Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 84 of 378
Found at i:22790242 original size:14 final size:15
Alignment explanation
Indices: 22790223--22790278 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 15
22790213 TCTTAGATGT
22790223 GATATG-CAATCTTA
1 GATATGACAATCTTA
22790237 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
22790254 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
22790272 GATATGA
1 GATATGA
22790279 TATACAATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.17
15 1 0.03
17 14 0.39
18 15 0.42
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:22790272 original size:35 final size:37
Alignment explanation
Indices: 22790210--22790299 Score: 134
Period size: 35 Copynumber: 2.5 Consensus size: 37
22790200 CAATGATATG
*
22790210 CAATCTTAGATGTGATATGCAATCTTAGATATG-ATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGAATA
22790246 CAATCTTAGATATGAT-TGCAATCTTAGATATGATATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGA-ATA
22790283 CAATCTTAGA-A-GATATG
1 CAATCTTAGATATGATATG
22790300 ATTTTGTAAT
Statistics
Matches: 50, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
35 19 0.38
36 18 0.36
37 13 0.26
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (37 bp):
CAATCTTAGATATGATATGCAATCTTAGATATGAATA
Found at i:22790800 original size:18 final size:17
Alignment explanation
Indices: 22790776--22790835 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
22790766 CCAATATATT
22790776 TTATATTTTTTATATAA
1 TTATATTTTTTATATAA
*
22790793 TTAT-TATTCTTATA-AA
1 TTATAT-TTTTTATATAA
22790809 -TATATTTTTTATTATATA
1 TTATATTTTTTA-TATA-A
22790827 TTATATTTT
1 TTATATTTT
22790836 AAATTTATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
15 8 0.23
16 6 0.17
17 12 0.34
18 1 0.03
19 8 0.23
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATATTTTTTATATAA
Found at i:22790820 original size:15 final size:16
Alignment explanation
Indices: 22790777--22790835 Score: 59
Period size: 16 Copynumber: 3.5 Consensus size: 16
22790767 CAATATATTT
22790777 TATATTTTTTATATAA
1 TATATTTTTTATATAA
22790793 T-TATTATTCTTATA-AA
1 TATATT-TT-TTATATAA
22790809 TATATTTTTTATTATATA
1 TATATTTTTTA-TATA-A
22790827 TTATATTTT
1 -TATATTTT
22790836 AAATTTATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
15 7 0.19
16 10 0.28
17 10 0.28
18 1 0.03
19 8 0.22
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (16 bp):
TATATTTTTTATATAA
Found at i:22790860 original size:26 final size:26
Alignment explanation
Indices: 22790812--22790861 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
22790802 TTATAAATAT
* * * *
22790812 ATTTTTTATTATATATTATATTTTAA
1 ATTTATTATTAAATATCACATTTTAA
22790838 ATTTATTATTAAATATCACATTTT
1 ATTTATTATTAAATATCACATTTT
22790862 TTTTATATGC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (26 bp):
ATTTATTATTAAATATCACATTTTAA
Found at i:22805737 original size:48 final size:48
Alignment explanation
Indices: 22805676--22805786 Score: 186
Period size: 48 Copynumber: 2.3 Consensus size: 48
22805666 CGGCTATATT
* *
22805676 ACGAGAACCAGTGTAAGACCATAACTGGGACATGGAATTGGCATTGAG
1 ACGAGAGCTAGTGTAAGACCATAACTGGGACATGGAATTGGCATTGAG
* *
22805724 ACGAGAGCTAGTGTAAGACCATATCTGGGACATGGCATTGGCATTGAG
1 ACGAGAGCTAGTGTAAGACCATAACTGGGACATGGAATTGGCATTGAG
22805772 ACGAGAGCTAGTGTA
1 ACGAGAGCTAGTGTA
22805787 GGACATGTCT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 59 1.00
ACGTcount: A:0.32, C:0.16, G:0.31, T:0.21
Consensus pattern (48 bp):
ACGAGAGCTAGTGTAAGACCATAACTGGGACATGGAATTGGCATTGAG
Found at i:22805850 original size:11 final size:11
Alignment explanation
Indices: 22805834--22805872 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
22805824 GTCAGTGTAA
22805834 GACATGTCTAG
1 GACATGTCTAG
*
22805845 GACATG-CATAA
1 GACATGTC-TAG
22805856 GACATGTCTAG
1 GACATGTCTAG
22805867 GACATG
1 GACATG
22805873 CATCAGCTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
10 1 0.04
11 22 0.92
12 1 0.04
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (11 bp):
GACATGTCTAG
Found at i:22805856 original size:22 final size:22
Alignment explanation
Indices: 22805831--22805875 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
22805821 TAAGTCAGTG
22805831 TAAGACATGTCTAGGACATGCA
1 TAAGACATGTCTAGGACATGCA
22805853 TAAGACATGTCTAGGACATGCA
1 TAAGACATGTCTAGGACATGCA
22805875 T
1 T
22805876 CAGCTACATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (22 bp):
TAAGACATGTCTAGGACATGCA
Found at i:22805951 original size:47 final size:47
Alignment explanation
Indices: 22805890--22806017 Score: 166
Period size: 47 Copynumber: 2.7 Consensus size: 47
22805880 TACATGATGT
* **
22805890 GTCAGTATAAGACCATGTCTAAGACATGGCATCGACTCAACGTGAGA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGACTCAACGTGAGA
* ** * * *
22805937 GTCAGTGTAAGACCATGCCTGGGACATGGTGTTGACTTAGCGTGAGA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGACTCAACGTGAGA
*
22805984 GCCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCG
22806018 GCATTATACC
Statistics
Matches: 67, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
47 67 1.00
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (47 bp):
GTCAGTGTAAGACCATGTCTGGGACATGGCATCGACTCAACGTGAGA
Found at i:22809174 original size:25 final size:25
Alignment explanation
Indices: 22809146--22809227 Score: 121
Period size: 25 Copynumber: 3.3 Consensus size: 25
22809136 AGCTCTTATA
*
22809146 AGCTTCCCGATACTTAGCTCACATG
1 AGCTTCCCGATACTTAACTCACATG
*
22809171 AGCTTTCCGATACTTAACTCACATG
1 AGCTTCCCGATACTTAACTCACATG
*
22809196 AGCTTCCCGTTA-TTCAACTCACATG
1 AGCTTCCCGATACTT-AACTCACATG
22809221 AGCTTCC
1 AGCTTCC
22809228 TATTATTTAG
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
24 2 0.04
25 50 0.96
ACGTcount: A:0.24, C:0.32, G:0.13, T:0.30
Consensus pattern (25 bp):
AGCTTCCCGATACTTAACTCACATG
Found at i:22814511 original size:23 final size:24
Alignment explanation
Indices: 22814480--22814529 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
22814470 CTGCAAAAAC
*
22814480 AGAAAGAAAGAG-GAC-AGAACAGT
1 AGAAAGAAACAGTGACTA-AACAGT
*
22814503 AGAAGGAAACAGTGACTAAACAGT
1 AGAAAGAAACAGTGACTAAACAGT
22814527 AGA
1 AGA
22814530 TGGCAGAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 10 0.43
24 12 0.52
25 1 0.04
ACGTcount: A:0.54, C:0.10, G:0.28, T:0.08
Consensus pattern (24 bp):
AGAAAGAAACAGTGACTAAACAGT
Found at i:22817702 original size:29 final size:29
Alignment explanation
Indices: 22817663--22817741 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
22817653 CTTAATAATC
*
22817663 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
22817693 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
22817722 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
22817742 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:22818399 original size:2 final size:2
Alignment explanation
Indices: 22818381--22818420 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
22818371 TGATGGCCGA
* *
22818381 AT AT GT AT AT CT 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 AT AT AT AT AT AT
22818421 CAACTATACT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22830625 original size:44 final size:44
Alignment explanation
Indices: 22830558--22830804 Score: 269
Period size: 44 Copynumber: 5.6 Consensus size: 44
22830548 CATCGTAGCG
* * * * *
22830558 AATCTTATCTCCTTAAAGTTGCAGTGGAGTAGATTAAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * * *
22830602 AATCTTATCTCCCTGAAGCTGCAGTGAAGCAGATTAAAGATAACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCT-ACA
* * *
22830647 AATCTTATCTCCCTGAAGTTGTACTGGAGCAGATTGAAGATATCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA-CA
* * * * *
22830692 AATCTTATCTCTCTGAAATTGCAATAGAGTAGATTGAAGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* ** *
22830736 AATCTTATTTCGTTGAAGTTGCAATGGAGCAGATTGAAGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
**
22830780 AATCTTATCTCGTTGAAGTTGCAGT
1 AATCTTATCTCCCTGAAGTTGCAGT
22830805 AAAGCAAACT
Statistics
Matches: 175, Mismatches: 26, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
44 99 0.57
45 76 0.43
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
Found at i:22830675 original size:89 final size:87
Alignment explanation
Indices: 22830558--22830806 Score: 282
Period size: 89 Copynumber: 2.8 Consensus size: 87
22830548 CATCGTAGCG
* * * * * *
22830558 AATCTTATCTCCTTAAAGTTGCAGTGGAGTAGATTAAAGTTACAAATCTTATCTCCCTGAAGCTG
1 AATCTTATCTCCTTGAAGTTGCAATGGAGCAGATTGAAGATACAAATCTTATCTCCCTGAAGTTG
22830623 CAGTGAAGCAGATTAAAGATAACA
66 CAGT-AAGCAGATTAAAGAT-ACA
* * * * *
22830647 AATCTTATCTCCCTGAAGTTGTACTGGAGCAGATTGAAGATATCAAATCTTATCTCTCTGAAATT
1 AATCTTATCTCCTTGAAGTTGCAATGGAGCAGATTGAAGATA-CAAATCTTATCTCCCTGAAGTT
* * * *
22830712 GCAATAGAGTAGATTGAAGCTACA
65 GCAGTA-AGCAGATTAAAGATACA
* * * **
22830736 AATCTTATTTCGTTGAAGTTGCAATGGAGCAGATTGAAGCTACAAATCTTATCTCGTTGAAGTTG
1 AATCTTATCTCCTTGAAGTTGCAATGGAGCAGATTGAAGATACAAATCTTATCTCCCTGAAGTTG
22830801 CAGTAA
66 CAGTAA
22830807 AGCAAACTGA
Statistics
Matches: 134, Mismatches: 24, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
87 1 0.01
88 24 0.18
89 75 0.56
90 34 0.25
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (87 bp):
AATCTTATCTCCTTGAAGTTGCAATGGAGCAGATTGAAGATACAAATCTTATCTCCCTGAAGTTG
CAGTAAGCAGATTAAAGATACA
Found at i:22833549 original size:49 final size:49
Alignment explanation
Indices: 22833487--22833800 Score: 253
Period size: 46 Copynumber: 6.7 Consensus size: 49
22833477 CATCAAAGTC
* * *
22833487 GATGCCATGTCCCAAACAGGTCTTACACTAGCTTTCATATATCGAGGCT
1 GATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATATATCGAGGCT
* * * *
22833536 GATGCCATATCCCAGATATGTCTTACACTGGCTCTCATATATTG-GTG-T
1 GATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATATATCGAG-GCT
* * * * * * *
22833584 CGATGCCATGTTCCAGACAGGGCTTACACT-G-ACACACA-A--GAAGCT
1 -GATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATATATCGAGGCT
* * * *
22833629 GATGCCATGTCCCAGACAGGTCTTACACTAGCT-TGTATATCTCGAGGCC
1 GATGCCATGTCCCAGACATGTCTTACACTAGCTCT-CATATATCGAGGCT
* * * * *
22833678 GATG-CATGTCCCAGACATGTCTTACACTAGCTCTC--GTCTCAATGCC
1 GATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATATATCGAGGCT
* *
22833724 GATG-CATGTCCCAGACATGTCTTACACTGGCTCTCATA-AT-GTGGCT
1 GATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATATATCGAGGCT
* *
22833770 GATG-CATGTCTCAAACATGTCTTACACTAGC
1 GATGCCATGTCCCAGACATGTCTTACACTAGC
22833801 ACACATATCA
Statistics
Matches: 212, Mismatches: 40, Indels: 29
0.75 0.14 0.10
Matches are distributed among these distances:
44 29 0.14
45 2 0.01
46 75 0.35
47 5 0.02
48 30 0.14
49 71 0.33
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (49 bp):
GATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATATATCGAGGCT
Found at i:22833681 original size:93 final size:92
Alignment explanation
Indices: 22833533--22833705 Score: 208
Period size: 93 Copynumber: 1.9 Consensus size: 92
22833523 ATATATCGAG
* * * * *
22833533 GCTGATGCCATATCCCAGATATGTCTTACACTGGCTCTCATATATTGGTGTCGATGCCATGTTCC
1 GCTGATGCCATATCCCAGACAGGTCTTACACTAGCTCTCATATATTGGTGCCGATG-CATGTCCC
22833598 AGACAGGGCTTACACTGACACACAAGAA
65 AGACAGGGCTTACACTGACACACAAGAA
* *
22833626 GCTGATGCCATGTCCCAGACAGGTCTTACACTAGCT-T-GTATATCTCGAG-GCCGATGCATGTC
1 GCTGATGCCATATCCCAGACAGGTCTTACACTAGCTCTCATATAT-T-G-GTGCCGATGCATGTC
* *
22833688 CCAGACATGTCTTACACT
63 CCAGACAGGGCTTACACT
22833706 AGCTCTCGTC
Statistics
Matches: 68, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
91 5 0.07
92 23 0.34
93 39 0.57
94 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (92 bp):
GCTGATGCCATATCCCAGACAGGTCTTACACTAGCTCTCATATATTGGTGCCGATGCATGTCCCA
GACAGGGCTTACACTGACACACAAGAA
Found at i:22834416 original size:20 final size:20
Alignment explanation
Indices: 22834391--22834429 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
22834381 AAAATTTCAA
22834391 TTATTTCAC-ACATTTACAAC
1 TTATTTCACAAC-TTTACAAC
*
22834411 TTATTTTACAACTTTACAA
1 TTATTTCACAACTTTACAA
22834430 AATAACCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTTCACAACTTTACAAC
Found at i:22843143 original size:46 final size:46
Alignment explanation
Indices: 22843076--22843166 Score: 182
Period size: 46 Copynumber: 2.0 Consensus size: 46
22843066 CTGGAATTCA
22843076 ATCAATAAAACGATTAATGAATTTGTTCCTTTGAAGAAAACAATGC
1 ATCAATAAAACGATTAATGAATTTGTTCCTTTGAAGAAAACAATGC
22843122 ATCAATAAAACGATTAATGAATTTGTTCCTTTGAAGAAAACAATG
1 ATCAATAAAACGATTAATGAATTTGTTCCTTTGAAGAAAACAATG
22843167 TTAAAAGGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.31
Consensus pattern (46 bp):
ATCAATAAAACGATTAATGAATTTGTTCCTTTGAAGAAAACAATGC
Found at i:22844817 original size:29 final size:30
Alignment explanation
Indices: 22844776--22844836 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
22844766 AATATTGAAA
*
22844776 TTATATATGAAA-TTTGATTTTATATAATT
1 TTATATATGAAATTTTGATTTGATATAATT
* *
22844805 TTATATATTAAATTTTGATTTGATTTAATT
1 TTATATATGAAATTTTGATTTGATATAATT
22844835 TT
1 TT
22844837 TAGAAATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 11 0.39
30 17 0.61
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (30 bp):
TTATATATGAAATTTTGATTTGATATAATT
Found at i:22845536 original size:15 final size:17
Alignment explanation
Indices: 22845511--22845552 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
22845501 GAGTGTAAAG
22845511 AAAATTAGAA-GAGTAA
1 AAAATTAGAAGGAGTAA
*
22845527 AAAATT-GAAGGGGTAA
1 AAAATTAGAAGGAGTAA
22845543 AAAATTAGAA
1 AAAATTAGAA
22845553 AAATGGAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 3 0.13
16 17 0.74
17 3 0.13
ACGTcount: A:0.60, C:0.00, G:0.21, T:0.19
Consensus pattern (17 bp):
AAAATTAGAAGGAGTAA
Found at i:22850352 original size:46 final size:44
Alignment explanation
Indices: 22850266--22850387 Score: 156
Period size: 46 Copynumber: 2.7 Consensus size: 44
22850256 CATAGCCATA
*
22850266 TCGATGCCATGTCCTAGACATGGTCTTACACTGACACATCTCGTA-G
1 TCGATG-CATGTCCCAGACAT-GTCTTACACTGACACATCTCG-AGG
*
22850312 TCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGG
1 TCGATGCATGTCCCAGACATGTCTTACACTGAC--ACATCTCGAGG
* *
22850358 CCGATGTATGTCCCAGACATGTCTTACACT
1 TCGATGCATGTCCCAGACATGTCTTACACT
22850388 AGCACTCGTC
Statistics
Matches: 69, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
44 12 0.17
45 14 0.20
46 43 0.62
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (44 bp):
TCGATGCATGTCCCAGACATGTCTTACACTGACACATCTCGAGG
Found at i:22855971 original size:19 final size:19
Alignment explanation
Indices: 22855949--22855985 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
22855939 TAATATATTC
*
22855949 ATAATATTTTTATATTTTT
1 ATAATATTTTTAAATTTTT
*
22855968 ATAATTTTTTTAAATTTT
1 ATAATATTTTTAAATTTT
22855986 AAAATTAATT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
ATAATATTTTTAAATTTTT
Found at i:22873556 original size:24 final size:25
Alignment explanation
Indices: 22873480--22873569 Score: 87
Period size: 25 Copynumber: 3.6 Consensus size: 25
22873470 TTTTTACATA
* **
22873480 TTTTTTAATTTAATAATAAAGAATT
1 TTTTTTAATTTAATATTTCAGAATT
22873505 TTTTTTAATTTAATATTTCATTGGAATT
1 TTTTTTAATTTAATATTTCA---GAATT
22873533 TTTTTCTAATTTAATATTT-A-AA-T
1 TTTTT-TAATTTAATATTTCAGAATT
*
22873556 TTTTTTAGTTTAAT
1 TTTTTTAATTTAAT
22873570 TTTGTGTTTA
Statistics
Matches: 57, Mismatches: 4, Indels: 11
0.79 0.06 0.15
Matches are distributed among these distances:
22 8 0.14
23 6 0.11
24 2 0.04
25 17 0.30
28 11 0.19
29 13 0.23
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.60
Consensus pattern (25 bp):
TTTTTTAATTTAATATTTCAGAATT
Found at i:22874116 original size:57 final size:56
Alignment explanation
Indices: 22874028--22874207 Score: 188
Period size: 56 Copynumber: 3.2 Consensus size: 56
22874018 AAAAGGTTAG
* *
22874028 GTACCAAAATGGACAAAAAAAATATAGGTACCAAATTAAGAAAAAGTATCAAGTTTAA
1 GTACCAAATTGGA-AAAAAAACT-TAGGTACCAAATTAAGAAAAAGTATCAAGTTTAA
* *
22874086 GTACCAAATTGGATAAAAAAACTTAGGTACC-AATTTAGTAAATTATGT-T-AAGTTTAA
1 GTACCAAATTGGA-AAAAAAACTTAGGTACCAAATTAAG-AAA--AAGTATCAAGTTTAA
* ** *
22874143 GTACCAAATTAGAAAAAAAACTTAAATACCAAATTAAGAAAACA-TATCAAATTTAA
1 GTACCAAATTGGAAAAAAAACTTAGGTACCAAATTAAGAAAA-AGTATCAAGTTTAA
*
22874199 ATACCAAAT
1 GTACCAAAT
22874208 ATTATATTAA
Statistics
Matches: 103, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
54 2 0.02
55 1 0.01
56 39 0.38
57 37 0.36
58 21 0.20
59 3 0.03
ACGTcount: A:0.53, C:0.11, G:0.11, T:0.26
Consensus pattern (56 bp):
GTACCAAATTGGAAAAAAAACTTAGGTACCAAATTAAGAAAAAGTATCAAGTTTAA
Found at i:22881239 original size:30 final size:30
Alignment explanation
Indices: 22881181--22881239 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
22881171 ATTTTCAAGG
**
22881181 CTAGGGGCAAAATGGTCATTTTGTCAAAGT
1 CTAGGGGCAAAATGGTCATTTTACCAAAGT
* *
22881211 CTAGGGTCAAAATGGTCTTTTTACCAAAG
1 CTAGGGGCAAAATGGTCATTTTACCAAAG
22881240 ATATGAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.31
Consensus pattern (30 bp):
CTAGGGGCAAAATGGTCATTTTACCAAAGT
Found at i:22881724 original size:46 final size:46
Alignment explanation
Indices: 22881578--22881753 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
22881568 TTACTTGTGT
* * * *
22881578 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGACCAC-ATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GACGA
* * ** *
22881624 GAGAC-AGTATAAGACCATGTCTAGGACATGGCATCGGTATTGAGACGA
1 GAG-CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGA
*
22881672 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACG-A
* *
22881719 -AGCTAGTATAAGACATGTTTGGGACATGCATCGGC
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGC
22881754 TATGAGATGT
Statistics
Matches: 106, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
46 57 0.54
47 29 0.27
48 19 0.18
49 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGA
Found at i:22881796 original size:46 final size:44
Alignment explanation
Indices: 22881580--22881796 Score: 156
Period size: 46 Copynumber: 4.7 Consensus size: 44
22881570 ACTTGTGTGA
* *
22881580 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCACATTATGAG-AG-
1 GCTAGTGTAAGACATGTCTAGGACATGCATCG---GC--TATGAGAAGT
* *
22881627 AC-AGTATAAGACCATGTCTAGGACATGGCATCGG-TATTGAGACGAGT
1 GCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCTA-TGAGA--AGT
* * *
22881674 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGACGT
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGG-CTATGAGAAGT
* * * *
22881718 AAGCTAGTATAAGACATGTTTGGGACATGCATCGGCTATGAGATGT
1 --GCTAGTGTAAGACATGTCTAGGACATGCATCGGCTATGAGAAGT
*
22881764 GTTAGTGTAAGACCATGTCTAGGACATGGCATC
1 GCTAGTGTAAGA-CATGTCTAGGACAT-GCATC
22881797 AGCACAAATA
Statistics
Matches: 138, Mismatches: 17, Indels: 31
0.74 0.09 0.17
Matches are distributed among these distances:
42 2 0.01
43 4 0.03
44 12 0.09
45 14 0.10
46 63 0.46
47 28 0.20
48 15 0.11
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.25
Consensus pattern (44 bp):
GCTAGTGTAAGACATGTCTAGGACATGCATCGGCTATGAGAAGT
Found at i:22884893 original size:93 final size:93
Alignment explanation
Indices: 22884747--22885099 Score: 528
Period size: 93 Copynumber: 3.8 Consensus size: 93
22884737 GACGAGTGCT
* * *
22884747 AGTGTAAGA-CATGTCTGGGACATCATGCATCGGCATTGAGACGTAAGCCAGTGTAAGACATGTC
1 AGTGTAAGACCATGTCTGGGACAT--GGCATCGAC-TTGAGATGTAAGCCAGTGTAAGACATGTC
*
22884811 TAGGACATGCATCGGCTACGAGATGATAGTC
63 TGGGACATGCATCGGCTACGAGATGATAGTC
* * * *
22884842 AGTGTAAGACCATATCTGGGATACGGCATTGACTTGAGATGTAAGCCAGTGTAAGACATGTCTGG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGTAAGCCAGTGTAAGACATGTCTGG
*
22884907 GACATGCATCGACTACGAGATGATAGTC
66 GACATGCATCGGCTACGAGATGATAGTC
* *
22884935 AGTGTAATACCATGTCTGGGACATGGCATCGACTTGAAATGTAAGCCAGTGTAAGACATGTCTGG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGTAAGCCAGTGTAAGACATGTCTGG
* *
22885000 GACATGCATTGGCTAAGAGATGATAGTC
66 GACATGCATCGGCTACGAGATGATAGTC
* *
22885028 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGTGAGCCAGTGTAAGACCGTGTCTG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGTAAGCCAGTGTAAGA-CATGTCTG
22885093 GGACATG
65 GGACATG
22885100 GTATCGGTAC
Statistics
Matches: 234, Mismatches: 22, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
93 194 0.83
94 20 0.09
95 9 0.04
96 11 0.05
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (93 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGTAAGCCAGTGTAAGACATGTCTGG
GACATGCATCGGCTACGAGATGATAGTC
Found at i:22885098 original size:47 final size:45
Alignment explanation
Indices: 22884747--22885105 Score: 355
Period size: 47 Copynumber: 7.7 Consensus size: 45
22884737 GACGAGTGCT
* * *
22884747 AGTGTAAGACATGTCTGGGACATCATGCATCGGCATTGAGACGTAAGCC
1 AGTGTAAGACATGTCTGGGACAT--GGCATCGAC-TTGAGATGT-AGCC
* * * *
22884796 AGTGTAAGACATGTCTAGGACAT-GCATCGGCTACGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGGCATCGACT-TGAGATG-TAGCC
* * * *
22884842 AGTGTAAGACCATATCTGGGATACGGCATTGACTTGAGATGTAAGCC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGACTTGAGATGT-AGCC
* *
22884889 AGTGTAAGACATGTCTGGGACAT-GCATCGACTACGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGGCATCGACT-TGAGATG-TAGCC
* *
22884935 AGTGTAATACCATGTCTGGGACATGGCATCGACTTGAAATGTAAGCC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGACTTGAGATGT-AGCC
* * * *
22884982 AGTGTAAGACATGTCTGGGACAT-GCATTGGCTAAGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGGCATCGACT-TGAGATG-TAGCC
22885028 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGTGAGCC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGACTTGAGATGT-AGCC
* *
22885075 AGTGTAAGACCGTGTCTGGGACATGGTATCG
1 AGTGTAAGA-CATGTCTGGGACATGGCATCG
22885106 GTACCTTACC
Statistics
Matches: 261, Mismatches: 34, Indels: 32
0.80 0.10 0.10
Matches are distributed among these distances:
45 16 0.06
46 87 0.33
47 113 0.43
48 23 0.09
49 22 0.08
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.25
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGACTTGAGATGTAGCC
Found at i:22890003 original size:46 final size:46
Alignment explanation
Indices: 22889953--22890128 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
22889943 TGGTTGAGCA
22889953 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
22889999 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
22890044 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
22890092 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
22890129 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:22890109 original size:93 final size:93
Alignment explanation
Indices: 22889950--22890121 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
22889940 GGATGGTTGA
* *
22889950 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
22890015 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
22890043 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
22890108 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
22890122 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:22897574 original size:46 final size:46
Alignment explanation
Indices: 22897524--22897699 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
22897514 TGGTTGAGCA
22897524 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
22897570 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
22897615 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
22897663 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
22897700 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:22897680 original size:93 final size:93
Alignment explanation
Indices: 22897521--22897692 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
22897511 GGATGGTTGA
* *
22897521 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
22897586 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
22897614 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
22897679 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
22897693 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:22900987 original size:94 final size:93
Alignment explanation
Indices: 22900786--22900965 Score: 242
Period size: 94 Copynumber: 1.9 Consensus size: 93
22900776 TACTTGTGTG
*
22900786 AGCTAGTGTAAGACATGTCTGGGACATGCATCGACCACATTATTAGAGTCAGTGTAAGACCATGT
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCGACCACATGATTAGAGTCAGTGTAAGACCATGT
* * **
22900851 CTGGGGCTTGGCATCGGTATTGAGACGA
66 CTGGGGCATGGCATCGGGACAGAGACGA
* *
22900879 ATGCTAGTGTAAGACATGTCTGGGACATGCATCGACTACGA-GA-T-GTGTCAGTGTAAGACCAT
1 A-GCTAGTGTAAGACATGTCTGGGACATGCATCGACCAC-ATGATTAGAGTCAGTGTAAGACCAT
22900941 GTC-GGGGACATGGCATCGGGACAGA
64 GTCTGGGG-CATGGCATCGGGACAGA
22900966 TATGCTAGAA
Statistics
Matches: 77, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
91 4 0.05
92 33 0.43
93 2 0.03
94 37 0.48
95 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (93 bp):
AGCTAGTGTAAGACATGTCTGGGACATGCATCGACCACATGATTAGAGTCAGTGTAAGACCATGT
CTGGGGCATGGCATCGGGACAGAGACGA
Found at i:22906516 original size:26 final size:25
Alignment explanation
Indices: 22906486--22906574 Score: 79
Period size: 26 Copynumber: 3.4 Consensus size: 25
22906476 TTGTTATTAA
22906486 ATTTTAATAAGATTATTATTAAACAT
1 ATTTTAATAA-ATTATTATTAAACAT
** * *
22906512 ATTTTAATAAAAAATAATTTAATCAT
1 ATTTTAATAAATTATTA-TTAAACAT
* * *
22906538 ATTTTAACATAATTATTATTAAATAA
1 ATTTTAATA-AATTATTATTAAACAT
*
22906564 AGTTTAATAAA
1 ATTTTAATAAA
22906575 ATAATATATG
Statistics
Matches: 48, Mismatches: 13, Indels: 5
0.73 0.20 0.08
Matches are distributed among these distances:
25 6 0.12
26 37 0.77
27 5 0.10
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (25 bp):
ATTTTAATAAATTATTATTAAACAT
Found at i:22906553 original size:52 final size:54
Alignment explanation
Indices: 22906497--22906645 Score: 142
Period size: 52 Copynumber: 2.7 Consensus size: 54
22906487 TTTTAATAAG
* *
22906497 ATTATTATTAAACATATTTTAATAAAAAATA-AT-TTAATCATATT-TTAACATA
1 ATTATTATTAAA-ATATTTTAATAAAAAATATATATTAATAACATTCTTAACATA
* * *
22906549 ATTATTATTAAATAAAGTTTAATAAAATAATATATGAATTAATAACATTCTTAATATA
1 ATTATTATTAAA-ATATTTTAATAAAA-AATATAT--ATTAATAACATTCTTAACATA
* *
22906607 ATTATTATTAAAATATGAATTAATAAAAAACATAATATT
1 ATTATTATTAAAATAT--TTTAATAAAAAATAT-ATATT
22906646 TAGTCAGAGG
Statistics
Matches: 78, Mismatches: 10, Indels: 13
0.77 0.10 0.13
Matches are distributed among these distances:
52 24 0.31
53 4 0.05
54 2 0.03
57 14 0.18
58 23 0.29
59 11 0.14
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (54 bp):
ATTATTATTAAAATATTTTAATAAAAAATATATATTAATAACATTCTTAACATA
Found at i:22911514 original size:37 final size:37
Alignment explanation
Indices: 22911435--22911510 Score: 127
Period size: 37 Copynumber: 2.1 Consensus size: 37
22911425 ACAACTTCAT
*
22911435 ATTGCTATCCAAAAACAAGAATCATCACATCAACACA
1 ATTGCTATCCAAAAACAAGAATCATCACATCAACAAA
*
22911472 ATTGCTATCCAAAAACAATAATCATCACATC-ACAAA
1 ATTGCTATCCAAAAACAAGAATCATCACATCAACAAA
22911508 ATT
1 ATT
22911511 TGCTCAGCCA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
36 7 0.19
37 30 0.81
ACGTcount: A:0.49, C:0.25, G:0.04, T:0.22
Consensus pattern (37 bp):
ATTGCTATCCAAAAACAAGAATCATCACATCAACAAA
Found at i:22914043 original size:11 final size:11
Alignment explanation
Indices: 22914027--22914067 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
22914017 CTACAGACAC
*
22914027 ATTCGACAATA
1 ATTCGACAATG
*
22914038 ATTCGATAATG
1 ATTCGACAATG
*
22914049 ATTCGACGATG
1 ATTCGACAATG
22914060 ATTCGACA
1 ATTCGACA
22914068 TTTGAAATCC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (11 bp):
ATTCGACAATG
Found at i:22928909 original size:23 final size:23
Alignment explanation
Indices: 22928865--22928910 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
22928855 TGCTTGCCTT
* *
22928865 TAAGCAATAAACATGCAGGAAAA
1 TAAGAAATAAACATGCAAGAAAA
*
22928888 TAAGAAATAAACATGTAAGAAAA
1 TAAGAAATAAACATGCAAGAAAA
22928911 AAAAATGTAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.61, C:0.09, G:0.15, T:0.15
Consensus pattern (23 bp):
TAAGAAATAAACATGCAAGAAAA
Found at i:22930370 original size:19 final size:19
Alignment explanation
Indices: 22930349--22930394 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
22930339 ATTAAACTAA
22930349 AAAAATAAA-AATCATTCC
1 AAAAATAAAGAATCATTCC
22930367 AAAAATAAAGAATCATTCC
1 AAAAATAAAGAATCATTCC
22930386 AAAAATAAA
1 AAAAATAAA
22930395 TTAAGTCTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 9 0.33
19 18 0.67
ACGTcount: A:0.65, C:0.13, G:0.02, T:0.20
Consensus pattern (19 bp):
AAAAATAAAGAATCATTCC
Found at i:22934168 original size:46 final size:46
Alignment explanation
Indices: 22934108--22934362 Score: 352
Period size: 46 Copynumber: 5.5 Consensus size: 46
22934098 TTTGACATGA
* * * * * *
22934108 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGT
*** **
22934154 TGCCATGGTATCTTTCAACCATGGTCTTGTTCA-TTTCATATCACAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TATCAGGT
22934200 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TATCAGGT
*
22934246 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGT
*
22934292 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGT
*
22934338 TGCCATGGTATCTTTCAGCCATGGT
1 TGCCATGGTATCTTTCAACCATGGT
22934363 ATCTTTCAAC
Statistics
Matches: 192, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
45 4 0.02
46 185 0.96
47 3 0.02
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGT
Found at i:22934358 original size:16 final size:16
Alignment explanation
Indices: 22934339--22934378 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
22934329 ATATCAGGTT
22934339 GCCATGGTATCTTTCA
1 GCCATGGTATCTTTCA
22934355 GCCATGGTATCTTTCA
1 GCCATGGTATCTTTCA
*
22934371 ACCATGGT
1 GCCATGGT
22934379 CTTACACATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (16 bp):
GCCATGGTATCTTTCA
Found at i:22936483 original size:11 final size:11
Alignment explanation
Indices: 22936467--22936518 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
22936457 TATACTAAAT
22936467 AAATAATAATA
1 AAATAATAATA
*
22936478 AAATAAT-ATT
1 AAATAATAATA
* *
22936488 AAATATCTCATA
1 AAATA-ATAATA
*
22936500 AAATATTAATA
1 AAATAATAATA
22936511 AAATAATA
1 AAATAATA
22936519 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:22938033 original size:2 final size:2
Alignment explanation
Indices: 22938017--22938064 Score: 80
Period size: 2 Copynumber: 24.5 Consensus size: 2
22938007 TTTATTGTTA
*
22938017 AT AT -T AT AT AC AT 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 AT AT AT AT AT AT AT
22938058 AT AT AT A
1 AT AT AT A
22938065 AATAAAATGA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:22938136 original size:19 final size:19
Alignment explanation
Indices: 22938112--22938156 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
22938102 TGAAACAGGG
* *
22938112 AAGGAATGAAGGAAA-AAGA
1 AAGGAAAGAAAGAAAGAA-A
22938131 AAGGAAAGAAAGAAAGAAA
1 AAGGAAAGAAAGAAAGAAA
22938150 AAGGAAA
1 AAGGAAA
22938157 AATTGGGATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 21 0.91
20 2 0.09
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.02
Consensus pattern (19 bp):
AAGGAAAGAAAGAAAGAAA
Found at i:22942142 original size:25 final size:25
Alignment explanation
Indices: 22942108--22942303 Score: 313
Period size: 25 Copynumber: 7.8 Consensus size: 25
22942098 GACCTCAGCA
*
22942108 TGCTCTCTGATTATTAGCACGCCAG
1 TGCTCTCTGAATATTAGCACGCCAG
* *
22942133 TGCTCCCTGAATATTAGCACGCTAG
1 TGCTCTCTGAATATTAGCACGCCAG
*
22942158 TGCTATCTGAATATTAGCACGCCAG
1 TGCTCTCTGAATATTAGCACGCCAG
*
22942183 TGCTCTTTGAATATTAGCACGCCAG
1 TGCTCTCTGAATATTAGCACGCCAG
*
22942208 TGCTCTCTGAATATTAGCACGCTAG
1 TGCTCTCTGAATATTAGCACGCCAG
*
22942233 TGCTCTCTGAATATTAGCATGCCAG
1 TGCTCTCTGAATATTAGCACGCCAG
22942258 TGCTCTCTGAATATTAGCACGCCAG
1 TGCTCTCTGAATATTAGCACGCCAG
22942283 TGCTCTCTG-ATATTTAGCACG
1 TGCTCTCTGAATA-TTAGCACG
22942304 TTTGTTCTCT
Statistics
Matches: 157, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
24 3 0.02
25 154 0.98
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (25 bp):
TGCTCTCTGAATATTAGCACGCCAG
Found at i:22942335 original size:22 final size:22
Alignment explanation
Indices: 22942293--22942346 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
22942283 TGCTCTCTGA
* * *
22942293 TATTTAGCACGTTTGTTCTCTC
1 TATTTAGCACATCTGTGCTCTC
22942315 TATTTAGCACATCTGTGCTCTC
1 TATTTAGCACATCTGTGCTCTC
* *
22942337 TGTATAGCAC
1 TATTTAGCAC
22942347 TTTATTGTTC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.19, C:0.24, G:0.15, T:0.43
Consensus pattern (22 bp):
TATTTAGCACATCTGTGCTCTC
Found at i:22942598 original size:26 final size:26
Alignment explanation
Indices: 22942569--22942654 Score: 74
Period size: 26 Copynumber: 3.3 Consensus size: 26
22942559 ATAAATGTTA
22942569 TATGAGAAAATATATGAAAATTAAAT
1 TATGAGAAAATATATGAAAATTAAAT
*
22942595 TATGAG--ACT-TGA-GAATAA-TAAATGTT
1 TATGAGAAAATAT-ATGAA-AATTAAA---T
22942621 ATATGAGAAAATATATGAAAATTAAAT
1 -TATGAGAAAATATATGAAAATTAAAT
22942648 TATGAGA
1 TATGAGA
22942655 CTTTACGATC
Statistics
Matches: 47, Mismatches: 2, Indels: 22
0.66 0.03 0.31
Matches are distributed among these distances:
23 8 0.17
24 5 0.11
26 14 0.30
27 7 0.15
29 5 0.11
30 8 0.17
ACGTcount: A:0.52, C:0.01, G:0.15, T:0.31
Consensus pattern (26 bp):
TATGAGAAAATATATGAAAATTAAAT
Found at i:22942617 original size:53 final size:53
Alignment explanation
Indices: 22942548--22942657 Score: 220
Period size: 53 Copynumber: 2.1 Consensus size: 53
22942538 GTTTTATAAT
22942548 ACTTGAGAATAATAAATGTTATATGAGAAAATATATGAAAATTAAATTATGAG
1 ACTTGAGAATAATAAATGTTATATGAGAAAATATATGAAAATTAAATTATGAG
22942601 ACTTGAGAATAATAAATGTTATATGAGAAAATATATGAAAATTAAATTATGAG
1 ACTTGAGAATAATAAATGTTATATGAGAAAATATATGAAAATTAAATTATGAG
22942654 ACTT
1 ACTT
22942658 TACGATCTAT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 57 1.00
ACGTcount: A:0.50, C:0.03, G:0.15, T:0.33
Consensus pattern (53 bp):
ACTTGAGAATAATAAATGTTATATGAGAAAATATATGAAAATTAAATTATGAG
Found at i:22942627 original size:27 final size:27
Alignment explanation
Indices: 22942532--22942628 Score: 71
Period size: 27 Copynumber: 3.6 Consensus size: 27
22942522 AAAAGTACGG
* * *
22942532 ATAAATGTTTTATAATACTTGAGAATA
1 ATAAATGTTATATGAGACTTGAGAATA
22942559 ATAAATGTTATATGAGA----A-AATA
1 ATAAATGTTATATGAGACTTGAGAATA
*
22942581 TATGAAAAT-TAAATTATGAGACTTGAGAATA
1 -AT--AAATGT-TA-TATGAGACTTGAGAATA
22942612 ATAAATGTTATATGAGA
1 ATAAATGTTATATGAGA
22942629 AAATATATGA
Statistics
Matches: 54, Mismatches: 5, Indels: 22
0.67 0.06 0.27
Matches are distributed among these distances:
22 4 0.07
23 3 0.06
24 1 0.02
25 5 0.09
26 7 0.13
27 21 0.39
28 5 0.09
29 1 0.02
30 3 0.06
31 4 0.07
ACGTcount: A:0.48, C:0.02, G:0.14, T:0.35
Consensus pattern (27 bp):
ATAAATGTTATATGAGACTTGAGAATA
Found at i:22948137 original size:18 final size:18
Alignment explanation
Indices: 22948114--22948251 Score: 159
Period size: 18 Copynumber: 7.7 Consensus size: 18
22948104 AAAATAAAGG
* *
22948114 TACTGAATAACTGACTGC
1 TACTGAATAAATGACTGT
*
22948132 TACTGAATAAATGACTAT
1 TACTGAATAAATGACTGT
* * * *
22948150 TGCTGAATAACTGATTAT
1 TACTGAATAAATGACTGT
*
22948168 TACTGAATAATTGACTGT
1 TACTGAATAAATGACTGT
**
22948186 GGCTGAATAAATGACTGT
1 TACTGAATAAATGACTGT
*
22948204 TACTGAATAATTGACTGT
1 TACTGAATAAATGACTGT
* *
22948222 GACTGAATAAATGACTAT
1 TACTGAATAAATGACTGT
22948240 TACTGAATAAAT
1 TACTGAATAAAT
22948252 AATTATTATT
Statistics
Matches: 100, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 100 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (18 bp):
TACTGAATAAATGACTGT
Found at i:22948183 original size:54 final size:53
Alignment explanation
Indices: 22948114--22948281 Score: 183
Period size: 54 Copynumber: 3.1 Consensus size: 53
22948104 AAAATAAAGG
* * *
22948114 TACTGAATAACTGACTGCTACTGAATAAATGACTATTGCTGAATAACTGATTAT
1 TACTGAATAAATGACTG-TACTGAATAAATGACTATTACTGAATAATTGATTAT
* * * * *
22948168 TACTGAATAATTGACTGTGGCTGAATAAATGACTGTTACTGAATAATTGACTGT
1 TACTGAATAAATGACTGT-ACTGAATAAATGACTATTACTGAATAATTGATTAT
* * * * * *
22948222 GACTGAATAAATGACTATTACTGAATAAATAATTATTATTGAATAATTGATTAA
1 TACTGAATAAATGACT-GTACTGAATAAATGACTATTACTGAATAATTGATTAT
22948276 TACTGA
1 TACTGA
22948282 TGACTGACCG
Statistics
Matches: 93, Mismatches: 19, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
53 1 0.01
54 91 0.98
55 1 0.01
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (53 bp):
TACTGAATAAATGACTGTACTGAATAAATGACTATTACTGAATAATTGATTAT
Found at i:22948258 original size:18 final size:18
Alignment explanation
Indices: 22948114--22948281 Score: 156
Period size: 18 Copynumber: 9.3 Consensus size: 18
22948104 AAAATAAAGG
* **
22948114 TACTGAATAACTGACTGC
1 TACTGAATAAATGACTAT
22948132 TACTGAATAAATGACTAT
1 TACTGAATAAATGACTAT
* * *
22948150 TGCTGAATAACTGATTAT
1 TACTGAATAAATGACTAT
* *
22948168 TACTGAATAATTGACTGT
1 TACTGAATAAATGACTAT
** *
22948186 GGCTGAATAAATGACTGT
1 TACTGAATAAATGACTAT
* *
22948204 TACTGAATAATTGACTGT
1 TACTGAATAAATGACTAT
*
22948222 GACTGAATAAATGACTAT
1 TACTGAATAAATGACTAT
* *
22948240 TACTGAATAAATAATTAT
1 TACTGAATAAATGACTAT
* * * *
22948258 TATTGAATAATTGATTAA
1 TACTGAATAAATGACTAT
22948276 TACTGA
1 TACTGA
22948282 TGACTGACCG
Statistics
Matches: 123, Mismatches: 27, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 123 1.00
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (18 bp):
TACTGAATAAATGACTAT
Found at i:22956560 original size:2 final size:2
Alignment explanation
Indices: 22956555--22956587 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
22956545 AAGTATAAAT
22956555 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22956588 TTTAAATATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22956598 original size:9 final size:9
Alignment explanation
Indices: 22956584--22956608 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
22956574 ATATATATAT
22956584 ATATTTTAA
1 ATATTTTAA
22956593 ATATTTTAA
1 ATATTTTAA
22956602 ATATTTT
1 ATATTTT
22956609 TATAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
ATATTTTAA
Found at i:22966507 original size:77 final size:76
Alignment explanation
Indices: 22966415--22966574 Score: 171
Period size: 77 Copynumber: 2.1 Consensus size: 76
22966405 AATTAAAGGT
** * ** * *
22966415 AAATAAAATTTGTTTCGGGATTGATTTTCGTCATTTAAC-GATTTATTCCAAATTTT-ATTTATT
1 AAATAAAATCCGTTTCGAGATTGATTCCCGCCATTCAACGGATTTATT--AAATTTTGATTTATT
*
22966478 TCCAAAAATGAGTA
64 ACCAAAAATGAG-A
* * *
22966492 AAATAAAATCCGTTTCGATATTGATTCCCGCCATTCAACGGATTTATTACATTTTGATTTGTTAC
1 AAATAAAATCCGTTTCGAGATTGATTCCCGCCATTCAACGGATTTATTAAATTTTGATTTATTAC
22966557 CAAAAATGAGA
66 CAAAAATGAGA
*
22966568 AATTAAA
1 AAATAAA
22966575 TTAAATAAAA
Statistics
Matches: 69, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
76 13 0.19
77 48 0.70
78 8 0.12
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.39
Consensus pattern (76 bp):
AAATAAAATCCGTTTCGAGATTGATTCCCGCCATTCAACGGATTTATTAAATTTTGATTTATTAC
CAAAAATGAGA
Found at i:22970159 original size:45 final size:45
Alignment explanation
Indices: 22970095--22970184 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
22970085 TCGAGCCCAA
22970095 ATGGGCCTGCGAATATTTTAAGCCCAACACAAATTTATTTTTCCT
1 ATGGGCCTGCGAATATTTTAAGCCCAACACAAATTTATTTTTCCT
* *
22970140 ATGGGCCTGTGGATATTTTAAGCCCAACACAAATTTATTTTTCCT
1 ATGGGCCTGCGAATATTTTAAGCCCAACACAAATTTATTTTTCCT
22970185 CAGCAGACAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (45 bp):
ATGGGCCTGCGAATATTTTAAGCCCAACACAAATTTATTTTTCCT
Found at i:22972995 original size:5 final size:5
Alignment explanation
Indices: 22972987--22973015 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
22972977 AATAAATAAA
22972987 ATATT ATATT ATATT ATATT ATATT ATAT
1 ATATT ATATT ATATT ATATT ATATT ATAT
22973016 ACTTTAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATATT
Found at i:22976821 original size:141 final size:141
Alignment explanation
Indices: 22976544--22976823 Score: 320
Period size: 142 Copynumber: 2.0 Consensus size: 141
22976534 TGCCTAAAGC
* *
22976544 ATTTGACAACCATATTTTATGGTTGTTAAAGTATTTTTTTTAACAATGACATATAATCATTCTAT
1 ATTTGACAACCATATCTTATGGTTGTTAAAGCATTTTTTTTAACAATGACATATAATCATTCTAT
* * ** * *
22976609 AATGTAATACACAACCAATTAAAATATCGTTGCAAAACAATATTTAACAACCAATACTATTAATG
66 AATATAATACACAACCAACTAAAATATCGTCACAAAACAATATTGAACAACCAATACTATTAATA
22976674 TTATGTAAACA
131 TTATGTAAACA
* *
22976685 ATTTGGCAACCATATCTTATGGTTGTTAAA-CATTTTTATCTTGAA-AATGACATTTAATCATTG
1 ATTTGACAACCATATCTTATGGTTGTTAAAGCATTTTT-T-TT-AACAATGACATATAATCATT-
* * * * * *
22976748 C-GTAATATAATATACAACCAACTAAAATGTCGTCACAAAATAATAATTGAA-AATCATTA-TAT
62 CTATAATATAATACACAACCAACTAAAATATCGTCACAAAACAAT-ATTGAACAACCAATACTAT
22976810 T-ATAATTATGTAAA
126 TAAT-ATTATGTAAA
22976824 AGATTTAACA
Statistics
Matches: 117, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
140 8 0.07
141 42 0.36
142 59 0.50
143 8 0.07
ACGTcount: A:0.42, C:0.13, G:0.09, T:0.37
Consensus pattern (141 bp):
ATTTGACAACCATATCTTATGGTTGTTAAAGCATTTTTTTTAACAATGACATATAATCATTCTAT
AATATAATACACAACCAACTAAAATATCGTCACAAAACAATATTGAACAACCAATACTATTAATA
TTATGTAAACA
Found at i:22982415 original size:12 final size:12
Alignment explanation
Indices: 22982398--22982424 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
22982388 ATTTTTACGG
22982398 TTTAATAACTTT
1 TTTAATAACTTT
22982410 TTTAATAACTTT
1 TTTAATAACTTT
22982422 TTT
1 TTT
22982425 CATCTTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (12 bp):
TTTAATAACTTT
Found at i:22982670 original size:4 final size:4
Alignment explanation
Indices: 22982661--22982703 Score: 68
Period size: 4 Copynumber: 10.2 Consensus size: 4
22982651 GGACTACAAT
22982661 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAAA ATAAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA AT-AA AT-AA ATAA A
22982704 GCAACTTTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 29 0.76
5 9 0.24
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
ATAA
Found at i:22984336 original size:36 final size:36
Alignment explanation
Indices: 22984289--22984358 Score: 122
Period size: 36 Copynumber: 1.9 Consensus size: 36
22984279 TTACTAAAGT
* *
22984289 AAATTGCAATAGACTATTATAACTCATTGCCAACAC
1 AAATTGCAATAGACTATTACAACTCATTACCAACAC
22984325 AAATTGCAATAGACTATTACAACTCATTACCAAC
1 AAATTGCAATAGACTATTACAACTCATTACCAAC
22984359 TATTACAATG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.43, C:0.23, G:0.07, T:0.27
Consensus pattern (36 bp):
AAATTGCAATAGACTATTACAACTCATTACCAACAC
Found at i:22984511 original size:23 final size:24
Alignment explanation
Indices: 22984485--22984547 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 24
22984475 AACAAAATTG
* *
22984485 AAAGCGGCAGTGAAATAACATTA-
1 AAAGCGGTAGTGAAACAACATTAC
* *
22984508 AAAGCAGTAGTAAAACAACATTAC
1 AAAGCGGTAGTGAAACAACATTAC
22984532 AAA-CGGTAGTGAAACA
1 AAAGCGGTAGTGAAACA
22984548 GCACCAAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
23 30 0.91
24 3 0.09
ACGTcount: A:0.51, C:0.14, G:0.19, T:0.16
Consensus pattern (24 bp):
AAAGCGGTAGTGAAACAACATTAC
Found at i:22993787 original size:6 final size:6
Alignment explanation
Indices: 22993772--22993864 Score: 64
Period size: 6 Copynumber: 14.3 Consensus size: 6
22993762 TCCTCATCCC
* * *
22993772 TTTTTA TTATTT- TTATTA TTTTTA TTTTTA TTATTA TTTATTA TTATTTC
1 TTTTTA TT-TTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT-TTA TT-TTTA
22993822 TTTATTA TTGTTTTA TTTTCCT- TGTTTTA TTTTTA TTTTTA TT
1 TTT-TTA -T-TTTTA TTTT--TA T-TTTTA TTTTTA TTTTTA TT
22993865 AGCTTTATTA
Statistics
Matches: 70, Mismatches: 6, Indels: 22
0.71 0.06 0.22
Matches are distributed among these distances:
5 2 0.03
6 40 0.57
7 17 0.24
8 9 0.13
9 2 0.03
ACGTcount: A:0.18, C:0.03, G:0.02, T:0.76
Consensus pattern (6 bp):
TTTTTA
Found at i:22993830 original size:3 final size:3
Alignment explanation
Indices: 22993775--22993819 Score: 54
Period size: 3 Copynumber: 14.7 Consensus size: 3
22993765 TCATCCCTTT
* * *
22993775 TTA TTA TTT TTA TTA TTT TTA TTT TTA TTA TTA TTTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TT
22993820 TCTTTATTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (3 bp):
TTA
Found at i:22993900 original size:36 final size:35
Alignment explanation
Indices: 22993851--22993930 Score: 90
Period size: 36 Copynumber: 2.2 Consensus size: 35
22993841 CCTTGTTTTA
* *
22993851 TTTTTATTTTTATTAGCTTTATTATTGATTTATTG-T
1 TTTTTATTATTATT-GC-ATATTATTGATTTATTGAT
* *
22993887 TTTTTATTATTATTGCATGTTATTGCTTTATTGAT
1 TTTTTATTATTATTGCATATTATTGATTTATTGAT
22993922 TTGTTTATT
1 TT-TTTATT
22993931 CTTGTTCAGT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
34 14 0.37
35 5 0.13
36 19 0.50
ACGTcount: A:0.19, C:0.04, G:0.10, T:0.68
Consensus pattern (35 bp):
TTTTTATTATTATTGCATATTATTGATTTATTGAT
Found at i:22996763 original size:50 final size:51
Alignment explanation
Indices: 22996644--22996775 Score: 167
Period size: 52 Copynumber: 2.6 Consensus size: 51
22996634 GTTGTGAGAA
* * **
22996644 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAAATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACAAAATGG-TTTAGGT
* * *
22996696 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGG-TTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACAAAATGGTTTAGGT
* *
22996746 CGCATGTGTAGTACTAAGTGTAGGCTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
22996776 TACATACCCT
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
50 33 0.47
52 37 0.53
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (51 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACAAAATGGTTTAGGT
Found at i:22996851 original size:51 final size:51
Alignment explanation
Indices: 22996644--22996926 Score: 171
Period size: 51 Copynumber: 5.5 Consensus size: 51
22996634 GTTGTGAGAA
* * * *
22996644 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAA-ATGGTTTTAGGT
1 CACATGTGTAGTACTATGTGCAGGCCACTATGTG-TAAAAGATAGCTTT-GGT
* * * * ** * *
22996696 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-GGTTAGGT
1 CACATGTGTAGTACTATGTGCAGGCCACTATGTGTAAAAGATAGCTTTGGT
* * * * *** **** * * *
22996746 CGCATGTGTAGTACTAAGTGTAGGCTACTATACATACCCTATAACTTCGAT
1 CACATGTGTAGTACTATGTGCAGGCCACTATGTGTAAAAGATAGCTTTGGT
*
22996797 CACATGTGTGGTACTATGTGCAGGCCACTATGTGTAAAAGATAGCTTTGGT
1 CACATGTGTAGTACTATGTGCAGGCCACTATGTGTAAAAGATAGCTTTGGT
* * * * *
22996848 CACAAGTGTGGTACTATGTGAAGGCCACTTTGTG-AATAATG-TAGCTTT-GA
1 CACATGTGTAGTACTATGTGCAGGCCACTATGTGTAA-AA-GATAGCTTTGGT
* * *
22996898 CTACAAGGGTGGTACTATGTGCAGGCCAC
1 C-ACATGTGTAGTACTATGTGCAGGCCAC
22996927 CGGGTATCCG
Statistics
Matches: 184, Mismatches: 42, Indels: 11
0.78 0.18 0.05
Matches are distributed among these distances:
50 40 0.22
51 110 0.60
52 34 0.18
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (51 bp):
CACATGTGTAGTACTATGTGCAGGCCACTATGTGTAAAAGATAGCTTTGGT
Found at i:23002453 original size:28 final size:29
Alignment explanation
Indices: 23002380--23002459 Score: 90
Period size: 28 Copynumber: 2.8 Consensus size: 29
23002370 AGGAAAATTT
* * *
23002380 AGTGTTCTCTCTATTTTGAATATGCACTTC
1 AGTGTTATCT-TATTCTGAATACGCACTTC
*
23002410 GGTGTTATCTTATTCTGAATACGCA-TTC
1 AGTGTTATCTTATTCTGAATACGCACTTC
* *
23002438 AGTGTTGTCTTGTTCTGAATAC
1 AGTGTTATCTTATTCTGAATAC
23002460 ACACATCGAT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 22 0.51
29 13 0.30
30 8 0.19
ACGTcount: A:0.20, C:0.17, G:0.17, T:0.45
Consensus pattern (29 bp):
AGTGTTATCTTATTCTGAATACGCACTTC
Found at i:23005784 original size:26 final size:26
Alignment explanation
Indices: 23005745--23005880 Score: 218
Period size: 26 Copynumber: 5.2 Consensus size: 26
23005735 TGATACAAAT
*
23005745 TGATAATAGGTTAGGTAAATGTTTTA
1 TGATAATAGGTTAGGTAAATGTTTCA
* *
23005771 TGATAATAGATTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
23005797 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
23005823 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
23005849 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
23005875 TGATAA
1 TGATAA
23005881 GAATTTCATG
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.35, C:0.04, G:0.24, T:0.38
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:23007068 original size:8 final size:8
Alignment explanation
Indices: 23007055--23007086 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
23007045 CTAGATTGGC
23007055 AAAAGCCG
1 AAAAGCCG
23007063 AAAAGCCG
1 AAAAGCCG
*
23007071 AAATGCCG
1 AAAAGCCG
23007079 AAAAGCCG
1 AAAAGCCG
23007087 GTATTTTGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.47, C:0.25, G:0.25, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:23007540 original size:27 final size:27
Alignment explanation
Indices: 23007499--23007638 Score: 176
Period size: 27 Copynumber: 5.2 Consensus size: 27
23007489 GAGGAAGCGT
*
23007499 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
23007526 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
*
23007553 TCTGGTGGCTCTGCCACATATATCT-A
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
23007579 TTCTGGTGGCTCTGCCACGATTATCTGTA
1 -TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
23007608 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
23007634 TCTGG
1 TCTGG
23007639 CAGCCATGCT
Statistics
Matches: 102, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
26 6 0.06
27 80 0.78
28 15 0.15
29 1 0.01
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:23013452 original size:20 final size:20
Alignment explanation
Indices: 23013422--23013475 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
23013412 ACAATTAATT
* *
23013422 TATTTAAATATTAAATTTAA
1 TATTAAAATATTAAATATAA
*
23013442 -ATTAAAAATATAAAATATAA
1 TATT-AAAATATTAAATATAA
*
23013462 TATTATAATATTAA
1 TATTAAAATATTAA
23013476 CAATTTAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
19 3 0.11
20 21 0.78
21 3 0.11
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
TATTAAAATATTAAATATAA
Found at i:23018831 original size:15 final size:15
Alignment explanation
Indices: 23018811--23018841 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
23018801 GATCGTCATT
23018811 ATCATCTTCTTCTTC
1 ATCATCTTCTTCTTC
23018826 ATCATCTTCTTCTTC
1 ATCATCTTCTTCTTC
23018841 A
1 A
23018842 ATGATTTGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.32, G:0.00, T:0.52
Consensus pattern (15 bp):
ATCATCTTCTTCTTC
Found at i:23027725 original size:31 final size:29
Alignment explanation
Indices: 23027622--23027704 Score: 166
Period size: 29 Copynumber: 2.9 Consensus size: 29
23027612 ATGACGAGAT
23027622 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
23027651 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
23027680 TGGCACTAAGTGTGCATGCTGGAAA
1 TGGCACTAAGTGTGCATGCTGGAAA
23027705 AAAATACGGC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 54 1.00
ACGTcount: A:0.30, C:0.14, G:0.29, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:23027745 original size:60 final size:58
Alignment explanation
Indices: 23027618--23027754 Score: 152
Period size: 60 Copynumber: 2.3 Consensus size: 58
23027608 TACGATGACG
* * *
23027618 AGAT-TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAA
1 AGATATGGCACTAAGTGTGCATGCTGGAAAAATACGGCACTAAGTGTGCATGCTCGAA
* **
23027675 ATATATGGCACTAAGTGTGCATGCTGGAAAAAAATACGGCACTGGGTGTGCGA-GCTCGAA
1 AGATATGGCACTAAGTGTGCATGCTGG--AAAAATACGGCACTAAGTGTGC-ATGCTCGAA
* * *
23027735 GGGTATGGCACTATGTGTGC
1 AGATATGGCACTAAGTGTGC
23027755 GGGCTTAAAT
Statistics
Matches: 66, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
57 3 0.05
58 22 0.33
60 40 0.61
61 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.25
Consensus pattern (58 bp):
AGATATGGCACTAAGTGTGCATGCTGGAAAAATACGGCACTAAGTGTGCATGCTCGAA
Found at i:23035794 original size:31 final size:29
Alignment explanation
Indices: 23035721--23035786 Score: 96
Period size: 29 Copynumber: 2.2 Consensus size: 29
23035711 TGACGAGATT
* *
23035721 GGCACTAAGTGTGCATGCTGGAAATATAT
1 GGCACTAAGTGTGCATGCTGGAAAAATAC
23035750 GGCACTAAGTGTGCATGCTGGAAAAAAATAC
1 GGCACTAAGTGTGCATGCTGG--AAAAATAC
23035781 GGCACT
1 GGCACT
23035787 GGGTGTGCGA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
29 21 0.64
31 12 0.36
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.23
Consensus pattern (29 bp):
GGCACTAAGTGTGCATGCTGGAAAAATAC
Found at i:23037299 original size:27 final size:27
Alignment explanation
Indices: 23037261--23037314 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
23037251 TTGAAAATTT
23037261 ATCTGAGAATAGGCAAAAGTGCGCCTA
1 ATCTGAGAATAGGCAAAAGTGCGCCTA
23037288 ATCTGAGAATAGGCAAAAGTGCGCCTA
1 ATCTGAGAATAGGCAAAAGTGCGCCTA
23037315 TGTCAACGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.19, G:0.26, T:0.19
Consensus pattern (27 bp):
ATCTGAGAATAGGCAAAAGTGCGCCTA
Found at i:23038888 original size:14 final size:14
Alignment explanation
Indices: 23038857--23038895 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
23038847 TTAAAAAAAC
23038857 ATTTT-TTTTATTT
1 ATTTTATTTTATTT
* *
23038870 CTTTTATTTTCTTT
1 ATTTTATTTTATTT
23038884 ATTTTATTTTAT
1 ATTTTATTTTAT
23038896 AGTATGCCTC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 4 0.19
14 17 0.81
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.79
Consensus pattern (14 bp):
ATTTTATTTTATTT
Found at i:23039386 original size:14 final size:15
Alignment explanation
Indices: 23039364--23039401 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
23039354 AAGAAGAATG
23039364 AAAAA-AAATAT-TA
1 AAAAAGAAATATATA
23039377 AAAAAGAAATATATA
1 AAAAAGAAATATATA
23039392 AAAATAGAAA
1 AAAA-AGAAA
23039402 ATAATACTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 5 0.23
14 6 0.27
15 6 0.27
16 5 0.23
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.18
Consensus pattern (15 bp):
AAAAAGAAATATATA
Found at i:23043307 original size:20 final size:20
Alignment explanation
Indices: 23043254--23043351 Score: 76
Period size: 20 Copynumber: 4.9 Consensus size: 20
23043244 TGCTATACAG
*
23043254 AGGCACCGTAGTGCAAAT-AA
1 AGGCACCGAAGTGC-AATCAA
* *
23043274 AGGCA-CGATTGTGCAATCAG
1 AGGCACCGA-AGTGCAATCAA
* *
23043294 AGGCATCGAAGTGCAAACAA
1 AGGCACCGAAGTGCAATCAA
* * *
23043314 AGACACCGAAGTGTAAGCACA
1 AGGCACCGAAGTGCAATCA-A
23043335 A-GCACCGAAGTGCAATC
1 AGGCACCGAAGTGCAATC
23043352 TCGTACAAGC
Statistics
Matches: 61, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
19 5 0.08
20 51 0.84
21 5 0.08
ACGTcount: A:0.39, C:0.22, G:0.26, T:0.13
Consensus pattern (20 bp):
AGGCACCGAAGTGCAATCAA
Found at i:23049746 original size:13 final size:13
Alignment explanation
Indices: 23049728--23049754 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
23049718 TACTAGTTGG
23049728 ATATTTGGTGTAT
1 ATATTTGGTGTAT
23049741 ATATTTGGTGTAT
1 ATATTTGGTGTAT
23049754 A
1 A
23049755 GATGTTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (13 bp):
ATATTTGGTGTAT
Found at i:23058754 original size:46 final size:46
Alignment explanation
Indices: 23058683--23058823 Score: 128
Period size: 46 Copynumber: 3.0 Consensus size: 46
23058673 ATGACGTTTG
* * *
23058683 GGTCAC-TTGTGTGAGCTAGTATAAGATGTGTCTGGGACATGCATC
1 GGTCACATTATGTGAGCTAGTGTAAGATATGTCTGGGACATGCATC
* * * *
23058728 GGTCACATTATGTGAGCCAGTGTAAGACCATGTTTGGGACATAGCTTC
1 GGTCACATTATGTGAGCTAGTGTAAGA-TATGTCTGGGACAT-GCATC
* *
23058776 GG---CATTAAGACGAGTGCTAGTGTAAGATATGTCTGGGACATGCATC
1 GGTCACATTATG-TGA--GCTAGTGTAAGATATGTCTGGGACATGCATC
23058822 GG
1 GG
23058824 CCTCGAGATG
Statistics
Matches: 77, Mismatches: 13, Indels: 11
0.76 0.13 0.11
Matches are distributed among these distances:
45 12 0.16
46 25 0.32
47 23 0.30
48 17 0.22
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.28
Consensus pattern (46 bp):
GGTCACATTATGTGAGCTAGTGTAAGATATGTCTGGGACATGCATC
Found at i:23069431 original size:32 final size:31
Alignment explanation
Indices: 23069385--23069446 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 31
23069375 AATAATATTA
23069385 TTTAAAAAATGTAAA-AAAAAATTGTAAAAAT
1 TTTAAAAAATGTAAATAAAAAATT-TAAAAAT
* *
23069416 TTTAAAGAATTGTAAATAAAATATTTAAAAA
1 TTTAAA-AAATGTAAATAAAAAATTTAAAAA
23069447 CAATTTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 6 0.22
32 14 0.52
33 7 0.26
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.32
Consensus pattern (31 bp):
TTTAAAAAATGTAAATAAAAAATTTAAAAAT
Found at i:23073318 original size:15 final size:15
Alignment explanation
Indices: 23073300--23073328 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
23073290 TTTATTCTTT
23073300 CTTTTATTATTATTA
1 CTTTTATTATTATTA
23073315 CTTTTATTATTATT
1 CTTTTATTATTATT
23073329 TTAATCTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (15 bp):
CTTTTATTATTATTA
Found at i:23075492 original size:13 final size:11
Alignment explanation
Indices: 23075456--23075486 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
23075446 CTGCCCGTAT
23075456 TAATTTTTATA
1 TAATTTTTATA
*
23075467 TTATTTTTATA
1 TAATTTTTATA
23075478 TAATTTTTA
1 TAATTTTTA
23075487 AATATATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TAATTTTTATA
Found at i:23076850 original size:23 final size:21
Alignment explanation
Indices: 23076809--23076871 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 21
23076799 TTTAAGAAGG
* * *
23076809 TAAAGAAAAATAAATAAATAAA
1 TAAATAAAAAGAAATAAA-ATA
*
23076831 TAAATAAAAAGAAATAAAATG
1 TAAATAAAAAGAAATAAAATA
23076852 TACAATAAAAAGGAAATAAA
1 TA-AATAAAAA-GAAATAAA
23076872 CCAATTTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 3 0.09
22 24 0.69
23 8 0.23
ACGTcount: A:0.73, C:0.02, G:0.08, T:0.17
Consensus pattern (21 bp):
TAAATAAAAAGAAATAAAATA
Found at i:23078535 original size:44 final size:44
Alignment explanation
Indices: 23078466--23079285 Score: 518
Period size: 44 Copynumber: 18.1 Consensus size: 44
23078456 GGTACAGGAA
* * * * *
23078466 TTGTTGCTTCGATCTACTCCACTGCAATTTCAGGGAGATAAGAC
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
* * *
23078510 TTGTAGCTTCAATCTGCTCCGCTGCAATTTCAGGGAGATGAGAT
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
* **
23078554 TTGTATCTTCAATCTATTCCACTGCAACTTCAGGGAGATAAGAT
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
* * *
23078598 TTG--GCTTGAATCTACTCCACTGCATCTTCAGGGAGATAAGATTTGT
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA----T
* * * * *
23078644 AACTTGTAGTTTTAATCTGTTCCACTGCAACTTCAGAGAAATAAGAT
1 ---TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
** * * * * * * *
23078691 TCACTATCTTTAATCTGTTCTACTGTAACTTTAGGGAGATAAGAC
1 T-TGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
* * * *
23078736 TTGTAACTTCAACCTGC-CTCACTGCAACTTC-GTAGAGATAAAAT
1 TTGTAGCTTCAATCTGCTC-CACTGCAACTTCAG-GGAGATAAGAT
* * * * *
23078780 TTGTTATCTTCGATTTGCTCCACTGCATCTTTAGGGAGATAAGAT
1 TTG-TAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
* * *
23078825 TTGTAACTTCAATATGCTCTACTGCAACTTCAGGGAGATAAGATTTGTAAT
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGAT-A-A---G--AT
* ** * * *
23078876 TTGTAGCTTTAATCTATTCCACTACAACTTCAGGGAAATAGGAT
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
* * * * * *
23078920 TCGCTATCTTTAGTCTACTCCACTGCAACTTCAGGGAGATAAGAC
1 TTG-TAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
* * * *
23078965 TTGTAACTTCCA-CATGCTCCACTGCAACTTTAAGGAGATAAGGTTTATAAT
1 TTGTAGCTTCAATC-TGCTCCACTGCAACTTCAGGGAGATAA-G------AT
* * * * *
23079016 TTGTATCTTTAATCTGTTCCACTACAACTTCAGGGAAATAAGAT
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
* * * * ** * *
23079060 TTGCTATCTTCAGTTTACTCCACTATAACTTCAGGGAGAAAAGAC
1 TTG-TAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
* * ** * * *
23079105 TTGTAACTTCAACCTTTTCCATTGCAACTTTAGGGAGATAAGGT
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
* * * *
23079149 TTATAGTTTTAATCTG-TCCTACTGCAACTTCAGAGAGATAAGAT
1 TTGTAGCTTCAATCTGCTCC-ACTGCAACTTCAGGGAGATAAGAT
** * * ** * *
23079193 TTGCTATATTCAATCTTGCTCCATTACAACCCCCGGGAGATAAGAC
1 TTG-TAGCTTCAATC-TGCTCCACTGCAACTTCAGGGAGATAAGAT
*
23079239 TTGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
23079283 TTG
1 TTG
23079286 CCATTATGAT
Statistics
Matches: 594, Mismatches: 145, Indels: 74
0.73 0.18 0.09
Matches are distributed among these distances:
42 34 0.06
43 6 0.01
44 265 0.45
45 155 0.26
46 27 0.05
47 4 0.01
49 4 0.01
50 2 0.00
51 96 0.16
52 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.34
Consensus pattern (44 bp):
TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
Found at i:23078898 original size:229 final size:226
Alignment explanation
Indices: 23078477--23079285 Score: 692
Period size: 229 Copynumber: 3.5 Consensus size: 226
23078467 TGTTGCTTCG
* * * * *
23078477 ATCTACTCCACTGCAATTTCAGGGAGATAAGACTTGTAGCTTCAATCTGCTCCGCTGCAATTTCA
1 ATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCA
* * * * * *
23078542 GGGAGATGAGATTTGTATCTTCAATCTATTCCACTGCAACTTCAGGGAGATAAGATTTGGCTTGA
66 GAGAGATAAAATTTGTATCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGACTTCA
* * * * *
23078607 ATCTACTCCACTGCATCTTCAGGGAGATAAGATTTGTAACTTGTAGTTTTAATCTGTTCCACTGC
131 ATATACTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTATTCCACTAC
23078672 AACTTCAGAGAAATAAGATTCACTATCTTTA
196 AACTTCAGAGAAATAAGATTCACTATCTTTA
** * * *
23078703 ATCTGTTCTACTGTAACTTTAGGGAGATAAGACTTGTAACTTCAACCTGC-CTCACTGCAACTTC
1 ATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTC-CACTGCAACTTC
* * * * *
23078767 -GTAGAGATAAAATTTGTTATCTTCGATTTGCTCCACTGCATCTTTAGGGAGATAAGATTTGTAA
65 AG-AGAGATAAAATTTG-TATCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTG--A
* * *
23078831 CTTCAATATGCTCTACTGCAACTTCAGGGAGATAAGATTTGTAATTTGTAGCTTTAATCTATTCC
126 CTTCAATATACTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTATTCC
* * *
23078896 ACTACAACTTCAGGGAAATAGGATTCGCTATCTTTA
191 ACTACAACTTCAGAGAAATAAGATTCACTATCTTTA
* * * *
23078932 GTCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCCACATGCTCCACTGCAACTTTA
1 ATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCA
* ** * *
23078997 -AGGAGATAAGGTTTATAATTTGTATCTTTAATCTGTTCCACTACAACTTCAGGGAAATAAGATT
66 GA-GAGAT-A-----A-AATTTGTATCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATT
* * ** * * *
23079061 TGCTATCTTCAGTTTACTCCACTATAACTTCAGGGAGA-AA-A---G--ACTTGTAACTTCAACC
123 TG--A-CTTCAATATACTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATC
* * * * * * * *
23079119 TTTTCCATTGCAACTTTAGGGAGATAAGGTTTA-TAGT-TTTA
185 TATTCCACTACAACTTCAGAGAAATAAGATTCACTA-TCTTTA
* * * * * *
23079160 ATCT-GTCCTACTGCAACTTCAGAGAGATAAGATTTGCTATA-TTCAATCTTGCTCCATTACAAC
1 ATCTACTCC-ACTGCAACTTCAGGGAGATAAGACTTG-TA-ACTTCAA-CCTGCTCCACTGCAAC
** * * * * ** *
23079223 CCCCGGGAGATAAGACTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG
62 TTCAGAGAGATAAAATTTGTATCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTG
23079286 CCATTATGAT
Statistics
Matches: 470, Mismatches: 91, Indels: 47
0.77 0.15 0.08
Matches are distributed among these distances:
223 42 0.09
224 1 0.00
225 2 0.00
226 63 0.13
227 41 0.09
228 35 0.07
229 191 0.41
230 21 0.04
231 1 0.00
234 1 0.00
235 40 0.09
236 32 0.07
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.33
Consensus pattern (226 bp):
ATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCA
GAGAGATAAAATTTGTATCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGACTTCA
ATATACTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTATTCCACTAC
AACTTCAGAGAAATAAGATTCACTATCTTTA
Found at i:23078907 original size:51 final size:51
Alignment explanation
Indices: 23078849--23079062 Score: 152
Period size: 51 Copynumber: 4.5 Consensus size: 51
23078839 TGCTCTACTG
*
23078849 CAACTTCAGGGAGATAAGATTTGTAATTTGTAGCTTTAATCTATTCCACTA
1 CAACTTCAGGGAGATAAGATTTGTAATTTGTATCTTTAATCTATTCCACTA
* * * * *
23078900 CAACTTCAGGGAAAT-AG----G--ATTCGCTATCTTTAGTCTACTCCACTG
1 CAACTTCAGGGAGATAAGATTTGTAATTTG-TATCTTTAATCTATTCCACTA
* * ** *
23078945 CAACTTCAGGGAGATAAGACTTGTAACTTCCA-C----ATGC---TCCACTG
1 CAACTTCAGGGAGATAAGATTTGTAATTTGTATCTTTAAT-CTATTCCACTA
* * * * *
23078989 CAACTTTAAGGAGATAAGGTTTATAATTTGTATCTTTAATCTGTTCCACTA
1 CAACTTCAGGGAGATAAGATTTGTAATTTGTATCTTTAATCTATTCCACTA
*
23079040 CAACTTCAGGGAAATAAGATTTG
1 CAACTTCAGGGAGATAAGATTTG
23079063 CTATCTTCAG
Statistics
Matches: 120, Mismatches: 26, Indels: 34
0.67 0.14 0.19
Matches are distributed among these distances:
44 35 0.29
45 32 0.27
46 4 0.03
47 1 0.01
48 1 0.01
49 2 0.02
50 4 0.03
51 39 0.32
52 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (51 bp):
CAACTTCAGGGAGATAAGATTTGTAATTTGTATCTTTAATCTATTCCACTA
Found at i:23078956 original size:140 final size:139
Alignment explanation
Indices: 23078797--23079285 Score: 526
Period size: 140 Copynumber: 3.5 Consensus size: 139
23078787 CTTCGATTTG
* * * * * *
23078797 CTCCACTGCATCTTTAGGGAGATAAGATTTGTAACTTCAATATGCTCTACTGCAACTTCAGGGAG
1 CTCCACTACAACTTCAGGGAGATAAGACTTGTAACTTCAACATGCTCCACTGCAACTTCAGGGAG
* *
23078862 ATAAGATTTGTAATTTGTAGCTTTAATCTATTCCACTACAACTTCAGGGAAATAGGATTCGCTAT
66 ATAAGATTTGTAATTTGTAGCTTTAATCT-TTCCACTACAACTTCAGGGAAATAAGATTTGCTAT
*
23078927 CTTTAGTCTA
130 CTTCAGTCTA
* * * *
23078937 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCCACATGCTCCACTGCAACTTTAAGGAG
1 CTCCACTACAACTTCAGGGAGATAAGACTTGTAACTTCAACATGCTCCACTGCAACTTCAGGGAG
* * *
23079002 ATAAGGTTTATAATTTGTATCTTTAATCTGTTCCACTACAACTTCAGGGAAATAAGATTTGCTAT
66 ATAAGATTTGTAATTTGTAGCTTTAATCT-TTCCACTACAACTTCAGGGAAATAAGATTTGCTAT
*
23079067 CTTCAGTTTA
130 CTTCAGTCTA
* * * ** * *
23079077 CTCCACTATAACTTCAGGGAGAAAAGACTTGTAACTTCAACCTTTTCCATTGCAACTTTAGGGAG
1 CTCCACTACAACTTCAGGGAGATAAGACTTGTAACTTCAACATGCTCCACTGCAACTTCAGGGAG
* * * * * *
23079142 ATAAG----G---TTTATAGTTTTAATCTGTCCTACTGCAACTTCAGAGAGATAAGATTTGCTAT
66 ATAAGATTTGTAATTTGTAGCTTTAATCTTTCC-ACTACAACTTCAGGGAAATAAGATTTGCTAT
* * *
23079200 ATTCAATCTTG
130 CTTCAGTC-TA
* ** * **
23079211 CTCCATTACAACCCCCGGGAGATAAGACTTGTGGCTTCAATC-TGCTCCACTGCAACTTCAGGGA
1 CTCCACTACAACTTCAGGGAGATAAGACTTGTAACTTCAA-CATGCTCCACTGCAACTTCAGGGA
23079275 GATAAGATTTG
65 GATAAGATTTG
23079286 CCATTATGAT
Statistics
Matches: 293, Mismatches: 49, Indels: 16
0.82 0.14 0.04
Matches are distributed among these distances:
132 3 0.01
133 46 0.16
134 57 0.19
135 1 0.00
138 1 0.00
140 185 0.63
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.33
Consensus pattern (139 bp):
CTCCACTACAACTTCAGGGAGATAAGACTTGTAACTTCAACATGCTCCACTGCAACTTCAGGGAG
ATAAGATTTGTAATTTGTAGCTTTAATCTTTCCACTACAACTTCAGGGAAATAAGATTTGCTATC
TTCAGTCTA
Found at i:23079635 original size:34 final size:34
Alignment explanation
Indices: 23079587--23079655 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
23079577 GCCTTCTTGT
23079587 TCAGCCAGTATCTTTGACAGAAAACCCGAAGAAA
1 TCAGCCAGTATCTTTGACAGAAAACCCGAAGAAA
*
23079621 TCAGCCAGTTTCTTTGACAGAAAACCCGAAGAAA
1 TCAGCCAGTATCTTTGACAGAAAACCCGAAGAAA
23079655 T
1 T
23079656 AATCACAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.39, C:0.23, G:0.17, T:0.20
Consensus pattern (34 bp):
TCAGCCAGTATCTTTGACAGAAAACCCGAAGAAA
Found at i:23085877 original size:4 final size:4
Alignment explanation
Indices: 23085868--23085897 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
23085858 TATTAGAATG
23085868 ATAA ATAA ATAA ATAA ATAA ATGAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA AT-AA ATAA A
23085898 ACGACTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (4 bp):
ATAA
Found at i:23086051 original size:3 final size:3
Alignment explanation
Indices: 23086038--23086076 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
23086028 ACTAATATGC
*
23086038 ATA ATA A-A ATA ATA ATA ATA ATA ATA ATA GTA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
23086077 CAAAATATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:23086169 original size:22 final size:22
Alignment explanation
Indices: 23086144--23086201 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
23086134 GAAGGTAATG
*
23086144 AAAAATAAATAAATATATA-AAT
1 AAAAAGAAATAAA-ATATACAAT
*
23086166 AAAAAGAAATAAAATGTACAAT
1 AAAAAGAAATAAAATATACAAT
23086188 AAAAAGGAAATAAA
1 AAAAA-GAAATAAA
23086202 CCAATTTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
21 4 0.12
22 20 0.62
23 8 0.25
ACGTcount: A:0.72, C:0.02, G:0.07, T:0.19
Consensus pattern (22 bp):
AAAAAGAAATAAAATATACAAT
Found at i:23091075 original size:17 final size:17
Alignment explanation
Indices: 23091053--23091107 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
23091043 TTAATGTATC
23091053 AATATTTAAATTATTTA
1 AATATTTAAATTATTTA
* *
23091070 AATATTTCATTTATCATT-
1 AATATTTAAATTAT--TTA
23091088 -ATA-TTAAATTATTTA
1 AATATTTAAATTATTTA
23091103 AATAT
1 AATAT
23091108 CATTTATCAT
Statistics
Matches: 29, Mismatches: 4, Indels: 10
0.67 0.09 0.23
Matches are distributed among these distances:
14 2 0.07
16 10 0.34
17 15 0.52
19 2 0.07
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.53
Consensus pattern (17 bp):
AATATTTAAATTATTTA
Found at i:23091100 original size:33 final size:33
Alignment explanation
Indices: 23091039--23091149 Score: 144
Period size: 31 Copynumber: 3.5 Consensus size: 33
23091029 AGATTAATTT
* * *
23091039 ATATTTAATGTATCAATAT-TTAAATTATTTAA
1 ATATTTCATTTATCATTATATTAAATTATTTAA
23091071 ATATTTCATTTATCATTATATTAAATTATTTAA
1 ATATTTCATTTATCATTATATTAAATTATTTAA
23091104 ATA--TCATTTATCATTATATTAAATT-TTTAA
1 ATATTTCATTTATCATTATATTAAATTATTTAA
*
23091134 AT-TTT-ATTTATTATTA
1 ATATTTCATTTATCATTA
23091150 GATATATTTA
Statistics
Matches: 72, Mismatches: 4, Indels: 8
0.86 0.05 0.10
Matches are distributed among these distances:
30 17 0.24
31 23 0.32
32 16 0.22
33 16 0.22
ACGTcount: A:0.40, C:0.05, G:0.01, T:0.55
Consensus pattern (33 bp):
ATATTTCATTTATCATTATATTAAATTATTTAA
Found at i:23091215 original size:27 final size:28
Alignment explanation
Indices: 23091157--23091222 Score: 77
Period size: 27 Copynumber: 2.4 Consensus size: 28
23091147 TTAGATATAT
*
23091157 TTAAAATATTTATATATCATTAATTTAA
1 TTAAAATATTTATATATAATTAATTTAA
23091185 --AAAATAATTTATAT-TAATTAA-TTAA
1 TTAAAAT-ATTTATATATAATTAATTTAA
23091210 TTAAAAATATTTA
1 TT-AAAATATTTA
23091223 AAGTTTATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
25 4 0.12
26 11 0.33
27 13 0.39
28 5 0.15
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (28 bp):
TTAAAATATTTATATATAATTAATTTAA
Found at i:23092600 original size:3 final size:3
Alignment explanation
Indices: 23092592--23092622 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
23092582 TTGTATTTCC
23092592 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
23092623 TTTCTTTTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.35, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:23092838 original size:9 final size:9
Alignment explanation
Indices: 23092806--23092855 Score: 55
Period size: 9 Copynumber: 5.3 Consensus size: 9
23092796 ATAAATATTT
23092806 AAAAAAATA
1 AAAAAAATA
* *
23092815 ATGAAAAATT
1 A-AAAAAATA
*
23092825 CAAAAAATA
1 AAAAAAATA
23092834 AAAAAAATA
1 AAAAAAATA
23092843 AAAAAATATA
1 AAAAAA-ATA
23092853 AAA
1 AAA
23092856 TTTGATGTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
9 21 0.64
10 12 0.36
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (9 bp):
AAAAAAATA
Found at i:23093294 original size:20 final size:19
Alignment explanation
Indices: 23093269--23093324 Score: 55
Period size: 18 Copynumber: 3.0 Consensus size: 19
23093259 TTATTTTTTC
23093269 TTCTTTTAAAGAAAAAATAA
1 TTCTTTTAAA-AAAAAATAA
*
23093289 TTC-TTTAAAAATAAA-AA
1 TTCTTTTAAAAAAAAATAA
*
23093306 -TCTTTAAAATAAAAAATAA
1 TTCTTTTAAA-AAAAAATAA
23093325 AAATAAAAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
16 2 0.07
17 7 0.23
18 10 0.33
19 8 0.27
20 3 0.10
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (19 bp):
TTCTTTTAAAAAAAAATAA
Found at i:23093322 original size:16 final size:16
Alignment explanation
Indices: 23093290--23093320 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
23093280 AAAAAATAAT
23093290 TCTTTAAAAATAAAAA
1 TCTTTAAAAATAAAAA
23093306 TCTTT-AAAATAAAAA
1 TCTTTAAAAATAAAAA
23093321 ATAAAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.32
Consensus pattern (16 bp):
TCTTTAAAAATAAAAA
Found at i:23093569 original size:21 final size:21
Alignment explanation
Indices: 23093528--23093573 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
23093518 GTTGAACTAA
23093528 ATTTTATACTTTTTAATATTTT
1 ATTTTATACTTTTTAATA-TTT
23093550 ATTTT-TA-TTTTTAATAATTT
1 ATTTTATACTTTTTAAT-ATTT
23093570 ATTT
1 ATTT
23093574 GCATTGAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 15 0.65
21 3 0.13
22 5 0.22
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (21 bp):
ATTTTATACTTTTTAATATTT
Found at i:23099099 original size:26 final size:26
Alignment explanation
Indices: 23099063--23099172 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
23099053 TGATACAAAT
23099063 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
23099089 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
23099115 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
23099141 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
23099167 TGATAA
1 TGATAA
23099173 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:23100682 original size:26 final size:26
Alignment explanation
Indices: 23100653--23100705 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
23100643 TTTACAGTTT
23100653 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
23100679 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
23100705 T
1 T
23100706 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:23101275 original size:136 final size:135
Alignment explanation
Indices: 23100953--23101236 Score: 410
Period size: 136 Copynumber: 2.1 Consensus size: 135
23100943 GAGTAGTCTC
** * * *
23100953 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGGCTA-TGATGCTGCATGGACTTTGAAATGGGCCTATGGGCCATAC
23101018 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCGGCCCAGTACCA
65 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCGGCCCAGTACCA
23101083 CTATTA
130 CTATTA
** * * *
23101089 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGGCTA-TGATGCTGCATGGACTTTGAAATGGGCCTATGGGCCATAC
23101154 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAAT-TGAAAAGGGCTCTGG-CCAGTACC
65 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTC-GGCCCAGTACC
*
23101217 ACTGTTA
129 ACTATTA
**
23101224 CCTGAATGGGCTT
1 CCCAAATGGGCTT
23101237 AGGCCCAATG
Statistics
Matches: 144, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
135 37 0.26
136 107 0.74
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (135 bp):
CCCAAATGGGCTTGCATATGGCTATGATGCTGCATGGACTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCGGCCCAGTACCAC
TATTA
Found at i:23104923 original size:26 final size:26
Alignment explanation
Indices: 23104894--23105001 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
23104884 TGATACAAAT
*
23104894 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
23104920 TGATAATAGGTTAGGTAAA--TTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
23104944 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
23104970 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
23104996 TGATAA
1 TGATAA
23105002 GAATTTCATG
Statistics
Matches: 77, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
24 22 0.29
26 55 0.71
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:23104953 original size:50 final size:51
Alignment explanation
Indices: 23104894--23105001 Score: 182
Period size: 50 Copynumber: 2.1 Consensus size: 51
23104884 TGATACAAAT
23104894 TGATAATGGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAA-TTTCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAAGTTTCA
* *
23104944 TGATAATGGGTTAGGTAAATGTTTCATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAA-GTTTCA
23104996 TGATAA
1 TGATAA
23105002 GAATTTCATG
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
50 43 0.80
52 11 0.20
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (51 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAAGTTTCA
Found at i:23106510 original size:25 final size:26
Alignment explanation
Indices: 23106482--23106533 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
23106472 TTTACAGTTT
23106482 TACCCCTAGAGATAAATT-ACCGAAA
1 TACCCCTAGAGATAAATTGACCGAAA
* * *
23106507 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGAGATAAATTGACCGAAA
23106533 T
1 T
23106534 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.25
Consensus pattern (26 bp):
TACCCCTAGAGATAAATTGACCGAAA
Found at i:23107026 original size:137 final size:137
Alignment explanation
Indices: 23106780--23107066 Score: 556
Period size: 137 Copynumber: 2.1 Consensus size: 137
23106770 GAGTAGTCTC
23106780 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
23106845 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
23106910 ACTGTTA
131 ACTGTTA
23106917 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
23106982 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
23107047 ACTGTTA
131 ACTGTTA
**
23107054 CCTGAATGGGCTT
1 CCCAAATGGGCTT
23107067 AGGCCCAATG
Statistics
Matches: 148, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 148 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:23108040 original size:14 final size:14
Alignment explanation
Indices: 23108023--23108063 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
23108013 ACCTTGAACT
* *
23108023 TTAAATCCTAAACC
1 TTAAACCCTAAACA
23108037 TTAAACCCTAAACA
1 TTAAACCCTAAACA
23108051 TTAAACCCTAAAC
1 TTAAACCCTAAAC
23108064 TCAAAATTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.46, C:0.29, G:0.00, T:0.24
Consensus pattern (14 bp):
TTAAACCCTAAACA
Found at i:23108048 original size:21 final size:21
Alignment explanation
Indices: 23108008--23108048 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
23107998 ATTTTTTTAC
* **
23108008 CCTAAACCTTGAACTTTAAAT
1 CCTAAACCTTAAACCCTAAAT
23108029 CCTAAACCTTAAACCCTAAA
1 CCTAAACCTTAAACCCTAAA
23108049 CATTAAACCC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.41, C:0.29, G:0.02, T:0.27
Consensus pattern (21 bp):
CCTAAACCTTAAACCCTAAAT
Found at i:23108095 original size:21 final size:21
Alignment explanation
Indices: 23108057--23108096 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
23108047 AACATTAAAC
* *
23108057 CCTAAACTCAAAATTCAAAAT
1 CCTAAACCCAAAACTCAAAAT
*
23108078 CCTAAACCCAAACCTCAAA
1 CCTAAACCCAAAACTCAAA
23108097 CTTTAAACCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.33, G:0.00, T:0.17
Consensus pattern (21 bp):
CCTAAACCCAAAACTCAAAAT
Found at i:23111423 original size:26 final size:26
Alignment explanation
Indices: 23111393--23111448 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
23111383 TGAAATTCCC
23111393 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
23111419 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
23111445 ATCA
1 ATCA
23111449 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:23118276 original size:16 final size:16
Alignment explanation
Indices: 23118251--23118292 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
23118241 GGACAAAACT
*
23118251 TTGTTATTTTCACCCC
1 TTGTTCTTTTCACCCC
23118267 TTGTTCTTTTCACCCC
1 TTGTTCTTTTCACCCC
*
23118283 TTTTTCTTTT
1 TTGTTCTTTT
23118293 AATAAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.07, C:0.29, G:0.05, T:0.60
Consensus pattern (16 bp):
TTGTTCTTTTCACCCC
Found at i:23119960 original size:42 final size:42
Alignment explanation
Indices: 23119861--23119969 Score: 150
Period size: 41 Copynumber: 2.6 Consensus size: 42
23119851 ACCAGCACAG
* *
23119861 AGCCTGCTAGGTAATAAACCTGAT-TCAAGACACCGGCATAA
1 AGCCTGCTAGGAAATAAGCCTGATATCAAGACACCGGCATAA
* *
23119902 AGCATGCTAGGAAATAAGCCTGATATC-ATACACCGGCATCAA
1 AGCCTGCTAGGAAATAAGCCTGATATCAAGACACCGGCAT-AA
*
23119944 AGCCTGCTAGGCAATAAGCCTGATAT
1 AGCCTGCTAGGAAATAAGCCTGATAT
23119970 ATCACTGTTA
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
41 32 0.53
42 28 0.47
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (42 bp):
AGCCTGCTAGGAAATAAGCCTGATATCAAGACACCGGCATAA
Found at i:23120090 original size:14 final size:14
Alignment explanation
Indices: 23120071--23120108 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
23120061 ATAACCATAG
23120071 AAATTCATACAAAT
1 AAATTCATACAAAT
*
23120085 AAATTCA-ACATAT
1 AAATTCATACAAAT
*
23120098 AAAATCATACA
1 AAATTCATACA
23120109 CATTCAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.58, C:0.16, G:0.00, T:0.26
Consensus pattern (14 bp):
AAATTCATACAAAT
Found at i:23124872 original size:43 final size:43
Alignment explanation
Indices: 23124752--23124873 Score: 154
Period size: 43 Copynumber: 2.8 Consensus size: 43
23124742 TCACATATCG
* * * * * *
23124752 ATGCCACTGTCCAAGATAGGGTCTTACACGAAATCATAATACG
1 ATGCCAATGTCCCAGACACGGTCTTACACGTAATCATAATACA
* *
23124795 ATGCCAATGTCCCAGACATGGTCTTACACATAATCATAATACA
1 ATGCCAATGTCCCAGACACGGTCTTACACGTAATCATAATACA
* *
23124838 ATGCTAATGTCCCAGACACGGTCTTACATGTAATCA
1 ATGCCAATGTCCCAGACACGGTCTTACACGTAATCA
23124874 CATCTTGATA
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 68 1.00
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACACGGTCTTACACGTAATCATAATACA
Found at i:23127242 original size:22 final size:22
Alignment explanation
Indices: 23127214--23127258 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
23127204 ATCAATAACG
23127214 ATTAATTTTTA-AGGTTCTTATA
1 ATTAATTTTTACA-GTTCTTATA
23127236 ATTAATTTTTACAGTTCTTATA
1 ATTAATTTTTACAGTTCTTATA
23127258 A
1 A
23127259 CTTAGTCCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (22 bp):
ATTAATTTTTACAGTTCTTATA
Done.