Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397256.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_56.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 13963513
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 99179 characters in sequence are not A, C, G, or T
File 19 of 29
Found at i:7171771 original size:58 final size:59
Alignment explanation
Indices: 7171642--7171771 Score: 142
Period size: 58 Copynumber: 2.2 Consensus size: 59
7171632 GCATGGTATG
* * **
7171642 CAACAACATTTGTTTTCAAAATAGTGTATAGCAAAAGTTTTTAAACATGGCATGACGTG
1 CAACAACATTTTTTTTCAAAATAGTGTATAGCAAAAGTTTTTAAACATAGCATGACGAA
* * *
7171701 TAATAACA-TTTTTTTCAAAATAGTGTATA-CTAAAATTTTTTTAAACATAGCATG-C-AA
1 CAACAACATTTTTTTTCAAAATAGTGTATAGC-AAAA-GTTTTTAAACATAGCATGACGAA
*
7171758 CAACAATATTTTTT
1 CAACAACATTTTTT
7171772 AAACATAATA
Statistics
Matches: 58, Mismatches: 10, Indels: 7
0.77 0.13 0.09
Matches are distributed among these distances:
57 6 0.10
58 30 0.52
59 22 0.38
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.38
Consensus pattern (59 bp):
CAACAACATTTTTTTTCAAAATAGTGTATAGCAAAAGTTTTTAAACATAGCATGACGAA
Found at i:7173809 original size:69 final size:71
Alignment explanation
Indices: 7173691--7173827 Score: 181
Period size: 69 Copynumber: 2.0 Consensus size: 71
7173681 TCGTGTCTTG
* *
7173691 AAAGATTAGATCTCTCTTCTAATCAATTTTCTGAAAATATATCTGTCCCTGAA-AATC-TAACAT
1 AAAGATTAGATCTCTCTTCCAACCAATTTTCTGAAAATATATCTGTCCCTGAAGAATCTTAACAT
7173754 CCCTTA
66 CCCTTA
* * * * *
7173760 AAAGTTTAGATCTCTCTTCCAACCAATTTTGCTGGAAATATAT-TTTCCCTTAAGAGTCTTAACA
1 AAAGATTAGATCTCTCTTCCAACCAATTTT-CTGAAAATATATCTGTCCCTGAAGAATCTTAACA
7173824 TCCC
65 TCCC
7173828 CCTGAATGTT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
69 35 0.60
70 14 0.24
71 9 0.16
ACGTcount: A:0.32, C:0.23, G:0.09, T:0.36
Consensus pattern (71 bp):
AAAGATTAGATCTCTCTTCCAACCAATTTTCTGAAAATATATCTGTCCCTGAAGAATCTTAACAT
CCCTTA
Found at i:7180946 original size:13 final size:14
Alignment explanation
Indices: 7180910--7180947 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
7180900 AGTTTGTGAG
* *
7180910 GAGTTTCTTTGGTT
1 GAGTTTCTTTAGTA
7180924 GAGTTTCTTTAGTA
1 GAGTTTCTTTAGTA
7180938 GAG-TTCTTTA
1 GAGTTTCTTTA
7180948 AAAGGATAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 7 0.32
14 15 0.68
ACGTcount: A:0.16, C:0.08, G:0.24, T:0.53
Consensus pattern (14 bp):
GAGTTTCTTTAGTA
Found at i:7183072 original size:19 final size:18
Alignment explanation
Indices: 7183045--7183087 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
7183035 TTTATTAAAA
* *
7183045 AAATATATTTTTTAATTT
1 AAATATATTGTATAATTT
*
7183063 TAATAGTATTGTATAATTT
1 AAATA-TATTGTATAATTT
7183082 AAATAT
1 AAATAT
7183088 TAATATTTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (18 bp):
AAATATATTGTATAATTT
Found at i:7189994 original size:456 final size:462
Alignment explanation
Indices: 7189170--7190177 Score: 1261
Period size: 457 Copynumber: 2.2 Consensus size: 462
7189160 TGAGATTCAT
* * * * * ** * **
7189170 CAAACTTGAGGTACTTGGTTTAAGTGGAAATCTCTTCAACAGCAGCATATTCTCATTTCTTGGT-
1 CAAACTTGAAGTGCTTGATTTAACTGGTAATCTCTTCAACAATAGCATATTGTCATCCCTTGGTA
* * ** *
7189234 GTGCTCTCAAATTTGAAGTCTTTGCATATAGGAAGTAACAAATTGAAAGGGTCCATAAATATTAA
66 G-GCTTTCAAATATGAAGTCTTTGCATATACAAAGAAACAAATTGAAAGGGTCCATAAATATTAA
* *
7189299 AGGTAAAACTACCATATTTTAATCTTGTTTTCTTTTACTCTCCTAAAGGTGTTAAATATTATGAG
130 AGGTAAAACTACCATATTTTAA-----TTTTCTTTTACTCTCCTAAAGGTATTAAATATTATGAA
** ** **
7189364 TCATTTTATATATGGTTTAAACCACATTTTGTGGTTTCATATGATTTATTAATTTTAATTTAATA
190 TCATTCCATATATGGTTTAAACCACATCATGTCATTTCATATGATTTATTAATTTTAATTTAATA
*
7189429 CTCTTTTCAGAATTAAATGCTTTGAGCAACTTAGAGGAATTGTACATAAGGGATAACGAAGTGAA
255 CTCCTTTCAGAATTAAATGCTTTGAGCAACTTAGAGGAATTGTACATAAGGGATAACGAAGTGAA
* *
7189494 TGACTTTGTTCCACCCCAAGGTATATACTTATGAAAGGAAACATGT-ATTA-TGTTTAATATAAA
320 TGACTTTGCTCCACCCCAAGGTATATACTTATGAAAGAAAACATGTAATTACT-TTTAATATAAA
* * * * *
7189557 AATTTTAAAATATTAAGATATTATTAATGATGAAGTTTT-TAAAATCTTCTACAGATAATGAAAC
384 AATGTTAAAACATTAAGATATAAGTAATGATGAAATTTTGT-AAATCTTCTACAGATAATGAAAC
*
7189621 AGAATTCAGGTTGAC
448 AGAATTAAGGTTGAC
*
7189636 CAAACTTGAAGTGCTTGATTTAACTGGTAATCTCTTCACCAATAGCATATTGTCATCCCTTGGTA
1 CAAACTTGAAGTGCTTGATTTAACTGGTAATCTCTTCAACAATAGCATATTGTCATCCCTTGGTA
* * *
7189701 GGCTTTCAAATCTGAAGTCTTTGTATATACAAAGAAACAAATTGAAAGGAG-CGATAAATATTAA
66 GGCTTTCAAATATGAAGTCTTTGCATATACAAAGAAACAAATTGAAAGG-GTCCATAAATATTAA
* * ** *
7189765 AGGTAAAACTACCTTATTTTAA-TTT-TTTTATTCTCCTAAATTTATT-AA-A-TATGAATTATT
130 AGGTAAAACTACCATATTTTAATTTTCTTTTACTCTCCTAAAGGTATTAAATATTATGAATCATT
* *
7189825 CCATATATGGTTTAAATCACATCATGTACATTTCATATGATTTATTAATTTTATTTGTAA-A-TC
195 CCATATATGGTTTAAACCACATCATGT-CATTTCATATGATTTATTAATTTTAATT-TAATACTC
* * * *
7189888 ACTTT-AGAATTAAATGCTTTGAGCAACTTAGAGGAGTTGTATAT-GGGGAGTAATGAAGTGAAT
258 -CTTTCAGAATTAAATGCTTTGAGCAACTTAGAGGAATTGTACATAAGGGA-TAACGAAGTGAAT
* * *
7189951 GACTTTGCTCCATCTCAAGGTATATATTTATGAAAGAAAACATGTAATTACTTTTAATATAAAAA
321 GACTTTGCTCCACCCCAAGGTATATACTTATGAAAGAAAACATGTAATTACTTTTAATATAAAAA
* * *
7190016 TGTTAAGACGTTAAGATATAAGTAATGATGAAATTTTGTAAATCTTTTACAGATAATGAAACAGA
386 TGTTAAAACATTAAGATATAAGTAATGATGAAATTTTGTAAATCTTCTACAGATAATGAAACAGA
*
7190081 ATTAAGGTTGAT
451 ATTAAGGTTGAC
* * * * *
7190093 CAATCTAGAAGTGCTTGATTTAATTGGTAATCTCTTCAGCAATAGCATAATGTCATCCCTTGGTA
1 CAAACTTGAAGTGCTTGATTTAACTGGTAATCTCTTCAACAATAGCATATTGTCATCCCTTGGTA
*
7190158 GGCTTTCGAATATGAAGTCT
66 GGCTTTCAAATATGAAGTCT
7190178 ATTCGTTTTG
Statistics
Matches: 473, Mismatches: 60, Indels: 27
0.84 0.11 0.05
Matches are distributed among these distances:
455 4 0.01
456 122 0.26
457 190 0.40
458 7 0.01
459 17 0.04
460 3 0.01
466 128 0.27
467 2 0.00
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.37
Consensus pattern (462 bp):
CAAACTTGAAGTGCTTGATTTAACTGGTAATCTCTTCAACAATAGCATATTGTCATCCCTTGGTA
GGCTTTCAAATATGAAGTCTTTGCATATACAAAGAAACAAATTGAAAGGGTCCATAAATATTAAA
GGTAAAACTACCATATTTTAATTTTCTTTTACTCTCCTAAAGGTATTAAATATTATGAATCATTC
CATATATGGTTTAAACCACATCATGTCATTTCATATGATTTATTAATTTTAATTTAATACTCCTT
TCAGAATTAAATGCTTTGAGCAACTTAGAGGAATTGTACATAAGGGATAACGAAGTGAATGACTT
TGCTCCACCCCAAGGTATATACTTATGAAAGAAAACATGTAATTACTTTTAATATAAAAATGTTA
AAACATTAAGATATAAGTAATGATGAAATTTTGTAAATCTTCTACAGATAATGAAACAGAATTAA
GGTTGAC
Found at i:7196433 original size:72 final size:72
Alignment explanation
Indices: 7196346--7196493 Score: 185
Period size: 72 Copynumber: 2.1 Consensus size: 72
7196336 ATTGCTCATA
* *
7196346 TTTGTCACTATTGGATGTT-AGCAATAATCA-ACTCTTTGATGAGATACC-AAGATGGATGGAGA
1 TTTGTCAATATTGGAT-TTGAGCAATAA-CACAATCTTTGATGAGATACCGAAG-TGGATGGAGA
*
7196408 ATTTGTCAAG
63 ATATGTCAAG
* * * *
7196418 TTTGTCAATATTGGATTTGAGCAATAACACAATTTTTGGTGGGATACCGAAGTGGATGGGGAATA
1 TTTGTCAATATTGGATTTGAGCAATAACACAATCTTTGATGAGATACCGAAGTGGATGGAGAATA
7196483 TGTCAAG
66 TGTCAAG
7196490 TTTG
1 TTTG
7196494 GAAACAATTG
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
71 4 0.06
72 59 0.89
73 3 0.05
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.34
Consensus pattern (72 bp):
TTTGTCAATATTGGATTTGAGCAATAACACAATCTTTGATGAGATACCGAAGTGGATGGAGAATA
TGTCAAG
Found at i:7198000 original size:51 final size:52
Alignment explanation
Indices: 7197904--7198007 Score: 149
Period size: 51 Copynumber: 2.0 Consensus size: 52
7197894 TGTGCATGTT
* * * *
7197904 ACCAATTTGTGTTACTAACCATGTTCCTTGGCTCAATGAATCTTTCGTTGTC
1 ACCAATTTCTGTTACTAACCATATTCCTTGGCTCAATGAAACTTTCATTGTC
7197956 ACCAATTTCTGTTACTAACCA-ATTCCTCT-GCTCAATGAAACTTTCATTGTC
1 ACCAATTTCTGTTACTAACCATATTCCT-TGGCTCAATGAAACTTTCATTGTC
7198007 A
1 A
7198008 ACCTCTTTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
51 26 0.55
52 21 0.45
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (52 bp):
ACCAATTTCTGTTACTAACCATATTCCTTGGCTCAATGAAACTTTCATTGTC
Found at i:7198980 original size:72 final size:72
Alignment explanation
Indices: 7198850--7198997 Score: 160
Period size: 72 Copynumber: 2.1 Consensus size: 72
7198840 ATTGTTTGCT
* * * *
7198850 TTTGTCAACATTGGATGTTAGCAATAACCAACTCCATGGTGGCATACCAAGGTTGATGGAG-AAT
1 TTTGTCAACATTGGATGTTAGCAACAACAAACTCCATGGAGGCATACCAAGGTGGATGGAGCAA-
7198914 ATGTCAAC
65 ATGTCAAC
* * *
7198922 TTTGTCAACATTGGAT-TTAAGCAACAACAAACTTTC-TGGAGGGATACCAAAGG-GGATGGGGC
1 TTTGTCAACATTGGATGTT-AGCAACAACAAAC-TCCATGGAGGCATACC-AAGGTGGATGGAGC
*
7198984 AAATGTCAAG
63 AAATGTCAAC
7198994 TTTG
1 TTTG
7198998 GAAGAACTTG
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
71 2 0.03
72 54 0.84
73 8 0.12
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.27
Consensus pattern (72 bp):
TTTGTCAACATTGGATGTTAGCAACAACAAACTCCATGGAGGCATACCAAGGTGGATGGAGCAAA
TGTCAAC
Found at i:7240609 original size:12 final size:12
Alignment explanation
Indices: 7240594--7240689 Score: 56
Period size: 12 Copynumber: 8.2 Consensus size: 12
7240584 ATGGAGGGAG
7240594 TGATGAAGAGGA
1 TGATGAAGAGGA
*
7240606 TGATGAAGAAGA
1 TGATGAAGAGGA
*
7240618 TGATGATGATGG-
1 TGATGAAGA-GGA
* * *
7240630 GGATGATGATGA
1 TGATGAAGAGGA
* *
7240642 TGGTGATGAGGA
1 TGATGAAGAGGA
*
7240654 TG--G-GGAGGA
1 TGATGAAGAGGA
*
7240663 TGAAGAAGAGGA
1 TGATGAAGAGGA
* *
7240675 AGATGAAGAAGA
1 TGATGAAGAGGA
7240687 TGA
1 TGA
7240690 AGATGATGAG
Statistics
Matches: 65, Mismatches: 14, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
9 7 0.11
10 1 0.02
11 2 0.03
12 54 0.83
13 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.43, T:0.19
Consensus pattern (12 bp):
TGATGAAGAGGA
Found at i:7240622 original size:3 final size:3
Alignment explanation
Indices: 7240594--7240655 Score: 52
Period size: 3 Copynumber: 20.7 Consensus size: 3
7240584 ATGGAGGGAG
* * * * * *
7240594 TGA TGA AGA GGA TGA TGA AGA AGA TGA TGA TGA TGG GGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
* *
7240642 TGG TGA TGA GGA TG
1 TGA TGA TGA TGA TG
7240656 GGGAGGATGA
Statistics
Matches: 46, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.34, C:0.00, G:0.42, T:0.24
Consensus pattern (3 bp):
TGA
Found at i:7240642 original size:15 final size:15
Alignment explanation
Indices: 7240616--7240655 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
7240606 TGATGAAGAA
7240616 GATGATGATGATGGG
1 GATGATGATGATGGG
*
7240631 GATGATGATGATGGT
1 GATGATGATGATGGG
*
7240646 GATGAGGATG
1 GATGATGATG
7240656 GGGAGGATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.28, C:0.00, G:0.45, T:0.28
Consensus pattern (15 bp):
GATGATGATGATGGG
Found at i:7240679 original size:15 final size:15
Alignment explanation
Indices: 7240661--7240695 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
7240651 GGATGGGGAG
7240661 GATGAAGAAGAGGAA
1 GATGAAGAAGAGGAA
*
7240676 GATGAAGAAGATGAA
1 GATGAAGAAGAGGAA
7240691 GATGA
1 GATGA
7240696 TGAGGTTCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.37, T:0.11
Consensus pattern (15 bp):
GATGAAGAAGAGGAA
Found at i:7240747 original size:18 final size:18
Alignment explanation
Indices: 7240724--7240762 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
7240714 TTCGAAGAAG
7240724 AGGAAGTGAATTAATCGT
1 AGGAAGTGAATTAATCGT
7240742 AGGAAGTGAATTAATCGT
1 AGGAAGTGAATTAATCGT
7240760 AGG
1 AGG
7240763 CCGTTAGATT
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:0.38, C:0.05, G:0.31, T:0.26
Consensus pattern (18 bp):
AGGAAGTGAATTAATCGT
Found at i:7241624 original size:15 final size:15
Alignment explanation
Indices: 7241596--7241635 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
7241586 ATTACAATAC
7241596 AATATGATTACAAGT
1 AATATGATTACAAGT
* *
7241611 AATGTGATTGCAAGT
1 AATATGATTACAAGT
7241626 AATATGATTA
1 AATATGATTA
7241636 TAGAGAAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.42, C:0.05, G:0.17, T:0.35
Consensus pattern (15 bp):
AATATGATTACAAGT
Found at i:7241820 original size:28 final size:29
Alignment explanation
Indices: 7241788--7242195 Score: 137
Period size: 28 Copynumber: 14.1 Consensus size: 29
7241778 TATAAGTTTA
7241788 ATATATTTATATTTTTTATTATTAATTTTT
1 ATATA-TTATATTTTTTATTATTAATTTTT
* * *
7241818 ATATAATATCATTTCTTA--AATATATTTTT
1 ATATATTAT-ATTTTTTATTATTA-ATTTTT
* * *
7241847 A-ATATCATATATTTTATTTTTATTTATTATT
1 ATATAT--TATATTTT-TTATTATTAATTTTT
* *
7241878 ATAATATTTTATATTTATATTATTAATTTTT
1 AT-ATATTATAT-TTTTTATTATTAATTTTT
* * *
7241909 ATATAATATCATTTCTTA--AATATATTTTT
1 ATATATTAT-ATTTTTTATTATTA-ATTTTT
* * *
7241938 A-ATATCATATATTTTATT-TTTATTTATT
1 ATATATTATATTTTTTATTATTAATTT-TT
* *
7241966 AT-TATAATATTTTATATT-TT-ATTTTT
1 ATATATTATATTTTTTATTATTAATTTTT
* *
7241992 AATATATT-TAATTTATATTATTAATTTTT
1 -ATATATTATATTTTTTATTATTAATTTTT
* * *
7242021 ATATAATATCATATTTTA--AATATATTTTT
1 ATATATTAT-ATTTTTTATTATTA-ATTTTT
* * * *
7242050 A-ATGTCATATATTTTATTTTTATTTATTATT
1 ATATAT--TATATTTT-TTATTATTAATTTTT
*
7242081 ATAATTATTAAATATTTCTTTAATA-T-ATTTTT
1 AT-A-TATT--ATATTT-TTTATTATTAATTTTT
*
7242113 -TATATTATATATTTTATT-TTAATTTGTT
1 ATATATTATATTTTTTATTATTAATTT-TT
* * *
7242141 -T-TATCTATATTATATAAATATTAATTTTT
1 ATATAT-TATATT-TTTTATTATTAATTTTT
*
7242170 -TATA-T-T-TTATTTATT-TTAATTTTT
1 ATATATTATATTTTTTATTATTAATTTTT
7242194 AT
1 AT
7242196 TCTAAATTAA
Statistics
Matches: 280, Mismatches: 56, Indels: 89
0.66 0.13 0.21
Matches are distributed among these distances:
24 9 0.03
25 4 0.01
26 10 0.04
27 39 0.14
28 58 0.21
29 50 0.18
30 46 0.16
31 32 0.11
32 13 0.05
33 6 0.02
34 12 0.04
35 1 0.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (29 bp):
ATATATTATATTTTTTATTATTAATTTTT
Found at i:7241856 original size:16 final size:15
Alignment explanation
Indices: 7241784--7242064 Score: 58
Period size: 16 Copynumber: 19.1 Consensus size: 15
7241774 AAAATATAAG
7241784 TTTAATATATTTATATT
1 TTTAATATA--TATATT
*
7241801 TTTTAT-TAT-TAATT
1 TTTAATATATAT-ATT
7241815 TTT-ATATAATATCATT
1 TTTAATAT-ATAT-ATT
7241831 TCTT-A-A-ATATATT
1 T-TTAATATATATATT
7241844 TTTAATATCATATA-T
1 TTTAATAT-ATATATT
* * *
7241859 TTTATTTTTATTTATT
1 TTTA-ATATATATATT
*
7241875 ATTATAATATTTTATATT
1 -TT-TAATA-TATATATT
* *
7241893 TATATTAT-TA-ATT
1 TTTAATATATATATT
7241906 TTT-ATATAATATCATT
1 TTTAATAT-ATAT-ATT
7241922 TCTT-A-A-ATATATT
1 T-TTAATATATATATT
7241935 TTTAATATCATATA-T
1 TTTAATAT-ATATATT
*
7241950 TTT-AT-T-TTTATT
1 TTTAATATATATATT
*
7241962 TATTATTATA-ATA-T
1 T-TTAATATATATATT
*
7241976 TTT-ATAT-TTTATT
1 TTTAATATATATATT
*
7241989 TTTAATATATTTAATT
1 TTTAATATATAT-ATT
* *
7242005 TATATTAT-TA-ATT
1 TTTAATATATATATT
7242018 TTT-ATATAATATCATAT
1 TTTAATAT-ATAT-AT-T
7242035 TTT-A-A-ATATATT
1 TTTAATATATATATT
*
7242047 TTTAATGTCATATATT
1 TTTAATAT-ATATATT
7242063 TT
1 TT
7242065 ATTTTTATTT
Statistics
Matches: 198, Mismatches: 24, Indels: 85
0.64 0.08 0.28
Matches are distributed among these distances:
11 3 0.02
12 21 0.11
13 35 0.18
14 37 0.19
15 23 0.12
16 51 0.26
17 20 0.10
18 8 0.04
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTAATATATATATT
Found at i:7241883 original size:33 final size:33
Alignment explanation
Indices: 7241846--7241992 Score: 134
Period size: 33 Copynumber: 4.7 Consensus size: 33
7241836 AATATATTTT
7241846 TAATATCATATATTTTATTTTTATTTATTATTA
1 TAATATCATATATTTTATTTTTATTTATTATTA
** *
7241879 TAATATTTTATATTTATATTATTAATTT-TTA-TA
1 TAATATCATATATTT-TATT-TTTATTTATTATTA
* * *
7241912 TAATATCAT-T-TCTTA----AATATATT-TT-
1 TAATATCATATATTTTATTTTTATTTATTATTA
7241937 TAATATCATATATTTTATTTTTATTTATTATTA
1 TAATATCATATATTTTATTTTTATTTATTATTA
**
7241970 TAATATTTTATATTTTATTTTTA
1 TAATATCATATATTTTATTTTTA
7241993 ATATATTTAA
Statistics
Matches: 90, Mismatches: 12, Indels: 24
0.71 0.10 0.19
Matches are distributed among these distances:
25 13 0.14
26 4 0.04
27 4 0.04
30 2 0.02
31 8 0.09
32 3 0.03
33 43 0.48
34 7 0.08
35 6 0.07
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (33 bp):
TAATATCATATATTTTATTTTTATTTATTATTA
Found at i:7241924 original size:91 final size:90
Alignment explanation
Indices: 7241790--7241994 Score: 374
Period size: 91 Copynumber: 2.3 Consensus size: 90
7241780 TAAGTTTAAT
*
7241790 ATATTTATATTTTTTATTATTAATTTTTATATAATATCATTTCTTAAATATATTTTTAATATCAT
1 ATATTT-TATATTTTATTATTAATTTTTATATAATATCATTTCTTAAATATATTTTTAATATCAT
7241855 ATATTTTATTTTTATTTATTATTATA
65 ATATTTTATTTTTATTTATTATTATA
7241881 ATATTTTATATTTATATTATTAATTTTTATATAATATCATTTCTTAAATATATTTTTAATATCAT
1 ATATTTTATATTT-TATTATTAATTTTTATATAATATCATTTCTTAAATATATTTTTAATATCAT
7241946 ATATTTTATTTTTATTTATTATTATA
65 ATATTTTATTTTTATTTATTATTATA
*
7241972 ATATTTTATATTTTATTTTTAAT
1 ATATTTTATATTTTATTATTAAT
7241995 ATATTTAATT
Statistics
Matches: 111, Mismatches: 2, Indels: 3
0.96 0.02 0.03
Matches are distributed among these distances:
90 15 0.14
91 96 0.86
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (90 bp):
ATATTTTATATTTTATTATTAATTTTTATATAATATCATTTCTTAAATATATTTTTAATATCATA
TATTTTATTTTTATTTATTATTATA
Found at i:7241977 original size:112 final size:112
Alignment explanation
Indices: 7241861--7242120 Score: 383
Period size: 112 Copynumber: 2.4 Consensus size: 112
7241851 TCATATATTT
7241861 TATTTT-TA-TTTATTATTATAATAT-TTTATATTTATATTATTAATTTTTATATAATATCAT-T
1 TATTTTATATTTTATT-TT-TAATATATTTA-ATTTATATTATTAATTTTTATATAATATCATAT
7241922 TCTTAAATATATTTTTAATATCATATATTTTATTTTTATTTATTATTATAA
63 T-TTAAATATATTTTTAATATCATATATTTTATTTTTATTTATTATTATAA
7241973 TATTTTATATTTTATTTTTAATATATTTAATTTATATTATTAATTTTTATATAATATCATATTTT
1 TATTTTATATTTTATTTTTAATATATTTAATTTATATTATTAATTTTTATATAATATCATATTTT
*
7242038 AAATATATTTTTAATGTCATATATTTTATTTTTATTTATTATTATAA
66 AAATATATTTTTAATATCATATATTTTATTTTTATTTATTATTATAA
* * * *
7242085 T-TATTAAATATT-TCTTTAATATATTT--TTTATATTAT
1 TATTTTATATTTTATTTTTAATATATTTAATTTATATTAT
7242121 ATATTTTATT
Statistics
Matches: 139, Mismatches: 5, Indels: 12
0.89 0.03 0.08
Matches are distributed among these distances:
108 10 0.07
110 13 0.09
111 8 0.06
112 92 0.66
113 10 0.07
114 6 0.04
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (112 bp):
TATTTTATATTTTATTTTTAATATATTTAATTTATATTATTAATTTTTATATAATATCATATTTT
AAATATATTTTTAATATCATATATTTTATTTTTATTTATTATTATAA
Found at i:7241980 original size:20 final size:20
Alignment explanation
Indices: 7241955--7242022 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 20
7241945 TATATTTTAT
7241955 TTTTATTTATTATTATAATA
1 TTTTATTTATTATTATAATA
*
7241975 TTTTATATT-TTATTTTTAATA
1 TTTTAT-TTATTA-TTATAATA
7241996 TATTTAATTTA-TATTATTAAT-
1 T-TTT-ATTTATTATTA-TAATA
7242017 TTTTAT
1 TTTTAT
7242023 ATAATATCAT
Statistics
Matches: 40, Mismatches: 2, Indels: 13
0.73 0.04 0.24
Matches are distributed among these distances:
19 2 0.05
20 12 0.30
21 13 0.32
22 11 0.28
23 2 0.05
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTATTTATTATTATAATA
Found at i:7242019 original size:34 final size:33
Alignment explanation
Indices: 7241928--7242195 Score: 100
Period size: 31 Copynumber: 8.7 Consensus size: 33
7241918 CATTTCTTAA
**
7241928 ATATATT-TT-TAATATCATATATTTTATTTTT
1 ATATATTATTATAATATTTTATATTTTATTTTT
*
7241959 ATTTATTATTATAATATTTTATATTTTATTTTT
1 ATATATTATTATAATATTTTATATTTTATTTTT
7241992 A-ATA-TATT-T-A-A-TTTATATTATTAATTTTT
1 ATATATTATTATAATATTTTATATT-TT-ATTTTT
* * *
7242021 ATATA--A-TATCATATTTTA-AATATATTTTT
1 ATATATTATTATAATATTTTATATTTTATTTTT
* * ** *
7242050 A-ATGTCATATATTTTATTTT-TA-TTTATTATT
1 ATATATTAT-TATAATATTTTATATTTTATTTTT
* * *
7242081 ATA-ATTATTA-AATATTTCTTTAATATATTTTT
1 ATATATTATTATAATATTT-TATATTTTATTTTT
** *
7242113 -TATATTATATATTTTATTTTA-ATTTGT-TTTAT
1 ATATATTAT-TATAATATTTTATATTT-TATTTTT
* * * *
7242145 CTATATTA-TATAA-ATATTAATTTTTTATATTT
1 ATATATTATTATAATAT-TTTATATTTTATTTTT
*
7242177 -TAT-TTATTTTAAT-TTTTAT
1 ATATATTATTATAATATTTTAT
7242196 TCTAAATTAA
Statistics
Matches: 178, Mismatches: 31, Indels: 57
0.67 0.12 0.21
Matches are distributed among these distances:
27 8 0.04
28 6 0.03
29 22 0.12
30 19 0.11
31 43 0.24
32 43 0.24
33 32 0.18
34 5 0.03
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.64
Consensus pattern (33 bp):
ATATATTATTATAATATTTTATATTTTATTTTT
Found at i:7242073 original size:27 final size:26
Alignment explanation
Indices: 7241982--7242083 Score: 69
Period size: 29 Copynumber: 3.6 Consensus size: 26
7241972 ATATTTTATA
*
7241982 TTTTATTTTTAATATATTTAATTTATAT
1 TTTTATTTTTAATATATAT-ATTT-TAT
* *
7242010 TATTAATTTTTATATAATATCATATTTTAA
1 T-TTTATTTTTA-AT-ATAT-ATATTTTAT
* * *
7242040 ATATATTTTTAATGTCATATATTTTAT
1 TTTTATTTTTAATAT-ATATATTTTAT
*
7242067 TTTTATTTATTATTATA
1 TTTTATTT-TTAATATA
7242084 ATTATTAAAT
Statistics
Matches: 56, Mismatches: 12, Indels: 13
0.69 0.15 0.16
Matches are distributed among these distances:
27 16 0.29
28 10 0.18
29 17 0.30
30 4 0.07
31 8 0.14
32 1 0.02
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.63
Consensus pattern (26 bp):
TTTTATTTTTAATATATATATTTTAT
Found at i:7267197 original size:30 final size:30
Alignment explanation
Indices: 7267158--7267243 Score: 163
Period size: 30 Copynumber: 2.9 Consensus size: 30
7267148 ATTGTTTTAT
*
7267158 GGTGTTGTGTTAAGCACTAAATGATATGAG
1 GGTGCTGTGTTAAGCACTAAATGATATGAG
7267188 GGTGCTGTGTTAAGCACTAAATGATATGAG
1 GGTGCTGTGTTAAGCACTAAATGATATGAG
7267218 GGTGCTGTGTTAAGCACTAAATGATA
1 GGTGCTGTGTTAAGCACTAAATGATA
7267244 AGGTTAAGCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 55 1.00
ACGTcount: A:0.30, C:0.09, G:0.29, T:0.31
Consensus pattern (30 bp):
GGTGCTGTGTTAAGCACTAAATGATATGAG
Found at i:7276616 original size:43 final size:45
Alignment explanation
Indices: 7276531--7276625 Score: 119
Period size: 43 Copynumber: 2.2 Consensus size: 45
7276521 TATCTTATTA
*
7276531 AAAATAT-TTTATACTATTATAATTAAAATAAAAAATATTAAAAT
1 AAAATATATATATACTATTATAATTAAAATAAAAAATATTAAAAT
*
7276575 AAAATATATATATA-TA-TATAATATAAGAATCAAAAA-A-TAAAAT
1 AAAATATATATATACTATTATAAT-TAA-AATAAAAAATATTAAAAT
7276618 AAAATATA
1 AAAATATA
7276626 AAAAATTAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
43 20 0.43
44 13 0.28
45 13 0.28
ACGTcount: A:0.63, C:0.02, G:0.01, T:0.34
Consensus pattern (45 bp):
AAAATATATATATACTATTATAATTAAAATAAAAAATATTAAAAT
Found at i:7276811 original size:16 final size:16
Alignment explanation
Indices: 7276780--7276863 Score: 68
Period size: 16 Copynumber: 5.3 Consensus size: 16
7276770 GAAATTATAT
*
7276780 TATAT-AAAAAT-TAA
1 TATATAAAAAATAAAA
7276794 TA-ATAAAAAATATAAA
1 TATATAAAAAATA-AAA
*
7276810 TATATTAAAAATAAAA
1 TATATAAAAAATAAAA
**
7276826 TATATAAGATTATAATAA
1 TATATAA-AAAATAA-AA
*
7276844 TAAAT-AAAAATAAAA
1 TATATAAAAAATAAAA
7276859 TATAT
1 TATAT
7276864 GATATTAAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
13 2 0.04
14 8 0.15
15 6 0.11
16 18 0.33
17 15 0.27
18 6 0.11
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (16 bp):
TATATAAAAAATAAAA
Found at i:7276819 original size:60 final size:59
Alignment explanation
Indices: 7276753--7276932 Score: 196
Period size: 60 Copynumber: 3.1 Consensus size: 59
7276743 AATATATGAC
7276753 ATTAAAAATATATTTCAGAAATTATATTATATAAAAATTAATAATAAAAAATATAAATAT
1 ATTAAAAATATATTT-AGAAATTATATTATATAAAAATTAATAATAAAAAATATAAATAT
* * * * *
7276813 ATTAAAAATAAAATATATAAGATTATA--ATA-ATAAA-TAA-AA-ATAAAATAT--ATGAT
1 ATTAAAAAT-ATATTTAGAA-ATTATATTATATAAAAATTAATAATAAAAAATATAAAT-AT
* *
7276867 ATTAAAAATATATTTAAGAGATGATATTATATAAAAATTAATAATAAAAAATATAAATAT
1 ATTAAAAATATATTT-AGAAATTATATTATATAAAAATTAATAATAAAAAATATAAATAT
7276927 ATTAAA
1 ATTAAA
7276933 TTTGTATTTT
Statistics
Matches: 96, Mismatches: 12, Indels: 24
0.73 0.09 0.18
Matches are distributed among these distances:
53 11 0.11
54 13 0.14
55 11 0.11
56 6 0.06
57 6 0.06
58 6 0.06
59 11 0.11
60 20 0.21
61 12 0.12
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (59 bp):
ATTAAAAATATATTTAGAAATTATATTATATAAAAATTAATAATAAAAAATATAAATAT
Found at i:7276838 original size:114 final size:114
Alignment explanation
Indices: 7276702--7276932 Score: 417
Period size: 114 Copynumber: 2.0 Consensus size: 114
7276692 TTAAAGAAAC
*
7276702 AAAAATAAAATATATAAGATTATAATAATAAATGAAAATAAAATATATGACATTAAAAATATATT
1 AAAAATAAAATATATAAGATTATAATAATAAATAAAAATAAAATATATGACATTAAAAATATATT
* *
7276767 TCAGAAATTATATTATATAAAAATTAATAATAAAAAATATAAATATATT
66 TAAGAAATGATATTATATAAAAATTAATAATAAAAAATATAAATATATT
*
7276816 AAAAATAAAATATATAAGATTATAATAATAAATAAAAATAAAATATATGATATTAAAAATATATT
1 AAAAATAAAATATATAAGATTATAATAATAAATAAAAATAAAATATATGACATTAAAAATATATT
*
7276881 TAAGAGATGATATTATATAAAAATTAATAATAAAAAATATAAATATATT
66 TAAGAAATGATATTATATAAAAATTAATAATAAAAAATATAAATATATT
7276930 AAA
1 AAA
7276933 TTTGTATTTT
Statistics
Matches: 112, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
114 112 1.00
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (114 bp):
AAAAATAAAATATATAAGATTATAATAATAAATAAAAATAAAATATATGACATTAAAAATATATT
TAAGAAATGATATTATATAAAAATTAATAATAAAAAATATAAATATATT
Found at i:7276931 original size:24 final size:24
Alignment explanation
Indices: 7276781--7276863 Score: 84
Period size: 24 Copynumber: 3.5 Consensus size: 24
7276771 AAATTATATT
7276781 ATATAAA-A-ATTAATAATAAAAA
1 ATATAAATATATTAATAATAAAAA
* *
7276803 ATATAAATATATTAAAAATAAAAT
1 ATATAAATATATTAATAATAAAAA
7276827 ATATAAGAT-TA-TAATAATAAATAA
1 ATATAA-ATATATTAATAATAAA-AA
*
7276851 AAATAAAATATAT
1 ATAT-AAATATAT
7276864 GATATTAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
22 7 0.14
23 10 0.20
24 26 0.53
25 6 0.12
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.31
Consensus pattern (24 bp):
ATATAAATATATTAATAATAAAAA
Found at i:7277103 original size:15 final size:15
Alignment explanation
Indices: 7277085--7277119 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
7277075 CTCTGTAATT
*
7277085 ACATTATCTGCAATC
1 ACATTACCTGCAATC
*
7277100 ACATTACCTGTAATC
1 ACATTACCTGCAATC
7277115 ACATT
1 ACATT
7277120 GAATTGTACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.34, C:0.26, G:0.06, T:0.34
Consensus pattern (15 bp):
ACATTACCTGCAATC
Found at i:7277321 original size:12 final size:13
Alignment explanation
Indices: 7277293--7277318 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7277283 CTGCATTCGA
7277293 CAGATCAATTCCC
1 CAGATCAATTCCC
7277306 CAGATCAATTCCC
1 CAGATCAATTCCC
7277319 AGACGACTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.38, G:0.08, T:0.23
Consensus pattern (13 bp):
CAGATCAATTCCC
Found at i:7288082 original size:2 final size:2
Alignment explanation
Indices: 7288075--7288117 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
7288065 GTATGTACAC
7288075 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7288117 T
1 T
7288118 CTTTTTTTTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7292743 original size:21 final size:20
Alignment explanation
Indices: 7292719--7292768 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
7292709 TTTGTTTTAA
*
7292719 AAAATATATATATAATTTTTT
1 AAAATA-ATATATAATTTATT
7292740 AAAA-AATATATAATTTATT
1 AAAATAATATATAATTTATT
*
7292759 ATAATAATAT
1 AAAATAATAT
7292769 TTTTATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 16 0.62
20 6 0.23
21 4 0.15
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
AAAATAATATATAATTTATT
Found at i:7292794 original size:16 final size:17
Alignment explanation
Indices: 7292773--7292808 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
7292763 TAATATTTTT
7292773 ATAAAATTAATA-AAAA
1 ATAAAATTAATATAAAA
*
7292789 ATAAAATTATTATAAAA
1 ATAAAATTAATATAAAA
7292806 ATA
1 ATA
7292809 TTATCACATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
ATAAAATTAATATAAAA
Found at i:7300872 original size:8 final size:7
Alignment explanation
Indices: 7300853--7300886 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
7300843 AGTTTATTAA
7300853 TTATTTT
1 TTATTTT
7300860 TTATTTT
1 TTATTTT
7300867 TATATTTT
1 T-TATTTT
*
7300875 TTAATTT
1 TTATTTT
7300882 TTATT
1 TTATT
7300887 ATAATTAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (7 bp):
TTATTTT
Found at i:7300881 original size:16 final size:15
Alignment explanation
Indices: 7300854--7300885 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
7300844 GTTTATTAAT
7300854 TATTTTTTATTTTTA
1 TATTTTTTATTTTTA
7300869 TATTTTTTAATTTTTA
1 TATTTTTT-ATTTTTA
7300885 T
1 T
7300886 TATAATTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (15 bp):
TATTTTTTATTTTTA
Found at i:7300901 original size:15 final size:14
Alignment explanation
Indices: 7300883--7300913 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
7300873 TTTTAATTTT
7300883 TATTATAATTAATTA
1 TATTATAATT-ATTA
7300898 TATTATAATTATTA
1 TATTATAATTATTA
7300912 TA
1 TA
7300914 AAATTATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TATTATAATTATTA
Found at i:7302242 original size:18 final size:20
Alignment explanation
Indices: 7302219--7302255 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
7302209 TATTTCTCCC
7302219 TAAATT-TCTTTG-AATAAG
1 TAAATTCTCTTTGCAATAAG
7302237 TAAATTCTCTTTGCAATAA
1 TAAATTCTCTTTGCAATAA
7302256 TATTTTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 6 0.35
20 5 0.29
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.43
Consensus pattern (20 bp):
TAAATTCTCTTTGCAATAAG
Found at i:7304968 original size:28 final size:28
Alignment explanation
Indices: 7304928--7304983 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
7304918 TGTCTTGCAA
*
7304928 GTGTTCCAAATACTACTCACAATGTTTT
1 GTGTTCCAAATACTACTCACAATCTTTT
*
7304956 GTGTTCTAAATACTACTCACAATCTTTT
1 GTGTTCCAAATACTACTCACAATCTTTT
7304984 TTCTTCTCAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.29, C:0.21, G:0.09, T:0.41
Consensus pattern (28 bp):
GTGTTCCAAATACTACTCACAATCTTTT
Found at i:7304990 original size:28 final size:28
Alignment explanation
Indices: 7304935--7304990 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
7304925 CAAGTGTTCC
* *
7304935 AAATACTACTCACAATGTTTTGTGTTCT
1 AAATACTACTCACAATCTTTTGTCTTCT
*
7304963 AAATACTACTCACAATCTTTTTTCTTCT
1 AAATACTACTCACAATCTTTTGTCTTCT
7304991 CAGAAAGGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.29, C:0.21, G:0.05, T:0.45
Consensus pattern (28 bp):
AAATACTACTCACAATCTTTTGTCTTCT
Found at i:7305047 original size:42 final size:41
Alignment explanation
Indices: 7304956--7305050 Score: 102
Period size: 42 Copynumber: 2.3 Consensus size: 41
7304946 ACAATGTTTT
* * *
7304956 GTGTTCTAAATACTACTCACAATCTTTTTTCTTCTCAGAAAG
1 GTGTTCCAAATACGACTCACAATCTTTCTTCTTCTCAG-AAG
* * *
7304998 GTATTCCAAATACGACTCATAATGTTTCTTCTTCTTCTAG-AG
1 GTGTTCCAAATACGACTCACAATCTTTCTTCTTC-TC-AGAAG
7305040 GTGTTCCAAAT
1 GTGTTCCAAAT
7305051 GCAACTTGCA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
42 40 0.91
43 2 0.05
44 2 0.05
ACGTcount: A:0.27, C:0.21, G:0.12, T:0.40
Consensus pattern (41 bp):
GTGTTCCAAATACGACTCACAATCTTTCTTCTTCTCAGAAG
Found at i:7307953 original size:3 final size:3
Alignment explanation
Indices: 7307945--7307976 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
7307935 CTAGATTGAC
7307945 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
7307977 ATGTCATTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.31
Consensus pattern (3 bp):
CAT
Found at i:7310522 original size:12 final size:12
Alignment explanation
Indices: 7310505--7310529 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7310495 ATTCCAGCTA
7310505 TATCACCAACAT
1 TATCACCAACAT
7310517 TATCACCAACAT
1 TATCACCAACAT
7310529 T
1 T
7310530 GTCAGCAATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.32, G:0.00, T:0.28
Consensus pattern (12 bp):
TATCACCAACAT
Found at i:7320214 original size:54 final size:54
Alignment explanation
Indices: 7320105--7320207 Score: 197
Period size: 54 Copynumber: 1.9 Consensus size: 54
7320095 TAATTATTGA
7320105 GTATATCTATTCTTGCTTTATTAAGAATTGGGGTTTCCAGGTTTGTTTTTAAGT
1 GTATATCTATTCTTGCTTTATTAAGAATTGGGGTTTCCAGGTTTGTTTTTAAGT
*
7320159 GTATGTCTATTCTTGCTTTATTAAGAATTGGGGTTTCCAGGTTTGTTTT
1 GTATATCTATTCTTGCTTTATTAAGAATTGGGGTTTCCAGGTTTGTTTT
7320208 GTAGTGTTTA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.18, C:0.10, G:0.21, T:0.50
Consensus pattern (54 bp):
GTATATCTATTCTTGCTTTATTAAGAATTGGGGTTTCCAGGTTTGTTTTTAAGT
Found at i:7323227 original size:15 final size:18
Alignment explanation
Indices: 7323209--7323248 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 18
7323199 AAATTTTGAC
7323209 TTAAAATATT-AATA-T-
1 TTAAAATATTCAATACTA
*
7323224 TTAAATTATTCAATACTA
1 TTAAAATATTCAATACTA
7323242 TTAAAAT
1 TTAAAAT
7323249 TAAATAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
15 9 0.45
16 4 0.20
17 1 0.05
18 6 0.30
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (18 bp):
TTAAAATATTCAATACTA
Found at i:7334256 original size:54 final size:54
Alignment explanation
Indices: 7334197--7334305 Score: 218
Period size: 54 Copynumber: 2.0 Consensus size: 54
7334187 TTATAAAAAT
7334197 AAAATATACATTAATCCTAGTGACCATATAGATGTCTTTCAAGTTACAGCTGCC
1 AAAATATACATTAATCCTAGTGACCATATAGATGTCTTTCAAGTTACAGCTGCC
7334251 AAAATATACATTAATCCTAGTGACCATATAGATGTCTTTCAAGTTACAGCTGCC
1 AAAATATACATTAATCCTAGTGACCATATAGATGTCTTTCAAGTTACAGCTGCC
7334305 A
1 A
7334306 TTTATTTCAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (54 bp):
AAAATATACATTAATCCTAGTGACCATATAGATGTCTTTCAAGTTACAGCTGCC
Found at i:7345839 original size:84 final size:85
Alignment explanation
Indices: 7345678--7345832 Score: 197
Period size: 84 Copynumber: 1.8 Consensus size: 85
7345668 CGTTGATCTA
* * * *
7345678 GTGCTCCCTTCCCATGGGAAAGCATCGATCTCGGTGCTCCTCTTGCTTAAGAAGCATAAAATCTG
1 GTGCTCCCTTCCCATGGGAAAGCATCGATCTCAGTGCTCCTCCTCCTTAAGAAGCATAAAATCGG
7345743 CGCTCCTCTCCCTTCCCTGG
66 CGCTCCTCTCCCTTCCCTGG
* * * * *
7345763 GTGCTCTCTTCCCCTGGGAAAGCAT-GATCTCAGTGCTCC-CCTCCTTTGAGGAGCATTAAATCG
1 GTGCTCCCTTCCCATGGGAAAGCATCGATCTCAGTGCTCCTCCTCC-TTAAGAAGCATAAAATCG
*
7345826 GTGCTCC
65 GCGCTCC
7345833 ATTCCCTCTA
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
83 3 0.05
84 33 0.56
85 23 0.39
ACGTcount: A:0.17, C:0.33, G:0.21, T:0.28
Consensus pattern (85 bp):
GTGCTCCCTTCCCATGGGAAAGCATCGATCTCAGTGCTCCTCCTCCTTAAGAAGCATAAAATCGG
CGCTCCTCTCCCTTCCCTGG
Found at i:7353436 original size:16 final size:16
Alignment explanation
Indices: 7353370--7353445 Score: 57
Period size: 16 Copynumber: 4.8 Consensus size: 16
7353360 TTAAACATTA
7353370 TAAA-TATTAATATGAT
1 TAAATTATTAATAT-AT
* * *
7353386 TAAAATATTAAAATTT
1 TAAATTATTAATATAT
* * *
7353402 TGAATGT-TTTATTTAT
1 TAAAT-TATTAATATAT
7353418 TAAATTATTAATATAT
1 TAAATTATTAATATAT
*
7353434 TAAATTTTTAAT
1 TAAATTATTAAT
7353446 GAGTATAAAT
Statistics
Matches: 45, Mismatches: 12, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
15 1 0.02
16 35 0.78
17 9 0.20
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (16 bp):
TAAATTATTAATATAT
Found at i:7354729 original size:21 final size:21
Alignment explanation
Indices: 7354705--7354744 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
7354695 AAAATATTAT
*
7354705 ATATATATATATATACTTTAA
1 ATATAAATATATATACTTTAA
*
7354726 ATATAAATATATTTACTTT
1 ATATAAATATATATACTTT
7354745 CTATTTGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (21 bp):
ATATAAATATATATACTTTAA
Found at i:7354735 original size:29 final size:28
Alignment explanation
Indices: 7354666--7354738 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 28
7354656 AATTTATAAG
*
7354666 AAATATAATTACTATTATATATATACACT
1 AAATATAAATA-TATTATATATATACACT
* **
7354695 AAA-ATATTATATATATATATATATACTTT
1 AAATATA-AATATAT-TATATATATACACT
7354724 AAATATAAATATATT
1 AAATATAAATATATT
7354739 TACTTTCTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
28 7 0.19
29 26 0.72
30 3 0.08
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (28 bp):
AAATATAAATATATTATATATATACACT
Found at i:7354951 original size:339 final size:337
Alignment explanation
Indices: 7354364--7355020 Score: 832
Period size: 339 Copynumber: 1.9 Consensus size: 337
7354354 TAATTACTAT
* * * * * *
7354364 TATATATATACTTTTAATATAAGTCTATTTACTTTCTATTTTGTGTTAACATTATAAAACTTATG
1 TATATATATACTTTAAATATAAATATATTTACTTTCTATTTTGTATTAACATTACAAAACTTATA
* *
7354429 ACTTATAAAATTGTTAATTATAATATATATACCATTGTTTATATAATCTTATAAGCTATATACTT
66 ACTTATAAAATTGTTAATTATAATATATATAACATTGTTTATATAAACTTATAAGCTATATACTT
* **
7354494 AAAAAATGCTTTTGAGATTAAAATAATTTCGGAACTTAAGTGTTTTTTTTAATTTCATGAAATTA
131 AAAAAATGCTTGTGAGATTAAAATAATTTCAAAACTTAAGTGTTTTTTTTAATTTCATGAAATTA
* * * * *
7354559 AGAACAAATTTATATAATTAATTAAATTAATTCATGAAGCTATTATTATTAATTAACTTGTAATG
196 AGAACAAACTTATATAATTAATTAAATTAATTCATAAAACTATAATTATTAATTAACTTATAATG
* *
7354624 TCTTTTAATATATATAGTTTATATATTATTTTAATTTATAAGAAATATAATTACTATTATATATA
261 TCTTTTAATATATATA--TTAGAT-TCA-TTT-A--TA-AA-AAATATAATTACTATTATATATA
7354689 TACACTAAAATATTATATATA
317 TACACTAAAATATTATATATA
7354710 TATATATATACTTTAAATATAAATATATTTACTTTCTA-TTTGTATTAACATTACAAAA-TTATA
1 TATATATATACTTTAAATATAAATATATTTACTTTCTATTTTGTATTAACATTACAAAACTTATA
* * * *
7354773 ACTTATAAAATTTTTAATTATAATTTATATAACTTTGTTTATATAAACTTAT-ATC-A-AT-C-T
66 ACTTATAAAATTGTTAATTATAATATATATAACATTGTTTATATAAACTTATAAGCTATATACTT
* * * * * *
7354833 AAGGAGAA-G-TTGTGAGATTAGAATAGTTTTAAAACTT-AGT-TATTTTTTTAATTTTATGTAA
131 AA--AAAATGCTTGTGAGATTAAAATAATTTCAAAACTTAAGTGT-TTTTTTTAATTTCATGAAA
* * * *
7354894 TTAAGGACAAACCTTGTATAATTAATTAAATTAATTTATAAAATTATAATTATTAATTAACTTAT
193 TTAAGAACAAA-CTTATATAATTAATTAAATTAATTCATAAAACTATAATTATTAATTAACTTAT
7354959 AATGTCTTTTAATATATATATTAGATTCATTTATAAAAAATATAATTACTATTATATATATA
257 AATGTCTTTTAATATATATATTAGATTCATTTATAAAAAATATAATTACTATTATATATATA
7355021 TTAAAATATT
Statistics
Matches: 275, Mismatches: 32, Indels: 24
0.83 0.10 0.07
Matches are distributed among these distances:
330 25 0.09
331 2 0.01
332 2 0.01
334 1 0.00
335 3 0.01
336 2 0.01
337 6 0.02
338 30 0.11
339 90 0.33
340 2 0.01
341 5 0.02
342 1 0.00
343 2 0.01
344 51 0.19
345 18 0.07
346 35 0.13
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.46
Consensus pattern (337 bp):
TATATATATACTTTAAATATAAATATATTTACTTTCTATTTTGTATTAACATTACAAAACTTATA
ACTTATAAAATTGTTAATTATAATATATATAACATTGTTTATATAAACTTATAAGCTATATACTT
AAAAAATGCTTGTGAGATTAAAATAATTTCAAAACTTAAGTGTTTTTTTTAATTTCATGAAATTA
AGAACAAACTTATATAATTAATTAAATTAATTCATAAAACTATAATTATTAATTAACTTATAATG
TCTTTTAATATATATATTAGATTCATTTATAAAAAATATAATTACTATTATATATATACACTAAA
ATATTATATATA
Found at i:7355088 original size:17 final size:17
Alignment explanation
Indices: 7355056--7355089 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
7355046 TATGTGTATA
* *
7355056 TAAATATATATGTATTT
1 TAAATATAAATATATTT
7355073 TAAATATAAATATATTT
1 TAAATATAAATATATTT
7355090 ACTTTTTATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
TAAATATAAATATATTT
Found at i:7365734 original size:55 final size:55
Alignment explanation
Indices: 7365648--7365758 Score: 150
Period size: 55 Copynumber: 2.0 Consensus size: 55
7365638 TCTGCAACTA
* * * *
7365648 GGGAAAGCCAACAAATCAATCCCTTGTCGTAAGAGAAAGAATACTTACAAATTGT
1 GGGAAAGCCAACAAATCAAACCCTCGCCGTAAGAGAAAGAAGACTTACAAATTGT
* * * *
7365703 GGGAAAGCCAACAGATGAAAGCCTCGCCGTAAGAGAAAGAAGACTTATAAATTGT
1 GGGAAAGCCAACAAATCAAACCCTCGCCGTAAGAGAAAGAAGACTTACAAATTGT
7365758 G
1 G
7365759 CAAGTTAATA
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
55 48 1.00
ACGTcount: A:0.41, C:0.17, G:0.23, T:0.19
Consensus pattern (55 bp):
GGGAAAGCCAACAAATCAAACCCTCGCCGTAAGAGAAAGAAGACTTACAAATTGT
Found at i:7397843 original size:216 final size:218
Alignment explanation
Indices: 7397500--7397962 Score: 629
Period size: 216 Copynumber: 2.1 Consensus size: 218
7397490 TATATACAAA
* * * * *
7397500 TTATGTATAAATTAAATATAAG--TATATATAATACGTTACTTTATTATATATGTGAAATTAATG
1 TTATGTATAAATTAAATATATGTATATATATAATACATTACTATATTATATATATAAAATTAATG
*
7397563 ACACAACTTATATGTTATAATATTTTAATTTTTATATCAAAATTTGTATAAATAATAACTAATTA
66 ACACAACTTATATGTTAT-ATA--TTAATTTTTATATCAAAATTTATATAAATAATAACTAATTA
*
7397628 TAAACAATATGTTATAAAAATTAAAACGATAACTAAAAAAATTATCAAGTGTAATCATATAAATA
128 TAAACAATATGTTATAAAAATTAAAACGATAACTAAAAAAATTATCAAGTATAATCATATAAATA
*
7397693 AAATCTATTATAAGTTATAGTAGTAC
193 AAATCTATTATAAGTTATAGTAATAC
*
7397719 TTATGTATAAATTAAATATATGTATATATATAATATATTACTATATTATGTATATATAAAATTAA
1 TTATGTATAAATTAAATATATGTATATATATAATACATTACTATATTA--TATATATAAAATTAA
* *
7397784 TGACATAA-TT-TATG-TAT-TA-TAATATTTTATATTAAAATTTATATAAATAATAACTAATTA
64 TGACACAACTTATATGTTATATATTAAT-TTTTATATCAAAATTTATATAAATAATAACTAATTA
*** * * * *
7397844 TAAACAATATGTTATAAAAATTAAGGTGATAATTAATAAAGTTATTAAGTATAATCATATAAATA
128 TAAACAATATGTTATAAAAATTAAAACGATAACTAAAAAAATTATCAAGTATAATCATATAAATA
* *
7397909 AAATTTATTATATGTTATAGTAATAC
193 AAATCTATTATAAGTTATAGTAATAC
7397935 TTATGTATAAATT-AA-ATATGTATATATA
1 TTATGTATAAATTAAATATATGTATATATA
7397963 ATGTTTATAC
Statistics
Matches: 219, Mismatches: 20, Indels: 15
0.86 0.08 0.06
Matches are distributed among these distances:
214 13 0.06
215 6 0.03
216 127 0.58
218 2 0.01
219 21 0.10
220 3 0.01
221 25 0.11
222 2 0.01
223 20 0.09
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.41
Consensus pattern (218 bp):
TTATGTATAAATTAAATATATGTATATATATAATACATTACTATATTATATATATAAAATTAATG
ACACAACTTATATGTTATATATTAATTTTTATATCAAAATTTATATAAATAATAACTAATTATAA
ACAATATGTTATAAAAATTAAAACGATAACTAAAAAAATTATCAAGTATAATCATATAAATAAAA
TCTATTATAAGTTATAGTAATAC
Found at i:7398307 original size:18 final size:17
Alignment explanation
Indices: 7398284--7398339 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 17
7398274 AATGAACCAA
*
7398284 TTAAATGAATTATTTTAT
1 TTAAAT-AATTATTTAAT
*
7398302 TTAAATTA-TATTTAAT
1 TTAAATAATTATTTAAT
*
7398318 TTAAATAAATAATTTAAT
1 TTAAAT-AATTATTTAAT
7398336 TTAA
1 TTAA
7398340 TTTTACTCAC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 13 0.41
17 2 0.06
18 17 0.53
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (17 bp):
TTAAATAATTATTTAAT
Found at i:7400374 original size:2 final size:2
Alignment explanation
Indices: 7400367--7400391 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7400357 TCTCAAAACT
7400367 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
7400392 GGGCTTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7416001 original size:19 final size:19
Alignment explanation
Indices: 7415979--7416016 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
7415969 ACATATTAAA
7415979 TTTATTCAAA-ATAAACTTG
1 TTTATT-AAACATAAACTTG
*
7415998 TTTATTAAACTTAAACTTG
1 TTTATTAAACATAAACTTG
7416017 CTTAATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.45
Consensus pattern (19 bp):
TTTATTAAACATAAACTTG
Found at i:7417395 original size:28 final size:29
Alignment explanation
Indices: 7417360--7417429 Score: 88
Period size: 28 Copynumber: 2.4 Consensus size: 29
7417350 AAAGTTTTTA
*
7417360 AATTATTAAATAAAATTTTA-TAATTAAT
1 AATTATTAAATAAAATATTATTAATTAAT
* *
7417388 AATTATTAATTAAAATATTATTAATTTAT
1 AATTATTAAATAAAATATTATTAATTAAT
* *
7417417 ATTTATAAAATAA
1 AATTATTAAATAA
7417430 TAAAAGAATA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
28 18 0.51
29 17 0.49
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (29 bp):
AATTATTAAATAAAATATTATTAATTAAT
Found at i:7417506 original size:25 final size:26
Alignment explanation
Indices: 7417459--7417507 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
7417449 TATTATTATA
* **
7417459 TTATATCAATATATCAAGTTACTATT
1 TTATATCAAAATATCAAAATACTATT
7417485 TTATAT-AAAATATCAAAATACTA
1 TTATATCAAAATATCAAAATACTA
7417508 CATCTGCTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 14 0.70
26 6 0.30
ACGTcount: A:0.47, C:0.10, G:0.02, T:0.41
Consensus pattern (26 bp):
TTATATCAAAATATCAAAATACTATT
Found at i:7419542 original size:66 final size:65
Alignment explanation
Indices: 7419418--7419552 Score: 218
Period size: 66 Copynumber: 2.1 Consensus size: 65
7419408 ATTGTATTAA
* * *
7419418 TAAGGCATGGACTTAACTCTGCTGCTTATTTTCTTAACATAGATTTGATAAGGATTATGCATAGT
1 TAAGGCATGGACTTAACTCTGCTGCTTATTTTCTTAACATAGATGTGAAAAGAATTATGCATAGT
7419483 TAAGGCATGGACTTAACTCTAG-TGCTTTATTTTCTTAACATAGATGTGAAAAGAATTATGCATA
1 TAAGGCATGGACTTAACTCT-GCTGC-TTATTTTCTTAACATAGATGTGAAAAGAATTATGCATA
7419547 GT
64 GT
7419549 TAAG
1 TAAG
7419553 TTTCTGTTGC
Statistics
Matches: 65, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
65 23 0.35
66 42 0.65
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.37
Consensus pattern (65 bp):
TAAGGCATGGACTTAACTCTGCTGCTTATTTTCTTAACATAGATGTGAAAAGAATTATGCATAGT
Found at i:7421862 original size:4 final size:4
Alignment explanation
Indices: 7421855--7421883 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
7421845 ACACACACTC
7421855 ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
7421884 TGTATGTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:7425927 original size:25 final size:27
Alignment explanation
Indices: 7425873--7425931 Score: 79
Period size: 25 Copynumber: 2.3 Consensus size: 27
7425863 TATTATAAGT
7425873 TATA-ATAATGTTTATGTATAAATTAAA
1 TATATATAATGTTTA-GTATAAATTAAA
*
7425900 TATATATAATGTTTA-TAT-AATTATA
1 TATATATAATGTTTAGTATAAATTAAA
7425925 TATATAT
1 TATATAT
7425932 TCATAATATT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 13 0.43
26 3 0.10
27 4 0.13
28 10 0.33
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (27 bp):
TATATATAATGTTTAGTATAAATTAAA
Found at i:7426091 original size:4 final size:4
Alignment explanation
Indices: 7426082--7426114 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
7426072 ATACAGATTT
*
7426082 ATAA ATAA ATAA ATAA GTAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
7426115 ATTAAAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:7426255 original size:29 final size:30
Alignment explanation
Indices: 7426213--7426273 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
7426203 TCAATTCTTC
*
7426213 TTAATATATAT-AAAA-ATATTATATATATA
1 TTAATAAATATAAAAATATATTATA-ATATA
7426242 TTAATAAATATAAAAATATATTATAATATA
1 TTAATAAATATAAAAATATATTATAATATA
7426272 TT
1 TT
7426274 TATTTGATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 10 0.34
30 11 0.38
31 8 0.28
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (30 bp):
TTAATAAATATAAAAATATATTATAATATA
Found at i:7426273 original size:10 final size:10
Alignment explanation
Indices: 7426214--7426273 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
7426204 CAATTCTTCT
7426214 TAATATA-TA
1 TAATATATTA
*
7426223 TAAAAATATTA
1 T-AATATATTA
7426234 TATATATATTAA
1 TA-ATATATT-A
*
7426246 TAA-ATATAA
1 TAATATATTA
*
7426255 AAATATATTA
1 TAATATATTA
7426265 TAATATATT
1 TAATATATT
7426274 TATTTGATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
9 4 0.10
10 23 0.57
11 10 0.25
12 3 0.08
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (10 bp):
TAATATATTA
Found at i:7426818 original size:25 final size:25
Alignment explanation
Indices: 7426790--7426837 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
7426780 TAAATTAATC
* *
7426790 ATTTTTTATATTTACTAATTTTTTT
1 ATTTTTGATATTTAATAATTTTTTT
7426815 ATTTTTGATATTTAATAATTTTT
1 ATTTTTGATATTTAATAATTTTT
7426838 AATTTTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (25 bp):
ATTTTTGATATTTAATAATTTTTTT
Found at i:7427655 original size:2 final size:2
Alignment explanation
Indices: 7427648--7427696 Score: 59
Period size: 2 Copynumber: 26.0 Consensus size: 2
7427638 AATGTTGTGA
*
7427648 AT AT AT AT AT AT AT AT AT -T AT -T AT AT AA AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
7427687 AT AC AT AT AT
1 AT AT AT AT AT
7427697 TTAATTTATA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
1 3 0.08
2 37 0.93
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7427928 original size:220 final size:219
Alignment explanation
Indices: 7427649--7428313 Score: 912
Period size: 220 Copynumber: 3.1 Consensus size: 219
7427639 ATGTTGTGAA
7427649 TATATATATATATATATTATTATATAAA-TATAT-TATATATACATATATTTAATTTATACATAA
1 TATATATATATATATA-TA-TA-ATAAAGTATATATATATATACATATATTTAATTTATACATAA
* * * * *
7427712 GTATAACTATAATTTATAATAAACTTTATTTATATTATTACATTTAATAACTTTATTAGTTATCA
63 GCATTACTATAACTTATAATAAACTTTATTTATATGATTACAATTAATAACTTTATTAGTTATCA
* *
7427777 CTTTAGATTTTATAATATATTATTTATAATTATTTATTATTTATACAAACTTTGACATAAAACAT
128 CTTTAGATTTTATAATATATTGTTTATAATTATTTATTATTTATACAAACTTTGATATAAAACAT
7427842 TATAACATATAAGTTATGTCATTAATT
193 TATAACATATAAGTTATGTCATTAATT
* *
7427869 TCATATATATATATATATATAATAAAGTCACATAT-TATATAGATATATTTAATTTATACATAAG
1 T-ATATATATATATATATATAATAAAGT-ATATATATATATACATATATTTAATTTATACATAAG
* *
7427933 CATTATTATAACTTATAATAGACTTTATTTATATGATTACAATTAATAACTTTATTAGTTATCA-
64 CATTACTATAACTTATAATAAACTTTATTTATATGATTACAATTAATAACTTTATTAGTTATCAC
* * *
7427997 TCTTAGATTTTATAATATATTGTTTATAATTAGTTATTTTTTATACAAACTTTTATATAAAACAT
129 T-TTAGATTTTATAATATATTGTTTATAATTATTTATTATTTATACAAACTTTGATATAAAACAT
*
7428062 TTTAACATATAA-TT-TGT-A-TAATT
193 TATAACATATAAGTTATGTCATTAATT
*
7428085 AAT-TATATATATA-ATA-AAGT-AA-TATAT-TATATATACATATATTTAATTTATACATAAGC
1 TATATATATATATATATATAA-TAAAGTATATATATATATACATATATTTAATTTATACATAAGC
* * *
7428144 ATTACTATAACTTATAATAAACTTTATTTATATGATTACACTTAATAAGTTTATTAGCTATCACC
65 ATTACTATAACTTATAATAAACTTTATTTATATGATTACAATTAATAACTTTATTAGTTATCA-C
* * * *
7428209 TTCA-ATTTTATAACATATTGTTTATAATTATTTATTATTTATACAAATTTTGATATAAAATATT
129 TTTAGATTTTATAATATATTGTTTATAATTATTTATTATTTATACAAACTTTGATATAAAACATT
* * *
7428273 AAAATATATAAGTTATATCATTAATT
194 ATAACATATAAGTTATGTCATTAATT
7428299 TA-ATATATATATATA
1 TATATATATATATATA
7428314 ATTATGGATG
Statistics
Matches: 395, Mismatches: 35, Indels: 35
0.85 0.08 0.08
Matches are distributed among these distances:
209 1 0.00
210 152 0.38
211 5 0.01
212 7 0.02
213 5 0.01
214 26 0.07
215 3 0.01
216 5 0.01
217 1 0.00
218 8 0.02
219 6 0.02
220 160 0.41
221 16 0.04
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.47
Consensus pattern (219 bp):
TATATATATATATATATATAATAAAGTATATATATATATACATATATTTAATTTATACATAAGCA
TTACTATAACTTATAATAAACTTTATTTATATGATTACAATTAATAACTTTATTAGTTATCACTT
TAGATTTTATAATATATTGTTTATAATTATTTATTATTTATACAAACTTTGATATAAAACATTAT
AACATATAAGTTATGTCATTAATT
Found at i:7428219 original size:210 final size:209
Alignment explanation
Indices: 7427684--7428314 Score: 800
Period size: 210 Copynumber: 3.0 Consensus size: 209
7427674 AAATATATTA
* * * *
7427684 TATATACATATATTTAATTTATACATAAGTATAACTATAATTTATAATAAACTTTATTTATATTA
1 TATATACATATATTTAATTTATACATAAGCATTACTATAACTTATAATAAACTTTATTTATATGA
* * * * * *
7427749 TTACATTTAATAACTTTATTAGTTATCACTTTAGATTTTATAATATATTATTTATAATTATTTAT
66 TTACAATTAATAACTTTATTAGCTATCACCTTAGATTTTATAACATATTGTTTATAATTAGTTAT
* * *
7427814 TATTTATACAAACTTTGACATAAAACATTATAACATATAAGTTATGTCATTAATTTCATATATAT
131 TATTTATACAAATTTTGATATAAAACATTAAAACATATAAGTTA--T-A-TAA--T--TA-AT-T
*
7427879 ATATATATATAATAAAGTCACATAT
186 -TATATATATAATAAAGTAACATAT
* * *
7427904 TATATAGATATATTTAATTTATACATAAGCATTATTATAACTTATAATAGACTTTATTTATATGA
1 TATATACATATATTTAATTTATACATAAGCATTACTATAACTTATAATAAACTTTATTTATATGA
* * *
7427969 TTACAATTAATAACTTTATTAGTTATCATCTTAGATTTTATAATATATTGTTTATAATTAGTTAT
66 TTACAATTAATAACTTTATTAGCTATCACCTTAGATTTTATAACATATTGTTTATAATTAGTTAT
* ** * *
7428034 TTTTTATACAAACTTTT-ATATAAAACATTTTAACATATAATTTGTATAATTAA-TTATATATAT
131 TATTTATACAAA-TTTTGATATAAAACATTAAAACATATAAGTTATATAATTAATTTATATATAT
*
7428097 AATAAAGTAATATATT
195 AATAAAGTAACATA-T
7428113 ATATATACATATATTTAATTTATACATAAGCATTACTATAACTTATAATAAACTTTATTTATATG
1 -TATATACATATATTTAATTTATACATAAGCATTACTATAACTTATAATAAACTTTATTTATATG
* * *
7428178 ATTACACTTAATAAGTTTATTAGCTATCACCTTCA-ATTTTATAACATATTGTTTATAATTATTT
65 ATTACAATTAATAACTTTATTAGCTATCACCTT-AGATTTTATAACATATTGTTTATAATTAGTT
* * *
7428242 ATTATTTATACAAATTTTGATATAAAATATTAAAATATATAAGTTATATCATTAATTTAATATAT
129 ATTATTTATACAAATTTTGATATAAAACATTAAAACATATAAGTTATATAATTAATTT-ATATAT
7428307 ATATATAA
193 ATA-ATAA
7428315 TTATGGATGA
Statistics
Matches: 366, Mismatches: 37, Indels: 23
0.86 0.09 0.05
Matches are distributed among these distances:
208 21 0.06
209 6 0.02
210 159 0.43
211 4 0.01
212 11 0.03
213 4 0.01
214 1 0.00
216 3 0.01
217 1 0.00
218 1 0.00
220 152 0.42
221 3 0.01
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.47
Consensus pattern (209 bp):
TATATACATATATTTAATTTATACATAAGCATTACTATAACTTATAATAAACTTTATTTATATGA
TTACAATTAATAACTTTATTAGCTATCACCTTAGATTTTATAACATATTGTTTATAATTAGTTAT
TATTTATACAAATTTTGATATAAAACATTAAAACATATAAGTTATATAATTAATTTATATATATA
ATAAAGTAACATAT
Found at i:7429479 original size:55 final size:54
Alignment explanation
Indices: 7429419--7429585 Score: 127
Period size: 55 Copynumber: 3.1 Consensus size: 54
7429409 GATCGACTTG
*
7429419 AGAAAATTAATTATCTTTTGGTGAGAATTAAGACCCATAAGTACATATAAAAGAA
1 AGAAAATTAATTATCTTTTGGTAAGAA-TAAGACCCATAAGTACATATAAAAGAA
* * * * * ** * *
7429474 AGAAAATT--TTGGTCCTATGATTATGAACCAGTA---ATTAGTA-AT-TAATA-AA
1 AGAAAATTAATT-ATCTTTTG-GTAAGAATAAG-ACCCATAAGTACATATAAAAGAA
7429523 AGAAAATTAATTATCTTTTGGTAAGAAGTAAGACCCATGAA-TACATATAAAAGAA
1 AGAAAATTAATTATCTTTTGGTAAGAA-TAAGACCCAT-AAGTACATATAAAAGAA
7429578 AGAAAATT
1 AGAAAATT
7429586 TTGGTCCTAT
Statistics
Matches: 80, Mismatches: 19, Indels: 26
0.64 0.15 0.21
Matches are distributed among these distances:
49 16 0.20
50 11 0.14
51 4 0.05
52 10 0.12
53 5 0.06
54 11 0.14
55 23 0.29
ACGTcount: A:0.47, C:0.08, G:0.14, T:0.30
Consensus pattern (54 bp):
AGAAAATTAATTATCTTTTGGTAAGAATAAGACCCATAAGTACATATAAAAGAA
Found at i:7429599 original size:104 final size:104
Alignment explanation
Indices: 7429419--7429625 Score: 371
Period size: 104 Copynumber: 2.0 Consensus size: 104
7429409 GATCGACTTG
* *
7429419 AGAAAATTAATTATCTTTTGGTGAGAATTAAGACCCATAAGTACATATAAAAGAAAGAAAATTTT
1 AGAAAATTAATTATCTTTTGGTAAGAAGTAAGACCCATAAGTACATATAAAAGAAAGAAAATTTT
7429484 GGTCCTATGATTATGAACCAGTAATTAGTAATTAATAAA
66 GGTCCTATGATTATGAACCAGTAATTAGTAATTAATAAA
7429523 AGAAAATTAATTATCTTTTGGTAAGAAGTAAGACCCATGAA-TACATATAAAAGAAAGAAAATTT
1 AGAAAATTAATTATCTTTTGGTAAGAAGTAAGACCCAT-AAGTACATATAAAAGAAAGAAAATTT
*
7429587 TGGTCCTATGATTATGAACCAGTCATTAGTAATTAATAA
65 TGGTCCTATGATTATGAACCAGTAATTAGTAATTAATAA
7429626 GCCACGGGTG
Statistics
Matches: 99, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
104 97 0.98
105 2 0.02
ACGTcount: A:0.45, C:0.09, G:0.14, T:0.31
Consensus pattern (104 bp):
AGAAAATTAATTATCTTTTGGTAAGAAGTAAGACCCATAAGTACATATAAAAGAAAGAAAATTTT
GGTCCTATGATTATGAACCAGTAATTAGTAATTAATAAA
Found at i:7432018 original size:5 final size:5
Alignment explanation
Indices: 7432008--7432034 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
7431998 ATAAAGGGGA
7432008 AAGGG AAGGG AAGGG AAGGG AAGGG AA
1 AAGGG AAGGG AAGGG AAGGG AAGGG AA
7432035 CTTACAAACT
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:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (5 bp):
AAGGG
Found at i:7435491 original size:2 final size:2
Alignment explanation
Indices: 7435484--7435508 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7435474 CTTTCACATG
7435484 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
7435509 GTTATATGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7457504 original size:2 final size:2
Alignment explanation
Indices: 7457497--7457524 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7457487 AAGTTAGTTC
7457497 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7457525 TGCTGGATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7460601 original size:127 final size:127
Alignment explanation
Indices: 7460336--7460571 Score: 285
Period size: 127 Copynumber: 1.9 Consensus size: 127
7460326 TTTACTCCTT
* * *
7460336 TCAATTGTGCAACACCTTCATTGCGTTGGTTCTTTACTCGTAAAAGGGATAAACTCTTATACTAG
1 TCAATTGTGCAACACCTTCATTGCATTGGTTCTTTACCCGTAAAAGAGATAAACTCTTATACTAG
* * * *
7460401 TTCAGATCTACCTTGACTCTTGTGTATCTTATATCTCTTAGATTCATAACATTATATCTTAC
66 TTCAGATCTACCTTGACTCTTATATATCTTATACCTATTAGATTCATAACATTATATCTTAC
* * * * * ** *
7460463 TCAATTATGCAACACTTTCGTTGCATTGGTTTTTTACCCGTAGAAGAGATTGACT-TATTTACTA
1 TCAATTGTGCAACACCTTCATTGCATTGGTTCTTTACCCGTAAAAGAGATAAACTCT-TATACTA
** * *
7460527 GTTTGGATCTATCTTGACTCTTATATATCTTATACCTATTTGATT
65 GTTCAGATCTACCTTGACTCTTATATATCTTATACCTATTAGATT
7460572 TGTAACATCC
Statistics
Matches: 89, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
126 1 0.01
127 88 0.99
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.42
Consensus pattern (127 bp):
TCAATTGTGCAACACCTTCATTGCATTGGTTCTTTACCCGTAAAAGAGATAAACTCTTATACTAG
TTCAGATCTACCTTGACTCTTATATATCTTATACCTATTAGATTCATAACATTATATCTTAC
Found at i:7461848 original size:14 final size:14
Alignment explanation
Indices: 7461825--7461869 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
7461815 AATTTACACC
7461825 AAAT-ATAATAAA-
1 AAATAATAATAAAT
7461837 ATAATAATAATAAAT
1 A-AATAATAATAAAT
7461852 AAATAATAA-AAAT
1 AAATAATAATAAAT
*
7461865 GAATA
1 AAATA
7461870 TCGACGCCGA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
12 1 0.03
13 11 0.38
14 16 0.55
15 1 0.03
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (14 bp):
AAATAATAATAAAT
Found at i:7461869 original size:17 final size:17
Alignment explanation
Indices: 7461825--7461869 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
7461815 AATTTACACC
7461825 AAATATAATAAAATAATAA
1 AAATA-AAT-AAATAATAA
*
7461844 TAATAAATAAATAATAA
1 AAATAAATAAATAATAA
*
7461861 AAATGAATA
1 AAATAAATA
7461870 TCGACGCCGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 16 0.70
18 3 0.13
19 4 0.17
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (17 bp):
AAATAAATAAATAATAA
Found at i:7468721 original size:63 final size:63
Alignment explanation
Indices: 7468634--7468762 Score: 195
Period size: 63 Copynumber: 2.0 Consensus size: 63
7468624 TGATTGTAAG
* * * * * *
7468634 AATTGTATTGAGATCGAAATGAAATATCATGGTTGAGTAGAGCATGTATTAAAATGTTGATTA
1 AATTATATTGAGATCGAAATGAAATATCATGATTGAGCAAAGCATATATTAAAATGTTAATTA
*
7468697 AATTATATTGAGATTGAAATGAAATATCATGATTGAGCAAAGCATATATTAAAATGTTAATTA
1 AATTATATTGAGATCGAAATGAAATATCATGATTGAGCAAAGCATATATTAAAATGTTAATTA
7468760 AAT
1 AAT
7468763 GTGAAAGGGA
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
63 59 1.00
ACGTcount: A:0.43, C:0.05, G:0.18, T:0.35
Consensus pattern (63 bp):
AATTATATTGAGATCGAAATGAAATATCATGATTGAGCAAAGCATATATTAAAATGTTAATTA
Found at i:7493558 original size:17 final size:18
Alignment explanation
Indices: 7493536--7493579 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
7493526 TTATAAATAT
*
7493536 TTAAATTTAGATGTAA-A
1 TTAAATTTAGATGAAAGA
7493553 TTAAA-TTAGATGAAAGA
1 TTAAATTTAGATGAAAGA
7493570 TTAAGATTTA
1 TTAA-ATTTA
7493580 ATCCATCTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 9 0.39
17 10 0.43
18 1 0.04
19 3 0.13
ACGTcount: A:0.48, C:0.00, G:0.14, T:0.39
Consensus pattern (18 bp):
TTAAATTTAGATGAAAGA
Found at i:7511934 original size:17 final size:17
Alignment explanation
Indices: 7511912--7511946 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
7511902 ATGAGCGAGA
* *
7511912 GAGAGAGAGAGAGGCAG
1 GAGAGACAGAGAGACAG
7511929 GAGAGACAGAGAGACAG
1 GAGAGACAGAGAGACAG
7511946 G
1 G
7511947 GACAGAGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.43, C:0.09, G:0.49, T:0.00
Consensus pattern (17 bp):
GAGAGACAGAGAGACAG
Found at i:7516054 original size:45 final size:45
Alignment explanation
Indices: 7515965--7516159 Score: 191
Period size: 45 Copynumber: 4.4 Consensus size: 45
7515955 CAACTTGCCA
* * * * * *
7515965 CCGGTTACTGTCCCTCCAATTGTAAAACCA-CCAGTCACAGTCCCT
1 CCGGTGACTGTCCCTCCAATTGTGAAGCCACCCATTAAC-CTCCCT
*
7516010 CCGGTGACTGTGCCTCCAATTGTGAAGCCACCCATTAACCTCCCT
1 CCGGTGACTGTCCCTCCAATTGTGAAGCCACCCATTAACCTCCCT
** * ** * * *
7516055 CCGGTGACAATTCCTCCCGTTGTGAAGCCGCCAATCAACCTCCCT
1 CCGGTGACTGTCCCTCCAATTGTGAAGCCACCCATTAACCTCCCT
*
7516100 CCAGTGA---TCCCTCCAATTGTGAAGCCACCCATTAACCTCCCT
1 CCGGTGACTGTCCCTCCAATTGTGAAGCCACCCATTAACCTCCCT
**
7516142 CCGGTGACACTCCCTCCA
1 CCGGTGACTGTCCCTCCA
7516160 GTGACGGTGC
Statistics
Matches: 123, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
42 35 0.28
45 82 0.67
46 6 0.05
ACGTcount: A:0.22, C:0.40, G:0.15, T:0.23
Consensus pattern (45 bp):
CCGGTGACTGTCCCTCCAATTGTGAAGCCACCCATTAACCTCCCT
Found at i:7516137 original size:42 final size:42
Alignment explanation
Indices: 7516022--7516148 Score: 164
Period size: 42 Copynumber: 3.0 Consensus size: 42
7516012 GGTGACTGTG
*
7516022 CCTCCAATTGTGAAGCCACCCATTAACCTCCCTCCGGTGACAATT
1 CCTCCAATTGTGAAGCCACCCATTAACCTCCCTCCGGTG---ATC
** * * * *
7516067 CCTCCCGTTGTGAAGCCGCCAATCAACCTCCCTCCAGTGATC
1 CCTCCAATTGTGAAGCCACCCATTAACCTCCCTCCGGTGATC
7516109 CCTCCAATTGTGAAGCCACCCATTAACCTCCCTCCGGTGA
1 CCTCCAATTGTGAAGCCACCCATTAACCTCCCTCCGGTGA
7516149 CACTCCCTCC
Statistics
Matches: 69, Mismatches: 13, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
42 36 0.52
45 33 0.48
ACGTcount: A:0.22, C:0.40, G:0.15, T:0.23
Consensus pattern (42 bp):
CCTCCAATTGTGAAGCCACCCATTAACCTCCCTCCGGTGATC
Found at i:7517844 original size:2 final size:2
Alignment explanation
Indices: 7517839--7517870 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
7517829 GAGCAGCCTT
7517839 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7517871 GTTCCATTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7527426 original size:153 final size:154
Alignment explanation
Indices: 7527147--7527428 Score: 408
Period size: 153 Copynumber: 1.8 Consensus size: 154
7527137 AGCAGGAGGT
* ** * * *
7527147 TAGGAGGCCATTGCAAAGAATAGTCTTTTTGGTAATACATTAACATAAAAGAATCTATCATCACC
1 TAGGAGGCCATTACAAAGAATAGAATTTTTGGTAACACAGTAACATAAAAGAATATATCATCACC
* ** *
7527212 AATAACAATGACTATCACCCCATACACCACTTGTGAAGGAAAAAACTCCACAATGAACTTTATAA
66 AAGAACAATGACTATCACCCCATACACCACCGGTGAAGCAAAAAACTCCACAATGAACTTTATAA
7527277 GTTTGTCACGTGCTGATAATACAG
131 GTTTGTCACGTGCTGATAATACAG
7527301 TAGGAGGCCATTACAATAGAATAGAATTTTTGGTAACACAGTAACAT-AAAGAATATATCATCAC
1 TAGGAGGCCATTACAA-AGAATAGAATTTTTGGTAACACAGTAACATAAAAGAATATATCATCAC
** *
7527365 CAAGAAC-ATGACTATCACCTGATATACCACCGGTGAAGCAAAAAACTCCACAATCG-ACTTTAT
65 CAAGAACAATGACTATCACCCCATACACCACCGGTGAAGCAAAAAACTCCACAAT-GAACTTTAT
7527428 A
129 A
7527429 CATTAGTCAC
Statistics
Matches: 113, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
153 49 0.43
154 38 0.34
155 26 0.23
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.25
Consensus pattern (154 bp):
TAGGAGGCCATTACAAAGAATAGAATTTTTGGTAACACAGTAACATAAAAGAATATATCATCACC
AAGAACAATGACTATCACCCCATACACCACCGGTGAAGCAAAAAACTCCACAATGAACTTTATAA
GTTTGTCACGTGCTGATAATACAG
Found at i:7528457 original size:14 final size:15
Alignment explanation
Indices: 7528438--7528467 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7528428 GCGAAAGGGC
7528438 TTTCC-TTTTTTCTT
1 TTTCCTTTTTTTCTT
7528452 TTTCCTTTTTTTCTT
1 TTTCCTTTTTTTCTT
7528467 T
1 T
7528468 AAGTCCAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTCCTTTTTTTCTT
Found at i:7530646 original size:6 final size:6
Alignment explanation
Indices: 7530635--7530661 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
7530625 TCAATTTGTT
7530635 AAAAGA AAAAGA AAAAGA AAAAGA AAA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAA
7530662 CCTGTTTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:7537695 original size:25 final size:24
Alignment explanation
Indices: 7537651--7537703 Score: 79
Period size: 25 Copynumber: 2.2 Consensus size: 24
7537641 TAAAACAAAG
* *
7537651 TTTTATTTTTTAAAAATTTTATAA
1 TTTTATTTTCTAAAAATTTTAAAA
7537675 TTTTATTTCTCTAAAAATTTTAAAA
1 TTTTATTT-TCTAAAAATTTTAAAA
7537700 TTTT
1 TTTT
7537704 TATAATATAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 8 0.31
25 18 0.69
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (24 bp):
TTTTATTTTCTAAAAATTTTAAAA
Found at i:7537793 original size:62 final size:63
Alignment explanation
Indices: 7537634--7537885 Score: 323
Period size: 63 Copynumber: 4.0 Consensus size: 63
7537624 TCCACCCTCC
* * * * * *
7537634 AAAA-TTTTAAAACAAAGTTTTATTTTTTAAAAATTTTATAATTTTATTTCT-CTAAAAATTTT
1 AAAATTTTTATAACATACTTTTATTTTTTTAGAATTTTATAATTTTACTTCTAC-AAAAATTTT
*
7537696 AAAATTTTTATAATATACTTTTACTTTTTTTAGAATTTTATAATTTTACTTCTA-AAAAATTTT
1 AAAATTTTTATAACATACTTTTA-TTTTTTTAGAATTTTATAATTTTACTTCTACAAAAATTTT
*
7537759 AAAATTTTTATAACATACTTTTATTTTTTTAGAATTTTATAATTTTTTCTT-TACAAAAATTTT
1 AAAATTTTTATAACATACTTTTATTTTTTTAGAATTTTATAA-TTTTACTTCTACAAAAATTTT
* * * * * *
7537822 AAAATTTTGATACCATATTTTTATATTTTTAGAATTTTATAATTTTACCTCTACAATAATTTT
1 AAAATTTTTATAACATACTTTTATTTTTTTAGAATTTTATAATTTTACTTCTACAAAAATTTT
7537885 A
1 A
7537886 TCACATGCCA
Statistics
Matches: 168, Mismatches: 16, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
62 31 0.18
63 111 0.66
64 26 0.15
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.54
Consensus pattern (63 bp):
AAAATTTTTATAACATACTTTTATTTTTTTAGAATTTTATAATTTTACTTCTACAAAAATTTT
Found at i:7551677 original size:2 final size:2
Alignment explanation
Indices: 7551670--7551704 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
7551660 GGTAAGCATT
7551670 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
7551705 ATTATTGTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:7561496 original size:24 final size:24
Alignment explanation
Indices: 7561468--7561519 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
7561458 TCACATATTT
* *
7561468 ATTTACTTA-ATAATTTATATTGTA
1 ATTTACTTATAAAATTTA-ATTATA
*
7561492 ATTTATTTATAAAATTTAATTATA
1 ATTTACTTATAAAATTTAATTATA
7561516 ATTT
1 ATTT
7561520 TGTAAATTCG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (24 bp):
ATTTACTTATAAAATTTAATTATA
Found at i:7563413 original size:2 final size:2
Alignment explanation
Indices: 7563406--7563433 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7563396 ATCACTGCTT
7563406 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7563434 ATGCAAAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7566512 original size:2 final size:2
Alignment explanation
Indices: 7566505--7566530 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7566495 TTGTTTCATT
7566505 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
7566531 AAGGTTTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7574909 original size:2 final size:2
Alignment explanation
Indices: 7574884--7574925 Score: 50
Period size: 2 Copynumber: 21.5 Consensus size: 2
7574874 TAACACTGTA
* * *
7574884 AG AG A- AG AA AG AC AG AG GG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
7574925 A
1 A
7574926 ATGATAACTG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.52, C:0.02, G:0.45, T:0.00
Consensus pattern (2 bp):
AG
Found at i:7579971 original size:20 final size:18
Alignment explanation
Indices: 7579946--7580005 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
7579936 AGACAGGTTG
7579946 AGAAAAAAAAAAGTAGAAGA
1 AGAAAAAAAAAAGTA-AA-A
**
7579966 AGAAAATGAAAA-TAAAA
1 AGAAAAAAAAAAGTAAAA
*
7579983 AGAAAAAAAGAAAG-AAAG
1 AGAAAAAAA-AAAGTAAAA
7580001 AGAAA
1 AGAAA
7580006 GGAACGAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
17 8 0.24
18 13 0.39
19 2 0.06
20 10 0.30
ACGTcount: A:0.77, C:0.00, G:0.18, T:0.05
Consensus pattern (18 bp):
AGAAAAAAAAAAGTAAAA
Found at i:7580326 original size:2 final size:2
Alignment explanation
Indices: 7580314--7580348 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
7580304 ACTCTATTGT
*
7580314 TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7580349 CAAAATTCCT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:7581362 original size:17 final size:17
Alignment explanation
Indices: 7581332--7581371 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
7581322 AATATGGAGA
* *
7581332 AAGAATAATTAAACAAG
1 AAGAAAAATAAAACAAG
7581349 AAGAAAAATAAAACAAG
1 AAGAAAAATAAAACAAG
7581366 -AGAAAA
1 AAGAAAA
7581372 TCCACCTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.72, C:0.05, G:0.12, T:0.10
Consensus pattern (17 bp):
AAGAAAAATAAAACAAG
Found at i:7583600 original size:26 final size:26
Alignment explanation
Indices: 7583571--7583625 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
7583561 TTATTTGAAA
*
7583571 TCAAATATACTCTTATAACTAATGAT
1 TCAAATAAACTCTTATAACTAATGAT
7583597 TCAAATAAACTCTTATAACTAATGAT
1 TCAAATAAACTCTTATAACTAATGAT
7583623 TCA
1 TCA
7583626 CTTAATTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.44, C:0.16, G:0.04, T:0.36
Consensus pattern (26 bp):
TCAAATAAACTCTTATAACTAATGAT
Found at i:7584225 original size:28 final size:28
Alignment explanation
Indices: 7584193--7584247 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
7584183 GATTGAAACT
7584193 TTATTTATATTT-GATGTAATTTATTTGC
1 TTATTTATATTTAG-TGTAATTTATTTGC
7584221 TTATTTATATTTAGTGTAATTTATTTG
1 TTATTTATATTTAGTGTAATTTATTTG
7584248 TTTGTAACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 25 0.96
29 1 0.04
ACGTcount: A:0.25, C:0.02, G:0.11, T:0.62
Consensus pattern (28 bp):
TTATTTATATTTAGTGTAATTTATTTGC
Found at i:7586250 original size:6 final size:6
Alignment explanation
Indices: 7586239--7586269 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
7586229 GAGCTAAATT
7586239 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA A
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA A
7586270 ATTGAATGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
ATAAAA
Found at i:7587983 original size:2 final size:2
Alignment explanation
Indices: 7587978--7588002 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7587968 AGAGTGTGTG
7587978 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
7588003 TTATGTAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7589551 original size:21 final size:22
Alignment explanation
Indices: 7589505--7589556 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
7589495 ATTACGTGAC
* * *
7589505 TTAATCATTATATGATTAGTTT
1 TTAAACATTACATGATTAGATT
*
7589527 TTAAGCATTACATGATT-GATT
1 TTAAACATTACATGATTAGATT
7589548 TTAAACATT
1 TTAAACATT
7589557 GTGTAACTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.35, C:0.08, G:0.10, T:0.48
Consensus pattern (22 bp):
TTAAACATTACATGATTAGATT
Found at i:7589655 original size:22 final size:22
Alignment explanation
Indices: 7589627--7589726 Score: 78
Period size: 22 Copynumber: 4.5 Consensus size: 22
7589617 CCTTACTAAT
7589627 TAGTCACGCAATGCCTATCAAC
1 TAGTCACGCAATGCCTATCAAC
** * *
7589649 TAGTCACATAATGTCTATCAAT
1 TAGTCACGCAATGCCTATCAAC
* * *
7589671 TAATCACGCAATGTCATATTAAC
1 TAGTCACGCAATG-CCTATCAAC
* * *
7589694 TAGTCACACAATACCTA--AAA
1 TAGTCACGCAATGCCTATCAAC
7589714 TGAGTCACGCAAT
1 T-AGTCACGCAAT
7589727 ACTTAAAAAT
Statistics
Matches: 59, Mismatches: 17, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
20 3 0.05
21 10 0.17
22 31 0.53
23 15 0.25
ACGTcount: A:0.38, C:0.24, G:0.11, T:0.27
Consensus pattern (22 bp):
TAGTCACGCAATGCCTATCAAC
Found at i:7589721 original size:21 final size:22
Alignment explanation
Indices: 7589695--7589748 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
7589685 CATATTAACT
7589695 AGTCACACAATACCT-AAAATG
1 AGTCACACAATACCTAAAAATG
* * *
7589716 AGTCACGCAATACTTAAAAATT
1 AGTCACACAATACCTAAAAATG
7589738 AGTCACACAAT
1 AGTCACACAAT
7589749 GTCCAAAGTC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 13 0.46
22 15 0.54
ACGTcount: A:0.46, C:0.22, G:0.09, T:0.22
Consensus pattern (22 bp):
AGTCACACAATACCTAAAAATG
Found at i:7589722 original size:44 final size:44
Alignment explanation
Indices: 7589628--7589726 Score: 110
Period size: 44 Copynumber: 2.2 Consensus size: 44
7589618 CTTACTAATT
* * ** * *
7589628 AGTCACGCAATGCCTATCAACTAGTCACATAATGTCTATCAATT
1 AGTCACGCAATGCATATCAACTAGTCACACAATACCTATAAATG
* *
7589672 AATCACGCAATGTCATATTAACTAGTCACACAATACCTA-AAATG
1 AGTCACGCAATG-CATATCAACTAGTCACACAATACCTATAAATG
7589716 AGTCACGCAAT
1 AGTCACGCAAT
7589727 ACTTAAAAAT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
44 24 0.53
45 21 0.47
ACGTcount: A:0.38, C:0.24, G:0.11, T:0.26
Consensus pattern (44 bp):
AGTCACGCAATGCATATCAACTAGTCACACAATACCTATAAATG
Found at i:7589763 original size:43 final size:43
Alignment explanation
Indices: 7589694--7589783 Score: 103
Period size: 43 Copynumber: 2.1 Consensus size: 43
7589684 TCATATTAAC
*
7589694 TAGTCACACAATACCTAAAATGAGTCACGCAATA-CTTAAAAAT
1 TAGTCACACAATACCTAAAATCAGTCACGCAA-AGCTTAAAAAT
* * * *
7589737 TAGTCACACAATGTCC-AAAGTCAGTCACGTAAAGTTTAAAAAT
1 TAGTCACACAAT-ACCTAAAATCAGTCACGCAAAGCTTAAAAAT
7589780 TAGT
1 TAGT
7589784 AACGTAATGC
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
42 1 0.03
43 37 0.93
44 2 0.05
ACGTcount: A:0.43, C:0.19, G:0.12, T:0.26
Consensus pattern (43 bp):
TAGTCACACAATACCTAAAATCAGTCACGCAAAGCTTAAAAAT
Found at i:7589797 original size:22 final size:22
Alignment explanation
Indices: 7589763--7589805 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
7589753 AAAGTCAGTC
* *
7589763 ACGTAAAGTTTAAAAATTAGTA
1 ACGTAAAGCTTAAAAACTAGTA
*
7589785 ACGTAATGCTTAAAAACTAGT
1 ACGTAAAGCTTAAAAACTAGT
7589806 CATATAATAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.47, C:0.09, G:0.14, T:0.30
Consensus pattern (22 bp):
ACGTAAAGCTTAAAAACTAGTA
Found at i:7592619 original size:16 final size:16
Alignment explanation
Indices: 7592598--7592655 Score: 57
Period size: 16 Copynumber: 3.7 Consensus size: 16
7592588 ATTATTTTTT
7592598 ATTAATTAATATATAA
1 ATTAATTAATATATAA
* *
7592614 ATTAA-TAATTTATTA
1 ATTAATTAATATATAA
* *
7592629 ATT-ATATAATATCTCA
1 ATTAAT-TAATATATAA
7592645 ATTAATTAATA
1 ATTAATTAATA
7592656 AATTTTTATA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
14 1 0.03
15 11 0.32
16 20 0.59
17 2 0.06
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (16 bp):
ATTAATTAATATATAA
Found at i:7596057 original size:2 final size:2
Alignment explanation
Indices: 7596050--7596098 Score: 62
Period size: 2 Copynumber: 24.5 Consensus size: 2
7596040 GATCATGGAG
* * * *
7596050 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT TT AT TT AT TT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7596092 AT AT AT A
1 AT AT AT A
7596099 ATCATTACTA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (2 bp):
AT
Found at i:7598058 original size:27 final size:26
Alignment explanation
Indices: 7597993--7598061 Score: 79
Period size: 27 Copynumber: 2.7 Consensus size: 26
7597983 CTCAGGGATA
* *
7597993 TTCTAAAC-TAGAAGCACTTAAGGTG
1 TTCTAAACATAGAAACACTGAAGGTG
*
7598018 TTCT-AACTACAGAAACACTCGAAGGTG
1 TTCTAAAC-ATAGAAACACT-GAAGGTG
7598045 TTCTAAACATAGAAACA
1 TTCTAAACATAGAAACA
7598062 TCAAAAAGCA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
24 3 0.08
25 4 0.11
26 8 0.22
27 18 0.50
28 3 0.08
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.25
Consensus pattern (26 bp):
TTCTAAACATAGAAACACTGAAGGTG
Found at i:7598209 original size:31 final size:31
Alignment explanation
Indices: 7598174--7598235 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
7598164 AGCGCTTATG
7598174 AGCATTTCAAGCTTAAAAGCACCCAAGGGCA
1 AGCATTTCAAGCTTAAAAGCACCCAAGGGCA
7598205 AGCATTTCAAGCTTAAAAGCACCCAAGGGCA
1 AGCATTTCAAGCTTAAAAGCACCCAAGGGCA
7598236 TTTCAAGTCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.39, C:0.26, G:0.19, T:0.16
Consensus pattern (31 bp):
AGCATTTCAAGCTTAAAAGCACCCAAGGGCA
Found at i:7598239 original size:27 final size:29
Alignment explanation
Indices: 7598173--7598242 Score: 108
Period size: 31 Copynumber: 2.4 Consensus size: 29
7598163 AAGCGCTTAT
7598173 GAGCATTTCAAGCTTAAAAGCACCCAAGG
1 GAGCATTTCAAGCTTAAAAGCACCCAAGG
7598202 GCAAGCATTTCAAGCTTAAAAGCACCCAA-G
1 G--AGCATTTCAAGCTTAAAAGCACCCAAGG
7598232 G-GCATTTCAAG
1 GAGCATTTCAAG
7598243 TCCAGAAGCG
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
27 10 0.26
29 1 0.03
30 2 0.05
31 26 0.67
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.19
Consensus pattern (29 bp):
GAGCATTTCAAGCTTAAAAGCACCCAAGG
Found at i:7598284 original size:16 final size:16
Alignment explanation
Indices: 7598263--7598293 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7598253 TCACGGGTAT
*
7598263 TCTAAGCATAGAAACG
1 TCTAAGCACAGAAACG
7598279 TCTAAGCACAGAAAC
1 TCTAAGCACAGAAAC
7598294 ACCCAAAAAT
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:0.45, C:0.23, G:0.16, T:0.16
Consensus pattern (16 bp):
TCTAAGCACAGAAACG
Found at i:7616809 original size:18 final size:19
Alignment explanation
Indices: 7616786--7616825 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
7616776 GAAATATTCT
*
7616786 CCTCCAAA-AAAAAACCCC
1 CCTCCAAAGAAAAAACACC
7616804 CCTCCAAAGAAAAAACACC
1 CCTCCAAAGAAAAAACACC
7616823 CCT
1 CCT
7616826 TTTGACTGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.47, C:0.42, G:0.03, T:0.07
Consensus pattern (19 bp):
CCTCCAAAGAAAAAACACC
Found at i:7618978 original size:2 final size:2
Alignment explanation
Indices: 7618971--7619017 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
7618961 TTGCTACACA
7618971 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
7619013 TC TC T
1 TC TC T
7619018 TTAACTTAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:7622937 original size:20 final size:23
Alignment explanation
Indices: 7622911--7622965 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 23
7622901 ACTTAATTCT
*
7622911 TTAGAATAACTA-AAAAATG-CC
1 TTAGAATAACCAGAAAAATGACC
7622932 -TAGAATAACCAGAAAAATGAACC
1 TTAGAATAACCAGAAAAATG-ACC
7622955 TTAGAATAACC
1 TTAGAATAACC
7622966 CAAATTCACA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
20 10 0.34
21 7 0.24
23 2 0.07
24 10 0.34
ACGTcount: A:0.53, C:0.16, G:0.11, T:0.20
Consensus pattern (23 bp):
TTAGAATAACCAGAAAAATGACC
Found at i:7626876 original size:2 final size:2
Alignment explanation
Indices: 7626871--7626926 Score: 105
Period size: 2 Copynumber: 28.5 Consensus size: 2
7626861 TATAACATAT
7626871 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
7626913 A- AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG A
7626927 ATAGCAATTT
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 52 0.98
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:7630865 original size:20 final size:20
Alignment explanation
Indices: 7630837--7630927 Score: 60
Period size: 20 Copynumber: 4.5 Consensus size: 20
7630827 TTATTATTGA
*
7630837 AATATTAATTAATAAAAATT
1 AATAATAATTAATAAAAATT
* * *
7630857 AATAATAATTATTAATACTGT
1 AATAATAATTAATAAAAAT-T
* * *
7630878 AATAATAA-AAATATTAATTT
1 AATAATAATTAATA-AAAATT
* *
7630898 AATAATAATGTTATTAAAA-T
1 AATAATAAT-TAATAAAAATT
7630918 AATAATAATT
1 AATAATAATT
7630928 TATTATTGAA
Statistics
Matches: 53, Mismatches: 14, Indels: 9
0.70 0.18 0.12
Matches are distributed among these distances:
19 1 0.02
20 37 0.70
21 13 0.25
22 2 0.04
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.41
Consensus pattern (20 bp):
AATAATAATTAATAAAAATT
Found at i:7630942 original size:100 final size:100
Alignment explanation
Indices: 7630809--7631019 Score: 277
Period size: 100 Copynumber: 2.1 Consensus size: 100
7630799 TATTGTAATA
* *
7630809 ATTAAAATTATTAATAATTTATTATTGAAATATTAATTAATAAAAATTAATAATAATTATTAATA
1 ATTAAAA-TAATAATAATTTATTATTGAAATATTAATTAATAAAAATT-A-AATAATTAATAATA
7630874 CTGT-AATAATAAAAATATT-A-A-TTTAATAATAATGTT
63 CTGTAAATAAT-AAAATATTAATATTTTAATAA-AATGTT
* * * *
7630910 ATTAAAATAATAATAATTTATTATTGAAATATTAATTAGTAAAAATTAAATTATTAATGATATTG
1 ATTAAAATAATAATAATTTATTATTGAAATATTAATTAATAAAAATTAAATAATTAATAATACTG
*
7630975 TAAATAATAAATTATTAATATTTTAATAAAATGTT
66 TAAATAATAAAATATTAATATTTTAATAAAATGTT
*
7631010 ATAAAAATAA
1 ATTAAAATAA
7631020 ATAAAAAGAA
Statistics
Matches: 98, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
98 21 0.21
99 8 0.08
100 54 0.55
101 15 0.15
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (100 bp):
ATTAAAATAATAATAATTTATTATTGAAATATTAATTAATAAAAATTAAATAATTAATAATACTG
TAAATAATAAAATATTAATATTTTAATAAAATGTT
Found at i:7632741 original size:19 final size:18
Alignment explanation
Indices: 7632704--7632744 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
7632694 ATTTTAACCT
* *
7632704 AAAACATTAAACAAAATA
1 AAAACATAAAAAAAAATA
7632722 AAAACATAAAAAATAAATA
1 AAAACATAAAAAA-AAATA
7632741 AAAA
1 AAAA
7632745 ATTAAATGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.78, C:0.07, G:0.00, T:0.15
Consensus pattern (18 bp):
AAAACATAAAAAAAAATA
Found at i:7633511 original size:19 final size:19
Alignment explanation
Indices: 7633464--7633512 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
7633454 ACATAACATA
7633464 CCACATCATCATATTAATG
1 CCACATCATCATATTAATG
*
7633483 CCAC-TACATCATATTACTG
1 CCACAT-CATCATATTAATG
7633502 CCACATCATCA
1 CCACATCATCA
7633513 ACATATGCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 1 0.04
19 25 0.93
20 1 0.04
ACGTcount: A:0.35, C:0.33, G:0.04, T:0.29
Consensus pattern (19 bp):
CCACATCATCATATTAATG
Found at i:7646374 original size:2 final size:2
Alignment explanation
Indices: 7646367--7646392 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7646357 TTGAAGCTAC
7646367 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
7646393 GTAAGCTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.