Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold175
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: 1254584
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
File 7 of 8
Found at i:976190 original size:35 final size:35
Alignment explanation
Indices: 976147--976217 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
976137 AGATAGAAAC
**
976147 CTCCATATCTTTTCATGGGCTAAGATAGAACCTCT
1 CTCCATATCTTTTCAAAGGCTAAGATAGAACCTCT
*
976182 CTCCATATCTTTTTAAAGGCTAAGATAGAACCTCT
1 CTCCATATCTTTTCAAAGGCTAAGATAGAACCTCT
976217 C
1 C
976218 AATCACTTAG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (35 bp):
CTCCATATCTTTTCAAAGGCTAAGATAGAACCTCT
Found at i:979826 original size:21 final size:21
Alignment explanation
Indices: 979802--979842 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
979792 TTCATTTTAT
*
979802 AACTCACTTATTTTCTTTTCC
1 AACTCACTTACTTTCTTTTCC
* *
979823 AACTTATTTACTTTCTTTTC
1 AACTCACTTACTTTCTTTTC
979843 AAGAGTATTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.24, G:0.00, T:0.56
Consensus pattern (21 bp):
AACTCACTTACTTTCTTTTCC
Found at i:981553 original size:157 final size:156
Alignment explanation
Indices: 981387--981784 Score: 396
Period size: 156 Copynumber: 2.5 Consensus size: 156
981377 AGTAGACTCG
* * *
981387 GTGATAACCTAGGACTCGATGCTGAAAAATTATGAAAAATACCCCTAGGGGTATACCTTCGACAT
1 GTGATAACCTAGGACTCGATTCTAAAAAATTATGAAAAATACCCTTAGGGG-ATACCTTCGACAT
* * * * * * *
981452 GAAAGTAT-CTCGGTAATCCTAGTGGATACTAAAAGATTATAG-AA-ATGATGAACCTATCCTAA
65 GAAAGTATCCT-GATAACCCTAGTGAACACTAAAACAATA-AGTAATAGGATGAACCTATCCTAA
*
981514 ATATC-CAC-TTTCAGCATAAAAGTGAACCT
128 ATA-CACACATTT-AGCATAAAAGCGAACCT
* * * * * ** *
981543 AGTGACAACCTAGGACTTGGTTCTAAAAAAATTATG-AAAATGCCTTTAGGGGATACCTTTAATA
1 -GTGATAACCTAGGACTCGATTCT-AAAAAATTATGAAAAATACCCTTAGGGGATACCTTCGACA
*
981607 TGAAAGTATCCTGATAACCCTAGTGAACACTATAACAATAAGTAATAGGATGAACCTATCCTAAA
64 TGAAAGTATCCTGATAACCCTAGTGAACACTAAAACAATAAGTAATAGGATGAACCTATCCTAAA
* *
981672 TACACACATTTGGCATAAAAGCGGACCT
129 TACACACATTTAGCATAAAAGCGAACCT
* * * * * * * *
981700 GATTATAGCTTAGGACTCGATTTTAAAAAATTA-CAAAAATACGCTTACGAGATACCTTCGACAT
1 G-TGATAACCTAGGACTCGATTCTAAAAAATTATGAAAAATACCCTTAGGGGATACCTTCGACAT
*
981764 GAAAGTATCCCGATAACCCTA
65 GAAAGTATCCTGATAACCCTA
981785 AAGGATTTAA
Statistics
Matches: 194, Mismatches: 39, Indels: 17
0.78 0.16 0.07
Matches are distributed among these distances:
155 2 0.01
156 93 0.48
157 86 0.44
158 13 0.07
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (156 bp):
GTGATAACCTAGGACTCGATTCTAAAAAATTATGAAAAATACCCTTAGGGGATACCTTCGACATG
AAAGTATCCTGATAACCCTAGTGAACACTAAAACAATAAGTAATAGGATGAACCTATCCTAAATA
CACACATTTAGCATAAAAGCGAACCT
Found at i:984465 original size:28 final size:27
Alignment explanation
Indices: 984424--985185 Score: 758
Period size: 28 Copynumber: 27.0 Consensus size: 27
984414 CTAGATGTAC
984424 CTTTTCAAAGCCCACAAGTCAGTGGCA
1 CTTTTCAAAGCCCACAAGTCAGTGGCA
984451 CATTTTCAAAGCCCACAAGTCAGTGGCA
1 C-TTTTCAAAGCCCACAAGTCAGTGGCA
984479 CATTTTCAAAGCCCACAAGTCAGTGGCA
1 C-TTTTCAAAGCCCACAAGTCAGTGGCA
984507 TCTTTTCAAAGCCCACAAGTCAGTGGCA
1 -CTTTTCAAAGCCCACAAGTCAGTGGCA
*
984535 CCTTCTCAAAGCCCACAAGTCAGTGGCA
1 -CTTTTCAAAGCCCACAAGTCAGTGGCA
984563 CATTTTCAAAGCCCACAAGTCAGTGGCA
1 C-TTTTCAAAGCCCACAAGTCAGTGGCA
984591 TCTTTTCAAAGCCCACAAGTCAGTGGCA
1 -CTTTTCAAAGCCCACAAGTCAGTGGCA
* *
984619 CCTTCTCAAAGCCCACAAGTTAGTGGCA
1 -CTTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
984647 TCCTTTCAAAGCCCAGAAGTTAGTGCCA
1 -CTTTTCAAAGCCCACAAGTCAGTGGCA
* *
984675 TCTTTTCAAAGCCCACAAGTCAATGACA
1 -CTTTTCAAAGCCCACAAGTCAGTGGCA
* *
984703 TCTTTTCAAAGCCCACAAGTTAATGGCA
1 -CTTTTCAAAGCCCACAAGTCAGTGGCA
* *
984731 CCTTCTCAAAGCCCACAAGTCAGTGACA
1 -CTTTTCAAAGCCCACAAGTCAGTGGCA
* *
984759 CCTTCTCAAAGCCCATAAGTCAGTGGCA
1 -CTTTTCAAAGCCCACAAGTCAGTGGCA
* * *
984787 CCTTCTCAAAGCCCATAAGTCAGTGGAA
1 -CTTTTCAAAGCCCACAAGTCAGTGGCA
* * *
984815 CTTTCTCAAAACCCATAAGTTAGTGGCA
1 CTTT-TCAAAGCCCACAAGTCAGTGGCA
*
984843 CCTTTTTAAAGCCCACAAGTCAGTGGCA
1 -CTTTTCAAAGCCCACAAGTCAGTGGCA
* * *
984871 CCTTCTCAAAGCCCACAAGTTAGTGGAA
1 -CTTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
984899 TCCTTTCAAAACTCACAAGTCAGTAGCA
1 -CTTTTCAAAGCCCACAAGTCAGTGGCA
* *
984927 TCTTTTCAAAACCCACAAG-CGAGTGGTATA
1 -CTTTTCAAAGCCCACAAGTC-AGTGG--CA
*
984957 CTTTT-AAAGCCCACAAGTAAGTGGCA
1 CTTTTCAAAGCCCACAAGTCAGTGGCA
*
984983 -TAAGTTCAAAGCCCACAAGTCAGTGGCA
1 CT--TTTCAAAGCCCACAAGTCAGTGGCA
* *
985011 -TAATTTCAAAGCCCACAAGTTAGCGGCA
1 CT--TTTCAAAGCCCACAAGTCAGTGGCA
*
985039 CCCTTTCAAAGCCCACAAGTCAGTGGCA
1 -CTTTTCAAAGCCCACAAGTCAGTGGCA
* * *
985067 TTATTTCAAAGCCCATAAGTTAGTGGCA
1 CT-TTTCAAAGCCCACAAGTCAGTGGCA
* * **
985095 TCCTTTCTAAAGCCAACATAAGTTGGTGGCAA
1 -CTTTTC-AAAGCC--CACAAGTCAGTGGC-A
* *
985127 CCCTTTCTAAAGCCCACGAGTCAGTGGCA
1 -CTTTTC-AAAGCCCACAAGTCAGTGGCA
*
985156 TCTTTTCAAAAGCCCACAAGTTAGTGGCA
1 -CTTTTC-AAAGCCCACAAGTCAGTGGCA
985185 C
1 C
985186 ACTTCTAAGG
Statistics
Matches: 636, Mismatches: 78, Indels: 41
0.84 0.10 0.05
Matches are distributed among these distances:
25 1 0.00
26 1 0.00
27 8 0.01
28 546 0.86
29 42 0.07
30 11 0.02
31 13 0.02
32 14 0.02
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.23
Consensus pattern (27 bp):
CTTTTCAAAGCCCACAAGTCAGTGGCA
Found at i:984565 original size:84 final size:84
Alignment explanation
Indices: 984424--985184 Score: 849
Period size: 84 Copynumber: 9.0 Consensus size: 84
984414 CTAGATGTAC
* *
984424 CTTTTCAAAGCCCACAAGTCAGTGGCACATTTTCAAAGCCCACAAGTCAGTGGCACATTTTCAAA
1 CTTTTCAAAGCCCACAAGTCAGTGGCACCTTCTCAAAGCCCACAAGTCAGTGGCACATTTTCAAA
984489 GCCCACAAGTCAGTGGCAT
66 GCCCACAAGTCAGTGGCAT
984508 CTTTTCAAAGCCCACAAGTCAGTGGCACCTTCTCAAAGCCCACAAGTCAGTGGCACATTTTCAAA
1 CTTTTCAAAGCCCACAAGTCAGTGGCACCTTCTCAAAGCCCACAAGTCAGTGGCACATTTTCAAA
984573 GCCCACAAGTCAGTGGCAT
66 GCCCACAAGTCAGTGGCAT
* *
984592 CTTTTCAAAGCCCACAAGTCAGTGGCACCTTCTCAAAGCCCACAAGTTAGTGGCATC-CTTTCAA
1 CTTTTCAAAGCCCACAAGTCAGTGGCACCTTCTCAAAGCCCACAAGTCAGTGGCA-CATTTTCAA
* * *
984656 AGCCCAGAAGTTAGTGCCAT
65 AGCCCACAAGTCAGTGGCAT
* * * * * * * *
984676 CTTTTCAAAGCCCACAAGTCAATGACATCTTTTCAAAGCCCACAAGTTAATGGCACCTTCTCAAA
1 CTTTTCAAAGCCCACAAGTCAGTGGCACCTTCTCAAAGCCCACAAGTCAGTGGCACATTTTCAAA
* *
984741 GCCCACAAGTCAGTGACAC
66 GCCCACAAGTCAGTGGCAT
* * * *
984760 CTTCTCAAAGCCCATAAGTCAGTGGCACCTTCTCAAAGCCCATAAGTCAGTGGAAC-TTTCTCAA
1 CTTTTCAAAGCCCACAAGTCAGTGGCACCTTCTCAAAGCCCACAAGTCAGTGGCACATTT-TCAA
* * * *
984824 AACCCATAAGTTAGTGGCAC
65 AGCCCACAAGTCAGTGGCAT
* *
984844 CTTTTTAAAGCCCACAAGTCAGTGGCACCTTCTCAAAGCCCACAAGTTAGTGG-A-ATCCTTTCA
1 CTTTTCAAAGCCCACAAGTCAGTGGCACCTTCTCAAAGCCCACAAGTCAGTGGCACAT--TTTCA
* * *
984907 AAACTCACAAGTCAGTAGCAT
64 AAGCCCACAAGTCAGTGGCAT
* * * * * * **
984928 CTTTTCAAAACCCACAAG-CGAGTGGTATACTT-TTAAAGCCCACAAGTAAGTGGCATAAGTTCA
1 CTTTTCAAAGCCCACAAGTC-AGTGGCA-CCTTCTCAAAGCCCACAAGTCAGTGGCACATTTTCA
984991 AAGCCCACAAGTCAGTGGCAT
64 AAGCCCACAAGTCAGTGGCAT
** * * *
985012 AATTTCAAAGCCCACAAGTTAGCGGCACCCTT-TCAAAGCCCACAAGTCAGTGGCA-TTATTTCA
1 CTTTTCAAAGCCCACAAGTCAGTGGCA-CCTTCTCAAAGCCCACAAGTCAGTGGCACAT-TTTCA
* *
985075 AAGCCCATAAGTTAGTGGCAT
64 AAGCCCACAAGTCAGTGGCAT
* * ** *
985096 CCTTTCTAAAGCCAACATAAGTTGGTGGCAACCCTT-TCTAAAGCCCACGAGTCAGTGGCATC-T
1 CTTTTC-AAAGCC--CACAAGTCAGTGGC-A-CCTTCTC-AAAGCCCACAAGTCAGTGGCA-CAT
*
985159 TTTCAAAAGCCCACAAGTTAGTGGCA
59 TTTC-AAAGCCCACAAGTCAGTGGCA
985185 CACTTCTAAG
Statistics
Matches: 581, Mismatches: 76, Indels: 34
0.84 0.11 0.05
Matches are distributed among these distances:
83 6 0.01
84 497 0.86
85 13 0.02
86 1 0.00
87 11 0.02
88 8 0.01
89 24 0.04
90 21 0.04
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.23
Consensus pattern (84 bp):
CTTTTCAAAGCCCACAAGTCAGTGGCACCTTCTCAAAGCCCACAAGTCAGTGGCACATTTTCAAA
GCCCACAAGTCAGTGGCAT
Found at i:985268 original size:29 final size:28
Alignment explanation
Indices: 985236--985298 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 28
985226 AGCTCACGAA
* *
985236 TCAGTGACATCCTTTCAAAAGCCTATAAG
1 TCAGTGACACCCTTTCAAAA-CCCATAAG
* *
985265 TCAGTGGCACCCTTTTAAAACCCATAAG
1 TCAGTGACACCCTTTCAAAACCCATAAG
*
985293 TTAGTG
1 TCAGTG
985299 GCAACCCCTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 12 0.41
29 17 0.59
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.29
Consensus pattern (28 bp):
TCAGTGACACCCTTTCAAAACCCATAAG
Found at i:985299 original size:28 final size:27
Alignment explanation
Indices: 984422--985747 Score: 703
Period size: 28 Copynumber: 45.6 Consensus size: 27
984412 AACTAGATGT
984422 ACCTTTTCAAAGCCCACAAGTCAGTGGC
1 ACCTTTT-AAAGCCCACAAGTCAGTGGC
*
984450 ACATTTTCAAAGCCCACAAGTCAGTGGC
1 ACCTTTT-AAAGCCCACAAGTCAGTGGC
*
984478 ACATTTTCAAAGCCCACAAGTCAGTGGC
1 ACCTTTT-AAAGCCCACAAGTCAGTGGC
*
984506 ATCTTTTCAAAGCCCACAAGTCAGTGGC
1 ACCTTTT-AAAGCCCACAAGTCAGTGGC
*
984534 ACCTTCTCAAAGCCCACAAGTCAGTGGC
1 ACCTT-TTAAAGCCCACAAGTCAGTGGC
*
984562 ACATTTTCAAAGCCCACAAGTCAGTGGC
1 ACCTTTT-AAAGCCCACAAGTCAGTGGC
*
984590 ATCTTTTCAAAGCCCACAAGTCAGTGGC
1 ACCTTTT-AAAGCCCACAAGTCAGTGGC
* *
984618 ACCTTCTCAAAGCCCACAAGTTAGTGGC
1 ACCTT-TTAAAGCCCACAAGTCAGTGGC
* * * *
984646 ATCCTTTCAAAGCCCAGAAGTTAGTGCC
1 A-CCTTTTAAAGCCCACAAGTCAGTGGC
* * *
984674 ATCTTTTCAAAGCCCACAAGTCAATGAC
1 ACCTTTT-AAAGCCCACAAGTCAGTGGC
* * *
984702 ATCTTTTCAAAGCCCACAAGTTAATGGC
1 ACCTTTT-AAAGCCCACAAGTCAGTGGC
* *
984730 ACCTTCTCAAAGCCCACAAGTCAGTGAC
1 ACCTT-TTAAAGCCCACAAGTCAGTGGC
* *
984758 ACCTTCTCAAAGCCCATAAGTCAGTGGC
1 ACCTT-TTAAAGCCCACAAGTCAGTGGC
* *
984786 ACCTTCTCAAAGCCCATAAGTCAGTGG-
1 ACCTT-TTAAAGCCCACAAGTCAGTGGC
* * * *
984813 AACTTTCTCAAAACCCATAAGTTAGTGGC
1 ACCTTT-T-AAAGCCCACAAGTCAGTGGC
984842 ACCTTTTTAAAGCCCACAAGTCAGTGGC
1 ACC-TTTTAAAGCCCACAAGTCAGTGGC
* * *
984870 ACCTTCTCAAAGCCCACAAGTTAGTGGA
1 ACCTT-TTAAAGCCCACAAGTCAGTGGC
* * * *
984898 ATCCTTTCAAAACTCACAAGTCAGTAGC
1 A-CCTTTTAAAGCCCACAAGTCAGTGGC
* * *
984926 ATCTTTTCAAAACCCACAAG-CGAGTGGT
1 ACCTTTT-AAAGCCCACAAGTC-AGTGGC
* *
984954 ATACTTTTAAAGCCCACAAGTAAGTGGC
1 A-CCTTTTAAAGCCCACAAGTCAGTGGC
*** *
984982 ATAAGTTCAAAGCCCACAAGTCAGTGGC
1 A-CCTTTTAAAGCCCACAAGTCAGTGGC
** * * *
985010 ATAATTTCAAAGCCCACAAGTTAGCGGC
1 A-CCTTTTAAAGCCCACAAGTCAGTGGC
*
985038 ACCCTTTCAAAGCCCACAAGTCAGTGGC
1 A-CCTTTTAAAGCCCACAAGTCAGTGGC
* * *
985066 A-TTATTTCAAAGCCCATAAGTTAGTGGC
1 ACCT-TTT-AAAGCCCACAAGTCAGTGGC
* **
985094 ATCCTTTCTAAAGCCAACATAAGTTGGTGGC
1 A-CCTTT-TAAAGCC--CACAAGTCAGTGGC
*
985125 AACCCTTTCTAAAGCCCACGAGTCAGTGGC
1 -A-CCTTT-TAAAGCCCACAAGTCAGTGGC
* *
985155 ATCTTTTCAAAAGCCCACAAGTTAGTGGC
1 ACCTTTT--AAAGCCCACAAGTCAGTGGC
* * * *
985184 ACACTTCTAAGGCCCACATAAG-CTGGTGGTA
1 AC-CTTTTAAAGCCCAC--AAGTC-AGTGG-C
* *
985215 ACCCTTTCTAAAGCTCACGAA-TCAGTGAC
1 A-CCTTT-TAAAGCCCAC-AAGTCAGTGGC
* * *
985244 ATCCTTTCAAAAGCCTATAAGTCAGTGGC
1 A-CCTTT-TAAAGCCCACAAGTCAGTGGC
* * *
985273 ACCCTTTTAAAACCCATAAGTTAGTGGC
1 A-CCTTTTAAAGCCCACAAGTCAGTGGC
* * **
985301 AACCCCTTTAAAGCCCACACAAG-CTGCTACC
1 -A-CCTTTTAAAG-CC-CACAAGTCAG-TGGC
**
985332 AACCCTTTTAAAGCCCACACAAGTTGGTGGC
1 -A-CCTTTTAAAG-CC-CACAAGTCAGTGGC
* **
985363 ACCTTTTTAAAGCTCACAAAAGTTGGTGGC
1 ACC-TTTTAAAGC-C-CACAAGTCAGTGGC
* **
985393 AACCCCTTTTTAAGCCCACACAAGTTGGTGGC
1 -A--CCTTTTAAAG-CC-CACAAGTCAGTGGC
*
985425 ACCCTTTTAAAGACCACACAAGTCGGTGGC
1 A-CCTTTTAAAG-CC-CACAAGTCAGTGGC
*
985455 AACCTTTTTAAAGCCCACACAAG-CTGGTGGC
1 -ACC-TTTTAAAG-CC-CACAAGTC-AGTGGC
**
985486 AGTCCTTTTAAAGCCCACACAAGTTGGTGGC
1 A--CCTTTTAAAG-CC-CACAAGTCAGTGGC
985517 ACCCTTTTAAAGCCTACACAAGTC-GATGGC
1 A-CCTTTTAAAGCC--CACAAGTCAG-TGGC
**
985547 AACCCCTTTTAAAGCTCACACAAG-CTAGCAGC
1 -A--CCTTTTAAAGC-C-CACAAGTC-AGTGGC
* *
985579 AACCCTTTTAATGCCCACACAAG-CTGGTGGC
1 -A-CCTTTTAAAG-CC-CACAAGTC-AGTGGC
** *
985610 AACCCTTTTAAAGCCCACACAAGTTGGTAGC
1 -A-CCTTTTAAAG-CC-CACAAGTCAGTGGC
*
985641 ACCCTTTTAAAACCCACACAAGTC-GATGGC
1 A-CCTTTT-AAAGCC-CACAAGTCAG-TGGC
* * * *
985671 AACCCTTCTCAAAGTCCACAAGTCAATGAC
1 -A-CCTT-TTAAAGCCCACAAGTCAGTGGC
* *
985701 ACCCTTTTCAAAGCCCATAAGTCAATGGC
1 A-CCTTTT-AAAGCCCACAAGTCAGTGGC
* *
985730 ATCCTTTCAAAGGCCACA
1 A-CCTTTTAAAGCCCACA
985748 TAAGTCGATG
Statistics
Matches: 1080, Mismatches: 151, Indels: 134
0.79 0.11 0.10
Matches are distributed among these distances:
26 2 0.00
27 19 0.02
28 555 0.51
29 119 0.11
30 140 0.13
31 167 0.15
32 73 0.07
33 5 0.00
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (27 bp):
ACCTTTTAAAGCCCACAAGTCAGTGGC
Found at i:985363 original size:62 final size:62
Alignment explanation
Indices: 985273--985996 Score: 493
Period size: 62 Copynumber: 11.6 Consensus size: 62
985263 AGTCAGTGGC
* * * * * * *
985273 ACCCTTTTAAA-ACC-CATAAGTTAGTGGCAACCCCTTTAAAGCCCACACAAGCTGCTACCA
1 ACCCTTTTAAAGCCCACACAAGTTGGTGGCAACCCTTTTAAAGCCCACACAAGTTGGTAGCA
* * * *
985333 ACCCTTTTAAAGCCCACACAAGTTGGTGGC-ACCTTTTTAAAGCTCACAAAAGTTGGTGGCA
1 ACCCTTTTAAAGCCCACACAAGTTGGTGGCAACCCTTTTAAAGCCCACACAAGTTGGTAGCA
* * * *
985394 ACCCCTTTTTAAGCCCACACAAGTTGGTGGC-ACCCTTTTAAAGACCACACAAGTCGGTGGCA
1 A-CCCTTTTAAAGCCCACACAAGTTGGTGGCAACCCTTTTAAAGCCCACACAAGTTGGTAGCA
* * ** *
985456 ACCTTTTTAAAGCCCACACAAGCTGGTGGCAGTCCTTTTAAAGCCCACACAAGTTGGTGGC-
1 ACCCTTTTAAAGCCCACACAAGTTGGTGGCAACCCTTTTAAAGCCCACACAAGTTGGTAGCA
* * * * * * *
985517 ACCCTTTTAAAGCCTACACAAGTCGATGGCAACCCCTTTTAAAGCTCACACAAGCTAGCAGCA
1 ACCCTTTTAAAGCCCACACAAGTTGGTGGCAA-CCCTTTTAAAGCCCACACAAGTTGGTAGCA
* *
985580 ACCCTTTTAATGCCCACACAAGCTGGTGGCAACCCTTTTAAAGCCCACACAAGTTGGTAGC-
1 ACCCTTTTAAAGCCCACACAAGTTGGTGGCAACCCTTTTAAAGCCCACACAAGTTGGTAGCA
* * * * * ***
985641 ACCCTTTTAAAACCCACACAAGTCGATGGCAACCCTTCTCAAAG-TC-CACAAGTCAAT-G-A
1 ACCCTTTTAAAGCCCACACAAGTTGGTGGCAACCCTT-TTAAAGCCCACACAAGTTGGTAGCA
* *** * * * * * * *
985700 CACCCTTTTCAAAG-CC-CATAAGTCAATGGC-ATCCTTTCAAAGGCCACATAAGTCGATGGCA
1 -ACCCTTTT-AAAGCCCACACAAGTTGGTGGCAACCCTTTTAAAGCCCACACAAGTTGGTAGCA
* * * * ** * * * *
985761 GCCCCCTTCAAAGCCCACATAAGTTCATGGCATCCCTTTTTCCAAAGCCCTCACAAGTTGGTGGT
1 -ACCCTTTTAAAGCCCACACAAGTTGGTGGCAACCC-TTTT--AAAGCCCACACAAGTTGGTAGC
985826 A
62 A
* * * * * * * *
985827 TCCTTTCTTCAAAGCCAACACAAGTTGGTGGCATCCTTTTTTCAAAGCCCACACAAGCTGGTGGT
1 ACCCTT-TT-AAAGCCCACACAAGTTGGTGGCAACC-CTTTT-AAAGCCCACACAAGTTGGTAGC
985892 A
62 A
* * * ** * * * ** *
985893 ACCCTTCTCAAATCCCACACAAGCTACTGGAAACCCTTCTCAAAGCCCACAAAAGTCAGTGGCA
1 ACCCTT-TTAAAGCCCACACAAGTTGGTGGCAACCCTT-TTAAAGCCCACACAAGTTGGTAGCA
* *
985957 ACCCCTTTCTAAATCCTACACAAGTTGGTGGCAACCCTTT
1 A-CCCTTT-TAAAGCCCACACAAGTTGGTGGCAACCCTTT
985997 CGAATGCCCA
Statistics
Matches: 527, Mismatches: 111, Indels: 48
0.77 0.16 0.07
Matches are distributed among these distances:
57 6 0.01
58 6 0.01
59 22 0.04
60 34 0.06
61 122 0.23
62 158 0.30
63 29 0.06
64 26 0.05
65 52 0.10
66 46 0.09
67 26 0.05
ACGTcount: A:0.30, C:0.31, G:0.16, T:0.23
Consensus pattern (62 bp):
ACCCTTTTAAAGCCCACACAAGTTGGTGGCAACCCTTTTAAAGCCCACACAAGTTGGTAGCA
Found at i:985588 original size:31 final size:31
Alignment explanation
Indices: 985268--986021 Score: 544
Period size: 32 Copynumber: 24.2 Consensus size: 31
985258 CTATAAGTCA
* * *
985268 GTGGC-ACCCTTTTAAA-ACC-CATAAGTTA
1 GTGGCAACCCTTTTAAAGCCCACACAAGTTG
* *
985296 GTGGCAACCCCTTTAAAGCCCACACAAGCTG
1 GTGGCAACCCTTTTAAAGCCCACACAAGTTG
* **
985327 CTACCAACCCTTTTAAAGCCCACACAAGTTG
1 GTGGCAACCCTTTTAAAGCCCACACAAGTTG
* * *
985358 GTGGC-ACCTTTTTAAAGCTCACAAAAGTTG
1 GTGGCAACCCTTTTAAAGCCCACACAAGTTG
*
985388 GTGGCAACCCCTTTTTAAGCCCACACAAGTTG
1 GTGGCAA-CCCTTTTAAAGCCCACACAAGTTG
* *
985420 GTGGC-ACCCTTTTAAAGACCACACAAGTCG
1 GTGGCAACCCTTTTAAAGCCCACACAAGTTG
* *
985450 GTGGCAACCTTTTTAAAGCCCACACAAGCTG
1 GTGGCAACCCTTTTAAAGCCCACACAAGTTG
**
985481 GTGGCAGTCCTTTTAAAGCCCACACAAGTTG
1 GTGGCAACCCTTTTAAAGCCCACACAAGTTG
* *
985512 GTGGC-ACCCTTTTAAAGCCTACACAAGTCG
1 GTGGCAACCCTTTTAAAGCCCACACAAGTTG
* * * *
985542 ATGGCAACCCCTTTTAAAGCTCACACAAGCTA
1 GTGGCAA-CCCTTTTAAAGCCCACACAAGTTG
** * *
985574 GCAGCAACCCTTTTAATGCCCACACAAGCTG
1 GTGGCAACCCTTTTAAAGCCCACACAAGTTG
985605 GTGGCAACCCTTTTAAAGCCCACACAAGTTG
1 GTGGCAACCCTTTTAAAGCCCACACAAGTTG
* * *
985636 GTAGC-ACCCTTTTAAAACCCACACAAGTCG
1 GTGGCAACCCTTTTAAAGCCCACACAAGTTG
* * * **
985666 ATGGCAACCCTTCTCAAAG-TC-CACAAGTCA
1 GTGGCAACCCTT-TTAAAGCCCACACAAGTTG
* * * **
985696 ATGAC-ACCCTTTTCAAAG-CC-CATAAGTCA
1 GTGGCAACCCTTTT-AAAGCCCACACAAGTTG
* * * * * *
985725 ATGGC-ATCCTTTCAAAGGCCACATAAGTCG
1 GTGGCAACCCTTTTAAAGCCCACACAAGTTG
* * * * * *
985755 ATGGCAGCCCCCTTCAAAGCCCACATAAGTTC
1 GTGGCA-ACCCTTTTAAAGCCCACACAAGTTG
* * *
985787 ATGGCATCCCTTTTTCCAAAGCCCTCACAAGTTG
1 GTGGCAACCC-TTTT--AAAGCCCACACAAGTTG
* * * *
985821 GTGGTATCCTTTCTTCAAAGCCAACACAAGTTG
1 GTGGCAACCCTT-TT-AAAGCCCACACAAGTTG
* * *
985854 GTGGCATCCTTTTTTCAAAGCCCACACAAGCTG
1 GTGGCAACC-CTTTT-AAAGCCCACACAAGTTG
* * * * *
985887 GTGGTAACCCTTCTCAAATCCCACACAAGCTA
1 GTGGCAACCCTT-TTAAAGCCCACACAAGTTG
* * * * **
985919 CTGGAAACCCTTCTCAAAGCCCACAAAAGTCA
1 GTGGCAACCCTT-TTAAAGCCCACACAAGTTG
* *
985951 GTGGCAACCCCTTTCTAAATCCTACACAAGTTG
1 GTGGCAA-CCCTTT-TAAAGCCCACACAAGTTG
* * * *
985984 GTGGCAACCCTTTCGAATGCCCACTCAAGTCG
1 GTGGCAACCCTTT-TAAAGCCCACACAAGTTG
986016 GTGGCA
1 GTGGCA
986022 TCTCCTCCTA
Statistics
Matches: 589, Mismatches: 114, Indels: 42
0.79 0.15 0.06
Matches are distributed among these distances:
28 10 0.02
29 41 0.07
30 131 0.22
31 152 0.26
32 153 0.26
33 76 0.13
34 26 0.04
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (31 bp):
GTGGCAACCCTTTTAAAGCCCACACAAGTTG
Found at i:985691 original size:30 final size:28
Alignment explanation
Indices: 985639--985779 Score: 111
Period size: 30 Copynumber: 4.7 Consensus size: 28
985629 CAAGTTGGTA
* * *
985639 GCACCCTTTTAAAACCCACACAAGTCGATG
1 GCACCC-TTTCAAAGCC-CACAAGTCAATG
*
985669 GCAACCCTTCTCAAAGTCCACAAGTCAATG
1 GC-ACCCTT-TCAAAGCCCACAAGTCAATG
* *
985699 ACACCCTTTTCAAAGCCCATAAGTCAATG
1 GCACCC-TTTCAAAGCCCACAAGTCAATG
* * *
985728 GCATCCTTTCAAAGGCCACATAAGTCGATG
1 GCACCCTTTCAAA-GCC-CACAAGTCAATG
*
985758 GCAGCCCCCTTCAAAGCCCACA
1 GCA--CCCTTTCAAAGCCCACA
985780 TAAGTTCATG
Statistics
Matches: 91, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
28 7 0.08
29 29 0.32
30 35 0.38
31 12 0.13
32 8 0.09
ACGTcount: A:0.32, C:0.34, G:0.14, T:0.20
Consensus pattern (28 bp):
GCACCCTTTCAAAGCCCACAAGTCAATG
Found at i:985711 original size:29 final size:29
Alignment explanation
Indices: 985639--985810 Score: 123
Period size: 29 Copynumber: 5.6 Consensus size: 29
985629 CAAGTTGGTA
* * *
985639 GCACCCTTTTAAAACCCACACAAGTCGATG
1 GCACCCTTTTCAAAGCC-CACAAGTCAATG
* *
985669 GCAACCCTTCTCAAAGTCCACAAGTCAATG
1 GC-ACCCTTTTCAAAGCCCACAAGTCAATG
* *
985699 ACACCCTTTTCAAAGCCCATAAGTCAATG
1 GCACCCTTTTCAAAGCCCACAAGTCAATG
* * *
985728 GCATCC-TTTCAAAGGCCACATAAGTCGATG
1 GCACCCTTTTCAAA-GCC-CACAAGTCAATG
**
985758 GCAGCCCCCTTCAAAGCCCACATAAGTTC-ATG
1 GCA-CCCTTTTCAAAGCCCAC--AAG-TCAATG
985790 GCATCCCTTTTTCCAAAGCCC
1 GCA-CCC-TTTT-CAAAGCCC
985811 TCACAAGTTG
Statistics
Matches: 114, Mismatches: 18, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
28 7 0.06
29 31 0.27
30 30 0.26
31 16 0.14
32 18 0.16
33 4 0.04
34 8 0.07
ACGTcount: A:0.30, C:0.34, G:0.14, T:0.22
Consensus pattern (29 bp):
GCACCCTTTTCAAAGCCCACAAGTCAATG
Found at i:986161 original size:47 final size:48
Alignment explanation
Indices: 986107--986197 Score: 157
Period size: 47 Copynumber: 1.9 Consensus size: 48
986097 ATATCGCTGG
*
986107 CCTTGAATCAGCACATTGGCACTTTTTTCTTTC-TAAGTCCAATGTCA
1 CCTTGAATCAGCACATCGGCACTTTTTTCTTTCTTAAGTCCAATGTCA
*
986154 CCTTGAATCAGCACATCGGTACTTTTTTCTTTCTTAAGTCCAAT
1 CCTTGAATCAGCACATCGGCACTTTTTTCTTTCTTAAGTCCAAT
986198 ATCATTGGTT
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
47 31 0.76
48 10 0.24
ACGTcount: A:0.23, C:0.25, G:0.12, T:0.40
Consensus pattern (48 bp):
CCTTGAATCAGCACATCGGCACTTTTTTCTTTCTTAAGTCCAATGTCA
Found at i:986240 original size:52 final size:50
Alignment explanation
Indices: 986089--986240 Score: 150
Period size: 47 Copynumber: 3.0 Consensus size: 50
986079 CATCTCTTTC
* *
986089 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACTTTTTTCTT-T
1 TAAGTCCAATATC-ATGGCCTTGAATCAGCACATTGGCACTTTTTTATTCT
* * * *
986139 CTAAGTCCAATGTCA---CCTTGAATCAGCACATCGGTACTTTTTTCTTTCT
1 -TAAGTCCAATATCATGGCCTTGAATCAGCACATTGGCACTTTTTT-ATTCT
** *
986188 TAAGTCCAATATCATTGGTTTTGAATTAGCACATTGGCACTTTTATTATTCT
1 TAAGTCCAATATCA-TGGCCTTGAATCAGCACATTGGCACTTTT-TTATTCT
986240 T
1 T
986241 TTCATCTTTA
Statistics
Matches: 82, Mismatches: 12, Indels: 13
0.77 0.11 0.12
Matches are distributed among these distances:
47 26 0.32
48 15 0.18
49 1 0.01
51 12 0.15
52 26 0.32
53 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.41
Consensus pattern (50 bp):
TAAGTCCAATATCATGGCCTTGAATCAGCACATTGGCACTTTTTTATTCT
Found at i:986274 original size:61 final size:61
Alignment explanation
Indices: 986209--986585 Score: 247
Period size: 61 Copynumber: 6.3 Consensus size: 61
986199 TCATTGGTTT
* * * *
986209 TGAATTAGCACATTGGCACTTTTATTATTCTTTTCATCTTTAAGCCCGATATCGCTGGCCG
1 TGAATCAGCACATTGGCACTTTTATTATTCTTTTCATCTTTAAGTCCAATGTCGCTGGCCG
* * * * * * * *
986270 TGAATCAGCATATTGGCACCTTTATCATTTCCTTGCATCTTCAAGTCTAATGTCGCTAGCCG
1 TGAATCAGCACATTGGCACTTTTATTA-TTCTTTTCATCTTTAAGTCCAATGTCGCTGGCCG
* * * * * * *
986332 TGAATCAGCACGTTGGCACTCTTCTCT-TTCTTCTCATTTTTAAGTTCAATGTCGCTGGCCT
1 TGAATCAGCACATTGGCACTTTTAT-TATTCTTTTCATCTTTAAGTCCAATGTCGCTGGCCG
* * * * * * *
986393 TGAATCAGCACAGTGGCAC----CTT-TGC----CATCTTTAAGTCTAATATTGCTGG-CT
1 TGAATCAGCACATTGGCACTTTTATTATTCTTTTCATCTTTAAGTCCAATGTCGCTGGCCG
* * * ** * *
986444 TCGAATCAGCATATTAGCACTTTTATCT-TTGTTCCCATCTTTAAGTCCAATATCGCTGGCCT
1 T-GAATCAGCACATTGGCACTTTTAT-TATTCTTTTCATCTTTAAGTCCAATGTCGCTGGCCG
* * * ** * * *
986506 TGAATCAGCACATTGTCACTCTTATCATTCTTCCCATCTTTAAGTCCAATATCGCTAGCCT
1 TGAATCAGCACATTGGCACTTTTATTATTCTTTTCATCTTTAAGTCCAATGTCGCTGGCCG
* *
986567 TGAATCAGCATATCGGCAC
1 TGAATCAGCACATTGGCAC
986586 CTTCATATCT
Statistics
Matches: 249, Mismatches: 53, Indels: 28
0.75 0.16 0.08
Matches are distributed among these distances:
51 3 0.01
52 34 0.14
56 4 0.02
57 4 0.02
61 155 0.62
62 49 0.20
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (61 bp):
TGAATCAGCACATTGGCACTTTTATTATTCTTTTCATCTTTAAGTCCAATGTCGCTGGCCG
Found at i:986780 original size:52 final size:52
Alignment explanation
Indices: 986540--987018 Score: 434
Period size: 51 Copynumber: 9.3 Consensus size: 52
986530 TCATTCTTCC
* * * * *
986540 CATCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATCGGCA-CCTTCAT
1 CATCTTTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCCTT-AT
* * *
986592 -ATCTTTTTAAGCCCAATTTCGTTGCCCTTGAATCAGCACATTGGCACCCTTAT
1 CATC--TTTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCCTTAT
* * *
986645 CA-CTTCAAGTCCAACGTCGTTGGCCTTGAATCAGCACATTGGCA-CCTTCT
1 CATCTTTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCCTTAT
* *** *
986695 CAT-TTCTAAGCCCAATGTCACAGGCCTTGAATCAGTACATTGGCACCCTTAT
1 CATCTT-TAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCCTTAT
* * * * * *
986747 CATGTTTAAGTCTAACGTCGTTGGCCTTAAATCAACACATTGGCA-CCTCAT
1 CATCTTTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCCTTAT
* * * *
986798 CATTTTTAAG-CCTAATGTTGTTAGCCTTGAATCATCACATTGGCACCCTTAT
1 CATCTTTAAGTCC-AATGTCGTTGGCCTTGAATCAGCACATTGGCACCCTTAT
* ** * * * *
986850 CATGTTTAAGTCCAATGTCACTAGCTTTAAATCAGCACATTGGCA-CTTTAT
1 CATCTTTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCCTTAT
* * * * * * * *
986901 CATTTTTAAGCCCAATGTTGTTAGCCTTGAATCAGTACGTTGGCACTCTTCT
1 CATCTTTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCCTTAT
* * * * *
986953 CATCTTTAAGTCCAATGTAGCTGGCCTTCAATCAGCACATTGGCACACTTCT
1 CATCTTTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCCTTAT
*
987005 TATCTTTAAGTCCA
1 CATCTTTAAGTCCA
987019 GTCCTTGAAT
Statistics
Matches: 346, Mismatches: 69, Indels: 24
0.79 0.16 0.05
Matches are distributed among these distances:
50 10 0.03
51 153 0.44
52 137 0.40
53 41 0.12
54 5 0.01
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.33
Consensus pattern (52 bp):
CATCTTTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCCTTAT
Found at i:986801 original size:103 final size:103
Alignment explanation
Indices: 986540--986998 Score: 509
Period size: 103 Copynumber: 4.4 Consensus size: 103
986530 TCATTCTTCC
** * * * *
986540 CATCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATCGGCACCTTCAT-ATCTTTTTAAGC
1 CATCTTTAAGTCCAACGTCGCTGGCCTTAAATCAGCACATTGGCACC-TCATCA--TTTTTAAGC
*
986604 CCAAT-TTCGTT-GCCCTTGAATCAGCACATTGGCACCCTTAT
63 CCAATGTT-GTTAG-CCTTGAATCAGTACATTGGCACCCTTAT
* * * *
986645 CA-CTTCAAGTCCAACGTCGTTGGCCTTGAATCAGCACATTGGCACCTTC-TCATTTCTAAGCCC
1 CATCTTTAAGTCCAACGTCGCTGGCCTTAAATCAGCACATTGGCACC-TCATCATTTTTAAGCCC
***
986708 AATG-TCACAGGCCTTGAATCAGTACATTGGCACCCTTAT
65 AATGTTGTTA-GCCTTGAATCAGTACATTGGCACCCTTAT
* * * * *
986747 CATGTTTAAGTCTAACGTCGTTGGCCTTAAATCAACACATTGGCACCTCATCATTTTTAAGCCTA
1 CATCTTTAAGTCCAACGTCGCTGGCCTTAAATCAGCACATTGGCACCTCATCATTTTTAAGCCCA
986812 ATGTTGTTAGCCTTGAATCA-TCACATTGGCACCCTTAT
66 ATGTTGTTAGCCTTGAATCAGT-ACATTGGCACCCTTAT
* * * * * * *
986850 CATGTTTAAGTCCAATGTCACTAGCTTTAAATCAGCACATTGGCACTTTATCATTTTTAAGCCCA
1 CATCTTTAAGTCCAACGTCGCTGGCCTTAAATCAGCACATTGGCACCTCATCATTTTTAAGCCCA
* * *
986915 ATGTTGTTAGCCTTGAATCAGTACGTTGGCACTCTTCT
66 ATGTTGTTAGCCTTGAATCAGTACATTGGCACCCTTAT
* * *
986953 CATCTTTAAGTCCAATGTAGCTGGCCTTCAATCAGCACATTGGCAC
1 CATCTTTAAGTCCAACGTCGCTGGCCTTAAATCAGCACATTGGCAC
986999 ACTTCTTATC
Statistics
Matches: 304, Mismatches: 41, Indels: 20
0.83 0.11 0.05
Matches are distributed among these distances:
102 46 0.15
103 212 0.70
104 44 0.14
105 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.33
Consensus pattern (103 bp):
CATCTTTAAGTCCAACGTCGCTGGCCTTAAATCAGCACATTGGCACCTCATCATTTTTAAGCCCA
ATGTTGTTAGCCTTGAATCAGTACATTGGCACCCTTAT
Found at i:987130 original size:44 final size:43
Alignment explanation
Indices: 987055--987449 Score: 225
Period size: 44 Copynumber: 9.2 Consensus size: 43
987045 CCTGGAGATT
* * * * *
987055 TTCTTA-CCTTTGGTGACCAATCGACTTTGTCCTCGGTCAACC
1 TTCTTACCCTTTGTTTACCTATCGGCTTTGTCCCCGGTCAACC
* ** *
987097 ATTCTTACCCTTTGTTTACCTATCAGCCATGTCCCCGGT-AAAC
1 -TTCTTACCCTTTGTTTACCTATCGGCTTTGTCCCCGGTCAACC
* * * * * *
987140 TTTTTACGCC-TTGGTTACCCATCGACTTTGTCCCCGATCAGCC
1 TTCTTAC-CCTTTGTTTACCTATCGGCTTTGTCCCCGGTCAACC
* * * * * * *
987183 ATTCTTACTTCTTAG-TGACCTGTCGACTTTGTCCTCGATCAACC
1 -TTCTTAC-CCTTTGTTTACCTATCGGCTTTGTCCCCGGTCAACC
* * * * *
987227 TTTCTTACCTTTTGTTTACCTGTCGGCTATGTCCTCGGT-AAAC
1 -TTCTTACCCTTTGTTTACCTATCGGCTTTGTCCCCGGTCAACC
* * * *
987270 TTCTTACTCC-TTGGTGACTTATCGGCTTTGTCCCCGGTCAGCC
1 TTCTTAC-CCTTTGTTTACCTATCGGCTTTGTCCCCGGTCAACC
* * *
987313 TTTCTTA-CCTTTGTTTACCTATCGGCTATG-CCCCTAGT-AAAC
1 -TTCTTACCCTTTGTTTACCTATCGGCTTTGTCCCC-GGTCAACC
* * * ** * *
987355 TTCTTATCCC-TTGGTGACCTATCGGCCTTGTCTTCGATCAGCC
1 TTCTTA-CCCTTTGTTTACCTATCGGCTTTGTCCCCGGTCAACC
* * * *
987398 TTTCTTACCCTTTGTTTACCTATTGACTTTGTCCCCGGTAAAAC
1 -TTCTTACCCTTTGTTTACCTATCGGCTTTGTCCCCGGTCAACC
987442 TTCTTACC
1 TTCTTACC
987450 TCTAGGGATA
Statistics
Matches: 261, Mismatches: 74, Indels: 34
0.71 0.20 0.09
Matches are distributed among these distances:
41 6 0.02
42 81 0.31
43 57 0.22
44 115 0.44
45 2 0.01
ACGTcount: A:0.16, C:0.31, G:0.15, T:0.39
Consensus pattern (43 bp):
TTCTTACCCTTTGTTTACCTATCGGCTTTGTCCCCGGTCAACC
Found at i:987299 original size:86 final size:85
Alignment explanation
Indices: 987184--987448 Score: 327
Period size: 85 Copynumber: 3.1 Consensus size: 85
987174 CGATCAGCCA
* * * * * *
987184 TTCTTACTTCTTAGTGACCTGTCGACTTTGTCCTCGATCAACCTTTCTTACCTTTTGTTTACCTG
1 TTCTTACTCCTTGGTGACCTATCGGCTTTGTCCTCGATCAGCCTTTCTTACC-TTTGTTTACCTA
*
987249 TCGGCTATGTCCTCGGTAAAC
65 TCGGCTATGTCCCCGGTAAAC
* * *
987270 TTCTTACTCCTTGGTGACTTATCGGCTTTGTCCCCGGTCAGCCTTTCTTACCTTTGTTTACCTAT
1 TTCTTACTCCTTGGTGACCTATCGGCTTTGTCCTCGATCAGCCTTTCTTACCTTTGTTTACCTAT
*
987335 CGGCTATG-CCCCTAGTAAAC
66 CGGCTATGTCCCC-GGTAAAC
* *
987355 TTCTTA-TCCCTTGGTGACCTATCGGCCTTGTCTTCGATCAGCCTTTCTTACCCTTTGTTTACCT
1 TTCTTACT-CCTTGGTGACCTATCGGCTTTGTCCTCGATCAGCCTTTCTTA-CCTTTGTTTACCT
* * *
987419 ATTGACTTTGTCCCCGGTAAAAC
64 ATCGGCTATGTCCCCGGT-AAAC
987442 TTCTTAC
1 TTCTTAC
987449 CTCTAGGGAT
Statistics
Matches: 153, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
84 4 0.03
85 69 0.45
86 66 0.43
87 14 0.09
ACGTcount: A:0.15, C:0.29, G:0.15, T:0.41
Consensus pattern (85 bp):
TTCTTACTCCTTGGTGACCTATCGGCTTTGTCCTCGATCAGCCTTTCTTACCTTTGTTTACCTAT
CGGCTATGTCCCCGGTAAAC
Found at i:987300 original size:130 final size:130
Alignment explanation
Indices: 987075--987320 Score: 357
Period size: 130 Copynumber: 1.9 Consensus size: 130
987065 TGGTGACCAA
*
987075 TCGACTTTGTCCTCGGTCAACCATTCTTACCCTTTGTTTACCTATCAGCCATGTCCCCGGTAAAC
1 TCGACTTTGTCCTCGATCAACCATTCTTACCCTTTGTTTACCTATCAGCCATGTCCCCGGTAAAC
* *
987140 TTTTTACGCCTTGGTTACCCATCGACTTTGTCCCCGATCAGCCATTCTTACTTCTTAGTGACCTG
66 TTCTTACGCCTTGGTGACCCATCGACTTTGTCCCCGATCAGCCATTCTTACTTCTTAGTGACCTG
* * * * * *
987205 TCGACTTTGTCCTCGATCAACCTTTCTTACCTTTTGTTTACCTGTCGGCTATGTCCTCGGTAAAC
1 TCGACTTTGTCCTCGATCAACCATTCTTACCCTTTGTTTACCTATCAGCCATGTCCCCGGTAAAC
* ** * * *
987270 TTCTTACTCCTTGGTGACTTATCGGCTTTGTCCCCGGTCAGCCTTTCTTAC
66 TTCTTACGCCTTGGTGACCCATCGACTTTGTCCCCGATCAGCCATTCTTAC
987321 CTTTGTTTAC
Statistics
Matches: 101, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
130 101 1.00
ACGTcount: A:0.15, C:0.31, G:0.15, T:0.38
Consensus pattern (130 bp):
TCGACTTTGTCCTCGATCAACCATTCTTACCCTTTGTTTACCTATCAGCCATGTCCCCGGTAAAC
TTCTTACGCCTTGGTGACCCATCGACTTTGTCCCCGATCAGCCATTCTTACTTCTTAGTGACCTG
Found at i:988109 original size:63 final size:63
Alignment explanation
Indices: 988012--988138 Score: 202
Period size: 63 Copynumber: 2.0 Consensus size: 63
988002 ATAAAATAAT
988012 AAAAAAATGATGATGATGGCCAAATTAGTAGAGGTTCCACTAATTAAGCCA-TCTACACCATTA
1 AAAAAAATGATGATGATGGCCAAATTAGTAGAGGTTCCACTAATTAAGCCACT-TACACCATTA
* * * *
988075 AAAAAAATGATGATGATGGTCGAATTAGTGGAGGTTCCACTAATTAAGCCACTTACATCATTA
1 AAAAAAATGATGATGATGGCCAAATTAGTAGAGGTTCCACTAATTAAGCCACTTACACCATTA
988138 A
1 A
988139 GGTGGCAAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
63 58 0.98
64 1 0.02
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.27
Consensus pattern (63 bp):
AAAAAAATGATGATGATGGCCAAATTAGTAGAGGTTCCACTAATTAAGCCACTTACACCATTA
Found at i:990898 original size:96 final size:97
Alignment explanation
Indices: 990713--990898 Score: 227
Period size: 96 Copynumber: 1.9 Consensus size: 97
990703 TATAAAATCA
* * * *
990713 AAATTTTTATTCATTGGGGATACTCCAACCCTATTCCTCTGAGGCGATGCTCCAATCCTGTTTTT
1 AAATTTTCATTCATCGGGGATACTCCAACCCTATTCCTCTAAGGCGATACTCCAATCCTGTTTTT
*
990778 AAAATTATCAAAATTTAAATCTTATTTTGTCC
66 AAAATTATCAAAATTTAAACCTTATTTTGTCC
* *
990810 AAATTTTCATT-ATCGGGGATACTCTAACCAC-ATTCCTCTAAGG-GATACTCCAAT-TTCGTTT
1 AAATTTTCATTCATCGGGGATACTCCAACC-CTATTCCTCTAAGGCGATACTCCAATCCT-GTTT
* * *
990871 TTAAAACTTGTCAAGATTTGAACCTTAT
64 TTAAAA-TTATCAAAATTTAAACCTTAT
990899 CCTTGCCTTA
Statistics
Matches: 76, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
94 1 0.01
95 20 0.26
96 44 0.58
97 11 0.14
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (97 bp):
AAATTTTCATTCATCGGGGATACTCCAACCCTATTCCTCTAAGGCGATACTCCAATCCTGTTTTT
AAAATTATCAAAATTTAAACCTTATTTTGTCC
Found at i:992252 original size:63 final size:63
Alignment explanation
Indices: 992153--992344 Score: 357
Period size: 63 Copynumber: 3.0 Consensus size: 63
992143 TTTTGCCACC
992153 TTAATGGTGTAGGTGGCTTAATTAGTGGAACCTCCACTAATTCATCCATCATCATCAATTTTT
1 TTAATGGTGTAGGTGGCTTAATTAGTGGAACCTCCACTAATTCATCCATCATCATCAATTTTT
992216 TTAATGGTGTAGGTGGCTTAATTAGTGGAACCTCCACTAATTCATCCATCATCATCAATTTTT
1 TTAATGGTGTAGGTGGCTTAATTAGTGGAACCTCCACTAATTCATCCATCATCATCAATTTTT
** *
992279 TTAATGGTGTAGGTGGCTTAATTAGTGGAACCTCCACTAATTCGGCCATTATCATCAATTTTT
1 TTAATGGTGTAGGTGGCTTAATTAGTGGAACCTCCACTAATTCATCCATCATCATCAATTTTT
992342 TTA
1 TTA
992345 TTTTTTTAAT
Statistics
Matches: 126, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 126 1.00
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.39
Consensus pattern (63 bp):
TTAATGGTGTAGGTGGCTTAATTAGTGGAACCTCCACTAATTCATCCATCATCATCAATTTTT
Found at i:992351 original size:9 final size:9
Alignment explanation
Indices: 992336--992407 Score: 78
Period size: 9 Copynumber: 8.1 Consensus size: 9
992326 ATTATCATCA
992336 ATTTTTTT-
1 ATTTTTTTG
992344 ATTTTTTT-
1 ATTTTTTTG
* *
992352 AATATTTT-
1 ATTTTTTTG
*
992360 ATTAATTTTG
1 ATT-TTTTTG
992370 ATTTTTTTG
1 ATTTTTTTG
992379 AATTTTTTTG
1 -ATTTTTTTG
992389 ATTTTTTTG
1 ATTTTTTTG
992398 ATTTTTTTG
1 ATTTTTTTG
992407 A
1 A
992408 ATTTATATCG
Statistics
Matches: 57, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
8 16 0.28
9 29 0.51
10 12 0.21
ACGTcount: A:0.19, C:0.00, G:0.07, T:0.74
Consensus pattern (9 bp):
ATTTTTTTG
Found at i:992780 original size:20 final size:20
Alignment explanation
Indices: 992755--992809 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
992745 GTTGGGACCA
992755 AATGTATCGATACAATTCAT
1 AATGTATCGATACAATTCAT
*
992775 AATGTATCGATACAATTTAT
1 AATGTATCGATACAATTCAT
*
992795 CATGTATCGATACAA
1 AATGTATCGATACAA
992810 ACAGTGGTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACAATTCAT
Found at i:994594 original size:164 final size:164
Alignment explanation
Indices: 994371--994901 Score: 626
Period size: 164 Copynumber: 3.2 Consensus size: 164
994361 TGCAAAATTG
* * * * * * *
994371 ATTTAATAGGAGTTTAATAATAATATTAGATGAATTCTAAAAATTTTAAATTGAGAAAAATCCCC
1 ATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAATTTTAAACTAAGAAAAATCCCC
* * *
994436 CCGAAAATATTTACGGAGTAGAAAACTCCGTATTTCGAAAATAAAAAAAATTTTA-AAATAATGA
66 CCGAAAATATTTACAGAGTAGAAAACTCCATATTTC-AAAATAAAAAAAATTTTAGAAAAAATGA
* *
994500 AAAATTCATGAAATAAAAGGAATTTCTCAAAACTA
130 AAAATTCATGAAATAAAAGGAATTTTTCAAAAATA
* * *
994535 ATTTAATATGAATTAAATGATAATATTTGATGAATTTTAAAAATTATAAACCAAGAAAAATCCCC
1 ATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAATTTTAAACTAAGAAAAATCCCC
* ** * *
994600 CCG-AAACATTTACAGAGTAGAAAACTTTACATTTCAAAA-ATAGAAAAATTTTAAGAAAAAATG
66 CCGAAAATATTTACAGAGTAGAAAACTCCATATTTCAAAATA-AAAAAAATTTT-AGAAAAAATG
* * *
994663 AAAAATTCATGAAATAAAAAGAATTTTTCAAAATTG
129 AAAAATTCATGAAATAAAAGGAATTTTTCAAAAATA
* * *
994699 ATTTAATGTAAATTAAATAATAATATTTGATGAATTTTAAAAATTTTAAACTAAGAAAAGT-CCC
1 ATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAATTTTAAACTAAGAAAAATCCCC
* * *
994763 TCGAAAATATTTATAGAGTAG-AAACTTCCATATTTCAAAA-ACAAAAAAATTTCAAGAAAAAAT
66 CCGAAAATATTTACAGAGTAGAAAAC-TCCATATTTCAAAATA-AAAAAAATTT-TAGAAAAAAT
* **
994826 GAAAAAATCATGAAATAAAAGGGTTTTTTCAAAAAATA
128 GAAAAATTCATGAAATAAAAGGAATTTTTC-AAAAATA
* * *
994864 ATTTAA-AGTGAACTAAATGATAATATTTAATGAATTTT
1 ATTTAATA-TGAATTAAATAATAATATTTGATGAATTTT
994902 GATACTTAAA
Statistics
Matches: 311, Mismatches: 48, Indels: 15
0.83 0.13 0.04
Matches are distributed among these distances:
161 1 0.00
162 14 0.05
163 36 0.12
164 223 0.72
165 37 0.12
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.31
Consensus pattern (164 bp):
ATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAATTTTAAACTAAGAAAAATCCCC
CCGAAAATATTTACAGAGTAGAAAACTCCATATTTCAAAATAAAAAAAATTTTAGAAAAAATGAA
AAATTCATGAAATAAAAGGAATTTTTCAAAAATA
Found at i:996109 original size:85 final size:84
Alignment explanation
Indices: 995908--996353 Score: 455
Period size: 85 Copynumber: 5.3 Consensus size: 84
995898 GATTAAAATT
* * * * *
995908 GACAAGTCAACAATGGATAAAAAGATTTACCTGTGACTAAGCAAATAAGTAAATAAAGGATAAAG
1 GACAAGTCAACAAAGGATAAAAGGATTTACCCGAGACTAAGC-AATAAGTAAACAAAGGATAAAG
* *
995973 AGGTTGA-CCGGATTGAGCC
65 AGGTTGATCAGGATTGAACC
* * * * * * * *
995992 AATAAGCCAACAAAAGATAAAAGGATTCACCCGGGAATAAGTCAATAAGTAAACAAAAGATAAAG
1 GACAAGTCAACAAAGGATAAAAGGATTTACCCGAGACTAAG-CAATAAGTAAACAAAGGATAAAG
* *
996057 AGGATGATCGGGATTGAACC
65 AGGTTGATCAGGATTGAACC
* * * * * *
996077 GACAAGTCAACAAAGGACAAAAGCATTTACCCGAGACTAAGCCGATAGGTAGACAAAGGATAAAT
1 GACAAGTCAACAAAGGATAAAAGGATTTACCCGAGACTAAG-CAATAAGTAAACAAAGGATAAAG
* *
996142 AGGTTGATCAAGATTGAACG
65 AGGTTGATCAGGATTGAACC
* * * *
996162 GACAAGTCAACAACA-GATAAAAGGATTTTCCCGAGACTAAGCTAACAAGTAGACAAAGGACAAA
1 GACAAGTCAACAA-AGGATAAAAGGATTTACCCGAGACTAAGC-AATAAGTAAACAAAGGATAAA
* * *
996226 AATGTTGATTAGGATTGAACC
64 GAGGTTGATCAGGATTGAACC
* ** * * *
996247 AACAAGTCAACAAAGGATAAAAGGATTTACTTGAGACTAAGCCAACATGTAAACAAAGGACAAAG
1 GACAAGTCAACAAAGGATAAAAGGATTTACCCGAGACTAAG-CAATAAGTAAACAAAGGATAAAG
**
996312 AGGTTGATTGGGATTGAACC
65 AGGTTGATCAGGATTGAACC
*
996332 GACAAGCCAACAAAGGATAAAA
1 GACAAGTCAACAAAGGATAAAA
996354 TGTGATACCT
Statistics
Matches: 299, Mismatches: 57, Indels: 11
0.81 0.16 0.03
Matches are distributed among these distances:
84 59 0.20
85 238 0.80
86 2 0.01
ACGTcount: A:0.46, C:0.15, G:0.22, T:0.17
Consensus pattern (84 bp):
GACAAGTCAACAAAGGATAAAAGGATTTACCCGAGACTAAGCAATAAGTAAACAAAGGATAAAGA
GGTTGATCAGGATTGAACC
Found at i:996252 original size:42 final size:40
Alignment explanation
Indices: 996205--996353 Score: 106
Period size: 42 Copynumber: 3.5 Consensus size: 40
996195 AGACTAAGCT
996205 AACAAGTAGACAAAGGACAAAAATGTTGATTAGGATTGAACC
1 AACAAGTA-ACAAAGGACAAAAATGTTGATT-GGATTGAACC
* *
996247 AACAAGTCAACAAAGGATAAAAGGAT-TT-ACTTGAGACT-AAGCC
1 AACAAGT-AACAAAGGACAAAA--ATGTTGA-TTG-GATTGAA-CC
* * *
996290 AACATGTAAACAAAGGACAAAGAGGTTGATTGGGATTGAACC
1 AACAAGT-AACAAAGGACAAAAATGTTGATT-GGATTGAACC
* * *
996332 GACAAGCCAACAAAGGATAAAA
1 AACAAG-TAACAAAGGACAAAA
996354 TGTGATACCT
Statistics
Matches: 83, Mismatches: 13, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
41 1 0.01
42 48 0.58
43 32 0.39
44 2 0.02
ACGTcount: A:0.48, C:0.14, G:0.21, T:0.17
Consensus pattern (40 bp):
AACAAGTAACAAAGGACAAAAATGTTGATTGGATTGAACC
Found at i:996441 original size:35 final size:36
Alignment explanation
Indices: 996402--996478 Score: 84
Period size: 36 Copynumber: 2.2 Consensus size: 36
996392 AACCATCACA
* **
996402 TCAAACCAGGA-CAAAAGGAGTTTGACCAGATACAG
1 TCAAACCAGAATCAAAAAAAGTTTGACCAGATACAG
* * * *
996437 TCAAACGATAATGAAAAAAAGTTTGACTAGATACAG
1 TCAAACCAGAATCAAAAAAAGTTTGACCAGATACAG
996473 TCAAAC
1 TCAAAC
996479 GATGATGGAA
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
35 8 0.24
36 26 0.76
ACGTcount: A:0.47, C:0.17, G:0.18, T:0.18
Consensus pattern (36 bp):
TCAAACCAGAATCAAAAAAAGTTTGACCAGATACAG
Found at i:996504 original size:35 final size:35
Alignment explanation
Indices: 996419--997148 Score: 491
Period size: 35 Copynumber: 20.7 Consensus size: 35
996409 AGGACAAAAG
* *
996419 GAGTTTGACCAGATACAGTCAAACGATAATGAAAAA
1 GAGTTTGACCAGATACAGTCAAACGATGATG-GAAA
* *
996455 AAGTTTGACTAGATACAGTCAAACGATGATGGAAA
1 GAGTTTGACCAGATACAGTCAAACGATGATGGAAA
* * * *
996490 GTGTTTGACGAGATACAGTCAAATGATGATTGAAA
1 GAGTTTGACCAGATACAGTCAAACGATGATGGAAA
* * * * *
996525 GAGCTTGACTAGATATAGCCAAACGATGATGGAAT
1 GAGTTTGACCAGATACAGTCAAACGATGATGGAAA
*
996560 GAGTTTGACCAGGTACAGTCAAACGATGATGGAAA
1 GAGTTTGACCAGATACAGTCAAACGATGATGGAAA
* * * * * *
996595 GTGTTTGACTAGGTATAGTCAAATGATGATGAAAA
1 GAGTTTGACCAGATACAGTCAAACGATGATGGAAA
* *
996630 GAGTTT-----GAT--AGTCAAATGATAATGGACAA
1 GAGTTTGACCAGATACAGTCAAACGATGATGGA-AA
* *
996659 -AGTTTGAGCAGATACAGTCAAATGATGAT--AAA
1 GAGTTTGACCAGATACAGTCAAACGATGATGGAAA
* ** *
996691 GAGATTTTAATTAGATACAGTCAAACGATGATGGAGA
1 GAG--TTTGACCAGATACAGTCAAACGATGATGGAAA
* * * * *
996728 GAGTTTGACCAAATATAGTCAAATGATGGTGGAGA
1 GAGTTTGACCAGATACAGTCAAACGATGATGGAAA
* * *
996763 GGGTTTGACCAGATATAGTCAAACGATGATGGAGA
1 GAGTTTGACCAGATACAGTCAAACGATGATGGAAA
* * * * *
996798 GAGTTTGACCAAATATAGTCAAATGATGGTGGAGA
1 GAGTTTGACCAGATACAGTCAAACGATGATGGAAA
* * * *
996833 GGGTTTGACCAGATATAGTCAAACAATGATAGAAA
1 GAGTTTGACCAGATACAGTCAAACGATGATGGAAA
* * * *
996868 -AGGTTTGACTAAATACATTCAAATGATGATGGATAAGATGATGGAGA
1 GA-GTTTGACCAGATACAGTC-AA--ACGAT-GAT--G--GA---A-A
** * *
996915 GAGTTTGACTGGATACACTCAAACGATGATGGAGA
1 GAGTTTGACCAGATACAGTCAAACGATGATGGAAA
** * **
996950 GAGTTTGACTGGATACAATCAAACGATGAAAGAAA
1 GAGTTTGACCAGATACAGTCAAACGATGATGGAAA
* * * * * *
996985 GGGTTTAATC-GAATATAGTCAAATGATGAGGGAAA
1 GAGTTTGACCAG-ATACAGTCAAACGATGATGGAAA
* * *
997020 GGGTTTGACCAAATACAGTTAAACGATTG-TGGAAA
1 GAGTTTGACCAGATACAGTCAAACGA-TGATGGAAA
* * * *
997055 AAGTTTGACCGGATATAGTCAAATGATGATGGAAA
1 GAGTTTGACCAGATACAGTCAAACGATGATGGAAA
* * *
997090 AAGTTTGACCTA-ATATAGTCAAATGATGATGGAAA
1 GAGTTTGACC-AGATACAGTCAAACGATGATGGAAA
*
997125 AAGTTTGACCAGAT-CTAGTCAAAC
1 GAGTTTGACCAGATAC-AGTCAAAC
997149 AAGAGAAAAT
Statistics
Matches: 557, Mismatches: 103, Indels: 69
0.76 0.14 0.09
Matches are distributed among these distances:
28 20 0.04
29 2 0.00
30 2 0.00
32 2 0.00
33 6 0.01
34 4 0.01
35 446 0.80
36 32 0.06
37 5 0.01
38 3 0.01
39 5 0.01
41 1 0.00
43 5 0.01
44 4 0.01
46 3 0.01
47 16 0.03
48 1 0.00
ACGTcount: A:0.40, C:0.10, G:0.25, T:0.25
Consensus pattern (35 bp):
GAGTTTGACCAGATACAGTCAAACGATGATGGAAA
Found at i:996718 original size:168 final size:168
Alignment explanation
Indices: 996415--996805 Score: 414
Period size: 168 Copynumber: 2.3 Consensus size: 168
996405 AACCAGGACA
* * * *
996415 AAAGGAGTTTGACCAGATACAGTCAAACGATAATGAAAAAAAGTTTGACTAGATACAGTCAAACG
1 AAAGG-GTTTGACCAGATATAGTCAAACGATGATG-AAAAGAG-TT---T-GAT--AGTCAAATG
* * * *
996480 ATGATGGA-AAGTGTTTGACGAGATACAGTCAAATGATGATTGAAAGAGCTTGACTAGATATAGC
57 ATAATGGACAA-AGTTTGACGAGATACAGTCAAATGATGATTGAAAGAGCTTAACTAGATACAGC
**
996544 CAAACGATGATGGA-ATGAGTTTGACCAGGTACAGTCAAACGATGATGG
121 CAAACGATGATGGAGA-GAGTTTGACCAAATACAGTCAAACGATGATGG
* * * *
996592 AAAGTGTTTGACTAGGTATAGTCAAATGATGATGAAAAGAGTTTGATAGTCAAATGATAATGGAC
1 AAAGGGTTTGACCAGATATAGTCAAACGATGATGAAAAGAGTTTGATAGTCAAATGATAATGGAC
* * *
996657 AAAGTTTGA-GCAGATACAGTCAAATGATGA-T-AAAGAGATTTTAATTAGATACAGTCAAACGA
66 AAAGTTTGACG-AGATACAGTCAAATGATGATTGAAAGAG--CTTAACTAGATACAGCCAAACGA
* * *
996719 TGATGGAGAGAGTTTGACCAAATATAGTCAAATGATGGTGG
128 TGATGGAGAGAGTTTGACCAAATACAGTCAAACGATGATGG
* * *
996760 AGAGGGTTTGACCAGATATAGTCAAACGATGATGGAGAGAGTTTGA
1 AAAGGGTTTGACCAGATATAGTCAAACGATGATGAAAAGAGTTTGA
996806 CCAAATATAG
Statistics
Matches: 182, Mismatches: 27, Indels: 19
0.80 0.12 0.08
Matches are distributed among these distances:
166 6 0.03
167 2 0.01
168 131 0.72
169 3 0.02
170 3 0.02
171 1 0.01
174 2 0.01
175 6 0.03
176 24 0.13
177 4 0.02
ACGTcount: A:0.40, C:0.10, G:0.26, T:0.25
Consensus pattern (168 bp):
AAAGGGTTTGACCAGATATAGTCAAACGATGATGAAAAGAGTTTGATAGTCAAATGATAATGGAC
AAAGTTTGACGAGATACAGTCAAATGATGATTGAAAGAGCTTAACTAGATACAGCCAAACGATGA
TGGAGAGAGTTTGACCAAATACAGTCAAACGATGATGG
Found at i:996806 original size:203 final size:204
Alignment explanation
Indices: 996435--996825 Score: 486
Period size: 203 Copynumber: 1.9 Consensus size: 204
996425 GACCAGATAC
* *
996435 AGTCAAACGATAATGAAAAAAAGTTTGACTAGATACAGTCAAACGATGATGGAAAGTGTTTGACG
1 AGTCAAACGATAATGAAAAAAAGTTTGACTAGATACAGTCAAACGATGATGAAAAGTGTTTAACG
* * * *
996500 AGATACAGTCAAATGATGATTGAAAGAGCTTGACTAGATATAGCCAAACGATGATGGAATGAGTT
66 AGATACAGTCAAACGATGATGGAAAGAGCTTGACCAAATATAGCCAAACGATGATGGAATGAGTT
* * * **
996565 TGACCAGGTACAGTCAAACGATGATGGAAAGTGTTTGACTAGGTATAGTCAAATGATGATGAAAA
131 TGACCAGATACAGTCAAACGATGATGGAAAGAGTTTGACCAAATATAGTCAAATGATGATGAAAA
996630 GAGTTTGAT
196 GAGTTTGAT
* * * *
996639 AGTCAAATGATAATG-GACAAAGTTTGAGC-AGATACAGTCAAATGATGAT-AAAGAGAT-TTTA
1 AGTCAAACGATAATGAAAAAAAGTTTGA-CTAGATACAGTCAAACGATGATGAAA-AG-TGTTTA
** * * * * *
996700 ATTAGATACAGTCAAACGATGATGGAGAGAGTTTGACCAAATATAGTCAAATGATGGTGGAGA-G
63 ACGAGATACAGTCAAACGATGATGGAAAGAGCTTGACCAAATATAGCCAAACGATGATGGA-ATG
* * *
996764 GGTTTGACCAGATATAGTCAAACGATGATGGAGAGAGTTTGACCAAATATAGTCAAATGATG
127 AGTTTGACCAGATACAGTCAAACGATGATGGAAAGAGTTTGACCAAATATAGTCAAATGATG
996826 GTGGAGAGGG
Statistics
Matches: 158, Mismatches: 25, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
202 2 0.01
203 139 0.88
204 17 0.11
ACGTcount: A:0.40, C:0.10, G:0.25, T:0.25
Consensus pattern (204 bp):
AGTCAAACGATAATGAAAAAAAGTTTGACTAGATACAGTCAAACGATGATGAAAAGTGTTTAACG
AGATACAGTCAAACGATGATGGAAAGAGCTTGACCAAATATAGCCAAACGATGATGGAATGAGTT
TGACCAGATACAGTCAAACGATGATGGAAAGAGTTTGACCAAATATAGTCAAATGATGATGAAAA
GAGTTTGAT
Found at i:997007 original size:117 final size:117
Alignment explanation
Indices: 996787--997013 Score: 267
Period size: 117 Copynumber: 1.9 Consensus size: 117
996777 ATAGTCAAAC
* * * * * * *
996787 GATGATGGAGAGAGTTTGACCAAATATAGTCAAATGATGGTGGAGAGGGTTTGACCAGATATAGT
1 GATGATGGAGAGAGTTTGACCAAATACACTCAAACGATGATGGAGAGAGTTTGACCAGATACAAT
* * *
996852 CAAACAATGATAGAAAAGGTTTGACTAAATACATTCAAATGATGATGGATAA
66 CAAACAATGAAAGAAAAGGTTTAACTAAATACAGTCAAATGATGATGGATAA
*** **
996904 GATGATGGAGAGAGTTTGACTGGATACACTCAAACGATGATGGAGAGAGTTTGACTGGATACAAT
1 GATGATGGAGAGAGTTTGACCAAATACACTCAAACGATGATGGAGAGAGTTTGACCAGATACAAT
* * * *
996969 CAAACGATGAAAGAAAGGGTTTAA-TCGAATATAGTCAAATGATGA
66 CAAACAATGAAAGAAAAGGTTTAACT-AAATACAGTCAAATGATGA
997014 GGGAAAGGGT
Statistics
Matches: 90, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
116 1 0.01
117 89 0.99
ACGTcount: A:0.40, C:0.09, G:0.26, T:0.25
Consensus pattern (117 bp):
GATGATGGAGAGAGTTTGACCAAATACACTCAAACGATGATGGAGAGAGTTTGACCAGATACAAT
CAAACAATGAAAGAAAAGGTTTAACTAAATACAGTCAAATGATGATGGATAA
Found at i:997034 original size:152 final size:152
Alignment explanation
Indices: 996752--997036 Score: 338
Period size: 152 Copynumber: 1.9 Consensus size: 152
996742 ATAGTCAAAT
* * * * * *
996752 GATGGTGGAGAGGGTTTGACCAGATATAGTCAAACGATGATGGAGAGAGTTTGACCAAATATAGT
1 GATGATGGAGAGAGTTTGACCAGATACACTCAAACGATGATGGAGAGAGTTTGACCAAATACAAT
* *** * * * *
996817 CAAATGATGGTGGAGAGGGTTTGACCAGATATAGTCAAACAATGATAGAAAAGGTTTGACTAAAT
66 CAAACGATGAAAGAAAGGGTTTAACCAGATATAGTCAAACAATGAGAGAAAAGGTTTGACCAAAT
996882 ACATTCAAATGATGATGGATAA
131 ACATTCAAATGATGATGGATAA
** ***
996904 GATGATGGAGAGAGTTTGACTGGATACACTCAAACGATGATGGAGAGAGTTTGACTGGATACAAT
1 GATGATGGAGAGAGTTTGACCAGATACACTCAAACGATGATGGAGAGAGTTTGACCAAATACAAT
* ** * *
996969 CAAACGATGAAAGAAAGGGTTTAATC-GAATATAGTCAAATGATGAGGGAAAGGGTTTGACCAAA
66 CAAACGATGAAAGAAAGGGTTTAACCAG-ATATAGTCAAACAATGAGAGAAAAGGTTTGACCAAA
997033 TACA
130 TACA
997037 GTTAAACGAT
Statistics
Matches: 108, Mismatches: 24, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
151 1 0.01
152 107 0.99
ACGTcount: A:0.39, C:0.10, G:0.28, T:0.24
Consensus pattern (152 bp):
GATGATGGAGAGAGTTTGACCAGATACACTCAAACGATGATGGAGAGAGTTTGACCAAATACAAT
CAAACGATGAAAGAAAGGGTTTAACCAGATATAGTCAAACAATGAGAGAAAAGGTTTGACCAAAT
ACATTCAAATGATGATGGATAA
Found at i:997063 original size:187 final size:187
Alignment explanation
Indices: 996717--997087 Score: 431
Period size: 187 Copynumber: 2.0 Consensus size: 187
996707 ACAGTCAAAC
* * * * * * *
996717 GATGATGGAGAGAGTTTGACCAAATATAGTCAAATGATGGTGGAGAGGGTTTGACCAGATATAGT
1 GATGATGGAGAGAGTTTGACCAAATACACTCAAACGATGATGGAGAGAGTTTGACCAGATACAAT
** * * * *
996782 CAAACGATGATGGAGAGAGTTTGACCAAATATAGTCAAATGATGGTGGAGAGGGTTTGACCAGAT
66 CAAACGATGAAAGAAAGAGTTTAACCAAATATAGTCAAATGATGGTGGAAAGGGTTTGACCAAAT
* * * *
996847 ATAGTCAAACAATGATAGAAAAGGTTTGACTAAATACATTCAAATGATGATGGATAA
131 ACAGTCAAACAATGATAGAAAAAGTTTGACCAAATACAGTCAAATGATGATGGATAA
*** **
996904 GATGATGGAGAGAGTTTGACTGGATACACTCAAACGATGATGGAGAGAGTTTGACTGGATACAAT
1 GATGATGGAGAGAGTTTGACCAAATACACTCAAACGATGATGGAGAGAGTTTGACCAGATACAAT
* * *
996969 CAAACGATGAAAGAAAGGGTTTAATCGAATATAGTCAAATGATGAG-GGAAAGGGTTTGACCAAA
66 CAAACGATGAAAGAAAGAGTTTAACCAAATATAGTCAAATGATG-GTGGAAAGGGTTTGACCAAA
* * * ** *
997033 TACAGTTAAACGATTG-TGGAAAAAGTTTGACCGGATATAGTCAAATGATGATGGA
130 TACAGTCAAAC-AATGATAGAAAAAGTTTGACCAAATACAGTCAAATGATGATGGA
997088 AAAAGTTTGA
Statistics
Matches: 151, Mismatches: 31, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
187 147 0.97
188 4 0.03
ACGTcount: A:0.39, C:0.09, G:0.27, T:0.25
Consensus pattern (187 bp):
GATGATGGAGAGAGTTTGACCAAATACACTCAAACGATGATGGAGAGAGTTTGACCAGATACAAT
CAAACGATGAAAGAAAGAGTTTAACCAAATATAGTCAAATGATGGTGGAAAGGGTTTGACCAAAT
ACAGTCAAACAATGATAGAAAAAGTTTGACCAAATACAGTCAAATGATGATGGATAA
Found at i:997098 original size:222 final size:222
Alignment explanation
Indices: 996704--997122 Score: 527
Period size: 222 Copynumber: 1.9 Consensus size: 222
996694 ATTTTAATTA
* * * * *** *
996704 GATACAGTCAAACGATGATGGAGAGAGTTTGACCAAATATAGTCAAATGATGGTGGAGAGGGTTT
1 GATACACTCAAACGATGATGGAGAGAGTTTGACCAAATACAATCAAACGATGAAAGAAAGGGTTT
* * * * * * *
996769 GACCAGATATAGTCAAACGATGATGGAGAGAGTTTGACCAAATATAGTCAAATGATGGTGGAGAG
66 AACCAGATATAGTCAAACGATGAGGGAAAGAGTTTGACCAAATACAGTCAAACGATGGTGGAAAA
* * *
996834 GGTTTGACCAGATATAGTCAAACAATGATAGAAAAGGTTTGA-CTAAATACATTCAAATGATGAT
131 AGTTTGACCAGATATAGTCAAACAATGATAGAAAAAGTTTGACCT-AATACAGTCAAATGATGAT
996898 GGATAAGATGATGGAGAGAGTTTGACTG
195 GGATAAGATGATGGAGAGAGTTTGACTG
***
996926 GATACACTCAAACGATGATGGAGAGAGTTTGACTGGATACAATCAAACGATGAAAGAAAGGGTTT
1 GATACACTCAAACGATGATGGAGAGAGTTTGACCAAATACAATCAAACGATGAAAGAAAGGGTTT
* * * * *
996991 AATC-GAATATAGTCAAATGATGAGGGAAAGGGTTTGACCAAATACAGTTAAACGATTGTGGAAA
66 AACCAG-ATATAGTCAAACGATGAGGGAAAGAGTTTGACCAAATACAGTCAAACGATGGTGGAAA
* ** * *
997055 AAGTTTGACCGGATATAGTCAAATGATGATGGAAAAAGTTTGACCTAATATAGTCAAATGATGAT
130 AAGTTTGACCAGATATAGTCAAACAATGATAGAAAAAGTTTGACCTAATACAGTCAAATGATGAT
997120 GGA
195 GGA
997123 AAAAGTTTGA
Statistics
Matches: 164, Mismatches: 31, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
221 1 0.01
222 161 0.98
223 2 0.01
ACGTcount: A:0.39, C:0.10, G:0.26, T:0.25
Consensus pattern (222 bp):
GATACACTCAAACGATGATGGAGAGAGTTTGACCAAATACAATCAAACGATGAAAGAAAGGGTTT
AACCAGATATAGTCAAACGATGAGGGAAAGAGTTTGACCAAATACAGTCAAACGATGGTGGAAAA
AGTTTGACCAGATATAGTCAAACAATGATAGAAAAAGTTTGACCTAATACAGTCAAATGATGATG
GATAAGATGATGGAGAGAGTTTGACTG
Found at i:999203 original size:21 final size:22
Alignment explanation
Indices: 999160--999204 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
999150 AAGATGCAGG
*
999160 TTTCTTCATTTTCTCATCTTTT
1 TTTCTTCATTATCTCATCTTTT
999182 TTTCTT-ATTATCTGCA-CTTTT
1 TTTCTTCATTATCT-CATCTTTT
999203 TT
1 TT
999205 CATTTCATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.11, C:0.20, G:0.02, T:0.67
Consensus pattern (22 bp):
TTTCTTCATTATCTCATCTTTT
Found at i:1008218 original size:83 final size:83
Alignment explanation
Indices: 1008097--1008334 Score: 246
Period size: 83 Copynumber: 2.9 Consensus size: 83
1008087 GCCAACAAGC
* *
1008097 AAACAAGAGATGAAAGGTTGACTAGGGCTCAACCGATAAGTCAACAAAGGGTAAAGGAGTTTACC
1 AAAC-AGAGATGAAAAGTTGACTAGGGCTAAACCGATAAGTCAACAAAGGGTAAAGGAGTTTACC
*
1008162 AAGGACTAAGCTGATGAGT
65 AAGGACTAAGCCGATGAGT
* ** * * * * *
1008181 AAACAGAGATGAAAAGTTGACCAGGGCTAAATTGATAAGCCAACAAAAGATAAAGGAGTTCACTA
1 AAACAGAGATGAAAAGTTGACTAGGGCTAAACCGATAAGTCAACAAAGGGTAAAGGAGTTTACCA
* * *
1008246 A-GATTGAGCCGATGGGT
66 AGGACTAAGCCGATGAGT
* * * * * *
1008263 AAGCAAAGGAT-AAAAGGTTGACTAAGGCTGAACCGATAAGTTAACAAAGGGTAAAAGAGTTTAC
1 AAACAGA-GATGAAAA-GTTGACTAGGGCTAAACCGATAAGTCAACAAAGGGTAAAGGAGTTTAC
*
1008327 CAGGGACT
64 CAAGGACT
1008335 GGACTGATAG
Statistics
Matches: 121, Mismatches: 30, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
82 21 0.17
83 93 0.77
84 7 0.06
ACGTcount: A:0.42, C:0.13, G:0.26, T:0.18
Consensus pattern (83 bp):
AAACAGAGATGAAAAGTTGACTAGGGCTAAACCGATAAGTCAACAAAGGGTAAAGGAGTTTACCA
AGGACTAAGCCGATGAGT
Found at i:1008724 original size:20 final size:20
Alignment explanation
Indices: 1008681--1008735 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
1008671 GTATCGATAC
* **
1008681 ATTGCATCGATACAT-GTTA
1 ATTGTATCGATACATGGACA
1008700 ATTGTATCGATACATGGACA
1 ATTGTATCGATACATGGACA
1008720 ATTGTATCGATACATG
1 ATTGTATCGATACATG
1008736 AGATTGGCAG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 14 0.44
20 18 0.56
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.35
Consensus pattern (20 bp):
ATTGTATCGATACATGGACA
Found at i:1008790 original size:20 final size:20
Alignment explanation
Indices: 1008765--1008802 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1008755 TACCATTGTT
*
1008765 TGTATCGATACATGGTATAA
1 TGTATCCATACATGGTATAA
*
1008785 TGTATCCATACATTGTAT
1 TGTATCCATACATGGTAT
1008803 CGATACATGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.39
Consensus pattern (20 bp):
TGTATCCATACATGGTATAA
Found at i:1008804 original size:33 final size:33
Alignment explanation
Indices: 1008764--1008830 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
1008754 CTACCATTGT
*
1008764 TTGTATCGATACATGGTATAA-TGTATCCATACA
1 TTGTATCGATACATGAT-TAATTGTATCCATACA
*
1008797 TTGTATCGATACATGATTAATTGTATCGATACA
1 TTGTATCGATACATGATTAATTGTATCCATACA
1008830 T
1 T
1008831 AGCTTGTAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 3 0.10
33 28 0.90
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (33 bp):
TTGTATCGATACATGATTAATTGTATCCATACA
Found at i:1016018 original size:52 final size:52
Alignment explanation
Indices: 1015940--1016140 Score: 341
Period size: 52 Copynumber: 3.9 Consensus size: 52
1015930 CGAAATATGA
*
1015940 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTGTATAGTGTATCGATACATCTGGGC
*
1015992 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTGTATAGTGTATCGATACATCTGGGC
*
1016044 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTGTATAGTGTATCGATACATCTGGGC
**
1016096 AAATTTGCCTGCATGTATCGATACAAAG-ATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGTAT-AGTGTATCGATACA
1016141 ATGTATCGAT
Statistics
Matches: 143, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
51 2 0.01
52 141 0.99
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTGTATAGTGTATCGATACATCTGGGC
Found at i:1016147 original size:13 final size:13
Alignment explanation
Indices: 1016129--1016153 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1016119 CAAAGATCAG
1016129 TGTATCGATACAA
1 TGTATCGATACAA
1016142 TGTATCGATACA
1 TGTATCGATACA
1016154 TTTAAGTGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1016234 original size:13 final size:13
Alignment explanation
Indices: 1016216--1016240 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1016206 CAAAAAAACA
1016216 TGTATCGATACAT
1 TGTATCGATACAT
1016229 TGTATCGATACA
1 TGTATCGATACA
1016241 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1016339 original size:21 final size:21
Alignment explanation
Indices: 1016298--1016339 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1016288 GTTGGGACCT
*
1016298 TGTATCGATACATTTTAACAA
1 TGTATCGATACATTTGAACAA
*
1016319 TGTATCGATACATTTGGACAA
1 TGTATCGATACATTTGAACAA
1016340 AAATGTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTTGAACAA
Found at i:1019741 original size:20 final size:19
Alignment explanation
Indices: 1019698--1019742 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
1019688 GTATCGATAC
* **
1019698 ATTGTATTGATACATGTTA
1 ATTGTATCGATACATGACA
1019717 ATTGTATCGATACATGGACA
1 ATTGTATCGATACAT-GACA
1019737 ATTGTA
1 ATTGTA
1019743 CCAATACATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (19 bp):
ATTGTATCGATACATGACA
Found at i:1019818 original size:13 final size:13
Alignment explanation
Indices: 1019797--1019828 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
1019787 CGATACATGG
1019797 TACAATGTATCGA
1 TACAATGTATCGA
*
1019810 TACATTGTATCGA
1 TACAATGTATCGA
1019823 TACAAT
1 TACAAT
1019829 TCATCATGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (13 bp):
TACAATGTATCGA
Found at i:1020797 original size:44 final size:44
Alignment explanation
Indices: 1020707--1020814 Score: 121
Period size: 44 Copynumber: 2.5 Consensus size: 44
1020697 AAAAAATTAA
* * *
1020707 ACCAGGGTGGTAACCATACGCCATATTAACATAATAAGAATCTG
1 ACCAGGGTGGTAACCATACGCCAGACTAACATAAGAAGAATCTG
* *
1020751 ACCAGGGTGGTAACCATACGCCAGACCTAA-ATGAGAA-ACATTTG
1 ACCAGGGTGGTAACCATACGCCAGA-CTAACATAAGAAGA-ATCTG
* *
1020795 ACCAGAGTGGTAATCATACG
1 ACCAGGGTGGTAACCATACG
1020815 TCAAACGGGA
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
43 1 0.02
44 51 0.93
45 3 0.05
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.20
Consensus pattern (44 bp):
ACCAGGGTGGTAACCATACGCCAGACTAACATAAGAAGAATCTG
Found at i:1021143 original size:44 final size:44
Alignment explanation
Indices: 1021076--1021189 Score: 167
Period size: 44 Copynumber: 2.6 Consensus size: 44
1021066 ACTAAGTAAG
*
1021076 AAGAGTTTGACCAGGGTGATAACCATACGTCAAATAGAAAAGAAA
1 AAGAGTTTGACCAGGGTGGTAACCATACGTCAAATAG-AAAGAAA
* * * *
1021121 AAGA-TTTGACCAAGGTGGTAACCATATGTCAAATCGAAATAAA
1 AAGAGTTTGACCAGGGTGGTAACCATACGTCAAATAGAAAGAAA
1021164 AAGAGTTTGACCAGGGTGGTAACCAT
1 AAGAGTTTGACCAGGGTGGTAACCAT
1021190 GCATTAAATC
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
43 10 0.16
44 48 0.77
45 4 0.06
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (44 bp):
AAGAGTTTGACCAGGGTGGTAACCATACGTCAAATAGAAAGAAA
Found at i:1021206 original size:158 final size:158
Alignment explanation
Indices: 1020918--1021212 Score: 387
Period size: 158 Copynumber: 1.9 Consensus size: 158
1020908 CCGACTTGAA
* * * *** *
1020918 AAGAGTTTGACTAGGGTGGTTACCATACGTCAAACAAGAAAAAGGCAGATTTGGCCAAGGTGGTA
1 AAGAGTTTGACCAGGGTGATAACCATACGTCAAACAAGAAAAAAAAAGATTTGACCAAGGTGGTA
* * * ** *
1020983 ACCATGTGTCAAATTAGAATGAAAAGAATCTAACCAGGGTGGTAACCATGTGTCAAATTAGAATG
66 ACCATATGTCAAATGAGAATAAAAAGAATCTAACCAGGGTGGTAACCATGCATCAAATCAGAATG
1021048 AAAAGAATCATACGTCAAACTAAGTAAG
131 AAAAGAATCATACGTCAAACTAAGTAAG
*
1021076 AAGAGTTTGACCAGGGTGATAACCATACGTCAAA-TAGAAAAGAAAAAGATTTGACCAAGGTGGT
1 AAGAGTTTGACCAGGGTGATAACCATACGTCAAACAAGAAAA-AAAAAGATTTGACCAAGGTGGT
* * * * *
1021140 AACCATATGTCAAATCGA-AATAAAAAGAGTTTGACCAGGGTGGTAACCATGCATTAAATCATAA
65 AACCATATGTCAAAT-GAGAATAAAAAGAATCTAACCAGGGTGGTAACCATGCATCAAATCAGAA
1021204 TGAAAAGAA
129 TGAAAAGAA
1021213 CCTGACTAGA
Statistics
Matches: 116, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
157 6 0.05
158 109 0.94
159 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.22, T:0.22
Consensus pattern (158 bp):
AAGAGTTTGACCAGGGTGATAACCATACGTCAAACAAGAAAAAAAAAGATTTGACCAAGGTGGTA
ACCATATGTCAAATGAGAATAAAAAGAATCTAACCAGGGTGGTAACCATGCATCAAATCAGAATG
AAAAGAATCATACGTCAAACTAAGTAAG
Found at i:1021210 original size:44 final size:42
Alignment explanation
Indices: 1021076--1021211 Score: 123
Period size: 44 Copynumber: 3.1 Consensus size: 42
1021066 ACTAAGTAAG
* * * * *
1021076 AAGAGTTTGACCAGGGTGATAACCATACGTCAAATAGAAAAGAA
1 AAGAGTTTGACCAGGGTGGTAACCAT-CATTAAAT-CAAATGAA
* *
1021120 AA-AGATTTGACCAAGGTGGTAACCAT-ATGTCAAATCGAAATAAA
1 AAGAG-TTTGACCAGGGTGGTAACCATCAT-T-AAATC-AAATGAA
1021164 AAGAGTTTGACCAGGGTGGTAACCATGCATTAAATCATAATGAA
1 AAGAGTTTGACCAGGGTGGTAACCAT-CATTAAATCA-AATGAA
1021208 AAGA
1 AAGA
1021212 ACCTGACTAG
Statistics
Matches: 75, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
42 1 0.01
43 3 0.04
44 66 0.88
45 3 0.04
46 2 0.03
ACGTcount: A:0.44, C:0.13, G:0.21, T:0.21
Consensus pattern (42 bp):
AAGAGTTTGACCAGGGTGGTAACCATCATTAAATCAAATGAA
Found at i:1021371 original size:35 final size:35
Alignment explanation
Indices: 1021315--1021563 Score: 277
Period size: 35 Copynumber: 7.1 Consensus size: 35
1021305 AAAGTACAGC
* *
1021315 CAAACGATGATAGG-AATAGTTTGTCCAGATATAGT
1 CAAACGATGAT-GGAAAGAGTTTGACCAGATATAGT
*
1021350 CAAACGATGATGGGAAGAGTTTGACCAGATATAGT
1 CAAACGATGATGGAAAGAGTTTGACCAGATATAGT
* * *
1021385 CAAACGATGGTGGAAAGAGTTTGAACAGATATAGC
1 CAAACGATGATGGAAAGAGTTTGACCAGATATAGT
* * * *
1021420 CAAACTATGATGAAAAGAGTTTGATCAGATGTAGT
1 CAAACGATGATGGAAAGAGTTTGACCAGATATAGT
* * * **
1021455 CAAACGATGATGAAAAGAGTTTGACTAGATACAAC
1 CAAACGATGATGGAAAGAGTTTGACCAGATATAGT
* * *
1021490 CAAACAATGATGGAAAGAGTTTGACCAAATACAG-
1 CAAACGATGATGGAAAGAGTTTGACCAGATATAGT
* * *
1021524 CAAAACGATGATAGAAAGAGTTTGATCAGATACAGT
1 C-AAACGATGATGGAAAGAGTTTGACCAGATATAGT
1021560 CAAA
1 CAAA
1021564 TGAGAGAAAA
Statistics
Matches: 183, Mismatches: 28, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
34 3 0.02
35 179 0.98
36 1 0.01
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.22
Consensus pattern (35 bp):
CAAACGATGATGGAAAGAGTTTGACCAGATATAGT
Found at i:1021460 original size:105 final size:105
Alignment explanation
Indices: 1021298--1021563 Score: 320
Period size: 105 Copynumber: 2.5 Consensus size: 105
1021288 AGGAGGCAAA
* * * *
1021298 TTTGACCAAAGTACAGCCAAACGATGATAGGAATAGTTTG-TCCAGATATAGTCAAACGATGATG
1 TTTGAACAAA-TACAGCAAAACGATGATAGAAAGAGTTTGAT-CAGATATAGTCAAACGATGATG
** * ** * *
1021362 GGAAGAGTTTGACCAGATATAGTCAAACGATGGTGGAAAGAG
64 AAAAGAGTTTGACCAGATACAACCAAACAATGATGGAAAGAG
* * * * *
1021404 TTTGAACAGATATAGCCAAACTATGAT-GAAAAGAGTTTGATCAGATGTAGTCAAACGATGATGA
1 TTTGAACAAATACAGCAAAACGATGATAG-AAAGAGTTTGATCAGATATAGTCAAACGATGATGA
*
1021468 AAAGAGTTTGACTAGATACAACCAAACAATGATGGAAAGAG
65 AAAGAGTTTGACCAGATACAACCAAACAATGATGGAAAGAG
* *
1021509 TTTGACCAAATACAGCAAAACGATGATAGAAAGAGTTTGATCAGATACAGTCAAA
1 TTTGAACAAATACAGCAAAACGATGATAGAAAGAGTTTGATCAGATATAGTCAAA
1021564 TGAGAGAAAA
Statistics
Matches: 135, Mismatches: 22, Indels: 7
0.82 0.13 0.04
Matches are distributed among these distances:
104 1 0.01
105 124 0.92
106 10 0.07
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.23
Consensus pattern (105 bp):
TTTGAACAAATACAGCAAAACGATGATAGAAAGAGTTTGATCAGATATAGTCAAACGATGATGAA
AAGAGTTTGACCAGATACAACCAAACAATGATGGAAAGAG
Found at i:1021928 original size:90 final size:90
Alignment explanation
Indices: 1021806--1021977 Score: 272
Period size: 90 Copynumber: 1.9 Consensus size: 90
1021796 GTCGGAGTAT
* * * *
1021806 CCTTGCCCCAAGGAAATCCAGCTTTATGATGCATCAATACCATCTAGTGATTGAATGAAGAGGAT
1 CCTTGCCCCAAGCAAATCAAGCTTTATGATGCATCAATAACATCTAATGATTGAATGAAGAGGAT
*
1021871 ATGATTGGGAGTGTGTGCACTGCAC
66 ATGATTGGGAATGTGTGCACTGCAC
* * *
1021896 CCTTGCCCCAAGCAAATCAAGCTTTGTTATGCATCAATAACATCTAATGGTTGAATGAAGAGGAT
1 CCTTGCCCCAAGCAAATCAAGCTTTATGATGCATCAATAACATCTAATGATTGAATGAAGAGGAT
1021961 ATGATTGGGAATGTGTG
66 ATGATTGGGAATGTGTG
1021978 GGTCACACCC
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
90 74 1.00
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (90 bp):
CCTTGCCCCAAGCAAATCAAGCTTTATGATGCATCAATAACATCTAATGATTGAATGAAGAGGAT
ATGATTGGGAATGTGTGCACTGCAC
Found at i:1024012 original size:12 final size:12
Alignment explanation
Indices: 1023995--1024027 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
1023985 AGCACTTGAA
1023995 TTTTCTTTTTCT
1 TTTTCTTTTTCT
1024007 TTTTCTTTTTTCT
1 TTTTC-TTTTTCT
1024020 TTTT-TTTT
1 TTTTCTTTT
1024028 GGTTTTTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 4 0.20
12 5 0.25
13 11 0.55
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (12 bp):
TTTTCTTTTTCT
Found at i:1024041 original size:6 final size:6
Alignment explanation
Indices: 1023995--1024027 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
1023985 AGCACTTGAA
1023995 TTTTCT TTTTCT TTTTCTT TTTTCT TTTT-T TTT
1 TTTTCT TTTTCT TTTTC-T TTTTCT TTTTCT TTT
1024028 GGTTTTTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 4 0.15
6 16 0.62
7 6 0.23
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (6 bp):
TTTTCT
Found at i:1029420 original size:20 final size:19
Alignment explanation
Indices: 1029395--1029468 Score: 78
Period size: 20 Copynumber: 3.7 Consensus size: 19
1029385 TTTTAACTAG
1029395 ATGTATCGATACATT-ATTTA
1 ATGTATCGATACATTCA--TA
1029415 ATGTATCGATACATTCATA
1 ATGTATCGATACATTCATA
* * *
1029434 CATGTATCGATACGTTGAAAA
1 -ATGTATCGATACATT-CATA
1029455 ATGTATCGATACAT
1 ATGTATCGATACAT
1029469 CTGGGTAGAA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
19 2 0.04
20 42 0.89
21 3 0.06
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (19 bp):
ATGTATCGATACATTCATA
Found at i:1030587 original size:28 final size:28
Alignment explanation
Indices: 1030461--1031179 Score: 644
Period size: 28 Copynumber: 25.4 Consensus size: 28
1030451 TAAAAAAAAG
*
1030461 AAGG-TGCCACTAACTTGTGTGGGCTTTGAA
1 AAGGATGCCACTGAC-T-TGTGGGCTTTG-A
* *
1030491 AAGAGTTGCCACCGACTTGTGTGGGCTTTGA
1 AAG-GATGCCACTGAC-T-TGTGGGCTTTGA
*
1030522 AAGGGTATGCCACCGACTTGTGTGGGCTTTGA
1 AA-GG-ATGCCACTGAC-T-TGTGGGCTTTGA
* *
1030554 AAGGGTGCCACTGACTTGCGGGCTTTGA
1 AAGGATGCCACTGACTTGTGGGCTTTGA
* * ** *
1030582 AGGGGTGCCTTTGACTTGTGGGCTTTTA
1 AAGGATGCCACTGACTTGTGGGCTTTGA
* * *
1030610 AAGGGTGCCACTAACTTGTGGGCTTTTA
1 AAGGATGCCACTGACTTGTGGGCTTTGA
* * * *
1030638 AAGGGTGCTACCGACTTGTGGTCTTTTGA
1 AAGGATGCCACTGACTTGTGGGC-TTTGA
*
1030667 AAGGATGCCATTGACTTGTGGGCTTTGA
1 AAGGATGCCACTGACTTGTGGGCTTTGA
*
1030695 AAGGATGCCATTGACTTGTGGGCTTTGA
1 AAGGATGCCACTGACTTGTGGGCTTTGA
* * *
1030723 AAGGATACTACTAACTTGTGGGCTTTGA
1 AAGGATGCCACTGACTTGTGGGCTTTGA
* *
1030751 AAGGGTGCCACTGACTCGTGGGCTTTGA
1 AAGGATGCCACTGACTTGTGGGCTTTGA
* *
1030779 AAGGGTGCCACTGACTTGTGGGCTTTAA
1 AAGGATGCCACTGACTTGTGGGCTTTGA
*
1030807 AAGGATGCCACTGACTTGTGGTCTTTTG-
1 AAGGATGCCACTGACTTGTGGGC-TTTGA
1030835 AAGAGATGCCACTGACTTGTGGGCTTTGA
1 AAG-GATGCCACTGACTTGTGGGCTTTGA
1030864 AAGGATGCCACTGACTTGTGGGCTTTGA
1 AAGGATGCCACTGACTTGTGGGCTTTGA
*
1030892 AAGGATGCCACTGACTTATGGGCTTTGA
1 AAGGATGCCACTGACTTGTGGGCTTTGA
* * * * *
1030920 AAGGGTGCCACTAACTCGGGGGGTTTGA
1 AAGGATGCCACTGACTTGTGGGCTTTGA
*
1030948 AAGGGTGCCACTGACTTGT-GGCTTTGA
1 AAGGATGCCACTGACTTGTGGGCTTTGA
* * * *
1030975 AATGATGCCAATGACTTGTAGTG-TTTTA
1 AAGGATGCCACTGACTTGT-GGGCTTTGA
1031003 AAGAGAT-CCACTGACTTGTGGGCTTTGA
1 AAG-GATGCCACTGACTTGTGGGCTTTGA
* * * * * *
1031031 AAGGGTTACCACGGAGTTGTGGAC-TTAA
1 AA-GGATGCCACTGACTTGTGGGCTTTGA
* * * * *
1031059 AAGGGTGCCACGGAGTTGTGGACTTTAA
1 AAGGATGCCACTGACTTGTGGGCTTTGA
* * * * *
1031087 AAGGGTGCCACGGAGTTGTGGACTTTAA
1 AAGGATGCCACTGACTTGTGGGCTTTGA
* * * * *
1031115 AAGGGTGCCACGGAGTTGTGGAC-TTAA
1 AAGGATGCCACTGACTTGTGGGCTTTGA
* * * * *
1031142 AATGATGCCACGGAGTTGTGGAC-TTAA
1 AAGGATGCCACTGACTTGTGGGCTTTGA
*
1031169 AAGGGTGCCAC
1 AAGGATGCCAC
1031180 GGAGTTATGG
Statistics
Matches: 603, Mismatches: 71, Indels: 33
0.85 0.10 0.05
Matches are distributed among these distances:
27 82 0.14
28 386 0.64
29 66 0.11
30 12 0.02
31 7 0.01
32 50 0.08
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (28 bp):
AAGGATGCCACTGACTTGTGGGCTTTGA
Found at i:1030798 original size:169 final size:170
Alignment explanation
Indices: 1030485--1031162 Score: 776
Period size: 169 Copynumber: 4.0 Consensus size: 170
1030475 TTGTGTGGGC
* * *
1030485 TTTGAAAAGAGTTGCCACCGACTTGTGTGGGCTTTGAAAGGGTATGCCACCGACTTGTGTGGGCT
1 TTTG-AAAGAGATGCCACTGAC-T-TGTGGGCTTTGAAA-GG-ATGCCACTGAC-T-TGTGGGCT
* * * ** * *
1030550 TTGAAAGGGTGCCACTGACTTGCGGGCTTTGAAGGGGTGCCTTTGACTTGTGGGCTTTTAAAGGG
59 TTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTCGTGGGCTTTGAAAGGG
* * * * *
1030615 TGCCACTAACTTGTGGGCTTTTAAAGGGTGCTACCGACTTGTGGTCT
124 TGCCACTGACTTGTGGGCTTTAAAAGGATGCCACTGACTTGTGGTCT
* *
1030662 TTTGAAAG-GATGCCATTGACTTGTGGGCTTTGAAAGGATGCCATTGACTTGTGGGCTTTGAAAG
1 TTTGAAAGAGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAG
* * *
1030726 GATACTACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTCGTGGGCTTTGAAAGGGTGCCACT
66 GATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTCGTGGGCTTTGAAAGGGTGCCACT
1030791 GACTTGTGGGCTTTAAAAGGATGCCACTGACTTGTGGTCT
131 GACTTGTGGGCTTTAAAAGGATGCCACTGACTTGTGGTCT
1030831 TTTG-AAGAGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAG
1 TTTGAAAGAGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAG
* * * *
1030895 GATGCCACTGACTTATGGGCTTTGAAAGGGTGCCACTAACTCGGGGGGTTTGAAAGGGTGCCACT
66 GATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTCGTGGGCTTTGAAAGGGTGCCACT
* * * * *
1030960 GACTTGT-GGCTTTGAAATGATGCCAATGACTTGTAGTGT
131 GACTTGTGGGCTTTAAAAGGATGCCACTGACTTGTGGTCT
* * * * * *
1030999 TTT-AAAGAGAT-CCACTGACTTGTGGGCTTTGAAAGGGTTACCACGGAGTTGTGGAC-TTAAAA
1 TTTGAAAGAGATGCCACTGACTTGTGGGCTTTGAAA-GGATGCCACTGACTTGTGGGCTTTGAAA
* * * * * * * * * *
1031061 GGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCAC
65 GGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTCGTGGGCTTTGAAAGGGTGCCAC
* * * * * *
1031126 GGAGTTGTGGAC-TTAAAATGATGCCACGGAGTTGTGG
130 TGACTTGTGGGCTTTAAAAGGATGCCACTGACTTGTGG
1031163 ACTTAAAAGG
Statistics
Matches: 435, Mismatches: 62, Indels: 18
0.84 0.12 0.03
Matches are distributed among these distances:
167 105 0.24
168 58 0.13
169 228 0.52
170 1 0.00
171 9 0.02
172 2 0.00
173 14 0.03
174 1 0.00
175 9 0.02
176 4 0.01
177 4 0.01
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (170 bp):
TTTGAAAGAGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAG
GATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTCGTGGGCTTTGAAAGGGTGCCACT
GACTTGTGGGCTTTAAAAGGATGCCACTGACTTGTGGTCT
Found at i:1031072 original size:27 final size:27
Alignment explanation
Indices: 1031030--1031386 Score: 464
Period size: 27 Copynumber: 13.1 Consensus size: 27
1031020 GTGGGCTTTG
*
1031030 AAAGGGTTACCACGGAGTTGTGGACTTA
1 AAAGGG-TGCCACGGAGTTGTGGACTTA
1031058 AAAGGGTGCCACGGAGTTGTGGACTTTA
1 AAAGGGTGCCACGGAGTTGTGGAC-TTA
1031086 AAAGGGTGCCACGGAGTTGTGGACTTTA
1 AAAGGGTGCCACGGAGTTGTGGAC-TTA
1031114 AAAGGGTGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
* *
1031141 AAATGATGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
*
1031168 AAAGGGTGCCACGGAGTTATGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
* * **
1031195 AAAGGTTGCCACGGAGTTATAAACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
* ** *
1031222 AAAGGTTGCCATAGAGTTATGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
* * *
1031249 AAAGGTTGCCATGGAGTTGTGAACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
* * *
1031276 AAAGGTTGCTACGGAGTTGTGGGCTT-
1 AAAGGGTGCCACGGAGTTGTGGACTTA
1031302 AAAGGGTGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
*
1031329 AAAGGTTGCCACGGAGTTGTGGACTTTA
1 AAAGGGTGCCACGGAGTTGTGGAC-TTA
* * **
1031357 GAAGGTTGCCACAAAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
1031384 AAA
1 AAA
1031387 AGGAATGCCA
Statistics
Matches: 298, Mismatches: 28, Indels: 7
0.89 0.08 0.02
Matches are distributed among these distances:
26 23 0.08
27 190 0.64
28 85 0.29
ACGTcount: A:0.29, C:0.14, G:0.32, T:0.26
Consensus pattern (27 bp):
AAAGGGTGCCACGGAGTTGTGGACTTA
Found at i:1031136 original size:56 final size:56
Alignment explanation
Indices: 1030463--1031389 Score: 624
Period size: 56 Copynumber: 16.5 Consensus size: 56
1030453 AAAAAAAGAA
* * * *
1030463 GGTGCCACTAACTTGTGTGGGCTTTGAAAAGAGTTGCCACCGACTTGTGTGGGCTTTGAAAG
1 GGTGCCACTGAC-T-TGTGGACTTT-AAAAG-GGTGCCACTGAC-T-TGTGGGCTTTGAAAG
* * * * *
1030525 GGTATGCCACCGACTTGTGTGGGCTTTGAAAGGGTGCCACTGACTTGCGGGCTTTGAAGG
1 GG--TGCCACTGAC-T-TGTGGACTTTAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAG
** * * * *
1030585 GGTGCCTTTGACTTGTGGGCTTTTAAAGGGTGCCACTAACTTGTGGGCTTTTAAAG
1 GGTGCCACTGACTTGTGGACTTTAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAG
* * * * * *
1030641 GGTGCTACCGACTTGTGGTCTTTTGAAAGGATGCCATTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGAC-TTTAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAG
* * * * * * * *
1030698 GATGCCATTGACTTGTGGGCTTTGAAAGGATACTACTAACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGACTTTAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAG
* * * *
1030754 GGTGCCACTGACTCGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTAAAAG
1 GGTGCCACTGACTTGTGGACTTTAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAG
* * ** *
1030810 GATGCCACTGACTTGTGGTCTTTTGAAGAGATGCCACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGACTTTAAAAG-GGTGCCACTGACTTGTGGGCTTTGAAAG
* * * * *
1030867 GATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTATGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGACTTTAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAG
* * * ** * *
1030923 GGTGCCACTAACTCGGGGGGTTTGAAAGGGTGCCACTGACTTGT-GGCTTTGAAAT
1 GGTGCCACTGACTTGTGGACTTTAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAG
* * * ** * *
1030978 GATGCCAATGACTTGTAGTGTTTTAAAGAGAT-CCACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGACTTTAAAAG-GGTGCCACTGACTTGTGGGCTTTGAAAG
* * * * * * *
1031034 GGTTACCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAG
1 GG-TGCCACTGACTTGTGGACTTTAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAG
* * * * * * *
1031090 GGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAT
1 GGTGCCACTGACTTGTGGACTTTAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAG
* * * * * * * *
1031145 GATGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTATGGAC-TTAAAAG
1 GGTGCCACTGACTTGTGGACTTTAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAG
* * * * ** * * * * *
1031199 GTTGCCACGGAGTTATAAAC-TTAAAAGGTTGCCA-TAGAGTTATGGAC-TTAAAAG
1 GGTGCCACTGACTTGTGGACTTTAAAAGGGTGCCACT-GACTTGTGGGCTTTGAAAG
* * * * * * *
1031253 GTTGCCA-TGGAGTTGTGAAC-TTAAAAGGTTGCTACGGAGTTGTGGGC-TT-AAAG
1 GGTGCCACT-GACTTGTGGACTTTAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAG
* * * * * *
1031306 GGTGCCACGGAGTTGTGGAC-TTAAAAGGTTGCCACGGAGTTGTGGACTTT-AGAAG
1 GGTGCCACTGACTTGTGGACTTTAAAAGGGTGCCACTGACTTGTGGGCTTTGA-AAG
* ** * *
1031361 GTTGCCACAAAGTTGTGGACTTAAAAAGG
1 GGTGCCACTGACTTGTGGACTTTAAAAGG
1031390 AATGCCATTA
Statistics
Matches: 737, Mismatches: 112, Indels: 38
0.83 0.13 0.04
Matches are distributed among these distances:
53 45 0.06
54 122 0.17
55 106 0.14
56 295 0.40
57 109 0.15
58 7 0.01
60 15 0.02
61 1 0.00
62 12 0.02
63 4 0.01
64 21 0.03
ACGTcount: A:0.24, C:0.16, G:0.32, T:0.29
Consensus pattern (56 bp):
GGTGCCACTGACTTGTGGACTTTAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAG
Found at i:1039804 original size:21 final size:21
Alignment explanation
Indices: 1039771--1039811 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1039761 CTAAGTAAAA
1039771 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
1039792 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
1039812 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:1039876 original size:20 final size:19
Alignment explanation
Indices: 1039851--1039921 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
1039841 ACCCTGAAAA
1039851 GTATCGATACACATTTAAAT
1 GTATCGATACACA-TTAAAT
* **
1039871 GTATCGATACAAATTGCAT
1 GTATCGATACACATTAAAT
**
1039890 AGTATCGATACACACAAATAT
1 -GTATCGATACACATTAA-AT
1039911 GTATCGATACA
1 GTATCGATACA
1039922 GGACATTGGC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.10
20 35 0.85
21 2 0.05
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.30
Consensus pattern (19 bp):
GTATCGATACACATTAAAT
Found at i:1039948 original size:34 final size:34
Alignment explanation
Indices: 1039904--1040027 Score: 119
Period size: 34 Copynumber: 3.5 Consensus size: 34
1039894 TCGATACACA
1039904 CAAATATGTATCGATACAGGACATTGGCAGTAGC
1 CAAATATGTATCGATACAGGACATTGGCAGTAGC
* * *
1039938 CAAATTTGTATCGATACA-CACAATAT-GTATCGATA-C
1 CAAATATGTATCGATACAGGAC-AT-TGGCA--G-TAGC
*
1039974 ACACAATATGTATCGATACAGGTCATTGGCAGTAGC
1 -CA-AATATGTATCGATACAGGACATTGGCAGTAGC
*
1040010 CAAATTTGTATCGATACA
1 CAAATATGTATCGATACA
1040028 CAAAATATGT
Statistics
Matches: 72, Mismatches: 8, Indels: 20
0.72 0.08 0.20
Matches are distributed among these distances:
33 2 0.03
34 36 0.50
35 5 0.07
36 4 0.06
37 5 0.07
38 19 0.26
39 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (34 bp):
CAAATATGTATCGATACAGGACATTGGCAGTAGC
Found at i:1039968 original size:19 final size:19
Alignment explanation
Indices: 1039944--1039993 Score: 100
Period size: 19 Copynumber: 2.6 Consensus size: 19
1039934 TAGCCAAATT
1039944 TGTATCGATACACACAATA
1 TGTATCGATACACACAATA
1039963 TGTATCGATACACACAATA
1 TGTATCGATACACACAATA
1039982 TGTATCGATACA
1 TGTATCGATACA
1039994 GGTCATTGGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (19 bp):
TGTATCGATACACACAATA
Found at i:1039993 original size:72 final size:73
Alignment explanation
Indices: 1039891--1040046 Score: 287
Period size: 72 Copynumber: 2.2 Consensus size: 73
1039881 AAATTGCATA
1039891 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTTGTATCGATACA
1 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTTGTATCGATACA
*
1039956 CACAATAT
66 CAAAATAT
*
1039964 GTATCGATACACAC-AATATGTATCGATACAGGTCATTGGCAGTAGCCAAATTTGTATCGATACA
1 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTTGTATCGATACA
1040028 CAAAATAT
66 CAAAATAT
1040036 GTATCGATACA
1 GTATCGATACA
1040047 TTGGTAGTAG
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
72 67 0.83
73 14 0.17
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.27
Consensus pattern (73 bp):
GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTTGTATCGATACA
CAAAATAT
Found at i:1040089 original size:10 final size:10
Alignment explanation
Indices: 1040070--1040100 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
1040060 AATCTCATTT
*
1040070 TCACTGTTCA
1 TCACTATTCA
1040080 TCACTATTCA
1 TCACTATTCA
1040090 TCACTATTCA
1 TCACTATTCA
1040100 T
1 T
1040101 GTATCGATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.03, T:0.42
Consensus pattern (10 bp):
TCACTATTCA
Found at i:1040122 original size:21 final size:22
Alignment explanation
Indices: 1040088--1040148 Score: 88
Period size: 21 Copynumber: 2.8 Consensus size: 22
1040078 CATCACTATT
1040088 CATCACTATTCATGTATCGATA
1 CATCACTATTCATGTATCGATA
*
1040110 CATCACT-TTCATGTATTGATA
1 CATCACTATTCATGTATCGATA
* *
1040131 CATCACTGTTCACGTATC
1 CATCACTATTCATGTATC
1040149 ACTATTCATG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
21 20 0.57
22 15 0.43
ACGTcount: A:0.28, C:0.25, G:0.10, T:0.38
Consensus pattern (22 bp):
CATCACTATTCATGTATCGATA
Found at i:1040209 original size:13 final size:13
Alignment explanation
Indices: 1040191--1040229 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1040181 TCACTATTCA
1040191 TGTATCGATACAT
1 TGTATCGATACAT
*
1040204 TGTATCGATACAG
1 TGTATCGATACAT
1040217 TGTATCGATACAT
1 TGTATCGATACAT
1040230 CATAAATAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1042017 original size:20 final size:20
Alignment explanation
Indices: 1041992--1042044 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
1041982 GTTACAAGCA
*
1041992 ATGTATCGATACATT-TCCTC
1 ATGTATCGATACATTGTAC-C
1042012 ATGTATCGATACATTGTACC
1 ATGTATCGATACATTGTACC
1042032 ATGTATCGATACA
1 ATGTATCGATACA
1042045 AATAGTGATA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 29 0.94
21 2 0.06
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGTACC
Found at i:1042132 original size:13 final size:13
Alignment explanation
Indices: 1042114--1042140 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1042104 TACAAGGAAC
1042114 ATGTATCGATACA
1 ATGTATCGATACA
1042127 ATGTATCGATACA
1 ATGTATCGATACA
1042140 A
1 A
1042141 AGCAGCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1042155 original size:33 final size:32
Alignment explanation
Indices: 1042095--1042159 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 32
1042085 ACATTTGTCC
*
1042095 ATGTATCGATACAAGGAACATGTATCGATACA
1 ATGTATCGATACAAGCAACATGTATCGATACA
*
1042127 ATGTATCGATACAAAGCAGCATGTATCGATACA
1 ATGTATCGATAC-AAGCAACATGTATCGATACA
1042160 TCTGGGTGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.40
33 18 0.60
ACGTcount: A:0.40, C:0.17, G:0.18, T:0.25
Consensus pattern (32 bp):
ATGTATCGATACAAGCAACATGTATCGATACA
Found at i:1042724 original size:39 final size:40
Alignment explanation
Indices: 1042678--1042764 Score: 140
Period size: 39 Copynumber: 2.2 Consensus size: 40
1042668 TTCTCCCCTT
*
1042678 AAAAAATTCTCCCCCTTAAGCGATTATCTCCTCC-TTTAA
1 AAAAAATTCTCCCCCTTAAACGATTATCTCCTCCTTTTAA
* *
1042717 AAAAAATTCTCCCCTTTAAACGATTATCTCCTCCTTTTAT
1 AAAAAATTCTCCCCCTTAAACGATTATCTCCTCCTTTTAA
1042757 AAAAAATT
1 AAAAAATT
1042765 TATTTTCACA
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
39 32 0.73
40 12 0.27
ACGTcount: A:0.34, C:0.26, G:0.03, T:0.36
Consensus pattern (40 bp):
AAAAAATTCTCCCCCTTAAACGATTATCTCCTCCTTTTAA
Found at i:1042746 original size:19 final size:20
Alignment explanation
Indices: 1042693--1042753 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
1042683 ATTCTCCCCC
*
1042693 TTAAGCGATTATCTCCTCCT
1 TTAAACGATTATCTCCTCCT
* **
1042713 TTAAA-AAAAATTCTCC-CCT
1 TTAAACGATTA-TCTCCTCCT
1042732 TTAAACGATTATCTCCTCCT
1 TTAAACGATTATCTCCTCCT
1042752 TT
1 TT
1042754 TATAAAAAAT
Statistics
Matches: 31, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.28, C:0.28, G:0.05, T:0.39
Consensus pattern (20 bp):
TTAAACGATTATCTCCTCCT
Found at i:1044617 original size:13 final size:13
Alignment explanation
Indices: 1044597--1044639 Score: 77
Period size: 13 Copynumber: 3.3 Consensus size: 13
1044587 AATAGTTCCT
1044597 AATGTATCGATAC
1 AATGTATCGATAC
*
1044610 ATTGTATCGATAC
1 AATGTATCGATAC
1044623 AATGTATCGATAC
1 AATGTATCGATAC
1044636 AATG
1 AATG
1044640 AATGTTGTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:1048050 original size:225 final size:225
Alignment explanation
Indices: 1047645--1048100 Score: 770
Period size: 225 Copynumber: 2.0 Consensus size: 225
1047635 GATTTTTCCT
1047645 AGATAACTTAGAGAGTACGCTCATACTTGCGTGTCCTAATTTTCGGTGCCATAGCCAAGGTATGT
1 AGATAACTTAGAGAGTACGCTCATACTTGCGTGTCCTAATTTTCGGTGCCATAGCCAAGGTATGT
* * *
1047710 CATTGTTGTCTGCAACAAAACATACATTTTGGGAACTTAAGACATCTAAATGTACAACATAAATG
66 CATTATTGTCGGCAACAAAACATACATTTTGGGAACTTAAAACATCTAAATGTACAACATAAATG
*
1047775 TTCCTTTCCCTATGGCCTAAGAAAATTGTTTTATTACTACAAACATCAATTACGTGACAATTTTG
131 TTCCCTTCCCTATGGCCTAAGAAAATTGTTTTATTACTACAAACATCAATTACGTGACAATTTTG
* * *
1047840 TGATT-TAAAGACTACTTTCATACCTTTGTC
196 TGATTCGAAA-ACTACTTTCAAACCTTTATC
1047870 AGATAACTTAGAGAGTACGCTCATACTTGCGTGTCCTAATTTTCGGTGCCATAGCCAAGGTATGT
1 AGATAACTTAGAGAGTACGCTCATACTTGCGTGTCCTAATTTTCGGTGCCATAGCCAAGGTATGT
*
1047935 CATTATTGTCGGCAACAAAACATACGTTTTGGGAACTTAAAACATCTAAATGTACAACATAAATG
66 CATTATTGTCGGCAACAAAACATACATTTTGGGAACTTAAAACATCTAAATGTACAACATAAATG
* * **
1048000 TTCCCTTCCCTATGGCCTAAGAAAATTGTTTTATTATTACTAGTATCAATTACGTGACAATTTTG
131 TTCCCTTCCCTATGGCCTAAGAAAATTGTTTTATTACTACAAACATCAATTACGTGACAATTTTG
*
1048065 TGATTCGAAAACTACTTTTAAACCTTTATC
196 TGATTCGAAAACTACTTTCAAACCTTTATC
*
1048095 ACATAA
1 AGATAA
1048101 TTGACTTATG
Statistics
Matches: 216, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
225 213 0.99
226 3 0.01
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (225 bp):
AGATAACTTAGAGAGTACGCTCATACTTGCGTGTCCTAATTTTCGGTGCCATAGCCAAGGTATGT
CATTATTGTCGGCAACAAAACATACATTTTGGGAACTTAAAACATCTAAATGTACAACATAAATG
TTCCCTTCCCTATGGCCTAAGAAAATTGTTTTATTACTACAAACATCAATTACGTGACAATTTTG
TGATTCGAAAACTACTTTCAAACCTTTATC
Found at i:1051038 original size:13 final size:13
Alignment explanation
Indices: 1051020--1051050 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1051010 ACATTTCCTC
1051020 ATGTATCGATACA
1 ATGTATCGATACA
1051033 ATGTATCGATACA
1 ATGTATCGATACA
*
1051046 TTGTA
1 ATGTA
1051051 CCATGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1051038 original size:33 final size:33
Alignment explanation
Indices: 1050998--1051066 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
1050988 CCGTTACAAG
*
1050998 CAATGTATCGATACATT-TCCTCATGTATCGATA
1 CAATGTATCGATACATTGTAC-CATGTATCGATA
1051031 CAATGTATCGATACATTGTACCATGTATCGATA
1 CAATGTATCGATACATTGTACCATGTATCGATA
1051064 CAA
1 CAA
1051067 ATAGTGATAG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 32 0.94
34 2 0.06
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.33
Consensus pattern (33 bp):
CAATGTATCGATACATTGTACCATGTATCGATA
Found at i:1051180 original size:33 final size:32
Alignment explanation
Indices: 1051116--1051180 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 32
1051106 ACATTTGTCC
* * *
1051116 ATGTATCGATACAAGGAACATGTATCGATACA
1 ATGTATCAATACAAGCAACATGTATCAATACA
*
1051148 ATGTATCAATACAAAGCAGCATGTATCAATACA
1 ATGTATCAATAC-AAGCAACATGTATCAATACA
1051181 TCTGGGTGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 11 0.39
33 17 0.61
ACGTcount: A:0.43, C:0.17, G:0.15, T:0.25
Consensus pattern (32 bp):
ATGTATCAATACAAGCAACATGTATCAATACA
Found at i:1051510 original size:20 final size:20
Alignment explanation
Indices: 1051467--1051552 Score: 102
Period size: 20 Copynumber: 4.3 Consensus size: 20
1051457 ATTTAACTAG
***
1051467 ATGTATCGATACATT-TTCA
1 ATGTATCGATACATTGAAAA
1051486 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
* * *
1051506 ATGTATCGATACATTCATAC
1 ATGTATCGATACATTGAAAA
*
1051526 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAAAA
1051546 ATGTATC
1 ATGTATC
1051553 CATGCATCTA
Statistics
Matches: 56, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
19 15 0.27
20 41 0.73
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:1051602 original size:20 final size:20
Alignment explanation
Indices: 1051576--1051630 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
1051566 AAAAAAACAG
*
1051576 AATGTATCAATACATTCATA
1 AATGTATCAATACATTCAAA
* * *
1051596 CATGTATCGATACATTGAAA
1 AATGTATCAATACATTCAAA
*
1051616 AATGTATCTATACAT
1 AATGTATCAATACAT
1051631 CTGGGTAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.35
Consensus pattern (20 bp):
AATGTATCAATACATTCAAA
Found at i:1051621 original size:71 final size:71
Alignment explanation
Indices: 1051505--1051641 Score: 229
Period size: 71 Copynumber: 1.9 Consensus size: 71
1051495 TACATTGAAA
* * *
1051505 AATGTATCGATACATTCATACATGTATCGATACATTGAAGAATGTATCCATGCATCTAGGTAAAA
1 AATGTATCAATACATTCATACATGTATCGATACATTGAAAAATGTATCCATACATCTAGGTAAAA
1051570 AAACAG
66 AAACAG
* *
1051576 AATGTATCAATACATTCATACATGTATCGATACATTGAAAAATGTATCTATACATCTGGGTAAAA
1 AATGTATCAATACATTCATACATGTATCGATACATTGAAAAATGTATCCATACATCTAGGTAAAA
1051641 A
66 A
1051642 TATGACTTTT
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
71 61 1.00
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.30
Consensus pattern (71 bp):
AATGTATCAATACATTCATACATGTATCGATACATTGAAAAATGTATCCATACATCTAGGTAAAA
AAACAG
Found at i:1053538 original size:156 final size:153
Alignment explanation
Indices: 1053347--1053784 Score: 447
Period size: 153 Copynumber: 2.8 Consensus size: 153
1053337 ATTATAGATG
* *
1053347 GGATAAACCTCTCCTAAATACCCACCTTTAGCATAAAAGCGGACTTGGTGATAACCTAGGACTCG
1 GGATGAACCTATCCTAAATACCCA-CTTTAGCATAAAAGCGGAC-TGGTGATAACCTAGGACTCG
* * *
1053412 ATGCTAGAAAATTATGAAAATACCCCTATAGGTATATCTTCAACATGAAAGTATCCCGGTAACCC
64 AT--TAAAAAATTATGAAAATACCCCTATAGGTATACCTTCAACATAAAAGTATCCCGGTAACCC
* * *
1053477 TAGTGGACACTAAAAGATCATAG-AA-A
127 TAGTGAACACTAAAACAACA-AGTAATA
* * * ** * *
1053503 TGATGAACCTATCCTAAATACCCACTTTCGACATAAAAGTGGAACCAGTGACAACCTAGGACTTA
1 GGATGAACCTATCCTAAATACCCACTTTAG-CATAAAAGCGG-ACTGGTGATAACCTAGGAC-TC
* * * * *
1053568 GTTTTAAAAAATTATGAAAATA--CCAAAAAG-ATACCTTCAACATAAAAGTATCCCGATAACCC
63 G-ATTAAAAAATTATGAAAATACCCCTATAGGTATACCTTCAACATAAAAGTATCCCGGTAACCC
1053630 TAGTGAACACTAAAACAACAAGTAATA
127 TAGTGAACACTAAAACAACAAGTAATA
* * * * * * *
1053657 GGATGAACCTATCCTAAATACCCACTTTTGGATAAAAACAGACCTGATGATAGCCTAGAACTCGA
1 GGATGAACCTATCCTAAATACCCACTTTAGCATAAAAGCGGA-CTGGTGATAACCTAGGACTCGA
** * * * *
1053722 TTTTAAAATTATAAAAATGCCCTTATAGGTATACCTTCGACATAAAAGTAT-CCGGTAACCCTA
65 TTAAAAAATTATGAAAATACCCCTATAGGTATACCTTCAACATAAAAGTATCCCGGTAACCCTA
1053785 AAAGACTTAA
Statistics
Matches: 228, Mismatches: 44, Indels: 23
0.77 0.15 0.08
Matches are distributed among these distances:
151 15 0.07
152 5 0.02
153 82 0.36
154 54 0.24
155 5 0.02
156 62 0.27
157 4 0.02
158 1 0.00
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.24
Consensus pattern (153 bp):
GGATGAACCTATCCTAAATACCCACTTTAGCATAAAAGCGGACTGGTGATAACCTAGGACTCGAT
TAAAAAATTATGAAAATACCCCTATAGGTATACCTTCAACATAAAAGTATCCCGGTAACCCTAGT
GAACACTAAAACAACAAGTAATA
Found at i:1053714 original size:153 final size:156
Alignment explanation
Indices: 1053443--1053896 Score: 425
Period size: 153 Copynumber: 2.9 Consensus size: 156
1053433 ACCCCTATAG
* * * * *
1053443 GTATATCTTCAACATGAAAGTATCCCGGTAACCCTAGTGGACACTAAAAGATCATAG-AA-ATGA
1 GTATACCTTCAACATAAAAGTATCCCGGTAACCCTAGTGAACACTAAAA-AACA-AGTAATAGGA
* * *
1053506 TGAACCTATCCTAAATACCCACTTTCGACATAAAAGTGGAACCAG-TGACAACCTAGGACTTAG-
64 TGAACCTATCCTAAATACCCACTTTCG-GATAAAAATAG-ACCAGATGACAACCTAGGACTTAGA
1053569 TTTTAAAAAATTATGAAAAT-ACC-AAAAA
127 TTTTAAAAAATTATGAAAATGACCTAAAAA
*
1053597 G-ATACCTTCAACATAAAAGTATCCCGATAACCCTAGTGAACACTAAAACAACAAGTAATAGGAT
1 GTATACCTTCAACATAAAAGTATCCCGGTAACCCTAGTGAACACTAAAA-AACAAGTAATAGGAT
* * * * * * *
1053661 GAACCTATCCTAAATACCCACTTTTGGATAAAAACAGACCTGATGATAGCCTAGAAC-TCGATTT
65 GAACCTATCCTAAATACCCACTTTCGGATAAAAATAGACCAGATGACAACCTAGGACTTAGATTT
* * * * *
1053725 T--AAAATTATAAAAATGCCCTTATAG
130 TAAAAAATTATGAAAATGACCTAAAAA
* * * ** *
1053750 GTATACCTTCGACATAAAAGTAT-CCGGTAACCCTA--AAAGACTTAAAAAGGATTA-TAGATGG
1 GTATACCTTCAACATAAAAGTATCCCGGTAACCCTAGTGAACAC-TAAAAA--ACAAGTA-ATAG
* * * * *
1053811 GATGAACCTATCCTAAATACTCACCTTCGGTATAAAAATAGACCCGATGGCAACCTAGGA-TTTG
62 GATGAACCTATCCTAAATACCCACTTTCGG-ATAAAAATAGACCAGATGACAACCTAGGACTTAG
1053875 ATTTTAAAAAATTATGAAAATG
126 ATTTTAAAAAATTATGAAAATG
1053897 CCCTTAGGGT
Statistics
Matches: 245, Mismatches: 40, Indels: 28
0.78 0.13 0.09
Matches are distributed among these distances:
151 18 0.07
152 17 0.07
153 116 0.47
154 80 0.33
156 14 0.06
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.25
Consensus pattern (156 bp):
GTATACCTTCAACATAAAAGTATCCCGGTAACCCTAGTGAACACTAAAAAACAAGTAATAGGATG
AACCTATCCTAAATACCCACTTTCGGATAAAAATAGACCAGATGACAACCTAGGACTTAGATTTT
AAAAAATTATGAAAATGACCTAAAAA
Found at i:1053937 original size:153 final size:153
Alignment explanation
Indices: 1053321--1053902 Score: 369
Period size: 153 Copynumber: 3.8 Consensus size: 153
1053311 TAGGTACTCT
* * * * *
1053321 TAAAGGACTTAAAAA-GATTATAGATGGGATAAACCTCTCCTAAATACCCACCTTTAGCATAAAA
1 TAAAAGACTTAAAAAGGATTATAGATGGGATGAACCTATCCTAAATACCCACC-TTCGGATAAAA
* * ** * * * ** * * * *
1053385 GCGGACTTGGTGATAACCTAGGACTCGATGCTAGAAAATTATGAAAATACCCCTATAGGTATATC
65 ACAGACCCGATGACAACCTAGAACTCGAT--TTTAAAATTATAAAAATGCCCTTATAGGTATACC
* *
1053450 TTCAACATGAAAGTATCCCGGTAACCC
128 TTCGACATAAAAGTA-CCCGGTAACCC
*** * * *** * *
1053477 TAGTGGACACT-AAAA-GATCATAGAAATGATGAACCTATCCTAAATACCCACTTTCGACATAAA
1 TAAAAGAC-TTAAAAAGGATTATAGATGGGATGAACCTATCCTAAATACCCACCTTCG-GATAAA
*** * * * * * * * *
1053540 AGTGGAACC-AGTGACAACCTAGGACT-TAGTTTTAAAAAATTATGAAAAT-ACC-AAAAAG-AT
64 AACAGACCCGA-TGACAACCTAGAACTCGA-TTTT--AAAATTATAAAAATGCCCTTATAGGTAT
* *
1053600 ACCTTCAACATAAAAGTATCCCGATAACCC
125 ACCTTCGACATAAAAGTA-CCCGGTAACCC
* * ** * * *
1053630 TAGTGAACAC-TAAAACA--ACAAGTA-ATAGGATGAACCTATCCTAAATACCCACTTTTGGATA
1 TA--AAAGACTTAAAA-AGGATTA-TAGATGGGATGAACCTATCCTAAATACCCACCTTCGGATA
* * *
1053691 AAAACAGACCTGATGATAGCCTAGAACTCGATTTTAAAATTATAAAAATGCCCTTATAGGTATAC
62 AAAACAGACCCGATGACAACCTAGAACTCGATTTTAAAATTATAAAAATGCCCTTATAGGTATAC
*
1053756 CTTCGACATAAAAGTATCCGGTAACCC
127 CTTCGACATAAAAGTACCCGGTAACCC
*
1053783 TAAAAGACTTAAAAAGGATTATAGATGGGATGAACCTATCCTAAATACTCACCTTCGGTATAAAA
1 TAAAAGACTTAAAAAGGATTATAGATGGGATGAACCTATCCTAAATACCCACCTTCGG-ATAAAA
* * * * * *
1053848 ATAGACCCGATGGCAACCTAGGATTTGATTTTAAAAAATTATGAAAATGCCCTTA
65 ACAGACCCGATGACAACCTAGAACTCGATTTT--AAAATTATAAAAATGCCCTTA
1053903 GGGTACTTTT
Statistics
Matches: 333, Mismatches: 70, Indels: 46
0.74 0.16 0.10
Matches are distributed among these distances:
151 18 0.05
152 9 0.03
153 103 0.31
154 90 0.27
155 12 0.04
156 100 0.30
157 1 0.00
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.25
Consensus pattern (153 bp):
TAAAAGACTTAAAAAGGATTATAGATGGGATGAACCTATCCTAAATACCCACCTTCGGATAAAAA
CAGACCCGATGACAACCTAGAACTCGATTTTAAAATTATAAAAATGCCCTTATAGGTATACCTTC
GACATAAAAGTACCCGGTAACCC
Found at i:1055889 original size:20 final size:21
Alignment explanation
Indices: 1055864--1055903 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
1055854 ATTTCAACAA
1055864 AAAAAATTCAAGAAA-AAAAT
1 AAAAAATTCAAGAAATAAAAT
*
1055884 AAAAAATTCATGAAATAAAA
1 AAAAAATTCAAGAAATAAAA
1055904 ATAATTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.72, C:0.05, G:0.05, T:0.17
Consensus pattern (21 bp):
AAAAAATTCAAGAAATAAAAT
Found at i:1056109 original size:165 final size:166
Alignment explanation
Indices: 1055420--1056124 Score: 693
Period size: 164 Copynumber: 4.3 Consensus size: 166
1055410 TGATTTTTAC
* * * * * * * * * * *
1055420 AAAACTGATTTAATGGGAGTTTAATAAAAATATTAGATGAATTTTAAAATTTTTAAATAGAGAAA
1 AAAACTAATTTAATGTGAATTAAATGATAATATTTGATGAATTTTAAAAATTATAAACAAAGAAA
* * * * *
1055485 AATCC-CTCCAAAACCATTTATAGA-ATAGAAAAC-CCGATTTTTTCG-AAATAGGAAAATTTCA
66 AATCCTC-CCAAAAACATTTACAGAGA-AGAAAACTCC-A-TATTTCGAAAATAAGAAAATTTTA
* * * *
1055546 A-AGAAAAATTGAAAAACTT-ATAAAATAAATG-AATTTTAT
127 AGA-AAAAAATGAAAAA-TTCATGAAATAAAAGAAATTTTTT
* * * * * * *
1055585 AAAACTAATTTACTATAAATTAGATAATGATATTTGATGAATTTT-AAAATTATAAACTAAGAAA
1 AAAACTAATTTAATGTGAATTAAATGATAATATTTGATGAATTTTAAAAATTATAAACAAAGAAA
* ** * * * * *
1055649 AATCCTTCTGAAAATATTTACGGAGTAGAAAACTCC-TAATTTTGAAAACAAGAAAATTTTAAGA
66 AATCCTCCCAAAAACATTTACAGAGAAGAAAACTCCAT-ATTTCGAAAATAAGAAAATTTTAAGA
*
1055713 AACAAAATGAAAAATTCATGAAATAAAAGAAAATTTTT
130 AA-AAAATGAAAAATTCATGAAATAAAAGAAATTTTTT
*
1055751 AAAACTAATTTAATGTGAATTAAATGATAATATTTGATGAATTTTAAAAATTATAAACTAAGAAA
1 AAAACTAATTTAATGTGAATTAAATGATAATATTTGATGAATTTTAAAAATTATAAACAAAGAAA
* * ** *
1055816 AATCCTCCCAAAAACATTTACGGAGTAGAAAACTCTGTATTTC-AACAA-AA-AAAA-TTCAAGA
66 AATCCTCCCAAAAACATTTACAGAGAAGAAAACTCCATATTTCGAA-AATAAGAAAATTTTAAGA
* **
1055877 AAAAAATAAAAAATTCATGAAATAAAA-ATAATTTTAAC
130 AAAAAATGAAAAATTCATGAAATAAAAGA-AATTTT-TT
* * *
1055915 AAAACTAATTTAATTTAAATTAAATGATAATATTTGATGAATTTTAAAAATTTTAAACAAAGAAA
1 AAAACTAATTTAATGTGAATTAAATGATAATATTTGATGAATTTTAAAAATTATAAACAAAGAAA
* ** *
1055980 AATCCTCCCAAAAATATTTGTAGAGAAGAAAACTCCATATTTCGAAAATAAGAGAATTTTAAG-A
66 AATCCTCCCAAAAACATTTACAGAGAAGAAAACTCCATATTTCGAAAATAAGAAAATTTTAAGAA
*
1056044 AAAAATGAAAAATTCATGAAATAAAAGAGATTTTTT
131 AAAAATGAAAAATTCATGAAATAAAAGAAATTTTTT
* * * *
1056080 AAAACTGAGTTAATGTGAATTAAATGATAATATTTAAAGAATTTT
1 AAAACTAATTTAATGTGAATTAAATGATAATATTTGATGAATTTT
1056125 GATACTTGAA
Statistics
Matches: 447, Mismatches: 74, Indels: 38
0.80 0.13 0.07
Matches are distributed among these distances:
162 2 0.00
163 33 0.07
164 162 0.36
165 104 0.23
166 83 0.19
167 62 0.14
168 1 0.00
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.31
Consensus pattern (166 bp):
AAAACTAATTTAATGTGAATTAAATGATAATATTTGATGAATTTTAAAAATTATAAACAAAGAAA
AATCCTCCCAAAAACATTTACAGAGAAGAAAACTCCATATTTCGAAAATAAGAAAATTTTAAGAA
AAAAATGAAAAATTCATGAAATAAAAGAAATTTTTT
Found at i:1057381 original size:13 final size:13
Alignment explanation
Indices: 1057363--1057388 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1057353 CAATTTGGGA
1057363 TGTATCGATACAT
1 TGTATCGATACAT
1057376 TGTATCGATACAT
1 TGTATCGATACAT
1057389 CTTGTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1057385 original size:33 final size:32
Alignment explanation
Indices: 1057343--1057406 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
1057333 TACAAGCCAA
1057343 TGTATCGATACAAT-TTGGGATGTATCGATACAT
1 TGTATCGATAC-ATCTTGGG-TGTATCGATACAT
*
1057376 TGTATCGATACATCTTGTGTGTATCGATACA
1 TGTATCGATACATCTTGGGTGTATCGATACA
1057407 AACAGTTAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATCTTGGGTGTATCGATACAT
Found at i:1057495 original size:20 final size:21
Alignment explanation
Indices: 1057448--1057500 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
1057438 GCCAATCACC
*
1057448 TGTATCGATACATTCTTTGTA
1 TGTATCGATACATTCTTGGTA
*
1057469 AGTATCGATACA-T-TTGGTCA
1 TGTATCGATACATTCTTGGT-A
1057489 TGTATCGATACA
1 TGTATCGATACA
1057501 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 4 0.14
20 13 0.46
21 11 0.39
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTCTTGGTA
Found at i:1057506 original size:13 final size:13
Alignment explanation
Indices: 1057488--1057512 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1057478 ACATTTGGTC
1057488 ATGTATCGATACA
1 ATGTATCGATACA
1057501 ATGTATCGATAC
1 ATGTATCGATAC
1057513 TATGCATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1057545 original size:20 final size:19
Alignment explanation
Indices: 1057522--1057560 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
1057512 CTATGCATTA
1057522 TGTATCGATACATTTGAAGG
1 TGTATCGATACATTT-AAGG
1057542 TGTATCGATACATTTAAGG
1 TGTATCGATACATTTAAGG
1057561 GTTTTGACCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.36
Consensus pattern (19 bp):
TGTATCGATACATTTAAGG
Found at i:1063692 original size:17 final size:17
Alignment explanation
Indices: 1063672--1063705 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
1063662 ATTTTGCCTC
1063672 TAAATTTATTTATTTTA
1 TAAATTTATTTATTTTA
1063689 TAAATTTATTTATTTTA
1 TAAATTTATTTATTTTA
1063706 GTATTACATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TAAATTTATTTATTTTA
Found at i:1067002 original size:13 final size:13
Alignment explanation
Indices: 1066984--1067008 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1066974 ACAATGCAAC
1066984 ATGTATCGATACA
1 ATGTATCGATACA
1066997 ATGTATCGATAC
1 ATGTATCGATAC
1067009 TGTGCAACAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1067003 original size:33 final size:33
Alignment explanation
Indices: 1066966--1067031 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
1066956 TCTTTTTCAA
1066966 GTATCGATACAATGCAACATGTATCGATACAAT
1 GTATCGATACAATGCAACATGTATCGATACAAT
**
1066999 GTATCGATACTGTGCAACATGTATCGATACAAT
1 GTATCGATACAATGCAACATGTATCGATACAAT
1067032 TAAATGTGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (33 bp):
GTATCGATACAATGCAACATGTATCGATACAAT
Found at i:1067743 original size:28 final size:28
Alignment explanation
Indices: 1067709--1067766 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
1067699 TCATAAACAC
*
1067709 TTATCTCTTTCTCTTAATCAAGAATTTA
1 TTATCTCTTACTCTTAATCAAGAATTTA
1067737 TTATCTCTTACTCTTAATCAAGAATTTA
1 TTATCTCTTACTCTTAATCAAGAATTTA
1067765 TT
1 TT
1067767 TGCACACATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.29, C:0.17, G:0.03, T:0.50
Consensus pattern (28 bp):
TTATCTCTTACTCTTAATCAAGAATTTA
Found at i:1069562 original size:13 final size:13
Alignment explanation
Indices: 1069544--1069582 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1069534 ATAATCCCCC
*
1069544 TGTATCGATACAG
1 TGTATCGATACAA
1069557 TGTATCGATACAA
1 TGTATCGATACAA
1069570 TGTATCGATACAA
1 TGTATCGATACAA
1069583 AGAATGATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1073533 original size:21 final size:20
Alignment explanation
Indices: 1073478--1073533 Score: 51
Period size: 21 Copynumber: 2.8 Consensus size: 20
1073468 AATGAATCAT
* *
1073478 GCAAGTTTTTATTTTTCTTA
1 GCAAATTTTTAATTTTCTTA
* *
1073498 GCTAATTCATT-ATTTTCATTA
1 GCAAATT-TTTAATTTTC-TTA
1073519 GCAAATTTTTAATTT
1 GCAAATTTTTAATTT
1073534 CAACTTGCAA
Statistics
Matches: 27, Mismatches: 6, Indels: 5
0.71 0.16 0.13
Matches are distributed among these distances:
20 12 0.44
21 15 0.56
ACGTcount: A:0.27, C:0.11, G:0.07, T:0.55
Consensus pattern (20 bp):
GCAAATTTTTAATTTTCTTA
Found at i:1075896 original size:13 final size:13
Alignment explanation
Indices: 1075878--1075902 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1075868 ACAATGCAAC
1075878 ATGTATCGATACA
1 ATGTATCGATACA
1075891 ATGTATCGATAC
1 ATGTATCGATAC
1075903 TGTGCAACAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1075897 original size:33 final size:33
Alignment explanation
Indices: 1075860--1075925 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
1075850 TCTTTTTCAA
1075860 GTATCGATACAATGCAACATGTATCGATACAAT
1 GTATCGATACAATGCAACATGTATCGATACAAT
**
1075893 GTATCGATACTGTGCAACATGTATCGATACAAT
1 GTATCGATACAATGCAACATGTATCGATACAAT
1075926 TAAATGTGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (33 bp):
GTATCGATACAATGCAACATGTATCGATACAAT
Found at i:1076286 original size:13 final size:13
Alignment explanation
Indices: 1076268--1076293 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1076258 CAATTTGGGA
1076268 TGTATCGATACAT
1 TGTATCGATACAT
1076281 TGTATCGATACAT
1 TGTATCGATACAT
1076294 CTTGTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1076290 original size:33 final size:32
Alignment explanation
Indices: 1076248--1076311 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
1076238 TACAAGCCAA
1076248 TGTATCGATACAAT-TTGGGATGTATCGATACAT
1 TGTATCGATAC-ATCTTGGG-TGTATCGATACAT
*
1076281 TGTATCGATACATCTTGTGTGTATCGATACA
1 TGTATCGATACATCTTGGGTGTATCGATACA
1076312 AATAGTTAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATCTTGGGTGTATCGATACAT
Found at i:1076400 original size:20 final size:21
Alignment explanation
Indices: 1076353--1076405 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
1076343 GCCAATCACC
*
1076353 TGTATCGATACATTCTTTGTA
1 TGTATCGATACATTCTTGGTA
*
1076374 AGTATCGATACA-T-TTGGTCA
1 TGTATCGATACATTCTTGGT-A
1076394 TGTATCGATACA
1 TGTATCGATACA
1076406 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 4 0.14
20 13 0.46
21 11 0.39
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTCTTGGTA
Found at i:1076411 original size:13 final size:13
Alignment explanation
Indices: 1076393--1076417 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1076383 ACATTTGGTC
1076393 ATGTATCGATACA
1 ATGTATCGATACA
1076406 ATGTATCGATAC
1 ATGTATCGATAC
1076418 TGTGCATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1076450 original size:20 final size:19
Alignment explanation
Indices: 1076427--1076465 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
1076417 CTGTGCATTA
1076427 TGTATCGATACATTTGAAGG
1 TGTATCGATACATTT-AAGG
1076447 TGTATCGATACATTTAAGG
1 TGTATCGATACATTTAAGG
1076466 GTTTTGACCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.36
Consensus pattern (19 bp):
TGTATCGATACATTTAAGG
Found at i:1078328 original size:21 final size:20
Alignment explanation
Indices: 1078298--1078336 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
1078288 CACATTTTTG
1078298 TCTAAATGTATCGATACATT
1 TCTAAATGTATCGATACATT
1078318 TCTAGAATGTATCGATACA
1 TCTA-AATGTATCGATACA
1078337 AGGTCCCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (20 bp):
TCTAAATGTATCGATACATT
Found at i:1078397 original size:19 final size:19
Alignment explanation
Indices: 1078373--1078444 Score: 99
Period size: 19 Copynumber: 3.7 Consensus size: 19
1078363 TTTCAACAAT
1078373 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
* *
1078392 TTGTATCGATACAAACAGTAA
1 TTGTATCGATACATA-AGT-G
*
1078413 ATGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
1078432 TTGTATCGATACA
1 TTGTATCGATACA
1078445 ATGTATTTGT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
19 26 0.58
20 6 0.13
21 13 0.29
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.33
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:1078900 original size:19 final size:20
Alignment explanation
Indices: 1078857--1078909 Score: 90
Period size: 19 Copynumber: 2.7 Consensus size: 20
1078847 ATTTCAACGA
1078857 TTTGTATCGATACATAAAAT
1 TTTGTATCGATACATAAAAT
*
1078877 ATTGTATCGATACAT-AAAT
1 TTTGTATCGATACATAAAAT
1078896 TTTGTATCGATACA
1 TTTGTATCGATACA
1078910 ATTTAAGCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.40
Consensus pattern (20 bp):
TTTGTATCGATACATAAAAT
Found at i:1078949 original size:13 final size:13
Alignment explanation
Indices: 1078931--1078955 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1078921 TGTCAAAAAA
1078931 TGTATCGATACAT
1 TGTATCGATACAT
1078944 TGTATCGATACA
1 TGTATCGATACA
1078956 GTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1079022 original size:52 final size:52
Alignment explanation
Indices: 1078964--1079092 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
1078954 CAGTGATCTT
* *
1078964 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCAATACACTATAAAA
*
1079016 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCAATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCAATACACTATAAAA
1079068 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
1079093 TCATATTTTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCAATACACTATAAAA
Found at i:1082679 original size:13 final size:13
Alignment explanation
Indices: 1082661--1082685 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1082651 CAAAGATCAG
1082661 TGTATCGATACAA
1 TGTATCGATACAA
1082674 TGTATCGATACA
1 TGTATCGATACA
1082686 TTTGAGTACT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1082763 original size:33 final size:33
Alignment explanation
Indices: 1082726--1082792 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1082716 AGTAGCTTAA
1082726 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1082759 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1082792 A
1 A
1082793 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1082766 original size:13 final size:13
Alignment explanation
Indices: 1082748--1082772 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1082738 CAAAAAAATA
1082748 TGTATCGATACAT
1 TGTATCGATACAT
1082761 TGTATCGATACA
1 TGTATCGATACA
1082773 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1085888 original size:19 final size:21
Alignment explanation
Indices: 1085845--1085896 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 21
1085835 TTTAATGATT
*
1085845 TGTATCGATACATTCAGTAAA
1 TGTATCGATACATTAAGTAAA
1085866 TGTATCGATACA-TAAGT-AA
1 TGTATCGATACATTAAGTAAA
1085885 TGTATCGATACA
1 TGTATCGATACA
1085897 GTGTATCGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 14 0.47
20 4 0.13
21 12 0.40
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.33
Consensus pattern (21 bp):
TGTATCGATACATTAAGTAAA
Found at i:1085952 original size:21 final size:21
Alignment explanation
Indices: 1085926--1085983 Score: 116
Period size: 21 Copynumber: 2.8 Consensus size: 21
1085916 CTGCCAAGGA
1085926 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
1085947 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
1085968 AATGTATCGATACATT
1 AATGTATCGATACATT
1085984 GTATCGATAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.38
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:1085988 original size:13 final size:13
Alignment explanation
Indices: 1085970--1085995 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1085960 ATTTGTAGAA
1085970 TGTATCGATACAT
1 TGTATCGATACAT
1085983 TGTATCGATACAT
1 TGTATCGATACAT
1085996 CGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1088409 original size:51 final size:51
Alignment explanation
Indices: 1088329--1088497 Score: 191
Period size: 51 Copynumber: 3.3 Consensus size: 51
1088319 ATTTTTCATC
* * *
1088329 TCGGGGATACTCCAA-TCCCGGTTTCATTTCCAAAACATCAATTTCTCTTAA
1 TCGGGGATACTCCAACT-CCGATTTTATTTCCAAAACATCAATTTCTCATAA
* * *
1088380 TCGGGGATACTCCAACTCCAATTTTATTTCTAAAACACTCATTTTC-CATAA
1 TCGGGGATACTCCAACTCCGATTTTATTTCCAAAACA-TCAATTTCTCATAA
* * * *
1088431 TCGGGGATACTCCAACTCCGATTTTATTTCCAGAATACCGACTTT-TCATAA
1 TCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATC-AATTTCTCATAA
*
1088482 TCAGGGATACTCCAAC
1 TCGGGGATACTCCAAC
1088498 CCCGTTATTT
Statistics
Matches: 101, Mismatches: 13, Indels: 8
0.83 0.11 0.07
Matches are distributed among these distances:
50 1 0.01
51 92 0.91
52 8 0.08
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.33
Consensus pattern (51 bp):
TCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTCTCATAA
Found at i:1088595 original size:76 final size:75
Alignment explanation
Indices: 1088485--1088771 Score: 412
Period size: 76 Copynumber: 3.8 Consensus size: 75
1088475 TTCATAATCA
* *
1088485 GGGATACTCCAACCCCGTTATTTCTGAGGGGACACTCCAACCTCAGTTTTATTTCTAAAACATCA
1 GGGATACTCCAACCCCGTTATTT-TGAGGGGACACTCCAACCCCGGTTTTATTTCTAAAACATCA
1088550 ATTTTTCATCG
65 ATTTTTCATCG
* * *
1088561 GGGATACTCCAGCCCCGTTATTTTGGAGAGGACACTCCAACCCCGGTTTTATTTCTAAAATATCA
1 GGGATACTCCAACCCCGTTATTTT-GAGGGGACACTCCAACCCCGGTTTTATTTCTAAAACATCA
*
1088626 ATTTTTCATCA
65 ATTTTTCATCG
*
1088637 GGGATACTCCAACCCCGTTATTTTCGAGGGGACACTCCAACCCCGGTTTTGTTTCTAAAACATCA
1 GGGATACTCCAACCCCGTTATTTT-GAGGGGACACTCCAACCCCGGTTTTATTTCTAAAACATCA
*
1088702 ATTTTTTATCG
65 ATTTTTCATCG
** * * * * *
1088713 GGGATACTCCAACCCCGTTATTTTTTGGGGATATTGCAACCCCGGCTTTATATCTAAAA
1 GGGATACTCCAACCCCGTTATTTTGAGGGGACACTCCAACCCCGGTTTTATTTCTAAAA
1088772 ATATTGCTTT
Statistics
Matches: 189, Mismatches: 21, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
75 28 0.15
76 161 0.85
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.33
Consensus pattern (75 bp):
GGGATACTCCAACCCCGTTATTTTGAGGGGACACTCCAACCCCGGTTTTATTTCTAAAACATCAA
TTTTTCATCG
Found at i:1088783 original size:76 final size:75
Alignment explanation
Indices: 1088485--1088814 Score: 390
Period size: 76 Copynumber: 4.3 Consensus size: 75
1088475 TTCATAATCA
* * * *
1088485 GGGATACTCCAACCCCGTTATTTCTGAGGGGACACTCCAACCTCAGTTTTATTTCTAAAACATCA
1 GGGATACTCCAACCCCGTTATTT-TTAGGGGACACTCCAACCCCGGTTTTATTTCTAAAATATCA
1088550 ATTTTTCATCG
65 ATTTTTCATCG
* * *
1088561 GGGATACTCCAGCCCCGTTATTTTGGAGAGGACACTCCAACCCCGGTTTTATTTCTAAAATATCA
1 GGGATACTCCAACCCCGTTATTTT-TAGGGGACACTCCAACCCCGGTTTTATTTCTAAAATATCA
*
1088626 ATTTTTCATCA
65 ATTTTTCATCG
* * *
1088637 GGGATACTCCAACCCCGTTATTTTCGAGGGGACACTCCAACCCCGGTTTTGTTTCTAAAACATCA
1 GGGATACTCCAACCCCGTTATTTT-TAGGGGACACTCCAACCCCGGTTTTATTTCTAAAATATCA
*
1088702 ATTTTTTATCG
65 ATTTTTCATCG
* * * * * * **
1088713 GGGATACTCCAACCCCGTTATTTTTTGGGGATATTGCAACCCCGGCTTTATATCTAAAAATATTG
1 GGGATACTCCAACCCCGTTATTTTTAGGGGACACTCCAACCCCGGTTTTATTTCT-AAAATATCA
*
1088778 CTTTTTCATAATCG
65 ATTTTTC---ATCG
* *
1088792 GGGGTACTCTAACCCCGTTATTT
1 GGGATACTCCAACCCCGTTATTT
1088815 CATCGGGGAT
Statistics
Matches: 221, Mismatches: 28, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
75 24 0.11
76 172 0.78
79 25 0.11
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (75 bp):
GGGATACTCCAACCCCGTTATTTTTAGGGGACACTCCAACCCCGGTTTTATTTCTAAAATATCAA
TTTTTCATCG
Found at i:1088783 original size:152 final size:154
Alignment explanation
Indices: 1088480--1088814 Score: 446
Period size: 152 Copynumber: 2.2 Consensus size: 154
1088470 GACTTTTCAT
*
1088480 AATCAGGGATACTCCAACCCCGTTA-TTTCTGAGGGGACACTCCAACCTCAGTTTTATTTCTAAA
1 AATCAGGGATACTCCAACCCCGTTATTTTCTGAGGGGACACTCCAACCCCAGTTTTATTTCTAAA
* *
1088544 ACATCAATTTTTCATCGGGGATACTCCAGCCCCGTTATTTTGGAGAGGACACTCCAACCCCGGTT
66 ACATCAATTTTTCATCGGGGATACTCCAACCCCGTTATTTTGGAGAGGACACTCCAACCCCGGCT
*
1088609 TTATTTCTAAAATATCAATTTTTC
131 TTATATCTAAAATATCAATTTTTC
* *
1088633 -ATCAGGGATACTCCAACCCCGTTATTTTC-GAGGGGACACTCCAACCCCGGTTTTGTTTCTAAA
1 AATCAGGGATACTCCAACCCCGTTATTTTCTGAGGGGACACTCCAACCCCAGTTTTATTTCTAAA
* * * * *
1088696 ACATCAATTTTTTATCGGGGATACTCCAACCCCGTTATTTTTTG-G-GGATATTGCAACCCCGGC
66 ACATCAATTTTTCATCGGGGATACTCCAACCCCGTTA-TTTTGGAGAGGACACTCCAACCCCGGC
***
1088759 TTTATATCTAAAAATATTGCTTTTTC
130 TTTATATCT-AAAATATCAATTTTTC
* * *
1088785 ATAATCGGGGGTACTCTAACCCCGTTATTT
1 --AATCAGGGATACTCCAACCCCGTTATTT
1088815 CATCGGGGAT
Statistics
Matches: 159, Mismatches: 17, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
151 22 0.14
152 104 0.65
153 9 0.06
155 24 0.15
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (154 bp):
AATCAGGGATACTCCAACCCCGTTATTTTCTGAGGGGACACTCCAACCCCAGTTTTATTTCTAAA
ACATCAATTTTTCATCGGGGATACTCCAACCCCGTTATTTTGGAGAGGACACTCCAACCCCGGCT
TTATATCTAAAATATCAATTTTTC
Found at i:1088827 original size:28 final size:28
Alignment explanation
Indices: 1088791--1088891 Score: 98
Period size: 28 Copynumber: 3.6 Consensus size: 28
1088781 TTTCATAATC
* * *
1088791 GGGGGTACTCTAACCCCGTTATTTCATC
1 GGGGATACTCCAACCCCGTTATTTCATA
** *
1088819 GGGGATACTCCAGTCCTGTTATTTCCA-A
1 GGGGATACTCCAACCCCGTTATTT-CATA
**
1088847 GGGGATACTCCAGTCCCGTTATTTC-TGA
1 GGGGATACTCCAACCCCGTTATTTCAT-A
1088875 GGGGATACTCCAACCCC
1 GGGGATACTCCAACCCC
1088892 AATTTTATTT
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
27 1 0.02
28 58 0.95
29 2 0.03
ACGTcount: A:0.20, C:0.29, G:0.23, T:0.29
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTTCATA
Done.