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 159 of 378
Found at i:46200953 original size:49 final size:49
Alignment explanation
Indices: 46200893--46201052 Score: 288
Period size: 49 Copynumber: 3.3 Consensus size: 49
46200883 GTATGGGATA
*
46200893 TATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
46200942 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
46200991 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA--GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
46201038 TATAAATGTGATAAG
1 TATATATGTGATAAG
46201053 TCCCGAAGGG
Statistics
Matches: 109, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
47 17 0.16
49 92 0.84
ACGTcount: A:0.33, C:0.07, G:0.29, T:0.31
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
Found at i:46203114 original size:40 final size:40
Alignment explanation
Indices: 46202871--46203102 Score: 378
Period size: 40 Copynumber: 5.8 Consensus size: 40
46202861 CGGATGATAA
* *
46202871 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
*
46202911 CCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
46202951 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
46202991 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-T
**
46203031 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-T
*
46203071 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
46203103 GGCTATATCC
Statistics
Matches: 182, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
39 2 0.01
40 180 0.99
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
Found at i:46215296 original size:18 final size:18
Alignment explanation
Indices: 46215273--46215311 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
46215263 AGGATTTGTG
46215273 ATGTTTTTTTAAGTTCTT
1 ATGTTTTTTTAAGTTCTT
46215291 ATGTTTTTTTAAGTTCTT
1 ATGTTTTTTTAAGTTCTT
46215309 ATG
1 ATG
46215312 GAAGAAAATG
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:0.18, C:0.05, G:0.13, T:0.64
Consensus pattern (18 bp):
ATGTTTTTTTAAGTTCTT
Found at i:46216039 original size:46 final size:46
Alignment explanation
Indices: 46215902--46216171 Score: 203
Period size: 46 Copynumber: 5.8 Consensus size: 46
46215892 ATTCGTGTGT
* * * *
46215902 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GACGA
* ** *
46215948 GAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGTATTGAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGA
* *
46215996 GGGCTAGTGTAAGACATGTCTAGGG-CATGCATCGGCCTCGAGACGTA
1 GAGCCAGTGTAAGACATGTCT-GGGACATGCATCGGCCTCGAGACG-A
* *
46216043 -AGCCAGTGTAAGACATGTTTGGGACATGCATCGG-CTACGAGATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGACGA
* * * * * *
46216088 TAGTCAGTGTAAGACCATGT-TTGGACATGGCATC-GACTTGAGA-TA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGA
* * *
46216133 TAAGCCAGTGTAAGACCGTGTCTAGGACATGGCATCGGC
1 -GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
46216172 ACCTTACCCC
Statistics
Matches: 183, Mismatches: 27, Indels: 26
0.78 0.11 0.11
Matches are distributed among these distances:
45 7 0.04
46 100 0.55
47 50 0.27
48 25 0.14
49 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGA
Found at i:46216168 original size:140 final size:140
Alignment explanation
Indices: 46215907--46216171 Score: 333
Period size: 140 Copynumber: 1.9 Consensus size: 140
46215897 TGTGTGAGCT
*
46215907 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAATGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCCAATGTAAGACCATGTCTGG
** * *
46215972 GACATGGCATCGGTATTGAGACGAGGGCTAGTGTAAGACATGTCTAGGGCATGCATCGGCCTCGA
66 GACATGGCATCGGTATTGAGACGAAAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGA
46216037 GACGTAAGCC
131 GACGTAAGCC
* * * * * *
46216047 AGTGTAAGACATGTTTGGGACATGCATCGGCTACGA-GATGATAGTCAGTGTAAGACCATGT-TT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATGATGAGAGCCAATGTAAGACCATGTCTG
* *
46216110 GGACATGGCATC-G-ACTTGAGA-TATAAGCCAGTGTAAGACCGTGTCTAGGACATGGCATCGGC
65 GGACATGGCATCGGTA-TTGAGACGA-AAGCCAGTGTAAGA-CATGTCTAGGACAT-GCATCGGC
46216172 ACCTTACCCC
Statistics
Matches: 107, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
137 2 0.02
138 18 0.17
139 25 0.23
140 61 0.57
141 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (140 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCCAATGTAAGACCATGTCTGG
GACATGGCATCGGTATTGAGACGAAAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGA
GACGTAAGCC
Found at i:46217288 original size:21 final size:22
Alignment explanation
Indices: 46217246--46217288 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
46217236 TGTTAGAATG
46217246 CTCACACGGGAGTGTAGCCCCT
1 CTCACACGGGAGTGTAGCCCCT
46217268 CTCACAC-GGACGTGT-GCCCCT
1 CTCACACGGGA-GTGTAGCCCCT
46217289 ATGTGAAGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.16, C:0.40, G:0.26, T:0.19
Consensus pattern (22 bp):
CTCACACGGGAGTGTAGCCCCT
Found at i:46219012 original size:3 final size:3
Alignment explanation
Indices: 46219004--46219034 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
46218994 TGGGGTTTTT
46219004 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
46219035 AAGCTAATAG
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:46221654 original size:13 final size:13
Alignment explanation
Indices: 46221620--46221658 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
46221610 TTGACATGGT
46221620 AGTTGTTTAAACA
1 AGTTGTTTAAACA
* * *
46221633 GGGTATTTAAACA
1 AGTTGTTTAAACA
46221646 AGTTGTTTAAACA
1 AGTTGTTTAAACA
46221659 TTAGCACTAG
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.36
Consensus pattern (13 bp):
AGTTGTTTAAACA
Found at i:46224133 original size:16 final size:17
Alignment explanation
Indices: 46224112--46224145 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
46224102 TGTAGGGGGC
46224112 TATGAAG-TTAATATAA
1 TATGAAGCTTAATATAA
*
46224128 TATGAAGCTTATTATAA
1 TATGAAGCTTAATATAA
46224145 T
1 T
46224146 TCTTGCATGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.44, C:0.03, G:0.12, T:0.41
Consensus pattern (17 bp):
TATGAAGCTTAATATAA
Found at i:46229483 original size:123 final size:123
Alignment explanation
Indices: 46229264--46229493 Score: 451
Period size: 123 Copynumber: 1.9 Consensus size: 123
46229254 GAATTATGTG
46229264 AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
46229329 GCTAAGTCCCAAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCAAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
46229387 AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
*
46229452 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTT
66 GCTAAGTCCCAAAGGCAATTATGCTAGTGATATGTTTGTGTT
46229494 ATGGATGTGT
Statistics
Matches: 106, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
123 106 1.00
ACGTcount: A:0.30, C:0.10, G:0.26, T:0.35
Consensus pattern (123 bp):
AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
GCTAAGTCCCAAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
Found at i:46229601 original size:40 final size:40
Alignment explanation
Indices: 46229546--46229692 Score: 170
Period size: 40 Copynumber: 3.7 Consensus size: 40
46229536 TGAATGATAC
* * *
46229546 CCGGGCTAAG-TCCGAAGACATTTATGCTAGTAATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAATTATAT
* * * *
46229585 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAATTATAT
* * **
46229625 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAATTATAT
* *
46229665 CCGGGCTAAGACCCGAGGGCATTCGTGC
1 CCGGGCTAAGACCCGAAGGCATTTGTGC
46229693 GTGTGGTTAT
Statistics
Matches: 90, Mismatches: 17, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
39 9 0.10
40 81 0.90
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAATTATAT
Found at i:46229702 original size:40 final size:38
Alignment explanation
Indices: 46229579--46229708 Score: 143
Period size: 40 Copynumber: 3.3 Consensus size: 38
46229569 ATGCTAGTAA
* *
46229579 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGA
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTGTGCT-GTGG
* * * *
46229619 CTATATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTTG
1 TTATATCCGGGCTAAGACCCGAAGGCA-TTGTGC-TGTGG
*
46229659 TTATATCCGGGCTAAGACCCGAGGGCATTCGTGCGTGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATT-GTGC-TGTGG
46229699 TTATATCCGG
1 TTATATCCGG
46229709 TTGTATTCCG
Statistics
Matches: 75, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
39 3 0.04
40 72 0.96
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (38 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTGTGCTGTGG
Found at i:46236681 original size:123 final size:123
Alignment explanation
Indices: 46236462--46236691 Score: 460
Period size: 123 Copynumber: 1.9 Consensus size: 123
46236452 GAATTATGTG
46236462 AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
46236527 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
46236585 AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
46236650 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTT
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTT
46236692 ATGGATGTGT
Statistics
Matches: 107, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
123 107 1.00
ACGTcount: A:0.29, C:0.10, G:0.26, T:0.35
Consensus pattern (123 bp):
AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
Found at i:46236770 original size:98 final size:98
Alignment explanation
Indices: 46236593--46236775 Score: 294
Period size: 98 Copynumber: 1.9 Consensus size: 98
46236583 GAAAATGAAA
* * * *
46236593 TATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGGGCTAAGTC
1 TATGGATGTGTAATGATTATTGACATATGTGTGCATGAGCAATTGAATGATACCCGGGCTAAGTC
*
46236658 CCGAAGGCAATTATGCTAGTGATATGTTTGTGT
66 CCGAAGACAATTATGCTAGTGATATGTTTGTGT
**
46236691 TATGGATGTGTAATGATTATTGATTTATGTGTGCATGAGCAATTGAATGATACCCGGGCTAAGTC
1 TATGGATGTGTAATGATTATTGACATATGTGTGCATGAGCAATTGAATGATACCCGGGCTAAGTC
*
46236756 CCGAAGACATTTATGCTAGT
66 CCGAAGACAATTATGCTAGT
46236776 AATTATATCC
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
98 77 1.00
ACGTcount: A:0.27, C:0.11, G:0.26, T:0.36
Consensus pattern (98 bp):
TATGGATGTGTAATGATTATTGACATATGTGTGCATGAGCAATTGAATGATACCCGGGCTAAGTC
CCGAAGACAATTATGCTAGTGATATGTTTGTGT
Found at i:46236911 original size:79 final size:79
Alignment explanation
Indices: 46236744--46236946 Score: 221
Period size: 79 Copynumber: 2.6 Consensus size: 79
46236734 TGAATGATAC
* * * * *
46236744 CCGGGCTAAGT-CCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAATT
1 CCGGGCTAA-TACCCGAAGGCATTTGTGCAAGTAGTTATATCC-GGCTAAGACCCGAAGGCAATT
*
46236808 GTGCTAGTGACTATAT
64 GTGCAAGTGACTATAT
* * *
46236824 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATATCCGGCTAATACCCGAAGGCATTTGT
1 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTAGTTATATCCGGCTAAGACCCGAAGGCAATTGT
*
46236889 GCAAGTCG-TTATAT
66 GCAAGT-GACTATAT
* * * ** *
46236903 CCGGGCTAAGACCCGAGGGCATTCGTGCGTGTGGTTATATCCGG
1 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTAGTTATATCCGG
46236947 TTGTATTCCG
Statistics
Matches: 105, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
79 69 0.66
80 36 0.34
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGGGCTAATACCCGAAGGCATTTGTGCAAGTAGTTATATCCGGCTAAGACCCGAAGGCAATTGT
GCAAGTGACTATAT
Found at i:46236940 original size:40 final size:40
Alignment explanation
Indices: 46236744--46236946 Score: 228
Period size: 40 Copynumber: 5.1 Consensus size: 40
46236734 TGAATGATAC
* * * * **
46236744 CCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGGTTATAT
* * * **
46236784 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGGTTATAT
* *
46236824 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGGTTATAT
* *
46236864 CC-GGCTAATACCCGAAGGCATTTGTGCAAGTCGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGGTTATAT
* * **
46236903 CCGGGCTAAGACCCGAGGGCATTCGTGCGTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGGTTATAT
46236943 CCGG
1 CCGG
46236947 TTGTATTCCG
Statistics
Matches: 141, Mismatches: 21, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
39 38 0.27
40 103 0.73
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGGTTATAT
Found at i:46240296 original size:20 final size:19
Alignment explanation
Indices: 46240271--46240326 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
46240261 TTTTTGAACG
46240271 TTTTATAATTTTGAATTTAT
1 TTTTATAATTTTGAATTT-T
*
46240291 TTTTAT-TTTTTGAATATTT
1 TTTTATAATTTTGAAT-TTT
*
46240310 TTTTATAATTTTAAATT
1 TTTTATAATTTTGAATT
46240327 GCTTATTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.68
Consensus pattern (19 bp):
TTTTATAATTTTGAATTTT
Found at i:46251685 original size:36 final size:36
Alignment explanation
Indices: 46251619--46251687 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
46251609 GAATACATTA
*
46251619 TAATTTTGTAAATATTATATAAATATTTATTTTTCT
1 TAATTTTGTAAATATTATACAAATATTTATTTTTCT
*
46251655 TAATTTT-TAAATATT-TACACATAGTCTTATTTT
1 TAATTTTGTAAATATTATACAAATA-T-TTATTTT
46251688 ATTTTCATGG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 6 0.21
35 9 0.31
36 14 0.48
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.57
Consensus pattern (36 bp):
TAATTTTGTAAATATTATACAAATATTTATTTTTCT
Found at i:46267654 original size:26 final size:26
Alignment explanation
Indices: 46267603--46267654 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
46267593 CTCTATGCAA
*
46267603 TTTTAGTATTTGTATTTTAATTTTTT
1 TTTTAGTATTTGTATTTTAATATTTT
*
46267629 TTTTAGTTTTTGTATTTTTAA-ATTTT
1 TTTTAGTATTTGTA-TTTTAATATTTT
46267655 GAAAATTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.19, C:0.00, G:0.08, T:0.73
Consensus pattern (26 bp):
TTTTAGTATTTGTATTTTAATATTTT
Found at i:46273916 original size:30 final size:30
Alignment explanation
Indices: 46273880--46273936 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
46273870 TATGTTGTCA
*
46273880 AATGCTTATTAACCAAAGTCGTTTTGGTCG
1 AATGCTTATTAACCAAAGTCATTTTGGTCG
* *
46273910 AATGCTTGTTTACCAAAGTCATTTTGG
1 AATGCTTATTAACCAAAGTCATTTTGG
46273937 GATGAAGTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (30 bp):
AATGCTTATTAACCAAAGTCATTTTGGTCG
Found at i:46284754 original size:15 final size:15
Alignment explanation
Indices: 46284734--46284762 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
46284724 ATGCGTCGCA
46284734 CACCATGTTATCAAT
1 CACCATGTTATCAAT
46284749 CACCATGTTATCAA
1 CACCATGTTATCAA
46284763 GCAACAATAC
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:0.34, C:0.28, G:0.07, T:0.31
Consensus pattern (15 bp):
CACCATGTTATCAAT
Found at i:46289267 original size:30 final size:30
Alignment explanation
Indices: 46289231--46289291 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
46289221 GTTTAGATAA
46289231 TTAGTTAATTAAAACAAACCCCATTATTCT
1 TTAGTTAATTAAAACAAACCCCATTATTCT
46289261 TTAGTTAATTAAAACAAACCCCATTATTCT
1 TTAGTTAATTAAAACAAACCCCATTATTCT
46289291 T
1 T
46289292 AGGCTAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.39, C:0.20, G:0.03, T:0.38
Consensus pattern (30 bp):
TTAGTTAATTAAAACAAACCCCATTATTCT
Found at i:46289565 original size:27 final size:27
Alignment explanation
Indices: 46289535--46289599 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
46289525 TCTTTAGCCA
46289535 TTTATTTTTCTTAC-AATTTAATTTAAT
1 TTTATTTTTCTTACTAA-TTAATTTAAT
* * *
46289562 TTTATTATTATTACTAATTAATTTACT
1 TTTATTTTTCTTACTAATTAATTTAAT
46289589 TTT-TTTTTCTT
1 TTTATTTTTCTT
46289600 GGCAGGTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
26 6 0.19
27 24 0.75
28 2 0.06
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (27 bp):
TTTATTTTTCTTACTAATTAATTTAAT
Found at i:46291455 original size:29 final size:29
Alignment explanation
Indices: 46291421--46291552 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
46291411 TACTCGATTT
** * *
46291421 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
46291450 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
46291479 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
46291508 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
46291537 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
46291553 ATCTCGTCAC
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 2 0.02
29 85 0.98
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:46298801 original size:29 final size:29
Alignment explanation
Indices: 46298767--46298898 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
46298757 TACTCGATTT
** *
46298767 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCAAGCA
* *** *
46298796 CGCACACATAGTGCCATACCCTTCAAGCT
1 CGCACACTTAGTGCCATATATTTCAAGCA
*
46298825 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCAAGCA
* *
46298854 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCAAGCA
46298883 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
46298899 ATCTGTCACC
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.27, C:0.33, G:0.16, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCAAGCA
Found at i:46308365 original size:30 final size:30
Alignment explanation
Indices: 46308331--46308388 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
46308321 TTTTCGAGCA
* *
46308331 TAGGGGTAAAATGGTCATTTTGCCAAAGTC
1 TAGGGGCAAAATAGTCATTTTGCCAAAGTC
*
46308361 TAGGGGCAAAATAGTCATTTTTCCAAAG
1 TAGGGGCAAAATAGTCATTTTGCCAAAG
46308389 ATGTGAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (30 bp):
TAGGGGCAAAATAGTCATTTTGCCAAAGTC
Found at i:46308971 original size:49 final size:48
Alignment explanation
Indices: 46308729--46308996 Score: 227
Period size: 49 Copynumber: 5.7 Consensus size: 48
46308719 TTACTTGTGT
* *
46308729 GCCAGTGTAAGA-CATGTCTGGGACATGCACCAGCCACAAT-ATGATA
1 GCCAGTGTAAGACCATGTCTGGGACATGCATCAGCCTCAATGATGATA
* *
46308775 GCCAGTGTAAGACCATGTCTGGGACATGCATC-GACCTCGACGATGATA
1 GCCAGTGTAAGACCATGTCTGGGACATGCATCAG-CCTCAATGATGATA
* * * *
46308823 ACCAGTGTAAGACC-TGTCTAGGACACGCATC-GGCT-AA-GAGTTG-T-
1 GCCAGTGTAAGACCATGTCTGGGACATGCATCAGCCTCAATGA--TGATA
* ** *
46308867 GCTAGTGTAAGA-CATGTCTGGGACATGCATCAGCGCGT--ATAGACAAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGCATCAGC-C-TCAAT-GATGATA
* * *
46308915 GCTAGTATAAGACCATGTCTGGGACATGTTATCAGCCTCAATGATGATA
1 GCCAGTGTAAGACCATGTCTGGGACATG-CATCAGCCTCAATGATGATA
* *
46308964 GCCAGTATAAGACCATGTCCGGGACATGACATC
1 GCCAGTGTAAGACCATGTCTGGGACATG-CATC
46308997 GGCAACATAT
Statistics
Matches: 179, Mismatches: 26, Indels: 31
0.76 0.11 0.13
Matches are distributed among these distances:
43 1 0.01
44 27 0.15
45 3 0.02
46 19 0.11
47 39 0.22
48 33 0.18
49 49 0.27
50 8 0.04
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (48 bp):
GCCAGTGTAAGACCATGTCTGGGACATGCATCAGCCTCAATGATGATA
Found at i:46310321 original size:43 final size:42
Alignment explanation
Indices: 46310274--46310355 Score: 103
Period size: 42 Copynumber: 1.9 Consensus size: 42
46310264 TCTTATATGT
46310274 AATCAAACATCGATGCC-ACTATCCCAGACAGGGTCTTACAAGA
1 AATCAAACA-CGATGCCGA-TATCCCAGACAGGGTCTTACAAGA
* * * *
46310317 AATCAGATACGATGCCGATGTCCCAGACATGGTCTTACA
1 AATCAAACACGATGCCGATATCCCAGACAGGGTCTTACA
46310356 CGTAAAACAG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
42 26 0.76
43 8 0.24
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (42 bp):
AATCAAACACGATGCCGATATCCCAGACAGGGTCTTACAAGA
Found at i:46310387 original size:44 final size:42
Alignment explanation
Indices: 46310295--46310404 Score: 123
Period size: 44 Copynumber: 2.6 Consensus size: 42
46310285 GATGCCACTA
* * * * *
46310295 TCCCAGACAGGGTCTTACAAGAAATCAGATACGATGCCGATG
1 TCCCAGACATGGTCTTACACGAAAACAGATACGATGCCAACG
46310337 TCCCAGACATGGTCTTACACGTAAAACAGA-AGTCGATGCCAACG
1 TCCCAGACATGGTCTTACACG-AAAACAGATA--CGATGCCAACG
**
46310381 TCCCAGATGTGGTCTTACACGAAA
1 TCCCAGACATGGTCTTACACGAAA
46310405 TCCTATGTCA
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
42 20 0.34
43 10 0.17
44 28 0.48
ACGTcount: A:0.33, C:0.25, G:0.22, T:0.20
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACACGAAAACAGATACGATGCCAACG
Found at i:46312478 original size:16 final size:18
Alignment explanation
Indices: 46312440--46312480 Score: 50
Period size: 16 Copynumber: 2.3 Consensus size: 18
46312430 ATAGAAGAAC
46312440 AGAAGAAGAAACAATAAAA
1 AGAA-AAGAAACAATAAAA
*
46312459 AGAAAAGAAA-AA-AAAT
1 AGAAAAGAAACAATAAAA
46312475 AGAAAA
1 AGAAAA
46312481 AGGCGACTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 9 0.43
17 2 0.10
18 6 0.29
19 4 0.19
ACGTcount: A:0.78, C:0.02, G:0.15, T:0.05
Consensus pattern (18 bp):
AGAAAAGAAACAATAAAA
Found at i:46315735 original size:30 final size:30
Alignment explanation
Indices: 46315699--46315756 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
46315689 ATTTTAGGAA
*
46315699 CCACACGGGCTGGGCACACACCCATGTGAC
1 CCACACGGGCTGGACACACACCCATGTGAC
46315729 CCACACGGGCTGGACACACACCCATGTG
1 CCACACGGGCTGGACACACACCCATGTG
46315757 CTAAACCGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.24, C:0.40, G:0.26, T:0.10
Consensus pattern (30 bp):
CCACACGGGCTGGACACACACCCATGTGAC
Found at i:46317960 original size:40 final size:40
Alignment explanation
Indices: 46317893--46318069 Score: 207
Period size: 40 Copynumber: 4.5 Consensus size: 40
46317883 ACCCAAGTAT
46317893 CTTCGGGAT-TTAG-CCGGATATAACAACTCACACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAACAACTCACACAAATGC
* * *
46317932 CTTCAGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCACACAAATGC
* *
46317972 CTTCGGGTCTTAGCCCGGATATAACCACT-AGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCA-CACAAATGC
* * * * *
46318012 CTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCACACAAATGC
* *
46318052 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
46318070 TTATCATCCG
Statistics
Matches: 115, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
38 1 0.01
39 10 0.09
40 104 0.90
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAACAACTCACACAAATGC
Found at i:46318026 original size:80 final size:79
Alignment explanation
Indices: 46317893--46318069 Score: 241
Period size: 80 Copynumber: 2.2 Consensus size: 79
46317883 ACCCAAGTAT
* *
46317893 CTTCGGGAT-TTAGCCGGATATAACAACTCACACAAATGCCTTCAGGTCTTAGCCCGGATATAGC
1 CTTCGGG-TCTTAGCCGGATATAACAACTCACACAAATGCCTTCAGGACATAGCCCGGATATAGC
46317957 AACTCGCACAAATGC
65 AACTCGCACAAATGC
* * *
46317972 CTTCGGGTCTTAGCCCGGATATAACCACT-AGCATAAATGCCTTCGGGACATAGCCCGGATATAG
1 CTTCGGGTCTTAG-CCGGATATAACAACTCA-CACAAATGCCTTCAGGACATAGCCCGGATATAG
*
46318036 CAACTCGCACGAATGC
64 CAACTCGCACAAATGC
*
46318052 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAG-CCGG
46318070 TTATCATCCG
Statistics
Matches: 87, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
78 1 0.01
79 12 0.14
80 74 0.85
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.23
Consensus pattern (79 bp):
CTTCGGGTCTTAGCCGGATATAACAACTCACACAAATGCCTTCAGGACATAGCCCGGATATAGCA
ACTCGCACAAATGC
Found at i:46319574 original size:39 final size:40
Alignment explanation
Indices: 46319464--46319648 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
46319454 GCTACTCGTT
*
46319464 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
46319504 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
46319544 CCAATGCCTTC-GGACTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* ** *
46319583 CAAATGCCTTC-GGATCTTAGCCCGGATATAGTCATTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AACTCGCA
*
46319624 CAAA-GCCTTTGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
46319649 CATCATTCGA
Statistics
Matches: 129, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 39 0.30
40 76 0.59
41 14 0.11
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:46319575 original size:79 final size:80
Alignment explanation
Indices: 46319431--46319614 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 80
46319421 GAATCACGTA
** * *
46319431 CCTTCGGAAT-TTAA-CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGCCCGGTTAT
1 CCTTCGG-ATCTTAACCCGGATATAG-TAACTCGCACCAATGCCTTCGGGACATAGCCCGGATAT
46319493 AGTAACTCGCACAAATG
64 AGTAACTCGCACAAATG
* *
46319510 CCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCACCAATGCCTTC-GGACTTAGCCCGGA-ATT
1 CCTTC-GGATCTTAACCCGGATATAGTAACTCGCACCAATGCCTTCGGGACATAGCCCGGATA-T
46319572 AGTAACTCGCACAAATG
64 AGTAACTCGCACAAATG
*
46319589 CCTTCGGATCTTAGCCCGGATATAGT
1 CCTTCGGATCTTAACCCGGATATAGT
46319615 CATTTAGCAC
Statistics
Matches: 91, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
78 4 0.04
79 61 0.67
80 26 0.29
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGATCTTAACCCGGATATAGTAACTCGCACCAATGCCTTCGGGACATAGCCCGGATATAG
TAACTCGCACAAATG
Found at i:46319632 original size:79 final size:80
Alignment explanation
Indices: 46319464--46319648 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 80
46319454 GCTACTCGTT
* *
46319464 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTC-GGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
46319528 GATTTAGTAACTCGCAC
64 GATATAGTAACTAGCAC
* *
46319545 CAATGCCTTCGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGCCCGG
1 CAAAGCCTTCGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
**
46319608 ATATAGTCATTTAGCA-
65 ATATAGT-AACTAGCAC
*
46319624 CAAAGCCTTTGGGACTTAGCCCGGA
1 CAAAGCC-TTCGGACTTAGCCCGGA
46319649 CATCATTCGA
Statistics
Matches: 90, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
78 3 0.03
79 56 0.62
80 28 0.31
81 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
CAAAGCCTTCGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTAGCAC
Found at i:46331374 original size:30 final size:30
Alignment explanation
Indices: 46331338--46331396 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
46331328 GGAGCCACAC
*
46331338 GGGCTAGGCACATGCCCATGTGACCCAAAT
1 GGGCTAGACACATGCCCATGTGACCCAAAT
46331368 GGGCTAGACACATGCCCATGTGACCCAAA
1 GGGCTAGACACATGCCCATGTGACCCAAA
46331397 CGAGATAGAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.29, C:0.31, G:0.25, T:0.15
Consensus pattern (30 bp):
GGGCTAGACACATGCCCATGTGACCCAAAT
Found at i:46331406 original size:30 final size:30
Alignment explanation
Indices: 46331346--46331409 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
46331336 ACGGGCTAGG
* * *
46331346 CACATGCCCATGTGACCCAAATGGGCTAGA
1 CACATGCCCATGTGACCCAAACGAGATAGA
46331376 CACATGCCCATGTGACCCAAACGAGATAGA
1 CACATGCCCATGTGACCCAAACGAGATAGA
46331406 CACA
1 CACA
46331410 CTGCTTCCCA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.34, C:0.31, G:0.20, T:0.14
Consensus pattern (30 bp):
CACATGCCCATGTGACCCAAACGAGATAGA
Found at i:46336122 original size:29 final size:30
Alignment explanation
Indices: 46336058--46336131 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 30
46336048 ATGTTGGGTC
*
46336058 AAATTTTTATAAAATGCTCAAATGAAAGTT
1 AAATTTTTTTAAAATGCTCAAATGAAAGTT
* *
46336088 AAATTTTTTTAAAATGTTTAAAT-AAGAGTT
1 AAATTTTTTTAAAATGCTCAAATGAA-AGTT
*
46336118 AATTTTTTTTAAAA
1 AAATTTTTTTAAAA
46336132 AAAAAAATAC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 2 0.05
30 37 0.95
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.45
Consensus pattern (30 bp):
AAATTTTTTTAAAATGCTCAAATGAAAGTT
Found at i:46336620 original size:3 final size:3
Alignment explanation
Indices: 46336612--46336644 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
46336602 AATATATATA
46336612 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
46336645 TTATGATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:46337300 original size:21 final size:24
Alignment explanation
Indices: 46337269--46337320 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
46337259 ATATTTTTTA
46337269 AATAATAA-TTTT-AAATTAAATT
1 AATAATAATTTTTAAAATTAAATT
* *
46337291 -ATAATTATTTTTAAAATTAATTT
1 AATAATAATTTTTAAAATTAAATT
46337314 AATAATA
1 AATAATA
46337321 TGATGAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
21 6 0.25
22 4 0.17
23 9 0.38
24 5 0.21
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
AATAATAATTTTTAAAATTAAATT
Found at i:46337986 original size:31 final size:30
Alignment explanation
Indices: 46337895--46337989 Score: 79
Period size: 31 Copynumber: 3.1 Consensus size: 30
46337885 GTAATTTGAT
* *
46337895 ATAT-AAACTTTAA-TTTGGTACAATTATAC
1 ATATGAAACTTTAATTTTGATTCAA-TATAC
* * * *
46337924 GTGTGAAATTTTAATTGTT-ACTTAAATATAC
1 ATATGAAACTTTAATT-TTGA-TTCAATATAC
46337955 ATATGAAACTTTAATTTTGATTCAATCATAC
1 ATATGAAACTTTAATTTTGATTCAAT-ATAC
46337986 ATAT
1 ATAT
46337990 TTAAAGAAAT
Statistics
Matches: 50, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
29 2 0.04
30 15 0.30
31 28 0.56
32 5 0.10
ACGTcount: A:0.39, C:0.09, G:0.08, T:0.43
Consensus pattern (30 bp):
ATATGAAACTTTAATTTTGATTCAATATAC
Found at i:46340284 original size:2 final size:2
Alignment explanation
Indices: 46340277--46340324 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
46340267 AGTGACGTGC
46340277 AT AT AT AT AT AT 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
46340319 AT AT AT
1 AT AT AT
46340325 TGTTTTGGGG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:46343907 original size:47 final size:47
Alignment explanation
Indices: 46343851--46344006 Score: 141
Period size: 49 Copynumber: 3.2 Consensus size: 47
46343841 GTCTCAAAAT
* *
46343851 GGTCTTACACTGGATAACACATCAAAGTCGATGTCATGTCCCAGACA
1 GGTCTTACACTGGATCACACATCAAAGTCGATGCCATGTCCCAGACA
* * * * * * *
46343898 GGTCTTACACTGAATTTCATATATCAAGGACGATGCCGTGTCCCAAACA
1 GGTCTTACACTGGA--TCACACATCAAAGTCGATGCCATGTCCCAGACA
* * ****
46343947 GGTCTTACACTGGCTCTCATCTATTGGTGTCGATGCCATGTCCCAGACA
1 GGTCTTACACTGGATCACA-C-ATCAAAGTCGATGCCATGTCCCAGACA
46343996 GGTCTTACACT
1 GGTCTTACACT
46344007 AGCTTGTATA
Statistics
Matches: 84, Mismatches: 21, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
47 16 0.19
49 68 0.81
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (47 bp):
GGTCTTACACTGGATCACACATCAAAGTCGATGCCATGTCCCAGACA
Found at i:46343940 original size:49 final size:49
Alignment explanation
Indices: 46343871--46344054 Score: 187
Period size: 49 Copynumber: 3.8 Consensus size: 49
46343861 TGGATAACAC
* * *
46343871 ATCAAAGTCGATGTCATGTCCCAGACAGGTCTTACACTGAATTTCATAT
1 ATCAAGGTCGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATAT
* * * * * *
46343920 ATCAAGGACGATGCCGTGTCCCAAACAGGTCTTACACTGGCTCTCATCT
1 ATCAAGGTCGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATAT
**
46343969 AT-TGGTGTCGATGCCATGTCCCAGACAGGTCTTACACT-AGCTTGT-ATAT
1 ATCAAG-GTCGATGCCATGTCCCAGACAGGTCTTACACTGA-CTT-TCATAT
* * *
46344018 CTCGAGGTCGATG-CATGTCCCAGACATGTCTTACACT
1 ATCAAGGTCGATGCCATGTCCCAGACAGGTCTTACACT
46344055 AGCTCTCGTC
Statistics
Matches: 110, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
48 24 0.22
49 84 0.76
50 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (49 bp):
ATCAAGGTCGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATAT
Found at i:46344030 original size:98 final size:97
Alignment explanation
Indices: 46343877--46344061 Score: 248
Period size: 98 Copynumber: 1.9 Consensus size: 97
46343867 ACACATCAAA
* *
46343877 GTCGATGTCATGTCCCAGACAGGTCTTACACTGAATTTCATATATCAAGGACGATGCCGTGTCCC
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTGAATTTCATATATCAAGGACGATG-CATGTCCC
*
46343942 AAACAGGTCTTACACTGGCTCTCATCTATTGGT
65 AAACAGGTCTTACACTAGCTCTCATCTATTGGT
* * * *
46343975 GTCGATGCCATGTCCCAGACAGGTCTTACACT-AGCTTGT-ATATCTCGAGGTCGATGCATGTCC
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTGA-ATT-TCATATATCAAGGACGATGCATGTCC
* *
46344038 CAGACATGTCTTACACTAGCTCTC
64 CAAACAGGTCTTACACTAGCTCTC
46344062 GTCTCAATTC
Statistics
Matches: 76, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
97 28 0.37
98 47 0.62
99 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (97 bp):
GTCGATGCCATGTCCCAGACAGGTCTTACACTGAATTTCATATATCAAGGACGATGCATGTCCCA
AACAGGTCTTACACTAGCTCTCATCTATTGGT
Found at i:46344053 original size:48 final size:45
Alignment explanation
Indices: 46343875--46344109 Score: 159
Period size: 49 Copynumber: 4.9 Consensus size: 45
46343865 TAACACATCA
* * * *
46343875 AAGTCGATGTCATGTCCCAGACAGGTCTTACACT-GAATTTCATATATC
1 AAGTCGATG-CATGTCCCAGACATGTCTTACACTAG-CTCTC--ATCTC
* * * * *
46343923 AAGGACGATGCCGTGTCCCAAACAGGTCTTACACTGGCTCTCATCT-
1 AA-GTCGATG-CATGTCCCAGACATGTCTTACACTAGCTCTCATCTC
* * * *
46343969 ATTGGTGTCGATGCCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTC
1 A----AGTCGATG-CATGTCCCAGACATGTCTTACACTAGC-TCT-CATCTC
* *
46344021 GAGGTCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTC
1 -AAGTCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTC
* * *
46344067 AATTCCAATGCATGTCCCAGACATGTCTTACACTGGCTCTCAT
1 AAGT-CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCAT
46344110 AATGCGGCCA
Statistics
Matches: 152, Mismatches: 24, Indels: 24
0.76 0.12 0.12
Matches are distributed among these distances:
45 2 0.01
46 40 0.26
47 5 0.03
48 28 0.18
49 69 0.45
50 3 0.02
51 4 0.03
53 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (45 bp):
AAGTCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTC
Found at i:46344121 original size:46 final size:45
Alignment explanation
Indices: 46344028--46344149 Score: 142
Period size: 46 Copynumber: 2.7 Consensus size: 45
46344018 CTCGAGGTCG
* *
46344028 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATTCCA
1 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCG-ATCAATGCCA
*
46344074 ATGCATGTCCCAGACATGTCTTACACTGGCTCTC-AT-AATGCGGCCA
1 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCGATCAAT---GCCA
*
46344120 ATGCATGTTCCA-AGCATGTCTTACACTAGC
1 ATGCATGTCCCAGA-CATGTCTTACACTAGC
46344150 ACACATATCA
Statistics
Matches: 67, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
43 3 0.04
44 1 0.01
45 1 0.01
46 62 0.93
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (45 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCTCTCGATCAATGCCA
Found at i:46358325 original size:40 final size:40
Alignment explanation
Indices: 46358220--46358328 Score: 184
Period size: 40 Copynumber: 2.7 Consensus size: 40
46358210 GTTATAATAG
**
46358220 CTCGCACAAATGCCTTCGGGA-CTTAACCCGGATTTGGGAA
1 CTCGCACAAATGCCTTC-GGATCTTAGTCCGGATTTGGGAA
46358260 CTCGCACAAATGCCTTCGGATCTTAGTCCGGATTTGGGAA
1 CTCGCACAAATGCCTTCGGATCTTAGTCCGGATTTGGGAA
46358300 CTCGCACAAATGCCTTCGGATCTTAGTCC
1 CTCGCACAAATGCCTTCGGATCTTAGTCC
46358329 AGATATGACC
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
39 3 0.05
40 63 0.95
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CTCGCACAAATGCCTTCGGATCTTAGTCCGGATTTGGGAA
Found at i:46358355 original size:40 final size:40
Alignment explanation
Indices: 46358223--46358358 Score: 123
Period size: 40 Copynumber: 3.4 Consensus size: 40
46358213 ATAATAGCTC
** * * ** *
46358223 GCACAAATGCCTTCGGGA-CTTAACCCGGATTTGGGAACTC
1 GCACAAATGCCTTC-GGATCTTAGTCCAGATATGACAACTA
* * ** *
46358263 GCACAAATGCCTTCGGATCTTAGTCCGGATTTGGGAACTC
1 GCACAAATGCCTTCGGATCTTAGTCCAGATATGACAACTA
*
46358303 GCACAAATGCCTTCGGATCTTAGTCCAGATATGACCACTTA
1 GCACAAATGCCTTCGGATCTTAGTCCAGATATGACAAC-TA
46358344 GCACAAA-GCCTTCGG
1 GCACAAATGCCTTCGG
46358359 GACTTAGCCC
Statistics
Matches: 86, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
39 3 0.03
40 75 0.87
41 8 0.09
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGATCTTAGTCCAGATATGACAACTA
Found at i:46366369 original size:40 final size:40
Alignment explanation
Indices: 46366224--46366362 Score: 183
Period size: 40 Copynumber: 3.5 Consensus size: 40
46366214 GTTATAATAG
**
46366224 CTCGCACAAATGCCTTCGGGA-CTTAACCTGGATTTGGGAA
1 CTCGCACAAATGCCTTC-GGATCTTAGTCTGGATTTGGGAA
*
46366264 CTCGCACAAATGCCTTCGGATCTTAGTCTAGATTTGGGAA
1 CTCGCACAAATGCCTTCGGATCTTAGTCTGGATTTGGGAA
* **
46366304 CTCGCACAAATGCCTTCGGATCTTAGTCTGGATATGGTCA
1 CTCGCACAAATGCCTTCGGATCTTAGTCTGGATTTGGGAA
*
46366344 CTTAGCACAAA-GCCTTCGG
1 C-TCGCACAAATGCCTTCGG
46366363 GACTTAGCCC
Statistics
Matches: 89, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
39 3 0.03
40 78 0.88
41 8 0.09
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.27
Consensus pattern (40 bp):
CTCGCACAAATGCCTTCGGATCTTAGTCTGGATTTGGGAA
Found at i:46378345 original size:5 final size:6
Alignment explanation
Indices: 46378335--46378404 Score: 53
Period size: 5 Copynumber: 12.0 Consensus size: 6
46378325 GATAGTATTT
*
46378335 TATTAA T-TTAA TATTAAAA TGATT-A TCTTAA TATTAA -ATTAA T-TTAA
1 TATTAA TATTAA TATT--AA T-ATTAA TATTAA TATTAA TATTAA TATTAA
46378382 TATTAA -ATTAA -ATTTAA TATTAA
1 TATTAA TATTAA TA-TTAA TATTAA
46378405 AGTAATTATG
Statistics
Matches: 53, Mismatches: 2, Indels: 18
0.73 0.03 0.25
Matches are distributed among these distances:
5 23 0.43
6 23 0.43
7 1 0.02
8 3 0.06
9 3 0.06
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (6 bp):
TATTAA
Found at i:46378351 original size:11 final size:11
Alignment explanation
Indices: 46378335--46378404 Score: 53
Period size: 11 Copynumber: 6.5 Consensus size: 11
46378325 GATAGTATTT
46378335 TATTAATTTAA
1 TATTAATTTAA
46378346 TATTAA---AA
1 TATTAATTTAA
46378354 TGATT-ATCTTAA
1 T-ATTAAT-TTAA
*
46378366 TATTAAATTAA
1 TATTAATTTAA
46378377 T-TTAATATTAA
1 TATTAAT-TTAA
46378388 -ATTAAATTTAA
1 TATT-AATTTAA
46378399 TATTAA
1 TATTAA
46378405 AGTAATTATG
Statistics
Matches: 47, Mismatches: 2, Indels: 20
0.68 0.03 0.29
Matches are distributed among these distances:
8 4 0.09
9 3 0.06
10 4 0.09
11 26 0.55
12 10 0.21
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (11 bp):
TATTAATTTAA
Found at i:46378381 original size:16 final size:16
Alignment explanation
Indices: 46378336--46378411 Score: 89
Period size: 17 Copynumber: 4.4 Consensus size: 16
46378326 ATAGTATTTT
46378336 ATTAATTTAATATTAAA
1 ATTAATTTAATATT-AA
*
46378353 ATGATTATCTTAATATTAA
1 AT--TAAT-TTAATATTAA
46378372 ATTAATTTAATATTAA
1 ATTAATTTAATATTAA
46378388 ATTAAATTTAATATTAA
1 ATT-AATTTAATATTAA
*
46378405 AGTAATT
1 ATTAATT
46378412 ATGTTTAATC
Statistics
Matches: 52, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
16 17 0.33
17 20 0.38
19 7 0.13
20 8 0.15
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (16 bp):
ATTAATTTAATATTAA
Found at i:46382196 original size:2 final size:2
Alignment explanation
Indices: 46382189--46382221 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
46382179 TCGATCGGAG
46382189 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
46382222 GAGTACGCAC
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:46382317 original size:29 final size:29
Alignment explanation
Indices: 46382285--46382386 Score: 186
Period size: 29 Copynumber: 3.5 Consensus size: 29
46382275 ATTTAAGCCC
*
46382285 GCACACATAGTGCCATATATTTCCACCAT
1 GCACACTTAGTGCCATATATTTCCACCAT
46382314 GCACACTTAGTGCCATATATTTCCACCAT
1 GCACACTTAGTGCCATATATTTCCACCAT
*
46382343 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCACCAT
46382372 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
46382387 ATCTCGTCAC
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 71 1.00
ACGTcount: A:0.28, C:0.30, G:0.13, T:0.28
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCACCAT
Found at i:46382327 original size:58 final size:58
Alignment explanation
Indices: 46382256--46382386 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
46382246 ACTCGATTTC
*
46382256 GCACACTTAGTGCCATGCGATTT-AAGCC-CGCACACATAGTGCCATATATTTCCACCAT
1 GCACACTTAGTGCCAT-AGATTTCAA-CCACGCACACATAGTGCCATATATTTCCACCAT
* * * * *
46382314 GCACACTTAGTGCCATATATTTCCACCATGCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATAGATTTCAACCACGCACACATAGTGCCATATATTTCCACCAT
46382372 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
46382387 ATCTCGTCAC
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
57 6 0.09
58 59 0.91
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (58 bp):
GCACACTTAGTGCCATAGATTTCAACCACGCACACATAGTGCCATATATTTCCACCAT
Found at i:46387337 original size:2 final size:2
Alignment explanation
Indices: 46387330--46387360 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
46387320 TCGATCGGAG
46387330 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
46387361 GAGTACGCAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:46387428 original size:29 final size:29
Alignment explanation
Indices: 46387394--46387525 Score: 90
Period size: 29 Copynumber: 4.6 Consensus size: 29
46387384 TACTCGATTT
* * *
46387394 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * * *
46387423 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
* *
46387452 CGCACACTTAGTGCCATA-TATTTCCA-CC
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
* * * *
46387480 ATGCACACTTAGTGCCATA-TATTTCCAGCA
1 -CGCACACTTAGTGCCATACCA-TTCAAGCC
*
46387510 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
46387526 ATCTCGTCAC
Statistics
Matches: 86, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
28 1 0.01
29 84 0.98
30 1 0.01
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:46391478 original size:3 final size:3
Alignment explanation
Indices: 46391470--46391507 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
46391460 GCTTTACTCT
46391470 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
46391508 TAAAGCTTGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:46402182 original size:20 final size:20
Alignment explanation
Indices: 46402157--46402197 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
46402147 TTATACAAAA
46402157 TATCTTACGGACACCGTCAT
1 TATCTTACGGACACCGTCAT
46402177 TATCTTACGGACACCGTCAT
1 TATCTTACGGACACCGTCAT
46402197 T
1 T
46402198 CTTAATTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.29, G:0.15, T:0.32
Consensus pattern (20 bp):
TATCTTACGGACACCGTCAT
Found at i:46405143 original size:25 final size:25
Alignment explanation
Indices: 46405115--46405163 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
46405105 GGACAGTGAG
*
46405115 TTAGAGACTCAAATAGACCAGGAAA
1 TTAGAGACTCAAATAGAACAGGAAA
46405140 TTAGAGACTCAAATAGAACAGGAA
1 TTAGAGACTCAAATAGAACAGGAA
46405164 CTCTATCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.49, C:0.14, G:0.20, T:0.16
Consensus pattern (25 bp):
TTAGAGACTCAAATAGAACAGGAAA
Found at i:46420431 original size:46 final size:44
Alignment explanation
Indices: 46420382--46420556 Score: 163
Period size: 46 Copynumber: 3.8 Consensus size: 44
46420372 GGTTGAGCAT
*
46420382 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA--C
*** * *
46420428 CCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCAC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAC
* **
46420475 CCGAGCTTATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACAC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-A-AC
* * *
46420521 CCGAGCTTGTTGAGTTGAGTCTGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
46420557 GCAGGTTACA
Statistics
Matches: 106, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 2 0.02
45 1 0.01
46 68 0.64
47 29 0.27
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (44 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC
Found at i:46426311 original size:17 final size:18
Alignment explanation
Indices: 46426269--46426317 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
46426259 AGTTGAAAAG
46426269 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
46426288 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
46426305 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
46426318 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:46427205 original size:40 final size:40
Alignment explanation
Indices: 46427139--46427305 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
46427129 AAATTGAATG
* * *
46427139 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
46427178 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
46427218 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
46427258 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
46427298 ATATCCGG
1 ATATCCGG
46427306 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:46434315 original size:17 final size:18
Alignment explanation
Indices: 46434273--46434321 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
46434263 AGTTGAAAAG
46434273 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
46434292 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
46434309 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
46434322 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:46435209 original size:40 final size:40
Alignment explanation
Indices: 46435143--46435309 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
46435133 AAATTGAATG
* * *
46435143 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
46435182 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
46435222 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
46435262 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
46435302 ATATCCGG
1 ATATCCGG
46435310 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:46438070 original size:13 final size:13
Alignment explanation
Indices: 46438052--46438092 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
46438042 GCTTGGCAGG
46438052 GACACGCCCGTGT
1 GACACGCCCGTGT
*
46438065 GACACGCCTGTGT
1 GACACGCCCGTGT
* *
46438078 TACATGCCCGTGT
1 GACACGCCCGTGT
46438091 GA
1 GA
46438093 ATCGTGCTTC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.17, C:0.32, G:0.29, T:0.22
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:46463301 original size:40 final size:39
Alignment explanation
Indices: 46463218--46463435 Score: 205
Period size: 40 Copynumber: 5.6 Consensus size: 39
46463208 AAATTGAATG
* * * * *
46463218 ATATCCGGGCTAAGCCCCGAA-GCAATTATGC-TGAAAT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGT
* *
46463255 -TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAG-T
*
46463294 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTAG-T
* *
46463334 AAATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTAGT
* * *
46463373 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGT
* * *
46463411 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
46463436 CTTGGTGCGG
Statistics
Matches: 155, Mismatches: 18, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
36 18 0.12
37 9 0.06
38 33 0.21
39 7 0.05
40 88 0.57
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGT
Found at i:46463387 original size:38 final size:38
Alignment explanation
Indices: 46463254--46463405 Score: 216
Period size: 40 Copynumber: 3.9 Consensus size: 38
46463244 TATGCTGAAA
* * *
46463254 TTATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTAG
1 TTATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTG
46463292 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -T-TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
46463332 TTAAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 TT--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
*
46463372 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCAA
1 TTATCCGGGCTAAGACCCGAAGGCATTCGTGCAA
46463406 ATCGTGATAT
Statistics
Matches: 105, Mismatches: 4, Indels: 9
0.89 0.03 0.08
Matches are distributed among these distances:
38 32 0.30
39 5 0.05
40 68 0.65
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (38 bp):
TTATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
Found at i:46463418 original size:78 final size:80
Alignment explanation
Indices: 46463255--46463435 Score: 242
Period size: 78 Copynumber: 2.3 Consensus size: 80
46463245 ATGCTGAAAT
*
46463255 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTATATCCGGGCTAAGACCCGAAGGCAT
1 TATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTAGCTATATCCGGGCTAAGACCCGAAGGCAT
* * *
46463320 TCGTGCAAGTTGTTA
66 TCGTGCAAATCGTGA
* * *
46463335 AATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTG-T-TATCCGGGCTAAGACCCGAAGGCA
1 TATCCGGGTTAAGACCCGAAGGCAATT-GTGCAAGTAGCTATATCCGGGCTAAGACCCGAAGGCA
*
46463397 TTTGTGCAAATCGTGA
65 TTCGTGCAAATCGTGA
* *
46463413 TATCCGGGTTAAGTCCCGTAGGC
1 TATCCGGGTTAAGACCCGAAGGC
46463436 CTTGGTGCGG
Statistics
Matches: 88, Mismatches: 12, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
78 55 0.62
79 4 0.05
80 29 0.33
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
TATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTAGCTATATCCGGGCTAAGACCCGAAGGCAT
TCGTGCAAATCGTGA
Found at i:46463460 original size:118 final size:118
Alignment explanation
Indices: 46463254--46463475 Score: 259
Period size: 118 Copynumber: 1.9 Consensus size: 118
46463244 TATGCTGAAA
* * *
46463254 TTATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTATATCCGGGCTAAGACCCGAAGGCA
1 TTATCCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCA
***
46463319 TTCGTGCAAGTTGTTAAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
66 TTCGTGCAAGTTACCAAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
* * * * *
46463372 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 TTATCCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCT-ATATCCGGGCTAAGACCCGAAGGC
* * ** * *
46463436 CTTGGTGCGGGTTACCATAA-CCGGGCTATGTCCCGAAGGC
65 ATTCGTGCAAGTTACCA-AATCCGGGCTAAGACCCGAAGGC
46463476 GATTGATCGA
Statistics
Matches: 85, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
117 1 0.01
118 82 0.96
119 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (118 bp):
TTATCCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCAAGTTACCAAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
Found at i:46468262 original size:40 final size:40
Alignment explanation
Indices: 46468203--46468344 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
46468193 AAATTGAATG
* * *
46468203 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
46468243 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
46468283 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
46468323 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
46468345 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:46468345 original size:40 final size:39
Alignment explanation
Indices: 46468242--46468370 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
46468232 TGCTGGAAAT
* * *
46468242 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
46468282 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
46468322 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
46468362 TATATCCGG
1 TATATCCGG
46468371 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:46476270 original size:40 final size:40
Alignment explanation
Indices: 46476211--46476352 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
46476201 AAATTGAATG
* * *
46476211 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
46476251 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
46476291 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
46476331 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
46476353 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:46476353 original size:40 final size:39
Alignment explanation
Indices: 46476250--46476378 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
46476240 TGCTGGAAAT
* * *
46476250 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
46476290 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
46476330 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
46476370 TATATCCGG
1 TATATCCGG
46476379 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:46478455 original size:12 final size:12
Alignment explanation
Indices: 46478434--46478465 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
46478424 GTGTTGTCGT
46478434 ACACGGCCTACC
1 ACACGGCCTACC
*
46478446 ACATGGCCTACC
1 ACACGGCCTACC
46478458 ACACGGCC
1 ACACGGCC
46478466 CTGTGGAGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.25, C:0.47, G:0.19, T:0.09
Consensus pattern (12 bp):
ACACGGCCTACC
Found at i:46487425 original size:22 final size:21
Alignment explanation
Indices: 46487396--46487439 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
46487386 TACTTGGTAG
* * *
46487396 TACAAATTGAAATTACATAAT
1 TACAAATTAAAATCAAATAAT
46487417 TACATAATTAAAATCAAATAAT
1 TACA-AATTAAAATCAAATAAT
46487439 T
1 T
46487440 GTTTACAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.34
Consensus pattern (21 bp):
TACAAATTAAAATCAAATAAT
Found at i:46498485 original size:15 final size:16
Alignment explanation
Indices: 46498465--46498500 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
46498455 CTATGAGCGT
46498465 TTTTTATATTA-TTTA
1 TTTTTATATTATTTTA
*
46498480 TTTTTATGTTATTTTA
1 TTTTTATATTATTTTA
46498496 TTTTT
1 TTTTT
46498501 GTTTTAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (16 bp):
TTTTTATATTATTTTA
Found at i:46498950 original size:210 final size:210
Alignment explanation
Indices: 46498588--46498976 Score: 733
Period size: 210 Copynumber: 1.9 Consensus size: 210
46498578 CCATTGTTCG
46498588 TTTTTTGTTCTTTCCAAAGTCCAATTTCATTTTTTTTCTTATTTCTTTCGTTTTATATACGTTAC
1 TTTTTTGTTCTTTCCAAAGTCCAATTTCATTTTTTTTCTTATTTCTTTCGTTTTATATACGTTAC
*
46498653 GTGTTGTCTATCAAGATCAATCGTCCTTGTGTGTTTCGTTTTATCAGAGGTGAAGTGGATAAGTT
66 GTGTTGTCTATCAAGACCAATCGTCCTTGTGTGTTTCGTTTTATCAGAGGTGAAGTGGATAAGTT
*
46498718 TTGTTCATGAGAGTTTACGATAGAATTGCTTCTGCTTCTATGATTTGTTCATGAGAGTTTACGAT
131 TTGTTCATAAGAGTTTACGATAGAATTGCTTCTGCTTCTATGATTTGTTCATGAGAGTTTACGAT
46498783 AGCTTCTATTATTCA
196 AGCTTCTATTATTCA
46498798 TTTTTTGTTCTTTCCAAAGTCCAATTTCATTTTTTTTCTTATTTCTTTCGTTTTATATACGTTAC
1 TTTTTTGTTCTTTCCAAAGTCCAATTTCATTTTTTTTCTTATTTCTTTCGTTTTATATACGTTAC
* *
46498863 GTGTTGTCTGTCAAGACCAATCGTCCTTGTGTGTTTCGTTTTATCAGAGGTGAAGTGGGTAAGTT
66 GTGTTGTCTATCAAGACCAATCGTCCTTGTGTGTTTCGTTTTATCAGAGGTGAAGTGGATAAGTT
*
46498928 TTGTTCATAAGAGTTTACGATAGAATTGCTTCTGCTTCTATTATTTGTT
131 TTGTTCATAAGAGTTTACGATAGAATTGCTTCTGCTTCTATGATTTGTT
46498977 AATTGCAGCT
Statistics
Matches: 174, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
210 174 1.00
ACGTcount: A:0.20, C:0.14, G:0.17, T:0.48
Consensus pattern (210 bp):
TTTTTTGTTCTTTCCAAAGTCCAATTTCATTTTTTTTCTTATTTCTTTCGTTTTATATACGTTAC
GTGTTGTCTATCAAGACCAATCGTCCTTGTGTGTTTCGTTTTATCAGAGGTGAAGTGGATAAGTT
TTGTTCATAAGAGTTTACGATAGAATTGCTTCTGCTTCTATGATTTGTTCATGAGAGTTTACGAT
AGCTTCTATTATTCA
Found at i:46501267 original size:29 final size:29
Alignment explanation
Indices: 46501234--46501307 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
46501224 GTGACGAGAT
46501234 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
46501263 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
46501292 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
46501308 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:46501323 original size:29 final size:29
Alignment explanation
Indices: 46501291--46501366 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
46501281 CTGGAAATAT
* *
46501291 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
46501320 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
46501349 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
46501367 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:46501334 original size:58 final size:58
Alignment explanation
Indices: 46501234--46501366 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
46501224 GTGACGAGAT
* * * * * *
46501234 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
46501292 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
46501350 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
46501367 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:46509150 original size:29 final size:29
Alignment explanation
Indices: 46509117--46509190 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
46509107 GTGACGAGAT
46509117 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
46509146 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
46509175 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
46509191 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:46509206 original size:29 final size:29
Alignment explanation
Indices: 46509174--46509249 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
46509164 CTGGAAATAT
* *
46509174 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
46509203 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
46509232 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
46509250 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:46509217 original size:58 final size:58
Alignment explanation
Indices: 46509117--46509249 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
46509107 GTGACGAGAT
* * * * * *
46509117 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
46509175 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
46509233 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
46509250 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:46513572 original size:17 final size:17
Alignment explanation
Indices: 46513550--46513584 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
46513540 CATAATTCTA
46513550 GGTCACCAATGGTTAGG
1 GGTCACCAATGGTTAGG
46513567 GGTCACCAATGGTTAGG
1 GGTCACCAATGGTTAGG
46513584 G
1 G
46513585 ATCATTTCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.17, G:0.37, T:0.23
Consensus pattern (17 bp):
GGTCACCAATGGTTAGG
Found at i:46525600 original size:6 final size:6
Alignment explanation
Indices: 46525568--46525632 Score: 51
Period size: 6 Copynumber: 10.5 Consensus size: 6
46525558 TCCTCCTATT
* * * *
46525568 TTTTTA TTCTTA TTTTTA -CTTTA TTTTATT TTTTTA TTTTTT TCTTTTGA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTT-TA TTTTTA TTTTTA T-TTTT-A
*
46525618 TTTTTA TTTTCA TTT
1 TTTTTA TTTTTA TTT
46525633 CAATTTTATT
Statistics
Matches: 46, Mismatches: 9, Indels: 8
0.73 0.14 0.13
Matches are distributed among these distances:
5 4 0.09
6 28 0.61
7 13 0.28
8 1 0.02
ACGTcount: A:0.14, C:0.06, G:0.02, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:46530777 original size:40 final size:40
Alignment explanation
Indices: 46530732--46530898 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
46530722 CGGAATATAA
46530732 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
46530772 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
46530812 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
46530852 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
46530891 CCGGATAT
1 CCGGATAT
46530899 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:46530882 original size:80 final size:79
Alignment explanation
Indices: 46530748--46530898 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
46530738 ATAATCACGT
*
46530748 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
46530813 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
46530828 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
46530891 CCGGATAT
64 CCGGATAT
46530899 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:46532155 original size:55 final size:55
Alignment explanation
Indices: 46532093--46532198 Score: 144
Period size: 55 Copynumber: 1.9 Consensus size: 55
46532083 CCCCCTTTTC
46532093 CCTTAGTA-ATTTCGGCCAAGAAGAT-GAGAAAGGATGAACAAATTTTTTTTTCTTT
1 CCTTAGTACA-TTCGGCCAAGAAGATGGAG-AAGGATGAACAAATTTTTTTTTCTTT
*** *
46532148 CCTTAGTACATTCGGCCAAGCCTATGGAGAAGGATGAACACATTTTTTTTT
1 CCTTAGTACATTCGGCCAAGAAGATGGAGAAGGATGAACAAATTTTTTTTT
46532199 TCATACTCTT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
55 41 0.91
56 4 0.09
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (55 bp):
CCTTAGTACATTCGGCCAAGAAGATGGAGAAGGATGAACAAATTTTTTTTTCTTT
Found at i:46538774 original size:40 final size:40
Alignment explanation
Indices: 46538729--46538895 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
46538719 CGGAATATAA
46538729 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
46538769 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
46538809 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
46538849 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
46538888 CCGGATAT
1 CCGGATAT
46538896 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:46538879 original size:80 final size:79
Alignment explanation
Indices: 46538745--46538895 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
46538735 ATAATCACGT
*
46538745 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
46538810 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
46538825 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
46538888 CCGGATAT
64 CCGGATAT
46538896 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:46545868 original size:40 final size:40
Alignment explanation
Indices: 46545823--46545989 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
46545813 CGGAATATAA
46545823 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
46545863 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
46545903 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
46545943 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
46545982 CCGGATAT
1 CCGGATAT
46545990 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:46545973 original size:80 final size:79
Alignment explanation
Indices: 46545839--46545989 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
46545829 ATAATCACGT
*
46545839 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
46545904 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
46545919 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
46545982 CCGGATAT
64 CCGGATAT
46545990 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:46547243 original size:56 final size:55
Alignment explanation
Indices: 46547177--46547291 Score: 135
Period size: 55 Copynumber: 2.1 Consensus size: 55
46547167 ATCCTCCCCT
46547177 TTTCCTTAGTA-ATTTCGGCCAAGAAGAT-GAGAAAGGATGAACAAATTTTTTTTTTC
1 TTTCCTTAGTACA-TTCGG-CAAGAAGATGGAG-AAGGATGAACAAATTTTTTTTTTC
*** ** *
46547233 TTTCCTTAGTACATTCGGCAAGCCTATGGAGAAGGATGAACACTTTTTTTTTTTT
1 TTTCCTTAGTACATTCGGCAAGAAGATGGAGAAGGATGAACAAATTTTTTTTTTC
46547288 TTTC
1 TTTC
46547292 ATACTCTTAT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
55 31 0.61
56 19 0.37
57 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.41
Consensus pattern (55 bp):
TTTCCTTAGTACATTCGGCAAGAAGATGGAGAAGGATGAACAAATTTTTTTTTTC
Found at i:46553866 original size:40 final size:40
Alignment explanation
Indices: 46553821--46553987 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
46553811 CGGAATATAA
46553821 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
46553861 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
46553901 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
46553941 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
46553980 CCGGATAT
1 CCGGATAT
46553988 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:46553971 original size:80 final size:79
Alignment explanation
Indices: 46553837--46553987 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
46553827 ATAATCACGT
*
46553837 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
46553902 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
46553917 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
46553980 CCGGATAT
64 CCGGATAT
46553988 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:46555244 original size:56 final size:56
Alignment explanation
Indices: 46555181--46555288 Score: 139
Period size: 56 Copynumber: 1.9 Consensus size: 56
46555171 CCCCCTTTTC
46555181 CCTTAGTA-ATTTCGGCCAAGAAGAT-GAGAAAGGATGAACAAATTTTTCTTTTCTTT
1 CCTTAGTACA-TTCGGCCAAGAAGATGGAG-AAGGATGAACAAATTTTTCTTTTCTTT
*** * *
46555237 CCTTAGTACATTCGGCCAAGCCTATGGAGAAGGATGAACACATTTTTTTTTT
1 CCTTAGTACATTCGGCCAAGAAGATGGAGAAGGATGAACAAATTTTTCTTTT
46555289 TCATACTCTT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
56 41 0.91
57 4 0.09
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.35
Consensus pattern (56 bp):
CCTTAGTACATTCGGCCAAGAAGATGGAGAAGGATGAACAAATTTTTCTTTTCTTT
Found at i:46584213 original size:33 final size:33
Alignment explanation
Indices: 46584176--46584238 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
46584166 TGTATCTTTC
46584176 AATTACAAACAAGTAAACCCAAATCTAATTTGT
1 AATTACAAACAAGTAAACCCAAATCTAATTTGT
* *
46584209 AATTACAAACAATTAAACCTAAATCTAATT
1 AATTACAAACAAGTAAACCCAAATCTAATT
46584239 GTTAAGTGAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.51, C:0.17, G:0.03, T:0.29
Consensus pattern (33 bp):
AATTACAAACAAGTAAACCCAAATCTAATTTGT
Found at i:46597530 original size:28 final size:28
Alignment explanation
Indices: 46597490--46597547 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
46597480 GTAAAAAAAG
46597490 AAAAAAAAATCACAACAAATCACTTCCT
1 AAAAAAAAATCACAACAAATCACTTCCT
46597518 AAAAAAAAATCACAACAAATCACTTCCT
1 AAAAAAAAATCACAACAAATCACTTCCT
46597546 AA
1 AA
46597548 TCCATCCAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.59, C:0.24, G:0.00, T:0.17
Consensus pattern (28 bp):
AAAAAAAAATCACAACAAATCACTTCCT
Found at i:46599169 original size:35 final size:37
Alignment explanation
Indices: 46599130--46599214 Score: 106
Period size: 35 Copynumber: 2.4 Consensus size: 37
46599120 ATTTTATCCT
46599130 AATTCTAAAAATTAAAAAAA-ACATTATA-AA-TAAAA
1 AATTCTAAAAATTAAAAAAATA-ATTATAGAATTAAAA
46599165 AATTC-AAAAATATAAAAAAATAATTATAGAATTAAAA
1 AATTCTAAAAAT-TAAAAAAATAATTATAGAATTAAAA
* *
46599202 AATTATTAAAATT
1 AATTCTAAAAATT
46599215 TTAAAAATCT
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
34 6 0.14
35 19 0.44
36 3 0.07
37 10 0.23
38 5 0.12
ACGTcount: A:0.66, C:0.04, G:0.01, T:0.29
Consensus pattern (37 bp):
AATTCTAAAAATTAAAAAAATAATTATAGAATTAAAA
Found at i:46602371 original size:43 final size:43
Alignment explanation
Indices: 46602213--46602369 Score: 151
Period size: 43 Copynumber: 3.7 Consensus size: 43
46602203 TGTGTTTTCT
* *
46602213 TGTAAGACCACGTCTGGGACGTTGGCATCGAT-TTGAGATTTA-A
1 TGTAAGACCATGTCTGGGACGTTGGCATCGATATT-TGA-TTACA
* * * * * *
46602256 GTGTAAGACCATGTCGGGGACATCGGCATCG-CATTTGATTTCG
1 -TGTAAGACCATGTCTGGGACGTTGGCATCGATATTTGATTACA
* * *
46602299 TGTAAGACCCTGTCTGGGACAG-TAGCATTGATATTTGATTACA
1 TGTAAGACCATGTCTGGGAC-GTTGGCATCGATATTTGATTACA
46602342 TGTAAGACCATGTCTGGGACGTTGGCAT
1 TGTAAGACCATGTCTGGGACGTTGGCAT
46602370 TGTACAAGCT
Statistics
Matches: 89, Mismatches: 19, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
42 26 0.29
43 35 0.39
44 28 0.31
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACGTTGGCATCGATATTTGATTACA
Found at i:46602829 original size:2 final size:2
Alignment explanation
Indices: 46602822--46602847 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
46602812 CCTTTTGAAC
46602822 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
46602848 CAAAGTATGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:46604521 original size:22 final size:22
Alignment explanation
Indices: 46604493--46604538 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
46604483 ATGTTGTGTT
46604493 TCGAGACATAGAGAACCATGTC
1 TCGAGACATAGAGAACCATGTC
*
46604515 TCGAGACATAGAGAACGATGTC
1 TCGAGACATAGAGAACCATGTC
46604537 TC
1 TC
46604539 AAGATAGGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.20
Consensus pattern (22 bp):
TCGAGACATAGAGAACCATGTC
Found at i:46609993 original size:18 final size:18
Alignment explanation
Indices: 46609956--46609993 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
46609946 CTTCAAAAAT
* *
46609956 AATTAAAAAGAAAGATAA
1 AATTAAAAAGAAAAAGAA
46609974 AATTAAAAAGAAAAAGAA
1 AATTAAAAAGAAAAAGAA
46609992 AA
1 AA
46609994 AGAAAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.11, T:0.13
Consensus pattern (18 bp):
AATTAAAAAGAAAAAGAA
Found at i:46610618 original size:19 final size:20
Alignment explanation
Indices: 46610589--46610639 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
46610579 TCGCTTCTCT
*
46610589 CACAC-CCGTGTGGTCT-AC
1 CACACGCCGTGTGGTCTGAA
46610607 CACACGCCGTGT-GTCTGAA
1 CACACGCCGTGTGGTCTGAA
46610626 CACACGGCCGTGTG
1 CACAC-GCCGTGTG
46610640 CCTTACCCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 9 0.32
19 12 0.43
20 7 0.25
ACGTcount: A:0.18, C:0.35, G:0.27, T:0.20
Consensus pattern (20 bp):
CACACGCCGTGTGGTCTGAA
Found at i:46614906 original size:30 final size:30
Alignment explanation
Indices: 46614871--46614928 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
46614861 CACAGCCATG
*
46614871 ACACACGGGCGTGTGG-TCTACCCGTGTGTC
1 ACACACGGGCGTATGGATC-ACCCGTGTGTC
46614901 ACACACGGGCGTATGGATCACCCGTGTG
1 ACACACGGGCGTATGGATCACCCGTGTG
46614929 GAAGTGTCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 24 0.92
31 2 0.08
ACGTcount: A:0.17, C:0.29, G:0.33, T:0.21
Consensus pattern (30 bp):
ACACACGGGCGTATGGATCACCCGTGTGTC
Found at i:46615386 original size:20 final size:20
Alignment explanation
Indices: 46615361--46615398 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
46615351 GTAGTGAGAA
46615361 TTTATTTTCTAAGAATAAAT
1 TTTATTTTCTAAGAATAAAT
*
46615381 TTTATTTTCTAGGAATAA
1 TTTATTTTCTAAGAATAA
46615399 TAATTTGCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.05, G:0.08, T:0.50
Consensus pattern (20 bp):
TTTATTTTCTAAGAATAAAT
Found at i:46617711 original size:22 final size:21
Alignment explanation
Indices: 46617671--46617710 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
46617661 ATTGATTTGT
46617671 CCATTTTTAGGTTCGTTTTCA
1 CCATTTTTAGGTTCGTTTTCA
*
46617692 CCATTTTTAGGTTTGTTTT
1 CCATTTTTAGGTTCGTTTT
46617711 TTTCCTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.12, C:0.15, G:0.15, T:0.57
Consensus pattern (21 bp):
CCATTTTTAGGTTCGTTTTCA
Found at i:46623289 original size:30 final size:32
Alignment explanation
Indices: 46623253--46623316 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
46623243 AATATGTATT
*
46623253 AAAT-AAAATATTTTAA-ATATTTTAATATAA
1 AAATAAAAATATTTTAATATAATTTAATATAA
46623283 AAATAAAAATATTTTAATATAATTTAATATAA
1 AAATAAAAATATTTTAATATAATTTAATATAA
46623315 AA
1 AA
46623317 GTAATTATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 4 0.13
31 12 0.39
32 15 0.48
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (32 bp):
AAATAAAAATATTTTAATATAATTTAATATAA
Found at i:46623381 original size:16 final size:16
Alignment explanation
Indices: 46623362--46623447 Score: 54
Period size: 16 Copynumber: 5.6 Consensus size: 16
46623352 ATTTTTATTA
46623362 AATTATATTTAATAAT
1 AATTATATTTAATAAT
*
46623378 AATTATA-TTAAAATAT
1 AATTATATTTAATA-AT
* * *
46623394 AATTA-AATTATTTAT
1 AATTATATTTAATAAT
* * *
46623409 TATTAT-TTTTATTA-
1 AATTATATTTAATAAT
*
46623423 AATCATATTTAATAAT
1 AATTATATTTAATAAT
*
46623439 AATTCTATT
1 AATTATATT
46623448 AAAATTTAAT
Statistics
Matches: 51, Mismatches: 14, Indels: 10
0.68 0.19 0.13
Matches are distributed among these distances:
14 4 0.08
15 23 0.45
16 24 0.47
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (16 bp):
AATTATATTTAATAAT
Found at i:46623383 original size:24 final size:23
Alignment explanation
Indices: 46623319--46623383 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 23
46623309 ATATAAAAGT
*
46623319 AATTATA-TTAAGAATATTATTA
1 AATTATATTTAATAATATTATTA
*
46623341 AATTATATATT-AT--TTTTATTA
1 AATTATAT-TTAATAATATTATTA
46623362 AATTATATTTAATAATAATTAT
1 AATTATATTTAATAAT-ATTAT
46623384 ATTAAAATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
20 2 0.06
21 17 0.50
22 7 0.21
23 2 0.06
24 6 0.18
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
AATTATATTTAATAATATTATTA
Found at i:46623412 original size:26 final size:27
Alignment explanation
Indices: 46623341--46623413 Score: 80
Period size: 26 Copynumber: 2.8 Consensus size: 27
46623331 AATATTATTA
*
46623341 AATTATATATTATTT-TTATTAAATTAT
1 AATTA-ATATTATTTATTATTAAAATAT
* * *
46623368 ATTTAATAATAATTA-TATTAAAATAT
1 AATTAATATTATTTATTATTAAAATAT
46623394 AATTAA-ATTATTTATTATTA
1 AATTAATATTATTTATTATTA
46623414 TTTTTATTAA
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
25 6 0.16
26 27 0.73
27 4 0.11
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (27 bp):
AATTAATATTATTTATTATTAAAATAT
Found at i:46623431 original size:61 final size:58
Alignment explanation
Indices: 46623318--46623457 Score: 208
Period size: 61 Copynumber: 2.3 Consensus size: 58
46623308 AATATAAAAG
* *
46623318 TAATTATATTAAGAATATTATTAAATTATATATTATTTTTATTAAATTATATTTAATAA
1 TAATTATATTAA-AATATAATTAAATTATATATTATTTTTATTAAATCATATTTAATAA
46623377 TAATTATATTAAAATATAATTAAATTATTTATTATTATTTTTATTAAATCATATTTAATAA
1 TAATTATATTAAAATATAATTAAATTA--TA-TATTATTTTTATTAAATCATATTTAATAA
* *
46623438 TAATTCTATTAAAATTTAAT
1 TAATTATATTAAAATATAAT
46623458 AAAAATAATC
Statistics
Matches: 74, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
58 14 0.19
59 12 0.16
60 2 0.03
61 46 0.62
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (58 bp):
TAATTATATTAAAATATAATTAAATTATATATTATTTTTATTAAATCATATTTAATAA
Found at i:46641400 original size:17 final size:16
Alignment explanation
Indices: 46641378--46641412 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
46641368 CATAGGCTGG
*
46641378 CACATGGGTATGTGGCT
1 CACATGGGCATGT-GCT
46641395 CACATGGGCATGTGCT
1 CACATGGGCATGTGCT
46641411 CA
1 CA
46641413 GCCCGTGTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.20, C:0.23, G:0.31, T:0.26
Consensus pattern (16 bp):
CACATGGGCATGTGCT
Found at i:46643269 original size:6 final size:6
Alignment explanation
Indices: 46643250--46643305 Score: 87
Period size: 6 Copynumber: 9.5 Consensus size: 6
46643240 AGAAGTCTAA
* *
46643250 AAAAAT AATAAT AAACAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
46643298 -AAAAT AAA
1 AAAAAT AAA
46643306 TGATAAATGG
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
5 5 0.11
6 40 0.89
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.18
Consensus pattern (6 bp):
AAAAAT
Found at i:46644991 original size:8 final size:8
Alignment explanation
Indices: 46644978--46645015 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
46644968 ACAAATAAAT
46644978 AATAAAGA
1 AATAAAGA
46644986 AATAAAGA
1 AATAAAGA
*
46644994 AA-ATAAGT
1 AATA-AAGA
46645002 AATAAAGA
1 AATAAAGA
46645010 AATAAA
1 AATAAA
46645016 TAAAGATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
7 1 0.04
8 24 0.92
9 1 0.04
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.16
Consensus pattern (8 bp):
AATAAAGA
Found at i:46644999 original size:24 final size:24
Alignment explanation
Indices: 46644970--46645038 Score: 84
Period size: 24 Copynumber: 2.7 Consensus size: 24
46644960 AACAAATAAC
46644970 AAATAAATAATAAAGAAATAAAGA
1 AAATAAATAATAAAGAAATAAAGA
* *
46644994 AAATAAGTAATAAAGAAATAAATA
1 AAATAAATAATAAAGAAATAAAGA
46645018 AAGATTAAATAAAATAAAGAA
1 AA-A-TAAAT--AATAAAGAA
46645039 TGGGTAAAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
24 24 0.63
25 1 0.03
26 4 0.11
28 9 0.24
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.19
Consensus pattern (24 bp):
AAATAAATAATAAAGAAATAAAGA
Found at i:46645028 original size:11 final size:12
Alignment explanation
Indices: 46644974--46645030 Score: 50
Period size: 12 Copynumber: 4.9 Consensus size: 12
46644964 AATAACAAAT
46644974 AAAT-AATAAAG
1 AAATAAATAAAG
*
46644985 AAATAAAGAAA-
1 AAATAAATAAAG
46644996 ATAAGT-AATAAAG
1 A-AA-TAAATAAAG
46645009 AAATAAATAAAG
1 AAATAAATAAAG
*
46645021 -ATTAAATAAA
1 AAATAAATAAA
46645031 ATAAAGAATG
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
11 15 0.39
12 21 0.55
13 2 0.05
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.19
Consensus pattern (12 bp):
AAATAAATAAAG
Done.