Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold267
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: 2306539
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 499 characters in sequence are not A, C, G, or T
File 3 of 15
Found at i:348824 original size:52 final size:52
Alignment explanation
Indices: 348766--348885 Score: 213
Period size: 52 Copynumber: 2.3 Consensus size: 52
348756 CACCGATCTT
* *
348766 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATCTGCCCAGATGTATCGATACACTATAAAA
*
348818 TGTATCGATACATGCAGGCAAATCTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATCTGCCCAGATGTATCGATACACTATAAAA
348870 TGTATCGATACATGCA
1 TGTATCGATACATGCA
348886 AGTAACTTTT
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATCTGCCCAGATGTATCGATACACTATAAAA
Found at i:358937 original size:21 final size:20
Alignment explanation
Indices: 358909--358954 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
358899 AAGGTGCTGG
358909 ACATGCTGTAAA-TGCATGAA
1 ACATGCTG-AAAGTGCATGAA
358929 ACATAGCTGAAAGTGCATGAA
1 ACAT-GCTGAAAGTGCATGAA
*
358950 TCATG
1 ACATG
358955 GGCTGTTAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.24
Consensus pattern (20 bp):
ACATGCTGAAAGTGCATGAA
Found at i:359891 original size:13 final size:13
Alignment explanation
Indices: 359873--359900 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
359863 ATACAAAGAT
359873 CAATGTATCGATA
1 CAATGTATCGATA
359886 CAATGTATCGATA
1 CAATGTATCGATA
359899 CA
1 CA
359901 TTGAATAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:372163 original size:20 final size:20
Alignment explanation
Indices: 372138--372262 Score: 115
Period size: 20 Copynumber: 5.7 Consensus size: 20
372128 TTTTAACTAG
372138 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
372158 ATGTATCGATACATCTGGGTAAAAAGACAGA
1 ATGTATCGATACAT-T--G-----A-A-A-A
*
372189 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAAAA
* * *
372209 ATGTATCGATACATTCATAC
1 ATGTATCGATACATTGAAAA
372229 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
372249 ATGTATCGATACAT
1 ATGTATCGATACAT
372263 CTGGGTACTT
Statistics
Matches: 86, Mismatches: 8, Indels: 22
0.74 0.07 0.19
Matches are distributed among these distances:
20 62 0.72
21 1 0.01
22 1 0.01
23 2 0.02
28 2 0.02
29 1 0.01
30 2 0.02
31 15 0.17
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:373250 original size:28 final size:28
Alignment explanation
Indices: 373204--373299 Score: 120
Period size: 28 Copynumber: 3.4 Consensus size: 28
373194 TTGGCTTGTA
*
373204 GGCTTTGAAAAGAGTGCCACTAAATTATG
1 GGCTTTG-AAAGGGTGCCACTAAATTATG
* *
373233 GGCTTTGAAAGGGTGCCACTAACTTGTG
1 GGCTTTGAAAGGGTGCCACTAAATTATG
* * * *
373261 GGCTTTGAAAGGATGCCACTGATTTCTG
1 GGCTTTGAAAGGGTGCCACTAAATTATG
373289 GGCTTTGAAAG
1 GGCTTTGAAAG
373300 TGAAAGCTTA
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
28 53 0.88
29 7 0.12
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (28 bp):
GGCTTTGAAAGGGTGCCACTAAATTATG
Found at i:376535 original size:13 final size:13
Alignment explanation
Indices: 376517--376542 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
376507 ATAATCACCC
376517 TGTATCGATACAA
1 TGTATCGATACAA
376530 TGTATCGATACAA
1 TGTATCGATACAA
376543 AGAAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:378624 original size:15 final size:15
Alignment explanation
Indices: 378604--378634 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
378594 ATTTCGTTTG
*
378604 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
378619 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
378634 G
1 G
378635 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:380466 original size:21 final size:21
Alignment explanation
Indices: 380437--380481 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
380427 AAGTTTTCAT
*
380437 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
380457 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
380479 TTT
1 TTT
380482 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:382692 original size:20 final size:20
Alignment explanation
Indices: 382667--382718 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
382657 TACAAGCCAA
382667 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATTTTTTG
382687 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATTTTTTG
382707 TGTATCGATACA
1 TGTATCGATACA
382719 TACTTGCTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.27, C:0.12, G:0.15, T:0.46
Consensus pattern (20 bp):
TGTATCGATACAATTTTTTG
Found at i:383394 original size:114 final size:114
Alignment explanation
Indices: 383104--383617 Score: 673
Period size: 114 Copynumber: 4.5 Consensus size: 114
383094 GATCCTAACA
* * * *
383104 GAAAGGATGCCACTAACTAGTGGGCTTTG-AAAGAG-TGCCATTGACTTGTGGGCTTTGAAAGGG
1 GAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGAGTTGCCACTGACTCGTGGGCTTTGAAAGGA
* * *
383167 TGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTT
66 TGCCACTAACTCGTGGGCTTTG-AAAGGGTGCCACTAACTTGTGGGCTTT
* * *
383217 GAAAAGG-TGCCACTAACTTGCGTGGACTTTG-AAAG-GGTGCCACTGACTTGTGGGCTTTGAAA
1 G-AAAGGATGCCACTAACTT--GTGGGCTTTGAAAAGAGTTGCCACTGACTCGTGGGCTTTGAAA
* *
383279 GGATGCCACTAACTTGTGGGCTTTGAAAGGGTGTCACTAACTTGTGGGCTTT
63 GGATGCCACTAACTCGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTT
* * * *
383331 GAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACTAACTCATGGCCTTTGAAAGGA
1 GAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGAGTTGCCACTGACTCGTGGGCTTTGAAAGGA
* * *
383396 TACCACTAACTCGTGGGCTTTGAAAGGATGCCACTAACTTGTGGCCTTT
66 TGCCACTAACTCGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTT
383445 GAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGAGTTGCCACTGACTCGTGGGCTTTGAAAGGA
1 GAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGAGTTGCCACTGACTCGTGGGCTTTGAAAGGA
* * * * *
383510 TGCCACTGACTCATGGACTTTGAAAGGGTGGCACTGACTTGTGGGCTTT
66 TGCCACTAACTCGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTT
* * * * * *
383559 GAAAGGGTGCCACTGACTTATGGGCTTT-AAAAG-GATGCTACTGACTTGTGGGCTTTGAA
1 GAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGAGTTGCCACTGACTCGTGGGCTTTGAA
383618 GAGATGAACG
Statistics
Matches: 357, Mismatches: 37, Indels: 15
0.87 0.09 0.04
Matches are distributed among these distances:
112 32 0.09
113 26 0.07
114 238 0.67
115 61 0.17
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (114 bp):
GAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGAGTTGCCACTGACTCGTGGGCTTTGAAAGGA
TGCCACTAACTCGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTT
Found at i:383422 original size:142 final size:140
Alignment explanation
Indices: 383104--383617 Score: 699
Period size: 142 Copynumber: 3.6 Consensus size: 140
383094 GATCCTAACA
* * * *
383104 GAAAGGATGCCACTAACTAGTGGGCTTTGAAA-GAGTGCCATTGACTTGTGGGCTTTGAAAGGGT
1 GAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGA-TGCCACTAACTTGTGGGCTTTGAAAGGAT
*
383168 GCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTAA
65 GCCACTAACTTGTGGGCTTTGAAAGGA-TGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTAA
*
383233 CTTGCGTGGACTTT
129 C-T-CATGGACTTT
* * *
383247 GAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGGTG
1 GAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGATG
*
383312 TCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACTAA
66 CCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAG-G-TGCCACTAA
*
383377 CTCATGGCCTTT
129 CTCATGGACTTT
* * *
383389 GAAAGGATACCACTAACTCGTGGGCTTTGAAAGGATGCCACTAACTTGTGGCCTTTGAAAGGATG
1 GAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGATG
* * *
383454 CCACTAACTTGTGGGCTTTGAAAAGAGTTGCCACTGACTCGTGGGCTTTG-AAAGGATGCCACTG
66 CCACTAACTTGTGGGCTTTG-AAAG-GATGCCACTGACTTGTGGGCTTTGAAAAGG-TGCCACTA
383518 ACTCATGGACTTT
128 ACTCATGGACTTT
* * * * * * *
383531 GAAAGGGTGGCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTATGGGCTTTAAAAGGATG
1 GAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGATG
* *
383596 CTACTGACTTGTGGGCTTTGAA
66 CCACTAACTTGTGGGCTTTGAA
383618 GAGATGAACG
Statistics
Matches: 333, Mismatches: 33, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
141 2 0.01
142 206 0.62
143 91 0.27
144 34 0.10
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (140 bp):
GAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGATG
CCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTAACT
CATGGACTTT
Found at i:383623 original size:28 final size:28
Alignment explanation
Indices: 383104--383617 Score: 618
Period size: 28 Copynumber: 18.1 Consensus size: 28
383094 GATCCTAACA
*
383104 GAAAGGATGCCACTAACTAGTGGGCTTT
1 GAAAGGATGCCACTAACTTGTGGGCTTT
* *
383132 GAAA-GAGTGCCATTGACTTGTGGGCTTT
1 GAAAGGA-TGCCACTAACTTGTGGGCTTT
*
383160 GAAAGGGTGCCACTAACTTGTGGGCTTT
1 GAAAGGATGCCACTAACTTGTGGGCTTT
* *
383188 GAAAAGAGTGCCACTGACTTGTGGGCTTT
1 GAAAGGA-TGCCACTAACTTGTGGGCTTT
*
383217 GAAAAGG-TGCCACTAACTTGCGTGGACTTT
1 G-AAAGGATGCCACTAACTT--GTGGGCTTT
* *
383247 GAAAGGGTGCCACTGACTTGTGGGCTTT
1 GAAAGGATGCCACTAACTTGTGGGCTTT
383275 GAAAGGATGCCACTAACTTGTGGGCTTT
1 GAAAGGATGCCACTAACTTGTGGGCTTT
* *
383303 GAAAGGGTGTCACTAACTTGTGGGCTTT
1 GAAAGGATGCCACTAACTTGTGGGCTTT
*
383331 GAAAGGATGCCACTGACTTGTGGGCTTT
1 GAAAGGATGCCACTAACTTGTGGGCTTT
* ** *
383359 GAAAAGAGTTGCCACTAACTCATGGCCTTT
1 G-AAAG-GATGCCACTAACTTGTGGGCTTT
* *
383389 GAAAGGATACCACTAACTCGTGGGCTTT
1 GAAAGGATGCCACTAACTTGTGGGCTTT
*
383417 GAAAGGATGCCACTAACTTGTGGCCTTT
1 GAAAGGATGCCACTAACTTGTGGGCTTT
383445 GAAAGGATGCCACTAACTTGTGGGCTTT
1 GAAAGGATGCCACTAACTTGTGGGCTTT
* * *
383473 GAAAAGAGTTGCCACTGACTCGTGGGCTTT
1 G-AAAG-GATGCCACTAACTTGTGGGCTTT
* ** *
383503 GAAAGGATGCCACTGACTCATGGACTTT
1 GAAAGGATGCCACTAACTTGTGGGCTTT
* * *
383531 GAAAGGGTGGCACTGACTTGTGGGCTTT
1 GAAAGGATGCCACTAACTTGTGGGCTTT
* * *
383559 GAAAGGGTGCCACTGACTTATGGGCTTT
1 GAAAGGATGCCACTAACTTGTGGGCTTT
* * *
383587 AAAAGGATGCTACTGACTTGTGGGCTTT
1 GAAAGGATGCCACTAACTTGTGGGCTTT
383615 GAA
1 GAA
383618 GAGATGAACG
Statistics
Matches: 423, Mismatches: 52, Indels: 22
0.85 0.10 0.04
Matches are distributed among these distances:
27 2 0.00
28 314 0.74
29 43 0.10
30 64 0.15
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (28 bp):
GAAAGGATGCCACTAACTTGTGGGCTTT
Found at i:384873 original size:20 final size:18
Alignment explanation
Indices: 384848--384907 Score: 77
Period size: 19 Copynumber: 3.3 Consensus size: 18
384838 TCTTTTATTA
*
384848 TTTTTTTTCTTGGTTTTT
1 TTTTTTTTTTTGGTTTTT
384866 TGTTTTTTGTTTTGGTTTTT
1 T-TTTTTT-TTTTGGTTTTT
*
384886 TTCTTTTTTTT-GTTTTT
1 TTTTTTTTTTTGGTTTTT
384903 TTTTT
1 TTTTT
384908 GGGTATGAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
17 10 0.27
18 5 0.14
19 11 0.30
20 11 0.30
ACGTcount: A:0.00, C:0.03, G:0.12, T:0.85
Consensus pattern (18 bp):
TTTTTTTTTTTGGTTTTT
Found at i:399069 original size:13 final size:13
Alignment explanation
Indices: 399051--399075 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
399041 TTCAACAATT
399051 TGTATCGATACAA
1 TGTATCGATACAA
399064 TGTATCGATACA
1 TGTATCGATACA
399076 TAAGTGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:399208 original size:32 final size:32
Alignment explanation
Indices: 399167--399244 Score: 147
Period size: 32 Copynumber: 2.4 Consensus size: 32
399157 ATTTGATCTT
399167 TGTATCGATACATTTGGGAAATTTTACCCATA
1 TGTATCGATACATTTGGGAAATTTTACCCATA
399199 TGTATCGATACATTTGGGAAATTTTACCCATA
1 TGTATCGATACATTTGGGAAATTTTACCCATA
*
399231 TGTATTGATACATT
1 TGTATCGATACATT
399245 ATTCACTGTA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 45 1.00
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATTTGGGAAATTTTACCCATA
Found at i:402993 original size:45 final size:45
Alignment explanation
Indices: 402925--403016 Score: 132
Period size: 45 Copynumber: 2.0 Consensus size: 45
402915 GACTAGGGTG
* *
402925 AAACCTAAATCAAAAAGAGGTTGACGAGGGTGAAACCATCACGTC
1 AAACCTAAATCAAAAAGAAGTTGACCAGGGTGAAACCATCACGTC
* *
402970 AAACCTAAGT-AAAGAAGAAGTTGACCAGGGTGAAACCATCATGTC
1 AAACCTAAATCAAA-AAGAAGTTGACCAGGGTGAAACCATCACGTC
403015 AA
1 AA
403017 CATGAGGGTG
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 3 0.07
45 39 0.93
ACGTcount: A:0.43, C:0.18, G:0.22, T:0.16
Consensus pattern (45 bp):
AAACCTAAATCAAAAAGAAGTTGACCAGGGTGAAACCATCACGTC
Found at i:403074 original size:111 final size:112
Alignment explanation
Indices: 402858--403079 Score: 288
Period size: 111 Copynumber: 2.0 Consensus size: 112
402848 GACTAGGGCG
* * * *
402858 AAACCTAAGTCAAAACGAAGTTGACTAGGGCGAAACCATCATGTTAACATAAAAGGCGACTAGGG
1 AAACCTAAGTCAAAAAGAAGTTGACCAGGGCGAAACCATCATGTCAACATAAAAGGCGACCAGGG
* *
402923 TGAAACCTAAATCAAAAAGAGGTTGACGAGGGTGAAACCATCACGTC
66 TGAAACCTAAATCAAAAAGAGGTTGACCAGGGTAAAACCATCACGTC
* * * * *
402970 AAACCTAAGT-AAAGAAGAAGTTGACCAGGGTGAAACCATCATGTCAACAT-GAGGGTGGCCAGG
1 AAACCTAAGTCAAA-AAGAAGTTGACCAGGGCGAAACCATCATGTCAACATAAAAGGCGACCAGG
* *
403033 GTGAAACCTAAGTCGAAAAGCA-GTTGACCAGGGTAAAACCATCACGT
65 GTGAAACCTAAATCAAAAAG-AGGTTGACCAGGGTAAAACCATCACGT
403080 TAGCATAAAC
Statistics
Matches: 95, Mismatches: 13, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
111 52 0.55
112 43 0.45
ACGTcount: A:0.40, C:0.19, G:0.25, T:0.17
Consensus pattern (112 bp):
AAACCTAAGTCAAAAAGAAGTTGACCAGGGCGAAACCATCATGTCAACATAAAAGGCGACCAGGG
TGAAACCTAAATCAAAAAGAGGTTGACCAGGGTAAAACCATCACGTC
Found at i:403269 original size:67 final size:67
Alignment explanation
Indices: 403152--403589 Score: 490
Period size: 67 Copynumber: 6.5 Consensus size: 67
403142 TCATGTCAAG
*
403152 CCTAAGTCGAAAAGAAGTTGA-TCAGGATGAAACCATCACGTCAACATAAAAGGCGACTAGGGTG
1 CCTAAGTCGAAAAGAAGTTGACT-AGGATGAAACCATCACGTCAACATAAAAGGTGACTAGGGTG
403216 AAA
65 AAA
* * * ** *
403219 CCTAAGTCGAAAAAAAGTTGACTAGGGA-AAAACCATCACATCAATGTAAAATGTGACTAGGGTG
1 CCTAAGTCGAAAAGAAGTTGACTA-GGATGAAACCATCACGTCAACATAAAAGGTGACTAGGGTG
403283 AAA
65 AAA
* * *
403286 CCTAAGTTGAAAAGAAGTTGACTAGGATGAAACCATAACGTCAACAGAAAAGGTGACTAGGGTGA
1 CCTAAGTCGAAAAGAAGTTGACTAGGATGAAACCATCACGTCAACATAAAAGGTGACTAGGGTGA
403351 AA
66 AA
* * * * *
403353 CCTAAATCGAAAAGAAGTTGACTAAGATGAAACCATAATGTCAACATAAAAGGTGATTAGGGTGA
1 CCTAAGTCGAAAAGAAGTTGACTAGGATGAAACCATCACGTCAACATAAAAGGTGACTAGGGTGA
403418 AA
66 AA
** * * *
403420 CCTAAGTC-AAGAAGAAGTTGA-TCAGGGCGAAACCATCACATCAACATAAAAGGTAACTAGGAT
1 CCTAAGTCGAA-AAGAAGTTGACT-AGGATGAAACCATCACGTCAACATAAAAGGTGACTAGGGT
403483 GAAA
64 GAAA
* * * ** * * * * * **
403487 CCTAAGTAGAGAAGAAATTGACTAGGGCGAAACCTTTATGTCAACATAAAAGGTGACCAAGGCAA
1 CCTAAGTCGAAAAGAAGTTGACTAGGATGAAACCATCACGTCAACATAAAAGGTGACTAGGGTGA
403552 AA
66 AA
* *
403554 CATTAGTCGAAAAG-AGCTTGACTAGGATGAAACCAT
1 CCTAAGTCGAAAAGAAG-TTGACTAGGATGAAACCAT
403590 TATGTTAAAC
Statistics
Matches: 310, Mismatches: 53, Indels: 16
0.82 0.14 0.04
Matches are distributed among these distances:
66 7 0.02
67 297 0.96
68 6 0.02
ACGTcount: A:0.44, C:0.16, G:0.22, T:0.18
Consensus pattern (67 bp):
CCTAAGTCGAAAAGAAGTTGACTAGGATGAAACCATCACGTCAACATAAAAGGTGACTAGGGTGA
AA
Found at i:403510 original size:201 final size:201
Alignment explanation
Indices: 403152--403594 Score: 552
Period size: 201 Copynumber: 2.2 Consensus size: 201
403142 TCATGTCAAG
* *
403152 CCTAAGTCGAAAAGAAGTTGA-TCAGGATGAAACCATCACGTCAACATAAAAGGCGACTAGGGTG
1 CCTAAGTCGAAAAGAAGTTGACT-AGGATGAAACCATAATGTCAACATAAAAGGCGACTAGGGTG
** * * *
403216 AAACCTAAGTCGAAAAAAAGTTGACTAGGGAAAAACCATCACATCAATGTAAAATGTGACTAGGG
65 AAACCTAAGTCGAAAAAAAGTTGACTAGGGAAAAACCATCACATCAACATAAAAGGTAACTAGGA
* * * * *
403281 TGAAACCTAAGTTGAAAAGAAGTTGACTAGGATGAAACCATAACGTCAACAGAAAAGGTGACTAG
130 TGAAACCTAAGTAGAAAAGAAATTGACTAGGACGAAACCATAACGTCAACAGAAAAGGTGACCAA
**
403346 GGTGAAA
195 GGCAAAA
* * * *
403353 CCTAAATCGAAAAGAAGTTGACTAAGATGAAACCATAATGTCAACATAAAAGGTGATTAGGGTGA
1 CCTAAGTCGAAAAGAAGTTGACTAGGATGAAACCATAATGTCAACATAAAAGGCGACTAGGGTGA
* **
403418 AACCTAAGTC-AAGAAGAAGTTGA-TCAGGGCGAAACCATCACATCAACATAAAAGGTAACTAGG
66 AACCTAAGTCGAA-AAAAAGTTGACT-AGGGAAAAACCATCACATCAACATAAAAGGTAACTAGG
* * * * * *
403481 ATGAAACCTAAGTAGAGAAGAAATTGACTAGGGCGAAACCTTTATGTCAACATAAAAGGTGACCA
129 ATGAAACCTAAGTAGAAAAGAAATTGACTAGGACGAAACCATAACGTCAACAGAAAAGGTGACCA
403546 AGGCAAAA
194 AGGCAAAA
* * *
403554 CATTAGTCGAAAAG-AGCTTGACTAGGATGAAACCATTATGT
1 CCTAAGTCGAAAAGAAG-TTGACTAGGATGAAACCATAATGT
403595 TAAACCTATA
Statistics
Matches: 206, Mismatches: 32, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
200 5 0.02
201 200 0.97
202 1 0.00
ACGTcount: A:0.43, C:0.15, G:0.22, T:0.19
Consensus pattern (201 bp):
CCTAAGTCGAAAAGAAGTTGACTAGGATGAAACCATAATGTCAACATAAAAGGCGACTAGGGTGA
AACCTAAGTCGAAAAAAAGTTGACTAGGGAAAAACCATCACATCAACATAAAAGGTAACTAGGAT
GAAACCTAAGTAGAAAAGAAATTGACTAGGACGAAACCATAACGTCAACAGAAAAGGTGACCAAG
GCAAAA
Found at i:404630 original size:33 final size:33
Alignment explanation
Indices: 404588--404661 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 33
404578 TCATCCATTT
*
404588 CATTTTTTTTGGATGCCGATTCGGGTTTTCGTC
1 CATTTTTTTTGGATGCCGATTCGGGTTTTCATC
* ** *
404621 CCTTTTTTTTGGATGCCTTTTTGGGTTTTCATC
1 CATTTTTTTTGGATGCCGATTCGGGTTTTCATC
404654 CATTTTTT
1 CATTTTTT
404662 GAATGCTCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.08, C:0.18, G:0.19, T:0.55
Consensus pattern (33 bp):
CATTTTTTTTGGATGCCGATTCGGGTTTTCATC
Found at i:404674 original size:31 final size:31
Alignment explanation
Indices: 404625--404683 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
404615 TTCGTCCCTT
*
404625 TTTTTTGGATGCCTTTTTGGGTTTTCATCCA
1 TTTTTTGAATGCCTTTTTGGGTTTTCATCCA
404656 TTTTTTGAATG-CTCTTTTGGGTTTTCAT
1 TTTTTTGAATGCCT-TTTTGGGTTTTCAT
404684 TCAAAGCATC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 2 0.08
31 24 0.92
ACGTcount: A:0.10, C:0.14, G:0.19, T:0.58
Consensus pattern (31 bp):
TTTTTTGAATGCCTTTTTGGGTTTTCATCCA
Found at i:413785 original size:9 final size:9
Alignment explanation
Indices: 413773--413818 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
413763 TTCTTGGTTT
413773 TTTTTTTTG
1 TTTTTTTTG
* *
413782 TTTTTCTGG
1 TTTTTTTTG
*
413791 TTTTTTTCTA
1 TTTTTTT-TG
413801 TTTTTTTTG
1 TTTTTTTTG
413810 TTTTTTTTG
1 TTTTTTTTG
413819 GGTGTAAAGG
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
9 23 0.77
10 7 0.23
ACGTcount: A:0.02, C:0.04, G:0.11, T:0.83
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:413796 original size:19 final size:19
Alignment explanation
Indices: 413772--413817 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
413762 TTTCTTGGTT
*
413772 TTTTTTTTTGTTTTTCTGG
1 TTTTTTTTTATTTTTCTGG
* * *
413791 TTTTTTTCTATTTTTTTTG
1 TTTTTTTTTATTTTTCTGG
413810 TTTTTTTT
1 TTTTTTTT
413818 GGGTGTAAAG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.02, C:0.04, G:0.09, T:0.85
Consensus pattern (19 bp):
TTTTTTTTTATTTTTCTGG
Found at i:428554 original size:52 final size:52
Alignment explanation
Indices: 428469--428598 Score: 206
Period size: 52 Copynumber: 2.5 Consensus size: 52
428459 ATATGAAAAG
* * *
428469 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
*
428521 TTGCCTGTATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
* *
428573 TTTCCTGCATGTATCGATACAATTTA
1 TTGCCTGCATGTATCGATACATTTTA
428599 AGCTACTGCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.38
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
Found at i:430568 original size:13 final size:14
Alignment explanation
Indices: 430550--430578 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
430540 GGGAATGGAC
430550 TTTGTGTTGA-GTT
1 TTTGTGTTGATGTT
430563 TTTGTGTTGATGTT
1 TTTGTGTTGATGTT
430577 TT
1 TT
430579 GCTAAGATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.07, C:0.00, G:0.28, T:0.66
Consensus pattern (14 bp):
TTTGTGTTGATGTT
Found at i:431026 original size:20 final size:20
Alignment explanation
Indices: 431001--431145 Score: 137
Period size: 20 Copynumber: 6.7 Consensus size: 20
430991 TTTTAACTAG
*
431001 ATGTATCCATACATTGAAAA
1 ATGTATCGATACATTGAAAA
431021 ATGTATCGATACATCTGGGCAAAA
1 ATGTATCGATACAT-T--G-AAAA
*
431045 GGATAGAATGTATCGATACATTGAAGA
1 --AT-G--T--ATCGATACATTGAAAA
* * *
431072 ATGTATCGATACATTCATAC
1 ATGTATCGATACATTGAAAA
431092 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
*
431112 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAAAA
431132 ATGTATCGATACAT
1 ATGTATCGATACAT
431146 CTAGGTGCTT
Statistics
Matches: 104, Mismatches: 10, Indels: 22
0.76 0.07 0.16
Matches are distributed among these distances:
20 75 0.72
21 1 0.01
22 1 0.01
23 1 0.01
24 5 0.05
25 2 0.02
26 2 0.02
27 4 0.04
28 1 0.01
29 1 0.01
30 1 0.01
31 10 0.10
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:431107 original size:40 final size:40
Alignment explanation
Indices: 431049--431145 Score: 151
Period size: 40 Copynumber: 2.4 Consensus size: 40
431039 GCAAAAGGAT
*
431049 AGAATGTATCGATACATTGAAGAATGTATCGATACATTCA
1 AGAATGTATCGATACATTGAAAAATGTATCGATACATTCA
* *
431089 TA-CATGTATCGATACATTGAAAAATGTATCGATACATTGA
1 -AGAATGTATCGATACATTGAAAAATGTATCGATACATTCA
431129 AGAATGTATCGATACAT
1 AGAATGTATCGATACAT
431146 CTAGGTGCTT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.02
40 49 0.96
41 1 0.02
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.31
Consensus pattern (40 bp):
AGAATGTATCGATACATTGAAAAATGTATCGATACATTCA
Found at i:434117 original size:13 final size:13
Alignment explanation
Indices: 434099--434124 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
434089 CAATTTTTTG
434099 TGTATCGATACAT
1 TGTATCGATACAT
434112 TGTATCGATACAT
1 TGTATCGATACAT
434125 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:436260 original size:155 final size:154
Alignment explanation
Indices: 436020--436515 Score: 535
Period size: 154 Copynumber: 3.2 Consensus size: 154
436010 ATTACATCGA
* * * * *
436020 ACTCGATTCT-ATAAAATTACCAAAATACCCTTTAGGTATATCTTCGACGTGAAAGTATC-TCAG
1 ACTCGATTCTAAGAAAATTACCAAAATGCCCCTTAGGTATACCTTCGACGTGAAAATATCTTC-G
* *
436083 T-AGCTGT-AAAGA-ACATGAAAAGATCGA-AAAAAGGTGAACCCATCCTAAGTGTAGAACTTTG
65 TAACCT-TAAAAGACACA--AAAAGATC-ATAAAAAGGTGAACCTATCCTAAGTGTAGAACTTTG
*
436144 ACATAAAAGTGACCAAGTGACTACCTAGG
126 ACATAAAAGCGACCAAGTGACTACCTAGG
* * *
436173 ACTCAATTCTAGGAAATATTACCAAAATGCCCCTTAGGTATACCTTCGACGTAAAAATATCTTCG
1 ACTCGATTCTAAGAAA-ATTACCAAAATGCCCCTTAGGTATACCTTCGACGTGAAAATATCTTCG
* *
436238 TAACCTTAAAAGACACAAAAAGATCATAAAAAGATGAACCTATCCTAAGTGTAAAACTTTGACAT
65 TAACCTTAAAAGACACAAAAAGATCATAAAAAGGTGAACCTATCCTAAGTGTAGAACTTTGACAT
* *
436303 AAAAGCGTCCAAGTGACTACCCAGG
130 AAAAGCGACCAAGTGACTACCTAGG
* * * * * * * *
436328 A-TCGGTTTTAAGAAGAATTACCAAAAT-ACCCTTTGGATATACTTTTGATGTGAAAATATCTTA
1 ACTCGATTCTAAGAA-AATTACCAAAATGCCCCTTAGG-TATACCTTCGACGTGAAAATATCTTC
* * * * * * *
436391 GTAACCCTAAAGGACACGAAAGGATCATAAAAAGGTGAACTTATCCTAAGTGTAGACCTTTGGCA
64 GTAACCTTAAAAGACACAAAAAGATCATAAAAAGGTGAACCTATCCTAAGTGTAGAACTTTGACA
* *
436456 TAAATGCGACCAA-TGACCACCTAAGG
129 TAAAAGCGACCAAGTGACTACCT-AGG
*
436482 -CTCGATTCTAAAGAAAATTACTAAAATGCCCCTT
1 ACTCGATTCT-AAGAAAATTACCAAAATGCCCCTT
436516 GATTATAGTT
Statistics
Matches: 287, Mismatches: 43, Indels: 24
0.81 0.12 0.07
Matches are distributed among these distances:
153 23 0.08
154 132 0.46
155 119 0.41
156 10 0.03
157 3 0.01
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.25
Consensus pattern (154 bp):
ACTCGATTCTAAGAAAATTACCAAAATGCCCCTTAGGTATACCTTCGACGTGAAAATATCTTCGT
AACCTTAAAAGACACAAAAAGATCATAAAAAGGTGAACCTATCCTAAGTGTAGAACTTTGACATA
AAAGCGACCAAGTGACTACCTAGG
Found at i:436829 original size:28 final size:27
Alignment explanation
Indices: 436673--436913 Score: 124
Period size: 28 Copynumber: 8.5 Consensus size: 27
436663 TTGCGACTAT
* * **
436673 TAAACCTTTCAAAATTACACTTTGTTCC
1 TAAA-CTTTTAAAATTACACATTGACCC
*
436701 TAAACTTTTCAAAATTACATATTGACCCC
1 TAAACTTTT-AAAATTACACATTGA-CCC
* * * * *
436730 TAGACATTTCAAACTACAGATT-AGCTCC
1 TAAACTTTTAAAATTACACATTGA-C-CC
* * * *
436758 CAAATTTCTTGAAATTACACTTTGAGCCC
1 TAAACTT-TTAAAATTACACATTGA-CCC
* *
436787 TAAACTTTCACAATTACACATTGACCC
1 TAAACTTTTAAAATTACACATTGACCC
** *
436814 TTAAACTTTTAAAATTATTCATTAACCCC
1 -TAAACTTTTAAAATTACACATTGA-CCC
* ** *
436843 TAAACTCTTAAAAATTATTCATTAACCCC
1 TAAACT-TTTAAAATTACACATTGA-CCC
***
436872 TAAACTTTTAAAAATTATGGATTGACCC
1 TAAACTTTT-AAAATTACACATTGACCC
*
436900 TAAACTCTTAAAAT
1 TAAACTTTTAAAAT
436914 GGTTGGAATG
Statistics
Matches: 168, Mismatches: 36, Indels: 19
0.75 0.16 0.09
Matches are distributed among these distances:
27 14 0.08
28 82 0.49
29 69 0.41
30 3 0.02
ACGTcount: A:0.37, C:0.23, G:0.05, T:0.35
Consensus pattern (27 bp):
TAAACTTTTAAAATTACACATTGACCC
Found at i:436857 original size:29 final size:29
Alignment explanation
Indices: 436805--436912 Score: 139
Period size: 29 Copynumber: 3.8 Consensus size: 29
436795 CACAATTACA
* * *
436805 CATTGACCCTTAAACT-TTTAAAATTATT
1 CATTAACCCCTAAACTCTTAAAAATTATT
436833 CATTAACCCCTAAACTCTTAAAAATTATT
1 CATTAACCCCTAAACTCTTAAAAATTATT
* *
436862 CATTAACCCCTAAACTTTTAAAAATTATG
1 CATTAACCCCTAAACTCTTAAAAATTATT
* *
436891 GATTGA-CCCTAAACTCTTAAAA
1 CATTAACCCCTAAACTCTTAAAA
436913 TGGTTGGAAT
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
28 29 0.41
29 42 0.59
ACGTcount: A:0.40, C:0.21, G:0.04, T:0.35
Consensus pattern (29 bp):
CATTAACCCCTAAACTCTTAAAAATTATT
Found at i:436881 original size:57 final size:57
Alignment explanation
Indices: 436805--436912 Score: 155
Period size: 57 Copynumber: 1.9 Consensus size: 57
436795 CACAATTACA
* * *
436805 CATTGACCCTTAAACTTTT-AAAATTATTCATTAACCCCTAAACTCTTAAAAATTATT
1 CATTAACCCCTAAACTTTTAAAAATTATGCATTAA-CCCTAAACTCTTAAAAATTATT
* *
436862 CATTAACCCCTAAACTTTTAAAAATTATGGATTGACCCTAAACTCTTAAAA
1 CATTAACCCCTAAACTTTTAAAAATTATGCATTAACCCTAAACTCTTAAAA
436913 TGGTTGGAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
57 33 0.73
58 12 0.27
ACGTcount: A:0.40, C:0.21, G:0.04, T:0.35
Consensus pattern (57 bp):
CATTAACCCCTAAACTTTTAAAAATTATGCATTAACCCTAAACTCTTAAAAATTATT
Found at i:437780 original size:21 final size:22
Alignment explanation
Indices: 437742--437799 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 22
437732 AATACCTAAT
*
437742 AAAAACTAAA-AT-AAAATAA-
1 AAAAACTAAATTTAAAAATAAG
*
437761 AATAACTAAATTTAAAAATAAG
1 AAAAACTAAATTTAAAAATAAG
*
437783 AAAAATTAAATTTAAAA
1 AAAAACTAAATTTAAAA
437800 TCAATTCTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 9 0.28
20 1 0.03
21 7 0.22
22 15 0.47
ACGTcount: A:0.71, C:0.03, G:0.02, T:0.24
Consensus pattern (22 bp):
AAAAACTAAATTTAAAAATAAG
Found at i:437800 original size:21 final size:20
Alignment explanation
Indices: 437742--437800 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 20
437732 AATACCTAAT
*
437742 AAAAACTAAA-ATAAAATAA
1 AAAAACTAAATTTAAAATAA
*
437761 AATAACTAAATTTAAAAATAA
1 AAAAACTAAATTT-AAAATAA
*
437782 GAAAAATTAAATTTAAAAT
1 -AAAAACTAAATTTAAAAT
437801 CAATTCTCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 9 0.27
20 1 0.03
21 12 0.36
22 11 0.33
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.25
Consensus pattern (20 bp):
AAAAACTAAATTTAAAATAA
Found at i:438202 original size:162 final size:156
Alignment explanation
Indices: 437935--438361 Score: 423
Period size: 162 Copynumber: 2.7 Consensus size: 156
437925 TGAAATAATT
* * * * * * * * * **
437935 TGAATTTTTCAAAAATAATTTAATGTGTATTTAATGACAAAATTAAATGAATTTTAAAAATTTTA
1 TGAATTTTTGAAAAATAATTTAATATGAATTAAATAATAATATTTAATGAATTTTAAAAAATAAA
** * * * * * *
438000 AATTAAGAAAAATCCCCTCAAAAAAATTTATAGAGAAGAAAATTCAGTT-TTTTGAAA-A-AAAA
66 AACCAAGAAAAATCCTCT-GAAAAAATTTACAGAGAAGAAAACTC-CTTCTTTGGAAATAGAAAA
438062 AATTCAAGAAAAAAATAAAAACTCAT-AAACATGAA
129 AATTCAAG-AAAAAAT------TCATGAAA-ATGAA
*
438097 TGAATTTTTGAAAAATAATTTAATATGAATTAAATAATAATATTTTATGAATTTTAAAAAATAAA
1 TGAATTTTTGAAAAATAATTTAATATGAATTAAATAATAATATTTAATGAATTTTAAAAAATAAA
* **
438162 AACCAAGAAAAATCTCTCTGAAAAAATTTACGGAGAAGAAAACTCCTTGCTTTGGAAATAGGGAA
66 AACCAAGAAAAATC-CTCTGAAAAAATTTACAGAGAAGAAAACTCCTT-CTTTGGAAATAGAAAA
* * *
438227 ATTTCAAGCAAAAATTTATGAAAATGAA
129 AATTCAAGAAAAAATTCATGAAAATGAA
* * * **
438255 TGAATTTTTGAAAACTAATTTAATATGAATTAAATAATAATATTTGATAAATTTTTTAAAA-AAA
1 TGAATTTTTGAAAAATAATTTAATATGAATTAAATAATAATATTTAATGAATTTTAAAAAATAAA
438319 AACCAAGAAAAATCCTCCTGAAAAAATTTACAGAGAAGAAAAC
66 AACCAAGAAAAATCCT-CTGAAAAAATTTACAGAGAAGAAAAC
438362 CTCGTAATTT
Statistics
Matches: 226, Mismatches: 32, Indels: 19
0.82 0.12 0.07
Matches are distributed among these distances:
156 2 0.01
157 42 0.19
158 64 0.28
159 3 0.01
161 2 0.01
162 87 0.38
163 10 0.04
164 7 0.03
165 9 0.04
ACGTcount: A:0.52, C:0.08, G:0.10, T:0.31
Consensus pattern (156 bp):
TGAATTTTTGAAAAATAATTTAATATGAATTAAATAATAATATTTAATGAATTTTAAAAAATAAA
AACCAAGAAAAATCCTCTGAAAAAATTTACAGAGAAGAAAACTCCTTCTTTGGAAATAGAAAAAA
TTCAAGAAAAAATTCATGAAAATGAA
Found at i:442404 original size:15 final size:16
Alignment explanation
Indices: 442379--442408 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
442369 TTTTTAGGAA
442379 AAAAGAGAAAAAGAAG
1 AAAAGAGAAAAAGAAG
442395 AAAA-AGAAAAAGAA
1 AAAAGAGAAAAAGAA
442409 AATTTAGATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (16 bp):
AAAAGAGAAAAAGAAG
Found at i:447371 original size:20 final size:19
Alignment explanation
Indices: 447325--447379 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
447315 AAAACCCTTA
447325 AAAGTATCGATACACTATTC
1 AAAGTATCGATACA-TATTC
*
447345 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATATT-C
* *
447365 AATGTATCAATACAT
1 AAAGTATCGATACAT
447380 CAAAAATATG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 3 0.10
20 28 0.90
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.31
Consensus pattern (19 bp):
AAAGTATCGATACATATTC
Found at i:447469 original size:13 final size:13
Alignment explanation
Indices: 447451--447476 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
447441 ACACCAAAGT
447451 ATGTATCGATACA
1 ATGTATCGATACA
447464 ATGTATCGATACA
1 ATGTATCGATACA
447477 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:447474 original size:33 final size:33
Alignment explanation
Indices: 447432--447496 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
447422 TAGCCAAACT
* *
447432 TGTATCGATACAC-CAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAAT-TGTATCGATACAA
447465 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
447497 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 25 0.86
34 4 0.14
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:453626 original size:13 final size:13
Alignment explanation
Indices: 453608--453632 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
453598 CATTTTACTT
453608 TGTATCGATACAC
1 TGTATCGATACAC
453621 TGTATCGATACA
1 TGTATCGATACA
453633 GGGGGATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:453796 original size:20 final size:20
Alignment explanation
Indices: 453753--453798 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
453743 AAATCTTTTG
453753 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
453774 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
453794 CAAAA
1 CAAAA
453799 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:456971 original size:13 final size:13
Alignment explanation
Indices: 456953--456978 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
456943 CAATTTTTTG
456953 TGTATCGATACAT
1 TGTATCGATACAT
456966 TGTATCGATACAT
1 TGTATCGATACAT
456979 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:457064 original size:20 final size:20
Alignment explanation
Indices: 457039--457152 Score: 138
Period size: 20 Copynumber: 5.6 Consensus size: 20
457029 ATCTTTTTTT
457039 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
457059 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
457080 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
457100 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
457121 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
457141 ATGTATCGATAC
1 ATGTATCGATAC
457153 TTTGAATTGT
Statistics
Matches: 76, Mismatches: 16, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
20 44 0.58
21 32 0.42
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:457084 original size:21 final size:21
Alignment explanation
Indices: 457017--457134 Score: 132
Period size: 21 Copynumber: 5.7 Consensus size: 21
457007 CTGCCAAGAA
*
457017 ATGTATCGATACATCTTTTTTT
1 ATGTATCGATACATC-TTTTTC
****
457039 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
457059 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
457080 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
457100 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
457121 ATGTATCGATACAT
1 ATGTATCGATACAT
457135 TGCAACATGT
Statistics
Matches: 77, Mismatches: 17, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
20 31 0.40
21 32 0.42
22 14 0.18
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:457090 original size:41 final size:41
Alignment explanation
Indices: 457017--457152 Score: 254
Period size: 41 Copynumber: 3.3 Consensus size: 41
457007 CTGCCAAGAA
*
457017 ATGTATCGATACATCTTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATC-TTTTTCATGTATCGATACATTGCAAC
457059 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
457100 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
457141 ATGTATCGATAC
1 ATGTATCGATAC
457153 TTTGAATTGT
Statistics
Matches: 93, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
41 78 0.84
42 15 0.16
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.40
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:459460 original size:13 final size:13
Alignment explanation
Indices: 459442--459479 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
459432 ATAAACACCC
459442 TGTATCGATACAG
1 TGTATCGATACAG
*
459455 TGTATCGATACAT
1 TGTATCGATACAG
459468 TGTATCGATACA
1 TGTATCGATACA
459480 AATAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:461579 original size:15 final size:15
Alignment explanation
Indices: 461559--461589 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
461549 ATTTCGTTTG
*
461559 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
461574 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
461589 G
1 G
461590 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:465669 original size:13 final size:13
Alignment explanation
Indices: 465651--465676 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
465641 CAATTTTTTG
465651 TGTATCGATACAT
1 TGTATCGATACAT
465664 TGTATCGATACAT
1 TGTATCGATACAT
465677 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:465741 original size:21 final size:21
Alignment explanation
Indices: 465715--465790 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
465705 CTGCCAAGAA
*
465715 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
465736 ATGTATCGATACAT-TACAAC
1 ATGTATCGATACATCTTTTTC
465756 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
465777 ATGTATCGATACAT
1 ATGTATCGATACAT
465791 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:465761 original size:20 final size:20
Alignment explanation
Indices: 465736--465808 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
465726 CATCTTTTTT
465736 ATGTATCGATACATTACAAC
1 ATGTATCGATACATTACAAC
****
465756 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TACAAC
*
465777 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTACAAC
465797 ATGTATCGATAC
1 ATGTATCGATAC
465809 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTACAAC
Found at i:465772 original size:41 final size:41
Alignment explanation
Indices: 465715--465808 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
465705 CTGCCAAGAA
*
465715 ATGTATCGATACATCTTTTTTATGTATCGATACATTACAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTACAAC
*
465756 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTACAAC
465797 ATGTATCGATAC
1 ATGTATCGATAC
465809 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTACAAC
Found at i:468333 original size:66 final size:65
Alignment explanation
Indices: 468226--468398 Score: 152
Period size: 66 Copynumber: 2.6 Consensus size: 65
468216 TTGTTTAACA
* * * * *
468226 CCAAAGTTGCTTTGTATGGTTTCATCTTAGCCAATCTTTTTTTCGACTTAGATTTTGCCGTGGTC
1 CCAAAATTGGTTTGTATGGTTTCATCTGAGCCAACCCTTTTTT--ACTTAGATTTTGCCGTGGTC
468291 A-
64 AT
* * * * * *
468292 CCAAAATTTGTTTGTATGGTTTCATCTCGA-CCTACCCTTTTTTATTTAGGTTTTGTCTTGGTCA
1 CCAAAATTGGTTTGTATGGTTTCATCT-GAGCCAACCCTTTTTTACTTAGATTTTGCCGTGGTCA
468356 T
65 T
** ** * *
468357 TTAAAATTGGTTTGTATGGTTTTGTCTCAGCCAACCCCTTTT
1 CCAAAATTGGTTTGTATGGTTTCATCTGAGCCAACCCTTTTT
468399 CAACTTAGGT
Statistics
Matches: 85, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
64 18 0.21
65 32 0.38
66 34 0.40
67 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.17, T:0.46
Consensus pattern (65 bp):
CCAAAATTGGTTTGTATGGTTTCATCTGAGCCAACCCTTTTTTACTTAGATTTTGCCGTGGTCAT
Found at i:468457 original size:66 final size:65
Alignment explanation
Indices: 468385--468594 Score: 172
Period size: 66 Copynumber: 3.2 Consensus size: 65
468375 GTTTTGTCTC
* *
468385 AGCCAACCCCTTTTCAACTTAGGTTTCACCCT-ATTCACCCAAAGTAGATTCATATTGTTTCATC
1 AGCCAA-CCCTTTTCAACTTAAGTTTCACCCTGA-TCACCCAAAGTAGATTCATATGGTTTCATC
468449 CT
64 CT
* ** * *** * * *
468451 AGCCAACCTTTTTTTACTTAAGTTTCATCCTGATCATTAAAAGTTGGTTCGTATGGTTTCATTCC
1 AGCCAACCCTTTTCAACTTAAGTTTCACCCTGATCACCCAAAGTAGATTCATATGGTTTCA-TCC
468516 T
65 T
* * * ** * * ** *
468517 A-TCAACCTTTTTTCAATTTAAGTTTCACCCTGATCACCCTTACTCGATTCATATGGTTTTGTCT
1 AGCCAACC-CTTTTCAACTTAAGTTTCACCCTGATCACCCAAAGTAGATTCATATGGTTTCATCC
468581 T
65 T
468582 AGCCAACCCTTTT
1 AGCCAACCCTTTT
468595 TTACTTAGGT
Statistics
Matches: 109, Mismatches: 31, Indels: 9
0.73 0.21 0.06
Matches are distributed among these distances:
65 54 0.50
66 55 0.50
ACGTcount: A:0.23, C:0.26, G:0.10, T:0.40
Consensus pattern (65 bp):
AGCCAACCCTTTTCAACTTAAGTTTCACCCTGATCACCCAAAGTAGATTCATATGGTTTCATCCT
Found at i:468494 original size:65 final size:66
Alignment explanation
Indices: 468395--468552 Score: 169
Period size: 65 Copynumber: 2.4 Consensus size: 66
468385 AGCCAACCCC
* *** *
468395 TTTTCAACTTAGGTTTCACCCT-ATTCACCCAAAGTAGATTCATATTGTTTCA-TCCTAGCCAAC
1 TTTTCAACTTAAGTTTCACCCTGA-TCATTAAAAGTAGATTCATATGGTTTCATTCCTA-CCAAC
468458 CTT
64 CTT
* * * * * *
468461 TTTT-TACTTAAGTTTCATCCTGATCATTAAAAGTTGGTTCGTATGGTTTCATTCCTATCAACCT
1 TTTTCAACTTAAGTTTCACCCTGATCATTAAAAGTAGATTCATATGGTTTCATTCCTACCAACCT
468525 T
66 T
*
468526 TTTTCAATTTAAGTTTCACCCTGATCA
1 TTTTCAACTTAAGTTTCACCCTGATCA
468553 CCCTTACTCG
Statistics
Matches: 75, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
65 46 0.61
66 29 0.39
ACGTcount: A:0.25, C:0.23, G:0.10, T:0.42
Consensus pattern (66 bp):
TTTTCAACTTAAGTTTCACCCTGATCATTAAAAGTAGATTCATATGGTTTCATTCCTACCAACCT
T
Found at i:468687 original size:131 final size:131
Alignment explanation
Indices: 468395--468739 Score: 347
Period size: 131 Copynumber: 2.6 Consensus size: 131
468385 AGCCAACCCC
* ** * * *
468395 TTTTCAACTTAGGTTTCACCCTATTCACCCAAAGTAGATTCATATTGTTTCATCCTAGCCAACCT
1 TTTTCAACTTAGGTTTCACCCTAGTCACCCTTAGTAGATTCATATGGTTTCATCTTAGCCAACCC
* * * * * *
468460 TTTTTTACTTAAGTTTCATCCTGATCATTAAAAGTTGGTTCGTATGGTTTCATTCCTATCAACCT
66 TTTTTTACTTAGGTTTTATCCTGATCATCAAAAGTTAGTTCGTATGGTTTCATCCCGATCAACCT
468525 T
131 T
* * * * **
468526 TTTTCAATTTAAGTTTCACCCT-GATCACCCTTACTCGATTCATATGGTTTTGTCTTAGCCAACC
1 TTTTCAACTTAGGTTTCACCCTAG-TCACCCTTAGTAGATTCATATGGTTTCATCTTAGCCAACC
* * * * * *
468590 CTTTTTTACTTAGGTTTTATCCT-ATTCATCCAAAGTTAGTTTGTTTGGTTTTATCCCGGTTAAC
65 CTTTTTTACTTAGGTTTTATCCTGA-TCATCAAAAGTTAGTTCGTATGGTTTCATCCCGATCAAC
468654 CTT
129 CTT
** * * * *
468657 TTTTTGACTTAGGTTTCTCCCTAGTCACCCTTAGTTGGTTCGTATGGTTTCATCTT-GACCAA-C
1 TTTTCAACTTAGGTTTCACCCTAGTCACCCTTAGTAGATTCATATGGTTTCATCTTAG-CCAACC
*
468720 CTTTTTCGACTTAGGTTTTA
65 CTTTTT-TACTTAGGTTTTA
468740 CCTTGGTTAT
Statistics
Matches: 173, Mismatches: 36, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
130 9 0.05
131 163 0.94
132 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.13, T:0.44
Consensus pattern (131 bp):
TTTTCAACTTAGGTTTCACCCTAGTCACCCTTAGTAGATTCATATGGTTTCATCTTAGCCAACCC
TTTTTTACTTAGGTTTTATCCTGATCATCAAAAGTTAGTTCGTATGGTTTCATCCCGATCAACCT
T
Found at i:468869 original size:117 final size:116
Alignment explanation
Indices: 468689--468902 Score: 286
Period size: 117 Copynumber: 1.8 Consensus size: 116
468679 AGTCACCCTT
* * * *
468689 AGTTGGTTCGTATGGTTTCATCTTGACCAACCTTTTTCGACTTAGGTTTTACCTTGGTTATCCAA
1 AGTTGGTTCGTATCGTTTCATCTAGACCAACCTTTTTCGACTTAGGTTTTACCTTGATCATCCAA
* * *
468754 TGCTGGTTCAAATGGTTTTGTCTTAGCCAACCCCTTCACCCTATCATCAAA
66 AGCTGGTTCAAATGATTTTGTCTCAGCCAACCCCTTCACCCTATCATCAAA
* * **
468805 AGTTGGTTTGTATCGTTTCATCCTAG-CCAACTCTTTTTTGACTTAGGTTTTGTCTTGATCATCC
1 AGTTGGTTCGTATCGTTTCAT-CTAGACCAAC-CTTTTTCGACTTAGGTTTTACCTTGATCATCC
* *
468869 AAAGTTGGTTCATATGATTTTGTCTCAGCCAACC
64 AAAGCTGGTTCAAATGATTTTGTCTCAGCCAACC
468903 TTTTTTTGAC
Statistics
Matches: 83, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
116 24 0.29
117 59 0.71
ACGTcount: A:0.20, C:0.22, G:0.17, T:0.41
Consensus pattern (116 bp):
AGTTGGTTCGTATCGTTTCATCTAGACCAACCTTTTTCGACTTAGGTTTTACCTTGATCATCCAA
AGCTGGTTCAAATGATTTTGTCTCAGCCAACCCCTTCACCCTATCATCAAA
Found at i:468974 original size:66 final size:66
Alignment explanation
Indices: 468803--469094 Score: 263
Period size: 66 Copynumber: 4.4 Consensus size: 66
468793 CCTATCATCA
** *
468803 AAAGTTGGTTTGTATCG-TTTCATCCTAGCCAA-CTC-TTTTTTGACTTAGGTTTTGTCTTGATC
1 AAAGTTGGTTTGTAT-GATTTCATCCTAGCCAATC-CATTTTTTGACTTAGGTTTCATCTTGGTC
468865 ATCC
64 A-CC
** ** * *
468869 AAAGTTGGTTCATATGATTTTGT-CTCAGCCAA-CCTTTTTTTGACTCAGGTTTCATCTTGGTCA
1 AAAGTTGGTTTGTATGATTTCATCCT-AGCCAATCCATTTTTTGACTTAGGTTTCATCTTGGTCA
*
468932 CT
65 CC
** * * * * *
468934 AAAGTTATTTTGTATGGTTTTATCCTAGCCAAATCC-TTTTTCGACTTAGGTTCCACCTTGGTCA
1 AAAGTTGGTTTGTATGATTTCATCCTAGCC-AATCCATTTTTTGACTTAGGTTTCATCTTGGTCA
468998 CC
65 CC
* * *** * *
469000 AAAGTTGGTTTGTATAATTTCATCCTAGCCAATCCATTTTTTGACTTAAGTTTTGCCCTAGTCAC
1 AAAGTTGGTTTGTATGATTTCATCCTAGCCAATCCATTTTTTGACTTAGGTTTCATCTTGGTCAC
469065 C
66 C
* *
469066 AAAGTTGGTTCGTATGATTTTATCCTAGC
1 AAAGTTGGTTTGTATGATTTCATCCTAGC
469095 TTAGGTTTTG
Statistics
Matches: 184, Mismatches: 35, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
65 31 0.17
66 151 0.82
67 2 0.01
ACGTcount: A:0.21, C:0.20, G:0.16, T:0.42
Consensus pattern (66 bp):
AAAGTTGGTTTGTATGATTTCATCCTAGCCAATCCATTTTTTGACTTAGGTTTCATCTTGGTCAC
C
Found at i:469081 original size:132 final size:131
Alignment explanation
Indices: 468788--469094 Score: 305
Period size: 132 Copynumber: 2.3 Consensus size: 131
468778 AGCCAACCCC
* * * * *
468788 TTCACCCTA-TCATCAAAAGTTGGTTTGTATCGTTTCATCCTAGCCAACTCTTTTTTGACTTAGG
1 TTCACCCTAGTCA-CCAAAGTTGGTTTGTATGGTTTTATCCTAGCCAAATCTTTTTCGACTTAGG
**** * ** * *
468852 TTTTGTCTTGATCATCCAAAGTTGGTTCATATGATTTTGTCTCAGCCAACCTTTTTTTGACTCAG
65 TTCCACCTTGATCATCCAAAGTTGGTTCATATAATTTCATCTCAGCCAACCATTTTTTGACTCAA
468917 GT
130 GT
* * * * **
468919 TTCATCTTGGTCACTAAAGTTATTTTGTATGGTTTTATCCTAGCCAAATCCTTTTTCGACTTAGG
1 TTCACCCTAGTCACCAAAGTTGGTTTGTATGGTTTTATCCTAGCCAAAT-CTTTTTCGACTTAGG
* ** *
468984 TTCCACCTTGGTCA-CCAAAGTTGGTTTGTATAATTTCATC-CTAGCCAATCCATTTTTTGACTT
65 TTCCACCTTGATCATCCAAAGTTGGTTCATATAATTTCATCTC-AGCCAA-CCATTTTTTGACTC
469047 AAGT
128 AAGT
** * *
469051 TTTGCCCTAGTCACCAAAGTTGGTTCGTATGATTTTATCCTAGC
1 TTCACCCTAGTCACCAAAGTTGGTTTGTATGGTTTTATCCTAGC
469095 TTAGGTTTTG
Statistics
Matches: 139, Mismatches: 33, Indels: 7
0.78 0.18 0.04
Matches are distributed among these distances:
130 1 0.01
131 63 0.45
132 75 0.54
ACGTcount: A:0.21, C:0.21, G:0.15, T:0.42
Consensus pattern (131 bp):
TTCACCCTAGTCACCAAAGTTGGTTTGTATGGTTTTATCCTAGCCAAATCTTTTTCGACTTAGGT
TCCACCTTGATCATCCAAAGTTGGTTCATATAATTTCATCTCAGCCAACCATTTTTTGACTCAAG
T
Found at i:469488 original size:65 final size:65
Alignment explanation
Indices: 469110--469508 Score: 218
Period size: 65 Copynumber: 6.1 Consensus size: 65
469100 TTTTGTTCTA
* * * * *
469110 GTCATCCAAAGTTGGTTCATATGGTTTTATCTTAGCCAA-CCACTTTTTAACTTAGATTTCATCC
1 GTCA-CCAAAGTTGGTTCATATGGTTTTATCCTGGCCAATCC-CTTTTTAACTTAGGTTCCACCC
469174 TG
64 TG
** * * * * **
469176 GTTGCCTAAGGTTGGTTCATATGGTTTCT-T-CTCGACCAAT-CTTTTTTTACTTAGGTTTTACC
1 GTCACC-AAAGTTGGTTCATATGGTTT-TATCCT-GGCCAATCCCTTTTTAACTTAGGTTCCACC
469238 CTG
63 CTG
* * * ** * * * * *** *
469241 ATCATCAAAATTGGTTTGTATGGTTTCATCTTGGCCAA-CCCTTTTTTACTTAGGTTTCATTTTA
1 GTCACCAAAGTTGGTTCATATGGTTTTATCCTGGCCAATCCCTTTTTAACTTAGGTTCCACCCTG
* * * ** * * * *
469305 GTCATCCAAAGTTGGTTTATTTGGTTTCATCCAAGCTAAT-CTTTTTTCGACTTAGGTTCTACCC
1 GTCA-CCAAAGTTGGTTCATATGGTTTTATCCTGGCCAATCCCTTTTT-AACTTAGGTTCCACCC
469369 TG
64 TG
** * ** ** * * *
469371 GTCACCCGTAGTTGG-TCGTATGGTTTGGTTTTGACTAATCCCTTTTTGACTTAGGTTCCACCCT
1 GTCA-CCAAAGTTGGTTCATATGGTTTTATCCTGGCCAATCCCTTTTTAACTTAGGTTCCACCCT
469435 G
65 G
* * * * * *
469436 GTCACCAAAGTTGGATCGTATGGTTTTATCCTGGCCAATCCCTTTTCAACTTAAGTTCTACCTTG
1 GTCACCAAAGTTGGTTCATATGGTTTTATCCTGGCCAATCCCTTTTTAACTTAGGTTCCACCCTG
469501 GTCACCAA
1 GTCACCAA
469509 TGGAATAAAG
Statistics
Matches: 248, Mismatches: 73, Indels: 25
0.72 0.21 0.07
Matches are distributed among these distances:
64 52 0.21
65 139 0.56
66 56 0.23
67 1 0.00
ACGTcount: A:0.20, C:0.22, G:0.17, T:0.42
Consensus pattern (65 bp):
GTCACCAAAGTTGGTTCATATGGTTTTATCCTGGCCAATCCCTTTTTAACTTAGGTTCCACCCTG
Found at i:470853 original size:63 final size:63
Alignment explanation
Indices: 470716--470864 Score: 192
Period size: 63 Copynumber: 2.4 Consensus size: 63
470706 ATGATTTTGT
** * * * *
470716 CCTTGTCAATCTTTTTGACAAAAAGTTCTTTCCTAGTCACCTTTTTGACTATTATGGTTTCAC
1 CCTTGTCAATCTTTTTGACTGAAAGTCCTGTCCGAGTCACCTCTTTGACTATTATGGTTTCAC
* *
470779 CCTAGTTAATCTTTTTGACTGAAAGTCCTGTCCGAGTCACCTCTTTGACTATTATGGTTTC-C
1 CCTTGTCAATCTTTTTGACTGAAAGTCCTGTCCGAGTCACCTCTTTGACTATTATGGTTTCAC
* *
470841 CCATTGTCAATCTTTCTAACTGAA
1 CC-TTGTCAATCTTTTTGACTGAA
470865 GGTTTCGCAC
Statistics
Matches: 73, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
62 3 0.04
63 70 0.96
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.42
Consensus pattern (63 bp):
CCTTGTCAATCTTTTTGACTGAAAGTCCTGTCCGAGTCACCTCTTTGACTATTATGGTTTCAC
Found at i:470881 original size:63 final size:63
Alignment explanation
Indices: 470640--470864 Score: 170
Period size: 63 Copynumber: 3.6 Consensus size: 63
470630 CATTCATAGA
* * * * * *
470640 ATTATGGTTTCACCCTAGTCAATCTTT-TGACTAGTAAGTTAC-G-CCTTAGTTACCTCTTTAAT
1 ATTATGGTTTCACCCTAGTCAATCTTTCTAACT-GAAAG-TCCTGTCC-TAGTCACCTCTTTGAC
470702 T
63 T
* * *** * * * ** * * *
470703 ATAATGATTTTGTCCTTGTCAATCTTTTTGACAAAAAGTTCTTTCCTAGTCACCTTTTTGACT
1 ATTATGGTTTCACCCTAGTCAATCTTTCTAACTGAAAGTCCTGTCCTAGTCACCTCTTTGACT
* * * *
470766 ATTATGGTTTCACCCTAGTTAATCTTTTTGACTGAAAGTCCTGTCCGAGTCACCTCTTTGACT
1 ATTATGGTTTCACCCTAGTCAATCTTTCTAACTGAAAGTCCTGTCCTAGTCACCTCTTTGACT
*
470829 ATTATGGTTTC-CCCATTGTCAATCTTTCTAACTGAA
1 ATTATGGTTTCACCC-TAGTCAATCTTTCTAACTGAA
470865 GGTTTCGCAC
Statistics
Matches: 126, Mismatches: 32, Indels: 8
0.76 0.19 0.05
Matches are distributed among these distances:
62 5 0.04
63 115 0.91
64 6 0.05
ACGTcount: A:0.23, C:0.21, G:0.13, T:0.43
Consensus pattern (63 bp):
ATTATGGTTTCACCCTAGTCAATCTTTCTAACTGAAAGTCCTGTCCTAGTCACCTCTTTGACT
Found at i:473810 original size:18 final size:18
Alignment explanation
Indices: 473783--473823 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
473773 AGGATACTTT
* *
473783 ATTAATATTTTTAATAAA
1 ATTAAAATTTTTAAAAAA
473801 ATTAAAATTTTTAAAAAA
1 ATTAAAATTTTTAAAAAA
473819 ATTAA
1 ATTAA
473824 GGTAATGTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATTAAAATTTTTAAAAAA
Found at i:474955 original size:63 final size:63
Alignment explanation
Indices: 474688--475222 Score: 289
Period size: 63 Copynumber: 8.5 Consensus size: 63
474678 ACCCCAGTCT
* * * * * * * *
474688 ACCTTGGTCACCTCTTTGATTATCATGGTTTCGCCTTAGTCAATCTTTT-TGATTAAAGATTTC
1 ACCTTGGTCACCTCTTTGACTATTATGGTTTCACCTTAGTCAAT-TTTTCTAACTGAAGGTTCC
* * * * * * * * * * * **
474751 GCCCTAGTCATCTCTTTAACTATGATGGTTTCACCCTATTCTATTTTTCTAACTAAAAGTTTT
1 ACCTTGGTCACCTCTTTGACTATTATGGTTTCACCTTAGTCAATTTTTCTAACTGAAGGTTCC
* * * * * * * **
474814 GCCTTGATCACCTCTTTAACTATTATGCTCTCGCCTTAGTCAATCTTTT-TAGCTGAAGGTTTT
1 ACCTTGGTCACCTCTTTGACTATTATGGTTTCACCTTAGTCAAT-TTTTCTAACTGAAGGTTCC
* * * * *
474877 GCCCTAGTCATCTCTTTGACTATTATGGTTTCACCTTAGTTAATTTTTCTAACTGAAGGTTCC
1 ACCTTGGTCACCTCTTTGACTATTATGGTTTCACCTTAGTCAATTTTTCTAACTGAAGGTTCC
* * * *
474940 ACCTCGGTCACCTCTTTGACAATTATGGTTTCACCCTT-GTCAATCTTTC-GACTGAA-GTTCC
1 ACCTTGGTCACCTCTTTGACTATTATGGTTTCA-CCTTAGTCAATTTTTCTAACTGAAGGTTCC
* * * ** * * * * *
475001 ATCTTGGTTACCTATTTGACTATTATGGTTTTGCCTTAGTCAATCTTTCCAACTAAAGTTTTC
1 ACCTTGGTCACCTCTTTGACTATTATGGTTTCACCTTAGTCAATTTTTCTAACTGAAGGTTCC
* * ** * ** * ** * *
475064 A-TTCTGATCATATCTTTGA-TACTATGGTTTGGCCTTAGCCAATCATTCTAACTAAAGGTTTC
1 ACCT-TGGTCACCTCTTTGACTATTATGGTTTCACCTTAGTCAATTTTTCTAACTGAAGGTTCC
* * * * * * * *
475126 GCCCTGGTTACC-CTTTTAACTATTATGGTTTCACCTT-GATCAATCTTTTC-GATTAAAAGTTC
1 ACCTTGGTCACCTC-TTTGACTATTATGGTTTCACCTTAG-TCAAT-TTTTCTAACTGAAGGTTC
475188 C
63 C
** *
475189 ACCTTGGTCATTTCTTTAACTATTATGGTTTCAC
1 ACCTTGGTCACCTCTTTGACTATTATGGTTTCAC
475223 TTATTATGGT
Statistics
Matches: 361, Mismatches: 97, Indels: 28
0.74 0.20 0.06
Matches are distributed among these distances:
60 4 0.01
61 43 0.12
62 66 0.18
63 236 0.65
64 12 0.03
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.43
Consensus pattern (63 bp):
ACCTTGGTCACCTCTTTGACTATTATGGTTTCACCTTAGTCAATTTTTCTAACTGAAGGTTCC
Found at i:474982 original size:126 final size:126
Alignment explanation
Indices: 474688--475220 Score: 359
Period size: 126 Copynumber: 4.3 Consensus size: 126
474678 ACCCCAGTCT
* * *
474688 ACCTTGGTCACCTCTTTGATTATCATGGTTTCGCCTTAGTCAATCTTTTTGATTAAAGATTTCGC
1 ACCTTGGTCACCTCTTTGACTATTATGGTTTCGCCTTAGTCAATCTTTTTGACTAAAGATTTCGC
* **
474753 CCTAGTCATCTCTTTAACTATGATGGTTTCACCCTATTCTATTTTTCTAACTAAAAGTTTT
66 CCTAGTCATCTCTTTAACTATGATGGTTTCACCCTATTCAATTTTTCTAACTAAAAGTTCC
* * * * * * * *
474814 GCCTTGATCACCTCTTTAACTATTATGCTCTCGCCTTAGTCAATCTTTTT-AGCTGAAGGTTTTG
1 ACCTTGGTCACCTCTTTGACTATTATGGTTTCGCCTTAGTCAATCTTTTTGA-CTAAAGATTTCG
* * * * *
474878 CCCTAGTCATCTCTTTGACTATTATGGTTTCACCTTAGTT-AATTTTTCTAACTGAAGGTTCC
65 CCCTAGTCATCTCTTTAACTATGATGGTTTCACCCTA-TTCAATTTTTCTAACTAAAAGTTCC
* * * * * * *
474940 ACCTCGGTCACCTCTTTGACAATTATGGTTTCACCCTT-GTCAATC-TTTCGACTGAAG-TTCCA
1 ACCTTGGTCACCTCTTTGACTATTATGGTTTC-GCCTTAGTCAATCTTTTTGACTAAAGATTTCG
* * * * * * * * ** * * * * *
475002 TCTTGGTTACCTATTTGACTATTATGGTTTTGCCTTAGTCAATCTTTCCAACT-AAAGTTTTC
65 CCCTAGTCATCTCTTTAACTATGATGGTTTCACCCTATTCAATTTTTCTAACTAAAAG-TTCC
* * ** * * * * * * *
475064 A-TTCTGATCATATCTTTGA-TACTATGGTTTGGCCTTAGCCAATCATTCTAACTAAAGGTTTCG
1 ACCT-TGGTCACCTCTTTGACTATTATGGTTTCGCCTTAGTCAATCTTTTTGACTAAAGATTTCG
* * * * * * *
475127 CCCTGGTTA-CCCTTTTAACTATTATGGTTTCACCTTGA-TCAATCTTTTC-GATTAAAAGTTCC
65 CCCTAGTCATCTC-TTTAACTATGATGGTTTCACCCT-ATTCAAT-TTTTCTAACTAAAAGTTCC
** *
475189 ACCTTGGTCATTTCTTTAACTATTATGGTTTC
1 ACCTTGGTCACCTCTTTGACTATTATGGTTTC
475221 ACTTATTATG
Statistics
Matches: 314, Mismatches: 77, Indels: 32
0.74 0.18 0.08
Matches are distributed among these distances:
122 4 0.01
123 20 0.06
124 66 0.21
125 63 0.20
126 155 0.49
127 6 0.02
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.43
Consensus pattern (126 bp):
ACCTTGGTCACCTCTTTGACTATTATGGTTTCGCCTTAGTCAATCTTTTTGACTAAAGATTTCGC
CCTAGTCATCTCTTTAACTATGATGGTTTCACCCTATTCAATTTTTCTAACTAAAAGTTCC
Found at i:475174 original size:32 final size:31
Alignment explanation
Indices: 475138--475222 Score: 75
Period size: 31 Copynumber: 2.7 Consensus size: 31
475128 CCTGGTTACC
475138 CTTTTAACTATTATGGTTTCACCTTGATCAAT
1 CTTTTAACTATTATGGTTTCACCTTGATC-AT
* ** * *
475170 CTTTT--CGATTAAAAGTTCCACCTTGGTCAT
1 CTTTTAACTATT-ATGGTTTCACCTTGATCAT
*
475200 TTCTTTAACTATTATGGTTTCAC
1 CT-TTTAACTATTATGGTTTCAC
475223 TTATTATGGT
Statistics
Matches: 39, Mismatches: 10, Indels: 8
0.68 0.18 0.14
Matches are distributed among these distances:
30 7 0.18
31 16 0.41
32 12 0.31
33 4 0.10
ACGTcount: A:0.24, C:0.20, G:0.11, T:0.46
Consensus pattern (31 bp):
CTTTTAACTATTATGGTTTCACCTTGATCAT
Found at i:475229 original size:15 final size:15
Alignment explanation
Indices: 475209--475239 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
475199 TTTCTTTAAC
475209 TATTATGGTTTCACT
1 TATTATGGTTTCACT
475224 TATTATGGTTTCACT
1 TATTATGGTTTCACT
475239 T
1 T
475240 GGTCAATCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.13, G:0.13, T:0.55
Consensus pattern (15 bp):
TATTATGGTTTCACT
Found at i:475274 original size:77 final size:78
Alignment explanation
Indices: 475146--475296 Score: 214
Period size: 77 Copynumber: 1.9 Consensus size: 78
475136 CCCTTTTAAC
* *
475146 TATTATGGTTTCACCTTGATCAATCTTTTCGATTAAAAGTTCCACCTTGGTCATTTCTTTAACTA
1 TATTATGGTTTCACCTTGATCAATCTTTTCGATTAAAAGTTACACCTTGGTCATCTCTTTAACTA
475211 TTATGGTTTCACT
66 TTATGGTTTCACT
* * * *** *
475224 TATTATGGTTTCA-CTTGGTCAATCTTTTTGATTAAAGGTTATGGCTTGGTCATCTCTTTCACTA
1 TATTATGGTTTCACCTTGATCAATCTTTTCGATTAAAAGTTACACCTTGGTCATCTCTTTAACTA
475288 TTATGGTTT
66 TTATGGTTT
475297 TGCCTTAGTC
Statistics
Matches: 64, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
77 51 0.80
78 13 0.20
ACGTcount: A:0.21, C:0.17, G:0.15, T:0.48
Consensus pattern (78 bp):
TATTATGGTTTCACCTTGATCAATCTTTTCGATTAAAAGTTACACCTTGGTCATCTCTTTAACTA
TTATGGTTTCACT
Found at i:475284 original size:63 final size:61
Alignment explanation
Indices: 475217--475376 Score: 160
Period size: 63 Copynumber: 2.5 Consensus size: 61
475207 ACTATTATGG
* * * * *
475217 TTTCACTTATTATGGTTTCACTTGGTCAATCTTTTTGATTAAAGGTTATGGCTTGGTCATCT
1 TTTCAC-TATTATGGTTTCACTTAGTCAATCTTTCTAACTAAAGGTTATGCCTTGGTCATCT
* *
475279 CTTTCACTATTATGGTTTTGC-CTTAGTCAATCTTTCTAACTGAAGGTTATGCCTTGTTCATCT
1 -TTTCACTATTATGG-TTT-CACTTAGTCAATCTTTCTAACTAAAGGTTATGCCTTGGTCATCT
* * * *
475342 TTTAGACTGTTATGGTTTCACCTTATTCAAACTTT
1 TTT-CACTATTATGGTTTCA-CTTAGTCAATCTTT
475377 TGACTAGTAA
Statistics
Matches: 81, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
61 1 0.01
62 14 0.17
63 65 0.80
64 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.47
Consensus pattern (61 bp):
TTTCACTATTATGGTTTCACTTAGTCAATCTTTCTAACTAAAGGTTATGCCTTGGTCATCT
Found at i:475652 original size:63 final size:62
Alignment explanation
Indices: 475573--475716 Score: 144
Period size: 63 Copynumber: 2.3 Consensus size: 62
475563 TTTTTGACTA
* * * ** *
475573 AAAGTATTACCTTAGTCACCTTTTTTACTATTATGATTTCGCTCTGGTCAATCATTCTAACT
1 AAAGTTTTACCCTAGTCACCTATTCGACTACTATGATTTCGCTCTGGTCAATCATTCTAACT
* * * * * *
475635 GAAAGTTTTACCCTAGTCTCCTATTCGATTACTATGGTTTTGCTTTGGTCAATCTTTCTAACT
1 -AAAGTTTTACCCTAGTCACCTATTCGACTACTATGATTTCGCTCTGGTCAATCATTCTAACT
**
475698 AAAGGTTCCACCCTAGTCA
1 AAA-GTTTTACCCTAGTCA
475717 TTTCTTTGAC
Statistics
Matches: 65, Mismatches: 15, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
62 3 0.05
63 62 0.95
ACGTcount: A:0.24, C:0.22, G:0.12, T:0.41
Consensus pattern (62 bp):
AAAGTTTTACCCTAGTCACCTATTCGACTACTATGATTTCGCTCTGGTCAATCATTCTAACT
Found at i:475735 original size:63 final size:63
Alignment explanation
Indices: 475668--475926 Score: 227
Period size: 63 Copynumber: 4.1 Consensus size: 63
475658 TTCGATTACT
* * * *
475668 ATGGTTTTGCTTTGGTCAATCTTTCTAACTAAAGGTTCCACCCTAGTCATTTCTTTGACTATC
1 ATGGTTTTGCCTTGGTCAATCTTTCTAACTAAAGGTTTCGCCCTAGTCACTTCTTTGACTATC
** * * * * * * * *
475731 ATGGTTTTGCCTTCATCAATATTTCCAATTGAAGGTTTTGCCCTGGTCACTTCTTTAACTATT
1 ATGGTTTTGCCTTGGTCAATCTTTCTAACTAAAGGTTTCGCCCTAGTCACTTCTTTGACTATC
* ** * *
475794 ATGGTTTTTCCTTATTCAACCTTT-TCAACTAAAGGTTTCGCACTAGTCA-TCTCTTTGACTATC
1 ATGGTTTTGCCTTGGTCAATCTTTCT-AACTAAAGGTTTCGCCCTAGTCACT-TCTTTGACTATC
** * * * * * *
475857 ATTATTTTGCGTTGGTCAATCTTTTTAACTAAATGG-TTCGCCTTGGTCACTTCTTTGGCTATT
1 ATGGTTTTGCCTTGGTCAATCTTTCTAACTAAA-GGTTTCGCCCTAGTCACTTCTTTGACTATC
475920 ATGGTTT
1 ATGGTTT
475927 CTCCCTAATT
Statistics
Matches: 150, Mismatches: 41, Indels: 10
0.75 0.20 0.05
Matches are distributed among these distances:
62 1 0.01
63 145 0.97
64 4 0.03
ACGTcount: A:0.20, C:0.20, G:0.15, T:0.45
Consensus pattern (63 bp):
ATGGTTTTGCCTTGGTCAATCTTTCTAACTAAAGGTTTCGCCCTAGTCACTTCTTTGACTATC
Found at i:475876 original size:126 final size:127
Alignment explanation
Indices: 475689--475926 Score: 291
Period size: 126 Copynumber: 1.9 Consensus size: 127
475679 TTGGTCAATC
* * *
475689 TTTCTAACTAAAGGTTCCACCCTAGTCATTTCTTTGACTATCATGGTTTTGCCTTCATCAATATT
1 TTTCTAACTAAAGGTTCCACACTAGTCATCTCTTTGACTATCATGATTTTGCCTTCATCAATATT
* * *
475754 TCCAATTGAA-GGTTTTGCCCTGGTCACTTCTTTAACTATTATGGTTTTTCCTTATTCAACCT
66 TCCAACTAAATGG-TTCGCCCTGGTCACTTCTTTAACTATTATGGTTTTTCCTTATTCAACCT
* * * * ** *
475816 TTTC-AACTAAAGGTTTCGCACTAGTCATCTCTTTGACTATCATTATTTTGCGTTGGTCAATCTT
1 TTTCTAACTAAAGGTTCCACACTAGTCATCTCTTTGACTATCATGATTTTGCCTTCATCAATATT
** * **
475880 TTTAACTAAATGGTTCGCCTTGGTCACTTCTTTGGCTATTATGGTTT
66 TCCAACTAAATGGTTCGCCCTGGTCACTTCTTTAACTATTATGGTTT
475927 CTCCCTAATT
Statistics
Matches: 92, Mismatches: 18, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
126 86 0.93
127 6 0.07
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.45
Consensus pattern (127 bp):
TTTCTAACTAAAGGTTCCACACTAGTCATCTCTTTGACTATCATGATTTTGCCTTCATCAATATT
TCCAACTAAATGGTTCGCCCTGGTCACTTCTTTAACTATTATGGTTTTTCCTTATTCAACCT
Found at i:476049 original size:48 final size:48
Alignment explanation
Indices: 475973--476065 Score: 123
Period size: 48 Copynumber: 1.9 Consensus size: 48
475963 TGGTTATCTC
* **
475973 TTTGACTATTATAGTATCGCCTTTGTTTATCTTTCTAACTAAAGGCTT
1 TTTGACTATTATAGTATCACCTAGGTTTATCTTTCTAACTAAAGGCTT
* * * *
476021 TTTGACTATTATGGTTTCACCTAGGTTTATCTTTTTAACTGAAGG
1 TTTGACTATTATAGTATCACCTAGGTTTATCTTTCTAACTAAAGG
476066 TTCCATTCTA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 38 1.00
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.47
Consensus pattern (48 bp):
TTTGACTATTATAGTATCACCTAGGTTTATCTTTCTAACTAAAGGCTT
Found at i:476157 original size:63 final size:63
Alignment explanation
Indices: 476021--476159 Score: 158
Period size: 63 Copynumber: 2.2 Consensus size: 63
476011 CTAAAGGCTT
** * *
476021 TTTGACTATTATGGTTTCACCTAGGTTTATCTTTTTAACTGAAGGTTCCATTCTAGTCACCTC
1 TTTGACTATTATGGTTTCACCTAGGTCAATCTTTTCAACTGAAGGTTCCACTCTAGTCACCTC
* * *
476084 TTTAACTATTATGGTTTCACC-ATGGTCAAT-TTTTCCAACTGAAGGTTCCAC-CTTGGTTACCT
1 TTTGACTATTATGGTTTCACCTA-GGTCAATCTTTT-CAACTGAAGGTTCCACTC-TAGTCACCT
476146 C
63 C
*
476147 TTTGATTATTATG
1 TTTGACTATTATG
476160 ATAGGTACCA
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
62 6 0.09
63 58 0.91
ACGTcount: A:0.22, C:0.20, G:0.14, T:0.44
Consensus pattern (63 bp):
TTTGACTATTATGGTTTCACCTAGGTCAATCTTTTCAACTGAAGGTTCCACTCTAGTCACCTC
Found at i:476250 original size:99 final size:99
Alignment explanation
Indices: 476073--476258 Score: 266
Period size: 99 Copynumber: 1.9 Consensus size: 99
476063 AGGTTCCATT
* * *
476073 CTAGTCACCTCTTTAACTATTATGGTTTCACCATGGTCAATTTTTCCAACTGAAGGTTCCACCTT
1 CTAGTCACCTCTTTAACTATTATAGTTTCACCATAGTCAATCTTTCCAACTGAAGGTTCCACCTT
* *
476138 GGTTACCTCTTTGATTATTATGATAGGTACCACC
66 GGTCACCTCTTTGACTATTATGATAGGTACCACC
* * * *
476172 CTAGTTACCTCTTTGACTATTATAGTTT-AGCCCTAGTCAATCTTTCTAACTGAAGGTTCCACCT
1 CTAGTCACCTCTTTAACTATTATAGTTTCA-CCATAGTCAATCTTTCCAACTGAAGGTTCCACCT
*
476236 TGGTCACCTTTTTGACTATTATG
65 TGGTCACCTCTTTGACTATTATG
476259 GTTTCACCTT
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
98 1 0.01
99 75 0.99
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.40
Consensus pattern (99 bp):
CTAGTCACCTCTTTAACTATTATAGTTTCACCATAGTCAATCTTTCCAACTGAAGGTTCCACCTT
GGTCACCTCTTTGACTATTATGATAGGTACCACC
Found at i:476315 original size:30 final size:30
Alignment explanation
Indices: 476224--476316 Score: 82
Period size: 30 Copynumber: 3.0 Consensus size: 30
476214 TTTCTAACTG
*
476224 AAGGTTCCACCTTGGTCACCTTTTTGACTATT
1 AAGGTTCCACCTTGGTCATC-TTTTGACTA-T
* * * *
476256 ATGGTTTCACCTTCGACAAT-TTTTCGACTA-
1 AAGGTTCCACCTTGGTC-ATCTTTT-GACTAT
476286 AAGGTTCCACCTTGGTCATCTCTTTGACTAT
1 AAGGTTCCACCTTGGTCATCT-TTTGACTAT
476317 TGTGGTTTCA
Statistics
Matches: 47, Mismatches: 9, Indels: 11
0.70 0.13 0.16
Matches are distributed among these distances:
29 2 0.04
30 19 0.40
31 7 0.15
32 18 0.38
33 1 0.02
ACGTcount: A:0.20, C:0.25, G:0.15, T:0.40
Consensus pattern (30 bp):
AAGGTTCCACCTTGGTCATCTTTTGACTAT
Found at i:476329 original size:32 final size:31
Alignment explanation
Indices: 476226--476341 Score: 94
Period size: 32 Copynumber: 3.7 Consensus size: 31
476216 TCTAACTGAA
*
476226 GGTTCCACCTTGGTCACCTTTTTGACTATTAT
1 GGTTCCACCTTGGTCATC-TTTTGACTATTAT
* * * *
476258 GGTTTCACCTTCGACAAT-TTTTCGACTA--AA
1 GGTTCCACCTTGGTC-ATCTTTT-GACTATTAT
*
476288 GGTTCCACCTTGGTCATCTCTTTGACTATTGT
1 GGTTCCACCTTGGTCATCT-TTTGACTATTAT
* *
476320 GGTTTCACCTTGATCAATCTTT
1 GGTTCCACCTTGGTC-ATCTTT
476342 CCATTGAGGA
Statistics
Matches: 65, Mismatches: 12, Indels: 14
0.71 0.13 0.15
Matches are distributed among these distances:
29 2 0.03
30 19 0.29
31 7 0.11
32 32 0.49
33 5 0.08
ACGTcount: A:0.18, C:0.24, G:0.16, T:0.42
Consensus pattern (31 bp):
GGTTCCACCTTGGTCATCTTTTGACTATTAT
Found at i:476356 original size:62 final size:62
Alignment explanation
Indices: 476178--476416 Score: 225
Period size: 62 Copynumber: 3.8 Consensus size: 62
476168 CACCCTAGTT
* * * *
476178 ACCTCTTTGACTATTATAGTTT-AGCCCT-AGTCAATCTTTCTAACTGAAGGTTCCACCTTGGTC
1 ACCTCTTTGACTATTATGGTTTCA-CCTTGA-TCAATCTTTC-CACTAAAGGTTCCACCTTGGTC
* * *
476241 ACCTTTTTGACTATTATGGTTTCACCTTCGA-CAATTTTTCGACTAAAGGTTCCACCTTGGTC
1 ACCTCTTTGACTATTATGGTTTCACCTT-GATCAATCTTTCCACTAAAGGTTCCACCTTGGTC
* * ** * **
476303 ATCTCTTTGACTATTGTGGTTTCACCTTGATCAATCTTTCCA-TTGAGGATTCCACCCTAATC
1 ACCTCTTTGACTATTATGGTTTCACCTTGATCAATCTTTCCACTAAAGG-TTCCACCTTGGTC
* * * * *
476365 ACCTCTTTGACTCTCAAGGTTTCACCTTAATCAATCATTTCCACTGAAGGTT
1 ACCTCTTTGACTATTATGGTTTCACCTTGATCAATC-TTTCCACTAAAGGTT
476417 TCAACCGGTA
Statistics
Matches: 145, Mismatches: 24, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
61 6 0.04
62 94 0.65
63 39 0.27
64 5 0.03
65 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.13, T:0.39
Consensus pattern (62 bp):
ACCTCTTTGACTATTATGGTTTCACCTTGATCAATCTTTCCACTAAAGGTTCCACCTTGGTC
Found at i:476416 original size:31 final size:30
Alignment explanation
Indices: 476320--476419 Score: 85
Period size: 31 Copynumber: 3.2 Consensus size: 30
476310 TGACTATTGT
* *
476320 GGTTTCACCTTGATCAATCTTTCCATTG-A
1 GGTTTCACCTTAATCAATCTTTCCACTGAA
* * * * * *
476349 GGATTCCACCCTAATCACCTCTTTGACTCTCAA
1 GG-TTTCACCTTAATCA-ATCTTT-CCACTGAA
476382 GGTTTCACCTTAATCAATCATTTCCACTGAA
1 GGTTTCACCTTAATCAATC-TTTCCACTGAA
476413 GGTTTCA
1 GGTTTCA
476420 ACCGGTAACC
Statistics
Matches: 52, Mismatches: 14, Indels: 8
0.70 0.19 0.11
Matches are distributed among these distances:
29 2 0.04
30 11 0.21
31 19 0.37
32 17 0.33
33 3 0.06
ACGTcount: A:0.24, C:0.28, G:0.12, T:0.36
Consensus pattern (30 bp):
GGTTTCACCTTAATCAATCTTTCCACTGAA
Found at i:481450 original size:15 final size:16
Alignment explanation
Indices: 481432--481473 Score: 68
Period size: 15 Copynumber: 2.7 Consensus size: 16
481422 GTATATATTT
481432 TTTTATATTTTCTT-A
1 TTTTATATTTTCTTAA
*
481447 TTTTATATTTTTTTAA
1 TTTTATATTTTCTTAA
481463 TTTTATATTTT
1 TTTTATATTTT
481474 TTTTATTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 13 0.52
16 12 0.48
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTATATTTTCTTAA
Found at i:481474 original size:16 final size:15
Alignment explanation
Indices: 481432--481476 Score: 72
Period size: 16 Copynumber: 2.9 Consensus size: 15
481422 GTATATATTT
*
481432 TTTTATATTTTCTTA
1 TTTTATATTTTTTTA
481447 TTTTATATTTTTTTAA
1 TTTTATATTTTTTT-A
481463 TTTTATATTTTTTT
1 TTTTATATTTTTTT
481477 TATTAATGTC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
15 13 0.46
16 15 0.54
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTATATTTTTTTA
Found at i:481480 original size:25 final size:25
Alignment explanation
Indices: 481425--481473 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
481415 TTTTTATGTA
*
481425 TATATTTTTTTATATTTTCTTATTT
1 TATATTTTTTTATATTTTATTATTT
481450 TATATTTTTTTA-ATTTTA-TATTT
1 TATATTTTTTTATATTTTATTATTT
481473 T
1 T
481474 TTTTATTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 6 0.26
24 5 0.22
25 12 0.52
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (25 bp):
TATATTTTTTTATATTTTATTATTT
Found at i:484297 original size:18 final size:18
Alignment explanation
Indices: 484274--484308 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
484264 TGGCTTTGAC
484274 CTTGGAGACTTCCTCACT
1 CTTGGAGACTTCCTCACT
484292 CTTGGAGACTTCCTCAC
1 CTTGGAGACTTCCTCAC
484309 CTTTAAGTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.34, G:0.17, T:0.31
Consensus pattern (18 bp):
CTTGGAGACTTCCTCACT
Found at i:484344 original size:43 final size:42
Alignment explanation
Indices: 484296--485206 Score: 512
Period size: 43 Copynumber: 21.2 Consensus size: 42
484286 CTCACTCTTG
* *
484296 GAGACTTCCTCACCTTTAAGTCTGCTTCTCGACTTTAACCTAA
1 GAGACTTCCTCACCCTTAAGTCTGCTTGTCGACTTTAACCT-A
* * * * * * **
484339 GAGACTTCCTCACCTTTAAGTCTACCTATCGATTTTTAGATA
1 GAGACTTCCTCACCCTTAAGTCTGCTTGTCGACTTTAACCTA
* * * *
484381 GGAGACTTCCTCACCCTTAAATCTGCTTATCGGCTTTGACCCTA
1 -GAGACTTCCTCACCCTTAAGTCTGCTTGTCGACTTT-AACCTA
* * * * *
484425 AAGACTTCCTCACCCTTAAGTCTACCTGTC-AGCTTTGACCTGG
1 GAGACTTCCTCACCCTTAAGTCTGCTTGTCGA-CTTTAACCT-A
* * * * *
484468 GAGACTTCTTCACCCTTAAGTCTTCCTGTCGGCTTTGACCCTA
1 GAGACTTCCTCACCCTTAAGTCTGCTTGTCGACTTT-AACCTA
* * * * *
484511 GAGACTTCCTCACCCTTAAGTCTGCCTG-CAAGTTTTGACCCTG
1 GAGACTTCCTCACCCTTAAGTCTGCTTGTCGA-CTTT-AACCTA
* * * *
484554 GAGACTGTCC-CACCCATAAGTCT-ATCTGTC-AGCTTTGACCTTG
1 GAGACT-TCCTCACCCTTAAGTCTGCT-TGTCGA-CTTTAACC-TA
* * * *
484597 GAGACTTCCTCACTCTTAAGTCTGCCTGTC-AGCTTTGACCCGA
1 GAGACTTCCTCACCCTTAAGTCTGCTTGTCGA-CTTT-AACCTA
* * * * * * *
484640 GAAACTTCTTCACCTTTAAGTCTGCTTATCGATTTTGACCCTG
1 GAGACTTCCTCACCCTTAAGTCTGCTTGTCGACTTT-AACCTA
* * * * * * *
484683 GAGTCTTCCTCACCCTTAAGTCTACCTATTGGCTTTGACCTTA
1 GAGACTTCCTCACCCTTAAGTCTGCTTGTCGACTTTAACC-TA
* * * * * * *
484726 GAGACTTCCTTACCCTTAAGTATGCATGTTGACGTTGACCCTC
1 GAGACTTCCTCACCCTTAAGTCTGCTTGTCGAC-TTTAACCTA
* * * * * *
484769 GAGACTCCCTCACCCTTAAGTCTGCCTG-CCAGTTTTGACCTTC
1 GAGACTTCCTCACCCTTAAGTCTGCTTGTCGA-CTTTAACC-TA
* * *
484812 GAGACTGT-CTCACCCTTAAGTCT-ATCTGTC-AGCTTTGACCTTT
1 GAGACT-TCCTCACCCTTAAGTCTGCT-TGTCGA-CTTTAACC-TA
* * * *
484855 GAGACTTCCTCACCCTTAAGTCTGCCTGTCGGCTTTGACCCGA
1 GAGACTTCCTCACCCTTAAGTCTGCTTGTCGACTTT-AACCTA
* * * * *
484898 GAGACTTCCTTACCTTTAAGTCTGCTTATCGATTTTGACCCTA
1 GAGACTTCCTCACCCTTAAGTCTGCTTGTCGACTTT-AACCTA
* * * * * * *
484941 GAGTCTTCCTCACCCTTAAGTCTACCTATTGGCTTTAACCTTG
1 GAGACTTCCTCACCCTTAAGTCTGCTTGTCGACTTTAACC-TA
* * ** * * *
484984 GAGACTTCTTCACCCTTAAGTCTGCATGTCCGTGTTGACCCTC
1 GAGACTTCCTCACCCTTAAGTCTGCTTGT-CGACTTTAACCTA
* * *
485027 GAGACTTCCTCACCCTTAAGTCTGCATGTCGGCTTTGACCCT-
1 GAGACTTCCTCACCCTTAAGTCTGCTTGTCGACTTT-AACCTA
* * * * *
485069 GAAGACTTCTTCACCCTTAAGTCTACCTGTCGGCTTTGACCCTA
1 G-AGACTTCCTCACCCTTAAGTCTGCTTGTCGACTTT-AACCTA
* * *
485113 GAGACTTCCTCACCCTTAAGTTTGCTTGTCGACTTTGACCTTG
1 GAGACTTCCTCACCCTTAAGTCTGCTTGTCGACTTTAACC-TA
* * * *
485156 GAGACTTCATTACCCTTAAGTCTGCTTGTCGGCTTAAACCTGA
1 GAGACTTCCTCACCCTTAAGTCTGCTTGTCGACTTTAACCT-A
485199 GAGACTTC
1 GAGACTTC
485207 TTTATCTTTC
Statistics
Matches: 678, Mismatches: 157, Indels: 66
0.75 0.17 0.07
Matches are distributed among these distances:
42 29 0.04
43 623 0.92
44 26 0.04
ACGTcount: A:0.20, C:0.30, G:0.17, T:0.34
Consensus pattern (42 bp):
GAGACTTCCTCACCCTTAAGTCTGCTTGTCGACTTTAACCTA
Found at i:484527 original size:129 final size:129
Alignment explanation
Indices: 484294--485187 Score: 927
Period size: 129 Copynumber: 6.9 Consensus size: 129
484284 TCCTCACTCT
* * * * * ** *
484294 TGGAGACTTCCTCACCTTTAAGTCTGCTTCTC-GACTTTAACCTAAGAGACTTCCTCACCTTTAA
1 TGGAGACTTCCTCACCCTTAAGTCTACCTGTCAG-CTTTGACCTTGGAGACTTCCTCACCCTTAA
* * ** * ** * *
484358 GTCTACCTATCGATTTTTA-GATAGGAGACTTCCTCACCCTTAAATCTGCTTATCGGCTTTGACC
65 GTCTGCCTGTCGGCTTTGACCCTA-GAGACTTCCTCACCCTTAAGTCTGCTTATCGGTTTTGACC
484422 C
129 C
** * *
484423 TAAAGACTTCCTCACCCTTAAGTCTACCTGTCAGCTTTGACCTGGGAGACTTCTTCACCCTTAAG
1 TGGAGACTTCCTCACCCTTAAGTCTACCTGTCAGCTTTGACCTTGGAGACTTCCTCACCCTTAAG
* * * *
484488 TCTTCCTGTCGGCTTTGACCCTAGAGACTTCCTCACCCTTAAGTCTGCCT-GCAAGTTTTGACCC
66 TCTGCCTGTCGGCTTTGACCCTAGAGACTTCCTCACCCTTAAGTCTGCTTATC-GGTTTTGACCC
* * *
484552 TGGAGACTGTCC-CACCCATAAGTCTATCTGTCAGCTTTGACCTTGGAGACTTCCTCACTCTTAA
1 TGGAGACT-TCCTCACCCTTAAGTCTACCTGTCAGCTTTGACCTTGGAGACTTCCTCACCCTTAA
* * * * * *
484616 GTCTGCCTGTCAGCTTTGACCCGAGAAACTTCTTCACCTTTAAGTCTGCTTATCGATTTTGACCC
65 GTCTGCCTGTCGGCTTTGACCCTAGAGACTTCCTCACCCTTAAGTCTGCTTATCGGTTTTGACCC
* * ** * *
484681 TGGAGTCTTCCTCACCCTTAAGTCTACCTATTGGCTTTGACCTTAGAGACTTCCTTACCCTTAAG
1 TGGAGACTTCCTCACCCTTAAGTCTACCTGTCAGCTTTGACCTTGGAGACTTCCTCACCCTTAAG
* * * * * * * * ** * *
484746 TATGCATGTTGACGTTGACCCTCGAGACTCCCTCACCCTTAAGTCTGCCTGCCAGTTTTGACCT
66 TCTGCCTGTCGGCTTTGACCCTAGAGACTTCCTCACCCTTAAGTCTGCTTATCGGTTTTGACCC
* * *
484810 TCGAGACTGT-CTCACCCTTAAGTCTATCTGTCAGCTTTGACCTTTGAGACTTCCTCACCCTTAA
1 TGGAGACT-TCCTCACCCTTAAGTCTACCTGTCAGCTTTGACCTTGGAGACTTCCTCACCCTTAA
* * * *
484874 GTCTGCCTGTCGGCTTTGACCCGAGAGACTTCCTTACCTTTAAGTCTGCTTATCGATTTTGACCC
65 GTCTGCCTGTCGGCTTTGACCCTAGAGACTTCCTCACCCTTAAGTCTGCTTATCGGTTTTGACCC
* * * ** * *
484939 TAGAGTCTTCCTCACCCTTAAGTCTACCTATTGGCTTTAACCTTGGAGACTTCTTCACCCTTAAG
1 TGGAGACTTCCTCACCCTTAAGTCTACCTGTCAGCTTTGACCTTGGAGACTTCCTCACCCTTAAG
* * * * * *
485004 TCTGCATGTCCG-TGTTGACCCTCGAGACTTCCTCACCCTTAAGTCTGCATGTCGGCTTTGACCC
66 TCTGCCTGTCGGCT-TTGACCCTAGAGACTTCCTCACCCTTAAGTCTGCTTATCGGTTTTGACCC
* * * * *
485068 TGAAGACTTCTTCACCCTTAAGTCTACCTGTCGGCTTTGACCCTAGAGACTTCCTCACCCTTAAG
1 TGGAGACTTCCTCACCCTTAAGTCTACCTGTCAGCTTTGACCTTGGAGACTTCCTCACCCTTAAG
* * * * * * * *
485133 TTTGCTTGTCGACTTTGACCTTGGAGACTTCATTACCCTTAAGTCTGCTTGTCGG
66 TCTGCCTGTCGGCTTTGACCCTAGAGACTTCCTCACCCTTAAGTCTGCTTATCGG
485188 CTTAAACCTG
Statistics
Matches: 626, Mismatches: 129, Indels: 20
0.81 0.17 0.03
Matches are distributed among these distances:
128 6 0.01
129 611 0.98
130 9 0.01
ACGTcount: A:0.19, C:0.30, G:0.17, T:0.34
Consensus pattern (129 bp):
TGGAGACTTCCTCACCCTTAAGTCTACCTGTCAGCTTTGACCTTGGAGACTTCCTCACCCTTAAG
TCTGCCTGTCGGCTTTGACCCTAGAGACTTCCTCACCCTTAAGTCTGCTTATCGGTTTTGACCC
Found at i:485202 original size:86 final size:84
Alignment explanation
Indices: 484292--485206 Score: 732
Period size: 86 Copynumber: 10.6 Consensus size: 84
484282 CTTCCTCACT
* * * * * * *
484292 CTTGGAGACTTCCTCACCTTTAAGTCTGCTTCTCGACTTTAACCTAAGAGACTTCCTCACCTTTA
1 CTTGGAGACTT-CTTACCCTTAAGTCTGCTTGTCGGCTTGACCCT-AGAGACTTCCTCACCCTTA
* * * * *
484357 AGTCTACCTATCGATTTTTAG
64 AGTCTGCCTGTCGACTTTGAC
* * * * * *
484378 ATAGGAGACTTCCTCACCCTTAAATCTGCTTATCGGCTTTGACCCTAAAGACTTCCTCACCCTTA
1 CTTGGAGACTT-CTTACCCTTAAGTCTGCTTGTCGGC-TTGACCCTAGAGACTTCCTCACCCTTA
*
484443 AGTCTACCTGTC-AGCTTTGAC
64 AGTCTGCCTGTCGA-CTTTGAC
* * *
484464 CTGGGAGACTTCTTCACCCTTAAGTCTTCCTGTCGGCTTTGACCCTAGAGACTTCCTCACCCTTA
1 CTTGGAGACTTCTT-ACCCTTAAGTCTGCTTGTCGGC-TTGACCCTAGAGACTTCCTCACCCTTA
* *
484529 AGTCTGCCTG-CAAGTTTTGAC
64 AGTCTGCCTGTCGA-CTTTGAC
* ** * * * * * *
484550 CCTGGAGACTGTCCCACCCATAAGTCT-ATCTGTCAGCTTTGACCTTGGAGACTTCCTCACTCTT
1 CTTGGAGACT-TCTTACCCTTAAGTCTGCT-TGTCGGC-TTGACCCTAGAGACTTCCTCACCCTT
484614 AAGTCTGCCTGTC-AGCTTTGAC
63 AAGTCTGCCTGTCGA-CTTTGAC
* * * * ** * *
484636 C-CGAGAAACTTCTTCACCTTTAAGTCTGCTTATCGATTTTGACCCTGGAGTCTTCCTCACCCTT
1 CTTG-GAGACTTCTT-ACCCTTAAGTCTGCTTGTCG-GCTTGACCCTAGAGACTTCCTCACCCTT
* * * *
484700 AAGTCTACCTATTGGCTTTGAC
63 AAGTCTGCCTGTCGACTTTGAC
* * * * * * *
484722 CTTAGAGACTTCCTTACCCTTAAGTATGCATGTTGACGTTGACCCTCGAGACTCCCTCACCCTTA
1 CTTGGAGACTT-CTTACCCTTAAGTCTGCTTGTCGGC-TTGACCCTAGAGACTTCCTCACCCTTA
* *
484787 AGTCTGCCTG-CCAGTTTTGAC
64 AGTCTGCCTGTCGA-CTTTGAC
* * * * * *
484808 CTTCGAGACTGTCTCACCCTTAAGTCT-ATCTGTCAGCTTTGACCTTTGAGACTTCCTCACCCTT
1 CTTGGAGACT-TCTTACCCTTAAGTCTGCT-TGTCGGC-TTGACCCTAGAGACTTCCTCACCCTT
*
484872 AAGTCTGCCTGTCGGCTTTGAC
63 AAGTCTGCCTGTCGACTTTGAC
* * * ** *
484894 C-CGAGAGACTTCCTTACCTTTAAGTCTGCTTATCGATTTTGACCCTAGAGTCTTCCTCACCCTT
1 CTTG-GAGACTT-CTTACCCTTAAGTCTGCTTGTCG-GCTTGACCCTAGAGACTTCCTCACCCTT
* * * * *
484958 AAGTCTACCTATTGGCTTTAAC
63 AAGTCTGCCTGTCGACTTTGAC
* *
484980 CTTGGAGACTTCTTCACCCTTAAGTCTGCATGTCCGTG-TTGACCCTCGAGACTTCCTCACCCTT
1 CTTGGAGACTTCTT-ACCCTTAAGTCTGCTTGT-CG-GCTTGACCCTAGAGACTTCCTCACCCTT
* *
485044 AAGTCTGCATGTCGGCTTTGAC
63 AAGTCTGCCTGTCGACTTTGAC
* * * *
485066 CCTGAAGACTTCTTCACCCTTAAGTCTACCTGTCGGCTTTGACCCTAGAGACTTCCTCACCCTTA
1 CTTGGAGACTTCTT-ACCCTTAAGTCTGCTTGTCGGC-TTGACCCTAGAGACTTCCTCACCCTTA
* *
485131 AGTTTGCTTGTCGACTTTGAC
64 AGTCTGCCTGTCGACTTTGAC
* *
485152 CTTGGAGACTTCATTACCCTTAAGTCTGCTTGTCGGCTTAAACCTGAGAGACTTC
1 CTTGGAGACTTC-TTACCCTTAAGTCTGCTTGTCGGCTTGACCCT-AGAGACTTC
485207 TTTATCTTTC
Statistics
Matches: 668, Mismatches: 131, Indels: 60
0.78 0.15 0.07
Matches are distributed among these distances:
84 1 0.00
85 19 0.03
86 627 0.94
87 21 0.03
ACGTcount: A:0.19, C:0.30, G:0.17, T:0.34
Consensus pattern (84 bp):
CTTGGAGACTTCTTACCCTTAAGTCTGCTTGTCGGCTTGACCCTAGAGACTTCCTCACCCTTAAG
TCTGCCTGTCGACTTTGAC
Found at i:485233 original size:42 final size:42
Alignment explanation
Indices: 485179--485260 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 42
485169 CCTTAAGTCT
*
485179 GCTTGTCGGCTTAAACCT-GAGAGACTTCTTT-ATCTTTCATCC
1 GCTTGTCAGCTTAAACCTAG-GAGACTT-TTTCATCTTTCATCC
485221 GCTTGTCAGCTTAAACCTAGGAGACTTTTTCATCTTTCAT
1 GCTTGTCAGCTTAAACCTAGGAGACTTTTTCATCTTTCAT
485261 TTGCCCATTG
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
41 3 0.08
42 33 0.89
43 1 0.03
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.39
Consensus pattern (42 bp):
GCTTGTCAGCTTAAACCTAGGAGACTTTTTCATCTTTCATCC
Found at i:486616 original size:165 final size:165
Alignment explanation
Indices: 486426--486794 Score: 385
Period size: 166 Copynumber: 2.2 Consensus size: 165
486416 CATTTTTATT
* * * * *
486426 AGTTTTTGAATTTTTTTCTTGAAACTTCTCTTTTTTCGAAATACGGTGTTTTTTA-CTCAGTAAT
1 AGTTTTTG-ATTTTTTTCTTGAAACTTCACTTTTTTCGAAATACAGTATTTTCTACCCCA-TAAT
* * * * *
486490 TTTTT-GAGAG-GTTTTTTCTCAGTTTTCAATTTTTAAAATTCATTAAATATTATTATTT-ATTT
64 TTTTTCGAG-GTGATTTTTCTCAGTTTTCAATTTTTAAAATTCATCAAACATCATCATTTGATTT
486552 CATATTT-ATTCT-GTTCTCAAAAATTCACTCACTTT-CATA
128 -AT-TTTAATT-TAGTTCTCAAAAATTCACTCA-TTTCCATA
* * ** *
486591 AGTTTTTGATTTTTTTCCATGAAAC-TCCCCATTTTCTGAAATATAGTATTTTCTACCCCATAAT
1 AGTTTTTGATTTTTTT-CTTGAAACTTCACTTTTTTC-GAAATACAGTATTTTCTACCCCATAAT
** *
486655 TTTTTCGAGGTGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAACATCATCATTTGATTTG
64 TTTTTCGAGGTGATTTTTCTCAGTTTTCAATTTTTAAAATTCATCAAACATCATCATTTGATTTA
* * *
486720 TTTTAATTTAGTTTTCAAAAATTCATTCATTTCCATG
129 TTTTAATTTAGTTCTCAAAAATTCACTCATTTCCATA
* * *
486757 AGTTTTGGATTTTTTTGTTGAAATTTCACTTTTTTCGA
1 AGTTTTTGATTTTTTTCTTGAAACTTCACTTTTTTCGA
486795 TAAACCAAGT
Statistics
Matches: 167, Mismatches: 27, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
164 16 0.10
165 53 0.32
166 94 0.56
167 4 0.02
ACGTcount: A:0.25, C:0.14, G:0.09, T:0.51
Consensus pattern (165 bp):
AGTTTTTGATTTTTTTCTTGAAACTTCACTTTTTTCGAAATACAGTATTTTCTACCCCATAATTT
TTTCGAGGTGATTTTTCTCAGTTTTCAATTTTTAAAATTCATCAAACATCATCATTTGATTTATT
TTAATTTAGTTCTCAAAAATTCACTCATTTCCATA
Found at i:488545 original size:86 final size:85
Alignment explanation
Indices: 488400--488630 Score: 259
Period size: 86 Copynumber: 2.7 Consensus size: 85
488390 AACTAAGAAT
* * * *
488400 TCTTCCTCGCCCTTAAGTCTACCTTTCGGCTTTGACC-CGAGAAACTTCCTTACCTTTAAGTCTA
1 TCTTCCTCACCCTTAAGTCTACCTTT-GGCTTTGACCTTG-GAGACTTCCTTACCCTTAAGTCTA
* * *
488464 CTTATCAATTTTGACCCTGGAG
64 CATATCAATGTTGACCCTCGAG
* *
488486 TCTTCCTCACCCTTAAGTCTACCTATTGGCTTTGACCTTGGAGACTTCCTCACCCTTAAGTCTGC
1 TCTTCCTCACCCTTAAGTCTACCT-TTGGCTTTGACCTTGGAGACTTCCTTACCCTTAAGTCTAC
* **
488551 ATGTCCGTGTTGACCCTCGAG
65 ATATCAATGTTGACCCTCGAG
* * * *
488572 ACTTCCTCACCCTTAAGTCT-GCTTGTCGACTTTGACCTTGGAGACTTCATTACCCTTAA
1 TCTTCCTCACCCTTAAGTCTACCTT-T-GGCTTTGACCTTGGAGACTTCCTTACCCTTAA
488631 CTCTGCTTGT
Statistics
Matches: 124, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
84 1 0.01
85 3 0.02
86 117 0.94
87 3 0.02
ACGTcount: A:0.19, C:0.31, G:0.15, T:0.35
Consensus pattern (85 bp):
TCTTCCTCACCCTTAAGTCTACCTTTGGCTTTGACCTTGGAGACTTCCTTACCCTTAAGTCTACA
TATCAATGTTGACCCTCGAG
Found at i:488636 original size:43 final size:42
Alignment explanation
Indices: 488401--488642 Score: 195
Period size: 43 Copynumber: 5.6 Consensus size: 42
488391 ACTAAGAATT
* * * *
488401 CTTCCTCGCCCTTAAGTCTACCTT-TCGGCTTTGACC-CGAGAAA
1 CTTCCTCACCCTTAAGTCT-GCTTGTC-GCTTTGACCTTG-GAGA
* * * * ** * *
488444 CTTCCTTACCTTTAAGTCTACTTATCAATTTTGACCCTGGAGT
1 CTTCCTCACCCTTAAGTCTGCTTGTC-GCTTTGACCTTGGAGA
* *
488487 CTTCCTCACCCTTAAGTCTACCTAT-TGGCTTTGACCTTGGAGA
1 CTTCCTCACCCTTAAGTCT-GCT-TGTCGCTTTGACCTTGGAGA
* * *
488530 CTTCCTCACCCTTAAGTCTGCATGTC-CGTGTTGACCCTCGAGA
1 CTTCCTCACCCTTAAGTCTGCTTGTCGC-T-TTGACCTTGGAGA
488573 CTTCCTCACCCTTAAGTCTGCTTGTCGACTTTGACCTTGGAGA
1 CTTCCTCACCCTTAAGTCTGCTTGTCG-CTTTGACCTTGGAGA
* * *
488616 CTTCATTACCCTTAACTCTGCTTGTCG
1 CTTCCTCACCCTTAAGTCTGCTTGTCG
488643 GCTTAAACCT
Statistics
Matches: 161, Mismatches: 29, Indels: 18
0.77 0.14 0.09
Matches are distributed among these distances:
41 2 0.01
42 6 0.04
43 146 0.91
44 5 0.03
45 2 0.01
ACGTcount: A:0.18, C:0.31, G:0.16, T:0.35
Consensus pattern (42 bp):
CTTCCTCACCCTTAAGTCTGCTTGTCGCTTTGACCTTGGAGA
Found at i:488934 original size:42 final size:42
Alignment explanation
Indices: 488888--488982 Score: 100
Period size: 42 Copynumber: 2.2 Consensus size: 42
488878 TTAGACTCGG
* * **
488888 GAGACTCCTTTATCATTCATCTGCTTATCGGCTTAGACCCAA
1 GAGACTCCTTCACCATTCATCTGCCCATCGGCTTAGACCCAA
* * * * *
488930 GAGACTTCTTCACCTTTCGTCTGCCCATCGGCTTTGACTCAA
1 GAGACTCCTTCACCATTCATCTGCCCATCGGCTTAGACCCAA
488972 GAGACTTCCTT
1 GAGAC-TCCTT
488983 ACCTTTCGTC
Statistics
Matches: 42, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
42 38 0.90
43 4 0.10
ACGTcount: A:0.20, C:0.31, G:0.16, T:0.34
Consensus pattern (42 bp):
GAGACTCCTTCACCATTCATCTGCCCATCGGCTTAGACCCAA
Found at i:489005 original size:42 final size:42
Alignment explanation
Indices: 488917--489009 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 42
488907 TCTGCTTATC
** *
488917 GGCTTAGACCCAAGAGACTTCTTCACCTTTCGTCTGCCCATC
1 GGCTTAGACCCAAGAGACTTCTTCACCTTTCGTCCACCCATA
* * * *
488959 GGCTTTGACTCAAGAGACTTCCTT-ACCTTTCGTCCACTCGTA
1 GGCTTAGACCCAAGAGACTT-CTTCACCTTTCGTCCACCCATA
489001 GGCTTAGAC
1 GGCTTAGAC
489010 ATGGGAGACT
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
42 39 0.93
43 3 0.07
ACGTcount: A:0.19, C:0.32, G:0.18, T:0.30
Consensus pattern (42 bp):
GGCTTAGACCCAAGAGACTTCTTCACCTTTCGTCCACCCATA
Found at i:491101 original size:12 final size:12
Alignment explanation
Indices: 491078--491129 Score: 65
Period size: 11 Copynumber: 4.5 Consensus size: 12
491068 TTTTTAGCTC
491078 AGAAAAAA-AAA
1 AGAAAAAATAAA
491089 AGAAAAAATAAA
1 AGAAAAAATAAA
491101 AG--AAAATAGAA
1 AGAAAAAATA-AA
*
491112 AGAAAAAATAGA
1 AGAAAAAATAAA
491124 AGAAAA
1 AGAAAA
491130 TAGAAGAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
10 6 0.17
11 12 0.33
12 12 0.33
13 6 0.17
ACGTcount: A:0.81, C:0.00, G:0.13, T:0.06
Consensus pattern (12 bp):
AGAAAAAATAAA
Found at i:491113 original size:23 final size:23
Alignment explanation
Indices: 491078--491139 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
491068 TTTTTAGCTC
* *
491078 AGAAAAAAAAAAGAAAAAATAAA
1 AGAAAATAGAAAGAAAAAATAAA
*
491101 AGAAAATAGAAAGAAAAAATAGA
1 AGAAAATAGAAAGAAAAAATAAA
491124 AGAAAATAG-AAGAAAA
1 AGAAAATAGAAAGAAAA
491140 TATAGGAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
22 7 0.19
23 29 0.81
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.06
Consensus pattern (23 bp):
AGAAAATAGAAAGAAAAAATAAA
Found at i:491130 original size:33 final size:30
Alignment explanation
Indices: 491078--491141 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 30
491068 TTTTTAGCTC
491078 AGAAAAAAAAAAGAAAAAATAAAAGAAAAT
1 AGAAAAAAAAAAGAAAAAATAAAAGAAAAT
*
491108 AGAAAGAAAAAATAGAAGAAAATAGAAGAAAAT
1 AGAAA-AAAAAA-AGAA-AAAATAAAAGAAAAT
491141 A
1 A
491142 TAGGAAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 5 0.17
31 6 0.20
32 4 0.13
33 15 0.50
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.08
Consensus pattern (30 bp):
AGAAAAAAAAAAGAAAAAATAAAAGAAAAT
Found at i:491144 original size:12 final size:12
Alignment explanation
Indices: 491078--491144 Score: 63
Period size: 10 Copynumber: 5.9 Consensus size: 12
491068 TTTTTAGCTC
*
491078 AGAAAAAA-AAA
1 AGAAAAAATAGA
491089 AGAAAAAATA-A
1 AGAAAAAATAGA
*
491100 A-AGAAAATAGAA
1 AGAAAAAATAG-A
491112 AGAAAAAATAGA
1 AGAAAAAATAGA
491124 AG--AAAATAGA
1 AGAAAAAATAGA
*
491134 AGAAAATATAG
1 AGAAAAAATAG
491145 GAAAAATAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
10 17 0.36
11 10 0.21
12 12 0.26
13 8 0.17
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (12 bp):
AGAAAAAATAGA
Found at i:491149 original size:10 final size:10
Alignment explanation
Indices: 491084--491141 Score: 64
Period size: 10 Copynumber: 5.6 Consensus size: 10
491074 GCTCAGAAAA
*
491084 AAAAAAGAA-
1 AAAATAGAAG
*
491093 AAAATAAAAG
1 AAAATAGAAG
491103 AAAATAGAAAG
1 AAAATAG-AAG
491114 AAAAAATAGAAG
1 --AAAATAGAAG
491126 AAAATAGAAG
1 AAAATAGAAG
491136 AAAATA
1 AAAATA
491142 TAGGAAAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
9 7 0.17
10 22 0.52
11 3 0.07
12 3 0.07
13 7 0.17
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.09
Consensus pattern (10 bp):
AAAATAGAAG
Found at i:492359 original size:160 final size:165
Alignment explanation
Indices: 492075--492371 Score: 408
Period size: 160 Copynumber: 1.8 Consensus size: 165
492065 AAAATTAAGC
* * *
492075 AATATTTATTTTTTCTAATATTTTATGTTCCTATAGGCATCCGTAAAGGTATAAAAGATTTTAAA
1 AATATTTATTTTTTCTAATATTTTATATTCCTATAGGCATCCATAAAGATATAAAAGATTTTAAA
* * ** * *
492140 AGAAACTTTTCGTATTCTTTCAGGCTTCCATTAGGGTACGAAATTGTATTTTTAAAAATAAAT-A
66 AGAAACTTTTCGTACTCTTTCAGGCTTCAATTAGAATACGAAATGGTATTTTCAAAAATAAATAA
492204 AATTAAATTGAATTGGTATTCCTAAGACAAATTCT
131 AATTAAATTGAATTGGTATTCCTAAGACAAATTCT
* * * *
492239 AATATTT-TTTTTTCTAATCTTTTATATTCTTGT-GGCCATCCATAGAGATATAAAAGATTTT-A
1 AATATTTATTTTTTCTAATATTTTATATTCCTATAGG-CATCCATAAAGATATAAAAGATTTTAA
* *
492301 AA-AACCTTTT-GTACTCTTTCGGGCTTCAATTAGAATACGAAATGGTATTTTCAAAAATAAATA
65 AAGAAACTTTTCGTACTCTTTCAGGCTTCAATTAGAATACGAAATGGTATTTTCAAAAATAAATA
492364 AAATTAAA
130 AAATTAAA
492372 ATGGAATTAA
Statistics
Matches: 116, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
160 45 0.39
161 15 0.13
162 5 0.04
163 44 0.38
164 7 0.06
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.41
Consensus pattern (165 bp):
AATATTTATTTTTTCTAATATTTTATATTCCTATAGGCATCCATAAAGATATAAAAGATTTTAAA
AGAAACTTTTCGTACTCTTTCAGGCTTCAATTAGAATACGAAATGGTATTTTCAAAAATAAATAA
AATTAAATTGAATTGGTATTCCTAAGACAAATTCT
Found at i:507655 original size:43 final size:41
Alignment explanation
Indices: 507591--507673 Score: 96
Period size: 43 Copynumber: 2.0 Consensus size: 41
507581 TTTTTCATTT
* * * *
507591 TTCCTTTGTTCTCAAGAAATAGGATGTACTTCATTTCTTCCTA
1 TTCCTTTGTCCTAAAGAAATAGGACGCACTTC-TTT-TTCCTA
507634 TTCCTTTGTCCTTAAAG-AATAGGACGCACTTCTTTTTCCT
1 TTCCTTTGTCC-TAAAGAAATAGGACGCACTTCTTTTTCCT
507674 TTGTCTTCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
41 5 0.14
42 3 0.09
43 23 0.66
44 4 0.11
ACGTcount: A:0.22, C:0.23, G:0.12, T:0.43
Consensus pattern (41 bp):
TTCCTTTGTCCTAAAGAAATAGGACGCACTTCTTTTTCCTA
Found at i:507981 original size:31 final size:31
Alignment explanation
Indices: 507946--508384 Score: 308
Period size: 31 Copynumber: 13.8 Consensus size: 31
507936 TTTCTTTTCT
*
507946 AAGCCCACACAAGTTGGTGGCACCCTAGTTA
1 AAGCCCACACAAGTTGGTGGCACCCTAGTCA
* * * * *
507977 AAGCCCATACAAGCTGATGACACCCAAGTCA
1 AAGCCCACACAAGTTGGTGGCACCCTAGTCA
* * *
508008 AAGCCTACATAAGTTGTTGGCACCCTAGTCA
1 AAGCCCACACAAGTTGGTGGCACCCTAGTCA
*
508039 AAGCCCACACAAGTTGGTGACACCCTAGTCA
1 AAGCCCACACAAGTTGGTGGCACCCTAGTCA
*** * * ** * **
508070 AAGCTTGCAAAAGCTGGCAAG-ACCCAAGTGT
1 AAGCCCACACAAGTTGG-TGGCACCCTAGTCA
*
508101 AAGCGCACACAAGTTGGTGGCACTTGAACCTAAGTCA
1 AAGCCCACACAAGTTGGTGGCAC-----CCT-AGTCA
*
508138 AAGCCCACACATGTTGGTGGCACCCTAGTCA
1 AAGCCCACACAAGTTGGTGGCACCCTAGTCA
* * * * *
508169 AAGCTCATATAAGCTGATGGCACCCTAGTCA
1 AAGCCCACACAAGTTGGTGGCACCCTAGTCA
* * * * *
508200 AGGCCCACATAAGTTGGCGGCACCCGAGTCT
1 AAGCCCACACAAGTTGGTGGCACCCTAGTCA
* * *
508231 AAGCCTACACAAGCTAGTGGCACCTGAACCTAAGTCTA
1 AAGCCCACACAAGTTGGTGGCA-C----CCT-AGTC-A
* *
508269 AA-CCCACACAAGTTGGTGGCACCATGGTCA
1 AAGCCCACACAAGTTGGTGGCACCCTAGTCA
* * * * *
508299 AAACCCACATAAGCTGGCGGTACCCTAGTCA
1 AAGCCCACACAAGTTGGTGGCACCCTAGTCA
* * *
508330 AAGCCCACACGAGTTGGCGGCA-CTTGAGTCA
1 AAGCCCACACAAGTTGGTGGCACCCT-AGTCA
*
508361 AAGCCCACAAAAGTTGGTGGCACC
1 AAGCCCACACAAGTTGGTGGCACC
508385 TATGTCCAAG
Statistics
Matches: 308, Mismatches: 82, Indels: 35
0.72 0.19 0.08
Matches are distributed among these distances:
30 6 0.02
31 244 0.79
32 7 0.02
36 5 0.02
37 44 0.14
38 2 0.01
ACGTcount: A:0.31, C:0.29, G:0.22, T:0.18
Consensus pattern (31 bp):
AAGCCCACACAAGTTGGTGGCACCCTAGTCA
Found at i:508241 original size:130 final size:129
Alignment explanation
Indices: 508002--508385 Score: 412
Period size: 130 Copynumber: 3.0 Consensus size: 129
507992 GATGACACCC
* * * * * *
508002 AAGTCAAAGCCTACATAAGTTGTTGGCACCCTAGTCAAAGCCCACACAAGTTGGTGACACCCTAG
1 AAGTCAAAGCCCACACAAGTTGGTGGCACCCTAGTCAAAGCCCACATAAGCTGGTGGCACCCTAG
*** * * * * *
508067 TCAAAGCTTGCAAAAGCTGGCAAG-ACCCAAGTGTAAGCGCACACAAGTTGGTGGCACTTGAACC
66 TCAAAGCCCACAAAAGTTGGC-GGCACCCGAGTCTAAGC-CACACAAGTTGGTGGCACCTGAACC
508131 T
129 T
* * * *
508132 AAGTCAAAGCCCACACATGTTGGTGGCACCCTAGTCAAAGCTCATATAAGCTGATGGCACCCTAG
1 AAGTCAAAGCCCACACAAGTTGGTGGCACCCTAGTCAAAGCCCACATAAGCTGGTGGCACCCTAG
* * * *
508197 TCAAGGCCCACATAAGTTGGCGGCACCCGAGTCTAAGCCTACACAAGCTAGTGGCACCTGAACCT
66 TCAAAGCCCACAAAAGTTGGCGGCACCCGAGTCTAAGCC-ACACAAGTTGGTGGCACCTGAACCT
* * * * *
508262 AAGTCTAAA-CCCACACAAGTTGGTGGCACCATGGTCAAAACCCACATAAGCTGGCGGTACCCTA
1 AAGTC-AAAGCCCACACAAGTTGGTGGCACCCTAGTCAAAGCCCACATAAGCTGGTGGCACCCTA
** ** * *
508326 GTCAAAGCCCACACGAGTTGGCGGCACTTGAGTCAAAGCCCACAAAAGTTGGTGGCACCT
65 GTCAAAGCCCACAAAAGTTGGCGGCACCCGAGTCTAAG-CCACACAAGTTGGTGGCACCT
508386 ATGTCCAAGT
Statistics
Matches: 210, Mismatches: 40, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
129 2 0.01
130 203 0.97
131 5 0.02
ACGTcount: A:0.31, C:0.28, G:0.23, T:0.18
Consensus pattern (129 bp):
AAGTCAAAGCCCACACAAGTTGGTGGCACCCTAGTCAAAGCCCACATAAGCTGGTGGCACCCTAG
TCAAAGCCCACAAAAGTTGGCGGCACCCGAGTCTAAGCCACACAAGTTGGTGGCACCTGAACCT
Found at i:508396 original size:130 final size:131
Alignment explanation
Indices: 507946--508385 Score: 371
Period size: 130 Copynumber: 3.4 Consensus size: 131
507936 TTTCTTTTCT
* * * * * * *
507946 AAGCCCACACAAGTTGGTGGCACCCTAGTTAAAGCCCATACAAGCTGAT-G-A-C----ACCCAA
1 AAGCCCACACAAGTTGGCGGCACCCGAGTCAAAGCCCACACAAGTTGGTGGCACCTTGAACCTAA
* * * * * * * ** *
508004 GTCAAAGCCTACATAAGTTGTTGGCACCCTAGTCAAAGCCCACACAAGTTGGTGACACCCTAGTC
66 GTCAAAGCCCACACAAGTTGGTGGCACCATAGTCAAAACCCACATAAGCTGACGGCACCCTAGTC
508069 A
131 A
*** * * * * ** *
508070 AAGCTTGCAAAAGCTGGCAAG-ACCCAAGTGTAAGCGCACACAAGTTGGTGGCA-CTTGAACCTA
1 AAGCCCACACAAGTTGGC-GGCACCCGAGTCAAAGCCCACACAAGTTGGTGGCACCTTGAACCTA
* * * * * *
508133 AGTCAAAGCCCACACATGTTGGTGGCACCCTAGTCAAAGCTCATATAAGCTGATGGCACCCTAGT
65 AGTCAAAGCCCACACAAGTTGGTGGCACCATAGTCAAAACCCACATAAGCTGACGGCACCCTAGT
508198 CA
130 CA
* * * * * *
508200 AGGCCCACATAAGTTGGCGGCACCCGAGTCTAAGCCTACACAAGCTAGTGGCACC-TGAACCTAA
1 AAGCCCACACAAGTTGGCGGCACCCGAGTCAAAGCCCACACAAGTTGGTGGCACCTTGAACCTAA
* * *
508264 GTCTAAA-CCCACACAAGTTGGTGGCACCATGGTCAAAACCCACATAAGCTGGCGGTACCCTAGT
66 GTC-AAAGCCCACACAAGTTGGTGGCACCATAGTCAAAACCCACATAAGCTGACGGCACCCTAGT
508328 CA
130 CA
* ** *
508330 AAGCCCACACGAGTTGGCGGCACTTGAGTCAAAGCCCACAAAAGTTGGTGGCACCT
1 AAGCCCACACAAGTTGGCGGCACCCGAGTCAAAGCCCACACAAGTTGGTGGCACCT
508386 ATGTCCAAGT
Statistics
Matches: 248, Mismatches: 57, Indels: 15
0.77 0.18 0.05
Matches are distributed among these distances:
124 33 0.13
125 2 0.01
126 2 0.01
129 1 0.00
130 206 0.83
131 4 0.02
ACGTcount: A:0.31, C:0.29, G:0.22, T:0.18
Consensus pattern (131 bp):
AAGCCCACACAAGTTGGCGGCACCCGAGTCAAAGCCCACACAAGTTGGTGGCACCTTGAACCTAA
GTCAAAGCCCACACAAGTTGGTGGCACCATAGTCAAAACCCACATAAGCTGACGGCACCCTAGTC
A
Found at i:509816 original size:42 final size:42
Alignment explanation
Indices: 509753--509844 Score: 132
Period size: 42 Copynumber: 2.2 Consensus size: 42
509743 TCCATGACCC
* * **
509753 TTTTAGGACTTTCATGTATTATTGTGGCCTTGTATGTGGTAG
1 TTTTAGAACTTTCATGTATTATTGTGGCCTTGGATGTGACAG
509795 TTTTAGAACTTTCAT-TCATTATTGTGGCCTTGGATGTGACAG
1 TTTTAGAACTTTCATGT-ATTATTGTGGCCTTGGATGTGACAG
509837 TTTTAGAA
1 TTTTAGAA
509845 TTGCTTTGAT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
41 1 0.02
42 44 0.98
ACGTcount: A:0.21, C:0.11, G:0.23, T:0.46
Consensus pattern (42 bp):
TTTTAGAACTTTCATGTATTATTGTGGCCTTGGATGTGACAG
Found at i:512178 original size:9 final size:9
Alignment explanation
Indices: 512164--512188 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
512154 TGTTCCACTC
512164 AATTTTTTT
1 AATTTTTTT
512173 AATTTTTTT
1 AATTTTTTT
512182 AATTTTT
1 AATTTTT
512189 AATTTTTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
AATTTTTTT
Found at i:512235 original size:10 final size:10
Alignment explanation
Indices: 512205--512235 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
512195 TGTTTTTACC
512205 TTTTTTTCTT
1 TTTTTTTCTT
*
512215 ATTTTTTCTT
1 TTTTTTTCTT
512225 TTTTTTTCTT
1 TTTTTTTCTT
512235 T
1 T
512236 CAAAGAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.03, C:0.10, G:0.00, T:0.87
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:517300 original size:17 final size:18
Alignment explanation
Indices: 517266--517300 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
517256 TTTCTTCATT
*
517266 GTTGCTTTGCTGTTCCAC
1 GTTGCTTTGCTCTTCCAC
517284 GTTGCTTTG-TCTTCCAC
1 GTTGCTTTGCTCTTCCAC
517301 TCCATTGTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.06, C:0.29, G:0.20, T:0.46
Consensus pattern (18 bp):
GTTGCTTTGCTCTTCCAC
Found at i:518574 original size:42 final size:42
Alignment explanation
Indices: 518528--518636 Score: 137
Period size: 44 Copynumber: 2.5 Consensus size: 42
518518 TCACCAAGGA
* *
518528 GTAAGAAGTTTACCGGGGACATATCCCATAAGTAAACAAAAG
1 GTAAGAAGTTTACCGGGGACAAATCCCACAAGTAAACAAAAG
* ** *
518570 GTAAGAATGGTTGACCGGGGACAAATCTGACGAGTAAACAAAAG
1 GTAAGAA--GTTTACCGGGGACAAATCCCACAAGTAAACAAAAG
*
518614 GTGAGAAGTTTACCGGGGACAAA
1 GTAAGAAGTTTACCGGGGACAAA
518637 GTTGATAGGT
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
42 22 0.39
44 35 0.61
ACGTcount: A:0.40, C:0.15, G:0.28, T:0.17
Consensus pattern (42 bp):
GTAAGAAGTTTACCGGGGACAAATCCCACAAGTAAACAAAAG
Found at i:518649 original size:42 final size:42
Alignment explanation
Indices: 518484--518653 Score: 150
Period size: 42 Copynumber: 4.0 Consensus size: 42
518474 GTAACCCTAG
* * * *
518484 AGGTAAGAAGATTACCAGGGACAAAGT-TGATAGGT-CACCAA
1 AGGTAAGAAGTTTACCGGGGACAAA-TCTGATAGGTAAACAAA
* * ** *
518525 GGAGTAAGAAGTTTACCGGGGACATATCCCATAAGTAAACAAA
1 AG-GTAAGAAGTTTACCGGGGACAAATCTGATAGGTAAACAAA
* *
518568 AGGTAAGAATGGTTGACCGGGGACAAATCTGA-CGAGTAAACAAA
1 AGGTAAGAA--GTTTACCGGGGACAAATCTGATAG-GTAAACAAA
*
518612 AGGTGAGAAGTTTACCGGGGACAAAGT-TGATAGGTAAACAAA
1 AGGTAAGAAGTTTACCGGGGACAAA-TCTGATAGGTAAACAAA
518654 GGATGAAGGT
Statistics
Matches: 102, Mismatches: 19, Indels: 15
0.75 0.14 0.11
Matches are distributed among these distances:
41 2 0.02
42 59 0.58
43 7 0.07
44 34 0.33
ACGTcount: A:0.41, C:0.14, G:0.28, T:0.18
Consensus pattern (42 bp):
AGGTAAGAAGTTTACCGGGGACAAATCTGATAGGTAAACAAA
Found at i:518978 original size:32 final size:31
Alignment explanation
Indices: 518952--519361 Score: 266
Period size: 31 Copynumber: 13.2 Consensus size: 31
518942 GTTGCCATTG
518952 ACTTGTGTGGGCTTTAGAGAAGGTTGCCACCA
1 ACTTGTGTGGGCTTTAGA-AAGGTTGCCACCA
* * *
518984 ACTTGTGCGGGCTTTAGAAGGGTTGTCACCA
1 ACTTGTGTGGGCTTTAGAAAGGTTGCCACCA
* * *
519015 ACTTGGGTGGGCTTTAGAAGGGTTGCCACCG
1 ACTTGTGTGGGCTTTAGAAAGGTTGCCACCA
*
519046 ACTTGTGTGGGCTTTAGAAAATGTTGCCACCA
1 ACTTGTGTGGGCTTTAG-AAAGGTTGCCACCA
*** * * * * *
519078 ACACATGCGGGCTTT-GACTAGGGTGCCGCTA
1 ACTTGTGTGGGCTTTAGA-AAGGTTGCCACCA
* * *
519109 ACTCGTGTGGGCTTT-GACTCAGG-TGCCGCCA
1 ACTTGTGTGGGCTTTAGA--AAGGTTGCCACCA
* * * * *
519140 ACTCGTGCGGACTTT-GACTAGGGTGCCACCA
1 ACTTGTGTGGGCTTTAGA-AAGGTTGCCACCA
* * **
519171 ACTTGTGTGGGCTTTTGAAAGGGTGCCACTG
1 ACTTGTGTGGGCTTTAGAAAGGTTGCCACCA
* * *
519202 AC-T-TGTGGGCTTTA-AAAGGGTGTCGCCA
1 ACTTGTGTGGGCTTTAGAAAGGTTGCCACCA
*
519230 ACTTGTGCGGGCTTT-GACTAAGG-TGCCACCA
1 ACTTGTGTGGGCTTTAGA--AAGGTTGCCACCA
* * **
519261 ACTTATGTGGGCTTTGAGAGAGGTTGCCACTG
1 ACTTGTGTGGGCTTT-AGAAAGGTTGCCACCA
* * *
519293 ACTTGTGTAGGCTTTA-AGAGGGTTCCCA-CA
1 ACTTGTGTGGGCTTTAGA-AAGGTTGCCACCA
* * * *
519323 AGCTTTTGTGGGCTTTTGAAAGGGTGCCACTA
1 A-CTTGTGTGGGCTTTAGAAAGGTTGCCACCA
519355 ACTTGTG
1 ACTTGTG
519362 GGCTTTTAAA
Statistics
Matches: 296, Mismatches: 65, Indels: 35
0.75 0.16 0.09
Matches are distributed among these distances:
28 12 0.04
29 11 0.04
30 17 0.06
31 184 0.62
32 70 0.24
33 2 0.01
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.29
Consensus pattern (31 bp):
ACTTGTGTGGGCTTTAGAAAGGTTGCCACCA
Found at i:519119 original size:94 final size:94
Alignment explanation
Indices: 518934--519123 Score: 231
Period size: 94 Copynumber: 2.0 Consensus size: 94
518924 GACATCGAGC
** * ***
518934 TTAGAAGAGTTGCCATTGACTTGTGTGGGCTTTAGAGAAGGTTGCCACCAACTTGTGCGGGCTTT
1 TTAGAAGAGTTGCCACCGACTTGTGTGGGCTTTAGAAAAGGTTGCCACCAACACATGCGGGCTTT
* *
518999 AGAAGGGTTGTCACCAACTTGGGTGGGCT
66 AGAAGGGTTGCCACCAACTCGGGTGGGCT
* *
519028 TTAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAATGTTGCCACCAACACATGCGGGCTTT
1 TTAGAAGAGTTGCCACCGACTTGTGTGGGCTTTAGAAAAGGTTGCCACCAACACATGCGGGCTTT
* * *
519093 -GACTAGGG-TGCCGCTAACTCGTGTGGGCT
66 AGA--AGGGTTGCCACCAACTCGGGTGGGCT
519122 TT
1 TT
519124 GACTCAGGTG
Statistics
Matches: 81, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
93 2 0.02
94 75 0.93
95 4 0.05
ACGTcount: A:0.20, C:0.19, G:0.32, T:0.29
Consensus pattern (94 bp):
TTAGAAGAGTTGCCACCGACTTGTGTGGGCTTTAGAAAAGGTTGCCACCAACACATGCGGGCTTT
AGAAGGGTTGCCACCAACTCGGGTGGGCT
Found at i:519255 original size:90 final size:89
Alignment explanation
Indices: 519130--519402 Score: 279
Period size: 90 Copynumber: 3.0 Consensus size: 89
519120 CTTTGACTCA
* * * *
519130 GGTGCCGCCAACTCGTGCGGACTTTGACTAGGGTGCCACCAACTTGTGTGGGCTTTTGAAAGGGT
1 GGTGTCGCCAACTTGTGCGGGCTTTGACTAAGGTGCCACCAACTT-TGTGGGCTTTTGAAAGGGT
519195 GCCACTGACTTGTGGGCTTTAAAAG
65 GCCACTGACTTGTGGGCTTTAAAAG
519220 GGTGTCGCCAACTTGTGCGGGCTTTGACTAAGGTGCCACCAACTTATGTGGGC-TTTGAGAGAGG
1 GGTGTCGCCAACTTGTGCGGGCTTTGACTAAGGTGCCACCAACTT-TGTGGGCTTTTGA-A-AGG
* *
519284 TTGCCACTGACTTGTGTAGGCTTTAAGAG
63 GTGCCACTGACTTGTG--GGCTTTAAAAG
* * * * *
519313 GGT-TCCCACAAGCTTTTGTGGGCTTTTGA--AAGGGTGCCACTAAC-TTGTGGGCTTTTAAAAG
1 GGTGTCGC-CAA-CTTGTGCGGGC-TTTGACTAA-GGTGCCACCAACTTTGTGGGCTTTTGAAAG
* *
519374 AGGTGCCACAT-AATTGTGGACTTTAAAAG
62 -GGTGCCAC-TGACTTGTGGGCTTTAAAAG
519403 AGAAGGTGCC
Statistics
Matches: 156, Mismatches: 16, Indels: 22
0.80 0.08 0.11
Matches are distributed among these distances:
89 5 0.03
90 58 0.37
91 20 0.13
92 24 0.15
93 24 0.15
94 20 0.13
95 5 0.03
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.29
Consensus pattern (89 bp):
GGTGTCGCCAACTTGTGCGGGCTTTGACTAAGGTGCCACCAACTTTGTGGGCTTTTGAAAGGGTG
CCACTGACTTGTGGGCTTTAAAAG
Found at i:519474 original size:62 final size:60
Alignment explanation
Indices: 519369--519896 Score: 306
Period size: 62 Copynumber: 8.6 Consensus size: 60
519359 GTGGGCTTTT
* * *
519369 AAAAGAGGTGCCACAT-AATTGTGGACTTTAAAAGAGAAGGTGCCACGGAGTTATGGACTTTAAG
1 AAAA-AGGTGCCAC-TGAGTTGTGGACTTTGAAAG-G-AGGTGCCACGGAGTTGTGGACTTT-AG
* * * *
519433 AAAAAGTATGCCACTGAGTCGTGGACTTTGAAAGGAGGTGCCATGGAGTTATGGACTTT-G
1 AAAAAG-GTGCCACTGAGTTGTGGACTTTGAAAGGAGGTGCCACGGAGTTGTGGACTTTAG
* * * * **
519493 AAAAGAGGTGCCAC-GAAGTTGTGGAC-TTAAAAAGAAGAGCCATAGAGTTGTGGACTTTAAG
1 AAAA-AGGTGCCACTG-AGTTGTGGACTTTGAAAGGAGGTGCCACGGAGTTGTGGACTTT-AG
* * * * *
519554 AAAAAGTATGCCACTGAGTTGTGGACTTTGAAAGGAAGTGTCACGGAGTCGTGAACTTT-G
1 AAAAAG-GTGCCACTGAGTTGTGGACTTTGAAAGGAGGTGCCACGGAGTTGTGGACTTTAG
* * * * * *
519614 AAAAAGGGTGCCAC-GAAGTTGTGGACTTTAGGAAA-AAGTATGCCACTGAATCGTAGACTTT-G
1 AAAAA-GGTGCCACTG-AGTTGTGGACTTT--GAAAGGAG-GTGCCACGGAGTTGTGGACTTTAG
* * ** ** * * ** *
519676 AAATGAGGTGTCACAAAGTCATGGACTTTGAAAAGGAAAAGCGCCATTGAGTTGTGGACTTTAA
1 AAA-AAGGTGCCACTGAGTTGTGGACTTTG-AAAGG--AGGTGCCACGGAGTTGTGGACTTTAG
* * * * * *
519740 AAGGGAAAGGTGCCA-TAGAGTTATGAACTTAGAAAAGA-GAGCCATGGAGTTGTGGACTTTAGG
1 AA---AAAGGTGCCACT-GAGTTGTGGACTTTGAAAGGAGGTGCCACGGAGTTGTGGACTTTA-G
* ** *
519803 AAAAAGTATGCCACTGAGTCATGGACTTTGAAAGGAGGTGCCACGGAGTCGTGGACTTT-G
1 AAAAAG-GTGCCACTGAGTTGTGGACTTTGAAAGGAGGTGCCACGGAGTTGTGGACTTTAG
* *
519863 AAAAGAGGTACCAC-GAAGTTGTGGACTTTAAAAG
1 AAAA-AGGTGCCACTG-AGTTGTGGACTTTGAAAG
519897 AGAAAGTGCA
Statistics
Matches: 364, Mismatches: 69, Indels: 66
0.73 0.14 0.13
Matches are distributed among these distances:
59 29 0.08
60 77 0.21
61 52 0.14
62 131 0.36
63 24 0.07
64 28 0.08
65 4 0.01
66 18 0.05
67 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.30, T:0.24
Consensus pattern (60 bp):
AAAAAGGTGCCACTGAGTTGTGGACTTTGAAAGGAGGTGCCACGGAGTTGTGGACTTTAG
Found at i:519488 original size:30 final size:30
Alignment explanation
Indices: 519387--519896 Score: 196
Period size: 30 Copynumber: 16.5 Consensus size: 30
519377 TGCCACATAA
* *
519387 TTGTGGACTTTAAAAGAGAAGGTGCCACGGAG
1 TTGTGGACTTTGAAAG-G-AGGTGCCATGGAG
* * *
519419 TTATGGACTTTAAGAAA-AAGTATGCCACT-GAG
1 TTGTGGACTTT--GAAAGGAG-GTGCCA-TGGAG
*
519451 TCGTGGACTTTGAAAGGAGGTGCCATGGAG
1 TTGTGGACTTTGAAAGGAGGTGCCATGGAG
* * * *
519481 TTATGGACTTTGAAAAGAGGTGCCACGAAG
1 TTGTGGACTTTGAAAGGAGGTGCCATGGAG
* * * * *
519511 TTGTGGAC-TTAAAAAGAAGAGCCATAGAG
1 TTGTGGACTTTGAAAGGAGGTGCCATGGAG
* *
519540 TTGTGGACTTTAAGAAA-AAGTATGCCACT-GAG
1 TTGTGGACTTT--GAAAGGAG-GTGCCA-TGGAG
* * *
519572 TTGTGGACTTTGAAAGGAAGTGTCACGGAG
1 TTGTGGACTTTGAAAGGAGGTGCCATGGAG
* * * * *
519602 TCGTGAACTTTGAAA-AAGGGTGCCACGAAG
1 TTGTGGACTTTGAAAGGA-GGTGCCATGGAG
* * *
519632 TTGTGGACTTTAGGAAA-AAGTATGCCACT-GAA
1 TTGTGGACTTT--GAAAGGAG-GTGCCA-TGGAG
* * * * ***
519664 TCGTAGACTTTGAAATGAGGTGTCACAAAG
1 TTGTGGACTTTGAAAGGAGGTGCCATGGAG
** * * *
519694 TCATGGACTTTGAAAAGGAAAAGCGCCATTGAG
1 TTGTGGACTTTG-AAAGG--AGGTGCCATGGAG
* *
519727 TTGTGGACTTTAAAAGGGAAAGGTGCCATAGAG
1 TTGTGGACTTTGAAA-GG--AGGTGCCATGGAG
* * * * *
519760 TTATGAACTTAGAAAAGA-GAGCCATGGAG
1 TTGTGGACTTTGAAAGGAGGTGCCATGGAG
* *
519789 TTGTGGACTTTAGGAAA-AAGTATGCCACT-GAG
1 TTGTGGACTTT--GAAAGGAG-GTGCCA-TGGAG
** *
519821 TCATGGACTTTGAAAGGAGGTGCCACGGAG
1 TTGTGGACTTTGAAAGGAGGTGCCATGGAG
* * * * *
519851 TCGTGGACTTTGAAAAGAGGTACCACGAAG
1 TTGTGGACTTTGAAAGGAGGTGCCATGGAG
*
519881 TTGTGGACTTTAAAAG
1 TTGTGGACTTTGAAAG
519897 AGAAAGTGCA
Statistics
Matches: 356, Mismatches: 91, Indels: 64
0.70 0.18 0.13
Matches are distributed among these distances:
29 42 0.12
30 160 0.45
31 19 0.05
32 89 0.25
33 43 0.12
34 3 0.01
ACGTcount: A:0.33, C:0.13, G:0.30, T:0.24
Consensus pattern (30 bp):
TTGTGGACTTTGAAAGGAGGTGCCATGGAG
Found at i:519558 original size:33 final size:32
Alignment explanation
Indices: 519521--519582 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
519511 TTGTGGACTT
519521 AAAAAGAAGAGCCA-TAGAGTTGTGGACTTTAAG
1 AAAAAGAA-AGCCACT-GAGTTGTGGACTTTAAG
* *
519554 AAAAAGTATGCCACTGAGTTGTGGACTTT
1 AAAAAGAAAGCCACTGAGTTGTGGACTTT
519583 GAAAGGAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
32 18 0.69
33 8 0.31
ACGTcount: A:0.37, C:0.11, G:0.26, T:0.26
Consensus pattern (32 bp):
AAAAAGAAAGCCACTGAGTTGTGGACTTTAAG
Found at i:519652 original size:92 final size:92
Alignment explanation
Indices: 519538--519709 Score: 254
Period size: 92 Copynumber: 1.9 Consensus size: 92
519528 AGAGCCATAG
* * * **
519538 AGTTGTGGACTTTAAGAAAAAGTATGCCACTGAGTTGTGGACTTTGAAAGGAAGTGTCACGGAGT
1 AGTTGTGGACTTTAAGAAAAAGTATGCCACTGAATCGTAGACTTTGAAAGGAAGTGTCACAAAGT
*
519603 CGTGAACTTTGAAAAAGGGTGCCACGA
66 CATGAACTTTGAAAAAGGGTGCCACGA
* * *
519630 AGTTGTGGACTTTAGGAAAAAGTATGCCACTGAATCGTAGACTTTGAAATGAGGTGTCACAAAGT
1 AGTTGTGGACTTTAAGAAAAAGTATGCCACTGAATCGTAGACTTTGAAAGGAAGTGTCACAAAGT
*
519695 CATGGACTTTGAAAA
66 CATGAACTTTGAAAA
519710 GGAAAAGCGC
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
92 70 1.00
ACGTcount: A:0.33, C:0.13, G:0.28, T:0.26
Consensus pattern (92 bp):
AGTTGTGGACTTTAAGAAAAAGTATGCCACTGAATCGTAGACTTTGAAAGGAAGTGTCACAAAGT
CATGAACTTTGAAAAAGGGTGCCACGA
Found at i:519747 original size:33 final size:33
Alignment explanation
Indices: 519697--519799 Score: 90
Period size: 33 Copynumber: 3.2 Consensus size: 33
519687 CACAAAGTCA
*
519697 TGGACTTTGAAAAGGAAAAGCGCCATTGAGTTG
1 TGGACTTTGAAAAGGAAAAGCGCCATAGAGTTG
* * *
519730 TGGACTTT-AAAAGGGAAAGGTGCCATAGAGTTA
1 TGGACTTTGAAAA-GGAAAAGCGCCATAGAGTTG
* * * *
519763 TGAACTTAGAAAA-G---AGAGCCATGGAGTTG
1 TGGACTTTGAAAAGGAAAAGCGCCATAGAGTTG
519792 TGGACTTT
1 TGGACTTT
519800 AGGAAAAAGT
Statistics
Matches: 56, Mismatches: 12, Indels: 8
0.74 0.16 0.11
Matches are distributed among these distances:
29 17 0.30
32 5 0.09
33 30 0.54
34 4 0.07
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (33 bp):
TGGACTTTGAAAAGGAAAAGCGCCATAGAGTTG
Found at i:527657 original size:164 final size:164
Alignment explanation
Indices: 527415--528376 Score: 846
Period size: 164 Copynumber: 5.8 Consensus size: 164
527405 AATATATATC
* ** * * * * * *
527415 AAAAAATTCAAAATTAAT-GAAAAAAATTAAATTTTTTAAAACTGAATTAAT-GGAAGTTCAATG
1 AAAAAATTCAAAATTTATAGAAATGAA-TGAATTTTTAAAAACTGAATTAATATGAA-ATAAATA
* ** * **
527478 ATAATATTAGATGAATTTTAAAAATTTTAAACTACA-AAAAATCCCTCC-AAAGAATTTATAGAG
64 ATAATATTTGATGAATTTTAAAAATTAAAAACTA-AGAAAAAT-CCTCCTAAAAAATTTACGGAG
** * *
527541 AAGAAAACTTGGT-TTCTTAGAAAAAGGGGATTTTCCAG
127 AAGAAAACTTCATATT-TTAGAAAAAGGGGAATTTCAAG
* * * *
527579 AAAACATTCAAAATTTATAGAATTGAATGAATTTTTAAAAACTGAATTAATATGAGATAAATAAA
1 AAAAAATTCAAAATTTATAGAAATGAATGAATTTTTAAAAACTGAATTAATATGAAATAAATAAT
* * *
527644 AATATTTGATGAATTTTAAAAGTTAAAAACTAAGAAAAATCCTCCTGAAAAATTTACGGAGTAGA
66 AATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCCTCCTAAAAAATTTACGGAGAAGA
* * ** *
527709 AAACTTCGTATTTTGAAAAAAAATGGTATTTCAAG
131 AAACTTCATATTTT-AGAAAAAGGGGAATTTCAAG
* * * *
527744 AAAAAAAATTCAAAATTTATGGAAATGAATGAATTTTTGAAAAA-T-ATATTATTTTAAAATAAA
1 --AAAAAATTCAAAATTTATAGAAATGAATGAATTTTT-AAAAACTGA-ATTAATATGAAATAAA
* * * *
527807 TAATAATATTTGATGCATTTTAAAAA-TAAAAACCAAGAAAAATCCTCCCAAAAAAATTTACGAA
62 TAATAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCCT-CCTAAAAAATTTACGGA
* * **
527871 GTAGAAAACTTAGCAT-TTCTAAAGAAAAAAAGGAATTTCAA-
126 GAAGAAAACTT--CATATT-T-TAGAAAAAGGGGAATTTCAAG
* * * **
527912 AGAAAAATTTAAAACTTATGGAAATGAATGAATTTTTAAAAACTGAATTACCAT-AAATAAATAA
1 A-AAAAATTCAAAATTTATAGAAATGAATGAATTTTTAAAAACTGAATTAATATGAAATAAATAA
* * * *
527976 TAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCT-TTCAAAAAAATTACGGAGTA
65 TAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCCTCCT-AAAAAATTTACGGAGAA
* * **
528040 GAAAACTCCATATTTT-GAGAATAGGAAAATTTCAAAG
129 GAAAACTTCATATTTTAGA-AAAAGGGGAATTTC-AAG
* * * *
528077 AAAAAATTAAAAATTTA-AGGAAATGAGTGAATTTTTGAAAACTGAATTAATATAAAATAAATAA
1 AAAAAATTCAAAATTTATA-GAAATGAATGAATTTTTAAAAACTGAATTAATATGAAATAAATAA
* *
528141 TAATATTTTATGAATTTTAAAAATTAAAAACTAAG-AAAATCCTCCTAAAAAAATTACGGAGTAA
65 TAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCCTCCTAAAAAATTTACGGAG-AA
* * * *
528205 -AAAAC-TCTATATTTTGGGAATAGGGGAATTTAAAGG
129 GAAAACTTC-ATATTTTAGAAAAAGGGGAATTTCAA-G
* * * * * * *
528241 AAAAAATCCAAAAACTCA-AGAAAATGAAGGAATTTTTTAAAACTGATTTAATATGATATAAATA
1 AAAAAATTC-AAAATTTATAG-AAATGAATGAATTTTTAAAAACTGAATTAATATGAAATAAATA
* * * * *
528305 ATTATATTTGATGAATTTTAAAAATTTTAAATCTATG-AAAATCCTCTCGAAAAAATTTACGGAG
64 ATAATATTTGATGAATTTTAAAAA-TTAAAAACTAAGAAAAATCCTC-CTAAAAAATTTACGGAG
528369 AAGAAAAC
127 AAGAAAAC
528377 CTCGTAATTT
Statistics
Matches: 664, Mismatches: 98, Indels: 69
0.80 0.12 0.08
Matches are distributed among these distances:
162 2 0.00
163 18 0.03
164 206 0.31
165 138 0.21
166 100 0.15
167 173 0.26
168 8 0.01
169 19 0.03
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.30
Consensus pattern (164 bp):
AAAAAATTCAAAATTTATAGAAATGAATGAATTTTTAAAAACTGAATTAATATGAAATAAATAAT
AATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCCTCCTAAAAAATTTACGGAGAAGA
AAACTTCATATTTTAGAAAAAGGGGAATTTCAAG
Found at i:528161 original size:165 final size:165
Alignment explanation
Indices: 527577--528376 Score: 788
Period size: 167 Copynumber: 4.8 Consensus size: 165
527567 GGGATTTTCC
* * * * *
527577 AGAAAACATTCAAAATTTATA-GAATTGAATGAATTTTTAAAAACTGAATTAATATGAGATAAAT
1 AGAAAAAATTAAAAATTTA-AGGAAATGAATGAATTTTTAAAAACTGAATTAATATAAAATAAAT
* * * *
527641 AAAAATATTTGATGAATTTTAAAAGTTAAAAACTAAGAAAAATCC-TCCTGAAAAATTTACGGAG
65 AATAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCCTTCCTAAAAAAATTACGGAG
* *
527705 TAGAAAACTTCGTATTTTGA-AAA-AAAATGGTATTTCAA
130 TAGAAAACTCCATATTTTGAGAAAGAAAA----ATTTCAA
* * * * *
527743 GAAAAAAAATTCAAAATTTATGGAAATGAATGAATTTTTGAAAAA-T-ATATTATTTTAAAATAA
1 -AGAAAAAATTAAAAATTTAAGGAAATGAATGAATTTTT-AAAAACTGA-ATTAATATAAAATAA
* * *
527806 ATAATAATATTTGATGCATTTTAAAAA-TAAAAACCAAGAAAAATCC-TCCCAAAAAAATTTACG
63 ATAATAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCCTTCCTAAAAAAA-TTACG
* * ** *
527869 AAGTAGAAAACTTAGCAT-TTCTAAAGAAAAAAAGGAATTTCAA
127 GAGTAGAAAAC-T-CCATATT-TTGAGAAAGAAA--AATTTCAA
* * * **
527912 AG-AAAAATTTAAAACTTATGGAAATGAATGAATTTTTAAAAACTGAATTACCAT-AAATAAATA
1 AGAAAAAATTAAAAATTTAAGGAAATGAATGAATTTTTAAAAACTGAATTAATATAAAATAAATA
* *
527975 ATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCTTTC-AAAAAAATTACGGAGT
66 ATAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCCTTCCTAAAAAAATTACGGAGT
*
528039 AGAAAACTCCATATTTTGAGAATAGGAAAATTTCAA
131 AGAAAACTCCATATTTTGAGAA-AGAAAAATTTCAA
* *
528075 AGAAAAAATTAAAAATTTAAGGAAATGAGTGAATTTTTGAAAACTGAATTAATATAAAATAAATA
1 AGAAAAAATTAAAAATTTAAGGAAATGAATGAATTTTTAAAAACTGAATTAATATAAAATAAATA
*
528140 ATAATATTTTATGAATTTTAAAAATTAAAAACTAAG-AAAATCC-TCCTAAAAAAATTACGGAGT
66 ATAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCCTTCCTAAAAAAATTACGGAGT
* * * ***
528203 AAAAAACTCTATATTTTGGGAATAGGGGAATTT-AA
131 AGAAAACTCCATATTTTGAGAA-AGAAAAATTTCAA
* * * * * * * * *
528238 AGGAAAAAATCCAAAAACTCAAGAAAATGAAGGAATTTTTTAAAACTGATTTAATATGATATAAA
1 A-GAAAAAAT-TAAAAATTTAAGGAAATGAATGAATTTTTAAAAACTGAATTAATATAAAATAAA
* * * * * *
528303 TAATTATATTTGATGAATTTTAAAAATTTTAAATCTATG-AAAATCC-TCTCGAAAAAATTTACG
64 TAATAATATTTGATGAATTTTAAAAA-TTAAAAACTAAGAAAAATCCTTC-CTAAAAAAATTACG
*
528366 GAGAAGAAAAC
127 GAGTAGAAAAC
528377 CTCGTAATTT
Statistics
Matches: 541, Mismatches: 68, Indels: 48
0.82 0.10 0.07
Matches are distributed among these distances:
163 15 0.03
164 112 0.21
165 117 0.22
166 97 0.18
167 170 0.31
168 12 0.02
169 11 0.02
170 3 0.01
171 3 0.01
173 1 0.00
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.30
Consensus pattern (165 bp):
AGAAAAAATTAAAAATTTAAGGAAATGAATGAATTTTTAAAAACTGAATTAATATAAAATAAATA
ATAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCCTTCCTAAAAAAATTACGGAGT
AGAAAACTCCATATTTTGAGAAAGAAAAATTTCAA
Found at i:534000 original size:19 final size:19
Alignment explanation
Indices: 533976--534025 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
533966 AGCGATACAT
533976 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
*
533995 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
*
534014 TGCATCGATACA
1 TGTATCGATACA
534026 TTGTATCGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:535135 original size:46 final size:46
Alignment explanation
Indices: 535068--535159 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 46
535058 AACTCAAAGA
* ** *
535068 CAAATGGTCATTTTGTAATAACTATTTAGGGTTAAGTCGAGTGAAT
1 CAAATGATCATTTCATAATAACTATTTAGGATTAAGTCGAGTGAAT
*
535114 CAAATGATCATTTCATAATAACTATTTAGGATTAAGTTGAGTGAAT
1 CAAATGATCATTTCATAATAACTATTTAGGATTAAGTCGAGTGAAT
535160 GATTCATCTC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.37
Consensus pattern (46 bp):
CAAATGATCATTTCATAATAACTATTTAGGATTAAGTCGAGTGAAT
Found at i:536141 original size:51 final size:51
Alignment explanation
Indices: 536081--536177 Score: 158
Period size: 51 Copynumber: 1.9 Consensus size: 51
536071 CATGAAAAAT
* *
536081 GTTTTGACCTAAATGTATCGATACATTTTTCATTGTATCAATACATTCTAG
1 GTTTTGACCTAAATGTATCGATACATTCTTCAATGTATCAATACATTCTAG
* *
536132 GTTTTGACCTAAATGTATCGATAGATTCTTCAATGTATCGATACAT
1 GTTTTGACCTAAATGTATCGATACATTCTTCAATGTATCAATACAT
536178 GCAGGTAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.41
Consensus pattern (51 bp):
GTTTTGACCTAAATGTATCGATACATTCTTCAATGTATCAATACATTCTAG
Done.