Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 91 of 297
Found at i:32780062 original size:85 final size:85
Alignment explanation
Indices: 32779899--32780904 Score: 1086
Period size: 85 Copynumber: 11.8 Consensus size: 85
32779889 GTGCAAGGAT
* * * * *
32779899 GTGCGAGAGCCTC-GGCACCA-CTGGCAACCTAGGACCTCGGTCATACGGGAGCCTCGGGCACCA
1 GTGCGGGAGCCTCGGGCACCATC-GGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTC-GGCACCA
32779962 TCGGCAACCTAGGCCCTTGGTC
64 TCGGCAACCTAGGCCCTTGGTC
* * * * * *
32779984 GTACGAGAGCCTCGGGCACCATTGGCAACCTAGGACCTTGGTCGTGCGAGAGCCTCGGTACCATC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGCACCATC
*
32780049 CGCAACCTAGGCCCTTGGTC
66 GGCAACCTAGGCCCTTGGTC
* * * * *
32780069 GTGCGGG-GCCTCGGACACCATCGGCAACCTAGGCCATTAGTCGTACGGGAGCCTCGAACACCAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCG-GCACCAT
* * *
32780133 CAGC-ACCTTGGCACTTGGAT-
65 CGGCAACCTAGGCCCTTGG-TC
* * * ** *
32780153 GTACGGGAGCCTCGGACACCATCGGTAACCTAGTTCCTTGGAT-GTGCGGAAGCCTCGGACACCA
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGG-CACCA
**
32780217 TCGGCAACCTAGGCAGTTGGTC
64 TCGGCAACCTAGGCCCTTGGTC
* * * * *
32780239 GTGCGGGAGTCTC-GGCACCATCGGCAACCTAGGCCCCTAGTCGTGCGAGAGCCTCGGCACAATC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGCACCATC
* * *
32780303 AGAAACCTAGGCCCCTGGTC
66 GGCAACCTAGGCCCTTGGTC
* * * *
32780323 GTGCAGGAGCCTCGGGCACCATCAGCAACCTAGGCCCCTGGTCGTGCGGGAGCGTCGGGCACCAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTC-GGCACCAT
* * *
32780388 CAGCAACCTAGTCCCCTGGTC
65 CGGCAACCTAGGCCCTTGGTC
* * * *
32780409 GTGCGGGATCCTCGGGCACCATCGGCAACCTAGGCCCCTGGTCGTACGAGAGCCTCGGGCACCAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTC-GGCACCAT
* *
32780474 CGG-TACCTAGGCCCCTGGTC
65 CGGCAACCTAGGCCCTTGGTC
** ** *
32780494 GTGCGGGAGCCTCGGGCACCATCGGC-ACCTTCGTGCTTGGAT-GTACGGGAGCCTCGGACACCA
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGG-CACCA
*
32780557 TCGGCAACCTAGGCCCTTAGTC
64 TCGGCAACCTAGGCCCTTGGTC
* * *
32780579 GTGCGGGAGCCTCGAGCACCATCGGTAACCTAGGCCCTTGGTCATGCGGGAGCCTCGGGCACCAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTC-GGCACCAT
** **
32780644 CGGC-ACCTTCGTGCTTGGAT-
65 CGGCAACCTAGGCCCTTGG-TC
* * *
32780664 GTACGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTAGTCGTGCGGGAGCCTCGAGCACCAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCG-GCACCAT
*
32780729 CGGTAACCTAGGCCCTTGGTC
65 CGGCAACCTAGGCCCTTGGTC
* ** ** *
32780750 ATGCGGGAGCCTCGGGCACCATCGGC-ACCTTCGTGCTTGGAT-GTACGGGAGCCTCGGACACCA
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGG-CACCA
*
32780813 TCGGCAACCTAGGCCCTTAGTC
64 TCGGCAACCTAGGCCCTTGGTC
* * *
32780835 GTGCGGGAGCCTCGAGCACCATCGGTAACCTAGGCCCTTGGTCATGCGGGAGCCTCGGGCACCAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTC-GGCACCAT
32780900 CGGCA
65 CGGCA
32780905 CCTTTCTGCT
Statistics
Matches: 772, Mismatches: 122, Indels: 53
0.82 0.13 0.06
Matches are distributed among these distances:
83 2 0.00
84 125 0.16
85 396 0.51
86 245 0.32
87 4 0.01
ACGTcount: A:0.18, C:0.33, G:0.31, T:0.17
Consensus pattern (85 bp):
GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGCACCATC
GGCAACCTAGGCCCTTGGTC
Found at i:32780949 original size:43 final size:42
Alignment explanation
Indices: 32780494--32780989 Score: 227
Period size: 43 Copynumber: 11.6 Consensus size: 42
32780484 GCCCCTGGTC
* *
32780494 GTGCGGGAGCCTCGGGCACCATCGGCACCTT-CGTGCTTGGAT
1 GTGCAGGAGCCTCGAGCACCATCGGCACCTTGC-TGCTTGGAT
* * * * *
32780536 GTACGGGAGCCTCG-GACACCATCGGCAACCTAGGC-CCTTAG-T
1 GTGCAGGAGCCTCGAG-CACCATCGGC-ACCT-TGCTGCTTGGAT
* * * *
32780578 CGTGCGGGAGCCTCGAGCACCATCGGTAACCTAGGC-CCTTGG-T
1 -GTGCAGGAGCCTCGAGCACCATCGG-CACCT-TGCTGCTTGGAT
* * *
32780621 CATGCGGGAGCCTCGGGCACCATCGGCACCTT-CGTGCTTGGAT
1 -GTGCAGGAGCCTCGAGCACCATCGGCACCTTGC-TGCTTGGAT
* * * * *
32780664 GTACGGGAGCCTCG-GACACCATCGGCAACCTAGGC-CCTTAG-T
1 GTGCAGGAGCCTCGAG-CACCATCGGC-ACCT-TGCTGCTTGGAT
* * * *
32780706 CGTGCGGGAGCCTCGAGCACCATCGGTAACCTAGGC-CCTTGG-T
1 -GTGCAGGAGCCTCGAGCACCATCGG-CACCT-TGCTGCTTGGAT
* * *
32780749 CATGCGGGAGCCTCGGGCACCATCGGCACCTT-CGTGCTTGGAT
1 -GTGCAGGAGCCTCGAGCACCATCGGCACCTTGC-TGCTTGGAT
* * * * *
32780792 GTACGGGAGCCTCG-GACACCATCGGCAACCTAGGC-CCTTAG-T
1 GTGCAGGAGCCTCGAG-CACCATCGGC-ACCT-TGCTGCTTGGAT
* * * *
32780834 CGTGCGGGAGCCTCGAGCACCATCGGTAACCTAGGC-CCTTGG-T
1 -GTGCAGGAGCCTCGAGCACCATCGG-CACCT-TGCTGCTTGGAT
* * * *
32780877 CATGCGGGAGCCTCGGGCACCATCGGCACCTTTCTGCTTCGGAT
1 -GTGCAGGAGCCTCGAGCACCATCGGCACCTTGCTGCTT-GGAT
* * * *
32780921 GTGCAGGAGCATCGAGCAGCATTGGCACCTTGGTGCTTGGAT
1 GTGCAGGAGCCTCGAGCACCATCGGCACCTTGCTGCTTGGAT
* * *
32780963 GTGCGGGAGCCTCGAACACCATAGGCA
1 GTGCAGGAGCCTCGAGCACCATCGGCA
32780990 ACCTAGGACG
Statistics
Matches: 372, Mismatches: 52, Indels: 60
0.77 0.11 0.12
Matches are distributed among these distances:
40 2 0.01
41 4 0.01
42 121 0.33
43 238 0.64
44 4 0.01
45 3 0.01
ACGTcount: A:0.17, C:0.32, G:0.32, T:0.19
Consensus pattern (42 bp):
GTGCAGGAGCCTCGAGCACCATCGGCACCTTGCTGCTTGGAT
Found at i:32781022 original size:85 final size:85
Alignment explanation
Indices: 32779944--32781055 Score: 622
Period size: 85 Copynumber: 13.0 Consensus size: 85
32779934 CTCGGTCATA
** * * * * *
32779944 CGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTACGAGAGCCTCGGGCACCATTGG
1 CGGGAGCCTCGAACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCACGAGCACCATCGG
* **
32780009 CAACCTAGGACCTTGG-TCGTG
66 C-ACCTTGGTGCTTGGAT-GTG
* ** * *
32780030 CGAGAGCCTCG-GTACCATCCGCAACCTAGGCCCTTGGTCGTGCGGG-GCCTCG-GACACCATCG
1 CGGGAGCCTCGAACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCACGAG-CACCATCG
* * * *
32780092 GCAACCTAGG-CCATTAG-TCGTA
65 GC-ACCTTGGTGC-TTGGAT-GTG
* * * * *
32780114 CGGGAGCCTCGAACACCATCAGC-ACCTTGGCACTTGGAT-GTACGGGAGCCTCG-GACACCATC
1 CGGGAGCCTCGAACACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCACGAG-CACCATC
* * * *
32780176 GGTAACCTAGTTCCTTGGATGTG
64 GG-CACCTTGGTGCTTGGATGTG
* * ** * *
32780199 CGGAAGCCTCGGACACCATCGGCAACCTAGGCAGTTGGTCGTGCGGGAGTCTCG-GCACCATCGG
1 CGGGAGCCTCGAACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCACGAGCACCATCGG
* ** * *
32780263 CAACCTAGGCCCCTAG-TCGTG
66 C-ACCTTGGTGCTTGGAT-GTG
* * * * * * * * * *
32780284 CGAGAGCCTCG-GCACAATCAGAAACCTAGGCCCCTGGTCGTGCAGGAGCCTCGGGCACCATCAG
1 CGGGAGCCTCGAACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCACGAGCACCATCGG
* ** *
32780348 CAACCTAGGCCCCTGG-TCGTG
66 C-ACCTTGGTGCTTGGAT-GTG
* ** * * * * * *
32780369 CGGGAGCGTCGGGCACCATCAGCAACCTAGTCCCCTGGTCGTGCGGGATCCTCGGGCACCATCGG
1 CGGGAGCCTCGAACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCACGAGCACCATCGG
* ** * *
32780434 CAACCTAGGCCCCTGG-TCGTA
66 C-ACCTTGGTGCTTGGAT-GTG
* ** * * * *
32780455 CGAGAGCCTCGGGCACCATCGG-TACCTAGGCCCCTGGTCGTGCGGGAGCCTCGGGCACCATCGG
1 CGGGAGCCTCGAACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCACGAGCACCATCGG
* *
32780519 CACCTTCGTGCTTGGATGTA
66 CACCTTGGTGCTTGGATGTG
* * *
32780539 CGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTAGTCGTGCGGGAGCCTCGAGCACCATCGG
1 CGGGAGCCTCGAACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCACGAGCACCATCGG
* * ** *
32780604 TAACCTAGGCCCTTGG-TCATG
66 -CACCTTGGTGCTTGGAT-GTG
** ** ** * *
32780625 CGGGAGCCTCGGGCACCATCGGC-ACCTTCGTGCTTGGAT-GTACGGGAGCCTCG-GACACCATC
1 CGGGAGCCTCGAACACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCACGAG-CACCATC
* ** *
32780687 GGCAACCTAGGCCCTTAG-TCGTG
64 GGC-ACCTTGGTGCTTGGAT-GTG
* * * * *
32780710 CGGGAGCCTCGAGCACCATCGGTAACCTAGGCCCTTGGTCATGCGGGAGCCTCGGGCACCATCGG
1 CGGGAGCCTCGAACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCACGAGCACCATCGG
* *
32780775 CACCTTCGTGCTTGGATGTA
66 CACCTTGGTGCTTGGATGTG
* * *
32780795 CGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTAGTCGTGCGGGAGCCTCGAGCACCATCGG
1 CGGGAGCCTCGAACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCACGAGCACCATCGG
* * ** *
32780860 TAACCTAGGCCCTTGG-TCATG
66 -CACCTTGGTGCTTGGAT-GTG
** ** * * *
32780881 CGGGAGCCTCGGGCACCATCGGC-ACCT-TTCTGCTTCGGAT-GTGCAGGAG-CATCGAGCAGCA
1 CGGGAGCCTCGAACACCATCGGCAACCTAGGC-CCTT-GG-TCGTGCGGGAGCCA-CGAGCACCA
*
32780942 TTGGCACCTTGGTGCTTGGATGTG
62 TCGGCACCTTGGTGCTTGGATGTG
* * * * **
32780966 CGGGAGCCTCGAACACCATAGGCAACCTAGGACGTTGGAT-GTGC-GGATGCCACGAGCAGCAGG
1 CGGGAGCCTCGAACACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGA-GCCACGAGCACCATC
* *
32781029 GGCACCCTGGTGCCTCGGATGTG
64 GGCACCTTGGTG-CTTGGATGTG
32781052 CGGG
1 CGGG
32781056 CTAAAGAAAA
Statistics
Matches: 849, Mismatches: 140, Indels: 74
0.80 0.13 0.07
Matches are distributed among these distances:
83 3 0.00
84 129 0.15
85 449 0.53
86 266 0.31
87 2 0.00
ACGTcount: A:0.18, C:0.32, G:0.32, T:0.18
Consensus pattern (85 bp):
CGGGAGCCTCGAACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCACGAGCACCATCGG
CACCTTGGTGCTTGGATGTG
Found at i:32786860 original size:129 final size:129
Alignment explanation
Indices: 32786630--32786889 Score: 502
Period size: 129 Copynumber: 2.0 Consensus size: 129
32786620 AAATTTTCCA
32786630 AAGTATGTTGTGTTTGTAACGCCCTAAAAATAGGTCTACTAGTTTTGAGTAAGTTTATCGGGTTC
1 AAGTATGTTGTGTTTGTAACGCCCTAAAAATAGGTCTACTAGTTTTGAGTAAGTTTATCGGGTTC
32786695 CGGGTGAAAGCTAGGAGTTAATCGGGTTTACTACTCATTTCTTTAAAAAAAAATTAGTTAGCTT
66 CGGGTGAAAGCTAGGAGTTAATCGGGTTTACTACTCATTTCTTTAAAAAAAAATTAGTTAGCTT
* *
32786759 AAGTATGTTGTGTTTGTAACGCCTTAAAAATAGGTCTATTAGTTTTGAGTAAGTTTATCGGGTTC
1 AAGTATGTTGTGTTTGTAACGCCCTAAAAATAGGTCTACTAGTTTTGAGTAAGTTTATCGGGTTC
32786824 CGGGTGAAAGCTAGGAGTTAATCGGGTTTACTACTCATTTCTTTAAAAAAAAATTAGTTAGCTT
66 CGGGTGAAAGCTAGGAGTTAATCGGGTTTACTACTCATTTCTTTAAAAAAAAATTAGTTAGCTT
32786888 AA
1 AA
32786890 TTTCATTTAA
Statistics
Matches: 129, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
129 129 1.00
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.37
Consensus pattern (129 bp):
AAGTATGTTGTGTTTGTAACGCCCTAAAAATAGGTCTACTAGTTTTGAGTAAGTTTATCGGGTTC
CGGGTGAAAGCTAGGAGTTAATCGGGTTTACTACTCATTTCTTTAAAAAAAAATTAGTTAGCTT
Found at i:32794093 original size:47 final size:47
Alignment explanation
Indices: 32794042--32794146 Score: 176
Period size: 47 Copynumber: 2.2 Consensus size: 47
32794032 CAGTATTAAT
32794042 TATGTGATAAGGCCGAATGGCCAATGTGATGGAA-GTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGAT-GAATGTGAAAGTGTATA
*
32794089 TATGTGATAAGGTCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
*
32794136 AATGTGATAAG
1 TATGTGATAAG
32794147 TCCCGAAGGG
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
46 3 0.05
47 52 0.95
ACGTcount: A:0.35, C:0.07, G:0.30, T:0.28
Consensus pattern (47 bp):
TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
Found at i:32801398 original size:25 final size:25
Alignment explanation
Indices: 32801370--32801417 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
32801360 TTATATTATG
* * *
32801370 AAAATGACTGTTTTTCCCCTAGGTA
1 AAAATGACCGTTATACCCCTAGGTA
32801395 AAAATGACCGTTATACCCCTAGG
1 AAAATGACCGTTATACCCCTAGG
32801418 GTTTACTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (25 bp):
AAAATGACCGTTATACCCCTAGGTA
Found at i:32801478 original size:20 final size:20
Alignment explanation
Indices: 32801453--32801499 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
32801443 ATTTTGATAT
32801453 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
32801473 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
32801493 ACATGAT
1 ACATGAT
32801500 GTATTCATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:32801591 original size:26 final size:26
Alignment explanation
Indices: 32801549--32801696 Score: 212
Period size: 26 Copynumber: 5.8 Consensus size: 26
32801539 GAGGAAGTGC
*
32801549 AAAAGGGC-TATGCCCCAATTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
32801574 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
32801600 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
32801626 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* * **
32801652 AAAAGGGCTT-TGCCCTAGCTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
32801677 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
32801697 ATTAAAGAGG
Statistics
Matches: 111, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
25 37 0.33
26 74 0.67
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:32803953 original size:101 final size:99
Alignment explanation
Indices: 32803779--32804015 Score: 298
Period size: 101 Copynumber: 2.4 Consensus size: 99
32803769 GTATATGGGG
* * *
32803779 CATCGACATGTGGATTTCGATATGTGATGTGCGAGTAAGACCATGGCATAGATGTGTGATTCCTA
1 CATCGAAATGT-GATTCCGATATGTGATGTGCGAGTAAGACCATGGCATAGATATGTGATTCCTA
*
32803844 TATATGTGCATGAGTAAGACCAAGTTTAATATGTTGC
65 TATATGTGC--GAGTAAGACCAAGTTTAATACGTTGC
* **
32803881 CATCGATATGTGATTCCGATATGTGATGTGCGAGTAAGACCATGGCATCTATATGTGATT-CTGA
1 CATCGAAATGTGATTCCGATATGTGATGTGCGAGTAAGACCATGGCATAGATATGTGATTCCT-A
* * * * *
32803945 TATGTGTGCGAGTAAGTCCACGTTTTATACGTTGG
65 TATATGTGCGAGTAAGACCAAGTTTAATACGTTGC
* *
32803980 CATCGAAATGTGATTCCGATATATG-TGTGTGAGTAA
1 CATCGAAATGTGATTCCGATATGTGATGTGCGAGTAA
32804016 AACCTTGTCT
Statistics
Matches: 120, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
98 10 0.08
99 44 0.37
100 2 0.02
101 54 0.45
102 10 0.08
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (99 bp):
CATCGAAATGTGATTCCGATATGTGATGTGCGAGTAAGACCATGGCATAGATATGTGATTCCTAT
ATATGTGCGAGTAAGACCAAGTTTAATACGTTGC
Found at i:32809018 original size:21 final size:21
Alignment explanation
Indices: 32808949--32809018 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
32808939 TATCACGAAC
32808949 TCAGACCACAACTCAATGAGT
1 TCAGACCACAACTCAATGAGT
* * * **
32808970 TCGGATGTCACATATATC-ATGAAC
1 TCAGA--CCACA-A-CTCAATGAGT
32808994 TCAGACCACAACTCAATGAGT
1 TCAGACCACAACTCAATGAGT
32809015 TCAG
1 TCAG
32809019 GTCACATATT
Statistics
Matches: 34, Mismatches: 10, Indels: 10
0.63 0.19 0.19
Matches are distributed among these distances:
20 2 0.06
21 13 0.38
22 4 0.12
23 4 0.12
24 9 0.26
25 2 0.06
ACGTcount: A:0.36, C:0.26, G:0.16, T:0.23
Consensus pattern (21 bp):
TCAGACCACAACTCAATGAGT
Found at i:32816393 original size:13 final size:13
Alignment explanation
Indices: 32816375--32816399 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32816365 TCCACACCAA
32816375 TATCATATTTGTC
1 TATCATATTTGTC
32816388 TATCATATTTGT
1 TATCATATTTGT
32816400 TAACCTATTT
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:0.24, C:0.12, G:0.08, T:0.56
Consensus pattern (13 bp):
TATCATATTTGTC
Found at i:32817361 original size:45 final size:45
Alignment explanation
Indices: 32817289--32817379 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 45
32817279 CCAAAACATG
* * * *
32817289 TGTCATATATATCACGAGCTCAGACCACAACTCAATGAGTTCAGA
1 TGTCACATAAATCACGAACTCAAACCACAACTCAATGAGTTCAGA
*
32817334 TGTCACATAAATCATGAACTCAAACCACAACTCAATGAGTTCAGA
1 TGTCACATAAATCACGAACTCAAACCACAACTCAATGAGTTCAGA
32817379 T
1 T
32817380 CACATATTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.38, C:0.24, G:0.13, T:0.24
Consensus pattern (45 bp):
TGTCACATAAATCACGAACTCAAACCACAACTCAATGAGTTCAGA
Found at i:32817383 original size:21 final size:21
Alignment explanation
Indices: 32817308--32817383 Score: 55
Period size: 21 Copynumber: 3.5 Consensus size: 21
32817298 TATCACGAGC
32817308 TCAGACCACAACTCAATGAGT
1 TCAGACCACAACTCAATGAGT
* * **
32817329 TCAGATGTCACATAAATC-ATGAAC
1 TCAGA---C-CACAACTCAATGAGT
*
32817353 TCAAACCACAACTCAATGAGT
1 TCAGACCACAACTCAATGAGT
*
32817374 TCAGATCACA
1 TCAGACCACA
32817384 TATTTTCTAG
Statistics
Matches: 39, Mismatches: 11, Indels: 10
0.65 0.18 0.17
Matches are distributed among these distances:
20 6 0.15
21 18 0.46
24 9 0.23
25 6 0.15
ACGTcount: A:0.41, C:0.26, G:0.12, T:0.21
Consensus pattern (21 bp):
TCAGACCACAACTCAATGAGT
Found at i:32819238 original size:45 final size:45
Alignment explanation
Indices: 32819183--32819273 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 45
32819173 CCAAAACATG
* *
32819183 TGTCATATATATCACAAACTCAGACCACAACTCAATGAGTTCAGA
1 TGTCACATATATCACAAACTCAAACCACAACTCAATGAGTTCAGA
** *
32819228 TGTCACATATATCATGAACTCAAACCACAGCTCAATGAGTTCAGA
1 TGTCACATATATCACAAACTCAAACCACAACTCAATGAGTTCAGA
32819273 T
1 T
32819274 CACATAGTTC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.38, C:0.24, G:0.12, T:0.25
Consensus pattern (45 bp):
TGTCACATATATCACAAACTCAAACCACAACTCAATGAGTTCAGA
Found at i:32828828 original size:43 final size:43
Alignment explanation
Indices: 32828775--32828879 Score: 183
Period size: 43 Copynumber: 2.4 Consensus size: 43
32828765 GGTTTAATCT
32828775 ATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGCTAATTA
1 ATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGCTAATTA
* *
32828818 ATTGGTACTAAGTGTGCGATACAATTATAGCTTCGGTTAATTA
1 ATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGCTAATTA
*
32828861 ATTAGCACTAAGTGTGCGA
1 ATTGGCACTAAGTGTGCGA
32828880 GTTTATTGAA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.33
Consensus pattern (43 bp):
ATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGCTAATTA
Found at i:32830856 original size:18 final size:17
Alignment explanation
Indices: 32830804--32830854 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 17
32830794 AACAGATGGG
32830804 TTTGATTTGGGGAAAAT
1 TTTGATTTGGGGAAAAT
32830821 TTAATG-TTTAGGGG-AAAT
1 TT--TGATTT-GGGGAAAAT
32830839 TTTGATTTGGGGAAAA
1 TTTGATTTGGGGAAAA
32830855 ATAAGGGGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
16 6 0.21
17 8 0.28
18 9 0.31
19 6 0.21
ACGTcount: A:0.31, C:0.00, G:0.29, T:0.39
Consensus pattern (17 bp):
TTTGATTTGGGGAAAAT
Found at i:32831032 original size:41 final size:41
Alignment explanation
Indices: 32830983--32831159 Score: 225
Period size: 41 Copynumber: 4.4 Consensus size: 41
32830973 TTTGCAGCAG
* * * *
32830983 TTTT-AAAAATGCGCAGCTAATTCTCGATCTTTAGCGGTGC
1 TTTTCAAAAAAGCGCAGCTAATTCTCGATCTTTAGCAGCGT
*
32831023 TTTTCAAAAAAGCG-ATGCTAATTCTCAATCTTTAGCAGCGT
1 TTTTCAAAAAAGCGCA-GCTAATTCTCGATCTTTAGCAGCGT
*
32831064 TTTTCAAAAAAGCGCCGCTAATTCTCGATCTTTAGCAGCGT
1 TTTTCAAAAAAGCGCAGCTAATTCTCGATCTTTAGCAGCGT
* * * *
32831105 TTTTCAAAAAAGCGCCGGTAATTCTCGATCTTTAGCGGCAT
1 TTTTCAAAAAAGCGCAGCTAATTCTCGATCTTTAGCAGCGT
*
32831146 TTTTC-AGAAAGCGC
1 TTTTCAAAAAAGCGC
32831160 CACTAATGCC
Statistics
Matches: 123, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
40 13 0.11
41 110 0.89
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (41 bp):
TTTTCAAAAAAGCGCAGCTAATTCTCGATCTTTAGCAGCGT
Found at i:32831539 original size:8 final size:7
Alignment explanation
Indices: 32831526--32831594 Score: 50
Period size: 7 Copynumber: 9.3 Consensus size: 7
32831516 CAAAATCTAT
32831526 AACCCTTA
1 AACCC-TA
32831534 AACCCTA
1 AACCCTA
32831541 ATACCCT-
1 A-ACCCTA
32831548 AACCCTTAA
1 AACCC-T-A
*
32831557 AACCATA
1 AACCCTA
*
32831564 AACACTA
1 AACCCTA
32831571 AGACCCTA
1 A-ACCCTA
*
32831579 AACTCTA
1 AACCCTA
*
32831586 AACACTA
1 AACCCTA
32831593 AA
1 AA
32831595 TCTCAAGCCC
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
6 4 0.08
7 25 0.50
8 17 0.34
9 4 0.08
ACGTcount: A:0.46, C:0.33, G:0.01, T:0.19
Consensus pattern (7 bp):
AACCCTA
Found at i:32831571 original size:22 final size:22
Alignment explanation
Indices: 32831525--32831571 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
32831515 TCAAAATCTA
* *
32831525 TAACCCTTAAACCCTAATACCC
1 TAACCCTTAAACCATAATACAC
32831547 TAACCCTTAAAACCATAA-ACAC
1 TAACCCTT-AAACCATAATACAC
32831569 TAA
1 TAA
32831572 GACCCTAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.45, C:0.34, G:0.00, T:0.21
Consensus pattern (22 bp):
TAACCCTTAAACCATAATACAC
Found at i:32832245 original size:41 final size:41
Alignment explanation
Indices: 32832182--32832428 Score: 218
Period size: 41 Copynumber: 6.2 Consensus size: 41
32832172 TTTTATGGCT
* ** * *
32832182 TTTGGACCAGAAACACCGCTATTGCTCAATTTTTGGCGGCG
1 TTTGGACCAAAAATGCCGCTATTGCTCAGTTTTTAGCGGCG
* * * **
32832223 TTTGGACCAAAAATGCCACTATT-CTTAGTTTTTTGCCTCG
1 TTTGGACCAAAAATGCCGCTATTGCTCAGTTTTTAGCGGCG
* * * * * *
32832263 TTTGTACCAAAAATGCCTCTATTGTTTAGTTTTTAGTGGTG
1 TTTGGACCAAAAATGCCGCTATTGCTCAGTTTTTAGCGGCG
* * * * *
32832304 TTTGG-----AAACGCCACTATTGTTCAGTTTTTAACGGCA
1 TTTGGACCAAAAATGCCGCTATTGCTCAGTTTTTAGCGGCG
* *
32832340 TTTGGAACAAAAATGCCGCTATTGCTCAGTTTTTAGTGGCG
1 TTTGGACCAAAAATGCCGCTATTGCTCAGTTTTTAGCGGCG
* * *
32832381 TTTGGACAAAAAATGCCGTTATTGCTCAGTTTTTAGTGGCG
1 TTTGGACCAAAAATGCCGCTATTGCTCAGTTTTTAGCGGCG
32832422 TTTGGAC
1 TTTGGAC
32832429 TAGAAAAGCC
Statistics
Matches: 166, Mismatches: 34, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
36 29 0.17
40 33 0.20
41 104 0.63
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.37
Consensus pattern (41 bp):
TTTGGACCAAAAATGCCGCTATTGCTCAGTTTTTAGCGGCG
Found at i:32832362 original size:117 final size:118
Alignment explanation
Indices: 32832191--32832427 Score: 280
Period size: 118 Copynumber: 2.0 Consensus size: 118
32832181 TTTTGGACCA
* ** * * *
32832191 GAAACACCGCTATTGCTCAATTTTTGGCGGCGTTTGGACCAAAAATGCCACTATT-CTTAGTTTT
1 GAAACACCACTATTGCTCAATTTTTAACGGCATTTGGAACAAAAATGCCACTATTGCTCAGTTTT
* * * * * * *
32832255 TTGCCTCGTTTGTACCAAAAATGCC-TCTATTGTTTAGTTTTTAGTGGTGTTTG
66 TAGCCGCGTTTGGACAAAAAATGCCGT-TATTGCTCAGTTTTTAGTGGCGTTTG
* * * *
32832308 GAAACGCCACTATTGTTCAGTTTTTAACGGCATTTGGAACAAAAATGCCGCTATTGCTCAGTTTT
1 GAAACACCACTATTGCTCAATTTTTAACGGCATTTGGAACAAAAATGCCACTATTGCTCAGTTTT
**
32832373 TAGTGGCGTTTGGACAAAAAATGCCGTTATTGCTCAGTTTTTAGTGGCGTTTG
66 TAGCCGCGTTTGGACAAAAAATGCCGTTATTGCTCAGTTTTTAGTGGCGTTTG
32832426 GA
1 GA
32832428 CTAGAAAAGC
Statistics
Matches: 99, Mismatches: 19, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
117 46 0.46
118 52 0.53
119 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.38
Consensus pattern (118 bp):
GAAACACCACTATTGCTCAATTTTTAACGGCATTTGGAACAAAAATGCCACTATTGCTCAGTTTT
TAGCCGCGTTTGGACAAAAAATGCCGTTATTGCTCAGTTTTTAGTGGCGTTTG
Found at i:32833843 original size:42 final size:43
Alignment explanation
Indices: 32833760--32833912 Score: 138
Period size: 42 Copynumber: 3.6 Consensus size: 43
32833750 TCCAAGATGT
*
32833760 GGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAG
1 GGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAGACAG
* *
32833803 GGTCTTACACG-AAGTCAAATA-CGATGCCGA-TGTCCTAGACAT
1 GGTCTTACACGTAA-TCAAATATCGATGCC-ACTGTCCCAGACAG
* * *
32833845 GATCTTACACATAAATCACAAT-TCAATGCCAAC-GTCCCAGAC-G
1 GGTCTTACACGT-AATCA-AATATCGATGCC-ACTGTCCCAGACAG
* *
32833888 TGGTCTTACACGAAATCACATATCG
1 -GGTCTTACACGTAATCAAATATCG
32833913 GAATCCTATG
Statistics
Matches: 87, Mismatches: 14, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
42 30 0.34
43 28 0.32
44 29 0.33
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (43 bp):
GGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAGACAG
Found at i:32836500 original size:25 final size:25
Alignment explanation
Indices: 32836472--32836560 Score: 74
Period size: 25 Copynumber: 3.6 Consensus size: 25
32836462 ATTAATCAGT
32836472 AAGCTCATAAGAGCCAATTATCGAG
1 AAGCTCATAAGAGCCAATTATCGAG
** * * *
32836497 AAGCTCCGGAA-ATTCAAATAAT-GAG
1 AAGCT-CATAAGA-GCCAATTATCGAG
* * *
32836522 AAGCTCGTGAGAGCCAAATATCGAG
1 AAGCTCATAAGAGCCAATTATCGAG
32836547 AAGCTCATAAGAGC
1 AAGCTCATAAGAGC
32836561 TGTGGCCTGT
Statistics
Matches: 47, Mismatches: 13, Indels: 8
0.69 0.19 0.12
Matches are distributed among these distances:
24 8 0.17
25 30 0.64
26 9 0.19
ACGTcount: A:0.40, C:0.19, G:0.22, T:0.18
Consensus pattern (25 bp):
AAGCTCATAAGAGCCAATTATCGAG
Found at i:32838845 original size:65 final size:65
Alignment explanation
Indices: 32838771--32838964 Score: 388
Period size: 65 Copynumber: 3.0 Consensus size: 65
32838761 TAAATTATAA
32838771 AAACATAAAATAAAAGTAGAGTTTATATTTTATGATATGATCAATAAATGAAATAGAGATGTGAT
1 AAACATAAAATAAAAGTAGAGTTTATATTTTATGATATGATCAATAAATGAAATAGAGATGTGAT
32838836 AAACATAAAATAAAAGTAGAGTTTATATTTTATGATATGATCAATAAATGAAATAGAGATGTGAT
1 AAACATAAAATAAAAGTAGAGTTTATATTTTATGATATGATCAATAAATGAAATAGAGATGTGAT
32838901 AAACATAAAATAAAAGTAGAGTTTATATTTTATGATATGATCAATAAATGAAATAGAGATGTGA
1 AAACATAAAATAAAAGTAGAGTTTATATTTTATGATATGATCAATAAATGAAATAGAGATGTGA
32838965 ATCTAATCAA
Statistics
Matches: 129, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 129 1.00
ACGTcount: A:0.49, C:0.03, G:0.15, T:0.32
Consensus pattern (65 bp):
AAACATAAAATAAAAGTAGAGTTTATATTTTATGATATGATCAATAAATGAAATAGAGATGTGAT
Found at i:32851441 original size:20 final size:21
Alignment explanation
Indices: 32851405--32851443 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
32851395 GTTTTTTGGG
*
32851405 GAAAAAGAGAAATTAAAATTT
1 GAAAAAAAGAAATTAAAATTT
32851426 GAAAAAAAGAAA-TAAAAT
1 GAAAAAAAGAAATTAAAAT
32851444 CCCAGATATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.69, C:0.00, G:0.13, T:0.18
Consensus pattern (21 bp):
GAAAAAAAGAAATTAAAATTT
Found at i:32852077 original size:5 final size:6
Alignment explanation
Indices: 32852064--32852102 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
32852054 ATAATTTAAT
*
32852064 AAATAA AAATAA AAATCTAA AACTAA AAATAA AAATAA A
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA A
32852103 GAACATATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 24 0.83
8 5 0.17
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (6 bp):
AAATAA
Found at i:32852138 original size:9 final size:9
Alignment explanation
Indices: 32852124--32852209 Score: 95
Period size: 9 Copynumber: 9.6 Consensus size: 9
32852114 TTTACACAAA
*
32852124 TAATTTGGT
1 TAATTCGGT
*
32852133 TAATTTGGT
1 TAATTCGGT
32852142 TAATTCGAG-
1 TAATTCG-GT
32852151 TAATTCAGG-
1 TAATTC-GGT
*
32852160 TAATTCGGG
1 TAATTCGGT
32852169 TAATTCGGT
1 TAATTCGGT
*
32852178 TAATTCGAT
1 TAATTCGGT
*
32852187 TAATTCGAT
1 TAATTCGGT
32852196 TAATTCGGT
1 TAATTCGGT
32852205 TAATT
1 TAATT
32852210 TTATACTTAT
Statistics
Matches: 70, Mismatches: 4, Indels: 6
0.88 0.05 0.08
Matches are distributed among these distances:
8 2 0.03
9 66 0.94
10 2 0.03
ACGTcount: A:0.28, C:0.08, G:0.20, T:0.44
Consensus pattern (9 bp):
TAATTCGGT
Found at i:32864458 original size:30 final size:29
Alignment explanation
Indices: 32864424--32864482 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
32864414 ATTTAATACG
32864424 AACTTTAGAAAAATTACACTTTTGCCCCTA
1 AACTTTAGAAAAATTACAC-TTTGCCCCTA
* * *
32864454 AACTTTTGCATAATTACACTTTGCCCCTA
1 AACTTTAGAAAAATTACACTTTGCCCCTA
32864483 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 10 0.38
30 16 0.62
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.36
Consensus pattern (29 bp):
AACTTTAGAAAAATTACACTTTGCCCCTA
Found at i:32866772 original size:26 final size:27
Alignment explanation
Indices: 32866720--32867087 Score: 127
Period size: 27 Copynumber: 13.7 Consensus size: 27
32866710 TTTAGTTTAC
*
32866720 TAAAATTACTGAAATACCCT-TAGTTTG
1 TAAAATTACTGAAATACCCTCGA-TTTG
*
32866747 TAAAAATACTG-AATACCCTCGATTTG
1 TAAAATTACTGAAATACCCTCGATTTG
* *
32866773 TAAAATTACTGAAATACCTTCGACTTG
1 TAAAATTACTGAAATACCCTCGATTTG
* * * *
32866800 TAAAATTAC-CAAAGTTCCCCCGATTTA
1 TAAAATTACTGAAA-TACCCTCGATTTG
* * *** *
32866827 TAGAATTACCGTTTTACCC-CTGATTTA
1 TAAAATTACTGAAATACCCTC-GATTTG
* * *** * *
32866854 CATAATTACTGTTTTACCCCCGATTTA
1 TAAAATTACTGAAATACCCTCGATTTG
* *** *
32866881 TAAAATTACCGTTTTACCCTCGATTTA
1 TAAAATTACTGAAATACCCTCGATTTG
* * ** *
32866908 TAGAATTAC-CATTTTACCCTCGATTTA
1 TAAAATTACTGA-AATACCCTCGATTTG
* * *** * *
32866935 TAGAATTATTGTTTTACCCTTGATTTA
1 TAAAATTACTGAAATACCCTCGATTTG
* * *** *
32866962 CAGAATTACTGTTTTACCCTCGATTTA
1 TAAAATTACTGAAATACCCTCGATTTG
* * * *
32866989 CAAAATTACTAAAATACCCTTGGTTTG
1 TAAAATTACTGAAATACCCTCGATTTG
* ** *
32867016 TGAAATTACCAAAATACCCTCAATTTG
1 TAAAATTACTGAAATACCCTCGATTTG
** *
32867043 TAAAATTACCAAAATACCC-CTGATTTA
1 TAAAATTACTGAAATACCCTC-GATTTG
* * *
32867070 CAAAGTTACAGAAATACC
1 TAAAATTACTGAAATACC
32867088 TTTGACTTTC
Statistics
Matches: 277, Mismatches: 55, Indels: 18
0.79 0.16 0.05
Matches are distributed among these distances:
26 27 0.10
27 249 0.90
28 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.36
Consensus pattern (27 bp):
TAAAATTACTGAAATACCCTCGATTTG
Found at i:32866861 original size:81 final size:81
Alignment explanation
Indices: 32866760--32866934 Score: 183
Period size: 81 Copynumber: 2.2 Consensus size: 81
32866750 AAATACTGAA
** * ** *
32866760 TACCCTCGATTTGTAAAATTACTGAAATACCTTCGACTTGTAAAATTACCAAAGTT-CCCCCGAT
1 TACCCTCGATTTACATAATTACTGAAATACCCCCGACTTATAAAATTACC-AAGTTACCCCCGAT
*
32866824 TTATAGAATTACCGTTT
65 TTATAGAATTACCATTT
*** * *** *
32866841 TACCC-CTGATTTACATAATTACTGTTTTACCCCCGATTTATAAAATTACCGTTTTACCCTCGAT
1 TACCCTC-GATTTACATAATTACTGAAATACCCCCGACTTATAAAATTACCAAGTTACCCCCGAT
32866905 TTATAGAATTACCATTT
65 TTATAGAATTACCATTT
32866922 TACCCTCGATTTA
1 TACCCTCGATTTA
32866935 TAGAATTATT
Statistics
Matches: 76, Mismatches: 15, Indels: 6
0.78 0.15 0.06
Matches are distributed among these distances:
80 3 0.04
81 72 0.95
82 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.38
Consensus pattern (81 bp):
TACCCTCGATTTACATAATTACTGAAATACCCCCGACTTATAAAATTACCAAGTTACCCCCGATT
TATAGAATTACCATTT
Found at i:32866998 original size:27 final size:27
Alignment explanation
Indices: 32866820--32866998 Score: 225
Period size: 27 Copynumber: 6.6 Consensus size: 27
32866810 AAAGTTCCCC
*
32866820 CGATTTATAGAATTACCGTTTTACCC-
1 CGATTTATAGAATTACTGTTTTACCCT
* * *
32866846 CTGATTTACATAATTACTGTTTTACCCC
1 C-GATTTATAGAATTACTGTTTTACCCT
* *
32866874 CGATTTATAAAATTACCGTTTTACCCT
1 CGATTTATAGAATTACTGTTTTACCCT
**
32866901 CGATTTATAGAATTACCATTTTACCCT
1 CGATTTATAGAATTACTGTTTTACCCT
*
32866928 CGATTTATAGAATTATTGTTTTACCCT
1 CGATTTATAGAATTACTGTTTTACCCT
* *
32866955 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTATAGAATTACTGTTTTACCCT
* *
32866982 CGATTTACAAAATTACT
1 CGATTTATAGAATTACT
32866999 AAAATACCCT
Statistics
Matches: 134, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.01
27 132 0.99
28 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.42
Consensus pattern (27 bp):
CGATTTATAGAATTACTGTTTTACCCT
Found at i:32867269 original size:27 final size:27
Alignment explanation
Indices: 32867192--32867269 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
32867182 AAATGACTAA
* *
32867192 AATACCCCTAT-TAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* *
32867219 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
32867246 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
32867270 GAATATGCCC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 40 0.95
28 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:32868320 original size:42 final size:42
Alignment explanation
Indices: 32868261--32868352 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
32868251 TAGTCTCCCC
* ** *
32868261 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
32868303 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
32868345 AAATGGGC
1 AAATGGGC
32868353 CTATAGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:32868414 original size:31 final size:31
Alignment explanation
Indices: 32868376--32868454 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
32868366 CGTTTACAGT
*
32868376 AAAGGCTTCAGCCCAGTGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
* *
32868407 AAAGGCTTTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
32868438 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
32868455 AACCGTTAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGAAATGATTTATGA
Found at i:32871968 original size:16 final size:16
Alignment explanation
Indices: 32871941--32871980 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
32871931 TATATATGCA
32871941 AATAAA-AAATAAGTG
1 AATAAATAAATAAGTG
32871956 AATAAATAAATAAGTG
1 AATAAATAAATAAGTG
*
32871972 AACAAATAA
1 AATAAATAA
32871981 GTGAAGAACC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.68, C:0.03, G:0.10, T:0.20
Consensus pattern (16 bp):
AATAAATAAATAAGTG
Found at i:32880878 original size:48 final size:48
Alignment explanation
Indices: 32880825--32881069 Score: 276
Period size: 48 Copynumber: 5.1 Consensus size: 48
32880815 ATGTGAGTAT
* * * *
32880825 TGAGATCCCGTGTAAGACCATATCTGGGATATGGCATCGGCATTGATA
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATA
* * *
32880873 AGAGA-TCATGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATA
1 TGAGAGCCA-GTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATA
* * * *
32880921 TGTGAGCCAGTATAAGACCATGTCTAGGACATGGCATTGGCATTGATA
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATA
* * * *
32880969 TGTGAGCCAGTGTAAGACCATGCCTGGGACGTGGCATTGGCATTGATA
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATA
* * * * * * *
32881017 TGTGTGCTAGTATAAGACCATGTTTGGGACATGGCATCGGCACTGACA
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATA
32881065 TGAGA
1 TGAGA
32881070 CTTTGTATAA
Statistics
Matches: 167, Mismatches: 28, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
47 1 0.01
48 164 0.98
49 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.26
Consensus pattern (48 bp):
TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATA
Found at i:32881078 original size:48 final size:47
Alignment explanation
Indices: 32880837--32881103 Score: 264
Period size: 48 Copynumber: 5.6 Consensus size: 47
32880827 AGATCCCGTG
* * * * * *
32880837 TAAGACCATATCTGGGATATGGCATCGGCATTGATAAGAGATCATGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGACCA-GTA
*
32880885 TAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGAGCCAGTA
1 TAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGA-CCAGTA
* * *
32880933 TAAGACCATGTCTAGGACATGGCATTGGCATTGATATGTGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGA-CCAGTA
* * * * *
32880981 TAAGACCATGCCTGGGACGTGGCATTGGCATTGATATGTGTGCTAGTA
1 TAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTG-ACCAGTA
* * * * **
32881029 TAAGACCATGTTTGGGACATGGCATCGGCACTGACATGAGACTTTGTA
1 TAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGAC-CAGTA
* * * *
32881077 TAAGACCATATCCGGGATATGACATCG
1 TAAGACCATGTCTGGGACATGGCATCG
32881104 ATATGTAGAT
Statistics
Matches: 185, Mismatches: 31, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
47 1 0.01
48 182 0.98
49 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (47 bp):
TAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGACCAGTA
Found at i:32881081 original size:96 final size:96
Alignment explanation
Indices: 32880837--32881085 Score: 304
Period size: 96 Copynumber: 2.6 Consensus size: 96
32880827 AGATCCCGTG
* * * *
32880837 TAAGACCATATCTGGGATATGGCATCGGCATTGATAAGAGA-TCATGTGTAAGACCATGTCTGGG
1 TAAGACCATGTCTGGGACATGGCATCGGCATTGATATGAGACT-ATGTGTAAGACCATGCCTGGG
*
32880901 ACATGGCATCGGCGTTGATATGTGAGCCAGTA
65 ACATGGCATCGGCATTGATATGTGAGCCAGTA
* * * *
32880933 TAAGACCATGTCTAGGACATGGCATTGGCATTGATATGTGAGCCA-GTGTAAGACCATGCCTGGG
1 TAAGACCATGTCTGGGACATGGCATCGGCATTGATATGAGA-CTATGTGTAAGACCATGCCTGGG
* * * *
32880997 ACGTGGCATTGGCATTGATATGTGTGCTAGTA
65 ACATGGCATCGGCATTGATATGTGAGCCAGTA
* * * * *
32881029 TAAGACCATGTTTGGGACATGGCATCGGCACTGACATGAGACTTTGTATAAGACCAT
1 TAAGACCATGTCTGGGACATGGCATCGGCATTGATATGAGACTATGTGTAAGACCAT
32881086 ATCCGGGATA
Statistics
Matches: 128, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
95 1 0.01
96 126 0.98
97 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (96 bp):
TAAGACCATGTCTGGGACATGGCATCGGCATTGATATGAGACTATGTGTAAGACCATGCCTGGGA
CATGGCATCGGCATTGATATGTGAGCCAGTA
Found at i:32884233 original size:26 final size:27
Alignment explanation
Indices: 32884197--32884249 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
32884187 TGTCAGCTAG
* *
32884197 TGAAATTTTAA-TGTTCGAATGTATGC
1 TGAAATTTTAAGTGTCCGAATGCATGC
*
32884223 TGAATTTTTAAGTGTCCGAATGCATGC
1 TGAAATTTTAAGTGTCCGAATGCATGC
32884250 CAGAATTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (27 bp):
TGAAATTTTAAGTGTCCGAATGCATGC
Found at i:32893880 original size:25 final size:25
Alignment explanation
Indices: 32893846--32893895 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
32893836 TACCACCTGA
32893846 ATTAGAGAAGATTCATGATGTGTTC
1 ATTAGAGAAGATTCATGATGTGTTC
32893871 ATTAGAGAAGATTCATGATGTGTTC
1 ATTAGAGAAGATTCATGATGTGTTC
32893896 CACGTATCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (25 bp):
ATTAGAGAAGATTCATGATGTGTTC
Found at i:32902619 original size:41 final size:41
Alignment explanation
Indices: 32902559--32902743 Score: 210
Period size: 41 Copynumber: 4.5 Consensus size: 41
32902549 AAGAATATTG
* * *
32902559 CTGAATTGCACATACGTGCCCCTTTTTGTACTTTGGTACCC
1 CTGAATTGCACATACGTGCCCCTATTTGTACTTCGATACCC
* *
32902600 CTAAATTGCACATACGTGCCTCTATTTGTACTTC-AGTACCC
1 CTGAATTGCACATACGTGCCCCTATTTGTACTTCGA-TACCC
* * *
32902641 CTGAATTGCACATATGTGTCCCTGTTTGTACTTCGATACCC
1 CTGAATTGCACATACGTGCCCCTATTTGTACTTCGATACCC
* * * * * * *
32902682 ATTAATAGCACATGCATGCCCCTATTTATACTTCGATACCT
1 CTGAATTGCACATACGTGCCCCTATTTGTACTTCGATACCC
*
32902723 TTGAATTGCACATACGTGCCC
1 CTGAATTGCACATACGTGCCC
32902744 TTGTTTAGAC
Statistics
Matches: 117, Mismatches: 25, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
41 116 0.99
42 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.35
Consensus pattern (41 bp):
CTGAATTGCACATACGTGCCCCTATTTGTACTTCGATACCC
Found at i:32903226 original size:13 final size:13
Alignment explanation
Indices: 32903210--32903250 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
32903200 ATTTTTACAT
32903210 TTTAGTGATAATA
1 TTTAGTGATAATA
32903223 TTTA-TGAT--TA
1 TTTAGTGATAATA
32903233 TTTAGTGATAATA
1 TTTAGTGATAATA
32903246 TTTAG
1 TTTAG
32903251 GAAAAATCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 6 0.24
11 4 0.16
12 4 0.16
13 11 0.44
ACGTcount: A:0.34, C:0.00, G:0.15, T:0.51
Consensus pattern (13 bp):
TTTAGTGATAATA
Found at i:32905851 original size:63 final size:63
Alignment explanation
Indices: 32905685--32905854 Score: 162
Period size: 67 Copynumber: 2.6 Consensus size: 63
32905675 CATGGGTGAG
* * * **
32905685 CATGGGTGATCCTATGTGTACACCATGTAGACAAGAGAGCTACGAGTTAGATGTAGCTAGGTTG
1 CATGGGTGATACTATGTGTACACCATGT-GACAAGAGAGCTACGAGATAGAAGTAGCTAGGTCA
* * * * * * * *
32905749 CATGTGTGGTTCCAGGTGAAGGACACCATGTAAACAAGAGAGCTACGAGATA-AAGTGGCTAGGT
1 CATGGGTGATACTA--TG-TGTACACCATGT-GACAAGAGAGCTACGAGATAGAAGTAGCTAGGT
32905813 CA
62 CA
32905815 CATGGGTGATACTATGTGTACACCATGTGTACAAGAGAGC
1 CATGGGTGATACTATGTGTACACCATGTG-ACAAGAGAGC
32905855 CAAAATTATG
Statistics
Matches: 83, Mismatches: 19, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
63 20 0.24
64 12 0.14
66 22 0.27
67 29 0.35
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (63 bp):
CATGGGTGATACTATGTGTACACCATGTGACAAGAGAGCTACGAGATAGAAGTAGCTAGGTCA
Found at i:32908906 original size:29 final size:27
Alignment explanation
Indices: 32908888--32908957 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
32908878 ATATTAAGTC
32908888 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
32908915 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
32908943 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
32908958 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:32908951 original size:28 final size:28
Alignment explanation
Indices: 32908888--32908982 Score: 129
Period size: 28 Copynumber: 3.4 Consensus size: 28
32908878 ATATTAAGTC
*
32908888 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
32908915 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
32908943 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
32908972 CGCACACTTAG
1 CGCACACTTAG
32908983 CGCCAATCTC
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.36
28 23 0.38
29 16 0.26
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:32918122 original size:27 final size:27
Alignment explanation
Indices: 32917726--32918123 Score: 180
Period size: 27 Copynumber: 14.7 Consensus size: 27
32917716 TTAGTTTACC
* ** **
32917726 AAATTACCAAAGTACCCCCGATTTACA
1 AAATTACCAAAATACCCTTGATTTGTA
* ** *
32917753 AAATTACTAAAATACTATTGGTTTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
* *
32917780 AAATTACTAAAATACCCCCTGATTTGTA
1 AAATTACCAAAATA-CCCTTGATTTGTA
** * *
32917808 AAATTACTGAAATACCCTCGACTTGTAA
1 AAATTACCAAAATACCCTTGATTTGT-A
* * *
32917836 AAATTACCAAAGTACCCTCGATTTATA
1 AAATTACCAAAATACCCTTGATTTGTA
* * *** * *
32917863 GAATTACTATTTTACCCTCGATTTATA
1 AAATTACCAAAATACCCTTGATTTGTA
* ***** *
32917890 GAATTACTGTTTTACCCTTGATTTATA
1 AAATTACCAAAATACCCTTGATTTGTA
**** * *
32917917 AAATTACCGTTTTACCCTCGA-TTGTG
1 AAATTACCAAAATACCCTTGATTTGTA
** * **
32917943 AAATTACTGAAATACCCCT-ATAGGGTA
1 AAATTACCAAAATACCCTTGAT-TTGTA
* * *
32917970 TAATTACCAAAACACCCCT-AGTTTGTA
1 AAATTACCAAAATACCCTTGA-TTTGTA
*
32917997 AAATTACCAAAATACCAC-TGGTTTGT-
1 AAATTACCAAAATACC-CTTGATTTGTA
* * * *
32918023 GAATTATCGAAATACCCTTAATTTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
**
32918050 AAATTACCAAAATATCCC-TGATTTACA
1 AAATTACCAAAATA-CCCTTGATTTGTA
32918077 AAATTA-CAGAAATACCCTTGATTTGTA
1 AAATTACCA-AAATACCCTTGATTTGTA
* * *
32918104 GATTTACCAAAACACCCTTG
1 AAATTACCAAAATACCCTTG
32918124 TAGAATGAAA
Statistics
Matches: 290, Mismatches: 68, Indels: 26
0.76 0.18 0.07
Matches are distributed among these distances:
25 2 0.01
26 40 0.14
27 197 0.68
28 51 0.18
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.33
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTGATTTGTA
Found at i:32918949 original size:20 final size:20
Alignment explanation
Indices: 32918924--32919009 Score: 138
Period size: 20 Copynumber: 4.3 Consensus size: 20
32918914 GATATGATAT
*
32918924 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGAAATGC
*
32918944 ACATGATATGTATAAAATGC
1 ACATGATATGTATGAAATGC
32918964 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
32918984 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
32919004 ACATGA
1 ACATGA
32919010 AGTATTCATA
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
20 60 0.97
21 2 0.03
ACGTcount: A:0.41, C:0.10, G:0.19, T:0.30
Consensus pattern (20 bp):
ACATGATATGTATGAAATGC
Found at i:32919157 original size:25 final size:26
Alignment explanation
Indices: 32919060--32919195 Score: 199
Period size: 26 Copynumber: 5.3 Consensus size: 26
32919050 GAGGAAGTGC
32919060 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
32919086 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
32919112 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
32919138 AAAAGGGCTT-TGCCCCAGTTTATCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
32919163 AAAAGTGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
32919186 AAAAGAGGCT
1 AAAAG-GGCT
32919196 AGGCCTCCAG
Statistics
Matches: 101, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
23 5 0.05
24 7 0.07
25 31 0.31
26 58 0.57
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:32919387 original size:42 final size:42
Alignment explanation
Indices: 32919328--32919419 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
32919318 TAGTCTCCCC
* * *
32919328 AAATGGGCTTGCATACATTCATTGATATTTCATATGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
*
32919370 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
32919412 AAATGGGC
1 AAATGGGC
32919420 CTAAGGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
Found at i:32919478 original size:31 final size:31
Alignment explanation
Indices: 32919443--32919550 Score: 132
Period size: 31 Copynumber: 3.5 Consensus size: 31
32919433 CATTTACAGT
32919443 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
* *
32919474 AAAGGCTTTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
* ** *
32919505 AAAGGCTTCGTCCCAGT-AACCG-TTAAATG-
1 AAAGGCTTCGGCCCAGTGAAATGATT-TATGA
32919534 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
32919551 ATATGTCAAG
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
29 18 0.27
30 5 0.07
31 44 0.66
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGAAATGATTTATGA
Found at i:32921656 original size:48 final size:47
Alignment explanation
Indices: 32921502--32921649 Score: 215
Period size: 48 Copynumber: 3.1 Consensus size: 47
32921492 ATATATACAC
* **
32921502 ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATGCAT
1 ATCTCATACATATTTCACATTAG-CATTCGGCTTTACCACATATATAT
**
32921550 GGCTCATACATATTTCACATTAGCAATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGC-ATTCGGCTTTACCACATATATAT
*
32921598 ATCTCATACATATTTTACATTAGTCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAG-CATTCGGCTTTACCACATATATAT
32921646 ATCT
1 ATCT
32921650 TGTACATCAA
Statistics
Matches: 90, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
47 1 0.01
48 88 0.98
49 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (47 bp):
ATCTCATACATATTTCACATTAGCATTCGGCTTTACCACATATATAT
Found at i:32923131 original size:23 final size:23
Alignment explanation
Indices: 32923099--32923142 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
32923089 AAAATTTCAC
* *
32923099 ACATGTAATTTCACATATAATAG
1 ACATGAAATTTAACATATAATAG
*
32923122 ACATGAAATTTAACATTTAAT
1 ACATGAAATTTAACATATAAT
32923143 TATTTTTGCG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.45, C:0.11, G:0.07, T:0.36
Consensus pattern (23 bp):
ACATGAAATTTAACATATAATAG
Found at i:32923276 original size:12 final size:12
Alignment explanation
Indices: 32923259--32923284 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
32923249 TTAGTAATGA
32923259 ATAAGTTCAGAT
1 ATAAGTTCAGAT
32923271 ATAAGTTCAGAT
1 ATAAGTTCAGAT
32923283 AT
1 AT
32923285 CGTTCACTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.08, G:0.15, T:0.35
Consensus pattern (12 bp):
ATAAGTTCAGAT
Found at i:32924130 original size:40 final size:40
Alignment explanation
Indices: 32924061--32924177 Score: 173
Period size: 40 Copynumber: 3.0 Consensus size: 40
32924051 ATTTTGTCAA
* * *
32924061 AGCACGAATGC-CTTTGGGGCTTAGCCCGGATACATCACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACAACACC
*
32924100 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACAACACC
* *
32924140 AGCACGAATGCTCTTCGGGACTTAGCCCAGATATAACA
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACAACA
32924178 TACTAAACTT
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
39 11 0.15
40 61 0.85
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.21
Consensus pattern (40 bp):
AGCACGAATGCTCTTCGGGACTTAGCCCGGATACAACACC
Found at i:32927041 original size:40 final size:40
Alignment explanation
Indices: 32926997--32927295 Score: 121
Period size: 40 Copynumber: 7.2 Consensus size: 40
32926987 GGGCTAAGTC
*
32926997 CCGAAGGCTTTGTGCTAAGTGAATATATCCGGATTAAGAT-
1 CCGAAGGCTTTGTGC-AAGTGAATAAATCCGGATTAAGATA
* * *
32927037 CCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAG-TA
1 CCGAAGG-CTTTGTGCAAG-TGAATAAATCCGGATTAAGATA
* * * * * *
32927077 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCGGGCTAAGTC
1 CCGAAGGC-TTTGTGCAAGTGAATAAATCCGGATTAA------G---A-TA
*
32927128 CCGAAGGCTTTGTGCTAAGTGAATATATCCGGATTAAGAT-
1 CCGAAGGCTTTGTGC-AAGTGAATAAATCCGGATTAAGATA
* * * *
32927168 CCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAG-TC
1 CCGAAGG-CTTTGTGCAAG-TGAATAAATCCGGATTAAGATA
* * * * *
32927208 CCGAAGGCATTCGTGCGAGTTG-TTAAATCCGGGTTAAG-TC
1 CCGAAGGC-TTTGTGCAAG-TGAATAAATCCGGATTAAGATA
* * * * * *
32927248 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAG-TC
1 CCGAAGGC-TTTGTGCAAGTGAATAAATCCGGATTAAGATA
32927288 CCGAAGGC
1 CCGAAGGC
32927296 ATTCGTGCGA
Statistics
Matches: 215, Mismatches: 21, Indels: 46
0.76 0.07 0.16
Matches are distributed among these distances:
39 6 0.03
40 156 0.73
41 19 0.09
42 1 0.00
45 1 0.00
46 1 0.00
50 6 0.03
51 25 0.12
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCTTTGTGCAAGTGAATAAATCCGGATTAAGATA
Found at i:32927217 original size:131 final size:131
Alignment explanation
Indices: 32926983--32927248 Score: 514
Period size: 131 Copynumber: 2.0 Consensus size: 131
32926973 AGTGAATGCT
32926983 GTCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTT
1 GTCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTT
32927048 TGTGCGAGATACTAAATCCGGGTTAAGTACCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTA
66 TGTGCGAGATACTAAATCCGGGTTAAGTACCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTA
32927113 A
131 A
32927114 GTCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTT
1 GTCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTT
* *
32927179 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTA
66 TGTGCGAGATACTAAATCCGGGTTAAGTACCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTA
32927244 A
131 A
32927245 GTCC
1 GTCC
32927249 CGAAGGCATT
Statistics
Matches: 133, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
131 133 1.00
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.27
Consensus pattern (131 bp):
GTCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTT
TGTGCGAGATACTAAATCCGGGTTAAGTACCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTA
A
Found at i:32927296 original size:40 final size:40
Alignment explanation
Indices: 32927110--32927377 Score: 308
Period size: 40 Copynumber: 6.7 Consensus size: 40
32927100 TAAATCCGGG
* * * * *
32927110 TTAAGTCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGA
1 TTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTA
* * * * * *
32927150 ATATATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATA
1 TTAAATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTA
* *
32927190 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTG
1 TTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA
32927230 TTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA
1 TTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA
*
32927270 TTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTG
1 TTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA
* *
32927310 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTA
1 TTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA
* * * * *
32927349 CTAAAACCGGGCTATGTCCGGAAGGCATT
1 TTAAATCCGGGTTAAGTCCCGAAGGCATT
32927378 TGAACGAGGA
Statistics
Matches: 200, Mismatches: 25, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
39 34 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA
Found at i:32929553 original size:48 final size:48
Alignment explanation
Indices: 32929399--32929546 Score: 242
Period size: 48 Copynumber: 3.1 Consensus size: 48
32929389 ATATATACAC
* **
32929399 ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATGCAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
**
32929447 GGCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
*
32929495 ATCTCATACATATTTTACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
32929543 ATCT
1 ATCT
32929547 TGTACATCAA
Statistics
Matches: 92, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 92 1.00
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.38
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
Found at i:32933285 original size:42 final size:43
Alignment explanation
Indices: 32933225--32933322 Score: 126
Period size: 42 Copynumber: 2.3 Consensus size: 43
32933215 GATTTACGTT
* * * *
32933225 TAAGACCATGTTTGGGATATTGGCATCG-TATTTGATTTCATG
1 TAAGACCATGTCTAGGATAGTGGCATCGATATTTGATTACATG
*
32933267 TAAGACCCTGTCTAGGATAGTGGCATCGATATTTGATTACATG
1 TAAGACCATGTCTAGGATAGTGGCATCGATATTTGATTACATG
* *
32933310 TAAAACCACGTCT
1 TAAGACCATGTCT
32933323 GGGACGTTGG
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 24 0.51
43 23 0.49
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (43 bp):
TAAGACCATGTCTAGGATAGTGGCATCGATATTTGATTACATG
Found at i:32933334 original size:43 final size:43
Alignment explanation
Indices: 32933165--32933335 Score: 136
Period size: 43 Copynumber: 4.0 Consensus size: 43
32933155 TAGGATTTCT
* * * *
32933165 GATATGTGATTTCGTGTAAGACCACGTCTGGGACGCTGGCATC
1 GATATTTGATTACATGTAAGACCACGTCTGGGACGTTGGCATC
* * * * **
32933208 -A-ATTTGAGATTTACGTTTAAGACCATGTTTGGGATATTGGCATC
1 GATATTT--GA-TTACATGTAAGACCACGTCTGGGACGTTGGCATC
* * *
32933252 G-TATTTGATTTCATGTAAGACC-CTGTCTAGGATAG-TGGCATC
1 GATATTTGATTACATGTAAGACCAC-GTCTGGGA-CGTTGGCATC
*
32933294 GATATTTGATTACATGTAAAACCACGTCTGGGACGTTGGCAT
1 GATATTTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
32933336 TGTACGAGCT
Statistics
Matches: 98, Mismatches: 20, Indels: 20
0.71 0.14 0.14
Matches are distributed among these distances:
41 3 0.03
42 27 0.28
43 36 0.37
44 28 0.29
45 4 0.04
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.33
Consensus pattern (43 bp):
GATATTTGATTACATGTAAGACCACGTCTGGGACGTTGGCATC
Found at i:32935062 original size:43 final size:43
Alignment explanation
Indices: 32935014--32935181 Score: 148
Period size: 43 Copynumber: 4.0 Consensus size: 43
32935004 AGGATTTCCT
* *
32935014 ATATGTGTTATCGAGTAAGACCATGTCTGGGATGTTGGCATCG
1 ATATGTGATATCGAGTAAGACCATGTCTGGGACGTTGGCATCG
* * *
32935057 ATATGTGGT-TACGAGTAAGACCATGTCTGGGACATCGGCATC-
1 ATATGTGATAT-CGAGTAAGACCATGTCTGGGACGTTGGCATCG
* * * * *
32935099 ATATTTGAT-TCGTGTAAGACCCTGTCTGGGATAG-TGGTATCG
1 ATATGTGATATCGAGTAAGACCATGTCTGGGA-CGTTGGCATCG
* * * *
32935141 ATATGAGATAGC-ATGTAAGACCACGTCTTGGACGTTGGCAT
1 ATATGTGATATCGA-GTAAGACCATGTCTGGGACGTTGGCAT
32935182 TGTATGGTAT
Statistics
Matches: 98, Mismatches: 21, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
41 24 0.24
42 17 0.17
43 57 0.58
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (43 bp):
ATATGTGATATCGAGTAAGACCATGTCTGGGACGTTGGCATCG
Found at i:32935634 original size:14 final size:14
Alignment explanation
Indices: 32935615--32935652 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
32935605 GTTTGTCAGT
*
32935615 AAAATGTTTTCTAG
1 AAAATGATTTCTAG
*
32935629 AAAATGATTTCTGG
1 AAAATGATTTCTAG
32935643 AAAATGATTT
1 AAAATGATTT
32935653 ACTTTTCTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.39, C:0.05, G:0.16, T:0.39
Consensus pattern (14 bp):
AAAATGATTTCTAG
Found at i:32941068 original size:6 final size:6
Alignment explanation
Indices: 32941044--32941092 Score: 71
Period size: 6 Copynumber: 8.2 Consensus size: 6
32941034 GTCAAGGATG
* * *
32941044 GGGGAA GGGGAG GGGGAA GGAGAA GGGGAA GGGAAA GGGGAA GGGGAA
1 GGGGAA GGGGAA GGGGAA GGGGAA GGGGAA GGGGAA GGGGAA GGGGAA
32941092 G
1 G
32941093 CAGAAAATTA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (6 bp):
GGGGAA
Found at i:32943006 original size:34 final size:33
Alignment explanation
Indices: 32942968--32943035 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 33
32942958 TGACAGTGTA
32942968 TGAGCGAAAATTCATG-AGACTCAGTCAGTATGCT
1 TGAGC-AAAATT-ATGAAGACTCAGTCAGTATGCT
*
32943002 TGAGCAAAATTTTGTAAGACTCAGTCAGTATGCT
1 TGAGCAAAATTATG-AAGACTCAGTCAGTATGCT
32943036 CGAGAGTGTG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
32 2 0.06
33 6 0.19
34 23 0.74
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.29
Consensus pattern (33 bp):
TGAGCAAAATTATGAAGACTCAGTCAGTATGCT
Found at i:32944846 original size:28 final size:28
Alignment explanation
Indices: 32944814--32944878 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 28
32944804 ATTTACTAGA
*
32944814 ATACCCCTTTGTATGCAAAACT-ACCATT
1 ATACCCCTATGTATGCAAAA-TAACCATT
* *
32944842 ATACCCCTATGTATGCTAAATAACCTTT
1 ATACCCCTATGTATGCAAAATAACCATT
32944870 ATACCCCTA
1 ATACCCCTA
32944879 GGGTTAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 1 0.03
28 32 0.97
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATAACCATT
Found at i:32945025 original size:28 final size:29
Alignment explanation
Indices: 32944984--32945046 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 29
32944974 AAGAAGCGTC
*
32944984 CTGGTGGCTATGCCACAAATTATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTAT
32945012 CTGGTGGC-ACTGCCACAAAATATCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGTAT
32945041 CTGGTG
1 CTGGTG
32945047 ACTCTGTCAC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
27 1 0.03
28 24 0.75
29 7 0.22
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (29 bp):
CTGGTGGCTATGCCACAAAATATCTGTAT
Found at i:32945057 original size:29 final size:28
Alignment explanation
Indices: 32944994--32945057 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
32944984 CTGGTGGCTA
* *
32944994 TGCCACAAATTATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
32945022 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
32945051 TGTCACA
1 TGCCACA
32945058 TTTTCTGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 16 0.52
29 15 0.48
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:32945454 original size:19 final size:19
Alignment explanation
Indices: 32945430--32945468 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
32945420 TTTTAATTAT
* *
32945430 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
32945449 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
32945468 T
1 T
32945469 ATGGTGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:32952044 original size:25 final size:25
Alignment explanation
Indices: 32952015--32952062 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
32952005 TTATAACATG
* * *
32952015 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
32952040 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
32952063 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:32952165 original size:20 final size:20
Alignment explanation
Indices: 32952099--32952165 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
32952089 ATTTTGATAG
*
32952099 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
32952119 ACATGACAGGTATGATATGC
1 ACATGATATGTATGATATGC
32952139 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
32952159 ACATGAT
1 ACATGAT
32952166 GTAATCATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:32952246 original size:23 final size:23
Alignment explanation
Indices: 32952216--32952310 Score: 165
Period size: 23 Copynumber: 4.1 Consensus size: 23
32952206 AGGAAGTGAA
32952216 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
32952239 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
32952262 AAAGGGCTTATG-CCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
32952284 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
32952308 AAA
1 AAA
32952311 AGAGTCTAGG
Statistics
Matches: 69, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
22 10 0.14
23 49 0.71
24 10 0.14
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:32952560 original size:31 final size:31
Alignment explanation
Indices: 32952525--32952588 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
32952515 CGTTTACAGT
*
32952525 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGACCCAGTAATATGAAATATGA
* **
32952556 AAAGGCTTCGACCTAGTGTTATGAAATATGA
1 AAAGGCTTCGACCCAGTAATATGAAATATGA
32952587 AA
1 AA
32952589 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGACCCAGTAATATGAAATATGA
Found at i:32955811 original size:27 final size:27
Alignment explanation
Indices: 32955743--32955830 Score: 106
Period size: 27 Copynumber: 3.3 Consensus size: 27
32955733 CCCCAAAATA
* *
32955743 GGTAAAATAACCATAATGCCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
*
32955770 GGTAAAATGATCGTAATGCCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
* * * *
32955797 GGTAAAATGGCCGTAAT-ACCTTGTAT
1 GGTAAAATGACCGTAATGCCCCTGTAG
32955823 GGTAAAAT
1 GGTAAAAT
32955831 AACGATTATG
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
26 14 0.26
27 39 0.74
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (27 bp):
GGTAAAATGACCGTAATGCCCCTGTAG
Found at i:32973525 original size:27 final size:27
Alignment explanation
Indices: 32973495--32973598 Score: 129
Period size: 27 Copynumber: 3.9 Consensus size: 27
32973485 CCCTAAAATA
32973495 GGTAAAATGACTGTAATGCCCTTGTAG
1 GGTAAAATGACTGTAATGCCCTTGTAG
* *
32973522 GGTAAAATGACCGTAACGCCCTTGTAG
1 GGTAAAATGACTGTAATGCCCTTGTAG
** * *
32973549 GGTAAAATGACTGTAATATCCTTCTAT
1 GGTAAAATGACTGTAATGCCCTTGTAG
*
32973576 GGTAAAATGA-TGATTATGCCCTT
1 GGTAAAATGACTG-TAATGCCCTT
32973599 ATGTTTCGTA
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
26 2 0.03
27 63 0.97
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (27 bp):
GGTAAAATGACTGTAATGCCCTTGTAG
Found at i:32973791 original size:26 final size:26
Alignment explanation
Indices: 32973721--32973791 Score: 63
Period size: 27 Copynumber: 2.7 Consensus size: 26
32973711 TTAGAGGAAG
* *
32973721 TTCTG-TACTAGTAGTTTTGCCACGTA
1 TTCTGTTA-TAGTAGCTTCGCCACGTA
* * * *
32973747 TTCTGATTCTAGTGGCTTCGCCATGTT
1 TTCTG-TTATAGTAGCTTCGCCACGTA
32973774 TTCTGTTATAGTAGCTTC
1 TTCTGTTATAGTAGCTTC
32973792 ACTGCGTTAT
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
26 16 0.46
27 18 0.51
28 1 0.03
ACGTcount: A:0.15, C:0.20, G:0.20, T:0.45
Consensus pattern (26 bp):
TTCTGTTATAGTAGCTTCGCCACGTA
Found at i:32974000 original size:33 final size:33
Alignment explanation
Indices: 32973930--32974016 Score: 111
Period size: 33 Copynumber: 2.6 Consensus size: 33
32973920 CTTGGGCCCA
* * * * *
32973930 CTCTGCTATTGTATAGGGCTAAAGCCTAGACTG
1 CTCTGTTACTGTATAGGGCTAAAGCCCAAACTC
32973963 CTCTGTTACTGTATAGGGCTAAAGCCCAAACTC
1 CTCTGTTACTGTATAGGGCTAAAGCCCAAACTC
* *
32973996 CTCTGTTACTGAATAAGGCTA
1 CTCTGTTACTGTATAGGGCTA
32974017 TGGCACAGAT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (33 bp):
CTCTGTTACTGTATAGGGCTAAAGCCCAAACTC
Found at i:32976186 original size:48 final size:48
Alignment explanation
Indices: 32976115--32976210 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
32976105 ATTCAATGCC
*
32976115 AGAATAGGGTTATGAAGCATTATCAGACTTATAAAAAAATTAAACATT
1 AGAATAGGGTTACGAAGCATTATCAGACTTATAAAAAAATTAAACATT
*
32976163 AGAATAGGGTTACGAAGCATTATCAGACTTATAAAACAATTAAACATT
1 AGAATAGGGTTACGAAGCATTATCAGACTTATAAAAAAATTAAACATT
32976211 CATTTCACAT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.47, C:0.10, G:0.15, T:0.28
Consensus pattern (48 bp):
AGAATAGGGTTACGAAGCATTATCAGACTTATAAAAAAATTAAACATT
Found at i:32977201 original size:21 final size:21
Alignment explanation
Indices: 32977175--32977218 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
32977165 ACATGTGTGT
32977175 ATTTTGATGTTTAAAGGAGGA
1 ATTTTGATGTTTAAAGGAGGA
*
32977196 ATTTTGATGTTTAAGGGAGGA
1 ATTTTGATGTTTAAAGGAGGA
32977217 AT
1 AT
32977219 ATGAATGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.30, T:0.39
Consensus pattern (21 bp):
ATTTTGATGTTTAAAGGAGGA
Found at i:32977226 original size:21 final size:21
Alignment explanation
Indices: 32977179--32977228 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
32977169 GTGTGTATTT
*
32977179 TGATGTTTAAAGGAGGAATTT
1 TGATGTTTAAAGGAGGAATTA
*
32977200 TGATGTTTAAGGGAGGAA-TA
1 TGATGTTTAAAGGAGGAATTA
32977220 TGAATGTTT
1 TG-ATGTTT
32977229 GTTGTGTGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.32, C:0.00, G:0.30, T:0.38
Consensus pattern (21 bp):
TGATGTTTAAAGGAGGAATTA
Found at i:32980545 original size:37 final size:37
Alignment explanation
Indices: 32980503--32980578 Score: 134
Period size: 37 Copynumber: 2.1 Consensus size: 37
32980493 ATAATTCAGA
**
32980503 TAATAATAACAAGATTTGTCTTAGGTTTCATTCCCCT
1 TAATAATAACAAGATTCCTCTTAGGTTTCATTCCCCT
32980540 TAATAATAACAAGATTCCTCTTAGGTTTCATTCCCCT
1 TAATAATAACAAGATTCCTCTTAGGTTTCATTCCCCT
32980577 TA
1 TA
32980579 GGTATTTAGG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.39
Consensus pattern (37 bp):
TAATAATAACAAGATTCCTCTTAGGTTTCATTCCCCT
Found at i:32982401 original size:39 final size:40
Alignment explanation
Indices: 32982306--32982489 Score: 168
Period size: 40 Copynumber: 4.7 Consensus size: 40
32982296 TTGAATGAAG
*
32982306 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
32982344 ATCCGGACCAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
* *
32982385 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
32982424 TCCGAGTTAAGTCCCGAAGGCATTTGTACGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
32982463 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
32982490 AACGAGGAGC
Statistics
Matches: 120, Mismatches: 16, Indels: 17
0.78 0.10 0.11
Matches are distributed among these distances:
39 52 0.43
40 56 0.47
41 11 0.09
42 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:32982512 original size:79 final size:79
Alignment explanation
Indices: 32982358--32982522 Score: 185
Period size: 79 Copynumber: 2.1 Consensus size: 79
32982348 GGACCAAGAT
* * ** *
32982358 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTACGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
32982423 ATCCGAGTTAAGTC
66 ATCCGAGTTAAATC
*
32982437 CCGAAGGCATTTGTACGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTACGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
* *
32982499 CTATATCCG-GTTAAATT
62 CTAAATCCGAGTTAAATC
32982516 CCGAAGG
1 CCGAAGG
32982523 TACGTGATTT
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
78 3 0.04
79 44 0.60
80 26 0.36
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTACGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGAGTTAAATC
Found at i:32985613 original size:49 final size:47
Alignment explanation
Indices: 32985498--32985619 Score: 138
Period size: 49 Copynumber: 2.6 Consensus size: 47
32985488 AATATAGATG
* * * **
32985498 CCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGTCGATG
1 CCATGTCCCAGACATGGTCTTACACTGACTCATCAATCAAGCCGACA
*
32985545 CCATGTCCCAAACATGGTCTTACACTGACT-ATCAAAATCGAAGCCGACA
1 CCATGTCCCAGACATGGTCTTACACTGACTCATC--AATC-AAGCCGACA
* *
32985594 TCATGTCCTAGACATGGTCTTACACT
1 CCATGTCCCAGACATGGTCTTACACT
32985620 AGCTCTTACA
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
46 3 0.05
47 28 0.44
48 3 0.05
49 29 0.46
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.25
Consensus pattern (47 bp):
CCATGTCCCAGACATGGTCTTACACTGACTCATCAATCAAGCCGACA
Found at i:32985737 original size:48 final size:47
Alignment explanation
Indices: 32985494--32985766 Score: 220
Period size: 47 Copynumber: 5.7 Consensus size: 47
32985484 GTATAATATA
32985494 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAA-GT--C
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTC-T-CAT-AATGTGCC
* * * * *
32985541 GATGCCATGTCCCAAACATGGTCTTACACTGACTATCAAAATCGAAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-G-TGCC
*** * *
32985590 GACATCATGTCCTAGACATGGTCTTACACTAGCTCTTACA-AATCCGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTC-T-CATAAT--GTGCC
* * * * *
32985640 GATGTCATGTTCCAGACATAGTCTTACACTAGCTCTCGTCTCAA--TGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC--AT-AATGTGCC
* *
32985688 GATGCCATGTCCCAGACATGGTCTCACATTGGCTCTCATAATGTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGT-GCC
32985736 GATG-CATGTCCCAGACAT-GTCTTACACTGGC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGC
32985767 ACACAAATAA
Statistics
Matches: 182, Mismatches: 29, Indels: 31
0.75 0.12 0.13
Matches are distributed among these distances:
44 2 0.01
45 4 0.02
46 14 0.08
47 47 0.26
48 43 0.24
49 29 0.16
50 37 0.20
51 4 0.02
52 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGCC
Found at i:32986339 original size:65 final size:65
Alignment explanation
Indices: 32986235--32986363 Score: 240
Period size: 65 Copynumber: 2.0 Consensus size: 65
32986225 TTTTCTTGAT
32986235 CTAACATGATGAAATTCACTCATTTAATCACTAAATAAATTTCGACAATCAAAATTCATATTTTA
1 CTAACATGATGAAATTCACTCATTTAATCACTAAATAAATTTCGACAATCAAAATTCATATTTTA
* *
32986300 CTAACATGATGAAATTTACTCATTTAATCACTAAATAAATTTGGACAATCAAAATTCATATTTT
1 CTAACATGATGAAATTCACTCATTTAATCACTAAATAAATTTCGACAATCAAAATTCATATTTT
32986364 TGGCAAAATG
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 62 1.00
ACGTcount: A:0.43, C:0.16, G:0.05, T:0.36
Consensus pattern (65 bp):
CTAACATGATGAAATTCACTCATTTAATCACTAAATAAATTTCGACAATCAAAATTCATATTTTA
Found at i:32988780 original size:27 final size:27
Alignment explanation
Indices: 32988751--32988956 Score: 270
Period size: 27 Copynumber: 7.6 Consensus size: 27
32988741 ATACAGAGAT
*
32988751 ATTACGGTCATTTTACCCTATAGGGGT
1 ATTACGGTCATTTTACCCTATAGGGGC
* *
32988778 ATTACGATCATTTTACCCTATAGGGGT
1 ATTACGGTCATTTTACCCTATAGGGGC
* * *
32988805 ATTACGATCATTTTACCTTATAGGGGT
1 ATTACGGTCATTTTACCCTATAGGGGC
32988832 ATTACGGTCATTTTACCCTACT-GGGGC
1 ATTACGGTCATTTTACCCTA-TAGGGGC
32988859 ATTACGGTCATTTTACCCTATAGGGGC
1 ATTACGGTCATTTTACCCTATAGGGGC
** * *
32988886 ATTACAATCATTTTACCCTACAAGGGC
1 ATTACGGTCATTTTACCCTATAGGGGC
* * *
32988913 ATTACGGTTATTTTACCCTACAAGGGC
1 ATTACGGTCATTTTACCCTATAGGGGC
*
32988940 ATTACGTTCATTTTACC
1 ATTACGGTCATTTTACC
32988957 TATTTTAGGG
Statistics
Matches: 163, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
26 1 0.01
27 161 0.99
28 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (27 bp):
ATTACGGTCATTTTACCCTATAGGGGC
Found at i:32995486 original size:99 final size:99
Alignment explanation
Indices: 32995318--32996082 Score: 1448
Period size: 99 Copynumber: 7.8 Consensus size: 99
32995308 ATGCCGATGC
* * * * *
32995318 CATGTCCCAGACATGGTCTTACACTGGCTCAT-C-CATCAAGT--CGATGCCATGTCCCAAACAT
1 CATGTCCTAGACATGGTCTTACACTAGCTCTTACATATC-CGTGCCGATGCCATGTCCCAAACAT
32995379 GGTCTTACACTGACTATCAAAATCGAAGCCGACAT
65 GGTCTTACACTGACTATCAAAATCGAAGCCGACAT
32995414 CATGTCCTAGACATGGTCTTACACTAGCTCTTACATATCCGTGCCGATGCCATGTCCCAAACATG
1 CATGTCCTAGACATGGTCTTACACTAGCTCTTACATATCCGTGCCGATGCCATGTCCCAAACATG
32995479 GTCTTACACTGACTATCAAAATCGAAGCCGACAT
66 GTCTTACACTGACTATCAAAATCGAAGCCGACAT
32995513 CATGTCCTAGACATGGTCTTACACTAGCTCTTACATATCCGTGCCGATGCCATGTCCCAAACATG
1 CATGTCCTAGACATGGTCTTACACTAGCTCTTACATATCCGTGCCGATGCCATGTCCCAAACATG
32995578 GTCTTACACTGACTATCAAAATCGAAGCCGACAT
66 GTCTTACACTGACTATCAAAATCGAAGCCGACAT
32995612 CATGTCCTAGACATGGTCTTACACTAGCTCTTACATATCCGTGCCGATGCCATGTCCCAAACATG
1 CATGTCCTAGACATGGTCTTACACTAGCTCTTACATATCCGTGCCGATGCCATGTCCCAAACATG
32995677 GTCTTACACTGACTATCAAAATCGAAGCCGACAT
66 GTCTTACACTGACTATCAAAATCGAAGCCGACAT
32995711 CATGTCCTAGACATGGTCTTACACTAGCTCTTACATATCCGTGCCGATGCCATGTCCCAAACATG
1 CATGTCCTAGACATGGTCTTACACTAGCTCTTACATATCCGTGCCGATGCCATGTCCCAAACATG
32995776 GTCTTACACTGACTATCAAAATCGAAGCCGACAT
66 GTCTTACACTGACTATCAAAATCGAAGCCGACAT
32995810 CATGTCCTAGACATGGTCTTACACTAGCTCTTACATATCCGTGCCGATGCCATGTCCCAAACATG
1 CATGTCCTAGACATGGTCTTACACTAGCTCTTACATATCCGTGCCGATGCCATGTCCCAAACATG
32995875 GTCTTACACTGACTATCAAAATCGAAGCCGACAT
66 GTCTTACACTGACTATCAAAATCGAAGCCGACAT
32995909 CATGTCCTAGACATGGTCTTACACTAGCTCTTACATATCCGTGCCGATGCCATGTCCCAAACATG
1 CATGTCCTAGACATGGTCTTACACTAGCTCTTACATATCCGTGCCGATGCCATGTCCCAAACATG
32995974 GTCTTACACTGACTATCAAAATCGAAGCCGACAT
66 GTCTTACACTGACTATCAAAATCGAAGCCGACAT
32996008 CATGTCCTAGACATGGTCTTACACTAGCTCTTACATATCCGTGCCGATGCCATGTCCCAAACATG
1 CATGTCCTAGACATGGTCTTACACTAGCTCTTACATATCCGTGCCGATGCCATGTCCCAAACATG
32996073 GTCTTACACT
66 GTCTTACACT
32996083 AGCTCTCGTC
Statistics
Matches: 660, Mismatches: 5, Indels: 5
0.99 0.01 0.01
Matches are distributed among these distances:
96 29 0.04
97 3 0.00
98 3 0.00
99 625 0.95
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (99 bp):
CATGTCCTAGACATGGTCTTACACTAGCTCTTACATATCCGTGCCGATGCCATGTCCCAAACATG
GTCTTACACTGACTATCAAAATCGAAGCCGACAT
Found at i:32996725 original size:73 final size:73
Alignment explanation
Indices: 32996638--32996784 Score: 285
Period size: 73 Copynumber: 2.0 Consensus size: 73
32996628 CAAATCTCGA
*
32996638 TTTTCTTGATCTAACATGATGAAATTTACTCATTTAATCACTAAATAAATTTGGACAATCAAAAT
1 TTTTCTTGATCTAACATGATGAAATTTACTCATTTAATCACTAAATAAATTTCGACAATCAAAAT
32996703 TCATATTT
66 TCATATTT
32996711 TTTTCTTGATCTAACATGATGAAATTTACTCATTTAATCACTAAATAAATTTCGACAATCAAAAT
1 TTTTCTTGATCTAACATGATGAAATTTACTCATTTAATCACTAAATAAATTTCGACAATCAAAAT
32996776 TCATATTT
66 TCATATTT
32996784 T
1 T
32996785 AGGCAAAATG
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.38, C:0.14, G:0.06, T:0.41
Consensus pattern (73 bp):
TTTTCTTGATCTAACATGATGAAATTTACTCATTTAATCACTAAATAAATTTCGACAATCAAAAT
TCATATTT
Found at i:33004522 original size:44 final size:43
Alignment explanation
Indices: 33004437--33004522 Score: 109
Period size: 44 Copynumber: 2.0 Consensus size: 43
33004427 GTAGACAGGC
* * **
33004437 TGCCATGTAGGTTGTTGATAAACTGCCAAATTCACAGATAAGA
1 TGCCATGTAGGTTGTAGAAAAACCACCAAATTCACAGATAAGA
* *
33004480 TGCCATGTAGGTTGTAGACAAAACCATCAAATTTACAGATAAG
1 TGCCATGTAGGTTGTAGA-AAAACCACCAAATTCACAGATAAG
33004523 CTATCAAATC
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
43 17 0.47
44 19 0.53
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27
Consensus pattern (43 bp):
TGCCATGTAGGTTGTAGAAAAACCACCAAATTCACAGATAAGA
Found at i:33005340 original size:14 final size:16
Alignment explanation
Indices: 33005321--33005352 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
33005311 ACTAACAAAT
33005321 AAATAATA-AA-AGAA
1 AAATAATATAATAGAA
33005335 AAATAATATAATAGAA
1 AAATAATATAATAGAA
33005351 AA
1 AA
33005353 GATTAACAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 2 0.12
16 6 0.38
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (16 bp):
AAATAATATAATAGAA
Found at i:33033067 original size:27 final size:27
Alignment explanation
Indices: 33033037--33033214 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
33033027 ATATTGAGTC
* * * *
33033037 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
33033064 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
33033091 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
33033119 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
33033146 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
33033173 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
33033200 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
33033215 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:33033176 original size:82 final size:81
Alignment explanation
Indices: 33033058--33033213 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
33033048 TGCTATATAA
* *
33033058 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
33033123 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
33033140 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
33033204 CACTTAGTGC
65 CACTTAGTGC
33033214 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:33035936 original size:43 final size:43
Alignment explanation
Indices: 33035845--33035984 Score: 153
Period size: 43 Copynumber: 3.3 Consensus size: 43
33035835 ACCGGCACGA
* * *
33035845 AGCCTGCTAGACTTTAAGTCTGA-ACTCA-TTCA-CTGGCATT-T
1 AGCCTGCTAGGCTTAAAGCCTGATA-TCATTTCATC-GGCATTAT
*
33035886 CGCCTGCTAGGCTTAAAGCCTGATATCATTTCATCGGCATTAT
1 AGCCTGCTAGGCTTAAAGCCTGATATCATTTCATCGGCATTAT
** * * *
33035929 AGCCTGCTAGGCTCGAAGCCCGATATTATCTCATCGGCATTAT
1 AGCCTGCTAGGCTTAAAGCCTGATATCATTTCATCGGCATTAT
33035972 AGCCTGCTAGGCT
1 AGCCTGCTAGGCT
33035985 CGAAGCCTAA
Statistics
Matches: 85, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
41 22 0.26
42 11 0.13
43 52 0.61
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (43 bp):
AGCCTGCTAGGCTTAAAGCCTGATATCATTTCATCGGCATTAT
Found at i:33035985 original size:43 final size:43
Alignment explanation
Indices: 33035879--33035991 Score: 165
Period size: 43 Copynumber: 2.7 Consensus size: 43
33035869 CTCATTCACT
* ** * *
33035879 GGCATT-TCGCCTGCTAGGCTTAAAGCCTGATATCATTTCATC
1 GGCATTATAGCCTGCTAGGCTCGAAGCCCGATATCATCTCATC
*
33035921 GGCATTATAGCCTGCTAGGCTCGAAGCCCGATATTATCTCATC
1 GGCATTATAGCCTGCTAGGCTCGAAGCCCGATATCATCTCATC
33035964 GGCATTATAGCCTGCTAGGCTCGAAGCC
1 GGCATTATAGCCTGCTAGGCTCGAAGCC
33035992 TAATAATATT
Statistics
Matches: 64, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
42 6 0.09
43 58 0.91
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.28
Consensus pattern (43 bp):
GGCATTATAGCCTGCTAGGCTCGAAGCCCGATATCATCTCATC
Found at i:33038344 original size:20 final size:20
Alignment explanation
Indices: 33038283--33038360 Score: 59
Period size: 20 Copynumber: 3.8 Consensus size: 20
33038273 AGTATGTCAC
* *
33038283 AAAGCTAACAGAATGCCAAA
1 AAAGGTAACAGAATGCCACA
* * * *
33038303 AAAGCCATATCATAATGTCACA
1 AAAG--GTAACAGAATGCCACA
33038325 AAAGGTAACAGAATGCCAC-
1 AAAGGTAACAGAATGCCACA
*
33038344 AAAGGCTAACAAAATGC
1 AAAGG-TAACAGAATGC
33038361 TCCATAAAGG
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
19 5 0.11
20 25 0.56
22 15 0.33
ACGTcount: A:0.50, C:0.21, G:0.15, T:0.14
Consensus pattern (20 bp):
AAAGGTAACAGAATGCCACA
Found at i:33041324 original size:23 final size:23
Alignment explanation
Indices: 33041298--33041367 Score: 95
Period size: 23 Copynumber: 3.0 Consensus size: 23
33041288 CCGCAAGTTA
33041298 AAGTGTTTAAATGCTGTAAATTG
1 AAGTGTTTAAATGCTGTAAATTG
* *
33041321 AAGTGTTTAAGTACTGTAAATTG
1 AAGTGTTTAAATGCTGTAAATTG
** *
33041344 AAGTGTTTAGTTGCTGGAAATTG
1 AAGTGTTTAAATGCTGTAAATTG
33041367 A
1 A
33041368 GATGTTCTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.33, C:0.04, G:0.24, T:0.39
Consensus pattern (23 bp):
AAGTGTTTAAATGCTGTAAATTG
Found at i:33046527 original size:46 final size:46
Alignment explanation
Indices: 33046350--33046603 Score: 204
Period size: 46 Copynumber: 5.5 Consensus size: 46
33046340 ATTGTGAGCT
* *
33046350 AGTGTAAGA-CATGTTTGGGACATGCATCGGC-CGCATTATG-AGAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCACG-A-GATGTA-AGCC
* * * *
33046396 AGTGTAAGACCATGTCTGGGACATGGCATTGAGAACGAGATG-AGTGCT
1 AGTGTAAGACCATGTCTGGGACAT-GCATCG-GCACGAGATGTA-AGCC
** * *
33046444 AGTGTAAGA-CATGTCTGGGACATGTGTTGGCATCGAGACGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCA-CGAGATGTAAGCC
*
33046490 AGTGTAAGA-CATGTCTGGGACATGCATCGGCTACGAGATG--A--T
1 AGTGTAAGACCATGTCTGGGACATGCATCGGC-ACGAGATGTAAGCC
*** * *
33046532 AGTCGTAAGACCATGTCTGGGACATGCATCGGGTTGAGATATGAGCC
1 AGT-GTAAGACCATGTCTGGGACATGCATCGGCACGAGATGTAAGCC
*
33046579 AGTGTAAGACCATGTCTTGGACATG
1 AGTGTAAGACCATGTCTGGGACATG
33046604 GTATCGGTAC
Statistics
Matches: 172, Mismatches: 23, Indels: 26
0.78 0.10 0.12
Matches are distributed among these distances:
42 3 0.02
43 11 0.06
44 22 0.13
45 3 0.02
46 76 0.44
47 32 0.19
48 21 0.12
49 2 0.01
50 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGGCACGAGATGTAAGCC
Found at i:33056396 original size:30 final size:30
Alignment explanation
Indices: 33056339--33056396 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
33056329 TTTTCGGGCG
* **
33056339 TAGGGGTAAAATGGTCATTTTGTCAAAGTC
1 TAGGGGCAAAATGGTCATTTTACCAAAGTC
33056369 TAGGGGCAAAATGGTCATTTTACCAAAG
1 TAGGGGCAAAATGGTCATTTTACCAAAG
33056397 ATATGAGTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTACCAAAGTC
Found at i:33058382 original size:93 final size:93
Alignment explanation
Indices: 33058270--33058442 Score: 283
Period size: 93 Copynumber: 1.9 Consensus size: 93
33058260 CGCCCATAAG
* * * *
33058270 CGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGTATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
33058335 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
* *
33058363 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
33058428 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
33058443 CAAACATCCT
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:33058438 original size:46 final size:46
Alignment explanation
Indices: 33058263--33058438 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
33058253 TGTAACCCGC
* * * * *
33058263 CCATAAGCGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
33058309 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
33058355 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
33058402 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
33058439 TGCCCAAACA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
44 3 0.03
46 67 0.63
47 32 0.30
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:33058457 original size:46 final size:46
Alignment explanation
Indices: 33058314--33058457 Score: 134
Period size: 46 Copynumber: 3.1 Consensus size: 46
33058304 CGTATCCATA
* *
33058314 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATC-CT
* * * * *
33058363 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCATACATCCT
* *
33058407 AGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCCAAACATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
33058453 AGTGA
1 AGTGA
33058458 CATGTCACTT
Statistics
Matches: 75, Mismatches: 14, Indels: 15
0.72 0.13 0.14
Matches are distributed among these distances:
44 8 0.11
46 32 0.43
47 31 0.41
49 4 0.05
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
Found at i:33060733 original size:44 final size:43
Alignment explanation
Indices: 33060601--33060751 Score: 148
Period size: 44 Copynumber: 3.5 Consensus size: 43
33060591 TAATGTCAAC
* * * *
33060601 GTCCCAGACATGGTCTTACATGT-AATTCAGTATCGATGCTTCT
1 GTCCCAGACATGGTCTTACACGTAAATTCA-AATCGATGCCTGT
* * * *
33060644 GTCCCAGACAAGATCTTATACG-AAATT-AGATACGATGCC-GAT
1 GTCCCAGACATGGTCTTACACGTAAATTCAAAT-CGATGCCTG-T
*
33060686 GTCCTAGACATGGTCTTACACGTAAATTTCAAATCGATGCCTGT
1 GTCCCAGACATGGTCTTACACGTAAA-TTCAAATCGATGCCTGT
*
33060730 GTCCCAGACACGGTCTTACACG
1 GTCCCAGACATGGTCTTACACG
33060752 ATAATCTGTC
Statistics
Matches: 87, Mismatches: 14, Indels: 13
0.76 0.12 0.11
Matches are distributed among these distances:
41 2 0.02
42 26 0.30
43 25 0.29
44 30 0.34
45 4 0.05
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGTAAATTCAAATCGATGCCTGT
Found at i:33067918 original size:42 final size:42
Alignment explanation
Indices: 33067818--33067979 Score: 157
Period size: 43 Copynumber: 3.8 Consensus size: 42
33067808 GAATGCCAAC
* * * * * *
33067818 GTCCCAGACATGGTCTTACATGTAATTCAGTATCGATACCTCT
1 GTCCCAGACAAGGTCTTACACGAAATTCAG-ATCAATGCCTGT
*
33067861 GTCCCAGACAAGGTCTTATACGAAA-TCAGATACAATGCC-GAT
1 GTCCCAGACAAGGTCTTACACGAAATTCAGAT-CAATGCCTG-T
* * *
33067903 GTCCCAGACATGGTCTTACACGTAAATTTCAAATCGATGCCTGT
1 GTCCCAGACAAGGTCTTACACG-AAA-TTCAGATCAATGCCTGT
*
33067947 GTCCCAGACACGGTCTTACACGATAATTCAGAT
1 GTCCCAGACAAGGTCTTACACGA-AATTCAGAT
33067980 TAATACCAAC
Statistics
Matches: 99, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
41 2 0.02
42 30 0.30
43 31 0.31
44 30 0.30
45 6 0.06
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (42 bp):
GTCCCAGACAAGGTCTTACACGAAATTCAGATCAATGCCTGT
Found at i:33067954 original size:44 final size:43
Alignment explanation
Indices: 33067818--33067976 Score: 157
Period size: 44 Copynumber: 3.7 Consensus size: 43
33067808 GAATGCCAAC
* * * *
33067818 GTCCCAGACATGGTCTTACATGT-AATTCAGTATCGATACCTCT
1 GTCCCAGACATGGTCTTACACGTAAATTCA-AATCGATGCCTGT
* * * *
33067861 GTCCCAGACAAGGTCTTATACG-AAA-TCAGATACAATGCC-GAT
1 GTCCCAGACATGGTCTTACACGTAAATTCAAAT-CGATGCCTG-T
33067903 GTCCCAGACATGGTCTTACACGTAAATTTCAAATCGATGCCTGT
1 GTCCCAGACATGGTCTTACACGTAAA-TTCAAATCGATGCCTGT
*
33067947 GTCCCAGACACGGTCTTACACG-ATAATTCA
1 GTCCCAGACATGGTCTTACACGTA-AATTCA
33067977 GATTAATACC
Statistics
Matches: 96, Mismatches: 12, Indels: 16
0.77 0.10 0.13
Matches are distributed among these distances:
41 2 0.02
42 29 0.30
43 29 0.30
44 30 0.31
45 6 0.06
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.27
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGTAAATTCAAATCGATGCCTGT
Found at i:33069370 original size:46 final size:46
Alignment explanation
Indices: 33069273--33069403 Score: 124
Period size: 46 Copynumber: 2.8 Consensus size: 46
33069263 GGTATGGGCA
* * * * *
33069273 TCGAGACGAGT-GCTAGTGTAAGACATGTCTAGGACCTGCATCGGCC
1 TCGAGACGA-TAGCCAGTGTAAGACATGTCTGGGACATGCACCAGCC
33069319 TCGAGACG-TAAGCCAGTGTAAGACATGTCTGGGACATGCACCAG-C
1 TCGAGACGAT-AGCCAGTGTAAGACATGTCTGGGACATGCACCAGCC
* * * *
33069364 TACGAGATGATAGTCAGTGTAAGACCATATCCGGGACATG
1 T-CGAGACGATAGCCAGTGTAAGA-CATGTCTGGGACATG
33069404 GCATCGGCAC
Statistics
Matches: 71, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
44 1 0.01
45 2 0.03
46 54 0.76
47 14 0.20
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.21
Consensus pattern (46 bp):
TCGAGACGATAGCCAGTGTAAGACATGTCTGGGACATGCACCAGCC
Found at i:33071419 original size:75 final size:76
Alignment explanation
Indices: 33071336--33071539 Score: 261
Period size: 75 Copynumber: 2.7 Consensus size: 76
33071326 TTGATCTACC
** *
33071336 ATACTTAAATTATAAATTTATTTATTAAATCTAAATTATTAAATTATAAGTTCAGCTTCAC-TTA
1 ATACTTAAATTATAAATTTAACTATTAAATCTAAATTATTAAATTATAAGTTCAGCTTCACGTCA
33071400 GACAT-TTTTTA
66 -ACATCTTTTTA
* * * * *
33071411 ATACTTAAATTATAAATTTAACTATTAAATATAAAATATTAAATTACAAGTTGAGCTTTACGTCA
1 ATACTTAAATTATAAATTTAACTATTAAATCTAAATTATTAAATTATAAGTTCAGCTTCACGTCA
33071476 ACATCTTTTTA
66 ACATCTTTTTA
* * *
33071487 ATATTTAAATTATAAA-TTAACTATTAAACCTAAAATATATTAAATTTTAAGTT
1 ATACTTAAATTATAAATTTAACTATTAAATCT-AAAT-TATTAAATTATAAGTT
33071540 GGGCTTATAT
Statistics
Matches: 111, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
75 71 0.64
76 26 0.23
77 14 0.13
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.44
Consensus pattern (76 bp):
ATACTTAAATTATAAATTTAACTATTAAATCTAAATTATTAAATTATAAGTTCAGCTTCACGTCA
ACATCTTTTTA
Found at i:33072415 original size:28 final size:32
Alignment explanation
Indices: 33072382--33072451 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 32
33072372 AGTCTCTCAA
33072382 CTTCTTTTTTTTC-TG-CTAT-ATT-TTTTCT
1 CTTCTTTTTTTTCTTGACTATCATTCTTTTCT
* *
33072410 GTTCTTTTTGTTCTTGACTATCATTCTTTTCT
1 CTTCTTTTTTTTCTTGACTATCATTCTTTTCT
*
33072442 CTTCTCTTTT
1 CTTCTTTTTT
33072452 ATTTGTCTAG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
28 11 0.33
29 2 0.06
30 4 0.12
31 3 0.09
32 13 0.39
ACGTcount: A:0.07, C:0.20, G:0.06, T:0.67
Consensus pattern (32 bp):
CTTCTTTTTTTTCTTGACTATCATTCTTTTCT
Found at i:33074315 original size:37 final size:37
Alignment explanation
Indices: 33074258--33074332 Score: 107
Period size: 37 Copynumber: 2.0 Consensus size: 37
33074248 TACGAAGTCG
* *
33074258 TACCCGGACATAATCTCCACACGAAGTTATCGGGTCT
1 TACCCGGACAAAATCTCCACACGAAGTCATCGGGTCT
*
33074295 TACCCGGACAAAAT-TCCCACACGTAGTCATCGGGTCT
1 TACCCGGACAAAATCT-CCACACGAAGTCATCGGGTCT
33074332 T
1 T
33074333 TAGAGCTCGG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
36 1 0.03
37 33 0.97
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
TACCCGGACAAAATCTCCACACGAAGTCATCGGGTCT
Found at i:33074529 original size:47 final size:47
Alignment explanation
Indices: 33074452--33074755 Score: 473
Period size: 47 Copynumber: 6.4 Consensus size: 47
33074442 CCTTTGGGAT
* * * * * * *
33074452 TTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
* *
33074499 CTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
*
33074546 TTATCACATATTTACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
*
33074593 TTATCACATATTTACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
* *
33074640 TTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
*
33074687 TTATCACACATATACCACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATA-CACTTTCACATTCATCACATCGGCCATTAGGCC
33074735 TTATCACATATATACACTTTC
1 TTATCACATATATACACTTTC
33074756 GGCCATTAGG
Statistics
Matches: 239, Mismatches: 17, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
47 194 0.81
48 45 0.19
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.33
Consensus pattern (47 bp):
TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
Found at i:33074759 original size:33 final size:33
Alignment explanation
Indices: 33074721--33074788 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
33074711 ATTCATCACA
33074721 TCGGCCATTAGGCCTTATCACATATATACACTT
1 TCGGCCATTAGGCCTTATCACATATATACACTT
33074754 TCGGCCATTAGGCCTTATCACATATATACACTT
1 TCGGCCATTAGGCCTTATCACATATATACACTT
33074787 TC
1 TC
33074789 ACATTCATCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.34
Consensus pattern (33 bp):
TCGGCCATTAGGCCTTATCACATATATACACTT
Found at i:33074768 original size:128 final size:127
Alignment explanation
Indices: 33074626--33074882 Score: 496
Period size: 128 Copynumber: 2.0 Consensus size: 127
33074616 ATTCATCACA
33074626 TCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
1 TCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
33074691 CACACATATACCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
66 CACACATATA-CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
*
33074754 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
1 TCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
33074819 CACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
66 CACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
33074881 TC
1 TC
33074883 TTGGCTGAAT
Statistics
Matches: 128, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
127 54 0.42
128 74 0.58
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (127 bp):
TCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
CACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
Found at i:33074811 original size:47 final size:47
Alignment explanation
Indices: 33074754--33074882 Score: 240
Period size: 47 Copynumber: 2.7 Consensus size: 47
33074744 ATATACACTT
33074754 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
1 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
* *
33074801 TCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACA
1 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
33074848 TCGGCCATTAGGCCTTATCACATATATACACTTTC
1 TCGGCCATTAGGCCTTATCACATATATACACTTTC
33074883 TTGGCTGAAT
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 78 1.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
Found at i:33074811 original size:80 final size:81
Alignment explanation
Indices: 33074673--33074835 Score: 283
Period size: 80 Copynumber: 2.0 Consensus size: 81
33074663 ATTCATCACA
*
33074673 TCGGCTATTAGGCCTTATCACACATATACCACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCGGCCATTAGGCCTTATCACACATATACCACTTTCACATTCATCACATCGGCCATTAGGCCTTA
*
33074738 TCACATATATACACTT
66 TCACACATATACACTT
* *
33074754 TCGGCCATTAGGCCTTATCACATATATA-CACTTTCACATTCATCACATCGGCTATTAGGCCTTA
1 TCGGCCATTAGGCCTTATCACACATATACCACTTTCACATTCATCACATCGGCCATTAGGCCTTA
33074818 TCACACATATACACTT
66 TCACACATATACACTT
33074834 TC
1 TC
33074836 ACATTCATCA
Statistics
Matches: 78, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
80 52 0.67
81 26 0.33
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (81 bp):
TCGGCCATTAGGCCTTATCACACATATACCACTTTCACATTCATCACATCGGCCATTAGGCCTTA
TCACACATATACACTT
Found at i:33078484 original size:40 final size:40
Alignment explanation
Indices: 33078440--33078691 Score: 348
Period size: 40 Copynumber: 6.3 Consensus size: 40
33078430 TCTTCGAGGT
* * * *
33078440 TTAGCACGGATATATTACTAGCACGAATGATCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
33078480 TTAGCCCGGATACATCACTAGCACGAATGCTCTTC-GAGAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGA-AC
* * *
33078520 TTAGCCCAGATACATCACTAGCATGAATGCTCTTCGGGAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
33078560 TTAGCCCGGATACATCACTAGCACGAATGCTCTTC-GAGAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGA-AC
* *
33078600 TTAGCCCAGATACATCACTAGCATGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
* *
33078640 TTAGCCCGGATAC-TACACTAGCATGAATGCTCTTCGGGAC
1 TTAGCCCGGATACAT-CACTAGCACGAATGCTCTTCGGAAC
*
33078680 TTAGCCCAGATA
1 TTAGCCCGGATA
33078692 ATGGAGAAGA
Statistics
Matches: 192, Mismatches: 15, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
39 4 0.02
40 185 0.96
41 3 0.02
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
Found at i:33078524 original size:80 final size:80
Alignment explanation
Indices: 33078429--33078691 Score: 411
Period size: 80 Copynumber: 3.3 Consensus size: 80
33078419 AGCATGATTA
** * * * * * *
33078429 CTCTTCGAGGTTTAGCACGGATATATTACTAGCACGAATGATCTTCGGAACTTAGCCCGGATACA
1 CTCTTCGAGACTTAGCCCAGATACATCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
33078494 TCACTAGCACGAATG
66 TCACTAGCACGAATG
*
33078509 CTCTTCGAGACTTAGCCCAGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 CTCTTCGAGACTTAGCCCAGATACATCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
33078574 TCACTAGCACGAATG
66 TCACTAGCACGAATG
33078589 CTCTTCGAGACTTAGCCCAGATACATCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATAC-
1 CTCTTCGAGACTTAGCCCAGATACATCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
*
33078653 TACACTAGCATGAATG
66 T-CACTAGCACGAATG
*
33078669 CTCTTCGGGACTTAGCCCAGATA
1 CTCTTCGAGACTTAGCCCAGATA
33078692 ATGGAGAAGA
Statistics
Matches: 170, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
79 1 0.01
80 169 0.99
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (80 bp):
CTCTTCGAGACTTAGCCCAGATACATCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
TCACTAGCACGAATG
Found at i:33079451 original size:40 final size:40
Alignment explanation
Indices: 33079362--33079625 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
33079352 TTGAATGATG
* *
33079362 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
33079401 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
33079441 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
33079480 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
33079520 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
33079560 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
33079601 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
33079626 AACGAGGAGC
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
39 53 0.26
40 143 0.69
41 10 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:33079643 original size:120 final size:118
Alignment explanation
Indices: 33079362--33079658 Score: 338
Period size: 119 Copynumber: 2.5 Consensus size: 118
33079352 TTGAATGATG
* *
33079362 TCCGGGCTAAGTCCCGAAGGC-TTGTG--CTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGCATT-TGAAC-GAGTGACTAA-ATCCGG-TTAA-ATCCCGAAGGC
* *
33079422 ATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
61 ATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
* ** * *
33079480 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTT
* *
33079545 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
65 GTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAATTACTA-AA
* * *
33079601 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
33079659 TACGTGATTT
Statistics
Matches: 153, Mismatches: 17, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
118 23 0.15
119 64 0.42
120 64 0.42
121 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (118 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTG
TGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
Found at i:33083503 original size:19 final size:19
Alignment explanation
Indices: 33083479--33083519 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
33083469 GGGTTGCGTA
33083479 TTGATGCAAGAAGGTCGAG
1 TTGATGCAAGAAGGTCGAG
33083498 TTGATGCAAGAAGGTCGAG
1 TTGATGCAAGAAGGTCGAG
33083517 TTG
1 TTG
33083520 TGGCCTATGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.29, C:0.10, G:0.37, T:0.24
Consensus pattern (19 bp):
TTGATGCAAGAAGGTCGAG
Found at i:33087016 original size:58 final size:58
Alignment explanation
Indices: 33086926--33087042 Score: 216
Period size: 58 Copynumber: 2.0 Consensus size: 58
33086916 CAAATTAAAA
*
33086926 TCATGCTCTTCGTGTGGCTATTGAGCTGAATTTGCAAGAATGATAAATGTCTTGTGTT
1 TCATGCTCTTCGTGTGGCTATTGAGCCGAATTTGCAAGAATGATAAATGTCTTGTGTT
*
33086984 TCATGCTCTTTGTGTGGCTATTGAGCCGAATTTGCAAGAATGATAAATGTCTTGTGTT
1 TCATGCTCTTCGTGTGGCTATTGAGCCGAATTTGCAAGAATGATAAATGTCTTGTGTT
33087042 T
1 T
33087043 GAGTTTTGCT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.22, C:0.14, G:0.24, T:0.40
Consensus pattern (58 bp):
TCATGCTCTTCGTGTGGCTATTGAGCCGAATTTGCAAGAATGATAAATGTCTTGTGTT
Found at i:33087212 original size:39 final size:39
Alignment explanation
Indices: 33087117--33088081 Score: 1699
Period size: 39 Copynumber: 24.6 Consensus size: 39
33087107 TTGAATGATG
*
33087117 TCCGGGCTAAGTCTCGAAGGC--TTGTGCGA-AGTGAC-AAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
33087155 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
33087196 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
33087235 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
33087274 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
33087313 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
33087352 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
33087391 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
33087430 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
33087469 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
33087508 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
33087547 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
33087586 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
33087625 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
33087664 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
33087703 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
33087742 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
33087781 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
33087820 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
33087859 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
33087898 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* *
33087937 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
33087976 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAA
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
*
33088016 TCCGGGCTAAGTCCCGAAGGCATTGGTGCGA-ATTACT-AT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
33088055 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAG-CCCGAAGGCATTTG
33088082 AACGAGGAGC
Statistics
Matches: 903, Mismatches: 16, Indels: 13
0.97 0.02 0.01
Matches are distributed among these distances:
39 795 0.88
40 95 0.11
41 12 0.01
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Done.