Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 177 of 344
Found at i:59004840 original size:78 final size:77
Alignment explanation
Indices: 59004711--59005073 Score: 555
Period size: 78 Copynumber: 4.7 Consensus size: 77
59004701 GTGAAAGCCA
59004711 AATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
1 AATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
*
59004776 TTAATGAAGGTCC
66 TCAATGAAGGT-C
* * * *
59004789 AATCTGTTATGTCTTCGATCTGCTCCCCGTTTAATACAGATATGTCAAATCATCTTGGATCTGCT
1 AATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
59004854 TCAATGAAGGTC
66 TCAATGAAGGTC
* * *
59004866 AAATCTGTTGTGACTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGC
1 -AATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGC
*
59004931 TTCAATAAAGGTC
65 TTCAATGAAGGTC
* *
59004944 AGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGATATGCCAAATCATCTTGGATCTGC
1 A-ATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGC
59005009 TTCAATGAAGGTC
65 TTCAATGAAGGTC
* * **
59005022 AGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATC
1 A-ATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
59005074 TGTTTCTTTG
Statistics
Matches: 262, Mismatches: 21, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
77 2 0.01
78 260 0.99
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.33
Consensus pattern (77 bp):
AATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
TCAATGAAGGTC
Found at i:59004992 original size:365 final size:368
Alignment explanation
Indices: 59004219--59004995 Score: 1150
Period size: 365 Copynumber: 2.1 Consensus size: 368
59004209 AAATCTGTTA
*
59004219 TCTTCGATCTGCTCCCCGTCTAAATACAGAGATGCCAAATCTATTATCTCTGATTTGCTCCCTGT
1 TCTTCGATCTGCTCCCCGTCT-AATACAGAGATGCCAAATCTATTATCTCTGATTTGCTCCCTGA
* * * * * *
59004284 CTAATACAGAAATGCCAAATTTGTCATCTTGGATCTTCTTCGATGTAAACACATGAAGGTCAGAT
65 CTAATACAGAAATGCCAAA--T-TCATCTTAGATCTGCTTCGACGTAAACACATGAAAGCCAAAT
*
59004349 CTGCTATGTCTTCGATCTGCTCCCTATCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCA
127 CTGCTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCA
59004414 ATGAAGGTCCAATCTGTTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCT
192 ATGAAGGTCCAATCTGTTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCT
* *
59004479 TGGATCTGCTTCAATGAAGGTCAGATCTACTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGA
257 TGGATCTGCTTCAATGAAGGTCAAATCTACTGTGACTTCGATCTGCTCCCCGTCTAATACAGAGA
* *
59004544 TGCCAAATCATCTTAGATCTGCTTCAATGAAGGTTAGATCTACTATG
322 TGCCAAATCATCTTAGATCTGCTTCAATAAAGGTCAGATCTACTATG
* * ** * * **
59004591 TCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTT-TCT-TCGATTTGTTCTGTGA
1 TCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTATTATCTCT-GATTTGCTCCCTGA
* * *
59004654 C-AGTACAGAGATGCCAAA-TCATCTTAGATCTGCTTC-AGCGTAAACACGTGAAAGCCAAATCT
65 CTAATACAGAAATGCCAAATTCATCTTAGATCTGCTTCGA-CGTAAACACATGAAAGCCAAATCT
* *
59004716 GCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTTAAT
129 GCTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAAT
* * * *
59004781 GAAGGTCCAATCTGTTATGTCTTCGATCTGCTCCCCGTTTAATACAGATATGTCAAATCATCTTG
194 GAAGGTCCAATCTGTTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
**
59004846 GATCTGCTTCAATGAAGGTCAAATCTGTTGTGACTTCGATCTGCTCCCCGTCTAATACAGAGATG
259 GATCTGCTTCAATGAAGGTCAAATCTACTGTGACTTCGATCTGCTCCCCGTCTAATACAGAGATG
* * *
59004911 CCAAATCATCTTGGATCTGCTTCAATAAAGGTCAGATCTGCTGTG
324 CCAAATCATCTTAGATCTGCTTCAATAAAGGTCAGATCTACTATG
*
59004956 TCTTCGATCTGCTCCCCGTCTAATACAGATATGCCAAATC
1 TCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
59004996 ATCTTGGATC
Statistics
Matches: 364, Mismatches: 39, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
364 1 0.00
365 294 0.81
369 16 0.04
370 14 0.04
371 20 0.05
372 19 0.05
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (368 bp):
TCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTATTATCTCTGATTTGCTCCCTGAC
TAATACAGAAATGCCAAATTCATCTTAGATCTGCTTCGACGTAAACACATGAAAGCCAAATCTGC
TATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGA
AGGTCCAATCTGTTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGA
TCTGCTTCAATGAAGGTCAAATCTACTGTGACTTCGATCTGCTCCCCGTCTAATACAGAGATGCC
AAATCATCTTAGATCTGCTTCAATAAAGGTCAGATCTACTATG
Found at i:59005006 original size:41 final size:41
Alignment explanation
Indices: 59004883--59005009 Score: 104
Period size: 41 Copynumber: 3.2 Consensus size: 41
59004873 TTGTGACTTC
*
59004883 GATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
1 GATCTGCTCCCCGTCTAATACAGATATGCCAAATCATCTTG
* ** * * ** * *
59004924 GATCTGCT-TCAAT-AAAGGT-CAGATCTG-C-TGT-GTCTTC
1 GATCTGCTCCCCGTCTAA--TACAGATATGCCAAATCATCTTG
59004961 GATCTGCTCCCCGTCTAATACAGATATGCCAAATCATCTTG
1 GATCTGCTCCCCGTCTAATACAGATATGCCAAATCATCTTG
59005002 GATCTGCT
1 GATCTGCT
59005010 TCAATGAAGG
Statistics
Matches: 59, Mismatches: 19, Indels: 16
0.63 0.20 0.17
Matches are distributed among these distances:
37 13 0.22
38 10 0.17
39 6 0.10
40 9 0.15
41 21 0.36
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (41 bp):
GATCTGCTCCCCGTCTAATACAGATATGCCAAATCATCTTG
Found at i:59005166 original size:443 final size:442
Alignment explanation
Indices: 59004336--59005219 Score: 1457
Period size: 443 Copynumber: 2.0 Consensus size: 442
59004326 ATGTAAACAC
*
59004336 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCTATCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCT
* *
59004401 TGGATCTGCTTCAATGAAGGTCCAATCTGTTATGTCTTCGATCTACTCCCCGTCTAATACAGAGA
66 TGGATCTGCTTCAATGAAGGTCAAATCTGTTATGACTTCGATCTACTCCCCGTCTAATACAGAGA
*
59004466 TGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTACTGTGTCTTCGATCTGCTCCCCG
131 TGCCAAATCATCTTGGATCTGCTTCAATAAAGGTCAGATCTACTGTGTCTTCGATCTGCTCCCCG
*
59004531 TCTAATACAGAGATGCCAAATCATCTTAGATCTGCTTCAATGAAGGTTAGATCTACTATGTCTTC
196 TCTAATACAGAGATGCCAAATCATCTTAGATCTGCTTCAATGAAGGTCAGATCTACTATGTCTTC
* * *
59004596 GATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTGTGACAGTACA
261 GATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTATTCTCTAACAGTACA
* * *
59004661 GAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTATGTCTT
326 GAGATGCCAAATCATCTTAGATCTACTTCAGCATAAACACGTGAAAGCCAAATCTACTATGTCTT
* *
59004726 CGATCTGCTCCCCGTCTAATAC-AGAGATGCCAAATCATCTTGGATCTGCTTTA
391 CGATCTGCTCCCCGTC-AACACAAG-GATGCCAAATCATCTTGGATCTACTTTA
* * * * *
59004779 ATGAAGGTCCA-ATCTGTTATGTCTTCGATCTGCTCCCCGTTTAATACAGATATGTCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATC
* *
59004843 TTGGATCTGCTTCAATGAAGGTCAAATCTGTTGTGACTTCGATCTGCTCCCCGTCTAATACAGAG
65 TTGGATCTGCTTCAATGAAGGTCAAATCTGTTATGACTTCGATCTACTCCCCGTCTAATACAGAG
*
59004908 ATGCCAAATCATCTTGGATCTGCTTCAATAAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCC
130 ATGCCAAATCATCTTGGATCTGCTTCAATAAAGGTCAGATCTACTGTGTCTTCGATCTGCTCCCC
* * *
59004973 GTCTAATACAGATATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTT
195 GTCTAATACAGAGATGCCAAATCATCTTAGATCTGCTTCAATGAAGGTCAGATCTACTATGTCTT
*
59005038 CGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTTGATTTATTCTCTAACAGTAC
260 CGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTATTCTCTAACAGTAC
*
59005103 AGAGATGCCAAATCATCTTAGATCTACTTCAGCATAAACACGTGAAAGTCAAATCTACTATGTCT
325 AGAGATGCCAAATCATCTTAGATCTACTTCAGCATAAACACGTGAAAGCCAAATCTACTATGTCT
*** *
59005168 TCGATCTGCTCTTTGTCAACGCAAGGATGCCAAATCATCTTGGATCTACTTT
390 TCGATCTGCTCCCCGTCAACACAAGGATGCCAAATCATCTTGGATCTACTTT
59005220 GATGTGAAGA
Statistics
Matches: 409, Mismatches: 30, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
442 29 0.07
443 378 0.92
444 2 0.00
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (442 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCAATGAAGGTCAAATCTGTTATGACTTCGATCTACTCCCCGTCTAATACAGAGA
TGCCAAATCATCTTGGATCTGCTTCAATAAAGGTCAGATCTACTGTGTCTTCGATCTGCTCCCCG
TCTAATACAGAGATGCCAAATCATCTTAGATCTGCTTCAATGAAGGTCAGATCTACTATGTCTTC
GATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTATTCTCTAACAGTACA
GAGATGCCAAATCATCTTAGATCTACTTCAGCATAAACACGTGAAAGCCAAATCTACTATGTCTT
CGATCTGCTCCCCGTCAACACAAGGATGCCAAATCATCTTGGATCTACTTTA
Found at i:59006448 original size:37 final size:37
Alignment explanation
Indices: 59006398--59006476 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
59006388 TTATTACGAA
* * *
59006398 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
59006435 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
59006472 GTCTT
1 GTCTT
59006477 TAGAGTTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:59006673 original size:47 final size:47
Alignment explanation
Indices: 59006595--59007056 Score: 755
Period size: 47 Copynumber: 9.7 Consensus size: 47
59006585 CCCTTCGGGA
* * * * * *
59006595 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
59006642 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59006689 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
59006736 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
59006783 ATTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59006832 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59006879 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59006928 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59006975 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
59007022 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
59007057 AGAATCCTAA
Statistics
Matches: 393, Mismatches: 17, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
46 1 0.00
47 300 0.76
49 92 0.23
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:59006824 original size:96 final size:96
Alignment explanation
Indices: 59006595--59007056 Score: 758
Period size: 96 Copynumber: 4.9 Consensus size: 96
59006585 CCCTTCGGGA
* * * * * * *
59006595 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
59006658 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
59006689 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
59006752 ACTTTCACATTCATCACATTGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
59006783 ATTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
59006848 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
59006879 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
59006944 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
59006975 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATATGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
59007038 A-TGTTCACATCCATCACAT
66 ACT-TTCACATTCATCACAT
59007057 AGAATCCTAA
Statistics
Matches: 349, Mismatches: 14, Indels: 10
0.94 0.04 0.03
Matches are distributed among these distances:
93 2 0.01
94 159 0.46
96 188 0.54
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:59006851 original size:143 final size:141
Alignment explanation
Indices: 59006595--59007056 Score: 764
Period size: 143 Copynumber: 3.2 Consensus size: 141
59006585 CCCTTCGGGA
* * * * * *
59006595 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTAGGCCTTATCACATATATACAC
59006660 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
59006725 GGCCATTAGGC
131 GGCCATTAGGC
* *
59006736 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCATTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTAGGCCTTATCAC--ATATATAC
59006801 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
59006866 TCGGCCATTAGGC
129 TCGGCCATTAGGC
* *
59006879 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATCCATCACATTGGCCATTAGGCCTTATCACATATATAC
59006944 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
59007009 TCGGCCATTAGGC
129 TCGGCCATTAGGC
* *
59007022 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATCCATCACAT
59007057 AGAATCCTAA
Statistics
Matches: 303, Mismatches: 13, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
140 1 0.00
141 70 0.23
143 187 0.62
145 45 0.15
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:59009787 original size:52 final size:52
Alignment explanation
Indices: 59009730--59009832 Score: 206
Period size: 52 Copynumber: 2.0 Consensus size: 52
59009720 TGAGCAAAAC
59009730 TTCATTTGTGAAAATTATTTAGTTCATCTATCATTATTTTAATGCAACATAT
1 TTCATTTGTGAAAATTATTTAGTTCATCTATCATTATTTTAATGCAACATAT
59009782 TTCATTTGTGAAAATTATTTAGTTCATCTATCATTATTTTAATGCAACATA
1 TTCATTTGTGAAAATTATTTAGTTCATCTATCATTATTTTAATGCAACATA
59009833 CTTTAAGAAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.48
Consensus pattern (52 bp):
TTCATTTGTGAAAATTATTTAGTTCATCTATCATTATTTTAATGCAACATAT
Found at i:59017573 original size:17 final size:17
Alignment explanation
Indices: 59017551--59017583 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
59017541 GATATGATAC
59017551 TAAAAT-TATTAAAAAAT
1 TAAAATATA-TAAAAAAT
59017568 TAAAATATATAAAAAA
1 TAAAATATATAAAAAA
59017584 AATCTGGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
TAAAATATATAAAAAAT
Found at i:59017584 original size:18 final size:17
Alignment explanation
Indices: 59017551--59017584 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
59017541 GATATGATAC
*
59017551 TAAAATTATTAAAAAAT
1 TAAAATTATAAAAAAAT
59017568 TAAAATATATAAAAAAA
1 TAAAAT-TATAAAAAAA
59017585 ATCTGGGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAATTATAAAAAAAT
Found at i:59017876 original size:22 final size:21
Alignment explanation
Indices: 59017841--59017916 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
59017831 AAAAGGTATC
* *
59017841 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
59017862 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
59017885 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
59017904 TGC-AATCATATCT
1 TACAAATCATATCT
59017917 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:59017933 original size:35 final size:37
Alignment explanation
Indices: 59017870--59017967 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
59017860 ATTACAAAAT
59017870 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
59017906 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
59017941 CATATCATATCTAAGATTGCATATCAT
1 CATATCATATCTAAGATTG-ATATCAT
59017968 TGAAGATTAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:59017975 original size:17 final size:19
Alignment explanation
Indices: 59017877--59017967 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
59017867 AATCATATCT
59017877 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
59017896 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
59017914 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
59017931 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
59017950 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
59017968 TGAAGATTAT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:59019957 original size:79 final size:82
Alignment explanation
Indices: 59019846--59020030 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
59019836 GCTACTCGTT
* * *
59019846 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
59019909 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
59019926 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
59019989 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
59020006 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
59020031 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:59020030 original size:40 final size:40
Alignment explanation
Indices: 59019827--59020030 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
59019817 CGGAATTTAA
** *
59019827 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
59019867 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
59019907 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
59019946 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
59019986 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
59020026 CCGGA
1 CCGGA
59020031 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:59025081 original size:16 final size:16
Alignment explanation
Indices: 59025039--59025081 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
59025029 GTTAAAGTTT
*
59025039 TAAAATTATATATACA
1 TAAAAATATATATACA
*
59025055 TAAAAGGATATATATATA
1 TAAAA--ATATATATACA
59025073 TAAAAATAT
1 TAAAAATAT
59025082 TTGGTACGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 9 0.39
18 14 0.61
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (16 bp):
TAAAAATATATATACA
Found at i:59025257 original size:14 final size:15
Alignment explanation
Indices: 59025240--59025403 Score: 92
Period size: 14 Copynumber: 10.7 Consensus size: 15
59025230 TAAACCAGTT
59025240 TAATAGT-ATAATAA
1 TAATAGTAATAATAA
*
59025254 TAATAAT-ATAA-AA
1 TAATAGTAATAATAA
* *
59025267 TAATAATAATAGAGAA
1 TAATAGTAATA-ATAA
59025283 TAATAGTACATTAATAA
1 TAATAGTA-A-TAATAA
*
59025300 TAATATATGTTAATAACAA
1 T-A-ATA-G-TAATAATAA
*
59025319 TAATAAT-ATAA-AA
1 TAATAGTAATAATAA
*
59025332 -AATAGGAAATAATAA
1 TAATA-GTAATAATAA
* *
59025347 TATACTAATAAGAATAA
1 TA-A-TAGTAATAATAA
59025364 TAATAGGT--TAATAA
1 TAATA-GTAATAATAA
59025378 TAATAGTAATAATAA
1 TAATAGTAATAATAA
*
59025393 TAATAATAATA
1 TAATAGTAATA
59025404 CTTGTAGTAG
Statistics
Matches: 119, Mismatches: 13, Indels: 35
0.71 0.08 0.21
Matches are distributed among these distances:
12 4 0.03
13 13 0.11
14 31 0.26
15 22 0.18
16 12 0.10
17 18 0.15
18 6 0.05
19 9 0.08
20 2 0.02
21 2 0.02
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.32
Consensus pattern (15 bp):
TAATAGTAATAATAA
Found at i:59025421 original size:3 final size:3
Alignment explanation
Indices: 59025247--59025403 Score: 112
Period size: 3 Copynumber: 52.0 Consensus size: 3
59025237 GTTTAATAGT
* *
59025247 ATA ATA ATA ATA AT- ATA A-A ATA ATA ATA ATA GAGA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA
* * *
59025291 CATTA ATA ATA ATA TATG TTA ATA ACA ATA ATA AT- ATA A-A A-A ATA
1 -A-TA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
59025336 GGA-A ATA ATA AT- ATA CTA ATA AGA ATA ATA ATA GGTTA ATA ATA ATA
1 --ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA --ATA ATA ATA ATA
*
59025383 GTA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA
59025404 CTTGTAGTAG
Statistics
Matches: 122, Mismatches: 18, Indels: 28
0.73 0.11 0.17
Matches are distributed among these distances:
2 13 0.11
3 98 0.80
4 6 0.05
5 5 0.04
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:59027422 original size:15 final size:15
Alignment explanation
Indices: 59027400--59027441 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
59027390 AAGAAAAGAA
59027400 AAAGAGAGAAAGACGGG
1 AAAGAGAG-AAGA-GGG
59027417 AAAGAGAGAAGAGGG
1 AAAGAGAGAAGAGGG
*
59027432 AAAGAAAGAA
1 AAAGAGAGAA
59027442 AGAAAAAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 12 0.50
16 4 0.17
17 8 0.33
ACGTcount: A:0.60, C:0.02, G:0.38, T:0.00
Consensus pattern (15 bp):
AAAGAGAGAAGAGGG
Found at i:59029863 original size:21 final size:21
Alignment explanation
Indices: 59029837--59029879 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
59029827 CTAGCAATAG
59029837 TTTTGGACATGGTAGAAGCAA
1 TTTTGGACATGGTAGAAGCAA
59029858 TTTTGGACATGGTAGAAGCAA
1 TTTTGGACATGGTAGAAGCAA
59029879 T
1 T
59029880 CATGTCGGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.09, G:0.28, T:0.30
Consensus pattern (21 bp):
TTTTGGACATGGTAGAAGCAA
Found at i:59040433 original size:45 final size:45
Alignment explanation
Indices: 59040306--59040475 Score: 181
Period size: 45 Copynumber: 3.9 Consensus size: 45
59040296 TATTATCAAA
* * * **
59040306 TCACCGGCATT-CAGCCTGCTAGGTTTAAAAACCCGAAT--TCAT-
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAAT-ATC
* * *
59040348 TCACCGGCATT-TCGCCTGCTAGGCTC-GAGGCCTGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
*
59040391 TCACCGGTATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
* * *
59040436 TCATCGGCATTATAGCTTGCTAGGCTCAAAGGTCCGAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
59040476 GTACTGTACA
Statistics
Matches: 107, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
41 7 0.07
42 24 0.22
43 11 0.10
44 14 0.13
45 51 0.48
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
Found at i:59044820 original size:53 final size:54
Alignment explanation
Indices: 59044753--59045155 Score: 400
Period size: 55 Copynumber: 7.6 Consensus size: 54
59044743 TTACCATTGT
* * * *
59044753 CATGTCTTGACATGGTTTTACATGGTATCCTTGCCTTAT-GAACTCACCAACGC
1 CATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCATCAATGC
* * *
59044806 CATGCCTTGGCATGGTCTTACATGGGA-CCTTTTCCTTATAGTAACTCATCAATGC
1 CATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTATAG-AACTCATCAATGC
* *
59044861 CATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCACCAATGC
1 CATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCATCAATGC
* * *
59044914 CATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTCATTAATGC
1 CATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTATAG-AACTCATCAATGC
* * * *
59044969 CATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGC
1 CATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCATCAATGC
* * ** *
59045023 CATGCCTTGGCATGGTCTTACATGATATCCTTATC-T-T---AC-CA--AATGT
1 CATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCATCAATGC
** * *
59045069 CATGTTCC-AAACATGGTCTTACATGGTATCCTTGTCTTATAGAACTTATCAATGC
1 CATG--CCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCATCAATGC
* * * *
59045124 AATGTCTTGGCATGGTCTTACATGATATCCTT
1 CATGCCTTGACATGGTCTTACATGGTATCCTT
59045156 ATCTTACCAA
Statistics
Matches: 287, Mismatches: 44, Indels: 37
0.78 0.12 0.10
Matches are distributed among these distances:
46 8 0.03
47 23 0.08
48 4 0.01
49 3 0.01
52 7 0.02
53 79 0.28
54 65 0.23
55 94 0.33
56 4 0.01
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (54 bp):
CATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCATCAATGC
Found at i:59044916 original size:108 final size:108
Alignment explanation
Indices: 59044753--59045147 Score: 522
Period size: 108 Copynumber: 3.7 Consensus size: 108
59044743 TTACCATTGT
* *
59044753 CATGTCTTGACATGGTTTTACATGGTATCCTTGCCTTAT-GAACTCACCAACGCCATGCCTTGGC
1 CATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCACCAATGCCATGCCTTGGC
59044817 ATGGTCTTACATGGGACCTTTTCCTTATAGTAACTCATCAATGC
66 ATGGTCTTACATGGGACCTTTTCCTTATAGTAACTCAT-AATGC
59044861 CATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCACCAATGCCATGCCTTGGC
1 CATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCACCAATGCCATGCCTTGGC
*
59044925 ATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATTAATGC
66 ATGGTCTTACATGGGACCTTTTCCTTATAGTAACTCA-TAATGC
* * * *
59044969 CATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGGC
1 CATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCACCAATGCCATGCCTTGGC
* * * *
59045034 ATGGTCTTACAT--GA---TATCCTTAT-CTTAC-CA-AATGT
66 ATGGTCTTACATGGGACCTTTTCCTTATAGTAACTCATAATGC
*** * * * * *
59045069 CATGTTCCAAACATGGTCTTACATGGTATCCTTGTCTTATAGAACTTATCAATGCAATGTCTTGG
1 CATG-TCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCACCAATGCCATGCCTTGG
59045134 CATGGTCTTACATG
65 CATGGTCTTACATG
59045148 ATATCCTTAT
Statistics
Matches: 263, Mismatches: 20, Indels: 14
0.89 0.07 0.05
Matches are distributed among these distances:
100 8 0.03
101 65 0.25
102 2 0.01
103 3 0.01
104 7 0.03
107 2 0.01
108 140 0.53
109 36 0.14
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (108 bp):
CATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCACCAATGCCATGCCTTGGC
ATGGTCTTACATGGGACCTTTTCCTTATAGTAACTCATAATGC
Found at i:59045086 original size:47 final size:47
Alignment explanation
Indices: 59045033--59045203 Score: 173
Period size: 47 Copynumber: 3.5 Consensus size: 47
59045023 CATGCCTTGG
59045033 CATGGTCTTACATGATATCCTTATCTTACCAAATGTCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTATCTTACCAAATGTCATGTTCCAAA
* * * * ****
59045080 CATGGTCTTACATGGTATCCTTGTCTTA-TAGAACTTATCAATGCAATGTCTTGG
1 CATGGTCTTACATGATATCCTTATCTTACCA-AA--TGTC-ATG---T-TCCAAA
*
59045134 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTATCTTACCAAATGTCATGTTCCAAA
*
59045181 CATGGTCTTACATGGTATCCTTA
1 CATGGTCTTACATGATATCCTTA
59045204 ACCGTCAATT
Statistics
Matches: 97, Mismatches: 18, Indels: 18
0.73 0.14 0.14
Matches are distributed among these distances:
46 1 0.01
47 52 0.54
48 1 0.01
49 3 0.03
50 3 0.03
51 3 0.03
52 2 0.02
53 1 0.01
54 30 0.31
55 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (47 bp):
CATGGTCTTACATGATATCCTTATCTTACCAAATGTCATGTTCCAAA
Found at i:59045101 original size:101 final size:104
Alignment explanation
Indices: 59044762--59045202 Score: 488
Period size: 108 Copynumber: 4.2 Consensus size: 104
59044752 TCATGTCTTG
* *
59044762 ACATGGTTTTACATGGTATCCTTGCCTTATGAACTCACCAACGCCATGCCTTGGCATGGTCTTAC
1 ACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTAC
* * ***
59044827 ATGGGACCTTTTCCTTATAGTAACTCATCAATGCCATGTCTTG
66 AT-GGA-C-TATCCTTATACTAACTCAT-AATGCCATGTCCAA
59044870 ACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTAC
1 ACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTAC
* * ***
59044935 ATGGGACCTTTGCCTTATAGTAACTCATTAATGCCATGTCTTG
66 AT-GGA-CTAT-CCTTATACTAACTCA-TAATGCCATGTCCAA
* * * *
59044978 ACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTA
1 ACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCACCAATGCCATGCCTTGGCATGGTCTTA
* *
59045043 CAT-GA-TATCCTTAT-CTTAC-CA-AATGTCATGTTCCAA
65 CATGGACTATCCTTATACTAACTCATAATGCCATG-TCCAA
* * * * *
59045079 ACATGGTCTTACATGGTATCCTTGTCTTATAGAACTTATCAATGCAATGTCTTGGCATGGTCTTA
1 ACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCACCAATGCCATGCCTTGGCATGGTCTTA
*
59045144 CAT-GA-TATCCTTAT-CTTAC-CA-AATGCCATGTTCCAA
65 CATGGACTATCCTTATACTAACTCATAATGCCATG-TCCAA
59045180 ACATGGTCTTACATGGTATCCTT
1 ACATGGTCTTACATGGTATCCTT
59045203 AACCGTCAAT
Statistics
Matches: 310, Mismatches: 19, Indels: 15
0.90 0.06 0.04
Matches are distributed among these distances:
100 8 0.03
101 120 0.39
102 2 0.01
103 3 0.01
104 6 0.02
105 2 0.01
107 5 0.02
108 128 0.41
109 36 0.12
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (104 bp):
ACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTAC
ATGGACTATCCTTATACTAACTCATAATGCCATGTCCAA
Found at i:59049878 original size:22 final size:23
Alignment explanation
Indices: 59049848--59049897 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
59049838 AATTAAATTT
*
59049848 AAAATTTAAAAGAAAAATAAT-G
1 AAAAATTAAAAGAAAAATAATAG
* *
59049870 AAAAATTAAAATAATAATAATAG
1 AAAAATTAAAAGAAAAATAATAG
59049893 AAAAA
1 AAAAA
59049898 GACCTAAATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (23 bp):
AAAAATTAAAAGAAAAATAATAG
Found at i:59052140 original size:18 final size:18
Alignment explanation
Indices: 59052119--59052157 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
59052109 CCTAAATTTG
59052119 ATTTTGATATATTACA-TA
1 ATTTTGA-ATATTACATTA
*
59052137 ATTTTTAATATTACATTA
1 ATTTTGAATATTACATTA
59052155 ATT
1 ATT
59052158 ATTACGAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (18 bp):
ATTTTGAATATTACATTA
Found at i:59056469 original size:32 final size:32
Alignment explanation
Indices: 59056380--59056480 Score: 100
Period size: 32 Copynumber: 3.2 Consensus size: 32
59056370 TTACTCTTAG
* **
59056380 TATACATTATTGATTTCCTATTATTTTATGTA
1 TATATATTATTGATTTTATATTATTTTATGTA
* * * *
59056412 AATAT-TTCCTT-TTTTTA-ATTTTTTTATGTA
1 TATATATT-ATTGATTTTATATTATTTTATGTA
59056442 TATATATTATTGATTTTATATTATTTTATGTA
1 TATATATTATTGATTTTATATTATTTTATGTA
*
59056474 TGTATAT
1 TATATAT
59056481 CTTCTTCTAA
Statistics
Matches: 53, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
30 18 0.34
31 12 0.23
32 23 0.43
ACGTcount: A:0.28, C:0.05, G:0.06, T:0.61
Consensus pattern (32 bp):
TATATATTATTGATTTTATATTATTTTATGTA
Found at i:59070535 original size:30 final size:30
Alignment explanation
Indices: 59070501--59070580 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 30
59070491 TGGTTGACAC
* *
59070501 ATCCCTTTTCTTAATTTGATAACTGAAGTT
1 ATCCCTTTTCATAATTTGATAACTGAAGCT
* * *
59070531 ATCCC-TTTCAATAGTTCGATAGCTGAAGCT
1 ATCCCTTTTC-ATAATTTGATAACTGAAGCT
59070561 ATCCCTTTTCATAATTTGAT
1 ATCCCTTTTCATAATTTGAT
59070581 GGTCGTCACC
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
29 4 0.10
30 33 0.80
31 4 0.10
ACGTcount: A:0.26, C:0.20, G:0.11, T:0.42
Consensus pattern (30 bp):
ATCCCTTTTCATAATTTGATAACTGAAGCT
Found at i:59070627 original size:30 final size:30
Alignment explanation
Indices: 59070531--59070634 Score: 81
Period size: 30 Copynumber: 3.5 Consensus size: 30
59070521 AACTGAAGTT
* *
59070531 ATCCC-TTTCAATAGTTCGATAG-CTGAAGCT
1 ATCCCTTTTC-ATAGATCGATAGTC-GAAGCC
* * *
59070561 ATCCCTTTTCATA-ATTTGATGGTCGTCA-CC
1 ATCCCTTTTCATAGA-TCGATAGTCG-AAGCC
*
59070591 AACCCTTTTCATAGATCGATAGTCGAAGCC
1 ATCCCTTTTCATAGATCGATAGTCGAAGCC
*
59070621 ATCCCTTGTCATAG
1 ATCCCTTTTCATAG
59070635 TTCAATGTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
29 1 0.02
30 49 0.86
31 7 0.12
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.34
Consensus pattern (30 bp):
ATCCCTTTTCATAGATCGATAGTCGAAGCC
Found at i:59070647 original size:60 final size:60
Alignment explanation
Indices: 59070531--59070662 Score: 144
Period size: 60 Copynumber: 2.2 Consensus size: 60
59070521 AACTGAAGTT
* * * **
59070531 ATCCC-TTTCAATAGTTCGATAGCTGAAGCTATCCCTTTTCATAATTTGATGGTCGTCACCA
1 ATCCCTTTTC-ATAGATCGATAGCTGAAGCCATCCCTTGTCATAATTCAATGGTCGTCA-CA
* *
59070592 A-CCCTTTTCATAGATCGATAG-TCGAAGCCATCCCTTGTCATAGTTCAATGTTCGTCACA
1 ATCCCTTTTCATAGATCGATAGCT-GAAGCCATCCCTTGTCATAATTCAATGGTCGTCACA
*
59070651 ATTCCTTTTCAT
1 ATCCCTTTTCAT
59070663 TGTTGATGGT
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
59 4 0.07
60 51 0.85
61 5 0.08
ACGTcount: A:0.24, C:0.26, G:0.14, T:0.36
Consensus pattern (60 bp):
ATCCCTTTTCATAGATCGATAGCTGAAGCCATCCCTTGTCATAATTCAATGGTCGTCACA
Found at i:59070712 original size:29 final size:29
Alignment explanation
Indices: 59070680--59070749 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 29
59070670 GGTCATCACC
* *
59070680 ATCCCTTATCATAGTCGATAGCCGAAGTT
1 ATCCCTTTTCATAGTCGATAGCCGAAGCT
** *
59070709 ATCCCTTTTCGCATTCGATAGCCGAAGCT
1 ATCCCTTTTCATAGTCGATAGCCGAAGCT
59070738 ATCCCTTTTCAT
1 ATCCCTTTTCAT
59070750 TTGTCGATGA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.23, C:0.29, G:0.14, T:0.34
Consensus pattern (29 bp):
ATCCCTTTTCATAGTCGATAGCCGAAGCT
Found at i:59074081 original size:35 final size:35
Alignment explanation
Indices: 59074035--59074102 Score: 136
Period size: 35 Copynumber: 1.9 Consensus size: 35
59074025 TTCAACTTCA
59074035 AAACCTCAAAATTAAAGAAAAGAAAACTATACTCG
1 AAACCTCAAAATTAAAGAAAAGAAAACTATACTCG
59074070 AAACCTCAAAATTAAAGAAAAGAAAACTATACT
1 AAACCTCAAAATTAAAGAAAAGAAAACTATACT
59074103 GCCAGATGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.59, C:0.16, G:0.07, T:0.18
Consensus pattern (35 bp):
AAACCTCAAAATTAAAGAAAAGAAAACTATACTCG
Found at i:59098065 original size:30 final size:30
Alignment explanation
Indices: 59098031--59098110 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 30
59098021 TGGTTGACAC
* *
59098031 ATCCCTTTTCTTAATTTGATAACTGAAGTT
1 ATCCCTTTTCATAATTTGATAACTGAAGCT
* * *
59098061 ATCCC-TTTCAATAGTTCGATAGCTGAAGCT
1 ATCCCTTTTC-ATAATTTGATAACTGAAGCT
59098091 ATCCCTTTTCATAATTTGAT
1 ATCCCTTTTCATAATTTGAT
59098111 GGTCGTCACC
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
29 4 0.10
30 33 0.80
31 4 0.10
ACGTcount: A:0.26, C:0.20, G:0.11, T:0.42
Consensus pattern (30 bp):
ATCCCTTTTCATAATTTGATAACTGAAGCT
Found at i:59098157 original size:30 final size:30
Alignment explanation
Indices: 59098061--59098164 Score: 81
Period size: 30 Copynumber: 3.5 Consensus size: 30
59098051 AACTGAAGTT
* *
59098061 ATCCC-TTTCAATAGTTCGATAG-CTGAAGCT
1 ATCCCTTTTC-ATAGATCGATAGTC-GAAGCC
* * *
59098091 ATCCCTTTTCATA-ATTTGATGGTCGTCA-CC
1 ATCCCTTTTCATAGA-TCGATAGTCG-AAGCC
*
59098121 AACCCTTTTCATAGATCGATAGTCGAAGCC
1 ATCCCTTTTCATAGATCGATAGTCGAAGCC
*
59098151 ATCCCTTGTCATAG
1 ATCCCTTTTCATAG
59098165 TTCAATGTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
29 1 0.02
30 49 0.86
31 7 0.12
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.34
Consensus pattern (30 bp):
ATCCCTTTTCATAGATCGATAGTCGAAGCC
Found at i:59098177 original size:60 final size:60
Alignment explanation
Indices: 59098061--59098192 Score: 144
Period size: 60 Copynumber: 2.2 Consensus size: 60
59098051 AACTGAAGTT
* * * **
59098061 ATCCC-TTTCAATAGTTCGATAGCTGAAGCTATCCCTTTTCATAATTTGATGGTCGTCACCA
1 ATCCCTTTTC-ATAGATCGATAGCTGAAGCCATCCCTTGTCATAATTCAATGGTCGTCA-CA
* *
59098122 A-CCCTTTTCATAGATCGATAG-TCGAAGCCATCCCTTGTCATAGTTCAATGTTCGTCACA
1 ATCCCTTTTCATAGATCGATAGCT-GAAGCCATCCCTTGTCATAATTCAATGGTCGTCACA
*
59098181 ATTCCTTTTCAT
1 ATCCCTTTTCAT
59098193 TGTTGATGGT
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
59 4 0.07
60 51 0.85
61 5 0.08
ACGTcount: A:0.24, C:0.26, G:0.14, T:0.36
Consensus pattern (60 bp):
ATCCCTTTTCATAGATCGATAGCTGAAGCCATCCCTTGTCATAATTCAATGGTCGTCACA
Found at i:59098242 original size:29 final size:28
Alignment explanation
Indices: 59098210--59098278 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 28
59098200 GGTCATCACC
*
59098210 ATCCCTTATCATAGTCGATAGCCGAAGTT
1 ATCCCTT-TCATAGTCGATAGCCGAAGCT
** *
59098239 ATCCCTTTTCGCATTCGATAGCCGAAGCT
1 ATCCC-TTTCATAGTCGATAGCCGAAGCT
59098268 ATCCCTTTCAT
1 ATCCCTTTCAT
59098279 TTGTCGATGA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
28 4 0.12
29 27 0.82
30 2 0.06
ACGTcount: A:0.23, C:0.29, G:0.14, T:0.33
Consensus pattern (28 bp):
ATCCCTTTCATAGTCGATAGCCGAAGCT
Found at i:59098285 original size:29 final size:28
Alignment explanation
Indices: 59098210--59098286 Score: 77
Period size: 29 Copynumber: 2.6 Consensus size: 28
59098200 GGTCATCACC
* *
59098210 ATCCCTTATCATAGTCGATAGCCGAAGTT
1 ATCCCTT-TCATTGTCGATAGCCGAAGCT
59098239 ATCCCTTTTCGCA-T-TCGATAGCCGAAGCT
1 ATCCC-TTT--CATTGTCGATAGCCGAAGCT
59098268 ATCCCTTTCATTTGTCGAT
1 ATCCCTTTCA-TTGTCGAT
59098287 GATCAACATT
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
26 2 0.05
28 4 0.10
29 30 0.75
30 2 0.05
31 2 0.05
ACGTcount: A:0.22, C:0.27, G:0.16, T:0.35
Consensus pattern (28 bp):
ATCCCTTTCATTGTCGATAGCCGAAGCT
Found at i:59101608 original size:35 final size:35
Alignment explanation
Indices: 59101562--59101629 Score: 136
Period size: 35 Copynumber: 1.9 Consensus size: 35
59101552 TTCAACTTCA
59101562 AAACCTCAAAATTAAAGAAAAGAAAACTATACTCG
1 AAACCTCAAAATTAAAGAAAAGAAAACTATACTCG
59101597 AAACCTCAAAATTAAAGAAAAGAAAACTATACT
1 AAACCTCAAAATTAAAGAAAAGAAAACTATACT
59101630 GCCAGATGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.59, C:0.16, G:0.07, T:0.18
Consensus pattern (35 bp):
AAACCTCAAAATTAAAGAAAAGAAAACTATACTCG
Found at i:59111725 original size:17 final size:17
Alignment explanation
Indices: 59111703--59111735 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
59111693 CACTAACGTG
*
59111703 AAAATGTAATGACAATA
1 AAAATGCAATGACAATA
59111720 AAAATGCAATGACAAT
1 AAAATGCAATGACAAT
59111736 GTGTACTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.09, G:0.12, T:0.21
Consensus pattern (17 bp):
AAAATGCAATGACAATA
Found at i:59112213 original size:21 final size:22
Alignment explanation
Indices: 59112189--59112236 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
59112179 CATCTTTAGG
* * *
59112189 AACTTCT-TTTTCTTCAGCAGC
1 AACTTCTCTCTTCTACAGCAAC
59112210 AACTT-TCTCTTCTACAGCAAC
1 AACTTCTCTCTTCTACAGCAAC
59112231 AACTTC
1 AACTTC
59112237 CTTCTCAACA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.25, C:0.31, G:0.06, T:0.38
Consensus pattern (22 bp):
AACTTCTCTCTTCTACAGCAAC
Found at i:59117192 original size:40 final size:40
Alignment explanation
Indices: 59117148--59117335 Score: 245
Period size: 40 Copynumber: 4.7 Consensus size: 40
59117138 GCTACTTGCT
*
59117148 CAAATGCCTTCAGGACTTAGCCCGGTTATAGTAACTCACA
1 CAAATGCCTTCAGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
59117188 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGTA
1 CAAATGCCTTCAGGACTTAGCCCGGTTATAGTAACTCGCA
*
59117228 CAAATGCCTTCAAGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCAGGACTTAGCCCGGTTATAGTAACTCGCA
* * * * *
59117268 CAAATGCCTTC-GGGCTTAGCCCAG-AATTAGTCACTGGCA
1 CAAATGCCTTCAGGACTTAGCCCGGTTA-TAGTAACTCGCA
* *
59117307 CAAATGCCTTCGGGACTTAGCCTGGTTAT
1 CAAATGCCTTCAGGACTTAGCCCGGTTAT
59117336 CATCCGAATA
Statistics
Matches: 127, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
38 1 0.01
39 31 0.24
40 94 0.74
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCAGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:59117247 original size:80 final size:79
Alignment explanation
Indices: 59117115--59117335 Score: 279
Period size: 80 Copynumber: 2.8 Consensus size: 79
59117105 AAACCAAGTA
* * *
59117115 CCTTCGGAATTTAG-CCGGATATAGCTACTTGCT-CAAATGCCTTCAGGACTTAGCCCGGTTATA
1 CCTTCGGGACTTAGCCCGGATATAG-TACTCG-TACAAATGCCTTCAGGACTTAGCCCGGTTATA
59117178 GTAACTCACACAAATG
64 GTAACTCACACAAATG
*
59117194 CCTTCGGGACTTAGCCCGGATATAGTAACTCGTACAAATGCCTTCAAGACTTAGCCCGGTTATAG
1 CCTTCGGGACTTAGCCCGGATATAGT-ACTCGTACAAATGCCTTCAGGACTTAGCCCGGTTATAG
*
59117259 TAACTCGCACAAATG
65 TAACTCACACAAATG
* * * * *
59117274 CCTTCGGG-CTTAGCCCAGA-ATTAGTCACTGGCACAAATGCCTTCGGGACTTAGCCTGGTTAT
1 CCTTCGGGACTTAGCCCGGATA-TAGT-ACTCGTACAAATGCCTTCAGGACTTAGCCCGGTTAT
59117336 CATCCGAATA
Statistics
Matches: 126, Mismatches: 12, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
78 1 0.01
79 59 0.47
80 66 0.52
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGATATAGTACTCGTACAAATGCCTTCAGGACTTAGCCCGGTTATAGT
AACTCACACAAATG
Found at i:59122615 original size:13 final size:14
Alignment explanation
Indices: 59122597--59122629 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
59122587 ATGAGGGTAG
*
59122597 GATTCTGTATATCT
1 GATTCTGCATATCT
59122611 G-TTCTGCATATCT
1 GATTCTGCATATCT
59122624 GATTCT
1 GATTCT
59122630 ATTATCTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.48
Consensus pattern (14 bp):
GATTCTGCATATCT
Found at i:59131318 original size:17 final size:16
Alignment explanation
Indices: 59131284--59131318 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
59131274 ATTTTTAATT
*
59131284 TTTTTCAATTAGTTAA
1 TTTTTCAATTAATTAA
59131300 TTTTTCAATTAATTGAA
1 TTTTTCAATTAATT-AA
59131317 TT
1 TT
59131319 ATTAATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (16 bp):
TTTTTCAATTAATTAA
Found at i:59134930 original size:28 final size:28
Alignment explanation
Indices: 59134867--59135020 Score: 229
Period size: 28 Copynumber: 5.5 Consensus size: 28
59134857 ATATTAAGTC
*
59134867 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
59134894 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
59134922 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
59134950 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
59134978 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
59135007 CGCACACTTAGTGC
1 CGCACACTTAGTGC
59135021 CAATCTCATG
Statistics
Matches: 116, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.19
28 75 0.65
29 19 0.16
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:59142868 original size:28 final size:28
Alignment explanation
Indices: 59142805--59142958 Score: 229
Period size: 28 Copynumber: 5.5 Consensus size: 28
59142795 ATATTAAGTC
*
59142805 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
59142832 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
59142860 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
59142888 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
59142916 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
59142945 CGCACACTTAGTGC
1 CGCACACTTAGTGC
59142959 CAATCTCATG
Statistics
Matches: 116, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.19
28 75 0.65
29 19 0.16
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:59151449 original size:39 final size:39
Alignment explanation
Indices: 59151406--59151575 Score: 218
Period size: 39 Copynumber: 4.4 Consensus size: 39
59151396 AACTTGTTTT
* *
59151406 TGAGTATTGTGATATATGCTTGAATGTTTTGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* * *
59151445 TGAGTACTGTGATATATGCTTGAACA-G-TATGCGATTAAA
1 TGAGTATTGTGATATATGCTT-AA-ATGTTATGTGATTATA
* *
59151484 TGAGTATTGTAATATATGCTTAAATGTTATGTGGTTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
*
59151523 TGGGTATTGTGATATATGCTTAAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* *
59151562 TGTGTAATGTGATA
1 TGAGTATTGTGATA
59151576 CATAATTAAA
Statistics
Matches: 112, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
37 1 0.01
38 3 0.03
39 105 0.94
40 2 0.02
41 1 0.01
ACGTcount: A:0.29, C:0.04, G:0.23, T:0.44
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
Found at i:59151585 original size:39 final size:39
Alignment explanation
Indices: 59151503--59151585 Score: 112
Period size: 39 Copynumber: 2.1 Consensus size: 39
59151493 TAATATATGC
* * * **
59151503 TTAAATGTTATGTGGTTATATGGGTATTGTGATATATGC
1 TTAAATGTTATGTGATTATATGGGTAATGTGATACATAA
*
59151542 TTAAATGTTATGTGATTATATGTGTAATGTGATACATAA
1 TTAAATGTTATGTGATTATATGGGTAATGTGATACATAA
59151581 TTAAA
1 TTAAA
59151586 AGTGAATATG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.45
Consensus pattern (39 bp):
TTAAATGTTATGTGATTATATGGGTAATGTGATACATAA
Found at i:59151855 original size:20 final size:20
Alignment explanation
Indices: 59151830--59151867 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
59151820 GATCCAAGCA
59151830 AGATGTTAGTT-TTATTTGGT
1 AGATGTTA-TTGTTATTTGGT
59151850 AGATGTTATTGTTATTTG
1 AGATGTTATTGTTATTTG
59151868 TTTTCGTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.21, C:0.00, G:0.24, T:0.55
Consensus pattern (20 bp):
AGATGTTATTGTTATTTGGT
Found at i:59152793 original size:46 final size:46
Alignment explanation
Indices: 59152722--59152885 Score: 199
Period size: 46 Copynumber: 3.5 Consensus size: 46
59152712 TATTTGGGCA
59152722 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
** *** * *
59152768 TCTAAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATG
*
59152815 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
59152861 TCCGAACTCGTTGAGTTGAGTCCGA
1 TCCGAACTCGTTGAGTTGAGTCCGA
59152886 ATTCGAGAGA
Statistics
Matches: 95, Mismatches: 16, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 55 0.58
47 30 0.32
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:59152843 original size:47 final size:46
Alignment explanation
Indices: 59152774--59152936 Score: 197
Period size: 47 Copynumber: 3.5 Consensus size: 46
59152764 AATGTCTAAA
59152774 CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAA-TAGGCATCCGAG
*** * * *
59152821 CTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GAT-GCGAATGTCCGAA
1 CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAATAG-GCA--TCCGAG
*
59152867 CTCGTTGAGTTGAGTCCGAATTCGAGAGATGTAAGTAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAA-TAGGCATCCGAG
59152914 CTCGTTGAGTTGAGTCCGAGTTC
1 CTCGTTGAGTTGAGTCCGAGTTC
59152937 ACTTATGGGC
Statistics
Matches: 95, Mismatches: 14, Indels: 14
0.77 0.11 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 31 0.33
47 54 0.57
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.28
Consensus pattern (46 bp):
CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAATAGGCATCCGAG
Found at i:59152877 original size:93 final size:93
Alignment explanation
Indices: 59152718--59152944 Score: 409
Period size: 93 Copynumber: 2.4 Consensus size: 93
59152708 AGGATATTTG
* *
59152718 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTAAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCAAACTCGTTGAG
*
59152783 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAATTCGAGAGATGTAACTA
*
59152811 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCAAACTCGTTGAG
*
59152876 TTGAGTCCGAATTCGAGAGATGTAAGTA
66 TTGAGTCCGAATTCGAGAGATGTAACTA
59152904 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59152945 GCGGCTTACA
Statistics
Matches: 129, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 129 1.00
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.29
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCAAACTCGTTGAG
TTGAGTCCGAATTCGAGAGATGTAACTA
Found at i:59155804 original size:84 final size:84
Alignment explanation
Indices: 59155653--59155806 Score: 195
Period size: 84 Copynumber: 1.8 Consensus size: 84
59155643 ATGAGAATAC
* * * * * *
59155653 GTGTAAGACCATATCTAGGATATGGCATCAGTATGATATTACGTGTAAGACCATGTCTGGGACAT
1 GTGTAAGACCATAGCTAGGATATAGCATCAGTATGAGATTACATGTAAGACCATATCCGGGACAT
59155718 GGCATCGATTCGAAATTTT
66 GGCATCGATTCGAAATTTT
* * *
59155737 GTGTAAGACCATAGCTGGGCTATTAGCATC-GATATGAGATTACATGTAA-ACCATATCCGGGAT
1 GTGTAAGACCATAGCTAGGATA-TAGCATCAG-TATGAGATTACATGTAAGACCATATCCGGGAC
59155800 ATGGCAT
64 ATGGCAT
59155807 TGTATGACTT
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
84 38 0.64
85 21 0.36
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (84 bp):
GTGTAAGACCATAGCTAGGATATAGCATCAGTATGAGATTACATGTAAGACCATATCCGGGACAT
GGCATCGATTCGAAATTTT
Found at i:59159038 original size:20 final size:19
Alignment explanation
Indices: 59158995--59159039 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
59158985 TCTTGAATAA
*
59158995 GTGCTCCTGATAGCACTATG
1 GTGCTCCTGATAGCACT-TC
59159015 GTGCTCCTGATAGCACATTC
1 GTGCTCCTGATAGCAC-TTC
59159035 GTGCT
1 GTGCT
59159040 TTAGTTAGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 22 0.96
21 1 0.04
ACGTcount: A:0.18, C:0.27, G:0.24, T:0.31
Consensus pattern (19 bp):
GTGCTCCTGATAGCACTTC
Found at i:59159039 original size:40 final size:40
Alignment explanation
Indices: 59158995--59159117 Score: 108
Period size: 40 Copynumber: 3.1 Consensus size: 40
59158985 TCTTGAATAA
* *
59158995 GTGCTCCTGATAGCACTATGGTGCTCCTGATAGCACATTC
1 GTGCTCCTGATAGCACTACGATGCTCCTGATAGCACATTC
* * * *
59159035 GTGCT-TTAGTTAGCACTACGATGCTCTTGATAGCATATTC
1 GTGCTCCT-GATAGCACTACGATGCTCCTGATAGCACATTC
* * * * *
59159075 ATGCTCCTGTTTGCATTACGATGC-CCTGACT-GCACATTT
1 GTGCTCCTGATAGCACTACGATGCTCCTGA-TAGCACATTC
59159114 GTGC
1 GTGC
59159118 CCAGTTATGT
Statistics
Matches: 66, Mismatches: 14, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
39 14 0.21
40 51 0.77
41 1 0.02
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.34
Consensus pattern (40 bp):
GTGCTCCTGATAGCACTACGATGCTCCTGATAGCACATTC
Found at i:59159068 original size:20 final size:19
Alignment explanation
Indices: 59158995--59159069 Score: 62
Period size: 20 Copynumber: 3.8 Consensus size: 19
59158985 TCTTGAATAA
*
59158995 GTGCTCCTGATAGCACTATG
1 GTGCTCCTGATAGCACTA-C
*
59159015 GTGCTCCTGATAGCACATTC
1 GTGCTCCTGATAGCAC-TAC
* *
59159035 GTGCT-TTAGTTAGCACTAC
1 GTGCTCCT-GATAGCACTAC
*
59159054 GATGCTCTTGATAGCA
1 G-TGCTCCTGATAGCA
59159070 TATTCATGCT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
19 4 0.09
20 38 0.84
21 3 0.07
ACGTcount: A:0.21, C:0.24, G:0.23, T:0.32
Consensus pattern (19 bp):
GTGCTCCTGATAGCACTAC
Found at i:59160503 original size:27 final size:27
Alignment explanation
Indices: 59160428--59160612 Score: 244
Period size: 27 Copynumber: 6.8 Consensus size: 27
59160418 ACATACATCA
* * * *
59160428 CATAGGGGTAAAACAGTCATCTTACCA
1 CATAAGGGCAAAACAGTCATTTTACCC
* * * * *
59160455 TAAAAGGGAAAAAACAATCATTTTACCT
1 CATAAGGG-CAAAACAGTCATTTTACCC
*
59160483 CATAAGGGCAAAATAGTCATTTTACCC
1 CATAAGGGCAAAACAGTCATTTTACCC
59160510 CATAAGGGCAAAACAGTCATTTTACCC
1 CATAAGGGCAAAACAGTCATTTTACCC
59160537 CATAAGGGCAAAACAGTCATTTTACCC
1 CATAAGGGCAAAACAGTCATTTTACCC
* *
59160564 CACAAGGGCAAAACAATCATTTTACCC
1 CATAAGGGCAAAACAGTCATTTTACCC
*
59160591 CATAAAGGCAAAACAGTCATTT
1 CATAAGGGCAAAACAGTCATTT
59160613 ATCAATTTTG
Statistics
Matches: 138, Mismatches: 19, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
27 117 0.85
28 21 0.15
ACGTcount: A:0.41, C:0.23, G:0.14, T:0.23
Consensus pattern (27 bp):
CATAAGGGCAAAACAGTCATTTTACCC
Found at i:59169796 original size:40 final size:40
Alignment explanation
Indices: 59169739--59169988 Score: 317
Period size: 40 Copynumber: 6.3 Consensus size: 40
59169729 TTTGAATGAG
* * *
59169739 ATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTAT
* *
59169779 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATTTT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTAT
* *
59169819 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATTTT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTAT
* *
59169859 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGA-TAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC-TAGTGATTAT
* *
59169899 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTAT
* * * * *
59169939 ACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTAT
59169979 ATCC-GGCTAA
1 ATCCGGGCTAA
59169989 ATTCCGAAGA
Statistics
Matches: 189, Mismatches: 17, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
39 8 0.04
40 177 0.94
41 4 0.02
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.29
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTAT
Found at i:59178263 original size:40 final size:40
Alignment explanation
Indices: 59178206--59178455 Score: 317
Period size: 40 Copynumber: 6.3 Consensus size: 40
59178196 TTTGAATGAG
* * *
59178206 ATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTAT
* *
59178246 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATTTT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTAT
* *
59178286 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATTTT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTAT
* *
59178326 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGA-TAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC-TAGTGATTAT
* *
59178366 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTAT
* * * * *
59178406 ACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTAT
59178446 ATCC-GGCTAA
1 ATCCGGGCTAA
59178456 ATTCCGAAGA
Statistics
Matches: 189, Mismatches: 17, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
39 8 0.04
40 177 0.94
41 4 0.02
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.29
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTAT
Found at i:59180366 original size:95 final size:96
Alignment explanation
Indices: 59180203--59180406 Score: 272
Period size: 95 Copynumber: 2.1 Consensus size: 96
59180193 AACGTCGTAG
* * *
59180203 ACAGGATGACTA-AAGGCCGTAAATATCGCAGCAACGATGCCAGTTAACAGAACGACTATAAGCC
1 ACAGGACGACTACAAGGCCGTAAATATCGCAGCAACGAGGCCAGTTAACAAAACGACTATAAGCC
*
59180267 ATAAGTATCACAGGAAGGCTAAAAGCCATAT
66 ATAAGTATCACAGAAAGGCTAAAAGCCATAT
* *
59180298 ACAGGACGACTACAA-GCCGTAAATATCGCAGCAAC-ACGGCTAGTTAATAAAAC-AGCTATAAG
1 ACAGGACGACTACAAGGCCGTAAATATCGCAGCAACGA-GGCCAGTTAACAAAACGA-CTATAAG
* *
59180360 CCATAAGTATCGCAGAAAGGCTAAAAGCCTTAT
64 CCATAAGTATCACAGAAAGGCTAAAAGCCATAT
* *
59180393 ACAAGACGGCTACA
1 ACAGGACGACTACA
59180407 GGCAGTACAC
Statistics
Matches: 96, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
94 2 0.02
95 92 0.96
96 2 0.02
ACGTcount: A:0.41, C:0.22, G:0.20, T:0.17
Consensus pattern (96 bp):
ACAGGACGACTACAAGGCCGTAAATATCGCAGCAACGAGGCCAGTTAACAAAACGACTATAAGCC
ATAAGTATCACAGAAAGGCTAAAAGCCATAT
Found at i:59180612 original size:27 final size:27
Alignment explanation
Indices: 59180552--59180613 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
59180542 GGGCATAATC
* * *
59180552 GTCATTCTACCATACAGGGGTATTATA
1 GTCATTTTACCATACAGGGGCATTACA
* *
59180579 GTCATTTTACCCTATAGGGGCATTACA
1 GTCATTTTACCATACAGGGGCATTACA
59180606 GTCATTTT
1 GTCATTTT
59180614 GCACTACAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGCATTACA
Found at i:59201131 original size:46 final size:46
Alignment explanation
Indices: 59201079--59201168 Score: 137
Period size: 46 Copynumber: 2.0 Consensus size: 46
59201069 TTACGCTGAC
*
59201079 ACATCTCGTAG-CCGATGCACGTCCCAGACATGTCTTACATTGGCTT
1 ACATCTCG-AGACCGATGCACATCCCAGACATGTCTTACATTGGCTT
* *
59201125 ACATCTCGAGACTGATGCATATCCCAGACATGTCTTACATTGGC
1 ACATCTCGAGACCGATGCACATCCCAGACATGTCTTACATTGGC
59201169 ACACAAATAA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
45 2 0.05
46 38 0.95
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (46 bp):
ACATCTCGAGACCGATGCACATCCCAGACATGTCTTACATTGGCTT
Found at i:59201607 original size:94 final size:93
Alignment explanation
Indices: 59201446--59201636 Score: 364
Period size: 94 Copynumber: 2.0 Consensus size: 93
59201436 TACAATATCA
*
59201446 TCAACCTAAACTTTAATACAATCATGGAAAGATAGATTTTCAAGTATATAACAATGGCATAAATA
1 TCAACCTAAACTTTAATACAATCATGGAAAGATAGATTTTCAAGTATACAACAATGGCATAAATA
59201511 TCATGCTCATTTAATCACACGGACTTACC
66 TCATGCT-ATTTAATCACACGGACTTACC
59201540 TCAACCTAAACTTTAATACAATCATGGAAAGATAGATTTTCAAGTATACAACAATGGCATAAATA
1 TCAACCTAAACTTTAATACAATCATGGAAAGATAGATTTTCAAGTATACAACAATGGCATAAATA
59201605 TCATGCTATTTAATCACACGGACTTACC
66 TCATGCTATTTAATCACACGGACTTACC
59201633 TCAA
1 TCAA
59201637 ATGCAATTTC
Statistics
Matches: 96, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
93 25 0.26
94 71 0.74
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.29
Consensus pattern (93 bp):
TCAACCTAAACTTTAATACAATCATGGAAAGATAGATTTTCAAGTATACAACAATGGCATAAATA
TCATGCTATTTAATCACACGGACTTACC
Found at i:59205879 original size:20 final size:21
Alignment explanation
Indices: 59205846--59205887 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
59205836 AGAAGGAAAG
*
59205846 AAGAAAGGTAAAAGGATTAGAA
1 AAGAAAGG-AAAAGGACTAGAA
59205868 AAGAAAGG-AAAGGACTAGAA
1 AAGAAAGGAAAAGGACTAGAA
59205888 GATAAGAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 11 0.58
22 8 0.42
ACGTcount: A:0.60, C:0.02, G:0.29, T:0.10
Consensus pattern (21 bp):
AAGAAAGGAAAAGGACTAGAA
Found at i:59211232 original size:20 final size:20
Alignment explanation
Indices: 59211168--59211234 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
59211158 ATTTTGATAA
*
59211168 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
* **
59211188 ACATAACGTGTATGATATGC
1 ACATGATATGTATGATATGC
59211208 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
59211228 ACATGAT
1 ACATGAT
59211235 GTATTCATAA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:59211315 original size:25 final size:25
Alignment explanation
Indices: 59211285--59211464 Score: 258
Period size: 25 Copynumber: 7.2 Consensus size: 25
59211275 AGGAAGTGTA
59211285 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
* *
59211310 ATAGGGCTTATGCCCTAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
59211335 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
59211360 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
*
59211385 AAAGGGCTTATGCCCCAGTTATTA-
1 AAAGGGCTTATGCCCCAGTTATGAT
*
59211409 AAAGGGCTTATGCCCCAGTTATTA-
1 AAAGGGCTTATGCCCCAGTTATGAT
*
59211433 AAAGAGGC-TAGGCCTCCAGTTATATGAT
1 AAAG-GGCTTATGCC-CCAG-T-TATGAT
59211461 AAAG
1 AAAG
59211465 CAGCTATGTT
Statistics
Matches: 143, Mismatches: 7, Indels: 7
0.91 0.04 0.04
Matches are distributed among these distances:
24 33 0.23
25 101 0.71
26 1 0.01
27 4 0.03
28 4 0.03
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.28
Consensus pattern (25 bp):
AAAGGGCTTATGCCCCAGTTATGAT
Found at i:59211686 original size:31 final size:32
Alignment explanation
Indices: 59211648--59211712 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 32
59211638 CCGTTTAAGT
*
59211648 AAAGGCTT-TGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGGCCCAGTAATATGAAATATGA
**
59211679 AAAGGCTTCGGGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTC-GGGCCCAGTAATATGAAATATGA
59211712 A
1 A
59211713 GTGTGAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 8 0.28
33 21 0.72
ACGTcount: A:0.35, C:0.14, G:0.26, T:0.25
Consensus pattern (32 bp):
AAAGGCTTCGGGCCCAGTAATATGAAATATGA
Found at i:59213181 original size:49 final size:47
Alignment explanation
Indices: 59213077--59213247 Score: 152
Period size: 49 Copynumber: 3.6 Consensus size: 47
59213067 TAATGTCGAT
* * * *
59213077 GCCATGTCCCAGA-ATGGTCTTACACTGGCTCATCCATCAAGTCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGACTCATCAATCAAGCCGAC
* *
59213123 GCCATGTCCCAGACATGGTCTTACGCTGACT-ATCGAAATCGAGGCCGAC
1 GCCATGTCCCAGACATGGTCTTACACTGACTCATC--AATC-AAGCCGAC
* ** *
59213172 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCA-CATATCCGTGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACT-G-ACTCATCA-AT-CAAGCCGAC
*
59213222 GCCATGTCCTAGACAT-GTCTTACACT
1 GCCATGTCCCAGACATGGTCTTACACT
59213248 AGCTTACATC
Statistics
Matches: 104, Mismatches: 12, Indels: 15
0.79 0.09 0.11
Matches are distributed among these distances:
46 16 0.15
47 15 0.14
48 3 0.03
49 42 0.40
50 23 0.22
51 4 0.04
52 1 0.01
ACGTcount: A:0.23, C:0.32, G:0.20, T:0.25
Consensus pattern (47 bp):
GCCATGTCCCAGACATGGTCTTACACTGACTCATCAATCAAGCCGAC
Found at i:59213285 original size:46 final size:49
Alignment explanation
Indices: 59213119--59213293 Score: 161
Period size: 49 Copynumber: 3.6 Consensus size: 49
59213109 TCCATCAAGT
* *
59213119 CGATGCCATGTCCCAGACATGGTCTTACGCT-GACTATCGA-A-AT-CGAGGC
1 CGATGCCATGT-CCAGACAT-GTCTTACACTAG-CTCTC-ACATATCCGAGGC
* *
59213168 CGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCG-TGC
1 CGATGCCATGT-CCAGACAT-GTCTTACACTAGCTCTCACATATCCGAGGC
* *
59213218 CGATGCCATGTCCTAGACATGTCTTACACTAGCT-T-ACATCT-TGAGGC
1 CGATGCCATGTCC-AGACATGTCTTACACTAGCTCTCACATATCCGAGGC
59213265 CGATG-CATGTCTCAGACATGTCTTACACT
1 CGATGCCATGTC-CAGACATGTCTTACACT
59213294 GGCACCCAAA
Statistics
Matches: 111, Mismatches: 8, Indels: 17
0.82 0.06 0.12
Matches are distributed among these distances:
46 23 0.21
47 13 0.12
48 2 0.02
49 50 0.45
50 21 0.19
51 2 0.02
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.26
Consensus pattern (49 bp):
CGATGCCATGTCCAGACATGTCTTACACTAGCTCTCACATATCCGAGGC
Found at i:59218017 original size:24 final size:24
Alignment explanation
Indices: 59217989--59218042 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
59217979 TCTTTCTAAA
*
59217989 ATATTTAGTATTTATTAGTATAAT
1 ATATTTAGTATTTATTAGCATAAT
59218013 ATATTTAGTATTTATTAGCATAAT
1 ATATTTAGTATTTATTAGCATAAT
*
59218037 TTATTT
1 ATATTT
59218043 GACCTACAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.56
Consensus pattern (24 bp):
ATATTTAGTATTTATTAGCATAAT
Found at i:59222960 original size:24 final size:24
Alignment explanation
Indices: 59222933--59222978 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
59222923 GGTCAAATAA
* *
59222933 ATTATGCTAATAAATACTAAATGT
1 ATTATACTAATAAATACCAAATGT
59222957 ATTATACTAATAAATACCAAAT
1 ATTATACTAATAAATACCAAAT
59222979 ATTTTAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.50, C:0.11, G:0.04, T:0.35
Consensus pattern (24 bp):
ATTATACTAATAAATACCAAATGT
Found at i:59225519 original size:2 final size:2
Alignment explanation
Indices: 59225512--59225558 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
59225502 TCTTGTAAGA
*
59225512 AG AG AG AG AG AG AC AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
59225554 AG AG A
1 AG AG A
59225559 AAGCATATTC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.02, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:59243488 original size:174 final size:174
Alignment explanation
Indices: 59243177--59243520 Score: 564
Period size: 174 Copynumber: 2.0 Consensus size: 174
59243167 AAGGGTAATG
* * *
59243177 AGGTGGTTGTGATTGGGAAGCATTAGAATTATCTGTCAAATGTGATTTCTACACTTAGAGCTGAG
1 AGGTGGTTGTGATTGGGAAGCATCAAAATTATCTATCAAATGTGATTTCTACACTTAGAGCTGAG
*
59243242 AACTTGGTTCGTAAGGGTTGTGAGGCGTATCTAGCCTACATCAGTGCTTCGAGTTCTGACGTTCT
66 AACTTGGTTCGTAAGGGTTGTGAGGCGTATCTAGCCTACATCAGTGCTTCGAGTTCTGACGTTCC
*
59243307 GTTTGTTAAAGATATCAGAACAGTTAAAGACTTTCTAGACGTTT
131 ATTTGTTAAAGATATCAGAACAGTTAAAGACTTTCTAGACGTTT
* * *
59243351 AGGTGGTTGTGATTGGGGAGCATCAAAATTATCTATCAAATGTGATTTTTGCACTTAGAGCTGAG
1 AGGTGGTTGTGATTGGGAAGCATCAAAATTATCTATCAAATGTGATTTCTACACTTAGAGCTGAG
* * * *
59243416 AAGTTGGTTCGTAAGGGTTGTGAGGCGTATCTAGCCTATATCAGTGCTTCGGGTT-TAGAGGTTC
66 AACTTGGTTCGTAAGGGTTGTGAGGCGTATCTAGCCTACATCAGTGCTTCGAGTTCT-GACGTTC
59243480 CATTTGTTAAAGATATCAGAACAGTTAAAGACTTTCTAGAC
130 CATTTGTTAAAGATATCAGAACAGTTAAAGACTTTCTAGAC
59243521 ATTTTTCCCG
Statistics
Matches: 157, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
173 1 0.01
174 156 0.99
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.34
Consensus pattern (174 bp):
AGGTGGTTGTGATTGGGAAGCATCAAAATTATCTATCAAATGTGATTTCTACACTTAGAGCTGAG
AACTTGGTTCGTAAGGGTTGTGAGGCGTATCTAGCCTACATCAGTGCTTCGAGTTCTGACGTTCC
ATTTGTTAAAGATATCAGAACAGTTAAAGACTTTCTAGACGTTT
Found at i:59249874 original size:22 final size:22
Alignment explanation
Indices: 59249846--59249891 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
59249836 ACCAGTAAAA
*
59249846 GAAAGAGTTTGATTGAGCTTTC
1 GAAAGAGTTAGATTGAGCTTTC
59249868 GAAAGAGTTAGATTGAGCTTTC
1 GAAAGAGTTAGATTGAGCTTTC
59249890 GA
1 GA
59249892 CTTCTCAATA
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:0.30, C:0.09, G:0.28, T:0.33
Consensus pattern (22 bp):
GAAAGAGTTAGATTGAGCTTTC
Found at i:59261868 original size:48 final size:46
Alignment explanation
Indices: 59261634--59261894 Score: 232
Period size: 46 Copynumber: 5.7 Consensus size: 46
59261624 ATGTACCCTT
* * *
59261634 GCCGATGAATGTCCCAGACATGTCTTACACTAGCATATC-TCA--TA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC-TATCATAATGTG
* * ** * * * **
59261678 ACTGATGCATGTCCCAGACATGTCTGGCACTTGTTAACATCTTGAT-
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTATCATAATG-TG
* * *
59261724 GCCAATGCATGTCCCAGACATGTCTTACACTAGCTTTTATAATGTG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTATCATAATGTG
*
59261770 GCTGATGCATGTCCCAGACATGTCTTACACTAGCCCTCATC-TCAA--T-
1 GCCGATGCATGTCCCAGACATGTCTTACACTAG--CT-ATCAT-AATGTG
*
59261816 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTATCATAATGTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTATCATAATGTG
*
59261864 GCCGATGCATGTCCCGGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
59261895 GGCACACAAA
Statistics
Matches: 173, Mismatches: 29, Indels: 28
0.75 0.13 0.12
Matches are distributed among these distances:
43 3 0.02
44 29 0.17
45 6 0.03
46 82 0.47
47 28 0.16
48 22 0.13
49 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTATCATAATGTG
Found at i:59261876 original size:94 final size:92
Alignment explanation
Indices: 59261633--59261894 Score: 278
Period size: 94 Copynumber: 2.8 Consensus size: 92
59261623 CATGTACCCT
* * * * ** *
59261633 TGCCGATGAATGTCCCAGACATGTCTTACACTAGCATATC-TCA--TAACTGATGCATGTCCCAG
1 TGCCAATGCATGTCCCAAACATGTCTTACACTAGC-TATCATAATGTGGCCGATGCATGTCCCAG
** * ** **
59261695 ACATGTCTGGCACTTGTTAACATCTTGA
65 ACATGTCTTACACTAGCCAACATCTCAA
* * * *
59261723 TGCCAATGCATGTCCCAGACATGTCTTACACTAGCTTTTATAATGTGGCTGATGCATGTCCCAGA
1 TGCCAATGCATGTCCCAAACATGTCTTACACTAGCTATCATAATGTGGCCGATGCATGTCCCAGA
**
59261788 CATGTCTTACACTAGCCCTCATCTCAA
66 CATGTCTTACACTAGCCAACATCTCAA
* *
59261815 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTATCATAATGTGGCCGATGCATGTCCCG
1 TGCCAATG-CATGTCCCAAACAT-GTCTTACACTAGCTATCATAATGTGGCCGATGCATGTCCCA
59261880 GACATGTCTTACACT
64 GACATGTCTTACACT
59261895 GGCACACAAA
Statistics
Matches: 145, Mismatches: 22, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
89 2 0.01
90 35 0.24
92 43 0.30
93 13 0.09
94 52 0.36
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.29
Consensus pattern (92 bp):
TGCCAATGCATGTCCCAAACATGTCTTACACTAGCTATCATAATGTGGCCGATGCATGTCCCAGA
CATGTCTTACACTAGCCAACATCTCAA
Found at i:59261894 original size:140 final size:136
Alignment explanation
Indices: 59261637--59261894 Score: 322
Period size: 140 Copynumber: 1.9 Consensus size: 136
59261627 TACCCTTGCC
* *
59261637 GATGAATGTCCCAGACATGTCTTACACTAGCATATCTCATAACTGATGCATGTCCCAGACATGTC
1 GATGAATGTCCCAGACATGTCTTACACTAGCATATCTCATAACCGATGCATGTCCCAAACATGTC
* * * **
59261702 TGGCACTTGTTAACATCTTGATGCCAATGCATGTCCCAGACATGTCTTACACTAGCTTTTATAAT
66 TGACACTAGCTAACATAATGATGCCAATGCATGTCCCAGACATGTCTTACACTAGCTTTTATAAT
59261767 GTGGCT
131 GTGGCT
* * *
59261773 GATGCATGTCCCAGACATGTCTTACACTAGCCCTCATCTCA-ATGCCGATGCCATGTCCCAAACA
1 GATGAATGTCCCAGACATGTCTTACACTAG-CAT-ATCTCATA-ACCGATG-CATGTCCCAAACA
* * * *
59261837 TGGTCTTACACTAGCTATCATAATG-TGGCCGATGCATGTCCCGGACATGTCTTACACT
62 T-GTCTGACACTAGCTAACATAATGAT-GCCAATGCATGTCCCAGACATGTCTTACACT
59261895 GGCACACAAA
Statistics
Matches: 102, Mismatches: 14, Indels: 8
0.82 0.11 0.06
Matches are distributed among these distances:
136 29 0.28
137 3 0.03
138 11 0.11
139 14 0.14
140 45 0.44
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (136 bp):
GATGAATGTCCCAGACATGTCTTACACTAGCATATCTCATAACCGATGCATGTCCCAAACATGTC
TGACACTAGCTAACATAATGATGCCAATGCATGTCCCAGACATGTCTTACACTAGCTTTTATAAT
GTGGCT
Found at i:59270075 original size:7 final size:7
Alignment explanation
Indices: 59270063--59270104 Score: 57
Period size: 7 Copynumber: 5.6 Consensus size: 7
59270053 AACCCTAGAG
59270063 AACTTCT
1 AACTTCT
59270070 AACTTCAGAT
1 AACTTC---T
59270080 AACTTCT
1 AACTTCT
59270087 AACTTCT
1 AACTTCT
59270094 AACTTCT
1 AACTTCT
59270101 AACT
1 AACT
59270105 GCTGAAATCT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
7 25 0.78
10 7 0.22
ACGTcount: A:0.33, C:0.26, G:0.02, T:0.38
Consensus pattern (7 bp):
AACTTCT
Found at i:59270083 original size:17 final size:14
Alignment explanation
Indices: 59270063--59270104 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 14
59270053 AACCCTAGAG
59270063 AACTTCTAACTTCAGAT
1 AACTTCTAACTTC---T
59270080 AACTTCTAACTTCT
1 AACTTCTAACTTCT
59270094 AACTTCTAACT
1 AACTTCTAACT
59270105 GCTGAAATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 12 0.48
17 13 0.52
ACGTcount: A:0.33, C:0.26, G:0.02, T:0.38
Consensus pattern (14 bp):
AACTTCTAACTTCT
Found at i:59276909 original size:22 final size:22
Alignment explanation
Indices: 59276883--59276924 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
59276873 ATTGAGATTG
59276883 GTTACATGCCATTTGATGTTAT
1 GTTACATGCCATTTGATGTTAT
59276905 GTTACATGCCATTTGATGTT
1 GTTACATGCCATTTGATGTT
59276925 TTTAGGTGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.21, C:0.14, G:0.19, T:0.45
Consensus pattern (22 bp):
GTTACATGCCATTTGATGTTAT
Found at i:59297955 original size:49 final size:49
Alignment explanation
Indices: 59297883--59298128 Score: 312
Period size: 49 Copynumber: 5.0 Consensus size: 49
59297873 GTAGACAAGG
* * *
59297883 TTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAA
1 TTATCAGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAA
* *
59297932 TTATCAGGTACACGTAGTAGCCTGCACTTATTACTACACACGTGACCCAA
1 TTATCAGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA
** * * * * * *
59297982 CCATCTGATACACGTAATAGCCTGCCCTTAGTACTACACACGTGATCGAA
1 TTATCAGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA
* * *
59298032 GTTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 -TTATCAGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAA
*
59298082 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACC
1 TTATCAGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACC
59298129 TCACAATAGA
Statistics
Matches: 166, Mismatches: 29, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
49 83 0.50
50 48 0.29
51 35 0.21
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TTATCAGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAA
Found at i:59298062 original size:101 final size:98
Alignment explanation
Indices: 59297900--59298128 Score: 314
Period size: 100 Copynumber: 2.3 Consensus size: 98
59297890 GTACGCATAG
* *
59297900 TAGCCTGCACTTAGTACTACACATGTGACCAATTATCAGGTACACGTAGTAGCCTGCACTTATTA
1 TAGCCTGCACTTAGTACTACACATGTGACCAATTATCAGGTACACATAGTAGCCTGCACTTAGTA
* *
59297965 CTACACACGTGACCCAACCATCTGATACACGTAA
66 CTACACACGCGA-CCAACCATCCGATACACGTAA
* * * *
59297999 TAGCCTGCCCTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCATAGTAGCCTGCACTTAG
1 TAGCCTGCACTTAGTACTACACATGTGA-CCAA-TTATCAGGTACACATAGTAGCCTGCACTTAG
* ** * *
59298064 TACTACACATGCGACCAATTATCCGGTACACGTAG
64 TACTACACACGCGACCAACCATCCGATACACGTAA
59298099 TAGCCTGCACTTAGTACTACACATGTGACC
1 TAGCCTGCACTTAGTACTACACATGTGACC
59298129 TCACAATAGA
Statistics
Matches: 112, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
99 27 0.24
100 45 0.40
101 40 0.36
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.25
Consensus pattern (98 bp):
TAGCCTGCACTTAGTACTACACATGTGACCAATTATCAGGTACACATAGTAGCCTGCACTTAGTA
CTACACACGCGACCAACCATCCGATACACGTAA
Found at i:59298405 original size:27 final size:27
Alignment explanation
Indices: 59298375--59298428 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
59298365 TCATACAACC
* *
59298375 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
59298402 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
59298429 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:59302638 original size:7 final size:7
Alignment explanation
Indices: 59302626--59302675 Score: 75
Period size: 7 Copynumber: 7.1 Consensus size: 7
59302616 ACAGAAAATG
59302626 AAACCCT
1 AAACCCT
59302633 AAACCCT
1 AAACCCT
59302640 AAACCCT
1 AAACCCT
59302647 AAACCCT
1 AAACCCT
*
59302654 AAACCCAA
1 AAACCC-T
59302662 AAACCCT
1 AAACCCT
59302669 -AACCCT
1 AAACCCT
59302675 A
1 A
59302676 GTCGCTGCAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
6 6 0.15
7 27 0.69
8 6 0.15
ACGTcount: A:0.46, C:0.42, G:0.00, T:0.12
Consensus pattern (7 bp):
AAACCCT
Found at i:59309124 original size:47 final size:47
Alignment explanation
Indices: 59309070--59309527 Score: 691
Period size: 47 Copynumber: 9.6 Consensus size: 47
59309060 TATTTGAATA
*
59309070 AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
59309117 AATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGACGTGATG
1 AATGTGAAAGTG----TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
59309168 AATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCTATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
59309215 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
59309262 AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
59309309 GATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCTGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
59309356 AATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG----TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
59309407 AATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
59309454 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
59309501 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
59309528 TCCCGAAGGG
Statistics
Matches: 378, Mismatches: 25, Indels: 16
0.90 0.06 0.04
Matches are distributed among these distances:
47 288 0.76
51 90 0.24
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:59309397 original size:192 final size:188
Alignment explanation
Indices: 59309070--59309527 Score: 709
Period size: 192 Copynumber: 2.4 Consensus size: 188
59309060 TATTTGAATA
*
59309070 AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATGGATGTGAAAGTG----TA
*
59309135 TATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTGTATATATGTGATAAGGCCTA
62 TATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
*
59309200 ATGGCCTATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
127 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
59309262 AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATGGATGTGAAAGCGTATATA
1 AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATGGATGTGAAAGTGTATATA
* *
59309327 TGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATATATATGTGATAAGGCCTA
66 TGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTG----TATATATGTGATAAGGCCTA
*
59309392 ATGGCCGATGTGATGAATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
127 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * * * *
59309454 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAA
1 AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATGGATGTGAAAGTGTATATA
59309519 TGTGATAAG
66 TGTGATAAG
59309528 TCCCGAAGGG
Statistics
Matches: 246, Mismatches: 16, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
188 44 0.18
192 202 0.82
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (188 bp):
AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATGGATGTGAAAGTGTATATA
TGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:59309508 original size:239 final size:239
Alignment explanation
Indices: 59309071--59309527 Score: 806
Period size: 239 Copynumber: 1.9 Consensus size: 239
59309061 ATTTGAATAA
59309071 ATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
59309136 ATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTGTATATATGTGATAAGGCCTAA
66 ATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTGTATATATGTGATAAGGCCTAA
* * * * *
59309201 TGGCCTATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
131 TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATGAATG
*
59309266 TGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATGG
196 TGAAAGCGTATAAATGTGATAAGGCCTAATGGCCGATGTGATGG
*
59309310 ATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
59309375 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAGAGTGTATATATGTGATAAGGCCTAA
66 ATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTGTATATATGTGATAAGGCCTAA
* * *
59309440 TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATG
131 TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATGAATG
*
59309505 TGAAAGTGTATAAATGTGATAAG
196 TGAAAGCGTATAAATGTGATAAG
59309528 TCCCGAAGGG
Statistics
Matches: 206, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
239 206 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (239 bp):
ATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
ATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTGTATATATGTGATAAGGCCTAA
TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATGAATG
TGAAAGCGTATAAATGTGATAAGGCCTAATGGCCGATGTGATGG
Found at i:59309702 original size:37 final size:37
Alignment explanation
Indices: 59309646--59309724 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
59309636 CCGAGCTCTA
* *
59309646 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
59309683 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
59309720 AAGAC
1 AAGAC
59309725 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:59315509 original size:14 final size:15
Alignment explanation
Indices: 59315481--59315510 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
59315471 CAAAAATTTA
59315481 GAGGCTTTCTAAGTT
1 GAGGCTTTCTAAGTT
59315496 GAGGCTTT-TAAGTT
1 GAGGCTTTCTAAGTT
59315510 G
1 G
59315511 CAAATAGCCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.20, C:0.10, G:0.30, T:0.40
Consensus pattern (15 bp):
GAGGCTTTCTAAGTT
Found at i:59322984 original size:27 final size:27
Alignment explanation
Indices: 59322946--59323072 Score: 191
Period size: 27 Copynumber: 4.7 Consensus size: 27
59322936 TACCCCAAAA
*
59322946 GGTATCTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
59322973 GGTATTTCGGTATTTCTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
59323000 GGTATTTCAGTAATTCTATCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
59323027 GGTATTTTGGTAATTCTACCTTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
59323054 GGTATTTCGGTAATTCTAC
1 GGTATTTCGGTAATTCTAC
59323073 AACTTATCCA
Statistics
Matches: 88, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 88 1.00
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (27 bp):
GGTATTTCGGTAATTCTACCCTACAGG
Found at i:59323013 original size:54 final size:54
Alignment explanation
Indices: 59322928--59323072 Score: 193
Period size: 54 Copynumber: 2.7 Consensus size: 54
59322918 GGGGCAAAAT
* * * *
59322928 GGTAATTTTACCCCA-AAAGGTATCTCGGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * * *
59322981 GGTATTTCTACCCTACAAGGGTATTTCAGTAATTCTATCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* *
59323035 GGTAATTCTACCTTACAGGGGTATTTCGGTAATTCTAC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTAC
59323073 AACTTATCCA
Statistics
Matches: 78, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
53 12 0.15
54 66 0.85
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
Found at i:59332395 original size:27 final size:27
Alignment explanation
Indices: 59332251--59332396 Score: 184
Period size: 27 Copynumber: 5.4 Consensus size: 27
59332241 AGGGCAAAAT
* * *
59332251 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
59332278 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
59332305 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
59332332 GGTAATTCTATCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
59332359 AGTAAATCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
59332386 GGTAATTCTAC
1 GGTAATTCTAC
59332397 AACGTATCCA
Statistics
Matches: 99, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 99 1.00
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:59344379 original size:28 final size:28
Alignment explanation
Indices: 59344339--59344427 Score: 115
Period size: 28 Copynumber: 3.1 Consensus size: 28
59344329 ACTACATAAC
59344339 TATGAATGTGATTGGGCCTAATGGGCCA
1 TATGAATGTGATTGGGCCTAATGGGCCA
* *
59344367 TATGAATGTGATTTGGGCCCAAAGGGCCA
1 TATGAATGTGA-TTGGGCCTAATGGGCCA
* * * *
59344396 TATGAAAGAGATTGGGCCTAGTGAGCCA
1 TATGAATGTGATTGGGCCTAATGGGCCA
59344424 TATG
1 TATG
59344428 CATATATGTA
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
28 28 0.54
29 24 0.46
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTAATGGGCCA
Found at i:59344393 original size:29 final size:28
Alignment explanation
Indices: 59344339--59344413 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 28
59344329 ACTACATAAC
* *
59344339 TATGAATGTGATTGGGCCTAATGGGCCA
1 TATGAATGTGATTGGGCCCAAAGGGCCA
59344367 TATGAATGTGATTTGGGCCCAAAGGGCCA
1 TATGAATGTGA-TTGGGCCCAAAGGGCCA
* *
59344396 TATGAAAGAGATTGGGCC
1 TATGAATGTGATTGGGCC
59344414 TAGTGAGCCA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
28 18 0.43
29 24 0.57
ACGTcount: A:0.28, C:0.15, G:0.32, T:0.25
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCCAAAGGGCCA
Found at i:59347934 original size:29 final size:29
Alignment explanation
Indices: 59347899--59347972 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
59347889 GTTGTGAGAT
* *
59347899 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
59347928 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
59347957 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
59347973 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:59352096 original size:16 final size:16
Alignment explanation
Indices: 59352075--59352105 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
59352065 GGCAAATCCC
59352075 AAAATGCCGAAAAGCT
1 AAAATGCCGAAAAGCT
*
59352091 AAAATGCTGAAAAGC
1 AAAATGCCGAAAAGC
59352106 AGAAAGTTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.16, G:0.19, T:0.13
Consensus pattern (16 bp):
AAAATGCCGAAAAGCT
Found at i:59352363 original size:28 final size:28
Alignment explanation
Indices: 59352323--59352411 Score: 106
Period size: 28 Copynumber: 3.1 Consensus size: 28
59352313 ATTGCATGAC
*
59352323 TATGAATGTGATTGGGCCTAATGGGCCA
1 TATGAATGAGATTGGGCCTAATGGGCCA
* *
59352351 TATGAATGGGATTTGGGCCTAAAGGGCCA
1 TATGAATGAGA-TTGGGCCTAATGGGCCA
** * *
59352380 TATGAAAAAGATTGGGCCTAGTGGGCTA
1 TATGAATGAGATTGGGCCTAATGGGCCA
59352408 TATG
1 TATG
59352412 CATGTATGTA
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
28 28 0.54
29 24 0.46
ACGTcount: A:0.28, C:0.12, G:0.33, T:0.27
Consensus pattern (28 bp):
TATGAATGAGATTGGGCCTAATGGGCCA
Found at i:59352377 original size:29 final size:28
Alignment explanation
Indices: 59352323--59352399 Score: 100
Period size: 29 Copynumber: 2.7 Consensus size: 28
59352313 ATTGCATGAC
* *
59352323 TATGAATGTGATTGGGCCTAATGGGCCA
1 TATGAATGGGATTGGGCCTAAAGGGCCA
59352351 TATGAATGGGATTTGGGCCTAAAGGGCCA
1 TATGAATGGGA-TTGGGCCTAAAGGGCCA
***
59352380 TATGAAAAAGATTGGGCCTA
1 TATGAATGGGATTGGGCCTA
59352400 GTGGGCTATA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
28 19 0.44
29 24 0.56
ACGTcount: A:0.30, C:0.13, G:0.31, T:0.26
Consensus pattern (28 bp):
TATGAATGGGATTGGGCCTAAAGGGCCA
Found at i:59366363 original size:18 final size:18
Alignment explanation
Indices: 59366340--59366409 Score: 88
Period size: 18 Copynumber: 3.9 Consensus size: 18
59366330 CATGGCCCAT
*
59366340 TGCAGTAACAGTAAATAG
1 TGCAGTAACAGTAAACAG
59366358 TGCAGTAACAGT-AACAG
1 TGCAGTAACAGTAAACAG
** *
59366375 TATAGTAACAGTAAACAA
1 TGCAGTAACAGTAAACAG
*
59366393 TGCAGTAATAGTAAACA
1 TGCAGTAACAGTAAACA
59366410 ATATGCAAGT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
17 14 0.32
18 30 0.68
ACGTcount: A:0.47, C:0.13, G:0.19, T:0.21
Consensus pattern (18 bp):
TGCAGTAACAGTAAACAG
Found at i:59366391 original size:24 final size:23
Alignment explanation
Indices: 59366342--59366405 Score: 60
Period size: 24 Copynumber: 2.7 Consensus size: 23
59366332 TGGCCCATTG
*
59366342 CAGTAACAGTAAATAGTGCAGTAA
1 CAGTAACAGT-AATAGTACAGTAA
59366366 CAGTAACAGT-ATAGTAACAGTAAA
1 CAGTAACAGTAATAGT-ACAGT-AA
* *
59366390 CAAT-GCAGTAATAGTA
1 CAGTAACAGTAATAGTA
59366406 AACAATATGC
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
22 5 0.15
23 9 0.26
24 20 0.59
ACGTcount: A:0.47, C:0.12, G:0.19, T:0.22
Consensus pattern (23 bp):
CAGTAACAGTAATAGTACAGTAA
Found at i:59366770 original size:26 final size:27
Alignment explanation
Indices: 59366724--59366829 Score: 151
Period size: 27 Copynumber: 4.0 Consensus size: 27
59366714 ACATACATCA
* * *
59366724 CATAGGGGTAAAACAGTCATTTTACCT
1 CATAAGGGAAAAACAATCATTTTACCT
* *
59366751 CATAAGGG-TAAACAGTCATTTTACCT
1 CATAAGGGAAAAACAATCATTTTACCT
*
59366777 CATAAGGGAAAAACAATTATTTTACCT
1 CATAAGGGAAAAACAATCATTTTACCT
59366804 CATAAGGGAAAAACAATCATTTTACC
1 CATAAGGGAAAAACAATCATTTTACC
59366830 CCACAAACAT
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
26 25 0.35
27 47 0.65
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (27 bp):
CATAAGGGAAAAACAATCATTTTACCT
Found at i:59366799 original size:53 final size:54
Alignment explanation
Indices: 59366724--59366829 Score: 151
Period size: 53 Copynumber: 2.0 Consensus size: 54
59366714 ACATACATCA
* * * * *
59366724 CATAGGGGTAAAACAGTCATTTTACCTCATAAGGG-TAAACAGTCATTTTACCT
1 CATAAGGGAAAAACAATCATTTTACCTCATAAGGGAAAAACAATCATTTTACCT
*
59366777 CATAAGGGAAAAACAATTATTTTACCTCATAAGGGAAAAACAATCATTTTACC
1 CATAAGGGAAAAACAATCATTTTACCTCATAAGGGAAAAACAATCATTTTACC
59366830 CCACAAACAT
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
53 31 0.67
54 15 0.33
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (54 bp):
CATAAGGGAAAAACAATCATTTTACCTCATAAGGGAAAAACAATCATTTTACCT
Found at i:59366868 original size:97 final size:96
Alignment explanation
Indices: 59366741--59366922 Score: 249
Period size: 97 Copynumber: 1.9 Consensus size: 96
59366731 GTAAAACAGT
* **
59366741 CATTTTACCTCATAAGGGTAAACAGTCATTTTAC-CTCATAAGGGAAAAACAATTATTTTACCTC
1 CATTTTACCTCATAAGGGAAAACAGTCATTTTACTC-CATAAGGGAAAAACAACCATTTTACCTC
59366805 ATAAGGGAAAAACAATCATTTTACCCCACAAA
65 ATAAGGGAAAAACAATCATTTTACCCCACAAA
* * * *
59366837 CATTTTACCTTATAAGGGCAAAACAGTCATTTTACTCCATAAGGGCAAAATAGCCATTTTACCTC
1 CATTTTACCTCATAAGGG-AAAACAGTCATTTTACTCCATAAGGGAAAAACAACCATTTTACCTC
* * *
59366902 ATAAGGGCAAAATAGTCATTT
65 ATAAGGGAAAAACAATCATTT
59366923 ACTAATTTTG
Statistics
Matches: 74, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
96 17 0.23
97 56 0.76
98 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.29
Consensus pattern (96 bp):
CATTTTACCTCATAAGGGAAAACAGTCATTTTACTCCATAAGGGAAAAACAACCATTTTACCTCA
TAAGGGAAAAACAATCATTTTACCCCACAAA
Found at i:59366878 original size:27 final size:27
Alignment explanation
Indices: 59366837--59366922 Score: 129
Period size: 27 Copynumber: 3.2 Consensus size: 27
59366827 ACCCCACAAA
* *
59366837 CATTTTACCTTATAAGGGCAAAACAGT
1 CATTTTACCTCATAAGGGCAAAATAGT
*
59366864 CATTTTA-CTCCATAAGGGCAAAATAGC
1 CATTTTACCT-CATAAGGGCAAAATAGT
59366891 CATTTTACCTCATAAGGGCAAAATAGT
1 CATTTTACCTCATAAGGGCAAAATAGT
59366918 CATTT
1 CATTT
59366923 ACTAATTTTG
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
26 2 0.04
27 49 0.92
28 2 0.04
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.30
Consensus pattern (27 bp):
CATTTTACCTCATAAGGGCAAAATAGT
Found at i:59366895 original size:70 final size:70
Alignment explanation
Indices: 59366767--59366899 Score: 178
Period size: 70 Copynumber: 1.9 Consensus size: 70
59366757 GGTAAACAGT
* *
59366767 CATTTTACCTCATAAGGGAAAAACAATTATTTTACCTCATAAGGGAAAAACAATCATTTTACCCC
1 CATTTTACCTCATAAGGGAAAAACAATCATTTTACCTCATAAGGGAAAAACAACCATTTTACCCC
59366832 ACAAA
66 ACAAA
* * * * * *
59366837 CATTTTACCTTATAAGGGCAAAACAGTCATTTTA-CTCCATAAGGGCAAAATAGCCATTTTACC
1 CATTTTACCTCATAAGGGAAAAACAATCATTTTACCT-CATAAGGGAAAAACAACCATTTTACC
59366900 TCATAAGGGC
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
69 2 0.04
70 52 0.96
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.29
Consensus pattern (70 bp):
CATTTTACCTCATAAGGGAAAAACAATCATTTTACCTCATAAGGGAAAAACAACCATTTTACCCC
ACAAA
Found at i:59371570 original size:28 final size:27
Alignment explanation
Indices: 59371513--59371664 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
59371503 TAAATTGTGC
*
59371513 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
59371540 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
59371568 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
59371595 AGCACTAAGTGTGCGAGTTCGATTATGT
1 AGCACTAAGTGTGCGAGTT-GACTATGT
* *
59371623 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
59371650 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
59371665 GACTTAATAT
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:59371577 original size:55 final size:55
Alignment explanation
Indices: 59371513--59371664 Score: 250
Period size: 55 Copynumber: 2.8 Consensus size: 55
59371503 TAAATTGTGC
* *
59371513 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTCGACTATGT
*
59371568 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTCGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTCGACTATGT
* * *
59371623 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
59371665 GACTTAATAT
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 91 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTCGACTATGT
Found at i:59373262 original size:18 final size:18
Alignment explanation
Indices: 59373220--59373262 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
59373210 GCCCATTCCG
*
59373220 AAGTATATATATATACAT
1 AAGTATGTATATATACAT
59373238 ATA-TATGTATATATACAT
1 A-AGTATGTATATATACAT
59373256 AAGTATG
1 AAGTATG
59373263 CCCATTCGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 1 0.05
18 20 0.91
19 1 0.05
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.40
Consensus pattern (18 bp):
AAGTATGTATATATACAT
Found at i:59373868 original size:27 final size:28
Alignment explanation
Indices: 59373730--59373855 Score: 209
Period size: 28 Copynumber: 4.5 Consensus size: 28
59373720 TAAATTGTAC
*
59373730 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
*
59373758 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
*
59373786 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
59373814 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
*
59373841 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
59373856 GACTTAATAT
Statistics
Matches: 95, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 24 0.25
28 71 0.75
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGCTTGATTATAT
Found at i:59382023 original size:27 final size:28
Alignment explanation
Indices: 59381885--59382010 Score: 209
Period size: 28 Copynumber: 4.5 Consensus size: 28
59381875 TAAATTGTAC
*
59381885 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
*
59381913 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
*
59381941 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
59381969 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
*
59381996 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
59382011 GACTTAATAT
Statistics
Matches: 95, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 24 0.25
28 71 0.75
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGCTTGATTATAT
Found at i:59386177 original size:24 final size:25
Alignment explanation
Indices: 59386150--59386204 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
59386140 GTATAAGTGT
*
59386150 AATTATTAAATA-TTTTTAA-GCTTA
1 AATTAGTAAATAGTTTTTAATG-TTA
59386174 AATTAGTAAATAGGTTTTTAATGTTA
1 AATTAGTAAATA-GTTTTTAATGTTA
59386200 AATTA
1 AATTA
59386205 AATAAAAACA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 11 0.41
26 15 0.56
27 1 0.04
ACGTcount: A:0.42, C:0.02, G:0.09, T:0.47
Consensus pattern (25 bp):
AATTAGTAAATAGTTTTTAATGTTA
Found at i:59390366 original size:17 final size:17
Alignment explanation
Indices: 59390346--59390387 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
59390336 TAAGCATATG
59390346 AGCTTACTAAGCTTTAC
1 AGCTTACTAAGCTTTAC
59390363 AGCTTACTAAGCTTTAC
1 AGCTTACTAAGCTTTAC
59390380 AGCTTACT
1 AGCTTACT
59390388 CTGTTTACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.36
Consensus pattern (17 bp):
AGCTTACTAAGCTTTAC
Found at i:59396599 original size:28 final size:29
Alignment explanation
Indices: 59396559--59396670 Score: 131
Period size: 28 Copynumber: 4.0 Consensus size: 29
59396549 CATGATTGTA
* *
59396559 AATGTGATTTGGGCCTAGT-GGCCATATG
1 AATGTGATATGGGCCTAATGGGCCATATG
* * *
59396587 AATGTGATATGGGCCTAATGGGTCACATA
1 AATGTGATATGGGCCTAATGGGCCATATG
59396616 AATGTGA-ATGGGCCTAATGGGCCATATG
1 AATGTGATATGGGCCTAATGGGCCATATG
* * *
59396644 AAAGAGAT-TGGGCCTAGTGGGCCATAT
1 AATGTGATATGGGCCTAATGGGCCATAT
59396671 ATATATAGGT
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
28 58 0.82
29 13 0.18
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.27
Consensus pattern (29 bp):
AATGTGATATGGGCCTAATGGGCCATATG
Found at i:59396645 original size:57 final size:56
Alignment explanation
Indices: 59396557--59396664 Score: 146
Period size: 57 Copynumber: 1.9 Consensus size: 56
59396547 AGCATGATTG
* * * *
59396557 TAAATGTGATTTGGGCCTAGTGGCCATATGAATGTGATATGGGCCTAATGGGTCACA
1 TAAATGTGATATGGGCCTAATGGCCATATGAAAGAGAT-TGGGCCTAATGGGTCACA
*
59396614 TAAATGTGA-ATGGGCCTAATGGGCCATATGAAAGAGATTGGGCCTAGTGGG
1 TAAATGTGATATGGGCCTAAT-GGCCATATGAAAGAGATTGGGCCTAATGGG
59396665 CCATATATAT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
56 21 0.47
57 24 0.53
ACGTcount: A:0.28, C:0.13, G:0.32, T:0.27
Consensus pattern (56 bp):
TAAATGTGATATGGGCCTAATGGCCATATGAAAGAGATTGGGCCTAATGGGTCACA
Found at i:59399636 original size:27 final size:27
Alignment explanation
Indices: 59399605--59399782 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
59399595 TAAATTGTAC
59399605 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *** *
59399632 TGCACTAAGTGTGCGAAACGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
59399658 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
59399686 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
59399714 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
59399741 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
59399768 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
59399783 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:59399746 original size:82 final size:81
Alignment explanation
Indices: 59399606--59399761 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
59399596 AAATTGTACA
* *
59399606 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAACGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGATGCACTAAGTGT
59399671 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
*** *
59399687 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGAT-GCACTAAGT
*
59399751 GTGCGAGTTGA
64 GTGCGAATTGA
59399762 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:59399773 original size:82 final size:81
Alignment explanation
Indices: 59399602--59399782 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
59399592 GATTAAATTG
* *
59399602 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAACGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGATGCACTAA
59399667 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * *** *
59399683 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGAT-GCACT
* **
59399747 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
59399765 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
59399783 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:59418024 original size:46 final size:46
Alignment explanation
Indices: 59417974--59418143 Score: 156
Period size: 46 Copynumber: 3.7 Consensus size: 46
59417964 TGGTTGAGCA
*
59417974 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGTGAATG
* * * *
59418020 TCCGAACTTGTTGAGTTGAGTCCGAGTTC-GTGA--AATAT-AACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGTGAA-T--G
* * * *
59418065 CATCCGAACTCATTGAGTTGAGTCCGA-TTCACTTATGTATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGTGAATG
*
59418112 -CCGAGCTCGTTGAGTTGAGT-CGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
59418144 GGGGCGGGTT
Statistics
Matches: 99, Mismatches: 15, Indels: 22
0.73 0.11 0.16
Matches are distributed among these distances:
42 2 0.02
43 7 0.07
44 26 0.26
45 3 0.03
46 31 0.31
47 26 0.26
49 2 0.02
50 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGTGAATG
Done.