Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2
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: 5794061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 68655 characters in sequence are not A, C, G, or T
File 6 of 38
Found at i:897510 original size:85 final size:84
Alignment explanation
Indices: 897305--897718 Score: 431
Period size: 85 Copynumber: 4.8 Consensus size: 84
897295 ACGTTCATAT
* * * *
897305 TTTCAAAGCCCATAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAGC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCTCTTCAAAGC
* * *
897370 CCACAAGTTAGTGGCATCT
66 CCACAAGTCAATGGCATCC
* * * *
897389 TTTCACAGCCCACAAGTTAGTGGTATCCTTTCAAAGCCCACAAGTCAGTGGCATCTCTTCAAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCTCTTC-AAAG
* *
897454 ACCACATGTCAATGGCATCC
65 CCCACAAGTCAATGGCATCC
* * * * *
897474 TTTCAAAGCCTACAAGTCAGTGACACCCTTTCAAAGCCCATATAAATTAGTGGCA-C-CTTCCAA
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCC--ACAAGTCAGTGGCATCTCTT-CAA
*
897537 AGCCCACAAGTCAATGGCACCC
63 AGCCCACAAGTCAATGGCATCC
* * * *
897559 TTTTAAAGCCCACAAGTTAGTGGTA-CCTCTTCAAAGCCCACAAGTCAGTGGCACCAT-TTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT-TTCAAAGCCCACAAGTCAGTGGCATC-TCTTCAAA
* *
897622 GCCCACAAGTTAGTGGCATACCC
64 GCCCACAAGTCAATGGCAT--CC
* ** *
897645 TTTCAAAGCCCACAAGTCGGTGGCACCCTTTCAAAGCCCACACAAGTTGGTGGCAACTCTTTTCA
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG-CC-CACAAGTCAGTGGC-A-TCTCTTCA
897710 AAGCCCACA
62 AAGCCCACA
897719 CAAGTTAGTG
Statistics
Matches: 271, Mismatches: 43, Indels: 26
0.80 0.13 0.08
Matches are distributed among these distances:
83 11 0.04
84 76 0.28
85 108 0.40
86 32 0.12
87 16 0.06
88 12 0.04
89 2 0.01
90 14 0.05
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.24
Consensus pattern (84 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCTCTTCAAAGC
CCACAAGTCAATGGCATCC
Found at i:898672 original size:20 final size:20
Alignment explanation
Indices: 898647--898697 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
898637 TTTTACCTAG
* * *
898647 ATGTATCGATGCATTTTTCA
1 ATGTATCGATACATGTATCA
*
898667 ATGTATCGATACATGTATGA
1 ATGTATCGATACATGTATCA
898687 ATGTATCGATA
1 ATGTATCGATA
898698 TATTCTGTCT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATGTATCA
Found at i:898743 original size:20 final size:20
Alignment explanation
Indices: 898718--898792 Score: 141
Period size: 20 Copynumber: 3.8 Consensus size: 20
898708 TTTTACCTAG
*
898718 ATGTATTGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
898738 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
898758 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
898778 ATGTATCGATACATT
1 ATGTATCGATACATT
898793 CTATCCTTTT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 54 1.00
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.45
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:898761 original size:71 final size:71
Alignment explanation
Indices: 898636--898768 Score: 221
Period size: 71 Copynumber: 1.9 Consensus size: 71
898626 AAAAGTTACA
* *
898636 TTTTTACCTAGATGTATCGATGCATTTTTCAATGTATCGATACATGTATGAATGTATCGATATAT
1 TTTTTACCTAGATGTATCGATACATTTTTCAATGTATCGATACATGTATCAATGTATCGATATAT
898701 TCTGTC
66 TCTGTC
* * *
898707 TTTTTACCTAGATGTATTGATACATTTTTCAATGTATCGATACATTTTTCAATGTATCGATA
1 TTTTTACCTAGATGTATCGATACATTTTTCAATGTATCGATACATGTATCAATGTATCGATA
898769 CATTTTTCAA
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
71 57 1.00
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.45
Consensus pattern (71 bp):
TTTTTACCTAGATGTATCGATACATTTTTCAATGTATCGATACATGTATCAATGTATCGATATAT
TCTGTC
Found at i:898803 original size:91 final size:91
Alignment explanation
Indices: 898647--898842 Score: 277
Period size: 91 Copynumber: 2.2 Consensus size: 91
898637 TTTTACCTAG
* * * * *
898647 ATGTATCGATGCATTTTTCAATGTATCGATACATGTATGAATGTATCGATATATTCTGTCTTTTT
1 ATGTATCGATACATTTTTCAATGTATCGATACATGTATCAATGTATCGATACATTCTATCCTTTT
* * **
898712 ACCTAGATGTATTGATACATT-TTTCA
66 ACCCAGATGTATCGATACATTAAAT-A
* *
898738 ATGTATCGATACATTTTTCAATGTATCGATACATTTTTCAATGTATCGATACATTCTATCCTTTT
1 ATGTATCGATACATTTTTCAATGTATCGATACATGTATCAATGTATCGATACATTCTATCCTTTT
898803 ACCCAGATGTATCGATACATTAAATA
66 ACCCAGATGTATCGATACATTAAATA
898829 ATGTATCGATACAT
1 ATGTATCGATACAT
898843 CTAGTTAAAA
Statistics
Matches: 93, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
91 92 0.99
92 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (91 bp):
ATGTATCGATACATTTTTCAATGTATCGATACATGTATCAATGTATCGATACATTCTATCCTTTT
ACCCAGATGTATCGATACATTAAATA
Found at i:906664 original size:13 final size:13
Alignment explanation
Indices: 906646--906671 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
906636 CAATTTTTTG
906646 TGTATCGATACAT
1 TGTATCGATACAT
906659 TGTATCGATACAT
1 TGTATCGATACAT
906672 ACTTTGGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:906668 original size:33 final size:33
Alignment explanation
Indices: 906626--906690 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
906616 TACAAGCCAA
* *
906626 TGTATCGATACA-ATTTTTTGTGTATCGATACAT
1 TGTATCGATACATA-CTTTGGTGTATCGATACAT
906659 TGTATCGATACATACTTTGGTGTATCGATACA
1 TGTATCGATACATACTTTGGTGTATCGATACA
906691 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATACTTTGGTGTATCGATACAT
Found at i:909223 original size:13 final size:13
Alignment explanation
Indices: 909207--909243 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
909197 AATCCCCCTA
*
909207 TATCGATACAGTG
1 TATCGATACAATG
909220 TATCGATACAATG
1 TATCGATACAATG
909233 TATCGATACAA
1 TATCGATACAA
909244 AGAAAAATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (13 bp):
TATCGATACAATG
Found at i:913185 original size:21 final size:21
Alignment explanation
Indices: 913156--913200 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
913146 AAGTTTTTAT
*
913156 TTTTCTTAG-CTAATTCATTA
1 TTTTCTTAGCCAAATTCATTA
*
913176 TTTTCATTAGCCAAATTCTTTA
1 TTTTC-TTAGCCAAATTCATTA
913198 TTT
1 TTT
913201 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 4 0.19
22 12 0.57
ACGTcount: A:0.24, C:0.16, G:0.04, T:0.56
Consensus pattern (21 bp):
TTTTCTTAGCCAAATTCATTA
Found at i:915439 original size:13 final size:13
Alignment explanation
Indices: 915421--915446 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
915411 CAATTTTTTG
915421 TGTATCGATACAT
1 TGTATCGATACAT
915434 TGTATCGATACAT
1 TGTATCGATACAT
915447 ACTTTGGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:915457 original size:33 final size:33
Alignment explanation
Indices: 915401--915465 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
915391 TACAAGCCAA
* * *
915401 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATCTTTGGTGTATAGATACAT
915434 TGTATCGATAC-ATACTTTGGTGTATAGATACA
1 TGTATCGATACAAT-CTTTGGTGTATAGATACA
915466 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 2 0.07
33 26 0.93
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATCTTTGGTGTATAGATACAT
Found at i:916944 original size:22 final size:24
Alignment explanation
Indices: 916891--916944 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 24
916881 TCCCTGCATA
916891 GCTTAATGGCATTCATTCAACATTT
1 GCTTAAT-GCATTCATTCAACATTT
* * *
916916 TCATAAT-CATTCA-TCAATATTT
1 GCTTAATGCATTCATTCAACATTT
916938 GCTTAAT
1 GCTTAAT
916945 TACTAAGAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
22 13 0.54
23 6 0.25
25 5 0.21
ACGTcount: A:0.31, C:0.19, G:0.07, T:0.43
Consensus pattern (24 bp):
GCTTAATGCATTCATTCAACATTT
Found at i:923675 original size:91 final size:91
Alignment explanation
Indices: 923520--923726 Score: 342
Period size: 91 Copynumber: 2.3 Consensus size: 91
923510 ATTTAACTAG
* * *
923520 ATGTATCGATACATCTGGGTAAAAAGACAGAATGTATCGATACATTGAAGAATGTATCGATACAT
1 ATGTATCGATACATCTAGGTAAAAAGACAGAATGTATCGATACATTAAAGAATGTATCAATACAT
* * *
923585 TCATACATGTATTGATTCATTGAAAA
66 TCATACATGTATCGATACATTAAAAA
* *
923611 ATGTATTGATACATCTAGGTAAAATGACAGAATGTATCGATACATTAAAGAATGTATCAATACAT
1 ATGTATCGATACATCTAGGTAAAAAGACAGAATGTATCGATACATTAAAGAATGTATCAATACAT
923676 TCATACATGTATCGATACATTAAAAA
66 TCATACATGTATCGATACATTAAAAA
923702 ATGTATCGATACATCTAGGTAAAAA
1 ATGTATCGATACATCTAGGTAAAAA
923727 TGTGACTTTT
Statistics
Matches: 106, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
91 106 1.00
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (91 bp):
ATGTATCGATACATCTAGGTAAAAAGACAGAATGTATCGATACATTAAAGAATGTATCAATACAT
TCATACATGTATCGATACATTAAAAA
Found at i:923729 original size:24 final size:20
Alignment explanation
Indices: 923550--923715 Score: 107
Period size: 20 Copynumber: 7.8 Consensus size: 20
923540 AAAAAGACAG
* *
923550 AATGTATCGATACATTGAAG
1 AATGTATCGATACATTAAAA
* *
923570 AATGTATCGATACATTCATA
1 AATGTATCGATACATTAAAA
* * * *
923590 CATGTATTGATTCATTGAAA
1 AATGTATCGATACATTAAAA
*
923610 AATGTATTGATACATCTAGGTAAAATGACA
1 AATGTATCGATACA--T---T--AA--A-A
*
923640 GAATGTATCGATACATTAAAG
1 -AATGTATCGATACATTAAAA
* * *
923661 AATGTATCAATACATTCATA
1 AATGTATCGATACATTAAAA
*
923681 CATGTATCGATACATTAAAA
1 AATGTATCGATACATTAAAA
923701 AATGTATCGATACAT
1 AATGTATCGATACAT
923716 CTAGGTAAAA
Statistics
Matches: 113, Mismatches: 22, Indels: 22
0.72 0.14 0.14
Matches are distributed among these distances:
20 90 0.80
22 2 0.02
24 2 0.02
25 1 0.01
26 1 0.01
27 1 0.01
29 2 0.02
30 1 0.01
31 13 0.12
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTAAAA
Found at i:924568 original size:28 final size:28
Alignment explanation
Indices: 924520--924672 Score: 220
Period size: 28 Copynumber: 5.5 Consensus size: 28
924510 CACCGACTTG
* *
924520 TGTGGGCTTTAAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
924548 TGTGGGTTTTGAGAAGG-TGCCTCTGACT
1 TGTGGGCTTTGA-AAGGATGCCACTGACT
*
924576 TGTAGGCTTTG-AAGAGATGCCACTGACT
1 TGTGGGCTTTGAAAG-GATGCCACTGACT
924604 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
924632 TGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
924660 TGTGGGCTTTGAA
1 TGTGGGCTTTGAA
924673 GAGATGAACT
Statistics
Matches: 112, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
26 3 0.03
27 1 0.01
28 101 0.90
29 7 0.06
ACGTcount: A:0.22, C:0.16, G:0.31, T:0.31
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:924622 original size:84 final size:86
Alignment explanation
Indices: 924488--924678 Score: 253
Period size: 84 Copynumber: 2.2 Consensus size: 86
924478 CACCAACTTG
* *
924488 TGTAGGCTTTAGAGAAAGTTGCCACCGACTTGTGTGGGCTTTAAAAGGATGCCACTAACTTGTGG
1 TGTAGGCTTT-GA-AGAGATGCCACCGACTTGTGTGGGCTTTAAAAGGATGCCACTAACTTGTGG
* * *
924553 GTTTTGAGAAGG-TGCCTCTGACT
64 GCTTTGA-AAGGATGCCACTAACT
* * *
924576 TGTAGGCTTTGAAGAGATGCCACTGAC-T-TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGC
1 TGTAGGCTTTGAAGAGATGCCACCGACTTGTGTGGGCTTTAAAAGGATGCCACTAACTTGTGGGC
924639 TTTGAAAGGATGCCACTAACT
66 TTTGAAAGGATGCCACTAACT
*
924660 TGTGGGCTTTGAAGAGATG
1 TGTAGGCTTTGAAGAGATG
924679 AACTTTCCAG
Statistics
Matches: 93, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
83 4 0.04
84 64 0.69
85 1 0.01
86 12 0.13
87 2 0.02
88 10 0.11
ACGTcount: A:0.23, C:0.16, G:0.31, T:0.30
Consensus pattern (86 bp):
TGTAGGCTTTGAAGAGATGCCACCGACTTGTGTGGGCTTTAAAAGGATGCCACTAACTTGTGGGC
TTTGAAAGGATGCCACTAACT
Found at i:925893 original size:17 final size:17
Alignment explanation
Indices: 925873--925926 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 17
925863 TCTGGACCCC
925873 TTTTTTTTATTGTTTGT
1 TTTTTTTTATTGTTTGT
*
925890 TTTTTTAT-TTGTTT-T
1 TTTTTTTTATTGTTTGT
* *
925905 GTTTGTTTATT-TTTGT
1 TTTTTTTTATTGTTTGT
925921 TTTTTT
1 TTTTTT
925927 GGGTACGAAG
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
15 9 0.31
16 13 0.45
17 7 0.24
ACGTcount: A:0.06, C:0.00, G:0.11, T:0.83
Consensus pattern (17 bp):
TTTTTTTTATTGTTTGT
Found at i:925925 original size:21 final size:19
Alignment explanation
Indices: 925873--925925 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 19
925863 TCTGGACCCC
*
925873 TTTTTTTTATTGTTTGTTT
1 TTTTTTTTTTTGTTTGTTT
925892 TTTTATTTGTTTTGTTTGTTT
1 TTTT-TTT-TTTTGTTTGTTT
925913 ATTTTTGTTTTTT
1 -TTTTT-TTTTTT
925926 TGGGTACGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
19 4 0.14
20 3 0.10
21 16 0.55
22 6 0.21
ACGTcount: A:0.06, C:0.00, G:0.11, T:0.83
Consensus pattern (19 bp):
TTTTTTTTTTTGTTTGTTT
Found at i:930261 original size:13 final size:13
Alignment explanation
Indices: 930243--930267 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
930233 CATAAAGTGT
930243 TGTATCGATACAA
1 TGTATCGATACAA
930256 TGTATCGATACA
1 TGTATCGATACA
930268 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:930265 original size:33 final size:33
Alignment explanation
Indices: 930223--930289 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
930213 TTCAACGATT
930223 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
930256 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
930289 T
1 T
930290 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:930348 original size:13 final size:13
Alignment explanation
Indices: 930330--930355 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
930320 ATTACTCAAA
930330 TGTATCGATACAT
1 TGTATCGATACAT
930343 TGTATCGATACAT
1 TGTATCGATACAT
930356 CGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:930491 original size:52 final size:52
Alignment explanation
Indices: 930363--930479 Score: 198
Period size: 52 Copynumber: 2.2 Consensus size: 52
930353 CATCGATCTT
* *
930363 TGTATCGATACATGCAGGCAAATTTGCCTAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
930415 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
930467 TGTATCAATACAT
1 TGTATCGATACAT
930480 ACAGATAAAT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 61 1.00
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:943259 original size:52 final size:52
Alignment explanation
Indices: 943189--943309 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
943179 GAAAATTTAT
*
943189 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
943241 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
943293 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
943310 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:943322 original size:52 final size:51
Alignment explanation
Indices: 943189--943329 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
943179 GAAAATTTAT
943189 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
943241 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
943293 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
943330 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:943336 original size:13 final size:13
Alignment explanation
Indices: 943318--943342 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
943308 CAAAGATCAG
943318 TGTATCGATACAA
1 TGTATCGATACAA
943331 TGTATCGATACA
1 TGTATCGATACA
943343 TGTGAGTCCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:943470 original size:181 final size:179
Alignment explanation
Indices: 943166--943508 Score: 668
Period size: 181 Copynumber: 1.9 Consensus size: 179
943156 AGGAAGAAAA
943166 AGTCCCGAAATATGAAAATTTATCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGG
1 AGTCCCGAAATATGAAAATTTATCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGG
943231 GCAAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCCTG
66 GCAAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCCTG
943296 CATGTATCGATACAAAGATCAGTGTATCGATACAATGTATCGATACATGTG
131 CATGTATCGATACAAAGATCA--GTATCGATACAATGTATCGATACATGTG
943347 AGTCCCGAAATATGAAAATTTATCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGG
1 AGTCCCGAAATATGAAAATTTATCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGG
943412 GCAAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCCTG
66 GCAAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCCTG
943477 CATGTATCGATACAAAGATCAGTATCGATACA
131 CATGTATCGATACAAAGATCAGTATCGATACA
943509 TCTGGGCAAA
Statistics
Matches: 162, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
179 11 0.07
181 151 0.93
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (179 bp):
AGTCCCGAAATATGAAAATTTATCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGG
GCAAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCCTG
CATGTATCGATACAAAGATCAGTATCGATACAATGTATCGATACATGTG
Found at i:943523 original size:50 final size:51
Alignment explanation
Indices: 943370--943560 Score: 271
Period size: 52 Copynumber: 3.7 Consensus size: 51
943360 GAAAATTTAT
*
943370 CTGCATGTATCGATACATTTA-AT-AGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA--AAGATCA-TGTATCGATACATCTGGGCAAATTTGC
*** *
943422 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-AAGATCATGTATCGATACATCTGGGCAAATTTGC
943474 CTGCATGTATCGATACAAAGATCA-GTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACAAAGATCATGTATCGATACATCTGGGCAAATTTGC
943524 CTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACAAAGATCA-TGTATCGATACA
943561 ATGTATCGAT
Statistics
Matches: 130, Mismatches: 5, Indels: 8
0.91 0.03 0.06
Matches are distributed among these distances:
50 50 0.38
51 5 0.04
52 74 0.57
53 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (51 bp):
CTGCATGTATCGATACAAAGATCATGTATCGATACATCTGGGCAAATTTGC
Found at i:943567 original size:13 final size:13
Alignment explanation
Indices: 943549--943607 Score: 58
Period size: 13 Copynumber: 4.9 Consensus size: 13
943539 CAAAGATCAG
943549 TGTATCGATACAA
1 TGTATCGATACAA
943562 TGTATCGATAC-A
1 TGTATCGATACAA
943574 T-TA-C--T-CACA
1 TGTATCGATACA-A
*
943583 TGTATCGATACAT
1 TGTATCGATACAA
943596 TGTATCGATACA
1 TGTATCGATACA
943608 CTGATCTTTG
Statistics
Matches: 38, Mismatches: 1, Indels: 14
0.72 0.02 0.26
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 2 0.05
10 3 0.08
11 3 0.08
12 2 0.05
13 24 0.63
14 2 0.05
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:943628 original size:33 final size:32
Alignment explanation
Indices: 943529--943628 Score: 110
Period size: 33 Copynumber: 3.0 Consensus size: 32
943519 TTTGCCTGCA
* * *
943529 TGTATCGATACAAAGATCAGTGTATCGATACAA
1 TGTATCGATAC-ATGATCAATGTATCGATACAT
*
943562 TGTATCGATACATTACTCACATGTATCGATACAT
1 TGTATCGATACATGA-TCA-ATGTATCGATACAT
**
943596 TGTATCGATACACTGATCTTTGTATCGATACAT
1 TGTATCGATACA-TGATCAATGTATCGATACAT
943629 GCAGGCAAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
32 2 0.04
33 27 0.47
34 26 0.46
35 2 0.04
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34
Consensus pattern (32 bp):
TGTATCGATACATGATCAATGTATCGATACAT
Found at i:943744 original size:52 final size:52
Alignment explanation
Indices: 943616--943736 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
943606 CACTGATCTT
*
943616 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
943668 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
943720 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
943737 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:951864 original size:11 final size:11
Alignment explanation
Indices: 951850--951886 Score: 65
Period size: 11 Copynumber: 3.3 Consensus size: 11
951840 AAAAAGAAAC
951850 AAAACAAAAAA
1 AAAACAAAAAA
951861 AAAACAAAAAAA
1 AAAAC-AAAAAA
951873 AAAACAAAAAA
1 AAAACAAAAAA
951884 AAA
1 AAA
951887 GGGAAAAACC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 14 0.56
12 11 0.44
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAACAAAAAA
Found at i:951872 original size:12 final size:12
Alignment explanation
Indices: 951850--951886 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
951840 AAAAAGAAAC
951850 AAAAC-AAAAAA
1 AAAACAAAAAAA
951861 AAAACAAAAAAA
1 AAAACAAAAAAA
951873 AAAACAAAAAAA
1 AAAACAAAAAAA
951885 AA
1 AA
951887 GGGAAAAACC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 5 0.20
12 20 0.80
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAACAAAAAAA
Found at i:951885 original size:16 final size:16
Alignment explanation
Indices: 951839--951886 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
951829 GTTCTTTTCC
* *
951839 AAAAAAGAAACAAAAC
1 AAAAAAAAAACAAAAA
951855 AAAAAAAAAACAAAAA
1 AAAAAAAAAACAAAAA
951871 AAAAAACAAAA-AAAAA
1 AAAAAA-AAAACAAAAA
951887 GGGAAAAACC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 25 0.86
17 4 0.14
ACGTcount: A:0.90, C:0.08, G:0.02, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAACAAAAA
Found at i:951894 original size:1 final size:1
Alignment explanation
Indices: 951839--951886 Score: 51
Period size: 1 Copynumber: 48.0 Consensus size: 1
951829 GTTCTTTTCC
* * * * *
951839 AAAAAAGAAACAAAACAAAAAAAAAACAAAAAAAAAAACAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
951887 GGGAAAAACC
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.90, C:0.08, G:0.02, T:0.00
Consensus pattern (1 bp):
A
Found at i:951894 original size:23 final size:23
Alignment explanation
Indices: 951841--951886 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 23
951831 TCTTTTCCAA
951841 AAAAGAAACAAAACAAAAAAAAAAC
1 AAAA-AAA-AAAACAAAAAAAAAAC
951866 AAAAAAAAAAACAAAAAAAAA
1 AAAAAAAAAAACAAAAAAAAA
951887 GGGAAAAACC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 14 0.67
24 3 0.14
25 4 0.19
ACGTcount: A:0.89, C:0.09, G:0.02, T:0.00
Consensus pattern (23 bp):
AAAAAAAAAAACAAAAAAAAAAC
Found at i:952900 original size:31 final size:33
Alignment explanation
Indices: 952862--952978 Score: 109
Period size: 32 Copynumber: 3.7 Consensus size: 33
952852 ATAAAAAAAA
*
952862 TCCACGACTCAGTGGCAATC-TCTGC-TCAAAG
1 TCCACGACTCAGTGGCAATCTTCTCCTTCAAAG
* *
952893 TCCACGACTCAGTGGC-ATCTTTTCCTTTAAAG
1 TCCACGACTCAGTGGCAATCTTCTCCTTCAAAG
* *
952925 TCCACGACTTAGTGGC-ATCCTT-TTCTTCAAAG
1 TCCACGACTCAGTGGCAAT-CTTCTCCTTCAAAG
* * * *
952957 CCCACAACTCCGTGGCACTCTT
1 TCCACGACTCAGTGGCAATCTT
952979 TTTCCCTTTT
Statistics
Matches: 71, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
30 3 0.04
31 19 0.27
32 45 0.63
33 4 0.06
ACGTcount: A:0.22, C:0.32, G:0.16, T:0.29
Consensus pattern (33 bp):
TCCACGACTCAGTGGCAATCTTCTCCTTCAAAG
Found at i:953030 original size:71 final size:69
Alignment explanation
Indices: 952889--953759 Score: 942
Period size: 71 Copynumber: 12.5 Consensus size: 69
952879 ATCTCTGCTC
* * * * * **
952889 AAAGTCCACGACTCAGTGGCA-TC-TTTTCC-TTTAAAGTCCACGACTTAGTGGCATCC-TTTT-
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCA-CCTTTTTC
*
952949 C-TTC
65 CTTTT
952953 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTT-CCTTTT-AAAGCCCACAACTCCGTGGCACCTTTTT
*
953018 TCTTTT
64 CCTTTT
* * * *
953024 AAAGCCCACAACTCCGTGGCACTCTTTTCCCTTTT-AAGTCCACAACTCCGTGGCATCTTTCTCC
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACCTTT-TTC
*
953088 CTTCCT
65 CTT-TT
* * * *
953094 AAAGCCCACACAAGTCGGTGGCAAC-CTTCTT-CTTTTCAAAGCCCACAACTCCGTGGCACCTTC
1 AAAG-CC-CACAACTCCGTGGC-ACTCTTTTTCCTTTT-AAAGCCCACAACTCCGTGGCACCTTT
953157 TT-CTTTT
62 TTCCTTTT
**
953164 AAAGCCCACAACTTTGTGGCACTCTTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTT
1 AAAGCCCACAACTCCGTGGCACTC-TTTTTCCTTTT-AAAGCCCACAACTCCGTGGCACCTTTTT
*
953229 CCGTTT
64 CCTTTT
* *
953235 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT-AAGTCCACAACTCCGTGGCATCTTTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTT-CCTTTTAAAGCCCACAACTCCGTGGCA-CCTTTTT
953299 CCTTTT
64 CCTTTT
*
953305 CAAAGCCCACAACTCCGTGGCAC-CTTTTTCCGTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 -AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCAC-CTTTTT
953369 CCCTTTT
64 -CCTTTT
* *
953376 CAAAGCCCACAACTCCGTGGCAC-CTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTC
1 -AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCAC-CTTTTT
953440 CCTTTT
64 CCTTTT
* * * * *
953446 -AAGTCCACAACTCCGTGGCA-TCTTTCTCCCTTCCTAAAGCCCACACAAGTCGGTGGCAACCTT
1 AAAGCCCACAACTCCGTGGCACTCTTT-TTCCTT-TTAAAG-CC-CACAACTCCGTGGC-ACCTT
*
953509 CTT-CTTTT
61 TTTCCTTTT
* **
953517 CAAAGCCCACAACTCCGTGGCAC-CTTCTT-CTTTTAAAGCCCACAACTTTGTGGCACTCTTTTT
1 -AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCAC-C-TTTT
953580 TCCTTTT
63 TCCTTTT
*
953587 CAAAGCCCACAACTCCGTGGCAC-CTTTTTCCGTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 -AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCAC-CTTTTT
953651 CCCTTTT
64 -CCTTTT
953658 CAAAGCCCACAACTCCGTGGCACT-TTTTT-CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 -AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCAC-CTTTTT
953721 CCCTTTT
64 -CCTTTT
* *
953728 -AAGTCCACAACTCTGTGGCA-TCTTTTTTCCTT
1 AAAGCCCACAACTCCGTGGCACTC-TTTTTCCTT
953760 CCCAAAGCCC
Statistics
Matches: 701, Mismatches: 63, Indels: 80
0.83 0.07 0.09
Matches are distributed among these distances:
64 18 0.03
65 2 0.00
66 4 0.01
67 7 0.01
68 93 0.13
69 71 0.10
70 193 0.28
71 231 0.33
72 34 0.05
73 48 0.07
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.33
Consensus pattern (69 bp):
AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCC
TTTT
Found at i:953579 original size:282 final size:284
Alignment explanation
Indices: 952950--953794 Score: 1208
Period size: 282 Copynumber: 3.0 Consensus size: 284
952940 CATCCTTTTC
952950 TTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCAC-CT
1 TTCAAAGCCCACAACTCCGTGGCACTCTTTTT-CCTTTT-AAAGCCCACAACTCCGTGGCACTCT
* * *
953014 TTTTT-CTTTT-AAAGCCCACAACTCCGTGGCA-CTCTTTTCCCTTTTAAGTCCACAACTCCGTG
64 TTTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCT-TTTTCCGTTTAAAGCCCACAACTCCGTG
* * * * *
953076 GCA-TCTTTCTCCC-TTCCTAAAGCCCACACAAGTCGGTGGCAACC-TTCTTCTTTTCAAAGCCC
128 GCACTCTTTTTCCCTTTTC-AAAG-CC-CACAACTCCGTGGC-ACCTTTTTTCTTTT-AAAGCCC
* * *
953138 ACAACTCCGTGGCAC-CTTCTT--CTTTTAAAGCCCACAACTTTGTGGCACTCTTTTTTCCTT-T
188 ACAACTCCGTGGCACTCTT-TTCCCTTTT-AAGTCCACAACTCTGTGGCA-TCTTTTTTCCTTCC
* * *
953199 TCAAAG-CC-CACAACTCCGTGGC-ACCTTTTTCCGT
250 T-AAAGCCCACACAAGTCGGTGGCAACCTTCTT-CGT
*
953233 TT-AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT-AAGTCCACAACTCCGTGGCA-TCTT
1 TTCAAAGCCCACAACTCCGTGGCACTCTTTTT-CCTTTTAAAGCCCACAACTCCGTGGCACTCTT
953295 TTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCCGTTTAAAGCCCACAACTCCGTGGC
65 TTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCCGTTTAAAGCCCACAACTCCGTGGC
953360 ACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTTCTTTTAAAGCCCACAACTC
130 ACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTTCTTTTAAAGCCCACAACTC
* * *
953425 CGTGGCACTCTTTTCCCTTTTAAGTCCACAACTCCGTGGCATCTTTCTCCCTTCCTAAAGCCCAC
195 CGTGGCACTCTTTTCCCTTTTAAGTCCACAACTCTGTGGCATCTTTTTTCCTTCCTAAAGCCCAC
*
953490 ACAAGTCGGTGGCAACCTTCTTCTT
260 ACAAGTCGGTGGCAACCTTCTTCGT
* **
953515 TTCAAAGCCCACAACTCCGTGGCAC-CTTCTT-CTTTTAAAGCCCACAACTTTGTGGCACTCTTT
1 TTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACTCTTT
953578 TTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCCGTTTAAAGCCCACAACTCCGTGGCA
66 TTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCCGTTTAAAGCCCACAACTCCGTGGCA
953643 CTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCA-CTTTTTTCTTTTAAAGCCCACAACTCC
131 CTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTTCTTTTAAAGCCCACAACTCC
*
953707 GTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCTGTGGCATCTTTTTTCCTTCCCAAAGCCCAC
196 GTGGCACTC-TTTTCCCTTTTAAGTCCACAACTCTGTGGCATCTTTTTTCCTTCCTAAAGCCCAC
953772 ACAAGTCGGTGGCAACCTTCTTC
260 ACAAGTCGGTGGCAACCTTCTTC
953795 CAAAGCCCAC
Statistics
Matches: 517, Mismatches: 27, Indels: 37
0.89 0.05 0.06
Matches are distributed among these distances:
280 72 0.14
281 102 0.20
282 294 0.57
283 46 0.09
284 3 0.01
ACGTcount: A:0.20, C:0.35, G:0.12, T:0.33
Consensus pattern (284 bp):
TTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACTCTTT
TTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCCGTTTAAAGCCCACAACTCCGTGGCA
CTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTTCTTTTAAAGCCCACAACTCC
GTGGCACTCTTTTCCCTTTTAAGTCCACAACTCTGTGGCATCTTTTTTCCTTCCTAAAGCCCACA
CAAGTCGGTGGCAACCTTCTTCGT
Found at i:953721 original size:387 final size:386
Alignment explanation
Indices: 952887--953772 Score: 1525
Period size: 387 Copynumber: 2.3 Consensus size: 386
952877 CAATCTCTGC
* * * * * * ** *
952887 TCAAAGTCCACGACTCAGTGGCA-TCTTTTCCTTTAAAGTCCACGACTTAGTGGCA-TCCTTTT-
1 TCAAAGTCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
*
952949 CTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCT
66 CTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCT
953014 TTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTCCCTTTTAAGTCCACAACTCCGTGGCA
131 TTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTCCCTTTTAAGTCCACAACTCCGTGGCA
953079 TCTTTCTCCCTTCCTAAAGCCCACACAAGTCGGTGGCAACCTTCTTCTTTTCAAAGCCCACAACT
196 TCTTTCTCCCTTCCTAAAGCCCACACAAGTCGGTGGCAACCTTCTTCTTTTCAAAGCCCACAACT
953144 CCGTGGCACCTTCTTCTTTTAAAGCCCACAACTTTGTGGCACTCTTTTTTCCTTTTCAAAGCCCA
261 CCGTGGCACCTTCTTCTTTTAAAGCCCACAACTTTGTGGCACTCTTTTTTCCTTTTCAAAGCCCA
953209 CAACTCCGTGGCACCTTTTTCCGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTT
326 CAACTCCGTGGCACCTTTTTCCGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTT
953270 T--AAGTCCACAACTCCGTGGCATCTTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCAC-CTTT
1 TCAAAGTCCACAACTCCGTGGCA-CTTTTTT-CTTTT-AAAGCCCACAACTCCGTGGCACTCTTT
953332 TTCCGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGC
63 TTCC-TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGC
953397 ACCTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTCCCTTTTAAGTCCACAACTCCGT
127 ACCTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTCCCTTTTAAGTCCACAACTCCGT
953462 GGCATCTTTCTCCCTTCCTAAAGCCCACACAAGTCGGTGGCAACCTTCTTCTTTTCAAAGCCCAC
192 GGCATCTTTCTCCCTTCCTAAAGCCCACACAAGTCGGTGGCAACCTTCTTCTTTTCAAAGCCCAC
953527 AACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTTTGTGGCACTCTTTTTTCCTTTTCAAAG
257 AACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTTTGTGGCACTCTTTTTTCCTTTTCAAAG
953592 CCCACAACTCCGTGGCACCTTTTTCCGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTT
322 CCCACAACTCCGTGGCACCTTTTTCCGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTT
*
953657 TCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
1 TCAAAGTCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT-
* * * * **
953722 CCTTTTAAGTCCACAACTCTGTGGCA-TCTTTTTTCCTTCCCAAAGCCCACA
65 CCTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACA
953773 CAAGTCGGTG
Statistics
Matches: 475, Mismatches: 17, Indels: 19
0.93 0.03 0.04
Matches are distributed among these distances:
381 18 0.04
383 6 0.01
384 4 0.01
385 22 0.05
386 45 0.09
387 352 0.74
388 9 0.02
389 19 0.04
ACGTcount: A:0.20, C:0.35, G:0.12, T:0.33
Consensus pattern (386 bp):
TCAAAGTCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
CTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCT
TTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTCCCTTTTAAGTCCACAACTCCGTGGCA
TCTTTCTCCCTTCCTAAAGCCCACACAAGTCGGTGGCAACCTTCTTCTTTTCAAAGCCCACAACT
CCGTGGCACCTTCTTCTTTTAAAGCCCACAACTTTGTGGCACTCTTTTTTCCTTTTCAAAGCCCA
CAACTCCGTGGCACCTTTTTCCGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTT
Found at i:953793 original size:104 final size:102
Alignment explanation
Indices: 952953--953772 Score: 644
Period size: 105 Copynumber: 7.8 Consensus size: 102
952943 CCTTTTCTTC
952953 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCAC-CTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTCCC-TTT-AAAGCCCACAACTCCGTGGCACTCTTTT
* **
953017 T-TCTT-TTAAAGCCCACAACTCCGTGGCACTCTTTTCCCTTTT
63 TCCCTTCCCAAAGCCCACAACTCCGTGGCACTC--TT--CTTTT
* * * * *
953059 -AAGTCCACAACTCCGTGGCATCTTTCTCCCTTCCTAAAGCCCACACAAGTCGGTGGCAAC-CTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCCCTT--TAAAG-CC-CACAACTCCGTGGC-ACTCTT
* **
953122 CTT--CTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
61 TTTCCCTTCCCAAAGCCCACAACTCCGTGGCA-C-TCTTCTTTT
** *
953164 AAAGCCCACAACTTTGTGGCACTCTTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCAC-CTTTT
1 AAAGCCCACAACTCCGTGGCAC-C-TTTTTCCCTTT-AAAGCCCACAACTCCGTGGCACTCTTTT
* *
953228 TCCGTT--TAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
63 TCCCTTCCCAAAGCCCACAACTCCGTGGCACTC---TT--CTTTT
* * *
953271 -AAGTCCACAACTCCGTGGCATCTTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCAC-CTTTTT
1 AAAGCCCACAACTCCGTGGCA-CCTTTTTCCCTTT-AAAGCCCACAACTCCGTGGCACTCTTTTT
* *
953334 CCGTT--TAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
64 CCCTTCCCAAAGCCCACAACTCCGTGGCACTC---TT--CTTTT
* *
953376 CAAAGCCCACAACTCCGTGGCACCTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTC-TTTTC
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCCCTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
** *
953440 CCTT--TTAAGTCCACAACTCCGTGGCA-TCTTTCTCCCTTCCT
65 CCTTCCCAAAGCCCACAACTCCGTGGCACTC-TTCT---TT--T
* * * * *
953481 AAAGCCCACACAAGTCGGTGGCAACCTTCTT-CTTTTCAAAGCCCACAACTCCGTGGCAC-CTTC
1 AAAG-CC-CACAACTCCGTGGC-ACCTTTTTCCCTTT-AAAGCCCACAACTCCGTGGCACTCTTT
** **
953544 TT--CTT-TTAAAGCCCACAACTTTGTGGCACTCTTTTTTCCTTTT
62 TTCCCTTCCCAAAGCCCACAACTCCGTGGCACTC----TT-CTTTT
*
953587 CAAAGCCCACAACTCCGTGGCACCTTTTTCCGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCCCTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
** *
953652 CCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTT
65 CCTTCCCAAAGCCCACAACTCCGTGGCAC--TCTTCTTTT
* * * *
953692 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCTGTGGCA-TCTTTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTCCCTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
953756 CCTTCCCAAAGCCCACA
65 CCTTCCCAAAGCCCACA
953773 CAAGTCGGTG
Statistics
Matches: 614, Mismatches: 52, Indels: 98
0.80 0.07 0.13
Matches are distributed among these distances:
100 2 0.00
102 5 0.01
103 5 0.01
104 119 0.19
105 234 0.38
106 107 0.17
107 102 0.17
108 32 0.05
109 2 0.00
110 4 0.01
111 2 0.00
ACGTcount: A:0.20, C:0.35, G:0.12, T:0.33
Consensus pattern (102 bp):
AAAGCCCACAACTCCGTGGCACCTTTTTCCCTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
CTTCCCAAAGCCCACAACTCCGTGGCACTCTTCTTTT
Found at i:953798 original size:33 final size:34
Alignment explanation
Indices: 953761--953826 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 34
953751 TTTTTCCTTC
953761 CCAAAGCCCACACAAGTCGGTGGCAA-CCTTCTT
1 CCAAAGCCCACACAAGTCGGTGGCAACCCTTCTT
953794 CCAAAGCCCACACAAGTCGGTGGCAACCCTTCT
1 CCAAAGCCCACACAAGTCGGTGGCAACCCTTCT
953827 AAGCCCAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 26 0.81
34 6 0.19
ACGTcount: A:0.27, C:0.38, G:0.18, T:0.17
Consensus pattern (34 bp):
CCAAAGCCCACACAAGTCGGTGGCAACCCTTCTT
Found at i:953944 original size:49 final size:49
Alignment explanation
Indices: 953826--954393 Score: 728
Period size: 49 Copynumber: 11.7 Consensus size: 49
953816 GCAACCCTTC
* *
953826 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* *
953878 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
953927 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* *
953979 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * **
954028 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGTCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
954077 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
954126 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
954175 GAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
954218 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
954267 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
954310 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC--CTT-CATCTT
* *
954362 TAAGTTCAATGTAGCTGGCCTTGAATCAGCAC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCAC
954394 GTTGACATCC
Statistics
Matches: 453, Mismatches: 45, Indels: 36
0.85 0.08 0.07
Matches are distributed among these distances:
43 77 0.17
45 2 0.00
47 1 0.00
49 253 0.56
50 5 0.01
51 2 0.00
52 113 0.25
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:954006 original size:101 final size:101
Alignment explanation
Indices: 953826--954562 Score: 904
Period size: 98 Copynumber: 7.3 Consensus size: 101
953816 GCAACCCTTC
*
953826 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
953891 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
66 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
953927 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
953992 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
66 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
* * *
954028 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG--CGTCTT-CATCTTTAAGTCCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
954090 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
66 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
* * *
954126 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA--TCTT-CATCTTGAAGTCCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
954188 GCTGGCCTTGACTCAGCACATTGGCA----C--CTT
66 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
* *
954218 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA--TCTT-CATCTTTAAGTCCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
*
954280 GCTGGCCTTGAATCAGCACATTGGCA----C--CTT
66 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
* *
954310 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
* * *
954375 GCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTT
66 GCTGGCCTTGACTCAGCACATTGGCA-CC----T-TCATCTT
* * * * *
954417 TAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCATCATT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG---C---A-C-C-TTT-TC--CATC--T
* * * * *
954482 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
52 TTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
* *
954532 TAAGTTCAATGTAGCTGGCCTTGAATCAGCA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCA
954563 CGTTGACATC
Statistics
Matches: 573, Mismatches: 32, Indels: 48
0.88 0.05 0.07
Matches are distributed among these distances:
92 131 0.23
94 4 0.01
95 42 0.07
98 140 0.24
99 4 0.01
101 136 0.24
105 1 0.00
107 35 0.06
110 1 0.00
113 1 0.00
114 1 0.00
115 31 0.05
116 4 0.01
117 2 0.00
119 4 0.01
120 1 0.00
121 35 0.06
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.33
Consensus pattern (101 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
Found at i:954237 original size:43 final size:44
Alignment explanation
Indices: 954171--954349 Score: 236
Period size: 43 Copynumber: 4.0 Consensus size: 44
954161 GGCATCTTCA
* * * *
954171 TCTTGAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCAC
1 TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
*
954215 -CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTC
1 TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA----C
* *
954262 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 -TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
954307 -CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1 TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
954350 ATTTTCCATC
Statistics
Matches: 119, Mismatches: 10, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
43 78 0.66
45 1 0.01
47 1 0.01
49 39 0.33
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (44 bp):
TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
Found at i:954243 original size:92 final size:92
Alignment explanation
Indices: 954123--954393 Score: 470
Period size: 92 Copynumber: 2.9 Consensus size: 92
954113 GCACCTTCAT
*
954123 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTGAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
*
954188 GCTGGCCTTGACTCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
954215 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
954280 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* * *
954307 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG--CATCTT-CATCTTTAAGTCCAAT
954372 GTAGCTGGCCTTGAATCAGCAC
63 GTAGCTGGCCTTGAATCAGCAC
954394 GTTGACATCC
Statistics
Matches: 171, Mismatches: 5, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
92 129 0.75
94 5 0.03
95 37 0.22
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (92 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
GCTGGCCTTGAATCAGCACATTGGCAC
Found at i:954436 original size:55 final size:55
Alignment explanation
Indices: 954307--954689 Score: 280
Period size: 55 Copynumber: 6.7 Consensus size: 55
954297 ACATTGGCAC
* *
954307 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA--CATTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
* * **
954359 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
* * * * *
954414 CTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATT-G-A-C---ATC-CTTTT-TC-TCAT
* *
954478 CATTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAT-C----T-TCAT
1 C--TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
* * **
954529 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
* * * * * *
954584 CTTTAGGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATT-G-A-C---ATC-C-TTT-T--TC-TC
954649 AT
54 AT
*
954651 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTG
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTG
954690 GCACCTTCAT
Statistics
Matches: 257, Mismatches: 42, Indels: 50
0.74 0.12 0.14
Matches are distributed among these distances:
49 36 0.14
50 1 0.00
51 5 0.02
52 37 0.14
53 1 0.00
54 7 0.03
55 64 0.25
56 2 0.01
57 2 0.01
58 3 0.01
60 2 0.01
61 6 0.02
62 6 0.02
63 6 0.02
64 6 0.02
65 1 0.00
66 36 0.14
67 36 0.14
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.37
Consensus pattern (55 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
Found at i:954596 original size:170 final size:171
Alignment explanation
Indices: 954307--954700 Score: 700
Period size: 170 Copynumber: 2.3 Consensus size: 171
954297 ACATTGGCAC
*
954307 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG--CATCTT-CATCTTTAAGTTCAAT
954372 GTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCC
63 GTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCC
954437 ATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCATCAT
128 ATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCATCAT
*
954481 -TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATGTA
*
954545 GCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAGGCCCAATATCGTTGGCCATG
66 GCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCATG
*
954610 AATCAACATATTGGCATCTTTATCACTTTTCTCATCTTCAT
131 AATCAACATATTGGCATCTTTATCACTTTTCTCATCATCAT
* *
954651 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATC
954701 ATCTCTAAAA
Statistics
Matches: 213, Mismatches: 6, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
170 123 0.58
171 52 0.24
173 38 0.18
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (171 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATGTA
GCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCATG
AATCAACATATTGGCATCTTTATCACTTTTCTCATCATCAT
Found at i:955526 original size:33 final size:33
Alignment explanation
Indices: 955489--955555 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
955479 TTCAACGATT
955489 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
955522 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
955555 T
1 T
955556 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:955527 original size:13 final size:13
Alignment explanation
Indices: 955509--955533 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
955499 CATAAAATGT
955509 TGTATCGATACAA
1 TGTATCGATACAA
955522 TGTATCGATACA
1 TGTATCGATACA
955534 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:955616 original size:13 final size:13
Alignment explanation
Indices: 955598--955622 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
955588 ATTACTCACA
955598 TGTATCGATACAT
1 TGTATCGATACAT
955611 TGTATCGATACA
1 TGTATCGATACA
955623 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:955759 original size:52 final size:52
Alignment explanation
Indices: 955631--955751 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
955621 CACTGATCTT
*
955631 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
955683 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
955735 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
955752 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:964735 original size:20 final size:20
Alignment explanation
Indices: 964709--964834 Score: 72
Period size: 20 Copynumber: 5.8 Consensus size: 20
964699 AGAAAGACAG
* *
964709 AATGTATCGATACATTCATA
1 AATGTATCGATACATTAAAA
* *
964729 CATGTATCGATTCATTAAAA
1 AATGTATCGATACATTAAAA
*
964749 AATATATCGATACATCTGGGTAAGAAGA
1 AATGTATCGATACA--T---T-A-AA-A
* *
964777 CAGAATGTATCGATACATTCATA
1 -A-A-TGTATCGATACATTAAAA
* *
964800 CATGTATCGATACATTAAAT
1 AATGTATCGATACATTAAAA
964820 AATGTATCGATACAT
1 AATGTATCGATACAT
964835 CTGGGTAAAA
Statistics
Matches: 80, Mismatches: 15, Indels: 22
0.68 0.13 0.19
Matches are distributed among these distances:
20 56 0.70
21 1 0.01
22 1 0.01
23 1 0.01
24 1 0.01
25 1 0.01
26 2 0.03
27 2 0.03
28 1 0.01
29 2 0.03
30 1 0.01
31 11 0.14
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.32
Consensus pattern (20 bp):
AATGTATCGATACATTAAAA
Found at i:964777 original size:71 final size:72
Alignment explanation
Indices: 964659--964842 Score: 309
Period size: 71 Copynumber: 2.6 Consensus size: 72
964649 ATTTAACTAG
* *
964659 ATGTATCGATACATTGAATAATGTATCGATACATTTGGGT-AGAAAGACAGAATGTATCGATACA
1 ATGTATCGATACATTAAATAATGTATCGATACATCTGGGTAAGAAAGACAGAATGTATCGATACA
964723 TTCATAC
66 TTCATAC
* * *
964730 ATGTATCGATTCATTAAAAAATATATCGATACATCTGGGTAAG-AAGACAGAATGTATCGATACA
1 ATGTATCGATACATTAAATAATGTATCGATACATCTGGGTAAGAAAGACAGAATGTATCGATACA
964794 TTCATAC
66 TTCATAC
964801 ATGTATCGATACATTAAATAATGTATCGATACATCTGGGTAA
1 ATGTATCGATACATTAAATAATGTATCGATACATCTGGGTAA
964843 AAATGTGACT
Statistics
Matches: 104, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
71 102 0.98
72 2 0.02
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (72 bp):
ATGTATCGATACATTAAATAATGTATCGATACATCTGGGTAAGAAAGACAGAATGTATCGATACA
TTCATAC
Found at i:968731 original size:84 final size:84
Alignment explanation
Indices: 968568--969681 Score: 757
Period size: 84 Copynumber: 13.1 Consensus size: 84
968558 CATTAAACTT
* * * **
968568 TTGGAGACTTTCCTTCCCTTAGTTTGCCT-GCTGGCTTTGACCCTAGAGACTTTCTTTCCCCCAG
1 TTGGAGACTTTCCTTCCCTTAGTCTGCCTATC-GGCTTTGACCCTAGAGACTTTCCTTCCCTTAG
* *
968632 TCT-ACTTATCGGCTTTGACC
65 TCTGTC-TGTCGGCTTTGACC
* * * * *
968652 TTAGAGACTTTCCTTCCCTTAGCCTGCCTATCGGCTTTGACCTTAGAGACTTTTCTTCCTTTAGT
1 TTGGAGACTTTCCTTCCCTTAGTCTGCCTATCGGCTTTGACCCTAGAGACTTTCCTTCCCTTAGT
* * **
968717 TTGTTTGTTAGCTTTGACC
66 CTGTCTGTCGGCTTTGACC
* * * * ** * * *
968736 TTGGAGACTTTCTTTCCCTTAGTTTGCTTGTTAGCTTTGAACTTGGAGACTTTCCTTCCCTTAGT
1 TTGGAGACTTTCCTTCCCTTAGTCTGCCTATCGGCTTTGACCCTAGAGACTTTCCTTCCCTTAGT
*
968801 CTATCTGTCGGCTTTGACC
66 CTGTCTGTCGGCTTTGACC
* * * * * *
968820 TTGGAGATTTTCATACCCATAGTCTGCCTATCGGCTTTGATCCTGGAGACTTTCCTTCCCTTAGT
1 TTGGAGACTTTCCTTCCCTTAGTCTGCCTATCGGCTTTGACCCTAGAGACTTTCCTTCCCTTAGT
* *
968885 CTGGCTGTCGGCTTTGAGC
66 CTGTCTGTCGGCTTTGACC
* * * *
968904 TTGGAGACTTTCCTTCCCTTAGTCTGCTTGTCGGCTTTGA-CATAGAGACTTTCTTTCCCTTAGT
1 TTGGAGACTTTCCTTCCCTTAGTCTGCCTATCGGCTTTGACCCTAGAGACTTTCCTTCCCTTAGT
* *
968968 -TTTCCTGCCGGCTTTGACC
66 CTGT-CTGTCGGCTTTGACC
* *
968987 CTGGAGACTTTCCTTCCCTTAGTCTCCCTATCGGCTTTGACCCTAGAGACTTT-CTTACCCTTAG
1 TTGGAGACTTTCCTTCCCTTAGTCTGCCTATCGGCTTTGACCCTAGAGACTTTCCTT-CCCTTAG
* **
969051 TCTGCCTGTCTACTTTGACC
65 TCTGTCTGTCGGCTTTGACC
* * * * * *
969071 CTGGAGACTTTTCTTTCCTTAGTCTGCCTGTTGGCTTTGACCCTGGAGACTTTCCTTCCCTTAGT
1 TTGGAGACTTTCCTTCCCTTAGTCTGCCTATCGGCTTTGACCCTAGAGACTTTCCTTCCCTTAGT
*
969136 CTGCCTGTCGGCTTTGACC
66 CTGTCTGTCGGCTTTGACC
** ** ** * * * * * * ** *
969155 TTAAAGACTAAAGCCGATGGAGACTTTA-T-TTCCTTAGTCTGCTTGTCG-GCTTTGACCCTGGA
1 TTGGAGACT--TTCC--T---TCCCTTAGTCTGCC-TA-TCGGCTT-T-GACCCTAGAGACT--T
** * **
969217 GACTTTCC-TACCCTTAGTCTGCCTGTCGGCTTTGACC
53 TCCTTCCCTTAGTC-T-GTC----TGTCGGCTTTGACC
* * * * * *
969254 TTGGAGACTTTCTTTCCCTTAGTCTGCTTGTCGGCTTTGACCTTGGAGACTTTCCTTTCCTTAGT
1 TTGGAGACTTTCCTTCCCTTAGTCTGCCTATCGGCTTTGACCCTAGAGACTTTCCTTCCCTTAGT
* * *
969319 CTGCCTATCGGTTTTGACC
66 CTGTCTGTCGGCTTTGACC
* * * * *
969338 CTGGATACTTTCTTTCCCTTAGTCTGCCTGTCGACTTTGACCCTAGAGACTTTCCTTCCCTTAGT
1 TTGGAGACTTTCCTTCCCTTAGTCTGCCTATCGGCTTTGACCCTAGAGACTTTCCTTCCCTTAGT
*
969403 CTG-CTTGTCAGCTTTGACC
66 CTGTC-TGTCGGCTTTGACC
* * * * * * * * * *
969422 TTAGAGACTTTCCTACCCTCAGTCTGCTTGTTGGCTTTGACCTTGGATACTTTCCTACCCTTAGT
1 TTGGAGACTTTCCTTCCCTTAGTCTGCCTATCGGCTTTGACCCTAGAGACTTTCCTTCCCTTAGT
* **
969487 CTGCCTGTCGAATTTGA-C
66 CTGTCTGTCGGCTTTGACC
* * * * * * * * * *
969505 TCTAGAGACTTTCTTTCCCTAAGTCTACCTGTCGAC-TTGA-CCTGGGAGACTTTTCTACCTTTA
1 T-TGGAGACTTTCCTTCCCTTAGTCTGCCTATCGGCTTTGACCCT-AGAGACTTTCCTTCCCTTA
969568 GTCTG-CTTGTCGGCTTTGACC
64 GTCTGTC-TGTCGGCTTTGACC
* * * * * * * * *
969589 TTGTAGACTTTTCTACCTTTAGCCTGCCTGTCGG-TCTTGACCCTAGAGATTTTTC-TACCTTCA
1 TTGGAGACTTTCCTTCCCTTAGTCTGCCTATCGGCT-TTGACCCTAGAGACTTTCCTTCCCTT-A
* *
969652 GTTTGCCTGTCGGCTTTGACC
64 GTCTGTCTGTCGGCTTTGACC
*
969673 CTGGAGACT
1 TTGGAGACT
969682 GCCTCATCTA
Statistics
Matches: 804, Mismatches: 185, Indels: 82
0.75 0.17 0.08
Matches are distributed among these distances:
82 4 0.00
83 136 0.17
84 561 0.70
85 10 0.01
86 1 0.00
88 3 0.00
89 10 0.01
90 6 0.01
91 17 0.02
92 17 0.02
93 6 0.01
94 8 0.01
95 3 0.00
97 1 0.00
99 21 0.03
ACGTcount: A:0.14, C:0.28, G:0.19, T:0.39
Consensus pattern (84 bp):
TTGGAGACTTTCCTTCCCTTAGTCTGCCTATCGGCTTTGACCCTAGAGACTTTCCTTCCCTTAGT
CTGTCTGTCGGCTTTGACC
Found at i:968731 original size:126 final size:126
Alignment explanation
Indices: 968568--969681 Score: 1015
Period size: 126 Copynumber: 8.7 Consensus size: 126
968558 CATTAAACTT
* * * * * **
968568 TTGGAGACTTTCCTTCCCTTAGTTTGCCTGCTGGCTTTGACCCTAGAGACTTTCTTTCCCCCAGT
1 TTGGAGACTTTTCTTCCCTTAGTCTGCCTGTTGGCTTTGACCCTGGAGACTTTCCTTCCCTTAGT
* * * *
968633 CTACTTATCGGCTTTGACCTTAGAGACTTTCCTTCCCTTAGCCTGCCTATCGGCTTTGACC
66 CTGCTTGTCGGCTTTGACCTTAGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACC
* * * ** * * *
968694 TTAGAGACTTTTCTTCCTTTAGTTTGTTTGTTAGCTTTGACCTTGGAGACTTTCTTTCCCTTAGT
1 TTGGAGACTTTTCTTCCCTTAGTCTGCCTGTTGGCTTTGACCCTGGAGACTTTCCTTCCCTTAGT
* ** * * **
968759 TTGCTTGTTAGCTTTGAACTTGGAGACTTTCCTTCCCTTAGTCTATCTGTCGGCTTTGACC
66 CTGCTTGTCGGCTTTGACCTTAGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACC
* * * * *
968820 TTGGAGA-TTTTCATACCCATAGTCTGCCTATCGGCTTTGATCCTGGAGACTTTCCTTCCCTTAG
1 TTGGAGACTTTTC-TTCCCTTAGTCTGCCTGTTGGCTTTGACCCTGGAGACTTTCCTTCCCTTAG
* * *
968884 TCTGGC-TGTCGGCTTTGAGCTTGGAGACTTTCCTTCCCTTAGTCTGCTTGTCGGCTTTGA-C
65 TCT-GCTTGTCGGCTTTGACCTTAGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACC
* * * * **
968945 ATAGAGAC-TTTCTTTCCCTTAGTTTTCCTGCCGGCTTTGACCCTGGAGACTTTCCTTCCCTTAG
1 TTGGAGACTTTTC-TTCCCTTAGTCTGCCTGTTGGCTTTGACCCTGGAGACTTTCCTTCCCTTAG
* * * * **
969009 TCTCCCTATCGGCTTTGACCCTAGAGACTTT-CTTACCCTTAGTCTGCCTGTCTACTTTGACC
65 TCTGCTTGTCGGCTTTGACCTTAGAGACTTTCCTT-CCCTTAGTCTGCCTGTCGGCTTTGACC
* *
969071 CTGGAGACTTTTCTTTCCTTAGTCTGCCTGTTGGCTTTGACCCTGGAGACTTTCCTTCCCTTAGT
1 TTGGAGACTTTTCTTCCCTTAGTCTGCCTGTTGGCTTTGACCCTGGAGACTTTCCTTCCCTTAGT
* * * *
969136 CTGCCTGTCGGCTTTGACCTTAAAGACTAAAGCCGATGGAGACTTT-ATTTCCTTAGTCTGCTTG
66 CTGCTTGTCGGCTTTGACC-T------T-------A--GAGACTTTCCTTCCCTTAGTCTGCCTG
969200 TCGGCTTTGACC
115 TCGGCTTTGACC
* * * * * *
969212 CTGGAGACTTTCCTACCCTTAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTTCCCTTAGT
1 TTGGAGACTTTTCTTCCCTTAGTCTGCCTGTTGGCTTTGACCCTGGAGACTTTCCTTCCCTTAGT
* * * *
969277 CTGCTTGTCGGCTTTGACCTTGGAGACTTTCCTTTCCTTAGTCTGCCTATCGGTTTTGACC
66 CTGCTTGTCGGCTTTGACCTTAGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACC
* * * * *
969338 CTGGATAC-TTTCTTTCCCTTAGTCTGCCTGTCGACTTTGACCCTAGAGACTTTCCTTCCCTTAG
1 TTGGAGACTTTTC-TTCCCTTAGTCTGCCTGTTGGCTTTGACCCTGGAGACTTTCCTTCCCTTAG
* * * * *
969402 TCTGCTTGTCAGCTTTGACCTTAGAGACTTTCCTACCCTCAGTCTGCTTGTTGGCTTTGACC
65 TCTGCTTGTCGGCTTTGACCTTAGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACC
* * * * ** * * * *
969464 TTGGATACTTTCCTACCCTTAGTCTGCCTGTCGAATTTGACTCTAGAGACTTTCTTTCCCTAAGT
1 TTGGAGACTTTTCTTCCCTTAGTCTGCCTGTTGGCTTTGACCCTGGAGACTTTCCTTCCCTTAGT
* * * ** * * * *
969529 CTACCTGTCGAC-TTGACCTGGGAGACTTTTCTACCTTTAGTCTGCTTGTCGGCTTTGACC
66 CTGCTTGTCGGCTTTGACCTTAGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACC
* * * * * * * * *
969589 TTGTAGACTTTTCTACCTTTAGCCTGCCTGTCGG-TCTTGACCCTAGAGATTTTTC-TACCTTCA
1 TTGGAGACTTTTCTTCCCTTAGTCTGCCTGTTGGCT-TTGACCCTGGAGACTTTCCTTCCCTT-A
* * * *
969652 GTTTGCCTGTCGGCTTTGACCCTGGAGACT
64 GTCTGCTTGTCGGCTTTGACCTTAGAGACT
969682 GCCTCATCTA
Statistics
Matches: 822, Mismatches: 137, Indels: 58
0.81 0.13 0.06
Matches are distributed among these distances:
124 9 0.01
125 213 0.26
126 477 0.58
127 9 0.01
133 1 0.00
134 1 0.00
140 2 0.00
141 100 0.12
142 10 0.01
ACGTcount: A:0.14, C:0.28, G:0.19, T:0.39
Consensus pattern (126 bp):
TTGGAGACTTTTCTTCCCTTAGTCTGCCTGTTGGCTTTGACCCTGGAGACTTTCCTTCCCTTAGT
CTGCTTGTCGGCTTTGACCTTAGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACC
Found at i:969163 original size:42 final size:42
Alignment explanation
Indices: 968568--969156 Score: 637
Period size: 42 Copynumber: 14.0 Consensus size: 42
968558 CATTAAACTT
*
968568 TTGGAGACTTTCCTTCCCTTAGTTTGCCTG-CTGGCTTTGACC
1 TTGGAGACTTTCCTTCCCTTAGTCTGCCTGTC-GGCTTTGACC
* * * ** * * *
968610 CTAGAGACTTTCTTTCCCCCAGTCTACTTATCGGCTTTGACC
1 TTGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACC
* * *
968652 TTAGAGACTTTCCTTCCCTTAGCCTGCCTATCGGCTTTGACC
1 TTGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACC
* * * * ** **
968694 TTAGAGACTTTTCTTCCTTTAGTTTGTTTGTTAGCTTTGACC
1 TTGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACC
* * * ** *
968736 TTGGAGACTTTCTTTCCCTTAGTTTGCTTGTTAGCTTTGAAC
1 TTGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACC
**
968778 TTGGAGACTTTCCTTCCCTTAGTCTATCTGTCGGCTTTGACC
1 TTGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACC
* * * * *
968820 TTGGAGATTTTCATACCCATAGTCTGCCTATCGGCTTTGATCC
1 TTGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGA-CC
* *
968863 -TGGAGACTTTCCTTCCCTTAGTCTGGCTGTCGGCTTTGAGC
1 TTGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACC
*
968904 TTGGAGACTTTCCTTCCCTTAGTCTGCTTGTCGGCTTTGA-C
1 TTGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACC
* * * * * *
968945 ATAGAGACTTTCTTTCCCTTAGTTTTCCTGCCGGCTTTGACC
1 TTGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACC
* * *
968987 CTGGAGACTTTCCTTCCCTTAGTCTCCCTATCGGCTTTGACC
1 TTGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACC
* * **
969029 CTAGAGACTTT-CTTACCCTTAGTCTGCCTGTCTACTTTGACC
1 TTGGAGACTTTCCTT-CCCTTAGTCTGCCTGTCGGCTTTGACC
* * * *
969071 CTGGAGACTTTTCTTTCCTTAGTCTGCCTGTTGGCTTTGACC
1 TTGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACC
*
969113 CTGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACC
1 TTGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACC
969155 TT
1 TT
969157 AAAGACTAAA
Statistics
Matches: 458, Mismatches: 83, Indels: 12
0.83 0.15 0.02
Matches are distributed among these distances:
41 38 0.08
42 414 0.90
43 6 0.01
ACGTcount: A:0.13, C:0.28, G:0.19, T:0.40
Consensus pattern (42 bp):
TTGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACC
Found at i:969245 original size:42 final size:42
Alignment explanation
Indices: 969186--969681 Score: 523
Period size: 42 Copynumber: 11.8 Consensus size: 42
969176 GACTTTATTT
*
969186 CCTTAGTCTGCTTGTCGGCTTTGACCCTGGAGACTTTCCTAC
1 CCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTAC
* * *
969228 CCTTAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTTC
1 CCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTAC
* * **
969270 CCTTAGTCTGCTTGTCGGCTTTGACCTTGGAGACTTTCCTTT
1 CCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTAC
* * * * *
969312 CCTTAGTCTGCCTATCGGTTTTGACCCTGGATACTTTCTTTC
1 CCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTAC
* * *
969354 CCTTAGTCTGCCTGTCGACTTTGACCCTAGAGACTTTCCTTC
1 CCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTAC
* * * *
969396 CCTTAGTCTGCTTGTCAGCTTTGACCTTAGAGACTTTCCTAC
1 CCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTAC
* * * * *
969438 CCTCAGTCTGCTTGTTGGCTTTGACCTTGGATACTTTCCTAC
1 CCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTAC
** * * * *
969480 CCTTAGTCTGCCTGTCGAATTTGACTCTAGAGACTTTCTTTC
1 CCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTAC
* * * *
969522 CCTAAGTCTACCTGTCGAC-TTGA-CCTGGGAGACTTTTCTAC
1 CCTTAGTCTGCCTGTCGGCTTTGACCCT-GGAGACTTTCCTAC
* * * * *
969563 CTTTAGTCTGCTTGTCGGCTTTGACCTTGTAGACTTTTCTAC
1 CCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTAC
* * * * *
969605 CTTTAGCCTGCCTGTCGG-TCTTGACCCTAGAGATTTTTCTA-
1 CCTTAGTCTGCCTGTCGGCT-TTGACCCTGGAGACTTTCCTAC
*
969646 CCTTCAGTTTGCCTGTCGGCTTTGACCCTGGAGACT
1 CCTT-AGTCTGCCTGTCGGCTTTGACCCTGGAGACT
969682 GCCTCATCTA
Statistics
Matches: 381, Mismatches: 67, Indels: 12
0.83 0.15 0.03
Matches are distributed among these distances:
40 2 0.01
41 32 0.08
42 344 0.90
43 3 0.01
ACGTcount: A:0.13, C:0.28, G:0.19, T:0.39
Consensus pattern (42 bp):
CCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTAC
Found at i:969262 original size:99 final size:100
Alignment explanation
Indices: 969072--969255 Score: 325
Period size: 99 Copynumber: 1.9 Consensus size: 100
969062 ACTTTGACCC
* * *
969072 TGGAGACTTTTCTTTCCTTAGTCTGCCTGTTGGCTTTGACCCTGGAGACTTTCCTTCCCTTAGTC
1 TGGAGACTTTTATTTCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTACCCTTAGTC
969137 TGCCTGTCGGCTTTGACCTTAAAGACTAAAGCCGA
66 TGCCTGTCGGCTTTGACCTTAAAGACTAAAGCCGA
*
969172 TGGAGAC-TTTATTTCCTTAGTCTGCTTGTCGGCTTTGACCCTGGAGACTTTCCTACCCTTAGTC
1 TGGAGACTTTTATTTCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTACCCTTAGTC
969236 TGCCTGTCGGCTTTGACCTT
66 TGCCTGTCGGCTTTGACCTT
969256 GGAGACTTTC
Statistics
Matches: 80, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
99 73 0.91
100 7 0.09
ACGTcount: A:0.14, C:0.27, G:0.21, T:0.38
Consensus pattern (100 bp):
TGGAGACTTTTATTTCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTACCCTTAGTC
TGCCTGTCGGCTTTGACCTTAAAGACTAAAGCCGA
Found at i:970229 original size:10 final size:9
Alignment explanation
Indices: 970192--970244 Score: 54
Period size: 10 Copynumber: 5.8 Consensus size: 9
970182 AATCGAAAAT
970192 TAAAAA-AA
1 TAAAAATAA
*
970200 TAAGAATAA
1 TAAAAATAA
970209 TAAATAATAA
1 TAAA-AATAA
970219 TAAAAATTAA
1 TAAAAA-TAA
*
970229 TAGAAATAA
1 TAAAAATAA
*
970238 AAAAAAT
1 TAAAAAT
970245 CATGAAATGC
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
8 5 0.14
9 15 0.41
10 17 0.46
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.23
Consensus pattern (9 bp):
TAAAAATAA
Found at i:970329 original size:31 final size:30
Alignment explanation
Indices: 970289--970355 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 30
970279 CTTGCATGCA
* *
970289 AAGCAATGTAGTATGCAATCATGGGAGACAC
1 AAGCAATGTAGCATGCAATCATAGG-GACAC
* *
970320 ATGCAATGTAGCATGTAATCATAGGGACAC
1 AAGCAATGTAGCATGCAATCATAGGGACAC
970350 AAGCAA
1 AAGCAA
970356 ATGGAAAGAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
30 10 0.32
31 21 0.68
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.19
Consensus pattern (30 bp):
AAGCAATGTAGCATGCAATCATAGGGACAC
Found at i:970934 original size:31 final size:31
Alignment explanation
Indices: 970897--970987 Score: 128
Period size: 31 Copynumber: 2.9 Consensus size: 31
970887 ACCCAAAACT
* * *
970897 AGCAGCTTGAGCTTCTTCCAACTTCCACGCC
1 AGCAGCTCGAGCCTCTTCCAGCTTCCACGCC
* *
970928 AGCAGCTCAAGCCTCTTCCAGCTTCCACGGC
1 AGCAGCTCGAGCCTCTTCCAGCTTCCACGCC
*
970959 AACAGCTCGAGCCTCTTCCAGCTTCCACG
1 AGCAGCTCGAGCCTCTTCCAGCTTCCACG
970988 AACACAGTAG
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 53 1.00
ACGTcount: A:0.20, C:0.41, G:0.18, T:0.22
Consensus pattern (31 bp):
AGCAGCTCGAGCCTCTTCCAGCTTCCACGCC
Found at i:971013 original size:26 final size:24
Alignment explanation
Indices: 970984--971037 Score: 56
Period size: 26 Copynumber: 2.2 Consensus size: 24
970974 TTCCAGCTTC
970984 CACGAACA-CAGTAGCAGCATCACGAA
1 CACG-ACAGCAGTAGCAGC--CACGAA
* *
971010 CACGGCAGCAGTAGCATCCACGAA
1 CACGACAGCAGTAGCAGCCACGAA
971034 CACG
1 CACG
971038 GTAACAACTC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
24 10 0.40
25 2 0.08
26 13 0.52
ACGTcount: A:0.37, C:0.33, G:0.22, T:0.07
Consensus pattern (24 bp):
CACGACAGCAGTAGCAGCCACGAA
Found at i:973570 original size:33 final size:33
Alignment explanation
Indices: 973532--973599 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
973522 AAATAAAGAT
*
973532 ATAGATATTGTATAAACATTAAAATATAAGTGA
1 ATAGATATTGTATAAACATGAAAATATAAGTGA
973565 ATAGATATTGTATAAACATGAAAATATAAGTGA
1 ATAGATATTGTATAAACATGAAAATATAAGTGA
973598 AT
1 AT
973600 GCATGCATGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.51, C:0.03, G:0.13, T:0.32
Consensus pattern (33 bp):
ATAGATATTGTATAAACATGAAAATATAAGTGA
Found at i:976719 original size:14 final size:14
Alignment explanation
Indices: 976700--976759 Score: 63
Period size: 14 Copynumber: 4.4 Consensus size: 14
976690 AAATTTTATC
*
976700 TTAATTTTTA-AGTT
1 TTAATTTTTATA-AT
976714 TTAATTTTTATAAT
1 TTAATTTTTATAAT
*
976728 TTAATTTTT-TTA-
1 TTAATTTTTATAAT
976740 TTAATTTTTATAAT
1 TTAATTTTTATAAT
*
976754 ATAATT
1 TTAATT
976760 ATACGAGTTG
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
12 9 0.23
13 4 0.10
14 25 0.64
15 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (14 bp):
TTAATTTTTATAAT
Found at i:976891 original size:7 final size:7
Alignment explanation
Indices: 976874--976919 Score: 58
Period size: 7 Copynumber: 6.4 Consensus size: 7
976864 ATCAAATTTG
976874 AAAAGAA
1 AAAAGAA
*
976881 AAAAAACA
1 AAAAGA-A
976889 AAAAGAA
1 AAAAGAA
976896 AAAAGAA
1 AAAAGAA
976903 AAAA-AA
1 AAAAGAA
976909 GAAAAGAA
1 -AAAAGAA
976917 AAA
1 AAA
976920 GGATAAAGGG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
6 2 0.06
7 24 0.71
8 8 0.24
ACGTcount: A:0.87, C:0.02, G:0.11, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:976902 original size:22 final size:21
Alignment explanation
Indices: 976874--976919 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 21
976864 ATCAAATTTG
976874 AAAAGAAAAAAAACAAAAAGAA
1 AAAAGAAAAAAAA-AAAAAGAA
*
976896 AAAAGAAAAAAAAGAAAAGAA
1 AAAAGAAAAAAAAAAAAAGAA
976917 AAA
1 AAA
976920 GGATAAAGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.87, C:0.02, G:0.11, T:0.00
Consensus pattern (21 bp):
AAAAGAAAAAAAAAAAAAGAA
Found at i:977152 original size:72 final size:72
Alignment explanation
Indices: 977074--977208 Score: 184
Period size: 72 Copynumber: 1.9 Consensus size: 72
977064 AAAGAAGAAG
* *
977074 CAATCGAAACTCTAAGCGA-CAGC-AACTAGCAGCAACCGAAATTCCAGCAAGCAACAGCCATAC
1 CAATCGAAACTCCAAG-GACCAGCAAAC-AACAGCAACCGAAATTCCAGCAAGCAACAGCCATAC
977137 CAGCAACAA
64 CAGCAACAA
* * * *
977146 CAATCGAAACTCCAAGTACCAGCAAACAACAGCAATCGAAATTCCAGCAAGCAGCAGGCATAC
1 CAATCGAAACTCCAAGGACCAGCAAACAACAGCAACCGAAATTCCAGCAAGCAACAGCCATAC
977209 GACCAGCAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
71 1 0.02
72 51 0.93
73 3 0.05
ACGTcount: A:0.43, C:0.31, G:0.16, T:0.10
Consensus pattern (72 bp):
CAATCGAAACTCCAAGGACCAGCAAACAACAGCAACCGAAATTCCAGCAAGCAACAGCCATACCA
GCAACAA
Found at i:977342 original size:35 final size:37
Alignment explanation
Indices: 977294--977367 Score: 91
Period size: 38 Copynumber: 2.1 Consensus size: 37
977284 GCATCACCAA
977294 CAGCAACACCAGCAGCTGAA-A-A-CAACAACAATAG
1 CAGCAACACCAGCAGCTGAAGACAGCAACAACAATAG
* * *
977328 CAGCAAGCTCCAGCAGTTGAAGACAGCTACAACAATAG
1 CAGCAA-CACCAGCAGCTGAAGACAGCAACAACAATAG
977366 CA
1 CA
977368 AACTCCAACA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
34 6 0.18
35 12 0.36
36 1 0.03
37 1 0.03
38 13 0.39
ACGTcount: A:0.45, C:0.28, G:0.18, T:0.09
Consensus pattern (37 bp):
CAGCAACACCAGCAGCTGAAGACAGCAACAACAATAG
Found at i:984191 original size:20 final size:20
Alignment explanation
Indices: 984168--984206 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
984158 ATATTATCTA
* *
984168 CAAAGATTATAATTAAATAT
1 CAAAGATTAAAATCAAATAT
*
984188 CAAATATTAAAATCAAATA
1 CAAAGATTAAAATCAAATA
984207 AAATCAAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.59, C:0.08, G:0.03, T:0.31
Consensus pattern (20 bp):
CAAAGATTAAAATCAAATAT
Found at i:987496 original size:52 final size:52
Alignment explanation
Indices: 987418--987548 Score: 208
Period size: 52 Copynumber: 2.5 Consensus size: 52
987408 CCCAAAATAT
* * * *
987418 GAAAAGTTGCTTGCATGTATCGATACATTTAATAGTGTATCGATATATCTGG
1 GAAAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGG
*
987470 GAAAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGG
1 GAAAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGG
*
987522 GCAAATTTGCCTGCATGTATCGATACA
1 GAAAATTTGCCTGCATGTATCGATACA
987549 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (52 bp):
GAAAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGG
Found at i:987561 original size:52 final size:51
Alignment explanation
Indices: 987418--987568 Score: 196
Period size: 52 Copynumber: 2.9 Consensus size: 51
987408 CCCAAAATAT
* * *
987418 GAAAAGTTGCTTGCATGTATCGATACATTTAATAGTGTATCGATATATCTGG
1 GAAAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGG
* *
987470 GAAAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGG
1 GAAAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGG
* *
987522 GCAAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 GAAAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
987569 ATGTATCGAT
Statistics
Matches: 88, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
51 2 0.02
52 86 0.98
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (51 bp):
GAAAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGG
Found at i:987575 original size:13 final size:13
Alignment explanation
Indices: 987557--987615 Score: 67
Period size: 13 Copynumber: 4.9 Consensus size: 13
987547 CAAAGATCAG
987557 TGTATCGATACAA
1 TGTATCGATACAA
987570 TGTATCGATAC-A
1 TGTATCGATACAA
987582 T-T-T-GAGT--AA
1 TGTATCGA-TACAA
987591 TGTATCGATACAA
1 TGTATCGATACAA
987604 TGTATCGATACA
1 TGTATCGATACA
987616 TTTGAGTAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
9 4 0.10
10 3 0.08
11 3 0.08
12 4 0.10
13 25 0.64
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:987600 original size:34 final size:34
Alignment explanation
Indices: 987557--987636 Score: 160
Period size: 34 Copynumber: 2.4 Consensus size: 34
987547 CAAAGATCAG
987557 TGTATCGATACAATGTATCGATACATTTGAGTAA
1 TGTATCGATACAATGTATCGATACATTTGAGTAA
987591 TGTATCGATACAATGTATCGATACATTTGAGTAA
1 TGTATCGATACAATGTATCGATACATTTGAGTAA
987625 TGTATCGATACA
1 TGTATCGATACA
987637 TTTTTTGGCA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 46 1.00
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.35
Consensus pattern (34 bp):
TGTATCGATACAATGTATCGATACATTTGAGTAA
Found at i:987693 original size:33 final size:33
Alignment explanation
Indices: 987656--987722 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
987646 AGTAGCTTAA
987656 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
987689 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
987722 A
1 A
987723 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:987696 original size:13 final size:13
Alignment explanation
Indices: 987678--987702 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
987668 CAAAAAAATA
987678 TGTATCGATACAT
1 TGTATCGATACAT
987691 TGTATCGATACA
1 TGTATCGATACA
987703 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:988716 original size:43 final size:43
Alignment explanation
Indices: 988655--988935 Score: 310
Period size: 43 Copynumber: 6.1 Consensus size: 43
988645 TAAAGATGGA
* *
988655 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
*
988698 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACACTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
988741 AAAGGTGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 -AA----AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
* *
988789 AAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGTCTT
1 ----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
* * *
988838 AAAGATAAAAGTGTCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAG------GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
* *
988887 AATGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
988930 AGAAGG
1 A-AAGG
988936 GTTGCCACCG
Statistics
Matches: 203, Mismatches: 18, Indels: 33
0.80 0.07 0.13
Matches are distributed among these distances:
43 79 0.39
44 5 0.02
45 1 0.00
48 40 0.20
49 76 0.37
51 1 0.00
53 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (43 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
Found at i:988820 original size:49 final size:49
Alignment explanation
Indices: 988615--988930 Score: 397
Period size: 49 Copynumber: 6.7 Consensus size: 49
988605 GGATGTCAAC
*
988615 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAAT
* *
988667 ATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* *
988710 GTGCTGATTCAAGGCCAGCTACACTGGACTTAAAGGTG-AGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
988758 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * * * *
988807 GTGCTGAGTCAAGGCCAGCTACATTGGTCTTAAAGATAAAAGTGTCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* *
988856 ATGCTGATTCAAGGCCAGCTATATTGGACTT--A-AT---GGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
*
988899 GTGCTGAGTCAAGGCCAGCTACATTGGACTTA
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTA
988931 GAAGGGTTGC
Statistics
Matches: 233, Mismatches: 23, Indels: 24
0.83 0.08 0.09
Matches are distributed among these distances:
43 74 0.32
46 2 0.01
47 1 0.00
48 47 0.20
49 81 0.35
52 28 0.12
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.26
Consensus pattern (49 bp):
GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
Found at i:989036 original size:33 final size:33
Alignment explanation
Indices: 988935--989041 Score: 162
Period size: 33 Copynumber: 3.3 Consensus size: 33
988925 GACTTAGAAG
* **
988935 GGTTGCCACCGACTTGTGTGGGCTTTAGAGAGT
1 GGTTGCCACCGACTTGTGTGGGCTTTAGAAAAA
* *
988968 GGTTGCCACCGACTTGTGTGGGCTTTGGAAGAA
1 GGTTGCCACCGACTTGTGTGGGCTTTAGAAAAA
989001 GGTTGCCACCGACTTGTGTGGGCTTTAGAAAAA
1 GGTTGCCACCGACTTGTGTGGGCTTTAGAAAAA
989034 GG-TGCCAC
1 GGTTGCCAC
989042 GGAGTCGTGG
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
32 6 0.09
33 61 0.91
ACGTcount: A:0.19, C:0.20, G:0.35, T:0.27
Consensus pattern (33 bp):
GGTTGCCACCGACTTGTGTGGGCTTTAGAAAAA
Found at i:989108 original size:35 final size:33
Alignment explanation
Indices: 989027--989286 Score: 197
Period size: 27 Copynumber: 8.0 Consensus size: 33
989017 TGTGGGCTTT
* *
989027 AGAAAAA-GGTGCCACGGAGTCGTGGACTTAAA
1 AGAAAAAGGGTGCCACGGAGTTGTGGGCTTAAA
* * *
989059 AGGAAAAGAGTGCCACGTAGTTGTGGGCTTTAAA
1 AGAAAAAGGGTGCCACGGAGTTGTGGGC-TTAAA
* ** *
989093 AGAAAAAAGGGTGCCACAGAGTCATGGACTT---
1 AG-AAAAAGGGTGCCACGGAGTTGTGGGCTTAAA
989124 ---AAAAGGGTGCCACGGAGTTGTGGGCTT---
1 AGAAAAAGGGTGCCACGGAGTTGTGGGCTTAAA
* *
989151 ---AAACGGGTGCCACGGAGTTGTGGACTTAGAA
1 AGAAAAAGGGTGCCACGGAGTTGTGGGCTTA-AA
* *
989182 GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA
1 AGAAAAAGGGTGCCACGGAGTTGTGGGC-TT-AAA
* *
989217 AGGAAAAAGAGTGCCACGTAGTTGTGGGCTTTAAAA
1 A-GAAAAAGGGTGCCACGGAGTTGTGGGC-TT-AAA
*
989253 AGGAAAAA-GATGCCACGGAGTTGTGGGCTTAAA
1 A-GAAAAAGGGTGCCACGGAGTTGTGGGCTTAAA
989286 A
1 A
989287 TGGTGCCACA
Statistics
Matches: 189, Mismatches: 26, Indels: 25
0.79 0.11 0.10
Matches are distributed among these distances:
27 48 0.25
32 6 0.03
33 20 0.11
34 33 0.17
35 40 0.21
36 42 0.22
ACGTcount: A:0.34, C:0.13, G:0.33, T:0.20
Consensus pattern (33 bp):
AGAAAAAGGGTGCCACGGAGTTGTGGGCTTAAA
Found at i:989200 original size:34 final size:36
Alignment explanation
Indices: 989157--989286 Score: 205
Period size: 36 Copynumber: 3.7 Consensus size: 36
989147 GCTTAAACGG
* *
989157 GTGCCACGGAGTTGTGGAC-TT-AGAAGGAAAAAGA
1 GTGCCACGGAGTTGTGGGCTTTAAAAAGGAAAAAGA
989191 GTGCCACGGAGTTGTGGGCTTTAAAAAGGAAAAAGA
1 GTGCCACGGAGTTGTGGGCTTTAAAAAGGAAAAAGA
*
989227 GTGCCACGTAGTTGTGGGCTTTAAAAAGGAAAAAGA
1 GTGCCACGGAGTTGTGGGCTTTAAAAAGGAAAAAGA
989263 -TGCCACGGAGTTGTGGGC-TTAAAA
1 GTGCCACGGAGTTGTGGGCTTTAAAA
989287 TGGTGCCACA
Statistics
Matches: 90, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
34 24 0.27
35 19 0.21
36 47 0.52
ACGTcount: A:0.34, C:0.12, G:0.33, T:0.21
Consensus pattern (36 bp):
GTGCCACGGAGTTGTGGGCTTTAAAAAGGAAAAAGA
Found at i:989336 original size:50 final size:51
Alignment explanation
Indices: 989261--989361 Score: 132
Period size: 50 Copynumber: 2.0 Consensus size: 51
989251 AAAGGAAAAA
* * * *
989261 GATGCCACGGAGTTGTGGGCTTAAAATGG-TGCCACAGAGTCGTGGACTTT
1 GATGCCACGGAGTCGTGGACTTAAAAGGGATGCCACAGAATCGTGGACTTT
* * *
989311 GATGCCACTGAGTCGTGGACTTAAAAGGGATGCCACTGAATTGTGGACTTT
1 GATGCCACGGAGTCGTGGACTTAAAAGGGATGCCACAGAATCGTGGACTTT
989362 TAGGACAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
50 25 0.58
51 18 0.42
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (51 bp):
GATGCCACGGAGTCGTGGACTTAAAAGGGATGCCACAGAATCGTGGACTTT
Found at i:989378 original size:31 final size:31
Alignment explanation
Indices: 989340--989577 Score: 178
Period size: 31 Copynumber: 7.7 Consensus size: 31
989330 CTTAAAAGGG
* *
989340 ATGCCACTGAATTGTGGACTTTTAGGACAAA
1 ATGCCACTGAATCGTGGACTTTGAGGACAAA
* * * * *
989371 ATGCCACTGAGTCGTGGGCTTTGAGAAGAGA
1 ATGCCACTGAATCGTGGACTTTGAGGACAAA
* * * * * ** *
989402 TTGCCACTGAGTCATGGACTTTAAGAAGGAG
1 ATGCCACTGAATCGTGGACTTTGAGGACAAA
*
989433 ATGCCACTGAATTGTGGACTTT-AGGACAAA
1 ATGCCACTGAATCGTGGACTTTGAGGACAAA
* * *
989463 ATGCCACTGATTCGTGGGCTTTGAAGA-AAA
1 ATGCCACTGAATCGTGGACTTTGAGGACAAA
989493 GGATGCCACT-AAGTCGTGGACTTTGA-GACAAA
1 --ATGCCACTGAA-TCGTGGACTTTGAGGACAAA
* * * * * *
989525 ATGCTACTGATTCGTGGGCTTTGAGAAGAGA
1 ATGCCACTGAATCGTGGACTTTGAGGACAAA
* *
989556 TTGCCACTGAGTCGTGGACTTT
1 ATGCCACTGAATCGTGGACTTT
989578 AAAAAGGTAT
Statistics
Matches: 162, Mismatches: 38, Indels: 14
0.76 0.18 0.07
Matches are distributed among these distances:
30 45 0.28
31 94 0.58
32 23 0.14
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (31 bp):
ATGCCACTGAATCGTGGACTTTGAGGACAAA
Found at i:989437 original size:62 final size:60
Alignment explanation
Indices: 989311--989578 Score: 233
Period size: 62 Copynumber: 4.4 Consensus size: 60
989301 CGTGGACTTT
* * *
989311 GATGCCACTGAGTCGTGGAC-TTAAAAG-GGATGCCACTGAATT-GTGGACTTTTAGGACAAA
1 GATGCCACTGAGTCGTGGACTTTAGAAGAGAATGCCACTG-ATTCGTGGAC-TTTAAGA-AAA
* * * * *
989371 -ATGCCACTGAGTCGTGGGCTTTGAGAAGAGATTGCCACTGAGTCATGGACTTTAAGAAGGA
1 GATGCCACTGAGTCGTGGACTTT-AGAAGAGAATGCCACTGATTCGTGGACTTTAAGAA-AA
* * * * * *
989432 GATGCCACTGAATTGTGGACTTTAGGACAAAATGCCACTGATTCGTGGGCTTTGAAGAAAA
1 GATGCCACTGAGTCGTGGACTTTAGAAGAGAATGCCACTGATTCGTGGACTTT-AAGAAAA
* * * * *
989493 GGATGCCACTAAGTCGTGGACTTTGAGACA-A-AATGCTACTGATTCGTGGGCTTTGAGAAGA
1 -GATGCCACTGAGTCGTGGACTTT-AGA-AGAGAATGCCACTGATTCGTGGACTTTAAGAAAA
989554 GATTGCCACTGAGTCGTGGACTTTA
1 GA-TGCCACTGAGTCGTGGACTTTA
989579 AAAAGGTATT
Statistics
Matches: 170, Mismatches: 27, Indels: 22
0.78 0.12 0.10
Matches are distributed among these distances:
59 18 0.11
60 6 0.04
61 62 0.36
62 80 0.47
63 3 0.02
64 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (60 bp):
GATGCCACTGAGTCGTGGACTTTAGAAGAGAATGCCACTGATTCGTGGACTTTAAGAAAA
Found at i:989513 original size:93 final size:90
Alignment explanation
Indices: 989311--989516 Score: 317
Period size: 93 Copynumber: 2.3 Consensus size: 90
989301 CGTGGACTTT
989311 GATGCCACTGAGTCGTGGAC-TTAAAAGGGATGCCACTGAATTGTGGACTTTTAGGACAAAATGC
1 GATGCCACTGAGTCGTGGACTTTAAAAGGGATGCCACTGAATTGTGGACTTTTAGGACAAAATGC
*
989375 CACTGAGTCGTGGGCTTTGAGAAGA
66 CACTGAGTCGTGGGCTTTGAGAAAA
*
989400 GATTGCCACTGAGTCATGGACTTTAAGAAGGAGATGCCACTGAATTGTGGAC-TTTAGGACAAAA
1 GA-TGCCACTGAGTCGTGGACTTTAA-AAGG-GATGCCACTGAATTGTGGACTTTTAGGACAAAA
*
989464 TGCCACTGATTCGTGGGCTTTGAAGAAAA
63 TGCCACTGAGTCGTGGGCTTTG-AGAAAA
*
989493 GGATGCCACTAAGTCGTGGACTTT
1 -GATGCCACTGAGTCGTGGACTTT
989517 GAGACAAAAT
Statistics
Matches: 106, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
89 2 0.02
90 17 0.16
91 4 0.04
92 37 0.35
93 44 0.42
94 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.26
Consensus pattern (90 bp):
GATGCCACTGAGTCGTGGACTTTAAAAGGGATGCCACTGAATTGTGGACTTTTAGGACAAAATGC
CACTGAGTCGTGGGCTTTGAGAAAA
Found at i:992076 original size:20 final size:20
Alignment explanation
Indices: 992051--992170 Score: 71
Period size: 20 Copynumber: 5.5 Consensus size: 20
992041 TTTTCATAAT
992051 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
992071 TTGTATCGATACATTCTGGGTTTTACCCA
1 TTGTATCGATACA-T-T--G--TT---CA
* *
992100 GATGTATCGATACATTATTCA
1 -TTGTATCGATACATTGTTCA
* **
992121 TTGTATCGATACATTCTAGA
1 TTGTATCGATACATTGTTCA
* *
992141 -TATATCGATACATTTTTCA
1 TTGTATCGATACATTGTTCA
*
992160 ATGTATCGATA
1 TTGTATCGATA
992171 TATCCATGCA
Statistics
Matches: 78, Mismatches: 11, Indels: 22
0.70 0.10 0.20
Matches are distributed among these distances:
19 15 0.19
20 38 0.49
21 3 0.04
22 1 0.01
24 3 0.04
26 2 0.03
28 1 0.01
29 3 0.04
30 12 0.15
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (20 bp):
TTGTATCGATACATTGTTCA
Found at i:995928 original size:13 final size:13
Alignment explanation
Indices: 995906--995971 Score: 66
Period size: 13 Copynumber: 5.0 Consensus size: 13
995896 GGCAGTAGCT
*
995906 TTGTAGCGATACA
1 TTGTATCGATACA
995919 TTGTATCGATACAACA
1 TTGTATCGAT---ACA
995935 CTTGTATCGAT--A
1 -TTGTATCGATACA
995947 -TGTATCGATACA
1 TTGTATCGATACA
995959 TTGTATCGATACA
1 TTGTATCGATACA
995972 AAACTTATGT
Statistics
Matches: 45, Mismatches: 1, Indels: 14
0.75 0.02 0.23
Matches are distributed among these distances:
10 9 0.20
12 2 0.04
13 21 0.47
16 3 0.07
17 10 0.22
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.35
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:995967 original size:40 final size:42
Alignment explanation
Indices: 995907--995988 Score: 132
Period size: 40 Copynumber: 2.0 Consensus size: 42
995897 GCAGTAGCTT
*
995907 TGTAGCGATACATTGTATCGATACAACAC-T-TGTATCGATA
1 TGTAGCGATACATTGTATCGATACAAAACTTATGTATCGATA
*
995947 TGTATCGATACATTGTATCGATACAAAACTTATGTATCGATA
1 TGTAGCGATACATTGTATCGATACAAAACTTATGTATCGATA
995989 CATTTACTGT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 27 0.71
41 1 0.03
42 10 0.26
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (42 bp):
TGTAGCGATACATTGTATCGATACAAAACTTATGTATCGATA
Found at i:1001616 original size:79 final size:79
Alignment explanation
Indices: 1001423--1001875 Score: 514
Period size: 79 Copynumber: 5.7 Consensus size: 79
1001413 ATTTCCACGA
* * * * *
1001423 GGATACTCCAACCCCGTTATTTTTGAAGGGAAACTTCAACCCTGATTTTATTTCCAAAACACCAA
1 GGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAA
*
1001488 -TTTTCATAATCGA
66 TTTTTCATAATCGG
** * * * * * *
1001501 GGATACTGAAATCTCGTTATTTTCGAGGGAAAACTCCAACCCCAATTTTATTTCTAAAACACCAA
1 GGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAA
1001566 TTTTTCATAATCGG
66 TTTTTCATAATCGG
* * * ** *
1001580 GGATACTCCAACTCCATTATTTCCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACATTAG
1 GGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAA
1001645 TTTTTCATAATCGG
66 TTTTTCATAATCGG
* * ** * *
1001659 GGATACTCCAACCCCGTTATTTTCGAGGGGATACTCTAACCCTGATTTTATTTTTAAAATACCGA
1 GGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAA
*
1001724 TTTTTCACAATCGG
66 TTTTTCATAATCGG
** * * * *
1001738 GGATACTCCAACCCTATTATTTTCAAGGGGATACTCCAACCTCGATTTTATTTCCAGAACACCGA
1 GGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAA
* * *
1001803 TTTTCCACAATCGA
66 TTTTTCATAATCGG
* ** * *
1001817 GGATACTCCAACCCCGTTATTTTTGAAAGGATACTCCAACCTC-ATCTTTATCTCCAAAA
1 GGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGAT-TTTATTTCCAAAA
1001876 TATTAAATTT
Statistics
Matches: 314, Mismatches: 59, Indels: 3
0.84 0.16 0.01
Matches are distributed among these distances:
78 56 0.18
79 258 0.82
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (79 bp):
GGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAA
TTTTTCATAATCGG
Found at i:1007458 original size:121 final size:121
Alignment explanation
Indices: 1007244--1007496 Score: 479
Period size: 121 Copynumber: 2.1 Consensus size: 121
1007234 CATGTCGTTC
1007244 AAGAGAAAAGTATAGGGTTTGCTAAATAGAGATATTATCAAGGTTAAACAAGGCTCGGGGCCTAA
1 AAGAGAAAAGTATAGGGTTTGCTAAATAGAGATATTATCAAGGTTAAACAAGGCTCGGGGCCTAA
*
1007309 TGTTGGGGCCAATCCACTCCCTAATCATGCCGAACCAAGGATAAATGCCATAATGA
66 TGTTGGGGCCAATCCACTCCCCAATCATGCCGAACCAAGGATAAATGCCATAATGA
*
1007365 AAGAGAAAAGTATAGGGTTTGCTAAATAGAGATATTATCAAGGTTCAACAAGGCTCGGGGCCTAA
1 AAGAGAAAAGTATAGGGTTTGCTAAATAGAGATATTATCAAGGTTAAACAAGGCTCGGGGCCTAA
*
1007430 TGTTGGGGCCAATCCACTCCCCAATCATGTCGAACCAAGGATAAATGCCATAATGA
66 TGTTGGGGCCAATCCACTCCCCAATCATGCCGAACCAAGGATAAATGCCATAATGA
1007486 AAGAGAAAAGT
1 AAGAGAAAAGT
1007497 TGTTGGGTCA
Statistics
Matches: 129, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
121 129 1.00
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.22
Consensus pattern (121 bp):
AAGAGAAAAGTATAGGGTTTGCTAAATAGAGATATTATCAAGGTTAAACAAGGCTCGGGGCCTAA
TGTTGGGGCCAATCCACTCCCCAATCATGCCGAACCAAGGATAAATGCCATAATGA
Found at i:1013618 original size:16 final size:17
Alignment explanation
Indices: 1013592--1013679 Score: 144
Period size: 17 Copynumber: 5.2 Consensus size: 17
1013582 TCCTTTTTCT
1013592 AAACAAAAAAACAACAA
1 AAACAAAAAAACAACAA
1013609 AAAC-AAAAAACAACAAA
1 AAACAAAAAAACAAC-AA
1013626 AAACAAAAAAACAACAA
1 AAACAAAAAAACAACAA
1013643 AAAC-AAAAAACAACAAA
1 AAACAAAAAAACAAC-AA
1013660 AAACAAAAAAACAACAA
1 AAACAAAAAAACAACAA
1013677 AAA
1 AAA
1013680 AAAGAGAAAA
Statistics
Matches: 67, Mismatches: 0, Indels: 8
0.89 0.00 0.11
Matches are distributed among these distances:
16 20 0.30
17 27 0.40
18 20 0.30
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (17 bp):
AAACAAAAAAACAACAA
Found at i:1013630 original size:34 final size:34
Alignment explanation
Indices: 1013592--1013679 Score: 176
Period size: 34 Copynumber: 2.6 Consensus size: 34
1013582 TCCTTTTTCT
1013592 AAACAAAAAAACAACAAAAACAAAAAACAACAAA
1 AAACAAAAAAACAACAAAAACAAAAAACAACAAA
1013626 AAACAAAAAAACAACAAAAACAAAAAACAACAAA
1 AAACAAAAAAACAACAAAAACAAAAAACAACAAA
1013660 AAACAAAAAAACAACAAAAA
1 AAACAAAAAAACAACAAAAA
1013680 AAAGAGAAAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 54 1.00
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (34 bp):
AAACAAAAAAACAACAAAAACAAAAAACAACAAA
Found at i:1014588 original size:30 final size:30
Alignment explanation
Indices: 1014554--1014614 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
1014544 AAGCTGCATT
*
1014554 TTCTGTAAGTACCCTTAACATTTAAAGTCA
1 TTCTGTAAGTACCCCTAACATTTAAAGTCA
1014584 TTCTGTAAGTACCCCTAACATTTAAAGTCA
1 TTCTGTAAGTACCCCTAACATTTAAAGTCA
1014614 T
1 T
1014615 CCGAGCTAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (30 bp):
TTCTGTAAGTACCCCTAACATTTAAAGTCA
Found at i:1014891 original size:59 final size:60
Alignment explanation
Indices: 1014647--1015149 Score: 667
Period size: 59 Copynumber: 8.4 Consensus size: 60
1014637 AACCTTTTAT
* * *
1014647 CCTTTCAGTCCTCAAAGAGTAGGACGCCCTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTCCAGTCCTCAAAGAGCAGGACG-CTTTTCC-TTTCAAAGCCCACACAAGTTGGTGGCA
* * *
1014709 CCTTTCAGTCCTCAAAGAGCAGGATGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTCCAGTCCTCAAAGAGCAGGACG-CTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
1014770 CATGT-CAGTTCTTAAAGAGCAGGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCT-TCCAGTCCTCAAAGAGCAGGACG-CTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
1014831 CCTTCCAATCCTCAAAGAGTAGGACG-TTTCCCTTTCAAAGCCCACACAAGTTAGTGGCA
1 CCTTCCAGTCCTCAAAGAGCAGGACGCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
1014890 CCTTCCAGTCCTCAAAGAGCAAGACG-TTTTCCTTTCAAAGCCCACACAAGTTGGTGACA
1 CCTTCCAGTCCTCAAAGAGCAGGACGCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * *
1014949 CCTCCCAGTCCTCAAAGAACAAGTCG-TTTTCCTTTCAAAGCCCATACAAGTTGGTGGCA
1 CCTTCCAGTCCTCAAAGAGCAGGACGCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
1015008 CCTTCCAGTCCTCAAAGAGTAGGATGC-TTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTCCAGTCCTCAAAGAGCAGGACGCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
1015067 CCTTCTAGTCCTCAAAGAGTAGGACGC-TTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTCCAGTCCTCAAAGAGCAGGACGCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
1015126 CCTTCTAGTCCCCAAAGAGCAGGA
1 CCTTCCAGTCCTCAAAGAGCAGGA
1015150 TGTGCTTTAA
Statistics
Matches: 397, Mismatches: 41, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
59 267 0.67
60 1 0.00
61 98 0.25
62 31 0.08
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (60 bp):
CCTTCCAGTCCTCAAAGAGCAGGACGCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:1015251 original size:35 final size:35
Alignment explanation
Indices: 1015208--1015338 Score: 113
Period size: 35 Copynumber: 3.6 Consensus size: 35
1015198 TTTATTTCCT
*
1015208 TTTTTCCTTTGTCCTCGAAGAGCAGGACATACTCC
1 TTTTTCCTTTGTCCTCGAAGAGCAAGACATACTCC
* *
1015243 TTTTTCCTTTGTCCTC-AATGAGCAAGACCCATTTCATTC
1 TTTTTCCTTTGTCCTCGAA-GAGCAAGA--CA-TAC-TCC
* * * *
1015282 TCGTTTCCTTTATCCTCGAAGAGCAAGACGTGCTCC
1 T-TTTTCCTTTGTCCTCGAAGAGCAAGACATACTCC
* *
1015318 -TTTTCATTTGTCCTCAAAGAG
1 TTTTTCCTTTGTCCTCGAAGAG
1015339 TAGGACGCCT
Statistics
Matches: 77, Mismatches: 12, Indels: 15
0.74 0.12 0.14
Matches are distributed among these distances:
34 19 0.25
35 23 0.30
36 2 0.03
37 4 0.05
38 3 0.04
39 3 0.04
40 21 0.27
41 2 0.03
ACGTcount: A:0.21, C:0.27, G:0.15, T:0.37
Consensus pattern (35 bp):
TTTTTCCTTTGTCCTCGAAGAGCAAGACATACTCC
Found at i:1015301 original size:75 final size:75
Alignment explanation
Indices: 1015167--1015338 Score: 213
Period size: 75 Copynumber: 2.3 Consensus size: 75
1015157 TAATTTCCTT
* * * ** *
1015167 CTTTTCCTTTATCCTCAAAGAGCAGACGCATTTTATTTCCTTTTTTCCTTTGTCCTCGAAGAGCA
1 CTTTTCCTTTGTCCTCAAAGAGCAGACCCATTTCATTTCCTCGTTTCCTTTATCCTCGAAGAGCA
*
1015232 GGACATACTC
66 AGACATACTC
*
1015242 CTTTTTCCTTTGTCCTCAATGAGCAAGACCCATTTCA-TT-CTCGTTTCCTTTATCCTCGAAGAG
1 C-TTTTCCTTTGTCCTCAAAGAGC-AGACCCATTTCATTTCCTCGTTTCCTTTATCCTCGAAGAG
* *
1015305 CAAGACGTGCTC
64 CAAGACATACTC
*
1015317 CTTTTCATTTGTCCTCAAAGAG
1 CTTTTCCTTTGTCCTCAAAGAG
1015339 TAGGACGCCT
Statistics
Matches: 83, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
74 19 0.23
75 32 0.39
76 22 0.27
77 10 0.12
ACGTcount: A:0.21, C:0.27, G:0.14, T:0.38
Consensus pattern (75 bp):
CTTTTCCTTTGTCCTCAAAGAGCAGACCCATTTCATTTCCTCGTTTCCTTTATCCTCGAAGAGCA
AGACATACTC
Found at i:1017448 original size:29 final size:29
Alignment explanation
Indices: 1017406--1017470 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
1017396 CCACCAACAG
* **
1017406 CAGCAGCAACTCCCAGCCTTCGAGCACTC
1 CAGCAGTAACTCCCAGCCCACGAGCACTC
* *
1017435 CAGCAGTAGCTCCCAGCCCACGAGTACTC
1 CAGCAGTAACTCCCAGCCCACGAGCACTC
1017464 CAGCAGT
1 CAGCAGT
1017471 TCTGTAACCT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.25, C:0.42, G:0.20, T:0.14
Consensus pattern (29 bp):
CAGCAGTAACTCCCAGCCCACGAGCACTC
Found at i:1023415 original size:21 final size:21
Alignment explanation
Indices: 1023389--1023465 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
1023379 AAAAAATTCA
1023389 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
1023410 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
* *
1023431 AATGTATCGATACA-TTCTAC
1 AATGTATCGATACATTTGTAG
1023451 AGATGTATCGATACA
1 A-ATGTATCGATACA
1023466 GGGTCCCAAC
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 4 0.08
21 47 0.92
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:1023525 original size:19 final size:19
Alignment explanation
Indices: 1023501--1023568 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
1023491 AATTCAACAA
1023501 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
1023520 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
1023535 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
1023552 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
1023569 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:1023540 original size:13 final size:13
Alignment explanation
Indices: 1023522--1023546 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1023512 ACATAAGTTT
1023522 TGTATCGATACAA
1 TGTATCGATACAA
1023535 TGTATCGATACA
1 TGTATCGATACA
1023547 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1023544 original size:32 final size:32
Alignment explanation
Indices: 1023503--1023565 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1023493 TTCAACAATT
*
1023503 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
1023535 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
1023566 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:1023674 original size:27 final size:28
Alignment explanation
Indices: 1023644--1023719 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 28
1023634 TTTCTTCACA
1023644 ATCGGGGATACTCCAACCCCGTTA-ATC
1 ATCGGGGATACTCCAACCCCGTTATATC
* *
1023671 ATCGAGGATACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATATC
***
1023699 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
1023720 ACTTTATTTC
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.25, C:0.34, G:0.20, T:0.21
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATATC
Found at i:1023770 original size:51 final size:51
Alignment explanation
Indices: 1023702--1024187 Score: 268
Period size: 52 Copynumber: 9.3 Consensus size: 51
1023692 TTATTTCCGA
* * * *
1023702 GGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTTCATAATC
* * *
1023753 GGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTTCCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTT-CATAATC
* * * * * * *
1023805 GAGGATACTCCAACCCTGGTTTTATTTTCAAAACACCAATTTTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTTC-ATAATC
* * * * *
1023857 GGGGATA-TGCCAACTCTGATTTTATTTCCAAAAAAACAAATTTTTCACAATC
1 GGGGATACT-CCAACCCCGATTTTATTTCC-AAAACACTAATTTTTCATAATC
* * * ** * * * **
1023909 GAGGATACTCCAACCCC-A-TTAATCATCGGGGATACTCCAACCCCGTTATTTC-CGA--
1 GGGGATACTCCAACCCCGATTTTAT-TTC--CAAAACACTAA-----TT-TTTCATAATC
* * * * * * *
1023964 GGGGATACTCCAACCCCTACTTTA-TTCTTAAAATATTGATTTCTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTC-CAAAACACTAATTTTTCATAATC
* * * *
1024015 GGGGATACTCCAACCCC-AGTTTTATTGCTAAAACACCAATTTTTTCACAATC
1 GGGGATACTCCAACCCCGA-TTTTATTTCCAAAACACTAA-TTTTTCATAATC
* * ** * *
1024067 GGGGATACTCTAACCCCGGTTTTATTTTTAAAACACCAATTTTTCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTTC-ATAATC
* * * * *
1024119 GGGGATACTCCAGCTCTGATTTTATTTCCAAAAACACCAATTTTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCC-AAAACACTAA--TTTTTCATAATC
*
1024173 GAGGATACTCCAACC
1 GGGGATACTCCAACC
1024188 TCGTTATTTC
Statistics
Matches: 331, Mismatches: 77, Indels: 51
0.72 0.17 0.11
Matches are distributed among these distances:
48 3 0.01
49 3 0.01
50 5 0.02
51 76 0.23
52 165 0.50
53 24 0.07
54 19 0.06
55 24 0.07
56 1 0.00
57 7 0.02
58 4 0.01
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTTCATAATC
Found at i:1023941 original size:27 final size:28
Alignment explanation
Indices: 1023906--1023980 Score: 89
Period size: 27 Copynumber: 2.7 Consensus size: 28
1023896 ATTTTTCACA
*
1023906 ATCGAGGATACTCCAACCCCATTA-ATC
1 ATCGGGGATACTCCAACCCCATTATATC
* *
1023933 ATCGGGGATACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCATTATATC
***
1023961 CGAGGGGATACTCCAACCCC
1 ATCGGGGATACTCCAACCCC
1023981 TACTTTATTC
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.27, C:0.35, G:0.17, T:0.21
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCATTATATC
Found at i:1024103 original size:262 final size:262
Alignment explanation
Indices: 1023611--1024276 Score: 996
Period size: 262 Copynumber: 2.5 Consensus size: 262
1023601 TTTTCTGTGT
* * *
1023611 ATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCCCGTTAATCATCGA
1 ATTTTATTTCCAAAAAA-ACAAATTT-TTCACAATCGAGGATACTCCAACCCCGTTAATCATCGG
1023676 GGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGA
64 GGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGA
* * * *
1023741 TTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTTCCATAATCG
129 TTTCTCATAATCGGGGATACTCCAACCCCAGTTTTATTGCTAAAACACCAATTTTTCCACAATCG
*
1023806 AGGATACTCCAACCCTGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATA-TGCCAA
194 AGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACT-CCAA
1023870 CTCTG
258 CTCTG
*
1023875 ATTTTATTTCCAAAAAAACAAATTTTTCACAATCGAGGATACTCCAACCCCATTAATCATCGGGG
1 ATTTTATTTCCAAAAAAACAAATTTTTCACAATCGAGGATACTCCAACCCCGTTAATCATCGGGG
* *
1023940 ATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCTACTTTA-TTCTTAAAATATTGAT
66 ATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTC-CAAAATATTGAT
* *
1024004 TTCTCATAATCGGGGATACTCCAACCCCAGTTTTATTGCTAAAACACCAATTTTTTCACAATCGG
130 TTCTCATAATCGGGGATACTCCAACCCCAGTTTTATTGCTAAAACACCAATTTTTCCACAATCGA
* * * *
1024069 GGATACTCTAACCCCGGTTTTATTTTTAAAACACCAATTTTTCTTTAATCGGGGATACTCCAGCT
195 GGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACTCCAACT
1024134 CTG
260 CTG
* * * *
1024137 ATTTTATTTCCAAAAACACCAATTTTTTTCACAATCGAGGATACTCCAACCTCGTTATTTCATCG
1 ATTTTATTTCCAAAAA-AACAA-ATTTTTCACAATCGAGGATACTCCAACCCCGTTA-ATCATCG
** * *
1024202 GGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCG-TTCTTATCTCCAAAATATT
63 GGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACT-TTATTTCCAAAATATT
*
1024266 AAATTTCTCAT
127 -GATTTCTCAT
1024277 CGGGAAATAT
Statistics
Matches: 365, Mismatches: 29, Indels: 14
0.89 0.07 0.03
Matches are distributed among these distances:
261 3 0.01
262 231 0.63
263 12 0.03
264 49 0.13
265 59 0.16
266 11 0.03
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (262 bp):
ATTTTATTTCCAAAAAAACAAATTTTTCACAATCGAGGATACTCCAACCCCGTTAATCATCGGGG
ATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATT
TCTCATAATCGGGGATACTCCAACCCCAGTTTTATTGCTAAAACACCAATTTTTCCACAATCGAG
GATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACTCCAACTC
TG
Found at i:1024206 original size:28 final size:28
Alignment explanation
Indices: 1024170--1024248 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
1024160 TTTTTTCACA
* * **
1024170 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACCTC
1024198 ATCGGGGATACTCCAACCCCGTTACCTC
1 ATCGGGGATACTCCAACCCCGTTACCTC
***
1024226 CGAGGGGATACTCCAACCCCGTT
1 ATCGGGGATACTCCAACCCCGTT
1024249 CTTATCTCCA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.24
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACCTC
Found at i:1029880 original size:13 final size:13
Alignment explanation
Indices: 1029862--1029887 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1029852 CAATTTTTTG
1029862 TGTATCGATACAT
1 TGTATCGATACAT
1029875 TGTATCGATACAT
1 TGTATCGATACAT
1029888 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1029972 original size:20 final size:20
Alignment explanation
Indices: 1029947--1030019 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1029937 CATCCTTTTT
1029947 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
1029967 ATGTATCGATACATTTTTTTC
1 ATGTATCGATACA-TTGCAAC
1029988 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
1030008 ATGTATCGATAC
1 ATGTATCGATAC
1030020 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:1029992 original size:21 final size:21
Alignment explanation
Indices: 1029926--1030002 Score: 86
Period size: 21 Copynumber: 3.7 Consensus size: 21
1029916 CTGCCAAGAA
*
1029926 ATGTATCGATACATCCTTTTT-
1 ATGTATCGATACAT-TTTTTTC
****
1029947 ATGTATCGATACA-TTGCAAC
1 ATGTATCGATACATTTTTTTC
1029967 ATGTATCGATACATTTTTTTC
1 ATGTATCGATACATTTTTTTC
1029988 ATGTATCGATACATT
1 ATGTATCGATACATT
1030003 GCAACATGTA
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
19 1 0.02
20 13 0.29
21 31 0.69
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.43
Consensus pattern (21 bp):
ATGTATCGATACATTTTTTTC
Found at i:1029992 original size:41 final size:41
Alignment explanation
Indices: 1029926--1030019 Score: 163
Period size: 41 Copynumber: 2.3 Consensus size: 41
1029916 CTGCCAAGAA
1029926 ATGTATCGATACATCCTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCCTTTTTATGTATCGATACATTGCAAC
*
1029967 ATGTATCGATACAT-TTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCCTTTTT-ATGTATCGATACATTGCAAC
1030008 ATGTATCGATAC
1 ATGTATCGATAC
1030020 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
40 5 0.10
41 46 0.90
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCCTTTTTATGTATCGATACATTGCAAC
Found at i:1032475 original size:13 final size:13
Alignment explanation
Indices: 1032457--1032495 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1032447 ATAATCACCC
*
1032457 TGTATCGATACAG
1 TGTATCGATACAA
1032470 TGTATCGATACAA
1 TGTATCGATACAA
1032483 TGTATCGATACAA
1 TGTATCGATACAA
1032496 GGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1034589 original size:15 final size:15
Alignment explanation
Indices: 1034569--1034598 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1034559 TTCGTTTGGA
*
1034569 AGCTTCTTCATTTTG
1 AGCTTCCTCATTTTG
1034584 AGCTTCCTCATTTTG
1 AGCTTCCTCATTTTG
1034599 GACATTTTTA
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:0.23, G:0.13, T:0.50
Consensus pattern (15 bp):
AGCTTCCTCATTTTG
Found at i:1038677 original size:13 final size:13
Alignment explanation
Indices: 1038659--1038684 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1038649 CAATTTTTTG
1038659 TGTATCGATACAT
1 TGTATCGATACAT
1038672 TGTATCGATACAT
1 TGTATCGATACAT
1038685 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1038769 original size:20 final size:20
Alignment explanation
Indices: 1038744--1038816 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1038734 CATCCTTTTT
1038744 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
1038764 ATGTATCGATACATTTTTTTC
1 ATGTATCGATACA-TTGCAAC
1038785 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
1038805 ATGTATCGATAC
1 ATGTATCGATAC
1038817 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:1038789 original size:21 final size:21
Alignment explanation
Indices: 1038723--1038799 Score: 86
Period size: 21 Copynumber: 3.7 Consensus size: 21
1038713 CTGCCAAGAA
*
1038723 ATGTATCGATACATCCTTTTT-
1 ATGTATCGATACAT-TTTTTTC
****
1038744 ATGTATCGATACA-TTGCAAC
1 ATGTATCGATACATTTTTTTC
1038764 ATGTATCGATACATTTTTTTC
1 ATGTATCGATACATTTTTTTC
1038785 ATGTATCGATACATT
1 ATGTATCGATACATT
1038800 GCAACATGTA
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
19 1 0.02
20 13 0.29
21 31 0.69
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.43
Consensus pattern (21 bp):
ATGTATCGATACATTTTTTTC
Found at i:1038789 original size:41 final size:41
Alignment explanation
Indices: 1038723--1038816 Score: 163
Period size: 41 Copynumber: 2.3 Consensus size: 41
1038713 CTGCCAAGAA
1038723 ATGTATCGATACATCCTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCCTTTTTATGTATCGATACATTGCAAC
*
1038764 ATGTATCGATACAT-TTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCCTTTTT-ATGTATCGATACATTGCAAC
1038805 ATGTATCGATAC
1 ATGTATCGATAC
1038817 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
40 5 0.10
41 46 0.90
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCCTTTTTATGTATCGATACATTGCAAC
Found at i:1041991 original size:949 final size:949
Alignment explanation
Indices: 1040152--1042049 Score: 3724
Period size: 949 Copynumber: 2.0 Consensus size: 949
1040142 AAGTCACCAC
1040152 CATACCCTAGGTGGTATGACGAGAATGCTTACTGCGAATATCATGCCGGGGCACAAGGCCATTCT
1 CATACCCTAGGTGGTATGACGAGAATGCTTACTGCGAATATCATGCCGGGGCACAAGGCCATTCT
1040217 ATTGAGAATTGCACATCGTTCAGGAGAAAGGTGCAGGGTTTGCTAAATAGAGGTGTGATCAAGGT
66 ATTGAGAATTGCACATCGTTCAGGAGAAAGGTGCAGGGTTTGCTAAATAGAGGTGTGATCAAGGT
*
1040282 TGAACAAGGCCCAGGGCCTAACGTTGGGGCCAATCCATTCCCCAATCACACCGAACTAATGATAA
131 TGAACAAGGCCCAGGGCCTAACGTTGGGGCCAATCCATTCCCCAATCACACCGAACCAATGATAA
1040347 ATGCCATAATGAACAGGAAAAGCTGTTGGATCAAAAGGAGCGTCAAAGAAGTCAAGACCCCAATG
196 ATGCCATAATGAACAGGAAAAGCTGTTGGATCAAAAGGAGCGTCAAAGAAGTCAAGACCCCAATG
1040412 TCTAAAGTATGGCAAGCTTTTGTAAAAGCGGGACTAGTGAGCCAAAAAGAAGAAGTTGCGGAATC
261 TCTAAAGTATGGCAAGCTTTTGTAAAAGCGGGACTAGTGAGCCAAAAAGAAGAAGTTGCGGAATC
1040477 ATCTTGTCGCTACTATAATCAGGCACATGAATTGCAGCAATGCACATCATTCCTAAAGAAGGTCC
326 ATCTTGTCGCTACTATAATCAGGCACATGAATTGCAGCAATGCACATCATTCCTAAAGAAGGTCC
1040542 AATGGATGATGGATCGATCAGAAATGGAATTCTATGAAGAGTATGATGGATGAATTCATGAATCT
391 AATGGATGATGGATCGATCAGAAATGGAATTCTATGAAGAGTATGATGGATGAATTCATGAATCT
1040607 GTTAATGCCTTAGAAGAACGAAAAACTAATGAAGATGGGGTGTTGATGTGTCTCTCCCTCATGGG
456 GTTAATGCCTTAGAAGAACGAAAAACTAATGAAGATGGGGTGTTGATGTGTCTCTCCCTCATGGG
*
1040672 TATGGAAAGGAGACTTGATGAAAGCTTCCGATGTTATGCCTCGAGGTGGATGGAAAAGGCTGCCC
521 TATGGAAAGGAGACTTGATGAAAGCTTCCGATGTTATGCCTCGAGGTGGATGGAAAAGGCTACCC
1040737 AGATTCAGCCTTTGTTGACGGAAAAAGAAATGATCGTCAAGTTAATTGGCACATTACGGTCACCA
586 AGATTCAGCCTTTGTTGACGGAAAAAGAAATGATCGTCAAGTTAATTGGCACATTACGGTCACCA
1040802 TATTATGATGAAGTGGCGAGATTTCCAAAGAGTTTTGCAGATATAGTGGTGCTCTGTGGGATGAT
651 TATTATGATGAAGTGGCGAGATTTCCAAAGAGTTTTGCAGATATAGTGGTGCTCTGTGGGATGAT
1040867 GGATGAAGCTCTAAAAAAGGAATCCGGCAGAGGTAAGAAGGAAGGCGAAGTCGAAAGGAAGCCAC
716 GGATGAAGCTCTAAAAAAGGAATCCGGCAGAGGTAAGAAGGAAGGCGAAGTCGAAAGGAAGCCAC
*
1040932 AGTCAAGAATCGATGTGGGAGCTAGTTTGTCCCGAACTCGTGCAGATCCAGAGCTAGAAAGGTTC
781 AGTCAAGAATCGATATGGGAGCTAGTTTGTCCCGAACTCGTGCAGATCCAGAGCTAGAAAGGTTC
1040997 GTCACTGAACAAGACTATGAGATTGTAAGGAATGTCGAGGAACTCAGAGTACCAATGATTACGAT
846 GTCACTGAACAAGACTATGAGATTGTAAGGAATGTCGAGGAACTCAGAGTACCAATGATTACGAT
1041062 CAGGAAAATCCTAATACAGGCCGAGTTGATCAGTGGGGT
911 CAGGAAAATCCTAATACAGGCCGAGTTGATCAGTGGGGT
*
1041101 CATACCCTAGGTGGTATGACGAGAGTGCTTACTGCGAATATCATGCCGGGGCACAAGGCCATTCT
1 CATACCCTAGGTGGTATGACGAGAATGCTTACTGCGAATATCATGCCGGGGCACAAGGCCATTCT
1041166 ATTGAGAATTGCACATCGTTCAGGAGAAAGGTGCAGGGTTTGCTAAATAGAGGTGTGATCAAGGT
66 ATTGAGAATTGCACATCGTTCAGGAGAAAGGTGCAGGGTTTGCTAAATAGAGGTGTGATCAAGGT
1041231 TGAACAAGGCCCAGGGCCTAACGTTGGGGCCAATCCATTCCCCAATCACACCGAACCAATGATAA
131 TGAACAAGGCCCAGGGCCTAACGTTGGGGCCAATCCATTCCCCAATCACACCGAACCAATGATAA
*
1041296 ATGCCATAATGAACAGGAAAAGCTGTTGGATCAAAAGGAGCGTCGAAGAAGTCAAGACCCCAATG
196 ATGCCATAATGAACAGGAAAAGCTGTTGGATCAAAAGGAGCGTCAAAGAAGTCAAGACCCCAATG
1041361 TCTAAAGTATGGCAAGCTTTTGTAAAAGCGGGACTAGTGAGCCAAAAAGAAGAAGTTGCGGAATC
261 TCTAAAGTATGGCAAGCTTTTGTAAAAGCGGGACTAGTGAGCCAAAAAGAAGAAGTTGCGGAATC
1041426 ATCTTGTCGCTACTATAATCAGGCACATGAATTGCAGCAATGCACATCATTCCTAAAGAAGGTCC
326 ATCTTGTCGCTACTATAATCAGGCACATGAATTGCAGCAATGCACATCATTCCTAAAGAAGGTCC
1041491 AATGGATGATGGATCGATCAGAAATGGAATTCTATGAAGAGTATGATGGATGAATTCATGAATCT
391 AATGGATGATGGATCGATCAGAAATGGAATTCTATGAAGAGTATGATGGATGAATTCATGAATCT
1041556 GTTAATGCCTTAGAAGAACGAAAAACTAATGAAGATGGGGTGTTGATGTGTCTCTCCCTCATGGG
456 GTTAATGCCTTAGAAGAACGAAAAACTAATGAAGATGGGGTGTTGATGTGTCTCTCCCTCATGGG
1041621 TATGGAAAGGAGACTTGATGAAAGCTTCCGATGTTATGCCTCGAGGTGGATGGAAAAGGCTACCC
521 TATGGAAAGGAGACTTGATGAAAGCTTCCGATGTTATGCCTCGAGGTGGATGGAAAAGGCTACCC
*
1041686 AGATTCAGCCTTTGTTGATGGAAAAAGAAATGATCGTCAAGTTAATTGGCACATTACGGTCACCA
586 AGATTCAGCCTTTGTTGACGGAAAAAGAAATGATCGTCAAGTTAATTGGCACATTACGGTCACCA
1041751 TATTATGATGAAGTGGCGAGATTTCCAAAGAGTTTTGCAGATATAGTGGTGCTCTGTGGGATGAT
651 TATTATGATGAAGTGGCGAGATTTCCAAAGAGTTTTGCAGATATAGTGGTGCTCTGTGGGATGAT
1041816 GGATGAAGCTCTAAAAAAGGAATCCGGCAGAGGTAAGAAGGAAGGCGAAGTCGAAAGGAAGCCAC
716 GGATGAAGCTCTAAAAAAGGAATCCGGCAGAGGTAAGAAGGAAGGCGAAGTCGAAAGGAAGCCAC
1041881 AGTCAAGAATCGATATGGGAGCTAGTTTGTCCCGAACTCGTGCAGATCCAGAGCTAGAAAGGTTC
781 AGTCAAGAATCGATATGGGAGCTAGTTTGTCCCGAACTCGTGCAGATCCAGAGCTAGAAAGGTTC
1041946 GTCACTGAACAAGACTATGAGATTGTAAGGAATGTCGAGGAACTCAGAGTACCAATGATTACGAT
846 GTCACTGAACAAGACTATGAGATTGTAAGGAATGTCGAGGAACTCAGAGTACCAATGATTACGAT
* *
1042011 CTGGCAAATCCTAATACAGGCCGAGTTGATCAGTGGGGT
911 CAGGAAAATCCTAATACAGGCCGAGTTGATCAGTGGGGT
1042050 TATGATGACG
Statistics
Matches: 941, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
949 941 1.00
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.23
Consensus pattern (949 bp):
CATACCCTAGGTGGTATGACGAGAATGCTTACTGCGAATATCATGCCGGGGCACAAGGCCATTCT
ATTGAGAATTGCACATCGTTCAGGAGAAAGGTGCAGGGTTTGCTAAATAGAGGTGTGATCAAGGT
TGAACAAGGCCCAGGGCCTAACGTTGGGGCCAATCCATTCCCCAATCACACCGAACCAATGATAA
ATGCCATAATGAACAGGAAAAGCTGTTGGATCAAAAGGAGCGTCAAAGAAGTCAAGACCCCAATG
TCTAAAGTATGGCAAGCTTTTGTAAAAGCGGGACTAGTGAGCCAAAAAGAAGAAGTTGCGGAATC
ATCTTGTCGCTACTATAATCAGGCACATGAATTGCAGCAATGCACATCATTCCTAAAGAAGGTCC
AATGGATGATGGATCGATCAGAAATGGAATTCTATGAAGAGTATGATGGATGAATTCATGAATCT
GTTAATGCCTTAGAAGAACGAAAAACTAATGAAGATGGGGTGTTGATGTGTCTCTCCCTCATGGG
TATGGAAAGGAGACTTGATGAAAGCTTCCGATGTTATGCCTCGAGGTGGATGGAAAAGGCTACCC
AGATTCAGCCTTTGTTGACGGAAAAAGAAATGATCGTCAAGTTAATTGGCACATTACGGTCACCA
TATTATGATGAAGTGGCGAGATTTCCAAAGAGTTTTGCAGATATAGTGGTGCTCTGTGGGATGAT
GGATGAAGCTCTAAAAAAGGAATCCGGCAGAGGTAAGAAGGAAGGCGAAGTCGAAAGGAAGCCAC
AGTCAAGAATCGATATGGGAGCTAGTTTGTCCCGAACTCGTGCAGATCCAGAGCTAGAAAGGTTC
GTCACTGAACAAGACTATGAGATTGTAAGGAATGTCGAGGAACTCAGAGTACCAATGATTACGAT
CAGGAAAATCCTAATACAGGCCGAGTTGATCAGTGGGGT
Found at i:1048881 original size:12 final size:12
Alignment explanation
Indices: 1048861--1048899 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
1048851 ACCTACTCTT
1048861 CAAAAAAAAAAA
1 CAAAAAAAAAAA
1048873 CAAACAAAAAAAA
1 CAAA-AAAAAAAA
*
1048886 AAAAAAGAAAAAA
1 CAAAAA-AAAAAA
1048899 C
1 C
1048900 CCCTTTTCAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 6 0.26
13 17 0.74
ACGTcount: A:0.87, C:0.10, G:0.03, T:0.00
Consensus pattern (12 bp):
CAAAAAAAAAAA
Found at i:1048883 original size:15 final size:15
Alignment explanation
Indices: 1048861--1048898 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
1048851 ACCTACTCTT
1048861 CAAAAAAAAAAACAAA
1 CAAAAAAAAAAA-AAA
1048877 CAAAAAAAAAAAAAA
1 CAAAAAAAAAAAAAA
*
1048892 GAAAAAA
1 CAAAAAA
1048899 CCCCTTTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.89, C:0.08, G:0.03, T:0.00
Consensus pattern (15 bp):
CAAAAAAAAAAAAAA
Found at i:1049962 original size:31 final size:31
Alignment explanation
Indices: 1049835--1049948 Score: 210
Period size: 31 Copynumber: 3.7 Consensus size: 31
1049825 ATACCTTTTT
1049835 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
* *
1049866 AAAGTCCACGACTCAATGGCAATCTCTGCTC
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
1049897 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
1049928 AAAGTCCACGACTCAGTGGCA
1 AAAGTCCACGACTCAGTGGCA
1049949 TTTTTTCTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 79 1.00
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.23
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCAATCTCTTCTC
Found at i:1049978 original size:62 final size:62
Alignment explanation
Indices: 1049835--1049979 Score: 186
Period size: 62 Copynumber: 2.3 Consensus size: 62
1049825 ATACCTTTTT
* *
1049835 AAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAATGGCAATCTCTGCTC
1 AAAGCCCACAACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAATGGCAATCTCTGCTC
* * * * * *
1049897 AAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGC-ATTTTTTCTTC
1 AAAGCCCACAACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAATGGCAATCTCTGC-TC
1049959 AAAGCCCACAACTTC-GTGGCA
1 AAAGCCCACAAC-TCAGTGGCA
1049980 CCTTTTCCTT
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
61 5 0.07
62 68 0.91
63 2 0.03
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.26
Consensus pattern (62 bp):
AAAGCCCACAACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAATGGCAATCTCTGCTC
Done.