Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 205 of 250
Found at i:63845910 original size:16 final size:17
Alignment explanation
Indices: 63845886--63845919 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
63845876 GTATTGATAT
*
63845886 TTGAGTTGAATGG-GAA
1 TTGAATTGAATGGTGAA
63845902 TTGAATTGAATGGTGAA
1 TTGAATTGAATGGTGAA
63845919 T
1 T
63845920 GTGTATGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.35
Consensus pattern (17 bp):
TTGAATTGAATGGTGAA
Found at i:63846195 original size:19 final size:19
Alignment explanation
Indices: 63846171--63846211 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
63846161 TATATTGATC
63846171 AGGTACTATGTACCGTTTT
1 AGGTACTATGTACCGTTTT
63846190 AGGTACTATGTACCGTTTT
1 AGGTACTATGTACCGTTTT
63846209 AGG
1 AGG
63846212 CACAATGTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.22, C:0.15, G:0.24, T:0.39
Consensus pattern (19 bp):
AGGTACTATGTACCGTTTT
Found at i:63846219 original size:19 final size:19
Alignment explanation
Indices: 63846178--63846224 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
63846168 ATCAGGTACT
* *
63846178 ATGTACCGTTTTAGGTACT
1 ATGTACCGTTTTAGGCACA
63846197 ATGTACCGTTTTAGGCACA
1 ATGTACCGTTTTAGGCACA
*
63846216 ATGTGCCGT
1 ATGTACCGT
63846225 ATTGGTGTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.36
Consensus pattern (19 bp):
ATGTACCGTTTTAGGCACA
Found at i:63857954 original size:17 final size:17
Alignment explanation
Indices: 63857932--63857965 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
63857922 ATCCACTAAT
*
63857932 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
63857949 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
63857966 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:63862583 original size:17 final size:17
Alignment explanation
Indices: 63862561--63862594 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
63862551 ATCCACTAAT
*
63862561 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
63862578 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
63862595 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:63863125 original size:25 final size:26
Alignment explanation
Indices: 63863097--63863145 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
63863087 TCTCTTTTCT
*
63863097 TTTTA-TATATTAATTAAAAATTTAA
1 TTTTATTATAGTAATTAAAAATTTAA
* *
63863122 TTTTATTATAGTATTTATAAATTT
1 TTTTATTATAGTAATTAAAAATTT
63863146 TTACGAACAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 5 0.25
26 15 0.75
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (26 bp):
TTTTATTATAGTAATTAAAAATTTAA
Found at i:63864912 original size:91 final size:91
Alignment explanation
Indices: 63864747--63864916 Score: 277
Period size: 91 Copynumber: 1.9 Consensus size: 91
63864737 TAACTTGTTA
* *
63864747 AGTTTTGAAGGATGCTAATGTTATGAAAGTATAAAAGCCAATATCAATTCATTTGAAACAATTTG
1 AGTTTTGAAGGATGCTAATATTATGAAAGTATAAAAGCCAATATCAATTCATTTGAAACAATTTA
*
63864812 TCTTGAAGATTAGAACAAAATCTTTG
66 TCTTAAAGATTAGAACAAAATCTTTG
* * * *
63864838 AGTTTTGAAGGATGCTAATATTGTGCAAGTATAAAAGTCAATATCAATTCATTTTAAACAATTTA
1 AGTTTTGAAGGATGCTAATATTATGAAAGTATAAAAGCCAATATCAATTCATTTGAAACAATTTA
63864903 TCTTAAAGATTAGA
66 TCTTAAAGATTAGA
63864917 TTAGATCGAC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
91 72 1.00
ACGTcount: A:0.40, C:0.09, G:0.15, T:0.35
Consensus pattern (91 bp):
AGTTTTGAAGGATGCTAATATTATGAAAGTATAAAAGCCAATATCAATTCATTTGAAACAATTTA
TCTTAAAGATTAGAACAAAATCTTTG
Found at i:63871760 original size:21 final size:22
Alignment explanation
Indices: 63871736--63871781 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
63871726 TTATTTGGTC
63871736 TTTTAATTTTATAAT-TTGAAT
1 TTTTAATTTTATAATCTTGAAT
* *
63871757 TTTTTATTTTTTAATCCTTGAAT
1 TTTTAATTTTATAAT-CTTGAAT
63871780 TT
1 TT
63871782 GTGTTATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 13 0.62
23 8 0.38
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.65
Consensus pattern (22 bp):
TTTTAATTTTATAATCTTGAAT
Found at i:63880524 original size:30 final size:30
Alignment explanation
Indices: 63880490--63880548 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
63880480 TCCTTGACTC
*
63880490 AAACTTTTACAAAATTATATTTTTGCCCCT
1 AAACTTTTACAAAATTATACTTTTGCCCCT
* *
63880520 AAACTTTTACATATTTATACTTTTGCCCC
1 AAACTTTTACAAAATTATACTTTTGCCCC
63880549 AAGGCTCGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.22, G:0.03, T:0.44
Consensus pattern (30 bp):
AAACTTTTACAAAATTATACTTTTGCCCCT
Found at i:63881816 original size:14 final size:14
Alignment explanation
Indices: 63881797--63881827 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
63881787 TACAAAAAGG
63881797 ATATCTAATCTAGA
1 ATATCTAATCTAGA
63881811 ATATCTAATCTAGA
1 ATATCTAATCTAGA
63881825 ATA
1 ATA
63881828 ATAATATTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.45, C:0.13, G:0.06, T:0.35
Consensus pattern (14 bp):
ATATCTAATCTAGA
Found at i:63888123 original size:39 final size:40
Alignment explanation
Indices: 63888069--63888153 Score: 118
Period size: 40 Copynumber: 2.1 Consensus size: 40
63888059 AAATGAATTG
* * * *
63888069 TGCTGAGATTGTATCCGGG-TTAGAGACCCGCTGGCTTCA
1 TGCTGGGATTGTATCCGGGTTTAAAGACCCGCAGGCTTAA
*
63888108 TGCTGGGATTGTATCCGGGTTTAAAGTCCCGCAGGCTTAA
1 TGCTGGGATTGTATCCGGGTTTAAAGACCCGCAGGCTTAA
63888148 TGCTGG
1 TGCTGG
63888154 TGAATTAAGT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 18 0.45
40 22 0.55
ACGTcount: A:0.18, C:0.21, G:0.32, T:0.29
Consensus pattern (40 bp):
TGCTGGGATTGTATCCGGGTTTAAAGACCCGCAGGCTTAA
Found at i:63890114 original size:43 final size:45
Alignment explanation
Indices: 63890048--63890174 Score: 156
Period size: 45 Copynumber: 2.9 Consensus size: 45
63890038 TTTTCTCAAA
* * *
63890048 TCACCGGCATT-TCGCCTGCTAGGCTCG-AGGCCC-AAT-GTCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAAGCCCGAATAGT-ATC
*
63890090 TCACCGGCATTATAGCCTGCTAGGCTTGAAAGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAAGCCCGAATAGTATC
*
63890135 TCACCGACATTATAGCCTGCTAGGCTC-AAAGGCCCGAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAA-GCCCGAATA
63890175 ATATTTCCCC
Statistics
Matches: 74, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
42 11 0.15
43 14 0.19
44 8 0.11
45 39 0.53
46 2 0.03
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAAGCCCGAATAGTATC
Found at i:63890403 original size:43 final size:43
Alignment explanation
Indices: 63890342--63890537 Score: 304
Period size: 43 Copynumber: 4.6 Consensus size: 43
63890332 CAACAAACTT
* * * *
63890342 GCACACTTAGTGCTAATTAATTAACCGAAGTTATAATGGTTTC
1 GCACACTTAGTGCCAATTAATTAACCGAAGCTATAATTGTATC
63890385 GCACACTTAGTGCCAATTAATTAACCGAAGCTATAATTGTATC
1 GCACACTTAGTGCCAATTAATTAACCGAAGCTATAATTGTATC
*
63890428 GCACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGTATC
1 GCACACTTAGTGCCAATTAATTAACCGAAGCTATAATTGTATC
* * *
63890471 GCACACTTAGTGCCAATTAATTAGCCAAAGCTATAATTATATC
1 GCACACTTAGTGCCAATTAATTAACCGAAGCTATAATTGTATC
63890514 GCACACTTAGTGCC-ATTACATTAA
1 GCACACTTAGTGCCAATTA-ATTAA
63890538 ACTGAACTTA
Statistics
Matches: 144, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
42 4 0.03
43 140 0.97
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.31
Consensus pattern (43 bp):
GCACACTTAGTGCCAATTAATTAACCGAAGCTATAATTGTATC
Found at i:63892409 original size:20 final size:18
Alignment explanation
Indices: 63892375--63892411 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
63892365 GCAACTCATA
63892375 ATTTCAACTATTTTACAC
1 ATTTCAACTATTTTACAC
63892393 ATTTACAACTCATTTTACA
1 ATTT-CAACT-ATTTTACA
63892412 ACTTAGTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTTCAACTATTTTACAC
Found at i:63894344 original size:5 final size:5
Alignment explanation
Indices: 63894324--63894392 Score: 52
Period size: 5 Copynumber: 13.8 Consensus size: 5
63894314 GTTTATGTTC
* * * *
63894324 TTTAT CTTTGT TTTAT TTTA- TTTCT TTTAT TTTAT GTTAT GTTT-T ATTAT
1 TTTAT -TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT -TTTAT TTTAT
* *
63894374 ATTAT TATAT TTTAT TTTA
1 TTTAT TTTAT TTTAT TTTA
63894393 GTAATAATTA
Statistics
Matches: 50, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
4 5 0.10
5 39 0.78
6 6 0.12
ACGTcount: A:0.20, C:0.03, G:0.04, T:0.72
Consensus pattern (5 bp):
TTTAT
Found at i:63894385 original size:30 final size:30
Alignment explanation
Indices: 63894324--63894388 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
63894314 GTTTATGTTC
* * *
63894324 TTTATCTTTGTTTTATTTTATTTCTTTTAT
1 TTTATCTTTGTTTTATTATATTTATTATAT
*
63894354 TTTATGTTATGTTTTATTATA-TTATTATAT
1 TTTATCTT-TGTTTTATTATATTTATTATAT
63894384 TTTAT
1 TTTAT
63894389 TTTAGTAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 19 0.63
31 11 0.37
ACGTcount: A:0.20, C:0.03, G:0.05, T:0.72
Consensus pattern (30 bp):
TTTATCTTTGTTTTATTATATTTATTATAT
Found at i:63904377 original size:21 final size:21
Alignment explanation
Indices: 63904351--63904395 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
63904341 GGAATAGGGT
63904351 TACGAGGTATTACCAGACTTA
1 TACGAGGTATTACCAGACTTA
* *
63904372 TACGAGGTATTATCGGACTTA
1 TACGAGGTATTACCAGACTTA
63904393 TAC
1 TAC
63904396 ACTAACATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (21 bp):
TACGAGGTATTACCAGACTTA
Found at i:63906600 original size:20 final size:18
Alignment explanation
Indices: 63906563--63906607 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
63906553 AAAGCGCTAA
63906563 TTTTCCCTTTTCTCTTTC
1 TTTTCCCTTTTCTCTTTC
*
63906581 TTTTCCTTTTTCCTTCTTTC
1 TTTTCCCTTTT-C-TCTTTC
63906601 -TTTCCCT
1 TTTTCCCT
63906608 CAATTTTCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 10 0.43
19 7 0.30
20 6 0.26
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTCCCTTTTCTCTTTC
Found at i:63910347 original size:39 final size:39
Alignment explanation
Indices: 63910275--63910497 Score: 324
Period size: 39 Copynumber: 5.7 Consensus size: 39
63910265 CCACCACAAA
* * *
63910275 GCCTGCGGGACTTTAAGCCCGGATATAATACCAGCAC-AAA
1 GCCTTCGGGAC-TT-AGCCCGGATATAACACCAGCACGAAT
*
63910315 GCCTGCGGGACTTTAGCCCGGATATAACACCAGCACGAAT
1 GCCTTCGGGAC-TTAGCCCGGATATAACACCAGCACGAAT
*
63910355 GCCTTCGGGACTTAGCCCGGATATAACACCAGTACGAAT
1 GCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAAT
63910394 GCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAAT
1 GCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAAT
* *
63910433 GCTTTCGGGACTTAGCCCAGATATAACACCAGCACGAAT
1 GCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAAT
*
63910472 GCCATT-GGGACTTAGCCCGAATATAA
1 GCC-TTCGGGACTTAGCCCGGATATAA
63910498 TTCTCCATTA
Statistics
Matches: 171, Mismatches: 10, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 143 0.84
40 28 0.16
ACGTcount: A:0.30, C:0.28, G:0.23, T:0.19
Consensus pattern (39 bp):
GCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAAT
Found at i:63912537 original size:26 final size:26
Alignment explanation
Indices: 63912508--63912561 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
63912498 TGGGCTGGAA
63912508 GTAAGTGTTGTTGATATGGTATGCTT
1 GTAAGTGTTGTTGATATGGTATGCTT
63912534 GTAAGTGTTGTTGATATGGTATGCTT
1 GTAAGTGTTGTTGATATGGTATGCTT
63912560 GT
1 GT
63912562 TTTGGTTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.19, C:0.04, G:0.31, T:0.46
Consensus pattern (26 bp):
GTAAGTGTTGTTGATATGGTATGCTT
Found at i:63930201 original size:18 final size:20
Alignment explanation
Indices: 63930168--63930204 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
63930158 TATTATGAGC
63930168 TTTTTATAATTTTTTAAATA
1 TTTTTATAATTTTTTAAATA
63930188 TTTTTAT-A-TTTTTAAAT
1 TTTTTATAATTTTTTAAAT
63930205 TACTTATGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 1 0.06
20 7 0.41
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTTATAATTTTTTAAATA
Found at i:63930692 original size:21 final size:22
Alignment explanation
Indices: 63930658--63930702 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
63930648 ATTTTCCAAT
*
63930658 AAAAATTATCAAAAAGATTAAA
1 AAAAATCATCAAAAAGATTAAA
**
63930680 AAAAATCAT-AAAACTATTAAA
1 AAAAATCATCAAAAAGATTAAA
63930701 AA
1 AA
63930703 CTTATAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.69, C:0.07, G:0.02, T:0.22
Consensus pattern (22 bp):
AAAAATCATCAAAAAGATTAAA
Found at i:63930918 original size:22 final size:22
Alignment explanation
Indices: 63930871--63930918 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
63930861 CAATGACTTT
*
63930871 TTATAATTTTTTAAAAAATAAT
1 TTATAATTTTTTAAAAAATAAC
* * *
63930893 TTATATTTTTTTATAACATAAC
1 TTATAATTTTTTAAAAAATAAC
63930915 TTAT
1 TTAT
63930919 GAAATATAAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (22 bp):
TTATAATTTTTTAAAAAATAAC
Found at i:63936336 original size:3 final size:3
Alignment explanation
Indices: 63936328--63936359 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
63936318 GCTCTCTCTT
63936328 TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TC
1 TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TC
63936360 TCAACTGCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.66, G:0.00, T:0.34
Consensus pattern (3 bp):
TCC
Found at i:63950636 original size:18 final size:17
Alignment explanation
Indices: 63950613--63950657 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
63950603 TAAAAAGTAG
63950613 TATATAATATTTTAAAT
1 TATATAATATTTTAAAT
* * *
63950630 ATATATAAAAGTTTACAT
1 -TATATAATATTTTAAAT
63950648 TATATAATAT
1 TATATAATAT
63950658 AAATAAAAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (17 bp):
TATATAATATTTTAAAT
Found at i:63950687 original size:8 final size:8
Alignment explanation
Indices: 63950676--63950726 Score: 50
Period size: 8 Copynumber: 5.9 Consensus size: 8
63950666 ATTTAAATTT
63950676 TTTATAAA
1 TTTATAAA
63950684 TTTATAAAA
1 TTTAT-AAA
63950693 CTTTATAAA
1 -TTTATAAA
63950702 TAATTA-AAA
1 T--TTATAAA
63950711 TTTTATAAA
1 -TTTATAAA
63950720 TTTATAA
1 TTTATAA
63950727 TATATATATA
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
8 16 0.43
9 12 0.32
10 9 0.24
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (8 bp):
TTTATAAA
Found at i:63950699 original size:18 final size:18
Alignment explanation
Indices: 63950676--63950726 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
63950666 ATTTAAATTT
63950676 TTTATAAATTTATAAAAC
1 TTTATAAATTTATAAAAC
* *
63950694 TTTATAAA-TAATTAAAAT
1 TTTATAAATTTA-TAAAAC
63950712 TTTATAAATTTATAA
1 TTTATAAATTTATAA
63950727 TATATATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
17 2 0.07
18 24 0.86
19 2 0.07
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTATAAATTTATAAAAC
Found at i:63953219 original size:10 final size:10
Alignment explanation
Indices: 63953206--63953239 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
63953196 ATTAAATTGT
*
63953206 TAAAAATTTA
1 TAAAATTTTA
63953216 TAAAATTTTA
1 TAAAATTTTA
*
63953226 TAACATTTTA
1 TAAAATTTTA
63953236 TAAA
1 TAAA
63953240 TATTATTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (10 bp):
TAAAATTTTA
Found at i:63957558 original size:20 final size:20
Alignment explanation
Indices: 63957533--63957573 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
63957523 AATACAAAAT
63957533 TGGGAGAAATGTCAAAAAGC
1 TGGGAGAAATGTCAAAAAGC
63957553 TGGGAGAAATGTCAAAAAGC
1 TGGGAGAAATGTCAAAAAGC
63957573 T
1 T
63957574 AACGAATGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.10, G:0.29, T:0.17
Consensus pattern (20 bp):
TGGGAGAAATGTCAAAAAGC
Found at i:63979769 original size:19 final size:19
Alignment explanation
Indices: 63979732--63979768 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
63979722 TTGAAGTAAT
*
63979732 TATATATTATTTTCTAAAA
1 TATATATTATTATCTAAAA
63979751 TATATATT-TTATCTAAAA
1 TATATATTATTATCTAAAA
63979769 AAATTTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.51
Consensus pattern (19 bp):
TATATATTATTATCTAAAA
Found at i:63989297 original size:46 final size:46
Alignment explanation
Indices: 63988983--63989287 Score: 450
Period size: 46 Copynumber: 6.6 Consensus size: 46
63988973 GCTTTCTGAA
* *
63988983 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
**
63989029 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
63989075 ATGAAATGTGTAAGACCATGGTTAAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
63989121 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** * *
63989167 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATGTAAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*** *
63989213 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
63989259 A-GAAAATGAGTAAGACCATAGTTGAAAGA
1 ATG-AAATGTGTAAGACCATGGTTGAAAGA
63989288 CATTATGGCA
Statistics
Matches: 234, Mismatches: 24, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 1 0.00
46 233 1.00
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:63990697 original size:13 final size:13
Alignment explanation
Indices: 63990679--63990731 Score: 52
Period size: 13 Copynumber: 4.1 Consensus size: 13
63990669 ATTTCATTTG
*
63990679 TTTTATTTTTTTA
1 TTTTATTTTATTA
*
63990692 TTTTATGTTATTA
1 TTTTATTTTATTA
* *
63990705 TATTATTATATTA
1 TTTTATTTTATTA
* *
63990718 TTATATTATATTA
1 TTTTATTTTATTA
63990731 T
1 T
63990732 AATAATTACT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (13 bp):
TTTTATTTTATTA
Found at i:63990705 original size:8 final size:8
Alignment explanation
Indices: 63990690--63990726 Score: 58
Period size: 8 Copynumber: 4.8 Consensus size: 8
63990680 TTTATTTTTT
63990690 TATT-TTA
1 TATTATTA
*
63990697 TGTTATTA
1 TATTATTA
63990705 TATTATTA
1 TATTATTA
63990713 TATTATTA
1 TATTATTA
63990721 TATTAT
1 TATTAT
63990727 ATTATAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
7 3 0.11
8 24 0.89
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (8 bp):
TATTATTA
Found at i:63990823 original size:17 final size:17
Alignment explanation
Indices: 63990783--63990832 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 17
63990773 ATATATGTAT
*
63990783 ATTATTTATACACATCGAA
1 ATTATTTTTAC-CA-CGAA
*
63990802 GTTATTTTTACCACGAA
1 ATTATTTTTACCACGAA
63990819 ATTATTTTTACCAC
1 ATTATTTTTACCAC
63990833 ATGTCAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 17 0.61
18 2 0.07
19 9 0.32
ACGTcount: A:0.34, C:0.18, G:0.06, T:0.42
Consensus pattern (17 bp):
ATTATTTTTACCACGAA
Found at i:63992454 original size:14 final size:13
Alignment explanation
Indices: 63992430--63992464 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
63992420 AATTACGAGA
*
63992430 AATTGTGAAAAAGG
1 AATT-TGAAAAAAG
63992444 AATTTGAAAAAAG
1 AATTTGAAAAAAG
63992457 AATTTGAA
1 AATTTGAA
63992465 TTACTTACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.54, C:0.00, G:0.20, T:0.26
Consensus pattern (13 bp):
AATTTGAAAAAAG
Found at i:64001098 original size:77 final size:78
Alignment explanation
Indices: 64001013--64001165 Score: 247
Period size: 77 Copynumber: 2.0 Consensus size: 78
64001003 TTCAGACTAA
* *
64001013 AATTATAATGAATAATACTTTTAAGTATTAATGTGAATAAATTAATATAAC-TGAAAGGG-AAAT
1 AATTATAATGAATAATACTTCTAAGTATTAAAGTGAATAAATTAATAT-ACTTGAAAGGGAAAAT
*
64001076 CATGAATTAAACTT
65 CATAAATTAAACTT
*
64001090 AATTATAATGAATAATACTTCTAAGTCTTAAAGTGAATAAATTAATATACTTGAAAGGGAAAATC
1 AATTATAATGAATAATACTTCTAAGTATTAAAGTGAATAAATTAATATACTTGAAAGGGAAAATC
64001155 ATAAATTAAAC
66 ATAAATTAAAC
64001166 GTAGCGTAAA
Statistics
Matches: 70, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
76 2 0.03
77 53 0.76
78 15 0.21
ACGTcount: A:0.49, C:0.07, G:0.11, T:0.33
Consensus pattern (78 bp):
AATTATAATGAATAATACTTCTAAGTATTAAAGTGAATAAATTAATATACTTGAAAGGGAAAATC
ATAAATTAAACTT
Found at i:64008109 original size:40 final size:40
Alignment explanation
Indices: 64007996--64008127 Score: 174
Period size: 40 Copynumber: 3.3 Consensus size: 40
64007986 CTCAAGAATA
* ** *
64007996 TAAAGTGGATAGGATTCGTTCCTGATTCACTATAATACCT
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACT
* *
64008036 CAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAATT
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACT
* *
64008076 TAAAGTGAATAGGATTTATTCCTGATTCACTATGGTAACT
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACT
* *
64008116 TAAGGCGGATAG
1 TAAAGTGGATAG
64008128 CTTTTGACCT
Statistics
Matches: 79, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 79 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (40 bp):
TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACT
Found at i:64008192 original size:78 final size:78
Alignment explanation
Indices: 64008098--64008249 Score: 241
Period size: 78 Copynumber: 1.9 Consensus size: 78
64008088 GATTTATTCC
* * *
64008098 TGATTCACTATGGTAACTTAAGGCGGATAGCTTTTGACCTAAAAAGGTAATCCTGATTCGCTACA
1 TGATTCACTATGGTAACCTAAGGCGGATAGCATTTGACCTAAAAAGGTAATCCTGATTCACTACA
64008163 GTTACATGATATA
66 GTTACATGATATA
* * * *
64008176 TGATTCATTATGGTAACCTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCACTACA
1 TGATTCACTATGGTAACCTAAGGCGGATAGCATTTGACCTAAAAAGGTAATCCTGATTCACTACA
64008241 GTTACATGA
66 GTTACATGA
64008250 GATGTGACTC
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
78 67 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (78 bp):
TGATTCACTATGGTAACCTAAGGCGGATAGCATTTGACCTAAAAAGGTAATCCTGATTCACTACA
GTTACATGATATA
Found at i:64015488 original size:46 final size:46
Alignment explanation
Indices: 64015377--64015611 Score: 258
Period size: 46 Copynumber: 5.2 Consensus size: 46
64015367 ATGAAATGTG
* * * **
64015377 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAAGAAATGAA
* **
64015423 TAAG-CCATGGTTGAAAGATACTATGGCAACATGACGGGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAAGAAATGAA
***
64015468 TAAGACCATGGTTGAAAGATACCATGGCAGTTTGACAAGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAAGAAATGAA
* * *
64015514 TAAGACCATGGTTGAAAGATACCATGGCAACATGGCAAAAAATGAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAAGAAATGAA
* * * * * * * *
64015560 TAAGACCATAGTTGAAATACACTATGGCATCATGTCAA-AGATAAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAAGAAATGAA
64015605 TAAGACC
1 TAAGACC
64015612 GTGGATGGGA
Statistics
Matches: 160, Mismatches: 28, Indels: 3
0.84 0.15 0.02
Matches are distributed among these distances:
45 49 0.31
46 111 0.69
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACAAGAAATGAA
Found at i:64015895 original size:16 final size:17
Alignment explanation
Indices: 64015874--64015906 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
64015864 ATGATAGTGC
64015874 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
64015890 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
64015907 TACTTATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:64016380 original size:22 final size:22
Alignment explanation
Indices: 64016352--64016405 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
64016342 TTCAGTAAAC
*
64016352 TCCGGTAATTCCTCGTACCTAT
1 TCCGGTAATGCCTCGTACCTAT
64016374 TCCGGTAATGCCTCGTACCTAT
1 TCCGGTAATGCCTCGTACCTAT
64016396 TCCGGTAATG
1 TCCGGTAATG
64016406 GATACGGGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.19, C:0.30, G:0.19, T:0.33
Consensus pattern (22 bp):
TCCGGTAATGCCTCGTACCTAT
Found at i:64018283 original size:40 final size:41
Alignment explanation
Indices: 64018194--64018333 Score: 126
Period size: 40 Copynumber: 3.4 Consensus size: 41
64018184 GACTATGTTC
*
64018194 GGCACTAAGTGTGCG-GTTCGAAATAGCTTCGGCTACAAAT
1 GGCACTAAGTGTGCGAGTTCGAAATAGCCTCGGCTACAAAT
* * * *
64018234 GGCATTAAGTGTGCGAGTT-GGAATAGCCTCGGCTATATGA-
1 GGCACTAAGTGTGCGAGTTCGAAATAGCCTCGGCTACA-AAT
* * * * *
64018274 GGCACTAAGTGTGCGA-TACGAGATAGCTTCGGTTTATTAAAAT
1 GGCACTAAGTGTGCGAGTTCGAAATAGCCTCGG-CTA--CAAAT
64018317 GGCACTAAGTGTGCGAG
1 GGCACTAAGTGTGCGAG
64018334 ATTGTTACGG
Statistics
Matches: 79, Mismatches: 13, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
39 1 0.01
40 54 0.68
41 6 0.08
42 1 0.01
43 17 0.22
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.26
Consensus pattern (41 bp):
GGCACTAAGTGTGCGAGTTCGAAATAGCCTCGGCTACAAAT
Found at i:64021113 original size:22 final size:22
Alignment explanation
Indices: 64021088--64021136 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
64021078 GCCTAAATTT
64021088 TAAAATTAAAAAAATAAAAAAA
1 TAAAATTAAAAAAATAAAAAAA
* ** * *
64021110 TAAATTTCTAAAATTAAAAATA
1 TAAAATTAAAAAAATAAAAAAA
64021132 TAAAA
1 TAAAA
64021137 ACTAAATTCA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (22 bp):
TAAAATTAAAAAAATAAAAAAA
Found at i:64021114 original size:29 final size:30
Alignment explanation
Indices: 64021081--64021137 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
64021071 TAGTTAAGCC
64021081 TAAATTT-TAAAATTAAAAAAATAAAAAAA
1 TAAATTTCTAAAATTAAAAAAATAAAAAAA
*
64021110 TAAATTTCTAAAATTAAAAATATAAAAA
1 TAAATTTCTAAAATTAAAAAAATAAAAA
64021138 CTAAATTCAG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 7 0.27
30 19 0.73
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (30 bp):
TAAATTTCTAAAATTAAAAAAATAAAAAAA
Found at i:64021142 original size:29 final size:29
Alignment explanation
Indices: 64021080--64021144 Score: 96
Period size: 29 Copynumber: 2.2 Consensus size: 29
64021070 ATAGTTAAGC
64021080 CTAAATTTTAAAATTAAAAAAATAAAAAA
1 CTAAATTTTAAAATTAAAAAAATAAAAAA
* *
64021109 ATAAATTTCTAAAATTAAAAATAT-AAAAA
1 CTAAATTT-TAAAATTAAAAAAATAAAAAA
64021138 CTAAATT
1 CTAAATT
64021145 CAGGAAAGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
29 18 0.56
30 14 0.44
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.31
Consensus pattern (29 bp):
CTAAATTTTAAAATTAAAAAAATAAAAAA
Found at i:64027248 original size:28 final size:29
Alignment explanation
Indices: 64027182--64027255 Score: 71
Period size: 28 Copynumber: 2.5 Consensus size: 29
64027172 ATCCCTTATC
* * *
64027182 TGAGCACTTTTGAAAAGGTTTGGTCTTATT
1 TGAGCA-TTTTGAAAAGGTTTAGCCTCATT
*
64027212 TG-TCTATTTT-AAAAGGTTTAGCCTCATT
1 TGAGC-ATTTTGAAAAGGTTTAGCCTCATT
64027240 TGAGCATTTTTGAAAA
1 TGAGCA-TTTTGAAAA
64027256 ATGCTTAATC
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
28 18 0.51
29 10 0.29
30 7 0.20
ACGTcount: A:0.27, C:0.11, G:0.19, T:0.43
Consensus pattern (29 bp):
TGAGCATTTTGAAAAGGTTTAGCCTCATT
Found at i:64037410 original size:14 final size:14
Alignment explanation
Indices: 64037391--64037432 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
64037381 ACAAATGTAC
64037391 CAATTTTTTTATTA
1 CAATTTTTTTATTA
*
64037405 CAATTTTCATTATT-
1 CAATTTT-TTTATTA
*
64037419 CAATTTGTTTATTA
1 CAATTTTTTTATTA
64037433 TACAAAAATC
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
13 5 0.22
14 13 0.57
15 5 0.22
ACGTcount: A:0.29, C:0.10, G:0.02, T:0.60
Consensus pattern (14 bp):
CAATTTTTTTATTA
Found at i:64039842 original size:27 final size:25
Alignment explanation
Indices: 64039798--64039859 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
64039788 TTTCAATTTA
64039798 AAAAATAAAAAAATATAATTAATTTTT
1 AAAAATAAAAAAATATAA-T-ATTTTT
*
64039825 AAAAATGAAAATAA-ATAATATTTTT
1 AAAAAT-AAAAAAATATAATATTTTT
*
64039850 ATAAACTAAA
1 A-AAAATAAA
64039860 TTCAACCTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
25 10 0.32
26 5 0.16
27 10 0.32
28 6 0.19
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.34
Consensus pattern (25 bp):
AAAAATAAAAAAATATAATATTTTT
Found at i:64041544 original size:52 final size:52
Alignment explanation
Indices: 64041466--64041571 Score: 212
Period size: 52 Copynumber: 2.0 Consensus size: 52
64041456 TCAAATATAA
64041466 AATACAGTCTAGTTTCAGCATTGCACTATAAATTTGGTTGTCTTGAAAGAAC
1 AATACAGTCTAGTTTCAGCATTGCACTATAAATTTGGTTGTCTTGAAAGAAC
64041518 AATACAGTCTAGTTTCAGCATTGCACTATAAATTTGGTTGTCTTGAAAGAAC
1 AATACAGTCTAGTTTCAGCATTGCACTATAAATTTGGTTGTCTTGAAAGAAC
64041570 AA
1 AA
64041572 CTTTTTTTGT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (52 bp):
AATACAGTCTAGTTTCAGCATTGCACTATAAATTTGGTTGTCTTGAAAGAAC
Found at i:64044326 original size:13 final size:15
Alignment explanation
Indices: 64044308--64044339 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
64044298 CTAAGGTATG
64044308 GCTAGTTT-A-CCTA
1 GCTAGTTTAATCCTA
64044321 GCTAGTTTAATCCTA
1 GCTAGTTTAATCCTA
64044336 GCTA
1 GCTA
64044340 TCTCCAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 1 0.06
15 8 0.47
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (15 bp):
GCTAGTTTAATCCTA
Found at i:64062755 original size:25 final size:24
Alignment explanation
Indices: 64062688--64062757 Score: 76
Period size: 23 Copynumber: 3.0 Consensus size: 24
64062678 GACATTCCAG
*
64062688 CTCCTGTCCAGCAACCAAACACT-
1 CTCCTGTCCAGCAATCAAACACTC
*
64062711 CTCAT-TCCAGC--TCTAAACACTCC
1 CTCCTGTCCAGCAATC-AAACACT-C
64062734 CTCCTGTCCAGCAATCAAACACTC
1 CTCCTGTCCAGCAATCAAACACTC
64062758 TCACTCAGAC
Statistics
Matches: 38, Mismatches: 3, Indels: 11
0.73 0.06 0.21
Matches are distributed among these distances:
20 1 0.03
21 7 0.18
22 6 0.16
23 8 0.21
24 7 0.18
25 7 0.18
26 2 0.05
ACGTcount: A:0.29, C:0.43, G:0.07, T:0.21
Consensus pattern (24 bp):
CTCCTGTCCAGCAATCAAACACTC
Found at i:64063787 original size:15 final size:15
Alignment explanation
Indices: 64063767--64063801 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
64063757 ATGACTAGTA
64063767 AAAGAATTCGAAGTC
1 AAAGAATTCGAAGTC
64063782 AAAGAATTCGAAGTC
1 AAAGAATTCGAAGTC
64063797 AAAGA
1 AAAGA
64063802 GCTAGGTAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.51, C:0.11, G:0.20, T:0.17
Consensus pattern (15 bp):
AAAGAATTCGAAGTC
Found at i:64068601 original size:15 final size:15
Alignment explanation
Indices: 64068581--64068612 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
64068571 CAAAAACGCC
64068581 ATGAATTAGAAAGTA
1 ATGAATTAGAAAGTA
64068596 ATGAATTAGAAAGTA
1 ATGAATTAGAAAGTA
64068611 AT
1 AT
64068613 CATAAACATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.19, T:0.28
Consensus pattern (15 bp):
ATGAATTAGAAAGTA
Found at i:64068945 original size:43 final size:42
Alignment explanation
Indices: 64068895--64068977 Score: 157
Period size: 43 Copynumber: 2.0 Consensus size: 42
64068885 ACTGAGAACC
64068895 GGGCAATAAATTCACTATAATAGATAGGATAGGAGAAAAGTCA
1 GGGCAATAAATTCACTATAATAGATAGGATA-GAGAAAAGTCA
64068938 GGGCAATAAATTCACTATAATAGATAGGATAGAGAAAAGT
1 GGGCAATAAATTCACTATAATAGATAGGATAGAGAAAAGT
64068978 TAAATTCTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 9 0.22
43 31 0.77
ACGTcount: A:0.47, C:0.08, G:0.23, T:0.22
Consensus pattern (42 bp):
GGGCAATAAATTCACTATAATAGATAGGATAGAGAAAAGTCA
Found at i:64071294 original size:10 final size:10
Alignment explanation
Indices: 64071281--64071313 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
64071271 TTTATAACTT
*
64071281 TTTTTAATTA
1 TTTTTAATAA
64071291 TTTTTAATAA
1 TTTTTAATAA
64071301 TTTTTAA-AA
1 TTTTTAATAA
64071310 TTTT
1 TTTT
64071314 AAAAGCGCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 6 0.27
10 16 0.73
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (10 bp):
TTTTTAATAA
Found at i:64071311 original size:22 final size:22
Alignment explanation
Indices: 64071268--64071311 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
64071258 TAATTTTAAA
**
64071268 ATTTTTATAACTTTTTTTAATT
1 ATTTTTATAACTTTTTAAAATT
64071290 ATTTTTAATAA-TTTTTAAAATT
1 ATTTTT-ATAACTTTTTAAAATT
64071312 TTAAAAGCGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (22 bp):
ATTTTTATAACTTTTTAAAATT
Found at i:64080171 original size:15 final size:16
Alignment explanation
Indices: 64080151--64080184 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
64080141 ATCATTAAAC
64080151 AAAAATATATAAT-AT
1 AAAAATATATAATAAT
*
64080166 AAAAATATTTAATAAT
1 AAAAATATATAATAAT
64080182 AAA
1 AAA
64080185 TTAAAATTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAAAATATATAATAAT
Found at i:64100341 original size:27 final size:27
Alignment explanation
Indices: 64100311--64100365 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
64100301 AACTGCTTTT
64100311 CAAACTTATAAGAAAGCATATTTCAGG
1 CAAACTTATAAGAAAGCATATTTCAGG
64100338 CAAACTTATAAGAAAGCATATTTCAGG
1 CAAACTTATAAGAAAGCATATTTCAGG
64100365 C
1 C
64100366 TTTGTCAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.25
Consensus pattern (27 bp):
CAAACTTATAAGAAAGCATATTTCAGG
Found at i:64103390 original size:14 final size:14
Alignment explanation
Indices: 64103371--64103400 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
64103361 GGCGGCCCAC
64103371 TTTATTTTAATATT
1 TTTATTTTAATATT
*
64103385 TTTATTTTGATATT
1 TTTATTTTAATATT
64103399 TT
1 TT
64103401 CCCATTATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.73
Consensus pattern (14 bp):
TTTATTTTAATATT
Found at i:64111679 original size:33 final size:34
Alignment explanation
Indices: 64111621--64111694 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 34
64111611 GAAGGAGAAG
* * *
64111621 AAAAAGGAAGTAGAGAGAGAGAGAAA-AAAAAGGA
1 AAAAAGGAAATAGAGAAAGAAAGAAAGAAAAA-GA
64111655 AAAAAGGAAAT-GAGAAAGAAAGAAAGAAAAAGA
1 AAAAAGGAAATAGAGAAAGAAAGAAAGAAAAAGA
64111688 ATAAAAG
1 A-AAAAG
64111695 AACAAAAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
33 15 0.43
34 20 0.57
ACGTcount: A:0.69, C:0.00, G:0.27, T:0.04
Consensus pattern (34 bp):
AAAAAGGAAATAGAGAAAGAAAGAAAGAAAAAGA
Found at i:64113585 original size:23 final size:24
Alignment explanation
Indices: 64113529--64113585 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 24
64113519 AAAAGAGAGT
* *
64113529 AAATATAATAACTATATATTTTAAG
1 AAATAT-ATAACTATATATTTCAAA
*
64113554 AGATATATAACTA-ATATTTCAAA
1 AAATATATAACTATATATTTCAAA
*
64113577 AAATCTATA
1 AAATATATA
64113586 TAGTTGATCT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 15 0.56
24 7 0.26
25 5 0.19
ACGTcount: A:0.53, C:0.07, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATAACTATATATTTCAAA
Found at i:64114081 original size:16 final size:17
Alignment explanation
Indices: 64114048--64114084 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
64114038 ATTATTAATG
64114048 AATAAAATATTATAAAA
1 AATAAAATATTATAAAA
*
64114065 AATAATATATT-TAAAA
1 AATAAAATATTATAAAA
64114081 AATA
1 AATA
64114085 TTTAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
AATAAAATATTATAAAA
Found at i:64115008 original size:41 final size:41
Alignment explanation
Indices: 64114946--64115028 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
64114936 CAACACTTTT
64114946 TTATTAAAAAAATTATATAAAGTAAAAGATTAAAATAATTA
1 TTATTAAAAAAATTATATAAAGTAAAAGATTAAAATAATTA
* * *
64114987 TTATTAAAAAATTTATTTAAAGTAAAATATTAAAATAATTA
1 TTATTAAAAAAATTATATAAAGTAAAAGATTAAAATAATTA
64115028 T
1 T
64115029 CAAACACATT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.39
Consensus pattern (41 bp):
TTATTAAAAAAATTATATAAAGTAAAAGATTAAAATAATTA
Found at i:64116264 original size:30 final size:30
Alignment explanation
Indices: 64116228--64116342 Score: 178
Period size: 30 Copynumber: 3.8 Consensus size: 30
64116218 ACTTTTCTTA
64116228 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACTCCTTTTCCACCACCAACTCC
* *
64116258 ACTAGCCACACATTTTCCACCACCAACTCC
1 ACTAGCCACTCCTTTTCCACCACCAACTCC
*
64116288 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACTCCTTTTCCACCACCAACTCC
*
64116318 ACTAGTCACAT-CTTTTCCACCACCA
1 ACTAGCCAC-TCCTTTTCCACCACCA
64116343 CTTGTACCTA
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
30 77 0.99
31 1 0.01
ACGTcount: A:0.26, C:0.46, G:0.03, T:0.24
Consensus pattern (30 bp):
ACTAGCCACTCCTTTTCCACCACCAACTCC
Found at i:64116295 original size:60 final size:60
Alignment explanation
Indices: 64116228--64116342 Score: 196
Period size: 60 Copynumber: 1.9 Consensus size: 60
64116218 ACTTTTCTTA
64116228 ACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACA-CATTTTCCACCACCAACTCC
1 ACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACATC-TTTTCCACCACCAACTCC
* *
64116288 ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGTCACATCTTTTCCACCACCA
1 ACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACATCTTTTCCACCACCA
64116343 CTTGTACCTA
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
60 51 0.98
61 1 0.02
ACGTcount: A:0.26, C:0.46, G:0.03, T:0.24
Consensus pattern (60 bp):
ACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACATCTTTTCCACCACCAACTCC
Found at i:64117019 original size:25 final size:25
Alignment explanation
Indices: 64116886--64117056 Score: 84
Period size: 25 Copynumber: 6.8 Consensus size: 25
64116876 TTTTAAATTT
* * *
64116886 TATATTACGTATATATATATTTTATAC
1 TATATTATGTATATAT-T-TTTAACAC
* * * *
64116913 TATTTTAT-TATATATCTTTAATAT
1 TATATTATGTATATATTTTTAACAC
* * *
64116937 TATATTATTTATATATATTTTTCTACATGT
1 TATATTA--TGTATATATTTTT-AACA--C
* *
64116967 TATCTTATGTATATA-TCTT-A-AC
1 TATATTATGTATATATTTTTAACAC
*
64116989 TATATTATGTATGTATTTTTAACAC
1 TATATTATGTATATATTTTTAACAC
* *
64117014 TATATTATGTACATATTTTTAATA-
1 TATATTATGTATATATTTTTAACAC
* *
64117038 T-TATCATGTATTTATTTTT
1 TATATTATGTATATATTTTT
64117057 TATATATGTA
Statistics
Matches: 113, Mismatches: 22, Indels: 22
0.72 0.14 0.14
Matches are distributed among these distances:
22 13 0.12
23 18 0.16
24 15 0.13
25 24 0.21
26 8 0.07
27 19 0.17
28 9 0.08
30 7 0.06
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.57
Consensus pattern (25 bp):
TATATTATGTATATATTTTTAACAC
Found at i:64117053 original size:23 final size:24
Alignment explanation
Indices: 64116973--64117063 Score: 73
Period size: 23 Copynumber: 3.9 Consensus size: 24
64116963 ATGTTATCTT
*
64116973 ATGTATATA-TCTTAACTATAT-T-
1 ATGTATATATTTTTAA-TATATATC
* * *
64116995 ATGTATGTATTTTTAACACTATATT
1 ATGTATATATTTTTAATA-TATATC
*
64117020 ATGTACATATTTTTAATAT-TATC
1 ATGTATATATTTTTAATATATATC
* *
64117043 ATGTATTTATTTTTTATATAT
1 ATGTATATATTTTTAATATAT
64117064 GTACATATTG
Statistics
Matches: 54, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
22 9 0.17
23 27 0.50
24 3 0.06
25 15 0.28
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (24 bp):
ATGTATATATTTTTAATATATATC
Found at i:64117209 original size:16 final size:15
Alignment explanation
Indices: 64117185--64117231 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 15
64117175 TAATTATTAT
*
64117185 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
64117201 TATTTTAATA-TTTA
1 TATTTTAATATTTTA
64117215 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
64117231 T
1 T
64117232 TATTCCATCA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 8 0.29
15 6 0.21
16 14 0.50
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:64117219 original size:14 final size:14
Alignment explanation
Indices: 64117185--64117232 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 14
64117175 TAATTATTAT
*
64117185 TATTCTAATATTTTGA
1 TATTTTAATA-TTT-A
64117201 TATTTTAATATTTA
1 TATTTTAATATTTA
64117215 TATTTTATATATTT-
1 TATTTTA-ATATTTA
64117229 TATT
1 TATT
64117233 ATTCCATCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
14 12 0.40
15 9 0.30
16 9 0.30
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (14 bp):
TATTTTAATATTTA
Found at i:64117229 original size:23 final size:22
Alignment explanation
Indices: 64117192--64117235 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
64117182 TATTATTCTA
64117192 ATATTTTGATATTTTAATATTT
1 ATATTTTGATATTTTAATATTT
* *
64117214 ATATTTTATATATTTTATTATT
1 ATATTTT-GATATTTTAATATT
64117236 CCATCATTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (22 bp):
ATATTTTGATATTTTAATATTT
Found at i:64118770 original size:12 final size:12
Alignment explanation
Indices: 64118753--64118788 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
64118743 ATTCATTTGA
64118753 CATTCATGCATT
1 CATTCATGCATT
64118765 CATTCATGCATT
1 CATTCATGCATT
*
64118777 CATTCATACATT
1 CATTCATGCATT
64118789 ACATATCCGA
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:64127210 original size:68 final size:68
Alignment explanation
Indices: 64127054--64127226 Score: 208
Period size: 68 Copynumber: 2.5 Consensus size: 68
64127044 CTTTCCAAGG
*
64127054 AAAATCAACTCATATTGCGAG-AGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTT
1 AAAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCAAGACACGTCGAGGTATTTTTAATTTT
64127118 TTTT
65 TTTT
** * *
64127122 CAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACG-CGAGGTATTTTTAGTTTA
1 -AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGTCGAGGTATTTTTAATTT-
64127186 TGTTTT
64 T-TTTT
** * *
64127192 -AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
64127227 TTTAATTTTT
Statistics
Matches: 92, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
68 46 0.50
69 40 0.43
70 6 0.07
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (68 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGTCGAGGTATTTTTAATTTTT
TTT
Found at i:64127461 original size:70 final size:70
Alignment explanation
Indices: 64127230--64127570 Score: 401
Period size: 72 Copynumber: 4.8 Consensus size: 70
64127220 TAAGCCTTTT
* *
64127230 AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
1 AATTTCTGTTTTTCAAAATCAACTCATATTGCGAGA-GTGAGTTGAGCCTCA-GACACGCTGAGG
64127295 TAATTTC
64 TAATTTC
*
64127302 AATTTCTGTTGTTTCAAAATCAACTCATATTGCGAGAAATG-GTTGAGCCTCAGGACACGCTGAG
1 AATTTCTGTT-TTTCAAAATCAACTCATATTGCGAG-AGTGAGTTGAGCCTCA-GACACGCTGAG
64127366 GTAATTTC
63 GTAATTTC
* *
64127374 AATTTCTG-TTTTCAAAATTCAACT-ATATTGCGAGAATGAGTTGAGCCTCAGACACGTTGAGGT
1 AATTTCTGTTTTTCAAAA-TCAACTCATATTGCGAGAGTGAGTTGAGCCTCAGACACGCTGAGGT
64127437 -ATTTC
65 AATTTC
* *
64127442 AATTT-TG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGC
1 AATTTCTGTTTTTC---AAAATCAACTCATATTGCGAGA-GTGAGTTGAGCCTCAG---ACACGC
*
64127505 TGAGGTATTTTC
59 TGAGGTAATTTC
*
64127517 AATTTCTGTTTTTTAAAAAAATCAACTCATATTGCGAG-GTGAGTTGAG-CTCAGA
1 AATTTCTG-TTTTT--CAAAATCAACTCATATTGCGAGAGTGAGTTGAGCCTCAGA
64127571 TACACACTGT
Statistics
Matches: 240, Mismatches: 11, Indels: 37
0.83 0.04 0.13
Matches are distributed among these distances:
67 7 0.03
68 10 0.04
69 22 0.09
70 44 0.18
71 22 0.09
72 48 0.20
73 26 0.11
74 15 0.06
75 19 0.08
76 2 0.01
77 21 0.09
78 4 0.02
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.34
Consensus pattern (70 bp):
AATTTCTGTTTTTCAAAATCAACTCATATTGCGAGAGTGAGTTGAGCCTCAGACACGCTGAGGTA
ATTTC
Found at i:64127633 original size:268 final size:268
Alignment explanation
Indices: 64127321--64127833 Score: 774
Period size: 268 Copynumber: 1.9 Consensus size: 268
64127311 TGTTTCAAAA
64127321 TCAACTCATATTGCGAGAAATGGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG-TTT
1 TCAACTCATATTGCGAG-AATGGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTT
* * *
64127385 TCAAAATTCAACT-ATATTGCGAG-AATGAGTTGAGCCTCA-GACACGTTGAGGTA-TTTCAATT
65 TAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATT
*
64127446 TTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGG
130 TT-TTTTCAAAAAAATCAACTCATATTGCGAGA--TGAGTTGAGCCTCAGG---ACACGCTGAGG
**
64127510 TATTTTCAATTTCTGTTTT-TTAAAAAAATCAACTCATATTGCGAG-GTGAGTTGAGCTCAGATA
189 TATTTTCAATTTCTGTTTTCAAAAAAAAATCAACT--TATTGCGAGAGTGAGTTGAGCTCAGATA
64127573 CACACTGTTTATTTTTT
252 CACACTGTTTATTTTTT
*
64127590 TCAACTCATATTGCGAG-GTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTT
1 TCAACTCATATTGCGAGAATG-GTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTT
64127654 TAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATT
65 TAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATT
*** *
64127719 TTTTTTTTTAAAATTCAACTCATATTGCGAGATGAGTTGAGCCTCAGGACACGCTGAGGTATTTT
130 TTTTTTCAAAAAAATCAACTCATATTGCGAGATGAGTTGAGCCTCAGGACACGCTGAGGTATTTT
64127784 CAATTTCTGTTTTCAAAAAAAAATCAACTTATTGCGAGAGTGAGTTGAGC
195 CAATTTCTGTTTTCAAAAAAAAATCAACTTATTGCGAGAGTGAGTTGAGC
64127834 CTCGGTNNNN
Statistics
Matches: 224, Mismatches: 11, Indels: 19
0.88 0.04 0.07
Matches are distributed among these distances:
267 11 0.05
268 79 0.35
269 44 0.20
270 23 0.10
271 18 0.08
272 39 0.17
273 10 0.04
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.34
Consensus pattern (268 bp):
TCAACTCATATTGCGAGAATGGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTT
AAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
TTTTTCAAAAAAATCAACTCATATTGCGAGATGAGTTGAGCCTCAGGACACGCTGAGGTATTTTC
AATTTCTGTTTTCAAAAAAAAATCAACTTATTGCGAGAGTGAGTTGAGCTCAGATACACACTGTT
TATTTTTT
Found at i:64127645 original size:125 final size:126
Alignment explanation
Indices: 64127461--64127695 Score: 352
Period size: 125 Copynumber: 1.8 Consensus size: 126
64127451 TTCAAAAAAA
* *
64127461 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTTTCAATTTCTGT
1 TCAACTCATATTGC-AGAGGTGAGTTGAGCCTCGG-T-ACACGCTGAGGTAATTTCAATTTCTG-
*
64127526 TTTTTAAAAAAATCAACTCATATTGCGAG-GTGAGTTGAG-CTCAGATACACACTGTTTATTTTT
62 TTTTT-AAAAAATCAACTCATATTGCGAGAATGAGTTGAGCCTCAGATACACACTGTTTATTTTT
64127589 T
126 T
64127590 TCAACTCATATTGC-GAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTAATTTCAATTTCTGTTT
1 TCAACTCATATTGCAGAGGTGAGTTGAGCCTC-GGTACACGCTGAGGTAATTTCAATTTCTGTTT
64127653 TTAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAG
65 TTAAAAAATCAACTCATATTGCGAG-AATGAGTTGAGCCTCAG
64127696 GACACGCTGA
Statistics
Matches: 99, Mismatches: 3, Indels: 11
0.88 0.03 0.10
Matches are distributed among these distances:
123 23 0.23
124 5 0.05
125 33 0.33
126 5 0.05
127 17 0.17
128 2 0.02
129 14 0.14
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (126 bp):
TCAACTCATATTGCAGAGGTGAGTTGAGCCTCGGTACACGCTGAGGTAATTTCAATTTCTGTTTT
TAAAAAATCAACTCATATTGCGAGAATGAGTTGAGCCTCAGATACACACTGTTTATTTTTT
Found at i:64127697 original size:73 final size:71
Alignment explanation
Indices: 64127590--64127836 Score: 365
Period size: 73 Copynumber: 3.4 Consensus size: 71
64127580 TTTATTTTTT
* *
64127590 TCAACTCATATTGCGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTT
1 TCAACTCATATTGCGAGATGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTT
64127655 AAAAAA
66 AAAAAA
*
64127661 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT-TTTTT
1 TCAACTCATATTGCGAG--ATGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTT
* *
64127725 TTTAAAAT
64 TTAAAAAA
64127733 TCAACTCATATTGCGAGATGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTC
1 TCAACTCATATTGCGAGATGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTT-
*
64127798 AAAAAAAAA
65 --TAAAAAA
64127807 TCAACT--TATTGCGAGAGTGAGTTGAGCCTC
1 TCAACTCATATTGCGAGA-TGAGTTGAGCCTC
64127837 GGTNNNNNNN
Statistics
Matches: 160, Mismatches: 9, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
70 40 0.25
71 22 0.14
72 37 0.23
73 51 0.32
74 10 0.06
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (71 bp):
TCAACTCATATTGCGAGATGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTT
AAAAAA
Found at i:64137675 original size:15 final size:15
Alignment explanation
Indices: 64137655--64137694 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
64137645 ATTGGGCTGA
64137655 GGGTATTGGGTTTGT
1 GGGTATTGGGTTTGT
64137670 GGGTATTGGGTTTGT
1 GGGTATTGGGTTTGT
64137685 GGGTATTGGG
1 GGGTATTGGG
64137695 CCGGACAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.07, C:0.00, G:0.50, T:0.42
Consensus pattern (15 bp):
GGGTATTGGGTTTGT
Found at i:64138971 original size:7 final size:7
Alignment explanation
Indices: 64138961--64138994 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
64138951 AGAGTTTTGA
64138961 GTTTAAG
1 GTTTAAG
64138968 GTTTAAG
1 GTTTAAG
*
64138975 GTCTAAG
1 GTTTAAG
*
64138982 GTATAAG
1 GTTTAAG
64138989 GTTTAA
1 GTTTAA
64138995 ATTAAAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.32, C:0.03, G:0.26, T:0.38
Consensus pattern (7 bp):
GTTTAAG
Found at i:64142471 original size:7 final size:7
Alignment explanation
Indices: 64142459--64142483 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
64142449 AAATTTTAAA
64142459 AAAATAT
1 AAAATAT
64142466 AAAATAT
1 AAAATAT
64142473 AAAATAT
1 AAAATAT
64142480 AAAA
1 AAAA
64142484 AATTCAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAATAT
Found at i:64142496 original size:27 final size:26
Alignment explanation
Indices: 64142466--64142520 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
64142456 AAAAAAATAT
*
64142466 AAAATA-TAAAATATAAAAAATTCAAAA
1 AAAATATTAAAA-ATAAAAAA-GCAAAA
*
64142493 AAAATATTAGAAATAAAAAAGCAAAA
1 AAAATATTAAAAATAAAAAAGCAAAA
64142519 AA
1 AA
64142521 TTGTCCTGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 7 0.28
27 14 0.56
28 4 0.16
ACGTcount: A:0.75, C:0.04, G:0.04, T:0.18
Consensus pattern (26 bp):
AAAATATTAAAAATAAAAAAGCAAAA
Found at i:64142644 original size:17 final size:16
Alignment explanation
Indices: 64142622--64142662 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 16
64142612 AAATTTTAAA
64142622 ATATTTTAATTGTTTAT
1 ATATTTTAATT-TTTAT
64142639 ATATTTTCAATTTTTAT
1 ATATTTT-AATTTTTAT
64142656 A-ATTTTA
1 ATATTTTA
64142663 TAAGATTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 1 0.04
16 5 0.22
17 13 0.57
18 4 0.17
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (16 bp):
ATATTTTAATTTTTAT
Found at i:64160407 original size:17 final size:17
Alignment explanation
Indices: 64160385--64160426 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
64160375 CCGCAACAGT
64160385 AAAAAAATATTGAAAA-G
1 AAAAAAA-ATTGAAAACG
64160402 AAAAAAAATTGAAAACG
1 AAAAAAAATTGAAAACG
64160419 AAAAAAAA
1 AAAAAAAA
64160427 ATAAAACATG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.76, C:0.02, G:0.10, T:0.12
Consensus pattern (17 bp):
AAAAAAAATTGAAAACG
Found at i:64160427 original size:18 final size:17
Alignment explanation
Indices: 64160385--64160428 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
64160375 CCGCAACAGT
*
64160385 AAAAAAATATTGAAAAG
1 AAAAAAAAATTGAAAAG
64160402 -AAAAAAAATTGAAAACG
1 AAAAAAAAATTGAAAA-G
64160419 AAAAAAAAAT
1 AAAAAAAAAT
64160429 AAAACATGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 14 0.58
17 1 0.04
18 9 0.38
ACGTcount: A:0.75, C:0.02, G:0.09, T:0.14
Consensus pattern (17 bp):
AAAAAAAAATTGAAAAG
Found at i:64160432 original size:16 final size:17
Alignment explanation
Indices: 64160385--64160433 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
64160375 CCGCAACAGT
*
64160385 AAAAAAATATTGAAAA-G
1 AAAAAAA-AATGAAAACG
*
64160402 AAAAAAAATTGAAAACG
1 AAAAAAAAATGAAAACG
64160419 AAAAAAAAAT-AAAAC
1 AAAAAAAAATGAAAAC
64160434 ATGGATCATG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 13 0.43
17 17 0.57
ACGTcount: A:0.76, C:0.04, G:0.08, T:0.12
Consensus pattern (17 bp):
AAAAAAAAATGAAAACG
Found at i:64160944 original size:216 final size:214
Alignment explanation
Indices: 64160582--64161043 Score: 825
Period size: 216 Copynumber: 2.1 Consensus size: 214
64160572 GCCTATGCAC
*
64160582 ATTTTAATTTAATTTTAATAATGCATACTTTATCCGGATAAAGTATGTATTAGCAAATTCAGTAA
1 ATTTTAATTTAATTTTAATAATGCATACTTTATCCGGATAAAGTATGTATTAGCAAATTCACTAA
64160647 TATGATTATATATATATAGATATTTAGGCATGTATCACATTACAAAAACAAAAATTTAAATACTT
66 TATGATTATATATATATAGATATTTAGGCATGTATCACATTACAAAAACAAAAATTTAAATACTT
*
64160712 ATACCTAATAAAACATGTATCTCATTACAATAATAGTTATTTTTCAAATAACATATTGTTTTATA
131 ATACCTAATAAAACATGTATCTCATTACAATAATAGTTATTTTCCAAATAACATATTGTTTTATA
64160777 ATTTTATTTCTTATTTAAT
196 ATTTTATTTCTTATTTAAT
* * *
64160796 ATTTTAGTTTAATTTTAATAATGCATACTTTATCCGGATAAAGTATGTATTAGTAGATTCACTAA
1 ATTTTAATTTAATTTTAATAATGCATACTTTATCCGGATAAAGTATGTATTAGCAAATTCACTAA
* *
64160861 TATGATTATATATATATATATAGATTTATGCATGTATCACATTACAAAAACAAAAATTTAAATAC
66 TATGATTATATATATATAGAT--ATTTAGGCATGTATCACATTACAAAAACAAAAATTTAAATAC
64160926 TTATACCTAATAAAACATGTATCTCATTACAATAATAGTTATTTTCCAAATAACATATTGTTTTA
129 TTATACCTAATAAAACATGTATCTCATTACAATAATAGTTATTTTCCAAATAACATATTGTTTTA
64160991 TAATTTTATTTCTTATTTAAT
194 TAATTTTATTTCTTATTTAAT
* *
64161012 ATTTTATTTTAATTTTAATAATGCATATTTTA
1 ATTTTAATTTAATTTTAATAATGCATACTTTA
64161044 ATTTTATTTT
Statistics
Matches: 237, Mismatches: 9, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
214 81 0.34
216 156 0.66
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.44
Consensus pattern (214 bp):
ATTTTAATTTAATTTTAATAATGCATACTTTATCCGGATAAAGTATGTATTAGCAAATTCACTAA
TATGATTATATATATATAGATATTTAGGCATGTATCACATTACAAAAACAAAAATTTAAATACTT
ATACCTAATAAAACATGTATCTCATTACAATAATAGTTATTTTCCAAATAACATATTGTTTTATA
ATTTTATTTCTTATTTAAT
Found at i:64161028 original size:19 final size:19
Alignment explanation
Indices: 64160993--64161031 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
64160983 TTGTTTTATA
*
64160993 ATTTTATTTCTTATTTAAT
1 ATTTTATTTCTAATTTAAT
64161012 ATTTTATTT-TAATTTTAAT
1 ATTTTATTTCTAA-TTTAAT
64161031 A
1 A
64161032 ATGCATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 2 0.11
19 16 0.89
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTTTATTTCTAATTTAAT
Found at i:64161125 original size:16 final size:16
Alignment explanation
Indices: 64161106--64161145 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
64161096 CATTTTTTAT
64161106 TTTTTTTCGTTTTCAG
1 TTTTTTTCGTTTTCAG
*
64161122 TTTTTTTCTTTTTCAG
1 TTTTTTTCGTTTTCAG
64161138 TGTTTTTT
1 T-TTTTTT
64161146 TTACTGTTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 16 0.73
17 6 0.27
ACGTcount: A:0.05, C:0.10, G:0.10, T:0.75
Consensus pattern (16 bp):
TTTTTTTCGTTTTCAG
Found at i:64172065 original size:15 final size:16
Alignment explanation
Indices: 64172045--64172074 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
64172035 GCATTATTGC
64172045 AATT-AAATGTAGTTT
1 AATTAAAATGTAGTTT
64172060 AATTAAAATGTAGTT
1 AATTAAAATGTAGTT
64172075 CACTTAGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.43
Consensus pattern (16 bp):
AATTAAAATGTAGTTT
Found at i:64172963 original size:29 final size:29
Alignment explanation
Indices: 64172931--64172999 Score: 111
Period size: 29 Copynumber: 2.4 Consensus size: 29
64172921 CTATAACAAA
64172931 TATTTTATTTTCATAATTAATTAATTTTT
1 TATTTTATTTTCATAATTAATTAATTTTT
*
64172960 TATTTTATTTTTATAATTAATTAATTTTT
1 TATTTTATTTTCATAATTAATTAATTTTT
* *
64172989 AATATTATTTT
1 TATTTTATTTT
64173000 TTATAAAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (29 bp):
TATTTTATTTTCATAATTAATTAATTTTT
Found at i:64172988 original size:17 final size:17
Alignment explanation
Indices: 64172937--64172989 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
64172927 CAAATATTTT
*
64172937 ATTTTCATAATTAATTA
1 ATTTTTATAATTAATTA
64172954 ATTTTT-T-ATT--TT-
1 ATTTTTATAATTAATTA
64172966 ATTTTTATAATTAATTA
1 ATTTTTATAATTAATTA
64172983 ATTTTTA
1 ATTTTTA
64172990 ATATTATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 10
0.73 0.02 0.24
Matches are distributed among these distances:
12 6 0.20
13 3 0.10
14 3 0.10
15 3 0.10
16 3 0.10
17 12 0.40
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (17 bp):
ATTTTTATAATTAATTA
Found at i:64172995 original size:17 final size:16
Alignment explanation
Indices: 64172946--64172995 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
64172936 TATTTTCATA
64172946 ATTAATTAATTTTT-T
1 ATTAATTAATTTTTAT
64172961 ATT--TT-ATTTTTAT
1 ATTAATTAATTTTTAT
64172974 AATTAATTAATTTTTAAT
1 -ATTAATTAATTTTT-AT
64172992 ATTA
1 ATTA
64172996 TTTTTTATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
12 6 0.21
13 3 0.10
14 3 0.10
15 3 0.10
16 2 0.07
17 10 0.34
18 2 0.07
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
ATTAATTAATTTTTAT
Found at i:64182632 original size:13 final size:14
Alignment explanation
Indices: 64182612--64182645 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
64182602 AATTATAGAG
64182612 CCAG-TTTATATTA
1 CCAGATTTATATTA
64182625 CCA-ATTTATATTA
1 CCAGATTTATATTA
64182638 CCAGATTT
1 CCAGATTT
64182646 CACCAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.32, C:0.18, G:0.06, T:0.44
Consensus pattern (14 bp):
CCAGATTTATATTA
Found at i:64185437 original size:6 final size:6
Alignment explanation
Indices: 64185423--64185455 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
64185413 TTTTTTTATT
64185423 AAAAA- AAAAAG AAAAAAG AAAAAG AAAAAG AAA
1 AAAAAG AAAAAG -AAAAAG AAAAAG AAAAAG AAA
64185456 GAAAAGAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 5 0.19
6 15 0.58
7 6 0.23
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:64193409 original size:17 final size:18
Alignment explanation
Indices: 64193373--64193449 Score: 68
Period size: 18 Copynumber: 4.2 Consensus size: 18
64193363 TTATAAATTT
64193373 AAATGAAAATAAAAACTG
1 AAATGAAAATAAAAACTG
*
64193391 AAATGAAAA-AAAAAGTG
1 AAATGAAAATAAAAACTG
* *
64193408 AAATGCTAAATAAATAAAT-
1 AAATG-AAAATAAA-AACTG
* *
64193427 AAATAAAAATAGAAAACTT
1 AAATGAAAATA-AAAACTG
64193446 AAAT
1 AAAT
64193450 TTAAATGAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
17 12 0.25
18 20 0.42
19 13 0.27
20 3 0.06
ACGTcount: A:0.68, C:0.04, G:0.09, T:0.19
Consensus pattern (18 bp):
AAATGAAAATAAAAACTG
Found at i:64193712 original size:35 final size:35
Alignment explanation
Indices: 64193637--64193706 Score: 103
Period size: 33 Copynumber: 2.1 Consensus size: 35
64193627 GTCAAGCTTT
*
64193637 TTTTATTT-T-TTTCATTTCTATTTGAATTTCAAA
1 TTTTATTTATATTTCATTTCTATTTAAATTTCAAA
64193670 TTTTATTTATATTTCATTTC-ATTTAAATTT-AAA
1 TTTTATTTATATTTCATTTCTATTTAAATTTCAAA
64193703 TTTT
1 TTTT
64193707 CTATTTTTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
33 15 0.44
34 10 0.29
35 9 0.26
ACGTcount: A:0.27, C:0.07, G:0.01, T:0.64
Consensus pattern (35 bp):
TTTTATTTATATTTCATTTCTATTTAAATTTCAAA
Found at i:64193718 original size:35 final size:35
Alignment explanation
Indices: 64193637--64193722 Score: 101
Period size: 34 Copynumber: 2.5 Consensus size: 35
64193627 GTCAAGCTTT
*
64193637 TTTTA-TTTT-TTTCATTTCTATTTGAATTTCAAA
1 TTTTATTTTTATTTCATTTCTATTTAAATTTCAAA
*
64193670 TTTTATTTATATTTCATTTC-ATTTAAATTT-AAA
1 TTTTATTTTTATTTCATTTCTATTTAAATTTCAAA
64193703 TTTTCTATTTTTATTT-ATTT
1 -TTT-TATTTTTATTTCATTT
64193723 TTTTATTTAT
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
33 8 0.17
34 19 0.41
35 19 0.41
ACGTcount: A:0.26, C:0.07, G:0.01, T:0.66
Consensus pattern (35 bp):
TTTTATTTTTATTTCATTTCTATTTAAATTTCAAA
Found at i:64193841 original size:28 final size:25
Alignment explanation
Indices: 64193784--64193853 Score: 88
Period size: 28 Copynumber: 2.7 Consensus size: 25
64193774 TTAAACTTTT
* *
64193784 ATTTCATTTCATAATCA-TCATTTC
1 ATTTCATTTCATATTCATTCATTAC
64193808 ATTTCATTTCATATTCATTACAAATTAC
1 ATTTCATTTCATATTCATT-C--ATTAC
64193836 ATTTCATTTCATATTCAT
1 ATTTCATTTCATATTCAT
64193854 ATTCAAGTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
24 16 0.40
25 1 0.03
26 1 0.03
28 22 0.55
ACGTcount: A:0.31, C:0.19, G:0.00, T:0.50
Consensus pattern (25 bp):
ATTTCATTTCATATTCATTCATTAC
Found at i:64193854 original size:6 final size:5
Alignment explanation
Indices: 64193784--64193858 Score: 55
Period size: 5 Copynumber: 14.2 Consensus size: 5
64193774 TTAAACTTTT
* * *
64193784 ATTTC ATTTC ATAATC A--TC ATTTC ATTTC ATTTC ATATTC ATTAC AAATTAC
1 ATTTC ATTTC AT-TTC ATTTC ATTTC ATTTC ATTTC AT-TTC ATTTC --ATTTC
64193836 ATTTC ATTTC ATATTC ATATTC A
1 ATTTC ATTTC AT-TTC AT-TTC A
64193859 AGTTATCTTT
Statistics
Matches: 60, Mismatches: 3, Indels: 13
0.79 0.04 0.17
Matches are distributed among these distances:
3 3 0.05
5 34 0.57
6 18 0.30
7 5 0.08
ACGTcount: A:0.32, C:0.19, G:0.00, T:0.49
Consensus pattern (5 bp):
ATTTC
Found at i:64194045 original size:16 final size:16
Alignment explanation
Indices: 64194024--64194057 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
64194014 ACTTGAATAA
64194024 AAAAATTTCTTATTTC
1 AAAAATTTCTTATTTC
64194040 AAAAATTTCTTATTTC
1 AAAAATTTCTTATTTC
64194056 AA
1 AA
64194058 TTTTTTTGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (16 bp):
AAAAATTTCTTATTTC
Found at i:64196696 original size:18 final size:18
Alignment explanation
Indices: 64196673--64196707 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
64196663 TTTGGTGTGA
*
64196673 TTTCCTGGTAATTCTTTC
1 TTTCCTGATAATTCTTTC
*
64196691 TTTCCTGATGATTCTTT
1 TTTCCTGATAATTCTTT
64196708 TCTATTTCCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.11, C:0.20, G:0.11, T:0.57
Consensus pattern (18 bp):
TTTCCTGATAATTCTTTC
Found at i:64196881 original size:2 final size:2
Alignment explanation
Indices: 64196874--64196910 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
64196864 TTCATATTCA
64196874 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
64196911 ATCTTTTTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:64202577 original size:30 final size:30
Alignment explanation
Indices: 64202543--64202601 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
64202533 CTTAACAAGC
*
64202543 AAATGCCTCTAAATTAATAACAAAATTAAT
1 AAATGCCTCTAAAATAATAACAAAATTAAT
*
64202573 AAATGCCTTTAAAATAATAACAAAATTAA
1 AAATGCCTCTAAAATAATAACAAAATTAA
64202602 CAATAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.56, C:0.12, G:0.03, T:0.29
Consensus pattern (30 bp):
AAATGCCTCTAAAATAATAACAAAATTAAT
Found at i:64202659 original size:22 final size:22
Alignment explanation
Indices: 64202634--64202681 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
64202624 TATCCAAAGA
*
64202634 ATAACAATAAAATAGTAGCAAC
1 ATAACAATAAAATAGTAACAAC
* * *
64202656 ATAATAGTAAAATGGTAACAAC
1 ATAACAATAAAATAGTAACAAC
64202678 ATAA
1 ATAA
64202682 GGAGAAAACA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.58, C:0.10, G:0.10, T:0.21
Consensus pattern (22 bp):
ATAACAATAAAATAGTAACAAC
Found at i:64206164 original size:23 final size:24
Alignment explanation
Indices: 64206134--64206181 Score: 89
Period size: 23 Copynumber: 2.0 Consensus size: 24
64206124 GAGGTGTATT
64206134 TTAAAATTTAAAAAATAAAA-AAA
1 TTAAAATTTAAAAAATAAAACAAA
64206157 TTAAAATTTAAAAAATAAAACAAA
1 TTAAAATTTAAAAAATAAAACAAA
64206181 T
1 T
64206182 GTTTTGAGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 20 0.83
24 4 0.17
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (24 bp):
TTAAAATTTAAAAAATAAAACAAA
Found at i:64209876 original size:18 final size:19
Alignment explanation
Indices: 64209839--64209877 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
64209829 AAATCATATT
64209839 TATTATTTTCATATAAAAA
1 TATTATTTTCATATAAAAA
*
64209858 TATTATTTTGATA-AAAAA
1 TATTATTTTCATATAAAAA
64209876 TA
1 TA
64209878 AAAAAGATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (19 bp):
TATTATTTTCATATAAAAA
Found at i:64209922 original size:24 final size:24
Alignment explanation
Indices: 64209895--64209948 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
64209885 TCTTTTTATC
*
64209895 ATTAATAACATTATGTAATATAAA
1 ATTAATAACATTATGTAATACAAA
64209919 ATTAATAACATTATGTAATACAAA
1 ATTAATAACATTATGTAATACAAA
*
64209943 GTTAAT
1 ATTAAT
64209949 CGTGGAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.37
Consensus pattern (24 bp):
ATTAATAACATTATGTAATACAAA
Found at i:64217235 original size:10 final size:10
Alignment explanation
Indices: 64217220--64217258 Score: 55
Period size: 9 Copynumber: 4.0 Consensus size: 10
64217210 AGCAAATAAC
64217220 TAAAAAATAT
1 TAAAAAATAT
64217230 T-AAAAATAT
1 TAAAAAATAT
64217239 TAAAAAATA-
1 TAAAAAATAT
64217248 TAAAACAATAT
1 TAAAA-AATAT
64217259 AATATTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 14 0.54
10 12 0.46
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (10 bp):
TAAAAAATAT
Found at i:64217244 original size:19 final size:20
Alignment explanation
Indices: 64217220--64217258 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
64217210 AGCAAATAAC
*
64217220 TAAAAAATATTAAA-AATAT
1 TAAAAAATATAAAACAATAT
64217239 TAAAAAATATAAAACAATAT
1 TAAAAAATATAAAACAATAT
64217259 AATATTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (20 bp):
TAAAAAATATAAAACAATAT
Found at i:64217259 original size:10 final size:9
Alignment explanation
Indices: 64217220--64217260 Score: 55
Period size: 10 Copynumber: 4.3 Consensus size: 9
64217210 AGCAAATAAC
64217220 TAAAAAATA
1 TAAAAAATA
*
64217229 TTAAAAATA
1 TAAAAAATA
64217238 TTAAAAAATA
1 -TAAAAAATA
64217248 TAAAACAATA
1 TAAAA-AATA
64217258 TAA
1 TAA
64217261 TATTTTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
9 13 0.46
10 15 0.54
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (9 bp):
TAAAAAATA
Found at i:64218495 original size:33 final size:33
Alignment explanation
Indices: 64218453--64218524 Score: 119
Period size: 33 Copynumber: 2.2 Consensus size: 33
64218443 ACAGACATAA
* *
64218453 AATCT-TCCGAACTAGTAATTAACTCTTGTGTC
1 AATCTCTCCGAACTAGTAATGAACTCTCGTGTC
64218485 AATCTCTCCGAACTAGTAATGAACTCTCGTGTC
1 AATCTCTCCGAACTAGTAATGAACTCTCGTGTC
64218518 AATCTCT
1 AATCTCT
64218525 ATTTTGATTC
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
32 5 0.14
33 32 0.86
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (33 bp):
AATCTCTCCGAACTAGTAATGAACTCTCGTGTC
Found at i:64219296 original size:27 final size:27
Alignment explanation
Indices: 64219260--64219311 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
64219250 CACTTGACTG
*
64219260 TGTCATTTCATAG-TTCATTTCGCAGTT
1 TGTCACTTCA-AGATTCATTTCGCAGTT
*
64219287 TGTCACTTCACGATTCATTTCGCAG
1 TGTCACTTCAAGATTCATTTCGCAG
64219312 CTTATCACCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 1 0.05
27 21 0.95
ACGTcount: A:0.19, C:0.23, G:0.15, T:0.42
Consensus pattern (27 bp):
TGTCACTTCAAGATTCATTTCGCAGTT
Found at i:64219330 original size:27 final size:27
Alignment explanation
Indices: 64219272--64219331 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
64219262 TCATTTCATA
* *
64219272 GTTCATTTCGCAGTTTGTCACTTCACG
1 GTTCATTTCGCAGCTTATCACTTCACG
*
64219299 ATTCATTTCGCAGCTTATCACCTT-ACG
1 GTTCATTTCGCAGCTTATCA-CTTCACG
64219326 GTTCAT
1 GTTCAT
64219332 CATGTGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 25 0.89
28 3 0.11
ACGTcount: A:0.18, C:0.27, G:0.15, T:0.40
Consensus pattern (27 bp):
GTTCATTTCGCAGCTTATCACTTCACG
Found at i:64225061 original size:18 final size:17
Alignment explanation
Indices: 64225006--64225063 Score: 63
Period size: 18 Copynumber: 3.6 Consensus size: 17
64224996 GTTAATGTAA
64225006 TTAATATAAATTATTATT
1 TTAATATAAATT-TTATT
64225024 TTAATA-AAA--TTA--
1 TTAATATAAATTTTATT
64225036 TTAATATAAATTTTATT
1 TTAATATAAATTTTATT
64225053 TTAAATATAAA
1 TT-AATATAAA
64225064 ATATAAAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
12 6 0.18
13 3 0.09
14 3 0.09
15 3 0.09
17 5 0.15
18 14 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAATATAAATTTTATT
Found at i:64227447 original size:31 final size:31
Alignment explanation
Indices: 64227379--64227447 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 31
64227369 ACGTTTAGAG
* *
64227379 TATTATTACATATTATTATTATTGCTATTAC
1 TATTATTACATATTATTATCATTGCCATTAC
* ** * *
64227410 TCTTATTATTTATTATTATCGTTGCCATTTC
1 TATTATTACATATTATTATCATTGCCATTAC
64227441 TATTATT
1 TATTATT
64227448 GTTTTTCTAT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.26, C:0.12, G:0.04, T:0.58
Consensus pattern (31 bp):
TATTATTACATATTATTATCATTGCCATTAC
Found at i:64227678 original size:3 final size:3
Alignment explanation
Indices: 64227670--64227706 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
64227660 ACTCGCGTCG
*
64227670 TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
64227707 ACTATTAAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:64227757 original size:4 final size:4
Alignment explanation
Indices: 64227736--64227776 Score: 50
Period size: 4 Copynumber: 10.8 Consensus size: 4
64227726 TAATATTCAA
* *
64227736 TATT TATT TGTT TGTT TATT TATT TATT TA-T TATT T-TT TAT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TAT
64227777 AGCTTGGTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 6 0.18
4 27 0.82
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:64227884 original size:24 final size:25
Alignment explanation
Indices: 64227856--64227912 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
64227846 ATACTTTCAA
* *
64227856 ATTTTATATTATTTATTTTTATT-AT
1 ATTTTATAATA-TTATTGTTATTAAT
64227881 -TTTTACTAATATTATTGTTATTAAT
1 ATTTTA-TAATATTATTGTTATTAAT
64227906 ATTTTAT
1 ATTTTAT
64227913 GTTCATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
24 15 0.56
25 7 0.26
26 5 0.19
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (25 bp):
ATTTTATAATATTATTGTTATTAAT
Found at i:64227893 original size:15 final size:15
Alignment explanation
Indices: 64227875--64227908 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
64227865 TATTTATTTT
*
64227875 TATTATTTTTACTAA
1 TATTATTGTTACTAA
*
64227890 TATTATTGTTATTAA
1 TATTATTGTTACTAA
64227905 TATT
1 TATT
64227909 TTATGTTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (15 bp):
TATTATTGTTACTAA
Found at i:64243948 original size:18 final size:17
Alignment explanation
Indices: 64243914--64243983 Score: 65
Period size: 18 Copynumber: 4.0 Consensus size: 17
64243904 ATTATACGTG
64243914 TATATATA-TAT-TTTT
1 TATATATATTATATTTT
*
64243929 TATATATAGTATTATTTT
1 TATATATATTA-TATTTT
64243947 TATATATCATTATATTTAT
1 TATATAT-ATTATATTT-T
64243966 TAT-TATACTTATTATTTT
1 TATATATA-TTA-TATTTT
64243984 CACTATTGTT
Statistics
Matches: 47, Mismatches: 1, Indels: 11
0.80 0.02 0.19
Matches are distributed among these distances:
15 8 0.17
16 2 0.04
17 2 0.04
18 23 0.49
19 12 0.26
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (17 bp):
TATATATATTATATTTT
Found at i:64243950 original size:16 final size:15
Alignment explanation
Indices: 64243916--64243965 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 15
64243906 TATACGTGTA
64243916 TATATATATT-TTTT
1 TATATATATTATTTT
64243930 ATATATAGTATTATTTT
1 -TATATA-TATTATTTT
*
64243947 TATATATCATTATATT
1 TATATAT-ATTATTTT
64243963 TAT
1 TAT
64243966 TATTATACTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
15 7 0.23
16 20 0.65
17 4 0.13
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (15 bp):
TATATATATTATTTT
Done.