Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11
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: 47972186
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2603476 characters in sequence are not A, C, G, or T
File 82 of 145
Found at i:27813590 original size:21 final size:22
Alignment explanation
Indices: 27813543--27813588 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
27813533 AAGACATCCA
* *
27813543 AAACCAACATCATTTTTTGTTC
1 AAACTAACATCATTTTTGGTTC
27813565 AAACTAACATCATTTTTGGTTC
1 AAACTAACATCATTTTTGGTTC
27813587 AA
1 AA
27813589 CTCATGAACC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.35, C:0.20, G:0.07, T:0.39
Consensus pattern (22 bp):
AAACTAACATCATTTTTGGTTC
Found at i:27817229 original size:16 final size:16
Alignment explanation
Indices: 27817208--27817241 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
27817198 TTAACTGAAA
27817208 TTCAACATGTTCATAT
1 TTCAACATGTTCATAT
27817224 TTCAACATGTTCATAT
1 TTCAACATGTTCATAT
27817240 TT
1 TT
27817242 TAAGTGCACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.18, G:0.06, T:0.47
Consensus pattern (16 bp):
TTCAACATGTTCATAT
Found at i:27820938 original size:30 final size:30
Alignment explanation
Indices: 27820877--27820938 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
27820867 GCTTTTTGAA
* * * *
27820877 AATATTTACAAAAAGTGGCATCTAATTTTT
1 AATATTTACAAAAAGTAGCACCAAATCTTT
27820907 AATATTTACAAAAAG-AGCAACCAAATCTTT
1 AATATTTACAAAAAGTAGC-ACCAAATCTTT
27820937 AA
1 AA
27820939 AAAAATTCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 2 0.07
30 25 0.93
ACGTcount: A:0.47, C:0.13, G:0.08, T:0.32
Consensus pattern (30 bp):
AATATTTACAAAAAGTAGCACCAAATCTTT
Found at i:27840246 original size:33 final size:33
Alignment explanation
Indices: 27840189--27840405 Score: 258
Period size: 33 Copynumber: 6.5 Consensus size: 33
27840179 ACATCATCAG
* * *
27840189 TCCAACCAAACACACCAGATGCTCACT-CGAGCCAA
1 TCCAACC-ATCACACCA-ATGCTCA-TAAGAGCTAA
*
27840224 TCCATCCATCACACCAATGCTCATAAGAGCTAA
1 TCCAACCATCACACCAATGCTCATAAGAGCTAA
* *
27840257 TCGAACCATCACACCAATTCTCAT-AGAAGCTAA
1 TCCAACCATCACACCAATGCTCATAAG-AGCTAA
* *
27840290 TCCAACCATCACATCAATGCTCATAAGAGTTAA
1 TCCAACCATCACACCAATGCTCATAAGAGCTAA
*
27840323 TCCAACCATCACACCAATGCTCATAAGAGTTAA
1 TCCAACCATCACACCAATGCTCATAAGAGCTAA
* * * *
27840356 ACCAACCATCACATCAATGATCATAAGAGTTAA
1 TCCAACCATCACACCAATGCTCATAAGAGCTAA
*
27840389 ACCAACCATCACACCAA
1 TCCAACCATCACACCAA
27840406 ATAAAGAGTA
Statistics
Matches: 163, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
32 3 0.02
33 144 0.88
34 10 0.06
35 6 0.04
ACGTcount: A:0.40, C:0.32, G:0.09, T:0.19
Consensus pattern (33 bp):
TCCAACCATCACACCAATGCTCATAAGAGCTAA
Found at i:27841371 original size:16 final size:16
Alignment explanation
Indices: 27841350--27841380 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27841340 GTTTTTCATT
*
27841350 ATTTTAATTTAACTTA
1 ATTTTAATTAAACTTA
27841366 ATTTTAATTAAACTT
1 ATTTTAATTAAACTT
27841381 CCATTTATTT
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:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (16 bp):
ATTTTAATTAAACTTA
Found at i:27843664 original size:20 final size:19
Alignment explanation
Indices: 27843638--27843689 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 19
27843628 TTGAACCAGG
* *
27843638 AATATCGATATCTTAGGAA
1 AATATCGATACCTTAAGAA
27843657 ATATATCGATACCTTAAGAA
1 A-ATATCGATACCTTAAGAA
27843677 AAGTATCGATACC
1 AA-TATCGATACC
27843690 AGATTGATAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 2 0.07
20 27 0.93
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.29
Consensus pattern (19 bp):
AATATCGATACCTTAAGAA
Found at i:27844089 original size:17 final size:15
Alignment explanation
Indices: 27844067--27844100 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 15
27844057 TTAGACAATT
27844067 ATAAAAGACAAAATAAA
1 ATAAAA-ACAAAA-AAA
27844084 ATAAAAACAAAAAAA
1 ATAAAAACAAAAAAA
27844099 AT
1 AT
27844101 TTCATGTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 6 0.35
17 6 0.35
ACGTcount: A:0.79, C:0.06, G:0.03, T:0.12
Consensus pattern (15 bp):
ATAAAAACAAAAAAA
Found at i:27845702 original size:6 final size:6
Alignment explanation
Indices: 27845691--27845781 Score: 164
Period size: 6 Copynumber: 15.2 Consensus size: 6
27845681 TTAATGTCCG
* *
27845691 TATGTA TATGTA TATGTA TATGTA AATGTA AATGTA TATGTA TATGTA
1 TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA
27845739 TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA T
1 TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA T
27845782 GTTTTGGTAA
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 83 1.00
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.48
Consensus pattern (6 bp):
TATGTA
Found at i:27847588 original size:88 final size:89
Alignment explanation
Indices: 27847472--27847649 Score: 331
Period size: 88 Copynumber: 2.0 Consensus size: 89
27847462 ACTATTTTGC
*
27847472 TACCATTTCACTAGTATGTTGCTACTATTTTGTTGTTATTGTATAACTCTTGTTTTTTTTTTTAA
1 TACCATTTCACTAGTATGGTGCTACTATTTTGTTGTTATTGTATAACTCTTGTTTTTTTTTTTAA
27847537 TTTTGTTACTATTTTAAAGGCACT
66 TTTTGTTACTATTTTAAAGGCACT
*
27847561 TACCATTTCAC-AGTATGGTGCTTCTATTTTGTTGTTATTGTATAACTCTTGTTTTTTTTTTTAA
1 TACCATTTCACTAGTATGGTGCTACTATTTTGTTGTTATTGTATAACTCTTGTTTTTTTTTTTAA
27847625 TTTTGTTACTATTTTAAAGGCACT
66 TTTTGTTACTATTTTAAAGGCACT
27847649 T
1 T
27847650 TCTTGTTAAG
Statistics
Matches: 87, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
88 76 0.87
89 11 0.13
ACGTcount: A:0.21, C:0.12, G:0.12, T:0.55
Consensus pattern (89 bp):
TACCATTTCACTAGTATGGTGCTACTATTTTGTTGTTATTGTATAACTCTTGTTTTTTTTTTTAA
TTTTGTTACTATTTTAAAGGCACT
Found at i:27854611 original size:23 final size:23
Alignment explanation
Indices: 27854585--27854632 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
27854575 AAAAAACTAT
27854585 AACCCTCAATGACTCG-ACTCTAA
1 AACCCTCAATGACTCGAACTC-AA
*
27854608 AACCCTCAATGCCTCGAACTCAA
1 AACCCTCAATGACTCGAACTCAA
27854631 AA
1 AA
27854633 TAATTCAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 19 0.83
24 4 0.17
ACGTcount: A:0.38, C:0.35, G:0.08, T:0.19
Consensus pattern (23 bp):
AACCCTCAATGACTCGAACTCAA
Found at i:27858326 original size:4 final size:4
Alignment explanation
Indices: 27858317--27858347 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
27858307 CGTGAAAGAA
27858317 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAA
1 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAA
27858348 AATTTTAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
TAAT
Found at i:27859364 original size:13 final size:13
Alignment explanation
Indices: 27859346--27859373 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
27859336 CCAAGCCTCC
27859346 TTTTTTAGGAACT
1 TTTTTTAGGAACT
27859359 TTTTTTAGGAACT
1 TTTTTTAGGAACT
27859372 TT
1 TT
27859374 GAAATAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.14, T:0.57
Consensus pattern (13 bp):
TTTTTTAGGAACT
Found at i:27859858 original size:21 final size:20
Alignment explanation
Indices: 27859811--27859858 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
27859801 AATCTTAAAC
* *
27859811 AAAATTAAAATAATAGTATAT
1 AAAA-TAAAATAATAGAAAAT
27859832 AAAATAAAATAAATAGAAAAT
1 AAAATAAAAT-AATAGAAAAT
*
27859853 ACAATA
1 AAAATA
27859859 GACTTAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.25
Consensus pattern (20 bp):
AAAATAAAATAATAGAAAAT
Found at i:27860628 original size:14 final size:13
Alignment explanation
Indices: 27860592--27860628 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 13
27860582 GTAGTGTACA
27860592 AAAATAAAAAAAT
1 AAAATAAAAAAAT
*
27860605 AAAGAGAAAAAAAT
1 AAA-ATAAAAAAAT
27860619 AAAATAAAAA
1 AAAATAAAAA
27860629 CAATCTGCGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.84, C:0.00, G:0.05, T:0.11
Consensus pattern (13 bp):
AAAATAAAAAAAT
Found at i:27861476 original size:44 final size:44
Alignment explanation
Indices: 27861427--27861931 Score: 247
Period size: 44 Copynumber: 10.8 Consensus size: 44
27861417 CCTTTATTTT
*
27861427 AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
* * * *
27861471 AATCTGCTCCGCTGTAATCTCAAGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
* * * * *
27861515 AATTTGATGCGATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCT-TTA-TTTT
1 AA--T-CT--G--CT-C-C-ACTGTAATC-TCAGGGAGATAAGAT--TACTAGCTTC
* *
27861569 AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
* * * * ** *
27861613 AATTTGCTCCGCTGTAATCTCAAGGAAATAAGATTTTTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
* * * *
27861657 AATCTGATGCGATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCT-TTA-TTTT
1 AATC---T--G--CT-C-C-ACTGTAATC-TCAGGGAGATAAGAT--TACTAGCTTC
* *
27861711 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTACTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
** * * *
27861755 AATCTGCTCTGCTGTAATTTCAGGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
* * * *
27861799 AATCTGATGTGATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCT-TTA-TTTT
1 AATC-----TG--CT-C-C-ACTGTAATC-TCAGGGAGATAAGAT--TACTAGCTTC
*
27861853 AAT-TCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
1 AATCT-GCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
* *
27861897 CATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATT
27861932 TGTGGCTTAA
Statistics
Matches: 351, Mismatches: 60, Indels: 100
0.69 0.12 0.20
Matches are distributed among these distances:
42 3 0.01
43 4 0.01
44 222 0.63
45 7 0.02
46 4 0.01
47 8 0.02
48 1 0.00
49 7 0.02
51 8 0.02
52 4 0.01
53 4 0.01
54 72 0.21
55 4 0.01
56 3 0.01
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
Found at i:27861638 original size:142 final size:142
Alignment explanation
Indices: 27861376--27861939 Score: 959
Period size: 142 Copynumber: 4.0 Consensus size: 142
27861366 GAGATAAGAC
* *
27861376 CTGATACGATCTACTCTACTATAACTTCAGAGAGATAAGATCCTTTATTTTAATCTGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTGCTCCACTG
27861441 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAGATT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAGATT
27861506 TCTGGCTTCAAT
131 TCTGGCTTCAAT
*
27861518 TTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTGCTCCACTG
* * *
27861583 TAATCTCAGGGAGATAGGATTACTGGCTTCAATTTGCTCCGCTGTAATCTCAAGGAAATAAGATT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAGATT
*
27861648 TTTGGCTTCAAT
131 TCTGGCTTCAAT
*
27861660 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTGCTCCGCTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTGCTCCACTG
* * * * *
27861725 TAATCTCAGGGAGATAAGATTACTGGCTTCAATCTGCTCTGCTGTAATTTCAGGGAGATAAGATT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAGATT
27861790 TCTGGCTTCAAT
131 TCTGGCTTCAAT
*
27861802 CTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAAT-TCGCTCCACT
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCT-GCTCCACT
* *
27861866 GTAATCTCAGGGAGATAGGATTACTAGCTTCCATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT
65 GTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAGAT
*
27861931 TTGTGGCTT
130 TTCTGGCTT
27861940 AAACCTATTT
Statistics
Matches: 397, Mismatches: 24, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
141 1 0.00
142 396 1.00
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (142 bp):
CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTGCTCCACTG
TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAGATT
TCTGGCTTCAAT
Found at i:27861682 original size:98 final size:98
Alignment explanation
Indices: 27861570--27861760 Score: 224
Period size: 98 Copynumber: 1.9 Consensus size: 98
27861560 CTTTATTTTA
* * * * *
27861570 ATCTGCTCCACTGTAA-TCTCAGGGAGATAGGATTAC-TGGCTTCAATTTGCTCCGCTGTAATCT
1 ATCTACTCCACTGTAACT-TCAGAGAGATAAGA-TACTTGACTTCAATCTGCTCCGCTGTAATCT
**
27861633 CAAGGAAATAAGATTTTTGGCTTCAATCTGATGCG
64 CAAGGAAATAAGATTACTGGCTTCAATCTGATGCG
* * * * *
27861668 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTGCTCCGCTGTAATCTCA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATACTTGACTTCAATCTGCTCCGCTGTAATCTCA
* *
27861733 GGGAGATAAGATTACTGGCTTCAATCTG
66 AGGAAATAAGATTACTGGCTTCAATCTG
27861761 CTCTGCTGTA
Statistics
Matches: 77, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
97 2 0.03
98 74 0.96
99 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (98 bp):
ATCTACTCCACTGTAACTTCAGAGAGATAAGATACTTGACTTCAATCTGCTCCGCTGTAATCTCA
AGGAAATAAGATTACTGGCTTCAATCTGATGCG
Found at i:27870544 original size:19 final size:19
Alignment explanation
Indices: 27870518--27870563 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
27870508 TTAATAATCT
* *
27870518 TGAATGCATATG-ATGACA
1 TGAATGCAGATGCATGAAA
27870536 TGTAATGCAGATGCATGAAA
1 TG-AATGCAGATGCATGAAA
27870556 TGAATGCA
1 TGAATGCA
27870564 AAAAGAGCGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 2 0.08
19 15 0.62
20 7 0.29
ACGTcount: A:0.39, C:0.11, G:0.24, T:0.26
Consensus pattern (19 bp):
TGAATGCAGATGCATGAAA
Found at i:27875702 original size:13 final size:13
Alignment explanation
Indices: 27875684--27875711 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
27875674 CCAAGCCTCC
27875684 TTTTTTAGGAACT
1 TTTTTTAGGAACT
27875697 TTTTTTAGGAACT
1 TTTTTTAGGAACT
27875710 TT
1 TT
27875712 GAAATAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.14, T:0.57
Consensus pattern (13 bp):
TTTTTTAGGAACT
Found at i:27875992 original size:22 final size:22
Alignment explanation
Indices: 27875950--27876016 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 22
27875940 AATCGAAATG
27875950 AATA-AAAATTTTA-AAACATA
1 AATATAAAATTTTATAAACATA
*
27875970 AA-ATAAAATTTTATAAATTATA
1 AATATAAAATTTTATAAA-CATA
27875992 AATTATAATACATTTTATAAACATA
1 AA-TATAA-A-ATTTTATAAACATA
27876017 TACATATATT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
19 1 0.03
20 11 0.29
21 3 0.08
22 5 0.13
24 4 0.11
25 4 0.11
26 10 0.26
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.37
Consensus pattern (22 bp):
AATATAAAATTTTATAAACATA
Found at i:27877546 original size:19 final size:18
Alignment explanation
Indices: 27877530--27877564 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
27877520 TTTGAAAAGT
27877530 AATTAAATTTTTAAAAAA
1 AATTAAATTTTTAAAAAA
*
27877548 AATTAAA-ATTTAAAAAA
1 AATTAAATTTTTAAAAAA
27877565 TTTAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
AATTAAATTTTTAAAAAA
Found at i:27877585 original size:11 final size:11
Alignment explanation
Indices: 27877571--27877596 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
27877561 AAAATTTAAA
27877571 AAAAGTATTTT
1 AAAAGTATTTT
27877582 AAAAGTATTTT
1 AAAAGTATTTT
27877593 AAAA
1 AAAA
27877597 TTAAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:27878458 original size:12 final size:12
Alignment explanation
Indices: 27878431--27878465 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
27878421 ATTTACAAAA
*
27878431 TTAATAAATGATT
1 TTAAT-AATAATT
27878444 TTAATAATAATT
1 TTAATAATAATT
27878456 TTAATAATAA
1 TTAATAATAA
27878466 ATAATTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 16 0.76
13 5 0.24
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (12 bp):
TTAATAATAATT
Found at i:27879036 original size:23 final size:23
Alignment explanation
Indices: 27879006--27879054 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
27878996 ATATATATAT
*
27879006 ATATATATATATTTGGCGACGCA
1 ATATATATATAATTGGCGACGCA
*
27879029 ATATATATATAATTGGGGACGCA
1 ATATATATATAATTGGCGACGCA
27879052 ATA
1 ATA
27879055 AATTAAGCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.39, C:0.10, G:0.18, T:0.33
Consensus pattern (23 bp):
ATATATATATAATTGGCGACGCA
Found at i:27879037 original size:2 final size:2
Alignment explanation
Indices: 27878980--27879017 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
27878970 GCTATCGATG
27878980 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27879018 TTGGCGACGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27882862 original size:16 final size:15
Alignment explanation
Indices: 27882815--27882866 Score: 59
Period size: 16 Copynumber: 3.3 Consensus size: 15
27882805 AAAAATATAT
*
27882815 TTTTCCATCTTTTCAT
1 TTTTCCATCTTTT-AA
* *
27882831 TTTTCTACCTTTTAA
1 TTTTCCATCTTTTAA
27882846 TTTTCCATCTTTCTAA
1 TTTTCCATCTTT-TAA
27882862 TTTTC
1 TTTTC
27882867 TTTCCATTCT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
15 11 0.37
16 19 0.63
ACGTcount: A:0.15, C:0.23, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTTCCATCTTTTAA
Found at i:27888837 original size:343 final size:343
Alignment explanation
Indices: 27888209--27888848 Score: 917
Period size: 343 Copynumber: 1.9 Consensus size: 343
27888199 GAAGACTAGA
*
27888209 AAAATAGCAAATCGAAGGATATGTTGTCGAATTTGGAAGGGCGAGTGACCAATCTCGAGGAATCC
1 AAAATAGCAAATCGAAGGATATGTTATCGAATTTGGAAGGGCGAGTGACCAATCTCGAGGAATCC
** * * * *
27888274 ATGGGTGGTGTGAAGGAAACGCTCGAGGTAATTGAGGGGCGCACCGATGAGTTGAACTCGATGAG
66 ATAAGTGGTGTGAAGGAAACACTCGAGATAATTGAGGGACGCACCGATGAGTTGAACTCGATAAG
* * * *
27888339 AGAGCAACTTAGGGACTACGTAGTGAAGGCTCTCAGTTCCAATCAAGATGCAATGAGAGAGACCC
131 AGAGCAACTTAGGGACTACATAGTGAAAGCTCTCAATTCCAATCAAGATGCAATGAGAAAGACCC
* * * *
27888404 TCAATGCTGCCATAGATGATTAGACCGAGAAGTTGACTAAGAAGAATGATTTTCTCAAGACCATG
196 TCAATGCTGCCATAGATGATCAGACCGAGAAGTTAACTAAGAAGAATAATTCTCTCAAGACCATG
* * *
27888469 GTGCCAACCTTGAATGAACAAATTTAGTAGCTCAATAAGTAGACGAACAAAATGTCTCGATGGAG
261 GTGCCAACCTTGAAGGAAAAAATTTAGTACCTCAATAAGTAGACGAACAAAATGTCTCGATGGAG
27888534 ACCCATGAGAAGACCAAG
326 ACCCATGAGAAGACCAAG
* * ** * * *
27888552 AAAATAGCATATCGAATGATATGTTATCGGCTTTGGAAGGTCGGGTGAGCAATCTCGAGGAATCC
1 AAAATAGCAAATCGAAGGATATGTTATCGAATTTGGAAGGGCGAGTGACCAATCTCGAGGAATCC
* *
27888617 ATAAGTGGTGTGAAGGAAACACTCGAGATAATTGAGGGACGCACCGATGAGTTGGACTTGATAAG
66 ATAAGTGGTGTGAAGGAAACACTCGAGATAATTGAGGGACGCACCGATGAGTTGAACTCGATAAG
*
27888682 AGAG-AAGCTTAGGGA-TA-ATAAAGTGAAAGCTCTCAATTCCAATCAAGATGCAATGAGAAATA
131 AGAGCAA-CTTAGGGACTACAT--AGTGAAAGCTCTCAATTCCAATCAAGATGCAATGAGAAAGA
* * * * *
27888744 CCCTTAATGTTGCTATGGATGATCAGATCGAGAAGTTAACTAAGAAGAATAATTCTCTCAAGACC
193 CCCTCAATGCTGCCATAGATGATCAGACCGAGAAGTTAACTAAGAAGAATAATTCTCTCAAGACC
* *
27888809 ATGGTGTCAGCCTTGAAGGAAAAAATTTAGTACCTCAATA
258 ATGGTGCCAACCTTGAAGGAAAAAATTTAGTACCTCAATA
27888849 TCTATAAACC
Statistics
Matches: 259, Mismatches: 35, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
341 1 0.00
342 4 0.02
343 254 0.98
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.23
Consensus pattern (343 bp):
AAAATAGCAAATCGAAGGATATGTTATCGAATTTGGAAGGGCGAGTGACCAATCTCGAGGAATCC
ATAAGTGGTGTGAAGGAAACACTCGAGATAATTGAGGGACGCACCGATGAGTTGAACTCGATAAG
AGAGCAACTTAGGGACTACATAGTGAAAGCTCTCAATTCCAATCAAGATGCAATGAGAAAGACCC
TCAATGCTGCCATAGATGATCAGACCGAGAAGTTAACTAAGAAGAATAATTCTCTCAAGACCATG
GTGCCAACCTTGAAGGAAAAAATTTAGTACCTCAATAAGTAGACGAACAAAATGTCTCGATGGAG
ACCCATGAGAAGACCAAG
Found at i:27890551 original size:9 final size:9
Alignment explanation
Indices: 27890478--27890666 Score: 55
Period size: 9 Copynumber: 19.7 Consensus size: 9
27890468 ATAAAATTCA
*
27890478 ATAAAAGTT
1 ATAAAAATT
27890487 ATAAAAATT
1 ATAAAAATT
**
27890496 AGTAAATTTT
1 A-TAAAAATT
27890506 AATAAAAAATGT
1 -AT-AAAAAT-T
27890518 -TAAAATATT
1 ATAAAA-ATT
27890527 ATTAAAAATT
1 A-TAAAAATT
*
27890537 AAAAAAATT
1 ATAAAAATT
* *
27890546 GTAAAATTTT
1 ATAAAA-ATT
*
27890556 ATAAAAAACGT
1 AT-AAAAA-TT
27890567 A-AAAAATT
1 ATAAAAATT
27890575 AT-AAAATAT
1 ATAAAAAT-T
*
27890584 ATAGAAA-T
1 ATAAAAATT
27890592 ATATAAAATT
1 ATA-AAAATT
* * *
27890602 TTATAAAGTC
1 ATA-AAAATT
*
27890612 GTAAGAAGATT
1 ATAA-AA-ATT
*
27890623 ATAAAAAAT
1 ATAAAAATT
*
27890632 ATAAAGAAAT
1 ATAAA-AATT
27890642 AT-AAAATT
1 ATAAAAATT
*
27890650 CGTAAAAAATT
1 -AT-AAAAATT
27890661 ATAAAA
1 ATAAAA
27890667 TTTNNNNNNN
Statistics
Matches: 133, Mismatches: 26, Indels: 42
0.66 0.13 0.21
Matches are distributed among these distances:
8 14 0.11
9 51 0.38
10 41 0.31
11 26 0.20
12 1 0.01
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (9 bp):
ATAAAAATT
Found at i:27890579 original size:10 final size:10
Alignment explanation
Indices: 27890507--27890666 Score: 61
Period size: 10 Copynumber: 16.6 Consensus size: 10
27890497 GTAAATTTTA
27890507 ATAAAAAATGT
1 ATAAAAAAT-T
*
27890518 -TAAAATATT
1 ATAAAAAATT
*
27890527 ATTAAAAATT
1 ATAAAAAATT
27890537 A-AAAAAATT
1 ATAAAAAATT
* **
27890546 GTAAAATTTT
1 ATAAAAAATT
*
27890556 ATAAAAAA-C
1 ATAAAAAATT
*
27890565 GTAAAAAATT
1 ATAAAAAATT
*
27890575 ATAAAATA-T
1 ATAAAAAATT
*
27890584 AT-AGAAA-T
1 ATAAAAAATT
*
27890592 ATATAAAATT
1 ATAAAAAATT
* * * *
27890602 TTATAAAGTC
1 ATAAAAAATT
* *
27890612 GTAAGAAGATT
1 ATAA-AAAATT
27890623 ATAAAAAA-T
1 ATAAAAAATT
27890632 ATAAAGAAA-T
1 ATAAA-AAATT
27890642 AT--AAAATT
1 ATAAAAAATT
*
27890650 CGTAAAAAATT
1 -ATAAAAAATT
27890661 ATAAAA
1 ATAAAA
27890667 TTTNNNNNNN
Statistics
Matches: 107, Mismatches: 31, Indels: 23
0.66 0.19 0.14
Matches are distributed among these distances:
7 3 0.03
8 8 0.07
9 28 0.26
10 56 0.52
11 12 0.11
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (10 bp):
ATAAAAAATT
Found at i:27890598 original size:29 final size:27
Alignment explanation
Indices: 27890507--27890667 Score: 80
Period size: 29 Copynumber: 5.6 Consensus size: 27
27890497 GTAAATTTTA
27890507 ATAAAAAATGT-TAAAATATTATTAAAAATT
1 ATAAAAAAT-TATAAAATA-TA-T-AAAATT
* * *
27890537 A-AAAAAATTGTAAAATTTTATAAAA-A
1 ATAAAAAATTATAAAA-TATATAAAATT
27890563 ACGTAAAAAATTATAAAATATATAGAAATAT
1 A--TAAAAAATTATAAAATATATA-AAAT-T
** * *
27890594 ATAAAATTTTATAAAGTCGTA-AGAAGATT
1 ATAAAAAATTATAAAAT-ATATA-AA-ATT
*
27890623 ATAAAAAA-TATAAAGAAATATAAAATT
1 ATAAAAAATTATAAA-ATATATAAAATT
*
27890650 CGTAAAAAATTATAAAAT
1 -ATAAAAAATTATAAAAT
27890668 TTNNNNNNNN
Statistics
Matches: 101, Mismatches: 16, Indels: 30
0.69 0.11 0.20
Matches are distributed among these distances:
26 1 0.01
27 7 0.07
28 25 0.25
29 61 0.60
30 6 0.06
31 1 0.01
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (27 bp):
ATAAAAAATTATAAAATATATAAAATT
Found at i:27890599 original size:48 final size:46
Alignment explanation
Indices: 27890486--27890649 Score: 136
Period size: 48 Copynumber: 3.4 Consensus size: 46
27890476 CAATAAAAGT
* * *
27890486 TATAAAAATTAGT-AAATTTTAATAAAAAATGTTAAAATATTATTAAAAA
1 TATAAAAAATA-TAAAATTTT-ATAAAAAACG-TAAAAAATTA-TAAAAA
*
27890535 T-TAAAAAAATTGTAAAATTTTATAAAAAACGTAAAAAATTATAAAATA
1 TAT-AAAAAA-TATAAAATTTTATAAAAAACGTAAAAAATTATAAAA-A
* ** *
27890583 TATAGAAATATATAAAATTTTAT-AAAGTCGTAAGAAGATTATAAAAAA
1 TATA-AAAAATATAAAATTTTATAAAAAACGTAA-AAAATTAT-AAAAA
27890631 TATAAAGAAATATAAAATT
1 TATAAA-AAATATAAAATT
27890650 CGTAAAAAAT
Statistics
Matches: 96, Mismatches: 10, Indels: 19
0.77 0.08 0.15
Matches are distributed among these distances:
47 15 0.16
48 48 0.50
49 25 0.26
50 8 0.08
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.33
Consensus pattern (46 bp):
TATAAAAAATATAAAATTTTATAAAAAACGTAAAAAATTATAAAAA
Found at i:27900451 original size:19 final size:18
Alignment explanation
Indices: 27900362--27900462 Score: 85
Period size: 19 Copynumber: 5.3 Consensus size: 18
27900352 ATTAATACAA
27900362 TTTTATAATTTTTAATAT
1 TTTTATAATTTTTAATAT
* * *
27900380 TTTTACGATTTTTATAATTT
1 TTTTA-TAATTTT-TAATAT
*
27900400 TTTTCTAATTTTTAATAT
1 TTTTATAATTTTTAATAT
**
27900418 TTTTATTAAAATTTAATAAT
1 TTTTA-TAATTTTTAAT-AT
* *
27900438 TTTTATAACTTTTATTTAT
1 TTTTATAATTTTTA-ATAT
27900457 TTTTAT
1 TTTTAT
27900463 TTTTTATAAT
Statistics
Matches: 65, Mismatches: 13, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
18 14 0.22
19 34 0.52
20 17 0.26
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (18 bp):
TTTTATAATTTTTAATAT
Found at i:27900475 original size:9 final size:9
Alignment explanation
Indices: 27900362--27900476 Score: 76
Period size: 9 Copynumber: 12.4 Consensus size: 9
27900352 ATTAATACAA
27900362 TTTTATAAT
1 TTTTATAAT
27900371 TTTTA-ATAT
1 TTTTATA-AT
**
27900380 TTTTACGAT
1 TTTTATAAT
27900389 TTTTATAATTT
1 TTTTATAA--T
*
27900400 TTTTCTAAT
1 TTTTATAAT
27900409 TTTTA-ATAT
1 TTTTATA-AT
*
27900418 TTTTATTAAAA
1 TTTTA-T-AAT
*
27900429 TTTAATAAT
1 TTTTATAAT
*
27900438 TTTTATAAC
1 TTTTATAAT
*
27900447 TTTTATTTAT
1 TTTTA-TAAT
27900457 TTTTAT--T
1 TTTTATAAT
27900464 TTTTATAAT
1 TTTTATAAT
27900473 TTTT
1 TTTT
27900477 TACCACATGT
Statistics
Matches: 83, Mismatches: 12, Indels: 22
0.71 0.10 0.19
Matches are distributed among these distances:
7 7 0.08
8 2 0.02
9 52 0.63
10 8 0.10
11 13 0.16
12 1 0.01
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.67
Consensus pattern (9 bp):
TTTTATAAT
Found at i:27903412 original size:84 final size:84
Alignment explanation
Indices: 27903271--27903441 Score: 324
Period size: 84 Copynumber: 2.0 Consensus size: 84
27903261 ATCATCCCCA
*
27903271 TGCCTGAAAGAACTGGTTTGCATTTCTTGTCCATGTTTAACACTTTCCCGGTAGCTCTGCTCATT
1 TGCCTGAAAGAACTGGTTTGCATTTCTTGTCCATGTTTAACACTTTCCCGGTAGCTCTGCTCAAT
27903336 TCCAGACTTTGACATATAT
66 TCCAGACTTTGACATATAT
*
27903355 TGCCTGAAAGAACTGGTTTGGATTTCTTGTCCATGTTTAACACTTTCCCGGTAGCTCTGCTCAAT
1 TGCCTGAAAGAACTGGTTTGCATTTCTTGTCCATGTTTAACACTTTCCCGGTAGCTCTGCTCAAT
27903420 TCCAGACTTTGACATATAT
66 TCCAGACTTTGACATATAT
27903439 TGC
1 TGC
27903442 ATTCTTCCCA
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
84 85 1.00
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.37
Consensus pattern (84 bp):
TGCCTGAAAGAACTGGTTTGCATTTCTTGTCCATGTTTAACACTTTCCCGGTAGCTCTGCTCAAT
TCCAGACTTTGACATATAT
Found at i:27906418 original size:20 final size:22
Alignment explanation
Indices: 27906393--27906433 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
27906383 CCTTTGTTTT
27906393 AGAGAG-AA-AAATGAAGAATG
1 AGAGAGCAACAAATGAAGAATG
27906413 AGAGAGCCAACAAATGAAGAA
1 AGAGAG-CAACAAATGAAGAA
27906434 AGGTTGCTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
22 2 0.11
23 10 0.56
ACGTcount: A:0.59, C:0.07, G:0.27, T:0.07
Consensus pattern (22 bp):
AGAGAGCAACAAATGAAGAATG
Found at i:27909639 original size:29 final size:27
Alignment explanation
Indices: 27909607--27909739 Score: 81
Period size: 27 Copynumber: 4.7 Consensus size: 27
27909597 TTTATGATTT
27909607 TTTTTATAATTTTTATAAATTTATATTAA
1 TTTTTATAATTTTTATAAATTT-TA-TAA
* * ** **
27909636 TTTTAATACTTTAAATACTTTTTATAA
1 TTTTTATAATTTTTATAAATTTTATAA
*
27909663 TTTTTATGATTTTTATAGAATTTTAATACGA
1 TTTTTATAATTTTTATA-AATTTT-ATA--A
* * *
27909694 TTTTATAAAATTTTAAATATATTTTACTAA
1 TTTT-TATAATTTT-TATAAATTTTA-TAA
27909724 --TTTATAATTTTTATAA
1 TTTTTATAATTTTTATAA
27909740 TTTATTAGAT
Statistics
Matches: 77, Mismatches: 20, Indels: 17
0.68 0.18 0.15
Matches are distributed among these distances:
26 3 0.04
27 23 0.30
28 8 0.10
29 19 0.25
30 1 0.01
31 6 0.08
32 14 0.18
33 3 0.04
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (27 bp):
TTTTTATAATTTTTATAAATTTTATAA
Found at i:27909676 original size:10 final size:9
Alignment explanation
Indices: 27909607--27909742 Score: 71
Period size: 9 Copynumber: 14.3 Consensus size: 9
27909597 TTTATGATTT
27909607 TTTTTATAA
1 TTTTTATAA
27909616 TTTTTATAAA
1 TTTTTAT-AA
*
27909626 TTTATATTAA
1 TTTTTA-TAA
* *
27909636 TTTTAATAC
1 TTTTTATAA
** *
27909645 TTTAAATAC
1 TTTTTATAA
27909654 TTTTTATAA
1 TTTTTATAA
*
27909663 TTTTTATGA
1 TTTTTATAA
27909672 TTTTTATAGAA
1 TTTTTAT--AA
*
27909683 TTTTAATACGA
1 TTTTTATA--A
27909694 -TTTTATAAA
1 TTTTTAT-AA
* *
27909703 ATTTTAAATA
1 TTTTTATA-A
27909713 TATTTTACTAA
1 T-TTTTA-TAA
27909724 --TTTATAA
1 TTTTTATAA
27909731 TTTTTATAA
1 TTTTTATAA
27909740 TTT
1 TTT
27909743 ATTAGATTTT
Statistics
Matches: 99, Mismatches: 15, Indels: 26
0.71 0.11 0.19
Matches are distributed among these distances:
7 3 0.03
8 4 0.04
9 51 0.52
10 24 0.24
11 16 0.16
12 1 0.01
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.58
Consensus pattern (9 bp):
TTTTTATAA
Found at i:27912286 original size:85 final size:85
Alignment explanation
Indices: 27912161--27912334 Score: 312
Period size: 85 Copynumber: 2.0 Consensus size: 85
27912151 GACCATAGGG
27912161 AACCGCAAAACATAAAGAAATCAGCAGATAGGAAAAATATATATTAACCCACTGCAAGCATATAC
1 AACCGCAAAACATAAAGAAATCAGCAGATAGGAAAAATATATATTAACCCACTGCAAGCATATAC
27912226 AAAATGTGAGAACAAAGATA
66 AAAATGTGAGAACAAAGATA
* * * *
27912246 AACCGCAAAATATAAAGAAATCAGCAGATAGGAGAAATATATCTTAAGCCACTGCAAGCATATAC
1 AACCGCAAAACATAAAGAAATCAGCAGATAGGAAAAATATATATTAACCCACTGCAAGCATATAC
27912311 AAAATGTGAGAACAAAGATA
66 AAAATGTGAGAACAAAGATA
27912331 AACC
1 AACC
27912335 AGGAGTGCAA
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 85 1.00
ACGTcount: A:0.52, C:0.17, G:0.15, T:0.17
Consensus pattern (85 bp):
AACCGCAAAACATAAAGAAATCAGCAGATAGGAAAAATATATATTAACCCACTGCAAGCATATAC
AAAATGTGAGAACAAAGATA
Found at i:27917407 original size:88 final size:88
Alignment explanation
Indices: 27917308--27917667 Score: 544
Period size: 88 Copynumber: 4.1 Consensus size: 88
27917298 CTATCTTCAG
* *
27917308 TCTGCTCCGCTGTCAATGCAGGAAGGGAAGATCTGTTGTCTTCAACCAGCT-C-TGCTACAACCG
1 TCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCAT-C-ACAACCG
27917371 AGAGAGGCAAGGTTTGTGTCTTCGA
64 AGAGAGGCAAGGTTTGTGTCTTCGA
* * * *
27917396 TCTGCTTCGCTGTTAATGCAGGAAGACAAGATCTGTTTTCTTCAACAAGCTCCATCACAACCGAG
1 TCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCATCACAACCGAG
27917461 AGAGGCAAGGTTTGTGTCTTCGA
66 AGAGGCAAGGTTTGTGTCTTCGA
* * * * *
27917484 CCTGCTTCACTGTCACTGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATTACAACCGAG
1 TCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCATCACAACCGAG
*
27917549 AGAGGTAAGGTTTGTGTCTTCGA
66 AGAGGCAAGGTTTGTGTCTTCGA
* * *
27917572 TCTGCTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTTTTCAACCAGCTCCATCACAACCGAG
1 TCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCATCACAACCGAG
27917637 AGAGGCAAGGTTTGTGTCTTCGA
66 AGAGGCAAGGTTTGTGTCTTCGA
*
27917660 CCTGCTTC
1 TCTGCTTC
27917668 NNNNNNNNNN
Statistics
Matches: 246, Mismatches: 24, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
88 243 0.99
89 2 0.01
90 1 0.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (88 bp):
TCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCATCACAACCGAG
AGAGGCAAGGTTTGTGTCTTCGA
Found at i:27917513 original size:44 final size:45
Alignment explanation
Indices: 27917460--27917667 Score: 144
Period size: 44 Copynumber: 4.7 Consensus size: 45
27917450 TCACAACCGA
*
27917460 GAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCACTGCAG
1 GAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCACTACAG
* * * * * * *
27917505 GA-AGGCAAGATCTTTTGTCTTCAACCAGCTCCA-T-T-ACAACCG
1 GAGAGGCAAGGT-TTGTGTCTTCGACCTGCTTCACTGTCACTACAG
* * * *
27917547 AGAGAGGTAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATACAG
1 -GAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCACTACAG
* * * * * * * *
27917593 GA-AGGCAAGATCTTTTGTTTTCAACCAGC-TC-C-ATCACAACCG
1 GAGAGGCAAGGT-TTGTGTCTTCGACCTGCTTCACTGTCACTACAG
27917635 AGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTC
1 -GAGAGGCAAGGTTTGTGTCTTCGACCTGCTTC
27917668 NNNNNNNNNN
Statistics
Matches: 118, Mismatches: 35, Indels: 21
0.68 0.20 0.12
Matches are distributed among these distances:
42 10 0.08
43 34 0.29
44 36 0.31
45 34 0.29
46 4 0.03
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.29
Consensus pattern (45 bp):
GAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCACTACAG
Found at i:27917526 original size:45 final size:45
Alignment explanation
Indices: 27917475--27917610 Score: 111
Period size: 45 Copynumber: 3.1 Consensus size: 45
27917465 GCAAGGTTTG
27917475 TGTCTTCGACCTGCTTCACTGTCACTGCAGGAAGGCAAGATCTTT
1 TGTCTTCGACCTGCTTCACTGTCACTGCAGGAAGGCAAGATCTTT
* * * * * * *
27917520 TGTCTTCAACCAGCTCCA-T-TACAACCG-A-GAGAGGTAAGGT-TTG
1 TGTCTTCGACCTGCTTCACTGT-C-ACTGCAGGA-AGGCAAGATCTTT
* * * *
27917563 TGTCTTCGATCTGCTTCGCTGTCAATACAGGAAGGCAAGATCTTT
1 TGTCTTCGACCTGCTTCACTGTCACTGCAGGAAGGCAAGATCTTT
27917608 TGT
1 TGT
27917611 TTTCAACCAG
Statistics
Matches: 65, Mismatches: 18, Indels: 16
0.66 0.18 0.16
Matches are distributed among these distances:
43 19 0.29
44 20 0.31
45 26 0.40
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.31
Consensus pattern (45 bp):
TGTCTTCGACCTGCTTCACTGTCACTGCAGGAAGGCAAGATCTTT
Found at i:27927211 original size:61 final size:60
Alignment explanation
Indices: 27927107--27927220 Score: 147
Period size: 61 Copynumber: 1.9 Consensus size: 60
27927097 TTTTTTGAAA
** * **
27927107 TTTTTAGAATTAGTATTAAATTAACAAATTTTGCAAATGTTGATAGCTAAATTTATTGAGT
1 TTTTTAGAATTAAAATTAAAATAACAAATTTTGCAAACATTGAT-GCTAAATTTATTGAGT
* * *
27927168 TTTTTAGAATTAAAATTAAAATGACAAATTTTGTAAACATTGATGCTCAATTT
1 TTTTTAGAATTAAAATTAAAATAACAAATTTTGCAAACATTGATGCTAAATTT
27927221 GTTTAATTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
60 8 0.18
61 37 0.82
ACGTcount: A:0.39, C:0.06, G:0.11, T:0.43
Consensus pattern (60 bp):
TTTTTAGAATTAAAATTAAAATAACAAATTTTGCAAACATTGATGCTAAATTTATTGAGT
Found at i:27928030 original size:138 final size:139
Alignment explanation
Indices: 27927771--27928038 Score: 450
Period size: 138 Copynumber: 1.9 Consensus size: 139
27927761 ATCCATTTTC
27927771 CGGGAAATCGCGTCCACGTCAGTGCGATGTCAGGGTATGTGTCAGGATATCGCGTCCACGTCAGC
1 CGGGAAATCGCGTCCACGTCAGTGCGATGTCAGGGTATGTGTCAGGATATCGCGTCCACGTCAGC
** ** * *
27927836 GCGACCTACTGACGAGGAAGGAAATCGCGTCCTTGAGGGTGCGATTTCCTTCCACGTCAGCAGGT
66 GCGACCTACTGACGAGGAAGGAAATCGCGTCCTCAAGGACGAGATTTCCCTCCACGTCAGCAGGT
27927901 CGCGCTGAA
131 CGCGCTGAA
27927910 CGGGAAATCG-GTCCACGTCAGTGCGATGTCAGGGTATGTGTCAGGATATCGCGTCCACGTCAGC
1 CGGGAAATCGCGTCCACGTCAGTGCGATGTCAGGGTATGTGTCAGGATATCGCGTCCACGTCAGC
*
27927974 GCGACCTACTGACGAGGAAGGAAATC-CGTCCCTCAAGGACGAGATTTCCCTCCACGTTAGCAGG
66 GCGACCTACTGACGAGGAAGGAAATCGCGT-CCTCAAGGACGAGATTTCCCTCCACGTCAGCAGG
27928038 T
130 T
27928039 NNNNNNNNNN
Statistics
Matches: 121, Mismatches: 7, Indels: 3
0.92 0.05 0.02
Matches are distributed among these distances:
137 3 0.02
138 108 0.89
139 10 0.08
ACGTcount: A:0.22, C:0.27, G:0.31, T:0.21
Consensus pattern (139 bp):
CGGGAAATCGCGTCCACGTCAGTGCGATGTCAGGGTATGTGTCAGGATATCGCGTCCACGTCAGC
GCGACCTACTGACGAGGAAGGAAATCGCGTCCTCAAGGACGAGATTTCCCTCCACGTCAGCAGGT
CGCGCTGAA
Found at i:27930613 original size:18 final size:18
Alignment explanation
Indices: 27930592--27930626 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27930582 AGGTATGTTT
* *
27930592 CCTAGCCCTTATATGTAC
1 CCTAACCCTTACATGTAC
27930610 CCTAACCCTTACATGTA
1 CCTAACCCTTACATGTA
27930627 TCCTTTCCGA
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:0.26, C:0.34, G:0.09, T:0.31
Consensus pattern (18 bp):
CCTAACCCTTACATGTAC
Found at i:27931058 original size:25 final size:25
Alignment explanation
Indices: 27931029--27931139 Score: 74
Period size: 25 Copynumber: 4.6 Consensus size: 25
27931019 TTTAAATTTA
27931029 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
* ** *
27931054 TTATTTGATATAATAGGCATAGAAAT
1 TTATTTGATGTAATA-AAATAGAAGT
** *
27931080 TT-TTTCGA-GT--T-ATTTTG-A-T
1 TTATTT-GATGTAATAAAATAGAAGT
27931099 ATTATTTGATGTAATAAAATAGAAGT
1 -TTATTTGATGTAATAAAATAGAAGT
*
27931125 TTATTTGATATAATA
1 TTATTTGATGTAATA
27931140 GGCATAGAAA
Statistics
Matches: 63, Mismatches: 13, Indels: 20
0.66 0.14 0.21
Matches are distributed among these distances:
19 1 0.02
20 5 0.08
21 7 0.11
23 2 0.03
24 3 0.05
25 33 0.52
26 12 0.19
ACGTcount: A:0.39, C:0.02, G:0.14, T:0.45
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:27931100 original size:36 final size:36
Alignment explanation
Indices: 27931057--27931171 Score: 110
Period size: 36 Copynumber: 3.2 Consensus size: 36
27931047 TAGAAGTTTA
27931057 TTTGATATAATAGGCATAGAAATTTTTTCGAGTTAT
1 TTTGATATAATAGGCATAGAAATTTTTTCGAGTTAT
* ** * **** *
27931093 TTTGATATTATTTG-AT-GTAATAAAATAGAAGTT-T
1 TTTGATATAATAGGCATAGAAATTTTTTCG-AGTTAT
27931127 ATTTGATATAATAGGCATAGAAATTTTTTCGAGTTAT
1 -TTTGATATAATAGGCATAGAAATTTTTTCGAGTTAT
27931164 TTTGATAT
1 TTTGATAT
27931172 TATTTGATAT
Statistics
Matches: 56, Mismatches: 18, Indels: 10
0.67 0.21 0.12
Matches are distributed among these distances:
34 7 0.12
35 17 0.30
36 25 0.45
37 7 0.12
ACGTcount: A:0.35, C:0.03, G:0.16, T:0.46
Consensus pattern (36 bp):
TTTGATATAATAGGCATAGAAATTTTTTCGAGTTAT
Found at i:27931114 original size:71 final size:71
Alignment explanation
Indices: 27931027--27931205 Score: 340
Period size: 71 Copynumber: 2.5 Consensus size: 71
27931017 TATTTAAATT
27931027 TATTATTTGATGTAATAAAATAGAAGTTTATTTGATATAATAGGCATAGAAATTTTTTCGAGTTA
1 TATTATTTGATGTAATAAAATAGAAGTTTATTTGATATAATAGGCATAGAAATTTTTTCGAGTTA
27931092 TTTTGA
66 TTTTGA
27931098 TATTATTTGATGTAATAAAATAGAAGTTTATTTGATATAATAGGCATAGAAATTTTTTCGAGTTA
1 TATTATTTGATGTAATAAAATAGAAGTTTATTTGATATAATAGGCATAGAAATTTTTTCGAGTTA
27931163 TTTTGA
66 TTTTGA
*
27931169 TATTATTTGATATAATAAAATAGAAGTTCTATTTGAT
1 TATTATTTGATGTAATAAAATAGAAGTT-TATTTGAT
27931206 GCAATAAAAA
Statistics
Matches: 106, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
71 98 0.92
72 8 0.08
ACGTcount: A:0.37, C:0.03, G:0.15, T:0.45
Consensus pattern (71 bp):
TATTATTTGATGTAATAAAATAGAAGTTTATTTGATATAATAGGCATAGAAATTTTTTCGAGTTA
TTTTGA
Found at i:27931252 original size:17 final size:18
Alignment explanation
Indices: 27931210--27931255 Score: 78
Period size: 17 Copynumber: 2.7 Consensus size: 18
27931200 TTTGATGCAA
27931210 TAAAAA-CCTAATTTAAT
1 TAAAAACCCTAATTTAAT
27931227 TAAAAACCCTAA-TTAAT
1 TAAAAACCCTAATTTAAT
27931244 TAAAAACCCTAA
1 TAAAAACCCTAA
27931256 CCCAACCCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 23 0.82
18 5 0.18
ACGTcount: A:0.54, C:0.17, G:0.00, T:0.28
Consensus pattern (18 bp):
TAAAAACCCTAATTTAAT
Found at i:27931324 original size:30 final size:29
Alignment explanation
Indices: 27931234--27931356 Score: 189
Period size: 29 Copynumber: 4.3 Consensus size: 29
27931224 AATTAAAAAC
27931234 CCTAA-TTAATTAAAAACCCTAACCC-AA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
* *
27931261 CCCAATTTAATTAAAAACTCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
27931290 CCTAATTTAATTAAAAACCCTAAAACCC-AA
1 CCTAATTTAATTAAAAACCCT--AACCCTAA
27931320 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
27931349 CCTAATTT
1 CCTAATTT
27931357 TACATAATTT
Statistics
Matches: 87, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
27 4 0.05
28 24 0.28
29 31 0.36
30 23 0.26
31 5 0.06
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.27
Consensus pattern (29 bp):
CCTAATTTAATTAAAAACCCTAACCCTAA
Found at i:27931330 original size:59 final size:57
Alignment explanation
Indices: 27931234--27931356 Score: 203
Period size: 59 Copynumber: 2.1 Consensus size: 57
27931224 AATTAAAAAC
*
27931234 CCTAA-TTAATTAAAAACCCTAACCCAACCCAATTTAATTAAAAACTCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCAACCCAATTTAATTAAAAACCCTAACCCTAA
*
27931290 CCTAATTTAATTAAAAACCCTAAAACCCAACCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCT--AACCCAACCCAATTTAATTAAAAACCCTAACCCTAA
27931349 CCTAATTT
1 CCTAATTT
27931357 TACATAATTT
Statistics
Matches: 62, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
56 5 0.08
57 15 0.24
59 42 0.68
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.27
Consensus pattern (57 bp):
CCTAATTTAATTAAAAACCCTAACCCAACCCAATTTAATTAAAAACCCTAACCCTAA
Found at i:27931354 original size:24 final size:22
Alignment explanation
Indices: 27931311--27931355 Score: 54
Period size: 24 Copynumber: 2.0 Consensus size: 22
27931301 TAAAAACCCT
**
27931311 AAAACCCAACCTAATTTAATTA
1 AAAACCCAACCTAACCTAATTA
27931333 AAAACCCTAACCCTAACCTAATT
1 AAAACCC-AA-CCTAACCTAATT
27931356 TTACATAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 7 0.37
23 2 0.11
24 10 0.53
ACGTcount: A:0.47, C:0.29, G:0.00, T:0.24
Consensus pattern (22 bp):
AAAACCCAACCTAACCTAATTA
Found at i:27931416 original size:55 final size:55
Alignment explanation
Indices: 27931355--27931617 Score: 481
Period size: 55 Copynumber: 4.8 Consensus size: 55
27931345 CTAACCTAAT
27931355 TTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAATAAA
1 TTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAATAAA
* * *
27931410 TTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTAGACTAAATAAT
1 TTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAATAAA
*
27931465 TTTACATAAGTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAATAAA
1 TTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAATAAA
*
27931520 TTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAATAAT
1 TTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAATAAA
27931575 TTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTT
1 TTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTT
27931618 NNNNNNNNNN
Statistics
Matches: 199, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 199 1.00
ACGTcount: A:0.40, C:0.13, G:0.05, T:0.43
Consensus pattern (55 bp):
TTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAATAAA
Found at i:27934604 original size:122 final size:123
Alignment explanation
Indices: 27934381--27934725 Score: 523
Period size: 122 Copynumber: 2.8 Consensus size: 123
27934371 CAAACTTGCT
* * ** * * *
27934381 ACTGCAGCAAAACCGCGTCCACAAGGGTGCGATTTCACAATTTCTTTTCAAATAGCATCCTGGGA
1 ACTGTAGCAAAACCGCGTCCACGAGGACGCAATTTCACAATTTCTTCTCAAATAGCATCCTGGTA
*
27934446 GAAGCGATTTTATACTATTTGCTCAGAAACTTCAAAAAAATTATTTCTTACATGACCA
66 GAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATTATTTCTTACATGACCA
*
27934504 ACTGTAGCAAAATCGCGTCCACGAGGACAG-AATTTCACAATTTC-TCTCAAATAGCATCCTGGT
1 ACTGTAGCAAAACCGCGTCCACGAGGAC-GCAATTTCACAATTTCTTCTCAAATAGCATCCTGGT
* * *
27934567 AGAAGCGATTTTATACTATTTACTCAGAAACGTCAAAAAGATTATTTCTTACATGACCT
65 AGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATTATTTCTTACATGACCA
* * *
27934626 ACTGTAGCCAAACCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGTA
1 ACTGTAGCAAAACCGCGTCCACGAGGACGCAATTTCACAATTTCTTCTCAAATAGCATCCTGGTA
*
27934691 TAAGCGATTTTATACTATTTGCTCAGAAACGTCAA
66 GAAGCGATTTTATACTATTTGCTCAGAAACGTCAA
27934726 CTCTAAATAA
Statistics
Matches: 201, Mismatches: 18, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
121 1 0.00
122 110 0.55
123 89 0.44
124 1 0.00
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (123 bp):
ACTGTAGCAAAACCGCGTCCACGAGGACGCAATTTCACAATTTCTTCTCAAATAGCATCCTGGTA
GAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATTATTTCTTACATGACCA
Found at i:27937441 original size:27 final size:27
Alignment explanation
Indices: 27937390--27937442 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
27937380 ATCAAAGGCT
* **
27937390 ACAATTAAAAGTTGTATACTCTTAGAC
1 ACAATTAAAAGCTGTATACAATTAGAC
*
27937417 ACAATTAGAAGCTGTATACAATTAGA
1 ACAATTAAAAGCTGTATACAATTAGA
27937443 ACTCTAATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.30
Consensus pattern (27 bp):
ACAATTAAAAGCTGTATACAATTAGAC
Found at i:27937703 original size:22 final size:22
Alignment explanation
Indices: 27937658--27937703 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
27937648 CCCTCGTCGC
**
27937658 ATCTTCCTTATGGAACTGGTCA
1 ATCTTCCTTATGGAACTGCACA
27937680 ATCTTCCTT-TGGAACTGCCACA
1 ATCTTCCTTATGGAACTG-CACA
27937702 AT
1 AT
27937704 GCCTCGGCAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (22 bp):
ATCTTCCTTATGGAACTGCACA
Found at i:27940723 original size:42 final size:42
Alignment explanation
Indices: 27940664--27940747 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
27940654 CACTATGTAA
27940664 TTGCTCGACGGGGCAATAAGAGCATTAACCTGATCTAGGAAG
1 TTGCTCGACGGGGCAATAAGAGCATTAACCTGATCTAGGAAG
27940706 TTGCTCGACGGGGCAATAAGAGCATTAACCTGATCTAGGAAG
1 TTGCTCGACGGGGCAATAAGAGCATTAACCTGATCTAGGAAG
27940748 CTTAGTCCAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.31, C:0.19, G:0.29, T:0.21
Consensus pattern (42 bp):
TTGCTCGACGGGGCAATAAGAGCATTAACCTGATCTAGGAAG
Found at i:27942332 original size:47 final size:48
Alignment explanation
Indices: 27942263--27942356 Score: 163
Period size: 47 Copynumber: 2.0 Consensus size: 48
27942253 TTCTTTGCTT
27942263 AAAAACGCCTAAGTCAGCCTAACTCGCAATGA-AAAGGATTCAACAGC
1 AAAAACGCCTAAGTCAGCCTAACTCGCAATGATAAAGGATTCAACAGC
* *
27942310 AAAAACGCCTAAGTCGGCCTAACTTGCAATGATAAAGGATTCAACAG
1 AAAAACGCCTAAGTCAGCCTAACTCGCAATGATAAAGGATTCAACAG
27942357 AATTCCCTCA
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
47 30 0.68
48 14 0.32
ACGTcount: A:0.41, C:0.23, G:0.18, T:0.17
Consensus pattern (48 bp):
AAAAACGCCTAAGTCAGCCTAACTCGCAATGATAAAGGATTCAACAGC
Found at i:27942604 original size:17 final size:17
Alignment explanation
Indices: 27942545--27942608 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 17
27942535 CATCAAAGGC
* *
27942545 TACAATTAAAAGTTGTA
1 TACAATTAGAAGCTGTA
*
27942562 TACAATTAGAA-CTCTTAGA
1 TACAATTAGAAGCT-GT--A
*
27942581 CACAATTAGAAGCTGTA
1 TACAATTAGAAGCTGTA
27942598 TACAATTAGAA
1 TACAATTAGAA
27942609 CTCTAAGATT
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
16 1 0.03
17 22 0.59
19 12 0.32
20 2 0.05
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.30
Consensus pattern (17 bp):
TACAATTAGAAGCTGTA
Found at i:27948114 original size:89 final size:90
Alignment explanation
Indices: 27948000--27948183 Score: 352
Period size: 89 Copynumber: 2.1 Consensus size: 90
27947990 TAAATTTTTT
*
27948000 AAAATATATATTTATATAAATTTCTTTGGTGCTTTATCAAGTAATATCCCAAAGTTATAAAACAA
1 AAAAAATATATTTATATAAATTTCTTTGGTGCTTTATCAAGTAATATCCCAAAGTTATAAAACAA
27948065 ATTTTATTTTGTGAAAATAAGGTTA
66 ATTTTATTTTGTGAAAATAAGGTTA
27948090 AAAAAATATATTTAT-TAAATTTCTTTGGTGCTTTATCAAGTAATATCCCAAAGTTATAAAACAA
1 AAAAAATATATTTATATAAATTTCTTTGGTGCTTTATCAAGTAATATCCCAAAGTTATAAAACAA
27948154 ATTTTATTTTGTGAAAATAAGGTTA
66 ATTTTATTTTGTGAAAATAAGGTTA
27948179 AAAAA
1 AAAAA
27948184 CTCAAATTTT
Statistics
Matches: 93, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
89 79 0.85
90 14 0.15
ACGTcount: A:0.43, C:0.08, G:0.10, T:0.40
Consensus pattern (90 bp):
AAAAAATATATTTATATAAATTTCTTTGGTGCTTTATCAAGTAATATCCCAAAGTTATAAAACAA
ATTTTATTTTGTGAAAATAAGGTTA
Found at i:27966384 original size:22 final size:22
Alignment explanation
Indices: 27966340--27966380 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
27966330 CGTATGCATT
*
27966340 AAAATAGTTAGATATAAAATAA
1 AAAATAGTTAGATAAAAAATAA
*
27966362 AAAATATTTAGA-AAAAAAT
1 AAAATAGTTAGATAAAAAAT
27966381 TAAACTTGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.27
Consensus pattern (22 bp):
AAAATAGTTAGATAAAAAATAA
Found at i:27966878 original size:41 final size:40
Alignment explanation
Indices: 27966805--27966899 Score: 118
Period size: 41 Copynumber: 2.4 Consensus size: 40
27966795 GGCGCTAACA
* * *
27966805 AAAAACGCCGCAATAGGTAAAACAGTAACGGCGTTTATGAG
1 AAAAACGCTGCAAAAGGTAAAACAGTAACGGCG-CTATGAG
* * * *
27966846 AAAAACGCTGCAAAAGGTCAAGCATTAGCGGCGCTATGAG
1 AAAAACGCTGCAAAAGGTAAAACAGTAACGGCGCTATGAG
27966886 AAAAACGCTGCAAA
1 AAAAACGCTGCAAA
27966900 GTATCATTTT
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
40 20 0.43
41 27 0.57
ACGTcount: A:0.42, C:0.19, G:0.24, T:0.15
Consensus pattern (40 bp):
AAAAACGCTGCAAAAGGTAAAACAGTAACGGCGCTATGAG
Found at i:27967092 original size:27 final size:27
Alignment explanation
Indices: 27967054--27967129 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 27
27967044 CTTTCCCCGA
27967054 CCCTCTGCTGCATCACCGTCGATTGTC
1 CCCTCTGCTGCATCACCGTCGATTGTC
* * *
27967081 CCCTCTGCTGCATTACTGTCAATTGTC
1 CCCTCTGCTGCATCACCGTCGATTGTC
* *
27967108 CCCTTTGCTGCATCGCCGTCGA
1 CCCTCTGCTGCATCACCGTCGA
27967130 CACTCCTCTG
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.12, C:0.38, G:0.18, T:0.32
Consensus pattern (27 bp):
CCCTCTGCTGCATCACCGTCGATTGTC
Found at i:27970173 original size:72 final size:71
Alignment explanation
Indices: 27970096--27970316 Score: 232
Period size: 72 Copynumber: 3.1 Consensus size: 71
27970086 AGTAAAATCG
**
27970096 TTTATTTAATTATGTGTTTTTAAAAAGGTTAATTTAGTTCAATTTATTAAGTTTTGATATTAAGT
1 TTTATTTAATTATGAATTTTTAAAAAGGTTAATTTAGTTCAATTTATTAAGTTTTGATATTAAGT
27970161 GAAACCA
66 -AAACCA
* * * * ** *
27970168 TTTATTTAGTTAT-ACA-TTTTCAGAAGCTTAATTTAGTTTGATTTATTGAA-ATTTGATATTAA
1 TTTATTTAATTATGA-ATTTTTAAAAAGGTTAATTTAGTTCAATTTATT-AAGTTTTGATATTAA
*
27970230 GTAAAAACA
64 GT-AAACCA
** * * * *
27970239 TTCGTTCAATTATGAATTTTTAAAAAGGTTAGTTTAGTTCAACTTATTGAGTTTTGATATTAAGT
1 TTTATTTAATTATGAATTTTTAAAAAGGTTAATTTAGTTCAATTTATTAAGTTTTGATATTAAGT
27970304 AGAACCA
66 A-AACCA
27970311 TTTATT
1 TTTATT
27970317 CTGTTATACA
Statistics
Matches: 116, Mismatches: 27, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
71 56 0.48
72 60 0.52
ACGTcount: A:0.34, C:0.06, G:0.13, T:0.47
Consensus pattern (71 bp):
TTTATTTAATTATGAATTTTTAAAAAGGTTAATTTAGTTCAATTTATTAAGTTTTGATATTAAGT
AAACCA
Found at i:27970199 original size:71 final size:71
Alignment explanation
Indices: 27970112--27970326 Score: 213
Period size: 71 Copynumber: 3.0 Consensus size: 71
27970102 TAATTATGTG
*
27970112 TTTTTAAAAAGGTTAATTTAGTTCAATTTATTAAGTTTTGATATTAAGTGAAACCATTTATTTAG
1 TTTTTAAAAAGCTTAATTTAGTTCAATTTATTAAGTTTTGATATTAAGT-AAACCATTTATTTAG
27970177 TTATACA
65 TTATACA
* * ** * * ** *
27970184 -TTTTCAGAAGCTTAATTTAGTTTGATTTATTGAA-ATTTGATATTAAGTAAAAACATTCGTTCA
1 TTTTTAAAAAGCTTAATTTAGTTCAATTTATT-AAGTTTTGATATTAAGT-AAACCATTTATTTA
*
27970247 ATTATGA-A
64 GTTAT-ACA
* * * *
27970255 TTTTTAAAAAGGTTAGTTTAGTTCAACTTATTGAGTTTTGATATTAAGTAGAACCATTTATTCT-
1 TTTTTAAAAAGCTTAATTTAGTTCAATTTATTAAGTTTTGATATTAAGTA-AACCATTTATT-TA
27970319 GTTATACA
64 GTTATACA
27970327 AAGTACAAAG
Statistics
Matches: 110, Mismatches: 26, Indels: 14
0.73 0.17 0.09
Matches are distributed among these distances:
71 57 0.52
72 53 0.48
ACGTcount: A:0.35, C:0.07, G:0.13, T:0.46
Consensus pattern (71 bp):
TTTTTAAAAAGCTTAATTTAGTTCAATTTATTAAGTTTTGATATTAAGTAAACCATTTATTTAGT
TATACA
Found at i:27970723 original size:19 final size:18
Alignment explanation
Indices: 27970701--27970744 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
27970691 TTTATTATTT
27970701 ATTTTAGTTTTTATTCTAA
1 ATTTTA-TTTTTATTCTAA
*
27970720 ATTTTTATTTTTATTTTAA
1 A-TTTTATTTTTATTCTAA
*
27970739 AATTTA
1 ATTTTA
27970745 AGATAACTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 4 0.18
19 13 0.59
20 5 0.23
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (18 bp):
ATTTTATTTTTATTCTAA
Found at i:27970743 original size:20 final size:20
Alignment explanation
Indices: 27970702--27970739 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
27970692 TTATTATTTA
27970702 TTTTAGTTTTTATTCTAAAT
1 TTTTAGTTTTTATTCTAAAT
*
27970722 TTTTA-TTTTTATTTTAAA
1 TTTTAGTTTTTATTCTAAA
27970740 ATTTAAGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (20 bp):
TTTTAGTTTTTATTCTAAAT
Found at i:27971159 original size:13 final size:13
Alignment explanation
Indices: 27971143--27971169 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
27971133 TAATTAAAGG
27971143 GTTAAAATTTAAA
1 GTTAAAATTTAAA
27971156 GTTAAAATTTAAA
1 GTTAAAATTTAAA
27971169 G
1 G
27971170 ATGATAATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (13 bp):
GTTAAAATTTAAA
Found at i:27971318 original size:34 final size:34
Alignment explanation
Indices: 27971279--27971430 Score: 223
Period size: 36 Copynumber: 4.4 Consensus size: 34
27971269 ATAACTTACT
*
27971279 TAACTTACATAATATATAAATATATATCATATCA
1 TAACTTACATAATACATAAATATATATCATATCA
* *
27971313 TAACTTACATAGCTCACATAAATATATACCATATCA
1 TAACTTACATA-AT-ACATAAATATATATCATATCA
27971349 TAACTTACATAATACATAAATATATATCATATCA
1 TAACTTACATAATACATAAATATATATCATATCA
*
27971383 TAACTTACATAACTTACACAAATATATATCATATCA
1 TAACTTACATAA--TACATAAATATATATCATATCA
*
27971419 TAACTAACATAA
1 TAACTTACATAA
27971431 AACTGTGGAT
Statistics
Matches: 107, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
34 43 0.40
35 2 0.02
36 62 0.58
ACGTcount: A:0.49, C:0.17, G:0.01, T:0.34
Consensus pattern (34 bp):
TAACTTACATAATACATAAATATATATCATATCA
Found at i:27971354 original size:70 final size:70
Alignment explanation
Indices: 27971279--27971430 Score: 250
Period size: 70 Copynumber: 2.2 Consensus size: 70
27971269 ATAACTTACT
* * *
27971279 TAACTTACATAATATATAAATATATATCATATCATAACTTACATAGCTCACATAAATATATACCA
1 TAACTTACATAATACATAAATATATATCATATCATAACTTACATAACTCACACAAATATATACCA
27971344 TATCA
66 TATCA
* *
27971349 TAACTTACATAATACATAAATATATATCATATCATAACTTACATAACTTACACAAATATATATCA
1 TAACTTACATAATACATAAATATATATCATATCATAACTTACATAACTCACACAAATATATACCA
27971414 TATCA
66 TATCA
*
27971419 TAACTAACATAA
1 TAACTTACATAA
27971431 AACTGTGGAT
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
70 76 1.00
ACGTcount: A:0.49, C:0.17, G:0.01, T:0.34
Consensus pattern (70 bp):
TAACTTACATAATACATAAATATATATCATATCATAACTTACATAACTCACACAAATATATACCA
TATCA
Found at i:27972197 original size:18 final size:18
Alignment explanation
Indices: 27972174--27972212 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
27972164 TTTATGAGGG
27972174 ATCGAAATTTTCAAAACT
1 ATCGAAATTTTCAAAACT
27972192 ATCGAAATTTTCAAAACT
1 ATCGAAATTTTCAAAACT
27972210 ATC
1 ATC
27972213 ACTCTGCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.44, C:0.18, G:0.05, T:0.33
Consensus pattern (18 bp):
ATCGAAATTTTCAAAACT
Found at i:27976273 original size:13 final size:13
Alignment explanation
Indices: 27976255--27976279 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27976245 ACAAACGATA
27976255 AAATTTTCACACG
1 AAATTTTCACACG
27976268 AAATTTTCACAC
1 AAATTTTCACAC
27976280 ATATTAATTC
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:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:27997370 original size:18 final size:18
Alignment explanation
Indices: 27997326--27997381 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
27997316 CAATGAAGGC
*
27997326 GCAGATGAGGAAGAATAT
1 GCAGATGAGGAAGAAGAT
* *
27997344 GCGGCTGAGGAAGAAGAT
1 GCAGATGAGGAAGAAGAT
* * *
27997362 GTAGATGAGAAAAAAGAT
1 GCAGATGAGGAAGAAGAT
27997380 GC
1 GC
27997382 GACTGATGAA
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.43, C:0.07, G:0.36, T:0.14
Consensus pattern (18 bp):
GCAGATGAGGAAGAAGAT
Found at i:28002660 original size:134 final size:133
Alignment explanation
Indices: 28002471--28002739 Score: 413
Period size: 135 Copynumber: 2.0 Consensus size: 133
28002461 TAGGTAAAAA
*
28002471 GATCACATGTAAATGTTATAAGAAATTAAGGTATAAACGAAAATAATGTTCAGAT-AAAAAAATC
1 GATCACATGTAAATGTTATAAGAAATTAACGTATAAACGAAAATAATGTTCAGATAAAAAAAATC
28002535 ACACATAAGTGTTATAATAAATGAAGATATAAACGATAAAAGTTA-ACTGATTATTGATGT-GAC
66 ACACATAAGTGTTATAATAAATGAAGATATAAACGATAAAAGTTATA-TGATTATTGAT-TCGAC
28002598 TCAAT
129 TCAAT
28002603 GATCACATGTAAATGTTATCTAAGAAATTAACGTATAAACGACAAA-AATGCTT-AGATAAAAAA
1 GATCACATGTAAATGTTA--TAAGAAATTAACGTATAAACGA-AAATAATG-TTCAGATAAAAAA
* * *
28002666 AATCACACGTAAGTGTTATGATAAATGAAGATATAAGCGATAAAAGTTATATGATTATTGATTCG
62 AATCACACATAAGTGTTATAATAAATGAAGATATAAACGATAAAAGTTATATGATTATTGATTCG
28002731 ACTCAAT
127 ACTCAAT
28002738 GA
1 GA
28002740 ATTCAATAAC
Statistics
Matches: 126, Mismatches: 4, Indels: 11
0.89 0.03 0.08
Matches are distributed among these distances:
132 18 0.14
134 30 0.24
135 77 0.61
136 1 0.01
ACGTcount: A:0.47, C:0.09, G:0.15, T:0.29
Consensus pattern (133 bp):
GATCACATGTAAATGTTATAAGAAATTAACGTATAAACGAAAATAATGTTCAGATAAAAAAAATC
ACACATAAGTGTTATAATAAATGAAGATATAAACGATAAAAGTTATATGATTATTGATTCGACTC
AAT
Found at i:28006038 original size:3 final size:3
Alignment explanation
Indices: 28006030--28006091 Score: 61
Period size: 3 Copynumber: 20.7 Consensus size: 3
28006020 TTTATCGTCC
* * * * * * *
28006030 TCA TCA TCA TCA GCA GCA GCA CCA TCA TCG TCG TCA TCA TCA TCA TCT
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
28006078 TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TC
28006092 CTGCTCTGGT
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.27, C:0.35, G:0.08, T:0.29
Consensus pattern (3 bp):
TCA
Found at i:28007806 original size:153 final size:153
Alignment explanation
Indices: 28007370--28010870 Score: 4505
Period size: 153 Copynumber: 22.9 Consensus size: 153
28007360 TTAGTCGCAT
* * * ** *
28007370 ATTAATCTTGATTTTGCCGGTGATAGTTTATATTTTTAATAAAA-AAGTCGTAATTTGATATTAA
1 ATTAATCTTGATTTTGTCGGTGATGGTTTATATTTTTAATAAAAGAGGTAATAATTTGAGATTAA
* * * * * * * *
28007434 -GGGAAGTGGTTCAAATGATATACTTATTAGGTAG-T-CA-AAATGGATCGAGTTAAACTATAAG
66 GGGGAA---GTCCAACTGCTATATTTATTAGCTAGTTGCATGAATCGATCGAGTTAAGCTATAAG
* ** * *
28007495 TTCTCAAATACAAACATTTGCAGCAC
128 TTCTCAAAGACGCATATTAGCAGCAC
* * * * * *
28007521 ATTGATATTGAATATGTCGGCGATGGTTTAGATTTTTAATAAAAGAGGTAATAATTTGAGATTAA
1 ATTAATCTTGATTTTGTCGGTGATGGTTTATATTTTTAATAAAAGAGGTAATAATTTGAGATTAA
* * *
28007586 -GGGAAGTCCAACTGCTATATTTATTAGCTAGTTGCATTAATCGATCGAGTTAAGTTATAATTTC
66 GGGGAAGTCCAACTGCTATATTTATTAGCTAGTTGCATGAATCGATCGAGTTAAGCTATAAGTTC
28007650 TCAAAGACGCATATTAGCAGCAC
131 TCAAAGACGCATATTAGCAGCAC
* * * * *
28007673 ATTAATCTTGATTTTGACGGTGATGGTTTATATTTTTAACAAAAGAGGTAATGATTTCATATTAA
1 ATTAATCTTGATTTTGTCGGTGATGGTTTATATTTTTAATAAAAGAGGTAATAATTTGAGATTAA
* * ** * * * *
28007738 GGGGAAGTTCAATTGC-ATTATTTATTAAATAGTTGTAAGAATCGATCGATTTAAGCTATAAATT
66 GGGGAAGTCCAACTGCTA-TATTTATTAGCTAGTTGCATGAATCGATCGAGTTAAGCTATAAGTT
28007802 CTCAAAGACG-ACTATTAGCAGCAC
130 CTCAAAGACGCA-TATTAGCAGCAC
* * *
28007826 ATTAGTCTTGATTTTCTCGGTGATGGTTTATATTTTTAATAAAAGAGGTAAAAATTTGAGATTAA
1 ATTAATCTTGATTTTGTCGGTGATGGTTTATATTTTTAATAAAAGAGGTAATAATTTGAGATTAA
* * * *
28007891 GGGGAAATCCAACTACTATATTTATTAGCTAGTTGCATGAATCAATCGAGTTAAGCTGTAAGTTC
66 GGGGAAGTCCAACTGCTATATTTATTAGCTAGTTGCATGAATCGATCGAGTTAAGCTATAAGTTC
28007956 TCAAAGACGCATATTAGCAGCAC
131 TCAAAGACGCATATTAGCAGCAC
* * * * *
28007979 ATTAATCTTGATTTTGACCGCGATGGTTTATATTTTTAATAAGAGAGGTAATACTTTGAGATTAA
1 ATTAATCTTGATTTTGTCGGTGATGGTTTATATTTTTAATAAAAGAGGTAATAATTTGAGATTAA
* * * * * *
28008044 GGGGAAGTCCAACTGCTATAGTTATTAGCTAGCTACATGTATC-AGTCGAGTTAAGTTATAGGTT
66 GGGGAAGTCCAACTGCTATATTTATTAGCTAGTTGCATGAATCGA-TCGAGTTAAGCTATAAGTT
* *
28008108 CTCAAAGACGCATATTAACAACAC
130 CTCAAAGACGCATATTAGCAGCAC
* * * * * *
28008132 CTTGATATTGATTTTGTCTGCGATGGTTTATTTTTTTTAATAAAAGAGGTAATAATTTGAGATTA
1 ATTAATCTTGATTTTGTCGGTGATGGTTTA-TATTTTTAATAAAAGAGGTAATAATTTGAGATTA
* *
28008197 AGGGGAAGTCCAACTGCTATATTTATTAGCTAGATGCATGAATCGATCAAGTTAAGCTATAAGTT
65 AGGGGAAGTCCAACTGCTATATTTATTAGCTAGTTGCATGAATCGATCGAGTTAAGCTATAAGTT
* **
28008262 CTTAAAGATTCATATTAGCAGCAC
130 CTCAAAGACGCATATTAGCAGCAC
* * * * *
28008286 ACTAATTTTGATTTTTGTCGTTGATGGTTTATATTTTTAATAAAAGAGGTAAAAAATTGAGATTA
1 ATTAATCTTGA-TTTTGTCGGTGATGGTTTATATTTTTAATAAAAGAGGTAATAATTTGAGATTA
*
28008351 AGGGGAAGTCCAACTGCTATATTTATTAGCTAGATGCATGAATCGATCGAGTTAAGCTAT-AGTT
65 AGGGGAAGTCCAACTGCTATATTTATTAGCTAGTTGCATGAATCGATCGAGTTAAGCTATAAG-T
* * * *
28008415 TCTCAAAGGCGCACATTAGTAGTAC
129 TCTCAAAGACGCATATTAGCAGCAC
*
28008440 ATTAATCTTGATTTTG-CGGGTGATGGTTT-TTTTTTTAATAAAAGAGGTAATAATTTGAGATTA
1 ATTAATCTTGATTTTGTC-GGTGATGGTTTATATTTTTAATAAAAGAGGTAATAATTTGAGATTA
* * * * *
28008503 AGGGGAAGTCCAACTACTATATTTACTAGTTAGTTGCATGTATCAATCGAGTTAAGCTATAAGTT
65 AGGGGAAGTCCAACTGCTATATTTATTAGCTAGTTGCATGAATCGATCGAGTTAAGCTATAAGTT
*
28008568 CTCAAAGATCCCATATTAGCAGCAC
130 CTCAAAGA-CGCATATTAGCAGCAC
* * *
28008593 ATTAATCTTGATTTTGTTGGCGATGGTTTATTTTTTTTAATAAAAGAGGTAATAATTTGAGATTA
1 ATTAATCTTGATTTTGTCGGTGATGGTTTA-TATTTTTAATAAAAGAGGTAATAATTTGAGATTA
* * * * *
28008658 AGGGGAAGTCCAACTGCTATATTTTTTAGCTAATTGCATGAATCAATCAAGTTAAGCTATAAGTG
65 AGGGGAAGTCCAACTGCTATATTTATTAGCTAGTTGCATGAATCGATCGAGTTAAGCTATAAGTT
* *
28008723 CTCAAAGATGCATATTAGCAACAC
130 CTCAAAGACGCATATTAGCAGCAC
* * * *
28008747 ATTAATCTTGATTTTGTCAGTGATGGTTTATATTTTTAATAAACGGGGTAATACTTTGAGATTAA
1 ATTAATCTTGATTTTGTCGGTGATGGTTTATATTTTTAATAAAAGAGGTAATAATTTGAGATTAA
* *
28008812 GGGGAAGCCCAACTGCTATATTTATTAGCTAGTTGCATGAATCGATTGAGTTAAGCTATAAGTTC
66 GGGGAAGTCCAACTGCTATATTTATTAGCTAGTTGCATGAATCGATCGAGTTAAGCTATAAGTTC
* *
28008877 TCAAAGACGCATATTAGTAGTAC
131 TCAAAGACGCATATTAGCAGCAC
* *
28008900 ATTAATCTTGATTTTGTGGGTGATGGTTTATATTTTTAATAAAAGAGGTAATACTTTGAGATTAA
1 ATTAATCTTGATTTTGTCGGTGATGGTTTATATTTTTAATAAAAGAGGTAATAATTTGAGATT-A
* * * * *
28008965 AGGGG-AGTCCAACTGCTATATTTATTAGCTAGCTACATGTATCGGTCGAGTTAAGCTATAGGTT
65 AGGGGAAGTCCAACTGCTATATTTATTAGCTAGTTGCATGAATCGATCGAGTTAAGCTATAAGTT
*
28009029 CTCAAAGACGCATATTAGCAACAC
130 CTCAAAGACGCATATTAGCAGCAC
* * *
28009053 CTTAATCTTGATTTTGTCGGCGATGATTTATTTATTTTTAATAAAAGAGGTAATAATTTGAGATT
1 ATTAATCTTGATTTTGTCGGTGATGGTTTA--TATTTTTAATAAAAGAGGTAATAATTTGAGATT
* **
28009118 AAGGGGAAGTCCAACTACTATATTTATTAGCTAAATGCATGAA-CTGATCGAGTTAAGCTATAAG
64 AAGGGGAAGTCCAACTGCTATATTTATTAGCTAGTTGCATGAATC-GATCGAGTTAAGCTATAAG
* *
28009182 TTCTCAAAGATGCATATAAGCAGCAC
128 TTCTCAAAGACGCATATTAGCAGCAC
* * *
28009208 ATTAATCTTGATTTTTATC-GTCGATGGTTTATATTTTTAATAAAAGAGGTAAAAAATTGAGATT
1 ATTAATCTTGA-TTTTGTCGGT-GATGGTTTATATTTTTAATAAAAGAGGTAATAATTTGAGATT
* *
28009272 AAGGGGAAGTCCAACTGCTATATTTATTAGCTAGATGCATGAATCGATCGATTTAAGCTAT-AGT
64 AAGGGGAAGTCCAACTGCTATATTTATTAGCTAGTTGCATGAATCGATCGAGTTAAGCTATAAG-
* * * *
28009336 TTCTCAAATACACATATTAGTAGTAC
128 TTCTCAAAGACGCATATTAGCAGCAC
*
28009362 ATTAATCTTGATTTTGTGGGTGATGGTTTATATTTTTAATAAAAGAGGTAATAATTTGAGATTAA
1 ATTAATCTTGATTTTGTCGGTGATGGTTTATATTTTTAATAAAAGAGGTAATAATTTGAGATTAA
*
28009427 GGGGAAGTCCAACTGCTATATTTATTAGCTATAGTTGCATGAATCGATCGAGTTAAGCTTTAAGT
66 GGGGAAGTCCAACTGCTATATTTATTAGC--TAGTTGCATGAATCGATCGAGTTAAGCTATAAGT
* * *
28009492 TCTCAAAGATGCATATTAACAACAC
129 TCTCAAAGACGCATATTAGCAGCAC
* * **** *
28009517 ATTACTCTTGATTTTGTC-ATCGGCAATTTATATTTTTAATAAAAGAGGAAATAATTTGAGATTA
1 ATTAATCTTGATTTTGTCGGT-GATGGTTTATATTTTTAATAAAAGAGGTAATAATTTGAGATTA
* * *
28009581 AGGGGAAGTCCAACTGATATATTTATTAACTAGTTGTATGAATCGATCGAGTTAAGCTATAAGTT
65 AGGGGAAGTCCAACTGCTATATTTATTAGCTAGTTGCATGAATCGATCGAGTTAAGCTATAAGTT
* * *
28009646 CTTAAAGACGTATATTAGCAGTAC
130 CTCAAAGACGCATATTAGCAGCAC
* * *
28009670 ATTAATCTTGATTTTGTGGGTGATGGTTTATATTTTTAATGAAAGAGGTAATACTTTGAGATTAA
1 ATTAATCTTGATTTTGTCGGTGATGGTTTATATTTTTAATAAAAGAGGTAATAATTTGAGATTAA
* *
28009735 GGGGAAGTCCAATTGCTATATTTATTAGCTAGTTGCATGAATCGATTGAGTTAAGCTATAAGTTC
66 GGGGAAGTCCAACTGCTATATTTATTAGCTAGTTGCATGAATCGATCGAGTTAAGCTATAAGTTC
* *
28009800 TCAAAGACGCATATTAGTAGTAC
131 TCAAAGACGCATATTAGCAGCAC
*
28009823 ATTAATCTTGATTTTGTCAGTGATGGTTTATATTTTTAATAAAAGAGGTAATAATTTGAGATTAA
1 ATTAATCTTGATTTTGTCGGTGATGGTTTATATTTTTAATAAAAGAGGTAATAATTTGAGATTAA
*
28009888 GGGGAAGTCCAACTACTATATTTATTAGCTAGTTGCATGAATCGATCGAGTTAAGCTATAAGTTC
66 GGGGAAGTCCAACTGCTATATTTATTAGCTAGTTGCATGAATCGATCGAGTTAAGCTATAAGTTC
** * *
28009953 TCAAAGGTGCATGTTAGAAGCAC
131 TCAAAGACGCATATTAGCAGCAC
* * * *
28009976 ATTAATCTTGATTTTGTTGGCGATAGTTTATATTTTTAATAAAAGAGGAAATAATTTGAGATTAA
1 ATTAATCTTGATTTTGTCGGTGATGGTTTATATTTTTAATAAAAGAGGTAATAATTTGAGATTAA
* * * * * ** *
28010041 GGGGAAGAT-TAATTGCAATATTTATTAGCTATTTGCATGAATCAATTAAGTTAAGTTATAAGTT
66 GGGGAAG-TCCAACTGCTATATTTATTAGCTAGTTGCATGAATCGATCGAGTTAAGCTATAAGTT
28010105 CTCAAAGACGCATATTAGCAGCAC
130 CTCAAAGACGCATATTAGCAGCAC
* * * * * *
28010129 TTTAATCTTAATTTTGT-TGCGATGGTTTACATTTTTAATAAAAGTGGTAATAATTTGAGATTAA
1 ATTAATCTTGATTTTGTCGGTGATGGTTTATATTTTTAATAAAAGAGGTAATAATTTGAGATTAA
* * * *
28010193 -GGGAAGTCCAATTACTATATTTATTAGTTAGTTGCATGAATCGATCAAGTTAAGCTATAAGTTC
66 GGGGAAGTCCAACTGCTATATTTATTAGCTAGTTGCATGAATCGATCGAGTTAAGCTATAAGTTC
* * *
28010257 TCAAATACGCATACTAGAAGCAC
131 TCAAAGACGCATATTAGCAGCAC
* * * *
28010280 GTTAATCTTGATTTTGTGGGTGATGGTTTATATTTTTAATAAAAGAGGTAATAATTTCAGAATAA
1 ATTAATCTTGATTTTGTCGGTGATGGTTTATATTTTTAATAAAAGAGGTAATAATTTGAGATTAA
* * ** *
28010345 GGGGAAGTTCAATTGC-ATTATTTATTAAGC-AACTG-A-GAATCGATCGATTTAAGCTATAAGT
66 GGGGAAGTCCAACTGCTA-TATTTATT-AGCTAGTTGCATGAATCGATCGAGTTAAGCTATAAGT
* * *
28010406 TCTCAAAGACGAATATTAACGGCAC
129 TCTCAAAGACGCATATTAGCAGCAC
* ** * *
28010431 ATTAATCTTGATTTTGTTGGCAATGGTTTATATTTTTAATAAAAGAGGAAATAATTTGAGATGAA
1 ATTAATCTTGATTTTGTCGGTGATGGTTTATATTTTTAATAAAAGAGGTAATAATTTGAGATTAA
* * * * * *
28010496 GGGGAAGTTCAATTGCAATATTTATTAGCTAGTTGCATGAATCAATCGAGCTAAGCTATAAATTC
66 GGGGAAGTCCAACTGCTATATTTATTAGCTAGTTGCATGAATCGATCGAGTTAAGCTATAAGTTC
*** ** *
28010561 TCAAAGATAAATATTAATAGTAC
131 TCAAAGACGCATATTAGCAGCAC
* *
28010584 ATTAATCTTGATTTTGTGGGTGATGGTTTATATTTTTAATAAAAGAGGTAATACTTTGAGATTAA
1 ATTAATCTTGATTTTGTCGGTGATGGTTTATATTTTTAATAAAAGAGGTAATAATTTGAGATTAA
* * * *
28010649 GGGGAAGTCCAATTGCTACATTTATTAGCTAGTTGCATGTATCGATCGAGTTAAGCTGTAAGTTC
66 GGGGAAGTCCAACTGCTATATTTATTAGCTAGTTGCATGAATCGATCGAGTTAAGCTATAAGTTC
28010714 TCAAAGACGCATATTAGCAGCAC
131 TCAAAGACGCATATTAGCAGCAC
* * * * * * *
28010737 ATTAATCTTGATTTTGTTGGCGATGGTTTATTTTTTTAATAAAAG-GGTAACAAATTAAGATTTA
1 ATTAATCTTGATTTTGTCGGTGATGGTTTATATTTTTAATAAAAGAGGTAATAATTTGAGATTAA
* * *
28010801 GGGGAAGTCCAACTGCTATATTGATTAGCTAGTTGCATGAATCGATTGGGTTAAGCTATAAGTTC
66 GGGGAAGTCCAACTGCTATATTTATTAGCTAGTTGCATGAATCGATCGAGTTAAGCTATAAGTTC
28010866 TCAAA
131 TCAAA
28010871 AATACATCTT
Statistics
Matches: 2915, Mismatches: 390, Indels: 89
0.86 0.11 0.03
Matches are distributed among these distances:
149 21 0.01
150 5 0.00
151 253 0.09
152 377 0.13
153 1473 0.51
154 411 0.14
155 359 0.12
156 16 0.01
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (153 bp):
ATTAATCTTGATTTTGTCGGTGATGGTTTATATTTTTAATAAAAGAGGTAATAATTTGAGATTAA
GGGGAAGTCCAACTGCTATATTTATTAGCTAGTTGCATGAATCGATCGAGTTAAGCTATAAGTTC
TCAAAGACGCATATTAGCAGCAC
Found at i:28008393 original size:461 final size:459
Alignment explanation
Indices: 28007338--28010870 Score: 4518
Period size: 461 Copynumber: 7.7 Consensus size: 459
28007328 TAAATTAAAT
* * * * * * *
28007338 TATAAGTTTTTAAAGATGAATTTTAGTC-GCATATTAATCTTGATTTTGCCGGTGATAGTTTATA
1 TATAAGTTCTCAAAGATGCATATTAG-CAGCACATTAATCTTGATTTTGTCGGTGATGGTTTATA
* ** * * * * * *
28007402 TTTTTAATAAAA-AAGTCGTAATTTGATATTAA-GGGAAGTGGTTCAAATGATATACTTATTAGG
65 TTTTTAATAAAAGAGGTAATAATTTGAGATTAAGGGGAA---GTCCAACTGCTATATTTATTAGC
* * * * ** * * * *
28007465 TAG-T-CA-AAATGGATCGAGTTAAACTATAAGTTCTCAAATACAAACATTTGCAGCACATTGAT
127 TAGTTGCATGAATCGATCGAGTTAAGCTATAAGTTCTCAAAGACGCATATTAGTAGCACATTAAT
* * * * *
28007527 ATTGAATATGTCGGCGATGGTTTAGATTTTTAATAAAAGAGGTAATAATTTGAGATTAA-GGGAA
192 CTTGATTTTGTCGGTGATGGTTTATATTTTTAATAAAAGAGGTAATAATTTGAGATTAAGGGGAA
* *
28007591 GTCCAACTGCTATATTTATTAGCTAGTTGCAT-TAATCGATCGAGTTAAGTTATAATTTCTCAAA
257 GTCCAACTGCTATATTTATTAGCTAGTTGCATGT-ATCGATCGAGTTAAGCTATAAGTTCTCAAA
* * * * *
28007655 GACGCATATTAGCAGCACATTAATCTTGATTTTGACGGTGATGGTTTATATTTTTAACAAAAGAG
321 GACGCATATTAACAGCACATTAATCTTGATTTTGTCTGCGATGGTTTATATTTTTAATAAAAGAG
* * * * * ** * *
28007720 GTAATGATTTCATATTAAGGGGAAGTTCAATTGC-ATTATTTATTAAATAGTTGTAAGAATCGAT
386 GTAATAATTTGAGATTAAGGGGAAGTCCAACTGCTA-TATTTATTAGCTAGTTGCATGAATCGAT
*
28007784 CGATTTAAGC
450 CGAGTTAAGC
* * * *
28007794 TATAAATTCTCAAAGACG-ACTATTAGCAGCACATTAGTCTTGATTTTCTCGGTGATGGTTTATA
1 TATAAGTTCTCAAAGATGCA-TATTAGCAGCACATTAATCTTGATTTTGTCGGTGATGGTTTATA
* * *
28007858 TTTTTAATAAAAGAGGTAAAAATTTGAGATTAAGGGGAAATCCAACTACTATATTTATTAGCTAG
65 TTTTTAATAAAAGAGGTAATAATTTGAGATTAAGGGGAAGTCCAACTGCTATATTTATTAGCTAG
* * *
28007923 TTGCATGAATCAATCGAGTTAAGCTGTAAGTTCTCAAAGACGCATATTAGCAGCACATTAATCTT
130 TTGCATGAATCGATCGAGTTAAGCTATAAGTTCTCAAAGACGCATATTAGTAGCACATTAATCTT
* * * * *
28007988 GATTTTGACCGCGATGGTTTATATTTTTAATAAGAGAGGTAATACTTTGAGATTAAGGGGAAGTC
195 GATTTTGTCGGTGATGGTTTATATTTTTAATAAAAGAGGTAATAATTTGAGATTAAGGGGAAGTC
* * * * *
28008053 CAACTGCTATAGTTATTAGCTAGCTACATGTATC-AGTCGAGTTAAGTTATAGGTTCTCAAAGAC
260 CAACTGCTATATTTATTAGCTAGTTGCATGTATCGA-TCGAGTTAAGCTATAAGTTCTCAAAGAC
* * * * *
28008117 GCATATTAACAACACCTTGATATTGATTTTGTCTGCGATGGTTTATTTTTTTTAATAAAAGAGGT
324 GCATATTAACAGCACATTAATCTTGATTTTGTCTGCGATGGTTTA-TATTTTTAATAAAAGAGGT
* *
28008182 AATAATTTGAGATTAAGGGGAAGTCCAACTGCTATATTTATTAGCTAGATGCATGAATCGATCAA
388 AATAATTTGAGATTAAGGGGAAGTCCAACTGCTATATTTATTAGCTAGTTGCATGAATCGATCGA
28008247 GTTAAGC
453 GTTAAGC
* * * * *
28008254 TATAAGTTCTTAAAGATTCATATTAGCAGCACACTAATTTTGATTTTTGTCGTTGATGGTTTATA
1 TATAAGTTCTCAAAGATGCATATTAGCAGCACATTAATCTTGA-TTTTGTCGGTGATGGTTTATA
* *
28008319 TTTTTAATAAAAGAGGTAAAAAATTGAGATTAAGGGGAAGTCCAACTGCTATATTTATTAGCTAG
65 TTTTTAATAAAAGAGGTAATAATTTGAGATTAAGGGGAAGTCCAACTGCTATATTTATTAGCTAG
* * * *
28008384 ATGCATGAATCGATCGAGTTAAGCTAT-AGTTTCTCAAAGGCGCACATTAGTAGTACATTAATCT
130 TTGCATGAATCGATCGAGTTAAGCTATAAG-TTCTCAAAGACGCATATTAGTAGCACATTAATCT
*
28008448 TGATTTTG-CGGGTGATGGTTT-TTTTTTTAATAAAAGAGGTAATAATTTGAGATTAAGGGGAAG
194 TGATTTTGTC-GGTGATGGTTTATATTTTTAATAAAAGAGGTAATAATTTGAGATTAAGGGGAAG
* * * *
28008511 TCCAACTACTATATTTACTAGTTAGTTGCATGTATCAATCGAGTTAAGCTATAAGTTCTCAAAGA
258 TCCAACTGCTATATTTATTAGCTAGTTGCATGTATCGATCGAGTTAAGCTATAAGTTCTCAAAGA
* * *
28008576 TCCCATATTAGCAGCACATTAATCTTGATTTTGT-TGGCGATGGTTTATTTTTTTTAATAAAAGA
323 -CGCATATTAACAGCACATTAATCTTGATTTTGTCT-GCGATGGTTTA-TATTTTTAATAAAAGA
* * *
28008640 GGTAATAATTTGAGATTAAGGGGAAGTCCAACTGCTATATTTTTTAGCTAATTGCATGAATCAAT
385 GGTAATAATTTGAGATTAAGGGGAAGTCCAACTGCTATATTTATTAGCTAGTTGCATGAATCGAT
*
28008705 CAAGTTAAGC
450 CGAGTTAAGC
* * *
28008715 TATAAGTGCTCAAAGATGCATATTAGCAACACATTAATCTTGATTTTGTCAGTGATGGTTTATAT
1 TATAAGTTCTCAAAGATGCATATTAGCAGCACATTAATCTTGATTTTGTCGGTGATGGTTTATAT
* * * *
28008780 TTTTAATAAACGGGGTAATACTTTGAGATTAAGGGGAAGCCCAACTGCTATATTTATTAGCTAGT
66 TTTTAATAAAAGAGGTAATAATTTGAGATTAAGGGGAAGTCCAACTGCTATATTTATTAGCTAGT
* *
28008845 TGCATGAATCGATTGAGTTAAGCTATAAGTTCTCAAAGACGCATATTAGTAGTACATTAATCTTG
131 TGCATGAATCGATCGAGTTAAGCTATAAGTTCTCAAAGACGCATATTAGTAGCACATTAATCTTG
* *
28008910 ATTTTGTGGGTGATGGTTTATATTTTTAATAAAAGAGGTAATACTTTGAGATTAAAGGGG-AGTC
196 ATTTTGTCGGTGATGGTTTATATTTTTAATAAAAGAGGTAATAATTTGAGATT-AAGGGGAAGTC
* * * *
28008974 CAACTGCTATATTTATTAGCTAGCTACATGTATCGGTCGAGTTAAGCTATAGGTTCTCAAAGACG
260 CAACTGCTATATTTATTAGCTAGTTGCATGTATCGATCGAGTTAAGCTATAAGTTCTCAAAGACG
* * * * *
28009039 CATATTAGCAACACCTTAATCTTGATTTTGTCGGCGATGATTTATTTATTTTTAATAAAAGAGGT
325 CATATTAACAGCACATTAATCTTGATTTTGTCTGCGATGGTTTA--TATTTTTAATAAAAGAGGT
* **
28009104 AATAATTTGAGATTAAGGGGAAGTCCAACTACTATATTTATTAGCTAAATGCATGAA-CTGATCG
388 AATAATTTGAGATTAAGGGGAAGTCCAACTGCTATATTTATTAGCTAGTTGCATGAATC-GATCG
28009168 AGTTAAGC
452 AGTTAAGC
* *
28009176 TATAAGTTCTCAAAGATGCATATAAGCAGCACATTAATCTTGATTTTTATC-GTCGATGGTTTAT
1 TATAAGTTCTCAAAGATGCATATTAGCAGCACATTAATCTTGA-TTTTGTCGGT-GATGGTTTAT
* *
28009240 ATTTTTAATAAAAGAGGTAAAAAATTGAGATTAAGGGGAAGTCCAACTGCTATATTTATTAGCTA
64 ATTTTTAATAAAAGAGGTAATAATTTGAGATTAAGGGGAAGTCCAACTGCTATATTTATTAGCTA
* * * * *
28009305 GATGCATGAATCGATCGATTTAAGCTAT-AGTTTCTCAAATACACATATTAGTAGTACATTAATC
129 GTTGCATGAATCGATCGAGTTAAGCTATAAG-TTCTCAAAGACGCATATTAGTAGCACATTAATC
*
28009369 TTGATTTTGTGGGTGATGGTTTATATTTTTAATAAAAGAGGTAATAATTTGAGATTAAGGGGAAG
193 TTGATTTTGTCGGTGATGGTTTATATTTTTAATAAAAGAGGTAATAATTTGAGATTAAGGGGAAG
* *
28009434 TCCAACTGCTATATTTATTAGCTATAGTTGCATGAATCGATCGAGTTAAGCTTTAAGTTCTCAAA
258 TCCAACTGCTATATTTATTAGC--TAGTTGCATGTATCGATCGAGTTAAGCTATAAGTTCTCAAA
* * * ****
28009499 GATGCATATTAACAACACATTACTCTTGATTTTGTCAT-CGGCAATTTATATTTTTAATAAAAGA
321 GACGCATATTAACAGCACATTAATCTTGATTTTGTC-TGCGATGGTTTATATTTTTAATAAAAGA
* * * *
28009563 GGAAATAATTTGAGATTAAGGGGAAGTCCAACTGATATATTTATTAACTAGTTGTATGAATCGAT
385 GGTAATAATTTGAGATTAAGGGGAAGTCCAACTGCTATATTTATTAGCTAGTTGCATGAATCGAT
28009628 CGAGTTAAGC
450 CGAGTTAAGC
* * * * *
28009638 TATAAGTTCTTAAAGACGTATATTAGCAGTACATTAATCTTGATTTTGTGGGTGATGGTTTATAT
1 TATAAGTTCTCAAAGATGCATATTAGCAGCACATTAATCTTGATTTTGTCGGTGATGGTTTATAT
* * *
28009703 TTTTAATGAAAGAGGTAATACTTTGAGATTAAGGGGAAGTCCAATTGCTATATTTATTAGCTAGT
66 TTTTAATAAAAGAGGTAATAATTTGAGATTAAGGGGAAGTCCAACTGCTATATTTATTAGCTAGT
* *
28009768 TGCATGAATCGATTGAGTTAAGCTATAAGTTCTCAAAGACGCATATTAGTAGTACATTAATCTTG
131 TGCATGAATCGATCGAGTTAAGCTATAAGTTCTCAAAGACGCATATTAGTAGCACATTAATCTTG
*
28009833 ATTTTGTCAGTGATGGTTTATATTTTTAATAAAAGAGGTAATAATTTGAGATTAAGGGGAAGTCC
196 ATTTTGTCGGTGATGGTTTATATTTTTAATAAAAGAGGTAATAATTTGAGATTAAGGGGAAGTCC
* * **
28009898 AACTACTATATTTATTAGCTAGTTGCATGAATCGATCGAGTTAAGCTATAAGTTCTCAAAGGTGC
261 AACTGCTATATTTATTAGCTAGTTGCATGTATCGATCGAGTTAAGCTATAAGTTCTCAAAGACGC
* * *
28009963 ATGTTAGA-AGCACATTAATCTTGATTTTGT-TGGCGATAGTTTATATTTTTAATAAAAGAGGAA
326 ATATTA-ACAGCACATTAATCTTGATTTTGTCT-GCGATGGTTTATATTTTTAATAAAAGAGGTA
* * * * * **
28010026 ATAATTTGAGATTAAGGGGAAGAT-TAATTGCAATATTTATTAGCTATTTGCATGAATCAATTAA
389 ATAATTTGAGATTAAGGGGAAG-TCCAACTGCTATATTTATTAGCTAGTTGCATGAATCGATCGA
*
28010090 GTTAAGT
453 GTTAAGC
* * * * * *
28010097 TATAAGTTCTCAAAGACGCATATTAGCAGCACTTTAATCTTAATTTTGT-TGCGATGGTTTACAT
1 TATAAGTTCTCAAAGATGCATATTAGCAGCACATTAATCTTGATTTTGTCGGTGATGGTTTATAT
* * * *
28010161 TTTTAATAAAAGTGGTAATAATTTGAGATTAA-GGGAAGTCCAATTACTATATTTATTAGTTAGT
66 TTTTAATAAAAGAGGTAATAATTTGAGATTAAGGGGAAGTCCAACTGCTATATTTATTAGCTAGT
* * * * *
28010225 TGCATGAATCGATCAAGTTAAGCTATAAGTTCTCAAATACGCATACTAGAAGCACGTTAATCTTG
131 TGCATGAATCGATCGAGTTAAGCTATAAGTTCTCAAAGACGCATATTAGTAGCACATTAATCTTG
* * * *
28010290 ATTTTGTGGGTGATGGTTTATATTTTTAATAAAAGAGGTAATAATTTCAGAATAAGGGGAAGTTC
196 ATTTTGTCGGTGATGGTTTATATTTTTAATAAAAGAGGTAATAATTTGAGATTAAGGGGAAGTCC
* ** * *
28010355 AATTGC-ATTATTTATTAAGC-AACTG-A-GAATCGATCGATTTAAGCTATAAGTTCTCAAAGAC
261 AACTGCTA-TATTTATT-AGCTAGTTGCATGTATCGATCGAGTTAAGCTATAAGTTCTCAAAGAC
* * * *
28010416 GAATATTAACGGCACATTAATCTTGATTTTGT-TGGCAATGGTTTATATTTTTAATAAAAGAGGA
324 GCATATTAACAGCACATTAATCTTGATTTTGTCT-GCGATGGTTTATATTTTTAATAAAAGAGGT
* * * * *
28010480 AATAATTTGAGATGAAGGGGAAGTTCAATTGCAATATTTATTAGCTAGTTGCATGAATCAATCGA
388 AATAATTTGAGATTAAGGGGAAGTCCAACTGCTATATTTATTAGCTAGTTGCATGAATCGATCGA
*
28010545 GCTAAGC
453 GTTAAGC
* ** ** * *
28010552 TATAAATTCTCAAAGATAAATATTAATAGTACATTAATCTTGATTTTGTGGGTGATGGTTTATAT
1 TATAAGTTCTCAAAGATGCATATTAGCAGCACATTAATCTTGATTTTGTCGGTGATGGTTTATAT
* * *
28010617 TTTTAATAAAAGAGGTAATACTTTGAGATTAAGGGGAAGTCCAATTGCTACATTTATTAGCTAGT
66 TTTTAATAAAAGAGGTAATAATTTGAGATTAAGGGGAAGTCCAACTGCTATATTTATTAGCTAGT
* * *
28010682 TGCATGTATCGATCGAGTTAAGCTGTAAGTTCTCAAAGACGCATATTAGCAGCACATTAATCTTG
131 TGCATGAATCGATCGAGTTAAGCTATAAGTTCTCAAAGACGCATATTAGTAGCACATTAATCTTG
* * * * * * *
28010747 ATTTTGTTGGCGATGGTTTATTTTTTTAATAAAAG-GGTAACAAATTAAGATTTAGGGGAAGTCC
196 ATTTTGTCGGTGATGGTTTATATTTTTAATAAAAGAGGTAATAATTTGAGATTAAGGGGAAGTCC
* * * *
28010811 AACTGCTATATTGATTAGCTAGTTGCATGAATCGATTGGGTTAAGCTATAAGTTCTCAAA
261 AACTGCTATATTTATTAGCTAGTTGCATGTATCGATCGAGTTAAGCTATAAGTTCTCAAA
28010871 AATACATCTT
Statistics
Matches: 2717, Mismatches: 310, Indels: 98
0.87 0.10 0.03
Matches are distributed among these distances:
454 2 0.00
455 216 0.08
456 145 0.05
457 302 0.11
458 175 0.06
459 298 0.11
460 405 0.15
461 759 0.28
462 340 0.13
463 1 0.00
464 74 0.03
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (459 bp):
TATAAGTTCTCAAAGATGCATATTAGCAGCACATTAATCTTGATTTTGTCGGTGATGGTTTATAT
TTTTAATAAAAGAGGTAATAATTTGAGATTAAGGGGAAGTCCAACTGCTATATTTATTAGCTAGT
TGCATGAATCGATCGAGTTAAGCTATAAGTTCTCAAAGACGCATATTAGTAGCACATTAATCTTG
ATTTTGTCGGTGATGGTTTATATTTTTAATAAAAGAGGTAATAATTTGAGATTAAGGGGAAGTCC
AACTGCTATATTTATTAGCTAGTTGCATGTATCGATCGAGTTAAGCTATAAGTTCTCAAAGACGC
ATATTAACAGCACATTAATCTTGATTTTGTCTGCGATGGTTTATATTTTTAATAAAAGAGGTAAT
AATTTGAGATTAAGGGGAAGTCCAACTGCTATATTTATTAGCTAGTTGCATGAATCGATCGAGTT
AAGC
Found at i:28022969 original size:2 final size:2
Alignment explanation
Indices: 28022964--28022999 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
28022954 TGCTGTGTGC
28022964 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
28023000 TAGCAGATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:28024153 original size:3 final size:3
Alignment explanation
Indices: 28024080--28024136 Score: 105
Period size: 3 Copynumber: 18.7 Consensus size: 3
28024070 TCAAATATGC
28024080 AAT ATAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
28024126 AAT AAT AAT AA
1 AAT AAT AAT AA
28024137 AGAACACAAG
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 50 0.94
4 3 0.06
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:28024243 original size:4 final size:4
Alignment explanation
Indices: 28024234--28024259 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
28024224 AGTATACTCT
28024234 TAAA TAAA TAAA TAAA TAAA TAAA TA
1 TAAA TAAA TAAA TAAA TAAA TAAA TA
28024260 TATATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
TAAA
Found at i:28025266 original size:3 final size:3
Alignment explanation
Indices: 28025258--28025288 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
28025248 CCATATAGAT
*
28025258 TTA TTA TTA TTA TTA TTA TTA CTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
28025289 GAGAATTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:28030139 original size:26 final size:26
Alignment explanation
Indices: 28030103--28030155 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
28030093 AGACTCAGCC
28030103 AAAAAAAGTGAGAATGCTTATTAGTG
1 AAAAAAAGTGAGAATGCTTATTAGTG
28030129 AAAAAAAGTGAGAATGCTTATTAGTG
1 AAAAAAAGTGAGAATGCTTATTAGTG
28030155 A
1 A
28030156 TGAATCTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.47, C:0.04, G:0.23, T:0.26
Consensus pattern (26 bp):
AAAAAAAGTGAGAATGCTTATTAGTG
Found at i:28035882 original size:21 final size:21
Alignment explanation
Indices: 28035858--28035905 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
28035848 CTTTCATTAG
28035858 CATTTTTCTACATTCCATTTC
1 CATTTTTCTACATTCCATTTC
*
28035879 CATTTTTTTACATTCCATTTC
1 CATTTTTCTACATTCCATTTC
*
28035900 CCTTTT
1 CATTTT
28035906 CCTTCCATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.17, C:0.27, G:0.00, T:0.56
Consensus pattern (21 bp):
CATTTTTCTACATTCCATTTC
Found at i:28036074 original size:36 final size:36
Alignment explanation
Indices: 28036034--28036107 Score: 121
Period size: 36 Copynumber: 2.1 Consensus size: 36
28036024 AGAGGAGTGC
*
28036034 ATCAGTCAGAATAGATCCAAAAGGGTGCTGAACTGA
1 ATCAGTCAGAATAGATCCAAAAGGCTGCTGAACTGA
* *
28036070 ATCAGTCAGAATAGATCCGAAAGGCTGCTGAATTGA
1 ATCAGTCAGAATAGATCCAAAAGGCTGCTGAACTGA
28036106 AT
1 AT
28036108 AGAGTTTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (36 bp):
ATCAGTCAGAATAGATCCAAAAGGCTGCTGAACTGA
Found at i:28043168 original size:7 final size:7
Alignment explanation
Indices: 28043153--28043200 Score: 51
Period size: 7 Copynumber: 6.9 Consensus size: 7
28043143 TCAAGTAATT
*
28043153 CATTGAA
1 CATTTAA
28043160 CATTTAA
1 CATTTAA
28043167 CATTTAA
1 CATTTAA
28043174 CATTTAA
1 CATTTAA
* * *
28043181 TAATCAA
1 CATTTAA
28043188 CATTTAA
1 CATTTAA
*
28043195 AATTTA
1 CATTTA
28043201 CTAATATCTT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.46, C:0.12, G:0.02, T:0.40
Consensus pattern (7 bp):
CATTTAA
Found at i:28043189 original size:21 final size:21
Alignment explanation
Indices: 28043165--28043205 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
28043155 TTGAACATTT
*
28043165 AACATTTAACATTTAATAATC
1 AACATTTAAAATTTAATAATC
*
28043186 AACATTTAAAATTTACTAAT
1 AACATTTAAAATTTAATAAT
28043206 ATCTTGACTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.39
Consensus pattern (21 bp):
AACATTTAAAATTTAATAATC
Found at i:28047465 original size:12 final size:12
Alignment explanation
Indices: 28047448--28047474 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
28047438 CTCACACTCT
28047448 CGTGTGCTAGGC
1 CGTGTGCTAGGC
28047460 CGTGTGCTAGGC
1 CGTGTGCTAGGC
28047472 CGT
1 CGT
28047475 TTAACTGCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.26, G:0.41, T:0.26
Consensus pattern (12 bp):
CGTGTGCTAGGC
Found at i:28048482 original size:29 final size:29
Alignment explanation
Indices: 28048440--28048693 Score: 204
Period size: 29 Copynumber: 8.7 Consensus size: 29
28048430 TCTGCTAAAA
* *
28048440 ATGGTCGTAACCATCCCTTTTCATATTCG
1 ATGGTCGAAACCATCCCTTTTCATAGTCG
* ** *
28048469 ATGGTTGTCACCATCCCTTTTTATAGTCG
1 ATGGTCGAAACCATCCCTTTTCATAGTCG
* * * *
28048498 ATAGTTGAAACTATCCCTTTTCATAGTCT
1 ATGGTCGAAACCATCCCTTTTCATAGTCG
* ** ** *
28048527 ATAGTAAAAAAAAATCCCTTTTCATAGTTG
1 ATGGT-CGAAACCATCCCTTTTCATAGTCG
* * ** *
28048557 CTGGTGGTCACCATCCCTTTTCATAGTTG
1 ATGGTCGAAACCATCCCTTTTCATAGTCG
**
28048586 ATGGTCGCCACCATCCCTTTTCATAGTCG
1 ATGGTCGAAACCATCCCTTTTCATAGTCG
* *
28048615 ATAGTCGAAACTATCCCTTTTCATAGTCG
1 ATGGTCGAAACCATCCCTTTTCATAGTCG
* * * * *
28048644 ATAGTTGAAACTATACCTTTTTATA-TACG
1 ATGGTCGAAACCATCCCTTTTCATAGT-CG
*
28048673 ATGGTCAAAACCATCCCTTTT
1 ATGGTCGAAACCATCCCTTTT
28048694 TCATTGATCG
Statistics
Matches: 183, Mismatches: 40, Indels: 4
0.81 0.18 0.02
Matches are distributed among these distances:
28 1 0.01
29 161 0.88
30 21 0.11
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.37
Consensus pattern (29 bp):
ATGGTCGAAACCATCCCTTTTCATAGTCG
Found at i:28048602 original size:88 final size:88
Alignment explanation
Indices: 28048452--28048645 Score: 232
Period size: 88 Copynumber: 2.2 Consensus size: 88
28048442 GGTCGTAACC
* * * *
28048452 ATCCCTTTTCATA-TTCGATGGTTGTCACCATCCCTTTTTATAGTCGATAGTTGAAACTATCCCT
1 ATCCCTTTTCATAGTTCGATGGTGGTCACCATCCCTTTTCATAGTCGATAGTCGAAACCATCCCT
*
28048516 TTTCATAGTCTATAGTAAAAAAAA
66 TTTCATAGTCGATAGT-AAAAAAA
* * * **
28048540 ATCCCTTTTCATAGTT-GCTGGTGGTCACCATCCCTTTTCATAGTTGATGGTCGCCACCATCCCT
1 ATCCCTTTTCATAGTTCGATGGTGGTCACCATCCCTTTTCATAGTCGATAGTCGAAACCATCCCT
** **
28048604 TTTCATAGTCGATAGTCGAAACT
66 TTTCATAGTCGATAGTAAAAAAA
28048627 ATCCCTTTTCATAG-TCGAT
1 ATCCCTTTTCATAGTTCGAT
28048646 AGTTGAAACT
Statistics
Matches: 89, Mismatches: 15, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
86 1 0.01
87 19 0.21
88 67 0.75
89 2 0.02
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.38
Consensus pattern (88 bp):
ATCCCTTTTCATAGTTCGATGGTGGTCACCATCCCTTTTCATAGTCGATAGTCGAAACCATCCCT
TTTCATAGTCGATAGTAAAAAAA
Found at i:28048697 original size:117 final size:117
Alignment explanation
Indices: 28048448--28048693 Score: 304
Period size: 117 Copynumber: 2.1 Consensus size: 117
28048438 AAATGGTCGT
* * * *
28048448 AACCATCCCTTTTCATATTCGATGGTTGTCACCATCCCTTTTTATAGTCGATAGTTGAAACTATC
1 AACCATCCCTTTTCATATTCGATGGTCGCCACCATCCCTTTTCATAGTCGATAGTCGAAACTATC
* * * *
28048513 CCTTTTCATAGTCTATAGTAAAAAAAAATCCCTTTTCATAGTTGCTGGTGGTC
66 CCTTTTCATAGTCGATAGTAAAAAAAAATACCTTTTCATAG-TACTGATGGTC
28048566 -ACCATCCCTTTTCATAGTT-GATGGTCGCCACCATCCCTTTTCATAGTCGATAGTCGAAACTAT
1 AACCATCCCTTTTCATA-TTCGATGGTCGCCACCATCCCTTTTCATAGTCGATAGTCGAAACTAT
** ** *
28048629 CCCTTTTCATAGTCGATAGT-TGAAACTATACCTTTTTATA-TAC-GATGGTC
65 CCCTTTTCATAGTCGATAGTAAAAAAAAATACCTTTTCATAGTACTGATGGTC
28048679 AAAACCATCCCTTTT
1 --AACCATCCCTTTT
28048694 TCATTGATCG
Statistics
Matches: 111, Mismatches: 13, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
113 6 0.05
114 2 0.02
116 26 0.23
117 75 0.68
118 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (117 bp):
AACCATCCCTTTTCATATTCGATGGTCGCCACCATCCCTTTTCATAGTCGATAGTCGAAACTATC
CCTTTTCATAGTCGATAGTAAAAAAAAATACCTTTTCATAGTACTGATGGTC
Found at i:28049870 original size:32 final size:30
Alignment explanation
Indices: 28049816--28049885 Score: 86
Period size: 32 Copynumber: 2.3 Consensus size: 30
28049806 AAAGAATAAT
*
28049816 AAATAAAGAAAAGATTGCTTAAATTCTCAA
1 AAATAAAGAAAAGATTGCTTAAAATCTCAA
* *
28049846 AAATAAAGAGTAAAGTTTGCTTAAAATCTGAA
1 AAATAAAGA--AAAGATTGCTTAAAATCTCAA
*
28049878 AAGTAAAG
1 AAATAAAG
28049886 GTTGAGCATG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 9 0.26
32 25 0.74
ACGTcount: A:0.53, C:0.07, G:0.14, T:0.26
Consensus pattern (30 bp):
AAATAAAGAAAAGATTGCTTAAAATCTCAA
Found at i:28053731 original size:28 final size:27
Alignment explanation
Indices: 28053680--28053740 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 27
28053670 CAGTATCGGT
* *
28053680 ACAGTGTGGCCTTAGCCCATTACAGTA
1 ACAGTGTGGCCTTAGCCCAATACAATA
* *
28053707 ACAGTGTGGGCTCTAGCCTAATACAATA
1 ACAGTGTGGCCT-TAGCCCAATACAATA
28053735 ATCAGT
1 A-CAGT
28053741 ACAATGCAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 11 0.39
28 13 0.46
29 4 0.14
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (27 bp):
ACAGTGTGGCCTTAGCCCAATACAATA
Found at i:28053883 original size:26 final size:26
Alignment explanation
Indices: 28053846--28053922 Score: 118
Period size: 26 Copynumber: 3.0 Consensus size: 26
28053836 ACACCAAAAT
* *
28053846 CGCAGCAAAGCTACCAGTAATAGTGA
1 CGCAGCAAAGCTGCCAGTAATAGTAA
*
28053872 TGCAGCAAAGCTGCCAGTAATAGTAA
1 CGCAGCAAAGCTGCCAGTAATAGTAA
*
28053898 CGCAGCAAAGCTGCCAGTAACAGTA
1 CGCAGCAAAGCTGCCAGTAATAGTA
28053923 TATGTGGCAA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (26 bp):
CGCAGCAAAGCTGCCAGTAATAGTAA
Found at i:28054443 original size:27 final size:27
Alignment explanation
Indices: 28054100--28054455 Score: 448
Period size: 27 Copynumber: 13.2 Consensus size: 27
28054090 TATAACAGTT
* * *
28054100 ATTTTACCCTTTGGGGGTATTTCGATC
1 ATTTTACCCTTCGAGGGTATTTCGGTC
* *
28054127 ATTTTACCCTTCGGGGGTACTTCGGTC
1 ATTTTACCCTTCGAGGGTATTTCGGTC
*
28054154 ATTTTACCCTTCGAAGGTATTTCGGTC
1 ATTTTACCCTTCGAGGGTATTTCGGTC
*
28054181 ATTTTACCCTTC-AGGGGTATTTCAGTC
1 ATTTTACCCTTCGA-GGGTATTTCGGTC
* *
28054208 ATTTTACCCTTCAAGGGCATTTCGGTC
1 ATTTTACCCTTCGAGGGTATTTCGGTC
* *
28054235 ATTTTACCCTTCGAGGGCATTTCGATC
1 ATTTTACCCTTCGAGGGTATTTCGGTC
*
28054262 ATTTTACCCTTCG-GTGGTATTTCAGTC
1 ATTTTACCCTTCGAG-GGTATTTCGGTC
* * *
28054289 ATTTTACCCTTCGAGGGAATTTCAGTT
1 ATTTTACCCTTCGAGGGTATTTCGGTC
* *
28054316 ATTTTACCCTTCGGGGGTATTTTGGTC
1 ATTTTACCCTTCGAGGGTATTTCGGTC
* *
28054343 ATTTTACCCTTCGGGGGTATTTTGGTC
1 ATTTTACCCTTCGAGGGTATTTCGGTC
*
28054370 ATTTTACCCTTC-AGGGTATTTCAGTC
1 ATTTTACCCTTCGAGGGTATTTCGGTC
* * **
28054396 ATTTTACCCTTTGAGAGTATTTCAATC
1 ATTTTACCCTTCGAGGGTATTTCGGTC
*
28054423 ATTTTACCCTTCGAGGGTATTTTGGTC
1 ATTTTACCCTTCGAGGGTATTTCGGTC
28054450 ATTTTA
1 ATTTTA
28054456 GGCCCATTAC
Statistics
Matches: 291, Mismatches: 33, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
26 24 0.08
27 265 0.91
28 2 0.01
ACGTcount: A:0.17, C:0.21, G:0.20, T:0.42
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTCGGTC
Found at i:28058677 original size:29 final size:29
Alignment explanation
Indices: 28058642--28058946 Score: 147
Period size: 29 Copynumber: 10.4 Consensus size: 29
28058632 TCATCGACTA
* * *
28058642 ATGAAAATGGATAGTTTTGGCTATCGATT
1 ATGAAAAGGGATAGTGTTGACTATCGATT
* * *
28058671 ATGAAAAGGGATAGTGGCT-ACTATCAACT
1 ATGAAAAGGGATAGT-GTTGACTATCGATT
* ** *
28058700 ATGAAAAGGGATGGTGACGACCATCGAATT
1 ATGAAAAGGGATAGTGTTGACTATCG-ATT
28058730 ATGAAAAGGGATAGAT-TT-AGCTATCGATT
1 ATGAAAAGGGATAG-TGTTGA-CTATCGATT
* ** *
28058759 ATGAAAAGGGATGGTGACGAAC-ATCGAACT
1 ATGAAAAGGGATAGTGTTG-ACTATCG-ATT
* *
28058789 ATGAAAAGGGATAGCT-TCGGCTATCGATT
1 ATGAAAAGGGATAG-TGTTGACTATCGATT
* ** * ** *
28058818 AT-AAAAGGGGATGGTGACGACCATTAACT
1 ATGAAAA-GGGATAGTGTTGACTATCGATT
* ** * * *
28058847 ATGAAAAGGGATCGTGAGGACCATCAACT
1 ATGAAAAGGGATAGTGTTGACTATCGATT
* ** * *
28058876 ATGAAAAGGGATGGTGAAGGCCATCGAATT
1 ATGAAAAGGGATAGTGTTGACTATCG-ATT
* *
28058906 ATGAAAACGGATAGCT-TTGGCTATCGATT
1 ATGAAAAGGGATAG-TGTTGACTATCGATT
28058935 ATGAAAAGGGAT
1 ATGAAAAGGGAT
28058947 GGTGACGACC
Statistics
Matches: 215, Mismatches: 45, Indels: 32
0.74 0.15 0.11
Matches are distributed among these distances:
28 7 0.03
29 136 0.63
30 68 0.32
31 4 0.02
ACGTcount: A:0.36, C:0.12, G:0.28, T:0.24
Consensus pattern (29 bp):
ATGAAAAGGGATAGTGTTGACTATCGATT
Found at i:28058738 original size:59 final size:59
Alignment explanation
Indices: 28058664--28058963 Score: 312
Period size: 59 Copynumber: 5.1 Consensus size: 59
28058654 AGTTTTGGCT
* * *
28058664 ATCG-ATTATGAAAAGGGATAG-TGGCTACTATCAACTATGAAAAGGGATGGTGACGACC
1 ATCGAATTATGAAAAGGGATAGCTGG-GACTATCGATTATGAAAAGGGATGGTGACGACC
* ** *
28058722 ATCGAATTATGAAAAGGGATAGAT-TTAGCTATCGATTATGAAAAGGGATGGTGACGAAC
1 ATCGAATTATGAAAAGGGATAGCTGGGA-CTATCGATTATGAAAAGGGATGGTGACGACC
* *
28058781 ATCGAACTATGAAAAGGGATAGCTTCGG-CTATCGATTAT-AAAAGGGGATGGTGACGACC
1 ATCGAATTATGAAAAGGGATAGC-TGGGACTATCGATTATGAAAA-GGGATGGTGACGACC
* * * * * * * *
28058840 AT-TAACTATGAAAAGGGATCG-TGAGGACCATCAACTATGAAAAGGGATGGTGAAGGCC
1 ATCGAATTATGAAAAGGGATAGCTG-GGACTATCGATTATGAAAAGGGATGGTGACGACC
* *
28058898 ATCGAATTATGAAAACGGATAGCTTTGG-CTATCGATTATGAAAAGGGATGGTGACGACC
1 ATCGAATTATGAAAAGGGATAGC-TGGGACTATCGATTATGAAAAGGGATGGTGACGACC
28058957 ATC-AATT
1 ATCGAATT
28058964 TTCCACTTCA
Statistics
Matches: 203, Mismatches: 27, Indels: 24
0.80 0.11 0.09
Matches are distributed among these distances:
56 1 0.00
57 2 0.01
58 54 0.27
59 141 0.69
60 4 0.02
61 1 0.00
ACGTcount: A:0.36, C:0.13, G:0.27, T:0.23
Consensus pattern (59 bp):
ATCGAATTATGAAAAGGGATAGCTGGGACTATCGATTATGAAAAGGGATGGTGACGACC
Found at i:28058960 original size:88 final size:88
Alignment explanation
Indices: 28058633--28058961 Score: 351
Period size: 88 Copynumber: 3.7 Consensus size: 88
28058623 TATTGACGAT
* * * * * * * *
28058633 CATCGACTAATGAAAATGGATAGTTTTGGCTATCGATTATGAAAAGGGATAGTGGCTACTATCAA
1 CATCGAATTATGAAAAGGGATAGATTTGGCTATCGATTATGAAAAGGGATGGTGACGACCATCAA
*
28058698 CTATGAAAAGGGATGGTGACGAC
66 CTATGAAAAGGGATGGTGACGGC
* *
28058721 CATCGAATTATGAAAAGGGATAGATTTAGCTATCGATTATGAAAAGGGATGGTGACGAACATCGA
1 CATCGAATTATGAAAAGGGATAGATTTGGCTATCGATTATGAAAAGGGATGGTGACGACCATC-A
* *
28058786 ACTATGAAAAGGGATAGCT-TCGGC
65 ACTATGAAAAGGGAT-GGTGACGGC
* * ** * * ** * * *
28058810 TATCG-ATTAT-AAAAGGGGAT-GGTGACGACCATTAACTATGAAAAGGGATCGTGAGGACCATC
1 CATCGAATTATGAAAA-GGGATAGAT-TTGGCTATCGATTATGAAAAGGGATGGTGACGACCATC
*
28058872 AACTATGAAAAGGGATGGTGAAGGC
64 AACTATGAAAAGGGATGGTGACGGC
* *
28058897 CATCGAATTATGAAAACGGATAGCTTTGGCTATCGATTATGAAAAGGGATGGTGACGACCATCAA
1 CATCGAATTATGAAAAGGGATAGATTTGGCTATCGATTATGAAAAGGGATGGTGACGACCATCAA
28058962 TTTTCCACTT
Statistics
Matches: 192, Mismatches: 41, Indels: 16
0.77 0.16 0.06
Matches are distributed among these distances:
86 2 0.01
87 29 0.15
88 130 0.68
89 29 0.15
90 2 0.01
ACGTcount: A:0.36, C:0.13, G:0.27, T:0.24
Consensus pattern (88 bp):
CATCGAATTATGAAAAGGGATAGATTTGGCTATCGATTATGAAAAGGGATGGTGACGACCATCAA
CTATGAAAAGGGATGGTGACGGC
Found at i:28061790 original size:15 final size:15
Alignment explanation
Indices: 28061772--28061801 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
28061762 TAATAAGGAG
28061772 GTAAATAAAAGAAAA
1 GTAAATAAAAGAAAA
*
28061787 GTAAATAAATGAAAA
1 GTAAATAAAAGAAAA
28061802 ACAAGAAATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.13, T:0.17
Consensus pattern (15 bp):
GTAAATAAAAGAAAA
Found at i:28067548 original size:25 final size:25
Alignment explanation
Indices: 28067520--28067569 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
28067510 TTATTTGTTT
28067520 TATTATAACA-TTATAATATAATATA
1 TATTATAACATTTATAA-ATAATATA
28067545 TATTATAACATTTATAAATAATATA
1 TATTATAACATTTATAAATAATATA
28067570 AAAACTATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 18 0.75
26 6 0.25
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (25 bp):
TATTATAACATTTATAAATAATATA
Found at i:28067619 original size:26 final size:26
Alignment explanation
Indices: 28067590--28067641 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
28067580 ATTATAAACA
* *
28067590 TAATGTCGTCCATTATCTTTTAAATG
1 TAATGACGTCCACTATCTTTTAAATG
*
28067616 TAATGACGTCCACTATCTTTTCAATG
1 TAATGACGTCCACTATCTTTTAAATG
28067642 GTCAAATTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.42
Consensus pattern (26 bp):
TAATGACGTCCACTATCTTTTAAATG
Found at i:28076437 original size:143 final size:143
Alignment explanation
Indices: 28076218--28076884 Score: 960
Period size: 143 Copynumber: 4.7 Consensus size: 143
28076208 CTTTAGAGAG
* * * * * *
28076218 ATAAGATTCACTATCTTCAGTCTGCTCTGCTACAACTTTAGGGAGATAAGGCTAGTGGCTTCAAT
1 ATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAAT
* * * * *
28076283 CTGCTCCACTGCAACTTTAGGAAGATAATATTTGCCATAATTTGTAGCTTTAACCTGTTCCACTG
66 CTGCTCCACTGCAACTTCAGGAAGATAAGATCTGCCATAACTTGTAGCTTTAATCTGTTCCACTG
28076348 CAATGCCAGGGAA
131 CAATGCCAGGGAA
* * *
28076361 CTAATATTCGCTGTCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAAT
1 ATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAAT
* * *
28076426 CTGATCCACTGCAACTTCAGGAAGATAAGATCTGCCATAACTTGTAGCTTTAATTTGTTCCATTG
66 CTGCTCCACTGCAACTTCAGGAAGATAAGATCTGCCATAACTTGTAGCTTTAATCTGTTCCACTG
* *
28076491 -TATGCCGGGGAA
131 CAATGCCAGGGAA
* *
28076503 ATAAGATTCGCTGTCTTCAGTCTGCTCCGCTACAACTTTAGGGAGATAAGGCTGGTGGCTTCAAT
1 ATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAAT
* * * * * *
28076568 CTGCTCCACTGCAACTTCAAGAAGACAATATTTTCCATAACTTGTAGCTTTAATCTATTCCACTG
66 CTGCTCCACTGCAACTTCAGGAAGATAAGATCTGCCATAACTTGTAGCTTTAATCTGTTCCACTG
*
28076633 TAATGCCAGGGAA
131 CAATGCCAGGGAA
* * *
28076646 ATAAGATTCGTTGTCTTCAGTCTGTTCCGCTGCAACTTAAGGGAGATAAGGCTGGTGGCTTCAAT
1 ATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAAT
* *
28076711 CTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAACTTGTAGCTTTAATCTGTTCTACTG
66 CTGCTCCACTGCAACTTCAGGAAGATAAGATCTGCCATAACTTGTAGCTTTAATCTGTTCCACTG
*
28076776 CAACGCCAGGGAA
131 CAATGCCAGGGAA
* * *
28076789 ATAAGATTCGCTGTCTTTAGTCTGCCCCGCTGCAACTTCTA-GGAGATAAGACTGGTGGCTTCAA
1 ATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTC-AGGGAGATAAGGCTGGTGGCTTCAA
* *
28076853 TCTGCTCCATTGCAACTTTAGGAAGATAAGAT
65 TCTGCTCCACTGCAACTTCAGGAAGATAAGAT
28076885 TCAGAATGCT
Statistics
Matches: 465, Mismatches: 57, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
142 126 0.27
143 338 0.73
144 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.30
Consensus pattern (143 bp):
ATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAAT
CTGCTCCACTGCAACTTCAGGAAGATAAGATCTGCCATAACTTGTAGCTTTAATCTGTTCCACTG
CAATGCCAGGGAA
Found at i:28076728 original size:285 final size:286
Alignment explanation
Indices: 28076218--28076870 Score: 1004
Period size: 285 Copynumber: 2.3 Consensus size: 286
28076208 CTTTAGAGAG
* * * *
28076218 ATAAGATTCACTATCTTCAGTCTGCTCTGCTACAACTTTAGGGAGATAAGGCTAGTGGCTTCAAT
1 ATAAGATTCGCTGTCTTCAGTCTGCTCCGCTACAACTTTAGGGAGATAAGGCTGGTGGCTTCAAT
* * * * *
28076283 CTGCTCCACTGCAACTTTAGGAAGATAATATTTGCCATAATTTGTAGCTTTAACCTGTTCCACTG
66 CTGCTCCACTGCAACTTCAAGAAGACAATATTTGCCATAACTTGTAGCTTTAACCTATTCCACTG
* * *
28076348 CAATGCCAGGGAACTAATATTCGCTGTCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGGC
131 CAATGCCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCACTGCAACTTAAGGGAGATAAGGC
*
28076413 TGGTGGCTTCAATCTGATCCACTGCAACTTCAGGAAGATAAGATCTGCCATAACTTGTAGCTTTA
196 TGGTGGCTTCAATCTGATCCACTGCAACTTCAGGAAGATAAGATCCGCCATAACTTGTAGCTTTA
* * * * *
28076478 ATTTGTTCCATTG-TATGCCGGGGAA
261 ATCTGTTCCACTGCAACGCCAGGGAA
28076503 ATAAGATTCGCTGTCTTCAGTCTGCTCCGCTACAACTTTAGGGAGATAAGGCTGGTGGCTTCAAT
1 ATAAGATTCGCTGTCTTCAGTCTGCTCCGCTACAACTTTAGGGAGATAAGGCTGGTGGCTTCAAT
* *
28076568 CTGCTCCACTGCAACTTCAAGAAGACAATATTTTCCATAACTTGTAGCTTTAATCTATTCCACTG
66 CTGCTCCACTGCAACTTCAAGAAGACAATATTTGCCATAACTTGTAGCTTTAACCTATTCCACTG
* * * *
28076633 TAATGCCAGGGAAATAAGATTCGTTGTCTTCAGTCTGTTCCGCTGCAACTTAAGGGAGATAAGGC
131 CAATGCCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCACTGCAACTTAAGGGAGATAAGGC
*
28076698 TGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAACTTGTAGCTTTA
196 TGGTGGCTTCAATCTGATCCACTGCAACTTCAGGAAGATAAGATCCGCCATAACTTGTAGCTTTA
*
28076763 ATCTGTTCTACTGCAACGCCAGGGAA
261 ATCTGTTCCACTGCAACGCCAGGGAA
* * * *
28076789 ATAAGATTCGCTGTCTTTAGTCTGCCCCGCTGCAACTTCTA-GGAGATAAGACTGGTGGCTTCAA
1 ATAAGATTCGCTGTCTTCAGTCTGCTCCGCTACAACTT-TAGGGAGATAAGGCTGGTGGCTTCAA
*
28076853 TCTGCTCCATTGCAACTT
65 TCTGCTCCACTGCAACTT
28076871 TAGGAAGATA
Statistics
Matches: 335, Mismatches: 31, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
285 250 0.75
286 83 0.25
287 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.31
Consensus pattern (286 bp):
ATAAGATTCGCTGTCTTCAGTCTGCTCCGCTACAACTTTAGGGAGATAAGGCTGGTGGCTTCAAT
CTGCTCCACTGCAACTTCAAGAAGACAATATTTGCCATAACTTGTAGCTTTAACCTATTCCACTG
CAATGCCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCACTGCAACTTAAGGGAGATAAGGC
TGGTGGCTTCAATCTGATCCACTGCAACTTCAGGAAGATAAGATCCGCCATAACTTGTAGCTTTA
ATCTGTTCCACTGCAACGCCAGGGAA
Found at i:28077075 original size:6 final size:6
Alignment explanation
Indices: 28077064--28077154 Score: 55
Period size: 6 Copynumber: 15.0 Consensus size: 6
28077054 CTAGCCTCTC
* *
28077064 CTTTTT CTTTTT C-TTTT CTTTTT C--TTT C-TTTT CTTTCT CTTCGTTG
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTT--TTT
* * * *
28077110 CTTTTT CCTTTTT CGTTTT ATTTTG CATTTTA CATTTTT CTTTTT
1 CTTTTT -CTTTTT CTTTTT CTTTTT C-TTTTT C-TTTTT CTTTTT
28077155 TTTAAAATGA
Statistics
Matches: 67, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
4 4 0.06
5 9 0.13
6 33 0.49
7 17 0.25
8 4 0.06
ACGTcount: A:0.04, C:0.19, G:0.04, T:0.73
Consensus pattern (6 bp):
CTTTTT
Found at i:28077082 original size:11 final size:11
Alignment explanation
Indices: 28077066--28077104 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
28077056 AGCCTCTCCT
28077066 TTTTCTTTTTC
1 TTTTCTTTTTC
28077077 TTTTCTTTTTC
1 TTTTCTTTTTC
28077088 -TTTC-TTTTC
1 TTTTCTTTTTC
28077097 TTTCTCTT
1 TTT-TCTT
28077105 CGTTGCTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 5 0.20
10 6 0.24
11 13 0.52
12 1 0.04
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:28077093 original size:15 final size:15
Alignment explanation
Indices: 28077067--28077104 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
28077057 GCCTCTCCTT
*
28077067 TTTCTTTTTCTTTTC
1 TTTCTCTTTCTTTTC
*
28077082 TTTTTCTTTCTTTTC
1 TTTCTCTTTCTTTTC
28077097 TTTCTCTT
1 TTTCTCTT
28077105 CGTTGCTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTCTCTTTCTTTTC
Found at i:28083325 original size:16 final size:16
Alignment explanation
Indices: 28083304--28083360 Score: 55
Period size: 16 Copynumber: 3.5 Consensus size: 16
28083294 TCTTATTTCG
28083304 AAATGAAAAAGAAAAA
1 AAATGAAAAAGAAAAA
*
28083320 AAATGATAAAATAAAATA
1 AAATGA-AAAAGAAAA-A
*
28083338 AAA-CAAAAATG-AAAA
1 AAATGAAAAA-GAAAAA
28083353 AAATGAAA
1 AAATGAAA
28083361 GTATCACCTT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
15 4 0.12
16 16 0.48
17 9 0.27
18 4 0.12
ACGTcount: A:0.77, C:0.02, G:0.09, T:0.12
Consensus pattern (16 bp):
AAATGAAAAAGAAAAA
Found at i:28100087 original size:3 final size:3
Alignment explanation
Indices: 28100079--28100111 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
28100069 AATAAGAGTG
28100079 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
28100112 TTTGGGGACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:28102649 original size:26 final size:26
Alignment explanation
Indices: 28102613--28102689 Score: 100
Period size: 26 Copynumber: 3.0 Consensus size: 26
28102603 GGAAGTATAA
*
28102613 TGTTGCTGGCAGCTTTGCTACGATAC
1 TGTTACTGGCAGCTTTGCTACGATAC
* * *
28102639 TGTTACTGGCAGCTTTACTGCAATAC
1 TGTTACTGGCAGCTTTGCTACGATAC
* *
28102665 TATTACTGACAGCTTTGCTACGATA
1 TGTTACTGGCAGCTTTGCTACGATA
28102690 TTGGTGTGTT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (26 bp):
TGTTACTGGCAGCTTTGCTACGATAC
Found at i:28102837 original size:28 final size:28
Alignment explanation
Indices: 28102797--28102852 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
28102787 ATTGTACTGA
28102797 TATTGTATCGGGCTAAGGCCCACATTGT
1 TATTGTATCGGGCTAAGGCCCACATTGT
*
28102825 TATTGTATTGGGCTAAGGCCCACATTGT
1 TATTGTATCGGGCTAAGGCCCACATTGT
28102853 ACTGTTACTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.34
Consensus pattern (28 bp):
TATTGTATCGGGCTAAGGCCCACATTGT
Found at i:28102859 original size:33 final size:33
Alignment explanation
Indices: 28102786--28102879 Score: 99
Period size: 28 Copynumber: 3.0 Consensus size: 33
28102776 TGCATTACTG
* *
28102786 CATTGTACTGATATTGTATCGGGCTAAGGCCCA
1 CATTGTACTGTTATTGTATAGGGCTAAGGCCCA
*
28102819 CA---T--TGTTATTGTATTGGGCTAAGGCCCA
1 CATTGTACTGTTATTGTATAGGGCTAAGGCCCA
* * *
28102847 CATTGTACTGTTACTGAATAGGGCTCAGGCCCA
1 CATTGTACTGTTATTGTATAGGGCTAAGGCCCA
28102880 GACTGCTACC
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
28 25 0.50
30 1 0.02
31 1 0.02
33 23 0.46
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.31
Consensus pattern (33 bp):
CATTGTACTGTTATTGTATAGGGCTAAGGCCCA
Found at i:28105720 original size:14 final size:14
Alignment explanation
Indices: 28105701--28105727 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
28105691 CATTTCTTGG
28105701 TCGGTTCAGTTCAC
1 TCGGTTCAGTTCAC
28105715 TCGGTTCAGTTCA
1 TCGGTTCAGTTCA
28105728 ACTGGATCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.26, G:0.22, T:0.37
Consensus pattern (14 bp):
TCGGTTCAGTTCAC
Found at i:28113464 original size:25 final size:25
Alignment explanation
Indices: 28113402--28113489 Score: 90
Period size: 25 Copynumber: 3.6 Consensus size: 25
28113392 GTCATTAGGG
*
28113402 TTACCGAT-TTCAGCTCTTATGAGC
1 TTACCGATATTCAGCTCGTATGAGC
* *
28113426 TTACTGATACTCAGCTCGTATGAGC
1 TTACCGATATTCAGCTCGTATGAGC
* * * *
28113451 TTACCGTTATTCAGCTTGGAGGAGC
1 TTACCGATATTCAGCTCGTATGAGC
28113476 TTACC-ATAATTCAG
1 TTACCGAT-ATTCAG
28113490 ATTGGGAGAG
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
24 8 0.15
25 44 0.85
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (25 bp):
TTACCGATATTCAGCTCGTATGAGC
Found at i:28113500 original size:25 final size:25
Alignment explanation
Indices: 28113447--28113494 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
28113437 CAGCTCGTAT
* * *
28113447 GAGCTTACCGTTATTCAGCTTGGAG
1 GAGCTTACCATAATTCAGATTGGAG
28113472 GAGCTTACCATAATTCAGATTGG
1 GAGCTTACCATAATTCAGATTGG
28113495 GAGAGCAAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (25 bp):
GAGCTTACCATAATTCAGATTGGAG
Found at i:28118543 original size:23 final size:26
Alignment explanation
Indices: 28118494--28118543 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
28118484 ACATATACTC
*
28118494 TACTGGCAGCTCTACTGCGATATTAT
1 TACTGGCAACTCTACTGCGATATTAT
* *
28118520 TACTGGCAACTCTGCTGCAATATT
1 TACTGGCAACTCTACTGCGATATT
28118544 GGTGTGTGGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (26 bp):
TACTGGCAACTCTACTGCGATATTAT
Found at i:28119051 original size:19 final size:20
Alignment explanation
Indices: 28119027--28119068 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
28119017 TTCAAATAGG
28119027 TTTTCACAACAAACAC-TAT
1 TTTTCACAACAAACACGTAT
*
28119046 TTTTCATAACAAACACGTAT
1 TTTTCACAACAAACACGTAT
28119066 TTT
1 TTT
28119069 CAACTTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.38, C:0.21, G:0.02, T:0.38
Consensus pattern (20 bp):
TTTTCACAACAAACACGTAT
Found at i:28122305 original size:21 final size:20
Alignment explanation
Indices: 28122276--28122320 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
28122266 TTTAACAGGA
*
28122276 TTGATAAGCAGCAAGAAAGTT
1 TTGAGAAGCAG-AAGAAAGTT
*
28122297 TTGAGAAGCTGAAGAAAGTT
1 TTGAGAAGCAGAAGAAAGTT
28122317 TTGA
1 TTGA
28122321 CTGAGGCCCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.40, C:0.07, G:0.27, T:0.27
Consensus pattern (20 bp):
TTGAGAAGCAGAAGAAAGTT
Found at i:28125704 original size:26 final size:26
Alignment explanation
Indices: 28125674--28125725 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
28125664 AATGGGCCTT
* *
28125674 AATTATCGAAATACCCTCGATGGGTA
1 AATTATCGAAATACCCCCGAAGGGTA
*
28125700 AATTATTGAAATACCCCCGAAGGGTA
1 AATTATCGAAATACCCCCGAAGGGTA
28125726 GAATGACCGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (26 bp):
AATTATCGAAATACCCCCGAAGGGTA
Found at i:28125970 original size:27 final size:27
Alignment explanation
Indices: 28125895--28125973 Score: 140
Period size: 27 Copynumber: 2.9 Consensus size: 27
28125885 ATGGAGAAAG
* *
28125895 TACTGTTACTGGTGGTTTTGCAACAAT
1 TACTGTTACTGGTGGCTTTGCCACAAT
28125922 TACTGTTACTGGTGGCTTTGCCACAAT
1 TACTGTTACTGGTGGCTTTGCCACAAT
28125949 TACTGTTACTGGTGGCTTTGCCACA
1 TACTGTTACTGGTGGCTTTGCCACA
28125974 TATATTGTAC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.19, C:0.20, G:0.23, T:0.38
Consensus pattern (27 bp):
TACTGTTACTGGTGGCTTTGCCACAAT
Found at i:28126180 original size:28 final size:30
Alignment explanation
Indices: 28126148--28126226 Score: 81
Period size: 33 Copynumber: 2.6 Consensus size: 30
28126138 ATACTGTAAC
*
28126148 GGGCTTAGGCCCACACTGT-TT-CTATATT
1 GGGCTAAGGCCCACACTGTATTACTATATT
* *
28126176 GGGCTAAGGCCCGCACTGTACTTAAATTATATT
1 GGGCTAAGGCCCACACTGTA-TT--ACTATATT
*
28126209 GGGCTGAGGCCCACACTG
1 GGGCTAAGGCCCACACTG
28126227 ATACTAAAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
28 17 0.41
30 2 0.05
33 22 0.54
ACGTcount: A:0.22, C:0.25, G:0.25, T:0.28
Consensus pattern (30 bp):
GGGCTAAGGCCCACACTGTATTACTATATT
Found at i:28126539 original size:19 final size:19
Alignment explanation
Indices: 28126515--28126558 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
28126505 TTCAAATAAG
28126515 TTTTCACAACAAACACTGT-
1 TTTTCACAACAAACA-TGTA
*
28126534 TTTTCATAACAAACATGTA
1 TTTTCACAACAAACATGTA
28126553 TTTTCA
1 TTTTCA
28126559 ACTTCAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 3 0.13
19 20 0.87
ACGTcount: A:0.36, C:0.20, G:0.05, T:0.39
Consensus pattern (19 bp):
TTTTCACAACAAACATGTA
Found at i:28132396 original size:34 final size:34
Alignment explanation
Indices: 28132353--28132420 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
28132343 CGTTAACAGA
28132353 GTACATAATTTGTAATAGGTATCAAATCACATAC
1 GTACATAATTTGTAATAGGTATCAAATCACATAC
28132387 GTACATAATTTGTAATAGGTATCAAATCACATAC
1 GTACATAATTTGTAATAGGTATCAAATCACATAC
28132421 ATAATTCTGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (34 bp):
GTACATAATTTGTAATAGGTATCAAATCACATAC
Done.