Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01011163.1 Kokia drynarioides strain JFW-HI SEQ_126137, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 614243
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 11 characters in sequence are not A, C, G, or T
File 2 of 2
Found at i:343560 original size:171 final size:171
Alignment explanation
Indices: 343275--343617 Score: 641
Period size: 171 Copynumber: 2.0 Consensus size: 171
343265 AATATTAAAT
*
343275 CACAGTAGCATTATTATAAAAATCATCCATAATAACTTAATTAGAACATAAATGATCATAAATAA
1 CACAGTAGCATTATTATAAAAATCATCCATAATAACTTAATTAGAACATAAATGATCATAAACAA
*
343340 ATCAAATAAGCATTTAAGGATTAAATTGAATTACATATGAAGTTTAAAAGAGAAATTAAAAATTT
66 ATCAAATAAGCATTTAAGGATTAAATTGAATTACATATGAAGTTTAAAAGAAAAATTAAAAATTT
343405 CTTAAAACAGGGGTAACACGGTCATGTATCTCAAACACACA
131 CTTAAAACAGGGGTAACACGGTCATGTATCTCAAACACACA
343446 CACAGTAGCATTATTATAAAAATCATCCATAATAACTTAATTAGAACATAAATGATCATAAACAA
1 CACAGTAGCATTATTATAAAAATCATCCATAATAACTTAATTAGAACATAAATGATCATAAACAA
* *
343511 ATCAAATGAGCATTTAAGGATTAAATTGAATTACATATGAAGTTTAAAAGAAAAATTGAAAATTT
66 ATCAAATAAGCATTTAAGGATTAAATTGAATTACATATGAAGTTTAAAAGAAAAATTAAAAATTT
*
343576 CTTAAAACAGGGGTAACACGGTCATGTGTCTCAAACACACA
131 CTTAAAACAGGGGTAACACGGTCATGTATCTCAAACACACA
343617 C
1 C
343618 CCGTGTGTCC
Statistics
Matches: 167, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
171 167 1.00
ACGTcount: A:0.47, C:0.13, G:0.12, T:0.28
Consensus pattern (171 bp):
CACAGTAGCATTATTATAAAAATCATCCATAATAACTTAATTAGAACATAAATGATCATAAACAA
ATCAAATAAGCATTTAAGGATTAAATTGAATTACATATGAAGTTTAAAAGAAAAATTAAAAATTT
CTTAAAACAGGGGTAACACGGTCATGTATCTCAAACACACA
Found at i:345203 original size:13 final size:12
Alignment explanation
Indices: 345187--345227 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 12
345177 TATCGAGTAT
345187 TTAAATACATTAA
1 TTAAATA-ATTAA
345200 TTAAAATAATTAA
1 TT-AAATAATTAA
*
345213 TCAAATAATTAA
1 TTAAATAATTAA
345225 TTA
1 TTA
345228 CAAATAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 12 0.48
13 8 0.32
14 5 0.20
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (12 bp):
TTAAATAATTAA
Found at i:345234 original size:14 final size:14
Alignment explanation
Indices: 345189--345234 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
345179 TCGAGTATTT
345189 AAATACATTAATTA-
1 AAATA-ATTAATTAC
345203 AAATAATTAA-T-C
1 AAATAATTAATTAC
345215 AAATAATTAATTAC
1 AAATAATTAATTAC
345229 AAATAA
1 AAATAA
345235 AAATAAGTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
12 11 0.38
13 6 0.21
14 12 0.41
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.33
Consensus pattern (14 bp):
AAATAATTAATTAC
Found at i:345387 original size:13 final size:12
Alignment explanation
Indices: 345371--345411 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 12
345361 AATGAAGTAT
345371 TTAAATACATTAA
1 TTAAATA-ATTAA
345384 TTAAAATAATTAA
1 TT-AAATAATTAA
*
345397 TCAAATAATTAA
1 TTAAATAATTAA
345409 TTA
1 TTA
345412 CAAATAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 12 0.48
13 8 0.32
14 5 0.20
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (12 bp):
TTAAATAATTAA
Found at i:345417 original size:14 final size:14
Alignment explanation
Indices: 345373--345418 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
345363 TGAAGTATTT
345373 AAATACATTAATTA-
1 AAATA-ATTAATTAC
345387 AAATAATTAA-T-C
1 AAATAATTAATTAC
345399 AAATAATTAATTAC
1 AAATAATTAATTAC
345413 AAATAA
1 AAATAA
345419 AAATAAGTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
12 11 0.38
13 6 0.21
14 12 0.41
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.33
Consensus pattern (14 bp):
AAATAATTAATTAC
Found at i:345491 original size:184 final size:184
Alignment explanation
Indices: 345182--345549 Score: 727
Period size: 184 Copynumber: 2.0 Consensus size: 184
345172 TTTTATATCG
345182 AGTATTTAAATACATTAATTAAAATAATTAATCAAATAATTAATTACAAATAAAAATAAGTTCAA
1 AGTATTTAAATACATTAATTAAAATAATTAATCAAATAATTAATTACAAATAAAAATAAGTTCAA
345247 GACTACGGACTTACCAAAAAGATTATACTAGCTCCCATTGATTGAGTCTATTATTCGTCCACTTT
66 GACTACGGACTTACCAAAAAGATTATACTAGCTCCCATTGATTGAGTCTATTATTCGTCCACTTT
*
345312 CTCTTTTCCTCGGTTAACGATCGTTTTGCTCGTTTTTTGATCTAAACCAAATGA
131 CTCTTTTCCTCAGTTAACGATCGTTTTGCTCGTTTTTTGATCTAAACCAAATGA
345366 AGTATTTAAATACATTAATTAAAATAATTAATCAAATAATTAATTACAAATAAAAATAAGTTCAA
1 AGTATTTAAATACATTAATTAAAATAATTAATCAAATAATTAATTACAAATAAAAATAAGTTCAA
345431 GACTACGGACTTACCAAAAAGATTATACTAGCTCCCATTGATTGAGTCTATTATTCGTCCACTTT
66 GACTACGGACTTACCAAAAAGATTATACTAGCTCCCATTGATTGAGTCTATTATTCGTCCACTTT
345496 CTCTTTTCCTCAGTTAACGATCGTTTTGCTCGTTTTTTGATCTAAACCAAATGA
131 CTCTTTTCCTCAGTTAACGATCGTTTTGCTCGTTTTTTGATCTAAACCAAATGA
345550 TTTAACTCAA
Statistics
Matches: 183, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
184 183 1.00
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.36
Consensus pattern (184 bp):
AGTATTTAAATACATTAATTAAAATAATTAATCAAATAATTAATTACAAATAAAAATAAGTTCAA
GACTACGGACTTACCAAAAAGATTATACTAGCTCCCATTGATTGAGTCTATTATTCGTCCACTTT
CTCTTTTCCTCAGTTAACGATCGTTTTGCTCGTTTTTTGATCTAAACCAAATGA
Found at i:346790 original size:72 final size:72
Alignment explanation
Indices: 346714--346856 Score: 277
Period size: 72 Copynumber: 2.0 Consensus size: 72
346704 AGATTGAATA
346714 TACCTTGAATATTATTTATAAAAATAAAATAAATTTTAATTGGTATATAGTTCTAATACTGATTA
1 TACCTTGAATATTATTTATAAAAATAAAATAAATTTTAATTGGTATATAGTTCTAATACTGATTA
*
346779 ATCAATC
66 AGCAATC
346786 TACCTTGAATATTATTTATAAAAATAAAATAAATTTTAATTGGTATATAGTTCTAATACTGATTA
1 TACCTTGAATATTATTTATAAAAATAAAATAAATTTTAATTGGTATATAGTTCTAATACTGATTA
346851 AGCAAT
66 AGCAAT
346857 AGTTAAGATG
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 70 1.00
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.41
Consensus pattern (72 bp):
TACCTTGAATATTATTTATAAAAATAAAATAAATTTTAATTGGTATATAGTTCTAATACTGATTA
AGCAATC
Found at i:348569 original size:33 final size:33
Alignment explanation
Indices: 348532--348599 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
348522 ACTAGACTTA
*
348532 AATCAACAGGGTCAAATGC-GATTCTCACACCAG
1 AATCAACAGGGCCAAATGCAG-TTCTCACACCAG
* *
348565 AATCAACTGTGCCAAATGCAGTTCTCACACCAG
1 AATCAACAGGGCCAAATGCAGTTCTCACACCAG
348598 AA
1 AA
348600 CCAGTTGGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
33 30 0.97
34 1 0.03
ACGTcount: A:0.37, C:0.28, G:0.16, T:0.19
Consensus pattern (33 bp):
AATCAACAGGGCCAAATGCAGTTCTCACACCAG
Found at i:366804 original size:9 final size:9
Alignment explanation
Indices: 366790--366896 Score: 67
Period size: 9 Copynumber: 11.6 Consensus size: 9
366780 TCATTATATG
366790 ATTTTTATA
1 ATTTTTATA
366799 ATTTTTATA
1 ATTTTTATA
366808 ATTAGTTTTATA
1 A-T--TTTTATA
* *
366820 AATATTATCA
1 ATTTTTAT-A
*
366830 A-TTTT-GA
1 ATTTTTATA
366837 ATTTTTAT-
1 ATTTTTATA
*
366845 ATTTTTATTG
1 ATTTTTA-TA
*
366855 GTTTTTATA
1 ATTTTTATA
366864 ATTTTTATAA
1 ATTTTTAT-A
* *
366874 AATTTTATG
1 ATTTTTATA
*
366883 ATGTTTATA
1 ATTTTTATA
366892 ATTTT
1 ATTTT
366897 AAAATGAATC
Statistics
Matches: 75, Mismatches: 14, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
7 2 0.03
8 11 0.15
9 37 0.49
10 17 0.23
12 8 0.11
ACGTcount: A:0.32, C:0.01, G:0.06, T:0.62
Consensus pattern (9 bp):
ATTTTTATA
Found at i:366827 original size:21 final size:22
Alignment explanation
Indices: 366792--366832 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
366782 ATTATATGAT
* *
366792 TTTTATAATTTTTAT-AATTAG
1 TTTTATAAATATTATCAATTAG
366813 TTTTATAAATATTATCAATT
1 TTTTATAAATATTATCAATT
366833 TTGAATTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (22 bp):
TTTTATAAATATTATCAATTAG
Found at i:368768 original size:26 final size:26
Alignment explanation
Indices: 368726--368785 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
368716 ACCTTAGTGC
* *
368726 GCTCTCCGTTATTTAGCACGTATTGT
1 GCTCTCCGTTATATAGCACGTATAGT
* *
368752 GCTCTCCGTT-TAATAGCATGTGTAGT
1 GCTCTCCGTTAT-ATAGCACGTATAGT
368778 GCTCTCCG
1 GCTCTCCG
368786 ATTAGTATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 1 0.03
26 28 0.97
ACGTcount: A:0.15, C:0.25, G:0.22, T:0.38
Consensus pattern (26 bp):
GCTCTCCGTTATATAGCACGTATAGT
Found at i:368823 original size:22 final size:22
Alignment explanation
Indices: 368765--368826 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
368755 CTCCGTTTAA
*
368765 TAGCATGTGTAGTGCTCTCCGAT
1 TAGCATGT-TGGTGCTCTCCGAT
* * *
368788 TAGTATGTTTGTGCTCTCCGTT
1 TAGCATGTTGGTGCTCTCCGAT
368810 TAGCACT-TTGGTGCTCT
1 TAGCA-TGTTGGTGCTCT
368827 TCTTTCATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
22 25 0.76
23 8 0.24
ACGTcount: A:0.13, C:0.21, G:0.24, T:0.42
Consensus pattern (22 bp):
TAGCATGTTGGTGCTCTCCGAT
Found at i:370263 original size:2 final size:2
Alignment explanation
Indices: 370256--370296 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
370246 ATTTACAACT
370256 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
370297 TAAACAATCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:375143 original size:12 final size:12
Alignment explanation
Indices: 375126--375157 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
375116 ACGACTCAAG
375126 GCATTAGCAACC
1 GCATTAGCAACC
375138 GCATTAGCAACC
1 GCATTAGCAACC
*
375150 ACATTAGC
1 GCATTAGC
375158 CTTGCTTGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.34, C:0.31, G:0.16, T:0.19
Consensus pattern (12 bp):
GCATTAGCAACC
Found at i:379325 original size:2 final size:2
Alignment explanation
Indices: 379313--379343 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
379303 TTTATTATTC
*
379313 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
379344 TTCTTTTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:380389 original size:19 final size:17
Alignment explanation
Indices: 380365--380403 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
380355 ATTTTTCTTT
*
380365 TTCTCTTGCTTCTTCTCTC
1 TTCTCTT-CTTCCTC-CTC
380384 TTCTCTTCTTCCTCCTC
1 TTCTCTTCTTCCTCCTC
380401 TTC
1 TTC
380404 CTCAATACCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 6 0.32
19 7 0.37
ACGTcount: A:0.00, C:0.41, G:0.03, T:0.56
Consensus pattern (17 bp):
TTCTCTTCTTCCTCCTC
Found at i:381795 original size:24 final size:24
Alignment explanation
Indices: 381767--382048 Score: 249
Period size: 24 Copynumber: 11.8 Consensus size: 24
381757 AGCTCAACCA
381767 ATGCTGGTGAGCGTAAACGTATTC
1 ATGCTGGTGAGCGTAAACGTATTC
* *
381791 ATGCTGGCGAGTGTAAACGTATTC
1 ATGCTGGTGAGCGTAAACGTATTC
* *
381815 ATGCTAGCGAGCGTAAACGTATTC
1 ATGCTGGTGAGCGTAAACGTATTC
* *
381839 ATGCTGGTGAGCGTAAGCATATTC
1 ATGCTGGTGAGCGTAAACGTATTC
* * *
381863 ATTCTGGTGAGCATAAACGTATTT
1 ATGCTGGTGAGCGTAAACGTATTC
** *
381887 ATTATGGTGAGCGTAAACTTATTC
1 ATGCTGGTGAGCGTAAACGTATTC
* ** * *
381911 ATGTTGACGAGCGTAAATGTGTTC
1 ATGCTGGTGAGCGTAAACGTATTC
* * ** *
381935 ATGTTGGCGATTGTAAATGTATTC
1 ATGCTGGTGAGCGTAAACGTATTC
* * * *
381959 ATGCTGGTAAGCATAAACATATTT
1 ATGCTGGTGAGCGTAAACGTATTC
* ** * *
381983 ACGCTGACGAGTGTAAACGTTTTC
1 ATGCTGGTGAGCGTAAACGTATTC
* * *
382007 ACGCTGATGAGCGTAAATGTATTC
1 ATGCTGGTGAGCGTAAACGTATTC
*
382031 ATGCTGATGAGCGTAAAC
1 ATGCTGGTGAGCGTAAAC
382049 ATAATTAACT
Statistics
Matches: 206, Mismatches: 52, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 206 1.00
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (24 bp):
ATGCTGGTGAGCGTAAACGTATTC
Found at i:383333 original size:21 final size:21
Alignment explanation
Indices: 383307--383378 Score: 56
Period size: 21 Copynumber: 3.3 Consensus size: 21
383297 TAGAAGTTAG
383307 TAGCTGGTCTCACCCTAGACC
1 TAGCTGGTCTCACCCTAGACC
** * **
383328 TAGCTGCAC-CACCACTCTGATTAG
1 TAGCTGGTCTCACC-CT-AGA--CC
383352 TAGCTGGTCTCACCCTAGACC
1 TAGCTGGTCTCACCCTAGACC
383373 TAGCTG
1 TAGCTG
383379 CACCACTACT
Statistics
Matches: 36, Mismatches: 10, Indels: 10
0.64 0.18 0.18
Matches are distributed among these distances:
20 4 0.11
21 15 0.42
22 2 0.06
23 2 0.06
24 9 0.25
25 4 0.11
ACGTcount: A:0.21, C:0.35, G:0.19, T:0.25
Consensus pattern (21 bp):
TAGCTGGTCTCACCCTAGACC
Found at i:383354 original size:45 final size:45
Alignment explanation
Indices: 383303--383390 Score: 167
Period size: 45 Copynumber: 2.0 Consensus size: 45
383293 TCAGTAGAAG
383303 TTAGTAGCTGGTCTCACCCTAGACCTAGCTGCACCACCACTCTGA
1 TTAGTAGCTGGTCTCACCCTAGACCTAGCTGCACCACCACTCTGA
*
383348 TTAGTAGCTGGTCTCACCCTAGACCTAGCTGCACCACTACTCT
1 TTAGTAGCTGGTCTCACCCTAGACCTAGCTGCACCACCACTCT
383391 AAACTGGTCT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.22, C:0.35, G:0.17, T:0.26
Consensus pattern (45 bp):
TTAGTAGCTGGTCTCACCCTAGACCTAGCTGCACCACCACTCTGA
Found at i:390871 original size:15 final size:15
Alignment explanation
Indices: 390851--390885 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
390841 AAAATCACAA
390851 AAAAAAAGA-AAGAAG
1 AAAAAAAGAGAA-AAG
390866 AAAAAAAGAGAAAAG
1 AAAAAAAGAGAAAAG
390881 AAAAA
1 AAAAA
390886 GAAATACTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 17 0.89
16 2 0.11
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
AAAAAAAGAGAAAAG
Found at i:390873 original size:11 final size:12
Alignment explanation
Indices: 390854--390889 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
390844 ATCACAAAAA
390854 AAAAGAAAGAAG
1 AAAAGAAAGAAG
390866 AAAA-AAAG-AG
1 AAAAGAAAGAAG
390876 AAAAGAAA-AAG
1 AAAAGAAAGAAG
390887 AAA
1 AAA
390890 TACTGCTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
10 6 0.27
11 12 0.55
12 4 0.18
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (12 bp):
AAAAGAAAGAAG
Found at i:394601 original size:34 final size:34
Alignment explanation
Indices: 394563--394628 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 34
394553 GCTGTAGTTA
*
394563 ATTGTCCCTACAT-TATTAATGTCATTGCATTTTT
1 ATTGTCCCTACATCTA-CAATGTCATTGCATTTTT
* * *
394597 ATTGTCGCTGCATCTACATTGTCATTGCATTT
1 ATTGTCCCTACATCTACAATGTCATTGCATTT
394629 CCATATATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 25 0.93
35 2 0.07
ACGTcount: A:0.21, C:0.20, G:0.12, T:0.47
Consensus pattern (34 bp):
ATTGTCCCTACATCTACAATGTCATTGCATTTTT
Found at i:395212 original size:6 final size:7
Alignment explanation
Indices: 395195--395233 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
395185 AAAAATCACA
395195 AAAAAAG
1 AAAAAAG
395202 AAAAAAG
1 AAAAAAG
395209 AAAAAAAG
1 -AAAAAAG
* *
395217 AGAGAAG
1 AAAAAAG
395224 AAAAAAG
1 AAAAAAG
395231 AAA
1 AAA
395234 TATTGCTATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 20 0.74
8 7 0.26
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:395212 original size:15 final size:15
Alignment explanation
Indices: 395194--395233 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
395184 GAAAAATCAC
395194 AAAAAAAGAAAAAAG
1 AAAAAAAGAAAAAAG
* *
395209 AAAAAAAGAGAGAAG
1 AAAAAAAGAAAAAAG
395224 -AAAAAAGAAA
1 AAAAAAAGAAA
395234 TATTGCTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
AAAAAAAGAAAAAAG
Found at i:408302 original size:333 final size:333
Alignment explanation
Indices: 407684--408320 Score: 837
Period size: 333 Copynumber: 1.9 Consensus size: 333
407674 CTCATTCAGC
* *
407684 GTAGATTTCAGCTTTCTGCAAGTATACGGGTAAGGTTATAAATATAGTGTGTTATAACGGAACAC
1 GTAGATTTCAGCTTTCCGCAAGTATACGGGTAAGGTTATAAATATAGTGTGTTACAACGGAACAC
* * * *
407749 TTGGTAGTATTTTGAGGATCGTACCCAAAGGAGGTTTAAAGCAATAGTAAATTAAATCTCGGTAA
66 TTGGAAGTATTTCGAGGATCGTACCCAAAGGAGGCTTAAAGCAATAGTAAATTAAATCCCGGTAA
*
407814 AGAATAAAATTAATTAGTACTTATTTTAGGGTTTAAAGTACGAAAAATAAAAGAGTATTTTGAGA
131 AGAATAAAATTAATTAGTACTTATTTCAGGGTTTAAAGTACGAAAAATAAAAGAGTATTTTGAGA
407879 ACATAAAAATAAAAAGAAAAAATAGAATAGAAAATAAAGGCAAAAGATTGAGTTGTAGAAATCTT
196 ACATAAAAATAAAAAGAAAAAATAGAATAGAAAATAAAGGCAAAAGATTGAGTTGTAGAAATCTT
**
407944 ATAAACGACTTTGAGGATTTTAGGTCGTTTCCGTATGAGTTCCTGATCGCCCCTGAACGTACTCC
261 ATAAACGACTTTGAGGAGATTAGGTCGTTTCCGTATGAGTTCCTGATCGCCCCTGAACGTACTCC
408009 TGTTTGGT
326 TGTTTGGT
* * * * * *
408017 GTAGATTTCGGC-TTCCGCAAGTATATGTGTCAGGTTGTAAATATAGTGTGTTTACAATGGAACA
1 GTAGATTTCAGCTTTCCGCAAGTATACGGGTAAGGTTATAAATATAGTGTG-TTACAACGGAACA
* * *
408081 CTTGGAAGTATTTCGAGGATCGTACCCAAAGGAGGCTTAAGGCGATAGTAAA-TAGAATCCCTGT
65 CTTGGAAGTATTTCGAGGATCGTACCCAAAGGAGGCTTAAAGCAATAGTAAATTA-AATCCCGGT
* * * *
408145 AAAGAATGAAATTAATTAGTAC-TAGTTTCAGGGTTTATAGTATGAGGGAAAATAAGAGAGT-TT
129 AAAGAATAAAATTAATTAGTACTTA-TTTCAGGGTTTAAAGTACGA---AAAATAAAAGAGTATT
* * *
408208 GTTGA-AAGCATAAAAATAAAAAGATCAAAATA-AA-ATAAAATAAA-G-TAAAGA-TGAGTTGT
190 -TTGAGAA-CATAAAAATAAAAAGA-AAAAATAGAATAGAAAATAAAGGCAAAAGATTGAGTTGT
* * * *
408267 AGAAATTCTTATAAAC-ATCTTTGGGGAGATTAGGTCGTTTTCTTATGATTTCCT
252 AGAAA-TCTTATAAACGA-CTTTGAGGAGATTAGGTCGTTTCCGTATGAGTTCCT
408321 CAATTGTTGG
Statistics
Matches: 264, Mismatches: 29, Indels: 22
0.84 0.09 0.07
Matches are distributed among these distances:
332 51 0.19
333 159 0.60
334 1 0.00
335 13 0.05
336 34 0.13
337 6 0.02
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (333 bp):
GTAGATTTCAGCTTTCCGCAAGTATACGGGTAAGGTTATAAATATAGTGTGTTACAACGGAACAC
TTGGAAGTATTTCGAGGATCGTACCCAAAGGAGGCTTAAAGCAATAGTAAATTAAATCCCGGTAA
AGAATAAAATTAATTAGTACTTATTTCAGGGTTTAAAGTACGAAAAATAAAAGAGTATTTTGAGA
ACATAAAAATAAAAAGAAAAAATAGAATAGAAAATAAAGGCAAAAGATTGAGTTGTAGAAATCTT
ATAAACGACTTTGAGGAGATTAGGTCGTTTCCGTATGAGTTCCTGATCGCCCCTGAACGTACTCC
TGTTTGGT
Found at i:410125 original size:13 final size:13
Alignment explanation
Indices: 410107--410154 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
410097 TTTCTACTCA
410107 TTTTTCTTTTTTC
1 TTTTTCTTTTTTC
**
410120 TTTTTCTTTTTGA
1 TTTTTCTTTTTTC
410133 TTTTTCTCTATTTTC
1 TTTTTCT-T-TTTTC
*
410148 TTATTCT
1 TTTTTCT
410155 AGCTAGACTA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
13 18 0.64
14 1 0.04
15 9 0.32
ACGTcount: A:0.06, C:0.15, G:0.02, T:0.77
Consensus pattern (13 bp):
TTTTTCTTTTTTC
Found at i:417285 original size:17 final size:17
Alignment explanation
Indices: 417244--417288 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 17
417234 TATGGTAATA
*
417244 TTTATTTTCTTTTCTCT
1 TTTACTTTCTTTTCTCT
417261 TTT-C-TTCTTCTT-TCT
1 TTTACTTTCTT-TTCTCT
417276 TTTACTTTCTTTT
1 TTTACTTTCTTTT
417289 TGTGATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
15 11 0.46
16 5 0.21
17 8 0.33
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTACTTTCTTTTCTCT
Found at i:420269 original size:20 final size:20
Alignment explanation
Indices: 420246--420288 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
420236 CATAAGAATT
420246 AAAGGA-AACAAATAAAAGTA
1 AAAGGATAA-AAATAAAAGTA
*
420266 AAAGGATAAAAATAAATGTA
1 AAAGGATAAAAATAAAAGTA
420286 AAA
1 AAA
420289 ATACGTTGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.70, C:0.02, G:0.14, T:0.14
Consensus pattern (20 bp):
AAAGGATAAAAATAAAAGTA
Found at i:438013 original size:121 final size:120
Alignment explanation
Indices: 437799--438042 Score: 470
Period size: 121 Copynumber: 2.0 Consensus size: 120
437789 GTTCCACTTT
*
437799 ATTAATAGCCTCATCCTGCCTTCTACACACAGTACAACGGTAACATTAAATCGCTTGTGCTTTCT
1 ATTAATAGCCTCATCCTGCCTTCTACACACAGTACAACGGTAACATTAAATCGCATGTGCTTTCT
437864 ACATTCAATCTTAAAGGGCCATCACATCGATGTCGGTGCAATCCTTCATGACCAG
66 ACATTCAATCTTAAAGGGCCATCACATCGATGTCGGTGCAATCCTTCATGACCAG
437919 NATTAATAGCCTCATCCTGCCTTCTACACACAGTACAACGGTAACATTAAATCGCATGTGCTTTC
1 -ATTAATAGCCTCATCCTGCCTTCTACACACAGTACAACGGTAACATTAAATCGCATGTGCTTTC
437984 TACATTCAATCTTAAAGGGCCATCACATCGATGTCGGTGCAATCCTTCATGACCAG
65 TACATTCAATCTTAAAGGGCCATCACATCGATGTCGGTGCAATCCTTCATGACCAG
438040 ATT
1 ATT
438043 GCTAAAGCAG
Statistics
Matches: 122, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
120 3 0.02
121 119 0.98
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (120 bp):
ATTAATAGCCTCATCCTGCCTTCTACACACAGTACAACGGTAACATTAAATCGCATGTGCTTTCT
ACATTCAATCTTAAAGGGCCATCACATCGATGTCGGTGCAATCCTTCATGACCAG
Found at i:439175 original size:21 final size:21
Alignment explanation
Indices: 439149--439195 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
439139 GATTGGTTCG
* *
439149 AAGGACAAGAAGAGGAAGCAC
1 AAGGACAAAAAGAAGAAGCAC
439170 AAGGACAAAAAGAAGAAGCAC
1 AAGGACAAAAAGAAGAAGCAC
439191 AAGGA
1 AAGGA
439196 AGAAGGAGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.57, C:0.13, G:0.30, T:0.00
Consensus pattern (21 bp):
AAGGACAAAAAGAAGAAGCAC
Found at i:439947 original size:11 final size:11
Alignment explanation
Indices: 439931--439957 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
439921 ATGTTGAATG
439931 AGAAAAAGAAA
1 AGAAAAAGAAA
439942 AGAAAAAGAAA
1 AGAAAAAGAAA
439953 AGAAA
1 AGAAA
439958 TATTACTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (11 bp):
AGAAAAAGAAA
Found at i:444141 original size:29 final size:29
Alignment explanation
Indices: 444109--444503 Score: 169
Period size: 29 Copynumber: 13.6 Consensus size: 29
444099 TGTCCAGGTG
*
444109 TAAAATGGTAATTTTTGGAGGTTCGGGGA
1 TAAAATGGTAATTTTTGGAAGTTCGGGGA
* * * * *
444138 TAAAACGGTAA-CTTTGGACACTTCAGTGA
1 TAAAATGGTAATTTTTGGA-AGTTCGGGGA
* * ** * *
444167 CAAAATGGTACTTTTCAGACA-CTCGGGGG
1 TAAAATGGTAATTTTTGGA-AGTTCGGGGA
*
444196 TAAGAAT-GTAATTTTTGGAAGTTTAGGGG-
1 TAA-AATGGTAATTTTTGGAAG-TTCGGGGA
444225 TAAAAATGGTAATTTTTGGAAGTTC-GGGA
1 T-AAAATGGTAATTTTTGGAAGTTCGGGGA
* * * * * ***
444254 GCAAAACGGTAATTTTAAGAAAATTCAAAG-
1 -TAAAATGGTAATTTT-TGGAAGTTCGGGGA
* * * * *
444284 TAAAAATTG-ATATTTTTGAAAATACGAGG-
1 T-AAAATGGTA-ATTTTTGGAAGTTCGGGGA
444313 TAAAATGGTAATTTTTGGAAGTTCGGGGGA
1 TAAAATGGTAATTTTTGGAAGTTC-GGGGA
*
444343 -AAAAT-GTGATTTTTTGGAAGTTCGAGGG-
1 TAAAATGGT-AATTTTTGGAAGTTCG-GGGA
*
444371 TAAAATGGTAATTTTT-GATAGTTTGAGGG-
1 TAAAATGGTAATTTTTGGA-AGTTCG-GGGA
**
444400 TAAAA-GTGTAATTTTTTGGAAGTTTAAGGG-
1 TAAAATG-GTAA-TTTTTGGAAG-TTCGGGGA
* *
444430 TAAAATGGAAATTTTTGGAAGTTTAGGGG-
1 TAAAATGGTAATTTTTGGAAG-TTCGGGGA
* *
444459 TAAAAT-GCAATTTTTAGAAAGTTCAGGGG-
1 TAAAATGGTAATTTTT-GGAAGTTC-GGGGA
*
444488 TAAAAAGGTAATTTTT
1 TAAAATGGTAATTTTT
444504 ATGAAGTTTG
Statistics
Matches: 283, Mismatches: 54, Indels: 57
0.72 0.14 0.14
Matches are distributed among these distances:
28 43 0.15
29 160 0.57
30 74 0.26
31 6 0.02
ACGTcount: A:0.35, C:0.05, G:0.26, T:0.34
Consensus pattern (29 bp):
TAAAATGGTAATTTTTGGAAGTTCGGGGA
Found at i:444252 original size:59 final size:58
Alignment explanation
Indices: 444189--444530 Score: 254
Period size: 59 Copynumber: 5.9 Consensus size: 58
444179 TTTCAGACAC
444189 TCGGGGGTAAGAAT-GTAATTTTTGGAAGTTTAGGGGTAAAAATGGTAATTTTTGGAAGT
1 TCGGGGGTAA-AATGGTAATTTTTGGAAGTTTAGGGGTAAAAAT-GTAATTTTTGGAAGT
* * * * * * * ** * *
444248 TCGGGAGCAAAACGGTAATTTTAAGAAAATTCA-AAGTAAAAAT-TGATATTTTTGAAAAT
1 TCGGGGGTAAAATGGTAATTTT-TGGAAGTTTAGGGGTAAAAATGT-A-ATTTTTGGAAGT
* * * * *
444307 AC-GAGGTAAAATGGTAATTTTTGGAAG-TTCGGGGGAAAAATGTGATTTTTTGGAAGT
1 TCGGGGGTAAAATGGTAATTTTTGGAAGTTTAGGGGTAAAAATGT-AATTTTTGGAAGT
* *
444364 TCGAGGGTAAAATGGTAATTTTT-GATAGTTT-GAGGGTAAAAGTGTAATTTTTTGGAAGT
1 TCGGGGGTAAAATGGTAATTTTTGGA-AGTTTAG-GGGTAAAAATGTAA-TTTTTGGAAGT
*** * * *
444423 TTAAGGGTAAAATGGAAATTTTTGGAAGTTTAGGGGT-AAAATGCAATTTTTAGAAAGT
1 TCGGGGGTAAAATGGTAATTTTTGGAAGTTTAGGGGTAAAAATGTAATTTTT-GGAAGT
* * * *
444481 TCAGGGGTAAAAAGGTAATTTTTATGAAGTTT--GGGTCAAAATGTGAATTT
1 TCGGGGGTAAAATGGTAATTTTT-GGAAGTTTAGGGGTAAAAATGT-AATTT
444531 GGAAAAGTTT
Statistics
Matches: 221, Mismatches: 45, Indels: 34
0.74 0.15 0.11
Matches are distributed among these distances:
56 1 0.00
57 32 0.14
58 80 0.36
59 99 0.45
60 9 0.04
ACGTcount: A:0.35, C:0.03, G:0.27, T:0.35
Consensus pattern (58 bp):
TCGGGGGTAAAATGGTAATTTTTGGAAGTTTAGGGGTAAAAATGTAATTTTTGGAAGT
Found at i:444376 original size:58 final size:58
Alignment explanation
Indices: 444193--444526 Score: 245
Period size: 58 Copynumber: 5.7 Consensus size: 58
444183 AGACACTCGG
* *
444193 GGGTAAGAAT-GTAATTTTTGGAAGTTTAGGGGTAAAAATG-GTAATTTTTGGAAGTTCG-
1 GGGTAA-AATGGTAATTTTTGGAAG-TTCGGGGTAAAAATGTG-ATTTTTTGGAAGTTCGA
* * * * * *** * * *
444251 GGAGCAAAACGGTAATTTTAAGAAAATTCAAAGTAAAAAT-TGATATTTTTGAAAATACGA
1 GG-GTAAAATGGTAATTTT-TGGAAGTTCGGGGTAAAAATGTGAT-TTTTTGGAAGTTCGA
*
444311 -GGTAAAATGGTAATTTTTGGAAGTTCGGGGGAAAAATGTGATTTTTTGGAAGTTCGA
1 GGGTAAAATGGTAATTTTTGGAAGTTCGGGGTAAAAATGTGATTTTTTGGAAGTTCGA
* * * **
444368 GGGTAAAATGGTAATTTTT-GATAGTTTGAGGGTAAAAGTGTAATTTTTTGGAAGTTTAA
1 GGGTAAAATGGTAATTTTTGGA-AGTTCG-GGGTAAAAATGTGATTTTTTGGAAGTTCGA
* * ** * *
444427 GGGTAAAATGGAAATTTTTGGAAGTTTAGGGGT-AAAATGCAATTTTTAGAAAGTTC-A
1 GGGTAAAATGGTAATTTTTGGAAG-TTCGGGGTAAAAATGTGATTTTTTGGAAGTTCGA
* * * *
444484 GGGGTAAAAAGGTAATTTTTATGAAGTT-TGGGTCAAAATGTGA
1 -GGGTAAAATGGTAATTTTT-GGAAGTTCGGGGTAAAAATGTGA
444527 ATTTGGAAAA
Statistics
Matches: 217, Mismatches: 44, Indels: 30
0.75 0.15 0.10
Matches are distributed among these distances:
57 32 0.15
58 90 0.41
59 87 0.40
60 8 0.04
ACGTcount: A:0.36, C:0.03, G:0.27, T:0.34
Consensus pattern (58 bp):
GGGTAAAATGGTAATTTTTGGAAGTTCGGGGTAAAAATGTGATTTTTTGGAAGTTCGA
Found at i:444445 original size:88 final size:88
Alignment explanation
Indices: 444311--444530 Score: 208
Period size: 88 Copynumber: 2.5 Consensus size: 88
444301 GAAAATACGA
*** *
444311 GGTAAAA-TGGTAA-TTTTTGGAAGTTCGGGGGAAAAATGTGATTTTTTGGAAGTTCGA-GGGTA
1 GGTAAAAGT-GTAATTTTTTGGAAGTTTAAGGGAAAAATGTGAATTTTTGGAAGTT-GAGGGGTA
* * *
444373 AAATGGTAATTTTT-GATAGTT-TGAG
64 AAAT-GCAATTTTTAGAAAGTTCAG-G
* *
444398 GGTAAAAGTGTAATTTTTTGGAAGTTTAAGGGTAAAATG-GAAATTTTTGGAAGTTTAGGGGTAA
1 GGTAAAAGTGTAATTTTTTGGAAGTTTAAGGGAAAAATGTG-AATTTTTGGAAGTTGAGGGGTAA
444462 AATGCAATTTTTAGAAAGTTCAGG
65 AATGCAATTTTTAGAAAGTTCAGG
*
444486 GGTAAAAAG-GTAATTTTTAT-GAAGTTT--GGGTCAAAATGTGAATTT
1 GGT-AAAAGTGTAATTTTT-TGGAAGTTTAAGGG-AAAAATGTGAATTT
444531 GGAAAAGTTT
Statistics
Matches: 113, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
86 3 0.03
87 32 0.28
88 71 0.63
89 7 0.06
ACGTcount: A:0.33, C:0.02, G:0.28, T:0.36
Consensus pattern (88 bp):
GGTAAAAGTGTAATTTTTTGGAAGTTTAAGGGAAAAATGTGAATTTTTGGAAGTTGAGGGGTAAA
ATGCAATTTTTAGAAAGTTCAGG
Found at i:444636 original size:29 final size:29
Alignment explanation
Indices: 444313--444655 Score: 190
Period size: 30 Copynumber: 11.7 Consensus size: 29
444303 AAATACGAGG
* *
444313 TAAAATGGTAATTTTTGG-AAGTTCGGGGG
1 TAAAAT-GTAATTTTTGGAAAGTTTGGGGT
* * *
444342 AAAAATGTGATTTTTTGG-AAGTTCGAGGG-
1 TAAAATGT-AATTTTTGGAAAGTTTG-GGGT
*
444371 TAAAATGGTAATTTTT-GATAGTTTGAGGG-
1 TAAAAT-GTAATTTTTGGAAAGTTTG-GGGT
*
444400 TAAAAGTGTAATTTTTTGG-AAGTTTAAGGG-
1 TAAAA-TGTAA-TTTTTGGAAAGTTT-GGGGT
*
444430 TAAAATGGAAATTTTTGG-AAGTTTAGGGG-
1 TAAAAT-GTAATTTTTGGAAAGTTT-GGGGT
* * *
444459 TAAAATGCAATTTTTAGAAAGTTCAGGGGT
1 TAAAATGTAATTTTTGGAAAGTT-TGGGGT
* * *
444489 AAAAAGGTAATTTTTATG-AAGTTT-GGGT
1 TAAAATGTAATTTTT-GGAAAGTTTGGGGT
* **
444517 CAAAATGTGAA--TTTGGAAAAGTTTAGTTGT
1 TAAAATGT-AATTTTTGG-AAAGTTT-GGGGT
* * * *
444547 CAAAATATGATTTTTGGAAAATTTGAGGGT
1 TAAAATGTAATTTTTGGAAAGTTTG-GGGT
* * * *
444577 CAAAATATAATTTTTAGAAAATTTGAGGGT
1 TAAAATGTAATTTTTGGAAAGTTTG-GGGT
*
444607 TAAAATATAATTTTTGGAAAGTTTGGGGT
1 TAAAATGTAATTTTTGGAAAGTTTGGGGT
* *
444636 TAAAACGTGATTTTTGGAAA
1 TAAAATGTAATTTTTGGAAA
444656 ATTCAGGGAC
Statistics
Matches: 257, Mismatches: 36, Indels: 42
0.77 0.11 0.13
Matches are distributed among these distances:
26 1 0.00
27 3 0.01
28 28 0.11
29 107 0.42
30 111 0.43
31 7 0.03
ACGTcount: A:0.35, C:0.02, G:0.26, T:0.37
Consensus pattern (29 bp):
TAAAATGTAATTTTTGGAAAGTTTGGGGT
Found at i:446378 original size:18 final size:17
Alignment explanation
Indices: 446354--446419 Score: 78
Period size: 17 Copynumber: 3.8 Consensus size: 17
446344 TTTAATTAAT
*
446354 TTTAATTTTAAAATAAA
1 TTTAAATTTAAAATAAA
446371 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
* * *
446388 TTCAAACTTGAAATAAAA
1 TTTAAATTTAAAAT-AAA
*
446406 TTAAAATTTAAAAT
1 TTTAAATTTAAAAT
446420 TTGGACTCAA
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
17 27 0.66
18 14 0.34
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:447008 original size:49 final size:49
Alignment explanation
Indices: 446948--447063 Score: 187
Period size: 49 Copynumber: 2.4 Consensus size: 49
446938 ATTTGGTCTA
* * * *
446948 CTTCTCAGTATCTCATCGGGAAGATGACCGCATCACTTGTTTCAATTTG
1 CTTCTCTGTATCTCATCAGGAAAACGACCGCATCACTTGTTTCAATTTG
446997 CTTCTCTGTATCTCATCAGGAAAACGACCGCATCACTTGTTTCAATTTG
1 CTTCTCTGTATCTCATCAGGAAAACGACCGCATCACTTGTTTCAATTTG
*
447046 TTTCTCTGTATCTCATCA
1 CTTCTCTGTATCTCATCA
447064 TGATGACGAA
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 62 1.00
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (49 bp):
CTTCTCTGTATCTCATCAGGAAAACGACCGCATCACTTGTTTCAATTTG
Found at i:447418 original size:209 final size:209
Alignment explanation
Indices: 446997--447956 Score: 1246
Period size: 209 Copynumber: 4.6 Consensus size: 209
446987 TTTCAATTTG
* * * ** **** *
446997 CTTCTCTGTATCTCATCAGGAAAACGACCGCATCACTTGTTTCAATTTGTTTCTCTGTATCTCAT
1 CTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCCACTTCTCTGTGTCTCAT
* * * * * * * * * *
447062 CATGATGAC-GAATTTGGTCCACTTCTCAGTATTTCATCAAGAAGCTGACCATTTTATTGCTTCG
66 CAAGAAGACAG-ATCTGGTTCACTTCTCTGTATCTCATCAGGAAGGTAACCACTTTATTGCTTCG
* * * *
447126 ACCATGCTTCTCAGTATCTCATCAAGAAGCT-GAGGTTCGAAG-TTTCGCTCACCTTGAGCTTTA
130 ACC-TGCTTCTCAGTATCTCATCAGGAAGCTAG-GGTTCGAAGATTT-GCTCACTTTGAGCCTGA
* **
447189 TTTTATTGATTTAATCTA
192 TTTCATTGATTTGGTCTA
* *
447207 CTTCTCAGTATCTCATCAAGAAGATGACTGCATCACTTGTTTTGATCCACTTCTCTGTGTCTCAT
1 CTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCCACTTCTCTGTGTCTCAT
* * *
447272 CAAGAAGACAGATCTGGTTCACTTCTCTGTATCTCATTAGGAAGGTAACCACTTTAATGCTTCAA
66 CAAGAAGACAGATCTGGTTCACTTCTCTGTATCTCATCAGGAAGGTAACCACTTTATTGCTTCGA
* *
447337 CCTGCTTCTCAGTATCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCACTTTGAGCCTGGTTTT
131 CCTGCTTCTCAGTATCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCACTTTGAGCCTGATTTC
447402 ATTGATTTGGTCTA
196 ATTGATTTGGTCTA
*
447416 CTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCCACTTCTTTGTGTCTCAT
1 CTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCCACTTCTCTGTGTCTCAT
* * *
447481 CAGGAAGACGGATCTAGTTCACTTCTCTGTATCTCATCAGGAAGGTAACCACTTTATTGCTTCGA
66 CAAGAAGACAGATCTGGTTCACTTCTCTGTATCTCATCAGGAAGGTAACCACTTTATTGCTTCGA
* * *
447546 CTTGCTTCTCAGTATCTCATCAGGAAGCTAGGGCTCGAAGATTTGCTCACTTTGAGCCTGGTTTC
131 CCTGCTTCTCAGTATCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCACTTTGAGCCTGATTTC
* *
447611 ACTGATTTGGTTTA
196 ATTGATTTGGTCTA
*
447625 CTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTATTTTGATCCACTTCTCTGTGTCTCAT
1 CTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCCACTTCTCTGTGTCTCAT
* * * * **
447690 TAGGAAGACGGATATAATTCACTTCTCTGTATCTCATCAGGAAGGTAACCACTTTATTGCTTCGA
66 CAAGAAGACAGATCTGGTTCACTTCTCTGTATCTCATCAGGAAGGTAACCACTTTATTGCTTCGA
* * * *
447755 CCTACTTCTCAATATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTTACTTTGAGCCTGATTTC
131 CCTGCTTCTCAGTATCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCACTTTGAGCCTGATTTC
447820 ATTGATTTGGTCTA
196 ATTGATTTGGTCTA
* * * * * *
447834 CTTCTAAGTATCTCATTAGGAAGATGACTGTATCATTTGTTTTGATCCACTTCTTTGTGTCTCA-
1 CTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCCACTTCTCTGTGTCTCAT
* * * **
447898 CCAGAAAGGA-AGATCTGGTTCACTTCTCTGTATCTCATCAAGAAAGTAACTGCTTTATT
66 CAAG-AA-GACAGATCTGGTTCACTTCTCTGTATCTCATCAGGAAGGTAACCACTTTATT
447957 ACTTTAGATA
Statistics
Matches: 667, Mismatches: 78, Indels: 11
0.88 0.10 0.01
Matches are distributed among these distances:
208 1 0.00
209 554 0.83
210 111 0.17
211 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (209 bp):
CTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCCACTTCTCTGTGTCTCAT
CAAGAAGACAGATCTGGTTCACTTCTCTGTATCTCATCAGGAAGGTAACCACTTTATTGCTTCGA
CCTGCTTCTCAGTATCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCACTTTGAGCCTGATTTC
ATTGATTTGGTCTA
Found at i:450307 original size:22 final size:21
Alignment explanation
Indices: 450282--450339 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
450272 TCTTGACCCT
* *
450282 TTTTTTAGTTGTTTTGTTTTTC
1 TTTTTTACTTCTTTT-TTTTTC
*
450304 TTTTTTTCTTCTTTTTTTTTC
1 TTTTTTACTTCTTTTTTTTTC
450325 TTTTTT-C-TCTTTTTT
1 TTTTTTACTTCTTTTTT
450340 AACGCTTCGA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
19 8 0.24
20 1 0.03
21 12 0.36
22 12 0.36
ACGTcount: A:0.02, C:0.10, G:0.05, T:0.83
Consensus pattern (21 bp):
TTTTTTACTTCTTTTTTTTTC
Found at i:450310 original size:9 final size:10
Alignment explanation
Indices: 450293--450339 Score: 60
Period size: 11 Copynumber: 4.6 Consensus size: 10
450283 TTTTTAGTTG
450293 TTTTGTTTTTC
1 TTTT-TTTTTC
450304 TTTTTTTCTTC
1 TTTTTTT-TTC
450315 TTTTTTTTTC
1 TTTTTTTTTC
*
450325 -TTTTTTCTC
1 TTTTTTTTTC
450334 TTTTTT
1 TTTTTT
450340 AACGCTTCGA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
9 8 0.24
10 11 0.33
11 14 0.42
ACGTcount: A:0.00, C:0.13, G:0.02, T:0.85
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:450320 original size:10 final size:10
Alignment explanation
Indices: 450305--450339 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
450295 TTGTTTTTCT
450305 TTTTTTCTTC
1 TTTTTTCTTC
*
450315 TTTTTTTTTC
1 TTTTTTCTTC
450325 TTTTTTC-TC
1 TTTTTTCTTC
450334 TTTTTT
1 TTTTTT
450340 AACGCTTCGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 8 0.35
10 15 0.65
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTTTCTTC
Found at i:450322 original size:21 final size:19
Alignment explanation
Indices: 450293--450339 Score: 67
Period size: 19 Copynumber: 2.3 Consensus size: 19
450283 TTTTTAGTTG
450293 TTTTGTTTTTCTTTTTTTCTTC
1 TTTT-TTTTTC-TTTTTTC-TC
450315 TTTTTTTTTCTTTTTTCTC
1 TTTTTTTTTCTTTTTTCTC
450334 TTTTTT
1 TTTTTT
450340 AACGCTTCGA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 8 0.32
20 7 0.28
21 6 0.24
22 4 0.16
ACGTcount: A:0.00, C:0.13, G:0.02, T:0.85
Consensus pattern (19 bp):
TTTTTTTTTCTTTTTTCTC
Found at i:453842 original size:30 final size:29
Alignment explanation
Indices: 453806--454192 Score: 155
Period size: 30 Copynumber: 13.2 Consensus size: 29
453796 CAAGAATGCT
453806 ATTTTTGGAAGTTTACGGGTAAAAATGGTA
1 ATTTTTGGAAGTTTA-GGGTAAAAATGGTA
* * *
453836 ATTTTTGGAAGTTCGAGAG-AAAAACGGTA
1 ATTTTTGGAAGTT-TAGGGTAAAAATGGTA
*** * * * *
453865 ATTTTCAAAAAATTCAGAGTCAAAAATGAT-
1 ATTTT-TGGAAGTTTAGGGT-AAAAATGGTA
* * *
453895 ATTTTTGAAAATTCGAGGGT---AATGGTA
1 ATTTTTGGAAGTT-TAGGGTAAAAATGGTA
*
453922 ATTTTTTGAAGTTTAAGGGTAAAAAT-GTGA
1 ATTTTTGGAAGTTT-AGGGTAAAAATGGT-A
* *
453952 TTTTTTGGAAGTTCGAGGGT-AAAATGGTA
1 ATTTTTGGAAGTT-TAGGGTAAAAATGGTA
* *
453981 ATTTTTGGAAG--TACGGGAAAAAAT-GCA
1 ATTTTTGGAAGTTTA-GGGTAAAAATGGTA
*
454008 ATTTTTTAGAAGTTT-GAGGT-AAAATGGTA
1 A-TTTTTGGAAGTTTAG-GGTAAAAATGGTA
* * *
454037 ATTTTTAGAAGTTTGGGGGT-AAAAT-GCA
1 ATTTTTGGAAGTTT-AGGGTAAAAATGGTA
*
454065 ATTTTTTGGAAAGTTTGAGGATAAAAAT-GTA
1 A-TTTTTGG-AAGTTT-AGGGTAAAAATGGTA
* * *
454096 ATTTTTGTGAATTTTAGGGGTCAAAAT-GTG
1 ATTTTTG-GAAGTTTA-GGGTAAAAATGGTA
* *
454126 A-TTTTGGAAAAGTTTAAGGGTTAAAAT-GTG
1 ATTTTTGG--AAGTTT-AGGGTAAAAATGGTA
* * * *
454156 ATTATTTGAAAATTTGAGGGTTAAAAT-ATA
1 ATT-TTTGGAAGTTT-AGGGTAAAAATGGTA
454186 ATTTTTG
1 ATTTTTG
454193 AAAATTTTGG
Statistics
Matches: 280, Mismatches: 45, Indels: 65
0.72 0.12 0.17
Matches are distributed among these distances:
26 6 0.02
27 21 0.08
28 37 0.13
29 71 0.25
30 122 0.44
31 19 0.07
32 4 0.01
ACGTcount: A:0.36, C:0.03, G:0.24, T:0.37
Consensus pattern (29 bp):
ATTTTTGGAAGTTTAGGGTAAAAATGGTA
Found at i:453858 original size:29 final size:29
Alignment explanation
Indices: 453826--454102 Score: 124
Period size: 29 Copynumber: 9.6 Consensus size: 29
453816 GTTTACGGGT
453826 AAAAATGGTAATTTTTGGAAGTTCGAGAG
1 AAAAATGGTAATTTTTGGAAGTTCGAGAG
* *** *
453855 AAAAACGGTAATTTTCAAAAAATTC-AGAG
1 AAAAATGGTAATTTT-TGGAAGTTCGAGAG
* * *
453884 TCAAAAATGAT-ATTTTTGAAAATTCGAG-G
1 --AAAAATGGTAATTTTTGGAAGTTCGAGAG
** * ** *
453913 -GTAATGGTAATTTTTTGAAGTTTAAGGG
1 AAAAATGGTAATTTTTGGAAGTTCGAGAG
* *
453941 TAAAAAT-GTGATTTTTTGGAAGTTCGAGGG
1 -AAAAATGGT-AATTTTTGGAAGTTCGAGAG
* * *
453971 TAAAATGGTAATTTTTGGAAGTACGGGA-
1 AAAAATGGTAATTTTTGGAAGTTCGAGAG
* * *
453999 AAAAAT-GCAATTTTTTAGAAGTTTGAG-G
1 AAAAATGGTAA-TTTTTGGAAGTTCGAGAG
* * * * *
454027 TAAAATGGTAATTTTTAGAAGTTTGGGGG
1 AAAAATGGTAATTTTTGGAAGTTCGAGAG
* * * *
454056 TAAAAT-GCAATTTTTTGGAAAGTTTGAGGAT
1 AAAAATGGTAA-TTTTTGG-AAGTTCGA-GAG
454087 AAAAAT-GTAATTTTTG
1 AAAAATGGTAATTTTTG
454103 TGAATTTTAG
Statistics
Matches: 187, Mismatches: 44, Indels: 33
0.71 0.17 0.12
Matches are distributed among these distances:
26 5 0.03
27 15 0.08
28 41 0.22
29 64 0.34
30 46 0.25
31 16 0.09
ACGTcount: A:0.37, C:0.04, G:0.24, T:0.35
Consensus pattern (29 bp):
AAAAATGGTAATTTTTGGAAGTTCGAGAG
Found at i:453957 original size:57 final size:58
Alignment explanation
Indices: 453891--454130 Score: 206
Period size: 57 Copynumber: 4.1 Consensus size: 58
453881 GAGTCAAAAA
* *
453891 TGATATTTTTGAAAATTCGAGGGT-AATGGTAATTTTTTGAAGTTTAAGGGTAAAAATG
1 TGAT-TTTTTGAAAGTTCGAGGGTAAATGGTAATTTTTTGAAGTTTAGGGGTAAAAATG
* * * *
453949 TGATTTTTTGGAAGTTCGAGGGTAAAATGGTAATTTTTGGAAG--TACGGGAAAAAATG
1 TGATTTTTTGAAAGTTCGAGGGT-AAATGGTAATTTTTTGAAGTTTAGGGGTAAAAATG
** * * *
454006 CAATTTTTT-AGAAGTTTGA-GGTAAAATGGTAATTTTTAGAAGTTTGGGGGT-AAAATG
1 TGATTTTTTGA-AAGTTCGAGGGT-AAATGGTAATTTTTTGAAGTTTAGGGGTAAAAATG
** * * * *
454063 CAATTTTTTGGAAAGTTTGAGGATAAAAAT-GTAATTTTTGTGAATTTTAGGGGTCAAAATG
1 TGATTTTTT-GAAAGTTCGAGGGT--AAATGGTAATTTTT-TGAAGTTTAGGGGTAAAAATG
454124 TGATTTT
1 TGATTTT
454131 GGAAAAGTTT
Statistics
Matches: 152, Mismatches: 19, Indels: 19
0.80 0.10 0.10
Matches are distributed among these distances:
56 22 0.14
57 58 0.38
58 16 0.11
59 29 0.19
60 16 0.11
61 11 0.07
ACGTcount: A:0.33, C:0.03, G:0.25, T:0.39
Consensus pattern (58 bp):
TGATTTTTTGAAAGTTCGAGGGTAAATGGTAATTTTTTGAAGTTTAGGGGTAAAAATG
Found at i:454010 original size:27 final size:29
Alignment explanation
Indices: 453953--454048 Score: 72
Period size: 28 Copynumber: 3.4 Consensus size: 29
453943 AAAATGTGAT
* ** *
453953 TTTTTGGAAGTTCGAGGGTAAAATGGTAA
1 TTTTTGGAAGTACGAGGAAAAAATGGCAA
453982 TTTTTGGAAGTACG-GGAAAAAAT-GCAA
1 TTTTTGGAAGTACGAGGAAAAAATGGCAA
* ** * *
454009 TTTTTTAGAAGTTTGAGG-TAAAATGGTAA
1 -TTTTTGGAAGTACGAGGAAAAAATGGCAA
*
454038 TTTTTAGAAGT
1 TTTTTGGAAGT
454049 TTGGGGGTAA
Statistics
Matches: 55, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
27 3 0.05
28 34 0.62
29 18 0.33
ACGTcount: A:0.34, C:0.03, G:0.26, T:0.36
Consensus pattern (29 bp):
TTTTTGGAAGTACGAGGAAAAAATGGCAA
Found at i:454182 original size:60 final size:59
Alignment explanation
Indices: 454068--454256 Score: 159
Period size: 60 Copynumber: 3.2 Consensus size: 59
454058 AAATGCAATT
* * * ** * * *
454068 TTTTGG-AAAGTTTGAGGATAAAAATGTAATTTTTGTGAATTTTAGGGGTCAAAATGTGA
1 TTTTGGAAAAGTTTAAGGGTTAAAATGTAATTTTTGAAAATTTGA-GGGTTAAAATATGA
* *
454127 TTTTGGAAAAGTTTAAGGGTTAAAATGTGATTATTTGAAAATTTGAGGGTTAAAATATAA
1 TTTTGGAAAAGTTTAAGGGTTAAAATGTAATT-TTTGAAAATTTGAGGGTTAAAATATGA
* ** * * * *
454187 TTTTTGAAAA-TTTTGGGGTTCAAAATATAATTTCTAGAAAGTTTG-GGGTTAAAACATGA
1 TTTTGGAAAAGTTTAAGGGTT-AAAATGTAATTT-TTGAAAATTTGAGGGTTAAAATATGA
454246 TTTTTGGAAAA
1 -TTTTGGAAAA
454257 TTCAGGGACC
Statistics
Matches: 105, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
59 27 0.26
60 68 0.65
61 10 0.10
ACGTcount: A:0.37, C:0.02, G:0.22, T:0.39
Consensus pattern (59 bp):
TTTTGGAAAAGTTTAAGGGTTAAAATGTAATTTTTGAAAATTTGAGGGTTAAAATATGA
Found at i:454214 original size:30 final size:29
Alignment explanation
Indices: 454035--454258 Score: 130
Period size: 30 Copynumber: 7.5 Consensus size: 29
454025 GGTAAAATGG
* * * *
454035 TAATTTTT-AGAAGTTTGGGGGTAAAATG
1 TAATTTTTGAAAATTTTGGGGTTAAAATA
* * * * * *
454063 CAATTTTTTGGAAAGTTTGAGGATAAAAATG
1 TAA-TTTTTGAAAATTTTG-GGGTTAAAATA
** * *
454094 TAATTTTTGTGAATTTTAGGGGTCAAAATG
1 TAATTTTTGAAAATTTT-GGGGTTAAAATA
* * ** *
454124 TGATTTTGGAAAAGTTTAAGGGTTAAAATG
1 TAATTTTTGAAAA-TTTTGGGGTTAAAATA
*
454154 TGATTATTTGAAAA-TTTGAGGGTTAAAATA
1 TAATT-TTTGAAAATTTTG-GGGTTAAAATA
454184 TAATTTTTGAAAATTTTGGGGTTCAAAATA
1 TAATTTTTGAAAATTTTGGGGTT-AAAATA
* * *
454214 TAATTTCT-AGAAAGTTTGGGGTTAAAACA
1 TAATTTTTGA-AAATTTTGGGGTTAAAATA
*
454243 TGATTTTTGGAAAATT
1 TAATTTTT-GAAAATT
454259 CAGGGACCTT
Statistics
Matches: 154, Mismatches: 30, Indels: 22
0.75 0.15 0.11
Matches are distributed among these distances:
28 2 0.01
29 32 0.21
30 98 0.64
31 22 0.14
ACGTcount: A:0.36, C:0.02, G:0.22, T:0.40
Consensus pattern (29 bp):
TAATTTTTGAAAATTTTGGGGTTAAAATA
Found at i:454228 original size:90 final size:89
Alignment explanation
Indices: 454067--454258 Score: 219
Period size: 90 Copynumber: 2.1 Consensus size: 89
454057 AAAATGCAAT
* * ** * * *
454067 TTTTTGGAAAGTTTGAGGATAAAAATGTAATTTTTGTGAATTTTAGGGGTCAAAATGTGATTTTG
1 TTTTTGGAAAATTTGAGGATAAAAATATAATTTTTGAAAATTTTAGGGGTCAAAATATAATTTTA
**
454132 GAAAAGTTTAAGGGTTAAAATGTGA
66 GAAAAGTTT-AGGGTTAAAACATGA
* *
454157 TTATTT-GAAAATTTGAGGGTTAAAATATAATTTTTGAAAATTTT-GGGGTTCAAAATATAATTT
1 TT-TTTGGAAAATTTGAGGATAAAAATATAATTTTTGAAAATTTTAGGGG-TCAAAATATAATTT
*
454220 CTAG-AAAGTTTGGGGTTAAAACATGA
64 -TAGAAAAGTTTAGGGTTAAAACATGA
454246 TTTTTGGAAAATT
1 TTTTTGGAAAATT
454259 CAGGGACCTT
Statistics
Matches: 86, Mismatches: 12, Indels: 9
0.80 0.11 0.08
Matches are distributed among these distances:
88 3 0.03
89 25 0.29
90 53 0.62
91 5 0.06
ACGTcount: A:0.36, C:0.02, G:0.22, T:0.40
Consensus pattern (89 bp):
TTTTTGGAAAATTTGAGGATAAAAATATAATTTTTGAAAATTTTAGGGGTCAAAATATAATTTTA
GAAAAGTTTAGGGTTAAAACATGA
Found at i:456076 original size:17 final size:17
Alignment explanation
Indices: 456056--456154 Score: 101
Period size: 17 Copynumber: 5.8 Consensus size: 17
456046 TTTAATTAAT
*
456056 TTTAATTTTAAAATAAA
1 TTTAAATTTAAAATAAA
*
456073 TTTAAATTTAAAGTAAA
1 TTTAAATTTAAAATAAA
* * * *
456090 TTCAAACTTAAGATAAC
1 TTTAAATTTAAAATAAA
456107 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
* * *
456124 -TCAAACTTGAAATAAA
1 TTTAAATTTAAAATAAA
456140 TTTAAAATTTAAAAT
1 TTT-AAATTTAAAAT
456155 TGGACTCAAT
Statistics
Matches: 63, Mismatches: 17, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
16 13 0.21
17 41 0.65
18 9 0.14
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:456144 original size:33 final size:33
Alignment explanation
Indices: 456066--456154 Score: 126
Period size: 34 Copynumber: 2.6 Consensus size: 33
456056 TTTAATTTTA
*
456066 AAATAAATTTAAATTTAAAGTAAATTCAAACTT
1 AAATAAATTTAAATTTAAAATAAATTCAAACTT
*
456099 AAGATAACTTTAAATTTAAAATAAA-TCAAACTT
1 AA-ATAAATTTAAATTTAAAATAAATTCAAACTT
456132 GAAATAAATTTAAAATTTAAAAT
1 -AAATAAATTT-AAATTTAAAAT
456155 TGGACTCAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
33 17 0.34
34 33 0.66
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (33 bp):
AAATAAATTTAAATTTAAAATAAATTCAAACTT
Found at i:456756 original size:49 final size:49
Alignment explanation
Indices: 456691--456808 Score: 191
Period size: 49 Copynumber: 2.4 Consensus size: 49
456681 CTACTTCTTA
** *
456691 GTATCTCATCGGGAAGATGACCGTATCACTTGTTTCAATTTGCTTCTCT
1 GTATCTCATCAAGAAGACGACCGTATCACTTGTTTCAATTTGCTTCTCT
456740 GTATCTCATCAAGAAGACGACCGTATCACTTGTTTCAATTTGCTTCTCT
1 GTATCTCATCAAGAAGACGACCGTATCACTTGTTTCAATTTGCTTCTCT
* *
456789 GTATCTCATTAGGAAGACGA
1 GTATCTCATCAAGAAGACGA
456809 ATTTGGTCCA
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 64 1.00
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.36
Consensus pattern (49 bp):
GTATCTCATCAAGAAGACGACCGTATCACTTGTTTCAATTTGCTTCTCT
Found at i:457008 original size:259 final size:259
Alignment explanation
Indices: 456543--457015 Score: 617
Period size: 259 Copynumber: 1.8 Consensus size: 259
456533 TTTTACTAGA
* * * *
456543 AAGACGGATTTGGTTCACTTCTCTACGTCTCATCAGGAAGATAACCATTTTATTGCTTCGACCTC
1 AAGACGAATTTGGTCCACTTCTCAACATCTCATCAGGAAGATAACCATTTTATTGCTTCGACCTC
* * * *
456608 CTTCTCAGTACCTCATCAAGAAGCTAAGGTTCGAAGTTTTGCTCGCATCAAGGTTTGGTTTCATT
66 CTTCTCACTACCTCATCAAGAAGCTAAGGTTCGAAGTTTCGCTCACATCAAGCTTTGGTTTCATT
* * * * ***
456673 GATTTGGTCTACTTCTTAGTATCTCATCGGGAAGATGACCGTATCACTTGTTTCAATTTGCTTCT
131 GATTTGGTCTACTTCTCAGTATCTCATCAGAAAGATGACCGCATCACTTGTTTCAATCAACTTCT
456738 CTGTATCTCATCAAGAAGACGACCGTATCACTTGTTTCAATTTGCTTCTCTGTATCTCATTAGG
196 CTGTATCTCATCAAGAAGACGACCGTATCACTTGTTTCAATTTGCTTCTCTGTATCTCATTAGG
* * * *
456802 AAGACGAATTTGGTCCACTTCTCAATATTTCATCAGGAAGCTAACCATTTTATTGTTTCGACCAT
1 AAGACGAATTTGGTCCACTTCTCAACATCTCATCAGGAAGATAACCATTTTATTGCTTCGACC-T
* * * * * * * *
456867 GCTTCTCACTATCTCATTAGGAAGCTGAGGTTTGAAGTTTCGCTCACCTCGAGCTTT-G-TTCTA
65 CCTTCTCACTACCTCATCAAGAAGCTAAGGTTCGAAGTTTCGCTCACATCAAGCTTTGGTTTC-A
* **
456930 TTGATTTGGTCTACTTCTCAGTATCTCATTAGAAAGATGACCGCATCACTTGTTTTTATCAACTT
129 TTGATTTGGTCTACTTCTCAGTATCTCATCAGAAAGATGACCGCATCACTTGTTTCAATCAACTT
* * *
456995 CTTTGTGTCTCATCAGGAAGA
194 CTCTGTATCTCATCAAGAAGA
457016 TGGATCGGGT
Statistics
Matches: 179, Mismatches: 33, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
258 3 0.02
259 130 0.73
260 46 0.26
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.37
Consensus pattern (259 bp):
AAGACGAATTTGGTCCACTTCTCAACATCTCATCAGGAAGATAACCATTTTATTGCTTCGACCTC
CTTCTCACTACCTCATCAAGAAGCTAAGGTTCGAAGTTTCGCTCACATCAAGCTTTGGTTTCATT
GATTTGGTCTACTTCTCAGTATCTCATCAGAAAGATGACCGCATCACTTGTTTCAATCAACTTCT
CTGTATCTCATCAAGAAGACGACCGTATCACTTGTTTCAATTTGCTTCTCTGTATCTCATTAGG
Found at i:457673 original size:208 final size:209
Alignment explanation
Indices: 456733--457695 Score: 1239
Period size: 209 Copynumber: 4.6 Consensus size: 209
456723 TTTCAATTTG
* * * * ** *** *
456733 CTTCTCTGTATCTCATCAAGAAGACGACCGTATCACTTGTTTCAATTTGCTTCTCTGTATCTCAT
1 CTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCCACTTCTCTGTGTCTCAT
* * * * * * * * *
456798 TAGGAAGACGAATTTGGTCCACTTCTCAATATTTCATCAGGAAGCTAACCATTTTATTGTTTCGA
66 CAGGAAGACGGATCTGGTTCACTTCTCTATATCTCATCAGGAAGGTAACCACTTTATTGCTTCGA
* * * * * * * * *
456863 CCATGCTTCTCACTATCTCATTAGGAAGCTGAGGTTTGAAG-TTTCGCTCACCTCGAGCTTTG-T
131 CC-TGCTTCTCAGTATCTCATCAAGAAGCTGGGGTTCGAAGATTT-GCTCACTTTGAGCCTGGTT
456926 TCTATTGATTTGGTCTA
194 TC-ATTGATTTGGTCTA
* * * * *
456943 CTTCTCAGTATCTCATTAGAAAGATGACCGCATCACTTGTTTTTATCAACTTCTTTGTGTCTCAT
1 CTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCCACTTCTCTGTGTCTCAT
* * * *
457008 CAGGAAGATGGATCGGGTTCACTTCTCTATATCTCATCAAGAAGGTAACCACTTTAATGCTTCGA
66 CAGGAAGACGGATCTGGTTCACTTCTCTATATCTCATCAGGAAGGTAACCACTTTATTGCTTCGA
* * * * *
457073 TCTGCTTCTCAGTATTTCATCAAGAAGCTAGGTTTCGAAGATTTGTTCACTTTGAGCCTGGTTTC
131 CCTGCTTCTCAGTATCTCATCAAGAAGCTGGGGTTCGAAGATTTGCTCACTTTGAGCCTGGTTTC
*
457138 ATTGATTTTGTCTA
196 ATTGATTTGGTCTA
* *
457152 CTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCTACTTCTTTGTGTCTCAT
1 CTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCCACTTCTCTGTGTCTCAT
* * * *
457217 TAGGAAGACAGATCTGGTTCACTTCTCTATATCTCATCAAGAGGGTAACCACTTTATTGCTTCGA
66 CAGGAAGACGGATCTGGTTCACTTCTCTATATCTCATCAGGAAGGTAACCACTTTATTGCTTCGA
* * * *
457282 CCTGCTTCTCAGTATCTCATCAAGAAGCTGGGGTTCAAAGATTTGATCACTTTGTGCTTGGTTTC
131 CCTGCTTCTCAGTATCTCATCAAGAAGCTGGGGTTCGAAGATTTGCTCACTTTGAGCCTGGTTTC
*
457347 ACTGATTTGGTCTA
196 ATTGATTTGGTCTA
* * *
457361 CTTCTCAGTTTCTCATCAGGAAGATGACCACATCACTTGTTTTGATACACTTCTCTGTGTCTCAT
1 CTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCCACTTCTCTGTGTCTCAT
* * * *
457426 CAGGAAGAAGGATCTGGTTCACTTCTTTGTATCTCATCAGGAAGGTAACGACTTTATTGCTTCGA
66 CAGGAAGACGGATCTGGTTCACTTCTCTATATCTCATCAGGAAGGTAACCACTTTATTGCTTCGA
* * *
457491 CCTGCTTATCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTTACTTTGAGCCTGGTTTC
131 CCTGCTTCTCAGTATCTCATCAAGAAGCTGGGGTTCGAAGATTTGCTCACTTTGAGCCTGGTTTC
457556 ATTGATTT-GTCTA
196 ATTGATTTGGTCTA
* * * *
457569 CTTCTTAGTATCTCATCAGGAAGATGACTGCATCAATTGTTTCGATCCACTTCTCTGTGTCTCAT
1 CTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCCACTTCTCTGTGTCTCAT
* **
457634 CAGGAAGGCGGATCTGGTTCACTTCTCTATATCTCATCAGGAAGGTAACCGGTTTATTGCTT
66 CAGGAAGACGGATCTGGTTCACTTCTCTATATCTCATCAGGAAGGTAACCACTTTATTGCTT
457696 TGGATAACTG
Statistics
Matches: 655, Mismatches: 96, Indels: 6
0.87 0.13 0.01
Matches are distributed among these distances:
208 118 0.18
209 426 0.65
210 111 0.17
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (209 bp):
CTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCCACTTCTCTGTGTCTCAT
CAGGAAGACGGATCTGGTTCACTTCTCTATATCTCATCAGGAAGGTAACCACTTTATTGCTTCGA
CCTGCTTCTCAGTATCTCATCAAGAAGCTGGGGTTCGAAGATTTGCTCACTTTGAGCCTGGTTTC
ATTGATTTGGTCTA
Found at i:458940 original size:6 final size:7
Alignment explanation
Indices: 458919--458953 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
458909 TTGACTTTCC
458919 TTTCTTT
1 TTTCTTT
458926 TTTCTTT
1 TTTCTTT
458933 TTTC-TT
1 TTTCTTT
458939 TTTCTTTT
1 TTTC-TTT
458947 TTTCTTT
1 TTTCTTT
458954 GGGTTTCAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 6 0.23
7 14 0.54
8 6 0.23
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTCTTT
Found at i:459020 original size:11 final size:10
Alignment explanation
Indices: 458995--459060 Score: 60
Period size: 11 Copynumber: 5.9 Consensus size: 10
458985 CTTGACCCTT
*
458995 TTTTTTATTTG
1 TTTTTT-TTTC
459006 TTTTGTTTTTC
1 TTTT-TTTTTC
459017 TTTTTTTCTTC
1 TTTTTTT-TTC
459028 TTCTTTTTTGCTC
1 TT-TTTTTT--TC
459041 TTTTTTTTTTC
1 -TTTTTTTTTC
459052 TTTTTTTTT
1 TTTTTTTTT
459061 AACGCTTCGA
Statistics
Matches: 48, Mismatches: 1, Indels: 13
0.77 0.02 0.21
Matches are distributed among these distances:
10 12 0.25
11 19 0.40
12 7 0.15
13 8 0.17
14 2 0.04
ACGTcount: A:0.02, C:0.11, G:0.05, T:0.83
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:459023 original size:14 final size:14
Alignment explanation
Indices: 458996--459060 Score: 62
Period size: 14 Copynumber: 4.7 Consensus size: 14
458986 TTGACCCTTT
* *
458996 TTTTTATTTGTTTTG
1 TTTTTCTTT-TTTTC
459011 TTTTTCTTTTTTTC
1 TTTTTCTTTTTTTC
* *
459025 TTCTTCTTTTTTGC
1 TTTTTCTTTTTTTC
*
459039 TCTTT-TTTTTTTC
1 TTTTTCTTTTTTTC
459052 TTTTT-TTTT
1 TTTTTCTTTT
459061 AACGCTTCGA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
13 15 0.36
14 19 0.45
15 8 0.19
ACGTcount: A:0.02, C:0.11, G:0.05, T:0.83
Consensus pattern (14 bp):
TTTTTCTTTTTTTC
Found at i:459042 original size:24 final size:24
Alignment explanation
Indices: 459015--459060 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
459005 GTTTTGTTTT
459015 TCTTTTTTTCTTCTTCTTTTTTGC
1 TCTTTTTTTCTTCTTCTTTTTTGC
* *
459039 TCTTTTTTTTTTCTTTTTTTTT
1 TCTTTTTTTCTTCTTCTTTTTT
459061 AACGCTTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (24 bp):
TCTTTTTTTCTTCTTCTTTTTTGC
Found at i:463449 original size:59 final size:59
Alignment explanation
Indices: 463380--463512 Score: 146
Period size: 59 Copynumber: 2.2 Consensus size: 59
463370 AGTTGGGAGC
* *
463380 AAATCGGTAATTTTTGAAAAATTTGGAGTCAAAAA--TGATATTTTTGAAAATTT-AGGGGTA
1 AAAT-GGTAATTTTT-AAAAATTCGGAGGCAAAAATGTGAT-TTTTTGAAAATTTGA-GGGTA
* * * * *
463440 AAATGGTAATTTTTTAAAGTTCGGGGGCAAAAATGTGATTTTTTGGAACTTTGAGGGTA
1 AAATGGTAATTTTTAAAAATTCGGAGGCAAAAATGTGATTTTTTGAAAATTTGAGGGTA
463499 AAATGGTAATTTTT
1 AAATGGTAATTTTT
463513 TGAAGTTCGA
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
58 14 0.22
59 40 0.63
60 9 0.14
ACGTcount: A:0.35, C:0.04, G:0.23, T:0.38
Consensus pattern (59 bp):
AAATGGTAATTTTTAAAAATTCGGAGGCAAAAATGTGATTTTTTGAAAATTTGAGGGTA
Found at i:463451 original size:29 final size:27
Alignment explanation
Indices: 463386--463642 Score: 131
Period size: 30 Copynumber: 8.8 Consensus size: 27
463376 GAGCAAATCG
*
463386 GTAATTTTTGAAAAATTTGGAGTCAAAAAT
1 GTAATTTTTG-AAAATTTGGGGT--AAAAT
463416 G-ATATTTTTGAAAATTTAGGGGTAAAAT
1 GTA-ATTTTTGAAAATTT-GGGGTAAAAT
* * * *
463444 GGTAATTTTTTAAAGTTCGGGGGCAAAAAT
1 -GTAATTTTTGAAAATT-TGGGG-TAAAAT
* * *
463474 GTGATTTTTTGGAACTTTGAGGGTAAAAT
1 GT-AATTTTTGAAAATTTG-GGGTAAAAT
* * *
463503 GGTAATTTTTTG-AAGTTCGAGGGCAAAAT
1 -GTAA-TTTTTGAAAATTTG-GGGTAAAAT
* * *
463532 GTAATTTTTGTGAAGTTCGAGGGTCAAAAT
1 GTAATTTTTG-AAAATTTG-GGGT-AAAAT
* *
463562 GTGATTTTGGAAAAGTTTAGGGGTCAAAAT
1 GTAATTTTTGAAAA-TTT-GGGGT-AAAAT
* *
463592 ATGATTTTTGAAAAGTTTGGGGTTAAAAT
1 GTAATTTTTGAAAA-TTTGGGG-TAAAAT
*
463621 GTGATTTTTGGAAAATTTGGGG
1 GTAATTTTT-GAAAATTTGGGG
463643 ACCTTTTGGG
Statistics
Matches: 186, Mismatches: 24, Indels: 35
0.76 0.10 0.14
Matches are distributed among these distances:
27 6 0.03
28 9 0.05
29 84 0.45
30 86 0.46
31 1 0.01
ACGTcount: A:0.33, C:0.04, G:0.26, T:0.37
Consensus pattern (27 bp):
GTAATTTTTGAAAATTTGGGGTAAAAT
Found at i:463454 original size:30 final size:29
Alignment explanation
Indices: 463347--463642 Score: 111
Period size: 30 Copynumber: 10.1 Consensus size: 29
463337 GTACTTTTTA
* * *
463347 GGGGTAAAATGGTCA-TTTTTG-GAAGTT
1 GGGGTAAAATGGTAATTTTTTGAAAATTT
*
463374 GGGAG-CAAATCGGTAA-TTTTTGAAAAATTT
1 GGG-GTAAAAT-GGTAATTTTTTG-AAAATTT
* *
463404 GGAGTCAAAAATGAT-A-TTTTTGAAAATTT
1 GGGGT--AAAATGGTAATTTTTTGAAAATTT
* *
463433 AGGGGTAAAATGGTAATTTTTT-AAAGTTCG
1 -GGGGTAAAATGGTAATTTTTTGAAAATT-T
* * * *
463463 GGGGCAAAAAT-GTGATTTTTTGGAACTTT
1 GGGG-TAAAATGGTAATTTTTTGAAAATTT
* *
463492 GAGGGTAAAATGGTAATTTTTTG-AAGTTC
1 G-GGGTAAAATGGTAATTTTTTGAAAATTT
* * *
463521 GAGGGCAAAAT-GTAATTTTTGTG-AAGTTC
1 G-GGGTAAAATGGTAATTTTT-TGAAAATTT
* *
463550 GAGGGTCAAAAT-GTGA-TTTTGGAAAAGTTT
1 G-GGGT-AAAATGGTAATTTTTTGAAAA-TTT
* *
463580 AGGGGTCAAAAT-ATGA-TTTTTGAAAAGTTT
1 -GGGGT-AAAATGGTAATTTTTTGAAAA-TTT
* *
463610 GGGGTTAAAAT-GTGATTTTTGGAAAATTT
1 GGGG-TAAAATGGTAATTTTTTGAAAATTT
463639 GGGG
1 GGGG
463643 ACCTTTTGGG
Statistics
Matches: 217, Mismatches: 30, Indels: 42
0.75 0.10 0.15
Matches are distributed among these distances:
27 7 0.03
28 28 0.13
29 85 0.39
30 90 0.41
31 3 0.01
32 4 0.02
ACGTcount: A:0.32, C:0.04, G:0.27, T:0.36
Consensus pattern (29 bp):
GGGGTAAAATGGTAATTTTTTGAAAATTT
Found at i:463513 original size:59 final size:58
Alignment explanation
Indices: 463435--463562 Score: 177
Period size: 59 Copynumber: 2.2 Consensus size: 58
463425 GAAAATTTAG
* * *
463435 GGGTAAAATGGTAATTTTTTAAAGTTCGGGGGCAAAAATGTGATTTTT-TGGAACTTTGA
1 GGGTAAAATGGTAATTTTTTAAAGTTCGAGGGC-AAAATGTAATTTTTGT-GAACTTCGA
* *
463494 GGGTAAAATGGTAATTTTTTGAAGTTCGAGGGCAAAATGTAATTTTTGTGAAGTTCGA
1 GGGTAAAATGGTAATTTTTTAAAGTTCGAGGGCAAAATGTAATTTTTGTGAACTTCGA
463552 GGGTCAAAATG
1 GGGT-AAAATG
463563 TGATTTTGGA
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
58 24 0.39
59 38 0.61
ACGTcount: A:0.31, C:0.05, G:0.28, T:0.35
Consensus pattern (58 bp):
GGGTAAAATGGTAATTTTTTAAAGTTCGAGGGCAAAATGTAATTTTTGTGAACTTCGA
Found at i:463578 original size:59 final size:59
Alignment explanation
Indices: 463455--463635 Score: 167
Period size: 59 Copynumber: 3.1 Consensus size: 59
463445 GTAATTTTTT
* * * *
463455 AAAGTTCGGGGGCAAAAATGTGATTTTT-TGGAACTTTGAGGGTAAAATGGTAATTTTTTG-
1 AAAGTTCGAGGGC-AAAATGTGATTTTTGT-GAAGTTTGAGGGTAAAAT-GTGATTTTTGGA
* *
463515 -AAGTTCGAGGGCAAAATGTAATTTTTGTGAAGTTCGAGGGTCAAAATGTGA-TTTTGGA
1 AAAGTTCGAGGGCAAAATGTGATTTTTGTGAAGTTTGAGGGT-AAAATGTGATTTTTGGA
* * **
463573 AAAGTT-TAGGGGTCAAAATATGATTTTTGAAAAGTTTG-GGGTTAAAATGTGATTTTTGGA
1 AAAGTTCGA-GGG-CAAAATGTGATTTTTGTGAAGTTTGAGGG-TAAAATGTGATTTTTGGA
463633 AAA
1 AAA
463636 TTTGGGGACC
Statistics
Matches: 101, Mismatches: 12, Indels: 16
0.78 0.09 0.12
Matches are distributed among these distances:
57 5 0.05
58 28 0.28
59 37 0.37
60 31 0.31
ACGTcount: A:0.33, C:0.04, G:0.28, T:0.35
Consensus pattern (59 bp):
AAAGTTCGAGGGCAAAATGTGATTTTTGTGAAGTTTGAGGGTAAAATGTGATTTTTGGA
Found at i:463599 original size:60 final size:58
Alignment explanation
Indices: 463526--463642 Score: 146
Period size: 60 Copynumber: 2.0 Consensus size: 58
463516 AGTTCGAGGG
* **
463526 CAAAATGTAATTTTTGTGAAGTTCGAGGGTCAAAATGTGA-TTTTGGAAAAGTTTAGGGGT
1 CAAAATATAATTTTTGAAAAGTTCG-GGGTCAAAATGTGATTTTTGGAAAA-TTT-GGGGT
* * *
463586 CAAAATATGATTTTTGAAAAGTTTGGGGTTAAAATGTGATTTTTGGAAAATTTGGGG
1 CAAAATATAATTTTTGAAAAGTTCGGGGTCAAAATGTGATTTTTGGAAAATTTGGGG
463643 ACCTTTTGGG
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
58 4 0.08
59 16 0.32
60 30 0.60
ACGTcount: A:0.32, C:0.03, G:0.27, T:0.37
Consensus pattern (58 bp):
CAAAATATAATTTTTGAAAAGTTCGGGGTCAAAATGTGATTTTTGGAAAATTTGGGGT
Found at i:465415 original size:17 final size:17
Alignment explanation
Indices: 465395--465494 Score: 92
Period size: 17 Copynumber: 5.8 Consensus size: 17
465385 TTTAATTAAT
*
465395 TTTAATTTTAAAATAAA
1 TTTAAATTTAAAATAAA
*
465412 TTTAAATTTAAAGTAAA
1 TTTAAATTTAAAATAAA
* * * * *
465429 TTCAAACTTAAGATGAG
1 TTTAAATTTAAAATAAA
465446 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
* * *
465463 TTCAAACTTGAAATAAAA
1 TTTAAATTTAAAAT-AAA
*
465481 TTAAAATTTAAAAT
1 TTTAAATTTAAAAT
465495 TTGAACTCAA
Statistics
Matches: 63, Mismatches: 19, Indels: 1
0.76 0.23 0.01
Matches are distributed among these distances:
17 49 0.78
18 14 0.22
ACGTcount: A:0.53, C:0.04, G:0.05, T:0.38
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:465485 original size:34 final size:33
Alignment explanation
Indices: 465405--465494 Score: 117
Period size: 34 Copynumber: 2.6 Consensus size: 33
465395 TTTAATTTTA
*
465405 AAATAAATTTAAATTTAAAGTAAATTCAAACTT
1 AAATAAATTTAAATTTAAAATAAATTCAAACTT
* *
465438 AAGATGAGTTTAAATTTAAAATAAATTCAAACTT
1 AA-ATAAATTTAAATTTAAAATAAATTCAAACTT
*
465472 GAAATAAAATTAAAATTTAAAAT
1 -AAAT-AAATTTAAATTTAAAAT
465495 TTGAACTCAA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
33 2 0.04
34 30 0.62
35 16 0.33
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.34
Consensus pattern (33 bp):
AAATAAATTTAAATTTAAAATAAATTCAAACTT
Found at i:482888 original size:45 final size:45
Alignment explanation
Indices: 482824--482918 Score: 154
Period size: 45 Copynumber: 2.1 Consensus size: 45
482814 GCCATTATCA
* *
482824 ACATTTCGTAAATTTGGGATTGGTCACATGAAGCCCACTATAGTG
1 ACATTTCGTAAATTGGGGATTGGTCACATGAAGCCCACTACAGTG
* *
482869 ACATTTCGTAAATTGGGGATTGGTCACATGAAGGCCACTGCAGTG
1 ACATTTCGTAAATTGGGGATTGGTCACATGAAGCCCACTACAGTG
482914 ACATT
1 ACATT
482919 GTAACTGGCG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.29
Consensus pattern (45 bp):
ACATTTCGTAAATTGGGGATTGGTCACATGAAGCCCACTACAGTG
Found at i:508909 original size:21 final size:20
Alignment explanation
Indices: 508870--508909 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
508860 TGCATTTTTA
*
508870 GCATTTTATACTTAGTAATT
1 GCATTTTATACTCAGTAATT
*
508890 GCATTTTCTAACTCAGTAAT
1 GCATTTTAT-ACTCAGTAAT
508910 GCTAGGTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.30, C:0.15, G:0.10, T:0.45
Consensus pattern (20 bp):
GCATTTTATACTCAGTAATT
Found at i:510073 original size:23 final size:24
Alignment explanation
Indices: 510044--510090 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
510034 AACTATTCAT
*
510044 TTTATTTTA-ATTTGCTTTGACAA
1 TTTATTTTATATTTGCATTGACAA
*
510067 TTTATTTTATGTTTGCATTGACAA
1 TTTATTTTATATTTGCATTGACAA
510091 ATTAATTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.26, C:0.09, G:0.11, T:0.55
Consensus pattern (24 bp):
TTTATTTTATATTTGCATTGACAA
Found at i:510367 original size:18 final size:18
Alignment explanation
Indices: 510325--510369 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
510315 AGATTCAGAA
*
510325 GTAA-AGCATACTAGCTC
1 GTAAGAGCATACCAGCTC
**
510342 GTTTGAGCATACCAGCTC
1 GTAAGAGCATACCAGCTC
510360 GTAAGAGCAT
1 GTAAGAGCAT
510370 TAGTGGCTCG
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.24
Consensus pattern (18 bp):
GTAAGAGCATACCAGCTC
Found at i:511167 original size:21 final size:20
Alignment explanation
Indices: 511138--511193 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 20
511128 AGCATGACGG
* *
511138 GTATTGGTAGAAGTTGTACAT
1 GTATCGGTAGAAGTT-TACAA
**
511159 GTATCGGTAGAACCATTACAA
1 GTATCGGTAGAA-GTTTACAA
511180 GTATCGGTAGAAGT
1 GTATCGGTAGAAGT
511194 CTGCTACTAT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
21 27 0.96
22 1 0.04
ACGTcount: A:0.32, C:0.11, G:0.27, T:0.30
Consensus pattern (20 bp):
GTATCGGTAGAAGTTTACAA
Found at i:514197 original size:20 final size:20
Alignment explanation
Indices: 514156--514211 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
514146 AACTTGTTTG
* *
514156 AAAAACATTTTGA-TTTGTT
1 AAAATCATTTTGACTTGGTT
*
514175 AAAATGATTTTGACTTGGTT
1 AAAATCATTTTGACTTGGTT
*
514195 AAAATCATTTTAACTTG
1 AAAATCATTTTGACTTG
514212 ATTTTAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 11 0.35
20 20 0.65
ACGTcount: A:0.36, C:0.07, G:0.12, T:0.45
Consensus pattern (20 bp):
AAAATCATTTTGACTTGGTT
Found at i:516531 original size:16 final size:15
Alignment explanation
Indices: 516512--516544 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
516502 GTTGGTGATT
516512 TCTTTATTTGGCGAGA
1 TCTTTATTTGGCG-GA
516528 TCTTTATTTGGCGGA
1 TCTTTATTTGGCGGA
516543 TC
1 TC
516545 CTCCCTCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.15, C:0.15, G:0.24, T:0.45
Consensus pattern (15 bp):
TCTTTATTTGGCGGA
Found at i:518496 original size:45 final size:45
Alignment explanation
Indices: 518432--518525 Score: 179
Period size: 45 Copynumber: 2.1 Consensus size: 45
518422 AGGACGTTGT
518432 TTATTTGTATATAGTGTATTACCGCATAAAATCCGCTCTTAAAGC
1 TTATTTGTATATAGTGTATTACCGCATAAAATCCGCTCTTAAAGC
*
518477 TTATTTGTATATAGTGTATTACCGCATAAAGTCCGCTCTTAAAGC
1 TTATTTGTATATAGTGTATTACCGCATAAAATCCGCTCTTAAAGC
518522 TTAT
1 TTAT
518526 ATGTCATTCG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (45 bp):
TTATTTGTATATAGTGTATTACCGCATAAAATCCGCTCTTAAAGC
Found at i:520182 original size:94 final size:94
Alignment explanation
Indices: 520021--520210 Score: 380
Period size: 94 Copynumber: 2.0 Consensus size: 94
520011 TGCCTCAAAT
520021 CACATATTTCATGAACCAAACACAATGAAATTGACTGCCATTTCATTTACGAAGAAATCTAAGGA
1 CACATATTTCATGAACCAAACACAATGAAATTGACTGCCATTTCATTTACGAAGAAATCTAAGGA
520086 GGATTGATTTTTACTAGTTACCTAAAAAC
66 GGATTGATTTTTACTAGTTACCTAAAAAC
520115 CACATATTTCATGAACCAAACACAATGAAATTGACTGCCATTTCATTTACGAAGAAATCTAAGGA
1 CACATATTTCATGAACCAAACACAATGAAATTGACTGCCATTTCATTTACGAAGAAATCTAAGGA
520180 GGATTGATTTTTACTAGTTACCTAAAAAC
66 GGATTGATTTTTACTAGTTACCTAAAAAC
520209 CA
1 CA
520211 AAAATTAACT
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
94 96 1.00
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.29
Consensus pattern (94 bp):
CACATATTTCATGAACCAAACACAATGAAATTGACTGCCATTTCATTTACGAAGAAATCTAAGGA
GGATTGATTTTTACTAGTTACCTAAAAAC
Found at i:525313 original size:2 final size:2
Alignment explanation
Indices: 525306--525330 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
525296 CAAATTTCTC
525306 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
525331 CTACCTTCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:529219 original size:17 final size:17
Alignment explanation
Indices: 529172--529219 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
529162 CATTGTCCTT
* *
529172 AATGCACTAACACT-AA
1 AATGCAATAACAATGAA
*
529188 AATGCAATGACAATGAA
1 AATGCAATAACAATGAA
*
529205 AATGCAATAATAATG
1 AATGCAATAACAATG
529220 TGCACTAACA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
16 11 0.42
17 15 0.58
ACGTcount: A:0.52, C:0.15, G:0.12, T:0.21
Consensus pattern (17 bp):
AATGCAATAACAATGAA
Found at i:535820 original size:21 final size:21
Alignment explanation
Indices: 535786--535832 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
535776 GTGTTGTGCC
* *
535786 TGCATCTGATTTTGGTGTGGT
1 TGCATCTGACTTTGGTGTGGA
* *
535807 TGCATCTGGCTTTGTTGTGGA
1 TGCATCTGACTTTGGTGTGGA
535828 TGCAT
1 TGCAT
535833 TTGAGTATGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.11, C:0.13, G:0.32, T:0.45
Consensus pattern (21 bp):
TGCATCTGACTTTGGTGTGGA
Found at i:539261 original size:36 final size:36
Alignment explanation
Indices: 539184--539267 Score: 87
Period size: 36 Copynumber: 2.3 Consensus size: 36
539174 ATCTGCTGCC
* *
539184 TCTTCTTCCTTACGTGCATCTTCTTCCTCGGTCGCC
1 TCTTCTTCCTCACGTGCATCTTCTTCCTCGGTCGCA
* * * * **
539220 CCTTCTTCCTCACTTGTATGTTCTTTGTCGGTCGCA
1 TCTTCTTCCTCACGTGCATCTTCTTCCTCGGTCGCA
*
539256 TCTTCTACCTCA
1 TCTTCTTCCTCA
539268 TCTACGCCTT
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.08, C:0.36, G:0.13, T:0.43
Consensus pattern (36 bp):
TCTTCTTCCTCACGTGCATCTTCTTCCTCGGTCGCA
Found at i:541922 original size:23 final size:23
Alignment explanation
Indices: 541876--541922 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
541866 TTTTAGTTGG
**
541876 AAACCTTAAACCCTAAAATGTTA
1 AAACCTTAAACCCTAAAACATTA
* *
541899 AAACCTTAAACCGTCAAACATTA
1 AAACCTTAAACCCTAAAACATTA
541922 A
1 A
541923 CCCTAAAAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.49, C:0.23, G:0.04, T:0.23
Consensus pattern (23 bp):
AAACCTTAAACCCTAAAACATTA
Found at i:544973 original size:32 final size:33
Alignment explanation
Indices: 544922--544993 Score: 85
Period size: 32 Copynumber: 2.2 Consensus size: 33
544912 TATTAACATG
* *
544922 ATTATAAGGTTTCTAAAGTTTCT-TTGAATTTTC
1 ATTATAAGATTTCTAAAGTTT-TAATGAATTTTC
*
544955 ATTA-AAGATTTCTTAAGTTTTAATGAATTTTC
1 ATTATAAGATTTCTAAAGTTTTAATGAATTTTC
*
544987 ATCATAA
1 ATTATAA
544994 TAGCCATTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
31 1 0.03
32 26 0.79
33 6 0.18
ACGTcount: A:0.33, C:0.08, G:0.10, T:0.49
Consensus pattern (33 bp):
ATTATAAGATTTCTAAAGTTTTAATGAATTTTC
Found at i:551578 original size:16 final size:16
Alignment explanation
Indices: 551557--551587 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
551547 ATAATGTGAA
551557 AATAAAGATAAAATGT
1 AATAAAGATAAAATGT
*
551573 AATAAAGGTAAAATG
1 AATAAAGATAAAATG
551588 GGATCCACAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.00, G:0.16, T:0.23
Consensus pattern (16 bp):
AATAAAGATAAAATGT
Found at i:552420 original size:26 final size:26
Alignment explanation
Indices: 552385--552434 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
552375 ATTCTAGGCG
552385 CAATTCTGGACACGTTCATGCAGCAA
1 CAATTCTGGACACGTTCATGCAGCAA
* *
552411 CAATTTTGGACATGTTCATGCAGC
1 CAATTCTGGACACGTTCATGCAGC
552435 GACATTCGGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (26 bp):
CAATTCTGGACACGTTCATGCAGCAA
Found at i:552453 original size:33 final size:33
Alignment explanation
Indices: 552411--552474 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
552401 CATGCAGCAA
552411 CAATTTTGGACATGTTCATGCAGCGACATTCGG
1 CAATTTTGGACATGTTCATGCAGCGACATTCGG
*
552444 CAATTTTGGACTTGTTCATGCAGCGACATTC
1 CAATTTTGGACATGTTCATGCAGCGACATTC
552475 TTAGGTGCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.33
Consensus pattern (33 bp):
CAATTTTGGACATGTTCATGCAGCGACATTCGG
Found at i:554420 original size:21 final size:22
Alignment explanation
Indices: 554389--554430 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
554379 ATTCATATGT
554389 TTTCTTACTCATGATTCTTTTG
1 TTTCTTACTCATGATTCTTTTG
**
554411 TTTC-TACTCATTCTTCTTTT
1 TTTCTTACTCATGATTCTTTT
554431 CTTTTTGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.12, C:0.21, G:0.05, T:0.62
Consensus pattern (22 bp):
TTTCTTACTCATGATTCTTTTG
Found at i:573618 original size:17 final size:17
Alignment explanation
Indices: 573586--573617 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
573576 TATACATATA
573586 CTTTTTTTCTTCTTTTC
1 CTTTTTTTCTTCTTTTC
573603 CTTTTTTT-TTCTTTT
1 CTTTTTTTCTTCTTTT
573618 TTTTATGTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (17 bp):
CTTTTTTTCTTCTTTTC
Found at i:574253 original size:17 final size:17
Alignment explanation
Indices: 574204--574253 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
574194 TAACAAATGG
**
574204 AAATGCAATGACAATGC
1 AAATGCAATGACAATTA
*
574221 AAATGCAGTGACAATTA
1 AAATGCAATGACAATTA
*
574238 AAATGTAATGACAATT
1 AAATGCAATGACAATT
574254 GGAATGTGAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.48, C:0.12, G:0.16, T:0.24
Consensus pattern (17 bp):
AAATGCAATGACAATTA
Found at i:574756 original size:21 final size:21
Alignment explanation
Indices: 574732--574771 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
574722 TCCTCATCTT
* *
574732 CTTCAACTTGTGTTTCCTCCC
1 CTTCAACTGGAGTTTCCTCCC
*
574753 CTTCAGCTGGAGTTTCCTC
1 CTTCAACTGGAGTTTCCTC
574772 ATCAGTAACA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.10, C:0.35, G:0.15, T:0.40
Consensus pattern (21 bp):
CTTCAACTGGAGTTTCCTCCC
Found at i:587713 original size:24 final size:24
Alignment explanation
Indices: 587681--587729 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
587671 GGTAATCGAG
587681 TATGAATCAACACCTTTTCTATGA
1 TATGAATCAACACCTTTTCTATGA
*
587705 TATGAATCAACACCTTTTTTATGA
1 TATGAATCAACACCTTTTCTATGA
587729 T
1 T
587730 GAAAATGCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.41
Consensus pattern (24 bp):
TATGAATCAACACCTTTTCTATGA
Found at i:593297 original size:42 final size:42
Alignment explanation
Indices: 593250--593337 Score: 133
Period size: 42 Copynumber: 2.1 Consensus size: 42
593240 TCGAGTCAGA
* *
593250 AGTCTTCCTTTAATCATATTTTCATTCTCAT-TCCGAGACATG
1 AGTCTTCCTTTAATCATAATCTCATTCTCATCT-CGAGACATG
*
593292 AGTCTTCCTTTAATCATAATCTCCTTCTCATCTCGAGACATG
1 AGTCTTCCTTTAATCATAATCTCATTCTCATCTCGAGACATG
593334 AGTC
1 AGTC
593338 CTTCTCATCT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
42 41 0.98
43 1 0.02
ACGTcount: A:0.24, C:0.26, G:0.10, T:0.40
Consensus pattern (42 bp):
AGTCTTCCTTTAATCATAATCTCATTCTCATCTCGAGACATG
Found at i:593343 original size:23 final size:23
Alignment explanation
Indices: 593313--593360 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
593303 AATCATAATC
593313 TCCTTCTCATCTCGAGACATGAG
1 TCCTTCTCATCTCGAGACATGAG
593336 TCCTTCTCATCTCGAGACATGAG
1 TCCTTCTCATCTCGAGACATGAG
593359 TC
1 TC
593361 TTCCTTTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.21, C:0.31, G:0.17, T:0.31
Consensus pattern (23 bp):
TCCTTCTCATCTCGAGACATGAG
Found at i:593357 original size:65 final size:65
Alignment explanation
Indices: 593274--593404 Score: 201
Period size: 65 Copynumber: 2.0 Consensus size: 65
593264 CATATTTTCA
* * * *
593274 TTCTCATTCCGAGACATGAGTCTTCCTTTAATCATAATCTCCTTCTCATCTCGAGACATGAGTCC
1 TTCTCATTCCGAGACATGAGTCTTCCTTTAATCATAATCTCATTCTCATCCCAAGACATGAATCC
*
593339 TTCTCA-TCTCGAGACATGAGTCTTCCTTTAATTATAATCTCATTCTCATCCCAAGACATGAATC
1 TTCTCATTC-CGAGACATGAGTCTTCCTTTAATCATAATCTCATTCTCATCCCAAGACATGAATC
593403 C
65 C
593404 T
1 T
593405 CCTTTAATAT
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
64 2 0.03
65 58 0.97
ACGTcount: A:0.25, C:0.28, G:0.11, T:0.36
Consensus pattern (65 bp):
TTCTCATTCCGAGACATGAGTCTTCCTTTAATCATAATCTCATTCTCATCCCAAGACATGAATCC
Found at i:595818 original size:22 final size:22
Alignment explanation
Indices: 595793--595835 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
595783 AAAATATTTC
*
595793 ATTA-ATAATTTGGGTTTAATTA
1 ATTATATAAATTGGG-TTAATTA
*
595815 ATTATTTAAATTGGGTTAATT
1 ATTATATAAATTGGGTTAATT
595836 TTATTCTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
ATTATATAAATTGGGTTAATTA
Found at i:603101 original size:16 final size:17
Alignment explanation
Indices: 603063--603102 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
603053 AACTAATGAG
603063 TAAAATGCAATGACAAC
1 TAAAATGCAATGACAAC
* *
603080 TAAAATGCAGTGATAA-
1 TAAAATGCAATGACAAC
603096 TAAAATG
1 TAAAATG
603103 ATATGCATGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.53, C:0.10, G:0.15, T:0.23
Consensus pattern (17 bp):
TAAAATGCAATGACAAC
Found at i:606868 original size:51 final size:51
Alignment explanation
Indices: 606808--606910 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
606798 CTTTCATTTT
606808 ATTTCAATTGTACTACTAATGTCAATGCATTCAGCATCAATTTTACGTCTA
1 ATTTCAATTGTACTACTAATGTCAATGCATTCAGCATCAATTTTACGTCTA
606859 ATTTCAATTGTACTACTAATGTCAATGCATTCAGCATCAATTTTACGTCTA
1 ATTTCAATTGTACTACTAATGTCAATGCATTCAGCATCAATTTTACGTCTA
606910 A
1 A
606911 GGTTGTCAGC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.32, C:0.19, G:0.10, T:0.39
Consensus pattern (51 bp):
ATTTCAATTGTACTACTAATGTCAATGCATTCAGCATCAATTTTACGTCTA
Found at i:611834 original size:197 final size:197
Alignment explanation
Indices: 611499--611869 Score: 715
Period size: 197 Copynumber: 1.9 Consensus size: 197
611489 CGATGTAAGT
*
611499 ATAGTAGACAGATATGAATCAGTCGGATACCGATCCCATGAGGATGGTTGTCTTTTGTCTATTAA
1 ATAGTAGACAGATATGAATCAGTCGGATACCGATCCCATGAGGATGGTTGTCTTTTGTCTAATAA
611564 TGTCAGTGCAATAAACAGATAAAAATGAGATAAGTTGTGAGAATTCTTATCGGAGTAATAACCTG
66 TGTCAGTGCAATAAACAGATAAAAATGAGATAAGTTGTGAGAATTCTTATCGGAGTAATAACCTG
611629 AAAATAAAGATGAAATATGATAATGATAAAATGGGATCCCCAAAACTTGAAAATAAATATGATAA
131 AAAATAAAGATGAAATATGATAATGATAAAATGGGATCCCCAAAACTTGAAAATAAATATGATAA
611694 TG
196 TG
611696 ATAGTAGACAGATATGAATCAGTCGGATACCGATCCCATGAGGATGGTTGTCTTTTGTCTAATAA
1 ATAGTAGACAGATATGAATCAGTCGGATACCGATCCCATGAGGATGGTTGTCTTTTGTCTAATAA
*
611761 TGTCAGTGCAATAAACAGATAAAAATGAGATAAGTTGTGAGAATTCTTATCGGAGTAATAACTTG
66 TGTCAGTGCAATAAACAGATAAAAATGAGATAAGTTGTGAGAATTCTTATCGGAGTAATAACCTG
*
611826 AAAATAAAGATGAAATATGATAATGATAAAATGGGATCTCCAAA
131 AAAATAAAGATGAAATATGATAATGATAAAATGGGATCCCCAAA
611870 GTGAATCTTC
Statistics
Matches: 171, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
197 171 1.00
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.28
Consensus pattern (197 bp):
ATAGTAGACAGATATGAATCAGTCGGATACCGATCCCATGAGGATGGTTGTCTTTTGTCTAATAA
TGTCAGTGCAATAAACAGATAAAAATGAGATAAGTTGTGAGAATTCTTATCGGAGTAATAACCTG
AAAATAAAGATGAAATATGATAATGATAAAATGGGATCCCCAAAACTTGAAAATAAATATGATAA
TG
Done.