Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 ID=Chr06-JGI_221_v2.0
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: 51074515
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 971674 characters in sequence are not A, C, G, or T
File 92 of 168
Found at i:27334590 original size:19 final size:19
Alignment explanation
Indices: 27334566--27334603 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
27334556 ACTAAAGATC
*
27334566 GAGCATTAGCGGCGTTTTT
1 GAGCATTAGCGGCATTTTT
*
27334585 GAGCATTCGCGGCATTTTT
1 GAGCATTAGCGGCATTTTT
27334604 CAGAAAAACG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.16, C:0.18, G:0.29, T:0.37
Consensus pattern (19 bp):
GAGCATTAGCGGCATTTTT
Found at i:27334733 original size:41 final size:41
Alignment explanation
Indices: 27334657--27334936 Score: 282
Period size: 41 Copynumber: 6.9 Consensus size: 41
27334647 CTTACCTTTT
* ** **
27334657 GGGGCTTTAGCGGCGTTTTCAAAAAAGCGTTGCTAATGCTC
1 GGGGTTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTC
*
27334698 GGGGATTTAGCGGCGTTTTTTCAAAAA-CGCCGCTAATGCTC
1 GGGGTTTTAGCGGCGTTTTTT-AAAAAGCGCCGCTAATGCTC
* * * * *
27334739 -GGGCTTTAGCGGCATTTTTGAAAAAGCGCAGCTAATACTC
1 GGGGTTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTC
* * * *
27334779 GGTGTTTTAGTGTCGTTTTTTAAAAGGCGCCGCTAATGCTC
1 GGGGTTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTC
* * * ***
27334820 GGTGTTTTAGTGGTGTTTTTT-AAAAGTCGCTTTTAACT-CTC
1 GGGGTTTTAGCGGCGTTTTTTAAAAAG-CGCCGCTAA-TGCTC
* *
27334861 GGGGTTTTAGCGAC-TTTTTTAAAAAGCGCCGCTAATACTC
1 GGGGTTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTC
*
27334901 GGGGTTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAA
1 GGGGTTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAA
27334937 AAACATTTTA
Statistics
Matches: 197, Mismatches: 34, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
39 6 0.03
40 61 0.31
41 124 0.63
42 6 0.03
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (41 bp):
GGGGTTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTC
Found at i:27334796 original size:81 final size:79
Alignment explanation
Indices: 27334658--27334936 Score: 283
Period size: 81 Copynumber: 3.4 Consensus size: 79
27334648 TTACCTTTTG
* * * *
27334658 GGGCTTTAGCGGCGTTTTCAAAAAAGCGTTGCTAATGCTCGGGGATTTAGCGGCGTTTTTTCAAA
1 GGGCTTTAGCGGCGTTTTTAAAAAAGCGCTGCTAAT-CTCGGGGTTTTAGCGACGTTTTTT-AAA
27334723 AACGCCGCTAATGCTC
64 AACGCCGCTAATGCTC
* * * * * *
27334739 GGGCTTTAGCGGCATTTTTGAAAAAGCGCAGCTAATACTCGGTGTTTTAGTGTCGTTTTTTAAAA
1 GGGCTTTAGCGGCGTTTTTAAAAAAGCGCTGCTAAT-CTCGGGGTTTTAGCGACGTTTTTTAAAA
*
27334804 GGCGCCGCTAATGCTC
65 -ACGCCGCTAATGCTC
* * * * **
27334820 GGTGTTTTAGTGGTGTTTTT-TAAAAGTCGCTTTTAACTCTCGGGGTTTTAGCGAC-TTTTTTAA
1 GG-GCTTTAGCGGCGTTTTTAAAAAAG-CGCTGCTAA-TCTCGGGGTTTTAGCGACGTTTTTTAA
*
27334883 AAAGCGCCGCTAATACTC
63 AAA-CGCCGCTAATGCTC
* *
27334901 GGGGTTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAA
1 -GGGCTTTAGCGGCGTTTTTAAAAAAGCGCTGCTAA
27334937 AAACATTTTA
Statistics
Matches: 161, Mismatches: 30, Indels: 14
0.79 0.15 0.07
Matches are distributed among these distances:
80 4 0.02
81 116 0.72
82 40 0.25
83 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (79 bp):
GGGCTTTAGCGGCGTTTTTAAAAAAGCGCTGCTAATCTCGGGGTTTTAGCGACGTTTTTTAAAAA
CGCCGCTAATGCTC
Found at i:27335337 original size:21 final size:21
Alignment explanation
Indices: 27335311--27335364 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
27335301 TAGGAATTAT
*
27335311 GGTTTAAGGGTT-GAGATTTAA
1 GGTTTAAGGGTTAGAG-GTTAA
*
27335332 GGTTTAGGGGTTAGAGGTTAA
1 GGTTTAAGGGTTAGAGGTTAA
27335353 GAG-TTAAGGGTT
1 G-GTTTAAGGGTT
27335365 TAGGGTTTAG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
21 24 0.86
22 4 0.14
ACGTcount: A:0.26, C:0.00, G:0.39, T:0.35
Consensus pattern (21 bp):
GGTTTAAGGGTTAGAGGTTAA
Found at i:27335350 original size:28 final size:29
Alignment explanation
Indices: 27335319--27335376 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
27335309 ATGGTTTAAG
* *
27335319 GGTTGAGATTTAA-GGTTTAGGGGTTAGA
1 GGTTAAGAGTTAAGGGTTTAGGGGTTAGA
*
27335347 GGTTAAGAGTTAAGGGTTTAGGGTTTAGA
1 GGTTAAGAGTTAAGGGTTTAGGGGTTAGA
27335376 G
1 G
27335377 ATTTAGGAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 11 0.42
29 15 0.58
ACGTcount: A:0.26, C:0.00, G:0.40, T:0.34
Consensus pattern (29 bp):
GGTTAAGAGTTAAGGGTTTAGGGGTTAGA
Found at i:27335371 original size:21 final size:21
Alignment explanation
Indices: 27335314--27335376 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
27335304 GAATTATGGT
* **
27335314 TTAAGGGTTGAGATTTAAG-G
1 TTAAGGGTTTAGGGTTAAGAG
* *
27335334 TTTAGGGGTTAGAGGTTAAGAG
1 TTAAGGGTTTAG-GGTTAAGAG
*
27335356 TTAAGGGTTTAGGGTTTAGAG
1 TTAAGGGTTTAGGGTTAAGAG
27335377 ATTTAGGAGT
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
20 9 0.27
21 13 0.39
22 11 0.33
ACGTcount: A:0.27, C:0.00, G:0.38, T:0.35
Consensus pattern (21 bp):
TTAAGGGTTTAGGGTTAAGAG
Found at i:27339207 original size:16 final size:17
Alignment explanation
Indices: 27339170--27339216 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 17
27339160 TTTGGTTCGC
27339170 TGTAATGGAATAGA-TA
1 TGTAATGGAATAGAGTA
* *
27339186 TATAATGAAATAGAGT-
1 TGTAATGGAATAGAGTA
27339202 TGTAATGGAATAGAG
1 TGTAATGGAATAGAG
27339217 GCGTAATAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
16 25 0.96
17 1 0.04
ACGTcount: A:0.45, C:0.00, G:0.26, T:0.30
Consensus pattern (17 bp):
TGTAATGGAATAGAGTA
Found at i:27339255 original size:45 final size:45
Alignment explanation
Indices: 27339205--27339298 Score: 113
Period size: 45 Copynumber: 2.1 Consensus size: 45
27339195 ATAGAGTTGT
*
27339205 AATGGAATAGAGGC-GT-AATAGACATTCAAT-TGTTTGGTTGAATGG
1 AATGGAATAGA-ACTGTAAATAG-CATTC-ATGTGTTTGGTTGAATGG
* *
27339250 AATGGAATAGAACTGTAAATAGTATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAAATAGCATTCATGTGTTTGGTTGAATGG
27339295 AATG
1 AATG
27339299 ATGTTGTAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
44 2 0.05
45 36 0.84
46 5 0.12
ACGTcount: A:0.33, C:0.05, G:0.28, T:0.34
Consensus pattern (45 bp):
AATGGAATAGAACTGTAAATAGCATTCATGTGTTTGGTTGAATGG
Found at i:27339554 original size:15 final size:14
Alignment explanation
Indices: 27339531--27339597 Score: 50
Period size: 15 Copynumber: 4.7 Consensus size: 14
27339521 TACTAAAATC
*
27339531 ATAATATATAATACT
1 ATAAAATATAATA-T
27339546 ATAAAATATAAT-T
1 ATAAAATATAATAT
27339559 -TAAAATA-AATATT
1 ATAAAATATAATA-T
* *
27339572 ATTAAATATAATTT
1 ATAAAATATAATAT
27339586 AATAAAAATATA
1 -AT-AAAATATA
27339598 TAATTTAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
11 3 0.07
12 7 0.17
13 2 0.05
14 7 0.17
15 16 0.38
16 7 0.17
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (14 bp):
ATAAAATATAATAT
Found at i:27339578 original size:26 final size:26
Alignment explanation
Indices: 27339540--27339600 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
27339530 CATAATATAT
*
27339540 AATACTATAAAATATAATTTAA-AATA
1 AATATTATAAAATATAATTTAATAA-A
*
27339566 AATATTATTAAATATAATTTAATAAA
1 AATATTATAAAATATAATTTAATAAA
27339592 AATA-TATAA
1 AATATTATAA
27339601 TTTAATAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 4 0.13
26 25 0.81
27 2 0.06
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (26 bp):
AATATTATAAAATATAATTTAATAAA
Found at i:27339578 original size:120 final size:120
Alignment explanation
Indices: 27339437--27339794 Score: 632
Period size: 120 Copynumber: 3.0 Consensus size: 120
27339427 TTAATCATAT
*
27339437 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
*
27339502 AAATATTTTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
*
27339557 TTTAAAATAAATATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
*
27339622 AAATATTCTTATATGAATTTACTAAAATCATAAAATATAATACTAT-AAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* *
27339676 TTTAAAATAATTGTTATTAAATATAATTTAATAATAATATATAATTTAATAAAATTCTTAATA-T
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
*
27339740 AATTATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAA-ATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
27339794 T
1 T
27339795 ATATAATCTA
Statistics
Matches: 228, Mismatches: 9, Indels: 4
0.95 0.04 0.02
Matches are distributed among these distances:
118 50 0.22
119 71 0.31
120 107 0.47
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (120 bp):
TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:27339681 original size:26 final size:25
Alignment explanation
Indices: 27339652--27339719 Score: 68
Period size: 26 Copynumber: 2.7 Consensus size: 25
27339642 ACTAAAATCA
27339652 TAAAATATAATACTATAAATATAATT
1 TAAAATATAATA-TATAAATATAATT
* *
27339678 TAAAATA-ATTGTTATTAAATATAATT
1 TAAAATATAAT-ATA-TAAATATAATT
*
27339704 TAATA-ATAATATATAA
1 TAAAATATAATATATAA
27339720 TTTAATAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
24 3 0.09
25 7 0.21
26 24 0.71
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (25 bp):
TAAAATATAATATATAAATATAATT
Found at i:27341058 original size:49 final size:49
Alignment explanation
Indices: 27340986--27341089 Score: 147
Period size: 49 Copynumber: 2.1 Consensus size: 49
27340976 GAAAAAAAAC
* * *
27340986 AAATTAAAATTAAGTTTAATATCATTAATCAAAATG-TGAACACTTCATA
1 AAATTAAAATTAAGTTCAATATCATGAATCAAAA-GCTCAACACTTCATA
* *
27341035 AAATTAAAATTAAGTTCAATATCATGAATTAAAAGCTCAACACTTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTCATA
27341084 AAATTA
1 AAATTA
27341090 TAACACATGA
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
48 1 0.02
49 48 0.98
ACGTcount: A:0.50, C:0.11, G:0.06, T:0.34
Consensus pattern (49 bp):
AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTCATA
Found at i:27344819 original size:12 final size:12
Alignment explanation
Indices: 27344799--27344828 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
27344789 GCGATAAAGG
*
27344799 AAACGCTATATT
1 AAACTCTATATT
27344811 AAACTCTATATT
1 AAACTCTATATT
27344823 AAACTC
1 AAACTC
27344829 AGCAAGTGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.43, C:0.20, G:0.03, T:0.33
Consensus pattern (12 bp):
AAACTCTATATT
Found at i:27346647 original size:43 final size:43
Alignment explanation
Indices: 27346595--27346801 Score: 274
Period size: 43 Copynumber: 4.8 Consensus size: 43
27346585 GTTTGTGAAA
* * * *
27346595 AAGCGCCGCTAAAAGTCAT-TTTTTGTAGTGGCATTTGTGGTAG
1 AAGCGCCGCTAAAGGTCATGGTCTT-TAGTGGCGTTTGTGGTAG
*
27346638 AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGTAG
1 AAGCGCCGCTAAAGGTCATGGTCTTTAGTGGCGTTTGTGGTAG
*
27346681 AAGTGCCGCTAAAGGTCATGGTCTTTAGTGGCGTTTGTGGTAG
1 AAGCGCCGCTAAAGGTCATGGTCTTTAGTGGCGTTTGTGGTAG
* ** *
27346724 AAGCGCCG-TTAAGGTCATGGTCTTTAGCAGTGTTTGTGGTAG
1 AAGCGCCGCTAAAGGTCATGGTCTTTAGTGGCGTTTGTGGTAG
** *
27346766 AAGCGCCGCTAAAGGTCATAATCTTTAGCGGCGTTT
1 AAGCGCCGCTAAAGGTCATGGTCTTTAGTGGCGTTT
27346802 TTTCAAATAA
Statistics
Matches: 145, Mismatches: 17, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
42 38 0.26
43 104 0.72
44 3 0.02
ACGTcount: A:0.21, C:0.16, G:0.31, T:0.31
Consensus pattern (43 bp):
AAGCGCCGCTAAAGGTCATGGTCTTTAGTGGCGTTTGTGGTAG
Found at i:27346749 original size:85 final size:85
Alignment explanation
Indices: 27346563--27346801 Score: 295
Period size: 85 Copynumber: 2.8 Consensus size: 85
27346553 AATATTTTTT
* * * * * * * *
27346563 TAAAAGTCAT-GTTTTTAGCCGCGTTTGT-GAAAAAGCGCCGCTAAAAGTCATTTTTTGTAGTGG
1 TAAAGGTCATGGTCTTTAGCAGCGTTTGTGGTAGAAGCGCCGCTAAAGGTCATATCTT-TAGTGG
*
27346626 CATTTGTGGTAGAAGCGCCGC
65 CGTTTGTGGTAGAAGCGCCGC
* * *
27346647 TAAAGGTCATGGTCTTTAGCGGCGTTTGTGGTAGAAGTGCCGCTAAAGGTCATGGTCTTTAGTGG
1 TAAAGGTCATGGTCTTTAGCAGCGTTTGTGGTAGAAGCGCCGCTAAAGGTCAT-ATCTTTAGTGG
27346712 CGTTTGTGGTAGAAGCGCCG-
65 CGTTTGTGGTAGAAGCGCCGC
* * *
27346732 TTAAGGTCATGGTCTTTAGCAGTGTTTGTGGTAGAAGCGCCGCTAAAGGTCATAATCTTTAGCGG
1 TAAAGGTCATGGTCTTTAGCAGCGTTTGTGGTAGAAGCGCCGCTAAAGGTCAT-ATCTTTAGTGG
27346797 CGTTT
65 CGTTT
27346802 TTTCAAATAA
Statistics
Matches: 135, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
84 9 0.07
85 79 0.59
86 44 0.33
87 3 0.02
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (85 bp):
TAAAGGTCATGGTCTTTAGCAGCGTTTGTGGTAGAAGCGCCGCTAAAGGTCATATCTTTAGTGGC
GTTTGTGGTAGAAGCGCCGC
Found at i:27347100 original size:4 final size:4
Alignment explanation
Indices: 27347091--27347118 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
27347081 GAGGAAAATG
27347091 ATAA ATAA ATAA ATAA ATAA ATAA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA
27347119 TGAGCTACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAA
Found at i:27349543 original size:871 final size:860
Alignment explanation
Indices: 27347792--27349621 Score: 2331
Period size: 871 Copynumber: 2.1 Consensus size: 860
27347782 TTAAGGCCGG
* * * *
27347792 TTTAGATTCCCTTGGTTTTCTGAAAATGTAGATGAT--ATTCATTGTATGTATATACATTCTAGA
1 TTTAGATTCTCTTGGTTTTCT-AAAATGTAGATGATGGATTCAGTATATGTATATACATTCTAGC
* *
27347855 TAAGCTTGGGGCAACACAGAA-GAAATAAAAGGCTTTCAGGCTTGCTAAGTTAATATCAAAGTCA
65 TAAGCTTGGGACAACACA-AAGGAAATAAAAGGCTTTCAGGCTTGCTAAGTTAATAGCAAAGTCA
* * *
27347919 TTACTAACCTCTTAATGTACTTAGTCAATTTATTTGAGCACATACCCTTCAAGGGTATTGCTCAC
129 TTACTAACCTCTTAAGGTACCTAGTCAATTTATTTGAGCACACACCCTTCAAGGGTATTGCTCAC
** * *
27347984 TAAGTCAAAAGAAGAGTCGCTTTTAGCCTCTTAAGGCACTTAGCAACTTATTTAAAGCAAACACC
194 TAAGTCAAAAGAAGAACCGCTTCTAACCTCTTAAGGCACTTAGCAACTTATTTAAAGCAAACACC
*
27348049 TATTGCAAATATCCTCACTAAGTCAATAGCAAAAAATAAGGCTAACCTCTGAAGGCATTTAGCCA
259 TATTGCAAATATCCTCACTAAGTCAATAGCAAAAAATAAGGCTAACCTCTGAAGGCACTTAGCCA
* *
27348114 AATTTACAAGTTATAAAACAGACACCCATCATAGATAATGCTTACTAAGTTAATAATAGAAACCA
324 AATTTACAAGTTATAAAACAAACACCCATCACAGATAATGCTTACTAAGTTAATAATAGAAACCA
* *
27348179 TTTCTAGCCTATTAAAGAATGTGCATAGTTTTTTTATTATTATAAAAAGACCTAACATACAACAC
389 TTTCTAGCCTATTAAAGAATGTGCATA--TATCTTATTATTATAAAAAGACCTAACATACAACAC
* **
27348244 AAAGGCTTCACCTCTACTTTTATCTCAGATAAGGCCACGTTATAAACTATTCCTCAACTGAGAGC
452 AAAGGCTTCACCCCTACTTTTATCTCAGATAAAACCACGTTATAAACTATTCCTCAACTGAGAGC
* * *
27348309 AATTATTATGCATATACAAATATTATCTAAACTCATCAAAGGCCTACGTATTTCATCCCCACGCT
517 AATTATTATGCATATACAAATATTATCCAAACTCATCAAAGGCCTACCTATTACATCCCCACGCT
27348374 ATTAGGCTATTATTACAAAGGGCCTACACAAGAGGGCAAATCACCTATTTTATTTTCTAAAAGGA
582 ATTAGGCTATTATTACAAAGGGCCTACACAAGAGGGCAAATCACCTATTTTATTTTCTAAAAGGA
* * * *
27348439 GGGGCTTGAGACAAAAAGGGGAGATTCTTCATTTTAAAAAGATCCACTTCCATGGTCACCATGCA
647 GGGGCTTGAGACAAAAAGGAGAGATTCTTCACTTTAAAAAGACCCACTTCCATGGTCACCACGCA
* *
27348504 CTTTCCGCATTGAACTAAATAGGGTGAATCGCCCTAAATTCCAAACTCTAAATCCTAAATCATCA
712 CTTTCCGCATTGAACTAAATAGGGTGAACCACCCTAAATTCCAAACTCTAAATCCTAAATCATCA
* * * *
27348569 ACTGTCATTTTGTACTTTAACACATCCACATTATAGATATGTCATAGTCTAATATGGATTACAAA
777 ACTATCACTTTGTACATTAACACATCCACATTATAAATATGTCATAGTCTAATATGGATTACAAA
* **
27348634 ATGATTTAATTAAATTTGA
842 ATGAATTAATTAAATGCGA
27348653 TTTAGATTCTCTTGGTTTTCTAAAATTGTAGATGATGGAATTC-GATATATGTATATACATTCTA
1 TTTAGATTCTCTTGGTTTTCTAAAA-TGTAGATGATGG-ATTCAG-TATATGTATATACATTCTA
* * *
27348717 GCTAAGCTTGGGACAACACAAAGGAAATAAAAGGCTTTCAGGCTTTCTAAGTTAATAGCATAGTT
63 GCTAAGCTTGGGACAACACAAAGGAAATAAAAGGCTTTCAGGCTTGCTAAGTTAATAGCAAAGTC
* * * * * * * *
27348782 GTTGCTAGCCTCTTTAAGGTACCTGGTCAATTTATTTGAGCACACACCTTTTAATGGTATTGCTT
128 ATTACTAACCTC-TTAAGGTACCTAGTCAATTTATTTGAGCACACACCCTTCAAGGGTATTGCTC
27348847 ACTAAGTCAATAA-AAGAACCGCTTCTAACCTCTTAAGGCACTTAGCAACTTATTTAAAGCAAAC
192 ACTAAGTCAA-AAGAAGAACCGCTTCTAACCTCTTAAGGCACTTAGCAACTTATTTAAAGCAAAC
* * ** * * ** * * *
27348911 ACCTCTTGCAAATATGCTTGCTAAGTCAATAG-TAGAAATACTGTTAACCTCTTAAGGCACTTAT
256 ACCTATTGCAAATATCCTCACTAAGTCAATAGCAAAAAATAAGGCTAACCTCTGAAGGCACTTAG
* * *
27348975 CCAAAATTTACAAGTTATAAAACAAACACCCCTCACAGATAATGCTTACTAAGTTAATAGTATAA
321 CC-AAATTTACAAGTTATAAAACAAACACCCATCACAGATAATGCTTACTAAGTTAATAATAGAA
* * * * * * *
27349040 ATCATTTCTAGCCTCTTAAGGAATGTGCATA-ATCTT-TT-TTATAAAAAGGCTTAGCGTACAAC
385 ACCATTTCTAGCCTATTAAAGAATGTGCATATATCTTATTATTATAAAAAGACCTAACATACAAC
* * * * * *
27349102 ACAAAGGTTTCTCCCCTACTTTTATCTCGGATAAAACCACTTTATAACCTATATTCCTCAAGTGA
450 ACAAAGGCTTCACCCCTACTTTTATCTCAGATAAAACCACGTTATAAAC--TATTCCTCAACTGA
* * ** *
27349167 GAGCAATTGTTATGCATATACAAATATTA-CCAAATCTCATTAGGGGGTCTACCTATTACATCCC
513 GAGCAATTATTATGCATATACAAATATTATCCAAA-CTCATCA-AAGGCCTACCTATTACATCCC
* * * *
27349231 CATGCTATTAGGCTATTATTACAAAGGGCCTACATAAGAGGGCAAATCTCCTCCTCTCTTTTTTT
576 CACGCTATTAGGCTATTATTACAAAGGGCCTACACAAGAGGGCAAA-----T-CAC-C-TATTTT
* * * *
27349296 TTTTTCTAAAAGGAGGGGCTTGAGATATAAAA-GAGAGATTTTTCGCTTTAAAAAGACCCACTTC
633 ATTTTCTAAAAGGAGGGGCTTGAGACA-AAAAGGAGAGATTCTTCACTTTAAAAAGACCCACTTC
* * * * * * * * **
27349360 CATGGTCATCACGCACTTTTCGCCTTGTATTAAATGGGGTGAACCATCTTAAATTTTAAACTCTA
697 CATGGTCACCACGCACTTTCCGCATTGAACTAAATAGGGTGAACCACCCTAAATTCCAAACTCTA
* *
27349425 AATTCTAAATCATCAATTATCACTTTGTACATTAACACATCCACATTATAAATATGTCATAGTCT
762 AATCCTAAATCATCAACTATCACTTTGTACATTAACACATCCACATTATAAATATGTCATAGTCT
27349490 AATA-GGAATTACAAAAT-AATTAAGTTAAA-GCGAA
827 AATATGG-ATTACAAAATGAATTAA-TTAAATGCG-A
* * * *
27349524 TTTAGATTCTTTTGGTTTTCTGAAACTGTAGATGATGGCATTCAGTACATGTGTATAGCATTCTA
1 TTTAGATTCTCTTGGTTTTCT-AAAATGTAGATGATGG-ATTCAGTATATGTATATA-CATTCTA
* *
27349589 GCTAAGCTTGGGACAAAAC-AGGAGAAATAAAAG
63 GCTAAGCTTGGGACAACACAAAG-GAAATAAAAG
27349622 AAAGAAAATG
Statistics
Matches: 833, Mismatches: 107, Indels: 47
0.84 0.11 0.05
Matches are distributed among these distances:
860 65 0.08
861 36 0.04
862 50 0.06
863 62 0.07
864 113 0.14
865 214 0.26
866 2 0.00
868 1 0.00
869 2 0.00
870 9 0.01
871 236 0.28
872 43 0.05
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.32
Consensus pattern (860 bp):
TTTAGATTCTCTTGGTTTTCTAAAATGTAGATGATGGATTCAGTATATGTATATACATTCTAGCT
AAGCTTGGGACAACACAAAGGAAATAAAAGGCTTTCAGGCTTGCTAAGTTAATAGCAAAGTCATT
ACTAACCTCTTAAGGTACCTAGTCAATTTATTTGAGCACACACCCTTCAAGGGTATTGCTCACTA
AGTCAAAAGAAGAACCGCTTCTAACCTCTTAAGGCACTTAGCAACTTATTTAAAGCAAACACCTA
TTGCAAATATCCTCACTAAGTCAATAGCAAAAAATAAGGCTAACCTCTGAAGGCACTTAGCCAAA
TTTACAAGTTATAAAACAAACACCCATCACAGATAATGCTTACTAAGTTAATAATAGAAACCATT
TCTAGCCTATTAAAGAATGTGCATATATCTTATTATTATAAAAAGACCTAACATACAACACAAAG
GCTTCACCCCTACTTTTATCTCAGATAAAACCACGTTATAAACTATTCCTCAACTGAGAGCAATT
ATTATGCATATACAAATATTATCCAAACTCATCAAAGGCCTACCTATTACATCCCCACGCTATTA
GGCTATTATTACAAAGGGCCTACACAAGAGGGCAAATCACCTATTTTATTTTCTAAAAGGAGGGG
CTTGAGACAAAAAGGAGAGATTCTTCACTTTAAAAAGACCCACTTCCATGGTCACCACGCACTTT
CCGCATTGAACTAAATAGGGTGAACCACCCTAAATTCCAAACTCTAAATCCTAAATCATCAACTA
TCACTTTGTACATTAACACATCCACATTATAAATATGTCATAGTCTAATATGGATTACAAAATGA
ATTAATTAAATGCGA
Found at i:27351072 original size:13 final size:13
Alignment explanation
Indices: 27351054--27351100 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
27351044 GTTGTCGAAC
*
27351054 ATAATATACTAAA
1 ATAATATACAAAA
27351067 ATAATATA-AAATA
1 ATAATATACAAA-A
* *
27351080 ATAAAATACGAAA
1 ATAATATACAAAA
27351093 ATAATATA
1 ATAATATA
27351101 TTTTTATTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
12 2 0.07
13 24 0.86
14 2 0.07
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.28
Consensus pattern (13 bp):
ATAATATACAAAA
Found at i:27356374 original size:40 final size:42
Alignment explanation
Indices: 27356330--27356427 Score: 116
Period size: 40 Copynumber: 2.4 Consensus size: 42
27356320 CACTAATCCT
* *
27356330 AATAACTAAC-ACAATAACAATAATAA-TA-GTTTTTACTCAA
1 AATAA-TAACTACAATAACAATAATAATTAGGGTTTTACTAAA
*
27356370 AATAAT-ACTA-ACTAACAATAATAATTAGGGTTTTACTAAA
1 AATAATAACTACAATAACAATAATAATTAGGGTTTTACTAAA
27356410 AATAATAACTAACAATAA
1 AATAATAACT-ACAATAA
27356428 TATAATGTAA
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
38 15 0.31
39 4 0.08
40 21 0.44
41 3 0.06
42 1 0.02
43 4 0.08
ACGTcount: A:0.54, C:0.12, G:0.04, T:0.30
Consensus pattern (42 bp):
AATAATAACTACAATAACAATAATAATTAGGGTTTTACTAAA
Found at i:27367995 original size:16 final size:16
Alignment explanation
Indices: 27367974--27368014 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
27367964 ATAAAAAAAT
27367974 ATAATTTTAA-TATTTA
1 ATAATTTTAAGT-TTTA
*
27367990 ATAA-TTTAAGTTTTT
1 ATAATTTTAAGTTTTA
27368005 ATAATTTTAA
1 ATAATTTTAA
27368015 AAATTAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (16 bp):
ATAATTTTAAGTTTTA
Found at i:27368047 original size:29 final size:29
Alignment explanation
Indices: 27367973--27368074 Score: 116
Period size: 31 Copynumber: 3.3 Consensus size: 29
27367963 AATAAAAAAA
* * *
27367973 TATAATTTTAATATTTAATAATTTAAGTTTT
1 TATAATTTTAAAAATTAA-AA-TTAAATTTT
27368004 TATAATTTTAAAAATT-AAATTAAATTTT
1 TATAATTTTAAAAATTAAAATTAAATTTT
27368032 TATAATTTTAAGAAATTAAAATATAAATTTAT
1 TATAATTTTAA-AAATTAAAAT-TAAATTT-T
27368064 TATATATTTTA
1 TATA-ATTTTA
27368075 TAGATTATAG
Statistics
Matches: 63, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
28 19 0.30
29 7 0.11
30 5 0.08
31 21 0.33
32 5 0.08
33 6 0.10
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (29 bp):
TATAATTTTAAAAATTAAAATTAAATTTT
Found at i:27368492 original size:5 final size:5
Alignment explanation
Indices: 27368482--27368508 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
27368472 TATTATTACT
27368482 TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
27368509 CATTACACAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:27369133 original size:23 final size:24
Alignment explanation
Indices: 27369093--27369148 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 24
27369083 CTCTTCAGGA
* **
27369093 TTAGGGTTTTTTTATTTTTTAGGG
1 TTAGGGTTTTTATATTTTTTAAAG
27369117 TTAGGGTTTTTAT-TTTTTTAAAG
1 TTAGGGTTTTTATATTTTTTAAAG
27369140 TTAGGGTTT
1 TTAGGGTTT
27369149 AGGGTCTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 17 0.59
24 12 0.41
ACGTcount: A:0.16, C:0.00, G:0.23, T:0.61
Consensus pattern (24 bp):
TTAGGGTTTTTATATTTTTTAAAG
Found at i:27377759 original size:42 final size:43
Alignment explanation
Indices: 27377694--27377958 Score: 304
Period size: 43 Copynumber: 6.2 Consensus size: 43
27377684 TAGAAATAAG
* *
27377694 CGCCGCTATAGAT-ATGACTTTTAGCGGCGC-TTTTCGACAAA
1 CGCCGCTATAGATCGTGACTTTTAGCGGCGCTTTTTCCACAAA
* * *
27377735 CGCCGCTATAGGTCATGACTTTTAGCGGAGCTTTTTCCACAAA
1 CGCCGCTATAGATCGTGACTTTTAGCGGCGCTTTTTCCACAAA
*
27377778 CGCTGCTATAGATCGTGACTTTTAGCGGCGCTTTTTCCACAAA
1 CGCCGCTATAGATCGTGACTTTTAGCGGCGCTTTTTCCACAAA
* *
27377821 CGCCGCTATAGATCGCGACTTTTAGCGGCGCTTTTTCTACAAA
1 CGCCGCTATAGATCGTGACTTTTAGCGGCGCTTTTTCCACAAA
* * * *
27377864 CGCCGTTATAGATCGTTAC-TTTAGCGGCGC-ATCTCACACAAA
1 CGCCGCTATAGATCGTGACTTTTAGCGGCGCTTTTTC-CACAAA
* * * * * * *
27377906 TGCCGCTATTGTTTGTTGACTTTTAGTGGCGCTTTTTTCTATAAA
1 CGCCGCTATAGATCG-TGACTTTTAGCGGCGC-TTTTTCCACAAA
27377951 CGCCGCTA
1 CGCCGCTA
27377959 AAGAACAAAA
Statistics
Matches: 189, Mismatches: 28, Indels: 10
0.83 0.12 0.04
Matches are distributed among these distances:
41 15 0.08
42 42 0.22
43 108 0.57
44 10 0.05
45 11 0.06
46 3 0.02
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.32
Consensus pattern (43 bp):
CGCCGCTATAGATCGTGACTTTTAGCGGCGCTTTTTCCACAAA
Found at i:27378347 original size:21 final size:21
Alignment explanation
Indices: 27378323--27378374 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
27378313 CTTCGTCACA
*
27378323 GCCTCTGCTTCTCTTGCTGCT
1 GCCTCTGCTTCTCTCGCTGCT
27378344 GCCTCTGCTTCTCTCGCTGCT
1 GCCTCTGCTTCTCTCGCTGCT
*
27378365 GCATCTGCTT
1 GCCTCTGCTT
27378375 TAAGTTGTAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.02, C:0.38, G:0.19, T:0.40
Consensus pattern (21 bp):
GCCTCTGCTTCTCTCGCTGCT
Found at i:27381222 original size:13 final size:12
Alignment explanation
Indices: 27381198--27381242 Score: 63
Period size: 12 Copynumber: 3.7 Consensus size: 12
27381188 TCTCGCAAAA
*
27381198 CAGAACTTCATT
1 CAGAAATTCATT
27381210 CAGAAAATTCATT
1 CAG-AAATTCATT
27381223 CAGAAATTCATT
1 CAGAAATTCATT
*
27381235 CAGCAATT
1 CAGAAATT
27381243 TGTATGTTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 19 0.63
13 11 0.37
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (12 bp):
CAGAAATTCATT
Found at i:27381229 original size:12 final size:13
Alignment explanation
Indices: 27381148--27381237 Score: 85
Period size: 13 Copynumber: 6.8 Consensus size: 13
27381138 CAATTAGTAT
*
27381148 ATTCATTAAGAAA
1 ATTCATTCAGAAA
*
27381161 ATTCATTTAGAAA
1 ATTCATTCAGAAA
27381174 ATTCATTCAGAAA
1 ATTCATTCAGAAA
**
27381187 ATCTCGCAAAACAG-AA
1 AT-T--C-ATTCAGAAA
*
27381203 CTTCATTCAGAAA
1 ATTCATTCAGAAA
27381216 ATTCATTCAG-AA
1 ATTCATTCAGAAA
27381228 ATTCATTCAG
1 ATTCATTCAG
27381238 CAATTTGTAT
Statistics
Matches: 64, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
12 16 0.25
13 38 0.59
14 1 0.02
15 1 0.02
16 4 0.06
17 4 0.06
ACGTcount: A:0.44, C:0.17, G:0.09, T:0.30
Consensus pattern (13 bp):
ATTCATTCAGAAA
Found at i:27381495 original size:18 final size:18
Alignment explanation
Indices: 27381472--27381506 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27381462 TTTGCCCTTA
* *
27381472 GTAATCGGCAGAGGCAAC
1 GTAATCGACAAAGGCAAC
27381490 GTAATCGACAAAGGCAA
1 GTAATCGACAAAGGCAA
27381507 ACCCTAGAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.20, G:0.29, T:0.11
Consensus pattern (18 bp):
GTAATCGACAAAGGCAAC
Found at i:27381817 original size:14 final size:13
Alignment explanation
Indices: 27381786--27381819 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
27381776 TCTCCTCTCC
27381786 CTTTTTTTCTTTG
1 CTTTTTTTCTTTG
*
27381799 ATTTTTTTCTTTGG
1 CTTTTTTTCTTT-G
27381813 CTTTTTT
1 CTTTTTT
27381820 CCCTTTCAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.03, C:0.12, G:0.09, T:0.76
Consensus pattern (13 bp):
CTTTTTTTCTTTG
Found at i:27384834 original size:41 final size:41
Alignment explanation
Indices: 27384790--27385141 Score: 254
Period size: 41 Copynumber: 8.6 Consensus size: 41
27384780 ATGTTTTTGT
* ** *
27384790 GGCGCTTTATAAAAAACGCCACTAAAAACCACAGCATTAGT
1 GGCGCTTTATCAAAAACGCCACTAAAAACCTGAGCATTAGC
** * *
27384831 GGCGC-AAACTCAAAAACACCACTAAAACCCCT-AGCATTAG-
1 GGCGCTTTA-TCAAAAACGCCACTAAAA-ACCTGAGCATTAGC
* * * * **
27384871 GGCGGTTTCTCAAAAACGCCGCTAAAAATCTGAATATTAGC
1 GGCGCTTTATCAAAAACGCCACTAAAAACCTGAGCATTAGC
* * * *
27384912 GGCGCTTTTTTAAAAACACCACTAAAACCCTGAGCATTAGC
1 GGCGCTTTATCAAAAACGCCACTAAAAACCTGAGCATTAGC
* *
27384953 GGCGCTTCA-CAAAAAGCGCCGCT-AAAACCTGAGCATTAGC
1 GGCGCTTTATCAAAAA-CGCCACTAAAAACCTGAGCATTAGC
* * *
27384993 GGTGCTTTATCAAAAACGCCGCTAAAAACCTGAGCATTAGT
1 GGCGCTTTATCAAAAACGCCACTAAAAACCTGAGCATTAGC
* * * * *
27385034 GACG--TTACGTCAAAAACGACACTAAAACCCTGAACATTAGA
1 GGCGCTTTA--TCAAAAACGCCACTAAAAACCTGAGCATTAGC
* * * * * * *
27385075 AGCGCTTTTTTAAAAACGCCGCTGAAAACCCGAGCACTAGC
1 GGCGCTTTATCAAAAACGCCACTAAAAACCTGAGCATTAGC
*
27385116 AGCGC--TACTCCAAAAACGCCACTAAA
1 GGCGCTTTA-T-CAAAAACGCCACTAAA
27385142 TCCCCCGAAA
Statistics
Matches: 240, Mismatches: 57, Indels: 28
0.74 0.18 0.09
Matches are distributed among these distances:
39 6 0.03
40 63 0.26
41 167 0.70
42 2 0.01
43 2 0.01
ACGTcount: A:0.37, C:0.27, G:0.17, T:0.19
Consensus pattern (41 bp):
GGCGCTTTATCAAAAACGCCACTAAAAACCTGAGCATTAGC
Found at i:27384936 original size:81 final size:81
Alignment explanation
Indices: 27384842--27385141 Score: 284
Period size: 81 Copynumber: 3.7 Consensus size: 81
27384832 GCGCAAACTC
*
27384842 AAAAACACCACTAAAACCCCT-AGCATTAG-GGCGGTTTCTCAAAAACGCCGCTAAAAATCTGAA
1 AAAAACACCACTAAAA-CCCTGAGCATTAGCGGC-GTTTCTCAAAAACGCCGCTAAAAACCTGAA
*
27384905 TATTAGCGGCGCTTTTTT
64 CATTAGCGGCGCTTTTTT
* * *
27384923 AAAAACACCACTAAAACCCTGAGCATTAGCGGCGCTTCACAAAAAGCGCCGCT-AAAACCTGAGC
1 AAAAACACCACTAAAACCCTGAGCATTAGCGGCGTTTCTCAAAAA-CGCCGCTAAAAACCTGAAC
* * *
27384987 ATTAGCGGTGCTTTATC
65 ATTAGCGGCGCTTTTTT
* * * * * * * * *
27385004 AAAAACGCCGCTAAAAACCTGAGCATTAGTGACGTTACGTCAAAAACGACACTAAAACCCTGAAC
1 AAAAACACCACTAAAACCCTGAGCATTAGCGGCGTTTC-TCAAAAACGCCGCTAAAAACCTGAAC
**
27385069 ATTAGAAGCGCTTTTTT
65 ATTAGCGGCGCTTTTTT
* * * * * * *
27385086 AAAAACGCCGCTGAAAACCC-GAGCACTAGCAGCGCTACTCCAAAAACGCCACTAAA
1 AAAAACACCACT-AAAACCCTGAGCATTAGCGGCGTTTCT-CAAAAACGCCGCTAAA
27385142 TCCCCCGAAA
Statistics
Matches: 180, Mismatches: 32, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
80 4 0.02
81 93 0.52
82 77 0.43
83 6 0.03
ACGTcount: A:0.37, C:0.27, G:0.17, T:0.19
Consensus pattern (81 bp):
AAAAACACCACTAAAACCCTGAGCATTAGCGGCGTTTCTCAAAAACGCCGCTAAAAACCTGAACA
TTAGCGGCGCTTTTTT
Found at i:27385870 original size:88 final size:88
Alignment explanation
Indices: 27385765--27385963 Score: 258
Period size: 88 Copynumber: 2.2 Consensus size: 88
27385755 TTCTCAAATT
* * * * *
27385765 TTTTCAAAAAAGTAATTAAGCTACTGC-ATTTTTTTTGCAGTCATTTAGGTACTTGAACTTTCAA
1 TTTTCAAAAAAGCAATTAAGCCACTACTATTTTTTTTGCACTCAATTAGGTACTTGAA-TTTCAA
* *
27385829 AATGCATCAAAAAGGCCCTCAAACC
65 AATGCATCAAAAAGACCCTCAAA-A
* * *
27385854 TTTTC-AAAAAGCAATTAAGCCCCTACTTTTTTTTTTGCACTCAATTCGGTACTTGAATTTCAAA
1 TTTTCAAAAAAGCAATTAAGCCACTACTATTTTTTTTGCACTCAATTAGGTACTTGAATTTCAAA
27385918 ATGCATCAAAAAGACCCTCAAAA
66 ATGCATCAAAAAGACCCTCAAAA
27385941 TTCTTCAAAAAAAGCAATTAAGC
1 TT-TTC-AAAAAAGCAATTAAGC
27385964 ACATCTTTTA
Statistics
Matches: 96, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
87 2 0.02
88 48 0.50
89 31 0.32
90 15 0.16
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.33
Consensus pattern (88 bp):
TTTTCAAAAAAGCAATTAAGCCACTACTATTTTTTTTGCACTCAATTAGGTACTTGAATTTCAAA
ATGCATCAAAAAGACCCTCAAAA
Found at i:27386060 original size:28 final size:29
Alignment explanation
Indices: 27386009--27386075 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 29
27385999 CGTAAATCGT
27386009 AAAAAA-TATAAAATATATAGAAATAG-A
1 AAAAAATTATAAAATATATAGAAATAGTA
* *
27386036 AAAAAATTATAAAATTTTATA-AAATCGTA
1 AAAAAATTATAAAA-TATATAGAAATAGTA
*
27386065 AGAAAATTATA
1 AAAAAATTATA
27386076 CAAAATGTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 6 0.18
28 12 0.35
29 16 0.47
ACGTcount: A:0.64, C:0.01, G:0.06, T:0.28
Consensus pattern (29 bp):
AAAAAATTATAAAATATATAGAAATAGTA
Found at i:27386070 original size:21 final size:21
Alignment explanation
Indices: 27386046--27386090 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
27386036 AAAAAATTAT
* *
27386046 AAAATTTTATAAAATCGT-AAG
1 AAAATTATACAAAAT-GTAAAG
27386067 AAAATTATACAAAATGTAAAG
1 AAAATTATACAAAATGTAAAG
27386088 AAA
1 AAA
27386091 TATAAATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.60, C:0.04, G:0.09, T:0.27
Consensus pattern (21 bp):
AAAATTATACAAAATGTAAAG
Found at i:27386071 original size:29 final size:28
Alignment explanation
Indices: 27386002--27386075 Score: 89
Period size: 28 Copynumber: 2.6 Consensus size: 28
27385992 TAAAAATCGT
27386002 AAATCGTAAAAAA-TATAAAATATATAG
1 AAATCGTAAAAAATTATAAAATATATAG
* * *
27386029 AAATAGAAAAAAATTATAAAATTTTATA-
1 AAATCGTAAAAAATTATAAAA-TATATAG
27386057 AAATCGTAAGAAAATTATA
1 AAATCGTAA-AAAATTATA
27386076 CAAAATGTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
27 11 0.28
28 14 0.36
29 14 0.36
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.28
Consensus pattern (28 bp):
AAATCGTAAAAAATTATAAAATATATAG
Found at i:27386311 original size:18 final size:17
Alignment explanation
Indices: 27386288--27386322 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
27386278 AAATAATTAT
27386288 AATTTTTAATAATTTTTA
1 AATTTTTAAT-ATTTTTA
*
27386306 AATTTTTTATATTTTTA
1 AATTTTTAATATTTTTA
27386323 TTAAAATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
AATTTTTAATATTTTTA
Found at i:27386911 original size:21 final size:20
Alignment explanation
Indices: 27386887--27386925 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
27386877 AGAACTTAGG
*
27386887 TTTAAGTCTTATAAATTTTAT
1 TTTAACTCTT-TAAATTTTAT
*
27386908 TTTATCTCTTTAAATTTT
1 TTTAACTCTTTAAATTTT
27386926 TCTGCACATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.62
Consensus pattern (20 bp):
TTTAACTCTTTAAATTTTAT
Found at i:27402796 original size:19 final size:19
Alignment explanation
Indices: 27402772--27402809 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
27402762 AAAATTAATT
27402772 TTTTCTCAAAATATT-TTTA
1 TTTTCT-AAAATATTATTTA
*
27402791 TTTTCTGAAATATTATTTA
1 TTTTCTAAAATATTATTTA
27402810 CCAATTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.58
Consensus pattern (19 bp):
TTTTCTAAAATATTATTTA
Found at i:27405133 original size:41 final size:41
Alignment explanation
Indices: 27405076--27405235 Score: 178
Period size: 41 Copynumber: 3.9 Consensus size: 41
27405066 ATATTGGAGA
* *
27405076 TATTGACTCATGCCTTGAGCCTAGTAGGCTTCATGCTAGTG
1 TATTGAATCATGCCTTGAGCCTAGTAGGCTTCGTGCTAGTG
* * *
27405117 TATTGAATCAGGCCTTGAGCCTAGTAGGTTTTGTG-TCAGTG
1 TATTGAATCATGCCTTGAGCCTAGTAGGCTTCGTGCT-AGTG
* * * *
27405158 TATTGAATCATGCTTTTAGCCTAGTAGGCTTCGTGCCAGTT
1 TATTGAATCATGCCTTGAGCCTAGTAGGCTTCGTGCTAGTG
* * * * *
27405199 TATCGAATCAAGCCTTTAACCTAGCAGGCTTCGTGCT
1 TATTGAATCATGCCTTGAGCCTAGTAGGCTTCGTGCT
27405236 GGTCTAGTGT
Statistics
Matches: 99, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
40 1 0.01
41 98 0.99
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.35
Consensus pattern (41 bp):
TATTGAATCATGCCTTGAGCCTAGTAGGCTTCGTGCTAGTG
Found at i:27409919 original size:21 final size:21
Alignment explanation
Indices: 27409892--27409939 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
27409882 TCAATTGTCT
** *
27409892 CCACAACAAGGTCAGATACAA
1 CCACAACAAACTCAAATACAA
*
27409913 TCACAACAAACTCAAATACAA
1 CCACAACAAACTCAAATACAA
27409934 CCACAA
1 CCACAA
27409940 ATGATGAATC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.52, C:0.31, G:0.06, T:0.10
Consensus pattern (21 bp):
CCACAACAAACTCAAATACAA
Found at i:27433926 original size:51 final size:50
Alignment explanation
Indices: 27433836--27434065 Score: 169
Period size: 51 Copynumber: 4.5 Consensus size: 50
27433826 ACAGCTCACG
* *
27433836 TAGTAGCCTTCACATAGTACTACATACATG-ACCAAAGCTTTTCGGTATC-CA
1 TAGTAGCCTTCACATAGTAC--CACACATGTACCAAAGCTTATCGGTA-CACA
* * * * *
27433887 TAGTAGCCTTCACTTAGTACCACACATGTAACCATAGCTTACCGATACACG
1 TAGTAGCCTTCACATAGTACCACACATGT-ACCAAAGCTTATCGGTACACA
* * * * * * *
27433938 TAGTAGCTTTCACACAGTACTACACACGTGCTCAAAACTTCTCGGTACACA
1 TAGTAGCCTTCACATAGTACCACACATGTAC-CAAAGCTTATCGGTACACA
* * * * * * *
27433989 TAGTAGCCTTCACTTAGTACTACACATCTGACCATTA-TTTATCGATACACG
1 TAGTAGCCTTCACATAGTACCACACATGT-ACCA-AAGCTTATCGGTACACA
* *
27434040 TAGTAGCCTTCACACAGTACTACACA
1 TAGTAGCCTTCACATAGTACCACACA
27434066 CTGTTCATCG
Statistics
Matches: 141, Mismatches: 32, Indels: 12
0.76 0.17 0.06
Matches are distributed among these distances:
49 7 0.05
50 2 0.01
51 130 0.92
52 2 0.01
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.28
Consensus pattern (50 bp):
TAGTAGCCTTCACATAGTACCACACATGTACCAAAGCTTATCGGTACACA
Found at i:27433961 original size:102 final size:103
Alignment explanation
Indices: 27433728--27434066 Score: 392
Period size: 102 Copynumber: 3.3 Consensus size: 103
27433718 TTTTATCATT
* * * *
27433728 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATC--AG-TTTTACAGT-TCACGTAG
1 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTT-CGGTATCACATAG
* * *
27433789 TAGCCTTCACATAGTACTACACACGTGATCA-AGTTTTAC
65 TAGCCTTCACTTAGTACTACACATGTGACCATAG-TTTAC
* * * * *
27433828 AGCT-CACGTAGTAGCCTTCACATAGTACTACATACATGACCAAAGCTTTTCGGTATC-CATAGT
1 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTCGGTATCACATAGT
* * *
27433891 AGCCTTCACTTAGTACCACACATGTAACCATAGCTTAC
66 AGCCTTCACTTAGTACTACACATGTGACCATAGTTTAC
* * *
27433929 CGATACACGTAGTAGCTTTCACACAGTACTACACACGTG-CTCAAAACTTCTCGGTA-CACATAG
1 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGAC-CAAAGCTTTTCGGTATCACATAG
* *
27433992 TAGCCTTCACTTAGTACTACACATCTGACCATTA-TTTAT
65 TAGCCTTCACTTAGTACTACACATGTGACCA-TAGTTTAC
27434031 CGATACACGTAGTAGCCTTCACACAGTACTACACAC
1 CGATACACGTAGTAGCCTTCACACAGTACTACACAC
27434067 TGTTCATCGA
Statistics
Matches: 203, Mismatches: 27, Indels: 16
0.83 0.11 0.07
Matches are distributed among these distances:
99 34 0.17
100 2 0.01
101 43 0.21
102 122 0.60
103 2 0.01
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (103 bp):
CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTCGGTATCACATAGT
AGCCTTCACTTAGTACTACACATGTGACCATAGTTTAC
Found at i:27434044 original size:153 final size:149
Alignment explanation
Indices: 27433726--27434066 Score: 343
Period size: 153 Copynumber: 2.3 Consensus size: 149
27433716 ATTTTTATCA
* * * * *
27433726 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAGTTTTACAGTTCACGTAGTA
1 TTCGATACACGTAGTAGCCTTCACATAGTACCACACACGTAACCAGTCTTACAGTACACGTAGTA
* * * *
27433791 GCCTTCACATAGTACTACACACGTGATCAAGTTTTACAGCTCACGTAGTAGCCTTCACATAGTAC
66 GCCTTCACACAGTACTACACACGTGATCAACTTCTACAGCTCACATAGTAGCCTTCACATAGTAC
*
27433856 TACATACATGACCAAAGCTT
131 TACACACATGACCAAA-CTT
* * * * *
27433876 TTCGGTATC-CATAGTAGCCTTCACTTAGTACCACACATGTAACCA-TAGCTTACCGATACACGT
1 TTCGATA-CACGTAGTAGCCTTCACATAGTACCACACACGTAACCAGT--CTTACAG-TACACGT
* * *
27433939 AGTAGCTTTCACACAGTACTACACACGTGCTCAAAACTTCT-C-GGTACACATAGTAGCCTTCAC
62 AGTAGCCTTCACACAGTACTACACACGTGATC--AACTTCTACAGCT-CACATAGTAGCCTTCAC
* *
27434002 TTAGTACTACACATC-TGACCATTA-TT
124 ATAGTACTACACA-CATGACCA-AACTT
* *
27434028 TATCGATACACGTAGTAGCCTTCACACAGTACTACACAC
1 T-TCGATACACGTAGTAGCCTTCACATAGTACCACACAC
27434067 TGTTCATCGA
Statistics
Matches: 154, Mismatches: 26, Indels: 19
0.77 0.13 0.10
Matches are distributed among these distances:
149 1 0.01
150 36 0.23
151 6 0.04
152 41 0.27
153 63 0.41
154 7 0.05
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.28
Consensus pattern (149 bp):
TTCGATACACGTAGTAGCCTTCACATAGTACCACACACGTAACCAGTCTTACAGTACACGTAGTA
GCCTTCACACAGTACTACACACGTGATCAACTTCTACAGCTCACATAGTAGCCTTCACATAGTAC
TACACACATGACCAAACTT
Found at i:27450101 original size:51 final size:51
Alignment explanation
Indices: 27449887--27450228 Score: 299
Period size: 51 Copynumber: 6.8 Consensus size: 51
27449877 TTTTATCATT
*
27449887 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AGTTTTAC
1 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTAC
* * * *
27449937 AG-TTCACGTAGTAGCCTTCACATAGTACTACACATGTGATCAAGTTTTAC
1 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTAC
* * *
27449987 GGCT-CACGTAGTAGCCTTCACATAGTACTACATACGTGACCAAAGCTTTT--
1 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAG-TTTTAC
* * * * * *
27450037 CGGTATC-CATAGTAGCCTTCACTTAGTACCACACATGTAACCATAG-TTTAC
1 CGATA-CACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AGTTTTAC
* * ***
27450088 CGATACACGTAGTAGCTTTCACACAGTACTACACACGTG-CTCAAAACTT-C
1 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGAC-CAAGTTTTAC
* * * * * * *
27450138 TCGGTACACATAGTAGCCTTCACTTAGTACTATACATGTGACC-ATTATTTAT
1 -CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGT-TTTAC
* *
27450190 CGATACACGGAGTAGCCTTCACACAGTACTACACACGTG
1 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTG
27450229 TTCATCGATA
Statistics
Matches: 233, Mismatches: 43, Indels: 31
0.76 0.14 0.10
Matches are distributed among these distances:
49 40 0.17
50 52 0.22
51 135 0.58
52 6 0.03
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (51 bp):
CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTAC
Found at i:27450126 original size:102 final size:103
Alignment explanation
Indices: 27449887--27450228 Score: 416
Period size: 102 Copynumber: 3.4 Consensus size: 103
27449877 TTTTATCATT
* * * *
27449887 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATC--AG-TTTTACAGT-TCACGTAG
1 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTT-CGGTATCACATAG
* *
27449948 TAGCCTTCACATAGTACTACACATGTGATCA-AGTTTTAC
65 TAGCCTTCACTTAGTACTACACATGTGACCATAG-TTTAC
* * * *
27449987 GGCT-CACGTAGTAGCCTTCACATAGTACTACATACGTGACCAAAGCTTTTCGGTATC-CATAGT
1 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTCGGTATCACATAGT
* *
27450050 AGCCTTCACTTAGTACCACACATGTAACCATAGTTTAC
66 AGCCTTCACTTAGTACTACACATGTGACCATAGTTTAC
* * *
27450088 CGATACACGTAGTAGCTTTCACACAGTACTACACACGTG-CTCAAAACTTCTCGGTA-CACATAG
1 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGAC-CAAAGCTTTTCGGTATCACATAG
* *
27450151 TAGCCTTCACTTAGTACTATACATGTGACCATTA-TTTAT
65 TAGCCTTCACTTAGTACTACACATGTGACCA-TAGTTTAC
*
27450190 CGATACACGGAGTAGCCTTCACACAGTACTACACACGTG
1 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTG
27450229 TTCATCGATA
Statistics
Matches: 210, Mismatches: 23, Indels: 16
0.84 0.09 0.06
Matches are distributed among these distances:
99 35 0.17
100 2 0.01
101 45 0.21
102 126 0.60
103 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (103 bp):
CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTCGGTATCACATAGT
AGCCTTCACTTAGTACTACACATGTGACCATAGTTTAC
Found at i:27452002 original size:16 final size:16
Alignment explanation
Indices: 27451981--27452011 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27451971 CTATGCATGC
*
27451981 AAAATATAAAAGACAG
1 AAAATACAAAAGACAG
27451997 AAAATACAAAAGACA
1 AAAATACAAAAGACA
27452012 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.10, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAG
Found at i:27455341 original size:18 final size:18
Alignment explanation
Indices: 27455310--27455344 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27455300 ACTTAGTTGG
* *
27455310 TTTCTTCTTTCCTTTAGC
1 TTTCTACTTCCCTTTAGC
27455328 TTTCTACTTCCCTTTAG
1 TTTCTACTTCCCTTTAG
27455345 AGAATGAGGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.09, C:0.29, G:0.06, T:0.57
Consensus pattern (18 bp):
TTTCTACTTCCCTTTAGC
Found at i:27457895 original size:68 final size:69
Alignment explanation
Indices: 27457769--27457897 Score: 174
Period size: 68 Copynumber: 1.9 Consensus size: 69
27457759 AACTTAATCA
* * * *
27457769 CTTTAATATTAAATTAATATACTATTTATCAAGATAAATATTAGATTAAATTTAATATTAAGATA
1 CTTTAATATTAAATTAATAAAATATCTATCAAGAAAAATATTAGATTAAATTTAATATTAAGATA
27457834 ATTT
66 ATTT
*
27457838 CTTTAATATTAAATTAATAAAATA-CTATTAA-AAAAAGTATTA-AGTTAAATTTAATATTAA
1 CTTTAATATTAAATTAATAAAATATCTATCAAGAAAAA-TATTAGA-TTAAATTTAATATTAA
27457898 ACTATTAAAT
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
67 5 0.09
68 26 0.49
69 22 0.42
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.43
Consensus pattern (69 bp):
CTTTAATATTAAATTAATAAAATATCTATCAAGAAAAATATTAGATTAAATTTAATATTAAGATA
ATTT
Found at i:27464793 original size:19 final size:19
Alignment explanation
Indices: 27464765--27464801 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
27464755 GTGTGAGTCT
27464765 AAACAATCAAACATTTTAC
1 AAACAATCAAACATTTTAC
* *
27464784 AAACATTCAAGCATTTTA
1 AAACAATCAAACATTTTA
27464802 TCATGGAACC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.19, G:0.03, T:0.30
Consensus pattern (19 bp):
AAACAATCAAACATTTTAC
Found at i:27473456 original size:18 final size:19
Alignment explanation
Indices: 27473414--27473458 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
27473404 TATAAAAAGG
*
27473414 TTATTAAATATTATGATAAA
1 TTATTAAA-ACTATGATAAA
27473434 -T-TTAAAACTAT-ATAAA
1 TTATTAAAACTATGATAAA
27473450 TTATTAAAA
1 TTATTAAAA
27473459 ATCATTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
16 5 0.23
17 5 0.23
18 11 0.50
19 1 0.05
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (19 bp):
TTATTAAAACTATGATAAA
Found at i:27478575 original size:35 final size:35
Alignment explanation
Indices: 27478536--27478605 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
27478526 AAAAATAGGT
27478536 TTGATTAATTCAAAATGAGAATCGACACAGGGAAA
1 TTGATTAATTCAAAATGAGAATCGACACAGGGAAA
27478571 TTGATTAATTCAAAATGAGAATCGACACAGGGAAA
1 TTGATTAATTCAAAATGAGAATCGACACAGGGAAA
27478606 GGATAAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.46, C:0.11, G:0.20, T:0.23
Consensus pattern (35 bp):
TTGATTAATTCAAAATGAGAATCGACACAGGGAAA
Found at i:27486227 original size:20 final size:20
Alignment explanation
Indices: 27486202--27486240 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
27486192 TACTTTCTTC
27486202 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
27486222 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
27486241 AAATAACTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:27486585 original size:50 final size:50
Alignment explanation
Indices: 27486513--27486678 Score: 154
Period size: 50 Copynumber: 3.2 Consensus size: 50
27486503 TATCCCAGAT
** * * * * *
27486513 ATGGTCTTAC-ACGGGAGTTCTCATATCGGTGCCCATGCCATGTCCTAGGC
1 ATGGTCTTACGA-GGGACCTCTCATATCAGTACCAACGCCATGTCCTAGAC
*
27486563 ATGGTCTTACGAGGGACCTCTCATCTCAGTACCAACGCCATGTCCTAGAC
1 ATGGTCTTACGAGGGACCTCTCATATCAGTACCAACGCCATGTCCTAGAC
* * * *
27486613 ATGGTCTTACGTGGGACCTCTCATAACCTCAATAATGCCAATGCCATGTCCCAGAC
1 ATGGTCTTACGAGGGACCTCTCAT-A--TCAGT-A--CCAACGCCATGTCCTAGAC
27486669 ATGGTCTTAC
1 ATGGTCTTAC
27486679 ATGGGGTCTC
Statistics
Matches: 96, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
50 63 0.66
51 1 0.01
53 4 0.04
54 1 0.01
56 27 0.28
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.27
Consensus pattern (50 bp):
ATGGTCTTACGAGGGACCTCTCATATCAGTACCAACGCCATGTCCTAGAC
Found at i:27486669 original size:56 final size:52
Alignment explanation
Indices: 27486542--27486683 Score: 171
Period size: 50 Copynumber: 2.7 Consensus size: 52
27486532 CTCATATCGG
* * * *
27486542 TGCCCATGCCATGTCCTAGGCATGGTCTTACGAGGGACCTCTCATCTCAGTA
1 TGCCAATGCCATGTCCTAGACATGGTCTTACGTGGGACCTCTCATCTCAATA
*
27486594 --CCAACGCCATGTCCTAGACATGGTCTTACGTGGGACCTCTCATAACCTCAATAA
1 TGCCAATGCCATGTCCTAGACATGGTCTTACGTGGGACCTCTCAT---CTCAAT-A
* *
27486648 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGG
1 TGCCAATGCCATGTCCTAGACATGGTCTTACGTGGG
27486684 GTCTCATCCC
Statistics
Matches: 76, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
50 39 0.51
53 5 0.07
54 1 0.01
56 31 0.41
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.25
Consensus pattern (52 bp):
TGCCAATGCCATGTCCTAGACATGGTCTTACGTGGGACCTCTCATCTCAATA
Found at i:27491905 original size:36 final size:36
Alignment explanation
Indices: 27491864--27491939 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 36
27491854 TGTACCATTG
** *
27491864 TAACATAGATACGGGAAACATGTTATGATTCTTTTC
1 TAACATAGATACGGGAAACACATTATGAATCTTTTC
*
27491900 TAACATAGATACGTGAAACACATTATGAATCTTTTC
1 TAACATAGATACGGGAAACACATTATGAATCTTTTC
27491936 TAAC
1 TAAC
27491940 TCTAATGGCA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (36 bp):
TAACATAGATACGGGAAACACATTATGAATCTTTTC
Found at i:27499259 original size:22 final size:22
Alignment explanation
Indices: 27499234--27499278 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
27499224 CCACCACCGG
*
27499234 TTTGAAGATAAACTGCCACTGA
1 TTTGAAGATAAACTACCACTGA
*
27499256 TTTGTAGATAAACTACCACTGA
1 TTTGAAGATAAACTACCACTGA
27499278 T
1 T
27499279 AACACTGATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.31
Consensus pattern (22 bp):
TTTGAAGATAAACTACCACTGA
Found at i:27506062 original size:24 final size:24
Alignment explanation
Indices: 27505938--27506131 Score: 85
Period size: 24 Copynumber: 8.2 Consensus size: 24
27505928 CTCTGATTAG
* * * *
27505938 TATTGTTTT-AATATATAATATAC
1 TATTATTTTAAATTTATCATATAT
* * *
27505961 TATTACTTTAAA-TCATCAT-TAG
1 TATTATTTTAAATTTATCATATAT
* *
27505983 TATTA-TTTAAACTTATCATACAT
1 TATTATTTTAAATTTATCATATAT
* * * *
27506006 TA-TAGCTTGAAATTTATTATATAC
1 TATTA-TTTTAAATTTATCATATAT
27506030 TA-TAGTTTTAAATTTATCATATAT
1 TATTA-TTTTAAATTTATCATATAT
* ** * *
27506054 TATTATTTTAGATGCATTATGTAT
1 TATTATTTTAAATTTATCATATAT
** * *
27506078 TCGTATTTTTAAAGTTATCATATGT
1 TATTA-TTTTAAATTTATCATATAT
* * * *
27506103 TATTATTTCAAAATTATTATGTAT
1 TATTATTTTAAATTTATCATATAT
27506127 TATTA
1 TATTA
27506132 CTTAAAGATA
Statistics
Matches: 125, Mismatches: 39, Indels: 13
0.71 0.22 0.07
Matches are distributed among these distances:
21 6 0.05
22 15 0.12
23 14 0.11
24 73 0.58
25 17 0.14
ACGTcount: A:0.36, C:0.07, G:0.06, T:0.51
Consensus pattern (24 bp):
TATTATTTTAAATTTATCATATAT
Found at i:27511093 original size:18 final size:16
Alignment explanation
Indices: 27511064--27511107 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
27511054 GATCCAATTT
**
27511064 TCAAAAAAAAAATCAA
1 TCAAAAAAAAAAAAAA
27511080 TCAAAAAATCAAAAAAAA
1 TCAAAAAA--AAAAAAAA
27511098 TCAAAAAAAA
1 TCAAAAAAAA
27511108 GGGAAGGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 10 0.42
18 14 0.58
ACGTcount: A:0.77, C:0.11, G:0.00, T:0.11
Consensus pattern (16 bp):
TCAAAAAAAAAAAAAA
Found at i:27511095 original size:10 final size:10
Alignment explanation
Indices: 27511068--27511107 Score: 62
Period size: 10 Copynumber: 3.8 Consensus size: 10
27511058 CAATTTTCAA
27511068 AAAAAAAATC
1 AAAAAAAATC
27511078 AATCAAAAAATC
1 AA--AAAAAATC
27511090 AAAAAAAATC
1 AAAAAAAATC
27511100 AAAAAAAA
1 AAAAAAAA
27511108 GGGAAGGGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
10 18 0.64
12 10 0.36
ACGTcount: A:0.80, C:0.10, G:0.00, T:0.10
Consensus pattern (10 bp):
AAAAAAAATC
Found at i:27512031 original size:14 final size:15
Alignment explanation
Indices: 27511995--27512031 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
27511985 GGGCACTTCG
27511995 AGTAAAAAATGAAAA
1 AGTAAAAAATGAAAA
*
27512010 AGT-GAAAATGAAAA
1 AGTAAAAAATGAAAA
27512024 A-TAAAAAA
1 AGTAAAAAA
27512032 ATGATGAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
13 1 0.05
14 15 0.79
15 3 0.16
ACGTcount: A:0.73, C:0.00, G:0.14, T:0.14
Consensus pattern (15 bp):
AGTAAAAAATGAAAA
Found at i:27513366 original size:44 final size:43
Alignment explanation
Indices: 27513303--27513897 Score: 596
Period size: 44 Copynumber: 13.6 Consensus size: 43
27513293 AAATTACAAG
* * *
27513303 TCCTAACTCCCTGACCAGTAGTGGAATAGGAGGAAGACTGAAA
1 TCCTAGCTCCCTGACCAGCAGTGGAATAGGAGGAAGATTGAAA
* * *
27513346 CTCCTAGCTCCCTGAACAGTAGTGGAATAGGCA-G-AGATTGCAGA
1 -TCCTAGCTCCCTGACCAGCAGTGGAATAGG-AGGAAGATTG-AAA
** *
27513390 TCCTAGCTCCCTGACCAATAGTGGAATAGGTGGAAGATTGAAA
1 TCCTAGCTCCCTGACCAGCAGTGGAATAGGAGGAAGATTGAAA
* * * *
27513433 GTCCTAGCTCCCTGAACAACAGTAGAATAGGTA-G-AGATTGCAGA
1 -TCCTAGCTCCCTGACCAGCAGTGGAATAGG-AGGAAGATTG-AAA
* * * *
27513477 TCCTAGCTCCCTGAGCAACAGTGGAATAGGTGGAAGACTGAAA
1 TCCTAGCTCCCTGACCAGCAGTGGAATAGGAGGAAGATTGAAA
* * *
27513520 GTCCTAGCTCCCTGAACAGCAGTGGAATAGGCGGAAGATTGCAGA
1 -TCCTAGCTCCCTGACCAGCAGTGGAATAGGAGGAAGATTG-AAA
* *
27513565 TCCTAGCTCCCTGACCAGCAGTAGAATAGGAGGAAGACTGAAA
1 TCCTAGCTCCCTGACCAGCAGTGGAATAGGAGGAAGATTGAAA
* * *
27513608 GTCCTAGCTCCCTGAACAACAGTGGAATAAGCA-GAAGATT-ACAGA
1 -TCCTAGCTCCCTGACCAGCAGTGGAAT-AGGAGGAAGATTGA-A-A
* * *
27513653 TCCTAGCTCCCTGACCAACAG-GAGAATAGGTGGAAGACTGAAA
1 TCCTAGCTCCCTGACCAGCAGTG-GAATAGGAGGAAGATTGAAA
* * *
27513696 GTCCTAGCTCCCTGAACAGCAGTGGAATAGGCGGAAGATTGCAGA
1 -TCCTAGCTCCCTGACCAGCAGTGGAATAGGAGGAAGATTG-AAA
* * * *
27513741 TCCTAACTCCATGACCAGCAGTGGAATAGGTGGAAGACTGAAA
1 TCCTAGCTCCCTGACCAGCAGTGGAATAGGAGGAAGATTGAAA
*
27513784 GTCCTAGCTCCCTGACCAGCAGTGGAATAGGCA-AAAGATTGTAAA
1 -TCCTAGCTCCCTGACCAGCAGTGGAATAGG-AGGAAGATTG-AAA
* *
27513829 TCCTAGCTCCCTGACCAGCGGTGGAATAGGTA-GAAGATTGTAAG
1 TCCTAGCTCCCTGACCAGCAGTGGAATAGG-AGGAAGATTG-AAA
*
27513873 TCCTAGCTCCCTGAGCAGCAGTGGA
1 TCCTAGCTCCCTGACCAGCAGTGGA
27513898 GTGGGTCAAA
Statistics
Matches: 468, Mismatches: 59, Indels: 48
0.81 0.10 0.08
Matches are distributed among these distances:
43 82 0.18
44 372 0.79
45 14 0.03
ACGTcount: A:0.32, C:0.22, G:0.27, T:0.19
Consensus pattern (43 bp):
TCCTAGCTCCCTGACCAGCAGTGGAATAGGAGGAAGATTGAAA
Found at i:27513600 original size:88 final size:88
Alignment explanation
Indices: 27513303--27513897 Score: 872
Period size: 88 Copynumber: 6.8 Consensus size: 88
27513293 AAATTACAAG
* * * * *
27513303 TCCTAACTCCCTGACCAGTAGTGGAATAGGAGGAAGACTGAAACTCCTAGCTCCCTGAACAGTAG
1 TCCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGAAAGTCCTAGCTCCCTGAACAGCAG
27513368 TGGAATAGGCAG-AGATTGCAGA
66 TGGAATAGGCAGAAGATTGCAGA
** * *
27513390 TCCTAGCTCCCTGACCAATAGTGGAATAGGTGGAAGATTGAAAGTCCTAGCTCCCTGAACAACAG
1 TCCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGAAAGTCCTAGCTCCCTGAACAGCAG
* *
27513455 TAGAATAGGTAG-AGATTGCAGA
66 TGGAATAGGCAGAAGATTGCAGA
* *
27513477 TCCTAGCTCCCTGAGCAACAGTGGAATAGGTGGAAGACTGAAAGTCCTAGCTCCCTGAACAGCAG
1 TCCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGAAAGTCCTAGCTCCCTGAACAGCAG
*
27513542 TGGAATAGGCGGAAGATTGCAGA
66 TGGAATAGGCAGAAGATTGCAGA
* * *
27513565 TCCTAGCTCCCTGACCAGCAGTAGAATAGGAGGAAGACTGAAAGTCCTAGCTCCCTGAACAACAG
1 TCCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGAAAGTCCTAGCTCCCTGAACAGCAG
* *
27513630 TGGAATAAGCAGAAGATTACAGA
66 TGGAATAGGCAGAAGATTGCAGA
*
27513653 TCCTAGCTCCCTGACCAACAG-GAGAATAGGTGGAAGACTGAAAGTCCTAGCTCCCTGAACAGCA
1 TCCTAGCTCCCTGACCAGCAGTG-GAATAGGTGGAAGACTGAAAGTCCTAGCTCCCTGAACAGCA
*
27513717 GTGGAATAGGCGGAAGATTGCAGA
65 GTGGAATAGGCAGAAGATTGCAGA
* * *
27513741 TCCTAACTCCATGACCAGCAGTGGAATAGGTGGAAGACTGAAAGTCCTAGCTCCCTGACCAGCAG
1 TCCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGAAAGTCCTAGCTCCCTGAACAGCAG
* * *
27513806 TGGAATAGGCAAAAGATTGTAAA
66 TGGAATAGGCAGAAGATTGCAGA
* * * * *
27513829 TCCTAGCTCCCTGACCAGCGGTGGAATAGGTAGAAGATTGTAAGTCCTAGCTCCCTGAGCAGCAG
1 TCCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGAAAGTCCTAGCTCCCTGAACAGCAG
27513894 TGGA
66 TGGA
27513898 GTGGGTCAAA
Statistics
Matches: 459, Mismatches: 46, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
87 148 0.32
88 310 0.68
89 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.27, T:0.19
Consensus pattern (88 bp):
TCCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGAAAGTCCTAGCTCCCTGAACAGCAG
TGGAATAGGCAGAAGATTGCAGA
Found at i:27515653 original size:24 final size:24
Alignment explanation
Indices: 27515546--27515721 Score: 78
Period size: 24 Copynumber: 7.4 Consensus size: 24
27515536 TTAATATATA
* * *
27515546 ATATACTATTACTTTAAA-TCATC
1 ATATATTATTATTTTAAACTTATC
*
27515569 AT-TAGTATTA-TTTAAACTTATC
1 ATATATTATTATTTTAAACTTATC
* * * * *
27515591 ATACATTA-TAGCTTGAAATTTATT
1 ATATATTATTA-TTTTAAACTTATC
*
27515615 ATATACTA-TAGTTTTAAACTTATC
1 ATATATTATTA-TTTTAAACTTATC
* * *
27515639 ATATATTATTATTTT-AGCTGCATT
1 ATATATTATTATTTTAAACT-TATC
* *
27515663 ATGTATTCA-TATTTTTAAAGTTATC
1 ATATATT-ATTA-TTTTAAACTTATC
* * * *
27515688 ATATGTTATTATTTCAAAATTATT
1 ATATATTATTATTTTAAACTTATC
*
27515712 ATGTATTATT
1 ATATATTATT
27515722 TCTTAAAGAT
Statistics
Matches: 114, Mismatches: 29, Indels: 19
0.70 0.18 0.12
Matches are distributed among these distances:
21 6 0.05
22 15 0.13
23 8 0.07
24 67 0.59
25 16 0.14
26 2 0.02
ACGTcount: A:0.35, C:0.09, G:0.06, T:0.50
Consensus pattern (24 bp):
ATATATTATTATTTTAAACTTATC
Found at i:27517044 original size:12 final size:12
Alignment explanation
Indices: 27517029--27517066 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
27517019 TAAGTATTAA
27517029 ATTAAATTTATT
1 ATTAAATTTATT
27517041 ATTAAATTTATT
1 ATTAAATTTATT
27517053 A--AAATATTATT
1 ATTAAAT-TTATT
27517064 ATT
1 ATT
27517067 CTTGGAATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
10 4 0.17
11 6 0.26
12 13 0.57
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
ATTAAATTTATT
Found at i:27517281 original size:24 final size:24
Alignment explanation
Indices: 27517254--27517306 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
27517244 TTTTGATTAA
27517254 CGGTTAATTCAGTTCGAAACTGGT
1 CGGTTAATTCAGTTCGAAACTGGT
* *
27517278 CGGTTAATTCGGTTCGAAATTGGT
1 CGGTTAATTCAGTTCGAAACTGGT
27517302 CGGTT
1 CGGTT
27517307 CGAAACTTGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.21, C:0.15, G:0.28, T:0.36
Consensus pattern (24 bp):
CGGTTAATTCAGTTCGAAACTGGT
Found at i:27519883 original size:23 final size:24
Alignment explanation
Indices: 27519850--27519907 Score: 91
Period size: 23 Copynumber: 2.5 Consensus size: 24
27519840 ATTCAATGTT
*
27519850 TGCAATTTCTTATCCATTTTCATA
1 TGCAATTTCTTATCCACTTTCATA
*
27519874 T-TAATTTCTTATCCACTTTCATA
1 TGCAATTTCTTATCCACTTTCATA
27519897 TGCAATTTCTT
1 TGCAATTTCTT
27519908 CATGCTTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
23 21 0.70
24 9 0.30
ACGTcount: A:0.24, C:0.21, G:0.03, T:0.52
Consensus pattern (24 bp):
TGCAATTTCTTATCCACTTTCATA
Found at i:27519893 original size:12 final size:12
Alignment explanation
Indices: 27519852--27519907 Score: 51
Period size: 12 Copynumber: 4.8 Consensus size: 12
27519842 TCAATGTTTG
27519852 CAATTTCTTATC
1 CAATTTCTTATC
* *
27519864 CATTTTCATAT-
1 CAATTTCTTATC
*
27519875 TAATTTCTTATC
1 CAATTTCTTATC
* * *
27519887 CACTTTCATATG
1 CAATTTCTTATC
27519899 CAATTTCTT
1 CAATTTCTT
27519908 CATGCTTTTA
Statistics
Matches: 32, Mismatches: 11, Indels: 2
0.71 0.24 0.04
Matches are distributed among these distances:
11 8 0.25
12 24 0.75
ACGTcount: A:0.25, C:0.21, G:0.02, T:0.52
Consensus pattern (12 bp):
CAATTTCTTATC
Found at i:27522164 original size:43 final size:42
Alignment explanation
Indices: 27522116--27522257 Score: 160
Period size: 43 Copynumber: 3.3 Consensus size: 42
27522106 TTTAAAAAAA
* *
27522116 AAACGCCGCTAAA-ACATATGACCATTAGCGGCGCTTTTATCAC
1 AAACGCCGCTAAAGA-ACATGA-CTTTAGCGGCGCTTTTATCAC
* ** *
27522159 AAACGCCGCTAAAGAACATGACTTTGAGCGACTTTTTTTTCAC
1 AAACGCCGCTAAAGAACATGACTTT-AGCGGCGCTTTTATCAC
*
27522202 AAATGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTTATCAC
1 AAACGCCGCTAAAGAACATGA-CTTTAGCGGCGCTTTTATCAC
* *
27522245 AAATGCCACTAAA
1 AAACGCCGCTAAA
27522258 AGTACCGTTC
Statistics
Matches: 84, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
42 3 0.04
43 76 0.90
44 5 0.06
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (42 bp):
AAACGCCGCTAAAGAACATGACTTTAGCGGCGCTTTTATCAC
Found at i:27522270 original size:43 final size:41
Alignment explanation
Indices: 27522140--27522298 Score: 106
Period size: 43 Copynumber: 3.8 Consensus size: 41
27522130 CATATGACCA
* * * * *
27522140 TTAGCGGCGCTTTTATCACAAACGCCGCTAAAGAACATGACT
1 TTAGCGGCGCTTTTATCACAAATGCCACTAAAGACCGT-TCT
* ** * * * *
27522182 TTGAGCGACTTTTTTTTCACAAATGCCGCTAAAGAACATGATCT
1 TT-AGCGGCGCTTTTATCACAAATGCCACTAAAG-AC-CGTTCT
27522226 TTAGCGGCGCTTTTATCACAAATGCCACTAAAAGTACCGTTCT
1 TTAGCGGCGCTTTTATCACAAATGCCACT-AAAG-ACCGTTCT
* * *
27522269 TTAGAGGCG--TTTATGAAAAAATGCCACTAA
1 TTAGCGGCGCTTTTAT-CACAAATGCCACTAA
27522299 CTTTGGCAGA
Statistics
Matches: 91, Mismatches: 21, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
41 7 0.08
42 13 0.14
43 60 0.66
44 11 0.12
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (41 bp):
TTAGCGGCGCTTTTATCACAAATGCCACTAAAGACCGTTCT
Found at i:27525057 original size:7 final size:6
Alignment explanation
Indices: 27525047--27525153 Score: 52
Period size: 7 Copynumber: 15.7 Consensus size: 6
27525037 CCCTAAACTA
* *
27525047 TAAACAC TAAATCC TAAACC ATAAACC TACACCC TAAACTG TAAACAC
1 TAAAC-C TAAA-CC TAAACC -TAAACC TA-AACC TAAAC-C TAAAC-C
* * *
27525095 TAAACTC TTAACAC TAAATCA TAAACC TTAAACC ATAAACC TACACCC
1 TAAAC-C TAAAC-C TAAA-CC TAAACC -TAAACC -TAAACC TA-AACC
27525143 TAAACCC TAAA
1 TAAA-CC TAAA
27525154 TATATATATT
Statistics
Matches: 78, Mismatches: 14, Indels: 16
0.72 0.13 0.15
Matches are distributed among these distances:
6 10 0.13
7 66 0.85
8 2 0.03
ACGTcount: A:0.48, C:0.31, G:0.01, T:0.21
Consensus pattern (6 bp):
TAAACC
Found at i:27525151 original size:14 final size:14
Alignment explanation
Indices: 27524997--27525153 Score: 72
Period size: 14 Copynumber: 11.3 Consensus size: 14
27524987 GGCTTGTTTA
**
27524997 TAAACCATAAACTT
1 TAAACCATAAACCC
*
27525011 TAAATGCA-AAACCC
1 TAAA-CCATAAACCC
* * *
27525025 TAAGCCCCTAACCCC
1 TAA-ACCATAAACCC
* *
27525040 TAAACTATAAACAC
1 TAAACCATAAACCC
*
27525054 TAAATCC-TAAACCA
1 TAAA-CCATAAACCC
*
27525068 TAAACC-TACACCC
1 TAAACCATAAACCC
** *
27525081 TAAACTGTAAACAC
1 TAAACCATAAACCC
* *
27525095 TAAACTC-TTAACAC
1 TAAAC-CATAAACCC
* *
27525109 TAAATCATAAACCT
1 TAAACCATAAACCC
27525123 TAAACCATAAA-CC
1 TAAACCATAAACCC
* *
27525136 TACACCCTAAACCC
1 TAAACCATAAACCC
27525150 TAAA
1 TAAA
27525154 TATATATATT
Statistics
Matches: 104, Mismatches: 31, Indels: 16
0.69 0.21 0.11
Matches are distributed among these distances:
13 23 0.22
14 70 0.67
15 11 0.11
ACGTcount: A:0.46, C:0.31, G:0.02, T:0.20
Consensus pattern (14 bp):
TAAACCATAAACCC
Found at i:27525343 original size:21 final size:21
Alignment explanation
Indices: 27525319--27525370 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
27525309 TATAAAATAA
* *
27525319 TAAACCCTAAACCCTAAGCTC
1 TAAACACTAAACCCTAAACTC
*
27525340 TAAACAATAAACCCTAAACTC
1 TAAACACTAAACCCTAAACTC
* *
27525361 AAAACTCTAA
1 TAAACACTAA
27525371 TCCCAAAATA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.48, C:0.31, G:0.02, T:0.19
Consensus pattern (21 bp):
TAAACACTAAACCCTAAACTC
Found at i:27525368 original size:28 final size:28
Alignment explanation
Indices: 27525317--27525370 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
27525307 ATTATAAAAT
* *
27525317 AATAAACCCTAAACCCTAAGCTCTAAAC
1 AATAAACCCTAAACCCAAAACTCTAAAC
*
27525345 AATAAACCCTAAACTCAAAACTCTAA
1 AATAAACCCTAAACCCAAAACTCTAA
27525371 TCCCAAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.50, C:0.30, G:0.02, T:0.19
Consensus pattern (28 bp):
AATAAACCCTAAACCCAAAACTCTAAAC
Found at i:27525951 original size:41 final size:40
Alignment explanation
Indices: 27525883--27525970 Score: 104
Period size: 40 Copynumber: 2.2 Consensus size: 40
27525873 AAAAGTGCCA
* * *
27525883 CTAATGCTCGATCTATAGCGGCGTTTTTCAAATATCACCG
1 CTAATGCTCGATCTATAGCGACGTTTTTCAAAAAGCACCG
* * * *
27525923 CTAATGCTCGATCTATTGCGACATTTTTTTAAAAAGCACTG
1 CTAATGCTCGATCTATAGCGAC-GTTTTTCAAAAAGCACCG
27525964 CTAATGC
1 CTAATGC
27525971 CACTAAAGCT
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 20 0.50
41 20 0.50
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (40 bp):
CTAATGCTCGATCTATAGCGACGTTTTTCAAAAAGCACCG
Found at i:27525970 original size:156 final size:154
Alignment explanation
Indices: 27525479--27526121 Score: 610
Period size: 156 Copynumber: 4.2 Consensus size: 154
27525469 TTTTGCAGCG
* * * * *
27525479 TTTTTATAAAAA-CGCCGCTAATGCCACTAAAGCTTAACAACAAACGACA-TCATTTT-CTCAAC
1 TTTTTTTAAAAAGCGCTGCTAATGCCACTAAAGCTCAACAACAAAC-AAAGT-GTTTTGCTCAAC
* * * **
27525541 TTTTTTACGGTC-TTTTGTGAAAAGAGCCACTAAAGCTCGATCTATAGTAGCGTTTTTC-AACAA
64 TTTTTTACGG-CGTTTTTTGAAAAGTGCCACTAATGCTCGATCTATAGCGGCGTTTTTCGAA-AA
* * *
27525604 -GCGCTGCTAATTCTTGATCTATTGTGGCA
127 TGC-C-GCTAATGCTCGATCTATTGCGGCA
* * * *
27525633 TTTTTTAAAAAAGTGCTACTAATGCCACTAAAGCTCAACAACAAACAACACTGTTTTGCTCAACT
1 TTTTTTTAAAAAGCGCTGCTAATGCCACTAAAGCTCAACAACAAACAA-AGTGTTTTGCTCAACT
* * * * *
27525698 TTTTTAAGGCGTTTTTTTTAAAAGTGCTACTAATGCTCAATCTATAGCGGTGTTTTTCGACAAAA
65 TTTTTACGGCG-TTTTTTGAAAAGTGCCACTAATGCTCGATCTATAGCGGCGTTTTTCG--AAAA
* * *
27525763 TGCCGCTAATTCTCCATCTATTGTGG-A
127 TGCCGCTAATGCTCGATCTATTGCGGCA
* * ** * *
27525790 GTTTTTTAAAAATCGCCACTAATGCCACTAAAGCTCAACAACAAACAAAGTCGTTTTGCTTAAGT
1 TTTTTTTAAAAAGCGCTGCTAATGCCACTAAAGCTCAACAACAAACAAAGT-GTTTTGCTCAACT
* *
27525855 TTTTTACGGCGTTTTCTAAAAAGTGCCACTAATGCTCGATCTATAGCGGCGTTTTTC-AAATATC
65 TTTTTACGGCGTTTTTTGAAAAGTGCCACTAATGCTCGATCTATAGCGGCGTTTTTCGAAA-AT-
* *
27525919 ACCGCTAATGCTCGATCTATTGCGACA
128 GCCGCTAATGCTCGATCTATTGCGGCA
* * * * *
27525946 TTTTTTTAAAAAGCACTGCTAATGCCACTAAAGCTCAACAACAAACGACGTGTTTTGCTTAGAAT
1 TTTTTTTAAAAAGCGCTGCTAATGCCACTAAAGCTCAACAACAAACAAAGTGTTTTGCTCA-ACT
* ** * * *
27526011 TTTTGTA--GCATTTTTTGAAAAGCCCCGCTAATGCTCGATCTATACCGGCATTTTTCGAAAAGT
65 TTTT-TACGGCGTTTTTTGAAAAGTGCCACTAATGCTCGATCTATAGCGGCGTTTTTCGAAAA-T
*
27526074 G-C-CTAATGCTCGATCTATAGCGGC-
128 GCCGCTAATGCTCGATCTATTGCGGCA
* *
27526098 GTTTTTCAAAAAGCGCTGCTAATG
1 TTTTTTTAAAAAGCGCTGCTAATG
27526122 TTTGAACTAT
Statistics
Matches: 410, Mismatches: 61, Indels: 38
0.81 0.12 0.07
Matches are distributed among these distances:
152 21 0.05
153 23 0.06
154 14 0.03
155 107 0.26
156 114 0.28
157 104 0.25
158 20 0.05
159 3 0.01
160 4 0.01
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (154 bp):
TTTTTTTAAAAAGCGCTGCTAATGCCACTAAAGCTCAACAACAAACAAAGTGTTTTGCTCAACTT
TTTTACGGCGTTTTTTGAAAAGTGCCACTAATGCTCGATCTATAGCGGCGTTTTTCGAAAATGCC
GCTAATGCTCGATCTATTGCGGCA
Found at i:27526089 original size:38 final size:38
Alignment explanation
Indices: 27526038--27526110 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 38
27526028 AAAAGCCCCG
*
27526038 CTAATGCTCGATCTATACCGGCATTTTTCGAAAAGTGC
1 CTAATGCTCGATCTATACCGGCATTTTTCAAAAAGTGC
* *
27526076 CTAATGCTCGATCTATAGCGGCGTTTTTCAAAAAG
1 CTAATGCTCGATCTATACCGGCATTTTTCAAAAAG
27526111 CGCTGCTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (38 bp):
CTAATGCTCGATCTATACCGGCATTTTTCAAAAAGTGC
Found at i:27526926 original size:22 final size:22
Alignment explanation
Indices: 27526875--27526918 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
27526865 TCAACTAAAC
27526875 AACCA-AAATTAGGCATAAAAT
1 AACCATAAATTAGGCATAAAAT
*
27526896 AACCATAAATTAGGCTTAAAAT
1 AACCATAAATTAGGCATAAAAT
27526918 A
1 A
27526919 TGCGTAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.55, C:0.14, G:0.09, T:0.23
Consensus pattern (22 bp):
AACCATAAATTAGGCATAAAAT
Found at i:27527850 original size:15 final size:16
Alignment explanation
Indices: 27527827--27527863 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
27527817 AATTTGAGAG
27527827 GAGAAAAAAAGA-AAT
1 GAGAAAAAAAGAGAAT
*
27527842 GAGAGAAAAAGAGAAT
1 GAGAAAAAAAGAGAAT
27527858 GA-AAAA
1 GAGAAAA
27527864 GAAATAAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.70, C:0.00, G:0.24, T:0.05
Consensus pattern (16 bp):
GAGAAAAAAAGAGAAT
Found at i:27527953 original size:18 final size:18
Alignment explanation
Indices: 27527932--27527976 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
27527922 AGAGTGTGAC
* * *
27527932 AAAAGAGATTGAGATTGA
1 AAAAGAAATCGAGAATGA
27527950 AAAAGAAATCGAGAATGA
1 AAAAGAAATCGAGAATGA
27527968 AGAAAGAAA
1 A-AAAGAAA
27527977 AACAAGTGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 16 0.70
19 7 0.30
ACGTcount: A:0.60, C:0.02, G:0.24, T:0.13
Consensus pattern (18 bp):
AAAAGAAATCGAGAATGA
Found at i:27529526 original size:20 final size:21
Alignment explanation
Indices: 27529486--27529527 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
27529476 TCTTTTTATT
27529486 GCATGTTTATTATGCGTCTTAA
1 GCATGTTTA-TATGCGTCTTAA
*
27529508 GCATGTTTA-ATGTGTCTTAA
1 GCATGTTTATATGCGTCTTAA
27529528 AAGTGTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
22 9 0.47
ACGTcount: A:0.24, C:0.12, G:0.19, T:0.45
Consensus pattern (21 bp):
GCATGTTTATATGCGTCTTAA
Found at i:27542793 original size:21 final size:21
Alignment explanation
Indices: 27542767--27542812 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
27542757 AGTTTCTTGG
27542767 GATTAGCCGGATACTATCGGT
1 GATTAGCCGGATACTATCGGT
27542788 GATTAGCCGGATACTATCGGT
1 GATTAGCCGGATACTATCGGT
27542809 GATT
1 GATT
27542813 TGTTAAAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.30
Consensus pattern (21 bp):
GATTAGCCGGATACTATCGGT
Found at i:27542967 original size:18 final size:18
Alignment explanation
Indices: 27542946--27542984 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
27542936 CTCCAGTGTT
27542946 AACTCAGCATGAATCTGG
1 AACTCAGCATGAATCTGG
27542964 AACTCAGCATGAATCTGG
1 AACTCAGCATGAATCTGG
27542982 AAC
1 AAC
27542985 GACATATGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.21
Consensus pattern (18 bp):
AACTCAGCATGAATCTGG
Found at i:27544298 original size:14 final size:14
Alignment explanation
Indices: 27544279--27544305 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
27544269 TAAAGGCACA
27544279 AAAAAGAAAAAAAG
1 AAAAAGAAAAAAAG
27544293 AAAAAGAAAAAAA
1 AAAAAGAAAAAAA
27544306 TAAATGCGCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAAAAAG
Found at i:27544365 original size:19 final size:19
Alignment explanation
Indices: 27544343--27544386 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
27544333 AAACAATTTT
*
27544343 AAATATTAACAAAGTAAAG
1 AAATAATAACAAAGTAAAG
* *
27544362 AAATAATAACTAAGTAAAT
1 AAATAATAACAAAGTAAAG
27544381 AAATAA
1 AAATAA
27544387 ATAAAGGACT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.66, C:0.05, G:0.07, T:0.23
Consensus pattern (19 bp):
AAATAATAACAAAGTAAAG
Found at i:27545361 original size:12 final size:11
Alignment explanation
Indices: 27545321--27545360 Score: 53
Period size: 12 Copynumber: 3.4 Consensus size: 11
27545311 TTGATTGTTG
27545321 TTTTTTACTAT
1 TTTTTTACTAT
27545332 TTATTTCTACTAT
1 TT-TTT-TACTAT
27545345 TTTTGTTACTAT
1 TTTT-TTACTAT
27545357 TTTT
1 TTTT
27545361 GCATGTTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 2 0.08
12 15 0.58
13 9 0.35
ACGTcount: A:0.17, C:0.10, G:0.03, T:0.70
Consensus pattern (11 bp):
TTTTTTACTAT
Found at i:27546075 original size:44 final size:44
Alignment explanation
Indices: 27546012--27546155 Score: 252
Period size: 44 Copynumber: 3.3 Consensus size: 44
27546002 TTAATCCGAC
* *
27546012 CCACTGCAACTTCAGAGGTATAGGACTTTTCGTTTCAATATGCT
1 CCACTGCAACTTCAGAGGTATAGGACTTGTCGCTTCAATATGCT
* *
27546056 CCACTGCAACTTCAGAGGTATAGGACTTGTCGCTTCAATAAGTT
1 CCACTGCAACTTCAGAGGTATAGGACTTGTCGCTTCAATATGCT
27546100 CCACTGCAACTTCAGAGGTATAGGACTTGTCGCTTCAATATGCT
1 CCACTGCAACTTCAGAGGTATAGGACTTGTCGCTTCAATATGCT
27546144 CCACTGCAACTT
1 CCACTGCAACTT
27546156 TAGGGAGATA
Statistics
Matches: 94, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 94 1.00
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.31
Consensus pattern (44 bp):
CCACTGCAACTTCAGAGGTATAGGACTTGTCGCTTCAATATGCT
Found at i:27546202 original size:51 final size:48
Alignment explanation
Indices: 27546124--27546302 Score: 159
Period size: 51 Copynumber: 3.7 Consensus size: 48
27546114 GAGGTATAGG
* * * *
27546124 ACTTGTCGCTTCAATATGCTCCACTGCAACTTTAGGGAGATAAGGTTTGTA
1 ACTTGTAGCTTTAATCTGTTCCACTGCAACTTTA--GAGATAA-GTTTGTA
* **
27546175 ACTTGTAGCTTTAATCTATTCCACTGCAACTTTCAGAGA-AA-TAAG--
1 ACTTGTAGCTTTAATCTGTTCCACTGCAACTTT-AGAGATAAGTTTGTA
* * * *
27546220 ATTTGTAGCTTTAATTTGCTCCACTGTAACTTTAAAGAGATAAGATTTGTA
1 ACTTGTAGCTTTAATCTGTTCCACTGCAACTTT--AGAGATAAG-TTTGTA
*
27546271 ACTTGTAACTTTAATCTGTTCCACTGCAACTT
1 ACTTGTAGCTTTAATCTGTTCCACTGCAACTT
27546303 CAAGAAAATA
Statistics
Matches: 101, Mismatches: 20, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
45 28 0.28
46 5 0.05
47 4 0.04
49 4 0.04
50 4 0.04
51 55 0.54
52 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (48 bp):
ACTTGTAGCTTTAATCTGTTCCACTGCAACTTTAGAGATAAGTTTGTA
Found at i:27546251 original size:96 final size:95
Alignment explanation
Indices: 27546098--27546366 Score: 360
Period size: 96 Copynumber: 2.8 Consensus size: 95
27546088 CTTCAATAAG
** * * * *
27546098 TTCCACTGCAACTTCAGAGGTATAGGACTTGTCGCTTCAATATGCTCCACTGCAACTTTAGGGAG
1 TTCCACTGCAACTTCAGAGAAATAAGATTTGTAGCTTCAATATGCTCCACTGTAACTTTAGGGAG
* *
27546163 ATAAGGTTTGTAACTTGTAGCTTTAATCTA
66 ATAAGATTTGTAACTTGTAACTTTAATCTA
* * **
27546193 TTCCACTGCAACTTTCAGAGAAATAAGATTTGTAGCTTTAATTTGCTCCACTGTAACTTTAAAGA
1 TTCCACTGCAAC-TTCAGAGAAATAAGATTTGTAGCTTCAATATGCTCCACTGTAACTTTAGGGA
*
27546258 GATAAGATTTGTAACTTGTAACTTTAATCTG
65 GATAAGATTTGTAACTTGTAACTTTAATCTA
* *
27546289 TTCCACTGCAACTTCA-AGAAAATAAGATTTGCTATCTTCAATCTGCTCCACTGTAACTTTAGGG
1 TTCCACTGCAACTTCAGAG-AAATAAGATTTG-TAGCTTCAATATGCTCCACTGTAACTTTAGGG
*
27546353 AGATAAAATTTGTA
64 AGATAAGATTTGTA
27546367 GCTTCAATCT
Statistics
Matches: 152, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
94 2 0.01
95 28 0.18
96 122 0.80
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.35
Consensus pattern (95 bp):
TTCCACTGCAACTTCAGAGAAATAAGATTTGTAGCTTCAATATGCTCCACTGTAACTTTAGGGAG
ATAAGATTTGTAACTTGTAACTTTAATCTA
Found at i:27546314 original size:51 final size:51
Alignment explanation
Indices: 27546222--27546319 Score: 119
Period size: 51 Copynumber: 1.9 Consensus size: 51
27546212 GAAATAAGAT
* * * * *
27546222 TTGTAGCTTTAATTTGCTCCACTGTAACTTTAA-AGAGATAAGATTTGTAAC
1 TTGTA-CTTTAATCTGTTCCACTGCAACTTCAAGAGAAATAAGATTTGTAAC
27546273 TTGTAACTTTAATCTGTTCCACTGCAACTTCAAGA-AAATAAGATTTG
1 TTGT-ACTTTAATCTGTTCCACTGCAACTTCAAGAGAAATAAGATTTG
27546320 CTATCTTCAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
51 38 0.95
52 2 0.05
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (51 bp):
TTGTACTTTAATCTGTTCCACTGCAACTTCAAGAGAAATAAGATTTGTAAC
Found at i:27546384 original size:44 final size:44
Alignment explanation
Indices: 27546177--27546450 Score: 208
Period size: 44 Copynumber: 6.0 Consensus size: 44
27546167 GGTTTGTAAC
** * *
27546177 TTGTAGCTTTAATCTATTCCACTGCAACTTTCAGAGAAATAAGAT
1 TTGTAGCTTTAATCTGCTCCACTGCAACTTT-AGGGAGATAAGAT
* * **
27546222 TTGTAGCTTTAATTTGCTCCACTGTAACTTTAAAGAGATAAGAT
1 TTGTAGCTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGAT
* * * * *
27546266 TTGTAACTTGTAACTTTAATCTGTTCCACTGCAACTTCAAGAAAATAAGAT
1 TTGT-A---G---CTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGAT
* * * *
27546317 TTGCTATCTTCAATCTGCTCCACTGTAACTTTAGGGAGATAAAAT
1 TTG-TAGCTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGAT
* * * * *
27546362 TTGTAGCTTCAATCTGCTCCACTACAA-TTTCTGGGAGAAAATAT
1 TTGTAGCTTTAATCTGCTCCACTGCAACTTT-AGGGAGATAAGAT
* * * * *
27546406 TTGTGGCTTTAATCTACTTCACTGCAACTTCAGGGATATAAGAT
1 TTGTAGCTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGAT
27546450 T
1 T
27546451 CGCTACAATG
Statistics
Matches: 181, Mismatches: 38, Indels: 21
0.75 0.16 0.09
Matches are distributed among these distances:
43 3 0.02
44 78 0.43
45 63 0.35
48 1 0.01
51 35 0.19
52 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (44 bp):
TTGTAGCTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGAT
Found at i:27552331 original size:14 final size:14
Alignment explanation
Indices: 27552312--27552339 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
27552302 CCAATTTATT
27552312 AATGAATTATTAAA
1 AATGAATTATTAAA
27552326 AATGAATTATTAAA
1 AATGAATTATTAAA
27552340 TATAACTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (14 bp):
AATGAATTATTAAA
Found at i:27562287 original size:24 final size:23
Alignment explanation
Indices: 27562234--27562292 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 23
27562224 ATAGATGATA
*
27562234 ATAAAATAATAATAATAAAGACAC
1 ATAAAATAA-AAAAATAAAGACAC
*
27562258 AAAAAATAAAAAAATAAATG-CAC
1 ATAAAATAAAAAAATAAA-GACAC
*
27562281 GATAAAAGAAAA
1 -ATAAAATAAAA
27562293 TAAAAAAACA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 11 0.38
24 18 0.62
ACGTcount: A:0.71, C:0.07, G:0.07, T:0.15
Consensus pattern (23 bp):
ATAAAATAAAAAAATAAAGACAC
Found at i:27564009 original size:11 final size:11
Alignment explanation
Indices: 27563993--27564018 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
27563983 TGATCTGGGT
27563993 GATTGTTGATA
1 GATTGTTGATA
27564004 GATTGTTGATA
1 GATTGTTGATA
27564015 GATT
1 GATT
27564019 AACTAAGTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (11 bp):
GATTGTTGATA
Found at i:27568162 original size:19 final size:19
Alignment explanation
Indices: 27568134--27568177 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
27568124 AAAAAATTTT
*
27568134 AAATATTAACAAAGTAAAG
1 AAATAATAACAAAGTAAAG
* *
27568153 AAATAATAACTAAGTAAAT
1 AAATAATAACAAAGTAAAG
27568172 AAATAA
1 AAATAA
27568178 AGGACTTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.66, C:0.05, G:0.07, T:0.23
Consensus pattern (19 bp):
AAATAATAACAAAGTAAAG
Found at i:27569856 original size:11 final size:11
Alignment explanation
Indices: 27569840--27569865 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
27569830 TGTTCTAGGT
27569840 GATTGTTGATA
1 GATTGTTGATA
27569851 GATTGTTGATA
1 GATTGTTGATA
27569862 GATT
1 GATT
27569866 AACTAAGTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (11 bp):
GATTGTTGATA
Found at i:27571841 original size:17 final size:17
Alignment explanation
Indices: 27571814--27571852 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
27571804 AGATGCAAGT
*
27571814 CTGTCTACCAGGCGATA
1 CTGTCTACCAGACGATA
* *
27571831 TTGTCTGCCAGACGATA
1 CTGTCTACCAGACGATA
27571848 CTGTC
1 CTGTC
27571853 CTCCAAGCGT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.21, C:0.28, G:0.23, T:0.28
Consensus pattern (17 bp):
CTGTCTACCAGACGATA
Found at i:27572801 original size:15 final size:16
Alignment explanation
Indices: 27572783--27572818 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
27572773 GGATGTAATT
27572783 TAAAACAAAGT-AAAA
1 TAAAACAAAGTAAAAA
*
27572798 TAAAATAAAGTAAAAA
1 TAAAACAAAGTAAAAA
27572814 TAAAA
1 TAAAA
27572819 GTTCCAATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.75, C:0.03, G:0.06, T:0.17
Consensus pattern (16 bp):
TAAAACAAAGTAAAAA
Found at i:27577749 original size:54 final size:53
Alignment explanation
Indices: 27577597--27577889 Score: 193
Period size: 54 Copynumber: 5.5 Consensus size: 53
27577587 ATTTGGATCA
* * * * * *
27577597 AAATACCCCCAAAGGTTAAAATGACCAAAATAGCCTCGAAGGGTAAAATGATTG
1 AAATA-CCCCATAGGGTAAAATGACCAAAATACCCCCGTAGGGTAAAATGACTG
* * *
27577651 AAATACCCTCGAT-GGGAAAAATGACCAAAATACCCTC-AATGGGTAAAATGACTG
1 AAATACCC-C-ATAGGGTAAAATGACCAAAATACCCCCGTA-GGGTAAAATGACTG
* * *
27577705 AAATGCCTCCATAGGGTAAAATGACCAAAATACCCCCGTAGGGTAGAAT-A-TCA
1 AAATACC-CCATAGGGTAAAATGACCAAAATACCCCCGTAGGGTAAAATGACT-G
* * ** * *
27577758 AAATAACCCCATATGGT-AAATAACCGTAATACCCCTGTAGGGTAAAAT-AATCG
1 AAAT-ACCCCATAGGGTAAAATGACCAAAATACCCCCGTAGGGTAAAATGACT-G
* * *** * ** *
27577811 TAATGCCCCTATAGGGTAAAATGACTGTAATACCTCTATAGGGTAAAATGACCG
1 AAATACCCC-ATAGGGTAAAATGACCAAAATACCCCCGTAGGGTAAAATGACTG
* *
27577865 TAATACCCCTGTAGGGTAAAATGAC
1 AAATACCCC-ATAGGGTAAAATGAC
27577890 TGTAATACCC
Statistics
Matches: 197, Mismatches: 30, Indels: 24
0.78 0.12 0.10
Matches are distributed among these distances:
52 32 0.16
53 31 0.16
54 130 0.66
55 4 0.02
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.21
Consensus pattern (53 bp):
AAATACCCCATAGGGTAAAATGACCAAAATACCCCCGTAGGGTAAAATGACTG
Found at i:27577766 original size:27 final size:27
Alignment explanation
Indices: 27577595--27577889 Score: 157
Period size: 27 Copynumber: 11.0 Consensus size: 27
27577585 ATATTTGGAT
** *
27577595 CAAAATACCCCCAAAGGTTAAAATGAC
1 CAAAATACCCCCGTAGGGTAAAATGAC
* * * *
27577622 CAAAATAGCCTCGAAGGGTAAAATGAT
1 CAAAATACCCCCGTAGGGTAAAATGAC
** * *
27577649 TGAAATACCCTCG-ATGGGAAAAATGAC
1 CAAAATACCCCCGTA-GGGTAAAATGAC
* *
27577676 CAAAATACCCTC-AATGGGTAAAATGAC
1 CAAAATACCCCCGTA-GGGTAAAATGAC
** * * *
27577703 TGAAATGCCTCCATAGGGTAAAATGAC
1 CAAAATACCCCCGTAGGGTAAAATGAC
* *
27577730 CAAAATACCCCCGTAGGGTAGAAT-AT
1 CAAAATACCCCCGTAGGGTAAAATGAC
* * * *
27577756 CAAAATAACCCCATATGGT-AAATAAC
1 CAAAATACCCCCGTAGGGTAAAATGAC
** * * *
27577782 CGTAATACCCCTGTAGGGTAAAATAAT
1 CAAAATACCCCCGTAGGGTAAAATGAC
** * **
27577809 CGTAATGCCCCTATAGGGTAAAATGAC
1 CAAAATACCCCCGTAGGGTAAAATGAC
*** * **
27577836 TGTAATACCTCTATAGGGTAAAATGAC
1 CAAAATACCCCCGTAGGGTAAAATGAC
** *
27577863 CGTAATACCCCTGTAGGGTAAAATGAC
1 CAAAATACCCCCGTAGGGTAAAATGAC
27577890 TGTAATACCC
Statistics
Matches: 215, Mismatches: 48, Indels: 10
0.79 0.18 0.04
Matches are distributed among these distances:
25 3 0.01
26 32 0.15
27 179 0.83
28 1 0.00
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.21
Consensus pattern (27 bp):
CAAAATACCCCCGTAGGGTAAAATGAC
Found at i:27577890 original size:54 final size:54
Alignment explanation
Indices: 27577715--27577922 Score: 224
Period size: 54 Copynumber: 3.9 Consensus size: 54
27577705 AAATGCCTCC
*** ** * **
27577715 ATAGGGTAAAATGACCAAAATACCCCCGTAGGGTAGAAT-ATCAAAATAACCCC-
1 ATAGGGTAAAATGACTGTAATACCCCTATAGGGTAAAATAATCGTAAT-ACCCCT
* * * * *
27577768 ATATGGT-AAATAACCGTAATACCCCTGTAGGGTAAAATAATCGTAATGCCCCT
1 ATAGGGTAAAATGACTGTAATACCCCTATAGGGTAAAATAATCGTAATACCCCT
* * *
27577821 ATAGGGTAAAATGACTGTAATACCTCTATAGGGTAAAATGACCGTAATACCCCT
1 ATAGGGTAAAATGACTGTAATACCCCTATAGGGTAAAATAATCGTAATACCCCT
* *
27577875 GTAGGGTAAAATGACTGTAATACCCCTATAAGGTAAAATAATCGTAAT
1 ATAGGGTAAAATGACTGTAATACCCCTATAGGGTAAAATAATCGTAAT
27577923 GCCCTAGTGG
Statistics
Matches: 130, Mismatches: 22, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
52 30 0.23
53 18 0.14
54 82 0.63
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (54 bp):
ATAGGGTAAAATGACTGTAATACCCCTATAGGGTAAAATAATCGTAATACCCCT
Found at i:27577894 original size:27 final size:27
Alignment explanation
Indices: 27577636--27577913 Score: 194
Period size: 27 Copynumber: 10.4 Consensus size: 27
27577626 ATAGCCTCGA
* * *
27577636 AGGGTAAAATGATTGAAATACCCTCGAT
1 AGGGTAAAATGACTGTAATACCC-CTAT
* *** *
27577664 -GGGAAAAATGACCAAAATACCCTCAAT
1 AGGGTAAAATGACTGTAATACCC-CTAT
* *
27577691 -GGGTAAAATGACTGAAATGCCTCC-AT
1 AGGGTAAAATGACTGTAATACC-CCTAT
*** **
27577717 AGGGTAAAATGACCAAAATACCCCCGT
1 AGGGTAAAATGACTGTAATACCCCTAT
* **
27577744 AGGGTAGAAT-A-TCAAAATAACCCC-AT
1 AGGGTAAAATGACT-GTAAT-ACCCCTAT
* * * *
27577770 ATGGT-AAATAACCGTAATACCCCTGT
1 AGGGTAAAATGACTGTAATACCCCTAT
* *
27577796 AGGGTAAAAT-AATCGTAATGCCCCTAT
1 AGGGTAAAATGACT-GTAATACCCCTAT
*
27577823 AGGGTAAAATGACTGTAATACCTCTAT
1 AGGGTAAAATGACTGTAATACCCCTAT
* *
27577850 AGGGTAAAATGACCGTAATACCCCTGT
1 AGGGTAAAATGACTGTAATACCCCTAT
27577877 AGGGTAAAATGACTGTAATACCCCTAT
1 AGGGTAAAATGACTGTAATACCCCTAT
*
27577904 AAGGTAAAAT
1 AGGGTAAAAT
27577914 AATCGTAATG
Statistics
Matches: 203, Mismatches: 36, Indels: 23
0.77 0.14 0.09
Matches are distributed among these distances:
25 8 0.04
26 25 0.12
27 167 0.82
28 3 0.01
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.23
Consensus pattern (27 bp):
AGGGTAAAATGACTGTAATACCCCTAT
Found at i:27577922 original size:81 final size:79
Alignment explanation
Indices: 27577772--27577942 Score: 222
Period size: 81 Copynumber: 2.1 Consensus size: 79
27577762 AACCCCATAT
* * * *
27577772 GGTAAATAACCGTAATACCCCTGTAGGGTAAAATAATCGTAATGCCCCTATAGGGTAAAATGACT
1 GGTAAATGACCGTAATACCCCTGTAGGGTAAAATAATCGTAATACCCCTATAAGGTAAAATAACT
27577837 GTAATACCTCTA-TAG
66 GTAATACC-CTAGT-G
*
27577852 GGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGA-CTGTAATACCCCTATAAGGTAAAATAA
1 GGT-AAATGACCGTAATACCCCTGTAGGGTAAAATAATC-GTAATACCCCTATAAGGTAAAATAA
*
27577916 -TCGTAATGCCCTAGTG
64 CT-GTAATACCCTAGTG
27577932 GGTAAATGACC
1 GGTAAATGACC
27577943 ATTTTTTCCC
Statistics
Matches: 81, Mismatches: 6, Indels: 9
0.84 0.06 0.09
Matches are distributed among these distances:
79 8 0.10
80 12 0.15
81 61 0.75
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (79 bp):
GGTAAATGACCGTAATACCCCTGTAGGGTAAAATAATCGTAATACCCCTATAAGGTAAAATAACT
GTAATACCCTAGTG
Found at i:27578001 original size:23 final size:24
Alignment explanation
Indices: 27577962--27578027 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
27577952 CCTCGAGGTC
* *
27577962 AAATGA-TTATTTCTCTGTGGTT-
1 AAATGACTAATTTGTCTGTGGTTG
*
27577984 AAATGACTAATTTGTCTGTGTTTG
1 AAATGACTAATTTGTCTGTGGTTG
** *
27578008 GTATGACTGATTTGTCTGTG
1 AAATGACTAATTTGTCTGTG
27578028 ATTTGAATGA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
22 6 0.17
23 13 0.36
24 17 0.47
ACGTcount: A:0.21, C:0.09, G:0.23, T:0.47
Consensus pattern (24 bp):
AAATGACTAATTTGTCTGTGGTTG
Found at i:27578020 original size:24 final size:24
Alignment explanation
Indices: 27577985--27578043 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
27577975 TCTGTGGTTA
*
27577985 AATGACTAATTTGTCTGTG-TTTGG
1 AATGACTGATTTGTCTGTGATTT-G
*
27578009 TATGACTGATTTGTCTGTGATTTG
1 AATGACTGATTTGTCTGTGATTTG
27578033 AATGACTGATT
1 AATGACTGATT
27578044 CTGAACATGG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
24 28 0.90
25 3 0.10
ACGTcount: A:0.22, C:0.08, G:0.24, T:0.46
Consensus pattern (24 bp):
AATGACTGATTTGTCTGTGATTTG
Found at i:27578210 original size:26 final size:26
Alignment explanation
Indices: 27578159--27578212 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
27578149 TTGGCCACAT
**
27578159 ATACTATTACTGGCAGCTTTGTTGCG
1 ATACTATTACTGGCAGCTTTACTGCG
*
27578185 ATACTGTTACTGGCAGCTTTACTGCG
1 ATACTATTACTGGCAGCTTTACTGCG
27578211 AT
1 AT
27578213 GCTACTGATG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.37
Consensus pattern (26 bp):
ATACTATTACTGGCAGCTTTACTGCG
Found at i:27578256 original size:32 final size:32
Alignment explanation
Indices: 27578215--27578306 Score: 157
Period size: 32 Copynumber: 2.9 Consensus size: 32
27578205 ACTGCGATGC
*
27578215 TACTGATGGCTTTGTGTCGATCATAGTACCGT
1 TACTGATGGCTTTGTGCCGATCATAGTACCGT
* *
27578247 TACTGATGGCTTTATACCGATCATAGTACCGT
1 TACTGATGGCTTTGTGCCGATCATAGTACCGT
27578279 TACTGATGGCTTTGTGCCGATCATAGTA
1 TACTGATGGCTTTGTGCCGATCATAGTA
27578307 TCATCATATT
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 55 1.00
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.36
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATAGTACCGT
Found at i:27578379 original size:32 final size:32
Alignment explanation
Indices: 27578330--27578442 Score: 111
Period size: 32 Copynumber: 3.5 Consensus size: 32
27578320 TTGTTACTCG
* * * *
27578330 TGGCTATGTGCCGATCATATCACTACTATTGA
1 TGGCTTTGTGCCAATCATATCACTGCTACTGA
* * ** * *
27578362 TGGCTTTGTACCAATCATGTTGCCGTTACTGA
1 TGGCTTTGTGCCAATCATATCACTGCTACTGA
*
27578394 TGG-TTGTGTGCCGATCATATCACTGCTACTGA
1 TGGCTT-TGTGCCAATCATATCACTGCTACTGA
27578426 TGGCTTTGTGCCAATCA
1 TGGCTTTGTGCCAATCA
27578443 CATTATTGTA
Statistics
Matches: 61, Mismatches: 18, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
31 2 0.03
32 57 0.93
33 2 0.03
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.35
Consensus pattern (32 bp):
TGGCTTTGTGCCAATCATATCACTGCTACTGA
Found at i:27589859 original size:33 final size:33
Alignment explanation
Indices: 27589822--27589929 Score: 180
Period size: 33 Copynumber: 3.3 Consensus size: 33
27589812 ATCCCTCAAA
*
27589822 CACACCAAAGTTCATAAGAGCTAATCCAACCAT
1 CACACCAAAGCTCATAAGAGCTAATCCAACCAT
* *
27589855 CACACCAATGCTCATAAGAGCTAAACCAACCAT
1 CACACCAAAGCTCATAAGAGCTAATCCAACCAT
*
27589888 CACACCAATGCTCATAAGAGCTAATCCAACCAT
1 CACACCAAAGCTCATAAGAGCTAATCCAACCAT
27589921 CACACCAAA
1 CACACCAAA
27589930 CAAAGAGTAT
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 70 1.00
ACGTcount: A:0.43, C:0.33, G:0.08, T:0.16
Consensus pattern (33 bp):
CACACCAAAGCTCATAAGAGCTAATCCAACCAT
Found at i:27590568 original size:9 final size:9
Alignment explanation
Indices: 27590554--27590582 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
27590544 TTTGATCACT
27590554 TAATTACTA
1 TAATTACTA
27590563 TAATTACTA
1 TAATTACTA
27590572 TAATTACTA
1 TAATTACTA
27590581 TA
1 TA
27590583 TTTTTCACCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (9 bp):
TAATTACTA
Found at i:27593243 original size:64 final size:65
Alignment explanation
Indices: 27593165--27593310 Score: 231
Period size: 64 Copynumber: 2.2 Consensus size: 65
27593155 AGGTTTAAAT
* * *
27593165 TGTAAGACCATGGCTCGACCATGGCAACATAGATAGTCCGCCAGGACATTGAACATGGGGTAT-G
1 TGTAAGACCATGGCTCGACCATGGCAACATAGATAGTCCACCAGGACATTAAAAATGGGGTATAG
*
27593229 TGTAAGACCATGGCTCGACCATGGCAACATAGATAGTCCACTAGGACATTAAAAATGGGGTATGA
1 TGTAAGACCATGGCTCGACCATGGCAACATAGATAGTCCACCAGGACATTAAAAATGGGGTAT-A
27593294 CG
65 -G
27593296 TGTAAGACCATGGCT
1 TGTAAGACCATGGCT
27593311 TGGCTATGAC
Statistics
Matches: 75, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
64 59 0.79
67 16 0.21
ACGTcount: A:0.32, C:0.21, G:0.27, T:0.21
Consensus pattern (65 bp):
TGTAAGACCATGGCTCGACCATGGCAACATAGATAGTCCACCAGGACATTAAAAATGGGGTATAG
Found at i:27595419 original size:516 final size:516
Alignment explanation
Indices: 27594447--27599082 Score: 7783
Period size: 516 Copynumber: 9.0 Consensus size: 516
27594437 CTTTAGCGAA
* * *
27594447 ATATATATTAAATATACATAATTGTAGATTTAATGGCTTTTTATATAAAATGGA-CTAAATCGTA
1 ATATATATTAAATATATATAATTGTAGACTTAATGGCTTTTTATATAAAATGGATC-AAATCATA
*
27594511 AAATAAGAAATACTTGATAAATATGAAGAGATTCATGACATTGAATGGATGTGGGAATGGTATGT
65 AAATAAGAAATACTTGATAAATATAAAGAGATTCATGACATTGAATGGATGTGGGAATGGTATGT
27594576 TGTTGGATAGCATGTATATGATGATGTTGCAAATTTAAAATGTATAGAGAATTGTTATTCAAAAT
130 TGTTGGATAGCATGTATATGATGATGTTGCAAATTTAAAATGTATAGAGAATTGTTATTCAAAAT
* *
27594641 AACTAATGTGTGTATACAATTAAAGAGTTTGAAATGATACGAAATTGGTAAAAGAACCAGTCTGA
195 AACTAATGTGTGTATACAATTAAAGAGTTTGAAATGATACGAAATTGGTAAAAGAACCTGTATGA
27594706 ATTTAACAAATGGTTTAGATAAGAATGGAAAGTGATTATGGTTATAAAAAGGAAAAATGGGAATT
260 ATTTAACAAATGGTTTAGATAAGAATGGAAAGTGATTATGGTTATAAAAAGGAAAAATGGGAATT
* *
27594771 GTGATTAGAGATTTATTCGATGGTTGAGATCCAGCACAAATTGTGGATTCCCGACAACTCGACTA
325 GTGATTAGAGATTTATTCGATGGTTGAGATCCAGCACAAATTGTGGATTCCCGACAGCTCGACTG
* * *
27594836 AGCAGTGTCGGATCATTATATAGCAATCTATGATGATTAGTCCTTGAAACGTTCTAGTTGCCATT
390 AGCAGTATCGGATCATTATATAGCAATCTGTGATGATTAGTCCCTGAAACGTTCTAGTTGCCATT
* *
27594901 TTCTATGTAAGTTCATATGGAACTTACTGCATTTTCGTATTATATTGTAATTGTGTTTTTGT
455 TTCTAGGTAAGTTCATATGGAACTTACTGCATTTTCGTATTATATTTTAATTGTGTTTTTGT
* *
27594963 ATATATATTAAATATATATAATTGCAGATTTAATGGCTTTTTATATAAAATGGATCAAATCATAA
1 ATATATATTAAATATATATAATTGTAGACTTAATGGCTTTTTATATAAAATGGATCAAATCATAA
* *
27595028 AATAAGAAATACTTGATAAATATAAAGAGATTCATGACATTGAATGGATATGAGAATGGTATGTT
66 AATAAGAAATACTTGATAAATATAAAGAGATTCATGACATTGAATGGATGTGGGAATGGTATGTT
*
27595093 GTTGGATAGCATGTATATGATGATGTTGCAAAATTAAAATGTATAGAGAATTGTTATTCAAAATA
131 GTTGGATAGCATGTATATGATGATGTTGCAAATTTAAAATGTATAGAGAATTGTTATTCAAAATA
*
27595158 ACTAATGTGTGTATACAATTAAAGAGTTTGAAATGATAAGAAATTGGTAAAAGAACCTGTATGAA
196 ACTAATGTGTGTATACAATTAAAGAGTTTGAAATGATACGAAATTGGTAAAAGAACCTGTATGAA
*
27595223 TTTAACAAATGGTTTACATAAGAATGGAAAGTGATTATGGTTATAAAAAGGAAAAATGGGAATTG
261 TTTAACAAATGGTTTAGATAAGAATGGAAAGTGATTATGGTTATAAAAAGGAAAAATGGGAATTG
27595288 TGATTAGAGATTTATTCGATGGTTGAGATCCAGCACAAATTGTGGATTCCCGACAGCTCGACTGA
326 TGATTAGAGATTTATTCGATGGTTGAGATCCAGCACAAATTGTGGATTCCCGACAGCTCGACTGA
* * *
27595353 GCAGTATCGGATCATTATATAGTAATCTGTGAT-ATTTAATCCCTGAAACTTTCTAGTTGCCATT
391 GCAGTATCGGATCATTATATAGCAATCTGTGATGA-TTAGTCCCTGAAACGTTCTAGTTGCCATT
* * * *
27595417 TTCTAGGTAAGTTCATATGGAATTTAGTGTATTTTCGTATTTTATTTTAATTGTGTTTTTGT
455 TTCTAGGTAAGTTCATATGGAACTTACTGCATTTTCGTATTATATTTTAATTGTGTTTTTGT
* *
27595479 ATATATATTAAATATATAAAATTGTAGACTTAATGGCTTTTTATATAAAATGGATCAAATCCTAA
1 ATATATATTAAATATATATAATTGTAGACTTAATGGCTTTTTATATAAAATGGATCAAATCATAA
* * * *
27595544 AATAAGAAATACTTGATAAATATGAGGAGAATCATGACATTGAATGGATGCGGGAATGGTATGTT
66 AATAAGAAATACTTGATAAATATAAAGAGATTCATGACATTGAATGGATGTGGGAATGGTATGTT
27595609 GTTGGATAGCATGTATATGATGATGTTGCAAATTTAAAATGTATAGAGAATTGTTATTCAAAATA
131 GTTGGATAGCATGTATATGATGATGTTGCAAATTTAAAATGTATAGAGAATTGTTATTCAAAATA
* *
27595674 CCTAATGTGTGTATCCAATTAAAGAGTTTGAAATGATACGAAATTGGTAAAAGAACCTGTATGAA
196 ACTAATGTGTGTATACAATTAAAGAGTTTGAAATGATACGAAATTGGTAAAAGAACCTGTATGAA
27595739 TTTAACAAATGGTTTAGATAAGAATGGAAAGTGATTATGGTTATAAAAAGGAAAAATGGGAATTG
261 TTTAACAAATGGTTTAGATAAGAATGGAAAGTGATTATGGTTATAAAAAGGAAAAATGGGAATTG
27595804 TGATTAGAGATTTATTCGATGGTTGAGATCCAGCACAAATTGTGGATTCCCGACAGCTCGACTGA
326 TGATTAGAGATTTATTCGATGGTTGAGATCCAGCACAAATTGTGGATTCCCGACAGCTCGACTGA
* * * *
27595869 GCAGTATCAGATCATTATATAGCAATCTATGATAATTAGTCCCTGAAACTTTCTAGTTGCCATTT
391 GCAGTATCGGATCATTATATAGCAATCTGTGATGATTAGTCCCTGAAACGTTCTAGTTGCCATTT
* * * * *
27595934 TCTAGGTAGGTTCATAAGGAAGTTAGTGCATTTTCGTATTTTATTTTAATTGTGTTTTTGT
456 TCTAGGTAAGTTCATATGGAACTTACTGCATTTTCGTATTATATTTTAATTGTGTTTTTGT
*
27595995 ATATATATTAAATATATAAAATTGTAGACTTAATGGCTTTTTATATAAAATGGATCAAATCATAA
1 ATATATATTAAATATATATAATTGTAGACTTAATGGCTTTTTATATAAAATGGATCAAATCATAA
*
27596060 AATAAGAAATACTTGATAAATATAAAGAGATTCATGACATTGAATGGATGTGGGAATGGTATATT
66 AATAAGAAATACTTGATAAATATAAAGAGATTCATGACATTGAATGGATGTGGGAATGGTATGTT
*
27596125 GTTGGATAGCATGTATATGATGATGTTGCAAATTTAAAATGTATAGAGCATTGTTATTCAAAATA
131 GTTGGATAGCATGTATATGATGATGTTGCAAATTTAAAATGTATAGAGAATTGTTATTCAAAATA
*
27596190 AGTAATGTGTGTATACAATTAAAGAGTTTGAAATGATACGAAATTGGTAAAAGAACCTGTATGAA
196 ACTAATGTGTGTATACAATTAAAGAGTTTGAAATGATACGAAATTGGTAAAAGAACCTGTATGAA
* * **
27596255 TTTAACAAATGGTTTAGATAAGAATGGAAAGTGATCATGGTTATAAAAAGGAAAAATGGCAATCC
261 TTTAACAAATGGTTTAGATAAGAATGGAAAGTGATTATGGTTATAAAAAGGAAAAATGGGAATTG
* *
27596320 TGATTAGAGATTTATTCGATGGTTGAGATCCAACACAAATTGTGGATTCCCAACAGCTCGACTGA
326 TGATTAGAGATTTATTCGATGGTTGAGATCCAGCACAAATTGTGGATTCCCGACAGCTCGACTGA
* * *
27596385 GCAATATCGGATCATTATATAGCAATCTGTGATGATTTGTCCCTGAAACTTTCTAGTTGCCATTT
391 GCAGTATCGGATCATTATATAGCAATCTGTGATGATTAGTCCCTGAAACGTTCTAGTTGCCATTT
* * *
27596450 TCTAGGTAAGTTCATATGGAAGTTACAGCATTTTCGTATTTTATTTTAATTGTGTTTTTGT
456 TCTAGGTAAGTTCATATGGAACTTACTGCATTTTCGTATTATATTTTAATTGTGTTTTTGT
**
27596511 ATATATATTAAATATATATAATTGTAGACTTAATGGCTTTTTATATAAAATGGATCAAATCAGGA
1 ATATATATTAAATATATATAATTGTAGACTTAATGGCTTTTTATATAAAATGGATCAAATCATAA
27596576 AATAAGAAATACTTGATAAATATAAAGAGATTCATGACATTGAATGGATGTGGGAATGGTATGTT
66 AATAAGAAATACTTGATAAATATAAAGAGATTCATGACATTGAATGGATGTGGGAATGGTATGTT
* * *
27596641 GTTAGATAGCATGTATATGATGATGTTGCAAATTTATAATGTATAGAGAGTTGTTATTCAAAATA
131 GTTGGATAGCATGTATATGATGATGTTGCAAATTTAAAATGTATAGAGAATTGTTATTCAAAATA
* *
27596706 ACTAATGTGTGTTTACAATTAAAGAGTTTGAAATGATACGAAATTTGTAAAAGAACCTGTATGAA
196 ACTAATGTGTGTATACAATTAAAGAGTTTGAAATGATACGAAATTGGTAAAAGAACCTGTATGAA
*
27596771 TTTAACAAATGGTTTAGATAAGAATGGAAAGTGATTATGGCTATAAAAAGGAAAAATGGGAATTG
261 TTTAACAAATGGTTTAGATAAGAATGGAAAGTGATTATGGTTATAAAAAGGAAAAATGGGAATTG
27596836 TGATTAGAGATTTTATTCGATGGTTGAGATCCAGCACAAATTGTGGATTCCCGACAGCTCGACTG
326 TGATTAGAGA-TTTATTCGATGGTTGAGATCCAGCACAAATTGTGGATTCCCGACAGCTCGACTG
*
27596901 AGCAGTATCGGATCCTTATATAGCAATCTGTGATGATTAGTCCCTGAAACGTTCTAGTTGCCATT
390 AGCAGTATCGGATCATTATATAGCAATCTGTGATGATTAGTCCCTGAAACGTTCTAGTTGCCATT
*
27596966 TTCTATGTAAGTTCATATGGAACTTACTGCATTTTCGTATTATATTTTAATTGT-TTTTAAT-T
455 TTCTAGGTAAGTTCATATGGAACTTACTGCATTTTCGTATTATATTTTAATTGTGTTTT--TGT
* * * * * *
27597028 ATATATAGTAAATATATATATAATTGCAGATTTAATAGCTTTTAATATAAAATGGATCAAATCCT
1 ATATATA-TTAA-ATATATATAATTGTAGACTTAATGGCTTTTTATATAAAATGGATCAAATCAT
* * *
27597093 AAAATAAGAAATACTTGATAAATATGAAGAGATTCATAACATTGAATGGATGTGAGAATGGTATG
64 AAAATAAGAAATACTTGATAAATATAAAGAGATTCATGACATTGAATGGATGTGGGAATGGTATG
*
27597158 TTGTTGGATAGCATGTATATGATGATGTTGCAAATTTAAAATGTATATAGAATTGTTATTCAAAA
129 TTGTTGGATAGCATGTATATGATGATGTTGCAAATTTAAAATGTATAGAGAATTGTTATTCAAAA
*
27597223 TAACTAATGTGTGTATACAATTAAAGAGTTTGAAATGATACGAAATTTGTAAAAGAACCTGTATG
194 TAACTAATGTGTGTATACAATTAAAGAGTTTGAAATGATACGAAATTGGTAAAAGAACCTGTATG
*
27597288 AATTTAACAAATGGTTTAGATAAGAATGGAAAGCGATTATGGTTATAAAAAGGAAAAATGGGAAT
259 AATTTAACAAATGGTTTAGATAAGAATGGAAAGTGATTATGGTTATAAAAAGGAAAAATGGGAAT
*
27597353 TGTGACTAGAGATTTATTCGATGGTTGAGATCCAGCACAAATTGTGGATTCCCGACAGCTCGACT
324 TGTGATTAGAGATTTATTCGATGGTTGAGATCCAGCACAAATTGTGGATTCCCGACAGCTCGACT
* * * * *
27597418 GAGCAATATTGGATCATTATATAGCAATCTGTGATAATCT-GTCCCTGAAACTTTCTCGTTGCCA
389 GAGCAGTATCGGATCATTATATAGCAATCTGTGATGAT-TAGTCCCTGAAACGTTCTAGTTGCCA
* * *
27597482 TTTTCTAGGTAAGTTCATGTGGAAGTTACTGCATTTTCGTATTTTATTTTAATTGTGTTTTTGT
453 TTTTCTAGGTAAGTTCATATGGAACTTACTGCATTTTCGTATTATATTTTAATTGTGTTTTTGT
* *
27597546 ATATTTATTAAATATATATAATTGTAGACTTAATGGCTTTTTATATAAAATTGATCAAATCATAA
1 ATATATATTAAATATATATAATTGTAGACTTAATGGCTTTTTATATAAAATGGATCAAATCATAA
*
27597611 AATAAGAAATACTTGATAAATATAAAGAGATTCATGACATTGAATGGATGTGGGAATGGTATGGT
66 AATAAGAAATACTTGATAAATATAAAGAGATTCATGACATTGAATGGATGTGGGAATGGTATGTT
* *
27597676 GTTGGATAGCATGTACATGATGATGCTGCAAATTTAAAATGTATAGAGAATTGTTATTCAAAATA
131 GTTGGATAGCATGTATATGATGATGTTGCAAATTTAAAATGTATAGAGAATTGTTATTCAAAATA
*
27597741 ACTAATCTGTGTATACAATTAAAGAGTTTGAAATGATACGAAATTGGTAAAAGAACCTGTATGAA
196 ACTAATGTGTGTATACAATTAAAGAGTTTGAAATGATACGAAATTGGTAAAAGAACCTGTATGAA
* * *
27597806 TTTAACAAATGGTTTAGATAAAAATGGAAAGTGATTATGGTTATAAAAATGAAAAATGGGAATCG
261 TTTAACAAATGGTTTAGATAAGAATGGAAAGTGATTATGGTTATAAAAAGGAAAAATGGGAATTG
* *
27597871 TGATTAGAGATTTATTCGATGGTTGAGATCCAACATAAATTGTGGATTCCCGACAGCTCGACTGA
326 TGATTAGAGATTTATTCGATGGTTGAGATCCAGCACAAATTGTGGATTCCCGACAGCTCGACTGA
* * * *
27597936 GCCGTATCGGATCATTATATAGCAATTTGTCATGATTAGTCCTTGAAACGTTCTAGTTGCCATTT
391 GCAGTATCGGATCATTATATAGCAATCTGTGATGATTAGTCCCTGAAACGTTCTAGTTGCCATTT
* * *
27598001 TCTATGTAAGTTCATATGGAACTAACTGCATTTTTGTATTATATTTTAATTGTGTTTTTGT
456 TCTAGGTAAGTTCATATGGAACTTACTGCATTTTCGTATTATATTTTAATTGTGTTTTTGT
* *
27598062 ATATATATTAAATATATATAATTGCAGAGTTAATGGCTTTTTATATAAAATGGATCAAATCATAA
1 ATATATATTAAATATATATAATTGTAGACTTAATGGCTTTTTATATAAAATGGATCAAATCATAA
* * *
27598127 AATAAGAAATACTTGATAAATATGAAGAGATTCATGGCATTGAATGGATGTGAGAATGGTATGTT
66 AATAAGAAATACTTGATAAATATAAAGAGATTCATGACATTGAATGGATGTGGGAATGGTATGTT
* *
27598192 GTTGGATAGCATGTATATGATGATATTGCAAATTTAAAATGTATAGAAAATTGTTATTCAAAATA
131 GTTGGATAGCATGTATATGATGATGTTGCAAATTTAAAATGTATAGAGAATTGTTATTCAAAATA
* * * * *
27598257 ACTAATGTGTGTATACAATTAAAGAGTTTCAAATGATAAGAAATTGGTAAAGGAACCTATTTGAA
196 ACTAATGTGTGTATACAATTAAAGAGTTTGAAATGATACGAAATTGGTAAAAGAACCTGTATGAA
* * * * * *
27598322 TTTAAGAAATGGTTTACATAAGAATGGAAAATGATTATGGTTATAAAAAGGAAAAATGAGTATCG
261 TTTAACAAATGGTTTAGATAAGAATGGAAAGTGATTATGGTTATAAAAAGGAAAAATGGGAATTG
* * * * ** *
27598387 TGATTAGAGATTTCTTCAATGGTTCAGATCTAGCACAAATTAAGGA-TCCTCGACAGCT-GTAGT
326 TGATTAGAGATTTATTCGATGGTTGAGATCCAGCACAAATTGTGGATTCC-CGACAGCTCG-ACT
* * *
27598450 GAGCAGTATCGGATAATTATATAGTAATCTGTGATGATTAGTCCCTGAAACGTTATAGTTGCCAT
389 GAGCAGTATCGGATCATTATATAGCAATCTGTGATGATTAGTCCCTGAAACGTTCTAGTTGCCAT
* *
27598515 TTTCTAGGTAAGTTCATATGGAAGTTACTACATTTTCGTATTATATTTTAATTGTGTTTTTGT
454 TTTCTAGGTAAGTTCATATGGAACTTACTGCATTTTCGTATTATATTTTAATTGTGTTTTTGT
* *
27598578 ATATATATTAAATATATATAATTGTAGATTTAATGGCTTTTTATATAAAATGGATCAAATCGTAA
1 ATATATATTAAATATATATAATTGTAGACTTAATGGCTTTTTATATAAAATGGATCAAATCATAA
* *
27598643 ATTAAGCAATACTTGATAAATATAAAGAGATTCATGACATTGAATGGATGTGGGAATGGTATGTT
66 AATAAGAAATACTTGATAAATATAAAGAGATTCATGACATTGAATGGATGTGGGAATGGTATGTT
*
27598708 GTTGGATAGCATGTACATGATGATGTTGCAAATTTAAAATGTATAGAGAATTGTTATTCAAAATA
131 GTTGGATAGCATGTATATGATGATGTTGCAAATTTAAAATGTATAGAGAATTGTTATTCAAAATA
27598773 ACTAATGTGTGTATACAATTAAAGAGTTTGAAATGATACGAAATTGGTAAAAGAACCTGTATGAA
196 ACTAATGTGTGTATACAATTAAAGAGTTTGAAATGATACGAAATTGGTAAAAGAACCTGTATGAA
*
27598838 TTTAACAAATGGTTTAGATAAAAATGGAAAGTGATTATGGTTATAAAAAGGAAAAATGGGAATTG
261 TTTAACAAATGGTTTAGATAAGAATGGAAAGTGATTATGGTTATAAAAAGGAAAAATGGGAATTG
* *
27598903 TGATTAGAGATTTATTCGATGGTTGAGATCCAGCATAAATTGTGGATTCCCGACAGCTCGACCGA
326 TGATTAGAGATTTATTCGATGGTTGAGATCCAGCACAAATTGTGGATTCCCGACAGCTCGACTGA
*
27598968 GCCGTATCGGATCATTATATAGCAATCTGTGATGATTAGTCCCTGAAACGTTCTAGTTGCCATTT
391 GCAGTATCGGATCATTATATAGCAATCTGTGATGATTAGTCCCTGAAACGTTCTAGTTGCCATTT
**
27599033 TCTATTTAAGTTCATATGGAACTTACTGCATTTTCGTATTATATTTTAAT
456 TCTAGGTAAGTTCATATGGAACTTACTGCATTTTCGTATTATATTTTAAT
27599083 NNNNNNNNNN
Statistics
Matches: 3851, Mismatches: 253, Indels: 32
0.93 0.06 0.01
Matches are distributed among these distances:
515 6 0.00
516 3181 0.83
517 181 0.05
518 172 0.04
519 311 0.08
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (516 bp):
ATATATATTAAATATATATAATTGTAGACTTAATGGCTTTTTATATAAAATGGATCAAATCATAA
AATAAGAAATACTTGATAAATATAAAGAGATTCATGACATTGAATGGATGTGGGAATGGTATGTT
GTTGGATAGCATGTATATGATGATGTTGCAAATTTAAAATGTATAGAGAATTGTTATTCAAAATA
ACTAATGTGTGTATACAATTAAAGAGTTTGAAATGATACGAAATTGGTAAAAGAACCTGTATGAA
TTTAACAAATGGTTTAGATAAGAATGGAAAGTGATTATGGTTATAAAAAGGAAAAATGGGAATTG
TGATTAGAGATTTATTCGATGGTTGAGATCCAGCACAAATTGTGGATTCCCGACAGCTCGACTGA
GCAGTATCGGATCATTATATAGCAATCTGTGATGATTAGTCCCTGAAACGTTCTAGTTGCCATTT
TCTAGGTAAGTTCATATGGAACTTACTGCATTTTCGTATTATATTTTAATTGTGTTTTTGT
Found at i:27609092 original size:22 final size:22
Alignment explanation
Indices: 27609040--27609104 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
27609030 TATTTGGGAA
* * *
27609040 TTGGTATGAAACGGTAAGGGAT
1 TTGGTACGAAATGGTAATGGAT
**
27609062 TTGAAACGAAATGGTAATGGAT
1 TTGGTACGAAATGGTAATGGAT
*
27609084 TTGGTACGAAAATGGAAATGG
1 TTGGTACG-AAATGGTAATGG
27609105 TTCAAAAAGG
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
22 23 0.68
23 11 0.32
ACGTcount: A:0.37, C:0.05, G:0.32, T:0.26
Consensus pattern (22 bp):
TTGGTACGAAATGGTAATGGAT
Found at i:27618464 original size:518 final size:516
Alignment explanation
Indices: 27616983--27620075 Score: 5502
Period size: 516 Copynumber: 6.0 Consensus size: 516
27616973 NNNNNNNNAT
27616983 AAATTGTGGATTCCCGACAGCTCGACTGAGCAGTATCGGATCATTATATAGCAATCTGTGATGAT
1 AAATTGTGGATTCCCGACAGCTCGACTGAGCAGTATCGGATCATTATATAGCAATCTGTGATGAT
*
27617048 TAGTCCCTGAAACTTTCTAGTTGCCATATTCTAGGTAAGTGCATATGGAAGTTACTGCATTTTCG
66 TAGTCCCTGAAACTTTCTAGTTGCCATATTCTAGGTAAGTTCATATGGAAGTTACTGCATTTTCG
27617113 TATTTTATTTTAATTGTGTTTTTGTATATATATTAAATATATATAATTGTAAACTTAATGGCTTT
131 TATTTTATTTTAATTGTGTTTTTGTATATATATTAAATATATATAATTGTAAACTTAATGGCTTT
*
27617178 TTATATAAAATGGATCAAATCGTAAAATAAGAAATACTTGATAAATATAAAGAGATTCATGACAT
196 TTATATAAAATGGATCAAATCATAAAATAAGAAATACTTGATAAATATAAAGAGATTCATGACAT
27617243 TGAATGGATGTGAGAATGGTATGTTGTTGGATAGCATGTATATGATGATGTTGCAAATTTAAAAT
261 TGAATGGATGTGAGAATGGTATGTTGTTGGATAGCATGTATATGATGATGTTGCAAATTTAAAAT
*
27617308 GTATAGAGAATTGTTATTCAAAATAACTAATGTTTGTATACAATTAAAGAGTTTGAAATGATACG
326 GTATAGAGAATTGTTATTCAAAATAACTAATGTGTGTATACAATTAAAGAGTTTGAAATGATACG
*
27617373 AAATTGGTAAAAGAACATGTATGAATTTAACGAATGGTTTAGATAAGAATAGAAAGTGATTATGG
391 AAATTGGTAAAAGAACCTGTATGAATTTAACGAATGGTTTAGATAAGAATAGAAAGTGATTATGG
27617438 TTATAAAAAGGAAAAATGGGAATTGTGATTAGAGATATATTCGATGGTTGGGATCCAGCAC
456 TTATAAAAAGGAAAAATGGGAATTGTGATTAGAGATATATTCGATGGTTGGGATCCAGCAC
27617499 AAATTGTGGATTCCCGACAGCTCGACTGAGCAGTATCGGATCATTATATAGCAATCTGTGATGAT
1 AAATTGTGGATTCCCGACAGCTCGACTGAGCAGTATCGGATCATTATATAGCAATCTGTGATGAT
*
27617564 TAGTCCATGAAACTTTCTAGTTGCCATATTCTAGGTAAGTTCATATGGAAGTTACTGCATTTTCG
66 TAGTCCCTGAAACTTTCTAGTTGCCATATTCTAGGTAAGTTCATATGGAAGTTACTGCATTTTCG
*
27617629 TATTTTATTTTAATTGTGTTTTTGTATATATATTAAATATATATAAATGTAAACTTAATGGCTTT
131 TATTTTATTTTAATTGTGTTTTTGTATATATATTAAATATATATAATTGTAAACTTAATGGCTTT
*
27617694 TTATATAAAATGGATCAAATCATAAAATAAGAAATACTTGATAAATATGAAGAGATTCATGACAT
196 TTATATAAAATGGATCAAATCATAAAATAAGAAATACTTGATAAATATAAAGAGATTCATGACAT
*
27617759 TGAATGGATGTGAGAATGGTATGTTGTTGGATAGCATATATATGATGATGTTGCAAATTTAAAAT
261 TGAATGGATGTGAGAATGGTATGTTGTTGGATAGCATGTATATGATGATGTTGCAAATTTAAAAT
27617824 GTATAGAGAATTGTTATTCAAAATAACTAATGTGTGTATACAATTAAAGAGTTTGAAATGATACG
326 GTATAGAGAATTGTTATTCAAAATAACTAATGTGTGTATACAATTAAAGAGTTTGAAATGATACG
*
27617889 AAATTGGTAAAAGAACCTGTATGAATTTAACGAATGGTTTAGCTAAGAATAGAAAGTGATTATGG
391 AAATTGGTAAAAGAACCTGTATGAATTTAACGAATGGTTTAGATAAGAATAGAAAGTGATTATGG
27617954 TTATAAAAAGGAAAAATGGGAATTGTGATTAGAGATATATTCGATGGTTGGGATCCAGCAC
456 TTATAAAAAGGAAAAATGGGAATTGTGATTAGAGATATATTCGATGGTTGGGATCCAGCAC
*
27618015 AAATTGTGGATTCCTGACAGCTCGACTGAGCAGTATCGGATCATTATATAGCAATCTGTGATGAT
1 AAATTGTGGATTCCCGACAGCTCGACTGAGCAGTATCGGATCATTATATAGCAATCTGTGATGAT
27618080 TAGTCCCTGAAACTTTCTAGTTGCCATATTCTAGGTAAGTTCATATGGAAGTTACTGCATTTTCG
66 TAGTCCCTGAAACTTTCTAGTTGCCATATTCTAGGTAAGTTCATATGGAAGTTACTGCATTTTCG
27618145 TATTTTATTTTAATTGTGTTTTTGTATATATATATTAAATATATATAATTGTAAACTTAATGGCT
131 TATTTTATTTTAATTGTGTTTTTG--TATATATATTAAATATATATAATTGTAAACTTAATGGCT
*
27618210 TTTCATATAAAATGGATCAAATCATAAAATAAGAAATACTTGATAAATATAAAGAGATTCATGAC
194 TTTTATATAAAATGGATCAAATCATAAAATAAGAAATACTTGATAAATATAAAGAGATTCATGAC
*
27618275 ATTGAATGGATGTGGGAATGGTATGTTGTTGGATAGCATGTATATGATGATGTTGCAAATTTAAA
259 ATTGAATGGATGTGAGAATGGTATGTTGTTGGATAGCATGTATATGATGATGTTGCAAATTTAAA
**
27618340 ATGTATAGAGAATTGTTATTCAAAATAACTAATGTGTGTATACAATTAAAGTTTTTGAAATGATA
324 ATGTATAGAGAATTGTTATTCAAAATAACTAATGTGTGTATACAATTAAAGAGTTTGAAATGATA
* * * * * * *
27618405 CGAAATTGGAAAAAGGACCTGTATGAATTTAACAAAT-CTTATAGATAAAAATGGAAAGTGATGA
389 CGAAATTGGTAAAAGAACCTGTATGAATTTAACGAATGGTT-TAGATAAGAATAGAAAGTGATTA
* * * * *
27618469 TGGTTATAAAAAGGAAAAATGGGAATCGTGATTAGAGATTTATTCGGTGGTTGAGATCCAGCAT
453 TGGTTATAAAAAGGAAAAATGGGAATTGTGATTAGAGATATATTCGATGGTTGGGATCCAGCAC
*
27618533 AAATTGTGGATTCCCGACAGCTCGACTGAGCCGTATCGGATCATTATATAGCAATCTGTGATGAT
1 AAATTGTGGATTCCCGACAGCTCGACTGAGCAGTATCGGATCATTATATAGCAATCTGTGATGAT
* * * *
27618598 TAGTCCCTGAAACGTTCTAGTTGCCATTTTCTATGTAAGTTCATATGGAACTTACTGCATTTTCG
66 TAGTCCCTGAAACTTTCTAGTTGCCATATTCTAGGTAAGTTCATATGGAAGTTACTGCATTTTCG
* * * * * *
27618663 TATTATATTTTAATTGTGTTTTTGTATATATATTAAATATATATGATTGCAGATTTAATGGCTTC
131 TATTTTATTTTAATTGTGTTTTTGTATATATATTAAATATATATAATTGTAAACTTAATGGCTTT
* * *
27618728 CTCTATAAAATGGATCAAAT-AGTAAAATAAGAAATACTTGATAAATATGAAGAGATTCATGACA
196 TTATATAAAATGGATCAAATCA-TAAAATAAGAAATACTTGATAAATATAAAGAGATTCATGACA
*
27618792 TTGAATGGATGTGAGAATGGTATGTTGTTGGATAGCATGTATTTGATGATGTTGCAAATTTAAAA
260 TTGAATGGATGTGAGAATGGTATGTTGTTGGATAGCATGTATATGATGATGTTGCAAATTTAAAA
27618857 TGTATAGAGAATTGTTATTCAAAATAACTAATGTGTGTATACAATTAAAGAGTTTCG-AATGATA
325 TGTATAGAGAATTGTTATTCAAAATAACTAATGTGTGTATACAATTAAAGAGTTT-GAAATGATA
* * * * *
27618921 AGAAATTGGTAAACGAACCTGTATGAATTTAACAAATGGTTTAGATAAGAATGGAAAATGATTAT
389 CGAAATTGGTAAAAGAACCTGTATGAATTTAACGAATGGTTTAGATAAGAATAGAAAGTGATTAT
* * * * *
27618986 GGTTATAAAATGCAAAAATGGGAATTGTGATTAGAGATTTATTCGATGGTTGAGATCCAGCAT
454 GGTTATAAAAAGGAAAAATGGGAATTGTGATTAGAGATATATTCGATGGTTGGGATCCAGCAC
27619049 AAATTGTGGATTCCCGACAGCTCGACTGAGCAGTATCGGATCATTATATAGCAATCTGTGATGAT
1 AAATTGTGGATTCCCGACAGCTCGACTGAGCAGTATCGGATCATTATATAGCAATCTGTGATGAT
27619114 TAGTCCCTGAAACTTTCTAGTTGCCATATTCTAGGTAAGTTCATATGGAAGTTACTGCATTTTCG
66 TAGTCCCTGAAACTTTCTAGTTGCCATATTCTAGGTAAGTTCATATGGAAGTTACTGCATTTTCG
27619179 TATTTTATTTTAATTGTGTTTTTGTATATATATTAAATATATATAATTGTAAACTTAATGGCTTT
131 TATTTTATTTTAATTGTGTTTTTGTATATATATTAAATATATATAATTGTAAACTTAATGGCTTT
27619244 TTATATAAAATGGATCAAATCATAAAATAAGAAATACTTGATAAATATAAAGAGATTCATGACAT
196 TTATATAAAATGGATCAAATCATAAAATAAGAAATACTTGATAAATATAAAGAGATTCATGACAT
27619309 TGAATGGATGTGAGAATGGTATGTTGTTGGATAGCATGTATATGATGATGTTGCAAATTTAAAAT
261 TGAATGGATGTGAGAATGGTATGTTGTTGGATAGCATGTATATGATGATGTTGCAAATTTAAAAT
27619374 GTATAGAGAATTGTTATTCAAAATAACTAATGTGTGTATACAATTAAAGAGTTTGAAATGATACG
326 GTATAGAGAATTGTTATTCAAAATAACTAATGTGTGTATACAATTAAAGAGTTTGAAATGATACG
*
27619439 AAATTGGTAAAAGAACCTGTATGAATTTAACGAATGGTTTAGATAAGAATAGAAAGTGATTGTGG
391 AAATTGGTAAAAGAACCTGTATGAATTTAACGAATGGTTTAGATAAGAATAGAAAGTGATTATGG
27619504 TTATAAAAAGGAAAAATGGGAATTGTGATTAGAGATATATTCGATGGTTGGGATCCAGCAC
456 TTATAAAAAGGAAAAATGGGAATTGTGATTAGAGATATATTCGATGGTTGGGATCCAGCAC
27619565 AAATTGTGGATTCCCGACAGCTCGACTGAGCAGTATCGGATCATTATATAGCAATCTGTGATGAT
1 AAATTGTGGATTCCCGACAGCTCGACTGAGCAGTATCGGATCATTATATAGCAATCTGTGATGAT
* * *
27619630 TAGTCCATGAAACTTTCTAGTTGCCATATTCTAGGTAAGTTCACATGGAAGTTACTGCATTTTTG
66 TAGTCCCTGAAACTTTCTAGTTGCCATATTCTAGGTAAGTTCATATGGAAGTTACTGCATTTTCG
27619695 TATTTTATTTTAATTGTGTTTTTGTATATATATATTAAATATATATAATTGTAAACTTAATGGCT
131 TATTTTATTTTAATTGTGTTTTTG--TATATATATTAAATATATATAATTGTAAACTTAATGGCT
*
27619760 TTTTATATAAAATGGATCAAATCATAAAATAAGAAATACTTGATAAATATGAAGAGATTCATGAC
194 TTTTATATAAAATGGATCAAATCATAAAATAAGAAATACTTGATAAATATAAAGAGATTCATGAC
*
27619825 ATTGAATGGATGTGAGAATGGTATGTTGTTGGATAGCATATATATGATGATGTTGCAAATTTAAA
259 ATTGAATGGATGTGAGAATGGTATGTTGTTGGATAGCATGTATATGATGATGTTGCAAATTTAAA
27619890 ATGTATAGAGAATTGTTATTCAAAATAACTAATGTGTGTATACAATTAAAGAGTTTGAAATGATA
324 ATGTATAGAGAATTGTTATTCAAAATAACTAATGTGTGTATACAATTAAAGAGTTTGAAATGATA
*
27619955 CG--A----TAAAAGAACCTGTATGAATTTAACGAATGGTTTAGCTAAGAATAGAAAGTGATTAT
389 CGAAATTGGTAAAAGAACCTGTATGAATTTAACGAATGGTTTAGATAAGAATAGAAAGTGATTAT
* * * *
27620014 GGTTATAAAAAGGAAAATTGGGAAATGTGAGTAGGGATATATTCGATGGTTGGGATCCAGCA
454 GGTTATAAAAAGGAAAAATGGGAATTGTGATTAGAGATATATTCGATGGTTGGGATCCAGCA
27620076 NNNNNNNNNN
Statistics
Matches: 2467, Mismatches: 100, Indels: 24
0.95 0.04 0.01
Matches are distributed among these distances:
512 112 0.05
515 2 0.00
516 1627 0.66
517 6 0.00
518 720 0.29
ACGTcount: A:0.36, C:0.09, G:0.20, T:0.35
Consensus pattern (516 bp):
AAATTGTGGATTCCCGACAGCTCGACTGAGCAGTATCGGATCATTATATAGCAATCTGTGATGAT
TAGTCCCTGAAACTTTCTAGTTGCCATATTCTAGGTAAGTTCATATGGAAGTTACTGCATTTTCG
TATTTTATTTTAATTGTGTTTTTGTATATATATTAAATATATATAATTGTAAACTTAATGGCTTT
TTATATAAAATGGATCAAATCATAAAATAAGAAATACTTGATAAATATAAAGAGATTCATGACAT
TGAATGGATGTGAGAATGGTATGTTGTTGGATAGCATGTATATGATGATGTTGCAAATTTAAAAT
GTATAGAGAATTGTTATTCAAAATAACTAATGTGTGTATACAATTAAAGAGTTTGAAATGATACG
AAATTGGTAAAAGAACCTGTATGAATTTAACGAATGGTTTAGATAAGAATAGAAAGTGATTATGG
TTATAAAAAGGAAAAATGGGAATTGTGATTAGAGATATATTCGATGGTTGGGATCCAGCAC
Found at i:27642589 original size:43 final size:43
Alignment explanation
Indices: 27642541--27642811 Score: 308
Period size: 43 Copynumber: 6.3 Consensus size: 43
27642531 GAATCGTGCT
* *** *
27642541 TTTAGCGGCGTTTATGACAAAAGCGCCGCTAAAGCTCATGTTC
1 TTTAGCGGCGTTTGTGGGTAAAGCGCCGCTAAAGATCATGTTC
* ** * *
27642584 TTTAGCGGCGTTTGTGGGTAAAGTGCAACTAAAGGTCATGCTC
1 TTTAGCGGCGTTTGTGGGTAAAGCGCCGCTAAAGATCATGTTC
* *
27642627 TTTAGCGACGTTTGTAGGTAAAGCGCCGCTAAAGATCATGTTC
1 TTTAGCGGCGTTTGTGGGTAAAGCGCCGCTAAAGATCATGTTC
* * * * *
27642670 TTTAGCTGCGCTTGTGGGTGAAGCGCCGCTAAAGGTTATGTTC
1 TTTAGCGGCGTTTGTGGGTAAAGCGCCGCTAAAGATCATGTTC
* *
27642713 TTTAGCCGCGTTTGCGGGTAAAGCGCCGCTAAAGATCATGTTC
1 TTTAGCGGCGTTTGTGGGTAAAGCGCCGCTAAAGATCATGTTC
* ** * * *
27642756 TTTAGCCGCGTTTGTTTGTAGAGCGCCGCTAAAGATCATATTT
1 TTTAGCGGCGTTTGTGGGTAAAGCGCCGCTAAAGATCATGTTC
*
27642799 TTTAACGGCGTTT
1 TTTAGCGGCGTTT
27642812 TTTCACATAA
Statistics
Matches: 191, Mismatches: 37, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 191 1.00
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.32
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGTAAAGCGCCGCTAAAGATCATGTTC
Found at i:27642758 original size:129 final size:129
Alignment explanation
Indices: 27642561--27642794 Score: 344
Period size: 129 Copynumber: 1.8 Consensus size: 129
27642551 TTTATGACAA
* * * *
27642561 AAGCGCCGCTAAAGCTCATGTTCTTTAGCGGCGTTTGTGGGTAAAGTGCAACTAAAGGTCATGCT
1 AAGCGCCGCTAAAGCTCATGTTCTTTAGCCGCGTTTGCGGGTAAAGCGCAACTAAAGATCATGCT
27642626 CTTTAG-CGACGTTTGTAGGTAAAGCGCCGCTAAAGATCATGTTCTTTAGCTGCGCTTGTGGGTG
66 CTTTAGCCG-CGTTTGTAGGTAAAGCGCCGCTAAAGATCATGTTCTTTAGCTGCGCTTGTGGGTG
* * ** *
27642690 AAGCGCCGCTAAAGGTTATGTTCTTTAGCCGCGTTTGCGGGTAAAGCGCCGCTAAAGATCATGTT
1 AAGCGCCGCTAAAGCTCATGTTCTTTAGCCGCGTTTGCGGGTAAAGCGCAACTAAAGATCATGCT
** *
27642755 CTTTAGCCGCGTTTGTTTGTAGAGCGCCGCTAAAGATCAT
66 CTTTAGCCGCGTTTGTAGGTAAAGCGCCGCTAAAGATCAT
27642795 ATTTTTTAAC
Statistics
Matches: 92, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
129 90 0.98
130 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.30
Consensus pattern (129 bp):
AAGCGCCGCTAAAGCTCATGTTCTTTAGCCGCGTTTGCGGGTAAAGCGCAACTAAAGATCATGCT
CTTTAGCCGCGTTTGTAGGTAAAGCGCCGCTAAAGATCATGTTCTTTAGCTGCGCTTGTGGGTG
Found at i:27645920 original size:27 final size:27
Alignment explanation
Indices: 27645880--27646300 Score: 286
Period size: 27 Copynumber: 15.6 Consensus size: 27
27645870 GTAATGGGTC
* *
27645880 TAAAATGACCGAAACAACCC-CGAAGGG
1 TAAAATGACTGAAA-TACCCTCGAAGGG
* * *
27645907 TAAAATAACTGAAATGCCCTCGAAGGA
1 TAAAATGACTGAAATACCCTCGAAGGG
* * *
27645934 TAAAATCACTGAAACACCCT-TAGAGGG
1 TAAAATGACTGAAATACCCTCGA-AGGG
27645961 TAAAATGA-TCGAAATACCCTCGAAGGG
1 TAAAATGACT-GAAATACCCTCGAAGGG
** * *
27645988 TAAAATGACAAAAATATCCTCAAAGGG
1 TAAAATGACTGAAATACCCTCGAAGGG
*
27646015 TAACATGA-TCGAAATACCCTCGAAGGG
1 TAAAATGACT-GAAATACCCTCGAAGGG
**
27646042 TAAAATGACCAAAATACCCTCAGAA-GG
1 TAAAATGACTGAAATACCCTC-GAAGGG
* *
27646069 TAAAATAACCGAAATACCC-C-AGAGGG
1 TAAAATGACTGAAATACCCTCGA-AGGG
27646095 TAAAATGAGC-GAAATACCCTCGAAGGG
1 TAAAATGA-CTGAAATACCCTCGAAGGG
*
27646122 TAAAATGACCGAAATACTCC-C-ATAGGG
1 TAAAATGACTGAAATAC-CCTCGA-AGGG
* *
27646149 TAGAATGA-TCGAAATACCC-CCATAGGG
1 TAAAATGACT-GAAATACCCTCGA-AGGG
* *
27646176 TAGAATGA-TCGAAATACCC-CCATAGGG
1 TAAAATGACT-GAAATACCCTCGA-AGGG
* * * *
27646203 TAGAATAACCGAAATACCC-CCATAGGG
1 TAAAATGACTGAAATACCCTCGA-AGGG
27646230 TAAAATGACTGAAATACCCTC-ATAGGG
1 TAAAATGACTGAAATACCCTCGA-AGGG
* * *
27646257 TAGAATGA-TCAAAATACTCCT--ATAGGA
1 TAAAATGACT-GAAATAC-CCTCGA-AGGG
27646284 TAAAATGACTGAAATAC
1 TAAAATGACTGAAATAC
27646301 TTCTTCTAGT
Statistics
Matches: 331, Mismatches: 40, Indels: 46
0.79 0.10 0.11
Matches are distributed among these distances:
24 1 0.00
25 1 0.00
26 30 0.09
27 287 0.87
28 12 0.04
ACGTcount: A:0.43, C:0.20, G:0.19, T:0.18
Consensus pattern (27 bp):
TAAAATGACTGAAATACCCTCGAAGGG
Found at i:27646034 original size:81 final size:79
Alignment explanation
Indices: 27645880--27646300 Score: 338
Period size: 81 Copynumber: 5.2 Consensus size: 79
27645870 GTAATGGGTC
* * * * * * *
27645880 TAAAATGACCGAAACAACCCCGA-AGGGTAAAATAACTGAAATGCCCTCGA-AGGATAAAATCA-
1 TAAAATGACCGAAA-TACCCCGATAGGGTAAAATGAC-GAAATACCC-CCATAGGGTAGAATGAT
*
27645942 CTGAAACACCCTTAGAGGG
63 C-GAAATACCC-TAGAGGG
* * * * *
27645961 TAAAATGATCGAAATACCCTCGA-AGGGTAAAATGACAAAAATATCCTCAAAGGGTA-ACATGAT
1 TAAAATGACCGAAATACCC-CGATAGGGTAAAATGAC-GAAATACCCCCATAGGGTAGA-ATGAT
*
27646024 CGAAATACCCTCGAAGGG
63 CGAAATACCCTAG-AGGG
* * * * *
27646042 TAAAATGACCAAAATACCCTCAGA-A-GGTAAAATAACCGAAATA-CCCCAGAGGGTAAAATGAG
1 TAAAATGACCGAAATACCC-C-GATAGGGTAAAATGA-CGAAATACCCCCATAGGGTAGAATGAT
*
27646104 CGAAATACCCTCGAAGGG
63 CGAAATACCCTAG-AGGG
*
27646122 TAAAATGACCGAAATACTCCC-ATAGGGTAGAATGATCGAAATACCCCCATAGGGTAGAATGATC
1 TAAAATGACCGAAATAC-CCCGATAGGGTAAAATGA-CGAAATACCCCCATAGGGTAGAATGATC
* *
27646186 GAAATACCCCCATAGGG
64 GAAATA-CCCTAGAGGG
* * * * *
27646203 TAGAATAACCGAAATACCCCCATAGGGTAAAATGACTGAAATACCCTCATAGGGTAGAATGATCA
1 TAAAATGACCGAAATACCCCGATAGGGTAAAATGAC-GAAATACCCCCATAGGGTAGAATGATCG
* *
27646268 AAATACTCCTATAGGA
65 AAATAC-CCTAGAGGG
*
27646284 TAAAATGACTGAAATAC
1 TAAAATGACCGAAATAC
27646301 TTCTTCTAGT
Statistics
Matches: 284, Mismatches: 40, Indels: 32
0.80 0.11 0.09
Matches are distributed among these distances:
78 1 0.00
79 1 0.00
80 77 0.27
81 197 0.69
82 8 0.03
ACGTcount: A:0.43, C:0.20, G:0.19, T:0.18
Consensus pattern (79 bp):
TAAAATGACCGAAATACCCCGATAGGGTAAAATGACGAAATACCCCCATAGGGTAGAATGATCGA
AATACCCTAGAGGG
Found at i:27646272 original size:54 final size:54
Alignment explanation
Indices: 27645880--27646300 Score: 324
Period size: 54 Copynumber: 7.8 Consensus size: 54
27645870 GTAATGGGTC
* * * *
27645880 TAAAATGACCGAAACA-ACCCCGA-AGGGTAAAATAACTGAAATGCCCTCGA-AGGA
1 TAAAATGACC-AAA-ATACCCCCATAGGGTAAAATGACTGAAATACCCTC-ATAGGG
* ** * ** *
27645934 TAAAATCACTGAAACACCCTTAGAGGGTAAAATGA-TCGAAATACCCTCGA-AGGG
1 TAAAATGACCAAAATACCCCCATAGGGTAAAATGACT-GAAATACCCTC-ATAGGG
* * * * *
27645988 TAAAATGACAAAAATATCCTCAAAGGGTAACATGA-TCGAAATACCCTCGA-AGGG
1 TAAAATGACCAAAATACCCCCATAGGGTAAAATGACT-GAAATACCCTC-ATAGGG
* * * * * *
27646042 TAAAATGACCAAAATACCCTCAGAAGGTAAAATAACCGAAATACCC-CAGAGGG
1 TAAAATGACCAAAATACCCCCATAGGGTAAAATGACTGAAATACCCTCATAGGG
* * * *
27646095 TAAAATGAGCGAAATACCCTCGA-AGGGTAAAATGACCGAAATACTCC-CATAGGG
1 TAAAATGACCAAAATACCC-CCATAGGGTAAAATGACTGAAATAC-CCTCATAGGG
* * * * *
27646149 TAGAATGATCGAAATACCCCCATAGGGTAGAATGA-TCGAAATACCCCCATAGGG
1 TAAAATGACCAAAATACCCCCATAGGGTAAAATGACT-GAAATACCCTCATAGGG
* * *
27646203 TAGAATAACCGAAATACCCCCATAGGGTAAAATGACTGAAATACCCTCATAGGG
1 TAAAATGACCAAAATACCCCCATAGGGTAAAATGACTGAAATACCCTCATAGGG
* * * * *
27646257 TAGAATGATCAAAATACTCCTATAGGATAAAATGACTGAAATAC
1 TAAAATGACCAAAATACCCCCATAGGGTAAAATGACTGAAATAC
27646301 TTCTTCTAGT
Statistics
Matches: 311, Mismatches: 45, Indels: 22
0.82 0.12 0.06
Matches are distributed among these distances:
52 2 0.01
53 53 0.17
54 255 0.82
55 1 0.00
ACGTcount: A:0.43, C:0.20, G:0.19, T:0.18
Consensus pattern (54 bp):
TAAAATGACCAAAATACCCCCATAGGGTAAAATGACTGAAATACCCTCATAGGG
Found at i:27656455 original size:29 final size:30
Alignment explanation
Indices: 27656399--27656455 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
27656389 ATTTTGAAAA
* * *
27656399 TATTTACAAAAAGAGACATCTAATTTTTAG
1 TATTTACAAAAAGAGACAACCAAATTTTAG
*
27656429 TATTTACAAAAGGAG-CAACCAAATTTT
1 TATTTACAAAAAGAGACAACCAAATTTT
27656456 GAAAATAGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 9 0.39
30 14 0.61
ACGTcount: A:0.44, C:0.12, G:0.11, T:0.33
Consensus pattern (30 bp):
TATTTACAAAAAGAGACAACCAAATTTTAG
Done.