Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 76 of 203
Found at i:24200574 original size:31 final size:32
Alignment explanation
Indices: 24200536--24200596 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
24200526 CCTAGTGGTC
24200536 AAGAG-TTTTATTAGGATTCAATTACTCTTTA
1 AAGAGTTTTTATTAGGATTCAATTACTCTTTA
24200567 AAGAGTTTTTATTAGGATTCAATTACTCTT
1 AAGAGTTTTTATTAGGATTCAATTACTCTT
24200597 GTAATTTGCC
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 5 0.17
32 24 0.83
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.46
Consensus pattern (32 bp):
AAGAGTTTTTATTAGGATTCAATTACTCTTTA
Found at i:24201929 original size:42 final size:43
Alignment explanation
Indices: 24201861--24201986 Score: 148
Period size: 42 Copynumber: 3.0 Consensus size: 43
24201851 AAGGCTGCAC
* * * * *
24201861 AGAAGCACATAAGTGCTAAACAGAAACCCGTAAGGGTTGAA-T
1 AGAAGCTCATAAGAGCTGAACAGAAACCCATAAGGGTTAAACT
*
24201903 AGAAGCTCATAAGAGCTGAACGGAAACCCATAAGGGTTAAACT
1 AGAAGCTCATAAGAGCTGAACAGAAACCCATAAGGGTTAAACT
* * * *
24201946 -GAAGCTCAAAAGAGCTGAACAAAAACCTATTAGGGTTAAAC
1 AGAAGCTCATAAGAGCTGAACAGAAACCCATAAGGGTTAAAC
24201987 GGAAACTCAT
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
42 71 0.99
43 1 0.01
ACGTcount: A:0.44, C:0.17, G:0.22, T:0.17
Consensus pattern (43 bp):
AGAAGCTCATAAGAGCTGAACAGAAACCCATAAGGGTTAAACT
Found at i:24209057 original size:18 final size:18
Alignment explanation
Indices: 24209034--24209078 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
24209024 CGTTCGTTTC
24209034 CAAATCATTATTC-ATTT
1 CAAATCATTATTCAATTT
24209051 ACAAATCATTATTCAATTT
1 -CAAATCATTATTCAATTT
*
24209070 CAAAACATT
1 CAAATCATT
24209079 TTTCTTATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 21 0.84
19 4 0.16
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.40
Consensus pattern (18 bp):
CAAATCATTATTCAATTT
Found at i:24212004 original size:15 final size:15
Alignment explanation
Indices: 24211979--24212013 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
24211969 GACTCTATTT
*
24211979 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
24211993 TAATTAATATTAAGA
1 TAATTAATATTAAGA
24212008 TAATTA
1 TAATTA
24212014 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:24218436 original size:4 final size:4
Alignment explanation
Indices: 24218418--24218497 Score: 51
Period size: 4 Copynumber: 19.5 Consensus size: 4
24218408 CCCAATTTTT
*
24218418 TTTA TTT- TTTA -TTA TTTA TTTA -TTA TTTTA TTTTA TTTTC TTTA CTTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA -TTTA -TTTA TTTA -TTTA
**
24218467 TTTA TTGC TTTA TTTTA TTT- TATTA TTTA TT
1 TTTA TTTA TTTA -TTTA TTTA T-TTA TTTA TT
24218498 ACTTATTTGG
Statistics
Matches: 62, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
3 10 0.16
4 31 0.50
5 21 0.34
ACGTcount: A:0.20, C:0.04, G:0.01, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:24218450 original size:5 final size:5
Alignment explanation
Indices: 24218412--24218490 Score: 51
Period size: 5 Copynumber: 15.6 Consensus size: 5
24218402 AGGCAACCCA
24218412 ATTTT -TTTT ATTTT -TTATT A-TTT ATTTATT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATT-TT ATTTT A-TT-TT ATTTT ATTTT ATTTT
* *
24218457 -CTTT ACTTT A-TTT ATTGCTTT ATTTT ATTTT ATT
1 ATTTT ATTTT ATTTT A-T--TTT ATTTT ATTTT ATT
24218491 ATTTATTACT
Statistics
Matches: 62, Mismatches: 1, Indels: 22
0.73 0.01 0.26
Matches are distributed among these distances:
4 16 0.26
5 35 0.56
6 3 0.05
7 4 0.06
8 4 0.06
ACGTcount: A:0.19, C:0.04, G:0.01, T:0.76
Consensus pattern (5 bp):
ATTTT
Found at i:24218452 original size:31 final size:31
Alignment explanation
Indices: 24218412--24218505 Score: 108
Period size: 31 Copynumber: 3.1 Consensus size: 31
24218402 AGGCAACCCA
24218412 ATTTT-TTTTATTTTTTATTATTTATTTATT
1 ATTTTATTTTATTTTTTATTATTTATTTATT
*
24218442 ATTTTATTTTATTTTCT-TTACTTTATTTATT
1 ATTTTATTTTATTTTTTATTA-TTTATTTATT
**
24218473 GCTTTATTTTA--TTTTATTATTTA-TTACTT
1 ATTTTATTTTATTTTTTATTATTTATTTA-TT
24218502 ATTT
1 ATTT
24218506 GGATATTAAT
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
28 3 0.06
29 11 0.20
30 11 0.20
31 29 0.54
ACGTcount: A:0.20, C:0.04, G:0.01, T:0.74
Consensus pattern (31 bp):
ATTTTATTTTATTTTTTATTATTTATTTATT
Found at i:24218689 original size:22 final size:21
Alignment explanation
Indices: 24218640--24218699 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 21
24218630 GCCCAGAATG
* *
24218640 CCTGCAGCCAAACTACCCTATT
1 CCTGCAGCC-AACCACCCTATC
*
24218662 CTTGCAGCCAACCACCCTTATC
1 CCTGCAGCCAACCACCC-TATC
* *
24218684 CCTGCACCCAAGCACC
1 CCTGCAGCCAACCACC
24218700 ACCCCTCAGC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
21 7 0.23
22 24 0.77
ACGTcount: A:0.25, C:0.47, G:0.10, T:0.18
Consensus pattern (21 bp):
CCTGCAGCCAACCACCCTATC
Found at i:24219812 original size:6 final size:6
Alignment explanation
Indices: 24219801--24219859 Score: 52
Period size: 6 Copynumber: 10.2 Consensus size: 6
24219791 TTCCTAAAGC
* *
24219801 ATAAAA ATAAAA ATAATAA AT--AA ATAAAA ATCAAA ATAAAT A-AAAA
1 ATAAAA ATAAAA ATAA-AA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA
* *
24219847 AGAAAA AGAAAA A
1 ATAAAA ATAAAA A
24219860 AATATAATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
4 4 0.09
5 4 0.09
6 33 0.73
7 4 0.09
ACGTcount: A:0.80, C:0.02, G:0.03, T:0.15
Consensus pattern (6 bp):
ATAAAA
Found at i:24219827 original size:23 final size:22
Alignment explanation
Indices: 24219801--24219863 Score: 74
Period size: 23 Copynumber: 2.8 Consensus size: 22
24219791 TTCCTAAAGC
24219801 ATAAAAATAAAAATAATAAATAA
1 ATAAAAATAAAAATAATAAA-AA
*
24219824 ATAAAAATCAAAATAAATAAAAA
1 ATAAAAATAAAAAT-AATAAAAA
* *
24219847 AGAAAAAGAAAAA-AATA
1 ATAAAAATAAAAATAATA
24219864 TAATTTGGGG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
21 4 0.11
23 25 0.71
24 6 0.17
ACGTcount: A:0.79, C:0.02, G:0.03, T:0.16
Consensus pattern (22 bp):
ATAAAAATAAAAATAATAAAAA
Found at i:24219847 original size:17 final size:17
Alignment explanation
Indices: 24219805--24219846 Score: 68
Period size: 16 Copynumber: 2.5 Consensus size: 17
24219795 TAAAGCATAA
24219805 AAATAAAAATAATAAAT
1 AAATAAAAATAATAAAT
*
24219822 AAATAAAAATCA-AAAT
1 AAATAAAAATAATAAAT
24219838 AAATAAAAA
1 AAATAAAAA
24219847 AGAAAAAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 13 0.54
17 11 0.46
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (17 bp):
AAATAAAAATAATAAAT
Found at i:24219853 original size:17 final size:16
Alignment explanation
Indices: 24219805--24219853 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
24219795 TAAAGCATAA
*
24219805 AAATAAAAATAATAAAT
1 AAATAAAAA-AAAAAAT
**
24219822 AAATAAAAATCAAAAT
1 AAATAAAAAAAAAAAT
24219838 AAATAAAAAAGAAAAA
1 AAATAAAAAA-AAAAA
24219854 GAAAAAAATA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
16 13 0.50
17 13 0.50
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (16 bp):
AAATAAAAAAAAAAAT
Found at i:24220440 original size:15 final size:15
Alignment explanation
Indices: 24220415--24220449 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
24220405 AACTCTATTT
*
24220415 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
24220429 TAATTAATATTAAGA
1 TAATTAATATTAAGA
24220444 TAATTA
1 TAATTA
24220450 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:24225368 original size:5 final size:5
Alignment explanation
Indices: 24225358--24226217 Score: 1702
Period size: 5 Copynumber: 172.0 Consensus size: 5
24225348 ATATGAACAT
24225358 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
24225408 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
24225458 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
24225508 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
24225558 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
24225608 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
24225658 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
24225708 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
24225758 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
24225808 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
24225858 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
24225908 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
24225958 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
24226008 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
24226058 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
24226108 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
* *
24226158 ATATG ATATG ATATG ATATG ATATA ATATG ATATG GTATG ATATG ATATG
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
24226208 ATATG ATATG
1 ATATG ATATG
24226218 TGCTATAAGC
Statistics
Matches: 851, Mismatches: 4, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 851 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (5 bp):
ATATG
Found at i:24230660 original size:51 final size:51
Alignment explanation
Indices: 24230548--24230780 Score: 285
Period size: 51 Copynumber: 4.6 Consensus size: 51
24230538 TCAATACACG
* * *
24230548 TAGTAGCCTCCACATAGTACTACACACGTGATCAAG-TTTTACGGTTCACG
1 TAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTTACGATTCACA
*
24230598 TAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTTACGGTTCACA
1 TAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTTACGATTCACA
* ** *
24230649 TAGTAGCCTTCACATAGTACTACACACGTGACCAAAACTTTT-CGATACACA
1 TAGTAGCCTTCACATAGTACTACACACGTGATC-AAGTTTTTACGATTCACA
* * * * *
24230700 TAGTAGCCTTCACTTAGTACTACACATGTGA-CCA-TCATTTATCGATTCACG
1 TAGTAGCCTTCACATAGTACTACACACGTGATCAAGT-TTTTA-CGATTCACA
*
24230751 TAGTAGCCTTCACACAGTACTACACACGTG
1 TAGTAGCCTTCACATAGTACTACACACGTG
24230781 TTCATCGATA
Statistics
Matches: 161, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 4 0.02
50 36 0.22
51 115 0.71
52 6 0.04
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (51 bp):
TAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTTACGATTCACA
Found at i:24239892 original size:20 final size:20
Alignment explanation
Indices: 24239850--24239895 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
24239840 TAGAAATATT
* *
24239850 GATACCTTAGGAAATATAAC
1 GATACCTTAAGAAAGATAAC
* *
24239870 GATACCTTAAGAAAGGTATC
1 GATACCTTAAGAAAGATAAC
24239890 GATACC
1 GATACC
24239896 GAGGATACCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.24
Consensus pattern (20 bp):
GATACCTTAAGAAAGATAAC
Found at i:24243996 original size:12 final size:11
Alignment explanation
Indices: 24243979--24244012 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
24243969 GCCTATATGT
24243979 CAGGCCGTGTGG
1 CAGGCCGTGT-G
24243991 CAGGCCGTGTG
1 CAGGCCGTGTG
24244002 CTAGGCCGTGT
1 C-AGGCCGTGT
24244013 AACAACTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 2 0.10
12 19 0.90
ACGTcount: A:0.09, C:0.26, G:0.44, T:0.21
Consensus pattern (11 bp):
CAGGCCGTGTG
Found at i:24245374 original size:82 final size:82
Alignment explanation
Indices: 24245237--24245400 Score: 310
Period size: 82 Copynumber: 2.0 Consensus size: 82
24245227 AATCACCAAA
*
24245237 AATTGTAGAGATTGAATTAGAGGATGAATAAAATATGAAATTAAAGCTTATTGAGTCTAGTTTCT
1 AATTGTAGAGATTGAATTAGAGGATGAATAAAATATGAAACTAAAGCTTATTGAGTCTAGTTTCT
24245302 TATAAAAGAAATTATGT
66 TATAAAAGAAATTATGT
24245319 AATTGTAGAGATTGAATTAGAGGATGAATAAAATATGAAACTAAAGCTTATTGAGTCTAGTTTCT
1 AATTGTAGAGATTGAATTAGAGGATGAATAAAATATGAAACTAAAGCTTATTGAGTCTAGTTTCT
*
24245384 TATAATAGAAATTATGT
66 TATAAAAGAAATTATGT
24245401 GAGCAATGGA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 80 1.00
ACGTcount: A:0.42, C:0.04, G:0.18, T:0.35
Consensus pattern (82 bp):
AATTGTAGAGATTGAATTAGAGGATGAATAAAATATGAAACTAAAGCTTATTGAGTCTAGTTTCT
TATAAAAGAAATTATGT
Found at i:24246280 original size:46 final size:45
Alignment explanation
Indices: 24246255--24246660 Score: 274
Period size: 46 Copynumber: 8.4 Consensus size: 45
24246245 GATCAAGTGA
* *
24246255 CAAGTGGA-AAGTGATAAGTAATAGCT-TCGGCTATACTTATCTGAT
1 CAAGT-GACAAGTGATAAGTGATAGCTAT-AGCTATACTTATCTGAT
* * *
24246300 CAAGTGATAAAGTGATAAGTGATAGCT-TCGGTTATACTTATCTGAT
1 CAAGTGA-CAAGTGATAAGTGATAGCTAT-AGCTATACTTATCTGAT
24246346 CAAGTGACAAGTGGA-AAGTGATAAG-TAATAGCTTCGGCTATACTTATCTGAT
1 CAAGTGACAAGT-GATAAGTGAT-AGCT-ATA------GCTATACTTATCTGAT
* * *
24246398 CAAGTGATAAAGTGATAAGTGATAGCT-TCGGTTATACTTATCTGAT
1 CAAGTGA-CAAGTGATAAGTGATAGCTAT-AGCTATACTTATCTGAT
24246444 CAAGTGACAAGTGGA-AAGTGATAAG-TAATAGCTTCGGCTATACTTATCTGAT
1 CAAGTGACAAGT-GATAAGTGAT-AGCT-ATA------GCTATACTTATCTGAT
* * *
24246496 CAAGTAATAAAGTGATAAGTGATAGCT-TCGGCTATACTTATCTGAT
1 CAAGTGA-CAAGTGATAAGTGATAGCTAT-AGCTATACTTATCTGAT
*
24246542 CAAGTGACAAGTGAAAAGTGATAAGTGATAGCT-TCGGCTATACTTATCTGAT
1 CAAGTGAC-------AAGTGATAAGTGATAGCTAT-AGCTATACTTATCTGAT
* * *
24246594 CAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGAT
1 CAAGTGAC-AAGTGATAAGTGATAGCTATAGCTATACTTATCTGAT
*
24246640 CAAGAGACAAAGTGATAAGTG
1 CAAGTGAC-AAGTGATAAGTG
24246661 GCTGCACTTA
Statistics
Matches: 304, Mismatches: 19, Indels: 75
0.76 0.05 0.19
Matches are distributed among these distances:
44 2 0.01
45 29 0.10
46 149 0.49
47 3 0.01
51 2 0.01
52 95 0.31
53 24 0.08
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (45 bp):
CAAGTGACAAGTGATAAGTGATAGCTATAGCTATACTTATCTGAT
Found at i:24246316 original size:98 final size:98
Alignment explanation
Indices: 24246196--24246649 Score: 773
Period size: 98 Copynumber: 4.6 Consensus size: 98
24246186 TTTGAGTACT
* ** *
24246196 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTG
24246261 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
*
24246294 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGTTATACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTG
24246359 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
*
24246392 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGTTATACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTG
24246457 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
*
24246490 TCTGATCAAGTAATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTG
* *
24246555 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* * ** * *
24246588 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAA
24246650 AGTGATAAGT
Statistics
Matches: 340, Mismatches: 16, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 340 1.00
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (98 bp):
TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:24246672 original size:37 final size:37
Alignment explanation
Indices: 24246624--24246769 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
24246614 GATAGCTTTA
*
24246624 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
24246661 GCTGCACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
24246698 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
24246735 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
24246770 ATCATACGTA
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 87 0.85
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:24247274 original size:50 final size:50
Alignment explanation
Indices: 24247199--24247298 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
24247189 ATTATTATGA
24247199 TTATAATATTTTGAGGATATATTGTGAAAAGTTATAGAAACATGTTAATT
1 TTATAATATTTTGAGGATATATTGTGAAAAGTTATAGAAACATGTTAATT
24247249 TTATAATATTTTGAGGATATATTGTGAAAAGTTATAGAAACATGTTAATT
1 TTATAATATTTTGAGGATATATTGTGAAAAGTTATAGAAACATGTTAATT
24247299 ATTTTTGAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.40, C:0.02, G:0.16, T:0.42
Consensus pattern (50 bp):
TTATAATATTTTGAGGATATATTGTGAAAAGTTATAGAAACATGTTAATT
Found at i:24247821 original size:37 final size:37
Alignment explanation
Indices: 24247780--24247853 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
24247770 GTAAAACTCC
*
24247780 GCTAACCAGAATTAAACAAAAAAATTTTAGGAATGTG
1 GCTAACCAGAATTAAACAAAAAAAATTTAGGAATGTG
24247817 GCTAACCAGAATTAAACAAAAAAAATTTAGGAATGTG
1 GCTAACCAGAATTAAACAAAAAAAATTTAGGAATGTG
24247854 TTAGGCTGAG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.50, C:0.11, G:0.16, T:0.23
Consensus pattern (37 bp):
GCTAACCAGAATTAAACAAAAAAAATTTAGGAATGTG
Found at i:24254633 original size:38 final size:38
Alignment explanation
Indices: 24254590--24254710 Score: 104
Period size: 38 Copynumber: 3.2 Consensus size: 38
24254580 TTTTAGTCAA
* *
24254590 AATATAAAAGACATGGAAATTAATATCCTTTTGGAAAG
1 AATATAAAAGATATGGAAATTAATATACTTTTGGAAAG
* * * * **
24254628 AATATAATTAGTATAT-GAATTTAAT-TAATTTCAGCCAA-
1 AATATAA-AAG-ATATGGAAATTAATATACTTT-TGGAAAG
* *
24254666 AATATAAAAGATATGAAAATTAATATTCTTTTGGAAAG
1 AATATAAAAGATATGGAAATTAATATACTTTTGGAAAG
24254704 AATATAA
1 AATATAA
24254711 TTAATATATG
Statistics
Matches: 61, Mismatches: 16, Indels: 12
0.69 0.18 0.13
Matches are distributed among these distances:
36 4 0.07
37 12 0.20
38 29 0.48
39 13 0.21
40 3 0.05
ACGTcount: A:0.49, C:0.06, G:0.12, T:0.34
Consensus pattern (38 bp):
AATATAAAAGATATGGAAATTAATATACTTTTGGAAAG
Found at i:24254636 original size:137 final size:138
Alignment explanation
Indices: 24254358--24254649 Score: 471
Period size: 137 Copynumber: 2.1 Consensus size: 138
24254348 ACATAGATAA
24254358 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAAATTATAAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAAATTATAAATA
** *
24254423 TAAACAATTATATTAATTAATTTAGGTCAAAATATAAAAGATGTGGAAATTAATATTCTTTTGGA
66 TAAACAATTATATTAATTAATTTAGGTCAAAATATAAAAGACATGGAAATTAATATCCTTTTGGA
24254488 AAGAATAT
131 AAGAATAT
* * * * *
24254496 AATTAACATATGAATTTGATTCATACAAAATATTAATTGTCTATATTTTACTGAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAAATTATAAATA
*
24254561 TAAA-AATTGTATTAATTAATTTTA-GTCAAAATATAAAAGACATGGAAATTAATATCCTTTTGG
66 TAAACAATTATATTAATTAA-TTTAGGTCAAAATATAAAAGACATGGAAATTAATATCCTTTTGG
24254624 AAAGAATAT
130 AAAGAATAT
*
24254633 AATTAGTATATGAATTT
1 AATTAATATATGAATTT
24254650 AATTAATTTC
Statistics
Matches: 142, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
137 74 0.52
138 68 0.48
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.40
Consensus pattern (138 bp):
AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAAATTATAAATA
TAAACAATTATATTAATTAATTTAGGTCAAAATATAAAAGACATGGAAATTAATATCCTTTTGGA
AAGAATAT
Found at i:24254656 original size:76 final size:76
Alignment explanation
Indices: 24254572--24254725 Score: 254
Period size: 76 Copynumber: 2.0 Consensus size: 76
24254562 AAAAATTGTA
* * *
24254572 TTAATTAATTTTAGTCAAAATATAAAAGACATGGAAATTAATATCCTTTTGGAAAGAATATAATT
1 TTAATTAATTTCAGCCAAAATATAAAAGACATGAAAATTAATATCCTTTTGGAAAGAATATAATT
*
24254637 AGTATATGAAT
66 AATATATGAAT
* *
24254648 TTAATTAATTTCAGCCAAAATATAAAAGATATGAAAATTAATATTCTTTTGGAAAGAATATAATT
1 TTAATTAATTTCAGCCAAAATATAAAAGACATGAAAATTAATATCCTTTTGGAAAGAATATAATT
24254713 AATATATGAAT
66 AATATATGAAT
24254724 TT
1 TT
24254726 GATTCATACA
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
76 72 1.00
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.38
Consensus pattern (76 bp):
TTAATTAATTTCAGCCAAAATATAAAAGACATGAAAATTAATATCCTTTTGGAAAGAATATAATT
AATATATGAAT
Found at i:24254978 original size:73 final size:73
Alignment explanation
Indices: 24254793--24255007 Score: 317
Period size: 75 Copynumber: 2.9 Consensus size: 73
24254783 ATAAAAGATA
* * *
24254793 TGGAAAGAATATAATTCATTTGTCTAACTTTTCATTTGTCTTCTCTATTAAAAAGATG-ATAATC
1 TGGAAAGAATATAATTCATTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAAGA-GAATAATC
24254857 CTATATTTT
65 CTATATTTT
* *
24254866 TGGGGAAATAATATAATTCATTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAAGGGAATAAT
1 T--GGAAAGAATATAATTCATTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAAGAGAATAAT
24254931 CCTAT-TCTTT
64 CCTATAT-TTT
* *
24254941 TGGAAAGAATATAATTCTTTTTTCTAACTTTCCATTTGCCTTCTCTATTAATAAGAGAATAATCC
1 TGGAAAGAATATAATTCATTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAAGAGAATAATCC
24255006 TA
66 TA
24255008 GTTTTCCTTT
Statistics
Matches: 129, Mismatches: 9, Indels: 8
0.88 0.06 0.05
Matches are distributed among these distances:
73 63 0.49
74 2 0.02
75 64 0.50
ACGTcount: A:0.32, C:0.14, G:0.10, T:0.44
Consensus pattern (73 bp):
TGGAAAGAATATAATTCATTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAAGAGAATAATCC
TATATTTT
Found at i:24255373 original size:33 final size:33
Alignment explanation
Indices: 24255331--24255395 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
24255321 ACACCACGGG
24255331 GCATACCGGTAATCCAAAAATATGTTCCTCAAA
1 GCATACCGGTAATCCAAAAATATGTTCCTCAAA
*
24255364 GCATACCGGTAATCCAAAACTATGTTCCTCAA
1 GCATACCGGTAATCCAAAAATATGTTCCTCAA
24255396 GGCAAGTTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.37, C:0.26, G:0.12, T:0.25
Consensus pattern (33 bp):
GCATACCGGTAATCCAAAAATATGTTCCTCAAA
Found at i:24258645 original size:18 final size:20
Alignment explanation
Indices: 24258614--24258650 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
24258604 ATGAGATTAT
24258614 TATTTATATTTCAA-ATATC
1 TATTTATATTTCAAGATATC
24258633 TATTTAT-TTTCAAGATAT
1 TATTTATATTTCAAGATAT
24258651 TCAACTCTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.35, C:0.08, G:0.03, T:0.54
Consensus pattern (20 bp):
TATTTATATTTCAAGATATC
Found at i:24260254 original size:10 final size:10
Alignment explanation
Indices: 24260239--24260263 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
24260229 TACTCGGATT
24260239 AGCTAAATCA
1 AGCTAAATCA
24260249 AGCTAAATCA
1 AGCTAAATCA
24260259 AGCTA
1 AGCTA
24260264 CAACGATATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.20, G:0.12, T:0.20
Consensus pattern (10 bp):
AGCTAAATCA
Found at i:24265626 original size:29 final size:29
Alignment explanation
Indices: 24265584--24265642 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
24265574 TCATGGAAGA
* * *
24265584 GGTGAATAACTTGTTCGTTGAGAGTTCGT
1 GGTGAAGAACTTGTTCATTGAGAATTCGT
24265613 GGTGAAGAACTTGTTCATTGAGAATTCGT
1 GGTGAAGAACTTGTTCATTGAGAATTCGT
24265642 G
1 G
24265643 TCAAGGTGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.24, C:0.10, G:0.31, T:0.36
Consensus pattern (29 bp):
GGTGAAGAACTTGTTCATTGAGAATTCGT
Found at i:24279308 original size:25 final size:24
Alignment explanation
Indices: 24279280--24279331 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
24279270 ATTTTGAAAG
24279280 AAATAAAAAAGATATTTATACTAAT
1 AAATAAAAAAGATA-TTATACTAAT
*** *
24279305 AAATGCTAAATATATTATACTAAT
1 AAATAAAAAAGATATTATACTAAT
24279329 AAA
1 AAA
24279332 AAACTAAATC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 13 0.57
25 10 0.43
ACGTcount: A:0.58, C:0.06, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAAAAAGATATTATACTAAT
Found at i:24279338 original size:25 final size:23
Alignment explanation
Indices: 24279291--24279340 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
24279281 AATAAAAAAG
**
24279291 ATATTTATACTAATAAATGCTAA
1 ATATTTATACTAATAAAAACTAA
24279314 ATATATTATACTAATAAAAAACTAA
1 ATAT-TTATACTAAT-AAAAACTAA
24279339 AT
1 AT
24279341 CTTTTAGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 4 0.17
24 10 0.43
25 9 0.39
ACGTcount: A:0.54, C:0.08, G:0.02, T:0.36
Consensus pattern (23 bp):
ATATTTATACTAATAAAAACTAA
Found at i:24279397 original size:17 final size:17
Alignment explanation
Indices: 24279375--24279420 Score: 74
Period size: 17 Copynumber: 2.7 Consensus size: 17
24279365 TTTAACTTGT
*
24279375 CTTGCAAGTAAATTTAA
1 CTTGCAAGTAAAATTAA
*
24279392 CTTGCAAGTAAAATTGA
1 CTTGCAAGTAAAATTAA
24279409 CTTGCAAGTAAA
1 CTTGCAAGTAAA
24279421 CTCTTCAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.30
Consensus pattern (17 bp):
CTTGCAAGTAAAATTAA
Found at i:24281349 original size:30 final size:30
Alignment explanation
Indices: 24281313--24281370 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
24281303 AACCTATTAC
24281313 AACCTATGGATAAACCAAGTTGCATGTTAA
1 AACCTATGGATAAACCAAGTTGCATGTTAA
24281343 AACCTATGGATAAACCAAGTTGCATGTT
1 AACCTATGGATAAACCAAGTTGCATGTT
24281371 CAAGAATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (30 bp):
AACCTATGGATAAACCAAGTTGCATGTTAA
Found at i:24295514 original size:20 final size:22
Alignment explanation
Indices: 24295486--24295536 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
24295476 TCAAATACAG
*
24295486 ATTAAATTA-TTTTTAAAAA-A
1 ATTATATTATTTTTTAAAAATA
24295506 ATTATATTAATTTTTTAAAAATA
1 ATTATATT-ATTTTTTAAAAATA
24295529 ATT-TATTA
1 ATTATATTA
24295537 AAATCTCTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 7 0.26
21 2 0.07
22 14 0.52
23 4 0.15
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
ATTATATTATTTTTTAAAAATA
Found at i:24295523 original size:22 final size:22
Alignment explanation
Indices: 24295495--24295537 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
24295485 GATTAAATTA
24295495 TTTTTAAAAA-AATTATATTAAT
1 TTTTTAAAAATAATT-TATTAAT
24295517 TTTTTAAAAATAATTTATTAA
1 TTTTTAAAAATAATTTATTAA
24295538 AATCTCTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TTTTTAAAAATAATTTATTAAT
Found at i:24296740 original size:5 final size:5
Alignment explanation
Indices: 24296730--24296760 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
24296720 TGAGCATTCG
24296730 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
24296761 AATTTTCAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:24297821 original size:9 final size:9
Alignment explanation
Indices: 24297785--24297818 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
24297775 TATAATTTAA
24297785 TATTCGAAT
1 TATTCGAAT
24297794 TATTCGAAT
1 TATTCGAAT
*
24297803 TATTCGAGT
1 TATTCGAAT
24297812 TATTCGA
1 TATTCGA
24297819 GTTTGAAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.44
Consensus pattern (9 bp):
TATTCGAAT
Found at i:24297891 original size:9 final size:9
Alignment explanation
Indices: 24297874--24297904 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
24297864 TCGAGTTGAT
24297874 TCGAATAAC
1 TCGAATAAC
*
24297883 TCGATTAAC
1 TCGAATAAC
24297892 TCGAATAAC
1 TCGAATAAC
24297901 TCGA
1 TCGA
24297905 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:24306735 original size:31 final size:31
Alignment explanation
Indices: 24306689--24306762 Score: 141
Period size: 31 Copynumber: 2.4 Consensus size: 31
24306679 TTTACCAGGC
24306689 TAACTAAC-ACTAGTACCTGTTAACTGCTAA
1 TAACTAACTACTAGTACCTGTTAACTGCTAA
24306719 TAACTAACTACTAGTACCTGTTAACTGCTAA
1 TAACTAACTACTAGTACCTGTTAACTGCTAA
24306750 TAACTAACTACTA
1 TAACTAACTACTA
24306763 ACAACTAACA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
30 8 0.19
31 35 0.81
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (31 bp):
TAACTAACTACTAGTACCTGTTAACTGCTAA
Found at i:24306763 original size:14 final size:14
Alignment explanation
Indices: 24306709--24306771 Score: 54
Period size: 14 Copynumber: 4.3 Consensus size: 14
24306699 TAGTACCTGT
*
24306709 TAACTGCTAATAAC
1 TAACTACTAATAAC
* *
24306723 TAACTACTAGTACC
1 TAACTACTAATAAC
*
24306737 TGTTAACTGCTAATAAC
1 ---TAACTACTAATAAC
*
24306754 TAACTACTAACAAC
1 TAACTACTAATAAC
24306768 TAAC
1 TAAC
24306772 AATATCAGTT
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
14 27 0.71
17 11 0.29
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.29
Consensus pattern (14 bp):
TAACTACTAATAAC
Found at i:24317103 original size:30 final size:30
Alignment explanation
Indices: 24317067--24317127 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
24317057 TCCCAAAGCT
24317067 CATACACTTTCCTCTCACCCACATGCCCCG
1 CATACACTTTCCTCTCACCCACATGCCCCG
*
24317097 CATACACTTTCCTCTCTCCCACATGCCCCG
1 CATACACTTTCCTCTCACCCACATGCCCCG
24317127 C
1 C
24317128 TTGGCAGGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.18, C:0.51, G:0.07, T:0.25
Consensus pattern (30 bp):
CATACACTTTCCTCTCACCCACATGCCCCG
Found at i:24319815 original size:42 final size:42
Alignment explanation
Indices: 24319691--24320004 Score: 395
Period size: 42 Copynumber: 7.4 Consensus size: 42
24319681 ACGTCGCTAA
* * *
24319691 CTTTTGCGGCGCTTACAGAAAAAAACACCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTT--AGGAAAAAACGCCGCTAAAGATCATGTT
*
24319735 CTTTAGCGGCGCTAAGGAAATAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGGAAA-AAACGCCGCTAAAGATCATGTT
* * *
24319778 CTTTAGCGGCGCTTATGAAAAAACGCCGCTACAGATCATATT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
24319820 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
24319862 CTTTTAGCGGCGCTT-GGAAAAAAACGCCGCTAAAGATCATGTT
1 C-TTTAGCGGCGCTTAGG-AAAAAACGCCGCTAAAGATCATGTT
* * *
24319905 TTTTAGCGGCGCTTAGGAAGAAAACGCCGTTACAAG-TAATGTT
1 CTTTAGCGGCGCTTAGGAA-AAAACGCCGCTA-AAGATCATGTT
* *
24319948 CTATAGCGGCGCTT-GGTCAAAAACGCCGCTAACAG-T-AGTGTT
1 CTTTAGCGGCGCTTAGG-AAAAAACGCCGCTAA-AGATCA-TGTT
24319990 CTTTAGCGGCGCTTA
1 CTTTAGCGGCGCTTA
24320005 TTTCACAAAC
Statistics
Matches: 241, Mismatches: 19, Indels: 21
0.86 0.07 0.07
Matches are distributed among these distances:
41 2 0.01
42 115 0.48
43 109 0.45
44 15 0.06
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (42 bp):
CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
Found at i:24319868 original size:85 final size:84
Alignment explanation
Indices: 24319708--24320004 Score: 404
Period size: 85 Copynumber: 3.5 Consensus size: 84
24319698 GGCGCTTACA
* *
24319708 GAAAAAAACACCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGGAAATAAACGCCGCTAAAGATC
1 GAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAA-AAACGCCGCTAAAGATC
*
24319773 ATGTTCTTTAGCGGCGCTTAT
65 ATGTTCTTTAGCGGCGCTT-G
* *
24319794 G-AAAAAACGCCGCTACAGATCATATTCTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCA
1 GAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCA
24319858 TGTTCTTTTAGCGGCGCTTG
66 TGTTC-TTTAGCGGCGCTTG
* *
24319878 GAAAAAAACGCCGCTAAAGATCATGTTTTTTAGCGGCGCTTAGGAAGAAAACGCCGTTACAAG-T
1 GAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAA-AAAACGCCGCTA-AAGAT
* *
24319942 AATGTTCTATAGCGGCGCTTG
64 CATGTTCTTTAGCGGCGCTTG
**
24319963 GTCAAAAACGCCGCTAACAG-T-AGTGTTCTTTAGCGGCGCTTA
1 GAAAAAAACGCCGCTAA-AGATCA-TGTTCTTTAGCGGCGCTTA
24320005 TTTCACAAAC
Statistics
Matches: 191, Mismatches: 14, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
84 25 0.13
85 142 0.74
86 21 0.11
87 3 0.02
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (84 bp):
GAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCA
TGTTCTTTAGCGGCGCTTG
Found at i:24320460 original size:12 final size:12
Alignment explanation
Indices: 24320443--24320491 Score: 71
Period size: 12 Copynumber: 4.1 Consensus size: 12
24320433 TAAACCTCTA
*
24320443 CTTCTATCGCAG
1 CTTCTATCGCTG
24320455 CTTCTATCGCTG
1 CTTCTATCGCTG
*
24320467 CTTCTCTCGCTG
1 CTTCTATCGCTG
*
24320479 CTTCTCTCGCTG
1 CTTCTATCGCTG
24320491 C
1 C
24320492 GGCCTCTGCT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 35 1.00
ACGTcount: A:0.06, C:0.39, G:0.16, T:0.39
Consensus pattern (12 bp):
CTTCTATCGCTG
Found at i:24320502 original size:21 final size:21
Alignment explanation
Indices: 24320476--24320541 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 21
24320466 GCTTCTCTCG
*
24320476 CTGCTTCTCTCGCTGCGGCCT
1 CTGCTTCTCTCGCTGCAGCCT
*
24320497 CTGCTTCTCTCGCTGTAGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* * * *
24320518 CTACTTCCCTTGCTGCCGCCT
1 CTGCTTCTCTCGCTGCAGCCT
24320539 CTG
1 CTG
24320542 TTTTAAGTTG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.03, C:0.42, G:0.20, T:0.35
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGCAGCCT
Found at i:24325335 original size:37 final size:37
Alignment explanation
Indices: 24325285--24325405 Score: 242
Period size: 37 Copynumber: 3.3 Consensus size: 37
24325275 GATGGTAAGC
24325285 AGGGTATGTATTATTATGTAACTTATTTAATTTATGT
1 AGGGTATGTATTATTATGTAACTTATTTAATTTATGT
24325322 AGGGTATGTATTATTATGTAACTTATTTAATTTATGT
1 AGGGTATGTATTATTATGTAACTTATTTAATTTATGT
24325359 AGGGTATGTATTATTATGTAACTTATTTAATTTATGT
1 AGGGTATGTATTATTATGTAACTTATTTAATTTATGT
24325396 AGGGTATGTA
1 AGGGTATGTA
24325406 AGTTATGTAA
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 84 1.00
ACGTcount: A:0.30, C:0.02, G:0.18, T:0.50
Consensus pattern (37 bp):
AGGGTATGTATTATTATGTAACTTATTTAATTTATGT
Found at i:24325347 original size:9 final size:9
Alignment explanation
Indices: 24325335--24325505 Score: 85
Period size: 9 Copynumber: 19.9 Consensus size: 9
24325325 GTATGTATTA
*
24325335 TTATGTAAC
1 TTATGTAAG
* *
24325344 TTATTTAAT
1 TTATGTAAG
*
24325353 TTATGTAGG
1 TTATGTAAG
*
24325362 GTATGTATTA-
1 TTATGTA--AG
*
24325372 TTATGTAAC
1 TTATGTAAG
* *
24325381 TTATTTAAT
1 TTATGTAAG
*
24325390 TTATGTAGG
1 TTATGTAAG
*
24325399 GTATGTAAG
1 TTATGTAAG
24325408 TTATGTAAG
1 TTATGTAAG
*
24325417 TTGTGT-A-
1 TTATGTAAG
*
24325424 TTATTTACA-
1 TTATGTA-AG
*
24325433 -CATGTAAG
1 TTATGTAAG
*
24325441 TTGTGT-A-
1 TTATGTAAG
24325448 TTATGTAAG
1 TTATGTAAG
*
24325457 TTATGCAAG
1 TTATGTAAG
24325466 TTATGT-A-
1 TTATGTAAG
* *
24325473 TTAAGTAGG
1 TTATGTAAG
24325482 TTATGTAAG
1 TTATGTAAG
24325491 TTATGT-A-
1 TTATGTAAG
24325498 TTATGTAA
1 TTATGTAA
24325506 ATTAATATAT
Statistics
Matches: 120, Mismatches: 30, Indels: 25
0.69 0.17 0.14
Matches are distributed among these distances:
7 21 0.17
8 11 0.09
9 82 0.68
10 6 0.05
ACGTcount: A:0.30, C:0.03, G:0.19, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:24325484 original size:25 final size:25
Alignment explanation
Indices: 24325438--24325505 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
24325428 TTACACATGT
* *
24325438 AAGTTGTGTATTATGTAAGTTATGC
1 AAGTTATGTATTAAGTAAGTTATGC
* *
24325463 AAGTTATGTATTAAGTAGGTTATGT
1 AAGTTATGTATTAAGTAAGTTATGC
*
24325488 AAGTTATGTATTATGTAA
1 AAGTTATGTATTAAGTAA
24325506 ATTAATATAT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.32, C:0.01, G:0.22, T:0.44
Consensus pattern (25 bp):
AAGTTATGTATTAAGTAAGTTATGC
Found at i:24325501 original size:16 final size:17
Alignment explanation
Indices: 24325390--24325505 Score: 73
Period size: 16 Copynumber: 6.9 Consensus size: 17
24325380 CTTATTTAAT
*
24325390 TTATGTAGGGTATGTAAG
1 TTATGTA-GTTATGTAAG
*
24325408 TTATGTAAGTTGTGT-A-
1 TTATGT-AGTTATGTAAG
* ***
24325424 TTATTTACACATGTAAG
1 TTATGTAGTTATGTAAG
*
24325441 TTGTGTA-TTATGTAAG
1 TTATGTAGTTATGTAAG
*
24325457 TTATGCAAGTTATGT-A-
1 TTATG-TAGTTATGTAAG
*
24325473 TTAAGTAGGTTATGTAAG
1 TTATGTA-GTTATGTAAG
24325491 TTATGTA-TTATGTAA
1 TTATGTAGTTATGTAA
24325506 ATTAATATAT
Statistics
Matches: 74, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
15 5 0.07
16 36 0.49
17 9 0.12
18 23 0.31
19 1 0.01
ACGTcount: A:0.30, C:0.03, G:0.22, T:0.45
Consensus pattern (17 bp):
TTATGTAGTTATGTAAG
Found at i:24329254 original size:27 final size:28
Alignment explanation
Indices: 24329210--24329269 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
24329200 TAACTAACAC
* * *
24329210 AATAT-TAATATATTTATAT-GTTTCAT
1 AATATATAACATATATATATCGTTGCAT
24329236 AATATATAACATATATATATCGTTGCAT
1 AATATATAACATATATATATCGTTGCAT
24329264 -ATATAT
1 AATATAT
24329270 CTTTTTCTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 5 0.17
27 18 0.62
28 6 0.21
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.47
Consensus pattern (28 bp):
AATATATAACATATATATATCGTTGCAT
Found at i:24330333 original size:41 final size:40
Alignment explanation
Indices: 24330288--24330481 Score: 201
Period size: 41 Copynumber: 4.7 Consensus size: 40
24330278 AGTATTACCA
* * * * *
24330288 GCGCTTTTCTAAAAACGCCGCTAATGACCAGATCATTAGTG
1 GCGCTTTT-AAAAAACGCCGCTAAAGGCCAGAGCATTAGCG
24330329 GCGCTTATTAAAAAACGCCGCTAAAGGCCAGAGCATTAGCG
1 GCGCTT-TTAAAAAACGCCGCTAAAGGCCAGAGCATTAGCG
* *
24330370 GCGCTTATAAGAAAACGCCGCTAAAGGCTAGAGCATTAGCG
1 GCGCTTTTAA-AAAACGCCGCTAAAGGCCAGAGCATTAGCG
* * * *
24330411 GCGC-TTTACGAAAATCGCCGCTAAAAGGTCGGAGAATTAGCG
1 GCGCTTTTA--AAAAACGCCGCT-AAAGGCCAGAGCATTAGCG
* *
24330453 GCGATTTGTCAAAAACGCCGCTAAAGGCC
1 GCGCTTT-TAAAAAACGCCGCTAAAGGCC
24330482 CAAAAAAATG
Statistics
Matches: 129, Mismatches: 17, Indels: 14
0.81 0.11 0.09
Matches are distributed among these distances:
40 6 0.05
41 88 0.68
42 32 0.25
43 2 0.02
44 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.25, T:0.20
Consensus pattern (40 bp):
GCGCTTTTAAAAAACGCCGCTAAAGGCCAGAGCATTAGCG
Found at i:24331643 original size:80 final size:82
Alignment explanation
Indices: 24331532--24331753 Score: 369
Period size: 82 Copynumber: 2.7 Consensus size: 82
24331522 TATCATTTTA
24331532 TTTTTTTCTGGTGAAATTT-TGTACACATTTTGAAAGTAATGCTTTCAATGAAATTATAAATTTA
1 TTTTTTTCTGGTGAAATTTGTGTACACATTTTGAAAGTAATGCTTTCAATGAAATTATAAATTTA
24331596 TT-ATTT-TGTTTATAT
66 TTAATTTATGTTTATAT
24331611 TTTTTTTCTGGTGAAATTTGTGTACACATTTTGAAAGTAATGCTTTCAATGAAATTATAAATTTA
1 TTTTTTTCTGGTGAAATTTGTGTACACATTTTGAAAGTAATGCTTTCAATGAAATTATAAATTTA
*
24331676 TTAATTTATTTTTATAT
66 TTAATTTATGTTTATAT
* * * * *
24331693 TTTTTTTCTGGTGAAATTTGTGTACACATTTTGGAACTGATGCTTTCAACGGAATTATAAA
1 TTTTTTTCTGGTGAAATTTGTGTACACATTTTGAAAGTAATGCTTTCAATGAAATTATAAA
24331754 ATGTAGCCAA
Statistics
Matches: 134, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
79 19 0.14
80 47 0.35
81 4 0.03
82 64 0.48
ACGTcount: A:0.30, C:0.08, G:0.13, T:0.49
Consensus pattern (82 bp):
TTTTTTTCTGGTGAAATTTGTGTACACATTTTGAAAGTAATGCTTTCAATGAAATTATAAATTTA
TTAATTTATGTTTATAT
Found at i:24335019 original size:50 final size:50
Alignment explanation
Indices: 24334958--24335923 Score: 993
Period size: 50 Copynumber: 19.3 Consensus size: 50
24334948 TACTCCGCTT
* * * * * *
24334958 TAGCTTTAATCTGTTCTGCTGCAATGTCAAGGAAATAAGATTCACTGTTG
1 TAGCTTCAATCTATTCTACTGCAATGTCAGGGAAGTAAGATTCGCTGTTG
* * * *
24335008 TAGCTTCAATCTATTCCACAGCAATGTC-GAAGAAGCAAGATTCGCTGTTG
1 TAGCTTCAATCTATTCTACTGCAATGTCAG-GGAAGTAAGATTCGCTGTTG
**
24335058 TAGCTTCAATCTATT-TAACTGCAATGTCAGGGAAGTAAGATTCATTGTTG
1 TAGCTTCAATCTATTCT-ACTGCAATGTCAGGGAAGTAAGATTCGCTGTTG
* * * * * *
24335108 TAGCTTCAATCTATTCCATTACATTGCCAGGGAAGTAAGATTCGTTGTTG
1 TAGCTTCAATCTATTCTACTGCAATGTCAGGGAAGTAAGATTCGCTGTTG
* * *
24335158 TAGCTTCAATCTATT-TAACTGCAATTTCAGGGAAGCAAGATTCGCTATTG
1 TAGCTTCAATCTATTCT-ACTGCAATGTCAGGGAAGTAAGATTCGCTGTTG
* * * ** *
24335208 TAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATTCGCTGTTG
1 TAGCTTCAATCTATTCTACTGCAATGTCAGGGAAGTAAGATTCGCTGTTG
* * * * * *
24335258 TAGCTGCAATATATT-TAACTGCAATGTCGGGGAAGCAAGATTTGCTATTG
1 TAGCTTCAATCTATTCT-ACTGCAATGTCAGGGAAGTAAGATTCGCTGTTG
* * * *
24335308 TAGCTTCAATCTGTTCCACTGCAGTGCCAGGGAAGTAAGATTCGCTGTTG
1 TAGCTTCAATCTATTCTACTGCAATGTCAGGGAAGTAAGATTCGCTGTTG
* **
24335358 TAGCTTAAATCTATT-TAACTGCAATGTC-GAGGAAGTAAGATTCATTGTTG
1 TAGCTTCAATCTATTCT-ACTGCAATGTCAG-GGAAGTAAGATTCGCTGTTG
* * * **** *
24335408 TAGCTTCAGTCTGTTCCACTGCACCACCAGGGAAGTAAGATTCGTTGTTG
1 TAGCTTCAATCTATTCTACTGCAATGTCAGGGAAGTAAGATTCGCTGTTG
* * *
24335458 TAGCTTCAATCTATT-TAACTGCAATGTCGGGGAAGCAAGATTCGTTGTTG
1 TAGCTTCAATCTATTCT-ACTGCAATGTCAGGGAAGTAAGATTCGCTGTTG
* * ** *
24335508 TAGCTTCAATCTGTTCCACTGCACCGTCAGGGAAGTAAGATTCGCTATTG
1 TAGCTTCAATCTATTCTACTGCAATGTCAGGGAAGTAAGATTCGCTGTTG
* * *
24335558 TAGCTTCAATCTATT-TAACTGCAATGTCGGGGAAGCAAGATTCGTTGTTG
1 TAGCTTCAATCTATTCT-ACTGCAATGTCAGGGAAGTAAGATTCGCTGTTG
* * ** *
24335608 TAGCTTCAATCTGTTCCACTGCACCGTCAGGGAAGTAAGATTCGCTATTG
1 TAGCTTCAATCTATTCTACTGCAATGTCAGGGAAGTAAGATTCGCTGTTG
** * *
24335658 TAGCTTCAATCTATT-TAACTGCAATGTTGGGGAAGCAAGATTCACTGTTG
1 TAGCTTCAATCTATTCT-ACTGCAATGTCAGGGAAGTAAGATTCGCTGTTG
* *
24335708 TAGCTTCAATCTGTTCCACTGC-ATCGTCAGGGAAGTAAGATTCGCTGTTG
1 TAGCTTCAATCTATTCTACTGCAAT-GTCAGGGAAGTAAGATTCGCTGTTG
* * * * *
24335758 TAGCTTCAATCTATT-TAACTGTAATTTCGGGGAAGCAAGATTCGCTATTG
1 TAGCTTCAATCTATTCT-ACTGCAATGTCAGGGAAGTAAGATTCGCTGTTG
* * ****
24335808 TAGCTTCAATCTGTTCCACTGCACCACCAGGGAAGTAAGATTCGCTGTTG
1 TAGCTTCAATCTATTCTACTGCAATGTCAGGGAAGTAAGATTCGCTGTTG
* *
24335858 TAGCTTCAATCTATT-TAACTGCAATGTCGGGGAAGCAAGATTCGCTGTTG
1 TAGCTTCAATCTATTCT-ACTGCAATGTCAGGGAAGTAAGATTCGCTGTTG
24335908 TAGCTTCAATCTATTC
1 TAGCTTCAATCTATTC
24335924 AGGGGGACAA
Statistics
Matches: 741, Mismatches: 151, Indels: 47
0.79 0.16 0.05
Matches are distributed among these distances:
49 3 0.00
50 734 0.99
51 4 0.01
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (50 bp):
TAGCTTCAATCTATTCTACTGCAATGTCAGGGAAGTAAGATTCGCTGTTG
Found at i:24335148 original size:100 final size:100
Alignment explanation
Indices: 24334976--24335919 Score: 1386
Period size: 100 Copynumber: 9.4 Consensus size: 100
24334966 ATCTGTTCTG
** ** * * * ** * *
24334976 CTGCAATGTCAAGGAAATAAGATTCACTGTTGTAGCTTCAATCTATTCCACAGCAATGTC-GAAG
1 CTGCAATGTCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAG-GG
*
24335040 AAGCAAGATTCGCTGTTGTAGCTTCAATCTATTTAA
65 AAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAA
* * ** * * * **
24335076 CTGCAATGTCAGGGAAGTAAGATTCATTGTTGTAGCTTCAATCTATTCCATTACATTGCCAGGGA
1 CTGCAATGTCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGA
*
24335141 AGTAAGATTCGTTGTTGTAGCTTCAATCTATTTAA
66 AGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAA
* * * *
24335176 CTGCAATTTCAGGGAAGCAAGATTCGCTATTGTAGCTTCAATCTGTTCCACTACACCGCCAGGGA
1 CTGCAATGTCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGA
* *
24335241 AGTAAGATTCGCTGTTGTAGCTGCAATATATTTAA
66 AGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAA
* * **
24335276 CTGCAATGTCGGGGAAGCAAGATTTGCTATTGTAGCTTCAATCTGTTCCACTGCAGTGCCAGGGA
1 CTGCAATGTCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGA
*
24335341 AGTAAGATTCGCTGTTGTAGCTTAAATCTATTTAA
66 AGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAA
* * ** * *
24335376 CTGCAATGTCGAGGAAGTAAGATTCATTGTTGTAGCTTCAGTCTGTTCCACTGCACCACCAGGGA
1 CTGCAATGTCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGA
*
24335441 AGTAAGATTCGTTGTTGTAGCTTCAATCTATTTAA
66 AGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAA
* *
24335476 CTGCAATGTCGGGGAAGCAAGATTCGTTGTTGTAGCTTCAATCTGTTCCACTGCACCGTCAGGGA
1 CTGCAATGTCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGA
*
24335541 AGTAAGATTCGCTATTGTAGCTTCAATCTATTTAA
66 AGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAA
* *
24335576 CTGCAATGTCGGGGAAGCAAGATTCGTTGTTGTAGCTTCAATCTGTTCCACTGCACCGTCAGGGA
1 CTGCAATGTCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGA
*
24335641 AGTAAGATTCGCTATTGTAGCTTCAATCTATTTAA
66 AGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAA
* * * *
24335676 CTGCAATGTTGGGGAAGCAAGATTCACTGTTGTAGCTTCAATCTGTTCCACTGCATCGTCAGGGA
1 CTGCAATGTCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGA
24335741 AGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAA
66 AGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAA
* * * *
24335776 CTGTAATTTCGGGGAAGCAAGATTCGCTATTGTAGCTTCAATCTGTTCCACTGCACCACCAGGGA
1 CTGCAATGTCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGA
24335841 AGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAA
66 AGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAA
24335876 CTGCAATGTCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCT
1 CTGCAATGTCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCT
24335920 ATTCAGGGGG
Statistics
Matches: 775, Mismatches: 68, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
100 774 1.00
101 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (100 bp):
CTGCAATGTCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGA
AGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAA
Found at i:24337341 original size:6 final size:6
Alignment explanation
Indices: 24337326--24337393 Score: 59
Period size: 6 Copynumber: 10.8 Consensus size: 6
24337316 AGCCTCTCCT
* *
24337326 TTTTTC -TTTTC TTTTTC TTCTTTC TCTTTCTC TTTCTC TTTTTC TTTTCC
1 TTTTTC TTTTTC TTTTTC TT-TTTC T-TTT-TC TTTTTC TTTTTC TTTTTC
24337376 TTTCTTC TTCTTT- TTTTT
1 TTT-TTC TT-TTTC TTTTT
24337394 TGAAATATTT
Statistics
Matches: 52, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
5 8 0.15
6 24 0.46
7 15 0.29
8 5 0.10
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (6 bp):
TTTTTC
Found at i:24337355 original size:24 final size:23
Alignment explanation
Indices: 24337328--24337392 Score: 78
Period size: 24 Copynumber: 2.7 Consensus size: 23
24337318 CCTCTCCTTT
24337328 TTTCTTTTCTTTTTCTTC-TTTCTC
1 TTTCTTTTCTTTTT-TTCTTTTC-C
*
24337352 TTTCTCTTTCTCTTTTTCTTTTCC
1 TTTCT-TTTCTTTTTTTCTTTTCC
24337376 TTTCTTCTTCTTTTTTT
1 TTTCTT-TTCTTTTTTT
24337393 TTGAAATATT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
23 1 0.03
24 23 0.64
25 12 0.33
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (23 bp):
TTTCTTTTCTTTTTTTCTTTTCC
Found at i:24337365 original size:18 final size:19
Alignment explanation
Indices: 24337328--24337384 Score: 66
Period size: 18 Copynumber: 3.1 Consensus size: 19
24337318 CCTCTCCTTT
*
24337328 TTTCT-TTTCTTTTTCTTC
1 TTTCTCTTTCTCTTTCTTC
24337346 TTTCTCTTTCTCTTTC-TC
1 TTTCTCTTTCTCTTTCTTC
*
24337364 TTTTTCTTT-TCCTTTCTTC
1 TTTCTCTTTCT-CTTTCTTC
24337383 TT
1 TT
24337385 CTTTTTTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
17 1 0.03
18 20 0.59
19 13 0.38
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTCTCTTTCTCTTTCTTC
Found at i:24337392 original size:19 final size:20
Alignment explanation
Indices: 24337328--24337392 Score: 77
Period size: 19 Copynumber: 3.4 Consensus size: 20
24337318 CCTCTCCTTT
24337328 TTTCTTTT-CTTT-TTCTTC
1 TTTCTTTTCCTTTCTTCTTC
24337346 TTTCTCTTTCTCTTTC-TCTT-
1 TTTCT-TTTC-CTTTCTTCTTC
24337366 TTTCTTTTCCTTTCTTCTTC
1 TTTCTTTTCCTTTCTTCTTC
24337386 TTT-TTTT
1 TTTCTTTT
24337393 TTGAAATATT
Statistics
Matches: 41, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
18 10 0.24
19 15 0.37
20 8 0.20
21 8 0.20
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (20 bp):
TTTCTTTTCCTTTCTTCTTC
Found at i:24344634 original size:62 final size:62
Alignment explanation
Indices: 24344537--24344660 Score: 248
Period size: 62 Copynumber: 2.0 Consensus size: 62
24344527 CGGACATAGC
24344537 TCGCAACCTCATTCCTGCGAGGCTTACGCGAGCTCTCATCGCAAGCTTCTCATGATAGCTAT
1 TCGCAACCTCATTCCTGCGAGGCTTACGCGAGCTCTCATCGCAAGCTTCTCATGATAGCTAT
24344599 TCGCAACCTCATTCCTGCGAGGCTTACGCGAGCTCTCATCGCAAGCTTCTCATGATAGCTAT
1 TCGCAACCTCATTCCTGCGAGGCTTACGCGAGCTCTCATCGCAAGCTTCTCATGATAGCTAT
24344661 CTTTACGAAC
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.21, C:0.32, G:0.19, T:0.27
Consensus pattern (62 bp):
TCGCAACCTCATTCCTGCGAGGCTTACGCGAGCTCTCATCGCAAGCTTCTCATGATAGCTAT
Found at i:24344775 original size:24 final size:23
Alignment explanation
Indices: 24344748--24344797 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 23
24344738 TCTATCCGGG
24344748 TCAGAGATCCAAATCCTATTCAGA
1 TCAGAGATCCAAATCCTATTCA-A
24344772 TCAGAGATCCAAATCCTATTCAA
1 TCAGAGATCCAAATCCTATTCAA
24344795 TCA
1 TCA
24344798 TTTGGGCTGC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 4 0.15
24 22 0.85
ACGTcount: A:0.38, C:0.26, G:0.10, T:0.26
Consensus pattern (23 bp):
TCAGAGATCCAAATCCTATTCAA
Found at i:24347434 original size:69 final size:69
Alignment explanation
Indices: 24347300--24347436 Score: 159
Period size: 69 Copynumber: 2.0 Consensus size: 69
24347290 TCATTGTATA
* * * * * * ** * *
24347300 GCTGGGAGCTTTGCTTGCGCTAACTATTTTGGAGGTCATGACTCTTCGCTTGTGAGCCTTGATTT
1 GCTGAGAGCTTTGCTTGCGATAACTATTTCGAAGGTCACGACTCTTCACTTACGAACCTTAATTT
24347365 TACT
66 TACT
*
24347369 GCTGAGAGCTTTGCTCT-CGATAACTGTTTCGAAGGTCACGACTCTTCACTTACGAACCTTAATT
1 GCTGAGAGCTTTGCT-TGCGATAACTATTTCGAAGGTCACGACTCTTCACTTACGAACCTTAATT
24347433 TTAC
65 TTAC
24347437 ATCTGGGTAA
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
69 55 0.98
70 1 0.02
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (69 bp):
GCTGAGAGCTTTGCTTGCGATAACTATTTCGAAGGTCACGACTCTTCACTTACGAACCTTAATTT
TACT
Found at i:24350745 original size:32 final size:33
Alignment explanation
Indices: 24350684--24350745 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 33
24350674 TTGAGCTTAA
*
24350684 AATAATTTATATTTATATAACTTTCAACATATC
1 AATAATTTATATTTATATAAATTTCAACATATC
*
24350717 AATAATTTATA-TTATA-AAGATTTTAACAT
1 AATAATTTATATTTATATAA-ATTTCAACAT
24350746 TTATGTTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 2 0.08
32 13 0.50
33 11 0.42
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (33 bp):
AATAATTTATATTTATATAAATTTCAACATATC
Found at i:24355353 original size:30 final size:31
Alignment explanation
Indices: 24355305--24355364 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
24355295 AAACCTTTTA
*
24355305 TTTTTCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTTCCCCAAAACTTTTACTCCCTTCCCAC
** *
24355335 TTTTTCCCTGAAACTTTTATTCCCTTCCCA
1 TTTTTCCCCAAAACTTTTACTCCCTTCCCA
24355365 TCCCACCTGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.18, C:0.37, G:0.02, T:0.43
Consensus pattern (31 bp):
TTTTTCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:24359153 original size:21 final size:23
Alignment explanation
Indices: 24359109--24359158 Score: 86
Period size: 21 Copynumber: 2.3 Consensus size: 23
24359099 CCAATTAGCT
24359109 CATAAATCAAGGAAAATAATATA
1 CATAAATCAAGGAAAATAATATA
24359132 CATAAAT-AAGGAAAAT-ATATA
1 CATAAATCAAGGAAAATAATATA
24359153 CATAAA
1 CATAAA
24359159 ATATTCTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 11 0.41
22 9 0.33
23 7 0.26
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.22
Consensus pattern (23 bp):
CATAAATCAAGGAAAATAATATA
Found at i:24369466 original size:40 final size:39
Alignment explanation
Indices: 24369326--24369473 Score: 129
Period size: 40 Copynumber: 3.7 Consensus size: 39
24369316 AGCGGCCCTT
* *
24369326 TTAGCAGCGTTTGGACAAAAAACGCCACTAACAATCGAGCA
1 TTAGCAGCGTTT-TACAAAAAACGCCGCTAA-AATCGAGCA
* * *
24369367 TTAGCGGCATTTTACGAAAAACGCCG-TAAAATATCGAGCA
1 TTAGCAGCGTTTTACAAAAAACGCCGCT-AAA-ATCGAGCA
* ** * *
24369407 TTAGCGGCGCTACATA-AAAAAACGCCGCTAAAACCAAGCA
1 TTAGCAGCG-T-TTTACAAAAAACGCCGCTAAAATCGAGCA
*
24369447 TTAGCAGCGTTTTACAAAAAGCGCCGC
1 TTAGCAGCGTTTTACAAAAAACGCCGC
24369474 AATAGAGTAA
Statistics
Matches: 86, Mismatches: 15, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
38 2 0.02
39 14 0.16
40 43 0.50
41 24 0.28
42 3 0.03
ACGTcount: A:0.38, C:0.24, G:0.20, T:0.18
Consensus pattern (39 bp):
TTAGCAGCGTTTTACAAAAAACGCCGCTAAAATCGAGCA
Found at i:24369584 original size:113 final size:112
Alignment explanation
Indices: 24369453--24369796 Score: 589
Period size: 113 Copynumber: 3.1 Consensus size: 112
24369443 AGCATTAGCA
* * *
24369453 GCGTTTTACAAAAAGCGCCGCAATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAAC
1 GCGTTTTATAAAAAGCGCCACAATGGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAAC
24369518 ATTAGTGGTGGTTTTTCCCAAGCGCCGCTAATACTCCATTCTTCAGCG
66 ATTAGT-GTGGTTTTTCCCAAGCGCCGCTAATACTCCATTCTTCAGCG
24369566 GCGTTTTATAAAAAGCGCCACAATGGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAAC
1 GCGTTTTATAAAAAGCGCCACAATGGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAAC
24369631 ATTAGTCGTGGTTTTTCCCAAGCGCCGCTAATACTCCATTCTTCAGCG
66 ATTAGT-GTGGTTTTTCCCAAGCGCCGCTAATACTCCATTCTTCAGCG
24369679 GCGTTTTATAAAAAGCGCCACAATGGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAAC
1 GCGTTTTATAAAAAGCGCCACAATGGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAAC
* * * * * *
24369744 ACTAGTGCGGTTTTGCCCAAACACCGCTAATACTCCGTTCTTCAGCG
66 ATTAGTGTGGTTTTTCCCAAGCGCCGCTAATACTCCATTCTTCAGCG
24369791 GCGTTT
1 GCGTTT
24369797 GGCATTAAGC
Statistics
Matches: 221, Mismatches: 10, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
112 42 0.19
113 179 0.81
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (112 bp):
GCGTTTTATAAAAAGCGCCACAATGGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAAC
ATTAGTGTGGTTTTTCCCAAGCGCCGCTAATACTCCATTCTTCAGCG
Found at i:24370064 original size:8 final size:8
Alignment explanation
Indices: 24370051--24370112 Score: 61
Period size: 8 Copynumber: 7.1 Consensus size: 8
24370041 TTTCATTCTT
24370051 TTATATTA
1 TTATATTA
24370059 TTATATTA
1 TTATATTA
*
24370067 TTATAATAA
1 TTAT-ATTA
24370076 GTTATATTA
1 -TTATATTA
*
24370085 TTATGTTTGAA
1 TTAT-ATT--A
24370096 TTATATTA
1 TTATATTA
24370104 TTATATTA
1 TTATATTA
24370112 T
1 T
24370113 AAGTTATATA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
8 26 0.58
9 8 0.18
10 6 0.13
11 5 0.11
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (8 bp):
TTATATTA
Found at i:24370124 original size:19 final size:20
Alignment explanation
Indices: 24370059--24370126 Score: 83
Period size: 19 Copynumber: 3.6 Consensus size: 20
24370049 TTTTATATTA
24370059 TTATATTATTATA--ATAAG
1 TTATATTATTATATTATAAG
*
24370077 TTATATTATTATGTT-TGAA-
1 TTATATTATTATATTAT-AAG
24370096 TTATATTATTATATTATAAG
1 TTATATTATTATATTATAAG
24370116 TTATA-TATTAT
1 TTATATTATTAT
24370127 GAAACATATA
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
18 12 0.28
19 23 0.53
20 8 0.19
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (20 bp):
TTATATTATTATATTATAAG
Found at i:24371927 original size:819 final size:819
Alignment explanation
Indices: 24370285--24373037 Score: 4574
Period size: 819 Copynumber: 3.4 Consensus size: 819
24370275 TTATATTTAA
24370285 ATTATACATACTGCATAAAATTGAAATAATTTTATAAATTCATATTAATGTATCAATTT-AAATA
1 ATTATACATACTGCATAAAATTGAAATAATTTTATAAATTCATATTAATGTATCAATTTAAAATA
* *
24370349 ATGTCATAACAATTACCAAAATAAAAATTCTACTAAAAATCATTAAACTTATAAATAAAGACAAA
66 ATGTCATAACAATTATCAAAATAAAAAATCTACTAAAAATCATTAAACTTATAAATAAAGACAAA
* * *
24370414 TAAAATAAATTAAAAAATTAG-GGACACTTATACAAAAAACGCCGCTGTAGAACAAGATTTGTGG
131 TAAAATAAATTAAAAAATTAGCGG-CGCTTATACAGAAAACGCCGCTATAGAACAAGATTTGTGG
* * **
24370478 CGTTTATTGCAAAAACGCCGTAAAATGTGTAACCGAAACGACTTCATTTTTATGTTGTTTATTGG
195 CGTTTATTGCAAAAACGCCGCAAAATGTGTAACCGAAACGACTTCGTTTTTATACTGTTTATTGG
*
24370543 TATTAGCGGCGTTTTTACTTTTTTGTAAAAACGCCGCAAATGAAAGTTATGTATTTTAGGGTTTT
260 TATTAGCGGCG-------TTTTTTGTAAAAACGCCGCAAATGAAAGTTATGTATTTTAGGGTATT
*
24370608 GGGATTAATATTTAAGTTTTGTTGTATACAGTTTGGGGTTTTAGGGTTCGATACATAATGTTTAT
318 GGGATTAATATTTAAGTTTTGTTGTATACGGTTTGGGGTTTTAGGGTTCGATACATAATGTTTAT
* * **
24370673 TAATTTAGAATTACAATTTTATGTTTAGGGTTTTGGGTTTAGGTTTATGGCTTGAGGAACAGGGT
383 TAATTTAGGATTATAATTTTATGTTTAGGGTTTTGGGTTTAGGTTTATGGCTTGAGGAATGGGGT
*
24370738 TTAGGGTTTGAGTTTACATGTTAGTTTTAATGCGAGGTTTACAGCTTATAAGATATATTAATGAT
448 TTAGGGTTTGAGTTTACATGTTAGTTTTAATGCGAGGTTTACGGCTTATAAGATATATTAATGAT
*
24370803 CAAATTTATTATTTTACGGCTTGATGTTTATGGTTTATGGTTTACCCTTATTGATTTGAATGTTA
513 CAAATTTATTGTTTTACGGCTTGATGTTTATGGTTTATGGTTTACCCTTATTGATTTGAATGTTA
*
24370868 CAATGCTTGGTTTTTGTGTTCGGATTTGCATGAAGAATATGAGGTAGCTAGGGTTTAGCCTTTAA
578 CAATGCTTGGTTTTTGTGTTCGGATTTGCATGAAGAATATGAGTTAGCTAGGGTTTAGCCTTTAA
24370933 TTTTAATGTTTACGGGTTATAAGGATTAATAGCTTCGGGTTTTAGGGTACAAAAGAAAAAAAAAT
643 TTTTAATGTTTACGGGTTATAAGGATTAATAGCTTCGGGTTTTAGGGTACAAAAGAAAAAAAAAT
24370998 TAAAATTCTTTTTGCTTTTTACTTCTTATTATGTCACTAGTATATAGGATTATAAGAGACAGGGT
708 TAAAATTCTTTTTGCTTTTTACTTCTTATTATGTCACTAGTATATAGGATTATAAGAGACAGGGT
24371063 TATATATATAATATGCCACGATATATATCTATGCATATATGTTATAT
773 TATATATATAATATGCCACGATATATATCTATGCATATATGTTATAT
*
24371110 ATTATACATATTGCATAAAATTGAAATAATTTTATAAATTCATATTAATGTATCAATTTAAAATA
1 ATTATACATACTGCATAAAATTGAAATAATTTTATAAATTCATATTAATGTATCAATTTAAAATA
*
24371175 ATGTCATAACAATTATCAAAATAAAAAATCTACTAAAAATCATTAGACTTATAAATAAAGACAAA
66 ATGTCATAACAATTATCAAAATAAAAAATCTACTAAAAATCATTAAACTTATAAATAAAGACAAA
24371240 TAAAATAAATTAAAAAATTAGCGGCGCTTATACAGAAAACGCCGCTATAGAACAAGATTTGTGGC
131 TAAAATAAATTAAAAAATTAGCGGCGCTTATACAGAAAACGCCGCTATAGAACAAGATTTGTGGC
24371305 GTTTATTGCAAAAACGCCGCAAAATGTGTAACCGAAACGACTTCGTTTTTATACTGTTTATTGGT
196 GTTTATTGCAAAAACGCCGCAAAATGTGTAACCGAAACGACTTCGTTTTTATACTGTTTATTGGT
24371370 ATTAGCGGCGTTTTTTGTAAAAACGCCGCAAATGAAAGTTATGTATTTTAGGGTATTGGGATTAA
261 ATTAGCGGCGTTTTTTGTAAAAACGCCGCAAATGAAAGTTATGTATTTTAGGGTATTGGGATTAA
24371435 TATTTAAGTTTTGTTGTATACGGTTTGGGGTTTTAGGGTTCGATACATAATGTTTATTAATTTAG
326 TATTTAAGTTTTGTTGTATACGGTTTGGGGTTTTAGGGTTCGATACATAATGTTTATTAATTTAG
*
24371500 GATTATAATTTTATGTTTAGGGTTTTGGGTTTAGGTTTACGGCTTGAGGAATGGGGTTTAGGGTT
391 GATTATAATTTTATGTTTAGGGTTTTGGGTTTAGGTTTATGGCTTGAGGAATGGGGTTTAGGGTT
24371565 TGAGTTTACATGTTAGTTTTAATGCGAGGTTTACGGCTTATAAGATATATTAATGATCAAATTTA
456 TGAGTTTACATGTTAGTTTTAATGCGAGGTTTACGGCTTATAAGATATATTAATGATCAAATTTA
24371630 TTGTTTTACGGCTTGATGTTTATGGTTTATGGTTTACCCTTATTGATTTGAATGTTACAATGCTT
521 TTGTTTTACGGCTTGATGTTTATGGTTTATGGTTTACCCTTATTGATTTGAATGTTACAATGCTT
24371695 GGTTTTTGTGTTCGGATTTGCATGAAGAATATGAGTTAGCTAGGGTTTAGCCTTTAATTTTAATG
586 GGTTTTTGTGTTCGGATTTGCATGAAGAATATGAGTTAGCTAGGGTTTAGCCTTTAATTTTAATG
24371760 TTTACGGGTTATAAGGATTAATAGCTTCGGGTTTTAGGGTACAAAAGAAAAAAAAATTAAAATTC
651 TTTACGGGTTATAAGGATTAATAGCTTCGGGTTTTAGGGTACAAAAGAAAAAAAAATTAAAATTC
24371825 TTTTTGCTTTTTACTTCTTATTATGTCACTAGTATATAGGATTATAAGAGACAGGGTTATATATA
716 TTTTTGCTTTTTACTTCTTATTATGTCACTAGTATATAGGATTATAAGAGACAGGGTTATATATA
24371890 TAATATGCCACGATATATATCTATGCATATATGTTATAT
781 TAATATGCCACGATATATATCTATGCATATATGTTATAT
* *
24371929 ATTATACATATTGCATAAAATTGAAATAATTTTATAAATTCATATTGATGTATCAATTTAAAATA
1 ATTATACATACTGCATAAAATTGAAATAATTTTATAAATTCATATTAATGTATCAATTTAAAATA
* *
24371994 ATGTCATAACAATTATCAAAATAAAAAATCTACTAAAAATCATTAGACTTATAAATAAAGACAAC
66 ATGTCATAACAATTATCAAAATAAAAAATCTACTAAAAATCATTAAACTTATAAATAAAGACAAA
* * *
24372059 TAAAATAAATTGAAAATTTAGCGGCGTTTATACAGAAAACGCCGCTATAGAACAAGA-TT-T---
131 TAAAATAAATTAAAAAATTAGCGGCGCTTATACAGAAAACGCCGCTATAGAACAAGATTTGTGGC
*
24372119 G-----T-----AA--CCG--AAA----T---------GACTTCGTTTTTATACTTTTTATTGGT
196 GTTTATTGCAAAAACGCCGCAAAATGTGTAACCGAAACGACTTCGTTTTTATACTGTTTATTGGT
*
24372157 ATTAGCGGCGTTTTTTGTAAAAACACCGCAAATGAAAGTTATGTATTTTAGGGTATTGGGATTAA
261 ATTAGCGGCGTTTTTTGTAAAAACGCCGCAAATGAAAGTTATGTATTTTAGGGTATTGGGATTAA
* *
24372222 TATTTAAGTTTTGTTGCATACGGTTTGGGGTTTTAGGGTTTGATACATAATGTTTATTAATTTAG
326 TATTTAAGTTTTGTTGTATACGGTTTGGGGTTTTAGGGTTCGATACATAATGTTTATTAATTTAG
*
24372287 GATTATAATTTTATGTTTAGGGTTTTAGGTTTAGGTTTATGGCTTGAGGAATGGGGTTTA-GGTT
391 GATTATAATTTTATGTTTAGGGTTTTGGGTTTAGGTTTATGGCTTGAGGAATGGGGTTTAGGGTT
*
24372351 TGAGTTTACATGTTAGTTTTAATGCGAGGTTTACGGCTTATAAG--AT-GTAATGATCAAATTTA
456 TGAGTTTACATGTTAGTTTTAATGCGAGGTTTACGGCTTATAAGATATATTAATGATCAAATTTA
* *
24372413 CTGTTTTACGGCTTGATGTTTATGGTTTATGGTTCACCCTTATTGATTTGAATGTTACAATGCTT
521 TTGTTTTACGGCTTGATGTTTATGGTTTATGGTTTACCCTTATTGATTTGAATGTTACAATGCTT
* *
24372478 GGTTTTTGCGTTCGGATTTGCATGAAGAATACGAGTTAGCTAGGGTTTAGCCTTTAATTTTAATG
586 GGTTTTTGTGTTCGGATTTGCATGAAGAATATGAGTTAGCTAGGGTTTAGCCTTTAATTTTAATG
* *
24372543 TTTACGGGTTATAGGGATTAATAGCTTCGGGTTTTTAGGGTACAAAAGCAAAAAAAA--AAAATT
651 TTTACGGGTTATAAGGATTAATAGCTTCGGG-TTTTAGGGTACAAAAGAAAAAAAAATTAAAATT
* * * *
24372606 CTTTCTGCTTTTTACTTCATATTATGTCACTAGTATATAGGATTATAAGTGACAGGGTTATTTAT
715 CTTTTTGCTTTTTACTTCTTATTATGTCACTAGTATATAGGATTATAAGAGACAGGGTTATATAT
24372671 ATAATATATGCCACGATATATATCTATGCATATATGTTATAT
780 AT-A-ATATGCCACGATATATATCTATGCATATATGTTATAT
* *
24372713 ATTATATATACTGCATAAAATTGAAATAATTTTATAAATGCATATTAATGTAT-AATTTAAAATA
1 ATTATACATACTGCATAAAATTGAAATAATTTTATAAATTCATATTAATGTATCAATTTAAAATA
* *
24372777 ATGTCATAACAATTAT--AAA-GAAAAATCTATTAAAAATCATTAAACTTATAAATAAAGACAAA
66 ATGTCATAACAATTATCAAAATAAAAAATCTACTAAAAATCATTAAACTTATAAATAAAGACAAA
*
24372839 T-AAATAAATTGAAAAAA-TAGCAGCGCTTATACAGAAAACGCCGCTATAGAACAAGATTTGTGG
131 TAAAATAAATT-AAAAAATTAGCGGCGCTTATACAGAAAACGCCGCTATAGAACAAGATTTGTGG
* *
24372902 CGTTTATTGCAAAAACGCCGCAAAATGTGTAACTGAAACGACTTTGTTTTTATACTGTTTATTGG
195 CGTTTATTGCAAAAACGCCGCAAAATGTGTAACCGAAACGACTTCGTTTTTATACTGTTTATTGG
* * * *
24372967 TATTAGGGGCGTTTTTCGTAAAAA-GGCGCAAATGAAAGTTTTGTATTTTAGGGTATTGGGATTA
260 TATTAGCGGCGTTTTTTGTAAAAACGCCGCAAATGAAAGTTATGTATTTTAGGGTATTGGGATTA
24373031 ATATTTA
325 ATATTTA
24373038 TAAATTTTAA
Statistics
Matches: 1828, Mismatches: 62, Indels: 91
0.92 0.03 0.05
Matches are distributed among these distances:
779 46 0.03
780 46 0.03
781 4 0.00
782 69 0.04
783 199 0.11
784 113 0.06
786 48 0.03
787 211 0.12
789 1 0.00
794 2 0.00
796 4 0.00
798 3 0.00
800 3 0.00
802 4 0.00
804 2 0.00
809 1 0.00
810 44 0.02
811 46 0.03
814 1 0.00
817 1 0.00
818 2 0.00
819 721 0.39
825 58 0.03
826 197 0.11
827 2 0.00
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.39
Consensus pattern (819 bp):
ATTATACATACTGCATAAAATTGAAATAATTTTATAAATTCATATTAATGTATCAATTTAAAATA
ATGTCATAACAATTATCAAAATAAAAAATCTACTAAAAATCATTAAACTTATAAATAAAGACAAA
TAAAATAAATTAAAAAATTAGCGGCGCTTATACAGAAAACGCCGCTATAGAACAAGATTTGTGGC
GTTTATTGCAAAAACGCCGCAAAATGTGTAACCGAAACGACTTCGTTTTTATACTGTTTATTGGT
ATTAGCGGCGTTTTTTGTAAAAACGCCGCAAATGAAAGTTATGTATTTTAGGGTATTGGGATTAA
TATTTAAGTTTTGTTGTATACGGTTTGGGGTTTTAGGGTTCGATACATAATGTTTATTAATTTAG
GATTATAATTTTATGTTTAGGGTTTTGGGTTTAGGTTTATGGCTTGAGGAATGGGGTTTAGGGTT
TGAGTTTACATGTTAGTTTTAATGCGAGGTTTACGGCTTATAAGATATATTAATGATCAAATTTA
TTGTTTTACGGCTTGATGTTTATGGTTTATGGTTTACCCTTATTGATTTGAATGTTACAATGCTT
GGTTTTTGTGTTCGGATTTGCATGAAGAATATGAGTTAGCTAGGGTTTAGCCTTTAATTTTAATG
TTTACGGGTTATAAGGATTAATAGCTTCGGGTTTTAGGGTACAAAAGAAAAAAAAATTAAAATTC
TTTTTGCTTTTTACTTCTTATTATGTCACTAGTATATAGGATTATAAGAGACAGGGTTATATATA
TAATATGCCACGATATATATCTATGCATATATGTTATAT
Found at i:24376225 original size:25 final size:26
Alignment explanation
Indices: 24376184--24376232 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
24376174 AAGATATAAA
24376184 AATAAAATCTTAATATAAAATATTTT
1 AATAAAATCTTAATATAAAATATTTT
*
24376210 AATATAAT-TTAATATAAAATATT
1 AATAAAATCTTAATATAAAATATT
24376233 ATTTTCAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (26 bp):
AATAAAATCTTAATATAAAATATTTT
Found at i:24376279 original size:15 final size:15
Alignment explanation
Indices: 24376259--24376295 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
24376249 ATATATAAAA
24376259 ATAAAATCTTTTAAT
1 ATAAAATCTTTTAAT
*
24376274 ATAAAATTTTTTAAT
1 ATAAAATCTTTTAAT
24376289 ATAAAAT
1 ATAAAAT
24376296 ATTATTCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (15 bp):
ATAAAATCTTTTAAT
Found at i:24376290 original size:38 final size:38
Alignment explanation
Indices: 24376177--24376291 Score: 96
Period size: 38 Copynumber: 3.1 Consensus size: 38
24376167 ACCAACGAAG
*
24376177 ATATAAAAATAAAATC--TTAATATAAAATATTTTAAT
1 ATATAAAAATAAAATCTTTTAATATAAAATTTTTTAAT
* * * * ***
24376213 ATAATTTAATATAAAATATTATT--T-TCAAATTTCAGAAT
1 AT-A-TAAAAATAAAATCTT-TTAATATAAAATTTTTTAAT
24376251 ATATAAAAATAAAATCTTTTAATATAAAATTTTTTAAT
1 ATATAAAAATAAAATCTTTTAATATAAAATTTTTTAAT
24376289 ATA
1 ATA
24376292 AAATATTATT
Statistics
Matches: 56, Mismatches: 15, Indels: 14
0.66 0.18 0.16
Matches are distributed among these distances:
35 2 0.04
36 14 0.25
37 3 0.05
38 34 0.61
39 1 0.02
41 2 0.04
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (38 bp):
ATATAAAAATAAAATCTTTTAATATAAAATTTTTTAAT
Found at i:24387117 original size:19 final size:20
Alignment explanation
Indices: 24387077--24387120 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
24387067 GTCTCTTTAG
* *
24387077 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
24387096 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
24387115 GCATTA
1 GCATTA
24387121 GATTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:24389181 original size:10 final size:9
Alignment explanation
Indices: 24389167--24389232 Score: 95
Period size: 9 Copynumber: 7.7 Consensus size: 9
24389157 TTCAGACTAA
24389167 AAAAAAATC
1 AAAAAAATC
24389176 AAAAAAATC
1 AAAAAAATC
24389185 AAAAAATATC
1 AAAAAA-ATC
24389195 -AAAAAATC
1 AAAAAAATC
24389203 AAAAAAATC
1 AAAAAAATC
24389212 -AAAAAATC
1 AAAAAAATC
24389220 --AAAAATC
1 AAAAAAATC
24389227 AAAAAA
1 AAAAAA
24389233 TAAAAGTCAA
Statistics
Matches: 53, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
7 7 0.13
8 11 0.21
9 32 0.60
10 3 0.06
ACGTcount: A:0.77, C:0.11, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAAAAATC
Found at i:24389261 original size:17 final size:17
Alignment explanation
Indices: 24389248--24389291 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
24389238 GTCAAAATAG
24389248 GAAAAAAAGAAAAAGAA
1 GAAAAAAAGAAAAAGAA
*
24389265 GAAAAGAAGAAAAAGAA
1 GAAAAAAAGAAAAAGAA
*
24389282 AAAGAAAAAG
1 GAA-AAAAAG
24389292 GAAAGGTCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 18 0.78
18 5 0.22
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (17 bp):
GAAAAAAAGAAAAAGAA
Found at i:24389262 original size:6 final size:6
Alignment explanation
Indices: 24389251--24389291 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
24389241 AAAATAGGAA
* *
24389251 AAAAAG AAAAAG AAGAA- AAGAAG AAAAAG AAAAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
24389292 GAAAGGTCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
5 5 0.16
6 27 0.84
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:24389296 original size:17 final size:16
Alignment explanation
Indices: 24389251--24389296 Score: 53
Period size: 14 Copynumber: 3.0 Consensus size: 16
24389241 AAAATAGGAA
24389251 AAAAAGAAAAAG-AAG
1 AAAAAGAAAAAGAAAG
*
24389266 -AAAAGAAGAA-AAAG
1 AAAAAGAAAAAGAAAG
24389280 AAAAAGAAAAAGGAAAG
1 AAAAAGAAAAA-GAAAG
24389297 GTCAAAGCGA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
14 12 0.48
15 9 0.36
17 4 0.16
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (16 bp):
AAAAAGAAAAAGAAAG
Found at i:24391556 original size:41 final size:41
Alignment explanation
Indices: 24391510--24391704 Score: 126
Period size: 41 Copynumber: 4.6 Consensus size: 41
24391500 TTGAAGAAAG
*
24391510 GATCTTATCTCTCTAA-AGTTACAGTAGAGTAGATCGTGTCA
1 GATCTTATCTCCCTAAGA-TTACAGTAGAGTAGATCGTGTCA
* ** * * * *
24391551 GATCTTATCTCCCTGAGATTACAGCGGAGTAAATTGAAGTTA
1 GATCTTATCTCCCTAAGATTACAGTAGAGTAGATCG-TGTCA
* * * * * ** *
24391593 GTAATCCTATCTCCCTGAGATTACAGTGGAATGGATTAAAATG-AA
1 G--ATCTTATCTCCCTAAGATTACAGTAGAGTAGA-T--CGTGTCA
*
24391638 GGATCTTATCTCTCTAA-AGTTACAGTAGAGTAGATCGTGTCA
1 -GATCTTATCTCCCTAAGA-TTACAGTAGAGTAGATCGTGTCA
*
24391680 GATCTTATCTCCCTGAGATTACAGT
1 GATCTTATCTCCCTAAGATTACAGT
24391705 GGAACAGACC
Statistics
Matches: 115, Mismatches: 28, Indels: 22
0.70 0.17 0.13
Matches are distributed among these distances:
41 51 0.44
42 7 0.06
43 2 0.02
44 51 0.44
45 2 0.02
46 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.32
Consensus pattern (41 bp):
GATCTTATCTCCCTAAGATTACAGTAGAGTAGATCGTGTCA
Found at i:24391648 original size:44 final size:44
Alignment explanation
Indices: 24391551--24391649 Score: 101
Period size: 44 Copynumber: 2.2 Consensus size: 44
24391541 GATCGTGTCA
* * * *
24391551 GATCTTATCTCCCTGAGATTACAGCGGAGTAAATTGAAGTTAGT
1 GATCTTATCTCCCTGAGATTACAGCGGAATAAATTAAAATAAGT
* * * **
24391595 AATCCTATCTCCCTGAGATTACAGTGGAATGGATTAAAATGAAG-
1 GATCTTATCTCCCTGAGATTACAGCGGAATAAATTAAAAT-AAGT
24391639 GATCTTATCTC
1 GATCTTATCTC
24391650 TCTAAAGTTA
Statistics
Matches: 43, Mismatches: 11, Indels: 2
0.77 0.20 0.04
Matches are distributed among these distances:
44 41 0.95
45 2 0.05
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.31
Consensus pattern (44 bp):
GATCTTATCTCCCTGAGATTACAGCGGAATAAATTAAAATAAGT
Found at i:24391787 original size:25 final size:25
Alignment explanation
Indices: 24391753--24391802 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
24391743 ATTACAGCGG
24391753 ATCAGATTGAAGTTAGTAATCCTAT
1 ATCAGATTGAAGTTAGTAATCCTAT
24391778 ATCAGATTGAAGTTAGTAATCCTAT
1 ATCAGATTGAAGTTAGTAATCCTAT
24391803 CTCCCTGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (25 bp):
ATCAGATTGAAGTTAGTAATCCTAT
Found at i:24391843 original size:44 final size:44
Alignment explanation
Indices: 24391780--24392394 Score: 387
Period size: 44 Copynumber: 14.1 Consensus size: 44
24391770 AATCCTATAT
* *
24391780 CAGATTGAAGTTAGTAATCCTATCTCCCTGAGATTACAGTGGAG
1 CAGATTGAAGATAGTAATCTTATCTCCCTGAGATTACAGTGGAG
* * *
24391824 CAGATTGAAGCTAGTAATCCTATCTCCTTGAGATTACAGTGGAG
1 CAGATTGAAGATAGTAATCTTATCTCCCTGAGATTACAGTGGAG
* * * * **
24391868 CGGATT-AAAATAAAG-GATCTTATCTCTCTGA-AGTTACAGCAGAG
1 CAGATTGAAGAT--AGTAATCTTATCTCCCTGAGA-TTACAGTGGAG
* * * * * *
24391912 TAGATCG-CG-TCAGGT--T-TTATTTCCCTAAGATTACAGTGGAA
1 CAGATTGAAGAT-A-GTAATCTTATCTCCCTGAGATTACAGTGGAG
** **
24391953 CAGACCGAAGATTTTCAGATCTTATCTCCCTGAGATTACAGTGGAG
1 CAGATTGAAGATAGT-A-ATCTTATCTCCCTGAGATTACAGTGGAG
* * *
24391999 CAGATTGAAGCTAGTAATCCTATCTCCTTGAGATTACAGTGGAG
1 CAGATTGAAGATAGTAATCTTATCTCCCTGAGATTACAGTGGAG
* * * * *
24392043 CGGATT-AAAATAAAG-GATCTTATCTCTCTGA-AGTTACAGTAGAG
1 CAGATTGAAGAT--AGTAATCTTATCTCCCTGAGA-TTACAGTGGAG
* * * *
24392087 TAGATTG-TG-TCAG--ATCTTATCTCCCTGAGATTAAAGCGGAG
1 CAGATTGAAGAT-AGTAATCTTATCTCCCTGAGATTACAGTGGAG
* * *
24392128 CAGATTAAAGATAGTAATCCTATCTCCCTGAGATTACAGTAGAG
1 CAGATTGAAGATAGTAATCTTATCTCCCTGAGATTACAGTGGAG
* * *
24392172 CAGATT-AAAATAAAG-GATCTTATCTCCCTGAGATTACAGCGGAG
1 CAGATTGAAGAT--AGTAATCTTATCTCCCTGAGATTACAGTGGAG
* * *
24392216 TAGATTAAAGATAGTAATCCTATCTCCCTGAGATTACAGTGGAG
1 CAGATTGAAGATAGTAATCTTATCTCCCTGAGATTACAGTGGAG
* * * * *
24392260 CGGATT-AAAATAAAG-GATCTTATCTCTCTGA-AGTTACAGTAGAG
1 CAGATTGAAGAT--AGTAATCTTATCTCCCTGAGA-TTACAGTGGAG
* * * * *
24392304 AAGATCG--TATCAG--GTCTTATCTCCCTGAGATTACAGCGGAG
1 CAGATTGAAGAT-AGTAATCTTATCTCCCTGAGATTACAGTGGAG
* * * * *
24392345 CAGATTGATGCTAGTAATCCTATTTCCCTGAGATTATAGTGGAG
1 CAGATTGAAGATAGTAATCTTATCTCCCTGAGATTACAGTGGAG
*
24392389 CGGATT
1 CAGATT
24392395 AAAACAAAGG
Statistics
Matches: 437, Mismatches: 98, Indels: 72
0.72 0.16 0.12
Matches are distributed among these distances:
41 77 0.18
42 15 0.03
43 27 0.06
44 272 0.62
45 14 0.03
46 32 0.07
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.29
Consensus pattern (44 bp):
CAGATTGAAGATAGTAATCTTATCTCCCTGAGATTACAGTGGAG
Found at i:24391951 original size:85 final size:85
Alignment explanation
Indices: 24391844--24392224 Score: 272
Period size: 85 Copynumber: 4.4 Consensus size: 85
24391834 CTAGTAATCC
* * *
24391844 TATCTCCTTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCA
1 TATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
* *
24391909 GAGTAGATCGCGTCAGGTTT
66 GAGTAGATTGAGTCAGGTTT
* * * ** * ** *
24391929 TATTTCCCTAAGATTACAGTGGAACAGACCGAAGATTTTCA-GATCTTATCTCCCTG-AGATTAC
1 TATCTCCCTGAGATTACAGTGGAGCAGA-TTAA-A-ATAAAGGATCTTATCTCTCTGAAG-TTAC
* * *
24391992 AGTGGAGCAGATTGAAG-CTA-GTAATCC
62 AGTAGAGTAGATTG-AGTC-AGGT--T-T
* *
24392019 TATCTCCTTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
1 TATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
* * *
24392084 GAGTAGATTGTGTCAGATCT
66 GAGTAGATTGAGTCAGGTTT
* * * * *
24392104 TATCTCCCTGAGATTAAAGCGGAGCAGATTAAAGAT--AGTAATCCTATCTCCCTG-AGATTACA
1 TATCTCCCTGAGATTACAGTGGAGCAGATTAAA-ATAAAG-GATCTTATCTCTCTGAAG-TTACA
* * * * *
24392166 GTAGAGCAGATTAAAATAAAGGATCT
63 GTAGAGTAGATT-GAGT-CAGG-TTT
* *
24392192 TATCTCCCTGAGATTACAGCGGAGTAGATTAAA
1 TATCTCCCTGAGATTACAGTGGAGCAGATTAAA
24392225 GATAGTAATC
Statistics
Matches: 228, Mismatches: 49, Indels: 35
0.73 0.16 0.11
Matches are distributed among these distances:
84 4 0.02
85 80 0.35
86 7 0.03
87 38 0.17
88 71 0.31
89 5 0.02
90 23 0.10
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.29
Consensus pattern (85 bp):
TATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
GAGTAGATTGAGTCAGGTTT
Found at i:24391985 original size:244 final size:244
Alignment explanation
Indices: 24391556--24392021 Score: 761
Period size: 244 Copynumber: 1.9 Consensus size: 244
24391546 TGTCAGATCT
* *
24391556 TATCTCCCTGAGATTACAGCGGAGTAAATTGAAGTTAGTAATCCTATCTCCCTGAGATTACAGTG
1 TATCTCCCTGAGATTACAGCGGAGCAAATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTG
* * * *
24391621 GAATGGATTAAAATGAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGTGTCAGATCTT
66 GAACGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGCAGAGTAGATCGCGTCAGATCTT
*
24391686 ATCTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGC
131 ATCTCCCTAAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGC
* *
24391751 GGATCAGATTGAAGTTAGTAATCCTATATCAGATTGAAGTTAGTAATCC
196 GGAGCAGATTGAAGCTAGTAATCCTATATCAGATTGAAGTTAGTAATCC
* * *
24391800 TATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCTTGAGATTACAGTG
1 TATCTCCCTGAGATTACAGCGGAGCAAATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTG
* * * *
24391865 GAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGTCAGGTTTT
66 GAACGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGCAGAGTAGATCGCGTCAGATCTT
* * *
24391930 ATTTCCCTAAGATTACAGTGGAACAGACCGAAGATTTTCAGATCTTATCTCCCTGAGATTACAGT
131 ATCTCCCTAAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGC
24391995 GGAGCAGATTGAAGCTAGTAATCCTAT
196 GGAGCAGATTGAAGCTAGTAATCCTAT
24392022 CTCCTTGAGA
Statistics
Matches: 203, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
244 203 1.00
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (244 bp):
TATCTCCCTGAGATTACAGCGGAGCAAATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTG
GAACGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGCAGAGTAGATCGCGTCAGATCTT
ATCTCCCTAAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGC
GGAGCAGATTGAAGCTAGTAATCCTATATCAGATTGAAGTTAGTAATCC
Found at i:24392250 original size:217 final size:217
Alignment explanation
Indices: 24391970--24392419 Score: 729
Period size: 217 Copynumber: 2.1 Consensus size: 217
24391960 AAGATTTTCA
* * * *
24391970 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCTTGAGATTA
1 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAGATAGTAATCCTATCTCCCTGAGATTA
* * *
24392035 CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATTGTGTCAG
66 CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGTATCAG
24392100 ATCTTATCTCCCTGAGATTAAAGCGGAGCAGATTAAAGATAGTAATCCTATCTCCCTGAGATTAC
131 ATCTTATCTCCCTGAGATTAAAGCGGAGCAGATTAAAGATAGTAATCCTATCTCCCTGAGATTAC
*
24392165 AGTAGAGCAGATTAAAATAAAG
196 AGTAGAGCAGATTAAAACAAAG
*
24392187 GATCTTATCTCCCTGAGATTACAGCGGAGTAGATTAAAGATAGTAATCCTATCTCCCTGAGATTA
1 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAGATAGTAATCCTATCTCCCTGAGATTA
24392252 CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGTATCAG
66 CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGTATCAG
* * * * * * *
24392317 GTCTTATCTCCCTGAGATTACAGCGGAGCAGATTGATGCTAGTAATCCTATTTCCCTGAGATTAT
131 ATCTTATCTCCCTGAGATTAAAGCGGAGCAGATTAAAGATAGTAATCCTATCTCCCTGAGATTAC
* *
24392382 AGTGGAGCGGATTAAAACAAAG
196 AGTAGAGCAGATTAAAACAAAG
*
24392404 GATCTTATCTCACTGA
1 GATCTTATCTCCCTGA
24392420 AGTTATAATA
Statistics
Matches: 214, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
217 214 1.00
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.29
Consensus pattern (217 bp):
GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAGATAGTAATCCTATCTCCCTGAGATTA
CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGTATCAG
ATCTTATCTCCCTGAGATTAAAGCGGAGCAGATTAAAGATAGTAATCCTATCTCCCTGAGATTAC
AGTAGAGCAGATTAAAACAAAG
Found at i:24392398 original size:129 final size:129
Alignment explanation
Indices: 24391800--24392504 Score: 597
Period size: 129 Copynumber: 5.4 Consensus size: 129
24391790 TTAGTAATCC
*
24391800 TATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCTTGAGATTACAGTG
1 TATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTG
* * ** *
24391865 GAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGTCAGGTTT
66 GAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGAATCAGGTCT
* * * ** * ** *
24391929 TATTTCCCTAAGATTACAGTGGAACAGACCGAAGATTTTCAGATCTTATCTCCCTGAGATTACAG
1 TATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGT-A-ATCCTATCTCCCTGAGATTACAG
* ** * * * * **
24391994 TGGAGCAGATTGAAGCT--AGTAATCCTATCTC-CTTG-AGATTACAGTGGAGCGGATTAAAATA
64 TGGAGCGGATT-AAAATAAAG-GATCTTATCTCTC-TGAAG-TTACAGTAGAGCAGA-TCGAAT-
*
24392055 AAGGATCT
123 CAGG-TCT
* * * * * *
24392063 TATCTCTCTGA-AGTTACAGTAGAGTAGATTG-TG-TCAG--ATCTTATCTCCCTGAGATTAAAG
1 TATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGCT-AGTAATCCTATCTCCCTGAGATTACAG
* * * * * ** *
24392123 CGGAGCAGATTAAAGAT--AGTAATCCTATCTCCCTG-AGATTACAGTAGAGCAGATTAAAATAA
64 TGGAGCGGATTAAA-ATAAAG-GATCTTATCTCTCTGAAG-TTACAGTAGAGCAGA-TCGAAT-C
24392185 AGGATCT
124 AGG-TCT
* * * *
24392192 TATCTCCCTGAGATTACAGCGGAGTAGATTAAAGATAGTAATCCTATCTCCCTGAGATTACAGTG
1 TATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTG
* *
24392257 GAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGTATCAGGTCT
66 GAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGAATCAGGTCT
* * * *
24392321 TATCTCCCTGAGATTACAGCGGAGCAGATTGATGCTAGTAATCCTATTTCCCTGAGATTATAGTG
1 TATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTG
* * * * * * *
24392386 GAGCGGATTAAAACAAAGGATCTTATCTCACTGAAGTTATAATAGAGTAGATCGCATCAGGTTT
66 GAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGAATCAGGTCT
* * * * * * * *
24392450 TACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCTCTGA
1 TATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGA
24392505 CGTTGCGGAG
Statistics
Matches: 472, Mismatches: 83, Indels: 42
0.79 0.14 0.07
Matches are distributed among these distances:
128 2 0.00
129 300 0.64
130 14 0.03
131 59 0.12
132 65 0.14
133 9 0.02
134 23 0.05
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (129 bp):
TATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTG
GAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGAATCAGGTCT
Found at i:24404713 original size:30 final size:29
Alignment explanation
Indices: 24404678--24404842 Score: 102
Period size: 29 Copynumber: 5.6 Consensus size: 29
24404668 AAAAAAATAT
*
24404678 AAATTACATTTTGGCCCCTAAACTTTTAAA
1 AAATTACATTTTGGCCCCTAAACTTTT-TA
** * *
24404708 AAATTATGTTTT-GACCCTTAACTTTTTCTA
1 AAATTACATTTTGGCCCCTAAAC-TTTT-TA
* * *
24404738 AATTTACATTTTGACCCCTAATA-TTTTTT
1 AAATTACATTTTGGCCCCTAA-ACTTTTTA
* * *
24404767 AAATTACACTTGGGCCCCTAAACTTTCTA
1 AAATTACATTTTGGCCCCTAAACTTTTTA
* * * *
24404796 GAAATTACACTTTAG-CCCTATATTTTTCTA
1 -AAATTACATTTTGGCCCCTAAACTTTT-TA
* *
24404826 AAATTGCATTTTTGCCC
1 AAATTACATTTTGGCCC
24404843 TAGAAACTTT
Statistics
Matches: 101, Mismatches: 27, Indels: 14
0.71 0.19 0.10
Matches are distributed among these distances:
28 1 0.01
29 50 0.50
30 44 0.44
31 5 0.05
32 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.42
Consensus pattern (29 bp):
AAATTACATTTTGGCCCCTAAACTTTTTA
Found at i:24404740 original size:29 final size:29
Alignment explanation
Indices: 24404716--24404837 Score: 81
Period size: 30 Copynumber: 4.1 Consensus size: 29
24404706 AAAAATTATG
*
24404716 TTTTGACCCTTAACT-TTTTCTAAATTTACA
1 TTTTGACCCCTAA-TATTTTCTAAA-TTACA
*
24404746 TTTTGACCCCTAATATTTTTTAAATTACA
1 TTTTGACCCCTAATATTTTCTAAATTACA
* * * *
24404775 CTTGGGCCCCTAA-ACTTTCTAGAAATTACA
1 TTTTGACCCCTAATATTTTCT--AAATTACA
* * *
24404805 CTTT-AGCCCT-ATATTTTTCTAAAATTGCA
1 TTTTGACCCCTAATA-TTTTCT-AAATTACA
24404834 TTTT
1 TTTT
24404838 TGCCCTAGAA
Statistics
Matches: 73, Mismatches: 14, Indels: 11
0.74 0.14 0.11
Matches are distributed among these distances:
28 6 0.08
29 31 0.42
30 36 0.49
ACGTcount: A:0.28, C:0.20, G:0.07, T:0.45
Consensus pattern (29 bp):
TTTTGACCCCTAATATTTTCTAAATTACA
Found at i:24405391 original size:104 final size:105
Alignment explanation
Indices: 24405232--24405469 Score: 322
Period size: 104 Copynumber: 2.2 Consensus size: 105
24405222 AGAAGCAGCC
* * *
24405232 AAGAAGAAAG-AG-AAGAATAAAGAAGAAGAGAAGAGGAGACGCCGGAGACCGTCGCACCGGGCG
1 AAGAAGAAAGAAGAAAG-A-AAA-AAGAAGAGAAGAGGAGACGCCAGAGACCGTCGCACCAGACG
* *
24405295 GAGGAAGCGGCGACGGCGAGGAAGAGCAA-AGTCGAAGGGAAGG
63 GAGGAAGCGACGACGGCGAGAAAGAG-AAGAGTCGAAGGGAAGG
* * *
24405338 AAGAAGAAAGAAGAAAGAAAAAA-AAGAGAAGAGGGGGCGTCAGAGACCGTCGCACCAGACGGAG
1 AAGAAGAAAGAAGAAAGAAAAAAGAAGAGAAGAGGAGACGCCAGAGACCGTCGCACCAGACGGAG
24405402 GAAGCGACGACGGCGAGAAAGAGAAGAGTCGAAGGGAAGG
66 GAAGCGACGACGGCGAGAAAGAGAAGAGTCGAAGGGAAGG
24405442 AAGAAGAAAGAAAGAAAGAAAAAGAGAA
1 AAGAAGAAAG-AAGAAAGAAAAA-AGAA
24405470 AAAAAAGAAA
Statistics
Matches: 118, Mismatches: 8, Indels: 11
0.86 0.06 0.08
Matches are distributed among these distances:
103 2 0.02
104 80 0.68
105 14 0.12
106 14 0.12
107 5 0.04
108 3 0.03
ACGTcount: A:0.47, C:0.13, G:0.38, T:0.03
Consensus pattern (105 bp):
AAGAAGAAAGAAGAAAGAAAAAAGAAGAGAAGAGGAGACGCCAGAGACCGTCGCACCAGACGGAG
GAAGCGACGACGGCGAGAAAGAGAAGAGTCGAAGGGAAGG
Found at i:24405476 original size:25 final size:26
Alignment explanation
Indices: 24405442--24405519 Score: 92
Period size: 25 Copynumber: 3.1 Consensus size: 26
24405432 GAAGGGAAGG
24405442 AAGAAGAAAGAAAGAAAGAAA-AAGAGA
1 AAGAA-AAAGAAAGAAA-AAAGAAGAGA
24405469 AA-AAAAAGAAAGAAAAAAGAAGAGA
1 AAGAAAAAGAAAGAAAAAAGAAGAGA
* *
24405494 AAGAAAAA-AGAGAAAAAGGAA-AGA
1 AAGAAAAAGAAAGAAAAAAGAAGAGA
24405518 AA
1 AA
24405520 AAATATAAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
24 8 0.17
25 30 0.64
26 7 0.15
27 2 0.04
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (26 bp):
AAGAAAAAGAAAGAAAAAAGAAGAGA
Found at i:24405489 original size:36 final size:36
Alignment explanation
Indices: 24405442--24405522 Score: 119
Period size: 36 Copynumber: 2.2 Consensus size: 36
24405432 GAAGGGAAGG
*
24405442 AAGAAGAAAGAA-AGAAAGAAAAAGAGAAAAAAAAGA
1 AAGAAAAAAGAAGAGAAAGAAAAA-AGAAAAAAAAGA
* *
24405478 AAGAAAAAAGAAGAGAAAGAAAAAAGAGAAAAAGGA
1 AAGAAAAAAGAAGAGAAAGAAAAAAGAAAAAAAAGA
24405514 AAGAAAAAA
1 AAGAAAAAA
24405523 TATAAAAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
36 30 0.73
37 11 0.27
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (36 bp):
AAGAAAAAAGAAGAGAAAGAAAAAAGAAAAAAAAGA
Found at i:24405496 original size:16 final size:16
Alignment explanation
Indices: 24405445--24405504 Score: 70
Period size: 16 Copynumber: 3.7 Consensus size: 16
24405435 GGGAAGGAAG
*
24405445 AAGAAAGAAAGAAAGAAA
1 AAGAAA-AAAG-AAGAGA
24405463 AAGAGAAAAA-AA-AGA
1 AAGA-AAAAAGAAGAGA
24405478 AAGAAAAAAGAAGAGA
1 AAGAAAAAAGAAGAGA
24405494 AAGAAAAAAGA
1 AAGAAAAAAGA
24405505 GAAAAAGGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
14 5 0.13
15 8 0.21
16 16 0.42
18 7 0.18
19 2 0.05
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (16 bp):
AAGAAAAAAGAAGAGA
Found at i:24405515 original size:16 final size:15
Alignment explanation
Indices: 24405443--24405511 Score: 63
Period size: 16 Copynumber: 4.5 Consensus size: 15
24405433 AAGGGAAGGA
24405443 AGAAGAAAGAAAGAAAG
1 AGAA-AAAGAAA-AAAG
24405460 A-AAAAGAGAAAAAA-
1 AGAAAA-AGAAAAAAG
*
24405474 A-AGAAAGAAAAAAG
1 AGAAAAAGAAAAAAG
*
24405488 AAGAGAAAGAAAAAAG
1 -AGAAAAAGAAAAAAG
24405504 AGAAAAAG
1 AGAAAAAG
24405512 GAAAGAAAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
13 8 0.17
14 4 0.09
15 13 0.28
16 20 0.43
17 1 0.02
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (15 bp):
AGAAAAAGAAAAAAG
Found at i:24405530 original size:20 final size:20
Alignment explanation
Indices: 24405455--24405522 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
24405445 AAGAAAGAAA
24405455 GAAAG-AAAAAGAGAAAAA-
1 GAAAGAAAAAAGAGAAAAAG
*
24405473 -AAAGAAAGAAA-A-AAGAAG
1 GAAAGAAA-AAAGAGAAAAAG
24405491 AGAAAGAAAAAAGAGAAAAAG
1 -GAAAGAAAAAAGAGAAAAAG
24405512 GAAAGAAAAAA
1 GAAAGAAAAAA
24405523 TATAAAAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
17 8 0.20
18 3 0.07
19 6 0.15
20 19 0.46
21 5 0.12
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (20 bp):
GAAAGAAAAAAGAGAAAAAG
Found at i:24405594 original size:21 final size:21
Alignment explanation
Indices: 24405570--24405610 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
24405560 CCGACTGAAC
24405570 CGACCCGACCAGTGCAACCCG
1 CGACCCGACCAGTGCAACCCG
*
24405591 CGACCCGACCCGTGCAACCC
1 CGACCCGACCAGTGCAACCC
24405611 AGCAGGCCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.22, C:0.51, G:0.22, T:0.05
Consensus pattern (21 bp):
CGACCCGACCAGTGCAACCCG
Found at i:24406249 original size:19 final size:20
Alignment explanation
Indices: 24406205--24406248 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
24406195 AAAAATATCC
**
24406205 AAAAATCCTCGTGTTTTTTT
1 AAAAATCCTCGTGTTTTAAT
*
24406225 AAAAATTCTCGTGTTTTAAT
1 AAAAATCCTCGTGTTTTAAT
24406245 AAAA
1 AAAA
24406249 TCCCGATTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.43
Consensus pattern (20 bp):
AAAAATCCTCGTGTTTTAAT
Found at i:24406403 original size:30 final size:30
Alignment explanation
Indices: 24406369--24406543 Score: 126
Period size: 30 Copynumber: 5.9 Consensus size: 30
24406359 CAAAAAATAT
24406369 AAATTACATTTTGGCCCCTAAACTTTTCAA
1 AAATTACATTTTGGCCCCTAAACTTTTCAA
* *
24406399 AAATTACATTTTGACCCCT-AACTTTTTCTA
1 AAATTACATTTTGGCCCCTAAAC-TTTTCAA
* * * *
24406429 AATTTACATCTTGACCCCTAATA-TTTT-AT
1 AAATTACATTTTGGCCCCTAA-ACTTTTCAA
* * *
24406458 AAATTACACTTGGGCCCCTAAAC-TTTCTAG
1 AAATTACATTTTGGCCCCTAAACTTTTC-AA
* * * * *
24406488 AAATTACACTTTAG-CCCTATATTTTTCTA
1 AAATTACATTTTGGCCCCTAAACTTTTCAA
* * *
24406517 AAATTGCATTTTTGCCCCAGAAACTTT
1 AAATTACATTTTGGCCCC-TAAACTTT
24406544 GCGCCCTCTA
Statistics
Matches: 112, Mismatches: 24, Indels: 17
0.73 0.16 0.11
Matches are distributed among these distances:
28 4 0.04
29 36 0.32
30 65 0.58
31 6 0.05
32 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (30 bp):
AAATTACATTTTGGCCCCTAAACTTTTCAA
Found at i:24406827 original size:15 final size:15
Alignment explanation
Indices: 24406803--24406833 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
24406793 ACCACCCTCG
24406803 CGCAAACACCACCAC
1 CGCAAACACCACCAC
*
24406818 CGCAACCACCACCAC
1 CGCAAACACCACCAC
24406833 C
1 C
24406834 ACCTAAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.58, G:0.06, T:0.00
Consensus pattern (15 bp):
CGCAAACACCACCAC
Found at i:24407086 original size:20 final size:20
Alignment explanation
Indices: 24407050--24407101 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
24407040 ATGGGAGAAA
24407050 GAAAGAGAGAAAGGAAAAAG
1 GAAAGAGAGAAAGGAAAAAG
24407070 GAAATGAGAGAAA-GAAAAGAG
1 GAAA-GAGAGAAAGGAAAA-AG
*
24407091 AAAAGAAGAGA
1 GAAAG-AGAGA
24407102 GGAGATACCG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 10 0.36
21 18 0.64
ACGTcount: A:0.65, C:0.00, G:0.33, T:0.02
Consensus pattern (20 bp):
GAAAGAGAGAAAGGAAAAAG
Found at i:24407221 original size:18 final size:18
Alignment explanation
Indices: 24407198--24407256 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 18
24407188 GAAGGGGAAG
24407198 AAAGAAAATAGAAAGAAA
1 AAAGAAAATAGAAAGAAA
24407216 AAAGAAAA-A-AAAGAAA
1 AAAGAAAATAGAAAGAAA
*
24407232 AAGAAAAAATAG-AAG-AA
1 AA-AGAAAATAGAAAGAAA
24407249 AAAGAAAA
1 AAAGAAAA
24407257 AAAATAATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
16 14 0.39
17 10 0.28
18 12 0.33
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.03
Consensus pattern (18 bp):
AAAGAAAATAGAAAGAAA
Found at i:24407221 original size:22 final size:21
Alignment explanation
Indices: 24407195--24407270 Score: 73
Period size: 22 Copynumber: 3.4 Consensus size: 21
24407185 GAAGAAGGGG
24407195 AAGAAAGAAAATAGAAAGAAAA
1 AAGAAAGAAAA-AGAAAGAAAA
24407217 AAGAAA-AAAAAGAAAAAGAAAA
1 AAGAAAGAAAAAG--AAAGAAAA
* *
24407239 AATAGAAGAAAAAGAAAAAAAA
1 AAGA-AAGAAAAAGAAAGAAAA
*
24407261 TAATAAAGAA
1 -AAGAAAGAA
24407271 TAAAAAAACA
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
20 2 0.04
21 4 0.09
22 29 0.62
23 6 0.13
24 6 0.13
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.05
Consensus pattern (21 bp):
AAGAAAGAAAAAGAAAGAAAA
Found at i:24407227 original size:9 final size:9
Alignment explanation
Indices: 24407213--24407260 Score: 57
Period size: 9 Copynumber: 5.7 Consensus size: 9
24407203 AAATAGAAAG
24407213 AAAAAAGAA
1 AAAAAAGAA
24407222 AAAAAAG--
1 AAAAAAGAA
24407229 -AAAAAGAA
1 AAAAAAGAA
*
24407237 AAAATAGAA
1 AAAAAAGAA
*
24407246 GAAAAAGAA
1 AAAAAAGAA
24407255 AAAAAA
1 AAAAAA
24407261 TAATAAAGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
6 6 0.19
9 26 0.81
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.02
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:24407228 original size:27 final size:25
Alignment explanation
Indices: 24407198--24407277 Score: 83
Period size: 24 Copynumber: 3.1 Consensus size: 25
24407188 GAAGGGGAAG
24407198 AAAGAAAATAGAAAGAAAAAAGAAAAA
1 AAAGAAAA-AGAAA-AAAAAAGAAAAA
* *
24407225 AAAGAAAAAG-AAAAAATAGAAGAA
1 AAAGAAAAAGAAAAAAAAAGAAAAA
*
24407249 AAAGAAAAA-AAATAATAAAGAATAAA
1 AAAGAAAAAGAAA-AAAAAAGAA-AAA
24407275 AAA
1 AAA
24407278 ACAGCAGCAA
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
24 21 0.47
25 9 0.20
26 7 0.16
27 8 0.18
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.06
Consensus pattern (25 bp):
AAAGAAAAAGAAAAAAAAAGAAAAA
Found at i:24407232 original size:6 final size:6
Alignment explanation
Indices: 24407198--24407257 Score: 50
Period size: 6 Copynumber: 9.5 Consensus size: 6
24407188 GAAGGGGAAG
* * *
24407198 AAAGAA AATAGAA AGAAAAA AGAAAAA AAAGAA AAAGAA AAA-ATA GAAGAA
1 AAAGAA AA-AGAA A-AAGAA A-AAGAA AAAGAA AAAGAA AAAGA-A AAAGAA
24407249 AAAGAA AAA
1 AAAGAA AAA
24407258 AAATAATAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
5 1 0.02
6 27 0.59
7 17 0.37
8 1 0.02
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (6 bp):
AAAGAA
Found at i:24407248 original size:34 final size:36
Alignment explanation
Indices: 24407202--24407275 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 36
24407192 GGGAAGAAAG
24407202 AAAATAGAAAGAAAAAAGAAAAAAAAGAA-AAAGAA-
1 AAAATAGAAAG-AAAAAGAAAAAAAAGAATAAAGAAT
*
24407237 AAAATAG-AAGAAAAAGAAAAAAAATAATAAAGAAT
1 AAAATAGAAAGAAAAAGAAAAAAAAGAATAAAGAAT
24407272 AAAA
1 AAAA
24407276 AAACAGCAGC
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
33 16 0.44
34 9 0.25
35 11 0.31
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.07
Consensus pattern (36 bp):
AAAATAGAAAGAAAAAGAAAAAAAAGAATAAAGAAT
Found at i:24407257 original size:18 final size:18
Alignment explanation
Indices: 24407202--24407258 Score: 75
Period size: 18 Copynumber: 3.2 Consensus size: 18
24407192 GGGAAGAAAG
24407202 AAAATAGAAAGAAAAA-AGA
1 AAAATAG-AAGAAAAAGA-A
24407221 AAAA-A-AAGAAAAAGAA
1 AAAATAGAAGAAAAAGAA
24407237 AAAATAGAAGAAAAAGAA
1 AAAATAGAAGAAAAAGAA
24407255 AAAA
1 AAAA
24407259 AATAATAAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
16 13 0.37
17 2 0.06
18 16 0.46
19 4 0.11
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.04
Consensus pattern (18 bp):
AAAATAGAAGAAAAAGAA
Found at i:24407449 original size:43 final size:44
Alignment explanation
Indices: 24407397--24407488 Score: 123
Period size: 43 Copynumber: 2.1 Consensus size: 44
24407387 CTCCAGCAGG
* * *
24407397 CCAGCTCCAGCAACCCCAGGCCTGTTCTAGCAGTAGGCCAGCGT
1 CCAGCTCCAGCAACCCCAGGCCCGTTCCAGCAGCAGGCCAGCGT
* * *
24407441 CCAG-TCCAGCAGCCCCAGGCCCGTTCCAGCAGCAGGCCAACAT
1 CCAGCTCCAGCAACCCCAGGCCCGTTCCAGCAGCAGGCCAGCGT
24407484 CCAGC
1 CCAGC
24407489 CCAACGGCCC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
43 37 0.90
44 4 0.10
ACGTcount: A:0.22, C:0.42, G:0.24, T:0.12
Consensus pattern (44 bp):
CCAGCTCCAGCAACCCCAGGCCCGTTCCAGCAGCAGGCCAGCGT
Found at i:24407532 original size:18 final size:18
Alignment explanation
Indices: 24407506--24407540 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
24407496 CCCAATCTGC
*
24407506 AAAAAAAAAGGGAAAAAG
1 AAAAAAAAAAGGAAAAAG
*
24407524 AAAAGAAAAAGGAAAAA
1 AAAAAAAAAAGGAAAAA
24407541 AGGAAAAAGA
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:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAAGGAAAAAG
Found at i:24407534 original size:19 final size:19
Alignment explanation
Indices: 24407506--24407562 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
24407496 CCCAATCTGC
*
24407506 AAAAAAAAAGGGAAAAA-G
1 AAAAAAAAAGGAAAAAAGG
24407524 AAAAGAAAAAGGAAAAAAGG
1 AAAA-AAAAAGGAAAAAAGG
*
24407544 AAAAAGAGAAAAGAAAAAA
1 AAAAA-A-AAAGGAAAAAA
24407563 ACAAAAAGGC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
18 4 0.12
19 13 0.39
20 6 0.18
21 10 0.30
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAGGAAAAAAGG
Found at i:24407553 original size:28 final size:27
Alignment explanation
Indices: 24407509--24407561 Score: 88
Period size: 27 Copynumber: 1.9 Consensus size: 27
24407499 AATCTGCAAA
*
24407509 AAAAAAGGGAAAAAGAAAAGAAAAAGG
1 AAAAAAGGAAAAAAGAAAAGAAAAAGG
24407536 AAAAAAGGAAAAAGAGAAAAGAAAAA
1 AAAAAAGGAAAAA-AGAAAAGAAAAA
24407562 AACAAAAAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 12 0.50
28 12 0.50
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (27 bp):
AAAAAAGGAAAAAAGAAAAGAAAAAGG
Found at i:24407563 original size:8 final size:7
Alignment explanation
Indices: 24407524--24407562 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
24407514 AGGGAAAAAG
24407524 AAAAGAA
1 AAAAGAA
*
24407531 AAAGGAA
1 AAAAGAA
*
24407538 AAAAGGA
1 AAAAGAA
*
24407545 AAAAGAG
1 AAAAGAA
24407552 AAAAGAA
1 AAAAGAA
24407559 AAAA
1 AAAA
24407563 ACAAAAAGGC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:24407568 original size:21 final size:21
Alignment explanation
Indices: 24407524--24407570 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
24407514 AGGGAAAAAG
**
24407524 AAAAGAAAAAGGAAAAAAGGA
1 AAAAGAAAAAGGAAAAAAACA
24407545 AAAAGAGAAAA-GAAAAAAACA
1 AAAAGA-AAAAGGAAAAAAACA
24407566 AAAAG
1 AAAAG
24407571 GCTCGAATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (21 bp):
AAAAGAAAAAGGAAAAAAACA
Found at i:24407568 original size:28 final size:26
Alignment explanation
Indices: 24407506--24407571 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 26
24407496 CCCAATCTGC
*
24407506 AAAAAAAAAGGGAAAAAGAAAAGAAA
1 AAAAAAAAAGGAAAAAAGAAAAGAAA
*
24407532 AAGGAAAAAAGGAAAAAGAGAAAAGAAA
1 AA-AAAAAAAGGAAAAA-AGAAAAGAAA
24407560 AAAACAAAAAGG
1 AAAA-AAAAAGG
24407572 CTCGAATTGC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
26 2 0.06
27 13 0.38
28 19 0.56
ACGTcount: A:0.77, C:0.02, G:0.21, T:0.00
Consensus pattern (26 bp):
AAAAAAAAAGGAAAAAAGAAAAGAAA
Found at i:24408073 original size:19 final size:18
Alignment explanation
Indices: 24408045--24408325 Score: 133
Period size: 17 Copynumber: 15.6 Consensus size: 18
24408035 CGATACGTCT
24408045 TTTC-AAAAAATTTCGTG
1 TTTCAAAAAAATTTCGTG
** *
24408062 TTTCAAAAAAAAATAGTG
1 TTTCAAAAAAATTTCGTG
24408080 TTTTCAAAAAAATTCTCGTG
1 -TTTCAAAAAAATT-TCGTG
24408100 TTTC---AAAATTGTCGTG
1 TTTCAAAAAAATT-TCGTG
24408116 TTTTC--AAAAATTT-GTG
1 -TTTCAAAAAAATTTCGTG
** * *
24408132 TTTTTAAGAATTTTCGTG
1 TTTCAAAAAAATTTCGTG
* *
24408150 TCTC--TAAAATTCTCGTG
1 TTTCAAAAAAATT-TCGTG
* *
24408167 TTT-TAAAAATTTTCGTG
1 TTTCAAAAAAATTTCGTG
*
24408184 TTTCAAAAAAAAATTCGTG
1 TTTC-AAAAAAATTTCGTG
*
24408203 TTTCAAAAAGAAAATTCGTG
1 TTTC-AAAA-AAATTTCGTG
*
24408223 TTTTCAAAAAAAATCTCGTG
1 -TTTC-AAAAAAATTTCGTG
*
24408243 TTTC--AAAATTTTCGTG
1 TTTCAAAAAAATTTCGTG
*
24408259 TTTTTTAAACAAAAGTTTCGTG
1 --TTTCAAA-AAAA-TTTCGTG
* * *
24408281 TTTC--TAAAATTCTTGTA
1 TTTCAAAAAAATT-TCGTG
*
24408298 TTTTAAAAAAA-TTCGTG
1 TTTCAAAAAAATTTCGTG
24408315 TTTTCAAAAAA
1 -TTTCAAAAAA
24408326 GAAAAAGTTG
Statistics
Matches: 203, Mismatches: 36, Indels: 49
0.70 0.12 0.17
Matches are distributed among these distances:
15 3 0.01
16 30 0.15
17 43 0.21
18 39 0.19
19 43 0.21
20 26 0.13
21 12 0.06
22 7 0.03
ACGTcount: A:0.36, C:0.11, G:0.12, T:0.42
Consensus pattern (18 bp):
TTTCAAAAAAATTTCGTG
Found at i:24408074 original size:20 final size:20
Alignment explanation
Indices: 24408049--24408107 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
24408039 ACGTCTTTTC
24408049 AAAAAATTTCGTGTTTCAAA
1 AAAAAATTTCGTGTTTCAAA
*
24408069 AAAAAA--TAGTGTTTTC--A
1 AAAAAATTTCGTG-TTTCAAA
24408086 AAAAAATTCTCGTGTTTCAAA
1 AAAAAATT-TCGTGTTTCAAA
24408107 A
1 A
24408108 TTGTCGTGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 11
0.70 0.05 0.25
Matches are distributed among these distances:
17 7 0.23
18 4 0.13
19 8 0.26
20 10 0.32
21 2 0.06
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.34
Consensus pattern (20 bp):
AAAAAATTTCGTGTTTCAAA
Found at i:24408107 original size:16 final size:17
Alignment explanation
Indices: 24408088--24408191 Score: 92
Period size: 16 Copynumber: 6.2 Consensus size: 17
24408078 TGTTTTCAAA
24408088 AAAATTCTCGTG-TTTC
1 AAAATTCTCGTGTTTTC
*
24408104 AAAATTGTCGTGTTTTC
1 AAAATTCTCGTGTTTTC
*
24408121 AAAAATT-T-GTGTTTTT
1 -AAAATTCTCGTGTTTTC
* *
24408137 AAGAATTTTCGTG-TCTC
1 AA-AATTCTCGTGTTTTC
*
24408154 TAAAATTCTCGTGTTTTA
1 -AAAATTCTCGTGTTTTC
*
24408172 AAAATTTTCGTG-TTTC
1 AAAATTCTCGTGTTTTC
24408188 AAAA
1 AAAA
24408192 AAAAATTCGT
Statistics
Matches: 72, Mismatches: 9, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
15 2 0.03
16 29 0.40
17 28 0.39
18 13 0.18
ACGTcount: A:0.29, C:0.12, G:0.13, T:0.46
Consensus pattern (17 bp):
AAAATTCTCGTGTTTTC
Found at i:24408211 original size:20 final size:19
Alignment explanation
Indices: 24408178--24408250 Score: 112
Period size: 19 Copynumber: 3.7 Consensus size: 19
24408168 TTTAAAAATT
24408178 TTCGTGTTTCAAAAAAAAA
1 TTCGTGTTTCAAAAAAAAA
24408197 TTCGTGTTTCAAAAAGAAAA
1 TTCGTGTTTCAAAAA-AAAA
24408217 TTCGTGTTTTC-AAAAAAAA
1 TTCGTG-TTTCAAAAAAAAA
24408236 TCTCGTGTTTCAAAA
1 T-TCGTGTTTCAAAA
24408251 TTTTCGTGTT
Statistics
Matches: 50, Mismatches: 0, Indels: 7
0.88 0.00 0.12
Matches are distributed among these distances:
19 24 0.48
20 22 0.44
21 4 0.08
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.34
Consensus pattern (19 bp):
TTCGTGTTTCAAAAAAAAA
Found at i:24409504 original size:4 final size:4
Alignment explanation
Indices: 24409495--24409523 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
24409485 TTGGGGCAAA
24409495 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
24409524 TGGGTCTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:24413902 original size:7 final size:7
Alignment explanation
Indices: 24413887--24413958 Score: 76
Period size: 7 Copynumber: 9.9 Consensus size: 7
24413877 TATTATGCCT
24413887 AAAAAAC
1 AAAAAAC
*
24413894 AAGAAAC
1 AAAAAAC
24413901 AAAAAAC
1 AAAAAAC
24413908 AAACAAAAC
1 -AA-AAAAC
24413917 AAAAAAC
1 AAAAAAC
24413924 AAACAAAC
1 AAA-AAAC
24413932 AAAAAAC
1 AAAAAAC
24413939 AAGAAAA-
1 AA-AAAAC
24413946 AAACAAA-
1 AAA-AAAC
24413953 AAAAAA
1 AAAAAA
24413959 GAAGAAAAAA
Statistics
Matches: 58, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
6 4 0.07
7 34 0.59
8 15 0.26
9 5 0.09
ACGTcount: A:0.83, C:0.14, G:0.03, T:0.00
Consensus pattern (7 bp):
AAAAAAC
Done.