4211407--4211519 Score: 138
Period size: 42 Copynumber: 2.7 Consensus size: 41
4211397 AGAGTTTCTT
* **
4211407 GATGAGTAAATCCTTCGGGCCATC-AGTAAGTCTTTCGAGCGT
1 GATGA-TAAGTCCTTCGGGCCATCTA-TAAGTCTTTCGAGCAA
* *
4211449 GATGCATAAGTCCTTCGGACCATCTATAATTCTTTCGAGCAA
1 GATG-ATAAGTCCTTCGGGCCATCTATAAGTCTTTCGAGCAA
*
4211491 GATGATAAGTCCTTCGGGCCATCCATAAG
1 GATGATAAGTCCTTCGGGCCATCTATAAG
4211520 ACCTTCGTGC
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
41 22 0.36
42 37 0.61
43 2 0.03
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (41 bp):
GATGATAAGTCCTTCGGGCCATCTATAAGTCTTTCGAGCAA
Found at i:4212006 original size:21 final size:21
Alignment explanation
Indices: 4211982--4212043 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
4211972 ATATGTTTCT
4211982 CTTGAAACAAATTTTGTCTCC
1 CTTGAAACAAATTTTGTCTCC
* *
4212003 CTTGAGAC--A----GTTTCC
1 CTTGAAACAAATTTTGTCTCC
*
4212018 CTTGAAACAAGTTTTGTCTCC
1 CTTGAAACAAATTTTGTCTCC
4212039 CTTGA
1 CTTGA
4212044 GACAGTTTCT
Statistics
Matches: 30, Mismatches: 5, Indels: 12
0.64 0.11 0.26
Matches are distributed among these distances:
15 12 0.40
19 1 0.03
21 17 0.57
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (21 bp):
CTTGAAACAAATTTTGTCTCC
Found at i:4212009 original size:175 final size:175
Alignment explanation
Indices: 4211801--4212228 Score: 567
Period size: 175 Copynumber: 2.4 Consensus size: 175
4211791 GCCTGAGTCC
* * * * *
4211801 GTTTCTTTTGAAACAATGTTTGTCTCTCTTGAGACAGTATCTCTTGAAATGAA-TTTTGTCTCTC
1 GTTTCTCTTGAAACAATATTTGTCTCCCTTGAGACAGTTTCTCTTGAAA-AAAGTTTTGTCTCTC
* *
4211865 TAGAGACATTTTCTCTTAAAACGAA-TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTT
65 TAGAGACAATTTCTCTTAAAAC-AAGTTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAATTT
*
4211929 TGTCT-TGCTTGAGACAGTTTCTCTTGAAACACAAAATCTTTGAATAT
129 TGTCTCT-CTTGAGACAGTTTCTCTTGAAACACAAAATATTTGAATAT
* * *
4211976 GTTTCTCTTGAAACAA-ATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAGTTTTGTCTCCC
1 GTTTCTCTTGAAACAATA-TTTGTCTCCCTTGAGACAGTTTCTCTTGAAAAAAGTTTTGTCTCTC
* * * * * *
4212040 TTGAGACAGTTTCTCTTGAAACAAGTTTTGTGTCCCTTGAGATAGTTTCTCTTGAAACAAATTTT
65 TAGAGACAATTTCTCTTAAAACAAGTTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAATTTT
* *
4212105 GTCTCTCTTGAGACGGTTTCTCTTGAAACACAAAATATTTGAATCT
130 GTCTCTCTTGAGACAGTTTCTCTTGAAACACAAAATATTTGAATAT
* ** *
4212151 GTTTCCCTTGAAACAATATTCATCTCCCTTGAGATAGTTTCTCTTGAAACAAAGTTTTGTCTCTC
1 GTTTCTCTTGAAACAATATTTGTCTCCCTTGAGACAGTTTCTCTTGAAA-AAAGTTTTGTCTCTC
*
4212216 TATAGACAATTTC
65 TAGAGACAATTTC
4212229 CCTCTAAACA
Statistics
Matches: 220, Mismatches: 27, Indels: 11
0.85 0.10 0.04
Matches are distributed among these distances:
174 4 0.02
175 191 0.87
176 25 0.11
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.40
Consensus pattern (175 bp):
GTTTCTCTTGAAACAATATTTGTCTCCCTTGAGACAGTTTCTCTTGAAAAAAGTTTTGTCTCTCT
AGAGACAATTTCTCTTAAAACAAGTTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAATTTTG
TCTCTCTTGAGACAGTTTCTCTTGAAACACAAAATATTTGAATAT
Found at i:4212010 original size:139 final size:139
Alignment explanation
Indices: 4211840--4212098 Score: 376
Period size: 139 Copynumber: 1.9 Consensus size: 139
4211830 TGAGACAGTA
** * * * *
4211840 TCTCTTGAAATGAATTTTGTCTCTCTAGAGACATTTTCTCTTAAAACGAA-TTTTGTCTCTCTTG
1 TCTCTTGAAACAAATTTTGTCTCCCTAGAGACAGTTTCCCTTAAAAC-AAGTTTTGTCTCCCTTG
**
4211904 AGACAGTTTCCCTTGAAACAAATTTTGTCTTGCTTGAGACAGTTTCTCTTGAAACACAAAATCTT
65 AGACAGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAATCTT
4211969 TGAATATGTT
130 TGAATATGTT
* *
4211979 TCTCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAGTTTTGTCTCCCTTGA
1 TCTCTTGAAACAAATTTTGTCTCCCTAGAGACAGTTTCCCTTAAAACAAGTTTTGTCTCCCTTGA
* * * *
4212044 GACAGTTTCTCTTGAAACAAGTTTTGTGTCCCTTGAGATAGTTTCTCTTGAAACA
66 GACAGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
4212099 AATTTTGTCT
Statistics
Matches: 105, Mismatches: 14, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
138 2 0.02
139 103 0.98
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.40
Consensus pattern (139 bp):
TCTCTTGAAACAAATTTTGTCTCCCTAGAGACAGTTTCCCTTAAAACAAGTTTTGTCTCCCTTGA
GACAGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAATCTTT
GAATATGTT
Found at i:4212021 original size:103 final size:104
Alignment explanation
Indices: 4211874--4212134 Score: 339
Period size: 103 Copynumber: 2.5 Consensus size: 104
4211864 CTAGAGACAT
* * **
4211874 TTTCTCTTAAAACGAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTTGCTT
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCCCTT
*
4211939 GAGACAGTTTCTCTTGAAACACA-AAAT-CTTTGA-ATATG
66 GAGACAGTTTCTCTTGAAACA-ATAAATCCCTTGAGATA-G
* *
4211977 TTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAGTTTTGTCTCCCTT
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCCCTT
***
4212042 GAGACAGTTTCTCTTGAAACAAGTTTTGTGTCCCTTGAGATAG
66 GAGACAGTTTCTCTTGAAACAA----TAAATCCCTTGAGATAG
* *
4212085 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACGGTTTCTCTTGAAACA
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACA
4212135 CAAAATATTT
Statistics
Matches: 138, Mismatches: 13, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
102 1 0.01
103 80 0.58
107 1 0.01
108 53 0.38
109 3 0.02
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (104 bp):
TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCCCTT
GAGACAGTTTCTCTTGAAACAATAAATCCCTTGAGATAG
Found at i:4212134 original size:36 final size:36
Alignment explanation
Indices: 4211801--4212134 Score: 380
Period size: 36 Copynumber: 9.4 Consensus size: 36
4211791 GCCTGAGTCC
*
4211801 GTTTCTTTTGAAAC-AATGTTTGTCTCTCTTGAGACA
1 GTTTCTCTTGAAACAAAT-TTTGTCTCTCTTGAGACA
* ** *
4211837 GTATCTCTTGAAATGAATTTTGTCTCTCTAGAGACA
1 GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACA
* * *
4211873 TTTTCTCTTAAAACGAATTTTGTCTCTCTTGAGACA
1 GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACA
*
4211909 GTTTCCCTTGAAACAAATTTTGTCT-TGCTTGAGACA
1 GTTTCTCTTGAAACAAATTTTGTCTCT-CTTGAGACA
** *
4211945 GTTTCTCTTGAAACACAA-----AATCT-TTGA-ATA
1 GTTTCTCTTGAAACA-AATTTTGTCTCTCTTGAGACA
*
4211975 TGTTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACA
1 -GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACA
* * *
4212012 GTTTCCCTTGAAACAAGTTTTGTCTCCCTTGAGACA
1 GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACA
* * * *
4212048 GTTTCTCTTGAAACAAGTTTTGTGTCCCTTGAGATA
1 GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACA
*
4212084 GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACG
1 GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACA
4212120 GTTTCTCTTGAAACA
1 GTTTCTCTTGAAACA
4212135 CAAAATATTT
Statistics
Matches: 255, Mismatches: 31, Indels: 24
0.82 0.10 0.08
Matches are distributed among these distances:
30 4 0.02
31 19 0.07
32 1 0.00
33 1 0.00
35 3 0.01
36 220 0.86
37 7 0.03
ACGTcount: A:0.25, C:0.19, G:0.15, T:0.40
Consensus pattern (36 bp):
GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACA
Found at i:4212609 original size:92 final size:92
Alignment explanation
Indices: 4212452--4212620 Score: 293
Period size: 92 Copynumber: 1.8 Consensus size: 92
4212442 ACATTTCAAA
4212452 TGGAGAATTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATAAGAAGAACTT
1 TGGAGAATTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATAAGAAGAACTT
4212517 GTTCAACCTTGGATCAATATTTTCCAG
66 GTTCAACCTTGGATCAATATTTTCCAG
* * * * *
4212544 TGGAGAGTTCATAATGAGAAGAACTCATTCGATGAGGGAGAAGAAGTTCATAATGAGAAGAACTT
1 TGGAGAATTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATAAGAAGAACTT
4212609 GTTCAACCTTGG
66 GTTCAACCTTGG
4212621 TTCGATTGGA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
92 72 1.00
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.25
Consensus pattern (92 bp):
TGGAGAATTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATAAGAAGAACTT
GTTCAACCTTGGATCAATATTTTCCAG
Found at i:4212612 original size:20 final size:19
Alignment explanation
Indices: 4212550--4212613 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 19
4212540 CCAGTGGAGA
4212550 GTTCATAATGAGAAGAACT
1 GTTCATAATGAGAAGAACT
* **
4212569 CATTCGATGAGGGAGAAGAA--
1 -GTTC-AT-AATGAGAAGAACT
4212589 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAAC-T
4212609 GTTCA
1 GTTCA
4212614 ACCTTGGTTC
Statistics
Matches: 33, Mismatches: 6, Indels: 10
0.67 0.12 0.20
Matches are distributed among these distances:
17 9 0.27
18 2 0.06
19 3 0.09
20 8 0.24
21 2 0.06
22 9 0.27
ACGTcount: A:0.39, C:0.11, G:0.25, T:0.25
Consensus pattern (19 bp):
GTTCATAATGAGAAGAACT
Found at i:4212648 original size:107 final size:107
Alignment explanation
Indices: 4212527--4212726 Score: 346
Period size: 107 Copynumber: 1.9 Consensus size: 107
4212517 GTTCAACCTT
* * *
4212527 GGATCAATATTTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATTCGATGAGGGAGAAGAAGTT
1 GGATCAACATTTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGACGAGGGAGAAGAAGTT
4212592 CATAATGAGAAGAACTTGTTCAACCTTGGTTCGATTGGAGGC
66 CATAATGAGAAGAACTTGTTCAACCTTGGTTCGATTGGAGGC
* *
4212634 GGATCAACATTTTCCAGTGGGGAGTTCATAATGAGAAGAACTCATCCGACGAGGGAGAATAAGTT
1 GGATCAACATTTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGACGAGGGAGAAGAAGTT
*
4212699 CATAATGAGAAGAACTTGTTCATCCTTG
66 CATAATGAGAAGAACTTGTTCAACCTTG
4212727 CATCACCATT
Statistics
Matches: 87, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
107 87 1.00
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (107 bp):
GGATCAACATTTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGACGAGGGAGAAGAAGTT
CATAATGAGAAGAACTTGTTCAACCTTGGTTCGATTGGAGGC
Found at i:4212754 original size:91 final size:90
Alignment explanation
Indices: 4212636--4212909 Score: 395
Period size: 91 Copynumber: 3.0 Consensus size: 90
4212626 TTGGAGGCGG
4212636 ATCAACATTTTCCAGTGGGGAGTTCATAATGAGAAGAACTCATCCGACGAGGGAGAATAAGTTCA
1 ATCAACATTTT-CAGTGGGGAGTTCATAATGAGAAGAACTCATCCGACGAGGGAGAA-AAGTTCA
*
4212701 TAATGAGAAGAACTTGTTCATCCTTGC
64 TAATGAGAAGAACTTGTTCAACCTTGC
* * * *
4212728 ATCACCATTTTCAGCGGGGAGCTCATAATGAGAAGAACTCATCCGACGAGGGAGAAGAAGTTTAT
1 ATCAACATTTTCAGTGGGGAGTTCATAATGAGAAGAACTCATCCGACGAGGGAGAA-AAGTTCAT
*
4212793 AATGAGAATAACTTGTTCAACCTTGC
65 AATGAGAAGAACTTGTTCAACCTTGC
* * *
4212819 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACAGAGGGAGAAATAGTTCA
1 ATCAACATTTTCAGTGGGGAGTTCATAATGAGAAGAACTCATCCGAC-GAGGGAGAAA-AGTTCA
* * *
4212884 CAATGAGGAGAACTTGTTCAATCTTG
64 TAATGAGAAGAACTTGTTCAACCTTG
4212910 GTTCGATTCC
Statistics
Matches: 162, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
91 116 0.72
92 46 0.28
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.25
Consensus pattern (90 bp):
ATCAACATTTTCAGTGGGGAGTTCATAATGAGAAGAACTCATCCGACGAGGGAGAAAAGTTCATA
ATGAGAAGAACTTGTTCAACCTTGC
Found at i:4213029 original size:118 final size:118
Alignment explanation
Indices: 4212819--4213058 Score: 315
Period size: 118 Copynumber: 2.0 Consensus size: 118
4212809 TCAACCTTGC
*
4212819 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACAGAGGGAGAAATAGTTCA
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACAGAGGAAGAAATAGTTCA
* * * * * *
4212884 CAATGAGGAGAACTTGTTCAATCTTGGTTCGATTCCATCACAGAATGAGGTGG
66 CAATAAGAAGAACTAGTTCAATCTTGGTTCAATTCCATCACAGAAAGAGGTAG
* * *
4212937 ATCAACATTTTTCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGA-TGAGGAAGAAGA-AGTT
1 ATCAACA-TTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACAGAGGAAGAA-ATAGTT
* * *
4213000 CATAGTAAGAAGAACTAGTTCAA-CATTGGTTCAATTCTATCACAGAAAGAGGTAG
64 CACAATAAGAAGAACTAGTTCAATC-TTGGTTCAATTCCATCACAGAAAGAGGTAG
4213055 ATCA
1 ATCA
4213059 GCACCAACAT
Statistics
Matches: 106, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
117 1 0.01
118 67 0.63
119 38 0.36
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (118 bp):
ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACAGAGGAAGAAATAGTTCA
CAATAAGAAGAACTAGTTCAATCTTGGTTCAATTCCATCACAGAAAGAGGTAG
Found at i:4213321 original size:133 final size:131
Alignment explanation
Indices: 4213033--4213373 Score: 409
Period size: 133 Copynumber: 2.6 Consensus size: 131
4213023 CATTGGTTCA
*
4213033 ATTCTATCACAGAA-AGAGGTAGATCAGCACCAACATCTTGTTCGATTCCATCACAGAATGAGGT
1 ATTCTATCACAGAAGA-AGGTAGATCAGCACCAACATCTCGTTCGATTCCATCACAGAA-GAGGT
* ** *
4213097 GGATCGACATTTTGATTTCACTCAAATCTATAAGAGAAGGAGTTGGATCATTATCAACTTTTTGC
64 GGATCGACATTTTGATTTCACTCAAATCCATAAGAGAAGGAGTTGGATCAGCATCAACTTTTAGC
4213162 TCG
129 TCG
* * * *
4213165 ATTTTATCACAAAAGGAGGTAGATC-GACACCAACATCTCGTTTGATTCCATCACAGAAGAAGGT
1 ATTCTATCACAGAAGAAGGTAGATCAG-CACCAACATCTCGTTCGATTCCATCACAGAAG-AGGT
* * * * * *
4213229 GGATCGATATTTTTATTTTCGCTCAAATCCAT-CGCAGAATGAGTTGGATCAGCGTCAACTTTTA
64 GGATCGACATTTTGA-TTTCACTCAAATCCATAAG-AGAAGGAGTTGGATCAGCATCAACTTTTA
4213293 GCTCG
127 GCTCG
* * * * *
4213298 ATTCTATCACAGAAGAAGGTAGATCAGCACCGATATCTCGCTCGATTCCATCATAGAAGGGGGTG
1 ATTCTATCACAGAAGAAGGTAGATCAGCACCAACATCTCGTTCGATTCCATCACAGAA-GAGGTG
*
4213363 GATCAACATTT
65 GATCGACATTT
4213374 CAATAGAATG
Statistics
Matches: 176, Mismatches: 26, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
131 2 0.01
132 68 0.39
133 104 0.59
134 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (131 bp):
ATTCTATCACAGAAGAAGGTAGATCAGCACCAACATCTCGTTCGATTCCATCACAGAAGAGGTGG
ATCGACATTTTGATTTCACTCAAATCCATAAGAGAAGGAGTTGGATCAGCATCAACTTTTAGCTC
G
Found at i:4214567 original size:24 final size:24
Alignment explanation
Indices: 4214521--4214571 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
4214511 TATTTTTTAT
*
4214521 TTTTAATGTTTTTATTATCTTTTG
1 TTTTAATGTTTTTAATATCTTTTG
*
4214545 TTTTAATTGTTTTTAAT-TGTTTTG
1 TTTTAA-TGTTTTTAATATCTTTTG
4214569 TTT
1 TTT
4214572 CATAGTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 15 0.62
25 9 0.38
ACGTcount: A:0.16, C:0.02, G:0.10, T:0.73
Consensus pattern (24 bp):
TTTTAATGTTTTTAATATCTTTTG
Found at i:4216091 original size:64 final size:63
Alignment explanation
Indices: 4216043--4216165 Score: 171
Period size: 64 Copynumber: 1.9 Consensus size: 63
4216033 TGCACTAAGA
4216043 GTGCACCGATGCATAAAATGCATTCGATG-TTTCA-AAATA-TCCTGAGTGCATCGATGCATGGC
1 GTGCACCGATGCATAAAATGCATTCGATGTTTTCATAAA-ACT-CTGAGTGCATCGATGCA--GC
4216105 TG
62 TG
* *
4216107 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAACTCTGAGTGCATCGATGCA
1 GTGCACCGATGCATAAAATGCATTCGATGTTTTCATAAAACTCTGAGTGCATCGATGCA
4216166 TAGTATGTGC
Statistics
Matches: 54, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
64 27 0.50
65 23 0.43
66 4 0.07
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.29
Consensus pattern (63 bp):
GTGCACCGATGCATAAAATGCATTCGATGTTTTCATAAAACTCTGAGTGCATCGATGCAGCTG
Found at i:4216176 original size:65 final size:64
Alignment explanation
Indices: 4216043--4216181 Score: 185
Period size: 65 Copynumber: 2.2 Consensus size: 64
4216033 TGCACTAAGA
* *
4216043 GTGCACCGATGCATAAAATGCATTCGATGTTTCAAAATATCCTGAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATAAAATGCATTCGATGTTTCAAAATATCCTGAGTGCATCGATGCATAGCTG
*
4216107 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-A-CTCTGAGTGCATCGATGCATAG-
1 GTGCATCGATGCATAAAATGCATTCGATG-TTTCA-AAATATC-CTGAGTGCATCGATGCATAGC
*
4216169 TAT
63 T-G
4216172 GTGCATCGAT
1 GTGCATCGAT
4216182 ACTATGCATC
Statistics
Matches: 67, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
64 29 0.43
65 35 0.52
66 3 0.04
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.30
Consensus pattern (64 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTCAAAATATCCTGAGTGCATCGATGCATAGCTG
Found at i:4218946 original size:21 final size:20
Alignment explanation
Indices: 4218894--4218988 Score: 66
Period size: 21 Copynumber: 4.5 Consensus size: 20
4218884 GACCTTGTGC
4218894 ATCGATGCACATTCAAGGCGTGT
1 ATCGATGCACATTC-A-G-GTGT
* * *
4218917 ATTGGTGCACCTTCATGGTGT
1 ATCGATGCACATTCA-GGTGT
*
4218938 ATCGATGCACATTCAAGGATGC
1 ATCGATGCACATTC-AGG-TGT
* *
4218960 ATCGATCCAC-TGTTAGGTGT
1 ATCGATGCACAT-TCAGGTGT
4218980 ATCGATGCA
1 ATCGATGCA
4218989 TTAAGCACAA
Statistics
Matches: 57, Mismatches: 12, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
20 10 0.18
21 21 0.37
22 15 0.26
23 11 0.19
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.29
Consensus pattern (20 bp):
ATCGATGCACATTCAGGTGT
Found at i:4222848 original size:22 final size:21
Alignment explanation
Indices: 4222806--4222845 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
4222796 GAGCTTATTT
*
4222806 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
4222827 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
4222846 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:4224687 original size:29 final size:29
Alignment explanation
Indices: 4224645--4224709 Score: 130
Period size: 29 Copynumber: 2.2 Consensus size: 29
4224635 GGGAGCGTCA
4224645 GTGCATCGATGCATACCCAAGGTGCATCG
1 GTGCATCGATGCATACCCAAGGTGCATCG
4224674 GTGCATCGATGCATACCCAAGGTGCATCG
1 GTGCATCGATGCATACCCAAGGTGCATCG
4224703 GTGCATC
1 GTGCATC
4224710 AAGTGTAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.23, C:0.28, G:0.28, T:0.22
Consensus pattern (29 bp):
GTGCATCGATGCATACCCAAGGTGCATCG
Found at i:4224817 original size:64 final size:63
Alignment explanation
Indices: 4224748--4224955 Score: 217
Period size: 65 Copynumber: 3.2 Consensus size: 63
4224738 TGGACCCTTA
* * *
4224748 GTGCATCGATGCATAAAATGCATTCAATGTTTCAAAATAGCCTGAGTGCATTGATGCATGGCTG
1 GTGCATCGATGCATAAAATGCATTCGATGTTTCAAAATA-CCTGAGTGCATCGATGCATGGATG
* * *
4224812 GTGCATCGATACATCAAATGCATTCGATGTTTTCATAAA-ACTCTGAGTGCATCGATGCAT-AAT
1 GTGCATCGATGCATAAAATGCATTCGATG-TTTCA-AAATAC-CTGAGTGCATCGATGCATGGAT
*
4224875 AT
63 -G
* * *
4224877 GTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTATTCCATG-GTGCATCGATGCATGGAT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTCAA--AATACC-TGAGTGCATCGATGCATGGA-
4224940 TG
62 TG
4224942 GTGCATCGATGCAT
1 GTGCATCGATGCAT
4224956 CACTTTGAAA
Statistics
Matches: 121, Mismatches: 13, Indels: 19
0.79 0.08 0.12
Matches are distributed among these distances:
62 1 0.01
63 4 0.03
64 44 0.36
65 68 0.56
66 4 0.03
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (63 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTCAAAATACCTGAGTGCATCGATGCATGGATG
Found at i:4228263 original size:2 final size:2
Alignment explanation
Indices: 4228256--4228313 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
4228246 ACATTGTGTA
4228256 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4228298 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
4228314 TCATGGCTAG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4233924 original size:2 final size:2
Alignment explanation
Indices: 4233919--4233966 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
4233909 ACACACACAC
4233919 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4233961 AT AT AT
1 AT AT AT
4233967 TATCTTGTTG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4236314 original size:2 final size:2
Alignment explanation
Indices: 4236307--4236342 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
4236297 TGATGTTTTA
4236307 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4236343 GAAATGATGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4242934 original size:13 final size:13
Alignment explanation
Indices: 4242916--4242945 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
4242906 AAACAAACTA
4242916 AACAATGTAATAT
1 AACAATGTAATAT
4242929 AACAATGTAATAT
1 AACAATGTAATAT
4242942 AACA
1 AACA
4242946 TTGTCAGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.57, C:0.10, G:0.07, T:0.27
Consensus pattern (13 bp):
AACAATGTAATAT
Found at i:4258292 original size:3 final size:3
Alignment explanation
Indices: 4258284--4258326 Score: 68
Period size: 3 Copynumber: 14.0 Consensus size: 3
4258274 AATTATTTTT
*
4258284 TAA TAA TAA TAA TGA TATA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
4258327 ATAAATAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 34 0.92
4 3 0.08
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:4258330 original size:22 final size:22
Alignment explanation
Indices: 4258284--4258326 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
4258274 AATTATTTTT
*
4258284 TAATAATAATAATGATATATAA
1 TAATAATAATAATAATATATAA
4258306 TAATAATAATAATAATA-ATAA
1 TAATAATAATAATAATATATAA
4258327 ATAAATAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (22 bp):
TAATAATAATAATAATATATAA
Found at i:4258341 original size:9 final size:10
Alignment explanation
Indices: 4258284--4258334 Score: 54
Period size: 9 Copynumber: 5.3 Consensus size: 10
4258274 AATTATTTTT
4258284 TAATAAT-AA
1 TAATAATAAA
* *
4258293 TAATGATATA
1 TAATAATAAA
4258303 TAATAAT-AA
1 TAATAATAAA
4258312 TAATAAT-AA
1 TAATAATAAA
4258321 TAATAAATAAA
1 TAAT-AATAAA
4258332 TAA
1 TAA
4258335 ATAAAATGGG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
9 20 0.57
10 10 0.29
11 5 0.14
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (10 bp):
TAATAATAAA
Found at i:4258801 original size:113 final size:113
Alignment explanation
Indices: 4258597--4259152 Score: 878
Period size: 113 Copynumber: 4.9 Consensus size: 113
4258587 AGAATCATGT
* *
4258597 AAAAGATTGAACAAGTTCTTCTCATTATGAACTTCGTCTTCCTTCTTCAAATGAGTTCTTCTCAT
1 AAAAG-TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* *
4258662 TATGAACTCGACCTGGTAATGCTGATCCATCGAATGATGAATTCAAGCG
65 TATGAACTCGACCTGGAAATGCTGATCCATCGAATGATGAATTCAAGCA
*
4258711 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAAATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * *
4258776 ATGAACTCGACCTGGCAATGCTGATCCACCGAGTGATGAATTTAAGCA
66 ATGAACTCGACCTGGAAATGCTGATCCATCGAATGATGAATTCAAGCA
*
4258824 AAAAGTTGAACAATTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
4258889 ATGAACTCGACCTGGTAATGCTGATCCATTGAATGATGAATTCAAGCA
66 ATGAACTCGACCTGGAAATGCTGATCCATCGAATGATGAATTCAAGCA
* * *
4258937 AAAAATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGAATTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * * * *
4259002 ATGAACTCGAACTGGAAATGATGTTCCACCGAGTGATGAATTTAAGCA
66 ATGAACTCGACCTGGAAATGCTGATCCATCGAATGATGAATTCAAGCA
*
4259050 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAATTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * *
4259115 ATGAACTCGAACTGGAAATGTTGATCCATTGAATGATG
66 ATGAACTCGACCTGGAAATGCTGATCCATCGAATGATG
4259153 GATTTTAATC
Statistics
Matches: 410, Mismatches: 32, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
113 405 0.99
114 5 0.01
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.36
Consensus pattern (113 bp):
AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTCGACCTGGAAATGCTGATCCATCGAATGATGAATTCAAGCA
Found at i:4260018 original size:114 final size:113
Alignment explanation
Indices: 4259851--4260189 Score: 516
Period size: 114 Copynumber: 3.0 Consensus size: 113
4259841 GATCATGTAG
* * * * * * *
4259851 TTCATCTTTTAATTCCAATGATTGGTTCTGTGGTTCCTACCGAACCAGATCAGATGACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGATTCTG-GGTTCATACCAAATCAGATCAGATAACTCAAAGA
* *
4259916 AAACTACCAGAATATGCTATTGGGTCTTCTTATTTCTACTATGAGCAAA
65 AAACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCAAA
*
4259965 TTCATCTTTCAAATCCAATGATTGATTTTGGGTTTCATACCAAATCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGATTCTGGG-TTCATACCAAATCAGATCAGATAACTCAAAGA
* *
4260030 ACACTTCCAGAAGATGCTATTGGGTCTTCGTATTTCTACTATGAGCAAA
65 AAACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCAAA
* *
4260079 TTCATCTTTCAAATCCAATGATTGATTCTGGGGTTCATACCAAATCAGATCATATAACTCAAAAA
1 TTCATCTTTCAAATCCAATGATTGATTCT-GGGTTCATACCAAATCAGATCAGATAACTCAAAGA
4260144 AACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAG
65 AA-ACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAG
4260190 AACGTAGCAC
Statistics
Matches: 205, Mismatches: 17, Indels: 5
0.90 0.07 0.02
Matches are distributed among these distances:
113 2 0.01
114 158 0.77
115 45 0.22
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.34
Consensus pattern (113 bp):
TTCATCTTTCAAATCCAATGATTGATTCTGGGTTCATACCAAATCAGATCAGATAACTCAAAGAA
AACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCAAA
Found at i:4260523 original size:20 final size:22
Alignment explanation
Indices: 4260498--4260537 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
4260488 TTGAATTTTT
4260498 GAAAATAAA-TT-GAATTTAGA
1 GAAAATAAACTTAGAATTTAGA
4260518 GAAAATAAACTTAGAATTTA
1 GAAAATAAACTTAGAATTTA
4260538 TTAATAGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.50
21 2 0.11
22 7 0.39
ACGTcount: A:0.55, C:0.03, G:0.12, T:0.30
Consensus pattern (22 bp):
GAAAATAAACTTAGAATTTAGA
Found at i:4260875 original size:8 final size:8
Alignment explanation
Indices: 4260862--4260932 Score: 79
Period size: 8 Copynumber: 8.6 Consensus size: 8
4260852 TCTTGACCCC
4260862 CTTTTTTT
1 CTTTTTTT
4260870 CTTTTTCTT
1 CTTTTT-TT
*
4260879 TTTTTTTT
1 CTTTTTTT
*
4260887 CTTTTTTA
1 CTTTTTTT
*
4260895 CTTTTTTA
1 CTTTTTTT
*
4260903 CTTTTCTT
1 CTTTTTTT
4260911 CTTTTTTTT
1 C-TTTTTTT
*
4260920 CTTTTCTT
1 CTTTTTTT
4260928 CTTTT
1 CTTTT
4260933 CTTTTCTTCT
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
8 40 0.74
9 14 0.26
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (8 bp):
CTTTTTTT
Found at i:4260883 original size:17 final size:18
Alignment explanation
Indices: 4260863--4260940 Score: 94
Period size: 17 Copynumber: 4.6 Consensus size: 18
4260853 CTTGACCCCC
4260863 TTTTTTTCTTTTTCTT-T
1 TTTTTTTCTTTTTCTTCT
*
4260880 TTTTTTTCTTTTT-TAC-
1 TTTTTTTCTTTTTCTTCT
*
4260896 TTTTTTAC-TTTTCTTCT
1 TTTTTTTCTTTTTCTTCT
4260913 TTTTTTTC-TTTTCTTCT
1 TTTTTTTCTTTTTCTTCT
4260930 TTTCTTTTCTT
1 TTT-TTTTCTT
4260941 CTTCAAGCAT
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
15 4 0.08
16 10 0.19
17 32 0.62
18 5 0.10
19 1 0.02
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTTTTTCTTTTTCTTCT
Found at i:4260890 original size:25 final size:25
Alignment explanation
Indices: 4260862--4260940 Score: 81
Period size: 24 Copynumber: 3.1 Consensus size: 25
4260852 TCTTGACCCC
4260862 CTTTTTTTCTTTTTCTTTTTTTTTT
1 CTTTTTTTCTTTTTCTTTTTTTTTT
* ** *
4260887 CTTTTTTACTTTTT-TACTTTTCTT
1 CTTTTTTTCTTTTTCTTTTTTTTTT
4260911 CTTTTTTT-TCTTTTCTTCTTTTCTTTT
1 CTTTTTTTCT-TTTTCTT-TTTT-TTTT
4260938 CTT
1 CTT
4260941 CTTCAAGCAT
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
23 1 0.02
24 18 0.43
25 14 0.33
26 3 0.07
27 6 0.14
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (25 bp):
CTTTTTTTCTTTTTCTTTTTTTTTT
Found at i:4260899 original size:33 final size:33
Alignment explanation
Indices: 4260862--4260943 Score: 102
Period size: 33 Copynumber: 2.6 Consensus size: 33
4260852 TCTTGACCCC
*
4260862 CTTTTTTTCTTTTTCTT-TTTTTTTTCTTTT-TT
1 CTTTTTTAC-TTTTCTTCTTTTTTTTCTTTTCTT
4260894 ACTTTTTTACTTTTCTTCTTTTTTTTCTTTTCTT
1 -CTTTTTTACTTTTCTTCTTTTTTTTCTTTTCTT
4260928 C--TTTT-CTTTTCTTCTT
1 CTTTTTTACTTTTCTTCTT
4260944 CAAGCATAAT
Statistics
Matches: 46, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
30 11 0.24
31 4 0.09
32 7 0.15
33 22 0.48
34 2 0.04
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.80
Consensus pattern (33 bp):
CTTTTTTACTTTTCTTCTTTTTTTTCTTTTCTT
Found at i:4260933 original size:8 final size:8
Alignment explanation
Indices: 4260862--4260944 Score: 64
Period size: 8 Copynumber: 10.1 Consensus size: 8
4260852 TCTTGACCCC
*
4260862 CTTTTTTT
1 CTTTTCTT
4260870 CTTTTTCTT
1 C-TTTTCTT
* *
4260879 TTTTTTTT
1 CTTTTCTT
4260887 CTTTT-TT
1 CTTTTCTT
4260894 ACTTTT-TT
1 -CTTTTCTT
4260902 ACTTTTCTT
1 -CTTTTCTT
*
4260911 CTTTTTTTT
1 C-TTTTCTT
4260920 CTTTTCTT
1 CTTTTCTT
4260928 CTTTTCTT
1 CTTTTCTT
4260936 -TTCTTCTT
1 CTT-TTCTT
4260944 C
1 C
4260945 AAGCATAATA
Statistics
Matches: 63, Mismatches: 6, Indels: 11
0.79 0.08 0.14
Matches are distributed among these distances:
7 4 0.06
8 44 0.70
9 15 0.24
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (8 bp):
CTTTTCTT
Found at i:4271568 original size:26 final size:26
Alignment explanation
Indices: 4271545--4271600 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
4271535 AAACATTAAT
*
4271545 AAAATAATACACATATAAATATTATG
1 AAAATAATAAACATATAAATATTATG
* * *
4271571 AAAATAATAAATATATAAAAATTTTG
1 AAAATAATAAACATATAAATATTATG
4271597 AAAA
1 AAAA
4271601 GAAAGAATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (26 bp):
AAAATAATAAACATATAAATATTATG
Found at i:4273855 original size:3 final size:3
Alignment explanation
Indices: 4273794--4273835 Score: 57
Period size: 3 Copynumber: 13.3 Consensus size: 3
4273784 AATTATTTTT
*
4273794 TAA TAA TAA TAA TGA TATA TATA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TA-A TA-A TAA TAA TAA TAA TAA TAA T
4273836 TATTATTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 29 0.81
4 7 0.19
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:4275821 original size:17 final size:16
Alignment explanation
Indices: 4275790--4275824 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
4275780 AAATTGAAAA
4275790 AATATAATATATATAT
1 AATATAATATATATAT
*
4275806 AATATAAGTTTATATAT
1 AATATAA-TATATATAT
4275823 AA
1 AA
4275825 ACTATATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (16 bp):
AATATAATATATATAT
Found at i:4275832 original size:13 final size:13
Alignment explanation
Indices: 4275816--4275958 Score: 97
Period size: 13 Copynumber: 10.2 Consensus size: 13
4275806 AATATAAGTT
4275816 TATATATAAACTA
1 TATATATAAACTA
*
4275829 TATATACAAACTATA
1 TATATATAAAC--TA
*
4275844 TAATTATTATAAATTA
1 T-A-TA-TATAAACTA
*
4275860 TATATATAAATTA
1 TATATATAAACTA
* *
4275873 TGTTTATATGAACTA
1 --TATATATAAACTA
* *
4275888 TAGATATGAACTA
1 TATATATAAACTA
*
4275901 TAGATATAAACTA
1 TATATATAAACTA
*
4275914 TATATGTAAACTA
1 TATATATAAACTA
*
4275927 TATATATGTAAAATA
1 TATATA--TAAACTA
4275942 TATATGTATAAACTA
1 TATA--TATAAACTA
4275957 TA
1 TA
4275959 AAAAGTATAT
Statistics
Matches: 105, Mismatches: 14, Indels: 20
0.76 0.10 0.14
Matches are distributed among these distances:
13 58 0.55
14 2 0.02
15 32 0.30
16 4 0.04
17 4 0.04
18 5 0.05
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.40
Consensus pattern (13 bp):
TATATATAAACTA
Found at i:4275845 original size:26 final size:26
Alignment explanation
Indices: 4275816--4275958 Score: 97
Period size: 28 Copynumber: 5.1 Consensus size: 26
4275806 AATATAAGTT
*
4275816 TATATATAAACTATATATACAAACTATA
1 TATATATAAACTATATATATAAAC--TA
* *
4275844 TAATTATTATAAATTATATATATAAATTA
1 T-A-TA-TATAAACTATATATATAAACTA
* * * *
4275873 TGTTTATATGAACTATAGATATGAACTA
1 --TATATATAAACTATATATATAAACTA
* *
4275901 TAGATATAAACTATATATGTAAACTA
1 TATATATAAACTATATATATAAACTA
*
4275927 TATATATGTAAAATATATATGTATAAACTA
1 TATATA--TAAACTATATA--TATAAACTA
4275957 TA
1 TA
4275959 AAAAGTATAT
Statistics
Matches: 88, Mismatches: 18, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
26 25 0.28
28 28 0.32
29 5 0.06
30 12 0.14
31 18 0.20
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.40
Consensus pattern (26 bp):
TATATATAAACTATATATATAAACTA
Found at i:4275958 original size:15 final size:15
Alignment explanation
Indices: 4275905--4275958 Score: 67
Period size: 15 Copynumber: 3.7 Consensus size: 15
4275895 GAACTATAGA
4275905 TATAAACTATATATG
1 TATAAACTATATATG
*
4275920 --TAAACTATATATA
1 TATAAACTATATATG
* *
4275933 TGTAAAATATATATG
1 TATAAACTATATATG
4275948 TATAAACTATA
1 TATAAACTATA
4275959 AAAAGTATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
13 12 0.38
15 20 0.62
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.39
Consensus pattern (15 bp):
TATAAACTATATATG
Found at i:4275982 original size:25 final size:23
Alignment explanation
Indices: 4275936--4275984 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 23
4275926 ATATATATGT
4275936 AAAATATATATGTATAAACTATA
1 AAAATATATATGTATAAACTATA
*
4275959 AAAAGTATATAGTTTATAAACTATA
1 AAAA-TATATA-TGTATAAACTATA
4275984 A
1 A
4275985 TTTATATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 4 0.17
24 6 0.26
25 13 0.57
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.35
Consensus pattern (23 bp):
AAAATATATATGTATAAACTATA
Found at i:4276361 original size:2 final size:2
Alignment explanation
Indices: 4276354--4276503 Score: 222
Period size: 2 Copynumber: 77.0 Consensus size: 2
4276344 ATAAGTAATC
4276354 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
4276396 TA TA T- TA TG TA TA -A CTA -A TA TA -A GTA -A TC TA TA T- TA TA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA TA
4276434 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4276476 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4276504 AAACACTATG
Statistics
Matches: 136, Mismatches: 4, Indels: 16
0.87 0.03 0.10
Matches are distributed among these distances:
1 6 0.04
2 128 0.94
3 2 0.01
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (2 bp):
TA
Found at i:4276577 original size:21 final size:21
Alignment explanation
Indices: 4276552--4276598 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
4276542 TAATTTATAA
**
4276552 AAACCTTAAATTGTGAACCCT
1 AAACCTTAAATCCTGAACCCT
* *
4276573 AAACCTTTAATCCTTAACCCT
1 AAACCTTAAATCCTGAACCCT
4276594 AAACC
1 AAACC
4276599 CTAACATGCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.38, C:0.30, G:0.04, T:0.28
Consensus pattern (21 bp):
AAACCTTAAATCCTGAACCCT
Found at i:4276817 original size:15 final size:15
Alignment explanation
Indices: 4276797--4276845 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
4276787 TCATGTATAG
* *
4276797 TATATATAAAAAATA
1 TATATATATAAACTA
*
4276812 TATATATATAACCTA
1 TATATATATAAACTA
4276827 TATATATATAAACTA
1 TATATATATAAACTA
4276842 TATA
1 TATA
4276846 AAGTAAATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (15 bp):
TATATATATAAACTA
Found at i:4276819 original size:17 final size:17
Alignment explanation
Indices: 4276792--4276836 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
4276782 ATAAATCATG
4276792 TATAGTATATATAAAAAA
1 TATA-TATATATAAAAAA
***
4276810 TATATATATATAACCTA
1 TATATATATATAAAAAA
4276827 TATATATATA
1 TATATATATA
4276837 AACTATATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 20 0.83
18 4 0.17
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (17 bp):
TATATATATATAAAAAA
Found at i:4276935 original size:48 final size:48
Alignment explanation
Indices: 4276834--4276935 Score: 125
Period size: 48 Copynumber: 2.1 Consensus size: 48
4276824 CTATATATAT
* ** **
4276834 ATAAACTATATAAAGTAAATTACTTATATAGTTTATAAAACACTATGC
1 ATAAACTATATAAAGTAAATAAAGTATATAGTTTATAAAACACTAACC
*
4276882 ATAAACTATATAAAGT-AATAAAGTATATAGTTTATAGAAACCCTAACC
1 ATAAACTATATAAAGTAAATAAAGTATATAGTTTATA-AAACACTAACC
*
4276930 CTAAAC
1 ATAAAC
4276936 CCTAAATCAT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
47 17 0.37
48 29 0.63
ACGTcount: A:0.49, C:0.13, G:0.07, T:0.31
Consensus pattern (48 bp):
ATAAACTATATAAAGTAAATAAAGTATATAGTTTATAAAACACTAACC
Found at i:4276936 original size:7 final size:7
Alignment explanation
Indices: 4276919--4276987 Score: 54
Period size: 7 Copynumber: 10.3 Consensus size: 7
4276909 TAGTTTATAG
4276919 AAACCCT
1 AAACCCT
4276926 -AACCCT
1 AAACCCT
4276932 AAACCCT
1 AAACCCT
* *
4276939 AAATCAT
1 AAACCCT
*
4276946 AAACTCT
1 AAACCCT
*
4276953 -AACCAT
1 AAACCCT
**
4276959 AAATACT
1 AAACCCT
4276966 AAACCCT
1 AAACCCT
*
4276973 AAA-CAT
1 AAACCCT
4276979 AAACCCT
1 AAACCCT
4276986 AA
1 AA
4276988 TATATGTATT
Statistics
Matches: 45, Mismatches: 14, Indels: 6
0.69 0.22 0.09
Matches are distributed among these distances:
6 15 0.33
7 30 0.67
ACGTcount: A:0.49, C:0.32, G:0.00, T:0.19
Consensus pattern (7 bp):
AAACCCT
Found at i:4276959 original size:13 final size:13
Alignment explanation
Indices: 4276919--4276987 Score: 51
Period size: 13 Copynumber: 5.7 Consensus size: 13
4276909 TAGTTTATAG
*
4276919 AAACCCTAACCCT
1 AAACCCTAACCAT
*
4276932 AAACCCTAAATCAT
1 AAACCCT-AACCAT
*
4276946 AAACTCTAACCAT
1 AAACCCTAACCAT
4276959 AAA---T-A-C-T
1 AAACCCTAACCAT
*
4276966 AAACCCTAAACAT
1 AAACCCTAACCAT
4276979 AAACCCTAA
1 AAACCCTAA
4276988 TATATGTATT
Statistics
Matches: 45, Mismatches: 4, Indels: 14
0.71 0.06 0.22
Matches are distributed among these distances:
7 4 0.09
8 1 0.02
9 1 0.02
10 2 0.04
11 1 0.02
12 1 0.02
13 25 0.56
14 10 0.22
ACGTcount: A:0.49, C:0.32, G:0.00, T:0.19
Consensus pattern (13 bp):
AAACCCTAACCAT
Found at i:4276961 original size:20 final size:20
Alignment explanation
Indices: 4276926--4276981 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
4276916 TAGAAACCCT
*
4276926 AACCCTAAACCCTAAAT-CATA
1 AACCCT-AACCATAAATAC-TA
*
4276947 AACTCTAACCATAAATACTA
1 AACCCTAACCATAAATACTA
*
4276967 AACCCTAAACATAAA
1 AACCCTAACCATAAA
4276982 CCCTAATATA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 24 0.80
21 6 0.20
ACGTcount: A:0.52, C:0.29, G:0.00, T:0.20
Consensus pattern (20 bp):
AACCCTAACCATAAATACTA
Found at i:4276987 original size:20 final size:20
Alignment explanation
Indices: 4276919--4276987 Score: 59
Period size: 20 Copynumber: 3.5 Consensus size: 20
4276909 TAGTTTATAG
*
4276919 AAACCCT-AACCCTAAACCCT
1 AAACCCTAAACCCTAAA-CAT
* * * *
4276939 AAATCATAAACTCTAACCAT
1 AAACCCTAAACCCTAAACAT
**
4276959 AAATACTAAACCCTAAACAT
1 AAACCCTAAACCCTAAACAT
4276979 AAACCCTAA
1 AAACCCTAA
4276988 TATATGTATT
Statistics
Matches: 37, Mismatches: 11, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
20 30 0.81
21 7 0.19
ACGTcount: A:0.49, C:0.32, G:0.00, T:0.19
Consensus pattern (20 bp):
AAACCCTAAACCCTAAACAT
Found at i:4277009 original size:17 final size:16
Alignment explanation
Indices: 4276987--4277022 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
4276977 ATAAACCCTA
4276987 ATATATGTATTACATGC
1 ATATATGTA-TACATGC
*
4277004 ATATATGTATATATGC
1 ATATATGTATACATGC
4277020 ATA
1 ATA
4277023 ATGAGTGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.42
Consensus pattern (16 bp):
ATATATGTATACATGC
Found at i:4277111 original size:8 final size:8
Alignment explanation
Indices: 4277096--4277217 Score: 210
Period size: 8 Copynumber: 15.4 Consensus size: 8
4277086 ATTTGATTTT
*
4277096 ATGTATGT
1 ATGTATGC
* *
4277104 ATGCATGT
1 ATGTATGC
4277112 ATGTATGC
1 ATGTATGC
4277120 ATGTATGC
1 ATGTATGC
4277128 ATGTATGC
1 ATGTATGC
4277136 ATGTATGC
1 ATGTATGC
4277144 ATGTATGC
1 ATGTATGC
4277152 ATGTATGC
1 ATGTATGC
4277160 ATGTATGC
1 ATGTATGC
4277168 ATGTATGC
1 ATGTATGC
4277176 ATGTATGC
1 ATGTATGC
4277184 ATGTATGC
1 ATGTATGC
4277192 ATGTATGC
1 ATGTATGC
4277200 ATGTATGC
1 ATGTATGC
4277208 ATG-ATGC
1 ATGTATGC
4277215 ATG
1 ATG
4277218 CATTACATAA
Statistics
Matches: 111, Mismatches: 3, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
7 7 0.06
8 104 0.94
ACGTcount: A:0.25, C:0.11, G:0.25, T:0.38
Consensus pattern (8 bp):
ATGTATGC
Found at i:4277371 original size:23 final size:22
Alignment explanation
Indices: 4277323--4277372 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
4277313 TATGATACAT
* *
4277323 ATGTTATATGCATATATTATGT
1 ATGTTATATGCATATATGATGC
* *
4277345 ATGTATATATGTATGTATGATGC
1 ATGT-TATATGCATATATGATGC
4277368 ATGTT
1 ATGTT
4277373 TAAAATTTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 5 0.22
23 18 0.78
ACGTcount: A:0.30, C:0.04, G:0.18, T:0.48
Consensus pattern (22 bp):
ATGTTATATGCATATATGATGC
Found at i:4277549 original size:13 final size:12
Alignment explanation
Indices: 4277517--4277550 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
4277507 CAATAAAATG
4277517 TAAA-AAAATTA
1 TAAAGAAAATTA
4277528 TAAAGAAAATTA
1 TAAAGAAAATTA
4277540 TAAAGTAAAAT
1 TAAAG-AAAAT
4277551 GATTTGTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 4 0.19
12 12 0.57
13 5 0.24
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (12 bp):
TAAAGAAAATTA
Found at i:4278499 original size:23 final size:23
Alignment explanation
Indices: 4278467--4278518 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
4278457 GTATGATACA
*
4278467 TATGT-TATATGCATATATTATG
1 TATGTATATATGCATATATGATG
* *
4278489 TATGTATATATGTATGTATGATG
1 TATGTATATATGCATATATGATG
*
4278512 CATGTAT
1 TATGTAT
4278519 TAAAATTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
22 5 0.20
23 20 0.80
ACGTcount: A:0.31, C:0.04, G:0.17, T:0.48
Consensus pattern (23 bp):
TATGTATATATGCATATATGATG
Found at i:4278513 original size:34 final size:35
Alignment explanation
Indices: 4278443--4278520 Score: 88
Period size: 34 Copynumber: 2.2 Consensus size: 35
4278433 TATTATAAAA
*
4278443 ATATATTGATGTGTGTATGATACATATGTTATATGC
1 ATATATT-ATGTATGTATGATACATATGTTATATGC
**
4278479 ATATATTATGTATGTAT-ATATGTATG-TATGATGC
1 ATATATTATGTATGTATGATACATATGTTAT-ATGC
*
4278513 ATGTATTA
1 ATATATTA
4278521 AAATTTTAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
33 3 0.08
34 18 0.49
35 9 0.24
36 7 0.19
ACGTcount: A:0.32, C:0.04, G:0.18, T:0.46
Consensus pattern (35 bp):
ATATATTATGTATGTATGATACATATGTTATATGC
Found at i:4286412 original size:12 final size:12
Alignment explanation
Indices: 4286389--4286420 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
4286379 TAATCTCCGT
4286389 CCCGATTACCCGG
1 CCCGA-TACCCGG
4286402 CCCGATACCCGG
1 CCCGATACCCGG
4286414 CCCGATA
1 CCCGATA
4286421 AATATTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.19, C:0.47, G:0.22, T:0.12
Consensus pattern (12 bp):
CCCGATACCCGG
Found at i:4286682 original size:25 final size:25
Alignment explanation
Indices: 4286632--4286682 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
4286622 AAATCCCCGT
* * * *
4286632 GATTTTTTAAAGGAGGACGGGTACG
1 GATTTTTTAAACGAGAACGAGAACG
4286657 GATTTTTTAAACGAGAACGAGAACG
1 GATTTTTTAAACGAGAACGAGAACG
4286682 G
1 G
4286683 GAAACCAATA
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:0.33, C:0.10, G:0.31, T:0.25
Consensus pattern (25 bp):
GATTTTTTAAACGAGAACGAGAACG
Found at i:4291446 original size:22 final size:21
Alignment explanation
Indices: 4291398--4291453 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
4291388 ACTCTTTACG
* * *
4291398 GCGACATCCGTCCTCATCTCC
1 GCGAAATCCGTCCCCATCTCA
4291419 GACGAAATCCGTCCCCATCTCTA
1 G-CGAAATCCGTCCCCATCTC-A
*
4291442 GCGAAATACGTC
1 GCGAAATCCGTC
4291454 TATCTCCATC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 1 0.03
22 27 0.93
23 1 0.03
ACGTcount: A:0.23, C:0.39, G:0.16, T:0.21
Consensus pattern (21 bp):
GCGAAATCCGTCCCCATCTCA
Found at i:4291814 original size:20 final size:20
Alignment explanation
Indices: 4291791--4291834 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
4291781 AAACTTAAAT
*
4291791 TCGCAACACGAAAATGAAAA
1 TCGCAACACGAAAATAAAAA
* *
4291811 TCGCAACGCGAAACTAAAAA
1 TCGCAACACGAAAATAAAAA
4291831 TCGC
1 TCGC
4291835 GTTGCGATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.48, C:0.25, G:0.16, T:0.11
Consensus pattern (20 bp):
TCGCAACACGAAAATAAAAA
Found at i:4293793 original size:19 final size:18
Alignment explanation
Indices: 4293747--4293794 Score: 78
Period size: 18 Copynumber: 2.6 Consensus size: 18
4293737 GTAGATGCTT
*
4293747 TACGTCGGGTTTTTCTTG
1 TACGACGGGTTTTTCTTG
4293765 TACGACGGGTTTTTCTTG
1 TACGACGGGTTTTTCTTG
4293783 TACGACAGGGTT
1 TACGAC-GGGTT
4293795 CACGCATCAG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
18 23 0.82
19 5 0.18
ACGTcount: A:0.12, C:0.17, G:0.29, T:0.42
Consensus pattern (18 bp):
TACGACGGGTTTTTCTTG
Found at i:4293910 original size:21 final size:21
Alignment explanation
Indices: 4293882--4293985 Score: 122
Period size: 21 Copynumber: 5.0 Consensus size: 21
4293872 AAAGCACCTG
*
4293882 TCATCGTTCAAGAGGCCTCTC
1 TCATCGTTCAAGAGGCCCCTC
*
4293903 -CTATCGTTCAAGAGGCCCCTA
1 TC-ATCGTTCAAGAGGCCCCTC
*
4293924 TCATCCTTCAAGAGGCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* * *
4293945 CCACCGTTCAAGAGG-CCCTG
1 TCATCGTTCAAGAGGCCCCTC
*
4293965 TCATCGTTCAAGAGGTCCCTC
1 TCATCGTTCAAGAGGCCCCTC
4293986 CCACTGTTTG
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
20 18 0.26
21 50 0.72
22 1 0.01
ACGTcount: A:0.20, C:0.37, G:0.19, T:0.24
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:4293934 original size:42 final size:41
Alignment explanation
Indices: 4293882--4293989 Score: 153
Period size: 42 Copynumber: 2.6 Consensus size: 41
4293872 AAAGCACCTG
* * *
4293882 TCATCGTTCAAGAGGCCTCTCCTATCGTTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTCCCACCGTTCAAGAGG-CCCTA
* *
4293924 TCATCCTTCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCTG
1 TCATCGTTCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCTA
*
4293965 TCATCGTTCAAGAGGTCCCTCCCAC
1 TCATCGTTCAAGAGGCCCCTCCCAC
4293990 TGTTTGAGAG
Statistics
Matches: 59, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
41 27 0.46
42 32 0.54
ACGTcount: A:0.20, C:0.38, G:0.19, T:0.23
Consensus pattern (41 bp):
TCATCGTTCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCTA
Found at i:4295307 original size:13 final size:14
Alignment explanation
Indices: 4295282--4295314 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
4295272 AAATTGATGT
4295282 ATTTGTAAAAGTTG
1 ATTTGTAAAAGTTG
4295296 ATTTGT-AAAGTTG
1 ATTTGTAAAAGTTG
4295309 ATTTGT
1 ATTTGT
4295315 TTAATAGATG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.30, C:0.00, G:0.21, T:0.48
Consensus pattern (14 bp):
ATTTGTAAAAGTTG
Done.