Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 71 of 173
Found at i:21678572 original size:40 final size:40
Alignment explanation
Indices: 21678488--21678712 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
21678478 TTGAATGATG
* * * *
21678488 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
21678528 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
21678568 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
21678607 TCCGGGTTAAGTCCCGAAGGTATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
21678647 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
21678688 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
21678713 AACGAGGAGC
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 34 0.21
40 119 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:21699200 original size:25 final size:25
Alignment explanation
Indices: 21699172--21699220 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
21699162 TACAGTCTAT
* *
21699172 CTATAGTAGTCTCAGTATATACTAG
1 CTATAGCAGTCTCAGGATATACTAG
* *
21699197 CTATAGCAGTTTTAGGATATACTA
1 CTATAGCAGTCTCAGGATATACTA
21699221 TAAAAAATAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (25 bp):
CTATAGCAGTCTCAGGATATACTAG
Found at i:21702926 original size:41 final size:41
Alignment explanation
Indices: 21702866--21703007 Score: 169
Period size: 41 Copynumber: 3.5 Consensus size: 41
21702856 TTTAAACAGA
* * * *
21702866 TTCACTGGCACTTCA-CCTGATAGGCTTATAGTCTAATTCCG
1 TTCACCGGCACTT-AGCCTGATAGGCATATAGTCTGATTCAG
* *
21702907 TTCACCGGCACTTAGCCTGATAGGCCTATAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGATAGGCATATAGTCTGATTCAG
** * * *
21702948 TTCACTAGCACTTAGCCTGCTAGACATATAGTCCGATTCAG
1 TTCACCGGCACTTAGCCTGATAGGCATATAGTCTGATTCAG
21702989 TTCACCGGCACTTAGCCTG
1 TTCACCGGCACTTAGCCTG
21703008 CTAGACGAAT
Statistics
Matches: 86, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
40 1 0.01
41 85 0.99
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.30
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGATAGGCATATAGTCTGATTCAG
Found at i:21703008 original size:41 final size:41
Alignment explanation
Indices: 21702866--21703024 Score: 162
Period size: 41 Copynumber: 3.9 Consensus size: 41
21702856 TTTAAACAGA
* * * ** *
21702866 TTCACTGGCACTTCA-CCTGATAGGCTTATAGTCTAATTCCG
1 TTCACCGGCACTT-AGCCTGATAGACATATAGTCCGATTCAG
* *
21702907 TTCACCGGCACTTAGCCTGATAGGCCTATAG-CCTGATTCAG
1 TTCACCGGCACTTAGCCTGATAGACATATAGTCC-GATTCAG
** *
21702948 TTCACTAGCACTTAGCCTGCTAGACATATAGTCCGATTCAG
1 TTCACCGGCACTTAGCCTGATAGACATATAGTCCGATTCAG
*
21702989 TTCACCGGCACTTAGCCTGCTAGACGA-ATAGTCCGA
1 TTCACCGGCACTTAGCCTGATAGAC-ATATAGTCCGA
21703025 ATAATTTCAC
Statistics
Matches: 102, Mismatches: 12, Indels: 8
0.84 0.10 0.07
Matches are distributed among these distances:
40 2 0.02
41 97 0.95
42 3 0.03
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGATAGACATATAGTCCGATTCAG
Found at i:21703034 original size:41 final size:41
Alignment explanation
Indices: 21702906--21703039 Score: 137
Period size: 41 Copynumber: 3.3 Consensus size: 41
21702896 GTCTAATTCC
* * * * *
21702906 GTTCACCGGCACTTAGCCTGATAGGCCTATAG-CCTGATTCA
1 GTTCACCGGCACTTAGCCTGCTAGACATATAGTCC-GAATAA
** * *
21702947 GTTCACTAGCACTTAGCCTGCTAGACATATAGTCCGATTCA
1 GTTCACCGGCACTTAGCCTGCTAGACATATAGTCCGAATAA
21702988 GTTCACCGGCACTTAGCCTGCTAGACGA-ATAGTCCGAATAA
1 GTTCACCGGCACTTAGCCTGCTAGAC-ATATAGTCCGAATAA
* *
21703029 TTTCACTGGCA
1 GTTCACCGGCA
21703040 ATAAATCCGA
Statistics
Matches: 80, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
41 77 0.96
42 3 0.04
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (41 bp):
GTTCACCGGCACTTAGCCTGCTAGACATATAGTCCGAATAA
Found at i:21703034 original size:82 final size:82
Alignment explanation
Indices: 21702866--21703035 Score: 182
Period size: 82 Copynumber: 2.1 Consensus size: 82
21702856 TTTAAACAGA
* * * * * *
21702866 TTCACTGGCACTTCACCTGATAGGCTTATAGTCTAATTCCGTTCACCGGCACTTAGCCTGATAGG
1 TTCACTAGCACTTCACCTGATAGACATATAGTCCAATTCAGTTCACCGGCACTTAGCCTGATAGA
* * *
21702931 CCTATAGCCTGATTCAG
66 CCAATAGCCTGAATAAG
* * *
21702948 TTCACTAGCACTT-AGCCTGCTAGACATATAGTCCGATTCAGTTCACCGGCACTTAGCCTGCTAG
1 TTCACTAGCACTTCA-CCTGATAGACATATAGTCCAATTCAGTTCACCGGCACTTAGCCTGATAG
* *
21703012 ACGAATAGTCC-GAATAAT
65 ACCAATAG-CCTGAATAAG
21703030 TTCACT
1 TTCACT
21703036 GGCAATAAAT
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
81 1 0.01
82 69 0.96
83 2 0.03
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (82 bp):
TTCACTAGCACTTCACCTGATAGACATATAGTCCAATTCAGTTCACCGGCACTTAGCCTGATAGA
CCAATAGCCTGAATAAG
Found at i:21713084 original size:47 final size:47
Alignment explanation
Indices: 21713027--21713330 Score: 416
Period size: 47 Copynumber: 6.4 Consensus size: 47
21713017 ATTGATGTAC
* * *
21713027 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
21713074 AAGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATAT--GTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
21713123 ACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
21713170 ACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * *
21713217 ACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGAGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
21713264 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGG
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
21713311 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
21713331 TCCCGAAGGG
Statistics
Matches: 237, Mismatches: 16, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
46 1 0.00
47 195 0.82
49 40 0.17
50 1 0.00
ACGTcount: A:0.33, C:0.10, G:0.31, T:0.27
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
Found at i:21713208 original size:22 final size:22
Alignment explanation
Indices: 21713181--21713302 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
21713171 CATGTGTATG
21713181 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
21713203 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
21713228 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
21713250 TGTGATGAATG-AGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
21713275 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
21713297 TGTGAT
1 TGTGAT
21713303 GGATGTGGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 17 0.24
25 15 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:21722388 original size:44 final size:44
Alignment explanation
Indices: 21722353--21722666 Score: 452
Period size: 44 Copynumber: 7.1 Consensus size: 44
21722343 ACTACTGCTT
21722353 AGGGAGATAGGA-TTCACAATCTTCAACCTATTCCACTGCTGGTC
1 AGGGAGATAGGACTT-ACAATCTTCAACCTATTCCACTGCTGGTC
* * *
21722397 AGGGAGTTAGGACTTGCAACCTTCAACCTATTCCACTGCTGGTC
1 AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
* * * *
21722441 AGGGAGTTAGGACTTGCAATCTTCAACCTATTCCACAGCTGATC
1 AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
* *
21722485 AAGGAGATAGGACTTACAATCTTCAACCTAGTCCACTGCTGGTC
1 AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
* *
21722529 AGGGAGTTAGGACTTGCAATCTTCAACCTATTCCACTGCTGGTC
1 AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
* *
21722573 AGGTAGATAGGACTTAAAATCTTCAACCTATTCCACTGCTGG-C
1 AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
* *
21722616 TGGGGAGATATGACTTACAATCTTCAACCTATTCCACTGCTGGTC
1 -AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
*
21722661 ATGGAG
1 AGGGAG
21722667 CTAGTTTTTG
Statistics
Matches: 241, Mismatches: 26, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
43 1 0.00
44 237 0.98
45 3 0.01
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (44 bp):
AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
Found at i:21726618 original size:23 final size:23
Alignment explanation
Indices: 21726592--21726902 Score: 205
Period size: 22 Copynumber: 13.3 Consensus size: 23
21726582 CAACCCTGTT
* *
21726592 TTGGACAGCAATTATTCAACAAA
1 TTGGACAGCAATTATACATCAAA
*
21726615 TTGGACAGCAATAATATGC-TCAAA
1 TTGGACAGCAAT--TATACATCAAA
*
21726639 ATGGACAGC-ATTATACATCAAA
1 TTGGACAGCAATTATACATCAAA
* *
21726661 TTAGACAGCTTAAATATAC-TCAAAA
1 TTGGACAGC--AATTATACATC-AAA
21726686 TTGGACAGC-ATTATACATCAAA
1 TTGGACAGCAATTATACATCAAA
* *
21726708 TTAGACAGCTTAAATATAC-TCATAA
1 TTGGACAGC--AATTATACATCA-AA
*
21726733 TTGGACAGC-ATTATACATTAAA
1 TTGGACAGCAATTATACATCAAA
* * *
21726755 ATGGACAGC-ATCAATACACTAAAAA
1 TTGGACAGCAAT-TATACA-T-CAAA
* *
21726780 TTGGACAGC-ATCATACATTAAA
1 TTGGACAGCAATTATACATCAAA
*
21726802 ATGGACAGC-ATTAGTACACTCAAAA
1 TTGGACAGCAATTA-TACA-TC-AAA
*
21726827 TTGGACAGC-ATTATACATTAAA
1 TTGGACAGCAATTATACATCAAA
* *
21726849 ATGGACAGC-ATCAATACATTCAAAA
1 TTGGACAGCAAT-TATACA-TC-AAA
*
21726874 TTGGACAGC-ATTATACATTAAA
1 TTGGACAGCAATTATACATCAAA
*
21726896 ATGGACA
1 TTGGACA
21726903 ACATCAATAT
Statistics
Matches: 234, Mismatches: 32, Indels: 45
0.75 0.10 0.14
Matches are distributed among these distances:
21 4 0.02
22 83 0.35
23 35 0.15
24 34 0.15
25 78 0.33
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.26
Consensus pattern (23 bp):
TTGGACAGCAATTATACATCAAA
Found at i:21726686 original size:25 final size:25
Alignment explanation
Indices: 21726650--21726741 Score: 104
Period size: 25 Copynumber: 3.8 Consensus size: 25
21726640 TGGACAGCAT
21726650 TATACATCAAATTAGACAGCTTAAA
1 TATACATCAAATTAGACAGCTTAAA
* *
21726675 TATAC-TCAAAATTGGACAGC---AT
1 TATACATC-AAATTAGACAGCTTAAA
21726697 TATACATCAAATTAGACAGCTTAAA
1 TATACATCAAATTAGACAGCTTAAA
*
21726722 TATAC-TCATAATTGGACAGC
1 TATACATCA-AATTAGACAGC
21726742 ATTATACATT
Statistics
Matches: 56, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
22 17 0.30
23 2 0.04
24 5 0.09
25 32 0.57
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.28
Consensus pattern (25 bp):
TATACATCAAATTAGACAGCTTAAA
Found at i:21726691 original size:47 final size:47
Alignment explanation
Indices: 21726592--21726926 Score: 397
Period size: 47 Copynumber: 7.1 Consensus size: 47
21726582 CAACCCTGTT
* ** * *
21726592 TTGGACAGCAATTATTCAACAAATTGGACAGCA-ATAATATGCTCAAAA
1 TTGGACAGC-ATTATACATTAAAATGGACAGCATA-AATATACTCAAAA
* * * *
21726640 -TGGACAGCATTATACATCAAATTAGACAGCTTAAATATACTCAAAA
1 TTGGACAGCATTATACATTAAAATGGACAGCATAAATATACTCAAAA
* * * * *
21726686 TTGGACAGCATTATACATCAAATTAGACAGCTTAAATATACTCATAA
1 TTGGACAGCATTATACATTAAAATGGACAGCATAAATATACTCAAAA
* * *
21726733 TTGGACAGCATTATACATTAAAATGGACAGCATCAATACACTAAAAA
1 TTGGACAGCATTATACATTAAAATGGACAGCATAAATATACTCAAAA
* * * *
21726780 TTGGACAGCATCATACATTAAAATGGACAGCATTAGTACACTCAAAA
1 TTGGACAGCATTATACATTAAAATGGACAGCATAAATATACTCAAAA
* * *
21726827 TTGGACAGCATTATACATTAAAATGGACAGCATCAATACATTCAAAA
1 TTGGACAGCATTATACATTAAAATGGACAGCATAAATATACTCAAAA
* *
21726874 TTGGACAGCATTATACATTAAAATGGACAACATCAATATACTCAAAA
1 TTGGACAGCATTATACATTAAAATGGACAGCATAAATATACTCAAAA
21726921 -TGGACA
1 TTGGACA
21726927 TCAAATTTGG
Statistics
Matches: 260, Mismatches: 25, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
46 37 0.14
47 223 0.86
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.25
Consensus pattern (47 bp):
TTGGACAGCATTATACATTAAAATGGACAGCATAAATATACTCAAAA
Found at i:21727945 original size:28 final size:26
Alignment explanation
Indices: 21727913--21728010 Score: 133
Period size: 28 Copynumber: 3.6 Consensus size: 26
21727903 TTAATAAGTA
*
21727913 CGCACACTTAGTGCTTAATAATCAAACT
1 CGCACACTTAGTGCTT--TAATTAAACT
*
21727941 CGCACACTTAGTGCTTTACATTATACT
1 CGCACACTTAGTGCTTTA-ATTAAACT
21727968 CGCACACTTAGTGCATTTCAATTAAACT
1 CGCACACTTAGTGC-TTT-AATTAAACT
21727996 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
21728011 AATCTCATTA
Statistics
Matches: 64, Mismatches: 3, Indels: 7
0.86 0.04 0.09
Matches are distributed among these distances:
26 2 0.03
27 21 0.33
28 40 0.62
29 1 0.02
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.32
Consensus pattern (26 bp):
CGCACACTTAGTGCTTTAATTAAACT
Found at i:21740692 original size:28 final size:28
Alignment explanation
Indices: 21740628--21740683 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
21740618 TTTTATAGGC
*
21740628 CGAAAAAAAGTAAACCAAAAATGAAAAA
1 CGAAAAAAAGTAAACAAAAAATGAAAAA
21740656 CGAAAAAAAGTAAACAAAAAATGAAAAA
1 CGAAAAAAAGTAAACAAAAAATGAAAAA
21740684 TTACGAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.73, C:0.09, G:0.11, T:0.07
Consensus pattern (28 bp):
CGAAAAAAAGTAAACAAAAAATGAAAAA
Found at i:21741504 original size:44 final size:44
Alignment explanation
Indices: 21741456--21741769 Score: 432
Period size: 44 Copynumber: 7.1 Consensus size: 44
21741446 ACTACTGCTT
* *
21741456 AGGGAGATAGGA-TCCACAATCTTCAACCTATTCCACTGCTAGTC
1 AGGGAGATAGGACT-TACAATCTTCAACCTATTCCACTGCTGGTC
* * *
21741500 AGGGAGTTAGGACTTGCAATCTTCAACCTATTCCACTTCTGGTC
1 AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
* * * *
21741544 AGGGAGTTAGGACTTGCAATCTTCAACCTATTCCACAGCTGATC
1 AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
* * *
21741588 AGGGAGATAGGACTTACAGTCTTCAACCTAGTCCACTGCTGGTT
1 AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
* * *
21741632 AGGGAGTTAGGACTTGCAATCTTCAACCTATTCCACTGTTGGTC
1 AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
* * *
21741676 AGGTAGATAGGACTTACAGTCTTCAACCTATTCCATTGCTGGTC
1 AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
* *
21741720 GGGGAGATATGACTTACAATCTTCAACCTATTCCACTGCTGGTC
1 AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
21741764 AGGGAG
1 AGGGAG
21741770 CTAGTTTTTG
Statistics
Matches: 236, Mismatches: 33, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
44 235 1.00
45 1 0.00
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (44 bp):
AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
Found at i:21762645 original size:78 final size:78
Alignment explanation
Indices: 21762521--21762693 Score: 233
Period size: 78 Copynumber: 2.2 Consensus size: 78
21762511 GGTTCCGAGG
** * * * *
21762521 ACCCTTGAGTTTGAGATGGGTCAGAGGTCCTTTGTGTTTGAATGGGTCGAAGG-TCCTTTGAGTT
1 ACCCTTGAGTTTGAG-TTAGTCAGAGGTCCCTTGAGTTTGAATGGGTCCAAGGAACC-TTGAGTT
21762585 TGAGTTGGTCAGAGA
64 TGAGTTGGTCAGAGA
* *
21762600 ACCTTTGAGTTTGAGTTAGTCAGAGGTCCCTTGAGTTTGAGTGGGTCCAAGGAACCTTGAGTTTG
1 ACCCTTGAGTTTGAGTTAGTCAGAGGTCCCTTGAGTTTGAATGGGTCCAAGGAACCTTGAGTTTG
*
21762665 AGTTGGTCAGAGG
66 AGTTGGTCAGAGA
21762678 ACCCTTGAG-TTGAGTT
1 ACCCTTGAGTTTGAGTT
21762694 TTTCGGAGGA
Statistics
Matches: 83, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
77 7 0.08
78 60 0.72
79 16 0.19
ACGTcount: A:0.20, C:0.14, G:0.33, T:0.34
Consensus pattern (78 bp):
ACCCTTGAGTTTGAGTTAGTCAGAGGTCCCTTGAGTTTGAATGGGTCCAAGGAACCTTGAGTTTG
AGTTGGTCAGAGA
Found at i:21762705 original size:25 final size:26
Alignment explanation
Indices: 21762517--21762693 Score: 180
Period size: 26 Copynumber: 6.8 Consensus size: 26
21762507 GAGTGGTTCC
*
21762517 GAGGACCCTTGAGTTTGAGATGGGTCA
1 GAGGACCCTTGAGTTTGAG-TTGGTCA
* * * * *
21762544 GAGGTCCTTTGTGTTTGAATGGGTC-
1 GAGGACCCTTGAGTTTGAGTTGGTCA
* *
21762569 GAAGGTCCTTTGAGTTTGAGTTGGTCA
1 G-AGGACCCTTGAGTTTGAGTTGGTCA
* * *
21762596 GAGAACCTTTGAGTTTGAGTTAGTCA
1 GAGGACCCTTGAGTTTGAGTTGGTCA
* *
21762622 GAGGTCCCTTGAGTTTGAGTGGGTCCA
1 GAGGACCCTTGAGTTTGAGTTGGT-CA
*
21762649 -AGGAACCTTGAGTTTGAGTTGGTCA
1 GAGGACCCTTGAGTTTGAGTTGGTCA
21762674 GAGGACCCTTGAG-TTGAGTT
1 GAGGACCCTTGAGTTTGAGTT
21762694 TTTCGGAGGA
Statistics
Matches: 127, Mismatches: 19, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
25 10 0.08
26 99 0.78
27 18 0.14
ACGTcount: A:0.20, C:0.14, G:0.34, T:0.33
Consensus pattern (26 bp):
GAGGACCCTTGAGTTTGAGTTGGTCA
Found at i:21766060 original size:19 final size:21
Alignment explanation
Indices: 21766019--21766062 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 21
21766009 CAATATTTTT
*
21766019 AACCGGGTTTTTACTTGATTC
1 AACCGGGTTTTTACTTAATTC
21766040 AACCGGG-TTTTAC-TAATTC
1 AACCGGGTTTTTACTTAATTC
21766059 AACC
1 AACC
21766063 CTTCTTTGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.41
20 6 0.27
21 7 0.32
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (21 bp):
AACCGGGTTTTTACTTAATTC
Found at i:21769233 original size:15 final size:16
Alignment explanation
Indices: 21769204--21769233 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21769194 CAAACATGCT
21769204 TTAACACATTATCAAA
1 TTAACACATTATCAAA
21769220 TTAACACA-TATCAA
1 TTAACACATTATCAA
21769234 TAAGGCACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:21774516 original size:26 final size:26
Alignment explanation
Indices: 21774458--21774532 Score: 78
Period size: 26 Copynumber: 2.9 Consensus size: 26
21774448 CATATTTTCC
* * *
21774458 CAAAATTTTACCACGGGCAAAATTGT
1 CAAAATTTTACCAAGGGTAAAATCGT
21774484 CAAAATTTTACCAAGGGTAAAATCGT
1 CAAAATTTTACCAAGGGTAAAATCGT
* * * * *
21774510 TAGAATTTTGCTAGGGGTAAAAT
1 CAAAATTTTACCAAGGGTAAAAT
21774533 AGGGATGAGA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (26 bp):
CAAAATTTTACCAAGGGTAAAATCGT
Found at i:21777442 original size:20 final size:19
Alignment explanation
Indices: 21777419--21777469 Score: 75
Period size: 20 Copynumber: 2.6 Consensus size: 19
21777409 TACTTTTCTC
*
21777419 TCTTCATTCTCTTCCATTGT
1 TCTTCATTCCCTTCCATT-T
21777439 TCTTCATTCCCTTCCATTT
1 TCTTCATTCCCTTCCATTT
21777458 TACTTCATTCCC
1 T-CTTCATTCCC
21777470 ATGCCGATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 2 0.07
20 27 0.93
ACGTcount: A:0.12, C:0.35, G:0.02, T:0.51
Consensus pattern (19 bp):
TCTTCATTCCCTTCCATTT
Found at i:21786435 original size:18 final size:18
Alignment explanation
Indices: 21786414--21786458 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
21786404 TTTCCTAAAT
21786414 TTTAATTTTAATTAATTA
1 TTTAATTTTAATTAATTA
*
21786432 TTTAAATTTAATTAATTA
1 TTTAATTTTAATTAATTA
*
21786450 TTAAATTTT
1 TTTAATTTT
21786459 CCATTTATTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTAATTTTAATTAATTA
Found at i:21786464 original size:24 final size:25
Alignment explanation
Indices: 21786437--21786483 Score: 71
Period size: 24 Copynumber: 1.9 Consensus size: 25
21786427 AATTATTTAA
21786437 ATTTAATT-AATTATTAA-ATTTTCC
1 ATTT-ATTGAATTATTAATATTTTCC
21786461 ATTTATTGAATTATTAATATTTT
1 ATTTATTGAATTATTAATATTTT
21786484 ATAATAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.57
Consensus pattern (25 bp):
ATTTATTGAATTATTAATATTTTCC
Found at i:21803957 original size:40 final size:40
Alignment explanation
Indices: 21803873--21804008 Score: 132
Period size: 40 Copynumber: 3.4 Consensus size: 40
21803863 AATTTGTGGA
*
21803873 CAAGCCACCAGTAATGCAAA-AAAGCTTCCAGTAATG-TGG
1 CAAGCCACCAGTAATGCAAATAAA-CTTCCAGTAATGCAGG
* *
21803912 TCAAGCCACCAGTAATGCAAATAAACTACCAGTAGTGCAGG
1 -CAAGCCACCAGTAATGCAAATAAACTTCCAGTAATGCAGG
** * * * * * *
21803953 CAAGCTGCCAATATTACAGATAAACTTCCAGTAATACAGA
1 CAAGCCACCAGTAATGCAAATAAACTTCCAGTAATGCAGG
*
21803993 CAAGCTACCAGTAATG
1 CAAGCCACCAGTAATG
21804009 TGGTCAAGCC
Statistics
Matches: 77, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
40 72 0.94
41 5 0.06
ACGTcount: A:0.40, C:0.24, G:0.18, T:0.19
Consensus pattern (40 bp):
CAAGCCACCAGTAATGCAAATAAACTTCCAGTAATGCAGG
Found at i:21803986 original size:60 final size:60
Alignment explanation
Indices: 21803919--21804045 Score: 139
Period size: 60 Copynumber: 2.1 Consensus size: 60
21803909 TGGTCAAGCC
* * * ** *
21803919 ACCAGTAATGCAAATAAACTACCAGTAGTGCAGG-CAAGCTGCCAATATTACAGATAAACT
1 ACCAGTAATACAAACAAACTACCAGTAATG-AGGTCAAGCCACCAATAATACAGATAAACT
* * * * *
21803979 TCCAGTAATACAGACAAGCTACCAGTAATGTGGTCAAGCCACCAATAATATAGATAAACT
1 ACCAGTAATACAAACAAACTACCAGTAATGAGGTCAAGCCACCAATAATACAGATAAACT
21804039 ACCAGTA
1 ACCAGTA
21804046 CTTCCTCCTT
Statistics
Matches: 54, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
59 2 0.04
60 52 0.96
ACGTcount: A:0.42, C:0.22, G:0.16, T:0.20
Consensus pattern (60 bp):
ACCAGTAATACAAACAAACTACCAGTAATGAGGTCAAGCCACCAATAATACAGATAAACT
Found at i:21803992 original size:20 final size:20
Alignment explanation
Indices: 21803919--21804007 Score: 61
Period size: 20 Copynumber: 4.5 Consensus size: 20
21803909 TGGTCAAGCC
* * *
21803919 ACCAGTAATGCAAATAAACT
1 ACCAGTAATACAGACAAACT
* * * *
21803939 ACCAGTAGTGCAGGCAAGCT
1 ACCAGTAATACAGACAAACT
* * * *
21803959 GCCAATATTACAGATAAACT
1 ACCAGTAATACAGACAAACT
* *
21803979 TCCAGTAATACAGACAAGCT
1 ACCAGTAATACAGACAAACT
21803999 ACCAGTAAT
1 ACCAGTAAT
21804008 GTGGTCAAGC
Statistics
Matches: 51, Mismatches: 18, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.42, C:0.22, G:0.16, T:0.20
Consensus pattern (20 bp):
ACCAGTAATACAGACAAACT
Found at i:21811601 original size:18 final size:18
Alignment explanation
Indices: 21811578--21811613 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
21811568 TAACTAAAAG
21811578 AAAGTTATCGTGGAATAT
1 AAAGTTATCGTGGAATAT
21811596 AAAGTTATCGTGGAATAT
1 AAAGTTATCGTGGAATAT
21811614 GTAAGTGATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.06, G:0.22, T:0.33
Consensus pattern (18 bp):
AAAGTTATCGTGGAATAT
Found at i:21811953 original size:17 final size:17
Alignment explanation
Indices: 21811931--21811963 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
21811921 ACATTCATTA
*
21811931 AGATTACTCTCTTAACT
1 AGATTACACTCTTAACT
21811948 AGATTACACTCTTAAC
1 AGATTACACTCTTAAC
21811964 AAAGACTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.24, G:0.06, T:0.36
Consensus pattern (17 bp):
AGATTACACTCTTAACT
Found at i:21818370 original size:34 final size:35
Alignment explanation
Indices: 21818323--21818393 Score: 99
Period size: 34 Copynumber: 2.1 Consensus size: 35
21818313 GCCAATAAAA
*
21818323 TATTCTTTCGTAAAATGATTT-CGGGAAAATATTT
1 TATTCTTTCGTAAAATGATTTACGGAAAAATATTT
* * *
21818357 TATTTTTTTGTAAAATGATTTACTGAAAAATATTT
1 TATTCTTTCGTAAAATGATTTACGGAAAAATATTT
21818392 TA
1 TA
21818394 ATATTTTCGG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
34 19 0.59
35 13 0.41
ACGTcount: A:0.35, C:0.06, G:0.11, T:0.48
Consensus pattern (35 bp):
TATTCTTTCGTAAAATGATTTACGGAAAAATATTT
Found at i:21823942 original size:51 final size:51
Alignment explanation
Indices: 21823854--21824049 Score: 202
Period size: 51 Copynumber: 3.8 Consensus size: 51
21823844 CCCTTATGAT
** * *
21823854 CAATACTATCTAGTACACATAGTAGTC-TACACTTAGTACTACATATGTGAC
1 CAATACTATCCGGTACACATAGTAG-CGTACACATAGTACTACACATGTGAC
* * * *
21823905 CAATACCATCCGGTACACATAGTAGCTTGCACATAGTACTACACACGTGAC
1 CAATACTATCCGGTACACATAGTAGCGTACACATAGTACTACACATGTGAC
* * *
21823956 CAA-AGCTACCCGGTACACATAGTAGCGTGCACTTAGTACTACACATGTGAC
1 CAATA-CTATCCGGTACACATAGTAGCGTACACATAGTACTACACATGTGAC
***
21824007 C-ATAACTATCTTATA-ATCATAGTAGCGTACACATAGTACTACA
1 CAAT-ACTATCCGGTACA-CATAGTAGCGTACACATAGTACTACA
21824050 TATGAATTCT
Statistics
Matches: 122, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
50 4 0.03
51 117 0.96
52 1 0.01
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.26
Consensus pattern (51 bp):
CAATACTATCCGGTACACATAGTAGCGTACACATAGTACTACACATGTGAC
Found at i:21824028 original size:102 final size:102
Alignment explanation
Indices: 21823866--21824049 Score: 248
Period size: 102 Copynumber: 1.8 Consensus size: 102
21823856 ATACTATCTA
* *
21823866 GTACACATAGTAGTCTACACTTAGTACTACATATGTGACCAATACCATCCGGTACACATAGTAGC
1 GTACACATAGTAGTCTACACTTAGTACTACACATGTGACCAATACCATCCGATACACATAGTAGC
* *
21823931 TTGCACATAGTACTACACACGTGACCAAAGCTACCCG
66 GTACACATAGTACTACACACGTGACCAAAGCTACCCG
* * **
21823968 GTACACATAGTAG-CGTGCACTTAGTACTACACATGTGACC-ATAACTATCTTATA-ATCATAGT
1 GTACACATAGTAGTC-TACACTTAGTACTACACATGTGACCAAT-ACCATCCGATACA-CATAGT
21824030 AGCGTACACATAGTACTACA
63 AGCGTACACATAGTACTACA
21824050 TATGAATTCT
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
101 4 0.06
102 67 0.94
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (102 bp):
GTACACATAGTAGTCTACACTTAGTACTACACATGTGACCAATACCATCCGATACACATAGTAGC
GTACACATAGTACTACACACGTGACCAAAGCTACCCG
Found at i:21829549 original size:32 final size:31
Alignment explanation
Indices: 21829504--21829599 Score: 167
Period size: 31 Copynumber: 3.1 Consensus size: 31
21829494 CTTAGATAAT
21829504 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
21829535 TTTAAAGAGTTTTTATTAGGATTCAATTACT-
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
21829566 TTTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTT-AAAGAGTTTTATTAGGATTCAATTACTC
21829598 TT
1 TT
21829600 GTAATTTGCC
Statistics
Matches: 62, Mismatches: 0, Indels: 5
0.93 0.00 0.07
Matches are distributed among these distances:
31 33 0.53
32 29 0.47
ACGTcount: A:0.31, C:0.08, G:0.14, T:0.47
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:21830179 original size:44 final size:44
Alignment explanation
Indices: 21830121--21830221 Score: 177
Period size: 46 Copynumber: 2.3 Consensus size: 44
21830111 AATAGTTAAT
21830121 AAAAAAAAGTTGAGAAAAATCT-AAAAAAAAAGCAAACAGCGCA
1 AAAAAAAAGTTGAGAAAAATCTAAAAAAAAAAGCAAACAGCGCA
21830164 AAAAAAAGAGTTGAGAAAAATCTAAAAAAAAAAAGCAAACAGCGCA
1 AAAAAAA-AGTTGAGAAAAATCT-AAAAAAAAAAGCAAACAGCGCA
21830210 AAAAAAAAGTTG
1 AAAAAAAAGTTG
21830222 CCTACCTCTC
Statistics
Matches: 55, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
43 7 0.13
44 15 0.27
45 5 0.09
46 28 0.51
ACGTcount: A:0.65, C:0.10, G:0.15, T:0.10
Consensus pattern (44 bp):
AAAAAAAAGTTGAGAAAAATCTAAAAAAAAAAGCAAACAGCGCA
Found at i:21835770 original size:32 final size:31
Alignment explanation
Indices: 21835725--21835820 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
21835715 CTTAGATAAT
21835725 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
21835756 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
21835788 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
21835819 TT
1 TT
21835821 GTAATTTGCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:21836170 original size:29 final size:27
Alignment explanation
Indices: 21836121--21836179 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 27
21836111 AATCTATCCT
*
21836121 TTTTATTTATTTATTTATTATTTAACTAA
1 TTTTATTTATTTAGTTATTATTT--CTAA
*
21836150 TTTTATTTATTCTCGTT-TTATTTCTAA
1 TTTTATTTATT-TAGTTATTATTTCTAA
21836177 TTT
1 TTT
21836180 GTGTTTCTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 7 0.26
29 17 0.63
30 3 0.11
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.68
Consensus pattern (27 bp):
TTTTATTTATTTAGTTATTATTTCTAA
Found at i:21836313 original size:13 final size:14
Alignment explanation
Indices: 21836273--21836313 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
21836263 AATCGAAGTC
*
21836273 AAATAAAA-AATTA
1 AAATAAAATAACTA
21836286 AAAT-AAATAACTA
1 AAATAAAATAACTA
21836299 AAATAAAATAA-TA
1 AAATAAAATAACTA
21836312 AA
1 AA
21836314 TCAAAGATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 3 0.12
13 16 0.64
14 6 0.24
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (14 bp):
AAATAAAATAACTA
Found at i:21843060 original size:29 final size:29
Alignment explanation
Indices: 21842997--21843064 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
21842987 TAATCAACCA
21842997 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
21843026 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
21843055 CGCACACTTA
1 CGCACACTTA
21843065 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:21843205 original size:29 final size:30
Alignment explanation
Indices: 21843166--21843244 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
21843156 CTTAATAATC
21843166 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
21843196 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
21843225 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
21843245 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:21853426 original size:29 final size:29
Alignment explanation
Indices: 21853363--21853430 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
21853353 TAATCAACCA
21853363 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
21853392 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
21853421 CGCACACTTA
1 CGCACACTTA
21853431 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:21853542 original size:173 final size:173
Alignment explanation
Indices: 21853253--21853578 Score: 555
Period size: 173 Copynumber: 1.9 Consensus size: 173
21853243 AACTCAAGGT
* *
21853253 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
21853318 GAAAATATATACTGGGTTGCACACATAATGTTTAGTAATCAACCACGCACACTTAGTGCCATGCA
66 GAAAATATATACTGGGTTGCACACATAATGCTTAATAATCAACCACGCACACTTAGTGCCATGCA
21853383 CTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 CTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
21853426 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* * * *
21853491 GAAAATAT-TATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATACTGGGTT-GCACACATAATGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
21853555 ACTTTAAACTCGCACACTTAGTGC
130 ACTTTAAACTCACACACTTAGTGC
21853579 TGTACAATTT
Statistics
Matches: 143, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
172 8 0.06
173 135 0.94
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (173 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATACTGGGTTGCACACATAATGCTTAATAATCAACCACGCACACTTAGTGCCATGCA
CTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:21853570 original size:29 final size:30
Alignment explanation
Indices: 21853531--21853609 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
21853521 CTTAATAATC
21853531 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
21853561 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
21853590 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
21853610 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:21863735 original size:25 final size:26
Alignment explanation
Indices: 21863705--21863760 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
21863695 AGCCAGATCG
* *
21863705 GGAAGCTC-CAGAGAGCCATTT-ATTA
1 GGAAGCTCACAAAGAGCC-TTTAATCA
21863730 GGAAGCTCACAAAGAGCCTTTAATCA
1 GGAAGCTCACAAAGAGCCTTTAATCA
21863756 GGAAG
1 GGAAG
21863761 TTCTGAAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 11 0.41
26 16 0.59
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.20
Consensus pattern (26 bp):
GGAAGCTCACAAAGAGCCTTTAATCA
Found at i:21864429 original size:20 final size:20
Alignment explanation
Indices: 21864391--21864428 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
21864381 CCATATATTT
*
21864391 CATAAAATTTAGAATTTTTC
1 CATAAAATTTACAATTTTTC
*
21864411 CATAAATTTTAC-ATTTTT
1 CATAAAATTTACAATTTTT
21864429 TGAATTTAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.37, C:0.11, G:0.03, T:0.50
Consensus pattern (20 bp):
CATAAAATTTACAATTTTTC
Found at i:21867232 original size:41 final size:41
Alignment explanation
Indices: 21867185--21867407 Score: 347
Period size: 41 Copynumber: 5.4 Consensus size: 41
21867175 AGATTCACTG
*
21867185 GCACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCA
1 GCACTTAGCCTGCTAGGCTTATAACCTGATTCAGTTCACCA
*
21867226 GCACTTAGCCTGCTAGGCTTATAACCTGATTCAGTTCACCT
1 GCACTTAGCCTGCTAGGCTTATAACCTGATTCAGTTCACCA
* * **
21867267 GCACTTAGCCTGCTAGGCTTATAGCCCGATTCAAATCACCA
1 GCACTTAGCCTGCTAGGCTTATAACCTGATTCAGTTCACCA
* *
21867308 ACACTTAGCCTGCTAGGCTTATAACCTGATTCAGTTCACCG
1 GCACTTAGCCTGCTAGGCTTATAACCTGATTCAGTTCACCA
* **
21867349 GCACTTACCCTGCTAGGCTTATAACCTGATTCAGTTCACTG
1 GCACTTAGCCTGCTAGGCTTATAACCTGATTCAGTTCACCA
21867390 GCACTTAGCCTGCTAGGC
1 GCACTTAGCCTGCTAGGC
21867408 ACTAAGCCTG
Statistics
Matches: 165, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 165 1.00
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (41 bp):
GCACTTAGCCTGCTAGGCTTATAACCTGATTCAGTTCACCA
Found at i:21867405 original size:123 final size:123
Alignment explanation
Indices: 21867186--21867407 Score: 401
Period size: 123 Copynumber: 1.8 Consensus size: 123
21867176 GATTCACTGG
*
21867186 CACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCAGCACTTAGCCTGCTAGGCTTATAAC
1 CACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCAGCACTTACCCTGCTAGGCTTATAAC
21867251 CTGATTCAGTTCACCTGCACTTAGCCTGCTAGGCTTATAGCCCGATTCAAATCACCAA
66 CTGATTCAGTTCACCTGCACTTAGCCTGCTAGGCTTATAGCCCGATTCAAATCACCAA
* *
21867309 CACTTAGCCTGCTAGGCTTATAACCTGATTCAGTTCACCGGCACTTACCCTGCTAGGCTTATAAC
1 CACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCAGCACTTACCCTGCTAGGCTTATAAC
21867374 CTGATTCAGTTCA-CTGGCACTTAGCCTGCTAGGC
66 CTGATTCAGTTCACCT-GCACTTAGCCTGCTAGGC
21867408 ACTAAGCCTG
Statistics
Matches: 95, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
122 2 0.02
123 93 0.98
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (123 bp):
CACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCAGCACTTACCCTGCTAGGCTTATAAC
CTGATTCAGTTCACCTGCACTTAGCCTGCTAGGCTTATAGCCCGATTCAAATCACCAA
Found at i:21871949 original size:41 final size:41
Alignment explanation
Indices: 21871902--21872246 Score: 514
Period size: 41 Copynumber: 8.4 Consensus size: 41
21871892 AGATTCACTG
21871902 GCACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCT
1 GCACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCT
*
21871943 GCACTTAGCCTGCTAGGCTTATAACCTGATTCAGTTCA-CT
1 GCACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCT
* * * *
21871983 GGCACTTAGCTTGCTAGACTTATAGCCTGATTCAAATCACC-
1 -GCACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCT
*
21872024 GACACTTAGCCTGCTAGGCTTATAACCTGATTCAGTTCACCT
1 G-CACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCT
* * * *
21872066 ACACTTAGCCTGCTAGGCTTATAGCCTGATTTAGATCACCG
1 GCACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCT
* *
21872107 GCACTTAGCCTGCTAGGCTTATAACCTGATTCAGTTCACCG
1 GCACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCT
* *
21872148 GCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCA
1 GCACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCT
* *
21872189 GCACTTAGCCTGCTAGGCTTATAACCTGATTCAGTTCACCA
1 GCACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCT
21872230 GCACTTAGCCTGCTAGG
1 GCACTTAGCCTGCTAGG
21872247 TGGTAAGCGT
Statistics
Matches: 275, Mismatches: 25, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
40 3 0.01
41 271 0.99
42 1 0.00
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (41 bp):
GCACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCT
Found at i:21871998 original size:82 final size:81
Alignment explanation
Indices: 21871895--21872246 Score: 571
Period size: 82 Copynumber: 4.3 Consensus size: 81
21871885 CTTAAACAGA
*
21871895 TTCACTGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCTGCACTTAGCCTGCTAGG
1 TTCACTGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACC-GCACTTAGCCTGCTAGG
21871960 CTTATAACCTGATTCAG
65 CTTATAACCTGATTCAG
* * *
21871977 TTCACTGGCACTTAGCTTGCTAGACTTATAGCCTGATTCAAATCACCGACACTTAGCCTGCTAGG
1 TTCACTGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCG-CACTTAGCCTGCTAGG
21872042 CTTATAACCTGATTCAG
65 CTTATAACCTGATTCAG
* *
21872059 TTCACCT-ACACTTAGCCTGCTAGGCTTATAGCCTGATTTAGATCACCGGCACTTAGCCTGCTAG
1 TTCA-CTGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACC-GCACTTAGCCTGCTAG
21872123 GCTTATAACCTGATTCAG
64 GCTTATAACCTGATTCAG
*
21872141 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCAGCACTTAGCCTGCTAGG
1 TTCACTGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACC-GCACTTAGCCTGCTAGG
21872206 CTTATAACCTGATTCAG
65 CTTATAACCTGATTCAG
**
21872223 TTCACCAGCACTTAGCCTGCTAGG
1 TTCACTGGCACTTAGCCTGCTAGG
21872247 TGGTAAGCGT
Statistics
Matches: 252, Mismatches: 14, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
81 2 0.01
82 247 0.98
83 3 0.01
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (81 bp):
TTCACTGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGCACTTAGCCTGCTAGGC
TTATAACCTGATTCAG
Found at i:21886864 original size:59 final size:61
Alignment explanation
Indices: 21886789--21886905 Score: 148
Period size: 62 Copynumber: 1.9 Consensus size: 61
21886779 ATCTCTTTAA
* * * *
21886789 TATTAAATTAATATAATATTTA-T-CAAGATAAATATTAGATTAAATTTAATATTAAATCT
1 TATTAAAATAAAATAATATTTACTACAAGATAAACATTAAATTAAATTTAATATTAAATCT
* * *
21886848 TATTAAAATAAAATAATGTTTATCTACAATATAAACATTAAATTTAATTTAATATTAA
1 TATTAAAATAAAATAATATTTA-CTACAAGATAAACATTAAATTAAATTTAATATTAA
21886906 GATAATCACT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 19 0.40
61 1 0.02
62 28 0.58
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (61 bp):
TATTAAAATAAAATAATATTTACTACAAGATAAACATTAAATTAAATTTAATATTAAATCT
Found at i:21886944 original size:25 final size:25
Alignment explanation
Indices: 21886890--21886944 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
21886880 AAACATTAAA
*
21886890 TTTAATTTAATATTAAGATAATCAC
1 TTTAATTTAATATTAAGAAAATCAC
*
21886915 TTTAATATTAA-ATTAATAAAAT-AC
1 TTTAAT-TTAATATTAAGAAAATCAC
21886939 TATTAA
1 T-TTAA
21886945 GATGAGTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 3 0.12
25 19 0.73
26 4 0.15
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (25 bp):
TTTAATTTAATATTAAGAAAATCAC
Found at i:21888392 original size:16 final size:16
Alignment explanation
Indices: 21888371--21888401 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21888361 CTATGCATGC
*
21888371 AAAATATAAAAGACAG
1 AAAATAGAAAAGACAG
21888387 AAAATAGAAAAGACA
1 AAAATAGAAAAGACA
21888402 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.06, G:0.13, T:0.10
Consensus pattern (16 bp):
AAAATAGAAAAGACAG
Found at i:21896060 original size:66 final size:66
Alignment explanation
Indices: 21895952--21896089 Score: 222
Period size: 66 Copynumber: 2.1 Consensus size: 66
21895942 AAAGAGCTCG
* * * *
21895952 AGGGGGGACCAAGCTAGACCGTGTTAGATCCGAAAACGTCGTTAGTAAGTTTTCATGCATATAGG
1 AGGGGGGACCAAGCTAGACCGTGTTAGATCCAAAAACATCGTTAGTAAGTTGTCATGCATATAAG
21896017 A
66 A
* *
21896018 AGGGGGTACCAAGCTAGACCGTGTTAGATCCAAAAATATCGTTAGTAAGTTGTCATGCATATAAG
1 AGGGGGGACCAAGCTAGACCGTGTTAGATCCAAAAACATCGTTAGTAAGTTGTCATGCATATAAG
21896083 A
66 A
21896084 AGGGGG
1 AGGGGG
21896090 AACCTTTAGA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.24
Consensus pattern (66 bp):
AGGGGGGACCAAGCTAGACCGTGTTAGATCCAAAAACATCGTTAGTAAGTTGTCATGCATATAAG
A
Found at i:21902772 original size:118 final size:118
Alignment explanation
Indices: 21902564--21902807 Score: 461
Period size: 118 Copynumber: 2.1 Consensus size: 118
21902554 TCAAGCCAAA
* *
21902564 CATTGTTTCAGTCGAGCCATTTCTTCCTTATCGTCTCCTGTCATCACTACGTCATCAGTATATAC
1 CATTGTTTCAGTCGAGCCATTTCTTCCTTATCGTCTCCTATCATCACTACGTCATCAATATATAC
21902629 AATAAGAAGAGTGATTTTACCCTTGTGATGTTTCATGAAAATGGTATGATCAG
66 AATAAGAAGAGTGATTTTACCCTTGTGATGTTTCATGAAAATGGTATGATCAG
*
21902682 CATTGTTTCAGTCGAGCCATTTCTTCCTTATCGTCTCTTATCATCACTACGTCATCAATATATAC
1 CATTGTTTCAGTCGAGCCATTTCTTCCTTATCGTCTCCTATCATCACTACGTCATCAATATATAC
21902747 AATAAGAAGAGTGATTTTACCCTTGTGATGTTTCATGAAAATGGTATGATCAG
66 AATAAGAAGAGTGATTTTACCCTTGTGATGTTTCATGAAAATGGTATGATCAG
21902800 CATTGTTT
1 CATTGTTT
21902808 TGTTGATAAT
Statistics
Matches: 123, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
118 123 1.00
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.38
Consensus pattern (118 bp):
CATTGTTTCAGTCGAGCCATTTCTTCCTTATCGTCTCCTATCATCACTACGTCATCAATATATAC
AATAAGAAGAGTGATTTTACCCTTGTGATGTTTCATGAAAATGGTATGATCAG
Found at i:21903626 original size:18 final size:18
Alignment explanation
Indices: 21903605--21903647 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
21903595 CAATCTCCTT
*
21903605 TTGAACAGT-AGTCTCCCC
1 TTGAACAGTAACT-TCCCC
*
21903623 TTGAGCAGTAACTTCCCC
1 TTGAACAGTAACTTCCCC
21903641 TTGAACA
1 TTGAACA
21903648 ATGGTGCTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 19 0.90
19 2 0.10
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (18 bp):
TTGAACAGTAACTTCCCC
Found at i:21911559 original size:29 final size:29
Alignment explanation
Indices: 21911527--21911582 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 29
21911517 AATTTCTTTT
21911527 TAAAAAAT-ATTTAGAAA-TTATAAAAAACA
1 TAAAAAATCA-TTA-AAAGTTATAAAAAACA
21911556 TAAAAAATCATTAAAAGTTATAAAAAA
1 TAAAAAATCATTAAAAGTTATAAAAAA
21911583 AATTATTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
28 3 0.12
29 21 0.84
30 1 0.04
ACGTcount: A:0.66, C:0.04, G:0.04, T:0.27
Consensus pattern (29 bp):
TAAAAAATCATTAAAAGTTATAAAAAACA
Found at i:21912344 original size:31 final size:31
Alignment explanation
Indices: 21912301--21912364 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
21912291 GAAAATTTAA
21912301 ATTCCTTCATATTTGTTTCATATTCATAGAG
1 ATTCCTTCATATTTGTTTCATATTCATAGAG
*
21912332 ATTCTTTCATATTTGTTTCATATTCATAGAG
1 ATTCCTTCATATTTGTTTCATATTCATAGAG
21912363 AT
1 AT
21912365 AGGGGACATA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.27, C:0.14, G:0.09, T:0.50
Consensus pattern (31 bp):
ATTCCTTCATATTTGTTTCATATTCATAGAG
Found at i:21913125 original size:15 final size:14
Alignment explanation
Indices: 21913096--21913143 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
21913086 AAATTAAGCC
21913096 TAAAAATTTATATT
1 TAAAAATTTATATT
*
21913110 TAAAAATTTCTAATT
1 TAAAAATTTAT-ATT
* *
21913125 TTAAAATATATATT
1 TAAAAATTTATATT
21913139 ATAAA
1 -TAAA
21913144 TAAATAATGC
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
14 13 0.48
15 14 0.52
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (14 bp):
TAAAAATTTATATT
Found at i:21921283 original size:58 final size:58
Alignment explanation
Indices: 21921211--21921321 Score: 188
Period size: 58 Copynumber: 1.9 Consensus size: 58
21921201 TGAAGCAAAT
*
21921211 ATATATATACTTATAAAACAAAGAACAAGCA-TAAAACCCGTAAGTAGTCCAAAAGCAA
1 ATATATATACTTATAAAACAAAGAACAAG-AGAAAAACCCGTAAGTAGTCCAAAAGCAA
*
21921269 ATATATATACTTATAAAACAAAGAACAAGAGAAAAATCCGTAAGTAGTCCAAA
1 ATATATATACTTATAAAACAAAGAACAAGAGAAAAACCCGTAAGTAGTCCAAA
21921322 TACATCATGG
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
57 1 0.02
58 49 0.98
ACGTcount: A:0.54, C:0.15, G:0.11, T:0.20
Consensus pattern (58 bp):
ATATATATACTTATAAAACAAAGAACAAGAGAAAAACCCGTAAGTAGTCCAAAAGCAA
Found at i:21923717 original size:3 final size:3
Alignment explanation
Indices: 21923709--21923753 Score: 56
Period size: 3 Copynumber: 15.3 Consensus size: 3
21923699 TTTTGATAGT
* * *
21923709 TTA TTA TTA TTA -TG TTG TTG TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
21923754 GTTATTACTG
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
2 1 0.03
3 38 0.97
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:21928623 original size:50 final size:50
Alignment explanation
Indices: 21928472--21928762 Score: 291
Period size: 50 Copynumber: 5.7 Consensus size: 50
21928462 GATAATAACA
* ** * *
21928472 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCATGTAC--
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGG
* * * * ** * *
21928521 TGCCAATGCCATATCCTAGATATGGTCTTACATGGGAGTTCTCATATTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * *
21928571 TGCCCATGCTATGTCCCAGACATGGTCTTACGA-CGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTAC-ATGGGACCTCTCATCTCGG
* *
21928621 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTATCGTCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
21928671 TGCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATGATCTCAAGAA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC--G-G
*
21928727 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGG
21928763 TTCTCTTTAC
Statistics
Matches: 201, Mismatches: 31, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
49 40 0.20
50 121 0.60
51 1 0.00
53 4 0.02
55 1 0.00
56 34 0.17
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:21936571 original size:77 final size:79
Alignment explanation
Indices: 21936453--21936628 Score: 241
Period size: 77 Copynumber: 2.3 Consensus size: 79
21936443 AGACATTATA
* *
21936453 ATGCATTCAGGGGCTACCGAAGTACAAACAGGGGCACGTCTGTGCATTCAAGGGTATCGAAGTAC
1 ATGCATTCAGGGG-TACCAAAGTACAAACAGGGGCACGTCTGTGCATTCAAGGGTACCGAAGTAC
* *
21936518 AACA-GGTCACGTCT
65 AACAGGGGCACGTAT
* *
21936532 ATGCATTCAGGGGTACCAAAGTAC-AACAGGGGCATGTCTGTGTATTCAAGGGTACCGAAGTACA
1 ATGCATTCAGGGGTACCAAAGTACAAACAGGGGCACGTCTGTGCATTCAAGGGTACCGAAGTACA
*
21936596 ATAGGGGCACGTAT
66 ACAGGGGCACGTAT
* *
21936610 TTGCATTCA-AGGTACCAAA
1 ATGCATTCAGGGGTACCAAA
21936629 ATAAATTCAC
Statistics
Matches: 87, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
77 48 0.55
78 26 0.30
79 13 0.15
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (79 bp):
ATGCATTCAGGGGTACCAAAGTACAAACAGGGGCACGTCTGTGCATTCAAGGGTACCGAAGTACA
ACAGGGGCACGTAT
Found at i:21936587 original size:39 final size:39
Alignment explanation
Indices: 21936454--21936625 Score: 213
Period size: 39 Copynumber: 4.4 Consensus size: 39
21936444 GACATTATAA
*
21936454 TGCATTCAGGGGCTACCGAAGTACAAACAGGGGCACGTCTG
1 TGCATTCAAGGG-TACCGAAGTAC-AACAGGGGCACGTCTG
* * *
21936495 TGCATTCAAGGGTATCGAAGTACAACA-GGTCACGTCTA
1 TGCATTCAAGGGTACCGAAGTACAACAGGGGCACGTCTG
* * *
21936533 TGCATTCAGGGGTACCAAAGTACAACAGGGGCATGTCTG
1 TGCATTCAAGGGTACCGAAGTACAACAGGGGCACGTCTG
* * * *
21936572 TGTATTCAAGGGTACCGAAGTACAATAGGGGCACGTATT
1 TGCATTCAAGGGTACCGAAGTACAACAGGGGCACGTCTG
21936611 TGCATTCAA-GGTACC
1 TGCATTCAAGGGTACC
21936626 AAAATAAATT
Statistics
Matches: 112, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
38 39 0.35
39 52 0.46
40 10 0.09
41 11 0.10
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (39 bp):
TGCATTCAAGGGTACCGAAGTACAACAGGGGCACGTCTG
Found at i:21960229 original size:56 final size:56
Alignment explanation
Indices: 21960143--21960262 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
21960133 ACAAGGGATG
*
21960143 ATGGGCAAAACATGTCATTAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
21960199 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
21960255 ATGGGCAA
1 ATGGGCAA
21960263 TAAACTAATA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:21960351 original size:14 final size:16
Alignment explanation
Indices: 21960332--21960363 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
21960322 ATGCATGACC
21960332 AAAAAAAA-AA-AGAA
1 AAAAAAAAGAAGAGAA
21960346 AAAAAAAAGAAGAGAA
1 AAAAAAAAGAAGAGAA
21960362 AA
1 AA
21960364 GCTCTCATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 2 0.12
16 6 0.38
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (16 bp):
AAAAAAAAGAAGAGAA
Found at i:21961797 original size:49 final size:47
Alignment explanation
Indices: 21961721--21962361 Score: 925
Period size: 47 Copynumber: 13.5 Consensus size: 47
21961711 TATTTGAATA
21961721 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
21961768 AAAGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
21961817 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
21961866 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
21961915 AA--T-AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
21961959 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
21962006 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATG
* *
21962055 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGACCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
21962102 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATG
* * *
21962151 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* * *
21962198 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* * *
21962245 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
21962292 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* * *
21962339 GATGTGGAAGTGTATAAATGTGA
1 AATGTGAAAGTGTATATATGTGA
21962362 AAGTGTATAT
Statistics
Matches: 565, Mismatches: 18, Indels: 22
0.93 0.03 0.04
Matches are distributed among these distances:
44 37 0.07
46 8 0.01
47 295 0.52
49 224 0.40
50 1 0.00
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
Found at i:21961829 original size:96 final size:94
Alignment explanation
Indices: 21961721--21962361 Score: 925
Period size: 96 Copynumber: 6.7 Consensus size: 94
21961711 TATTTGAATA
*
21961721 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAAAGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG--TATA
*
21961786 TATGTGATAAGGCCTAATGGCCAATGTGATG
64 TATGTGATAAGGCCGAATGGCCAATGTGATG
*
21961817 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG--TA
* *
21961882 TATATGTGATAAGGCCTAATGGCCGATGTGATG
62 TATATGTGATAAGGCCGAATGGCCAATGTGATG
*
21961915 AA--T-AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA
* *
21961977 TGTGATAAGGCCTAATGGCCGATGTGATG
66 TGTGATAAGGCCGAATGGCCAATGTGATG
*
21962006 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATA
*
21962071 TATGTGATAAGGCCGAATGACCAATGTGATG
64 TATGTGATAAGGCCGAATGGCCAATGTGATG
* *
21962102 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTGT
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA-AGTGTAT
*
21962166 ATGTGTGATAAGGCCGAATGGCCAATGTGATG
63 ATATGTGATAAGGCCGAATGGCCAATGTGATG
* * * *
21962198 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGCATA
1 AATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA-AGTGTATA
*
21962261 TATGAGATAAGGCCGAATGGCCAATGTGATG
64 TATGTGATAAGGCCGAATGGCCAATGTGATG
* * * *
21962292 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGGAAGTGTATAAA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA
21962357 TGTGA
66 TGTGA
21962362 AAGTGTATAT
Statistics
Matches: 510, Mismatches: 24, Indels: 24
0.91 0.04 0.04
Matches are distributed among these distances:
91 37 0.07
93 50 0.10
94 141 0.28
95 6 0.01
96 191 0.37
97 2 0.00
98 83 0.16
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.29
Consensus pattern (94 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:21962243 original size:22 final size:22
Alignment explanation
Indices: 21962216--21962337 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
21962206 CATGTGTATG
21962216 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
21962238 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
21962263 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
21962285 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
21962310 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
21962332 TGTGAT
1 TGTGAT
21962338 GGATGTGGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 17 0.24
25 15 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:21962344 original size:31 final size:31
Alignment explanation
Indices: 21962309--21962407 Score: 78
Period size: 31 Copynumber: 3.2 Consensus size: 31
21962299 AAGTGTATAT
21962309 ATGTGATAAGGCCGAATGGCCAATGTGATGG
1 ATGTGATAAGGCCGAATGGCCAATGTGATGG
* *** * **
21962340 ATGTG-GAAGTGTATAAATGTG--AAAGTGTATAT
1 ATGTGATAAG-G-CCGAATG-GCCAATGTG-ATGG
21962372 ATGTGATAAGGCCGAATGGCCAATGTGATGG
1 ATGTGATAAGGCCGAATGGCCAATGTGATGG
21962403 ATGTG
1 ATGTG
21962408 GAAGTGTATA
Statistics
Matches: 47, Mismatches: 14, Indels: 14
0.63 0.19 0.19
Matches are distributed among these distances:
30 4 0.09
31 22 0.47
32 17 0.36
33 4 0.09
ACGTcount: A:0.31, C:0.08, G:0.33, T:0.27
Consensus pattern (31 bp):
ATGTGATAAGGCCGAATGGCCAATGTGATGG
Found at i:21962365 original size:16 final size:16
Alignment explanation
Indices: 21962340--21962377 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
21962330 AATGTGATGG
*
21962340 ATGTGGAAGTGTATAA
1 ATGTGAAAGTGTATAA
*
21962356 ATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATAA
21962372 ATGTGA
1 ATGTGA
21962378 TAAGGCCGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.29, T:0.34
Consensus pattern (16 bp):
ATGTGAAAGTGTATAA
Found at i:21962369 original size:63 final size:63
Alignment explanation
Indices: 21962292--21962429 Score: 267
Period size: 63 Copynumber: 2.2 Consensus size: 63
21962282 CAATGTGATG
21962292 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGGAAGTGTATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGGAAGTGTATA
21962355 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGGAAGTGTATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGGAAGTGTATA
21962418 AATGTGATAAGT
1 AATGTGA-AAGT
21962430 CCCGAAGGGC
Statistics
Matches: 74, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
63 70 0.95
64 4 0.05
ACGTcount: A:0.34, C:0.06, G:0.31, T:0.29
Consensus pattern (63 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGGAAGTGTATA
Found at i:21967423 original size:50 final size:51
Alignment explanation
Indices: 21967299--21967426 Score: 143
Period size: 50 Copynumber: 2.5 Consensus size: 51
21967289 ATATAAACGT
* * **
21967299 CACTGATTTGTAGATAAACAACCACTGATAACACTGATGTGGACAAGCCAC
1 CACTAATTTGTAGATATACTGCCACTGATAACACTGATGTGGACAAGCCAC
* ** * * *
21967350 CACTAATATACAGATTTATTGCCACTGATTAA-A-TTATGTGGACAAGCCAC
1 CACTAATTTGTAGATATACTGCCACTGA-TAACACTGATGTGGACAAGCCAC
21967400 CACTAATTTGTAGATATACTGCCACTG
1 CACTAATTTGTAGATATACTGCCACTG
21967427 CTTCCACCTT
Statistics
Matches: 61, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
50 38 0.62
51 20 0.33
52 3 0.05
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (51 bp):
CACTAATTTGTAGATATACTGCCACTGATAACACTGATGTGGACAAGCCAC
Found at i:21973874 original size:40 final size:39
Alignment explanation
Indices: 21973830--21974252 Score: 560
Period size: 40 Copynumber: 10.6 Consensus size: 39
21973820 TTATACCTAA
* * *
21973830 ATTGCACATATGTGCCCCTGTTTGTACTTTGGTAACCCTG
1 ATTGCACATACGTGCCCCTGTTTGTACCTCGGT-ACCCTG
* * * **
21973870 ATTGCACATACGTACCCCTATTTGTACTTCAATACCCCTG
1 ATTGCACATACGTGCCCCTGTTTGTACCTCGGTA-CCCTG
* * *
21973910 ATTGCACAAACATGCCCCTATTTGTA-CTACGGTACCCTTG
1 ATTGCACATACGTGCCCCTGTTTGTACCT-CGGTACCC-TG
*
21973950 ATTGCACATACGTGCCCCTGTTTGTACCTCGGTACCATTG
1 ATTGCACATACGTGCCCCTGTTTGTACCTCGGTACC-CTG
*
21973990 ATTGCACATATGTGCCCCTGTTTGTACCTCGGTACCCTTG
1 ATTGCACATACGTGCCCCTGTTTGTACCTCGGTACCC-TG
* * * **
21974030 ATTGCACATATGTGGCCCTATTTGTACCTCGACACCCCTG
1 ATTGCACATACGTGCCCCTGTTTGTACCTCGGTA-CCCTG
21974070 ATTGCACATACGTGCCCCTGTTTGTACCTCGGTACCCTTG
1 ATTGCACATACGTGCCCCTGTTTGTACCTCGGTACCC-TG
21974110 ATTGCACATACGTGCCCCTGTTTGTACCTCGGTACCCTTG
1 ATTGCACATACGTGCCCCTGTTTGTACCTCGGTACCC-TG
* *
21974150 ATTGCACATACCTACCCCTGTTTGTACCTCGGTACCCCTG
1 ATTGCACATACGTGCCCCTGTTTGTACCTCGGTA-CCCTG
21974190 ATTGCACATACGTGCCCCTGTTTGTACCTCGGTACCCCTG
1 ATTGCACATACGTGCCCCTGTTTGTACCTCGGTA-CCCTG
21974230 ATTGCACATACGTGCCCCTGTTT
1 ATTGCACATACGTGCCCCTGTTT
21974253 ACACTTCAGT
Statistics
Matches: 343, Mismatches: 31, Indels: 18
0.88 0.08 0.05
Matches are distributed among these distances:
39 8 0.02
40 327 0.95
41 8 0.02
ACGTcount: A:0.18, C:0.32, G:0.18, T:0.32
Consensus pattern (39 bp):
ATTGCACATACGTGCCCCTGTTTGTACCTCGGTACCCTG
Found at i:21982278 original size:25 final size:25
Alignment explanation
Indices: 21982214--21982279 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 25
21982204 GTACATGTAT
* *
21982214 GCTCATACAAGCTGTGAATCGGTAT
1 GCTCATACAAGCTGTAAATCGGTAA
21982239 GCTC-TCACGAA-CTGTAAATCGGTAA
1 GCTCAT-AC-AAGCTGTAAATCGGTAA
*
21982264 GCTCATACTAGCTGTA
1 GCTCATACAAGCTGTA
21982280 GGGTTGTACA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
24 2 0.06
25 29 0.85
26 3 0.09
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (25 bp):
GCTCATACAAGCTGTAAATCGGTAA
Found at i:21990390 original size:50 final size:50
Alignment explanation
Indices: 21990307--21990488 Score: 181
Period size: 50 Copynumber: 3.7 Consensus size: 50
21990297 GACAAGTCCT
* * **
21990307 ACGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCC
1 ACGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAACTCCC
* * * *
21990357 CCGTAAGACCATGCCTGGGACATGGCATGGGCACCAATATGAGAACTCCC
1 ACGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAACTCCC
* * * **
21990407 ATGTAAGACCATATCTGGGATATGGCATTGGCAGTACAGA--A-AACATCCC
1 ACGTAAGACCATGTCTGGGACATGGCATTGGCACCA-AGATGAGAAC-TCCC
* * *
21990456 ATGTAAAACCATGTCTGGGACATGGCTTTGGCA
1 ACGTAAGACCATGTCTGGGACATGGCATTGGCA
21990489 TGTTATTATT
Statistics
Matches: 109, Mismatches: 21, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
48 3 0.03
49 34 0.31
50 70 0.64
51 2 0.02
ACGTcount: A:0.29, C:0.24, G:0.27, T:0.20
Consensus pattern (50 bp):
ACGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAACTCCC
Found at i:22003966 original size:26 final size:27
Alignment explanation
Indices: 22003902--22003975 Score: 80
Period size: 26 Copynumber: 2.8 Consensus size: 27
22003892 ATTTCTGTAT
**
22003902 AAGAAAGCCTTTGTATCTATCTCTGAA
1 AAGAAAGCCTTTGTGGCTATCTCTGAA
* *
22003929 TAG-ACGCCTTTGTGGCTATCTCT-AA
1 AAGAAAGCCTTTGTGGCTATCTCTGAA
* *
22003954 AAGAAAGCATTTGTGGCGATCT
1 AAGAAAGCCTTTGTGGCTATCT
22003976 TTGTTATAAG
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
25 4 0.11
26 32 0.84
27 2 0.05
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.32
Consensus pattern (27 bp):
AAGAAAGCCTTTGTGGCTATCTCTGAA
Found at i:22004061 original size:29 final size:28
Alignment explanation
Indices: 22003934--22004213 Score: 165
Period size: 29 Copynumber: 9.8 Consensus size: 28
22003924 CTGAATAGAC
* *
22003934 GCCTTTGTGGCTATC-T-CTAAAAGAAA
1 GCCTTTGTGGCTATCTTGTTAAAAGAAT
* * *
22003960 GCATTTGTGGCGATCTTTGTTATAAGGAA-
1 GCCTTTGTGGCTATC-TTGTTA-AAAGAAT
*
22003989 GCC-ATGTGGCTATCCTTGTTAAAAGAAT
1 GCCTTTGTGGCTAT-CTTGTTAAAAGAAT
* * * **
22004017 GTCTATATTTCTATCTTAGTTAAAAGAAT
1 GCCTTTGTGGCTATCTT-GTTAAAAGAAT
* *
22004046 GCCTTTGTGGCAATCTTTGTTATAAGGAA-
1 GCCTTTGTGGCTATC-TTGTTA-AAAGAAT
* * * * *
22004075 GCCTTTGTAGCGATCTACGTTATAAGAAA
1 GCCTTTGTGGCTATCT-TGTTAAAAGAAT
* * * * * *
22004104 GCATTTTTCGCGATCTCTGTTATAAGGAT
1 GCCTTTGTGGCTATCT-TGTTAAAAGAAT
*
22004133 GCCTTTGTGGCTATCTCTGTTAAATGAAT
1 GCCTTTGTGGCTATCT-TGTTAAAAGAAT
* * *
22004162 ACCTTTGTGGATATCTCTGTTAAATGAAT
1 GCCTTTGTGGCTATCT-TGTTAAAAGAAT
*
22004191 GCCTTTATGGCTATCTCTGTTAA
1 GCCTTTGTGGCTATCT-TGTTAA
22004214 GAGGACGCTT
Statistics
Matches: 199, Mismatches: 43, Indels: 21
0.76 0.16 0.08
Matches are distributed among these distances:
26 13 0.07
27 5 0.03
28 25 0.13
29 144 0.72
30 12 0.06
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (28 bp):
GCCTTTGTGGCTATCTTGTTAAAAGAAT
Found at i:22004230 original size:29 final size:28
Alignment explanation
Indices: 22004046--22004239 Score: 120
Period size: 29 Copynumber: 6.7 Consensus size: 28
22004036 TTAAAAGAAT
* * *
22004046 GCCTTTGTGGCAATCTTTGTTATAAGGAA
1 GCCTTTGTGGCTATCTCTGTTA-AAGGAC
* * * *
22004075 GCCTTTGTAGCGATCTAC-GTTATAAGAAA
1 GCCTTTGTGGCTATCT-CTGTTA-AAGGAC
* * * * *
22004104 GCATTTTTCGCGATCTCTGTTATAAGGAT
1 GCCTTTGTGGCTATCTCTGTTA-AAGGAC
* *
22004133 GCCTTTGTGGCTATCTCTGTTAAATGAAT
1 GCCTTTGTGGCTATCTCTGTTAAA-GGAC
* * * *
22004162 ACCTTTGTGGATATCTCTGTTAAATGAAT
1 GCCTTTGTGGCTATCTCTGTTAAA-GGAC
*
22004191 GCCTTTATGGCTATCTCTGTTAAGAGGAC
1 GCCTTTGTGGCTATCTCTGTTAA-AGGAC
* *
22004220 GCTTTTGTGGCGAGTCTCTG
1 GCCTTTGTGGCTA-TCTCTG
22004240 AAAGTAAAGC
Statistics
Matches: 136, Mismatches: 24, Indels: 9
0.80 0.14 0.05
Matches are distributed among these distances:
28 3 0.02
29 126 0.93
30 7 0.05
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.38
Consensus pattern (28 bp):
GCCTTTGTGGCTATCTCTGTTAAAGGAC
Found at i:22005986 original size:12 final size:12
Alignment explanation
Indices: 22005969--22005998 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
22005959 CCTCACTCGC
22005969 CCGTGTGCCAGG
1 CCGTGTGCCAGG
*
22005981 CCGTGTGCTAGG
1 CCGTGTGCCAGG
22005993 CCGTGT
1 CCGTGT
22005999 AATAGCCTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.30, G:0.40, T:0.23
Consensus pattern (12 bp):
CCGTGTGCCAGG
Found at i:22007048 original size:19 final size:20
Alignment explanation
Indices: 22006995--22007051 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 20
22006985 TAGGGGTATT
*
22006995 GAAGTACAACAGGAGCACAC
1 GAAGTACAACAGGGGCACAC
* *
22007015 -AAGTGCAACCAGGGGTAC-C
1 GAAGTACAA-CAGGGGCACAC
22007034 GAAGTACAACAGGGGCAC
1 GAAGTACAACAGGGGCAC
22007052 GTAAGTGCGA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.39, C:0.25, G:0.30, T:0.07
Consensus pattern (20 bp):
GAAGTACAACAGGGGCACAC
Found at i:22007057 original size:19 final size:19
Alignment explanation
Indices: 22006957--22007057 Score: 62
Period size: 19 Copynumber: 5.2 Consensus size: 19
22006947 AAGAGTACTG
*
22006957 AAGTACACCAGGGGCACGT
1 AAGTACAACAGGGGCACGT
* * * *
22006976 AAGTGCAATTAGGGGTA-TT
1 AAGTACAA-CAGGGGCACGT
* **
22006995 GAAGTACAACAGGAGCACAC
1 -AAGTACAACAGGGGCACGT
* *
22007015 AAGTGCAACCAGGGGTACCG-
1 AAGTACAA-CAGGGGCA-CGT
22007035 AAGTACAACAGGGGCACGT
1 AAGTACAACAGGGGCACGT
22007054 AAGT
1 AAGT
22007058 GCGATCAGGG
Statistics
Matches: 59, Mismatches: 17, Indels: 12
0.67 0.19 0.14
Matches are distributed among these distances:
18 2 0.03
19 30 0.51
20 26 0.44
21 1 0.02
ACGTcount: A:0.36, C:0.20, G:0.31, T:0.14
Consensus pattern (19 bp):
AAGTACAACAGGGGCACGT
Found at i:22007067 original size:39 final size:39
Alignment explanation
Indices: 22006951--22007067 Score: 153
Period size: 39 Copynumber: 3.0 Consensus size: 39
22006941 GATATCAAGA
* *
22006951 GTACTGAAGTACACCAGGGGCACGTAAGTGCAATTAGGG
1 GTACTGAAGTACAACAGGGGCACGTAAGTGCAATCAGGG
* * ** *
22006990 GTATTGAAGTACAACAGGAGCACACAAGTGCAACCAGGG
1 GTACTGAAGTACAACAGGGGCACGTAAGTGCAATCAGGG
* *
22007029 GTACCGAAGTACAACAGGGGCACGTAAGTGCGATCAGGG
1 GTACTGAAGTACAACAGGGGCACGTAAGTGCAATCAGGG
22007068 ATATAATTAT
Statistics
Matches: 64, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 64 1.00
ACGTcount: A:0.33, C:0.20, G:0.32, T:0.15
Consensus pattern (39 bp):
GTACTGAAGTACAACAGGGGCACGTAAGTGCAATCAGGG
Found at i:22014566 original size:10 final size:11
Alignment explanation
Indices: 22014548--22014580 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
22014538 TCTCCTTCCT
22014548 TTCTTTCTTTC
1 TTCTTTCTTTC
22014559 TT-TTTCTTTC
1 TTCTTTCTTTC
*
22014569 TTCTTTTTTTC
1 TTCTTTCTTTC
22014580 T
1 T
22014581 ATTAATTTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (11 bp):
TTCTTTCTTTC
Found at i:22014577 original size:14 final size:14
Alignment explanation
Indices: 22014547--22014576 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
22014537 TTCTCCTTCC
22014547 TTTCTTTCTTTCTT
1 TTTCTTTCTTTCTT
22014561 TTTCTTTC-TTCTT
1 TTTCTTTCTTTCTT
22014574 TTT
1 TTT
22014577 TTCTATTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTCTTTCTTTCTT
Found at i:22015588 original size:26 final size:26
Alignment explanation
Indices: 22015554--22015606 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 26
22015544 TGGAAAGTAG
22015554 TTTTAAAATT-TTATCTCTTAGAAATA
1 TTTTAAAATTATTATCTCTTA-AAATA
*
22015580 TTTTGAAATTAATTATCTCTTAAAATA
1 TTTTAAAATT-ATTATCTCTTAAAATA
22015607 AACATTATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 9 0.38
27 5 0.21
28 10 0.42
ACGTcount: A:0.40, C:0.08, G:0.04, T:0.49
Consensus pattern (26 bp):
TTTTAAAATTATTATCTCTTAAAATA
Found at i:22015958 original size:3 final size:3
Alignment explanation
Indices: 22015950--22016009 Score: 90
Period size: 3 Copynumber: 21.0 Consensus size: 3
22015940 TAGTTTACCC
*
22015950 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-C TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
22015997 -AA T-A TAA TAA TAA
1 TAA TAA TAA TAA TAA
22016010 ATTCTAATAC
Statistics
Matches: 52, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
2 5 0.10
3 47 0.90
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:22016018 original size:18 final size:19
Alignment explanation
Indices: 22015956--22016018 Score: 65
Period size: 18 Copynumber: 3.3 Consensus size: 19
22015946 ACCCTAATAA
**
22015956 TAATAATAATAAT-AATAA
1 TAATAATAATAATAAATTC
*
22015974 TAATAATAATAATAATAATC
1 TAATAATAATAATAA-ATTC
*
22015994 TAAAATATAATAATAAATTC
1 TAATA-ATAATAATAAATTC
22016014 TAATA
1 TAATA
22016019 CAAAATATTA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
18 13 0.36
19 1 0.03
20 12 0.33
21 10 0.28
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (19 bp):
TAATAATAATAATAAATTC
Found at i:22019865 original size:15 final size:17
Alignment explanation
Indices: 22019827--22019859 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
22019817 TGTTTACTCG
22019827 TATTAATATATACTTTC
1 TATTAATATATACTTTC
*
22019844 TAGTAATATATACTTT
1 TATTAATATATACTTT
22019860 TTTAATGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.09, G:0.03, T:0.52
Consensus pattern (17 bp):
TATTAATATATACTTTC
Found at i:22032513 original size:23 final size:23
Alignment explanation
Indices: 22032487--22032566 Score: 65
Period size: 23 Copynumber: 3.5 Consensus size: 23
22032477 AGGCATCATT
22032487 GAATACGCCACACAGGCCTTACA
1 GAATACGCCACACAGGCCTTACA
** * * *
22032510 GAATATTCCACTA-AGACTTTGCA
1 GAATACGCCAC-ACAGGCCTTACA
* *
22032533 G-ATCATGCCACACAGGCCTTATA
1 GAAT-ACGCCACACAGGCCTTACA
22032556 GAATACGCCAC
1 GAATACGCCAC
22032567 CAAGACTTTG
Statistics
Matches: 42, Mismatches: 11, Indels: 8
0.69 0.18 0.13
Matches are distributed among these distances:
22 3 0.07
23 36 0.86
24 3 0.07
ACGTcount: A:0.34, C:0.30, G:0.16, T:0.20
Consensus pattern (23 bp):
GAATACGCCACACAGGCCTTACA
Found at i:22032545 original size:46 final size:46
Alignment explanation
Indices: 22032491--22032601 Score: 159
Period size: 46 Copynumber: 2.4 Consensus size: 46
22032481 ATCATTGAAT
** *
22032491 ACGCCACACAGGCCTTACAGAATATTCCACTAAGACTTTGCAGATC
1 ACGCCACACAGGCCTTACAGAATACGCCACCAAGACTTTGCAGATC
* *
22032537 ATGCCACACAGGCCTTATAGAATACGCCACCAAGACTTTGCAGATC
1 ACGCCACACAGGCCTTACAGAATACGCCACCAAGACTTTGCAGATC
* *
22032583 ACGCCACATAGGCATTACA
1 ACGCCACACAGGCCTTACA
22032602 AAGAGTTACG
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 56 1.00
ACGTcount: A:0.33, C:0.31, G:0.16, T:0.20
Consensus pattern (46 bp):
ACGCCACACAGGCCTTACAGAATACGCCACCAAGACTTTGCAGATC
Found at i:22032586 original size:23 final size:23
Alignment explanation
Indices: 22032517--22032589 Score: 62
Period size: 23 Copynumber: 3.2 Consensus size: 23
22032507 ACAGAATATT
* *
22032517 CCACTAAGACTTTGCAGATCATG
1 CCACCAAGACTTTGCAGATCACG
* *
22032540 CCACACAGGCCTTAT--AGAAT-ACG
1 CCAC-CAAGACTT-TGCAG-ATCACG
22032563 CCACCAAGACTTTGCAGATCACG
1 CCACCAAGACTTTGCAGATCACG
22032586 CCAC
1 CCAC
22032590 ATAGGCATTA
Statistics
Matches: 38, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
21 1 0.03
22 8 0.21
23 21 0.55
24 7 0.18
25 1 0.03
ACGTcount: A:0.32, C:0.33, G:0.16, T:0.19
Consensus pattern (23 bp):
CCACCAAGACTTTGCAGATCACG
Found at i:22037455 original size:9 final size:9
Alignment explanation
Indices: 22037378--22037462 Score: 59
Period size: 9 Copynumber: 9.4 Consensus size: 9
22037368 TTTTGGGTAC
*
22037378 AATTTTTTT
1 AATTTTTAT
*
22037387 AATTTTAAT
1 AATTTTTAT
*
22037396 -TTTTTTAT
1 AATTTTTAT
*
22037404 AATTTATAT
1 AATTTTTAT
*
22037413 ACTTTTTA-
1 AATTTTTAT
22037421 AAGTTTTTA-
1 AA-TTTTTAT
*
22037430 AGTTTTTAAAT
1 AATTTTT--AT
*
22037441 ATTTTTTAT
1 AATTTTTAT
22037450 AATTTTTAT
1 AATTTTTAT
22037459 AATT
1 AATT
22037463 AGGACTAAAA
Statistics
Matches: 59, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
8 12 0.20
9 40 0.68
10 1 0.02
11 6 0.10
ACGTcount: A:0.32, C:0.01, G:0.02, T:0.65
Consensus pattern (9 bp):
AATTTTTAT
Found at i:22039709 original size:1 final size:1
Alignment explanation
Indices: 22039703--22039731 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
22039693 TGCAACCAAT
22039703 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
22039732 CAGGCTTTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:22046107 original size:47 final size:47
Alignment explanation
Indices: 22046056--22046364 Score: 438
Period size: 47 Copynumber: 6.7 Consensus size: 47
22046046 TTAGGATTCT
* * *
22046056 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
*
22046103 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTACTGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
22046150 ATGTGATGAATGTGAAA--G------TGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
22046189 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
22046236 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
22046283 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
22046330 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
22046365 TCCCGAAGGG
Statistics
Matches: 238, Mismatches: 15, Indels: 18
0.88 0.06 0.07
Matches are distributed among these distances:
39 37 0.16
41 1 0.00
45 1 0.00
46 1 0.00
47 198 0.83
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:22046180 original size:86 final size:86
Alignment explanation
Indices: 22046085--22046354 Score: 389
Period size: 86 Copynumber: 3.1 Consensus size: 86
22046075 GCATATATGA
*
22046085 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTACTGGCCG
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
22046150 ATGTGATGAATGTGAAAGTGT
66 ATGTGATGAATGTGAAAGTGT
22046171 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
22046236 ATGTGATGAATGTGAAAGTGTATATATGT
66 ATGTGATGAATGTGAAA--G------TGT
* * * * *
22046265 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
22046330 ACGTGATGGATGTGAAAGTGT
66 ATGTGATGAATGTGAAAGTGT
22046351 -ATAA
1 GATAA
22046355 ATGTGATAAG
Statistics
Matches: 168, Mismatches: 8, Indels: 17
0.87 0.04 0.09
Matches are distributed among these distances:
85 4 0.02
86 84 0.50
88 1 0.01
92 1 0.01
94 78 0.46
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.27
Consensus pattern (86 bp):
GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
ATGTGATGAATGTGAAAGTGT
Found at i:22046222 original size:133 final size:133
Alignment explanation
Indices: 22046056--22046303 Score: 444
Period size: 133 Copynumber: 1.9 Consensus size: 133
22046046 TTAGGATTCT
*
22046056 ATGTGATGGATGTGAACATGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
22046121 TGTATATATGTGATAAGGCCTACTGGCCGATGTGATGAATGTGAAAGTGTGATAAGGCCTAATGG
66 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGATAAGGCCTAATGG
22046186 CCG
131 CCG
* *
22046189 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 ATGTGATGAATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
22046253 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
65 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
22046304 ATATATGTGA
Statistics
Matches: 110, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
132 1 0.01
133 109 0.99
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (133 bp):
ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGATAAGGCCTAATGG
CCG
Found at i:22046539 original size:37 final size:37
Alignment explanation
Indices: 22046483--22046561 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
22046473 CCGAGCTCTA
* * *
22046483 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
22046520 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
22046557 AAGAC
1 AAGAC
22046562 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:22048757 original size:40 final size:40
Alignment explanation
Indices: 22048413--22048874 Score: 499
Period size: 40 Copynumber: 11.6 Consensus size: 40
22048403 TCGAATGATG
* *
22048413 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATA
* * * *
22048453 TCCGGACTAAGAT-CCGAAG-GCATTTGTGCGAGTTACTA-A
1 TCCGGGCTAAG-TCCCGAAGAGCATTCGTGCTAGTGA-TATA
* * * *
22048492 TTCCGGGCTAAG-CCCGAAG-GCATTGGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA-TATA
* * * * *
22048532 TCCGGGTTAAGTCCCGAAG-GCATTTGTACGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA-TATA
* * *
22048572 ACCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
22048612 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
22048652 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
22048692 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
22048732 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
22048772 TCCGGGCTAAGTTCTGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* ** * *
22048812 TCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
22048852 TCCGGGCTAGGTCTCGAAGAGCA
1 TCCGGGCTAAGTCCCGAAGAGCA
22048875 ATCATGCTGG
Statistics
Matches: 374, Mismatches: 41, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
39 35 0.09
40 320 0.86
41 19 0.05
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:22051817 original size:47 final size:47
Alignment explanation
Indices: 22051766--22051941 Score: 228
Period size: 47 Copynumber: 3.7 Consensus size: 47
22051756 TTAGGATTCT
* * *
22051766 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
22051813 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
22051860 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * *
22051907 ACGTGATGGATGTGAAAGCGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
22051942 TCCCGAAGGG
Statistics
Matches: 114, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
46 1 0.01
47 113 0.99
ACGTcount: A:0.32, C:0.10, G:0.31, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:22052116 original size:37 final size:37
Alignment explanation
Indices: 22052060--22052138 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
22052050 CCGAGCTCTA
* * *
22052060 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
22052097 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
22052134 AAGAC
1 AAGAC
22052139 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:22054699 original size:10 final size:10
Alignment explanation
Indices: 22054684--22054716 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
22054674 ATATTCCCTT
22054684 AATTTAAGTA
1 AATTTAAGTA
22054694 AATTTAAGTA
1 AATTTAAGTA
22054704 AA-TTAAGTA
1 AATTTAAGTA
22054713 AATT
1 AATT
22054717 GATTTCTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 9 0.41
10 13 0.59
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (10 bp):
AATTTAAGTA
Found at i:22054711 original size:9 final size:9
Alignment explanation
Indices: 22054687--22054716 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
22054677 TTCCCTTAAT
22054687 TTAAGTAAA
1 TTAAGTAAA
22054696 TTTAAGTAAA
1 -TTAAGTAAA
22054706 TTAAGTAAA
1 TTAAGTAAA
22054715 TT
1 TT
22054717 GATTTCTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (9 bp):
TTAAGTAAA
Found at i:22054930 original size:28 final size:27
Alignment explanation
Indices: 22054885--22054944 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
22054875 TTCTAAAAAG
22054885 TAAATATAAAAATATTTTAAAACTTTTT
1 TAAATATAAAAATATTTTAAAA-TTTTT
* *
22054913 TAAATAT-AATATATTTTTATAATTTTT
1 TAAATATAAAAATA-TTTTAAAATTTTT
*
22054940 AAAAT
1 TAAAT
22054945 TAGAGCTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 14 0.50
28 14 0.50
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (27 bp):
TAAATATAAAAATATTTTAAAATTTTT
Found at i:22055276 original size:12 final size:12
Alignment explanation
Indices: 22055254--22055284 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
22055244 CTTGCAAATT
22055254 ATATC-AATTTA
1 ATATCAAATTTA
22055265 ATATCAAATTTA
1 ATATCAAATTTA
22055277 ATATCAAA
1 ATATCAAA
22055285 ATTATTATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.26
12 14 0.74
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.39
Consensus pattern (12 bp):
ATATCAAATTTA
Found at i:22061240 original size:13 final size:13
Alignment explanation
Indices: 22061207--22061240 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
22061197 TTTAAAAAAT
*
22061207 AAAAAAATTTGTG
1 AAAAAAAATTGTG
*
22061220 AGAAAAAATTGTG
1 AAAAAAAATTGTG
22061233 AAAAAAAA
1 AAAAAAAA
22061241 AACAAAAGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.15, T:0.21
Consensus pattern (13 bp):
AAAAAAAATTGTG
Found at i:22062141 original size:12 final size:12
Alignment explanation
Indices: 22062126--22062169 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
22062116 AATTGAGATT
22062126 GAGAAAGAAAAA
1 GAGAAAGAAAAA
*
22062138 GAGAAAGAAAAT
1 GAGAAAGAAAAA
*
22062150 GAGAGAACAAAAA
1 GAGA-AAGAAAAA
22062163 GA-AAAGA
1 GAGAAAGA
22062170 GGTTCGAGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
11 3 0.11
12 16 0.59
13 8 0.30
ACGTcount: A:0.70, C:0.02, G:0.25, T:0.02
Consensus pattern (12 bp):
GAGAAAGAAAAA
Found at i:22069508 original size:54 final size:53
Alignment explanation
Indices: 22069447--22069633 Score: 223
Period size: 54 Copynumber: 3.5 Consensus size: 53
22069437 CCATGACAAG
* *
22069447 TGAAGACCATATAGTGTAAGGCATAGACGTTTGATATGGCATCATATGGGGAAC
1 TGAAGACCATATAGTGTAAGGCCTAG-CGTTTGATATGGCATCATATGGGGAAA
* * *
22069501 TGAAGACCATATAATGTAAGGCCCAGC-TATTTACTATGGCATCATATGGGGAAA
1 TGAAGACCATATAGTGTAAGGCCTAGCGT-TTGA-TATGGCATCATATGGGGAAA
* * * *
22069555 TGAAGACTATATAGTGTAAGGCCTACCCGTTTGCTATGGCATCATATGGGAAAA
1 TGAAGACCATATAGTGTAAGGCCTA-GCGTTTGATATGGCATCATATGGGGAAA
* * *
22069609 AGAAGACCACATAGTGTAAGACCTA
1 TGAAGACCATATAGTGTAAGGCCTA
22069634 TTTTGGGACT
Statistics
Matches: 113, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
52 1 0.01
53 4 0.04
54 104 0.92
55 3 0.03
56 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (53 bp):
TGAAGACCATATAGTGTAAGGCCTAGCGTTTGATATGGCATCATATGGGGAAA
Found at i:22069864 original size:31 final size:29
Alignment explanation
Indices: 22069770--22069868 Score: 153
Period size: 29 Copynumber: 3.3 Consensus size: 29
22069760 AAAAGTGATA
22069770 CCTTTGTGGCTGAATCTATTATATGTGAG
1 CCTTTGTGGCTGAATCTATTATATGTGAG
* *
22069799 CCTTTGTGGCTAAATCTATTTTATGTGAG
1 CCTTTGTGGCTGAATCTATTATATGTGAG
*
22069828 CCTTTGTGGCTGAATCTGTTATATGTGGAAG
1 CCTTTGTGGCTGAATCTATTATATGT-G-AG
22069859 CCTTTGTGGC
1 CCTTTGTGGC
22069869 CGTTCTTTGT
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
29 50 0.79
30 1 0.02
31 12 0.19
ACGTcount: A:0.18, C:0.15, G:0.25, T:0.41
Consensus pattern (29 bp):
CCTTTGTGGCTGAATCTATTATATGTGAG
Found at i:22069893 original size:30 final size:29
Alignment explanation
Indices: 22069770--22069893 Score: 106
Period size: 29 Copynumber: 4.2 Consensus size: 29
22069760 AAAAGTGATA
* * *
22069770 CCTTTGTGGCTGAATCTATTATATGTGAG
1 CCTTTGTGGCCGAATCTGTTACATGTGAG
** * **
22069799 CCTTTGTGGCTAAATCTATTTTATGTGAG
1 CCTTTGTGGCCGAATCTGTTACATGTGAG
* *
22069828 CCTTTGTGGCTGAATCTGTTATATGTGGAAG
1 CCTTTGTGGCCGAATCTGTTACATGT-G-AG
*
22069859 CCTTTGTGGCCG-TTCTTTGTTACATGTGAG
1 CCTTTGTGGCCGAATC--TGTTACATGTGAG
22069889 CCTTT
1 CCTTT
22069894 ATGGTGATAT
Statistics
Matches: 83, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
29 50 0.60
30 10 0.12
31 14 0.17
32 9 0.11
ACGTcount: A:0.17, C:0.16, G:0.24, T:0.43
Consensus pattern (29 bp):
CCTTTGTGGCCGAATCTGTTACATGTGAG
Found at i:22069935 original size:29 final size:30
Alignment explanation
Indices: 22069886--22069961 Score: 77
Period size: 30 Copynumber: 2.6 Consensus size: 30
22069876 TGTTACATGT
* *
22069886 GAGCCTTTATGG-TGATATTGTCAAAGAG-A
1 GAGCCTTTGTGGCTGATTTTGT-AAAGAGAA
* * *
22069915 -ATCCTTTGTGGCTGATTTTGTTATGAGAA
1 GAGCCTTTGTGGCTGATTTTGTAAAGAGAA
22069944 GAGCCTTTGTGGCTGATT
1 GAGCCTTTGTGGCTGATT
22069962 CTGTTGGAAG
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
28 13 0.34
29 9 0.24
30 16 0.42
ACGTcount: A:0.22, C:0.12, G:0.28, T:0.38
Consensus pattern (30 bp):
GAGCCTTTGTGGCTGATTTTGTAAAGAGAA
Found at i:22072522 original size:41 final size:39
Alignment explanation
Indices: 22072477--22072594 Score: 108
Period size: 41 Copynumber: 3.1 Consensus size: 39
22072467 TGTTTTAAGC
*
22072477 TTTGGTTAAGTAAGGTTTGATGATGCGTATATATTTGGTAA
1 TTTGGTTAAGCAA-GTTTGATGATG-GTATATATTTGGTAA
*
22072518 TTTGGCT---CAAG--T-ATG-T-GTATATATTTGGTAA
1 TTTGGTTAAGCAAGTTTGATGATGGTATATATTTGGTAA
* *
22072549 TTTGGTTAAGGAAAGTTTGATGATGTGTATGTATTTGGTAA
1 TTTGGTTAA-GCAAGTTTGATGATG-GTATATATTTGGTAA
22072590 TTTGG
1 TTTGG
22072595 CTGTTTAATT
Statistics
Matches: 62, Mismatches: 5, Indels: 20
0.71 0.06 0.23
Matches are distributed among these distances:
31 21 0.34
33 1 0.02
34 3 0.05
35 4 0.06
37 2 0.03
38 5 0.08
39 1 0.02
41 25 0.40
ACGTcount: A:0.25, C:0.03, G:0.27, T:0.45
Consensus pattern (39 bp):
TTTGGTTAAGCAAGTTTGATGATGGTATATATTTGGTAA
Found at i:22077719 original size:79 final size:81
Alignment explanation
Indices: 22077583--22077767 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
22077573 TTGAATGATG
* *
22077583 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
*
22077647 TGTGTGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
22077662 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
22077724 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
22077742 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
22077768 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 33 0.37
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:22077774 original size:40 final size:40
Alignment explanation
Indices: 22077583--22077767 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
22077573 TTGAATGATG
* * * *
22077583 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
22077623 TCCGGACTAAGAT-CCGAAGGCATTTGTGTGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
22077663 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
22077702 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
22077743 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
22077768 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 34 0.28
40 80 0.65
41 9 0.07
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:22077789 original size:79 final size:79
Alignment explanation
Indices: 22077636--22077790 Score: 190
Period size: 79 Copynumber: 2.0 Consensus size: 79
22077626 GGACTAAGAT
* * * **
22077636 CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
22077701 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* *
22077715 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
*
22077778 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
22077791 ATTCCGGAGG
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
78 2 0.03
79 38 0.58
80 25 0.38
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:22080474 original size:12 final size:12
Alignment explanation
Indices: 22080459--22080490 Score: 50
Period size: 10 Copynumber: 2.8 Consensus size: 12
22080449 GAAATGTGAT
22080459 TTGAAATCATTA
1 TTGAAATCATTA
22080471 TTG--ATCATTA
1 TTGAAATCATTA
22080481 TTGAAATCAT
1 TTGAAATCAT
22080491 AAAACAAGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
10 10 0.56
12 8 0.44
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.44
Consensus pattern (12 bp):
TTGAAATCATTA
Found at i:22088162 original size:16 final size:16
Alignment explanation
Indices: 22088141--22088175 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
22088131 TAATTACATA
22088141 TTTAAAACTTCAATTT
1 TTTAAAACTTCAATTT
22088157 TTTAAAACTTCAATTT
1 TTTAAAACTTCAATTT
22088173 TTT
1 TTT
22088176 CCAATTACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.54
Consensus pattern (16 bp):
TTTAAAACTTCAATTT
Found at i:22098220 original size:25 final size:25
Alignment explanation
Indices: 22098159--22098208 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
22098149 GATATGTTCT
* *
22098159 TACGAGCTATA-AACGGTAAGCTCA
1 TACGAGCTAAATAACGATAAGCTCA
22098183 TACGAGCTAAATAACGATAAGCTCA
1 TACGAGCTAAATAACGATAAGCTCA
22098208 T
1 T
22098209 GTGAGCTGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 10 0.43
25 13 0.57
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.22
Consensus pattern (25 bp):
TACGAGCTAAATAACGATAAGCTCA
Found at i:22098228 original size:25 final size:25
Alignment explanation
Indices: 22098173--22098254 Score: 85
Period size: 25 Copynumber: 3.3 Consensus size: 25
22098163 AGCTATAAAC
* * **
22098173 GGTAAGCTCATACGAGCTAAATAAC
1 GGTAAGCTCATATGAGCTGAATATT
* *
22098198 GATAAGCTCATGTGAGCTGAATATT
1 GGTAAGCTCATATGAGCTGAATATT
*
22098223 GGTAAGCTC-TCTTGAGCTGAATATT
1 GGTAAGCTCAT-ATGAGCTGAATATT
22098248 GGTAAGC
1 GGTAAGC
22098255 CCTCTCAAGC
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
24 1 0.02
25 47 0.98
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (25 bp):
GGTAAGCTCATATGAGCTGAATATT
Found at i:22098259 original size:25 final size:25
Alignment explanation
Indices: 22098210--22098259 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
22098200 TAAGCTCATG
*
22098210 TGAGCTGAATATTGGTAAGCTCTCT
1 TGAGCTGAATATTGGTAAGCCCTCT
22098235 TGAGCTGAATATTGGTAAGCCCTCT
1 TGAGCTGAATATTGGTAAGCCCTCT
22098260 CAAGCTGAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (25 bp):
TGAGCTGAATATTGGTAAGCCCTCT
Found at i:22098271 original size:27 final size:25
Alignment explanation
Indices: 22098212--22098267 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
22098202 AGCTCATGTG
* **
22098212 AGCTGAATATTGGTAAGCTCTCTTG
1 AGCTGAATATTGGTAAGCCCTCTCA
22098237 AGCTGAATATTGGTAAGCCCTCTCA
1 AGCTGAATATTGGTAAGCCCTCTCA
22098262 AGCTGA
1 AGCTGA
22098268 GAATCGGTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (25 bp):
AGCTGAATATTGGTAAGCCCTCTCA
Found at i:22106309 original size:5 final size:5
Alignment explanation
Indices: 22106285--22106319 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
22106275 AGTTAAACTA
22106285 AAAATG AAAAG AAGAAG AAAAG AAAAG AAAAG AAA
1 AAAA-G AAAAG AA-AAG AAAAG AAAAG AAAAG AAA
22106320 CCCTAACCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 19 0.68
6 9 0.32
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (5 bp):
AAAAG
Found at i:22108247 original size:29 final size:29
Alignment explanation
Indices: 22108215--22108315 Score: 105
Period size: 29 Copynumber: 3.5 Consensus size: 29
22108205 AATTTTTGTA
*
22108215 AAAAGGACGCCTTTGTGGCTATCTCTATT
1 AAAAGGAAGCCTTTGTGGCTATCTCTATT
* * *
22108244 AAAAGGAAACCTTTGTGG-TGGTTTCTATT
1 AAAAGGAAGCCTTTGTGGCT-ATCTCTATT
* * * *
22108273 AAAAGTAAGCCTTTGTGGCGATGTCTGTT
1 AAAAGGAAGCCTTTGTGGCTATCTCTATT
*
22108302 AAAAGAAAGCCTTT
1 AAAAGGAAGCCTTT
22108316 ATAGCGAGCC
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
28 1 0.02
29 58 0.98
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.34
Consensus pattern (29 bp):
AAAAGGAAGCCTTTGTGGCTATCTCTATT
Done.