Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 180 of 211
Found at i:55870559 original size:33 final size:37
Alignment explanation
Indices: 55870536--55870618 Score: 100
Period size: 34 Copynumber: 2.3 Consensus size: 37
55870526 ATATTTTTAT
55870536 TTATCTTTATTATTTATTATTTTATATTGTTATCATTA
1 TTAT-TTTATTATTTATTATTTTATATTGTTATCATTA
* *
55870574 TTATTTTATTATTT-TTA-TTTAT-TTATTCTCATTA
1 TTATTTTATTATTTATTATTTTATATTGTTATCATTA
*
55870608 TTGTTGTTATT
1 TTATT-TTATT
55870619 GTCTTATTTG
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
34 14 0.34
35 10 0.24
36 3 0.07
37 10 0.24
38 4 0.10
ACGTcount: A:0.23, C:0.05, G:0.04, T:0.69
Consensus pattern (37 bp):
TTATTTTATTATTTATTATTTTATATTGTTATCATTA
Found at i:55870568 original size:29 final size:29
Alignment explanation
Indices: 55870516--55870592 Score: 99
Period size: 29 Copynumber: 2.8 Consensus size: 29
55870506 TACATGGATT
* *
55870516 TTATTGTTTTA-TATTTTTA-T-TTATCT
1 TTATTATTTTATTATTTTTATTGTTATCA
55870542 TTATTA-TTTATTATTTTATATTGTTATCA
1 TTATTATTTTATTATTTT-TATTGTTATCA
55870571 TTATTATTTTATTATTTTTATT
1 TTATTATTTTATTATTTTTATT
55870593 TATTTATTCT
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
25 4 0.09
26 11 0.25
27 2 0.05
28 1 0.02
29 15 0.34
30 11 0.25
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.71
Consensus pattern (29 bp):
TTATTATTTTATTATTTTTATTGTTATCA
Found at i:55870577 original size:22 final size:23
Alignment explanation
Indices: 55870549--55870612 Score: 71
Period size: 23 Copynumber: 2.8 Consensus size: 23
55870539 TCTTTATTAT
55870549 TTATTATTTTA-TATTGTTATCA
1 TTATTATTTTATTATTGTTATCA
*
55870571 TTATTATTTTATTATTTTTAT--
1 TTATTATTTTATTATTGTTATCA
*
55870592 TTATTTATTCTCATTATTGTT
1 TTA-TTATT-TTATTATTGTT
55870613 GTTATTGTCT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
21 3 0.08
22 16 0.44
23 17 0.47
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.69
Consensus pattern (23 bp):
TTATTATTTTATTATTGTTATCA
Found at i:55876834 original size:49 final size:48
Alignment explanation
Indices: 55876773--55876915 Score: 115
Period size: 49 Copynumber: 2.9 Consensus size: 48
55876763 TACAATGGTG
55876773 AATCTCACTTCCCCGACATTGCAATTAAAAGATTGAGCCACAACTGCA
1 AATCTCACTTCCCCGACATTGCAATTAAAAGATTGAGCCACAACTGCA
* * * ** * * * * * *
55876821 AATCTTACTTTCCCAGGCCGTGCAGTGGAATAGATTGAAGCTACAACGGCG
1 AATCTCAC-TTCCCCGACATTGCAAT-TAAAAGATTG-AGCCACAACTGCA
* * * *
55876872 AATCTCGCTTCCTCGACATTGCAATTCAAAGATTTAAGCCACAA
1 AATCTCACTTCCCCGACATTGCAATTAAAAGA-TTGAGCCACAA
55876916 TGGCAGATCT
Statistics
Matches: 67, Mismatches: 24, Indels: 7
0.68 0.24 0.07
Matches are distributed among these distances:
48 7 0.10
49 23 0.34
50 21 0.31
51 16 0.24
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (48 bp):
AATCTCACTTCCCCGACATTGCAATTAAAAGATTGAGCCACAACTGCA
Found at i:55876975 original size:100 final size:100
Alignment explanation
Indices: 55876691--55877490 Score: 801
Period size: 100 Copynumber: 8.0 Consensus size: 100
55876681 ACACCATAGT
* * * *
55876691 TTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTAC-TTCTCTGGTGATGCAGTGGAACAG
1 TTGCAATT-AAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCCAGGCGATGCAGCGGAACAG
* *
55876755 ATTGAAGCTACAATGGTGAATCTCACTTCCCCGACA
65 ATTGAAGCTACGACGGTGAATCTCACTTCCCCGACA
* * * *
55876791 TTGCAATTAAAAGATTG-AGCCACAACTGCAAATCTTACTTTCCCAGGCCG-TGCAGTGGAATAG
1 TTGCAATTAAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCCAGG-CGATGCAGCGGAACAG
* * * *
55876854 ATTGAAGCTACAACGGCGAATCTCGCTTCCTCGACA
65 ATTGAAGCTACGACGGTGAATCTCACTTCCCCGACA
* * * *
55876890 TTGCAATTCAAAGATTTAAGCCACAATGGC-AGATCTTACTTTCCCAGGCGATGCAGCGGAAGAG
1 TTGCAATTAAAAGATTGAAGCCACAACGGCGA-ATCTTACTTTCCCAGGCGATGCAGCGGAACAG
* ** *
55876954 ATTGAAACTACGACGGTGAATCTCACTTCCTTGGCA
65 ATTGAAGCTACGACGGTGAATCTCACTTCCCCGACA
* * * * *
55876990 TTACAATTGAAAAAATTGAAGCCACAACGGCGAATCTTA-TTTTCCAGGCGATGCAGCAGAACAA
1 TTGCAATT-AAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCCAGGCGATGCAGCGGAACAG
*
55877054 ATTGAAGCTACGACGGTGAATCTCACTTCCCCAACA
65 ATTGAAGCTACGACGGTGAATCTCACTTCCCCGACA
* * *
55877090 TTACAATTTAAAAGATTGAAGCCACAACGGTGAATCTTAC-TTCCCAGGCGATGTAGCGGAACAG
1 TTGCAA-TTAAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCCAGGCGATGCAGCGGAACAG
* * *
55877154 ATTGAAGCTATGACGGTGAATCTCACTTCCCTGAAA
65 ATTGAAGCTACGACGGTGAATCTCACTTCCCCGACA
* * * *
55877190 TTGTAATTTAAAAGATTGAGGCCACAACGAC-AGATCTTAC-TTCCCAGGCAATGCAGCGGAACA
1 TTGCAA-TTAAAAGATTGAAGCCACAACGGCGA-ATCTTACTTTCCCAGGCGATGCAGCGGAACA
* * **
55877253 TATTGAAGCTACGACGGCGAATCTCGTTTCCCCGACA
64 GATTGAAGCTACGACGGTGAATCTCACTTCCCCGACA
* * * * *
55877290 TTGCAATTAAAAAGATTGAAGCTACAATGGCGAATCTTACTTT-TCAGGCGGTGCAACGGAACAG
1 TTGCAATT-AAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCCAGGCGATGCAGCGGAACAG
* * * ***
55877354 ATTAAAGCTACAACGGCGAATCTTGTTTCCCCGACA
65 ATTGAAGCTACGACGGTGAATCTCACTTCCCCGACA
**** * *** * * * ** * *
55877390 TTATGGTTAAATAGATTGAAGCTACAACAATGAATCTTAC-TTCCCTGGCGGTGTAATGAAATAG
1 TTGCAATTAAA-AGATTGAAGCCACAACGGCGAATCTTACTTTCCCAGGCGATGCAGCGGAACAG
* * * *
55877454 ATTGAAGCTACGACGGCGAATCTAATTTCTCCGACA
65 ATTGAAGCTACGACGGTGAATCTCACTTCCCCGACA
55877490 T
1 T
55877491 CACAGTTAAA
Statistics
Matches: 593, Mismatches: 92, Indels: 30
0.83 0.13 0.04
Matches are distributed among these distances:
98 19 0.03
99 85 0.14
100 459 0.77
101 29 0.05
102 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.25
Consensus pattern (100 bp):
TTGCAATTAAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCCAGGCGATGCAGCGGAACAGA
TTGAAGCTACGACGGTGAATCTCACTTCCCCGACA
Found at i:55877475 original size:50 final size:50
Alignment explanation
Indices: 55876703--55877476 Score: 266
Period size: 50 Copynumber: 15.5 Consensus size: 50
55876693 GCAATTAAAA
* * * * * * *
55876703 AGATTGAAGCCACAACGGCGAATCTTACTTCTCTGGTGA-TGCAGTGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCAGG-CATTGTAATGAAAC
* * * * * * *
55876753 AGATTGAAGCTACAATGGTGAATCTCACTTCCCCGACATTGCAATTAAA-
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCATTGTAATGAAAC
* * * ** * * * *
55876802 AGATTG-AGCCACAACTGCAAATCTTACTTTCCCAGGCCGTGCAGTGGAAT
1 AGATTGAAGCTACAACGGCGAATCTTAC-TTCCCAGGCATTGTAATGAAAC
** * * **
55876852 AGATTGAAGCTACAACGGCGAATCTCGCTTCCTC-GACATTGCAATTCAA-
1 AGATTGAAGCTACAACGGCGAATCTTACTTCC-CAGGCATTGTAATGAAAC
* * * * ** * *
55876901 AGATTTAAGCCACAATGGC-AGATCTTACTTTCCCAGGCGA-TGCAGCGGAAG
1 AGATTGAAGCTACAACGGCGA-ATCTTAC-TTCCCAGGC-ATTGTAATGAAAC
* * * * ** **
55876952 AGATTGAAACTACGACGGTGAATCTCACTTCCTTGGCATTACAATTGAAA-
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCATTGTAA-TGAAAC
* * * * *
55877002 AAATTGAAGCCACAACGGCGAATCTTATTTTCCAGGCGA-TG-CA-GCAGAAC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGC-ATTGTAATG-A-AAC
* * * * * ** *
55877052 AAATTGAAGCTACGACGGTGAATCTCACTTCCCCA-ACATTACAATTTAAA-
1 AGATTGAAGCTACAACGGCGAATCTTACTT-CCCAGGCATTGTAA-TGAAAC
* * ** *
55877102 AGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGA-TGTAGCGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGC-ATTGTAATGAAAC
** * * * ** *
55877152 AGATTGAAGCTATGACGGTGAATCTCACTTCCCTGAAATTGTAATTTAAA-
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCATTGTAA-TGAAAC
* * * * * ** *
55877202 AGATTGAGGCCACAACGAC-AGATCTTACTTCCCAGGCAATGCAGCGGAAC
1 AGATTGAAGCTACAACGGCGA-ATCTTACTTCCCAGGCATTGTAATGAAAC
* * *** * * * * *
55877252 ATATTGAAGCTACGACGGCGAATCTCGTTTCCCCGACATTGCAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCATTGTAATGAAAC
* ** ** * * *
55877302 AGATTGAAGCTACAATGGCGAATCTTACTTTTCAGGCGGTGCAACGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCATTGTAATGAAAC
* ** * * * ** * *
55877352 AGATTAAAGCTACAACGGCGAATCTTGTTTCCCCGACATTATGGTTAAAT
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCATTGTAATGAAAC
*** * ** *
55877402 AGATTGAAGCTACAACAATGAATCTTACTTCCCTGGCGGTGTAATGAAAT
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCATTGTAATGAAAC
*
55877452 AGATTGAAGCTACGACGGCGAATCT
1 AGATTGAAGCTACAACGGCGAATCT
55877477 AATTTCTCCG
Statistics
Matches: 508, Mismatches: 186, Indels: 60
0.67 0.25 0.08
Matches are distributed among these distances:
47 1 0.00
48 17 0.03
49 58 0.11
50 379 0.75
51 51 0.10
52 2 0.00
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (50 bp):
AGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCATTGTAATGAAAC
Found at i:55879317 original size:21 final size:22
Alignment explanation
Indices: 55879276--55879317 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
55879266 ATCTTTATTA
55879276 TTAATATATACATAAGTACATT
1 TTAATATATACATAAGTACATT
* *
55879298 TTAATA-ATATATATGTACAT
1 TTAATATATACATAAGTACAT
55879318 ATATATATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (22 bp):
TTAATATATACATAAGTACATT
Found at i:55879643 original size:29 final size:28
Alignment explanation
Indices: 55879611--55879690 Score: 83
Period size: 29 Copynumber: 2.8 Consensus size: 28
55879601 TACATGGATT
*
55879611 TTATTGTTTTATATTTTTATTTATCTTTA
1 TTATT-TTTTATATTTTTATTTATCATTA
* *
55879640 TTATTTATTAT-TTTATATTGTTATCATTA
1 TTATTTTTTATATTTTTA-T-TTATCATTA
*
55879669 TTATTTTAT-TATTTTTATTTAT
1 TTATTTTTTATATTTTTATTTAT
55879691 TTATTCTCAT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
27 9 0.21
28 8 0.19
29 25 0.60
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (28 bp):
TTATTTTTTATATTTTTATTTATCATTA
Found at i:55879645 original size:13 final size:12
Alignment explanation
Indices: 55879618--55879690 Score: 56
Period size: 14 Copynumber: 5.4 Consensus size: 12
55879608 ATTTTATTGT
55879618 TTTATATTTTTA
1 TTTATATTTTTA
*
55879630 TTTATCTTTATTA
1 TTTATATTT-TTA
55879643 TTTATTATTTTATA
1 TTTA-TATTTT-TA
*
55879657 TTGTTATCATTATTA
1 -T-TTAT-ATTTTTA
55879672 TTTTATTATTTTTA
1 -TTTA-TATTTTTA
55879686 TTTAT
1 TTTAT
55879691 TTATTCTCAT
Statistics
Matches: 50, Mismatches: 4, Indels: 14
0.74 0.06 0.21
Matches are distributed among these distances:
12 9 0.18
13 12 0.24
14 15 0.30
15 7 0.14
16 7 0.14
ACGTcount: A:0.25, C:0.03, G:0.01, T:0.71
Consensus pattern (12 bp):
TTTATATTTTTA
Found at i:55879648 original size:17 final size:17
Alignment explanation
Indices: 55879622--55879695 Score: 54
Period size: 17 Copynumber: 4.6 Consensus size: 17
55879612 TATTGTTTTA
55879622 TATT-TTTATTTATCTT
1 TATTATTTATTTATCTT
55879638 TATTATTTA-TTAT-TT
1 TATTATTTATTTATCTT
* *
55879653 TA-TA-TT-GTTATCAT
1 TATTATTTATTTATCTT
*
55879667 TATTATTT-TATTATTTT
1 TATTATTTAT-TTATCTT
55879684 TATTTATTTATT
1 TA-TTATTTATT
55879696 CTCATTATTG
Statistics
Matches: 46, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
13 6 0.13
14 5 0.11
15 6 0.13
16 10 0.22
17 11 0.24
18 7 0.15
19 1 0.02
ACGTcount: A:0.24, C:0.03, G:0.01, T:0.72
Consensus pattern (17 bp):
TATTATTTATTTATCTT
Found at i:55879654 original size:33 final size:37
Alignment explanation
Indices: 55879631--55879713 Score: 100
Period size: 34 Copynumber: 2.3 Consensus size: 37
55879621 ATATTTTTAT
55879631 TTATCTTTATTATTTATTATTTTATATTGTTATCATTA
1 TTAT-TTTATTATTTATTATTTTATATTGTTATCATTA
* *
55879669 TTATTTTATTATTT-TTA-TTTAT-TTATTCTCATTA
1 TTATTTTATTATTTATTATTTTATATTGTTATCATTA
*
55879703 TTGTTGTTATT
1 TTATT-TTATT
55879714 GTCTTATTTG
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
34 14 0.34
35 10 0.24
36 3 0.07
37 10 0.24
38 4 0.10
ACGTcount: A:0.23, C:0.05, G:0.04, T:0.69
Consensus pattern (37 bp):
TTATTTTATTATTTATTATTTTATATTGTTATCATTA
Found at i:55879672 original size:22 final size:23
Alignment explanation
Indices: 55879644--55879707 Score: 71
Period size: 23 Copynumber: 2.8 Consensus size: 23
55879634 TCTTTATTAT
55879644 TTATTATTTTA-TATTGTTATCA
1 TTATTATTTTATTATTGTTATCA
*
55879666 TTATTATTTTATTATTTTTAT--
1 TTATTATTTTATTATTGTTATCA
*
55879687 TTATTTATTCTCATTATTGTT
1 TTA-TTATT-TTATTATTGTT
55879708 GTTATTGTCT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
21 3 0.08
22 16 0.44
23 17 0.47
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.69
Consensus pattern (23 bp):
TTATTATTTTATTATTGTTATCA
Found at i:55881443 original size:17 final size:17
Alignment explanation
Indices: 55881401--55881447 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
55881391 TATATCTATA
55881401 TATTTTTA-TTCTTATG
1 TATTTTTATTTCTTATG
* * * *
55881417 AATATATATTTCTTATT
1 TATTTTTATTTCTTATG
55881434 TATTTTTATTTCTT
1 TATTTTTATTTCTT
55881448 GGAAACTTAT
Statistics
Matches: 23, Mismatches: 7, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
16 5 0.22
17 18 0.78
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.68
Consensus pattern (17 bp):
TATTTTTATTTCTTATG
Found at i:55884444 original size:43 final size:43
Alignment explanation
Indices: 55884394--55884560 Score: 155
Period size: 43 Copynumber: 3.9 Consensus size: 43
55884384 CTTCTATCAC
55884394 AAACGCCGCTGA-AGACTAAGAG-CTTTAGCGGCGTTTTTAATAT
1 AAACGCCGCT-ATAGA-TAAGAGTCTTTAGCGGCGTTTTTAATAT
* ** * *
55884437 AACCGCCGCTATAGATTGGTGTCTTTAGCGGCGTTTTT-GT-T
1 AAACGCCGCTATAGATAAGAGTCTTTAGCGGCGTTTTTAATAT
* * *
55884478 GAAAGCGCCGCTATAGATCAGGGTCTTTAGCGGCGTTTTTTATAT
1 -AAA-CGCCGCTATAGATAAGAGTCTTTAGCGGCGTTTTTAATAT
* * *
55884523 AAACGCCGCTATAGATCATG-GCCTTTAGCGGCGCTTTT
1 AAACGCCGCTATAGAT-AAGAGTCTTTAGCGGCGTTTTT
55884561 CCCCAAAACG
Statistics
Matches: 103, Mismatches: 14, Indels: 14
0.79 0.11 0.11
Matches are distributed among these distances:
41 1 0.01
42 7 0.07
43 89 0.86
44 5 0.05
45 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.32
Consensus pattern (43 bp):
AAACGCCGCTATAGATAAGAGTCTTTAGCGGCGTTTTTAATAT
Found at i:55884467 original size:86 final size:86
Alignment explanation
Indices: 55884376--55884538 Score: 197
Period size: 86 Copynumber: 1.9 Consensus size: 86
55884366 TGTTGTTCTA
55884376 TAGCGGCGCTTCT-ATCACAAACGCCGCTGA-AGACTAAGAG-CTTTAGCGGCGTTTTTAATATA
1 TAGCGGCGCTTCTGATCA-AAACGCCGCT-ATAGA-TAAGAGTCTTTAGCGGCGTTTTTAATATA
*
55884438 ACCGCCGCTATAGATTGGTGTCTT
63 AACGCCGCTATAGATTGGTGTCTT
* * * * * * * *
55884462 TAGCGGCGTTTTTGTTGAAAGCGCCGCTATAGATCAGGGTCTTTAGCGGCGTTTTTTATATAAAC
1 TAGCGGCGCTTCTGATCAAAACGCCGCTATAGATAAGAGTCTTTAGCGGCGTTTTTAATATAAAC
55884527 GCCGCTATAGAT
66 GCCGCTATAGAT
55884539 CATGGCCTTT
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
85 5 0.08
86 58 0.89
87 2 0.03
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (86 bp):
TAGCGGCGCTTCTGATCAAAACGCCGCTATAGATAAGAGTCTTTAGCGGCGTTTTTAATATAAAC
GCCGCTATAGATTGGTGTCTT
Found at i:55884570 original size:43 final size:43
Alignment explanation
Indices: 55884416--55884580 Score: 122
Period size: 43 Copynumber: 3.8 Consensus size: 43
55884406 AGACTAAGAG
** * * * *
55884416 CTTTAGCGGCGTTTTTAATATAACCGCCGCTATAGAT-TGGTGT
1 CTTTAGCGGCGTTTTCCACATAAACGCCGCTATAGATCAGG-GC
*** *
55884459 CTTTAGCGGCGTTTT--TGTTGAAAGCGCCGCTATAGATCAGGGT
1 CTTTAGCGGCGTTTTCCACAT-AAA-CGCCGCTATAGATCAGGGC
** * *
55884502 CTTTAGCGGCGTTTTTTATATAAACGCCGCTATAGATCATGGC
1 CTTTAGCGGCGTTTTCCACATAAACGCCGCTATAGATCAGGGC
* *
55884545 CTTTAGCGGCGCTTTTCCCCA-AAACGCCGCAATAGA
1 CTTTAGCGGCG-TTTTCCACATAAACGCCGCTATAGA
55884581 CCCTGATTTA
Statistics
Matches: 101, Mismatches: 15, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
41 1 0.01
42 2 0.02
43 87 0.86
44 10 0.10
45 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (43 bp):
CTTTAGCGGCGTTTTCCACATAAACGCCGCTATAGATCAGGGC
Found at i:55884573 original size:86 final size:86
Alignment explanation
Indices: 55884416--55884580 Score: 208
Period size: 86 Copynumber: 1.9 Consensus size: 86
55884406 AGACTAAGAG
* * * ****
55884416 CTTTAGCGGCGTTTTTAATATAACCGCCGCTATAGATTGGTGTCTTTAGCGGCGTTTTTGTTGAA
1 CTTTAGCGGCGTTTTTAATATAAACGCCGCTATAGATTGGTGCCTTTAGCGGCGCTTTTCCCCAA
* *
55884481 AGCGCCGCTATAGATCAGGGT
66 AACGCCGCAATAGATCAGGGT
*
55884502 CTTTAGCGGCGTTTTTTATATAAACGCCGCTATAGATCAT-G-GCCTTTAGCGGCGCTTTTCCCC
1 CTTTAGCGGCGTTTTTAATATAAACGCCGCTATAGAT--TGGTGCCTTTAGCGGCGCTTTTCCCC
55884565 AAAACGCCGCAATAGA
64 AAAACGCCGCAATAGA
55884581 CCCTGATTTA
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
86 65 0.97
87 1 0.01
88 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (86 bp):
CTTTAGCGGCGTTTTTAATATAAACGCCGCTATAGATTGGTGCCTTTAGCGGCGCTTTTCCCCAA
AACGCCGCAATAGATCAGGGT
Found at i:55884595 original size:43 final size:43
Alignment explanation
Indices: 55884548--55884705 Score: 151
Period size: 42 Copynumber: 3.6 Consensus size: 43
55884538 TCATGGCCTT
55884548 TAGCGGCGCTTTTCCCCAAAACGCCGCAATAGACCCTGATTTA
1 TAGCGGCGCTTTTCCCCAAAACGCCGCAATAGACCCTGATTTA
* * * * *
55884591 TAGCGGC-ATTTTTCGCACAACGCCGCAATAGACCCTGATCTA
1 TAGCGGCGCTTTTCCCCAAAACGCCGCAATAGACCCTGATTTA
* ** *
55884633 TAGCGGCGCTTATCCAGAAAACGCCGCTAA-ATACCCTTTG-TCTATA
1 TAGCGGCGCTTTTCCCCAAAACGCCGC-AATAGACCC--TGAT-T-TA
* *
55884679 TAGCGGCGCTTTTACCAAAAACGCCGC
1 TAGCGGCGCTTTTCCCCAAAACGCCGC
55884706 TAAATTTGAC
Statistics
Matches: 92, Mismatches: 17, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
42 37 0.40
43 25 0.27
44 3 0.03
45 2 0.02
46 25 0.27
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (43 bp):
TAGCGGCGCTTTTCCCCAAAACGCCGCAATAGACCCTGATTTA
Found at i:55885040 original size:21 final size:21
Alignment explanation
Indices: 55885014--55885125 Score: 107
Period size: 21 Copynumber: 5.3 Consensus size: 21
55885004 TTTGACGCTG
*
55885014 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTTGCTGCAGC
* **
55885035 CTCTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTTGCTGCAGC
* *
55885056 CTATGCTTCCCTTGCTGTAGC
1 CTCTGCTTCCCTTGCTGCAGC
* * * *
55885077 CTGTTCTTCTCTTGCTGCTGC
1 CTCTGCTTCCCTTGCTGCAGC
* *
55885098 CTCTGCTTCTCTTGCTGCCGC
1 CTCTGCTTCCCTTGCTGCAGC
*
55885119 ATCTGCT
1 CTCTGCT
55885126 CTAAGCTGCT
Statistics
Matches: 77, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 77 1.00
ACGTcount: A:0.04, C:0.39, G:0.18, T:0.38
Consensus pattern (21 bp):
CTCTGCTTCCCTTGCTGCAGC
Found at i:55885174 original size:66 final size:66
Alignment explanation
Indices: 55885097--55885243 Score: 190
Period size: 66 Copynumber: 2.2 Consensus size: 66
55885087 CTTGCTGCTG
* *
55885097 CCTCTGCTTCTCTTGCTGCCGCATCTGCTCTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTT
1 CCTCAGCTTCTCTCGCTGCCGCATCTGCTCTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-GTT
55885160 GAA
64 GAA
* * * * *
55885163 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGG
1 CCTCAGCTTCTCTCGCTGCCGCATCTGCTCTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
55885228 A
66 A
*
55885229 CATCAGCTTCTCTCG
1 CCTCAGCTTCTCTCG
55885244 ATGTTGCCTC
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
65 1 0.01
66 66 0.93
67 4 0.06
ACGTcount: A:0.13, C:0.29, G:0.19, T:0.39
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGCTGCCGCATCTGCTCTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
A
Found at i:55885259 original size:66 final size:66
Alignment explanation
Indices: 55885136--55885263 Score: 177
Period size: 66 Copynumber: 1.9 Consensus size: 66
55885126 CTAAGCTGCT
* * *
55885136 GCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGT
1 GCTGGAGTTCTTCATACTTTCGTTGAACATCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTGT
55885201 A
66 A
* * * *
55885202 GCTGGAGTTCTTCATATCTTT-TTTGGACATCAGCTTCTCTCGATGTTGCCTCCGCTTTAAGT
1 GCTGGAGTTCTTCATA-CTTTCGTTGAACATCAGCTTCTCTCGATGCTGCATCCGCTTTAAGT
55885264 CGTGTAATTT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
66 50 0.93
67 4 0.07
ACGTcount: A:0.15, C:0.25, G:0.20, T:0.41
Consensus pattern (66 bp):
GCTGGAGTTCTTCATACTTTCGTTGAACATCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTGT
A
Found at i:55886895 original size:9 final size:9
Alignment explanation
Indices: 55886881--55887149 Score: 60
Period size: 9 Copynumber: 31.7 Consensus size: 9
55886871 TAAATTATGC
55886881 TATGTAAGT
1 TATGTAAGT
55886890 TATGT-A-T
1 TATGTAAGT
55886897 TATGTAAGT
1 TATGTAAGT
*
55886906 TAT-TTA-T
1 TATGTAAGT
** *
55886913 TACCTAAAT
1 TATGTAAGT
55886922 TATGTAAGT
1 TATGTAAGT
*
55886931 TGTGT-A-T
1 TATGTAAGT
* *
55886938 TATGAAAAT
1 TATGTAAGT
*
55886947 TATG---CT
1 TATGTAAGT
55886953 -ATGTAAGT
1 TATGTAAGT
55886961 TATGTAAGT
1 TATGTAAGT
* **
55886970 CACATAAGT
1 TATGTAAGT
55886979 TATGTAAG-
1 TATGTAAGT
* * *
55886987 -AAGTTATT
1 TATGTAAGT
55886995 TATGTAAGT
1 TATGTAAGT
*
55887004 TAT-TTA-T
1 TATGTAAGT
* *
55887011 TATGAAAAT
1 TATGTAAGT
*
55887020 TAAGTAAGT
1 TATGTAAGT
*
55887029 TATGTAATT
1 TATGTAAGT
*
55887038 TACG-AA-T
1 TATGTAAGT
* **
55887045 AAT-TAAAAA
1 TATGT-AAGT
55887054 TATGTAAGT
1 TATGTAAGT
55887063 TATGTAAG-
1 TATGTAAGT
55887071 T-TGTAAGT
1 TATGTAAGT
*
55887079 TATGTATA-A
1 TATGTA-AGT
55887088 TAT-TAA-T
1 TATGTAAGT
**
55887095 TAACTAAGT
1 TATGTAAGT
* *
55887104 TATGTCATT
1 TATGTAAGT
*
55887113 TATGTATCATAT
1 TATGTA--A-GT
55887125 TAATGTAAGT
1 T-ATGTAAGT
*
55887135 TATGTAATT
1 TATGTAAGT
55887144 TATGTA
1 TATGTA
55887150 TATTAACTAA
Statistics
Matches: 184, Mismatches: 49, Indels: 54
0.64 0.17 0.19
Matches are distributed among these distances:
5 3 0.02
6 1 0.01
7 32 0.17
8 23 0.12
9 112 0.61
10 4 0.02
11 2 0.01
12 2 0.01
13 5 0.03
ACGTcount: A:0.38, C:0.03, G:0.15, T:0.44
Consensus pattern (9 bp):
TATGTAAGT
Found at i:55886902 original size:16 final size:16
Alignment explanation
Indices: 55886881--55886914 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
55886871 TAAATTATGC
55886881 TATGTAAGTTATGTAT
1 TATGTAAGTTATGTAT
*
55886897 TATGTAAGTTATTTAT
1 TATGTAAGTTATGTAT
55886913 TA
1 TA
55886915 CCTAAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:55886946 original size:25 final size:25
Alignment explanation
Indices: 55886895--55886950 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
55886885 TAAGTTATGT
* *
55886895 ATTATGTAAGTTATTTATTACCTAA
1 ATTATGTAAGTTATGTATTACCAAA
* **
55886920 ATTATGTAAGTTGTGTATTATGAAA
1 ATTATGTAAGTTATGTATTACCAAA
55886945 ATTATG
1 ATTATG
55886951 CTATGTAAGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.36, C:0.04, G:0.14, T:0.46
Consensus pattern (25 bp):
ATTATGTAAGTTATGTATTACCAAA
Found at i:55887032 original size:34 final size:34
Alignment explanation
Indices: 55886994--55887072 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 34
55886984 AAGAAGTTAT
*** * *
55886994 TTATGTAAGTTATTTATTATGAAAATTAAGTAAG
1 TTATGTAAGTTACGAATAATGAAAAATAAGTAAG
* * *
55887028 TTATGTAATTTACGAATAATTAAAAATATGTAAG
1 TTATGTAAGTTACGAATAATGAAAAATAAGTAAG
55887062 TTATGTAAGTT
1 TTATGTAAGTT
55887073 GTAAGTTATG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.42, C:0.01, G:0.14, T:0.43
Consensus pattern (34 bp):
TTATGTAAGTTACGAATAATGAAAAATAAGTAAG
Found at i:55887116 original size:34 final size:34
Alignment explanation
Indices: 55887072--55887224 Score: 183
Period size: 34 Copynumber: 4.7 Consensus size: 34
55887062 TTATGTAAGT
* *
55887072 TGTAAGTTATGTATAATATTAATTAACTAAGTTA
1 TGTAATTTATGTATAATATTAATTAATTAAGTTA
* * *
55887106 TGTCATTTATGTATCATATTAA-T--GTAAGTTA
1 TGTAATTTATGTATAATATTAATTAATTAAGTTA
* *
55887137 TGTAATTTATG--T-ATATTAACTAATTAATTTA
1 TGTAATTTATGTATAATATTAATTAATTAAGTTA
*
55887168 TGTAAGTTATGTATAATATTAATTAATTAAGTTA
1 TGTAATTTATGTATAATATTAATTAATTAAGTTA
*
55887202 TGTCATTTATGTATAATATTAAT
1 TGTAATTTATGTATAATATTAAT
55887225 GTAAGTTATG
Statistics
Matches: 101, Mismatches: 12, Indels: 12
0.81 0.10 0.10
Matches are distributed among these distances:
28 7 0.07
29 2 0.02
31 33 0.33
33 2 0.02
34 57 0.56
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.48
Consensus pattern (34 bp):
TGTAATTTATGTATAATATTAATTAATTAAGTTA
Found at i:55887137 original size:31 final size:30
Alignment explanation
Indices: 55887078--55887317 Score: 203
Period size: 31 Copynumber: 7.9 Consensus size: 30
55887068 AAGTTGTAAG
55887078 TTATGTATAATATTAATTAACTAAGTTATGTCAT
1 TTATGTATAATATTAA-T---TAAGTTATGTCAT
* *
55887112 TTATGTATCATATTAATGTAAGTTATGTAAT
1 TTATGTATAATATTAAT-TAAGTTATGTCAT
* * * * *
55887143 TTATGTATATTAACTAATTAATTTATGTAAG
1 TTATGTATAAT-ATTAATTAAGTTATGTCAT
55887174 TTATGTATAATATTAATTAATTAAGTTATGTCAT
1 TTATGTAT-A-A-T-ATTAATTAAGTTATGTCAT
55887208 TTATGTATAATATTAATGTAAGTTATGT-A-
1 TTATGTATAATATTAAT-TAAGTTATGTCAT
* *
55887237 -TA-ATATTA-ATTAATTAAGTTATGTCAT
1 TTATGTATAATATTAATTAAGTTATGTCAT
*
55887264 CTATGTATAATATTAATGTAAGTTATGT-A-
1 TTATGTATAATATTAAT-TAAGTTATGTCAT
*
55887293 -TAT-TATTA-ATTAATTAAGTTATGTC
1 TTATGTATAATATTAATTAAGTTATGTC
55887318 CCTTACAATA
Statistics
Matches: 176, Mismatches: 18, Indels: 32
0.78 0.08 0.14
Matches are distributed among these distances:
25 20 0.11
26 13 0.07
27 8 0.05
28 7 0.04
29 4 0.02
30 14 0.08
31 61 0.35
32 7 0.04
33 2 0.01
34 40 0.23
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.48
Consensus pattern (30 bp):
TTATGTATAATATTAATTAAGTTATGTCAT
Found at i:55887228 original size:56 final size:56
Alignment explanation
Indices: 55887167--55887317 Score: 284
Period size: 56 Copynumber: 2.7 Consensus size: 56
55887157 TAATTAATTT
*
55887167 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATCTATGTATAATATTA
55887223 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATCTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATCTATGTATAATATTA
*
55887279 ATGTAAGTTATGTATATTATTAATTAATTAAGTTATGTC
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTC
55887318 CCTTACAATA
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 93 1.00
ACGTcount: A:0.38, C:0.03, G:0.11, T:0.48
Consensus pattern (56 bp):
ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATCTATGTATAATATTA
Found at i:55887436 original size:24 final size:24
Alignment explanation
Indices: 55887409--55887461 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
55887399 AGTATTTTAT
55887409 AATATAATATTAATTTTAGATACA
1 AATATAATATTAATTTTAGATACA
*
55887433 AATATAATATTAATTTTAGTTACA
1 AATATAATATTAATTTTAGATACA
55887457 AATAT
1 AATAT
55887462 TATACAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (24 bp):
AATATAATATTAATTTTAGATACA
Found at i:55888953 original size:17 final size:17
Alignment explanation
Indices: 55888933--55888970 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
55888923 TTAAAGTTCA
55888933 CAAGGAAGTAAAGGCTG
1 CAAGGAAGTAAAGGCTG
*
55888950 CAAGGAAGTAGAGGCTG
1 CAAGGAAGTAAAGGCTG
55888967 CAAG
1 CAAG
55888971 TTCCTGGGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.39, C:0.13, G:0.37, T:0.11
Consensus pattern (17 bp):
CAAGGAAGTAAAGGCTG
Found at i:55889258 original size:33 final size:33
Alignment explanation
Indices: 55889211--55889278 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
55889201 ATATACATAT
*
55889211 ATTCATACCTAACACTAATCTCATTTAACTCGA
1 ATTCATACCCAACACTAATCTCATTTAACTCGA
*
55889244 ATTCATACCCAACACTCATCTCATTTAACTCGA
1 ATTCATACCCAACACTAATCTCATTTAACTCGA
55889277 AT
1 AT
55889279 AACATAGATG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.35, C:0.29, G:0.03, T:0.32
Consensus pattern (33 bp):
ATTCATACCCAACACTAATCTCATTTAACTCGA
Found at i:55889519 original size:14 final size:15
Alignment explanation
Indices: 55889500--55889538 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
55889490 AATTGGGAAA
55889500 TTGGGGAAAAT-ACT
1 TTGGGGAAAATAACT
55889514 TTGGGGAAGAATAACT
1 TTGGGGAA-AATAACT
*
55889530 TGGGGGAAA
1 TTGGGGAAA
55889539 TTGGGGGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 8 0.36
15 4 0.18
16 10 0.45
ACGTcount: A:0.36, C:0.05, G:0.36, T:0.23
Consensus pattern (15 bp):
TTGGGGAAAATAACT
Found at i:55889543 original size:25 final size:22
Alignment explanation
Indices: 55889514--55889570 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 22
55889504 GGAAAATACT
*
55889514 TTGGGGAAGAATAACTTGGGGGAAA
1 TTGGGGAA-AAGAACTT--GGGAAA
*
55889539 TTGGGGGAAAAGAAGTTGGGAAA
1 TT-GGGGAAAAGAACTTGGGAAA
55889562 TTGGGGAAA
1 TTGGGGAAA
55889571 TGAAATCGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
22 7 0.24
23 8 0.28
25 8 0.28
26 6 0.21
ACGTcount: A:0.37, C:0.02, G:0.42, T:0.19
Consensus pattern (22 bp):
TTGGGGAAAAGAACTTGGGAAA
Found at i:55889583 original size:23 final size:23
Alignment explanation
Indices: 55889533--55889586 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
55889523 AATAACTTGG
* *
55889533 GGGAAATTGGGGGAAAAGAAGTT
1 GGGAAATTGGGGGAAAAGAAATC
*
55889556 GGGAAATT-GGGGAAATGAAATC
1 GGGAAATTGGGGGAAAAGAAATC
55889578 GTGGAAATT
1 G-GGAAATT
55889587 TGACTTGGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 12 0.44
23 15 0.56
ACGTcount: A:0.39, C:0.02, G:0.39, T:0.20
Consensus pattern (23 bp):
GGGAAATTGGGGGAAAAGAAATC
Found at i:55891668 original size:42 final size:41
Alignment explanation
Indices: 55891583--55891840 Score: 367
Period size: 41 Copynumber: 6.3 Consensus size: 41
55891573 CGCATATATA
* * *
55891583 AAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCATAGGCG
1 AAAACGCCGCTATAGACCCGAGCATTAGCGGCGCTTAGACG
55891624 AAAACGCCGCTATAGACCCGAAGCATTAGCGGCGCTTAGACG
1 AAAACGCCGCTATAGACCCG-AGCATTAGCGGCGCTTAGACG
* * *
55891666 AAAACGCCGCTAAAGACTCAGAGCATTAGCGGTGCTTAGACG
1 AAAACGCCGCTATAGAC-CCGAGCATTAGCGGCGCTTAGACG
* * *
55891708 AAAACGCCGCTATAGACCCAAACATTAGCGGCGCTTAGACA
1 AAAACGCCGCTATAGACCCGAGCATTAGCGGCGCTTAGACG
* * *
55891749 AAAACGCCGCTATAGGCCCGAGCATTAGTGGCGCTTAGA-T
1 AAAACGCCGCTATAGACCCGAGCATTAGCGGCGCTTAGACG
*
55891789 AAAACGCCGCTATAGACCCGAGCATTA-CGGCGCTTAGACA
1 AAAACGCCGCTATAGACCCGAGCATTAGCGGCGCTTAGACG
55891829 AAAACGCCGCTA
1 AAAACGCCGCTA
55891841 AATGTTTAAA
Statistics
Matches: 194, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 10 0.05
40 38 0.20
41 73 0.38
42 71 0.37
43 2 0.01
ACGTcount: A:0.33, C:0.28, G:0.25, T:0.15
Consensus pattern (41 bp):
AAAACGCCGCTATAGACCCGAGCATTAGCGGCGCTTAGACG
Found at i:55891679 original size:83 final size:83
Alignment explanation
Indices: 55891582--55891842 Score: 386
Period size: 83 Copynumber: 3.2 Consensus size: 83
55891572 GCGCATATAT
*
55891582 AAAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCATAGGCGAAAACGCCGCTATAGACCCGAAG
1 AAAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCTTAGGCGAAAACGCCGCTATAGACCCGAAG
55891647 CATTAGCGGCGCTTAGAC
66 CATTAGCGGCGCTTAGAC
* * * *
55891665 GAAAACGCCGCTAAAGACTCAGAGCATTAGCGGTGCTTAGACGAAAACGCCGCTATAGACCC-AA
1 AAAAACGCCGCTAAAGAC-CCGAGCATTAGCGGCGCTTAGGCGAAAACGCCGCTATAGACCCGAA
*
55891729 ACATTAGCGGCGCTTAGAC
65 GCATTAGCGGCGCTTAGAC
* * * **
55891748 AAAAACGCCGCTATAGGCCCGAGCATTAGTGGCGCTTA-GATAAAACGCCGCTATAGACCCG-AG
1 AAAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCTTAGGCGAAAACGCCGCTATAGACCCGAAG
55891811 CATTA-CGGCGCTTAGAC
66 CATTAGCGGCGCTTAGAC
55891828 AAAAACGCCGCTAAA
1 AAAAACGCCGCTAAA
55891843 TGTTTAAAAA
Statistics
Matches: 159, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
80 26 0.16
81 25 0.16
82 17 0.11
83 52 0.33
84 39 0.25
ACGTcount: A:0.33, C:0.28, G:0.25, T:0.15
Consensus pattern (83 bp):
AAAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCTTAGGCGAAAACGCCGCTATAGACCCGAAG
CATTAGCGGCGCTTAGAC
Found at i:55893597 original size:22 final size:22
Alignment explanation
Indices: 55893569--55893613 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
55893559 TAAATTCTAA
*
55893569 TCTTTCCATATATGCGTGTCAT
1 TCTTTCCATATATGCATGTCAT
55893591 TCTTTCCATATATGCATGTCAT
1 TCTTTCCATATATGCATGTCAT
55893613 T
1 T
55893614 TTACATTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.20, C:0.22, G:0.11, T:0.47
Consensus pattern (22 bp):
TCTTTCCATATATGCATGTCAT
Found at i:55895188 original size:9 final size:9
Alignment explanation
Indices: 55895174--55895213 Score: 71
Period size: 9 Copynumber: 4.4 Consensus size: 9
55895164 ATAGTGATTC
55895174 AATTCGGTT
1 AATTCGGTT
*
55895183 AATTCGGAT
1 AATTCGGTT
55895192 AATTCGGTT
1 AATTCGGTT
55895201 AATTCGGTT
1 AATTCGGTT
55895210 AATT
1 AATT
55895214 TTTAACCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:55897929 original size:19 final size:20
Alignment explanation
Indices: 55897886--55897928 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
55897876 TTAATATTTG
55897886 TTTTTAAATATTTTTATTAA
1 TTTTTAAATATTTTTATTAA
55897906 TTTTTAAATA-TTTTA-TAA
1 TTTTTAAATATTTTTATTAA
55897924 TTTTT
1 TTTTT
55897929 TTTATAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 8 0.35
19 5 0.22
20 10 0.43
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTTTAAATATTTTTATTAA
Found at i:55897929 original size:20 final size:19
Alignment explanation
Indices: 55897886--55897987 Score: 66
Period size: 21 Copynumber: 5.1 Consensus size: 19
55897876 TTAATATTTG
55897886 TTTTTAAATATTTTTATTAA
1 TTTTTAAATATTTTTATT-A
*
55897906 TTTTTAAATATTTTATAATTT
1 TTTTTAAATATTTT-T-ATTA
** *
55897927 TTTTTATAA-ATTTCAATCA
1 TTTTTA-AATATTTTTATTA
55897946 -TTTTAAATAATTTTCTA-TA
1 TTTTTAAAT-ATTTT-TATTA
*
55897965 TTTTTAAAATAATTCTTATTA
1 TTTTT-AAAT-ATTTTTATTA
55897986 TT
1 TT
55897988 ATTTGAAAAA
Statistics
Matches: 64, Mismatches: 9, Indels: 17
0.71 0.10 0.19
Matches are distributed among these distances:
17 2 0.03
18 5 0.08
19 7 0.11
20 21 0.33
21 24 0.38
22 5 0.08
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTTTAAATATTTTTATTA
Found at i:55897987 original size:21 final size:21
Alignment explanation
Indices: 55897946--55897996 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
55897936 ATTTCAATCA
*
55897946 TTTT-AAATAATTTTCTATAT
1 TTTTAAAATAATTTTATATAT
55897966 TTTTAAAATAATTCTTAT-TAT
1 TTTTAAAATAATT-TTATATAT
55897987 TATTTGAAAA
1 T-TTT-AAAA
55897997 ATCATGTCCT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 4 0.15
21 12 0.46
22 6 0.23
23 4 0.15
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.55
Consensus pattern (21 bp):
TTTTAAAATAATTTTATATAT
Found at i:55898172 original size:29 final size:29
Alignment explanation
Indices: 55898129--55898186 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
55898119 AAAATACCAT
* *
55898129 GTTAATGTGAGGTACACATGGTATGCCAC
1 GTTAATGTGAAGTACACATGGCATGCCAC
55898158 GTTAATGTGAAGTACACATGGCATGCCAC
1 GTTAATGTGAAGTACACATGGCATGCCAC
55898187 ATGTTGTTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (29 bp):
GTTAATGTGAAGTACACATGGCATGCCAC
Found at i:55899434 original size:18 final size:17
Alignment explanation
Indices: 55899411--55899444 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
55899401 CATAGCTTCT
55899411 ATCATTATTCTTGTCTCC
1 ATCATTATTCTT-TCTCC
*
55899429 ATCATTCTTCTTTCTC
1 ATCATTATTCTTTCTC
55899445 TAAAAGCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.15, C:0.29, G:0.03, T:0.53
Consensus pattern (17 bp):
ATCATTATTCTTTCTCC
Found at i:55902486 original size:68 final size:68
Alignment explanation
Indices: 55902377--55902513 Score: 274
Period size: 68 Copynumber: 2.0 Consensus size: 68
55902367 AAATCGCTTC
55902377 TAAGGCAATGATTCACCATGATGTAATATTTTTTTATTATTTGTACTTGTCAGTGCTAATGTCTT
1 TAAGGCAATGATTCACCATGATGTAATATTTTTTTATTATTTGTACTTGTCAGTGCTAATGTCTT
55902442 TAT
66 TAT
55902445 TAAGGCAATGATTCACCATGATGTAATATTTTTTTATTATTTGTACTTGTCAGTGCTAATGTCTT
1 TAAGGCAATGATTCACCATGATGTAATATTTTTTTATTATTTGTACTTGTCAGTGCTAATGTCTT
55902510 TAT
66 TAT
55902513 T
1 T
55902514 TTGCAATAGT
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 69 1.00
ACGTcount: A:0.26, C:0.12, G:0.15, T:0.47
Consensus pattern (68 bp):
TAAGGCAATGATTCACCATGATGTAATATTTTTTTATTATTTGTACTTGTCAGTGCTAATGTCTT
TAT
Found at i:55902538 original size:14 final size:14
Alignment explanation
Indices: 55902511--55902549 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
55902501 TAATGTCTTT
* *
55902511 ATTTTGCAATAGTA
1 ATTTTCCAACAGTA
55902525 ATTTTCCAACAGTA
1 ATTTTCCAACAGTA
55902539 ATTTTCCAACA
1 ATTTTCCAACA
55902550 ATTGGTTGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.36, C:0.18, G:0.08, T:0.38
Consensus pattern (14 bp):
ATTTTCCAACAGTA
Found at i:55904920 original size:21 final size:21
Alignment explanation
Indices: 55904894--55905004 Score: 168
Period size: 21 Copynumber: 5.1 Consensus size: 21
55904884 CCACGTGCAT
*
55904894 ACCACATCAACAAGATAACAC
1 ACCACATCAACAAAATAACAC
55904915 ACCACATCAACAAAATAACAC
1 ACCACATCAACAAAATAACAC
55904936 ACCACATCAACAAAATAACACAC
1 ACCACATCAACAAAAT-A-ACAC
*
55904959 ATACCACATCAACAAGATAACAC
1 --ACCACATCAACAAAATAACAC
55904982 ACCACATCAACAAAATAACAC
1 ACCACATCAACAAAATAACAC
55905003 AC
1 AC
55905005 GTTAACTTTT
Statistics
Matches: 83, Mismatches: 3, Indels: 8
0.88 0.03 0.09
Matches are distributed among these distances:
21 58 0.70
22 1 0.01
23 8 0.10
24 1 0.01
25 15 0.18
ACGTcount: A:0.55, C:0.33, G:0.02, T:0.10
Consensus pattern (21 bp):
ACCACATCAACAAAATAACAC
Found at i:55904982 original size:46 final size:44
Alignment explanation
Indices: 55904894--55905004 Score: 172
Period size: 46 Copynumber: 2.5 Consensus size: 44
55904884 CCACGTGCAT
*
55904894 ACCACATCAACAAGAT-A-ACACACCACATCAACAAAATAACAC
1 ACCACATCAACAAAATAACACACACCACATCAACAAAATAACAC
*
55904936 ACCACATCAACAAAATAACACACATACCACATCAACAAGATAACAC
1 ACCACATCAACAAAATAACACAC--ACCACATCAACAAAATAACAC
55904982 ACCACATCAACAAAATAACACAC
1 ACCACATCAACAAAATAACACAC
55905005 GTTAACTTTT
Statistics
Matches: 63, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
42 15 0.24
43 1 0.02
44 4 0.06
46 43 0.68
ACGTcount: A:0.55, C:0.33, G:0.02, T:0.10
Consensus pattern (44 bp):
ACCACATCAACAAAATAACACACACCACATCAACAAAATAACAC
Found at i:55908150 original size:6 final size:6
Alignment explanation
Indices: 55908134--55908167 Score: 59
Period size: 6 Copynumber: 5.5 Consensus size: 6
55908124 AAGTTAAGGA
55908134 AAAACAT AAAAAT AAAAAT AAAAAT AAAAAT AAA
1 AAAA-AT AAAAAT AAAAAT AAAAAT AAAAAT AAA
55908168 TGGTTTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 23 0.85
7 4 0.15
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:55911202 original size:28 final size:28
Alignment explanation
Indices: 55911161--55911228 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
55911151 ATAAAAAAAT
55911161 TAAAAT-A-CTAATTAAACTAATT-ATCC
1 TAAAATAACCTAATTAAACTAATTAAT-C
*
55911187 TAAAATAACCTAATTAAATTAATTAATC
1 TAAAATAACCTAATTAAACTAATTAATC
*
55911215 TAAAATAACTTAAT
1 TAAAATAACCTAAT
55911229 GAGATTAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
26 6 0.16
27 1 0.03
28 28 0.76
29 2 0.05
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (28 bp):
TAAAATAACCTAATTAAACTAATTAATC
Found at i:55916031 original size:23 final size:26
Alignment explanation
Indices: 55915972--55916032 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 26
55915962 ACTTGTGCGT
*
55915972 TTATA-ATTAAAAATAAATAATTAAAA
1 TTATATATT-AAATTAAATAATTAAAA
*
55915998 TTATATTTTAAATTAAATAA-T-AAA
1 TTATATATTAAATTAAATAATTAAAA
55916022 -TATATATTAAA
1 TTATATATTAAA
55916033 AATTGTGTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 10 0.32
24 3 0.10
25 1 0.03
26 15 0.48
27 2 0.06
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (26 bp):
TTATATATTAAATTAAATAATTAAAA
Found at i:55916035 original size:25 final size:26
Alignment explanation
Indices: 55915973--55916036 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 26
55915963 CTTGTGCGTT
55915973 TATA-ATTAAAAA-TAAATAATTAAA
1 TATATATTAAAAATTAAATAATTAAA
**
55915997 -ATTATATTTTAAATTAAATAA-TAAA
1 TA-TATATTAAAAATTAAATAATTAAA
55916022 TATATATTAAAAATT
1 TATATATTAAAAATT
55916037 GTGTTTATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
23 1 0.03
24 2 0.06
25 21 0.66
26 8 0.25
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (26 bp):
TATATATTAAAAATTAAATAATTAAA
Found at i:55916061 original size:18 final size:18
Alignment explanation
Indices: 55916002--55916062 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
55915992 TTAAAATTAT
*
55916002 ATTTTAAATTAAATAATA
1 ATTTTATATTAAATAATA
* * *
55916020 AATATATATTAAA-AATT
1 ATTTTATATTAAATAATA
*
55916037 GTGTTTATATTAAATAATA
1 AT-TTTATATTAAATAATA
55916056 ATTTTAT
1 ATTTTAT
55916063 GGGTAAACTA
Statistics
Matches: 32, Mismatches: 9, Indels: 4
0.71 0.20 0.09
Matches are distributed among these distances:
17 3 0.09
18 25 0.78
19 4 0.12
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (18 bp):
ATTTTATATTAAATAATA
Found at i:55917048 original size:16 final size:16
Alignment explanation
Indices: 55917023--55917053 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
55917013 TGACAAATTA
*
55917023 TAAAATTTTATTTTAC
1 TAAAAATTTATTTTAC
55917039 TAAAAATTTATTTTA
1 TAAAAATTTATTTTA
55917054 AATAAATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (16 bp):
TAAAAATTTATTTTAC
Found at i:55920432 original size:50 final size:50
Alignment explanation
Indices: 55920316--55920620 Score: 313
Period size: 50 Copynumber: 5.8 Consensus size: 50
55920306 AATAATAACA
* * ** **
55920316 TGCCAAAGCCATGTCCTAGACATGGTCTTACATGGGATGTTCTCATATCAA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATATCGG
* * ** *
55920367 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* *
55920417 TGCCAACGCCATGTCCCAGACGTGGTCTTACATGGGACCTTTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
*
55920467 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATGATCTCAAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC--GG
* *
55920522 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGATCTCAATGA
1 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GG
* ** *
55920579 TGTCAATTCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
55920621 TTACCCAAAT
Statistics
Matches: 220, Mismatches: 27, Indels: 9
0.86 0.11 0.04
Matches are distributed among these distances:
50 93 0.42
51 33 0.15
53 2 0.01
55 2 0.01
56 88 0.40
57 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:55920553 original size:56 final size:53
Alignment explanation
Indices: 55920315--55920620 Score: 333
Period size: 56 Copynumber: 5.8 Consensus size: 53
55920305 TAATAATAAC
* * ** *
55920315 ATGCCAAAGCCATGTCCTAGACATGGTCTTACATGGGATGTTCTCATA--TC-A
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATATCTCGG
* **
55920366 ATGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTC--ATCTCGG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCTCGG
* * *
55920417 -TGCCAACGCCATGTCCCAGACGTGGTCTTACATGGGACCTTTCATA--TCGG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCTCGG
* *
55920467 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATGATCTCAAGG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-ATCTC--GG
*
55920522 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGATCTCAATG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-ATCTC--GG
* * *
55920578 ATGTCAATTCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
55920621 TTACCCAAAT
Statistics
Matches: 221, Mismatches: 23, Indels: 17
0.85 0.09 0.07
Matches are distributed among these distances:
48 1 0.00
50 89 0.40
51 34 0.15
52 1 0.00
53 2 0.01
55 2 0.01
56 92 0.42
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (53 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCTCGG
Found at i:55927589 original size:50 final size:51
Alignment explanation
Indices: 55927474--55927818 Score: 342
Period size: 50 Copynumber: 6.6 Consensus size: 51
55927464 GATAATAACA
* * **
55927474 TGCCAAAGCCATGTCCCAGACATGGTCTTAC-ATGGGATGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAATGAGA-CCTCTCATATCGG
* * * *
55927525 TGCCCATGCCATGTCCCGGACATGGTCTTACAAAG-GACCTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAATGAGACCTCTCATATCGG
* * * *
55927575 TGCCAACGCCATGTCCCAGGCATGGTCTTAC-ATGGGACCTTTCATATTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAATGAGACCTCTCATATCGG
*
55927625 TGCCAACGCCATGTCCCAGACATGGTCTTAC-ATGAGAACTCTCATGATCTCAAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAATGAGACCTCTCAT-A--TC--GG
* * * * * *
55927680 ATGCCAATGCCATGTCTCAGGCATGGTCTTAC-ATGAGACCTTTCATCTCGA
1 -TGCCAACGCCATGTCCCAGACATGGTCTTACAATGAGACCTCTCATATCGG
*
55927731 TGCCAACGCCATGTCCCAGAAATGGTCTTAC-ATGAGACCTCTCATGATCTCAAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAATGAGACCTCTCAT-A--TC--GG
*
55927786 ATGCCAATGCCATGTCCCAGACATGGTCTTACA
1 -TGCCAACGCCATGTCCCAGACATGGTCTTACA
55927819 TGGGATCTCT
Statistics
Matches: 245, Mismatches: 34, Indels: 24
0.81 0.11 0.08
Matches are distributed among these distances:
49 2 0.01
50 132 0.54
51 32 0.13
52 2 0.01
53 5 0.02
55 3 0.01
56 69 0.28
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (51 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACAATGAGACCTCTCATATCGG
Found at i:55927721 original size:106 final size:106
Alignment explanation
Indices: 55927575--55927820 Score: 411
Period size: 106 Copynumber: 2.3 Consensus size: 106
55927565 CTCATATCGG
* * * *
55927575 TGCCAACGCCATGTCCCAGGCATGGTCTTACATGGGACCTTTCATATTGGTGCCAACGCCATGTC
1 TGCCAATGCCATGTCCCAGGCATGGTCTTACATGAGACCTTTCATATCGATGCCAACGCCATGTC
*
55927640 CCAGACATGGTCTTACATGAGAACTCTCATGATCTCAAGGA
66 CCAGAAATGGTCTTACATGAGAACTCTCATGATCTCAAGGA
* *
55927681 TGCCAATGCCATGTCTCAGGCATGGTCTTACATGAGACCTTTCATCTCGATGCCAACGCCATGTC
1 TGCCAATGCCATGTCCCAGGCATGGTCTTACATGAGACCTTTCATATCGATGCCAACGCCATGTC
*
55927746 CCAGAAATGGTCTTACATGAGACCTCTCATGATCTCAAGGA
66 CCAGAAATGGTCTTACATGAGAACTCTCATGATCTCAAGGA
*
55927787 TGCCAATGCCATGTCCCAGACATGGTCTTACATG
1 TGCCAATGCCATGTCCCAGGCATGGTCTTACATG
55927821 GGATCTCTTT
Statistics
Matches: 130, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
106 130 1.00
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (106 bp):
TGCCAATGCCATGTCCCAGGCATGGTCTTACATGAGACCTTTCATATCGATGCCAACGCCATGTC
CCAGAAATGGTCTTACATGAGAACTCTCATGATCTCAAGGA
Found at i:55927756 original size:156 final size:155
Alignment explanation
Indices: 55927473--55927828 Score: 422
Period size: 156 Copynumber: 2.3 Consensus size: 155
55927463 TGATAATAAC
* ** *
55927473 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGATACTCTCATATCGGTGCCAATGCCATG
* * **
55927538 TCCCGGACATGGTCTTACAAAGGACCTCTCATATCGGTGCCAACGCCATGTCCCAGGCATGGTCT
66 TCCAGGACATGGTCTTACAAAGGACCTCTCATATCGATGCCAACGCCATGTCCCAGAAATGGTCT
* *
55927603 TACATGGGACCTTTCAT-AT-T-GG
131 TACATGAGACCTCTCATGATCTAGG
*
55927625 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGA-ACTCTCATGATCTCAAGGATGCCAAT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGATACTCTCAT-A--TC--GG-TGCCAAT
* * *
55927688 GCCATGTCTCAGG-CATGGTCTTAC-ATGAGACCTTTCATCTCGATGCCAACGCCATGTCCCAGA
60 GCCATGTC-CAGGACATGGTCTTACAAAG-GACCTCTCATATCGATGCCAACGCCATGTCCCAGA
55927751 AATGGTCTTACATGAGACCTCTCATGATCTCAAGG
123 AATGGTCTTACATGAGACCTCTCATGATCT--AGG
* *
55927786 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAT-CTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGATACTCT
55927829 TTACCCAAAT
Statistics
Matches: 173, Mismatches: 16, Indels: 20
0.83 0.08 0.10
Matches are distributed among these distances:
150 6 0.03
151 36 0.21
153 2 0.01
155 4 0.02
156 78 0.45
157 5 0.03
158 1 0.01
161 2 0.01
162 39 0.23
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.26
Consensus pattern (155 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGATACTCTCATATCGGTGCCAATGCCATG
TCCAGGACATGGTCTTACAAAGGACCTCTCATATCGATGCCAACGCCATGTCCCAGAAATGGTCT
TACATGAGACCTCTCATGATCTAGG
Found at i:55936244 original size:23 final size:24
Alignment explanation
Indices: 55936217--55936299 Score: 80
Period size: 24 Copynumber: 3.4 Consensus size: 24
55936207 CTTAATGATT
*
55936217 AAAAACTTGATGGAAAACTTTATGA
1 AAAAACTTGATGGAAAACTTTA-AA
*
55936242 AAAGACTTGAT-GAAAAGC-TTAAA
1 AAAAACTTGATGGAAAA-CTTTAAA
* *
55936265 AAGAACTTGATGCAAAACTTAATAAA
1 AAAAACTTGATGGAAAACTT--TAAA
55936291 AAAAACTTG
1 AAAAACTTG
55936300 GTAATTAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
23 11 0.23
24 13 0.28
25 11 0.23
26 12 0.26
ACGTcount: A:0.52, C:0.10, G:0.14, T:0.24
Consensus pattern (24 bp):
AAAAACTTGATGGAAAACTTTAAA
Found at i:55936340 original size:14 final size:13
Alignment explanation
Indices: 55936202--55936347 Score: 72
Period size: 12 Copynumber: 11.2 Consensus size: 13
55936192 AGCTTAATTG
*
55936202 AAAAACTTAATGA
1 AAAAACTTGATGA
55936215 TTAAAAACTTGATG-
1 --AAAAACTTGATGA
* *
55936229 GAAAACTTTATGA
1 AAAAACTTGATGA
*
55936242 AAAGACTTGATG-
1 AAAAACTTGATGA
*
55936254 AAAAGCTT-A--A
1 AAAAACTTGATGA
55936264 AAAGAACTTGATG-
1 AAA-AACTTGATGA
* * *
55936277 CAAAACTTAATAAA
1 AAAAACTTGAT-GA
* *
55936291 AAAAACTTGGTAA
1 AAAAACTTGATGA
55936304 TTAAAAACTTGAT-A
1 --AAAAACTTGATGA
55936318 AAAGAACTTGATGA
1 AAA-AACTTGATGA
*
55936332 AAAACACTTGAAGA
1 AAAA-ACTTGATGA
55936346 AA
1 AA
55936348 GAAAACACTT
Statistics
Matches: 101, Mismatches: 17, Indels: 27
0.70 0.12 0.19
Matches are distributed among these distances:
10 3 0.03
11 5 0.05
12 27 0.27
13 22 0.22
14 23 0.23
15 21 0.21
ACGTcount: A:0.53, C:0.09, G:0.14, T:0.25
Consensus pattern (13 bp):
AAAAACTTGATGA
Found at i:55941951 original size:11 final size:11
Alignment explanation
Indices: 55941926--55941982 Score: 62
Period size: 11 Copynumber: 5.1 Consensus size: 11
55941916 ATAAATCCTT
55941926 TCTCTAATTTCC
1 TCTC-AATTTCC
*
55941938 TCTCAATTTGC
1 TCTCAATTTCC
55941949 TCTCAATTTCC
1 TCTCAATTTCC
*
55941960 TTTCAAATTT-C
1 TCTC-AATTTCC
*
55941971 TCTCAAATTCC
1 TCTCAATTTCC
55941982 T
1 T
55941983 ATTTAAAAGA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
10 4 0.11
11 25 0.66
12 9 0.24
ACGTcount: A:0.21, C:0.30, G:0.02, T:0.47
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:55941956 original size:22 final size:22
Alignment explanation
Indices: 55941924--55941982 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 22
55941914 AAATAAATCC
55941924 TTTCTCT-AATTTCCTCTC-AA
1 TTTCTCTCAATTTCCTCTCAAA
*
55941944 TTTGCTCTCAATTTCCTTTCAAA
1 TTT-CTCTCAATTTCCTCTCAAA
*
55941967 TTTCTCTCAAATTCCT
1 TTTCTCTCAATTTCCT
55941983 ATTTAAAAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.09
21 4 0.12
22 22 0.65
23 5 0.15
ACGTcount: A:0.20, C:0.29, G:0.02, T:0.49
Consensus pattern (22 bp):
TTTCTCTCAATTTCCTCTCAAA
Found at i:55945394 original size:126 final size:125
Alignment explanation
Indices: 55945182--55945469 Score: 450
Period size: 126 Copynumber: 2.3 Consensus size: 125
55945172 TTTTTGGAGT
* * * *
55945182 TACTGTAGCAAAGGCGCGTCTACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCTGC
1 TACTGTAGCAAAAGCGCGTCCACGTGGAAACTTCTTTCAGTACTTCTGCTGACAAAGCATCCTGC
* *
55945247 TTAAAGCGTTTTTGACACTGTTTGCTCATAAACATCTACTTGAAATTATTTTTTCAAGAGC
66 TTAAAGCGTTTTTGACACTGTTTGCTCAGAAACATCTACTCGAAATTA-TTTTTCAAGAGC
* *
55945308 TACTGTAGCAAAAGCGCATCCACGTGGAAACTTTTTTCAGTACTTCTGCTGACAAAGCATCCTGC
1 TACTGTAGCAAAAGCGCGTCCACGTGGAAACTTCTTTCAGTACTTCTGCTGACAAAGCATCCTGC
* *
55945373 TTAAAGCGTTTTTGACACTGTTTGCTCAGAAACGTCTACTCGAAATTATTTTTCAGGAGC
66 TTAAAGCGTTTTTGACACTGTTTGCTCAGAAACATCTACTCGAAATTATTTTTCAAGAGC
* * *
55945433 CACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTT
1 TACTGTAGCAAAAGCGCGTCCACGTGGAAACTTCTTT
55945470 AAATTAACAA
Statistics
Matches: 147, Mismatches: 15, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
125 43 0.29
126 104 0.71
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.32
Consensus pattern (125 bp):
TACTGTAGCAAAAGCGCGTCCACGTGGAAACTTCTTTCAGTACTTCTGCTGACAAAGCATCCTGC
TTAAAGCGTTTTTGACACTGTTTGCTCAGAAACATCTACTCGAAATTATTTTTCAAGAGC
Found at i:55953600 original size:12 final size:12
Alignment explanation
Indices: 55953583--55953607 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
55953573 TAAATGTACA
55953583 TTATTTTATTTT
1 TTATTTTATTTT
55953595 TTATTTTATTTT
1 TTATTTTATTTT
55953607 T
1 T
55953608 GTTCGTTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTATTTTATTTT
Found at i:55958850 original size:20 final size:21
Alignment explanation
Indices: 55958827--55958865 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
55958817 TGGATGGTTA
*
55958827 TGTATATTGTA-TATAAAATG
1 TGTATATTGAATTATAAAATG
55958847 TGTATATTGAATTATAAAA
1 TGTATATTGAATTATAAAA
55958866 GTTATTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.44
Consensus pattern (21 bp):
TGTATATTGAATTATAAAATG
Found at i:55965319 original size:20 final size:20
Alignment explanation
Indices: 55965290--55965327 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
55965280 GTGAAATACT
55965290 GAACAGAACAAAGTAGAAAA
1 GAACAGAACAAAGTAGAAAA
* *
55965310 GAACATAACAGAGTAGAA
1 GAACAGAACAAAGTAGAA
55965328 CAGAGCATGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.61, C:0.11, G:0.21, T:0.08
Consensus pattern (20 bp):
GAACAGAACAAAGTAGAAAA
Found at i:55969974 original size:14 final size:15
Alignment explanation
Indices: 55969957--55969995 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
55969947 TTATTTATTA
55969957 AATTAATTTA-AATT
1 AATTAATTTACAATT
55969971 AATTAATTTACCAATT
1 AATTAATTTA-CAATT
*
55969987 AAATAATTT
1 AATTAATTT
55969996 TCTCAACTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.45
16 12 0.55
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (15 bp):
AATTAATTTACAATT
Found at i:55975457 original size:14 final size:15
Alignment explanation
Indices: 55975431--55975463 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
55975421 TGCAAAACTG
55975431 GGAAGGACCTTATAT
1 GGAAGGACCTTATAT
*
55975446 GGAAGG-CCTTATTT
1 GGAAGGACCTTATAT
55975460 GGAA
1 GGAA
55975464 AAGTGTCGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.30, C:0.12, G:0.30, T:0.27
Consensus pattern (15 bp):
GGAAGGACCTTATAT
Found at i:55975562 original size:11 final size:11
Alignment explanation
Indices: 55975546--55975595 Score: 61
Period size: 11 Copynumber: 4.8 Consensus size: 11
55975536 ACTTCACTTT
*
55975546 AAAAGAAACGA
1 AAAAGAAAAGA
55975557 AAAAGAAAA-A
1 AAAAGAAAAGA
*
55975567 AAAA-AGAA-A
1 AAAAGAAAAGA
55975576 AAAAGAAAAGA
1 AAAAGAAAAGA
55975587 AAAAGAAAA
1 AAAAGAAAA
55975596 AAGATAGGCC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 8 0.24
10 8 0.24
11 18 0.53
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (11 bp):
AAAAGAAAAGA
Found at i:55975568 original size:19 final size:19
Alignment explanation
Indices: 55975556--55975597 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
55975546 AAAAGAAACG
55975556 AAAAAGAAAAAAAAAAGAA
1 AAAAAGAAAAAAAAAAGAA
*
55975575 AAAAAGAAAAGAAAAAGAA
1 AAAAAGAAAAAAAAAAGAA
55975594 AAAA
1 AAAA
55975598 GATAGGCCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (19 bp):
AAAAAGAAAAAAAAAAGAA
Found at i:55976559 original size:44 final size:45
Alignment explanation
Indices: 55976479--55976563 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 45
55976469 GTCATTATGG
* * * * *
55976479 CAGCTCTTATCTTCCTGAAGTTGCAGTGGAGTAGATTGAAGCCAC
1 CAGCTCTTATCTCCCTAAAGTTACAGCGGAGCAGATTGAAGCCAC
*
55976524 CAGC-CTTATCTCCCTAAAGTTATAGCGGAGCAGATTGAAG
1 CAGCTCTTATCTCCCTAAAGTTACAGCGGAGCAGATTGAAG
55976564 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 30 0.88
45 4 0.12
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (45 bp):
CAGCTCTTATCTCCCTAAAGTTACAGCGGAGCAGATTGAAGCCAC
Found at i:55978080 original size:19 final size:19
Alignment explanation
Indices: 55978056--55978093 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
55978046 TGGGCCACAT
55978056 TGGGCTGAAATGGGC-CGTG
1 TGGGCT-AAATGGGCTCGTG
*
55978075 TGGGCTCAATGGGCTCGTG
1 TGGGCTAAATGGGCTCGTG
55978094 AGCCCCACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.13, C:0.18, G:0.45, T:0.24
Consensus pattern (19 bp):
TGGGCTAAATGGGCTCGTG
Found at i:55979023 original size:46 final size:46
Alignment explanation
Indices: 55978919--55979080 Score: 267
Period size: 46 Copynumber: 3.6 Consensus size: 46
55978909 TACATATGAT
* *
55978919 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
55978962 CATTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
55979008 CACTTATCACTTTGTCACTTGATCAGATAAGTCTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
55979054 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
55979081 AGTACTTAAA
Statistics
Matches: 111, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
43 9 0.08
44 5 0.05
45 20 0.18
46 77 0.69
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.33
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:55982825 original size:143 final size:143
Alignment explanation
Indices: 55982567--55982909 Score: 465
Period size: 143 Copynumber: 2.4 Consensus size: 143
55982557 GGGTGTTACA
* * * *
55982567 TTATCTCCCTGAAGTTACAGCGGAGCAGACTGAAAATAGTGAATCTTATTTCCCTAGTGTTGTAG
1 TTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGATAGTGAATCTTATTTCCTTAGTGTTGCAG
* * * * * * *
55982632 TGGAATAGATTAAAGCTACAAATTATGGCGAATTTTATTTTCTTAAAGTTGTAGTAGAGGAAATT
66 TGGAACAGATTAAAGCTACAAATTATGACGAATCTTATCTTCCTAAAGTTGCAGTAGAGCAAATT
*
55982697 GAAGCCACCAGCC
131 GAAGCCACCAACC
* * * *
55982710 TTATCTCCCTAAAGTTGCAGCAGAGCAGACTGAAGATAGCGAATCTTATTTCCTTGGTGTTGCAG
1 TTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGATAGTGAATCTTATTTCCTTAGTGTTGCAG
* * *
55982775 TGGAACAGATTAAAGCTACAAATTATGAC-AGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGAT
66 TGGAACAGATTAAAGCTACAAATTATGACGA-ATCTTATCTTCCTAAAGTTGCAGTAGAGCAAAT
*
55982839 TGACGCCACCAACC
130 TGAAGCCACCAACC
*
55982853 TTATCTCCCTGAAGTTGCAGCGGTGCAGACTGAAGACT-GTGAATCTTATTTCCTTAG
1 TTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGA-TAGTGAATCTTATTTCCTTAG
55982910 CCCACTCTTA
Statistics
Matches: 173, Mismatches: 25, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
142 1 0.01
143 171 0.99
144 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (143 bp):
TTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGATAGTGAATCTTATTTCCTTAGTGTTGCAG
TGGAACAGATTAAAGCTACAAATTATGACGAATCTTATCTTCCTAAAGTTGCAGTAGAGCAAATT
GAAGCCACCAACC
Found at i:55984377 original size:22 final size:22
Alignment explanation
Indices: 55984307--55984384 Score: 70
Period size: 22 Copynumber: 3.4 Consensus size: 22
55984297 CTTTTAGTTC
*
55984307 TTATTTGTTTATTTAT-TTATT
1 TTATTTTTTTATTTATCTTATT
* *
55984328 ATT-TCTTTTTATTTAATTGGCTTGTT
1 -TTATTTTTTTATTT-A-T--CTTATT
55984354 TTATTTTTTTATTTATCTTATT
1 TTATTTTTTTATTTATCTTATT
55984376 TTATTTTTT
1 TTATTTTTT
55984385 CCTATGGTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
21 9 0.20
22 17 0.38
23 1 0.02
24 1 0.02
25 3 0.07
26 14 0.31
ACGTcount: A:0.17, C:0.04, G:0.05, T:0.74
Consensus pattern (22 bp):
TTATTTTTTTATTTATCTTATT
Found at i:55987430 original size:2 final size:2
Alignment explanation
Indices: 55987423--55987451 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
55987413 AATGTTTTTG
55987423 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
55987452 ATGAAAAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:55989177 original size:22 final size:21
Alignment explanation
Indices: 55989142--55989275 Score: 77
Period size: 19 Copynumber: 6.7 Consensus size: 21
55989132 AAAGGGTATC
* *
55989142 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
55989163 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
55989186 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
55989205 TATATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
55989224 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* * *
55989243 TATATAT--TATATCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
55989262 TGCATATCATATCT
1 TACAAATCATATCT
55989276 AAGATTGCAT
Statistics
Matches: 94, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
17 2 0.02
19 60 0.64
21 7 0.07
22 15 0.16
23 10 0.11
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.39
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:55989185 original size:23 final size:22
Alignment explanation
Indices: 55989142--55989199 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
55989132 AAAGGGTATC
* *
55989142 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
55989163 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
55989186 TGCATATCATATCT
1 TACAAATCATATCT
55989200 AAGATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:55989202 original size:19 final size:19
Alignment explanation
Indices: 55989178--55989288 Score: 177
Period size: 19 Copynumber: 5.8 Consensus size: 19
55989168 AATCATATCT
55989178 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
55989197 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
55989216 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
55989235 TCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATA
55989254 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
55989273 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
55989289 CCTGAAGATT
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 82 1.00
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.40
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:55989225 original size:38 final size:38
Alignment explanation
Indices: 55989178--55989281 Score: 199
Period size: 38 Copynumber: 2.7 Consensus size: 38
55989168 AATCATATCT
55989178 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
*
55989216 TCTAAGATTGCATATCATATCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
55989254 TCTAAGATTGCATATCATATCTAAGATT
1 TCTAAGATTGCATATCATATCTAAGATT
55989282 GCATATCCCT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 65 1.00
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.40
Consensus pattern (38 bp):
TCTAAGATTGCATATCATATCTAAGATTATATATCATA
Found at i:55989856 original size:132 final size:132
Alignment explanation
Indices: 55989614--55990376 Score: 1224
Period size: 132 Copynumber: 5.8 Consensus size: 132
55989604 TAGGACTTAC
* * * * * *
55989614 AATCTTCAACCTATTCCACTGCTGACTAGGGAAATATG-ATTACTGGCTTCAATGTACTCCATTG
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTA-GAATTACTGGCTTCAATGTACTCCACTG
* * *
55989678 TAACTACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGACC
65 TAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
55989743 TGA
130 TGA
*
55989746 AATCTTCAATCTATTCCACTGTTGTCCAGGGAACTAGAATTACTGGCTTCAATGTACTCCACTGT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
* *
55989811 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGACCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
55989876 GA
131 GA
* * *
55989878 AATCTTCAATCTATTCCATTGTTGTCCAGGGAAGTAGAATTACTGGCTTTAATGTACTCCACTAT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
* *
55989943 AACCACAGAGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
*
55990008 AA
131 GA
* **
55990010 AATCTTTAATCTATTCCACTGTTGTTTAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
*
55990075 AACCACAGAGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
55990140 GA
131 GA
* * *
55990142 AATCTTCAATTTATTCCACTGTTG-CCTAGGGAAGTAGAATTACTGGCTTCAATATACTCCACTA
1 AATCTTCAATCTATTCCACTGTTGTCC-AGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTG
* *
55990206 TAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATT
65 TAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
55990271 TGA
130 TGA
* *
55990274 AATCCTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGTTTCAATGTACTCCACTGT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
*
55990339 AACCACAAGGAGGTAAAATCCGCCATCTTCGATCTGCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
55990377 TCGCTGTCAA
Statistics
Matches: 586, Mismatches: 42, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
131 1 0.00
132 583 0.99
133 2 0.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.29
Consensus pattern (132 bp):
AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
GA
Found at i:55991801 original size:14 final size:15
Alignment explanation
Indices: 55991778--55991810 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
55991768 GTCGATGCTT
*
55991778 TTCCAGATAAGG-CC
1 TTCCACATAAGGTCC
55991792 TTCCACATAAGGTCC
1 TTCCACATAAGGTCC
55991807 TTCC
1 TTCC
55991811 TAGCTTGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.24, C:0.33, G:0.15, T:0.27
Consensus pattern (15 bp):
TTCCACATAAGGTCC
Found at i:55997254 original size:22 final size:21
Alignment explanation
Indices: 55997219--55997352 Score: 68
Period size: 19 Copynumber: 6.7 Consensus size: 21
55997209 AAAGGGTATC
* *
55997219 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
55997240 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
55997263 TTCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
55997282 TATATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
** *
55997301 TGTATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* * *
55997320 TATATAT--TATATCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
55997339 TGCATATCATATCT
1 TACAAATCATATCT
55997353 AAGATTGCAT
Statistics
Matches: 96, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
17 2 0.02
19 62 0.65
21 7 0.07
22 15 0.16
23 10 0.10
ACGTcount: A:0.40, C:0.13, G:0.06, T:0.40
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:55997262 original size:23 final size:22
Alignment explanation
Indices: 55997219--55997276 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
55997209 AAAGGGTATC
* *
55997219 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
55997240 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
55997263 TTCATATCATATCT
1 TACAAATCATATCT
55997277 AAGATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.03, T:0.38
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:55997359 original size:19 final size:19
Alignment explanation
Indices: 55997255--55997365 Score: 159
Period size: 19 Copynumber: 5.8 Consensus size: 19
55997245 AATCATATCT
*
55997255 TCTAAGATTTCATATCATA
1 TCTAAGATTGCATATCATA
**
55997274 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
*
55997293 TCTAAGATTGTATATCATA
1 TCTAAGATTGCATATCATA
** *
55997312 TCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATA
55997331 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
55997350 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
55997366 CCTGAAGATT
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 84 1.00
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.41
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:56000270 original size:13 final size:13
Alignment explanation
Indices: 56000252--56000277 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
56000242 AATAAAACAT
56000252 CTCTAGAAACTTA
1 CTCTAGAAACTTA
56000265 CTCTAGAAACTTA
1 CTCTAGAAACTTA
56000278 GGTCAAGTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (13 bp):
CTCTAGAAACTTA
Found at i:56010838 original size:63 final size:64
Alignment explanation
Indices: 56010750--56010902 Score: 161
Period size: 63 Copynumber: 2.4 Consensus size: 64
56010740 TGCAGGGTCC
* * * * *
56010750 ACATTGGCTAAGGACACGAGCGTGTGTTC-AGGCCATGTAACACACTGTTTATACACT-AGAACA
1 ACATGGGCCAAGGACACGGGCGTGTGTTCTACGCCATGTAACACACTATTTATACACTAAG-ACA
* * * *
56010813 ACATGGGCCAAGGACACGGGCGTGTG-TCTACGCCATGTAACATACTATTTGTACATTAAGACC
1 ACATGGGCCAAGGACACGGGCGTGTGTTCTACGCCATGTAACACACTATTTATACACTAAGACA
* *
56010876 ACACGGG-CAAGTGACACAGGCGTGTGT
1 ACATGGGCCAAG-GACACGGGCGTGTGT
56010903 CCTCACATGG
Statistics
Matches: 75, Mismatches: 11, Indels: 7
0.81 0.12 0.08
Matches are distributed among these distances:
62 6 0.08
63 67 0.89
64 2 0.03
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.22
Consensus pattern (64 bp):
ACATGGGCCAAGGACACGGGCGTGTGTTCTACGCCATGTAACACACTATTTATACACTAAGACA
Found at i:56016103 original size:14 final size:14
Alignment explanation
Indices: 56016080--56016119 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
56016070 ACAAAAAAGT
*
56016080 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
56016094 AAATCATTTTACGG
1 AAAACATTTTACAG
56016108 AAAACATTTTAC
1 AAAACATTTTAC
56016120 TAGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:56019342 original size:24 final size:24
Alignment explanation
Indices: 56019292--56019343 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
56019282 AATCAAAGTC
* *
56019292 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATACT
* *
56019316 AAATATATTATACTCATAAATATT
1 AAATATATTATACTAATAAATACT
56019340 AAAT
1 AAAT
56019344 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:56023799 original size:24 final size:24
Alignment explanation
Indices: 56023772--56023823 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
56023762 AATCAAAGTC
*
56023772 AAATATATTATGCTAATAAATACT
1 AAATATATTATACTAATAAATACT
* *
56023796 AAATATATTATACTCATAAGTACT
1 AAATATATTATACTAATAAATACT
56023820 AAAT
1 AAAT
56023824 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:56024638 original size:27 final size:27
Alignment explanation
Indices: 56024591--56024654 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
56024581 AAATATTCTC
56024591 TAAATTAAT-AAATATTAATTTATCAA
1 TAAATTAATAAAATATTAATTTATCAA
* *
56024617 TAAATTAATAAAATATTCATTTATCGA
1 TAAATTAATAAAATATTAATTTATCAA
*
56024644 TAAATTTATAA
1 TAAATTAATAA
56024655 CCTCGATAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 9 0.26
27 25 0.74
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.42
Consensus pattern (27 bp):
TAAATTAATAAAATATTAATTTATCAA
Found at i:56024906 original size:13 final size:13
Alignment explanation
Indices: 56024890--56024937 Score: 53
Period size: 13 Copynumber: 3.6 Consensus size: 13
56024880 TACTCTCTTT
*
56024890 TTCTTCTATTATC
1 TTCTTCTTTTATC
*
56024903 TTCTTCTTTTTTC
1 TTCTTCTTTTATC
56024916 -TCTTCTTTTATTC
1 TTCTTCTTTTA-TC
56024929 TTTCTTCTT
1 -TTCTTCTT
56024938 ACTTTTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
12 9 0.31
13 13 0.45
15 7 0.24
ACGTcount: A:0.06, C:0.23, G:0.00, T:0.71
Consensus pattern (13 bp):
TTCTTCTTTTATC
Found at i:56033151 original size:12 final size:14
Alignment explanation
Indices: 56033121--56033152 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
56033111 AGAGTATTCT
56033121 ATGTTATAAATGAA
1 ATGTTATAAATGAA
56033135 ATGTT-TAAATG-A
1 ATGTTATAAATGAA
56033147 ATGTTA
1 ATGTTA
56033153 GATTTTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 6 0.35
13 6 0.35
14 5 0.29
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.41
Consensus pattern (14 bp):
ATGTTATAAATGAA
Found at i:56034623 original size:42 final size:43
Alignment explanation
Indices: 56034567--56034698 Score: 128
Period size: 42 Copynumber: 3.1 Consensus size: 43
56034557 AGTACTAAAC
* * *
56034567 GAAA-ACATGTAAGGGTTAAACAGAAGCTCATAGGAGCTGAACG
1 GAAACACAT-TAAGGGTTAAACAGAAGCTCAAAAGAGCTGAACT
* * ** *
56034610 GAAAC-C-TATAAGGGTTAATCTGAAGCTCGGAAGAGCTAAACT
1 GAAACACAT-TAAGGGTTAAACAGAAGCTCAAAAGAGCTGAACT
* *
56034652 GAAACACATTAA-GGTTAAACAAAAGCTCAAAAGAGTTGAACT
1 GAAACACATTAAGGGTTAAACAGAAGCTCAAAAGAGCTGAACT
56034694 GAAAC
1 GAAAC
56034699 TCATATGAGT
Statistics
Matches: 71, Mismatches: 15, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
42 61 0.86
43 9 0.13
44 1 0.01
ACGTcount: A:0.44, C:0.15, G:0.23, T:0.18
Consensus pattern (43 bp):
GAAACACATTAAGGGTTAAACAGAAGCTCAAAAGAGCTGAACT
Found at i:56034692 original size:84 final size:83
Alignment explanation
Indices: 56034561--56034720 Score: 200
Period size: 84 Copynumber: 1.9 Consensus size: 83
56034551 CACATAAGTA
* * * *
56034561 CTAAACGAAAACATGTAAGGGTTAAACAGAAGCTCATAGGAGCTGAACGGAAAC-CTATAAGGGT
1 CTAAACGAAAACATGTAAGGGTTAAACAAAAGCTCAAAAGAGCTGAACGGAAACTC-ATAAGAGT
56034625 TAATCTGAAGCTCGGAAGAG
65 TAAT-TGAAGCTCGGAAGAG
* * *
56034645 CTAAACTGAAACACAT-TAA-GGTTAAACAAAAGCTCAAAAGAGTTGAACTGAAACTCATATGAG
1 CTAAAC-GAAA-ACATGTAAGGGTTAAACAAAAGCTCAAAAGAGCTGAACGGAAACTCATAAGAG
56034708 TTAATTGAAGCTC
64 TTAATTGAAGCTC
56034721 ATGAGAGCTA
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
83 8 0.12
84 46 0.70
85 8 0.12
86 4 0.06
ACGTcount: A:0.42, C:0.16, G:0.21, T:0.21
Consensus pattern (83 bp):
CTAAACGAAAACATGTAAGGGTTAAACAAAAGCTCAAAAGAGCTGAACGGAAACTCATAAGAGTT
AATTGAAGCTCGGAAGAG
Found at i:56034721 original size:20 final size:21
Alignment explanation
Indices: 56034674--56034727 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
56034664 GGTTAAACAA
*
56034674 AAGCTCAAAAGAGTTGAACTG
1 AAGCTCATAAGAGTTGAACTG
* * *
56034695 AAACTCATATGAGTT-AATTG
1 AAGCTCATAAGAGTTGAACTG
*
56034715 AAGCTCATGAGAG
1 AAGCTCATAAGAG
56034728 CTACACGGAA
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.41, C:0.13, G:0.22, T:0.24
Consensus pattern (21 bp):
AAGCTCATAAGAGTTGAACTG
Found at i:56037398 original size:23 final size:22
Alignment explanation
Indices: 56037355--56037399 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
56037345 GTTAAATTTA
* **
56037355 ATTGTATGTATGTGATTGTATT
1 ATTGTATGTATATGAAAGTATT
56037377 ATTGTAATGTATATGAAAGTATT
1 ATTGT-ATGTATATGAAAGTATT
56037400 CACATATCCG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (22 bp):
ATTGTATGTATATGAAAGTATT
Found at i:56037776 original size:24 final size:24
Alignment explanation
Indices: 56037740--56037796 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
56037730 TTCTTGATAT
* * *
56037740 ATGGCTATCCGGAGCTTCCCGTTA
1 ATGGCTCTCCGGAGCTACCCATTA
*
56037764 ATGGCTCTTCGGAGCTACCCATTA
1 ATGGCTCTCCGGAGCTACCCATTA
*
56037788 TTGGCTCTC
1 ATGGCTCTC
56037797 ATGAGCTTCC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.16, C:0.30, G:0.23, T:0.32
Consensus pattern (24 bp):
ATGGCTCTCCGGAGCTACCCATTA
Found at i:56037816 original size:24 final size:25
Alignment explanation
Indices: 56037784--56037831 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
56037774 GGAGCTACCC
*
56037784 ATTATTGGCTCTCATGAGCTTCCTA
1 ATTATTGGCACTCATGAGCTTCCTA
*
56037809 ATTA-TGGCACTTATGAGCTTCCT
1 ATTATTGGCACTCATGAGCTTCCT
56037832 GTTACACAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.40
Consensus pattern (25 bp):
ATTATTGGCACTCATGAGCTTCCTA
Found at i:56038223 original size:13 final size:13
Alignment explanation
Indices: 56038205--56038229 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56038195 GTGTTTAGGA
56038205 AAATTTCCAAATC
1 AAATTTCCAAATC
56038218 AAATTTCCAAAT
1 AAATTTCCAAAT
56038230 TTTCTTTGGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.32
Consensus pattern (13 bp):
AAATTTCCAAATC
Found at i:56043966 original size:21 final size:21
Alignment explanation
Indices: 56043940--56043982 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
56043930 TTAATTTTCT
* *
56043940 ACTCCTATTAACAATCTAACA
1 ACTCCTACTAACAAGCTAACA
56043961 ACTCCTACTAACAAGCTAACA
1 ACTCCTACTAACAAGCTAACA
56043982 A
1 A
56043983 ATCTCCCTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.30, G:0.02, T:0.23
Consensus pattern (21 bp):
ACTCCTACTAACAAGCTAACA
Found at i:56044004 original size:21 final size:21
Alignment explanation
Indices: 56043980--56044022 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
56043970 AACAAGCTAA
* *
56043980 CAAATCTCCCTGGGACTTAGT
1 CAAATCTCCCTAGGACTCAGT
56044001 CAAATCTCCCTAGGACTCAGT
1 CAAATCTCCCTAGGACTCAGT
56044022 C
1 C
56044023 TTATTAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.26
Consensus pattern (21 bp):
CAAATCTCCCTAGGACTCAGT
Found at i:56052419 original size:20 final size:19
Alignment explanation
Indices: 56052394--56052431 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
56052384 ACTCTAATTT
*
56052394 TCAAAATATATAAAAAAAGC
1 TCAAAATA-AAAAAAAAAGC
56052414 TCAAAATAAAAAAAAAAG
1 TCAAAATAAAAAAAAAAG
56052432 TAAAAAGCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.71, C:0.08, G:0.05, T:0.16
Consensus pattern (19 bp):
TCAAAATAAAAAAAAAAGC
Found at i:56052658 original size:29 final size:28
Alignment explanation
Indices: 56052616--56052707 Score: 87
Period size: 29 Copynumber: 3.2 Consensus size: 28
56052606 ATGATAAAAA
* *
56052616 ATAAAAATCAATAAAAGTTAAAAAAATT
1 ATAAAAATTAATAAAAATTAAAAAAATT
** *
56052644 ATTAAATTTTAATAAAAATAGAAAAAAATT
1 A-TAAAAATTAATAAAAAT-TAAAAAAATT
* *
56052674 ATAAAAATT-ATAAAATTTATAAAAATT
1 ATAAAAATTAATAAAAATTAAAAAAATT
*
56052701 GTAAAAA
1 ATAAAAA
56052708 AAATTATAAA
Statistics
Matches: 51, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
27 14 0.27
28 8 0.16
29 19 0.37
30 10 0.20
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.30
Consensus pattern (28 bp):
ATAAAAATTAATAAAAATTAAAAAAATT
Found at i:56052660 original size:39 final size:38
Alignment explanation
Indices: 56052615--56052718 Score: 104
Period size: 39 Copynumber: 2.7 Consensus size: 38
56052605 AATGATAAAA
* * *
56052615 AATAAAAATCA-ATAAAAGTTAAAAAAATTATTAAATTTT
1 AATAAAAAT-AGAAAAAAATTAAAAAAATTA-TAAAATTT
*
56052654 AATAAAAATAGAAAAAAATTATAAAAATTATAAAATTT
1 AATAAAAATAGAAAAAAATTAAAAAAATTATAAAATTT
* *
56052692 -ATAAAAATTGTAAAAAAAATTATAAAA
1 AATAAAAATAG--AAAAAAATTAAAAAA
56052719 TATATAGAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
37 9 0.16
38 8 0.14
39 40 0.70
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (38 bp):
AATAAAAATAGAAAAAAATTAAAAAAATTATAAAATTT
Found at i:56052679 original size:9 final size:9
Alignment explanation
Indices: 56052602--56052808 Score: 77
Period size: 9 Copynumber: 22.0 Consensus size: 9
56052592 ACATGTAATA
*
56052602 AAAAATGAT
1 AAAAATTAT
56052611 AAAAA--AT
1 AAAAATTAT
*
56052618 AAAAATCAAT
1 AAAAAT-TAT
* *
56052628 AAAAGTTAA
1 AAAAATTAT
56052637 AAAAATTATT
1 AAAAATTA-T
**
56052647 AAATTTTAAT
1 AAAAATT-AT
* *
56052657 AAAAATAGAA
1 AAAAAT-TAT
56052667 AAAAATTAT
1 AAAAATTAT
56052676 AAAAATTAT
1 AAAAATTAT
*
56052685 AAAATTTAT
1 AAAAATTAT
*
56052694 AAAAATTGTAAA
1 AAAAA-T-T-AT
56052706 AAAAATTAT
1 AAAAATTAT
56052715 -AAAATATAT
1 AAAAAT-TAT
*
56052724 AGAAA-TAT
1 AAAAATTAT
*
56052732 -AAAATTTT
1 AAAAATTAT
*
56052740 ATAAAGTCGTA-
1 A-AAAAT--TAT
56052751 AGAAAATTAT
1 A-AAAATTAT
* *
56052761 AAAAAAATGT
1 -AAAAATTAT
56052771 AAAAA-TAT
1 AAAAATTAT
56052779 ATAAAATTCAT
1 A-AAAATT-AT
56052790 AAAAAATTAT
1 -AAAAATTAT
*
56052800 AAAATTTAT
1 AAAAATTAT
56052809 CGTACCAAAA
Statistics
Matches: 148, Mismatches: 28, Indels: 44
0.67 0.13 0.20
Matches are distributed among these distances:
7 10 0.07
8 13 0.09
9 58 0.39
10 42 0.28
11 17 0.11
12 8 0.05
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:56052774 original size:39 final size:39
Alignment explanation
Indices: 56052726--56052803 Score: 95
Period size: 39 Copynumber: 2.0 Consensus size: 39
56052716 AAATATATAG
* * *
56052726 AAATATAAAATTTTAT-AAAGTCGTAAGAAAATTATAAAA
1 AAATATAAAAATATATAAAAGTCATAA-AAAATTATAAAA
* *
56052765 AAATGTAAAAATATATAAAATTCATAAAAAATTATAAAA
1 AAATATAAAAATATATAAAAGTCATAAAAAATTATAAAA
56052804 TTTATCGTAC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
39 25 0.76
40 8 0.24
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (39 bp):
AAATATAAAAATATATAAAAGTCATAAAAAATTATAAAA
Found at i:56052797 original size:11 final size:10
Alignment explanation
Indices: 56052666--56052803 Score: 69
Period size: 10 Copynumber: 14.4 Consensus size: 10
56052656 TAAAAATAGA
56052666 AAAAAATTAT
1 AAAAAATTAT
56052676 -AAAAATTAT
1 AAAAAATTAT
*
56052685 -AAAATTTAT
1 AAAAAATTAT
* *
56052694 AAAAATTGTAA
1 AAAAAAT-TAT
56052705 AAAAAATTAT
1 AAAAAATTAT
*
56052715 AAAATA-TAT
1 AAAAAATTAT
*
56052724 -AGAAA-TAT
1 AAAAAATTAT
*
56052732 --AAAATTTT
1 AAAAAATTAT
* * **
56052740 ATAAAGTCGT
1 AAAAAATTAT
56052750 AAGAAAATTAT
1 AA-AAAATTAT
* *
56052761 AAAAAAATGT
1 AAAAAATTAT
56052771 -AAAAA-TAT
1 AAAAAATTAT
*
56052779 ATAAAATTCAT
1 AAAAAATT-AT
56052790 AAAAAATTAT
1 AAAAAATTAT
56052800 AAAA
1 AAAA
56052804 TTTATCGTAC
Statistics
Matches: 98, Mismatches: 21, Indels: 18
0.72 0.15 0.13
Matches are distributed among these distances:
7 3 0.03
8 10 0.10
9 29 0.30
10 32 0.33
11 24 0.24
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.30
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:56053033 original size:19 final size:17
Alignment explanation
Indices: 56052994--56053101 Score: 74
Period size: 18 Copynumber: 5.9 Consensus size: 17
56052984 TTTTGATGCA
56052994 TTTTATATATTTTTTTAT
1 TTTTATA-ATTTTTTTAT
56053012 TTTTATAATTTTTTTACTT
1 TTTTATAATTTTTTTA--T
* **
56053031 TTTTCTAATTTATAATAT
1 TTTTATAATTT-TTTTAT
56053049 ATTTTA-AATATTTTTATAT
1 -TTTTATAAT-TTTTT-TAT
* **
56053068 TTTTATTAAATTTAATAT
1 TTTTA-TAATTTTTTTAT
*
56053086 TTTTATAATTCTTTTA
1 TTTTATAATTTTTTTA
56053102 CCACATGTCA
Statistics
Matches: 69, Mismatches: 13, Indels: 17
0.70 0.13 0.17
Matches are distributed among these distances:
17 16 0.23
18 25 0.36
19 23 0.33
20 5 0.07
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTATAATTTTTTTAT
Found at i:56053101 original size:37 final size:38
Alignment explanation
Indices: 56053009--56053101 Score: 106
Period size: 37 Copynumber: 2.5 Consensus size: 38
56052999 TATATTTTTT
*
56053009 TATTTTTATAATTTTTT-TACTTTTTTCTAATTTATAA
1 TATTTTTATAATTTTTTATACTTTTTTCTAAATTATAA
56053046 TATATTTTA-AATATTTTTATA-TTTTTAT-TAAATT-TAA
1 TAT-TTTTATAAT-TTTTTATACTTTTT-TCTAAATTATAA
56053083 TATTTTTATAATTCTTTTA
1 TATTTTTATAATT-TTTTA
56053102 CCACATGTCA
Statistics
Matches: 49, Mismatches: 1, Indels: 12
0.79 0.02 0.19
Matches are distributed among these distances:
36 6 0.12
37 20 0.41
38 20 0.41
39 3 0.06
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (38 bp):
TATTTTTATAATTTTTTATACTTTTTTCTAAATTATAA
Found at i:56065278 original size:20 final size:20
Alignment explanation
Indices: 56065232--56065279 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
56065222 AATTAAATCA
*
56065232 TAAGTATCGATACCCTACAC
1 TAAGTATCAATACCCTACAC
* * * *
56065252 GACGTATCAATACCTTACTC
1 TAAGTATCAATACCCTACAC
56065272 TAAGTATC
1 TAAGTATC
56065280 GGTACTATGC
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.27, G:0.10, T:0.29
Consensus pattern (20 bp):
TAAGTATCAATACCCTACAC
Found at i:56068905 original size:13 final size:13
Alignment explanation
Indices: 56068887--56068911 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56068877 TATTTTAATA
56068887 TTATTTTGTGTGT
1 TTATTTTGTGTGT
56068900 TTATTTTGTGTG
1 TTATTTTGTGTG
56068912 CATTTGATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:56070537 original size:41 final size:41
Alignment explanation
Indices: 56070492--56070593 Score: 152
Period size: 41 Copynumber: 2.5 Consensus size: 41
56070482 GCTTAGCGCT
*
56070492 TAGCAGGCTTATTGCCGGTGAAACACTTCAGACTAAATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
* * *
56070533 TAGCAGGCTTAATGCCGGTGAAATATTTCAGACTATATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
56070574 TAGCAGGC-TAAGTGCCGGTG
1 TAGCAGGCTTAA-TGCCGGTG
56070594 TACTGAATCA
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
40 3 0.05
41 53 0.95
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (41 bp):
TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
Found at i:56076420 original size:13 final size:13
Alignment explanation
Indices: 56076402--56076426 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56076392 TATTTTAATA
56076402 TTATTTTGTGTGT
1 TTATTTTGTGTGT
56076415 TTATTTTGTGTG
1 TTATTTTGTGTG
56076427 CATTTGATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:56078046 original size:41 final size:41
Alignment explanation
Indices: 56078001--56078102 Score: 152
Period size: 41 Copynumber: 2.5 Consensus size: 41
56077991 GCTTAGCGCT
*
56078001 TAGCAGGCTTATTGCCGGTGAAACACTTCAGACTAAATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
* * *
56078042 TAGCAGGCTTAATGCCGGTGAAATATTTCAGACTATATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
56078083 TAGCAGGC-TAAGTGCCGGTG
1 TAGCAGGCTTAA-TGCCGGTG
56078103 TACTGAATCA
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
40 3 0.05
41 53 0.95
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (41 bp):
TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
Found at i:56083931 original size:13 final size:13
Alignment explanation
Indices: 56083913--56083937 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56083903 TATTTTAATA
56083913 TTATTTTGTGTGT
1 TTATTTTGTGTGT
56083926 TTATTTTGTGTG
1 TTATTTTGTGTG
56083938 CATTTGATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:56085537 original size:41 final size:41
Alignment explanation
Indices: 56085492--56085593 Score: 152
Period size: 41 Copynumber: 2.5 Consensus size: 41
56085482 GCTTAGCGCT
*
56085492 TAGCAGGCTTATTGCCGGTGAAACACTTCAGACTAAATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
* * *
56085533 TAGCAGGCTTAATGCCGGTGAAATATTTCAGACTATATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
56085574 TAGCAGGC-TAAGTGCCGGTG
1 TAGCAGGCTTAA-TGCCGGTG
56085594 TACTGAATCA
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
40 3 0.05
41 53 0.95
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (41 bp):
TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
Found at i:56093269 original size:26 final size:26
Alignment explanation
Indices: 56093240--56093296 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 26
56093230 TATTTCTCTA
*
56093240 AATTTAAAAAAACGGCTTATTTGGCC-
1 AATTTAAAAAAACGGCATATTT-GCCT
*
56093266 AA-TTAAAAAAATGGCATATTTGCCT
1 AATTTAAAAAAACGGCATATTTGCCT
56093291 AATTTA
1 AATTTA
56093297 GCCTTCATCC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 3 0.11
25 19 0.70
26 5 0.19
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.33
Consensus pattern (26 bp):
AATTTAAAAAAACGGCATATTTGCCT
Found at i:56098041 original size:24 final size:24
Alignment explanation
Indices: 56098009--56098059 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
56097999 TACTTGGGTA
56098009 ATTTGTCGTCAATTCATCCTTTAC
1 ATTTGTCGTCAATTCATCCTTTAC
*
56098033 ATTTTTCGTCAATTCATCCTTTAC
1 ATTTGTCGTCAATTCATCCTTTAC
56098057 ATT
1 ATT
56098060 CGTAGTGCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.22, C:0.24, G:0.06, T:0.49
Consensus pattern (24 bp):
ATTTGTCGTCAATTCATCCTTTAC
Found at i:56098152 original size:35 final size:34
Alignment explanation
Indices: 56098113--56098225 Score: 93
Period size: 35 Copynumber: 3.3 Consensus size: 34
56098103 TAGCCTAGCT
56098113 ATGGTCTTACATATAAGCACTGCCATGGTCCAACC
1 ATGGTCTTACATATAA-CACTGCCATGGTCCAACC
* * * * *** ***
56098148 ATGGTCTTACGT-TCATAGTGCCATAACCCAGTT
1 ATGGTCTTACATATAACACTGCCATGGTCCAACC
56098181 ATGGTCTTACATATAAACACTGCCATGGTCCAACC
1 ATGGTCTTACATAT-AACACTGCCATGGTCCAACC
**
56098216 ACAGTCTTAC
1 ATGGTCTTAC
56098226 GTTTATAGTG
Statistics
Matches: 54, Mismatches: 22, Indels: 4
0.68 0.28 0.05
Matches are distributed among these distances:
33 21 0.39
34 3 0.06
35 30 0.56
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.28
Consensus pattern (34 bp):
ATGGTCTTACATATAACACTGCCATGGTCCAACC
Done.