Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000260.1 Hibiscus syriacus cultivar Beakdansim tig00000477_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 5583615
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 18 of 26
Found at i:3641023 original size:54 final size:54
Alignment explanation
Indices: 3640963--3641221 Score: 333
Period size: 54 Copynumber: 4.8 Consensus size: 54
3640953 AATCTTTTAT
* *
3640963 GTATCGGCACTAAGTGTGCAACCCACGAAATTCATAATATGTTTATGAACGACT
1 GTATCGGCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACC
* * *
3641017 ATATCGGCACTAAATGTGCAACCCAC-AGAATTCATAATAAGTTTATGAACGACT
1 GTATCGGCACTAAGTGTGCAACCCACGA-AATTCATAATAAGTTTATGAACGACC
* * * * * * *
3641071 GTATCGACACTAAGTTTGCAACCTACGTAATTAATAATAAGTTTATAAACAACC
1 GTATCGGCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACC
* * *
3641125 GTATTGGCACTAAGTGTGCAACCCGCGAAATTCATAATATGTTTATGAACGACC
1 GTATCGGCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACC
* *
3641179 GTATTGGCACTAAGTGTGCAACCCACGAAACTT-ATAATGAGTT
1 GTATCGGCACTAAGTGTGCAACCCACGAAA-TTCATAATAAGTT
3641222 GCAATAATTA
Statistics
Matches: 176, Mismatches: 26, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 173 0.98
55 2 0.01
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.28
Consensus pattern (54 bp):
GTATCGGCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACC
Found at i:3647360 original size:22 final size:22
Alignment explanation
Indices: 3647327--3647369 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
3647317 TACTGAAAGG
*
3647327 AGTATCAGTACCATAGTAGGGA
1 AGTATCAGTACCATAGGAGGGA
3647349 AGTATC-GATACCATAGGAGGG
1 AGTATCAG-TACCATAGGAGGG
3647370 GTACCGATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.35, C:0.14, G:0.30, T:0.21
Consensus pattern (22 bp):
AGTATCAGTACCATAGGAGGGA
Found at i:3647379 original size:20 final size:21
Alignment explanation
Indices: 3647335--3647379 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
3647325 GGAGTATCAG
* *
3647335 TACCATAGTAGGGAAGTATCGA
1 TACCATAGGAGGG-AGTACCGA
3647357 TACCATAGGAGGG-GTACCGA
1 TACCATAGGAGGGAGTACCGA
3647377 TAC
1 TAC
3647380 TATTCAATCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 9 0.43
22 12 0.57
ACGTcount: A:0.33, C:0.18, G:0.29, T:0.20
Consensus pattern (21 bp):
TACCATAGGAGGGAGTACCGA
Found at i:3650429 original size:2 final size:2
Alignment explanation
Indices: 3650422--3650455 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
3650412 GAGCTTTACT
3650422 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3650456 CTTACATATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3650612 original size:2 final size:2
Alignment explanation
Indices: 3650605--3650696 Score: 55
Period size: 2 Copynumber: 47.0 Consensus size: 2
3650595 AGCGTGCATA
* * * *
3650605 AT AT AT AT AA AGT AT AT AT -T AT AA AT AG GT AT AT AT AT AT AT
1 AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * ** * *
3650647 AT AT AT AT AT -T AC AT GT AT GC AT AT A- AT AT AA AT AT AT AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
3650687 AT AC AT AT AT
1 AT AT AT AT AT
3650697 GGCTAAAACA
Statistics
Matches: 64, Mismatches: 22, Indels: 8
0.68 0.23 0.09
Matches are distributed among these distances:
1 3 0.05
2 60 0.94
3 1 0.02
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.41
Consensus pattern (2 bp):
AT
Found at i:3656657 original size:19 final size:19
Alignment explanation
Indices: 3656623--3656678 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
3656613 ACATATTGCA
*
3656623 TTTTGCATCTGTATTTTACT
1 TTTTGCAT-TGCATTTTACT
3656643 TTTTGCATTGCATTTTACT
1 TTTTGCATTGCATTTTACT
*
3656662 TTTTGCATAGCATTTTA
1 TTTTGCATTGCATTTTA
3656679 TCCATTTATA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 26 0.76
20 8 0.24
ACGTcount: A:0.18, C:0.14, G:0.11, T:0.57
Consensus pattern (19 bp):
TTTTGCATTGCATTTTACT
Found at i:3661237 original size:2 final size:2
Alignment explanation
Indices: 3661230--3661260 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3661220 AATTTCAACA
3661230 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3661261 GCTCATAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3661918 original size:61 final size:61
Alignment explanation
Indices: 3661802--3661918 Score: 164
Period size: 61 Copynumber: 1.9 Consensus size: 61
3661792 GCTAAACCTG
*
3661802 CACTAAACTTACACCATAGTGCTAATCCGAATAATACACATAAGGTCGTGCCCACCAGCTA
1 CACTAAACTTACACCATAGTGCTAATCCGAATAATACACATAAGGTCGTACCCACCAGCTA
* * * * *
3661863 CACTAAACTTACGCTATAGTGCTAATCCGGAT-ATGATACATAAGGTCGTATCCACC
1 CACTAAACTTACACCATAGTGCTAATCCGAATAAT-ACACATAAGGTCGTACCCACC
3661919 TTTCTTGCAC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
60 2 0.04
61 47 0.96
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (61 bp):
CACTAAACTTACACCATAGTGCTAATCCGAATAATACACATAAGGTCGTACCCACCAGCTA
Found at i:3662692 original size:29 final size:29
Alignment explanation
Indices: 3662656--3662717 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
3662646 ACCCAAGAAT
* * *
3662656 TTTTCAAAAATGT-CTAATTGATCCCCAAC
1 TTTTCAAAAAT-TACAAAATGATCCCCAAA
3662685 TTTTCAAAAATTACAAAATGATCCCCAAA
1 TTTTCAAAAATTACAAAATGATCCCCAAA
3662714 TTTT
1 TTTT
3662718 TTTAAAGCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 1 0.03
29 28 0.97
ACGTcount: A:0.39, C:0.21, G:0.05, T:0.35
Consensus pattern (29 bp):
TTTTCAAAAATTACAAAATGATCCCCAAA
Found at i:3668729 original size:21 final size:22
Alignment explanation
Indices: 3668703--3668743 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
3668693 AATAGTGAGC
3668703 GTATCGGTA-CACTGTAGCAGG
1 GTATCGGTACCACTGTAGCAGG
*
3668724 GTATCGGTACCCCTGTAGCA
1 GTATCGGTACCACTGTAGCA
3668744 TTCTGGAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.24
Consensus pattern (22 bp):
GTATCGGTACCACTGTAGCAGG
Found at i:3668759 original size:2 final size:2
Alignment explanation
Indices: 3668752--3668792 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
3668742 CATTCTGGAA
3668752 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3668793 ACTCATAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3672055 original size:22 final size:22
Alignment explanation
Indices: 3672023--3672070 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
3672013 TGATAGCTCT
*
3672023 ATGGTCGTTCTCTATGTGGGGC
1 ATGGTCATTCTCTATGTGGGGC
3672045 ATGGTCATTCTCTATGTGGGGC
1 ATGGTCATTCTCTATGTGGGGC
3672067 ATGG
1 ATGG
3672071 ACGTCATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.12, C:0.17, G:0.35, T:0.35
Consensus pattern (22 bp):
ATGGTCATTCTCTATGTGGGGC
Found at i:3672575 original size:20 final size:20
Alignment explanation
Indices: 3672540--3672584 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
3672530 TTTTGCAGAG
3672540 AAAACATCCCCAAATGGCTA
1 AAAACATCCCCAAATGGCTA
3672560 AAAATCATCCCC-AATGGCTA
1 AAAA-CATCCCCAAATGGCTA
*
3672580 GAAAC
1 AAAAC
3672585 GACCACAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 1 0.04
20 15 0.65
21 7 0.30
ACGTcount: A:0.44, C:0.29, G:0.11, T:0.16
Consensus pattern (20 bp):
AAAACATCCCCAAATGGCTA
Found at i:3673766 original size:20 final size:20
Alignment explanation
Indices: 3673731--3673776 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 20
3673721 TTTCCTGAAG
3673731 AAAAAAGAGAAAGAGA-TAA
1 AAAAAAGAGAAAGAGAGTAA
3673750 AAAAAAGTA-AAAGGAGAGGTAA
1 AAAAAAG-AGAAA-GAGA-GTAA
3673772 AAAAA
1 AAAAA
3673777 TTAAATGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
19 10 0.43
20 5 0.22
22 8 0.35
ACGTcount: A:0.72, C:0.00, G:0.22, T:0.07
Consensus pattern (20 bp):
AAAAAAGAGAAAGAGAGTAA
Found at i:3673881 original size:45 final size:44
Alignment explanation
Indices: 3673806--3673890 Score: 98
Period size: 45 Copynumber: 1.9 Consensus size: 44
3673796 AAAATAAATA
* * ** * *
3673806 AAAGGGGGTTCAAGATGAAAACTCGTAAAGGGCGTCTTGAAACC
1 AAAGGAGGTTCAAGATGAAAACCCAAAAAGGACGGCTTGAAACC
*
3673850 AAAGGAGGTCTCAAGTTGAAAACCCAAAAAGGACGGCTTGA
1 AAAGGAGGT-TCAAGATGAAAACCCAAAAAGGACGGCTTGA
3673891 GTTTTGTTTA
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
44 8 0.24
45 25 0.76
ACGTcount: A:0.39, C:0.16, G:0.28, T:0.16
Consensus pattern (44 bp):
AAAGGAGGTTCAAGATGAAAACCCAAAAAGGACGGCTTGAAACC
Found at i:3686778 original size:24 final size:24
Alignment explanation
Indices: 3686750--3686802 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
3686740 TTATCAGTAT
*
3686750 TCAGAACATAATTCAGATAAAAAA
1 TCAGAACATAATTCAAATAAAAAA
* **
3686774 TCAGAACATATTTCAAATCGAAAA
1 TCAGAACATAATTCAAATAAAAAA
3686798 TCAGA
1 TCAGA
3686803 TAAAATATTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.53, C:0.15, G:0.09, T:0.23
Consensus pattern (24 bp):
TCAGAACATAATTCAAATAAAAAA
Found at i:3689319 original size:17 final size:18
Alignment explanation
Indices: 3689288--3689329 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
3689278 TTCGATCAAA
3689288 GTCAACGGTCAGTCAACG
1 GTCAACGGTCAGTCAACG
*
3689306 GTCAACGG-CGGTCAACG
1 GTCAACGGTCAGTCAACG
*
3689323 ATCAACG
1 GTCAACG
3689330 ATTTTACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.29, C:0.29, G:0.29, T:0.14
Consensus pattern (18 bp):
GTCAACGGTCAGTCAACG
Found at i:3690889 original size:27 final size:23
Alignment explanation
Indices: 3690829--3690874 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
3690819 TGTAAACTCA
3690829 TAAAATCATTTATCAGTATTCAT
1 TAAAATCATTTATCAGTATTCAT
3690852 TAAAATCATTTATCAGTATTCAT
1 TAAAATCATTTATCAGTATTCAT
3690875 AAATAAACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.13, G:0.04, T:0.43
Consensus pattern (23 bp):
TAAAATCATTTATCAGTATTCAT
Found at i:3691666 original size:24 final size:24
Alignment explanation
Indices: 3691638--3691729 Score: 67
Period size: 24 Copynumber: 3.5 Consensus size: 24
3691628 ATAAACGGAG
3691638 ATATCAGAAATCAAAATAGAATTC
1 ATATCAGAAATCAAAATAGAATTC
* * *
3691662 ATATCATATATCATATATCATAACAGAATCC
1 ATATCAGAAATCA-A-A--AT---AGAATTC
* * *
3691693 AGATCAGAAATCAGAACAGAATTC
1 ATATCAGAAATCAAAATAGAATTC
3691717 ATATCAGAAATCA
1 ATATCAGAAATCA
3691730 GAACATATTT
Statistics
Matches: 51, Mismatches: 10, Indels: 14
0.68 0.13 0.19
Matches are distributed among these distances:
24 29 0.57
25 1 0.02
26 1 0.02
27 1 0.02
28 2 0.04
29 1 0.02
31 16 0.31
ACGTcount: A:0.50, C:0.16, G:0.09, T:0.25
Consensus pattern (24 bp):
ATATCAGAAATCAAAATAGAATTC
Found at i:3691707 original size:12 final size:12
Alignment explanation
Indices: 3691692--3691731 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
3691682 TAACAGAATC
3691692 CAGATCAGAAAT
1 CAGATCAGAAAT
* *
3691704 CAGAACAGAATT
1 CAGATCAGAAAT
*
3691716 CATATCAGAAAT
1 CAGATCAGAAAT
3691728 CAGA
1 CAGA
3691732 ACATATTTCA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.50, C:0.17, G:0.15, T:0.17
Consensus pattern (12 bp):
CAGATCAGAAAT
Found at i:3691730 original size:24 final size:24
Alignment explanation
Indices: 3691669--3691734 Score: 87
Period size: 24 Copynumber: 2.8 Consensus size: 24
3691659 TTCATATCAT
* * *
3691669 ATATCATATATCATAACAGAATCC
1 ATATCAGAAATCAGAACAGAATCC
* *
3691693 AGATCAGAAATCAGAACAGAATTC
1 ATATCAGAAATCAGAACAGAATCC
3691717 ATATCAGAAATCAGAACA
1 ATATCAGAAATCAGAACA
3691735 TATTTCAAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.50, C:0.18, G:0.11, T:0.21
Consensus pattern (24 bp):
ATATCAGAAATCAGAACAGAATCC
Found at i:3691741 original size:24 final size:24
Alignment explanation
Indices: 3691678--3691755 Score: 86
Period size: 24 Copynumber: 3.2 Consensus size: 24
3691668 TATATCATAT
* * *
3691678 ATCATAACAGAATCCAGATCAGAA
1 ATCAGAACAGAATTCAAATCAGAA
*
3691702 ATCAGAACAGAATTCATATCAGAA
1 ATCAGAACAGAATTCAAATCAGAA
* *
3691726 ATCAGAACATATTTCAAATC-GAAA
1 ATCAGAACAGAATTCAAATCAG-AA
3691750 ATCAGA
1 ATCAGA
3691756 TAAAATATTC
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
23 1 0.02
24 46 0.98
ACGTcount: A:0.50, C:0.18, G:0.12, T:0.21
Consensus pattern (24 bp):
ATCAGAACAGAATTCAAATCAGAA
Found at i:3695894 original size:2 final size:2
Alignment explanation
Indices: 3695887--3695912 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3695877 AGTAATTTTA
3695887 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
3695913 TAGTTTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3697575 original size:52 final size:52
Alignment explanation
Indices: 3697497--3697595 Score: 153
Period size: 52 Copynumber: 1.9 Consensus size: 52
3697487 CAAGATTTTG
* * * *
3697497 CATAACTAAATGCCCATTTCTTTTATTTCGTCTCGGGCCAAAAAATAATGAA
1 CATAAATAAAGGCCCATTTATTTTATTTCGTCTCGAGCCAAAAAATAATGAA
*
3697549 CATAAATAAAGGCCCATTTATTTTATTTCGTCTCGAGTCAAAAAATA
1 CATAAATAAAGGCCCATTTATTTTATTTCGTCTCGAGCCAAAAAATA
3697596 CCCAGAGCCA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 42 1.00
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.33
Consensus pattern (52 bp):
CATAAATAAAGGCCCATTTATTTTATTTCGTCTCGAGCCAAAAAATAATGAA
Found at i:3698093 original size:6 final size:6
Alignment explanation
Indices: 3698084--3698149 Score: 105
Period size: 6 Copynumber: 11.0 Consensus size: 6
3698074 TCCTTTTTCT
* * *
3698084 TCCACA TCCACA ACCACA ACCACA ACCACA TCCACA TCCACA TCCACA
1 TCCACA TCCACA TCCACA TCCACA TCCACA TCCACA TCCACA TCCACA
3698132 TCCACA TCCACA TCCACA
1 TCCACA TCCACA TCCACA
3698150 GCTACAAGTT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 58 1.00
ACGTcount: A:0.38, C:0.50, G:0.00, T:0.12
Consensus pattern (6 bp):
TCCACA
Found at i:3698188 original size:20 final size:20
Alignment explanation
Indices: 3698163--3698205 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 20
3698153 ACAAGTTTTT
3698163 GTTTTTTTATT-AAGCTACAA
1 GTTTTTTT-TTAAAGCTACAA
3698183 GTTTTTTTTTAAAGCTACAA
1 GTTTTTTTTTAAAGCTACAA
3698203 GTT
1 GTT
3698206 AAATTCATGG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 2 0.09
20 20 0.91
ACGTcount: A:0.28, C:0.09, G:0.12, T:0.51
Consensus pattern (20 bp):
GTTTTTTTTTAAAGCTACAA
Found at i:3699958 original size:4 final size:4
Alignment explanation
Indices: 3699949--3700010 Score: 79
Period size: 4 Copynumber: 15.5 Consensus size: 4
3699939 TAATGGTATC
* * *
3699949 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATGT ATGT AAAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
* *
3699997 ATAA ATAT AAAT AT
1 ATAT ATAT ATAT AT
3700011 TTTATTTTTG
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 50 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (4 bp):
ATAT
Found at i:3699960 original size:6 final size:6
Alignment explanation
Indices: 3699949--3700010 Score: 79
Period size: 6 Copynumber: 10.3 Consensus size: 6
3699939 TAATGGTATC
* * *
3699949 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATGTAT GTAAAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* *
3699997 ATAAAT ATAAAT AT
1 ATATAT ATATAT AT
3700011 TTTATTTTTG
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 51 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (6 bp):
ATATAT
Found at i:3702675 original size:2 final size:2
Alignment explanation
Indices: 3702668--3702696 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3702658 AAAATTCAGT
3702668 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3702697 TAAATTATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3705632 original size:27 final size:27
Alignment explanation
Indices: 3705594--3705735 Score: 175
Period size: 27 Copynumber: 5.4 Consensus size: 27
3705584 TGAACCCGCG
**
3705594 TGCGTATTATTAAATTCAGTCACCTCA
1 TGCGTATTATTAAATTCACCCACCTCA
3705621 TGCGTATTATTAAATTCACCCACCTCA
1 TGCGTATTATTAAATTCACCCACCTCA
**
3705648 TGCGTATTATTAAAAGCACCCACCTCA
1 TGCGTATTATTAAATTCACCCACCTCA
3705675 TGCGTATTA-T--ATTCACCCACCTCA
1 TGCGTATTATTAAATTCACCCACCTCA
* * *
3705699 TGAGTATTA-TAATAATCTCCCACCTCA
1 TGCGTATTATTAA-ATTCACCCACCTCA
*
3705726 TGCGAATTAT
1 TGCGTATTAT
3705736 AATAATCTCC
Statistics
Matches: 100, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
24 21 0.21
26 1 0.01
27 78 0.78
ACGTcount: A:0.30, C:0.27, G:0.10, T:0.33
Consensus pattern (27 bp):
TGCGTATTATTAAATTCACCCACCTCA
Found at i:3705689 original size:51 final size:51
Alignment explanation
Indices: 3705594--3705736 Score: 180
Period size: 51 Copynumber: 2.7 Consensus size: 51
3705584 TGAACCCGCG
* **
3705594 TGCGTATTATTAAATTCAGTCACCTCATGCGTATTATTAAATTCACCCACCTCA
1 TGCGTATTATTAAAATCACCCACCTCATGCGTATTA-T--ATTCACCCACCTCA
*
3705648 TGCGTATTATTAAAAGCACCCACCTCATGCGTATTATATTCACCCACCTCA
1 TGCGTATTATTAAAATCACCCACCTCATGCGTATTATATTCACCCACCTCA
* * *
3705699 TGAGTATTA-TAATAATCTCCCACCTCATGCGAATTATA
1 TGCGTATTATTAA-AATCACCCACCTCATGCGTATTATA
3705737 ATAATCTCCC
Statistics
Matches: 80, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
50 3 0.04
51 44 0.55
53 1 0.01
54 32 0.40
ACGTcount: A:0.31, C:0.27, G:0.10, T:0.33
Consensus pattern (51 bp):
TGCGTATTATTAAAATCACCCACCTCATGCGTATTATATTCACCCACCTCA
Found at i:3705736 original size:27 final size:27
Alignment explanation
Indices: 3705614--3705749 Score: 165
Period size: 27 Copynumber: 5.1 Consensus size: 27
3705604 TAAATTCAGT
*
3705614 CACCTCATGCGTATTATTAA-ATTCACC
1 CACCTCATGCGTATTA-TAATAATCACC
*
3705641 CACCTCATGCGTATTATTAA-AAGCACC
1 CACCTCATGCGTATTA-TAATAATCACC
3705668 CACCTCATGCGTATTAT-AT--TCACC
1 CACCTCATGCGTATTATAATAATCACC
* *
3705692 CACCTCATGAGTATTATAATAATCTCC
1 CACCTCATGCGTATTATAATAATCACC
* *
3705719 CACCTCATGCGAATTATAATAATCTCC
1 CACCTCATGCGTATTATAATAATCACC
3705746 CACC
1 CACC
3705750 ACCTTTATAA
Statistics
Matches: 98, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
24 20 0.20
25 3 0.03
26 1 0.01
27 74 0.76
ACGTcount: A:0.31, C:0.31, G:0.08, T:0.30
Consensus pattern (27 bp):
CACCTCATGCGTATTATAATAATCACC
Found at i:3718145 original size:20 final size:21
Alignment explanation
Indices: 3718107--3718167 Score: 70
Period size: 23 Copynumber: 2.9 Consensus size: 21
3718097 TTTTGGTGCA
* *
3718107 GAGGGAATCGA-TCCCCCCTT
1 GAGGGAACCGATTCCCCCTTT
*
3718127 GAGGGAACCGATTCTCCCTTT
1 GAGGGAACCGATTCCCCCTTT
3718148 GAAGGGGAACCGATTCCCCC
1 G-A-GGGAACCGATTCCCCC
3718168 CACAGGGGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
20 10 0.29
21 8 0.24
22 1 0.03
23 15 0.44
ACGTcount: A:0.21, C:0.33, G:0.26, T:0.20
Consensus pattern (21 bp):
GAGGGAACCGATTCCCCCTTT
Found at i:3718174 original size:21 final size:21
Alignment explanation
Indices: 3718150--3718189 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
3718140 CTCCCTTTGA
*
3718150 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
3718171 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
3718190 CTGGGGTTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:3725444 original size:10 final size:10
Alignment explanation
Indices: 3725414--3725438 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
3725404 TGTTAAAACA
3725414 TTTTGGATTT
1 TTTTGGATTT
3725424 TTTTGGATTT
1 TTTTGGATTT
3725434 TTTTG
1 TTTTG
3725439 TGTTTTGGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.00, G:0.20, T:0.72
Consensus pattern (10 bp):
TTTTGGATTT
Found at i:3725509 original size:17 final size:18
Alignment explanation
Indices: 3725474--3725510 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
3725464 AATGGTTTGA
3725474 ATGTTTCATTTGAACTTC
1 ATGTTTCATTTGAACTTC
3725492 ATGTTTC-TATTG-ACTTC
1 ATGTTTCAT-TTGAACTTC
3725509 AT
1 AT
3725511 TAATTTTTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.22, C:0.16, G:0.11, T:0.51
Consensus pattern (18 bp):
ATGTTTCATTTGAACTTC
Found at i:3725763 original size:12 final size:12
Alignment explanation
Indices: 3725731--3725757 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
3725721 GGGGAGTAAT
3725731 TTTCAAAATTGA
1 TTTCAAAATTGA
3725743 TTTCAAAATTGA
1 TTTCAAAATTGA
3725755 TTT
1 TTT
3725758 TTAAATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.48
Consensus pattern (12 bp):
TTTCAAAATTGA
Found at i:3727836 original size:22 final size:22
Alignment explanation
Indices: 3727784--3727837 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
3727774 TATAACTTTT
3727784 TGGTCAAAA-TCAAAGTCAATAC
1 TGGT-AAAAGTCAAAGTCAATAC
* *
3727806 AGGTCAAAGTCAAAGTCAACT-C
1 TGGTAAAAGTCAAAGTCAA-TAC
3727828 TGGTAAAAGT
1 TGGTAAAAGT
3727838 TAACGATAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 3 0.12
22 22 0.85
23 1 0.04
ACGTcount: A:0.43, C:0.17, G:0.19, T:0.22
Consensus pattern (22 bp):
TGGTAAAAGTCAAAGTCAATAC
Found at i:3728435 original size:14 final size:14
Alignment explanation
Indices: 3728416--3728446 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
3728406 GTTTTGGGGT
3728416 TTTCAATTTAGGGA
1 TTTCAATTTAGGGA
*
3728430 TTTCAATTTGGGGA
1 TTTCAATTTAGGGA
3728444 TTT
1 TTT
3728447 AAATACATGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.06, G:0.23, T:0.48
Consensus pattern (14 bp):
TTTCAATTTAGGGA
Found at i:3735850 original size:20 final size:21
Alignment explanation
Indices: 3735821--3735861 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
3735811 AGACGTATTT
*
3735821 AATATACATATATTTGTTTTA
1 AATATACATATATTAGTTTTA
*
3735842 AATAT-CATATGTTAGTTTTA
1 AATATACATATATTAGTTTTA
3735862 CTTGAGATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (21 bp):
AATATACATATATTAGTTTTA
Found at i:3739142 original size:190 final size:191
Alignment explanation
Indices: 3738819--3739201 Score: 759
Period size: 190 Copynumber: 2.0 Consensus size: 191
3738809 GAACTAGAGG
3738819 ATAAAGTGAAGATAGTTCAAGATAATCTCAAGATGGCATCTGCTCGGCAAAAGTGTTATGCAGAT
1 ATAAAGTGAAGATAGTTCAAGATAATCTCAAGATGGCATCTGCTCGGCAAAAGTGTTATGCAGAT
3738884 TTGAAGCGAAAAGAGATTGAATTTCAAGAAGGCGATAAAGTTTTTCTTAGAGTATCACCTTGGAA
66 TTGAAGCGAAAAGAGATTGAATTTCAAGAAGGCGATAAAGTTTTTCTTAGAGTATCACCTTGGAA
3738949 AAAGA-TTTGCGTTTTGGGCACAGAGGAAAATTAAGTCCCAGATTCATTGGACCTTATGAA
131 AAAGATTTTGCGTTTTGGGCACAGAGGAAAATTAAGTCCCAGATTCATTGGACCTTATGAA
3739009 ATAAAGTGAAGATAGTTCAAGATAATCTCAAGATGGCATCTGCTCGGCAAAAGTGTTATGCAGAT
1 ATAAAGTGAAGATAGTTCAAGATAATCTCAAGATGGCATCTGCTCGGCAAAAGTGTTATGCAGAT
3739074 TTGAAGCGAAAAGAGATTGAATTTCAAGAAGGCGATAAAGTTTTTCTTAGAGTATCACCTTGGAA
66 TTGAAGCGAAAAGAGATTGAATTTCAAGAAGGCGATAAAGTTTTTCTTAGAGTATCACCTTGGAA
3739139 AAAGATTTTGCGTTTTGGGCACAGAGGAAAATTAAGTCCCAGATTCATTGGACCTTATGAA
131 AAAGATTTTGCGTTTTGGGCACAGAGGAAAATTAAGTCCCAGATTCATTGGACCTTATGAA
3739200 AT
1 AT
3739202 CTCACAGAGA
Statistics
Matches: 192, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
190 135 0.70
191 57 0.30
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (191 bp):
ATAAAGTGAAGATAGTTCAAGATAATCTCAAGATGGCATCTGCTCGGCAAAAGTGTTATGCAGAT
TTGAAGCGAAAAGAGATTGAATTTCAAGAAGGCGATAAAGTTTTTCTTAGAGTATCACCTTGGAA
AAAGATTTTGCGTTTTGGGCACAGAGGAAAATTAAGTCCCAGATTCATTGGACCTTATGAA
Found at i:3741391 original size:24 final size:24
Alignment explanation
Indices: 3741355--3741403 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
3741345 TGCATGACAC
3741355 TGTACATACATGTTTTATACATCA
1 TGTACATACATGTTTTATACATCA
**
3741379 TGTACATGGATGTTTTATACATCA
1 TGTACATACATGTTTTATACATCA
3741403 T
1 T
3741404 CATGAAGACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (24 bp):
TGTACATACATGTTTTATACATCA
Found at i:3742202 original size:20 final size:21
Alignment explanation
Indices: 3742173--3742213 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
3742163 AGACGTATTT
3742173 AATATACATAT-ATATGTTTTA
1 AATATACATATGATA-GTTTTA
3742194 AATAT-CATATGATAGTTTTA
1 AATATACATATGATAGTTTTA
3742214 CTTGAGATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.46
Consensus pattern (21 bp):
AATATACATATGATAGTTTTA
Found at i:3744199 original size:54 final size:54
Alignment explanation
Indices: 3744108--3744237 Score: 138
Period size: 54 Copynumber: 2.4 Consensus size: 54
3744098 CTATGTGTAC
* *
3744108 TACAGGTACCATGTGTGCAAAT-CCACGAAATTCATCATTAGTTGATGAA-TAACCA
1 TACAGGCACCATGTGTGC--ATCCCACGAAATTCATCATGAGTTGATGAACT-ACCA
* * * *
3744163 TACAGGCACGATGTGTGCATCCCACGGAATTCATCATGAGTTGGTGAACTACCG
1 TACAGGCACCATGTGTGCATCCCACGAAATTCATCATGAGTTGATGAACTACCA
* * *
3744217 TATAGGCACTACGTGTGCATC
1 TACAGGCACCATGTGTGCATC
3744238 TTAAAAAATG
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
53 2 0.03
54 45 0.70
55 17 0.27
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (54 bp):
TACAGGCACCATGTGTGCATCCCACGAAATTCATCATGAGTTGATGAACTACCA
Found at i:3744645 original size:81 final size:81
Alignment explanation
Indices: 3744530--3745988 Score: 1769
Period size: 81 Copynumber: 18.1 Consensus size: 81
3744520 TTCCAAAGTT
* * * * *
3744530 AAAGATTAA-AGGCCTAGCTGTGTATTCGGAAGAAAGGTATCAATTATGCCAGTTAGATAAAAGG
1 AAAGATTAATA-GCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
*
3744594 TTAAATACCTTCGAGTA
65 TTAAATACCTTTGAGTA
* * * * * * *
3744611 AAAGACTAATGGCCTAGCTGTGCATTTGACAGAAAGGTATAAATTATGCCAGTAAGATGAAAAGT
1 AAAGATTAATAGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGT
3744676 TAAATACCTTTGAGTA
66 TAAATACCTTTGAGTA
*
3744692 AAAGATTAATAGCCT---T-TGCATTTGGGCAGAAAGGTGTCAATTATGCTAGTTAGATGAAAGG
1 AAAGATTAATAGCCTAGCTGTGCATTT-GGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
**
3744753 TTAAATACCTACGAGTA
65 TTAAATACCTTTGAGTA
* * * * * *
3744770 AAAGACTAATGGCCTAGTTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAATGGT
1 AAAGATTAATAGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGT
3744835 TAAATACCTTTGAGTA
66 TAAATACCTTTGAGTA
* * * * *
3744851 ATAGATGAATAGCCTAGCTGAGCATTTGGTAGAAAGATGTCAATTATGCCAGTTAGATGAAAGGT
1 AAAGATTAATAGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGT
* *
3744916 TAAAAACATTTGAGTA
66 TAAATACCTTTGAGTA
* * * * * * * *
3744932 AAAGACTAATGGCCTAGCTGTGCATTTGACAGAAAGATGACAATTATGTCAGTTTGGT-AAAGGT
1 AAAGATTAATAGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGT
* *
3744996 TAAATACGTTTCAGTA
66 TAAATACCTTTGAGTA
* * * * *
3745012 AAAGATTAATAGCCTAGTTGTGCATTTGGTAGAAATGTGTCAATTATTCTAGTTAGATGAAAGGT
1 AAAGATTAATAGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGT
3745077 TAAATACCTTTGAGTA
66 TAAATACCTTTGAGTA
* * * * * * * * *
3745093 AAAGACTAATGGCCTTGCTGTTCATTTGGCAGAAATGTATCAATTATGCTAGTTAAATGGAAGGT
1 AAAGATTAATAGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGT
3745158 TAAATACCTTTGAGTA
66 TAAATACCTTTGAGTA
* * * *
3745174 AAAGATTAATAGCCTAGTTGTGCATTTCGCAGAAAGGTGTCAATTATGCCAGTTACATTAAAGGT
1 AAAGATTAATAGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGT
3745239 TAAATACCTTTGAGTA
66 TAAATACCTTTGAGTA
* * ** *
3745255 AAAGATTAATGGCCTAGCCGTGCATTTGATAGAAAGGTGTCAATTATGCCAATTAGATGAAAGGT
1 AAAGATTAATAGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGT
3745320 TAAATACCTTTGAGTA
66 TAAATACCTTTGAGTA
* * * * * *
3745336 AAATATTAATAGCATAGTTGTGCATTTGGAAAAAATGTGTCAATTATGCCAGTTAGATGAAAGGT
1 AAAGATTAATAGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGT
3745401 TAAATACCTTTGAGTA
66 TAAATACCTTTGAGTA
* * * * * * *** * ** **
3745417 AAAAACTAATGGCCTAGTTGTGCATTTGACAAAAATAAGTTAATTATGCTGGTTAGATGAAATAT
1 AAAGATTAATAGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGT
*
3745482 TAAATACCTTTGAGCA
66 TAAATACCTTTGAGTA
* * * *
3745498 AAAGATTAATAGCGTAGCTGTGCATTTGGCAGAATGGTGTCAATAATGCCAGTTATATGAAAGGT
1 AAAGATTAATAGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGT
*
3745563 TAAATACATTTGAGTA
66 TAAATACCTTTGAGTA
* * * * *
3745579 AAATACTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGGCAATTATGCCAGTTAGATGAAAGGT
1 AAAGATTAATAGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGT
3745644 TAAATACCTTTGAGTA
66 TAAATACCTTTGAGTA
* * * * * * * **
3745660 AAAGATTAATAGCCTGGTTGTGTATTTGGCAGAAATGTGTCAATTATGCAAGATATATGAAATAT
1 AAAGATTAATAGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGT
* *
3745725 TAATTACCTTGGAGTA
66 TAAATACCTTTGAGTA
* * * * *
3745741 AAAGATTAATATCCTAGCCGTGCATTTGGTAGAAAGGTGTCATTTATTCCAGTTAGATGAAAGGT
1 AAAGATTAATAGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGT
*
3745806 TAAATAACTTTGAGTA
66 TAAATACCTTTGAGTA
* * * * * *
3745822 AAAGACTAATAGTCTAGTTGTGCATTTGGTAGAAAGGTGTTAATTATGCCAGTTAGATGAAAGGC
1 AAAGATTAATAGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGT
3745887 TAAATACCTTTGAGTA
66 TAAATACCTTTGAGTA
* * *
3745903 AAAGATTAATAGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATCATGCAAGTTAGATGAAAGAT
1 AAAGATTAATAGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGT
* *
3745968 TAAATCCCTTTGGGTA
66 TAAATACCTTTGAGTA
3745984 AAAGA
1 AAAGA
3745989 CTAAAGGAAT
Statistics
Matches: 1161, Mismatches: 210, Indels: 14
0.84 0.15 0.01
Matches are distributed among these distances:
77 7 0.01
78 60 0.05
80 64 0.06
81 1023 0.88
82 7 0.01
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (81 bp):
AAAGATTAATAGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGT
TAAATACCTTTGAGTA
Found at i:3749542 original size:96 final size:98
Alignment explanation
Indices: 3749378--3749572 Score: 367
Period size: 96 Copynumber: 2.0 Consensus size: 98
3749368 AGCCTGAGGG
3749378 ATTTTAGATGTTTTAAGAAGCTAAATAAAGGAAAGTTAATAGGGATAAGTAGAGAAAAGTTTAAT
1 ATTTTAGATGTTTTAAGAAGCTAAATAAAGGAAAGTTAATAGGGATAAGTAGAGAAAAGTTTAAT
3749443 AGTATTA-TGGGGGTATAC-AAGGAAATTTGAC
66 AGTATTATTGGGGGTATACAAAGGAAATTTGAC
3749474 ATTTTAGATGTTTTAAGAAGCTAAATAAAGGAAAGTTAATAGGGATAAGTAGAGAAAAGTTTAAT
1 ATTTTAGATGTTTTAAGAAGCTAAATAAAGGAAAGTTAATAGGGATAAGTAGAGAAAAGTTTAAT
3749539 AGTATTATTGGGGGTATACATAAGGAAATTTGAC
66 AGTATTATTGGGGGTATACA-AAGGAAATTTGAC
3749573 CAAATTTGGG
Statistics
Matches: 96, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
96 72 0.75
97 11 0.11
99 13 0.14
ACGTcount: A:0.43, C:0.03, G:0.24, T:0.31
Consensus pattern (98 bp):
ATTTTAGATGTTTTAAGAAGCTAAATAAAGGAAAGTTAATAGGGATAAGTAGAGAAAAGTTTAAT
AGTATTATTGGGGGTATACAAAGGAAATTTGAC
Found at i:3750629 original size:81 final size:81
Alignment explanation
Indices: 3750514--3751238 Score: 945
Period size: 81 Copynumber: 9.0 Consensus size: 81
3750504 ATTCCAAAGA
* * * ** *
3750514 AAAAGATTAATGGCCTAGTTGTACATTTGGTAGAAAGGTGTCAATTATTCCAG-TAGAATGAAAG
1 AAAAGACTAATGACCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAG-ATGAAAG
3750578 GTTAAATACCTTTGAGT
65 GTTAAATACCTTTGAGT
** * * * *
3750595 AAAAGACTAATGACCTAACTGTGCATTTGATAGAAATGTGTCAATTATTCTAGTTAGATGAAAGG
1 AAAAGACTAATGACCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
* *
3750660 TTAAATACATTTGAGG
66 TTAAATACCTTTGAGT
* * * *
3750676 AAAAAATTAAT-AGCCTAGCTGTG-----G-CAGAAAGATGTCAATTATGCCAGTTAGATGAAAG
1 AAAAGACTAATGA-CCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
3750734 GTTAAATACCTTTGAGT
65 GTTAAATACCTTTGAGT
* * *
3750751 AAAAGACTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGT
1 AAAAGACTAATGACCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
3750816 TTAAATACCTTTGAGT
66 TTAAATACCTTTGAGT
* * * * *
3750832 AAAAGATTAAT-AGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATTCCAATTAGATAAAAG
1 AAAAGACTAATGA-CCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
3750896 GTTAAATACCTTTGAGT
65 GTTAAATACCTTTGAGT
* * *
3750913 AAAATACTAATGGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCGAGTTAGATGAAAGG
1 AAAAGACTAATGACCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
*
3750978 TTAAATACTTTTGAGT
66 TTAAATACCTTTGAGT
3750994 AAAAGACTAAT-AGCCTAGTTGTGCATTT-AGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAA
1 AAAAGACTAATGA-CCTAGTTGTGCATTTGA-CAGAAAGGTGTCAATTATGCCAGTTAGATGAAA
3751057 GGTTAAATACCTTTGAGT
64 GGTTAAATACCTTTGAGT
* * *
3751075 AAAAGACTAATGGCCTAGTTGTGCATTTGACAAAAATGTGTCAATTATGCCAGTTAGATGAAAGG
1 AAAAGACTAATGACCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
3751140 TTAAATACCTTTGAGT
66 TTAAATACCTTTGAGT
* * * *
3751156 AAAAGATTAAT-AGCCTAGTTGTGCA-TTCAGCAGAAAGGTGTCAATTACGCTAGTTAGATGAAA
1 AAAAGACTAATGA-CCTAGTTGTGCATTTGA-CAGAAAGGTGTCAATTATGCCAGTTAGATGAAA
**
3751219 GGTTAAATATATTTGAGT
64 GGTTAAATACCTTTGAGT
3751237 AA
1 AA
3751239 TAGTTGTGCA
Statistics
Matches: 569, Mismatches: 58, Indels: 34
0.86 0.09 0.05
Matches are distributed among these distances:
75 63 0.11
76 1 0.00
80 6 0.01
81 495 0.87
82 4 0.01
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.31
Consensus pattern (81 bp):
AAAAGACTAATGACCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
TTAAATACCTTTGAGT
Found at i:3750938 original size:162 final size:162
Alignment explanation
Indices: 3750514--3751557 Score: 1340
Period size: 162 Copynumber: 6.6 Consensus size: 162
3750504 ATTCCAAAGA
* * *
3750514 AAAAGATTAATGGCCTAGTTGTACATTTGGTAGAAAGGTGTCAATTATTCCAG-TAGAATGAAAG
1 AAAAGATTAATAGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATTCCAGTTAG-ATGAAAG
* * * *
3750578 GTTAAATACCTTTGAGTAAAAGACTAATGACCTAACTGTGCATTTGATAGAAATGTGTCAATTAT
65 GTTAAATACCTTTGAGTAAAAGACTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTAT
* * * *
3750643 TCTAGTTAGATGAAAGGTTAAATACATTTGAGG
130 GCCAGTTAGATGAAAGGTTAAATACCTTTGAGT
* * * *
3750676 AAAAAATTAATAGCCTA-----GC-TGTGGCAGAAAGATGTCAATTATGCCAGTTAGATGAAAGG
1 AAAAGATTAATAGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATTCCAGTTAGATGAAAGG
3750735 TTAAATACCTTTGAGTAAAAGACTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATG
66 TTAAATACCTTTGAGTAAAAGACTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATG
*
3750800 CCAGTTAGATGAAAGTTTAAATACCTTTGAGT
131 CCAGTTAGATGAAAGGTTAAATACCTTTGAGT
* *
3750832 AAAAGATTAATAGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATTCCAATTAGATAAAAGG
1 AAAAGATTAATAGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATTCCAGTTAGATGAAAGG
* *
3750897 TTAAATACCTTTGAGTAAAATACTAATGGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATG
66 TTAAATACCTTTGAGTAAAAGACTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATG
* *
3750962 CGAGTTAGATGAAAGGTTAAATACTTTTGAGT
131 CCAGTTAGATGAAAGGTTAAATACCTTTGAGT
* * *
3750994 AAAAGACTAATAGCCTAGTTGTGCATTTAGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
1 AAAAGATTAATAGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATTCCAGTTAGATGAAAGG
* * *
3751059 TTAAATACCTTTGAGTAAAAGACTAATGGCCTAGTTGTGCATTTGACAAAAATGTGTCAATTATG
66 TTAAATACCTTTGAGTAAAAGACTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATG
3751124 CCAGTTAGATGAAAGGTTAAATACCTTTGAGT
131 CCAGTTAGATGAAAGGTTAAATACCTTTGAGT
** ** *
3751156 AAAAGATTAATAGCCTAGTTGTGCATTCAGCAGAAAGGTGTCAATTACGCTAGTTAGATGAAAGG
1 AAAAGATTAATAGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATTCCAGTTAGATGAAAGG
** * *
3751221 TTAAATATATTTGAGT---A-A-T-A--G--T---TGTGCA-TTCAGCAGAAAGGTGTCAATTAC
66 TTAAATACCTTTGAGTAAAAGACTAATGGCCTAGCTGTGCATTTGA-CAGAAAGGTGTCAATTAT
* **
3751272 GCTAGTTAGATGAAAGGTTAAATATATTTGAGT
130 GCCAGTTAGATGAAAGGTTAAATACCTTTGAGT
* * * * * * * *
3751305 AAATGTTTAATATCCTAGCTGTGCATTTGGCAGAAATGTATAAATTATTCCAGTTAGATAAAAGG
1 AAAAGATTAATAGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATTCCAGTTAGATGAAAGG
* ** * *
3751370 TTAAATACCTTTGAGTAAAAGACTAATAGCCTAGCTAAGCATTTGACAGAAATGTGCCAATTATG
66 TTAAATACCTTTGAGTAAAAGACTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATG
* * *
3751435 CAAGTTAGACGAAAGGTTAAATGCCTTTGAGT
131 CCAGTTAGATGAAAGGTTAAATACCTTTGAGT
* * * * *
3751467 AAAAGATTAATAGCCTAGCTGTGCATTTGGCAGAATGGTGTCAATAATGCAAGTTAGATGAAAGG
1 AAAAGATTAATAGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATTCCAGTTAGATGAAAGG
**
3751532 TTAAATGGCTTT-AGGTAAAAGACTAA
66 TTAAATACCTTTGA-GTAAAAGACTAA
3751558 AGGAATTATA
Statistics
Matches: 770, Mismatches: 89, Indels: 46
0.85 0.10 0.05
Matches are distributed among these distances:
148 3 0.00
149 117 0.15
152 2 0.00
153 1 0.00
154 2 0.00
155 1 0.00
156 137 0.18
157 6 0.01
158 1 0.00
159 2 0.00
161 3 0.00
162 492 0.64
163 3 0.00
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.31
Consensus pattern (162 bp):
AAAAGATTAATAGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATTCCAGTTAGATGAAAGG
TTAAATACCTTTGAGTAAAAGACTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATG
CCAGTTAGATGAAAGGTTAAATACCTTTGAGT
Found at i:3751035 original size:243 final size:242
Alignment explanation
Indices: 3750514--3751557 Score: 1268
Period size: 243 Copynumber: 4.4 Consensus size: 242
3750504 ATTCCAAAGA
* * * * * *
3750514 AAAAGATTAATGGCCTAGTTGTACATTTGGTAGAAAGGTGTCAATTATTCCAG-TAGAATGAAAG
1 AAAAGACTAATAGCCTAGTTGTGCATTTAGCAGAAAGGTGTCAATTATGCCAGTTAG-ATGAAAG
* *
3750578 GTTAAATACCTTTGAGTAAAAGACTAAT-GACCTAACTGTGCATTTGATAGAAATGTGTCAATTA
65 GTTAAATACCTTTGAGTAAAAGACTAATAG-CCTAGCTGTGCATTTGACAGAAATGTGTCAATTA
* * * * * *
3750642 TTCTAGTTAGATGAAAGGTTAAATACATTTGAGGAAAAAATTAATAGCCTAGCTGTG----G-CA
129 TTCCAGTTAGATAAAAGGTTAAATACCTTTGAGTAAAAGACTAATAGCCTAGCTGTGCATTGACA
* *
3750702 GAAAGATGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGT
194 GAAAGGTGTCAATTATGCAAGTTAGATGAAAGGTTAAATACCTTTGAGT
* *
3750751 AAAAGACTAATGGCCTAGCTGTGCATTT-GACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
1 AAAAGACTAATAGCCTAGTTGTGCATTTAG-CAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
* * * * *
3750815 TTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTAT
65 GTTAAATACCTTTGAGTAAAAGACTAATAGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTAT
* * * *
3750880 TCCAATTAGATAAAAGGTTAAATACCTTTGAGTAAAATACTAATGGCCTAGTTGTGCATTTGACA
130 TCCAGTTAGATAAAAGGTTAAATACCTTTGAGTAAAAGACTAATAGCCTAGCTGTGCA-TTGACA
* *
3750945 GAAAGGTGTCAATTATGCGAGTTAGATGAAAGGTTAAATACTTTTGAGT
194 GAAAGGTGTCAATTATGCAAGTTAGATGAAAGGTTAAATACCTTTGAGT
3750994 AAAAGACTAATAGCCTAGTTGTGCATTTAGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
1 AAAAGACTAATAGCCTAGTTGTGCATTTAGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
* * * *
3751059 TTAAATACCTTTGAGTAAAAGACTAATGGCCTAGTTGTGCATTTGACAAAAATGTGTCAATTATG
66 TTAAATACCTTTGAGTAAAAGACTAATAGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATT
* * * *
3751124 CCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGTTGTGCATTCAGCAG
131 CCAGTTAGATAAAAGGTTAAATACCTTTGAGTAAAAGACTAATAGCCTAGCTGTGCATTGA-CAG
* * **
3751189 AAAGGTGTCAATTACGCTAGTTAGATGAAAGGTTAAATATATTT--G-
195 AAAGGTGTCAATTATGCAAGTTAGATGAAAGGTTAAATACCTTTGAGT
* * *
3751234 ---AG--T-A-A---TAGTTGTGCATTCAGCAGAAAGGTGTCAATTACGCTAGTTAGATGAAAGG
1 AAAAGACTAATAGCCTAGTTGTGCATTTAGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
** * ** * * * *
3751289 TTAAATATATTTGAGTAAATGTTTAATATCCTAGCTGTGCATTTGGCAGAAATGTATAAATTATT
66 TTAAATACCTTTGAGTAAAAGACTAATAGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATT
**
3751354 CCAGTTAGATAAAAGGTTAAATACCTTTGAGTAAAAGACTAATAGCCTAGCTAAGCATTTGACAG
131 CCAGTTAGATAAAAGGTTAAATACCTTTGAGTAAAAGACTAATAGCCTAGCTGTGCA-TTGACAG
* * * *
3751419 AAATGTGCCAATTATGCAAGTTAGACGAAAGGTTAAATGCCTTTGAGT
195 AAAGGTGTCAATTATGCAAGTTAGATGAAAGGTTAAATACCTTTGAGT
* * * * * *
3751467 AAAAGATTAATAGCCTAGCTGTGCATTTGGCAGAATGGTGTCAATAATGCAAGTTAGATGAAAGG
1 AAAAGACTAATAGCCTAGTTGTGCATTTAGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
**
3751532 TTAAATGGCTTT-AGGTAAAAGACTAA
66 TTAAATACCTTTGA-GTAAAAGACTAA
3751558 AGGAATTATA
Statistics
Matches: 695, Mismatches: 86, Indels: 46
0.84 0.10 0.06
Matches are distributed among these distances:
230 190 0.27
231 3 0.00
232 1 0.00
233 1 0.00
234 1 0.00
235 1 0.00
236 3 0.00
237 158 0.23
238 5 0.01
239 1 0.00
240 1 0.00
241 1 0.00
242 5 0.01
243 323 0.46
244 1 0.00
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.31
Consensus pattern (242 bp):
AAAAGACTAATAGCCTAGTTGTGCATTTAGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
TTAAATACCTTTGAGTAAAAGACTAATAGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATT
CCAGTTAGATAAAAGGTTAAATACCTTTGAGTAAAAGACTAATAGCCTAGCTGTGCATTGACAGA
AAGGTGTCAATTATGCAAGTTAGATGAAAGGTTAAATACCTTTGAGT
Found at i:3751280 original size:68 final size:68
Alignment explanation
Indices: 3751171--3751306 Score: 272
Period size: 68 Copynumber: 2.0 Consensus size: 68
3751161 ATTAATAGCC
3751171 TAGTTGTGCATTCAGCAGAAAGGTGTCAATTACGCTAGTTAGATGAAAGGTTAAATATATTTGAG
1 TAGTTGTGCATTCAGCAGAAAGGTGTCAATTACGCTAGTTAGATGAAAGGTTAAATATATTTGAG
3751236 TAA
66 TAA
3751239 TAGTTGTGCATTCAGCAGAAAGGTGTCAATTACGCTAGTTAGATGAAAGGTTAAATATATTTGAG
1 TAGTTGTGCATTCAGCAGAAAGGTGTCAATTACGCTAGTTAGATGAAAGGTTAAATATATTTGAG
3751304 TAA
66 TAA
3751307 ATGTTTAATA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.35, C:0.09, G:0.24, T:0.32
Consensus pattern (68 bp):
TAGTTGTGCATTCAGCAGAAAGGTGTCAATTACGCTAGTTAGATGAAAGGTTAAATATATTTGAG
TAA
Found at i:3751360 original size:149 final size:149
Alignment explanation
Indices: 3751090--3751537 Score: 394
Period size: 149 Copynumber: 2.9 Consensus size: 149
3751080 ACTAATGGCC
* * * *
3751090 TAGTTGTGCATTTGACAAAAATGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAG
1 TAGTTGTGCATTAGACAAAAAGGTGTCAATTACGCCAGTTAGATGAAAGGTTAAATACATTTGAG
* * * * *
3751155 TAAAAGATTAATAGCCTAGTTGTGCATTCAGCAGAAAGGTGTCAATTACGCTAGTTAGATGAAAG
66 TAAAAGATTAATAGCCTAGCTGTGCATTCAGCAGAAAGGTATAAATTACGCCAGTTAGATAAAAG
*
3751220 GTTAAATATATTTGAGTAA
131 GTTAAATACATTTGAGTAA
* * *
3751239 TAGTTGTGCATTCAG-CAGAAAGGTGTCAATTACGCTAGTTAGATGAAAGGTTAAATATATTTGA
1 TAGTTGTGCATT-AGACAAAAAGGTGTCAATTACGCCAGTTAGATGAAAGGTTAAATACATTTGA
* * * ** * **
3751303 GTAAATGTTTAATATCCTAGCTGTGCATTTGGCAGAAATGTATAAATTATTCCAGTTAGATAAAA
65 GTAAAAGATTAATAGCCTAGCTGTGCATTCAGCAGAAAGGTATAAATTACGCCAGTTAGATAAAA
*
3751368 GGTTAAATACCTTTGAGTAAAAGACTAA
130 GGTTAAATACATTT--G----AG--TAA
* * * * * * * * * *
3751396 TAGCCTAGCTAAGCATTTGACAGAAATGTGCCAATTATGCAAGTTAGACGAAAGGTTAAATGCCT
1 TAG--TTG-T--GCATTAGACAAAAAGGTGTCAATTACGCCAGTTAGATGAAAGGTTAAATACAT
** * * * * * *
3751461 TTGAGTAAAAGATTAATAGCCTAGCTGTGCATTTGGCAGAATGGTGTCAATAATGCAAGTTAGAT
61 TTGAGTAAAAGATTAATAGCCTAGCTGTGCATTCAGCAGAAAGGTATAAATTACGCCAGTTAGAT
*
3751526 GAAAGGTTAAAT
126 AAAAGGTTAAAT
3751538 GGCTTTAGGT
Statistics
Matches: 241, Mismatches: 43, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
149 119 0.49
150 1 0.00
151 1 0.00
155 2 0.01
157 6 0.02
159 2 0.01
160 1 0.00
161 1 0.00
162 108 0.45
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.31
Consensus pattern (149 bp):
TAGTTGTGCATTAGACAAAAAGGTGTCAATTACGCCAGTTAGATGAAAGGTTAAATACATTTGAG
TAAAAGATTAATAGCCTAGCTGTGCATTCAGCAGAAAGGTATAAATTACGCCAGTTAGATAAAAG
GTTAAATACATTTGAGTAA
Found at i:3751443 original size:230 final size:230
Alignment explanation
Indices: 3751009--3751456 Score: 637
Period size: 230 Copynumber: 1.9 Consensus size: 230
3750999 ACTAATAGCC
* * *
3751009 TAGTTGTGCATTTAGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAG
1 TAGTTGTGCATTCAGCAGAAAGGTGTCAATTACGCCAGTTAGATGAAAGGTTAAATACATTTGAG
* * * * *
3751074 TAAAAGACTAATGGCCTAGTTGTGCATTTGACAAAAATGTGTCAATTATGCCAGTTAGATGAAAG
66 TAAAAGACTAATAGCCTAGCTGTGCATTTGACAAAAATGTATAAATTATGCCAGTTAGATAAAAG
* * ** *
3751139 GTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGTTGTGCATTCAGCAGAAAGGTGTCAATTAC
131 GTTAAATACCTTTGAGTAAAAGACTAATAGCCTAGCTAAGCATTCAGCAGAAAGGTGCCAATTAC
* *
3751204 GCTAGTTAGATGAAAGGTTAAATATATTTGAGTAA
196 GCAAGTTAGACGAAAGGTTAAATATATTTGAGTAA
* *
3751239 TAGTTGTGCATTCAGCAGAAAGGTGTCAATTACGCTAGTTAGATGAAAGGTTAAATATATTTGAG
1 TAGTTGTGCATTCAGCAGAAAGGTGTCAATTACGCCAGTTAGATGAAAGGTTAAATACATTTGAG
* ** * * * *
3751304 TAAATGTTTAATATCCTAGCTGTGCATTTGGCAGAAATGTATAAATTATTCCAGTTAGATAAAAG
66 TAAAAGACTAATAGCCTAGCTGTGCATTTGACAAAAATGTATAAATTATGCCAGTTAGATAAAAG
* *
3751369 GTTAAATACCTTTGAGTAAAAGACTAATAGCCTAGCTAAGCATT-TGACAGAAATGTGCCAATTA
131 GTTAAATACCTTTGAGTAAAAGACTAATAGCCTAGCTAAGCATTCAG-CAGAAAGGTGCCAATTA
*
3751433 TGCAAGTTAGACGAAAGGTTAAAT
195 CGCAAGTTAGACGAAAGGTTAAAT
3751457 GCCTTTGAGT
Statistics
Matches: 190, Mismatches: 27, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
229 1 0.01
230 189 0.99
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.31
Consensus pattern (230 bp):
TAGTTGTGCATTCAGCAGAAAGGTGTCAATTACGCCAGTTAGATGAAAGGTTAAATACATTTGAG
TAAAAGACTAATAGCCTAGCTGTGCATTTGACAAAAATGTATAAATTATGCCAGTTAGATAAAAG
GTTAAATACCTTTGAGTAAAAGACTAATAGCCTAGCTAAGCATTCAGCAGAAAGGTGCCAATTAC
GCAAGTTAGACGAAAGGTTAAATATATTTGAGTAA
Found at i:3751553 original size:81 final size:81
Alignment explanation
Indices: 3751243--3751537 Score: 367
Period size: 81 Copynumber: 3.6 Consensus size: 81
3751233 GAGTAATAGT
** * * * **
3751243 TGTGCATTCAGCAGAAAGGTGTCAATTACGCTAGTTAGATGAAAGGTTAAATATATTTGAGTAAA
1 TGTGCATTTGGCAGAAATGTGTCAATTATGCAAGTTAGATGAAAGGTTAAATACCTTTGAGTAAA
* * *
3751308 TGTTTAATATCCTAGC
66 AGATTAATAGCCTAGC
* * * * *
3751324 TGTGCATTTGGCAGAAATGTATAAATTATTCCAGTTAGATAAAAGGTTAAATACCTTTGAGTAAA
1 TGTGCATTTGGCAGAAATGTGTCAATTATGCAAGTTAGATGAAAGGTTAAATACCTTTGAGTAAA
*
3751389 AGACTAATAGCCTAGC
66 AGATTAATAGCCTAGC
** * * * *
3751405 TAAGCATTTGACAGAAATGTGCCAATTATGCAAGTTAGACGAAAGGTTAAATGCCTTTGAGTAAA
1 TGTGCATTTGGCAGAAATGTGTCAATTATGCAAGTTAGATGAAAGGTTAAATACCTTTGAGTAAA
3751470 AGATTAATAGCCTAGC
66 AGATTAATAGCCTAGC
*
3751486 TGTGCATTTGGCAG-AATGGTGTCAATAATGCAAGTTAGATGAAAGGTTAAAT
1 TGTGCATTTGGCAGAAAT-GTGTCAATTATGCAAGTTAGATGAAAGGTTAAAT
3751538 GGCTTTAGGT
Statistics
Matches: 180, Mismatches: 33, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
80 3 0.02
81 177 0.98
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.31
Consensus pattern (81 bp):
TGTGCATTTGGCAGAAATGTGTCAATTATGCAAGTTAGATGAAAGGTTAAATACCTTTGAGTAAA
AGATTAATAGCCTAGC
Found at i:3754751 original size:13 final size:13
Alignment explanation
Indices: 3754735--3754759 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3754725 CAAAATTAAA
3754735 AAATAAATAAATG
1 AAATAAATAAATG
3754748 AAATAAATAAAT
1 AAATAAATAAAT
3754760 AAAAAGAAAC
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:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (13 bp):
AAATAAATAAATG
Found at i:3754822 original size:13 final size:12
Alignment explanation
Indices: 3754804--3754863 Score: 59
Period size: 13 Copynumber: 4.9 Consensus size: 12
3754794 AGAAGAATAA
3754804 AAAATACAAAAAT
1 AAAATA-AAAAAT
3754817 AAAATAAAAAAT
1 AAAATAAAAAAT
*
3754829 ACAAAAAAAAAAT
1 A-AAATAAAAAAT
* *
3754842 TAAATTAAAAA-
1 AAAATAAAAAAT
*
3754853 AAATTAAAAAA
1 AAAATAAAAAA
3754864 AATTAAAAGA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
11 8 0.21
12 15 0.38
13 16 0.41
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (12 bp):
AAAATAAAAAAT
Found at i:3754824 original size:20 final size:20
Alignment explanation
Indices: 3754799--3754841 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
3754789 ATTAAAGAAG
*
3754799 AATAAAAAATACAAAAATAA
1 AATAAAAAATACAAAAAAAA
3754819 AATAAAAAATACAAAAAAAA
1 AATAAAAAATACAAAAAAAA
3754839 AAT
1 AAT
3754842 TAAATTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.81, C:0.05, G:0.00, T:0.14
Consensus pattern (20 bp):
AATAAAAAATACAAAAAAAA
Found at i:3754839 original size:25 final size:25
Alignment explanation
Indices: 3754811--3754889 Score: 68
Period size: 25 Copynumber: 3.1 Consensus size: 25
3754801 TAAAAAATAC
*
3754811 AAAAATAAAATAAAAAATACAAAAA
1 AAAAATAAAATAAAAAAAACAAAAA
* **
3754836 AAAAATTAAATTAAAAAAAATTAAAA
1 AAAAA-TAAAATAAAAAAAACAAAAA
* * * * *
3754862 AAAATTAAAAGAAGAAAAAGAAATA
1 AAAAATAAAATAAAAAAAACAAAAA
3754887 AAA
1 AAA
3754890 TTAAAAAACA
Statistics
Matches: 42, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
25 22 0.52
26 20 0.48
ACGTcount: A:0.80, C:0.01, G:0.04, T:0.15
Consensus pattern (25 bp):
AAAAATAAAATAAAAAAAACAAAAA
Found at i:3754856 original size:10 final size:10
Alignment explanation
Indices: 3754843--3754906 Score: 65
Period size: 10 Copynumber: 5.9 Consensus size: 10
3754833 AAAAAAAATT
3754843 AAATTAAAAA
1 AAATTAAAAA
3754853 AAATTAAAAA
1 AAATTAAAAA
3754863 AAATTAAAAGA
1 AAATTAAAA-A
**
3754874 AGAAAAAGAAATA
1 A-AATTA-AAA-A
3754887 AAATTAAAAA
1 AAATTAAAAA
3754897 ACAATTAAAA
1 A-AATTAAAA
3754907 GGAAATAAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
10 21 0.47
11 13 0.29
12 6 0.13
13 5 0.11
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.17
Consensus pattern (10 bp):
AAATTAAAAA
Found at i:3754918 original size:4 final size:4
Alignment explanation
Indices: 3754909--3754935 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
3754899 AATTAAAAGG
3754909 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
3754936 ATGAATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:3754986 original size:34 final size:35
Alignment explanation
Indices: 3754929--3755024 Score: 108
Period size: 34 Copynumber: 2.7 Consensus size: 35
3754919 ATAAATAAAT
* * *
3754929 AAATAAAATGAATTAAAAAAATTAAATGAAGGAAAAG
1 AAATAAAATTAA-AAAAAAAATTAAATG-AGAAAAAG
3754966 AGAA-AAAA-T-AAAAAAAAATTAAATGAGAAAAAG
1 A-AATAAAATTAAAAAAAAAATTAAATGAGAAAAAG
3754999 AAATAAAATTAAAAAATAAAATTAAA
1 AAATAAAATTAAAAAA-AAAATTAAA
3755025 AAACAATTAA
Statistics
Matches: 51, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
32 2 0.04
33 12 0.24
34 15 0.29
35 6 0.12
36 9 0.18
37 5 0.10
38 2 0.04
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (35 bp):
AAATAAAATTAAAAAAAAAATTAAATGAGAAAAAG
Found at i:3754996 original size:18 final size:17
Alignment explanation
Indices: 3754858--3755024 Score: 64
Period size: 18 Copynumber: 9.8 Consensus size: 17
3754848 AAAAAAAATT
*
3754858 AAAAAAAATTAAAAGAA
1 AAAAAAAATTAAATGAA
* *
3754875 GAAAAAGAAATAAAAT-TA
1 -AAAAA-AAATTAAATGAA
* *
3754893 AAAAACAATTAAA--AG
1 AAAAAAAATTAAATGAA
* *
3754908 GAAATAAA-TAAAT-AA
1 AAAAAAAATTAAATGAA
* *
3754923 ATAAATAAATAAAATGAA
1 A-AAAAAAATTAAATGAA
*
3754941 TTAAAAAAATTAAATGAA
1 -AAAAAAAATTAAATGAA
3754959 GGAAAAGAGAAA--AAAT--A
1 --AAAA-A-AAATTAAATGAA
3754976 AAAAAAAATTAAATGAGA
1 AAAAAAAATTAAATGA-A
* * *
3754994 AAAAGAAATAAAATTAA
1 AAAAAAAATTAAATGAA
3755011 AAAATAAAATTAAA
1 AAAA-AAAATTAAA
3755025 AAACAATTAA
Statistics
Matches: 111, Mismatches: 23, Indels: 30
0.68 0.14 0.18
Matches are distributed among these distances:
13 3 0.03
14 5 0.05
15 14 0.13
16 13 0.12
17 15 0.14
18 43 0.39
19 14 0.13
20 1 0.01
21 3 0.03
ACGTcount: A:0.74, C:0.01, G:0.08, T:0.17
Consensus pattern (17 bp):
AAAAAAAATTAAATGAA
Found at i:3754996 original size:24 final size:24
Alignment explanation
Indices: 3754969--3755036 Score: 66
Period size: 23 Copynumber: 2.9 Consensus size: 24
3754959 GGAAAAGAGA
**
3754969 AAAAATAAAAAAAAATTAAATGAG
1 AAAAATAAAAAAAAATTAAAAAAG
* * *
3754993 AAAAA-GAAATAAAATTAAAAAAT
1 AAAAATAAAAAAAAATTAAAAAAG
* *
3755016 AAAATTAAAAAACAATTAAAA
1 AAAAATAAAAAAAAATTAAAA
3755037 CGTAAATTAA
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
23 17 0.50
24 17 0.50
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.18
Consensus pattern (24 bp):
AAAAATAAAAAAAAATTAAAAAAG
Found at i:3755015 original size:13 final size:13
Alignment explanation
Indices: 3754999--3755027 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
3754989 TGAGAAAAAG
3754999 AAATAAAATTAAA
1 AAATAAAATTAAA
3755012 AAATAAAATTAAA
1 AAATAAAATTAAA
3755025 AAA
1 AAA
3755028 CAATTAAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
AAATAAAATTAAA
Found at i:3759382 original size:47 final size:47
Alignment explanation
Indices: 3759328--3759422 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
3759318 GAATATACCC
3759328 TCGAGCTGAATGGAATAGAACTCGAAAGTTCTTGTTGATAGATAATT
1 TCGAGCTGAATGGAATAGAACTCGAAAGTTCTTGTTGATAGATAATT
3759375 TCGAGCTGAATGGAATAGAACTCGAAAGTTCTTGTTGATAGATAATT
1 TCGAGCTGAATGGAATAGAACTCGAAAGTTCTTGTTGATAGATAATT
3759422 T
1 T
3759423 AATGCACCAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.33
Consensus pattern (47 bp):
TCGAGCTGAATGGAATAGAACTCGAAAGTTCTTGTTGATAGATAATT
Found at i:3760180 original size:20 final size:20
Alignment explanation
Indices: 3760133--3760184 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
3760123 TGATTCAATC
* *
3760133 AGTATTGATACCGAATGGGG
1 AGTATCGATACCGAATGGGA
3760153 AGTATCGATACCGAA-GGGA
1 AGTATCGATACCGAATGGGA
*
3760172 AGGTTTCGATACC
1 A-GTATCGATACC
3760185 ATTTCAAAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 4 0.14
20 24 0.86
ACGTcount: A:0.31, C:0.15, G:0.31, T:0.23
Consensus pattern (20 bp):
AGTATCGATACCGAATGGGA
Found at i:3761154 original size:55 final size:55
Alignment explanation
Indices: 3760603--3761143 Score: 717
Period size: 55 Copynumber: 9.8 Consensus size: 55
3760593 CTAAGTGTAC
* * * * * *
3760603 TACAGGCACTATGTGTGTAAATCTACAGAATTCATCATGAGTTGATGAATAGCCG
1 TACAAGCACTATGTGTGCAATTCCACGGAATTCATCATGAGTTGATGAATAGTCG
* * ** * **
3760658 TATAAGCACTATGTGTGCAAATCCACATAATTCATCATGAGTTAATGAATAAACG
1 TACAAGCACTATGTGTGCAATTCCACGGAATTCATCATGAGTTGATGAATAGTCG
* * *
3760713 TACAGGAACTATGTGTGCAATTCCACGGAATTCATCATCAGTTGATGAATAGTCG
1 TACAAGCACTATGTGTGCAATTCCACGGAATTCATCATGAGTTGATGAATAGTCG
*
3760768 TACATGCACTATGTGTGCAATTCCACGGAATTCATCATGAGTTGATGAATAGTCG
1 TACAAGCACTATGTGTGCAATTCCACGGAATTCATCATGAGTTGATGAATAGTCG
3760823 TACAAGCACTATGTGTGCAATTCCACGGAATTCATCATGAGTTGATGAATAGTCG
1 TACAAGCACTATGTGTGCAATTCCACGGAATTCATCATGAGTTGATGAATAGTCG
* * * *
3760878 TACAAGGACTATGTGTACAATTCCAAGGAATTCATCATGAGTTGATGAATAGTAG
1 TACAAGCACTATGTGTGCAATTCCACGGAATTCATCATGAGTTGATGAATAGTCG
* ** *
3760933 TACAAGCACTATATGTGCAATTCCATAGAATTCATCATGAGTTGATGAATAGTTG
1 TACAAGCACTATGTGTGCAATTCCACGGAATTCATCATGAGTTGATGAATAGTCG
* * *
3760988 TACAGGCACTATGTGTGCAATTCCACGTAATTCATCATGAGTTGATGAATAATCG
1 TACAAGCACTATGTGTGCAATTCCACGGAATTCATCATGAGTTGATGAATAGTCG
* ** * **
3761043 TACATGCACTATGTGTGCAATTCCACATAATTAATCATGAGTTGA-GAAATAACCG
1 TACAAGCACTATGTGTGCAATTCCACGGAATTCATCATGAGTTGATG-AATAGTCG
* **
3761098 TACAAGCACTATATGTGCAAAACCACGGAATTCATTC-TGAGTTGAT
1 TACAAGCACTATGTGTGCAATTCCACGGAATTCA-TCATGAGTTGAT
3761144 AAATTACCGT
Statistics
Matches: 433, Mismatches: 50, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
54 1 0.00
55 430 0.99
56 2 0.00
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.30
Consensus pattern (55 bp):
TACAAGCACTATGTGTGCAATTCCACGGAATTCATCATGAGTTGATGAATAGTCG
Found at i:3767123 original size:20 final size:20
Alignment explanation
Indices: 3767098--3767143 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
3767088 AATCAATATT
* *
3767098 GATACCGAATGGAGAGTATC
1 GATACCGAAGGGAAAGTATC
*
3767118 GATACCGAAGGGAAAGTTTC
1 GATACCGAAGGGAAAGTATC
3767138 GATACC
1 GATACC
3767144 ATTTCAAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.35, C:0.17, G:0.28, T:0.20
Consensus pattern (20 bp):
GATACCGAAGGGAAAGTATC
Found at i:3768002 original size:55 final size:55
Alignment explanation
Indices: 3767561--3767995 Score: 505
Period size: 55 Copynumber: 7.9 Consensus size: 55
3767551 TTAAGTGTAC
* * * * *
3767561 TACAGGCACTATGTGTGCAAATCCAC-ACAATTCATCATTAGTTGATCAATAGTCG
1 TACATGCACTATGTGTGCAATTCCACGA-AATTCATCATGAGTTGATGAATAGCCG
* ** * * *
3767616 TACAAGCACTATGTAAGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCA
1 TACATGCACTATGTGTGCAATTCCACGAAATTCATCATGAGTTGATGAATAGCCG
* * *
3767671 TACATGCATTATGTGTGCAATTCCATGAAATTCATCATGAGTTAATGAATAGCCG
1 TACATGCACTATGTGTGCAATTCCACGAAATTCATCATGAGTTGATGAATAGCCG
* * * *
3767726 TACAGGCACTATGTTTGTAATTCCACGGAATTCATCATGAGTTGATGAATAGCCG
1 TACATGCACTATGTGTGCAATTCCACGAAATTCATCATGAGTTGATGAATAGCCG
* * * * * **
3767781 TACAGGCACTATATGTGCAATTACATGGAATTCATCATGAGTTGATGAATAGTTG
1 TACATGCACTATGTGTGCAATTCCACGAAATTCATCATGAGTTGATGAATAGCCG
* * * *
3767836 TACATGCACTATGTGTGTAATTCCACTG-AATTCATCATAAGTTGATGAATAACCA
1 TACATGCACTATGTGTGCAATTCCAC-GAAATTCATCATGAGTTGATGAATAGCCG
* * *
3767891 TACATGCACTATTTGTGCAATTCCACGAAATTCATCATGAGTTAATGAATAGTCG
1 TACATGCACTATGTGTGCAATTCCACGAAATTCATCATGAGTTGATGAATAGCCG
* * ** *
3767946 TACATGCATTATGTGTGTAAAACCACGAAATTCATCCTGAGTTGATGAAT
1 TACATGCACTATGTGTGCAATTCCACGAAATTCATCATGAGTTGATGAAT
3767996 TTTCGTATGG
Statistics
Matches: 322, Mismatches: 55, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
54 1 0.00
55 319 0.99
56 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.31
Consensus pattern (55 bp):
TACATGCACTATGTGTGCAATTCCACGAAATTCATCATGAGTTGATGAATAGCCG
Found at i:3768019 original size:110 final size:110
Alignment explanation
Indices: 3767561--3767995 Score: 559
Period size: 110 Copynumber: 4.0 Consensus size: 110
3767551 TTAAGTGTAC
* * * * *
3767561 TACAGGCACTATGTGTGCAAATCCAC-ACAATTCATCATTAGTTGATCAATAGTCGTACAAGCAC
1 TACAGGCACTATGTGTGCAATTCCACGA-AATTCATCATGAGTTAATGAATAGTCGTACATGCAC
** *
3767625 TATGTAAGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCA
65 TATGTGTGTAAATCCACGAAATTCATCATGAGTTGATGAATAACCA
* * * * *
3767671 TACATGCATTATGTGTGCAATTCCATGAAATTCATCATGAGTTAATGAATAGCCGTACAGGCACT
1 TACAGGCACTATGTGTGCAATTCCACGAAATTCATCATGAGTTAATGAATAGTCGTACATGCACT
* * * * *
3767736 ATGTTTGTAATTCCACGGAATTCATCATGAGTTGATGAATAGCCG
66 ATGTGTGTAAATCCACGAAATTCATCATGAGTTGATGAATAACCA
* * * * * *
3767781 TACAGGCACTATATGTGCAATTACATGGAATTCATCATGAGTTGATGAATAGTTGTACATGCACT
1 TACAGGCACTATGTGTGCAATTCCACGAAATTCATCATGAGTTAATGAATAGTCGTACATGCACT
* *
3767846 ATGTGTGTAATTCCACTG-AATTCATCATAAGTTGATGAATAACCA
66 ATGTGTGTAAATCCAC-GAAATTCATCATGAGTTGATGAATAACCA
* * *
3767891 TACATGCACTATTTGTGCAATTCCACGAAATTCATCATGAGTTAATGAATAGTCGTACATGCATT
1 TACAGGCACTATGTGTGCAATTCCACGAAATTCATCATGAGTTAATGAATAGTCGTACATGCACT
* *
3767956 ATGTGTGTAAAACCACGAAATTCATCCTGAGTTGATGAAT
66 ATGTGTGTAAATCCACGAAATTCATCATGAGTTGATGAAT
3767996 TTTCGTATGG
Statistics
Matches: 281, Mismatches: 41, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
109 1 0.00
110 278 0.99
111 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.31
Consensus pattern (110 bp):
TACAGGCACTATGTGTGCAATTCCACGAAATTCATCATGAGTTAATGAATAGTCGTACATGCACT
ATGTGTGTAAATCCACGAAATTCATCATGAGTTGATGAATAACCA
Found at i:3769606 original size:5 final size:5
Alignment explanation
Indices: 3769596--3769634 Score: 53
Period size: 5 Copynumber: 7.8 Consensus size: 5
3769586 ACCCACTTTA
*
3769596 TTTTC TTTTC TTTTC TTTTTC TTTTC CTTT- TTTTC TTTT
1 TTTTC TTTTC TTTTC -TTTTC TTTTC TTTTC TTTTC TTTT
3769635 TTTATTTTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
4 3 0.10
5 22 0.73
6 5 0.17
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTC
Found at i:3769615 original size:16 final size:14
Alignment explanation
Indices: 3769591--3769634 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 14
3769581 ATTTGACCCA
3769591 CTTTATTTTCTTTTC
1 CTTT-TTTTCTTTTC
*
3769606 TTTTCTTTTTCTTTTC
1 -CTT-TTTTTCTTTTC
3769622 CTTTTTTTCTTTT
1 CTTTTTTTCTTTT
3769635 TTTATTTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 10 0.40
15 2 0.08
16 12 0.48
17 1 0.04
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (14 bp):
CTTTTTTTCTTTTC
Found at i:3769698 original size:7 final size:7
Alignment explanation
Indices: 3769682--3769722 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
3769672 CCCTAAACAT
3769682 TTTTTCTC
1 TTTTT-TC
3769690 TTTTTTC
1 TTTTTTC
*
3769697 TTTTTCC
1 TTTTTTC
3769704 TTTTTTC
1 TTTTTTC
3769711 -TTTTTC
1 TTTTTTC
3769717 TTTTTT
1 TTTTTT
3769723 GACTTAGGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
6 6 0.20
7 19 0.63
8 5 0.17
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTTTTC
Found at i:3769706 original size:14 final size:14
Alignment explanation
Indices: 3769682--3769722 Score: 66
Period size: 14 Copynumber: 2.9 Consensus size: 14
3769672 CCCTAAACAT
3769682 TTTTTCTCTTTTTTC
1 TTTTTC-CTTTTTTC
3769697 TTTTTCCTTTTTTC
1 TTTTTCCTTTTTTC
3769711 TTTTT-CTTTTTT
1 TTTTTCCTTTTTT
3769723 GACTTAGGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 7 0.27
14 13 0.50
15 6 0.23
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTCCTTTTTTC
Found at i:3780347 original size:11 final size:10
Alignment explanation
Indices: 3780333--3780458 Score: 55
Period size: 11 Copynumber: 12.0 Consensus size: 10
3780323 CAAAAAGAAG
3780333 AAAATTAAATA
1 AAAATTAAA-A
3780344 AAAA-T--AA
1 AAAATTAAAA
*
3780351 AAAATTAAAT
1 AAAATTAAAA
*
3780361 TAAATTAAAAA
1 AAAATT-AAAA
3780372 AACAATTAAAAGAA
1 AA-AATT--AA-AA
3780386 GAAAATTAAAA
1 -AAAATTAAAA
3780397 AACAATTAAAA
1 AA-AATTAAAA
3780408 AACAATTAAAA
1 AA-AATTAAAA
*
3780419 GGAAAAAT-AAA
1 --AAAATTAAAA
*
3780430 TAAA-TAAAA
1 AAAATTAAAA
**
3780439 TGAATTAAAA
1 AAAATTAAAA
*
3780449 ACAATTAAAA
1 AAAATTAAAA
3780459 GAAGGAAAAG
Statistics
Matches: 93, Mismatches: 9, Indels: 27
0.72 0.07 0.21
Matches are distributed among these distances:
7 5 0.05
8 3 0.03
9 9 0.10
10 22 0.24
11 32 0.34
12 9 0.10
13 5 0.05
14 6 0.06
15 2 0.02
ACGTcount: A:0.72, C:0.03, G:0.04, T:0.21
Consensus pattern (10 bp):
AAAATTAAAA
Found at i:3780354 original size:18 final size:18
Alignment explanation
Indices: 3780277--3780372 Score: 68
Period size: 18 Copynumber: 5.2 Consensus size: 18
3780267 AAGTTAGCTT
* *
3780277 AAATTAAAGAAGAATAAA
1 AAATTAAATAAAAATAAA
* * *
3780295 AAATTGAAATTGAAATTGAA
1 AAATT-AAA-TAAAAATAAA
* *
3780315 AAA-TAATACAAAAAGAAGA
1 AAATTAA-ATAAAAATAA-A
3780334 AAATTAAATAAAAATAAA
1 AAATTAAATAAAAATAAA
* *
3780352 AAATTAAATTAAATTAAA
1 AAATTAAATAAAAATAAA
3780370 AAA
1 AAA
3780373 ACAATTAAAA
Statistics
Matches: 59, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
18 31 0.53
19 17 0.29
20 11 0.19
ACGTcount: A:0.70, C:0.01, G:0.07, T:0.22
Consensus pattern (18 bp):
AAATTAAATAAAAATAAA
Found at i:3780354 original size:57 final size:52
Alignment explanation
Indices: 3780277--3780409 Score: 151
Period size: 54 Copynumber: 2.4 Consensus size: 52
3780267 AAGTTAGCTT
* *
3780277 AAATTAAAGAAGAATAAAAAATTGAAATTGAAATTGAAAAATAATACA-AAAAGAAGA
1 AAATTAAA-AAAAATAAAAAATT-AAATT-AAATT-AAAAA-AACA-ATAAAAGAAGA
3780334 AAATTAAATAAAAATAAAAAATTAAATTAAATTAAAAAAACAATTAAAAGAAGA
1 AAATTAAA-AAAAATAAAAAATTAAATTAAATTAAAAAAACAA-TAAAAGAAGA
3780388 AAATTAAAAAACAATTAAAAAA
1 AAATTAAAAAA-AA-TAAAAAA
3780410 CAATTAAAAG
Statistics
Matches: 69, Mismatches: 3, Indels: 10
0.84 0.04 0.12
Matches are distributed among these distances:
52 1 0.01
53 6 0.09
54 24 0.35
55 12 0.17
56 5 0.07
57 21 0.30
ACGTcount: A:0.71, C:0.02, G:0.07, T:0.20
Consensus pattern (52 bp):
AAATTAAAAAAAATAAAAAATTAAATTAAATTAAAAAAACAATAAAAGAAGA
Found at i:3780382 original size:36 final size:36
Alignment explanation
Indices: 3780349--3780461 Score: 129
Period size: 36 Copynumber: 3.0 Consensus size: 36
3780339 AAATAAAAAT
*
3780349 AAAAAATTAAATTAAATTAAAAAAACAATTAAAAGA
1 AAAAAATTAAATAAAATTAAAAAAACAATTAAAAGA
* *
3780385 AGAAAATTAAAAAACAATT-AAAAAACAATTAAAAGGA
1 AAAAAATTAAATAA-AATTAAAAAAACAATTAAAA-GA
* *
3780422 AAAATAAATAAATAAAATGAATTAAAAACAATTAAAAGA
1 AAAA-AATTAAATAAAATTAA--AAAAACAATTAAAAGA
3780461 A
1 A
3780462 GGAAAAGGGA
Statistics
Matches: 64, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
36 26 0.41
37 12 0.19
38 9 0.14
39 3 0.05
40 14 0.22
ACGTcount: A:0.72, C:0.04, G:0.05, T:0.19
Consensus pattern (36 bp):
AAAAAATTAAATAAAATTAAAAAAACAATTAAAAGA
Found at i:3780394 original size:14 final size:12
Alignment explanation
Indices: 3780362--3780458 Score: 56
Period size: 12 Copynumber: 7.8 Consensus size: 12
3780352 AAATTAAATT
3780362 AAATTAAAAAAA
1 AAATTAAAAAAA
*
3780374 CAATTAAAAGAAGA
1 AAATTAAAA-AA-A
3780388 AAATT-AAAAAA
1 AAATTAAAAAAA
*
3780399 CAATT-AAAAAA
1 AAATTAAAAAAA
* *
3780410 CAATTAAAAGGAA
1 AAATTAAAA-AAA
3780423 AAA-TAAATAAATA
1 AAATTAAA-AAA-A
*
3780436 AAATGAATTAAAAA
1 AAATTAA--AAAAA
*
3780450 CAATTAAAA
1 AAATTAAAA
3780459 GAAGGAAAAG
Statistics
Matches: 67, Mismatches: 9, Indels: 18
0.71 0.10 0.19
Matches are distributed among these distances:
11 16 0.24
12 20 0.30
13 14 0.21
14 13 0.19
15 3 0.04
16 1 0.01
ACGTcount: A:0.72, C:0.04, G:0.05, T:0.19
Consensus pattern (12 bp):
AAATTAAAAAAA
Found at i:3780457 original size:20 final size:20
Alignment explanation
Indices: 3780400--3780459 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
3780390 ATTAAAAAAC
3780400 AATTAAAAAACAATTAAAAGG
1 AATT-AAAAACAATTAAAAGG
* * * *
3780421 AA-AAATAAATAAATAAAATG
1 AATTAA-AAACAATTAAAAGG
3780441 AATTAAAAACAATTAAAAG
1 AATTAAAAACAATTAAAAG
3780460 AAGGAAAAGG
Statistics
Matches: 29, Mismatches: 8, Indels: 5
0.69 0.19 0.12
Matches are distributed among these distances:
19 2 0.07
20 23 0.79
21 4 0.14
ACGTcount: A:0.70, C:0.03, G:0.07, T:0.20
Consensus pattern (20 bp):
AATTAAAAACAATTAAAAGG
Found at i:3780487 original size:49 final size:52
Alignment explanation
Indices: 3780387--3780561 Score: 159
Period size: 51 Copynumber: 3.4 Consensus size: 52
3780377 TTAAAAGAAG
* * *
3780387 AAAATTAAAAAACAATTAAAA-AACAATTAAAAGGAAAAATAAATAAATAAAAT
1 AAAATTTAAAAACAATTAAAAGAAGAA--AAAGGGAAAAATAAATAAATAAAAT
* *
3780440 -GAA-TTAAAAACAATTAAAAGAAGGAAAAGGGAAAAATAAA-AAATAAAAT
1 AAAATTTAAAAACAATTAAAAGAAGAAAAAGGGAAAAATAAATAAATAAAAT
* * *
3780489 AAAATTTTAAAAACAATTTAAAGGAGAAAAA--GAAATAA-AATTAAA-AAAATTT
1 AAAA-TTTAAAAACAATTAAAAGAAGAAAAAGGGAAA-AATAAATAAATAAAA--T
*
3780541 AAAATTAAAAAACAATTAAAA
1 AAAATTTAAAAACAATTAAAA
3780562 CGTAAATTAA
Statistics
Matches: 102, Mismatches: 12, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
49 9 0.09
50 26 0.25
51 35 0.34
52 32 0.31
ACGTcount: A:0.70, C:0.03, G:0.07, T:0.19
Consensus pattern (52 bp):
AAAATTTAAAAACAATTAAAAGAAGAAAAAGGGAAAAATAAATAAATAAAAT
Found at i:3780559 original size:17 final size:16
Alignment explanation
Indices: 3780515--3780561 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
3780505 TTTAAAGGAG
3780515 AAAAAGAAA-TAAAATT
1 AAAAA-AAATTAAAATT
*
3780531 AAAAAAATTTAAAATT
1 AAAAAAAATTAAAATT
3780547 AAAAAACAATTAAAA
1 AAAAAA-AATTAAAA
3780562 CGTAAATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 2 0.07
16 18 0.67
17 7 0.26
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (16 bp):
AAAAAAAATTAAAATT
Found at i:3781740 original size:22 final size:22
Alignment explanation
Indices: 3781704--3781753 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
3781694 TTATTTTTTG
*
3781704 AAAATAATAATAAAAATAT-GAT
1 AAAATAATAA-AAAAATATATAT
* *
3781726 AAAATATTAAAAAAATATATTT
1 AAAATAATAAAAAAATATATAT
3781748 AAAATA
1 AAAATA
3781754 CTGTTTTTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (22 bp):
AAAATAATAAAAAAATATATAT
Found at i:3782373 original size:17 final size:17
Alignment explanation
Indices: 3782346--3782386 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
3782336 TAATTTTCGT
*
3782346 AAAATAAAATTT-TAAA
1 AAAATATAATTTCTAAA
3782362 ACAAATATAATTTCTAAA
1 A-AAATATAATTTCTAAA
3782380 AAAATAT
1 AAAATAT
3782387 TTTACGGTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 16 0.73
18 5 0.23
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAATATAATTTCTAAA
Found at i:3787807 original size:34 final size:35
Alignment explanation
Indices: 3787766--3787831 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 35
3787756 CATGCAAAAT
*
3787766 GAAAGAAAGTAAAAGAAAAGAT-AAACCAAAGCAA
1 GAAAGAAAATAAAAGAAAAGATAAAACCAAAGCAA
* * *
3787800 GAAAGAAAATAGAAGTAAAGTTAAAACCAAAG
1 GAAAGAAAATAAAAGAAAAGATAAAACCAAAG
3787832 GTTGTTTCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
34 18 0.67
35 9 0.33
ACGTcount: A:0.65, C:0.08, G:0.18, T:0.09
Consensus pattern (35 bp):
GAAAGAAAATAAAAGAAAAGATAAAACCAAAGCAA
Found at i:3788096 original size:68 final size:68
Alignment explanation
Indices: 3787987--3788122 Score: 272
Period size: 68 Copynumber: 2.0 Consensus size: 68
3787977 GCCATCTATT
3787987 TGTTTCTTTCTTTCTACTTAAGAAACTTTTGCAGCAAAAACGCCTAAGCACTTCATTTGAAGGTC
1 TGTTTCTTTCTTTCTACTTAAGAAACTTTTGCAGCAAAAACGCCTAAGCACTTCATTTGAAGGTC
3788052 TTG
66 TTG
3788055 TGTTTCTTTCTTTCTACTTAAGAAACTTTTGCAGCAAAAACGCCTAAGCACTTCATTTGAAGGTC
1 TGTTTCTTTCTTTCTACTTAAGAAACTTTTGCAGCAAAAACGCCTAAGCACTTCATTTGAAGGTC
3788120 TTG
66 TTG
3788123 AGTTAGTTCT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (68 bp):
TGTTTCTTTCTTTCTACTTAAGAAACTTTTGCAGCAAAAACGCCTAAGCACTTCATTTGAAGGTC
TTG
Found at i:3792199 original size:14 final size:14
Alignment explanation
Indices: 3792153--3792192 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
3792143 TTATTCAATT
*
3792153 TTATTAATATCAATA
1 TTATT-ATATAAATA
*
3792168 TTATTATTTAAATA
1 TTATTATATAAATA
3792182 TTATTATATAA
1 TTATTATATAA
3792193 TTTTTATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (14 bp):
TTATTATATAAATA
Found at i:3792315 original size:19 final size:19
Alignment explanation
Indices: 3792291--3792366 Score: 64
Period size: 19 Copynumber: 3.8 Consensus size: 19
3792281 TGATATTATA
3792291 TTATTAAAATATTAAATAT
1 TTATTAAAATATTAAATAT
* * *
3792310 TTATTAAAATAATAATTTT
1 TTATTAAAATATTAAATAT
*
3792329 ATTATTATAATATTACATTATAT
1 -TTATTAAAATATTA-A--ATAT
3792352 TT-TTAAAATCATTAA
1 TTATTAAAAT-ATTAA
3792367 TAAATATATT
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
19 16 0.36
20 12 0.27
21 8 0.18
22 6 0.14
23 2 0.05
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (19 bp):
TTATTAAAATATTAAATAT
Found at i:3794447 original size:17 final size:18
Alignment explanation
Indices: 3794425--3794458 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
3794415 TAAAATTATA
3794425 ATTAATTTT-AATAAATG
1 ATTAATTTTAAATAAATG
3794442 ATTAATTTTAAATAAAT
1 ATTAATTTTAAATAAAT
3794459 CACAATACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
ATTAATTTTAAATAAATG
Found at i:3804786 original size:12 final size:12
Alignment explanation
Indices: 3804764--3804793 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
3804754 CCCAACATGG
3804764 TTTTGCATTTATC
1 TTTT-CATTTATC
3804777 TTTTCATTTATC
1 TTTTCATTTATC
3804789 TTTTC
1 TTTTC
3804794 GTACAGGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.13, C:0.17, G:0.03, T:0.67
Consensus pattern (12 bp):
TTTTCATTTATC
Found at i:3808163 original size:29 final size:29
Alignment explanation
Indices: 3808120--3808202 Score: 148
Period size: 29 Copynumber: 2.8 Consensus size: 29
3808110 CTCACCTAAC
3808120 TAAATTGATGTAAGCAATGACATCATTACT
1 TAAA-TGATGTAAGCAATGACATCATTACT
3808150 TAAATGATGTAAGCAATGACATCATTACT
1 TAAATGATGTAAGCAATGACATCATTACT
*
3808179 TAAATGATGTAAGCATTGACATCA
1 TAAATGATGTAAGCAATGACATCA
3808203 ATTTAGTTTG
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
29 48 0.92
30 4 0.08
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.31
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTACT
Found at i:3811529 original size:15 final size:15
Alignment explanation
Indices: 3811509--3811538 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3811499 CTTTTTCATA
3811509 GTTGTTGTTGGAATT
1 GTTGTTGTTGGAATT
*
3811524 GTTGTTGTTGTAATT
1 GTTGTTGTTGGAATT
3811539 CCAGCCTCGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.00, G:0.30, T:0.57
Consensus pattern (15 bp):
GTTGTTGTTGGAATT
Found at i:3814571 original size:31 final size:31
Alignment explanation
Indices: 3814536--3814631 Score: 81
Period size: 31 Copynumber: 3.2 Consensus size: 31
3814526 TAATAGTTGA
3814536 GGGACTCAACAAAGCAACTTCCTATAATCAG
1 GGGACTCAACAAAGCAACTTCCTATAATCAG
* ** * * *
3814567 GGGAC-CATC-TTGTAACTT-TTAATAATCAA
1 GGGACTCAACAAAGCAACTTCCT-ATAATCAG
* * *
3814596 GGGACTCAACAAAACAACTCCCTATAATCGG
1 GGGACTCAACAAAGCAACTTCCTATAATCAG
3814627 GGGAC
1 GGGAC
3814632 CATTTTGTAA
Statistics
Matches: 46, Mismatches: 15, Indels: 8
0.67 0.22 0.12
Matches are distributed among these distances:
28 1 0.02
29 18 0.39
30 6 0.13
31 20 0.43
32 1 0.02
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.22
Consensus pattern (31 bp):
GGGACTCAACAAAGCAACTTCCTATAATCAG
Found at i:3814580 original size:60 final size:60
Alignment explanation
Indices: 3814509--3814668 Score: 241
Period size: 60 Copynumber: 2.7 Consensus size: 60
3814499 ATAGTCGGGT
* * * *
3814509 GACCATTTTGTAACTTTTAATAGTTGAGGGACTCAACAAAGCAACTTCCTATAATCAGGG
1 GACCATTTTGTAACTTTTAATAATCGAGGGACTCAACAAAACAACTCCCTATAATCAGGG
* * *
3814569 GACCATCTTGTAACTTTTAATAATCAAGGGACTCAACAAAACAACTCCCTATAATCGGGG
1 GACCATTTTGTAACTTTTAATAATCGAGGGACTCAACAAAACAACTCCCTATAATCAGGG
*
3814629 GACCATTTTGTAACTTTTAATAATCGAGTGACTCAA-AAAA
1 GACCATTTTGTAACTTTTAATAATCGAGGGACTCAACAAAA
3814669 TTAATATCCT
Statistics
Matches: 90, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
59 4 0.04
60 86 0.96
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (60 bp):
GACCATTTTGTAACTTTTAATAATCGAGGGACTCAACAAAACAACTCCCTATAATCAGGG
Found at i:3814680 original size:60 final size:59
Alignment explanation
Indices: 3814503--3814707 Score: 234
Period size: 60 Copynumber: 3.4 Consensus size: 59
3814493 TAATGAATAG
* * * *
3814503 TCGGGTGACCATTTTGTAACTTTTAATAGTTGAGGGACTCAACAAAGCAACTTCCTATAA
1 TCGGGGGACCATTTTGTAACTTTTAATAATCGAGGGACTCAA-AAAACAACTTCCTATAA
* * * *
3814563 TCAGGGGACCATCTTGTAACTTTTAATAATCAAGGGACTCAACAAAACAACTCCCTATAA
1 TCGGGGGACCATTTTGTAACTTTTAATAATCGAGGGACTCAA-AAAACAACTTCCTATAA
* * *
3814623 TCGGGGGACCATTTTGTAACTTTTAATAATCGAGTGACTCAAAAAATTAA-TATCCTATAG
1 TCGGGGGACCATTTTGTAACTTTTAATAATCGAGGGACTCAAAAAA-CAACT-TCCTATAA
3814683 TCGGGGGGGACCATTTATGT-ACTTT
1 TC--GGGGGACCATTT-TGTAACTTT
3814708 ACCCTAAAAA
Statistics
Matches: 125, Mismatches: 15, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
59 5 0.04
60 100 0.80
62 17 0.14
63 3 0.02
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.31
Consensus pattern (59 bp):
TCGGGGGACCATTTTGTAACTTTTAATAATCGAGGGACTCAAAAAACAACTTCCTATAA
Found at i:3822503 original size:3 final size:3
Alignment explanation
Indices: 3822485--3822556 Score: 126
Period size: 3 Copynumber: 23.7 Consensus size: 3
3822475 CAAACATATG
*
3822485 TAA TAA AAA TTAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
3822531 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
3822557 TTTATAATAT
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
3 64 0.97
4 2 0.03
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:3822999 original size:136 final size:134
Alignment explanation
Indices: 3822724--3823028 Score: 409
Period size: 136 Copynumber: 2.3 Consensus size: 134
3822714 AGGAATAAGT
** * *
3822724 TCTTCTCATTATGAACT-TTCTCCT-T-TATGACGAGTTCTTCTCATTATAAACTCTCCATTAGA
1 TCTTCTCATTATGAACTCTTCTCCTCTGTCGGATGAGTTCTTCTCATTATAAACTCTCAATTAGA
* * *** * *
3822786 AATATCAATCCCTTAAGCGAGGCGTCATTGATTCGAAATGTTGTGAATCGAGTGATAGATCGAAC
66 AATATCAATCCCTCAAGCGAGGCGTCACTGATTCGAAATACCGTGAATCAAGTGATAGATCAAAC
3822851 AAGC
131 AAGC
* *
3822855 TCTTCTCATTATGAACATCTTCTCACTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCAATTG
1 TCTTCTCATTATGAAC-TCTTCTC-CTCTGTCGGATGAGTTCTTCTCATTATAAACTCTCAATTA
* * *
3822920 GAAATGTCATTCCCTCAAGCGAGGTGTCACTGATTCGAAATACCGTGAATCAAGTGATAGATCAA
64 GAAATATCAATCCCTCAAGCGAGGCGTCACTGATTCGAAATACCGTGAATCAAGTGATAGATCAA
3822985 ACAAGC
129 ACAAGC
3822991 TCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGA
1 TCTTCTCATTATGAAC-TCTTCT-CCTCTGTCGGATGA
3823029 AATATGAGAT
Statistics
Matches: 151, Mismatches: 17, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
131 16 0.11
132 1 0.01
133 5 0.03
134 2 0.01
135 1 0.01
136 125 0.83
137 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (134 bp):
TCTTCTCATTATGAACTCTTCTCCTCTGTCGGATGAGTTCTTCTCATTATAAACTCTCAATTAGA
AATATCAATCCCTCAAGCGAGGCGTCACTGATTCGAAATACCGTGAATCAAGTGATAGATCAAAC
AAGC
Found at i:3823904 original size:21 final size:21
Alignment explanation
Indices: 3823878--3823919 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
3823868 CCAGAATGGG
*
3823878 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
*
3823899 GGGAATCGATACCCTTTCATA
1 GGGAATCGATACCCCTTCATA
3823920 ATATTCAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:3824132 original size:29 final size:31
Alignment explanation
Indices: 3824100--3824159 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 31
3824090 AAATTTTGAA
*
3824100 TAAATTCAA-TTAAGTCCAAATA-CATTTTG
1 TAAATTCAATTTAAGTCCAAAAACCATTTTG
3824129 TAAATTCAATTTAAGTCCAAAAACCATTTTG
1 TAAATTCAATTTAAGTCCAAAAACCATTTTG
3824160 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 9 0.32
30 12 0.43
31 7 0.25
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.37
Consensus pattern (31 bp):
TAAATTCAATTTAAGTCCAAAAACCATTTTG
Found at i:3831240 original size:61 final size:61
Alignment explanation
Indices: 3831134--3831342 Score: 241
Period size: 60 Copynumber: 3.5 Consensus size: 61
3831124 TTTTTAGGGT
* * * *
3831134 AAAG-TACATAAATGGTCCCCCGACTA-TAGGATA-TTAATTTT-TTGAGTCACTCAATTATTAA
1 AAAGTTACA-AAATGGTCCCCCGATTATTAGGA-AGTT-GTTTTGTTGAGTCCCTCGATTATT-A
*
3831195 AAAGTTACAAAATGGTCCCCCGATTATT-GGGAGTTGTTTTGTTGAGTCCCTCGATTATTA
1 AAAGTTACAAAATGGTCCCCCGATTATTAGGAAGTTGTTTTGTTGAGTCCCTCGATTATTA
* * * *
3831255 AAAGTTACAAGATGGTCCCCTGATT-TTAGGAAGTTGATTTGTTGAGTCCCTCGACTATTA
1 AAAGTTACAAAATGGTCCCCCGATTATTAGGAAGTTGTTTTGTTGAGTCCCTCGATTATTA
* *
3831315 AAAGTTACAAAATGGTCACCCGACTATT
1 AAAGTTACAAAATGGTCCCCCGATTATT
3831343 CATTATGTTC
Statistics
Matches: 128, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
59 2 0.02
60 79 0.62
61 42 0.33
62 5 0.04
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (61 bp):
AAAGTTACAAAATGGTCCCCCGATTATTAGGAAGTTGTTTTGTTGAGTCCCTCGATTATTA
Found at i:3831320 original size:31 final size:30
Alignment explanation
Indices: 3831226--3831320 Score: 70
Period size: 31 Copynumber: 3.1 Consensus size: 30
3831216 GATTATTGGG
*
3831226 AGTTGTTTTGTTGAGTCCCTCGATTATTAAA
1 AGTTGATTTGTTGAGTCCCTCGA-TATTAAA
*** * * *
3831257 AGTT-ACAAGATG-GTCCC-CTGATTTTAGGA
1 AGTTGATTTGTTGAGTCCCTC-GATATTA-AA
3831286 AGTTGATTTGTTGAGTCCCTCGACTATTAAA
1 AGTTGATTTGTTGAGTCCCTCGA-TATTAAA
3831317 AGTT
1 AGTT
3831321 ACAAAATGGT
Statistics
Matches: 45, Mismatches: 13, Indels: 12
0.64 0.19 0.17
Matches are distributed among these distances:
28 5 0.11
29 12 0.27
30 7 0.16
31 16 0.36
32 5 0.11
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.39
Consensus pattern (30 bp):
AGTTGATTTGTTGAGTCCCTCGATATTAAA
Found at i:3833859 original size:136 final size:136
Alignment explanation
Indices: 3833615--3834264 Score: 904
Period size: 136 Copynumber: 4.8 Consensus size: 136
3833605 AAATAAAGGC
* * **
3833615 ACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTATGAACTCTCCATTGGAAATATTGATCCC
1 ACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTCAATCCC
* * * * * *
3833680 TCAAGCGAGACGACACTGATTCGAAATACCGTGAAGCGAGTGATAGGTCGAACAAGCTCTTATCA
66 TCAAGCGAGGCGTCACTGATTCGAAATGCCATGAATCGAGTGATAGGTCGAACAAGCTCTTCTCA
3833745 TTATGA
131 TTATGA
* * **
3833751 ACTTCTTCTCCTTTTGTCGGATGAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTGATCCC
1 ACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTCAATCCC
* * * * * *
3833816 TCAAGCGAGGTGTCACTGATTCAAAATGTCATGAATTGAGTGATAGGTCAAACAAGCTCTTCTTA
66 TCAAGCGAGGCGTCACTGATTCGAAATGCCATGAATCGAGTGATAGGTCGAACAAGCTCTTCTCA
3833881 TTATGA
131 TTATGA
** * *
3833887 ACTTCTTCTCCCTCTGTTAGATGAGTTCTTATCATTATGAACTTTCCATTGGAAATGTCAATCCC
1 ACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTCAATCCC
* * * *
3833952 TCAAGCGAGGCGTAATTGATTCAAAATGCCATGAATTGAGTGATAGGTCGAACAAGCTCTTCTCA
66 TCAAGCGAGGCGTCACTGATTCGAAATGCCATGAATCGAGTGATAGGTCGAACAAGCTCTTCTCA
3834017 TTATGA
131 TTATGA
* * * * *
3834023 ACTTCTTCTCCATTTTTCGGATGTGTTCTTCTCATTATGAACTCTTCATTTGGAAATGTCAATCC
1 ACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCCA-TTGGAAATGTCAATCC
* * * * *
3834088 CTCAAGTGAGGTGTCACTGATTCGAAATGCCGTGAATCGAGTGGTAGGTCGAACAAGCTATTCTC
65 CTCAAGCGAGGCGTCACTGATTCGAAATGCCATGAATCGAGTGATAGGTCGAACAAGCTCTTCTC
3834153 ATTATGA
130 ATTATGA
* *
3834160 AATTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCAATTGGAAATGTCAATCCC
1 ACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTCAATCCC
* * *
3834225 TCAAGTGAGGCGTCACTGATTCGAAATGCCGTTAATCGAG
66 TCAAGCGAGGCGTCACTGATTCGAAATGCCATGAATCGAG
3834265 CAACGAAAAT
Statistics
Matches: 456, Mismatches: 57, Indels: 2
0.89 0.11 0.00
Matches are distributed among these distances:
136 336 0.74
137 120 0.26
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.34
Consensus pattern (136 bp):
ACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTCAATCCC
TCAAGCGAGGCGTCACTGATTCGAAATGCCATGAATCGAGTGATAGGTCGAACAAGCTCTTCTCA
TTATGA
Found at i:3834358 original size:42 final size:41
Alignment explanation
Indices: 3834305--3834429 Score: 187
Period size: 42 Copynumber: 3.0 Consensus size: 41
3834295 AAGGTCTTAT
* * * *
3834305 CATCTTGCTCGAAAGGCTTACAGATGACCTGAAGGATTTAA
1 CATCATGCTCGAAAGACTTACTGATGACCCGAAGGATTTAA
*
3834346 GCATCATGCTCGAAAGACTTATTGATGACCCGAAGGATTTACA
1 -CATCATGCTCGAAAGACTTACTGATGACCCGAAGGATTTA-A
3834389 CATCATGCTCGAAAGACTTACTGATGACCCGAAGGATTTAA
1 CATCATGCTCGAAAGACTTACTGATGACCCGAAGGATTTAA
3834430 AAATCAAGAA
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
41 1 0.01
42 74 0.97
43 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.26
Consensus pattern (41 bp):
CATCATGCTCGAAAGACTTACTGATGACCCGAAGGATTTAA
Found at i:3834569 original size:90 final size:90
Alignment explanation
Indices: 3834411--3834728 Score: 519
Period size: 90 Copynumber: 3.5 Consensus size: 90
3834401 AAGACTTACT
* * * * * *
3834411 GATGACCCGAAGGATTTAAAAATCAAGAAACCCCTGAAGGCTTAATTTCTACAATCTCATTTGAA
1 GATGGCCCGAAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATTTGAA
* *
3834476 AACATCCTGCACTAAATGTCTTATG
66 AACATCCTGCACTGAAGGTCTTATG
3834501 GATGGCCCGAAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATTTGAA
1 GATGGCCCGAAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATTTGAA
3834566 AACATCCTGCACTGAAGGTCTTATG
66 AACATCCTGCACTGAAGGTCTTATG
* *
3834591 GATGGCCCGAAGGACTTATAAATCAAGAAACCCTCGAAGGCTTAGTTTCTAAAATCTCATTTGAA
1 GATGGCCCGAAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATTTGAA
3834656 AACATCCTGCACTGAAGGTCTTATG
66 AACATCCTGCACTGAAGGTCTTATG
* * *
3834681 GATGGCCCGAAGGTCTTACAAATCAAGAAACCCCCAAAAGCTTAGTTT
1 GATGGCCCGAAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTT
3834729 TTTAAAAAAC
Statistics
Matches: 213, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
90 213 1.00
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (90 bp):
GATGGCCCGAAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATTTGAA
AACATCCTGCACTGAAGGTCTTATG
Found at i:3839819 original size:26 final size:26
Alignment explanation
Indices: 3839780--3839861 Score: 65
Period size: 26 Copynumber: 3.1 Consensus size: 26
3839770 AAAAACATAA
* * * *
3839780 AAATGCAAATATGCGAATTCAAATGC
1 AAATACAAAGATGCAAATGCAAATGC
*
3839806 AAATACAAAGATGCAAATGCAGATGC
1 AAATACAAAGATGCAAATGCAAATGC
** * * *
3839832 AAAATGTAAAGTTGCAAATGTAGATGC
1 -AAATACAAAGATGCAAATGCAAATGC
3839859 AAA
1 AAA
3839862 AATAATAATC
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
26 24 0.52
27 22 0.48
ACGTcount: A:0.49, C:0.12, G:0.18, T:0.21
Consensus pattern (26 bp):
AAATACAAAGATGCAAATGCAAATGC
Found at i:3839861 original size:12 final size:12
Alignment explanation
Indices: 3839814--3839861 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
3839804 GCAAATACAA
*
3839814 AGATGCAAATGC
1 AGATGCAAATGT
3839826 AGATGCAAAATGT
1 AGATGC-AAATGT
*
3839839 AAAGTTGCAAATGT
1 --AGATGCAAATGT
3839853 AGATGCAAA
1 AGATGCAAA
3839862 AATAATAATC
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
12 14 0.47
13 5 0.17
14 6 0.20
15 5 0.17
ACGTcount: A:0.46, C:0.10, G:0.23, T:0.21
Consensus pattern (12 bp):
AGATGCAAATGT
Found at i:3840592 original size:27 final size:28
Alignment explanation
Indices: 3840562--3840614 Score: 90
Period size: 27 Copynumber: 1.9 Consensus size: 28
3840552 ATGAAAAATG
*
3840562 ACACAAACAAAA-GAAAGAAGTTAGTGT
1 ACACAAACAAAAGGAAAGAAATTAGTGT
3840589 ACACAAACAAAAGGAAAGAAATTAGT
1 ACACAAACAAAAGGAAAGAAATTAGT
3840615 TAGTACATGT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 12 0.50
28 12 0.50
ACGTcount: A:0.58, C:0.11, G:0.17, T:0.13
Consensus pattern (28 bp):
ACACAAACAAAAGGAAAGAAATTAGTGT
Found at i:3844435 original size:23 final size:23
Alignment explanation
Indices: 3844408--3844477 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 23
3844398 GGGAAACTGT
3844408 AAGGATTACCCTTGCACACAGTA
1 AAGGATTACCCTTGCACACAGTA
* * * *
3844431 AAGGA--A-CCTGGGAAACTGT-
1 AAGGATTACCCTTGCACACAGTA
* *
3844450 AAGGCTTACCCTTGCACACAGCA
1 AAGGATTACCCTTGCACACAGTA
3844473 AAGGA
1 AAGGA
3844478 ACCTGGGGGA
Statistics
Matches: 32, Mismatches: 11, Indels: 8
0.63 0.22 0.16
Matches are distributed among these distances:
19 4 0.12
20 9 0.28
21 2 0.06
22 8 0.25
23 9 0.28
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.17
Consensus pattern (23 bp):
AAGGATTACCCTTGCACACAGTA
Found at i:3844503 original size:44 final size:44
Alignment explanation
Indices: 3844397--3844756 Score: 538
Period size: 44 Copynumber: 8.3 Consensus size: 44
3844387 AAAAGCGTAT
* * *
3844397 GGGGAAACTGTAAGGATTACCCTTGCACACAGTAAAGGAACCT-
1 GGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGGACCTG
*
3844440 -GGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACCTG
1 GGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGGACCTG
3844483 GGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGGACCT-
1 GGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGGACCTG
3844526 GGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAAGGGACCTG
1 GGGGAAACTGTAAGGCTTACCCTTGCACACAGC-AAAGGGACCTG
*
3844571 GGGG-AACTGTAAGGCTTACCCTTGCACACAACAAAAGGGACCTG
1 GGGGAAACTGTAAGGCTTACCCTTGCACACAGC-AAAGGGACCTG
* *
3844615 GGGG-AACTGTAAGGCTTACCCTTGCACACAACAAAGGGATCTG
1 GGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGGACCTG
* *
3844658 GGGG-AACTGTAAGTCTTACCCTTACACACAGCAAAAGGGACCTG
1 GGGGAAACTGTAAGGCTTACCCTTGCACACAGC-AAAGGGACCTG
* *
3844702 GGGG-AACTGTAAGGCTTACCCTTGCACATAGCAAAGGGGCCT-
1 GGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGGACCTG
3844744 GGGGAAACTGTAA
1 GGGGAAACTGTAA
3844757 CGGTAATTAA
Statistics
Matches: 298, Mismatches: 13, Indels: 12
0.92 0.04 0.04
Matches are distributed among these distances:
42 44 0.15
43 89 0.30
44 161 0.54
45 4 0.01
ACGTcount: A:0.31, C:0.24, G:0.28, T:0.17
Consensus pattern (44 bp):
GGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGGACCTG
Found at i:3844582 original size:87 final size:87
Alignment explanation
Indices: 3844396--3844756 Score: 548
Period size: 87 Copynumber: 4.2 Consensus size: 87
3844386 CAAAAGCGTA
* * * *
3844396 TGGGGAAACTGTAAGGATTACCCTTGCACACAG-TAAAGGAACCT-GGGAAACTGTAAGGCTTAC
1 TGGGGGAACTGTAAGGCTTACCCTTGCACACAGCAAAAGGGACCTGGGGAAACTGTAAGGCTTAC
*
3844459 CCTTGCACACAGCAAAGGAACC
66 CCTTGCACACAGCAAAGGGACC
3844481 TGGGGGAAACTGTAAGGCTTACCCTTGCACACAGC-AAAGGGACCTGGGGAAACTGTAAGGCTTA
1 TGGGGG-AACTGTAAGGCTTACCCTTGCACACAGCAAAAGGGACCTGGGGAAACTGTAAGGCTTA
3844545 CCCTTGCACACAGCAAAAGGGACC
65 CCCTTGCACACAGC-AAAGGGACC
* *
3844569 TGGGGGAACTGTAAGGCTTACCCTTGCACACAACAAAAGGGACCTGGGGGAACTGTAAGGCTTAC
1 TGGGGGAACTGTAAGGCTTACCCTTGCACACAGCAAAAGGGACCTGGGGAAACTGTAAGGCTTAC
* *
3844634 CCTTGCACACAACAAAGGGATC
66 CCTTGCACACAGCAAAGGGACC
* * *
3844656 TGGGGGAACTGTAAGTCTTACCCTTACACACAGCAAAAGGGACCTGGGGGAACTGTAAGGCTTAC
1 TGGGGGAACTGTAAGGCTTACCCTTGCACACAGCAAAAGGGACCTGGGGAAACTGTAAGGCTTAC
* *
3844721 CCTTGCACATAGCAAAGGGGCC
66 CCTTGCACACAGCAAAGGGACC
*
3844743 TGGGGAAACTGTAA
1 TGGGGGAACTGTAA
3844757 CGGTAATTAA
Statistics
Matches: 255, Mismatches: 16, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
85 5 0.02
86 35 0.14
87 160 0.63
88 55 0.22
ACGTcount: A:0.31, C:0.24, G:0.28, T:0.17
Consensus pattern (87 bp):
TGGGGGAACTGTAAGGCTTACCCTTGCACACAGCAAAAGGGACCTGGGGAAACTGTAAGGCTTAC
CCTTGCACACAGCAAAGGGACC
Found at i:3844639 original size:131 final size:130
Alignment explanation
Indices: 3844396--3844756 Score: 564
Period size: 131 Copynumber: 2.8 Consensus size: 130
3844386 CAAAAGCGTA
* * * *
3844396 TGGGGAAACTGTAAGGATTACCCTTGCACACAG-TAAAGGAACCT-GGGAAACTGTAAGGCTTAC
1 TGGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAAGGGACCTGGGGGAACTGTAAGGCTTAC
* *
3844459 CCTTGCACACAGCAAAGGAACCTGGGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGGAC
66 CCTTGCACACAGCAAAGGGACCTGGGGG-AACTGTAAGGCTTACCCTTGCACACAACAAAGGGAC
3844524 C
130 C
3844525 TGGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAAGGGACCTGGGGGAACTGTAAGGCTTAC
1 TGGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAAGGGACCTGGGGGAACTGTAAGGCTTAC
* *
3844590 CCTTGCACACAACAAAAGGGACCTGGGGGAACTGTAAGGCTTACCCTTGCACACAACAAAGGGAT
66 CCTTGCACACAGC-AAAGGGACCTGGGGGAACTGTAAGGCTTACCCTTGCACACAACAAAGGGAC
3844655 C
130 C
* * *
3844656 TGGGGGAACTGTAAGTCTTACCCTTACACACAGCAAAAGGGACCTGGGGGAACTGTAAGGCTTAC
1 TGGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAAGGGACCTGGGGGAACTGTAAGGCTTAC
* * *
3844721 CCTTGCACATAGCAAAGGGGCCTGGGGAAACTGTAA
66 CCTTGCACACAGCAAAGGGACCTGGGGGAACTGTAA
3844757 CGGTAATTAA
Statistics
Matches: 214, Mismatches: 15, Indels: 5
0.91 0.06 0.02
Matches are distributed among these distances:
129 32 0.15
130 30 0.14
131 138 0.64
132 14 0.07
ACGTcount: A:0.31, C:0.24, G:0.28, T:0.17
Consensus pattern (130 bp):
TGGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAAGGGACCTGGGGGAACTGTAAGGCTTAC
CCTTGCACACAGCAAAGGGACCTGGGGGAACTGTAAGGCTTACCCTTGCACACAACAAAGGGACC
Found at i:3847489 original size:13 final size:13
Alignment explanation
Indices: 3847471--3847513 Score: 77
Period size: 13 Copynumber: 3.3 Consensus size: 13
3847461 AACGGTTAAC
3847471 GGTCAACGGGTCG
1 GGTCAACGGGTCG
3847484 GGTCAACGGGTCG
1 GGTCAACGGGTCG
*
3847497 GGTAAACGGGTCG
1 GGTCAACGGGTCG
3847510 GGTC
1 GGTC
3847514 GGCTCGGGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.16, C:0.21, G:0.47, T:0.16
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:3847946 original size:3 final size:3
Alignment explanation
Indices: 3847938--3848003 Score: 125
Period size: 3 Copynumber: 22.3 Consensus size: 3
3847928 TTCACGACAA
3847938 AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
3847985 AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT A
3848004 TTTATAATAT
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 60 0.97
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:3848484 original size:21 final size:21
Alignment explanation
Indices: 3848460--3848565 Score: 59
Period size: 21 Copynumber: 5.3 Consensus size: 21
3848450 ACGCCTCTCA
* *
3848460 TTTAAAATTCTATTTAA-TATT
1 TTTAAAATTAT-TTTAATTAAT
*
3848481 TTTAATATTATTTTAATTAAT
1 TTTAAAATTATTTTAATTAAT
*
3848502 TTT-AAA-T-TTTTAATCAA-
1 TTTAAAATTATTTTAATTAAT
* *
3848519 TTT-AAATTATTTAAATTATAA
1 TTTAAAATTATTTTAATTA-AT
3848540 TTT--AATTAGTTTATAA-TAAT
1 TTTAAAATTA-TTT-TAATTAAT
3848560 TTTAAA
1 TTTAAA
3848566 TGAACTCATT
Statistics
Matches: 67, Mismatches: 9, Indels: 17
0.72 0.10 0.18
Matches are distributed among these distances:
17 6 0.09
18 10 0.15
19 8 0.12
20 17 0.25
21 23 0.34
22 3 0.04
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.56
Consensus pattern (21 bp):
TTTAAAATTATTTTAATTAAT
Found at i:3848509 original size:11 final size:10
Alignment explanation
Indices: 3848480--3848566 Score: 51
Period size: 11 Copynumber: 8.8 Consensus size: 10
3848470 TATTTAATAT
3848480 TTTTAATATTA
1 TTTTAA-ATTA
3848491 TTTT-AATTAA
1 TTTTAAATT-A
3848501 TTTTAAA-T-
1 TTTTAAATTA
*
3848509 TTTT-AATCA
1 TTTTAAATTA
*
3848518 ATTTAAATTA
1 TTTTAAATTA
3848528 -TTTAAATTA
1 TTTTAAATTA
3848537 TAATTT-AATTA
1 T--TTTAAATTA
* *
3848548 GTTTATAATAA
1 TTTTA-AATTA
3848559 TTTTAAAT
1 TTTTAAAT
3848567 GAACTCATTT
Statistics
Matches: 60, Mismatches: 6, Indels: 21
0.69 0.07 0.24
Matches are distributed among these distances:
7 2 0.03
8 4 0.07
9 18 0.30
10 14 0.23
11 19 0.32
12 3 0.05
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (10 bp):
TTTTAAATTA
Found at i:3848522 original size:17 final size:18
Alignment explanation
Indices: 3848491--3848532 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
3848481 TTTAATATTA
*
3848491 TTTTAATTAATTTTAAAT
1 TTTTAATCAATTTTAAAT
3848509 TTTTAATCAA-TTTAAAT
1 TTTTAATCAATTTTAAAT
3848526 TATTTAA
1 T-TTTAA
3848533 ATTATAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTTAATCAATTTTAAAT
Found at i:3848530 original size:9 final size:9
Alignment explanation
Indices: 3848470--3848537 Score: 52
Period size: 9 Copynumber: 7.3 Consensus size: 9
3848460 TTTAAAATTC
3848470 TATTTAATAT
1 TATTTAA-AT
3848480 T-TTTAATAT
1 TATTTAA-AT
*
3848489 TATTTTAAT
1 TATTTAAAT
3848498 TAATTTTAAAT
1 T-A-TTTAAAT
3848509 T-TTT-AAT
1 TATTTAAAT
*
3848516 CAATTTAAAT
1 -TATTTAAAT
3848526 TATTTAAAT
1 TATTTAAAT
3848535 TAT
1 TAT
3848538 AATTTAATTA
Statistics
Matches: 48, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
7 3 0.06
8 3 0.06
9 26 0.54
10 9 0.19
11 7 0.15
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (9 bp):
TATTTAAAT
Found at i:3848597 original size:11 final size:11
Alignment explanation
Indices: 3848583--3848609 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
3848573 ATTTATTTTA
3848583 TATTTTTAATT
1 TATTTTTAATT
3848594 TATTTTTAATT
1 TATTTTTAATT
3848605 TATTT
1 TATTT
3848610 AAATAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (11 bp):
TATTTTTAATT
Found at i:3850954 original size:95 final size:94
Alignment explanation
Indices: 3850753--3850954 Score: 239
Period size: 95 Copynumber: 2.1 Consensus size: 94
3850743 CAATAGTATG
* * * *
3850753 GTATCGATACATAACAACATCGAATCTAAAATTGGTATCGATACCGGAAAGGGGTATCAGTACCA
1 GTATCGATAC-TAACAACATCGAACCTAAAACTGATATCGATACCGGAAAGGAGTATCAGTACCA
* * * *
3850818 TAGTATGGTAGTATCGATACCATGGTAAGG
65 TAGTATAGAAGTATCGATACCAGGGTAAGA
* * *
3850848 GTATCGGTACTAGACAACTTCGAACCTAAAACTGATATCGATACC-GTAAGAGAGTATCAGTACC
1 GTATCGATACTA-ACAACATCGAACCTAAAACTGATATCGATACCGGAAAG-GAGTATCAGTACC
3850912 ATAGTATAGAAGTATC-AGTACCAGGGT-AGTA
64 ATAGTATAGAAGTATCGA-TACCAGGGTAAG-A
3850943 GTATCGATACTA
1 GTATCGATACTA
3850955 TTGAACCGGA
Statistics
Matches: 91, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
94 9 0.10
95 82 0.90
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (94 bp):
GTATCGATACTAACAACATCGAACCTAAAACTGATATCGATACCGGAAAGGAGTATCAGTACCAT
AGTATAGAAGTATCGATACCAGGGTAAGA
Found at i:3851536 original size:24 final size:24
Alignment explanation
Indices: 3851526--3851640 Score: 178
Period size: 24 Copynumber: 4.8 Consensus size: 24
3851516 CATAATTCAC
* *
3851526 GTCAAGTATCATATCAAAATCCAT
1 GTCAAGTATCAGATCAGAATCCAT
*
3851550 GTCAAGTATCAGATCAGAATCCAA
1 GTCAAGTATCAGATCAGAATCCAT
*
3851574 GTCAAGTATCAGATCATAATCCAT
1 GTCAAGTATCAGATCAGAATCCAT
3851598 GTC-AGATATCAGATCAGAATCCAT
1 GTCAAG-TATCAGATCAGAATCCAT
3851622 GTCAAGTATCAGATCAGAA
1 GTCAAGTATCAGATCAGAA
3851641 ATCAAATAGA
Statistics
Matches: 83, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
23 2 0.02
24 79 0.95
25 2 0.02
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.25
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAT
Found at i:3851657 original size:48 final size:48
Alignment explanation
Indices: 3851502--3851657 Score: 138
Period size: 48 Copynumber: 3.2 Consensus size: 48
3851492 AAACGGATAT
* * * * * * *
3851502 ATCAAAAATCAAATCATAATTCACGTCAAGTATCATATCAAAATCCAT
1 ATCAGAAATCAGATCAGAATCCAAGTCAAGTATCAGATCAAAATCCAA
* * * *
3851550 GTCA-AGTATCAGATCAGAATCCAAGTCAAGTATCAGATCATAATCCAT
1 ATCAGA-AATCAGATCAGAATCCAAGTCAAGTATCAGATCAAAATCCAA
* * *
3851598 GTCAGATATCAGATCAGAATCCATGTCAAGTATCAGATCAGAAAT-CAA
1 ATCAGAAATCAGATCAGAATCCAAGTCAAGTATCAGATCA-AAATCCAA
3851646 AT-AGAAAATCAG
1 ATCAG-AAATCAG
3851658 GTAAAATATT
Statistics
Matches: 91, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
47 3 0.03
48 84 0.92
49 4 0.04
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.24
Consensus pattern (48 bp):
ATCAGAAATCAGATCAGAATCCAAGTCAAGTATCAGATCAAAATCCAA
Done.