Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 52 of 770
Found at i:15060303 original size:19 final size:19
Alignment explanation
Indices: 15060279--15060369 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
15060269 ATAATCTTCA
15060279 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
15060298 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
15060317 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
15060334 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
15060352 ATAATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
15060370 AGATATGATT
Statistics
Matches: 68, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
17 16 0.24
18 15 0.22
19 37 0.54
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:15060350 original size:35 final size:37
Alignment explanation
Indices: 15060286--15060376 Score: 136
Period size: 35 Copynumber: 2.5 Consensus size: 37
15060276 TCAATGATAT
*
15060286 GCAATCTTAGATATGATATGCAATCTTAGATATGATA
1 GCAATCTTAGATATGATATGCAATCTTAGATATAATA
15060323 -CAATCTTAGATATGAT-TGCAATCTTAGATATAATA
1 GCAATCTTAGATATGATATGCAATCTTAGATATAATA
15060358 TGCAATCTTAGA-A-GATATG
1 -GCAATCTTAGATATGATATG
15060377 ATTTTGTAAT
Statistics
Matches: 50, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
35 21 0.42
36 19 0.38
37 10 0.20
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.35
Consensus pattern (37 bp):
GCAATCTTAGATATGATATGCAATCTTAGATATAATA
Found at i:15060681 original size:18 final size:19
Alignment explanation
Indices: 15060658--15060694 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
15060648 ATGTTTCCCT
*
15060658 ATTTTTTTATAT-ATTTTA
1 ATTTTTTTAAATAATTTTA
15060676 ATTTTTTTAAATAATTTTA
1 ATTTTTTTAAATAATTTTA
15060695 GTATCATATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
ATTTTTTTAAATAATTTTA
Found at i:15076496 original size:13 final size:13
Alignment explanation
Indices: 15076478--15076502 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15076468 TTATTTTGAA
15076478 AATAAATATTAAT
1 AATAAATATTAAT
15076491 AATAAATATTAA
1 AATAAATATTAA
15076503 ATCAATCCTA
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AATAAATATTAAT
Found at i:15076744 original size:21 final size:21
Alignment explanation
Indices: 15076720--15076761 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
15076710 TTTTTTTGAA
* *
15076720 TCAAGTGGAGTGAAATGAAAT
1 TCAAGTGGAGTCAAATCAAAT
*
15076741 TCAAGTTGAGTCAAATCAAAT
1 TCAAGTGGAGTCAAATCAAAT
15076762 GAAATTATTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.43, C:0.10, G:0.21, T:0.26
Consensus pattern (21 bp):
TCAAGTGGAGTCAAATCAAAT
Found at i:15076987 original size:30 final size:27
Alignment explanation
Indices: 15076951--15077013 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 27
15076941 TTTGGAAATT
*
15076951 TTTAAAAATTTTAACTTTCTTTATATGTTC
1 TTTAAAAA-ATTAA-TTTCTTTATAT-TTC
* *
15076981 TTTAAAAAATTAATTTTTTTATATTTT
1 TTTAAAAAATTAATTTCTTTATATTTC
15077008 TTTAAA
1 TTTAAA
15077014 TATAAATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
27 8 0.27
28 10 0.33
29 4 0.13
30 8 0.27
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.59
Consensus pattern (27 bp):
TTTAAAAAATTAATTTCTTTATATTTC
Found at i:15077049 original size:20 final size:20
Alignment explanation
Indices: 15077026--15077064 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
15077016 TAAATTTTAG
15077026 AATTTTCATAAA-TATTTTGA
1 AATTTTCA-AAATTATTTTGA
*
15077046 AATTTTGAAAATTATTTTG
1 AATTTTCAAAATTATTTTG
15077065 TCTTTCTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.51
Consensus pattern (20 bp):
AATTTTCAAAATTATTTTGA
Found at i:15077324 original size:3 final size:3
Alignment explanation
Indices: 15077316--15077359 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
15077306 TAATGGATTA
15077316 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
15077360 CGCTTTATTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:15082427 original size:15 final size:15
Alignment explanation
Indices: 15082407--15082436 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
15082397 GAATATAAGT
15082407 TATAAAACTTTTCTA
1 TATAAAACTTTTCTA
15082422 TATAAAACTTTTCTA
1 TATAAAACTTTTCTA
15082437 CTCTGTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (15 bp):
TATAAAACTTTTCTA
Found at i:15082717 original size:20 final size:20
Alignment explanation
Indices: 15082692--15082729 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
15082682 TTATATATAA
15082692 TGAATTAATATATCATCAGT
1 TGAATTAATATATCATCAGT
* *
15082712 TGAATTCATATATTATCA
1 TGAATTAATATATCATCA
15082730 ATAATTGGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (20 bp):
TGAATTAATATATCATCAGT
Found at i:15087653 original size:16 final size:16
Alignment explanation
Indices: 15087632--15087666 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
15087622 GATTTATTGG
*
15087632 AATAAAATAGAGTTAT
1 AATAAAATAAAGTTAT
*
15087648 AATAAAATAAAGTTGT
1 AATAAAATAAAGTTAT
15087664 AAT
1 AAT
15087667 TAATAATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.31
Consensus pattern (16 bp):
AATAAAATAAAGTTAT
Found at i:15093434 original size:89 final size:88
Alignment explanation
Indices: 15093277--15093494 Score: 248
Period size: 89 Copynumber: 2.5 Consensus size: 88
15093267 CTTAAGGGTG
* * * * *
15093277 AAAAAA-ACCCCTCAAA-TTGTTTCGAAAAAAACAATTAAGTCCCTTTTTTTTTTGCACTCATTT
1 AAAAAAGA-CCCTCAAACTT-TTTCAAAAAAAATAATTAAGCCCCTCTTTTTTTT-CACTCAATT
*
15093340 GGGTACTTAAAATTTCAAAATGCATC
63 GGGTACTTAAAATTTCAAAATGCACC
*
15093366 AAAAATG-CCCTCAAATCTTTTT-AAAAAAGAAGTAATTAAGCCCCTACTTTTTTTT-ACTCAAT
1 AAAAAAGACCCTCAAA-CTTTTTCAAAAAA-AA-TAATTAAGCCCCT-CTTTTTTTTCACTCAAT
* * *
15093428 TGGGTACTTGAACTTTCAAAATGTACC
62 TGGGTACTTAAAATTTCAAAATGCACC
15093455 AAAAAAGACCCTCAAACTTTTTCAAAAAAAATAATTAAGC
1 AAAAAAGACCCTCAAACTTTTTCAAAAAAAATAATTAAGC
15093495 TCCTGATTTT
Statistics
Matches: 110, Mismatches: 11, Indels: 17
0.80 0.08 0.12
Matches are distributed among these distances:
88 22 0.20
89 53 0.48
90 27 0.25
91 8 0.07
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.33
Consensus pattern (88 bp):
AAAAAAGACCCTCAAACTTTTTCAAAAAAAATAATTAAGCCCCTCTTTTTTTTCACTCAATTGGG
TACTTAAAATTTCAAAATGCACC
Found at i:15093663 original size:28 final size:28
Alignment explanation
Indices: 15093632--15093686 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
15093622 GGTAAATTTT
* * *
15093632 TATAAAAATCTTAAAAGATTATAAAATA
1 TATAAAAATATAAAAAAATTATAAAATA
*
15093660 TATAGAAATATAAAAAAATTATAAAAT
1 TATAAAAATATAAAAAAATTATAAAAT
15093687 TTTATAAAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.31
Consensus pattern (28 bp):
TATAAAAATATAAAAAAATTATAAAATA
Found at i:15094002 original size:182 final size:180
Alignment explanation
Indices: 15093747--15094104 Score: 461
Period size: 182 Copynumber: 2.0 Consensus size: 180
15093737 GTAAAAAATT
**
15093747 TTTATAAAAATTATTGTACCAAAAAATTTTACAATTTTTCTATAACTTTTATTGATTTTTATTTT
1 TTTATAAAAATTATCATACCAAAAAATTTTACAATTTTTCTATAACTTTTATTGA--TTTATTTT
* * * ** * *
15093812 TTTTATCATTTTTCACTACATGTCACGCTATGTTGTGACACGTGATGACTTTAATTTTAAAAAAA
64 TATTATCATTTTTCACCACATGTCACACTATGTTGCAACACGCGATGACTTTAA-TTGAAAAAAA
*
15093877 -AGAGGTCATTAACTTTAACGATCAACAATTAAAGCTAATTGTTAAGAAAAAA
128 CAGAGGTCATTAACTTTAACAATCAACAATTAAAGCTAATTGTTAAGAAAAAA
*
15093929 TTTATAAAAATTATCATACCAAAAAAACCATTTTATAATTTTTCTATAACTTTTATTGA-TT-TT
1 TTTATAAAAATTATCATACC--AAAAA--ATTTTACAATTTTTCTATAACTTTTATTGATTTATT
**
15093992 TTTATTATCATTTTTTGCCACATGTCACACTATGTTGCAACACGCGATGACTTTAATTGAAAAAA
62 TTTATTATCATTTTTCACCACATGTCACACTATGTTGCAACACGCGATGACTTTAATTGAAAAAA
* * * * *
15094057 ACTAGGGGTCGTTAACTTTAACAATCAATAGTTAAAGTTAATTGTTAA
127 AC-AGAGGTCATTAACTTTAACAATCAACAATTAAAGCTAATTGTTAA
15094105 AAATATTTTT
Statistics
Matches: 152, Mismatches: 18, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
181 9 0.06
182 68 0.45
183 41 0.27
184 5 0.03
186 29 0.19
ACGTcount: A:0.37, C:0.13, G:0.09, T:0.41
Consensus pattern (180 bp):
TTTATAAAAATTATCATACCAAAAAATTTTACAATTTTTCTATAACTTTTATTGATTTATTTTTA
TTATCATTTTTCACCACATGTCACACTATGTTGCAACACGCGATGACTTTAATTGAAAAAAACAG
AGGTCATTAACTTTAACAATCAACAATTAAAGCTAATTGTTAAGAAAAAA
Found at i:15094409 original size:84 final size:83
Alignment explanation
Indices: 15094294--15094456 Score: 220
Period size: 84 Copynumber: 2.0 Consensus size: 83
15094284 AAGAGCATGG
* * * *
15094294 CTTAATTGCTTTTTTGAAAAATTTTGAGGGTCTTTTTTATACATTTTGAAAGTTCAAGTAC-CGA
1 CTTAATTACTTTTTTGAAAAAGTTTGAGGGTCTTTTTGATACATTTTGAAAGATCAAGTACTC-A
*
15094358 ATTTAGTGAAAAAAATGTA
65 ATTGAGTGAAAAAAATGTA
* ** *
15094377 CTTAATTACTTCTTTTGAAGAAGTTTGAGGGTCTTTTTGATGTATTTTGAAAGATCAAGTGCTCA
1 CTTAATTACTT-TTTTGAAAAAGTTTGAGGGTCTTTTTGATACATTTTGAAAGATCAAGTACTCA
15094442 ATTGAGTGAAAAAAA
65 ATTGAGTGAAAAAAA
15094457 AAAAGGAAGA
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
83 10 0.14
84 58 0.84
85 1 0.01
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (83 bp):
CTTAATTACTTTTTTGAAAAAGTTTGAGGGTCTTTTTGATACATTTTGAAAGATCAAGTACTCAA
TTGAGTGAAAAAAATGTA
Found at i:15096204 original size:24 final size:24
Alignment explanation
Indices: 15096159--15096204 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
15096149 TCATACATTT
*
15096159 GAAATTCAATCCCTTTTATTTTAA
1 GAAATTCAATCCCTTCTATTTTAA
*
15096183 GAAATTTAATCCC-TCTACTTTT
1 GAAATTCAATCCCTTCTA-TTTT
15096205 CGGATTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 3 0.16
24 16 0.84
ACGTcount: A:0.30, C:0.20, G:0.04, T:0.46
Consensus pattern (24 bp):
GAAATTCAATCCCTTCTATTTTAA
Found at i:15111277 original size:30 final size:30
Alignment explanation
Indices: 15111220--15111277 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
15111210 AAGTCATTAT
* **
15111220 AGTTTAAGGGCTTATTTAGGTGTAAAAAAA
1 AGTTTAAGGGCTTATTTAGATACAAAAAAA
*
15111250 AGTTTAAGGGCTTCTTTAGATACAAAAA
1 AGTTTAAGGGCTTATTTAGATACAAAAA
15111278 TACTTTAAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.33
Consensus pattern (30 bp):
AGTTTAAGGGCTTATTTAGATACAAAAAAA
Found at i:15111689 original size:31 final size:29
Alignment explanation
Indices: 15111632--15111690 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 29
15111622 ATAAGCATTG
15111632 TCAAAAAAATTTATTATTTTGTTTTAATT
1 TCAAAAAAATTTATTATTTTGTTTTAATT
*
15111661 TCAAAAAATATTATTTTATTTT-TATTTAAT
1 TCAAAAAA-ATT-TATTATTTTGT-TTTAAT
15111691 AAACTATTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 8 0.31
30 4 0.15
31 14 0.54
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (29 bp):
TCAAAAAAATTTATTATTTTGTTTTAATT
Found at i:15112002 original size:26 final size:23
Alignment explanation
Indices: 15111953--15112002 Score: 55
Period size: 25 Copynumber: 2.0 Consensus size: 23
15111943 AAAATAAAAA
* *
15111953 TAAAAATACAAATTTTAAAGTAG
1 TAAAAATACAAAATTTAAAATAG
15111976 TAAAAAGTACAAAAATTTAAGAATAG
1 TAAAAA-TAC-AAAATTTAA-AATAG
15112002 T
1 T
15112003 TAATTTCAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 6 0.27
24 3 0.14
25 8 0.36
26 5 0.23
ACGTcount: A:0.58, C:0.04, G:0.10, T:0.28
Consensus pattern (23 bp):
TAAAAATACAAAATTTAAAATAG
Found at i:15113318 original size:51 final size:51
Alignment explanation
Indices: 15113213--15113328 Score: 133
Period size: 51 Copynumber: 2.3 Consensus size: 51
15113203 TACTACCAAA
* * * **
15113213 TATAATATCATATCTTCTAAGATTACATATCTTAGATAAGATATGTAATCT
1 TATAATATCATATCTTATAAGATTACATATCATAGATAAGATATCTAAGAT
* * * ** *
15113264 TATAAAATAATATCTTATAAGATTCCATATCATATCTAAGATCTCTAAGAT
1 TATAATATCATATCTTATAAGATTACATATCATAGATAAGATATCTAAGAT
15113315 TATAATATCATATC
1 TATAATATCATATC
15113329 ATGTTTCCAT
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.41, C:0.13, G:0.06, T:0.40
Consensus pattern (51 bp):
TATAATATCATATCTTATAAGATTACATATCATAGATAAGATATCTAAGAT
Found at i:15116122 original size:51 final size:51
Alignment explanation
Indices: 15116017--15116132 Score: 133
Period size: 51 Copynumber: 2.3 Consensus size: 51
15116007 TACTACCAAA
* * * **
15116017 TATAATATCATATCTTCTAAGATTACATATCTTAGATAAGATATGTAATCT
1 TATAATATCATATCTTATAAGATTACATATCATAGATAAGATATCTAAGAT
* * * ** *
15116068 TATAAAATAATATCTTATAAGATTCCATATCATATCTAAGATCTCTAAGAT
1 TATAATATCATATCTTATAAGATTACATATCATAGATAAGATATCTAAGAT
15116119 TATAATATCATATC
1 TATAATATCATATC
15116133 ATGTTTCCAT
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.41, C:0.13, G:0.06, T:0.40
Consensus pattern (51 bp):
TATAATATCATATCTTATAAGATTACATATCATAGATAAGATATCTAAGAT
Found at i:15119568 original size:9 final size:9
Alignment explanation
Indices: 15119554--15119604 Score: 59
Period size: 9 Copynumber: 5.8 Consensus size: 9
15119544 TAATTCAAAG
*
15119554 TTAAAATTT
1 TTAAAAATT
*
15119563 TTAAAAAAT
1 TTAAAAATT
15119572 TTAAAAA-T
1 TTAAAAATT
*
15119580 TTAAAAATA
1 TTAAAAATT
*
15119589 TTAAATATT
1 TTAAAAATT
15119598 TTAAAAA
1 TTAAAAA
15119605 CCAGACCAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
8 8 0.23
9 27 0.77
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (9 bp):
TTAAAAATT
Found at i:15119577 original size:18 final size:19
Alignment explanation
Indices: 15119554--15119604 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 19
15119544 TAATTCAAAG
15119554 TTAAAATTTTTAAAAAAT-
1 TTAAAATTTTTAAAAAATA
*
15119572 TTAAAA-ATTT-AAAAATA
1 TTAAAATTTTTAAAAAATA
15119589 TT-AAATATTTTAAAAA
1 TTAAAAT-TTTTAAAAA
15119605 CCAGACCAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
16 9 0.33
17 5 0.19
18 9 0.33
19 4 0.15
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
TTAAAATTTTTAAAAAATA
Found at i:15119584 original size:17 final size:19
Alignment explanation
Indices: 15119562--15119604 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
15119552 AGTTAAAATT
15119562 TTTAAAAAAT-TTAAA-AA
1 TTTAAAAAATATTAAATAA
*
15119579 TTT-AAAAATATTAAATAT
1 TTTAAAAAATATTAAATAA
15119597 TTTAAAAA
1 TTTAAAAA
15119605 CCAGACCAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 6 0.27
17 8 0.36
18 4 0.18
19 4 0.18
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TTTAAAAAATATTAAATAA
Found at i:15119585 original size:7 final size:8
Alignment explanation
Indices: 15119566--15119604 Score: 51
Period size: 8 Copynumber: 4.6 Consensus size: 8
15119556 AAAATTTTTA
15119566 AAAAATTT
1 AAAAATTT
15119574 AAAAATTT
1 AAAAATTT
15119582 AAAAATATT
1 AAAAAT-TT
*
15119591 AAATATTTT
1 AAA-AATTT
15119600 AAAAA
1 AAAAA
15119605 CCAGACCAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 15 0.56
9 10 0.37
10 2 0.07
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
AAAAATTT
Found at i:15121321 original size:151 final size:151
Alignment explanation
Indices: 15121044--15121355 Score: 588
Period size: 151 Copynumber: 2.1 Consensus size: 151
15121034 AAGTAGAACT
*
15121044 AAATTCCTTGAAATAGAAGTAAGAGGACTAATTTCAAATTTACAAAGAGTACAGGGACCTATAGC
1 AAATTCCTTGAAATAGAAGTAAGAGGACTAATTTCAAATTTACAAAGAGTACAGGGAACTATAGC
* *
15121109 ATATTTTAACCTAATAATAATAAGAGTACCAAAATATGTCAAATCAAAGTATAGGATTAAATCCT
66 ATATTTTAACCTAATAATAATAAGAGTACCAAAACATGTCAAATCAAAGTATAGGACTAAATCCT
15121174 TAGTCGAGTATAATTTGACTG
131 TAGTCGAGTATAATTTGACTG
15121195 AAATTCCTTGAAATAGAAGTAAGAGGACTAATTTCAAATTTACAAAGAGTACAGGGAACTATAGC
1 AAATTCCTTGAAATAGAAGTAAGAGGACTAATTTCAAATTTACAAAGAGTACAGGGAACTATAGC
15121260 ATATTTTAACCTAATAATAATAAGAGTACCAAAACATGTCAAATCAAAGTATAGGACTAAATCCT
66 ATATTTTAACCTAATAATAATAAGAGTACCAAAACATGTCAAATCAAAGTATAGGACTAAATCCT
15121325 TAGTCGAGTATAATTTGACTG
131 TAGTCGAGTATAATTTGACTG
15121346 AAATTACCTT
1 AAATT-CCTT
15121356 TAACATTTCA
Statistics
Matches: 157, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
151 153 0.97
152 4 0.03
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.29
Consensus pattern (151 bp):
AAATTCCTTGAAATAGAAGTAAGAGGACTAATTTCAAATTTACAAAGAGTACAGGGAACTATAGC
ATATTTTAACCTAATAATAATAAGAGTACCAAAACATGTCAAATCAAAGTATAGGACTAAATCCT
TAGTCGAGTATAATTTGACTG
Found at i:15134326 original size:2 final size:2
Alignment explanation
Indices: 15134319--15134345 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15134309 GATTATTTGG
15134319 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 T
15134346 TATTTATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15135278 original size:19 final size:20
Alignment explanation
Indices: 15135234--15135271 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
15135224 ATTAAAATTA
*
15135234 CAAAAAAAATCCCAAATTTT
1 CAAAAAAAATACCAAATTTT
15135254 CAAAAAAAA-ACCAAATTT
1 CAAAAAAAATACCAAATTT
15135272 CTAAAAAGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.61, C:0.18, G:0.00, T:0.21
Consensus pattern (20 bp):
CAAAAAAAATACCAAATTTT
Found at i:15135278 original size:20 final size:19
Alignment explanation
Indices: 15135235--15135278 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
15135225 TTAAAATTAC
**
15135235 AAAAAAAATCCCAAATTTT
1 AAAAAAAAAACCAAATTTT
*
15135254 CAAAAAAAAACCAAATTTCT
1 AAAAAAAAAACCAAATTT-T
15135274 AAAAA
1 AAAAA
15135279 GGCCATAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.64, C:0.16, G:0.00, T:0.20
Consensus pattern (19 bp):
AAAAAAAAAACCAAATTTT
Found at i:15138783 original size:249 final size:249
Alignment explanation
Indices: 15138448--15138929 Score: 646
Period size: 249 Copynumber: 1.9 Consensus size: 249
15138438 GTACCCCCTG
** * *
15138448 TAGAAACAATATGTATAATATATTGACATTCAAAATGCCAAGTTTTTATCAATAAAACATGAAGT
1 TAGAAACAATATCCATAATAGATTGACATTCAAAATGCCAAGTTTCTATCAATAAAACATGAAGT
* * ** *
15138513 TGCTTCATATTACCGTAACAT-GACAGGATGCAAAATAAAAATGCATGCTTGCAGTCAAGTTCTG
66 TGCTTCAAATTACCATAACATGGA-AGGATGCAAAATAAAAACACATGCCTGCAGTCAAGTTCTG
* ** * *
15138577 GAGTGTTAATAATCAAAAACTGAAAATAAGGATA-TTGACATACCTATCAGTTCACAAGTAACAG
130 GAATGGAAATAATCAAAAACAGAAAAT-AGGA-AGTTGACATACCTATCAGTTCACAAGTAACAA
*
15138641 TCACTATAGTTCCATAAAGTGACATATTTAGGAACCGGGGGCTGTAAGTAACCCCAC
193 TCACTATAGTTCCATAAAGGGACATATTTAGGAACCGGGGGCTGTAAGTAACCCCAC
* * *
15138698 TAGAAACAATATCCATATTAGATTTATATTCAAAATGCCAAG-TTCTATCAATAAAACATGAAGT
1 TAGAAACAATATCCATAATAGATTGACATTCAAAATGCCAAGTTTCTATCAATAAAACATGAAGT
* * * *
15138762 TGCTTCAAATTACTATAACATGGAAGGGTGCAAAATGAAAACACATGCCTGCAGTCGAGTTCTGG
66 TGCTTCAAATTACCATAACATGGAAGGATGCAAAATAAAAACACATGCCTGCAGTCAAGTTCTGG
* ** * *
15138827 AATGGAAATAATCAAAAAGAGATGATAGGAAGGTTGACATACTTATCAGTTCATAAGTAACAATC
131 AATGGAAATAATCAAAAACAGAAAATAGGAA-GTTGACATACCTATCAGTTCACAAGTAACAATC
* *
15138892 ATTGTAGTTCCATAAAGGGACATATTTAGGAACCGGGG
195 ACTATAGTTCCATAAAGGGACATATTTAGGAACCGGGG
15138930 ACCGAACCCC
Statistics
Matches: 200, Mismatches: 29, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
247 1 0.00
248 4 0.02
249 157 0.79
250 38 0.19
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.27
Consensus pattern (249 bp):
TAGAAACAATATCCATAATAGATTGACATTCAAAATGCCAAGTTTCTATCAATAAAACATGAAGT
TGCTTCAAATTACCATAACATGGAAGGATGCAAAATAAAAACACATGCCTGCAGTCAAGTTCTGG
AATGGAAATAATCAAAAACAGAAAATAGGAAGTTGACATACCTATCAGTTCACAAGTAACAATCA
CTATAGTTCCATAAAGGGACATATTTAGGAACCGGGGGCTGTAAGTAACCCCAC
Found at i:15139441 original size:204 final size:205
Alignment explanation
Indices: 15139043--15139428 Score: 495
Period size: 204 Copynumber: 1.9 Consensus size: 205
15139033 GACAGAGAAG
* *
15139043 GGCCAAAGGACAAATAACCGATGTCTAAAATCAGTCATAATATTTCAATAAAAAGAAACCAGTTG
1 GGCCAAAGGACAAATAACCGATATCCAAAATCAGTCATAATATTTCAATAAAAAGAAACCAGTTG
* * **
15139108 CGTCATATAGCCAAGACAGACAAAGATCACATCTCTCTTAAGTACCCTCTAAAGGATGTAGGGAT
66 CATCATATACCCAAGACAGACAAAGATCACATCTCTCTTAAGTACCCTCTAAAGGATGTAGCAAT
* * * ** ** *
15139173 TCGATAAAAATAGACAAAATGTTTGCAGTGGGAGTGTCTTTACAGTATCAATAGGAGAGGTGATA
131 TCAATAAAAACAGACAAAACGTTACCAGCAGCAGTGTCTTTACAGTATCAATAGGAGAGGTGATA
15139238 TAAGAAAAAA
196 TAAGAAAAAA
* * * *
15139248 GGCCAATGGACTAATAACTGATATCCAAAATCA-TCATAATATTTCAATAAAAAGAAGCCAGTTG
1 GGCCAAAGGACAAATAACCGATATCCAAAATCAGTCATAATATTTCAATAAAAAGAAACCAGTTG
* * * * * * *
15139312 CATCATATACCCAAGATAGACAAAGTTCATATCTCTCTTAATTTCCCTTTGAAGGATGTAGCAAT
66 CATCATATACCCAAGACAGACAAAGATCACATCTCTCTTAAGTACCCTCTAAAGGATGTAGCAAT
* * * * *
15139377 TCAATATAAGCAGACAAAACGTTACCTGCAGCCGTGTCTTTACAGTGTCAAT
131 TCAATAAAAACAGACAAAACGTTACCAGCAGCAGTGTCTTTACAGTATCAAT
15139429 GGGGGTGGTG
Statistics
Matches: 151, Mismatches: 30, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
204 123 0.81
205 28 0.19
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (205 bp):
GGCCAAAGGACAAATAACCGATATCCAAAATCAGTCATAATATTTCAATAAAAAGAAACCAGTTG
CATCATATACCCAAGACAGACAAAGATCACATCTCTCTTAAGTACCCTCTAAAGGATGTAGCAAT
TCAATAAAAACAGACAAAACGTTACCAGCAGCAGTGTCTTTACAGTATCAATAGGAGAGGTGATA
TAAGAAAAAA
Found at i:15139869 original size:30 final size:30
Alignment explanation
Indices: 15139833--15139894 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
15139823 TCCATTTGTG
15139833 CTGTAATTGTATGGTTCTACTTGATAGTTA
1 CTGTAATTGTATGGTTCTACTTGATAGTTA
15139863 CTGTAATTGTATGGTTCTACTTGATAGTTA
1 CTGTAATTGTATGGTTCTACTTGATAGTTA
15139893 CT
1 CT
15139895 TGGACAATCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.23, C:0.11, G:0.19, T:0.47
Consensus pattern (30 bp):
CTGTAATTGTATGGTTCTACTTGATAGTTA
Found at i:15141309 original size:39 final size:39
Alignment explanation
Indices: 15141266--15141346 Score: 103
Period size: 39 Copynumber: 2.1 Consensus size: 39
15141256 AATTTAGTAT
*
15141266 ATTAAAATA-AAATTAATAAGAATAATTTTTAACATGT-AA
1 ATTAAAATATAAAGT-ATAAGAAT-ATTTTTAACATGTCAA
* *
15141305 ATTAAAATATAAAGTATAAGACTATTTTTCACATGTCAA
1 ATTAAAATATAAAGTATAAGAATATTTTTAACATGTCAA
15141344 ATT
1 ATT
15141347 CCACTTTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
38 12 0.32
39 21 0.57
40 4 0.11
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (39 bp):
ATTAAAATATAAAGTATAAGAATATTTTTAACATGTCAA
Found at i:15142427 original size:30 final size:30
Alignment explanation
Indices: 15142391--15142447 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
15142381 CACCGCCAAG
*
15142391 CTTGTTACCGCTGAAGATCATGTTTCGGAT
1 CTTGTTACCGCTGAAGATCATGCTTCGGAT
*
15142421 CTTGTTACCGTTGAAGATCATGCTTCG
1 CTTGTTACCGCTGAAGATCATGCTTCG
15142448 TATATTTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (30 bp):
CTTGTTACCGCTGAAGATCATGCTTCGGAT
Found at i:15142475 original size:81 final size:81
Alignment explanation
Indices: 15142340--15142539 Score: 319
Period size: 81 Copynumber: 2.5 Consensus size: 81
15142330 CACCGCCAAG
*
15142340 CTTGTTACCGTTGAAGATCATGCTTCGGATATTTTAAACTTCACCGCCAAGCTTGTTACCGCTGA
1 CTTGTTACCGTTGAAGATCATGCTTCGGATATTTCAAACTTCACCGCCAAGCTTGTTACCGCTGA
*
15142405 AGATCATGTTTCGGAT
66 AGATCATGTTTCCGAT
* *
15142421 CTTGTTACCGTTGAAGATCATGCTTCGTATATTTCAAACTTCACCGCCAAGCTTGTTACCGTTGA
1 CTTGTTACCGTTGAAGATCATGCTTCGGATATTTCAAACTTCACCGCCAAGCTTGTTACCGCTGA
15142486 AGATCATGTTTCCGAT
66 AGATCATGTTTCCGAT
* * * * *
15142502 CTTGCTGCCGTTGAAGATCATGTTTCAGATCTTTCAAA
1 CTTGTTACCGTTGAAGATCATGCTTCGGATATTTCAAA
15142540 AAAAAAAAAT
Statistics
Matches: 109, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 109 1.00
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.35
Consensus pattern (81 bp):
CTTGTTACCGTTGAAGATCATGCTTCGGATATTTCAAACTTCACCGCCAAGCTTGTTACCGCTGA
AGATCATGTTTCCGAT
Found at i:15160851 original size:11 final size:11
Alignment explanation
Indices: 15160835--15160859 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
15160825 ATGACAAAAA
15160835 AATATTAGGAT
1 AATATTAGGAT
15160846 AATATTAGGAT
1 AATATTAGGAT
15160857 AAT
1 AAT
15160860 GGTTGGAAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (11 bp):
AATATTAGGAT
Found at i:15162778 original size:19 final size:21
Alignment explanation
Indices: 15162756--15162804 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 21
15162746 GAAATGATAG
*
15162756 AAAAATAGTGAG-AAAACA-A
1 AAAAATAGTCAGCAAAACAGA
15162775 AAAAATAG-CAGCAAAACAGTA
1 AAAAATAGTCAGCAAAACAG-A
15162796 AAAAATAGT
1 AAAAATAGT
15162805 ACAATTCTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 2 0.08
19 14 0.56
21 9 0.36
ACGTcount: A:0.65, C:0.08, G:0.14, T:0.12
Consensus pattern (21 bp):
AAAAATAGTCAGCAAAACAGA
Found at i:15163031 original size:14 final size:14
Alignment explanation
Indices: 15163012--15163039 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
15163002 CTTAGATTAA
15163012 CAACACAACATTGT
1 CAACACAACATTGT
15163026 CAACACAACATTGT
1 CAACACAACATTGT
15163040 AATCAGTAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.29, G:0.07, T:0.21
Consensus pattern (14 bp):
CAACACAACATTGT
Found at i:15164830 original size:30 final size:30
Alignment explanation
Indices: 15164796--15164858 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
15164786 ACTTAACAAG
15164796 CAAATGCCTCTAAAATAATAAAAAAATTAA
1 CAAATGCCTCTAAAATAATAAAAAAATTAA
* *
15164826 CAAATGCCTTTAAAATAATAAGAAAATTAA
1 CAAATGCCTCTAAAATAATAAAAAAATTAA
15164856 CAA
1 CAA
15164859 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.59, C:0.13, G:0.05, T:0.24
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAAAAAAATTAA
Found at i:15166682 original size:13 final size:13
Alignment explanation
Indices: 15166664--15166690 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
15166654 TTATGATTTT
15166664 TCTCTATTAATTA
1 TCTCTATTAATTA
15166677 TCTCTATTAATTA
1 TCTCTATTAATTA
15166690 T
1 T
15166691 TTATAAACCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.00, T:0.56
Consensus pattern (13 bp):
TCTCTATTAATTA
Found at i:15168559 original size:65 final size:65
Alignment explanation
Indices: 15168436--15168683 Score: 237
Period size: 65 Copynumber: 3.8 Consensus size: 65
15168426 CACATTTTAT
* * * * * * * * *
15168436 TATTACCTTAAAGAGGTCAAGCCACTTTAAAAAAGTGAGCTATTTAAGTTCACCTTAAATAAGCA
1 TATTAACTTAAAGAGGTAAAACCACTTTAAAGAAGTGTGCTATCTAAGTTCGCTTTAAAGAAGCA
** ** * * **
15168501 TATTAACTTAAAGAGGTAAAGGCACTACAAAGAAGTGTGCTATCAAAGTTTGCTTTAAAGAAGTG
1 TATTAACTTAAAGAGGTAAAACCACTTTAAAGAAGTGTGCTATCTAAGTTCGCTTTAAAGAAGCA
* * * *
15168566 TATT-ACTTGAAAGAGTTAAAAACACTTTAAAGATGTATGTTATCTATCTAAGTTCGCTTTAAAG
1 TATTAACTT-AAAGAGGTAAAACCACTTTAAAGAAG--TG-T-GCTATCTAAGTTCGCTTTAAAG
15168630 AAGCA
61 AAGCA
* *
15168635 TATTATCTTAAAGAGGTAAAACCACTTTAAACAAGTGTGCTATCTAAGT
1 TATTAACTTAAAGAGGTAAAACCACTTTAAAGAAGTGTGCTATCTAAGT
15168684 CTTGTAACAA
Statistics
Matches: 145, Mismatches: 32, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
64 4 0.03
65 84 0.58
66 1 0.01
67 4 0.03
68 1 0.01
69 48 0.33
70 3 0.02
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (65 bp):
TATTAACTTAAAGAGGTAAAACCACTTTAAAGAAGTGTGCTATCTAAGTTCGCTTTAAAGAAGCA
Found at i:15171075 original size:2 final size:2
Alignment explanation
Indices: 15171068--15171093 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15171058 GATGTAATTG
15171068 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
15171094 GTAGTTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15177897 original size:23 final size:24
Alignment explanation
Indices: 15177858--15177920 Score: 78
Period size: 23 Copynumber: 2.6 Consensus size: 24
15177848 CCCAATCTTT
15177858 CTTTTTATTTTTATTTATTATTTTC
1 CTTTTTA-TTTTATTTATTATTTTC
15177883 CTTTTTA-TTTATTTATTATTTAT-
1 CTTTTTATTTTATTTATTATTT-TC
15177906 -TATTTTATTTTATTT
1 CT-TTTTATTTTATTT
15177921 TAGCTAAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
22 1 0.03
23 19 0.54
24 8 0.23
25 7 0.20
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (24 bp):
CTTTTTATTTTATTTATTATTTTC
Found at i:15179245 original size:9 final size:9
Alignment explanation
Indices: 15179231--15179273 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
15179221 AAAATTCTTT
15179231 AAAAAAAAG
1 AAAAAAAAG
*
15179240 -AAAAAAAT
1 AAAAAAAAG
* *
15179248 CAAAAAAGG
1 AAAAAAAAG
15179257 AAAAAAAAG
1 AAAAAAAAG
15179266 AAAAAAAA
1 AAAAAAAA
15179274 AGAAGAAGAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
8 7 0.25
9 21 0.75
ACGTcount: A:0.86, C:0.02, G:0.09, T:0.02
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:15179269 original size:17 final size:17
Alignment explanation
Indices: 15179232--15179272 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
15179222 AAATTCTTTA
*
15179232 AAAAAAAGAAAAAAATC
1 AAAAAAAGAAAAAAAAC
* *
15179249 AAAAAAGGAAAAAAAAG
1 AAAAAAAGAAAAAAAAC
15179266 AAAAAAA
1 AAAAAAA
15179273 AAGAAGAAGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.85, C:0.02, G:0.10, T:0.02
Consensus pattern (17 bp):
AAAAAAAGAAAAAAAAC
Found at i:15179286 original size:26 final size:25
Alignment explanation
Indices: 15179231--15179288 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 25
15179221 AAAATTCTTT
*
15179231 AAAAAAAAGAAAAAAATCAAAAAAGG
1 AAAAAAAAGAAAAAAA-CAAAAAAGA
15179257 AAAAAAAAGAAAAAAA-AAGAAGAAGA
1 AAAAAAAAGAAAAAAACAA-AA-AAGA
15179283 AAAAAA
1 AAAAAA
15179289 TAAGTACTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 2 0.07
25 2 0.07
26 25 0.86
ACGTcount: A:0.84, C:0.02, G:0.12, T:0.02
Consensus pattern (25 bp):
AAAAAAAAGAAAAAAACAAAAAAGA
Found at i:15186805 original size:44 final size:45
Alignment explanation
Indices: 15186715--15186843 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
15186705 GACAGAACGA
*
15186715 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
15186761 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
15186805 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
15186844 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:15192941 original size:44 final size:45
Alignment explanation
Indices: 15192851--15192979 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
15192841 GACAGAACGA
*
15192851 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
15192897 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
15192941 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
15192980 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:15205833 original size:18 final size:18
Alignment explanation
Indices: 15205810--15205844 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
15205800 AAAAATATAT
*
15205810 TTTAAAAATTAAAAATTG
1 TTTAAAAAATAAAAATTG
15205828 TTTAAAAAATAAAAATT
1 TTTAAAAAATAAAAATT
15205845 TATGAAAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (18 bp):
TTTAAAAAATAAAAATTG
Found at i:15211284 original size:22 final size:21
Alignment explanation
Indices: 15211243--15211284 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
15211233 TCCCCCAATT
*
15211243 ATAAAAAAAAATACATGAATA
1 ATAAAAAAAAATAAATGAATA
15211264 ATAAAAATAAAA-AAATAGAAT
1 ATAAAAA-AAAATAAAT-GAAT
15211285 GGGTCGATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.19
Consensus pattern (21 bp):
ATAAAAAAAAATAAATGAATA
Found at i:15213673 original size:3 final size:3
Alignment explanation
Indices: 15213665--15213725 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
15213655 CTTACGCGTT
15213665 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15213713 TTA TTA TTA TTA T
1 TTA TTA TTA TTA T
15213726 GAACATATCA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:15217082 original size:20 final size:20
Alignment explanation
Indices: 15217057--15217098 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
15217047 TTATTAAATT
15217057 ATTTTTCGACTAAATTAACA
1 ATTTTTCGACTAAATTAACA
15217077 ATTTTTCGACTAAATTAACA
1 ATTTTTCGACTAAATTAACA
15217097 AT
1 AT
15217099 GGTGAGTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.40, C:0.14, G:0.05, T:0.40
Consensus pattern (20 bp):
ATTTTTCGACTAAATTAACA
Found at i:15230210 original size:44 final size:44
Alignment explanation
Indices: 15230160--15230250 Score: 137
Period size: 44 Copynumber: 2.1 Consensus size: 44
15230150 ACAATTTTAA
* *
15230160 ATTAAATTATAATTATTTTTAAATAAGTAATTATCACAACTTCT
1 ATTAAATTATAATTATTTTAAAATAAGAAATTATCACAACTTCT
** *
15230204 ATTAAATTATAATTATTTTAAAATGTGAAATTATCACAATTTCT
1 ATTAAATTATAATTATTTTAAAATAAGAAATTATCACAACTTCT
15230248 ATT
1 ATT
15230251 TTATTTCAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.46
Consensus pattern (44 bp):
ATTAAATTATAATTATTTTAAAATAAGAAATTATCACAACTTCT
Found at i:15232360 original size:22 final size:23
Alignment explanation
Indices: 15232332--15232374 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
15232322 TAAATATTAT
15232332 TTTATTAAT-TTTTACTTAGATA
1 TTTATTAATATTTTACTTAGATA
* *
15232354 TTTATTATTATTTTATTTAGA
1 TTTATTAATATTTTACTTAGA
15232375 AAAATGATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (23 bp):
TTTATTAATATTTTACTTAGATA
Found at i:15238285 original size:11 final size:11
Alignment explanation
Indices: 15238269--15238293 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
15238259 TAAATAAGAG
15238269 AAAATAAAATA
1 AAAATAAAATA
15238280 AAAATAAAATA
1 AAAATAAAATA
15238291 AAA
1 AAA
15238294 GGACTCAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:15245215 original size:19 final size:18
Alignment explanation
Indices: 15245191--15245229 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
15245181 AGCTCCCATG
15245191 TAGCTCCACACCAGCTCAT
1 TAGCT-CACACCAGCTCAT
**
15245210 TAGCTCGGACCAGCTCAT
1 TAGCTCACACCAGCTCAT
15245228 TA
1 TA
15245230 TCAGCTCACG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.26, C:0.36, G:0.15, T:0.23
Consensus pattern (18 bp):
TAGCTCACACCAGCTCAT
Found at i:15247062 original size:23 final size:23
Alignment explanation
Indices: 15247030--15247073 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
15247020 ACTACTATTT
15247030 TCTAAATAAAATAATAATAAATA
1 TCTAAATAAAATAATAATAAATA
* *
15247053 TCTAAGTAAAATATTAATAAA
1 TCTAAATAAAATAATAATAAA
15247074 ATAATATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (23 bp):
TCTAAATAAAATAATAATAAATA
Found at i:15247066 original size:13 final size:11
Alignment explanation
Indices: 15247034--15247076 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
15247024 CTATTTTCTA
*
15247034 AATAAAATAAT
1 AATAAAATATT
15247045 AAT-AAATATCT
1 AATAAAATAT-T
15247056 AAGTAAAATATT
1 AA-TAAAATATT
15247068 AATAAAATA
1 AATAAAATA
15247077 ATATTTAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 5 0.18
11 13 0.46
12 4 0.14
13 6 0.21
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (11 bp):
AATAAAATATT
Found at i:15250027 original size:31 final size:30
Alignment explanation
Indices: 15249989--15250054 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
15249979 TAATAGCCAT
*
15249989 TGACTTAAATAAAAACTTTCGAATAATTTAG
1 TGACTTAAAT-AAAACTTTCGAATAATTTAA
* ** *
15250020 TGACTTAACTGGAACTTTCGAATAGTTTAA
1 TGACTTAAATAAAACTTTCGAATAATTTAA
15250050 TGACT
1 TGACT
15250055 ATTTTATAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 21 0.70
31 9 0.30
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (30 bp):
TGACTTAAATAAAACTTTCGAATAATTTAA
Found at i:15251509 original size:28 final size:28
Alignment explanation
Indices: 15251477--15251530 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
15251467 AATATGATAC
15251477 AATCTTTCTAGTTTTGACATCATTATGG
1 AATCTTTCTAGTTTTGACATCATTATGG
15251505 AATCTTTCTAGTTTTGACATCATTAT
1 AATCTTTCTAGTTTTGACATCATTAT
15251531 TCCATCTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.26, C:0.15, G:0.11, T:0.48
Consensus pattern (28 bp):
AATCTTTCTAGTTTTGACATCATTATGG
Found at i:15251537 original size:28 final size:28
Alignment explanation
Indices: 15251476--15251539 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
15251466 TAATATGATA
15251476 CAATCTTTCTAGTTTTGACATCATTATG
1 CAATCTTTCTAGTTTTGACATCATTATG
* *
15251504 GAATCTTTCTAGTTTTGACATCATTATT
1 CAATCTTTCTAGTTTTGACATCATTATG
*
15251532 CCATCTTT
1 CAATCTTT
15251540 AACTTTCATG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.23, C:0.19, G:0.09, T:0.48
Consensus pattern (28 bp):
CAATCTTTCTAGTTTTGACATCATTATG
Found at i:15251641 original size:18 final size:18
Alignment explanation
Indices: 15251611--15251651 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
15251601 AATATTTATA
15251611 TTTTTTATCAAA-TTAAT
1 TTTTTTATCAAATTTAAT
*
15251628 TTTTTTAGTTAAATTTAAT
1 TTTTTTA-TCAAATTTAAT
15251647 TTTTT
1 TTTTT
15251652 AATCTTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.33
18 4 0.19
19 10 0.48
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.66
Consensus pattern (18 bp):
TTTTTTATCAAATTTAAT
Found at i:15251652 original size:18 final size:17
Alignment explanation
Indices: 15251599--15251652 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 17
15251589 AATTTAACAT
15251599 TCAATATTTATATTTTTTA
1 TCAA-ATTTA-ATTTTTTA
15251618 TCAAA-TTAATTTTTTTA
1 TCAAATTTAA-TTTTTTA
*
15251635 GTTAAATTTAATTTTTTA
1 -TCAAATTTAATTTTTTA
15251653 ATCTTTTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
16 1 0.03
17 10 0.32
18 12 0.39
19 8 0.26
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (17 bp):
TCAAATTTAATTTTTTA
Found at i:15253128 original size:23 final size:23
Alignment explanation
Indices: 15253102--15253145 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
15253092 AGGTGTATAT
*
15253102 TTAATTTTTATATTTTA-ATTTGA
1 TTAATTTTAAT-TTTTATATTTGA
15253125 TTAATTTTAATTTTTATATTT
1 TTAATTTTAATTTTTATATTT
15253146 TTTGAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (23 bp):
TTAATTTTAATTTTTATATTTGA
Found at i:15253147 original size:15 final size:14
Alignment explanation
Indices: 15253097--15253146 Score: 68
Period size: 14 Copynumber: 3.6 Consensus size: 14
15253087 GTATAAGGTG
15253097 TATA-TTTAATTTT
1 TATATTTTAATTTT
15253110 TATATTTTAATTTGAT
1 TATATTTTAATTT--T
15253126 TA-ATTTTAATTTT
1 TATATTTTAATTTT
15253139 TATATTTT
1 TATATTTT
15253147 TTGAATTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
13 7 0.21
14 13 0.39
15 10 0.30
16 3 0.09
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (14 bp):
TATATTTTAATTTT
Found at i:15253802 original size:23 final size:23
Alignment explanation
Indices: 15253766--15253821 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
15253756 AAATAAATAG
*
15253766 AAAAAAAATA-AAATATTGAATT
1 AAAAATAATATAAATATTGAATT
***
15253788 AAAAATAATATAAATATTTTTTT
1 AAAAATAATATAAATATTGAATT
15253811 AAAAATAATAT
1 AAAAATAATAT
15253822 GAGCAGATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 9 0.31
23 20 0.69
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (23 bp):
AAAAATAATATAAATATTGAATT
Found at i:15254567 original size:14 final size:15
Alignment explanation
Indices: 15254550--15254578 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15254540 TAGTATAGTA
15254550 AAATA-TTAAAAAAT
1 AAATATTTAAAAAAT
15254564 AAATATTTAAAAAAT
1 AAATATTTAAAAAAT
15254579 TACTAATAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATATTTAAAAAAT
Found at i:15254707 original size:13 final size:13
Alignment explanation
Indices: 15254689--15254713 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15254679 ATGATAAATA
15254689 ATTATTATATTTT
1 ATTATTATATTTT
15254702 ATTATTATATTT
1 ATTATTATATTT
15254714 CTATAAAACA
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:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
ATTATTATATTTT
Found at i:15261574 original size:2 final size:2
Alignment explanation
Indices: 15261567--15261592 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15261557 GCATAAGCCA
15261567 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
15261593 CTTTATAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:15265879 original size:18 final size:19
Alignment explanation
Indices: 15265844--15265886 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
15265834 TTTTATGATA
* *
15265844 TATATATTTATTTTATTTT
1 TATATATTTATGTAATTTT
15265863 TATATA-TTATGTAATTTT
1 TATATATTTATGTAATTTT
15265881 TATATA
1 TATATA
15265887 AAAATTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (19 bp):
TATATATTTATGTAATTTT
Found at i:15267593 original size:8 final size:8
Alignment explanation
Indices: 15267580--15267616 Score: 58
Period size: 8 Copynumber: 4.8 Consensus size: 8
15267570 AGTTTCTCTC
15267580 TAAAATAA
1 TAAAATAA
15267588 TAAAATAA
1 TAAAATAA
15267596 TAAAATAA
1 TAAAATAA
*
15267604 T-ATATAA
1 TAAAATAA
15267611 TAAAAT
1 TAAAAT
15267617 TATACTTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 6 0.23
8 20 0.77
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (8 bp):
TAAAATAA
Found at i:15268488 original size:16 final size:16
Alignment explanation
Indices: 15268467--15268497 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15268457 TGGGTGAGCT
15268467 GCAAGTAAGTACAAGA
1 GCAAGTAAGTACAAGA
*
15268483 GCAAGTAGGTACAAG
1 GCAAGTAAGTACAAG
15268498 GATAGTATTG
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:0.45, C:0.13, G:0.29, T:0.13
Consensus pattern (16 bp):
GCAAGTAAGTACAAGA
Found at i:15275030 original size:14 final size:14
Alignment explanation
Indices: 15274998--15275036 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
15274988 TTATTTTACT
*
15274998 GAAAATGACTTCTA
1 GAAAATGATTTCTA
15275012 GAAAATGATTTCT-
1 GAAAATGATTTCTA
15275025 GAAAAATGATTT
1 G-AAAATGATTT
15275037 ACTTTTCTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 1 0.04
14 22 0.96
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.33
Consensus pattern (14 bp):
GAAAATGATTTCTA
Found at i:15275610 original size:14 final size:15
Alignment explanation
Indices: 15275584--15275625 Score: 54
Period size: 13 Copynumber: 3.0 Consensus size: 15
15275574 ATGTGAATAA
15275584 TATTTTATTTAAAAT
1 TATTTTATTTAAAAT
15275599 TATTTT-TTTAAAAT
1 TATTTTATTTAAAAT
*
15275613 T-TATTA-TTAAAAT
1 TATTTTATTTAAAAT
15275626 AAAATTGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 10 0.40
14 9 0.36
15 6 0.24
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TATTTTATTTAAAAT
Found at i:15276068 original size:51 final size:52
Alignment explanation
Indices: 15276002--15276111 Score: 143
Period size: 51 Copynumber: 2.1 Consensus size: 52
15275992 TCCATAAAAC
* * * * *
15276002 TTTTTTAGAATTATGATTAAATTGAAACT-ATTTGTAATATTTGAGGGTTAAT
1 TTTTTTAGAATTATGACTAAATTGAAA-TAATATGTAAAAGTTGAGGGTTAAA
*
15276054 TTTTTTA-AATTATGACTAAATTGATATAATATGTAAAAGTTGAGGGTTAAA
1 TTTTTTAGAATTATGACTAAATTGAAATAATATGTAAAAGTTGAGGGTTAAA
15276105 TTTTTTA
1 TTTTTTA
15276112 TATACAAATT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
50 1 0.02
51 43 0.84
52 7 0.14
ACGTcount: A:0.36, C:0.02, G:0.15, T:0.47
Consensus pattern (52 bp):
TTTTTTAGAATTATGACTAAATTGAAATAATATGTAAAAGTTGAGGGTTAAA
Found at i:15276478 original size:20 final size:20
Alignment explanation
Indices: 15276453--15276513 Score: 78
Period size: 20 Copynumber: 3.2 Consensus size: 20
15276443 GAATATCAAT
15276453 AAAGCCTATATTTTATTGGG
1 AAAGCCTATATTTTATTGGG
15276473 AAAGCCTATA--TTATCT---
1 AAAGCCTATATTTTAT-TGGG
15276489 AAAGCCTATATTTTATTGGG
1 AAAGCCTATATTTTATTGGG
15276509 AAAGC
1 AAAGC
15276514 AAAAGCCTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
16 10 0.29
17 1 0.03
18 8 0.23
19 1 0.03
20 15 0.43
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.36
Consensus pattern (20 bp):
AAAGCCTATATTTTATTGGG
Found at i:15279227 original size:37 final size:37
Alignment explanation
Indices: 15279177--15279250 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
15279167 CAAACTCAAA
15279177 GGGTCACCTTGTCGAAGACCTCTACTAGGACGAAAAC
1 GGGTCACCTTGTCGAAGACCTCTACTAGGACGAAAAC
15279214 GGGTCACCTTGTCGAAGACCTCTACTAGGACGAAAAC
1 GGGTCACCTTGTCGAAGACCTCTACTAGGACGAAAAC
15279251 ATTCCCCTAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.30, C:0.27, G:0.24, T:0.19
Consensus pattern (37 bp):
GGGTCACCTTGTCGAAGACCTCTACTAGGACGAAAAC
Found at i:15282226 original size:48 final size:49
Alignment explanation
Indices: 15282174--15282281 Score: 157
Period size: 47 Copynumber: 2.2 Consensus size: 49
15282164 CCATTAAGCC
***
15282174 CCCCAAAAAAAACCTAACCCCCCCCAAAAAAA-AAAAAAGAAAAACCTA
1 CCCCAAAAAAAACCTAACCCCCAAAAAAAAAAGAAAAAAGAAAAACCTA
15282222 CCCC-AAAAAAACCTAACCCCCAAAAAAAAAAGAAAAAAGAAAAACCTA
1 CCCCAAAAAAAACCTAACCCCCAAAAAAAAAAGAAAAAAGAAAAACCTA
* *
15282270 ACCAAAAAAAAA
1 CCCCAAAAAAAA
15282282 TAAAAAAACC
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
47 24 0.45
48 22 0.42
49 7 0.13
ACGTcount: A:0.65, C:0.29, G:0.03, T:0.04
Consensus pattern (49 bp):
CCCCAAAAAAAACCTAACCCCCAAAAAAAAAAGAAAAAAGAAAAACCTA
Found at i:15282231 original size:15 final size:17
Alignment explanation
Indices: 15282213--15282249 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
15282203 AAAAAAAAAG
15282213 AAAAACCT-A-CCCCAA
1 AAAAACCTAACCCCCAA
15282228 AAAAACCTAACCCCCAA
1 AAAAACCTAACCCCCAA
15282245 AAAAA
1 AAAAA
15282250 AAAGAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 8 0.40
16 1 0.05
17 11 0.55
ACGTcount: A:0.59, C:0.35, G:0.00, T:0.05
Consensus pattern (17 bp):
AAAAACCTAACCCCCAA
Found at i:15282236 original size:47 final size:48
Alignment explanation
Indices: 15282174--15282280 Score: 153
Period size: 48 Copynumber: 2.2 Consensus size: 48
15282164 CCATTAAGCC
***
15282174 CCCCAAAAAAAACCTAACCCCCCCCAAAAAAA-AAAAAAGAAAAACCTA
1 CCCC-AAAAAAACCTAACCCCCAAAAAAAAAAGAAAAAAGAAAAACCTA
15282222 CCCCAAAAAAACCTAACCCCCAAAAAAAAAAGAAAAAAGAAAAACCTA
1 CCCCAAAAAAACCTAACCCCCAAAAAAAAAAGAAAAAAGAAAAACCTA
* *
15282270 ACCAAAAAAAA
1 CCCCAAAAAAA
15282281 ATAAAAAAAC
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
47 24 0.45
48 29 0.55
ACGTcount: A:0.64, C:0.29, G:0.03, T:0.04
Consensus pattern (48 bp):
CCCCAAAAAAACCTAACCCCCAAAAAAAAAAGAAAAAAGAAAAACCTA
Found at i:15282506 original size:17 final size:17
Alignment explanation
Indices: 15282484--15282522 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
15282474 CCTAAAGGTG
*
15282484 ATTTTA-TCTTCTTTATT
1 ATTTTACTCTTATTT-TT
15282501 ATTTTACTCTTATTTTT
1 ATTTTACTCTTATTTTT
15282518 ATTTT
1 ATTTT
15282523 TATTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.18, C:0.10, G:0.00, T:0.72
Consensus pattern (17 bp):
ATTTTACTCTTATTTTT
Found at i:15282521 original size:6 final size:6
Alignment explanation
Indices: 15282510--15282535 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
15282500 TATTTTACTC
15282510 TTATTT TTATTT TTATTT TTATTT TT
1 TTATTT TTATTT TTATTT TTATTT TT
15282536 TTCCTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTATTT
Found at i:15282806 original size:29 final size:29
Alignment explanation
Indices: 15282750--15282806 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
15282740 TCTCTTCTTT
* *
15282750 TTTCATTTATTTTTCGTATTTACCTTAGA
1 TTTCATTTATTTTGCGTATTTAACTTAGA
*
15282779 TTTCATATTATTTTGC-TATTTAATTTAG
1 TTTCAT-TTATTTTGCGTATTTAACTTAG
15282807 CTTTAAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 16 0.67
30 8 0.33
ACGTcount: A:0.23, C:0.11, G:0.07, T:0.60
Consensus pattern (29 bp):
TTTCATTTATTTTGCGTATTTAACTTAGA
Found at i:15283071 original size:11 final size:11
Alignment explanation
Indices: 15283053--15283082 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
15283043 GTGTATATTG
15283053 TATATATTATA
1 TATATATTATA
*
15283064 TTTATATTATA
1 TATATATTATA
15283075 TATATATT
1 TATATATT
15283083 CTTAATGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TATATATTATA
Found at i:15287309 original size:12 final size:12
Alignment explanation
Indices: 15287292--15287327 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
15287282 AACATTTTGA
15287292 CATTCATGCATT
1 CATTCATGCATT
15287304 CATTCATGCATT
1 CATTCATGCATT
*
15287316 CATTCATACATT
1 CATTCATGCATT
15287328 GCATATCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:15295718 original size:75 final size:76
Alignment explanation
Indices: 15295524--15296300 Score: 291
Period size: 78 Copynumber: 9.9 Consensus size: 76
15295514 GTTTTATTTC
* * * * *
15295524 AAAATTCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACACTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGATGAGTTGAACCTCAAGACACGCTGAGGTATTTTCAATTTC
15295589 TG-TTGTCAAAAAA
66 TGTTTGTC---AAA
* * * *
15295602 AAAAATCAACTCGTATTGCGAGCGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGATGAGTTGAACCTCAAGACACGCTGAGGTATTTTCAATTTC
*
15295667 TGTTTTTC-AA
66 TGTTTGTCAAA
* * *
15295677 AAAAATCAGCTCATATTGCGAGAGATGAGTTGAACCTCAAG--ACGCTGAGGTGTTTTCCATTTC
1 AAAAATCAACTCATATTGCGAGAGATGAGTTGAACCTCAAGACACGCTGAGGTATTTTCAATTTC
* *
15295740 TGTTCT-TTAATTTCTGTGTTTC
66 TGTT-TGTCAA-----------A
* * * ** * * * *
15295762 AAAAA--AA-TCAGCTCATAT-TGCGA-ATG-G-TG-A-GTTGAGCCTCG-GGACACGCTGAGGT
1 AAAAATCAACTCA--T-AT-TGCGAGAGATGAGTTGAACCTCAAGACACGCTG--A-GGT-A--T
* *
15295817 AATTTCAATTTCTGTTT-TC---
56 -TTTC-AATTTCTGTTTGTCAAA
* * * * * *
15295836 AAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTCTTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGATGAGTTGAACCTCAAGACACGCTGAGGTATTTTCAATTTC
15295901 TGTTT-TCAAAAA
66 TGTTTGTC--AAA
* * * * *
15295913 AAAAACCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-AGTTCACATGCTGAGGTATTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGATGAGTTGAACCTCAAG---ACACGCTGAGGTATTTTCAAT
15295977 TTCTGTCTT-TCAAA
63 TTCTGT-TTGTCAAA
* * * * *
15295991 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTTTT
1 AAAAATCAACTCATATTGCGAGAGATGAGTTGAACCTCA-A-GACACGCTGAGGTA------TTT
* * *
15296056 TCAATTTATATTTTTC---
58 TCAATTTCTGTTTGTCAAA
* * ** * ** * **
15296072 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGAGTCACATATCGAGGCATTTTCAAAA
1 AAAAATCAACTCATATTGCGAGAGATGAGTTGAACCTCAAGACAC-GCT-GAGGTATTTTCAATT
15296137 TCTGCTTT-TCAAGTTAA
64 TCTG-TTTGTC-A---AA
* * *
15296154 GTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
1 -----AAAAATCAACTCATATTGCGAGAGATGAGTTGAACCTCAAGACACGCTGAGGTATTTTCA
**
15296219 ATTTCTGTTT-TTTAA
61 ATTTCTGTTTGTCAAA
* * *
15296234 AAAAATCAGCTCATATTGCGAGATG-TGAGTTGAACCTCAAG--ACGCTGAGGTGTTTTCCATTT
1 AAAAATCAACTCATATTGCGAGA-GATGAGTTGAACCTCAAGACACGCTGAGGTATTTTCAATTT
15296296 CTGTT
65 CTGTT
15296301 CTTTAATTTC
Statistics
Matches: 536, Mismatches: 90, Indels: 151
0.69 0.12 0.19
Matches are distributed among these distances:
72 13 0.02
73 50 0.09
74 12 0.02
75 91 0.17
76 9 0.02
77 40 0.07
78 108 0.20
79 37 0.07
80 13 0.02
81 43 0.08
82 7 0.01
83 5 0.01
84 24 0.04
85 26 0.05
86 2 0.00
87 43 0.08
88 4 0.01
89 9 0.02
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.34
Consensus pattern (76 bp):
AAAAATCAACTCATATTGCGAGAGATGAGTTGAACCTCAAGACACGCTGAGGTATTTTCAATTTC
TGTTTGTCAAA
Found at i:15295799 original size:162 final size:149
Alignment explanation
Indices: 15295762--15296828 Score: 530
Period size: 153 Copynumber: 6.7 Consensus size: 149
15295752 TCTGTGTTTC
* * *
15295762 AAAAAAATCAGCTCATATTGCGAATGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAA-GGTGAGTTGAGCCTC-AGACACGCTGAGGTATTTTCAATT
* * * * *
15295827 TCTG-TTTTC--AAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT
64 TCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAACCTCAAGA-ACGCTGAGGT
15295889 CTTTTCAATTTCTGTTTTCAAA
128 CTTTTCAATTTCTGTTTTCAAA
* * *
15295911 AAAAAAACCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGTTCACATGCTGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGA-AGGTGAGTTGAGCCTCAG---ACACGCTGAGGTATTTTCAA
* * * * * *
15295976 TTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACT
62 TTTCTGTTTTTC-AAAAAAATCAACTCATATTGCGAGAGATGAGTTGAACCTCA-A-GA-ACGCT
* *** ** **
15296041 GAGGTATTTTTTTTTTCAATTTAT-ATTTT
123 GAGGTCTTTTCAATTTCTGTTT-TCA--AA
** * * ** *
15296070 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGAGTCACATATCGAGGCATTTTCAA
1 AAAAAAATCAACTCATATTGCGA-AGGTGAGTTGAGCC-TCAGACAC-GCT-GAGGTATTTTCAA
** * * *
15296135 AATCTGCTTTTCAAGTTAAGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG
62 TTTCTG-TTTT----TCAA-----AAAAATCAACTCATATTGCGAGAGATGAGTTGAACCTCAAG
* * **
15296200 ACACGTTGAGGTATTTTCAATTTCTGTTTT--TT
117 A-ACGCTGAGGTCTTTTCAATTTCTGTTTTCAAA
* * * *
15296232 AAAAAAATCAGCTCATATTGCGAGATGTGAGTTGAACCTCA-AGACGCTGAGGTGTTTTCCATTT
1 AAAAAAATCAACTCATATTGCGA-AGGTGAGTTGAGCCTCAGACACGCTGA-G-G---T--A--T
* * * * * *
15296296 CTGTTCTTTAATTTCTGTGTTTCAAAAAAATCAGCTCATATTGC-AAATGGTGAGTTGAGCCTTG
56 -T-TTC---AATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGA-GATGAGTTGAACC-TC
** * * * *
15296360 ACTCACACGCCGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTC
114 A-AGA-ACGCTGAGGTCTTTTCAATTTCTG-TTTTCAA-----------A
* * * *
15296410 AAAAAAATCAACTCATATTGTGAGAGGTGAG-TGAAACCTCAGGATACGCTGAGGTAATTTCAAT
1 AAAAAAATCAACTCATATTGCGA-AGGTGAGTTG-AGCCTCA-GACACGCTGAGGTATTTTCAAT
* * * *
15296474 TTCTG-TTGTCAAAAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGC
63 TTCTGTTTTTC-----AAAAAAATCAACTCATATTGCGAGAGATGAGTTGAACCTCAAGA-ACGC
* *
15296538 TGAGGTATTTTCAATTTTTGTCTTTC---
122 TGAGGTCTTTTCAATTTCTGT-TTTCAAA
* * * *
15296564 -AAAAAATCAACTTATATTGCGAGAGGTGAGTTAAGCCTCGGGACACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGA-AGGTGAGTTGAGCCTC-AGACACGCTGAGGTATTTTCAATT
* * * *
15296628 TCTG-TTTTC--AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT
64 TCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAACCTCAAGA-ACGCTGAGGT
* *
15296690 ATTTTTAATTTCTGTTTTCAAAAA
128 CTTTTCAATTTCTGTTTTC--AAA
* * *
15296714 AAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGA-AGGTGAGTTGAGCCTCAG---ACACGCTGAGGTATTTTCAA
* * *
15296779 TTTCTGTCTTTCAAAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGA
62 TTTCTGTTTTTC---AAAAAAATCAACTCATATTGCGAGAGATGAGTTGA
15296829 GCTTCAGATC
Statistics
Matches: 725, Mismatches: 109, Indels: 158
0.73 0.11 0.16
Matches are distributed among these distances:
145 4 0.01
146 63 0.09
148 1 0.00
149 35 0.05
150 3 0.00
151 62 0.09
152 4 0.01
153 87 0.12
154 5 0.01
155 34 0.05
156 1 0.00
157 24 0.03
158 4 0.01
159 81 0.11
160 9 0.01
161 4 0.01
162 66 0.09
163 4 0.01
164 24 0.03
165 9 0.01
166 30 0.04
167 6 0.01
168 65 0.09
169 8 0.01
170 32 0.04
171 5 0.01
172 6 0.01
173 1 0.00
175 1 0.00
177 2 0.00
178 36 0.05
179 1 0.00
180 8 0.01
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (149 bp):
AAAAAAATCAACTCATATTGCGAAGGTGAGTTGAGCCTCAGACACGCTGAGGTATTTTCAATTTC
TGTTTTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAACCTCAAGAACGCTGAGGTCTT
TTCAATTTCTGTTTTCAAA
Found at i:15295865 original size:72 final size:73
Alignment explanation
Indices: 15295748--15296300 Score: 389
Period size: 72 Copynumber: 7.1 Consensus size: 73
15295738 TCTGTTCTTT
* * *
15295748 AATTTCTGTGTTTCAAAAAAATCAGCTCATATTGCGA-ATGGTGAGTTGAGCCTCGGGACACGCT
1 AATTTCTGT-TTTC-AAAAAATCAACTTATATTGCGAGA-GGTGAGTTGAGCCTCGAGACACGCT
*
15295812 GAGGTAATTTC
63 GAGGTATTTTC
* ** * *
15295823 AATTTCTGTTTTC-AAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
1 AATTTCTGTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGAGACACGCTGAG
*
15295887 GTCTTTTC
66 GTATTTTC
*
15295895 AATTTCTGTTTTCAAAAAAAAAACCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-AGTTCACA
1 AATTTCTGTTTTC----AAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGAG---ACA
*
15295959 TGCTGAGGTATTTTC
59 CGCTGAGGTATTTTC
* * * *
15295974 AATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACA
1 AATTTCTGT-TTTC--AAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GA-GACACG
15296039 CTGAGGTATTTTTTTTTTC
61 CTGAGGTA------TTTTC
* * * * * **
15296058 AATTTATATTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGAGTCACATATC
1 AATTTCT-GTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGAGACAC-GCT-
*
15296122 GAGGCATTTTC
63 GAGGTATTTTC
** * *
15296133 AAAATCTGCTTTTCAAGTTAAGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
1 AATTTCTG-TTTTC------A-----AAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCG
*
15296198 AGACACGTTGAGGTATTTTC
54 AGACACGCTGAGGTATTTTC
* * * * * *
15296218 AATTTCTGTTTTTTAAAAAAATCAGCTCATATTGCGAGATGTGAGTTGAACCTC-A-AGACGCTG
1 AATTTCTG--TTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGAGACACGCTG
*
15296281 AGGTGTTTTC
64 AGGTATTTTC
*
15296291 CATTTCTGTT
1 AATTTCTGTT
15296301 CTTTAATTTC
Statistics
Matches: 389, Mismatches: 53, Indels: 76
0.75 0.10 0.15
Matches are distributed among these distances:
71 2 0.01
72 60 0.15
73 23 0.06
74 5 0.01
75 58 0.15
76 2 0.01
77 34 0.09
78 49 0.13
79 27 0.07
80 9 0.02
81 41 0.11
84 15 0.04
85 17 0.04
86 5 0.01
87 42 0.11
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (73 bp):
AATTTCTGTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGAGACACGCTGAG
GTATTTTC
Found at i:15296117 original size:81 final size:83
Alignment explanation
Indices: 15295991--15296195 Score: 251
Period size: 81 Copynumber: 2.4 Consensus size: 83
15295981 GTCTTTCAAA
*
15295991 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGATCACACA-CTGAGGTATTTT-T-
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTCAGATCACACATC-GAGGCATTTTATC
* *
15296052 T-TTTTCAATTTATATTTTTC
65 TCTTTTCAAGTTA-A-GTTTC
* *
15296072 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGAG-TCACATATCGAGGCATTTTCAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTCAGATCACACATCGAGGCATTTT----
15296136 ATCTGCTTTTCAAGTTAAGTTTC
62 ATCT-CTTTTCAAGTTAAGTTTC
15296159 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
15296196 CAAGACACGT
Statistics
Matches: 109, Mismatches: 5, Indels: 14
0.85 0.04 0.11
Matches are distributed among these distances:
81 49 0.45
82 6 0.06
86 1 0.01
87 42 0.39
88 1 0.01
89 10 0.09
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (83 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTCAGATCACACATCGAGGCATTTTATCT
CTTTTCAAGTTAAGTTTC
Found at i:15296520 original size:79 final size:77
Alignment explanation
Indices: 15296410--15296835 Score: 469
Period size: 79 Copynumber: 5.5 Consensus size: 77
15296400 TCTGCCTTTC
* * * *
15296410 AAAAAAATCAACTCATATTGTGAGAGGTGAG-TGAAACCTCAGGATACGCTGAGGTAATTTCAAT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTG-AGCCTCAGGACACGCTGAGGTATTTTCAAT
*
15296474 TTCTGTTGTCAAAAA
65 TTCTGTTTTC--AAA
** * *
15296489 AAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATT
*
15296554 TTTGTCTTTC---
66 TCTGT-TTTCAAA
* * * *
15296564 -AAAAAATCAACTTATATTGCGAGAGGTGAGTTAAGCCTCGGGACACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATT
15296628 TCTGTTTTC---
66 TCTGTTTTCAAA
* ** * * *
15296637 --AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATT
15296700 TCTGTTTTCAAAAA
66 TCTGTTTTC--AAA
* *
15296714 AAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTATTTTCA
15296778 ATTTCTGTCTTTCAAA
63 ATTTCTGT-TTTCAAA
* *
15296794 AAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCTTCAG
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
15296836 ATCACACACT
Statistics
Matches: 293, Mismatches: 40, Indels: 26
0.82 0.11 0.07
Matches are distributed among these distances:
72 62 0.21
73 4 0.01
74 60 0.20
78 1 0.00
79 92 0.31
80 45 0.15
81 25 0.09
82 4 0.01
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (77 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATT
TCTGTTTTCAAA
Found at i:15296581 original size:153 final size:151
Alignment explanation
Indices: 15296391--15296830 Score: 545
Period size: 153 Copynumber: 2.9 Consensus size: 151
15296381 CAATTTCCGT
* * * *
15296391 TTTTCAATTTCTGCCTTTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTGAAACCTCAGGATA
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTGAAGCCTC-GGATA
*
15296456 CGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAAAAAAATCAACTCATATTGCGAGAAATGAGT
65 CGCTGAGGTAATTTCAATTTCTGTTTTC--AAAAAAAAAATCAACTCATATTGCGAGAAATGAGT
*
15296521 TGAGCCTCAAGACATGCTGAGGTA
128 TGAGCCTCAAGACACGCTGAGGTA
* * *
15296545 TTTTCAATTTTTGTCTTTC-AAAAAATCAACTTATATTGCGAGAGGTGAGTTAAGCCTCGGGACA
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTGAAGCCTC-GGATA
*
15296609 CGCTGAGGTAATTTCAATTTCTGTTTTC-----AAAATTCAACTCATATTGCGAGAAATGAGTTG
65 CGCTGAGGTAATTTCAATTTCTGTTTTCAAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTG
*
15296669 AGCCTCAAGACACGTTGAGGTA
130 AGCCTCAAGACACGCTGAGGTA
*
15296691 TTTTTAATTTCTGT-TTTCAAAAAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTG-AGCCTC
1 TTTTCAATTTCTGTCTTTC-----AAAAAAATCAACTTATATTGCGAGAGGTGAG-TGAAGCCTC
* * *
15296754 GGTTCACATGCTGAGGTATTTTCAATTTCTGTCTTTCAAAAAAAAAATCAACTCATATTGTGAGA
60 GGAT-AC--GCTGAGGTAATTTCAATTTCTGT-TTTCAAAAAAAAAATCAACTCATATTGCGAGA
**
15296819 GGTGAGTTGAGC
121 AATGAGTTGAGC
15296831 TTCAGATCAC
Statistics
Matches: 248, Mismatches: 22, Indels: 27
0.84 0.07 0.09
Matches are distributed among these distances:
145 4 0.02
146 63 0.25
150 2 0.01
151 38 0.15
152 1 0.00
153 88 0.35
154 21 0.08
159 31 0.12
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (151 bp):
TTTTCAATTTCTGTCTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTGAAGCCTCGGATAC
GCTGAGGTAATTTCAATTTCTGTTTTCAAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGA
GCCTCAAGACACGCTGAGGTA
Found at i:15296722 original size:557 final size:540
Alignment explanation
Indices: 15295520--15296828 Score: 1556
Period size: 557 Copynumber: 2.4 Consensus size: 540
15295510 TGATGTTTTA
* * * *
15295520 TTTCAAAATTCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACACTGAGGTAATTTCAA
1 TTTCAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAA
* * * *
15295585 TTTCTGTTGTC-AAAAAAAAAAATCAACTCGTATTGCGAGCGATGAGTTGAGCCTCAAGACACGT
66 TTTCTGTTTTCAAAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGT
*
15295649 TGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAGCTCATATTGCGAGAGATGAGTTGAACCT
131 TGAGGTATTTTCAATTTCTGTTTTTAAAAAAAATCAGCTCATATTGCGAGAG-TGAGTTGAACCT
15295714 CAAGACGCTGAGGTGTTTTCCATTTCTGTTCTTTAATTTCTGTGTTTCAAAAAAATCAGCTCATA
195 CAAGACGCTGAGGTGTTTTCCATTTCTGTTCTTTAATTTCTGTGTTTCAAAAAAATCAGCTCATA
* * * * *
15295779 TTGCGAATGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCA
260 TTGCAAATGGTGAGTTGAGCCTCGGCACACGCCGAGGTAATTTCAATTTCTGCTTTCAAAAATCA
* * * ** *
15295844 ACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTCTTTTCAATTTCTGTTTTCA
325 ACTCATATTGCGAGAAATGAGTTGAACCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTGTCA
* **
15295909 AAAAAAAAACCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGTTCACATGCTGAGGTATTTTC
390 AAAAAAAAACCAACTCATATTGCGAGAAATGAGTTGAGCCTCAG-T-ACATGCTGAGGTATTTTC
* * *
15295974 AATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACA
453 AATTTCTGTCTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGAGCACACA
* *
15296039 CTGAGGTATTTTTTTTTTCAATTTATATT
517 CTGAGGTA-----TATTTCAATTTATAGT
* ** * *
15296068 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGAGTCACATATCGAGGCATTTTC
1 TTTCAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACAT-T-GAGGTATTTTC
** ***
15296133 AAAATCTGCTTTTCAAGTTAAGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
64 AATTTCTG-TTTTCAA---AA--AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
*
15296198 AGACACGTTGAGGTATTTTCAATTTCTGTTTTTTAAAAAAATCAGCTCATATTGCGAGATGTGAG
123 AGACACGTTGAGGTATTTTCAATTTCTGTTTTTAAAAAAAATCAGCTCATATTGCGAGA-GTGAG
15296263 TTGAACCTCAAGACGCTGAGGTGTTTTCCATTTCTGTTCTTTAATTTCTGTGTTTCAAAAAAATC
187 TTGAACCTCAAGACGCTGAGGTGTTTTCCATTTCTGTTCTTTAATTTCTGTGTTTCAAAAAAATC
* *
15296328 AGCTCATATTGCAAATGGTGAGTTGAGCCTTGACTCACACGCCGAGGTATTTTCAATTTCCGTTT
252 AGCTCATATTGCAAATGGTGAGTTGAGCCTCG--GCACACGCCGAGG-----T-AA--------T
* ** * *
15296393 TTCAATTTCTGCCTTTCAAAAAAATCAACTCATATTGTGAGAGGTGAG-TGAAACCTCAGGATAC
301 TTCAATTTCTG-CTTTC--AAAAATCAACTCATATTGCGAGAAATGAGTTG-AACCTCAAGACAC
*
15296457 GCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAAAAAAATCAACTCATATTGCGAGAAATGAGTT
362 GCTGAGGTAATTTCAATTTCTGTTGTC--AAAAAAAAAACCAACTCATATTGCGAGAAATGAGTT
* *
15296522 GAGCCTCAAG-ACATGCTGAGGTATTTTCAATTTTTGTCTTTC-AAAAAATCAACTTATATTGCG
425 GAGCCTC-AGTACATGCTGAGGTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCG
* * *
15296585 AGAGGTGAGTTAAGCCTC-G-GGACACGCTGAGGTA-ATTTCAATTTCT-GT
489 AGAGGTGAGTTAAGCCTCAGAGCACACACTGAGGTATATTTCAATTTATAGT
** * *
15296633 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAA
1 TTTCAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAA
* *
15296698 TTTCTGTTTTCAAAAAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACA
66 TTTCTGTTTTCAAAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG---ACA
* * * * *
15296762 TGCTGAGGTATTTTCAATTTCTGTCTTTCAAAAAAAAAATCAACTCATATTGTGAGAGGTGAGTT
128 CGTTGAGGTATTTTCAATTTCTGT-TTT--TAAAAAAAATCAGCTCATATTGCGAGA-GTGAGTT
15296827 GA
189 GA
15296829 GCTTCAGATC
Statistics
Matches: 648, Mismatches: 74, Indels: 64
0.82 0.09 0.08
Matches are distributed among these distances:
548 44 0.07
549 1 0.00
550 15 0.02
551 4 0.01
552 1 0.00
555 2 0.00
556 1 0.00
557 230 0.35
558 1 0.00
559 37 0.06
560 3 0.00
562 39 0.06
563 15 0.02
564 2 0.00
565 47 0.07
566 10 0.02
572 12 0.02
573 13 0.02
574 40 0.06
575 2 0.00
576 88 0.14
578 39 0.06
579 2 0.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.34
Consensus pattern (540 bp):
TTTCAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAA
TTTCTGTTTTCAAAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGT
TGAGGTATTTTCAATTTCTGTTTTTAAAAAAAATCAGCTCATATTGCGAGAGTGAGTTGAACCTC
AAGACGCTGAGGTGTTTTCCATTTCTGTTCTTTAATTTCTGTGTTTCAAAAAAATCAGCTCATAT
TGCAAATGGTGAGTTGAGCCTCGGCACACGCCGAGGTAATTTCAATTTCTGCTTTCAAAAATCAA
CTCATATTGCGAGAAATGAGTTGAACCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTGTCAA
AAAAAAAACCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGTACATGCTGAGGTATTTTCAAT
TTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGAGCACACACTGA
GGTATATTTCAATTTATAGT
Found at i:15297650 original size:48 final size:49
Alignment explanation
Indices: 15297592--15297691 Score: 132
Period size: 52 Copynumber: 2.0 Consensus size: 49
15297582 CATTAAGCCC
*
15297592 CCCCAAAAAAAAACTTAA-CCCAAAAAAAAAAAG-AAAAAGAAAAACCTA
1 CCCC-AAAAAAAACCTAACCCCAAAAAAAAAAAGAAAAAAGAAAAACCTA
*
15297640 CCCCAAAAAAAACCTAACCCCCCCAAAAAAAAGAAGAAAAAAGAAAAACCTA
1 CCCCAAAAAAAACCTAA---CCCCAAAAAAAAAAAGAAAAAAGAAAAACCTA
15297692 ACAAAAAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
47 12 0.27
48 4 0.09
51 14 0.31
52 15 0.33
ACGTcount: A:0.65, C:0.25, G:0.05, T:0.05
Consensus pattern (49 bp):
CCCCAAAAAAAACCTAACCCCAAAAAAAAAAAGAAAAAAGAAAAACCTA
Found at i:15297651 original size:17 final size:18
Alignment explanation
Indices: 15297627--15297660 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
15297617 AAAAAAAGAA
15297627 AAAGAAAAACCT-ACCCC
1 AAAGAAAAACCTAACCCC
15297644 AAA-AAAAACCTAACCCC
1 AAAGAAAAACCTAACCCC
15297661 CCCAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.56, C:0.35, G:0.03, T:0.06
Consensus pattern (18 bp):
AAAGAAAAACCTAACCCC
Found at i:15297697 original size:28 final size:26
Alignment explanation
Indices: 15297665--15297717 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 26
15297655 AACCCCCCCA
15297665 AAAAAAAGAAGAAAAAAGAAAAACCTAAC
1 AAAAAAA-AAG-AAAAA-AAAAACCTAAC
*
15297694 AAAAAAAAAGATAAAAAAAACCTA
1 AAAAAAAAAGAAAAAAAAAACCTA
15297718 GCCACCTAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 9 0.39
27 4 0.17
28 3 0.13
29 7 0.30
ACGTcount: A:0.77, C:0.09, G:0.08, T:0.06
Consensus pattern (26 bp):
AAAAAAAAAGAAAAAAAAAACCTAAC
Found at i:15297948 original size:18 final size:17
Alignment explanation
Indices: 15297908--15297946 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
15297898 CCTAAAGGTG
*
15297908 ATTTTATCTTCTTTATT
1 ATTTTATCTTATTTATT
15297925 ATTTTACTCTTATTT-TT
1 ATTTTA-TCTTATTTATT
15297942 ATTTT
1 ATTTT
15297947 TATTTTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.18, C:0.10, G:0.00, T:0.72
Consensus pattern (17 bp):
ATTTTATCTTATTTATT
Found at i:15298016 original size:12 final size:12
Alignment explanation
Indices: 15297999--15298049 Score: 50
Period size: 12 Copynumber: 4.0 Consensus size: 12
15297989 TATATACATC
15297999 ATAATAAAAAAT
1 ATAATAAAAAAT
15298011 ATAATAAAATATAT
1 ATAATAAAA-A-AT
15298025 ATACA-AAACAAAT
1 ATA-ATAAA-AAAT
*
15298038 ATAAAAAAAAAT
1 ATAATAAAAAAT
15298050 TACATTTTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
12 14 0.41
13 9 0.26
14 9 0.26
15 2 0.06
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.24
Consensus pattern (12 bp):
ATAATAAAAAAT
Found at i:15306233 original size:14 final size:15
Alignment explanation
Indices: 15306208--15306236 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
15306198 GTAAATATGT
15306208 TAAAAGAATATTTAA
1 TAAAAGAATATTTAA
15306223 TAAAA-AATATTTAA
1 TAAAAGAATATTTAA
15306237 AATTATTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (15 bp):
TAAAAGAATATTTAA
Found at i:15311735 original size:5 final size:5
Alignment explanation
Indices: 15311725--15311767 Score: 86
Period size: 5 Copynumber: 8.6 Consensus size: 5
15311715 CATTCAACCA
15311725 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TAT
15311768 GACTAATTAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 38 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:15324520 original size:11 final size:12
Alignment explanation
Indices: 15324496--15324525 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
15324486 CGTGCTAAGG
15324496 TTCTTTTTATTT
1 TTCTTTTTATTT
15324508 TTCTTTTTA-TT
1 TTCTTTTTATTT
15324519 TTCTTTT
1 TTCTTTT
15324526 CTCTCATAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.50
12 9 0.50
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.83
Consensus pattern (12 bp):
TTCTTTTTATTT
Found at i:15324677 original size:20 final size:20
Alignment explanation
Indices: 15324638--15324677 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
15324628 GCGGTCGACG
*
15324638 GTGGCGGTCCGGTGGCTGGC
1 GTGGCGGTCCGGTGACTGGC
* *
15324658 GTGGTGGTCCGGTGATTGGC
1 GTGGCGGTCCGGTGACTGGC
15324678 CCCATGACAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.03, C:0.20, G:0.53, T:0.25
Consensus pattern (20 bp):
GTGGCGGTCCGGTGACTGGC
Found at i:15325341 original size:3 final size:3
Alignment explanation
Indices: 15325183--15325326 Score: 68
Period size: 3 Copynumber: 47.3 Consensus size: 3
15325173 TTTCAAATTA
*
15325183 ATT ATT TTT ATT ATT A-T ATTT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
15325228 AACGT ATT ATT ACT ACT ACTT -TCT ATCT ATT ATT ATT A-T CTT ATT
1 -A-TT ATT ATT ATT ATT A-TT AT-T AT-T ATT ATT ATT ATT ATT ATT
* * * *
15325273 -TAA AAT ATT AAT ATT ATT -TT -TT CCATA ATT ATT A-T ATT ATT ATT
1 AT-T ATT ATT ATT ATT ATT ATT ATT --ATT ATT ATT ATT ATT ATT ATT
*
15325317 ATT CTT ATT A
1 ATT ATT ATT A
15325327 ATACGCTATT
Statistics
Matches: 109, Mismatches: 18, Indels: 28
0.70 0.12 0.18
Matches are distributed among these distances:
2 11 0.10
3 86 0.79
4 10 0.09
5 2 0.02
ACGTcount: A:0.33, C:0.07, G:0.01, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:15325479 original size:3 final size:3
Alignment explanation
Indices: 15325473--15325597 Score: 98
Period size: 3 Copynumber: 41.7 Consensus size: 3
15325463 TACATCATCG
*
15325473 TTA TTA TTAA TT- TGTA TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TT-A TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* ** * *
15325519 TTA TTA TTA TTA CTA TT- TATA TTA ACA -TA TTA TTA CTC TTA TTAA
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TT-A
* *
15325564 TGTA TTG TTA TTT TTA TT- TTA TT- TTA TTA TTA TT
1 T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
15325598 GTTTCATCCT
Statistics
Matches: 97, Mismatches: 15, Indels: 20
0.73 0.11 0.15
Matches are distributed among these distances:
2 7 0.07
3 80 0.82
4 9 0.09
5 1 0.01
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:15327183 original size:57 final size:57
Alignment explanation
Indices: 15327090--15327239 Score: 159
Period size: 57 Copynumber: 2.6 Consensus size: 57
15327080 ATTTTTATAA
* * *
15327090 ATTTTACTATATG-TTATGTTTTTATTATATACATTATTTATTCTATTATA-TTCAC-
1 ATTTTATTATATGTTTATATTTTTA-TATATATATTATTTATTCTATTATATTTCACT
*
15327145 ATTTTATTATATGTTATATATTTTTACTATATATATTATTTATTTTATTATATTTCACTT
1 ATTTTATTATATGTT-TATATTTTTA-TATATATATTATTTATTCTATTATATTTCAC-T
* *
15327205 ATTCTATTAT-T-TTTGTTATTTTTATATAT-TATTAT
1 ATTTTATTATATGTTT-ATATTTTTATATATATATTAT
15327240 CATTTTATTA
Statistics
Matches: 82, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
55 12 0.15
56 7 0.09
57 38 0.46
58 15 0.18
59 1 0.01
60 9 0.11
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.63
Consensus pattern (57 bp):
ATTTTATTATATGTTTATATTTTTATATATATATTATTTATTCTATTATATTTCACT
Found at i:15327216 original size:31 final size:30
Alignment explanation
Indices: 15327122--15327224 Score: 83
Period size: 31 Copynumber: 3.5 Consensus size: 30
15327112 TATTATATAC
* *
15327122 ATTATTTATTCTATTATA-TTCAC-ATTTT
1 ATTATTTATTTTATTATATTTCACTATTAT
* *
15327150 ATTA--TATGTTA-TATATTTTTACTATATAT
1 ATTATTTATTTTATTATA-TTTCACTAT-TAT
*
15327179 ATTATTTATTTTATTATATTTCACTTATTCT
1 ATTATTTATTTTATTATATTTCAC-TATTAT
15327210 ATTATTT-TTGTTATT
1 ATTATTTATT-TTATT
15327225 TTTATATATT
Statistics
Matches: 59, Mismatches: 7, Indels: 15
0.73 0.09 0.19
Matches are distributed among these distances:
25 4 0.07
26 5 0.08
27 4 0.07
28 6 0.10
29 6 0.10
30 2 0.03
31 25 0.42
32 7 0.12
ACGTcount: A:0.28, C:0.07, G:0.02, T:0.63
Consensus pattern (30 bp):
ATTATTTATTTTATTATATTTCACTATTAT
Found at i:15332629 original size:13 final size:13
Alignment explanation
Indices: 15332607--15332638 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
15332597 AAGAATCCTT
*
15332607 TTGTGAAATAGAC
1 TTGTGCAATAGAC
15332620 TTGTGCAATAGAC
1 TTGTGCAATAGAC
15332633 TTGTGC
1 TTGTGC
15332639 CCAAAATCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.28, C:0.12, G:0.25, T:0.34
Consensus pattern (13 bp):
TTGTGCAATAGAC
Found at i:15335429 original size:44 final size:43
Alignment explanation
Indices: 15335379--15335762 Score: 240
Period size: 44 Copynumber: 8.8 Consensus size: 43
15335369 AAGGTAGCAA
* * * * *
15335379 TGGAGCAGATAGAAGATTGCTAATCTTGTCTCCCTAAGTAGTAG
1 TGGAGCAGATCGAAGACTAC-AATCTTATCTCCCTAAGCAGTAG
** * ** * * *
15335423 TGGAGCAGATTTAAG-CCACCAGCCTTGTCTCCCTGAGCAGCAG
1 TGGAGCAGATCGAAGACTA-CAATCTTATCTCCCTAAGCAGTAG
* * * * * *
15335466 TGGAGTAGGTTGAAGATTACAGATTTTATTTCCCTAAGCAGTAG
1 TGGAGCAGATCGAAGACTACA-ATCTTATCTCCCTAAGCAGTAG
* ** * *
15335510 TGCAGCAGATCGAAGACGGCGAAGCTTGTCTCCCTAAGCAGTAG
1 TGGAGCAGATCGAAGACTAC-AATCTTATCTCCCTAAGCAGTAG
* * * *
15335554 TGGAGTAG-GCTGAAGATTACAGATCTTATCTCCCTGAGCAGTAG
1 TGGAGCAGATC-GAAGACTACA-ATCTTATCTCCCTAAGCAGTAG
* *
15335598 TGGAGCAGATCGAAGAC-AGCGAATCTTATCTCTCTAAGCAGTAA
1 TGGAGCAGATCGAAGACTA-C-AATCTTATCTCCCTAAGCAGTAG
** * *
15335642 TGGAGCAGATTTAAG-CCACCAT-TCTATCTCCCTAAGCAGTAG
1 TGGAGCAGATCGAAGACTACAATCT-TATCTCCCTAAGCAGTAG
* * * * *
15335684 TGGAGTA-AGCTAAAGATTACAGATCTTATCTCCCTAGGCAGTAG
1 TGGAGCAGATC-GAAGACTACA-ATCTTATCTCCCTAAGCAGTAG
* **
15335728 TGGAGCAGATTGAAGACGGCAAATCTTATCTCCCT
1 TGGAGCAGATCGAAGACTAC-AATCTTATCTCCCT
15335763 GAGGTAATAA
Statistics
Matches: 255, Mismatches: 68, Indels: 34
0.71 0.19 0.10
Matches are distributed among these distances:
41 2 0.01
42 27 0.11
43 39 0.15
44 181 0.71
45 6 0.02
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (43 bp):
TGGAGCAGATCGAAGACTACAATCTTATCTCCCTAAGCAGTAG
Found at i:15335568 original size:88 final size:88
Alignment explanation
Indices: 15335401--15335646 Score: 298
Period size: 88 Copynumber: 2.8 Consensus size: 88
15335391 AAGATTGCTA
* * * ** * * * *
15335401 ATCTTGTCTCCCTAAGTAGTAGTGGAGCAGATTTAAGCCA-C-CAGCCTTGTCTCCCTGAGCAGC
1 ATCTTATCTCCCTAAGCAGTAGTGCAGCAGATCGAAGACAGCGAAG-CTTGTCTCCCTAAGCAGT
*
15335464 AGTGGAGTAGGTTGAAGATTACAG
65 AGTGGAGTAGGCTGAAGATTACAG
* * *
15335488 ATTTTATTTCCCTAAGCAGTAGTGCAGCAGATCGAAGACGGCGAAGCTTGTCTCCCTAAGCAGTA
1 ATCTTATCTCCCTAAGCAGTAGTGCAGCAGATCGAAGACAGCGAAGCTTGTCTCCCTAAGCAGTA
15335553 GTGGAGTAGGCTGAAGATTACAG
66 GTGGAGTAGGCTGAAGATTACAG
* * * * *
15335576 ATCTTATCTCCCTGAGCAGTAGTGGAGCAGATCGAAGACAGCGAATCTTATCTCTCTAAGCAGTA
1 ATCTTATCTCCCTAAGCAGTAGTGCAGCAGATCGAAGACAGCGAAGCTTGTCTCCCTAAGCAGTA
*
15335641 ATGGAG
66 GTGGAG
15335647 CAGATTTAAG
Statistics
Matches: 135, Mismatches: 22, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
87 31 0.23
88 102 0.76
89 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.26
Consensus pattern (88 bp):
ATCTTATCTCCCTAAGCAGTAGTGCAGCAGATCGAAGACAGCGAAGCTTGTCTCCCTAAGCAGTA
GTGGAGTAGGCTGAAGATTACAG
Found at i:15335714 original size:130 final size:131
Alignment explanation
Indices: 15335538--15335791 Score: 395
Period size: 130 Copynumber: 1.9 Consensus size: 131
15335528 GCGAAGCTTG
* *
15335538 TCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTACAGATCTTATCTCCCT-GAGCAGTAGTGGA
1 TCTCCCTAAGCAGTAGTGGAGTAAGCTAAAGATTACAGATCTTATCTCCCTAG-GCAGTAGTGGA
* * * *
15335602 GCAGATCGAAGACAGCGAATCTTATCTCTCT-AAGCAGTAATGGAGCAGATTTAAGCCACCATTC
65 GCAGATCGAAGACAGCAAATCTTATCTCCCTGAAGCAATAAGGGAGCAGATTTAAGCCACCATTC
15335666 TA
130 TA
15335668 TCTCCCTAAGCAGTAGTGGAGTAAGCTAAAGATTACAGATCTTATCTCCCTAGGCAGTAGTGGAG
1 TCTCCCTAAGCAGTAGTGGAGTAAGCTAAAGATTACAGATCTTATCTCCCTAGGCAGTAGTGGAG
* * * *
15335733 CAGATTGAAGACGGCAAATCTTATCTCCCTGAGGTAATAAGGGAGCAGATTTAAGCCAC
66 CAGATCGAAGACAGCAAATCTTATCTCCCTGAAGCAATAAGGGAGCAGATTTAAGCCAC
15335792 TAGTCTTGTC
Statistics
Matches: 112, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
130 87 0.78
131 25 0.22
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.25
Consensus pattern (131 bp):
TCTCCCTAAGCAGTAGTGGAGTAAGCTAAAGATTACAGATCTTATCTCCCTAGGCAGTAGTGGAG
CAGATCGAAGACAGCAAATCTTATCTCCCTGAAGCAATAAGGGAGCAGATTTAAGCCACCATTCT
A
Found at i:15335839 original size:43 final size:44
Alignment explanation
Indices: 15335792--15335890 Score: 137
Period size: 44 Copynumber: 2.2 Consensus size: 44
15335782 TTTAAGCCAC
*
15335792 TAGTCTTGTCTTCCTGA-GCAGCAAGGCAGCAGGCTGAAGATTG
1 TAGTCTTGTCTTCCTGAGGCAGCAAGGCAGCAGACTGAAGATTG
* * * *
15335835 TAGTCTTGTCTTTCTGAGGTAGCAAGGGAGTAGACTGAAGATTG
1 TAGTCTTGTCTTCCTGAGGCAGCAAGGCAGCAGACTGAAGATTG
15335879 TAGATCTTGTCT
1 TAG-TCTTGTCT
15335891 CCTCGAGATA
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
43 16 0.33
44 25 0.51
45 8 0.16
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.31
Consensus pattern (44 bp):
TAGTCTTGTCTTCCTGAGGCAGCAAGGCAGCAGACTGAAGATTG
Found at i:15335903 original size:45 final size:43
Alignment explanation
Indices: 15335792--15335903 Score: 120
Period size: 44 Copynumber: 2.5 Consensus size: 43
15335782 TTTAAGCCAC
* *
15335792 TAGTCTTGTCTTCCT-GAGCAGCAAGGCAGCAGGCTGAAGATTG
1 TAGTCTTGTC-TCCTCGAGTAGCAAGGCAGCAGACTGAAGATTG
* * *
15335835 TAGTCTTGTCT-TTCTGAGGTAGCAAGGGAGTAGACTGAAGATTG
1 TAGTCTTGTCTCCTC-GA-GTAGCAAGGCAGCAGACTGAAGATTG
15335879 TAGATCTTGTCTCCTCGAGATAGCA
1 TAG-TCTTGTCTCCTCGAG-TAGCA
15335904 GTGGGGTAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
41 1 0.02
42 1 0.02
43 12 0.21
44 26 0.46
45 15 0.26
46 2 0.04
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (43 bp):
TAGTCTTGTCTCCTCGAGTAGCAAGGCAGCAGACTGAAGATTG
Found at i:15336021 original size:44 final size:44
Alignment explanation
Indices: 15335973--15336070 Score: 112
Period size: 44 Copynumber: 2.2 Consensus size: 44
15335963 AGCCACTAGC
15335973 CTTATCTCCTTGAGGTAGTAA-GAGAGCA-AGCTGAAAATTGTAG-T
1 CTTATCTCC-TGAGGTAGTAAGGA-AGCAGA-CTGAAAATTGTAGAT
* *
15336017 CTTATCTTCCTGATGTAGTAAGGAAGCAGACTGAAGATTGTAGAT
1 CTTATC-TCCTGAGGTAGTAAGGAAGCAGACTGAAAATTGTAGAT
*
15336062 CTTCTCTCC
1 CTTATCTCC
15336071 CTAAGCAGTA
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
44 35 0.74
45 12 0.26
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (44 bp):
CTTATCTCCTGAGGTAGTAAGGAAGCAGACTGAAAATTGTAGAT
Found at i:15336112 original size:177 final size:176
Alignment explanation
Indices: 15335704--15336263 Score: 581
Period size: 177 Copynumber: 3.2 Consensus size: 176
15335694 TAAAGATTAC
* * * * *
15335704 AGATCTTATCTCCCTAGGCAGTAGTGGAGCAGATTGAAGACGGCAAATCTTATCTCCCTGAGGTA
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATAGAAAACGGCAAATCTTATCTTCCTGAGGTA
** * * * * *
15335769 ATA-AGGGAGCAGATTTAAGCCACTAGTCTTGTCTTCCTGA-GCAGCAAG-GCAGCAGGCTGAAG
66 GCAGA-GGAGCAGATTTTAGCCACTAGCCTTATC-TCCTGAGGTAGTAAGAG-AGCAGGCTGAAG
* * * * *
15335831 ATTGTAGTCTTGTCTTTCTGAGGTAGCAAGGGAGTAGACTGAAGATTGT
128 ATTGTAGTCTTATCTTCCTGATGTAGCAAGGAAGCAGACTGAAGATTGT
* * * * * * * * * *
15335880 AGATCTTGTCT-CCTCGAGATAGCAGTGGGGTAAATAAAAAATGGCGACTCTTATCTTCCTGAGG
1 AGATCTTATCTCCCT-AAG-CAGTAGTGGAGTAGATAGAAAACGGCAAATCTTATCTTCCTGAGG
* * *
15335944 TAGCAGACGAGCAGATTTTAGCCACTAGCCTTATCTCCTTGAGGTAGTAAGAGAGCAAGCTGAAA
64 TAGCAGAGGAGCAGATTTTAGCCACTAGCCTTATCTCC-TGAGGTAGTAAGAGAGCAGGCTGAAG
*
15336009 ATTGTAGTCTTATCTTCCTGATGTAGTAAGGAAGCAGACTGAAGATTGT
128 ATTGTAGTCTTATCTTCCTGATGTAGCAAGGAAGCAGACTGAAGATTGT
* * * ** *
15336058 AGATCTTCTCTCCCTAAGCAGTAGTGCAGTAGATCGAAAACGGCAAGGCTTATCTTCCCGAGGTA
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATAGAAAACGGCAAATCTTATCTTCCTGAGGTA
* * * * *
15336123 GCAGGGGAGCAGATTTTAGCCACCAGCTTTATCTCCCTGAGGTAGTAA-AGGAGTAGGCCGAAGA
66 GCAGAGGAGCAGATTTTAGCCACTAGCCTTATCT-CCTGAGGTAGTAAGA-GAGCAGGCTGAAGA
*
15336187 TTGTAGTCTTATCTTCCTGATGTAGCAAGGAAACAGACTGAAGATTGT
129 TTGTAGTCTTATCTTCCTGATGTAGCAAGGAAGCAGACTGAAGATTGT
* * * *
15336235 AAATCTTATTTCCCTGAGATAGTAGTGGA
1 AGATCTTATCTCCCTAAG-CAGTAGTGGA
15336264 ACAGATCGAA
Statistics
Matches: 313, Mismatches: 61, Indels: 18
0.80 0.16 0.05
Matches are distributed among these distances:
175 3 0.01
176 15 0.05
177 209 0.67
178 82 0.26
179 4 0.01
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (176 bp):
AGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATAGAAAACGGCAAATCTTATCTTCCTGAGGTA
GCAGAGGAGCAGATTTTAGCCACTAGCCTTATCTCCTGAGGTAGTAAGAGAGCAGGCTGAAGATT
GTAGTCTTATCTTCCTGATGTAGCAAGGAAGCAGACTGAAGATTGT
Found at i:15336307 original size:45 final size:44
Alignment explanation
Indices: 15336226--15336497 Score: 207
Period size: 45 Copynumber: 6.1 Consensus size: 44
15336216 GAAACAGACT
* * * * *
15336226 GAAGATTGTAAATCTTATTTCCCTG-AGATAGTAGTGGAACAGATC
1 GAAGA-TGTGAATCTTATCTCCCTGAAG-TTGCAGTGGAGCAGATC
* *
15336271 GAAGATGGTGAATCTCATCTCCCTGAAGTTGCAGTGGAGTAGATC
1 GAAGAT-GTGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATC
* * *
15336316 GAAGCCAT-T-AATCTTATCTCCCTGAAATTGCAGTGGAGCAGGTT
1 GAAG--ATGTGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATC
* *
15336360 GAAG-T-TACAAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGA-C
1 GAAGATGT-GAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATC
* * * *
15336403 TAAAAATAGCGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-C
1 -GAAGAT-GTGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATC
* * * * *
15336448 TGAAGATAGCGAATCTTATTTTCCTGAAGTTGCAGTGGAACAGATT
1 -GAAGAT-GTGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATC
15336494 GAAG
1 GAAG
15336498 CTATAAATTA
Statistics
Matches: 186, Mismatches: 29, Indels: 24
0.78 0.12 0.10
Matches are distributed among these distances:
41 2 0.01
43 2 0.01
44 65 0.35
45 112 0.60
46 3 0.02
47 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (44 bp):
GAAGATGTGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATC
Found at i:15336341 original size:44 final size:43
Alignment explanation
Indices: 15336281--15336668 Score: 194
Period size: 45 Copynumber: 8.7 Consensus size: 43
15336271 GAAGATGGTG
* * *
15336281 AATCTCATCTCCCTGAAGTTGCAGTGGAGTAGATCGAAGCCATT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCCA-C
* * * **
15336325 AATCTTATCTCCCTGAAATTGCAGTGGAGCAGGTTGAAGTTAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCCAC
* * ***
15336368 AAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGA-CTAAAAATAGC
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATC-GAAGCCA-C
* **
15336413 GAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CTGAAGATAGC
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATC-GAAGCCA-C
* * * * *
15336458 GAATCTTATTTTCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTAC
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGC-------CAC
* *
15336509 AGATCTTATCTCGCTGAAGTTGCAGTAGAGCAGATC-ATAG-CA-
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGA-AGCCAC
* * * * * ** ***
15336551 AACCTTATCTCCTTGAAATTGCAGTGAAGCAGGTTAAAATTAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCCAC
* * * *
15336594 AAGTCTTATCTCCCTGAAGTTGCAGCGGGGCAG-GCTGAAGACAGC
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATC-GAAGCCA-C
* *
15336639 TAATCCTATCTCCCTGAAGCTGCAGTGGAG
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAG
15336669 TGGATTTAAA
Statistics
Matches: 265, Mismatches: 58, Indels: 41
0.73 0.16 0.11
Matches are distributed among these distances:
41 27 0.10
42 3 0.01
43 5 0.02
44 94 0.35
45 98 0.37
46 3 0.01
50 2 0.01
51 31 0.12
52 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.27
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCCAC
Found at i:15336351 original size:89 final size:85
Alignment explanation
Indices: 15336236--15336491 Score: 212
Period size: 89 Copynumber: 2.9 Consensus size: 85
15336226 GAAGATTGTA
* * * * * *
15336236 AATCTTATTTCCCTGAGATAGTAGTGGAACAGATCGAAGATGGTGAATCTCATCTCCCTGAAGTT
1 AATCTTATCTCCCTGAAATTGCAGTGGAGCAGATCGAAGAT-GTGAATCTTATCTCCCTGAAGTT
* * *
15336301 GCAGTGGAGTAGATCGAAGCCATT
65 GCAGTGGAGCAGA-CGAA--AAAT
* * * *
15336325 AATCTTATCTCCCTGAAATTGCAGTGGAGCAGGTTGAAG-T-TACAAGTCTTATCTCCTTGAAGT
1 AATCTTATCTCCCTGAAATTGCAGTGGAGCAGATCGAAGATGT-GAA-TCTTATCTCCCTGAAGT
*
15336388 TGCAGTGGAGCAGACTAAAAAT
64 TGCAGTGGAGCAGACGAAAAAT
* * * *
15336410 AGCGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CTGAAGATAGCGAATCTTATTTTCCTG
1 A---A-TCTTATCTCCCTGAAATTGCAGTGGAGCAGATC-GAAGAT-GTGAATCTTATCTCCCTG
*
15336474 AAGTTGCAGTGGAACAGA
60 AAGTTGCAGTGGAGCAGA
15336492 TTGAAGCTAT
Statistics
Matches: 134, Mismatches: 23, Indels: 19
0.76 0.13 0.11
Matches are distributed among these distances:
85 3 0.02
86 1 0.01
87 5 0.04
88 30 0.22
89 65 0.49
90 28 0.21
91 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (85 bp):
AATCTTATCTCCCTGAAATTGCAGTGGAGCAGATCGAAGATGTGAATCTTATCTCCCTGAAGTTG
CAGTGGAGCAGACGAAAAAT
Found at i:15338334 original size:3 final size:3
Alignment explanation
Indices: 15338319--15338722 Score: 108
Period size: 3 Copynumber: 131.0 Consensus size: 3
15338309 TTTCAAATTA
* *
15338319 ATT ATT TTT ATT ATT ATCT -TT ATT ATT ATT A-T ATTT ACT ATT ATT
1 ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT A-TT ATT ATT ATT
* * *
15338364 ATT ATT ATT ATT ATT ATT AACGT ATT ATT ACT ACT ACTT -TCT ATCT
1 ATT ATT ATT ATT ATT ATT -A-TT ATT ATT ATT ATT A-TT AT-T AT-T
* * * * *
15338410 ATT ATT ATT A-T CTT ATT -TAA AAT ATT AAT ATT ATT -TT -TT CCATA
1 ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT --ATT
* * *
15338454 ATT ATT A-T ATT ATT ATT ATT CTT ATT AAT ACGTT ATT ATT ATCT TTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A--TT ATT ATT AT-T ATT
* * * * * * *
15338501 CTAT CTT ATT ACT ATT ACTGT ATT GTT ACT AAT ATT ATT ATC A-T ATT
1 AT-T ATT ATT ATT ATT A-T-T ATT ATT ATT ATT ATT ATT ATT ATT ATT
** * * *
15338548 ATT AGG CTA ATT AATT -TT A-T ATT ATT ACTT CATT A-T ATGT -TT CCTT
1 ATT ATT ATT ATT -ATT ATT ATT ATT ATT A-TT -ATT ATT AT-T ATT -ATT
* * * *
15338594 -TT GCATTT ACTT A-T ATT TTT ACTT A-C ATC ATC ATT ATT ATT AATT
1 ATT --A-TT A-TT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT -ATT
* *
15338639 -TGT ATT ATC ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT CTT
1 AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
15338684 ATT AATGT ATT GTT ATT TTT ATT -TT ATT -TT ATT ATT ATT
1 ATT -AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
15338723 GTTTCATCCT
Statistics
Matches: 301, Mismatches: 54, Indels: 92
0.67 0.12 0.21
Matches are distributed among these distances:
2 30 0.10
3 218 0.72
4 43 0.14
5 8 0.03
6 2 0.01
ACGTcount: A:0.30, C:0.08, G:0.03, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:15338480 original size:23 final size:23
Alignment explanation
Indices: 15338319--15338551 Score: 61
Period size: 23 Copynumber: 9.8 Consensus size: 23
15338309 TTTCAAATTA
* * *
15338319 ATTATTTTTATTATTATCTTTATT
1 ATTATTATTCTTATTAT-TATATT
*
15338343 ATTATTATAT-TTACTATTATTATT
1 ATTATTAT-TCTTATTATTA-TATT
* ***
15338367 ATTATTATTATTATTAACGTATT
1 ATTATTATTCTTATTATTATATT
* *
15338390 ATTACTACTACTT-TCTATCTATTATT
1 ATTATTA-TTCTTAT-TAT-TA-TATT
* *
15338416 ATTATCTTATT-TAAAATATTAATATT
1 ATTA--TTATTCT-TATTATT-ATATT
*
15338442 ATT-TT-TTCCATAATTATTATATT
1 ATTATTATT-C-TTATTATTATATT
* **
15338465 ATTATTATTCTTATTAATACGTT
1 ATTATTATTCTTATTATTATATT
* *
15338488 ATTATTA-TCTT-TT-CTATCTT
1 ATTATTATTCTTATTATTATATT
* * *
15338508 ATTACTATTACTGTATTGTTACTAAT
1 ATTATTATT-CT-TATTATTA-TATT
*
15338534 ATTATTA-TCATATTATTA
1 ATTATTATTCTTATTATTA
15338552 GGCTAATTAA
Statistics
Matches: 154, Mismatches: 32, Indels: 47
0.66 0.14 0.20
Matches are distributed among these distances:
20 10 0.06
21 3 0.02
22 8 0.05
23 47 0.31
24 47 0.31
25 7 0.05
26 25 0.16
27 5 0.03
28 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.02, T:0.58
Consensus pattern (23 bp):
ATTATTATTCTTATTATTATATT
Found at i:15338517 original size:52 final size:51
Alignment explanation
Indices: 15338357--15338517 Score: 124
Period size: 52 Copynumber: 3.2 Consensus size: 51
15338347 TTATATTTAC
* * *
15338357 TATTATTATTATTATTATTATTATT-AACG-TATTATTA-C--TACTA-CT
1 TATTACTATTATTATTATTCTTATTAAACGTTATTATTATCTTTTCTATCT
** * * * *
15338402 T-TCTATCTATTATTATTA-TCTTATTTAAAATATTAATATTATTTTTTCCATAAT
1 TAT-TA-CTATTATTATTATTCTTA-TT-AAACGTTATTATTATCTTTTCTAT-CT
15338456 TATTA-TATTATTATTATTCTTATTAATACGTTATTATTATCTTTTCTATCT
1 TATTACTATTATTATTATTCTTATTAA-ACGTTATTATTATCTTTTCTATCT
15338507 TATTACTATTA
1 TATTACTATTA
15338518 CTGTATTGTT
Statistics
Matches: 86, Mismatches: 15, Indels: 23
0.69 0.12 0.19
Matches are distributed among these distances:
44 1 0.01
45 7 0.08
46 13 0.15
48 2 0.02
49 7 0.08
51 8 0.09
52 38 0.44
53 5 0.06
54 4 0.05
55 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.01, T:0.58
Consensus pattern (51 bp):
TATTACTATTATTATTATTCTTATTAAACGTTATTATTATCTTTTCTATCT
Found at i:15340182 original size:23 final size:23
Alignment explanation
Indices: 15340156--15340205 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
15340146 TTTCAAAAAT
*
15340156 GAGTAATCCCACACCGTTTAAAC
1 GAGTAATCCCACACCATTTAAAC
*
15340179 GAGTAATCCCACACCATTTAAAT
1 GAGTAATCCCACACCATTTAAAC
15340202 GAGT
1 GAGT
15340206 CAGGAACTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.36, C:0.26, G:0.14, T:0.24
Consensus pattern (23 bp):
GAGTAATCCCACACCATTTAAAC
Done.