Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 99 of 208
Found at i:33516917 original size:19 final size:19
Alignment explanation
Indices: 33516895--33517198 Score: 95
Period size: 19 Copynumber: 16.5 Consensus size: 19
33516885 AGTTATTATG
33516895 TATTATGTAAGTTGTAAGT
1 TATTATGTAAGTTGTAAGT
33516914 TATTATGT-A-TTGT--GT
1 TATTATGTAAGTTGTAAGT
* * * *
33516929 AAGT-TGCAAG-T-TAAAT
1 TATTATGTAAGTTGTAAGT
33516945 GTATTATGTAAGTTGTAAGT
1 -TATTATGTAAGTTGTAAGT
*
33516965 TATTATGT-ATTATGTAAG-
1 TATTATGTAAGT-TGTAAGT
* *
33516983 ---T-TGTAAGTTATTA-T
1 TATTATGTAAGTTGTAAGT
*
33516997 GTATTGTGTAAGTTGTAAGT
1 -TATTATGTAAGTTGTAAGT
*
33517017 TATTATGT-ATTATGTAAGT
1 TATTATGTAAGT-TGTAAGT
* * *
33517036 T-GTAAGTTA-TTGT--G-
1 TATTATGTAAGTTGTAAGT
*
33517050 TATTGTGTAAGTTGTAAGT
1 TATTATGTAAGTTGTAAGT
* * *
33517069 TAAATGTAT-TATGTCAGTCAAAT
1 T--AT-TATGTAAGT-TGT-AAGT
33517092 GTATTATGTAAGTTGTAAGTTAAAT
1 -TATTATGTAAGTTGTAAG-----T
33517117 GTATTATGTAAGTTGTAAGT
1 -TATTATGTAAGTTGTAAGT
*
33517137 TATTATGT-ATTATGTAAG-
1 TATTATGTAAGT-TGTAAGT
*
33517155 TA--ATGTAAG-T-TAAAT
1 TATTATGTAAGTTGTAAGT
33517170 GTATTATGTAAGTTGTAAGT
1 -TATTATGTAAGTTGTAAGT
33517190 TATTATGTA
1 TATTATGTA
33517199 TTATTTAATA
Statistics
Matches: 208, Mismatches: 33, Indels: 88
0.63 0.10 0.27
Matches are distributed among these distances:
14 13 0.06
15 15 0.07
16 11 0.05
17 10 0.05
18 28 0.13
19 74 0.36
20 12 0.06
21 11 0.05
22 10 0.05
23 3 0.01
24 1 0.00
25 20 0.10
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.47
Consensus pattern (19 bp):
TATTATGTAAGTTGTAAGT
Found at i:33517126 original size:18 final size:18
Alignment explanation
Indices: 33517062--33517183 Score: 74
Period size: 18 Copynumber: 6.4 Consensus size: 18
33517052 TTGTGTAAGT
33517062 TGTAAGTTAAATGTATTA
1 TGTAAGTTAAATGTATTA
* *
33517080 TGTCAGTCAAATGTATTATGTAA
1 TGTAAGTTAAATG---TAT-T-A
33517103 GTTGTAAGTTAAATGTATTA
1 --TGTAAGTTAAATGTATTA
*
33517123 TGTAAGTTGTAA-GTTATTA
1 TGTAAGTT-AAATG-TATTA
*
33517142 TGT-A-TT--ATGTAAGTAA
1 TGTAAGTTAAATGT-A-TTA
33517158 TGTAAGTTAAATGTATTA
1 TGTAAGTTAAATGTATTA
33517176 TGTAAGTT
1 TGTAAGTT
33517184 GTAAGTTATT
Statistics
Matches: 81, Mismatches: 7, Indels: 32
0.68 0.06 0.27
Matches are distributed among these distances:
14 2 0.02
15 2 0.02
16 5 0.06
17 3 0.04
18 33 0.41
19 11 0.14
20 5 0.06
21 4 0.05
22 4 0.05
23 1 0.01
25 11 0.14
ACGTcount: A:0.35, C:0.02, G:0.19, T:0.44
Consensus pattern (18 bp):
TGTAAGTTAAATGTATTA
Found at i:33517172 original size:53 final size:51
Alignment explanation
Indices: 33516797--33517202 Score: 562
Period size: 51 Copynumber: 8.0 Consensus size: 51
33516787 TGTAAGTTAA
* *
33516797 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTA-AATGTATTATGTAAGTTGTAAGTTATTATGTATT
*
33516848 GTGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
* * * *
33516899 ATGTAAGTTGTAAGTTATTATGTATTGTGTAAGTTGCAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTA-AATGTATTATGTAAGTTGTAAGTTATTATGTATT
*
33516950 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTA-AATGTATTATGTAAGTTGTAAGTTATTATGTATT
* * *
33517002 GTGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTGTGTATT
1 ATGTAAGTTGTAAGTTA-AATGTATTATGTAAGTTGTAAGTTATTATGTATT
* * *
33517054 GTGTAAGTTGTAAGTTAAATGTATTATGTCA---GTCA---A--ATGTATT
1 ATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
33517097 ATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
33517148 ATGTAAGTAATGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGT--TGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
33517201 AT
1 AT
33517203 TTAATAAAAT
Statistics
Matches: 322, Mismatches: 20, Indels: 24
0.88 0.05 0.07
Matches are distributed among these distances:
43 35 0.11
45 1 0.00
46 3 0.01
48 3 0.01
49 1 0.00
50 24 0.07
51 114 0.35
52 96 0.30
53 45 0.14
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.47
Consensus pattern (51 bp):
ATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
Found at i:33517322 original size:73 final size:73
Alignment explanation
Indices: 33517239--33517388 Score: 291
Period size: 73 Copynumber: 2.1 Consensus size: 73
33517229 ACATTACTAA
*
33517239 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
1 TATAATTATTAATAATATTTAATAAAATAAAATTTTATTTTAATAGTCAATTTTAATATTCCACA
33517304 TATTTTTT
66 TATTTTTT
33517312 TATAATTATTAATAATATTTAATAAAATAAAATTTTATTTTAATAGTCAATTTTAATATTCCACA
1 TATAATTATTAATAATATTTAATAAAATAAAATTTTATTTTAATAGTCAATTTTAATATTCCACA
33517377 TATTTTTT
66 TATTTTTT
33517385 TATA
1 TATA
33517389 TTTTATTTTA
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 76 1.00
ACGTcount: A:0.42, C:0.06, G:0.01, T:0.51
Consensus pattern (73 bp):
TATAATTATTAATAATATTTAATAAAATAAAATTTTATTTTAATAGTCAATTTTAATATTCCACA
TATTTTTT
Found at i:33517382 original size:35 final size:35
Alignment explanation
Indices: 33517270--33517382 Score: 104
Period size: 35 Copynumber: 3.1 Consensus size: 35
33517260 ATAAAATAAC
33517270 ATTTTATTTTAATAGTCAATTTTAATATTCCACAT
1 ATTTTATTTTAATAGTCAATTTTAATATTCCACAT
* * **** *
33517305 ATTTT-TTTATAATTATTAATAATATTTAATAAAATA-AA
1 ATTTTATTT-TAA-TAGT--CAAT-TTTAATATTCCACAT
33517343 ATTTTATTTTAATAGTCAATTTTAATATTCCACAT
1 ATTTTATTTTAATAGTCAATTTTAATATTCCACAT
33517378 ATTTT
1 ATTTT
33517383 TTTATATTTT
Statistics
Matches: 57, Mismatches: 14, Indels: 14
0.67 0.16 0.16
Matches are distributed among these distances:
34 11 0.19
35 17 0.30
36 3 0.05
37 3 0.05
38 12 0.21
39 11 0.19
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (35 bp):
ATTTTATTTTAATAGTCAATTTTAATATTCCACAT
Found at i:33517553 original size:13 final size:13
Alignment explanation
Indices: 33517535--33517605 Score: 106
Period size: 13 Copynumber: 5.5 Consensus size: 13
33517525 ATTTATAATT
33517535 ATTTAAGTAATAA
1 ATTTAAGTAATAA
* *
33517548 ATTTAAGTAACAT
1 ATTTAAGTAATAA
33517561 ATTTAAGTAATAA
1 ATTTAAGTAATAA
* *
33517574 ATTTAAGTAACAT
1 ATTTAAGTAATAA
33517587 ATTTAAGTAATAA
1 ATTTAAGTAATAA
33517600 ATTTAA
1 ATTTAA
33517606 ACAAATTTTA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 50 1.00
ACGTcount: A:0.51, C:0.03, G:0.07, T:0.39
Consensus pattern (13 bp):
ATTTAAGTAATAA
Found at i:33517564 original size:26 final size:26
Alignment explanation
Indices: 33517534--33517605 Score: 144
Period size: 26 Copynumber: 2.8 Consensus size: 26
33517524 TATTTATAAT
33517534 TATTTAAGTAATAAATTTAAGTAACA
1 TATTTAAGTAATAAATTTAAGTAACA
33517560 TATTTAAGTAATAAATTTAAGTAACA
1 TATTTAAGTAATAAATTTAAGTAACA
33517586 TATTTAAGTAATAAATTTAA
1 TATTTAAGTAATAAATTTAA
33517606 ACAAATTTTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (26 bp):
TATTTAAGTAATAAATTTAAGTAACA
Found at i:33517632 original size:17 final size:17
Alignment explanation
Indices: 33517610--33517653 Score: 88
Period size: 17 Copynumber: 2.6 Consensus size: 17
33517600 ATTTAAACAA
33517610 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
33517627 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
33517644 ATTTTAGTAA
1 ATTTTAGTAA
33517654 TAAATTTAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (17 bp):
ATTTTAGTAAGTAATGT
Found at i:33520560 original size:115 final size:114
Alignment explanation
Indices: 33520422--33520738 Score: 553
Period size: 115 Copynumber: 2.8 Consensus size: 114
33520412 AATAAACACC
33520422 TGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTAAACACAAAA
1 TGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTAAACACAAAA
* *
33520487 TAACATTTTTTGCGGCGTTTTAAGATAAGCGCCGCTAAAGTAACATATTT
66 TAACA-TTTTTGCGGCGTTTTAAAAGAAGCGCCGCTAAAGTAACATATTT
* *
33520537 TGCGGCATTTTAACAAAAACGCCACTAAATACATAAAAAAACGGTCACGTTTTGGTAAACACATA
1 TGCGGCGTTTTAACAAAAACGCCACTAAATACAT-AAAAAACGGTCACGTTTTGGTAAACACAAA
* * *
33520602 ATAACATTTTTGTGGCATTTTAAAAGAAGCGCCGCTAAAGTAACATCTTT
65 ATAACATTTTTGCGGCGTTTTAAAAGAAGCGCCGCTAAAGTAACATATTT
33520652 TGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTAAACACAAAA
1 TGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTAAACACAAAA
33520717 TAACATTTTTGCGGCGTTTTAA
66 TAACATTTTTGCGGCGTTTTAA
33520739 TAAAAACGCC
Statistics
Matches: 190, Mismatches: 11, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
114 50 0.26
115 105 0.55
116 35 0.18
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (114 bp):
TGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTAAACACAAAA
TAACATTTTTGCGGCGTTTTAAAAGAAGCGCCGCTAAAGTAACATATTT
Found at i:33520565 original size:40 final size:40
Alignment explanation
Indices: 33520487--33520565 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 40
33520477 AAACACAAAA
* * * * * *
33520487 TAACATTTTTTGCGGCGTTTTAAGATAAGCGCCGCTAAAG
1 TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAAG
33520527 TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAA
1 TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAA
33520566 TACATAAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.30
Consensus pattern (40 bp):
TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAAG
Found at i:33520680 original size:40 final size:39
Alignment explanation
Indices: 33520603--33520680 Score: 95
Period size: 40 Copynumber: 2.0 Consensus size: 39
33520593 AAACACATAA
* * *
33520603 TAACATTTTTGTGGCATTTTAAAAGAAGCGCCGCTAAAG
1 TAACATTTTTGCGGCATTTTAAAAGAAACGCCACTAAAG
*
33520642 TAACATCTTTTGCGGCGTTTTAACAA-AAACGCCACTAAA
1 TAACAT-TTTTGCGGCATTTTAA-AAGAAACGCCACTAAA
33520681 TACATAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
39 6 0.18
40 25 0.76
41 2 0.06
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (39 bp):
TAACATTTTTGCGGCATTTTAAAAGAAACGCCACTAAAG
Found at i:33520829 original size:75 final size:74
Alignment explanation
Indices: 33520642--33520813 Score: 299
Period size: 75 Copynumber: 2.3 Consensus size: 74
33520632 GCCGCTAAAG
33520642 TAACATCTTTTGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGT
1 TAACAT-TTTTGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGT
33520707 AAACACAAAA
65 AAACACAAAA
*
33520717 TAACATTTTTGCGGCGTTTTAATAAAAACGCCACTAAATACATAAAAAAACGGTCACGTTTTGGT
1 TAACATTTTTGCGGCGTTTTAACAAAAACGCCACTAAATACAT-AAAAAACGGTCACGTTTTGGT
*
33520782 AAACACAAGA
65 AAACACAAAA
*
33520792 TAACATTCTTGCGGCGTTTTAA
1 TAACATTTTTGCGGCGTTTTAA
33520814 GATAAGCGCC
Statistics
Matches: 93, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
74 36 0.39
75 57 0.61
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.28
Consensus pattern (74 bp):
TAACATTTTTGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTA
AACACAAAA
Found at i:33520854 original size:189 final size:189
Alignment explanation
Indices: 33520527--33520905 Score: 582
Period size: 189 Copynumber: 2.0 Consensus size: 189
33520517 GCCGCTAAAG
33520527 TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAATACATAAAAAAACGGTCACGTTTTGG
1 TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAATACATAAAAAAACGGTCACGTTTTGG
* * * *
33520592 TAAACACATAATAACATTTTTGTGGCATTTTAAAAGAAGCGCCGCTAAAGTAACATCTTTTGCGG
66 TAAACACATAATAACATTCTTGCGGCATTTTAAAAGAAGCGCCGCTAAAGCAACATCTTTTCCGG
* * *
33520657 CGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTAAACACAAAA
131 CGTTTTAACAAAAACGCCACTAAAAACAT-AAAAACGATCACGTTTCGGTAAACACAAAA
* *
33520717 TAACAT-TTTTGCGGCGTTTTAATAAAAACGCCACTAAATACATAAAAAAACGGTCACGTTTTGG
1 TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAATACATAAAAAAACGGTCACGTTTTGG
* * * *
33520781 TAAACACA-AGATAACATTCTTGCGGCGTTTTAAGATAAGCGCCGCTAAAGCAAGATCTTTTCCG
66 TAAACACATA-ATAACATTCTTGCGGCATTTTAAAAGAAGCGCCGCTAAAGCAACATCTTTTCCG
** *
33520845 GCGTTTTAACAAAAACGCCACTAAAAACATAAAAACGATTTCGTTTCGGTCAACACAAAA
130 GCGTTTTAACAAAAACGCCACTAAAAACATAAAAACGATCACGTTTCGGTAAACACAAAA
33520905 T
1 T
33520906 CCAACAAAAC
Statistics
Matches: 172, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
188 27 0.16
189 139 0.81
190 6 0.03
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.27
Consensus pattern (189 bp):
TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAATACATAAAAAAACGGTCACGTTTTGG
TAAACACATAATAACATTCTTGCGGCATTTTAAAAGAAGCGCCGCTAAAGCAACATCTTTTCCGG
CGTTTTAACAAAAACGCCACTAAAAACATAAAAACGATCACGTTTCGGTAAACACAAAA
Found at i:33521102 original size:113 final size:115
Alignment explanation
Indices: 33520902--33521186 Score: 315
Period size: 114 Copynumber: 2.5 Consensus size: 115
33520892 GGTCAACACA
* * * ** * * * * *** **
33520902 AAATCCAACAAAACGGCAACGTTTTTATTATAACCCATTGAAATTTTGTGGCGTTTCCAACGCAG
1 AAATCCTACACAACGGCAACGTTTTTATTAAAACAAAATCACATTTTGCGGCGTTTTTGACATAG
* *
33520967 CGCCGCTAAAGGCTGACGTTTT-CGGCGTTTTACAAAAAACGCCACTAAT
66 CGCCGCTAAAGGATGACGTTTTCCGGCGTTTTACAAAAAACGCCACTAAG
* * *
33521016 AAATCCTACACCACGGCAGCG-TTTTATTAAAACAGAATCACATTTTGCGGCGTTTTTGACATAG
1 AAATCCTACACAACGGCAACGTTTTTATTAAAACAAAATCACATTTTGCGGCGTTTTTGACATAG
* *
33521080 CGCCGCTAAAGGATGATC-TTTTCCGGCGTTTTACCAAAAACGCCAGTAAG
66 CGCCGCTAAAGGATGA-CGTTTTCCGGCGTTTTACAAAAAACGCCACTAAG
* * * *
33521130 AAATCTTACAGAACGGCAACGTTTTTATTGAAACAAAATCACATTTTGCGGTGTTTT
1 AAATCCTACACAACGGCAACGTTTTTATTAAAACAAAATCACATTTTGCGGCGTTTT
33521187 ACCCAAAACG
Statistics
Matches: 141, Mismatches: 27, Indels: 5
0.82 0.16 0.03
Matches are distributed among these distances:
113 50 0.35
114 59 0.42
115 32 0.23
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (115 bp):
AAATCCTACACAACGGCAACGTTTTTATTAAAACAAAATCACATTTTGCGGCGTTTTTGACATAG
CGCCGCTAAAGGATGACGTTTTCCGGCGTTTTACAAAAAACGCCACTAAG
Found at i:33521703 original size:7 final size:7
Alignment explanation
Indices: 33521691--33521864 Score: 51
Period size: 7 Copynumber: 25.1 Consensus size: 7
33521681 ACTAATCAAT
33521691 CTAAACC
1 CTAAACC
*
33521698 CTAAACA
1 CTAAACC
33521705 C-ATAACC
1 CTA-AACC
33521712 CTTAAATCC
1 C-TAAA-CC
33521721 CTTAAACC
1 C-TAAACC
33521729 CTAAACC
1 CTAAACC
*
33521736 C-AAATC
1 CTAAACC
* *
33521742 ATAATCC
1 CTAAACC
33521749 CTAAA-C
1 CTAAACC
*
33521755 CT--AGC
1 CTAAACC
*
33521760 CTAGACC
1 CTAAACC
*
33521767 CTGAACC
1 CTAAACC
*
33521774 C-CAACC
1 CTAAACC
33521780 CGTAAACC
1 C-TAAACC
*
33521788 TTAAACC
1 CTAAACC
*
33521795 C-CAACC
1 CTAAACC
*
33521801 C-CAACC
1 CTAAACC
33521807 CGTAAACC
1 C-TAAACC
*
33521815 TTAAACC
1 CTAAACC
*
33521822 C-CAACTC
1 CTAAAC-C
*
33521829 GTAAACC
1 CTAAACC
*
33521836 CTAAACT
1 CTAAACC
*
33521843 GTAAACC
1 CTAAACC
* * *
33521850 ATAATCA
1 CTAAACC
33521857 CTAAACC
1 CTAAACC
33521864 C
1 C
33521865 ATAATTTGCA
Statistics
Matches: 121, Mismatches: 32, Indels: 28
0.67 0.18 0.15
Matches are distributed among these distances:
4 1 0.01
5 3 0.02
6 27 0.22
7 65 0.54
8 16 0.13
9 9 0.07
ACGTcount: A:0.40, C:0.39, G:0.04, T:0.17
Consensus pattern (7 bp):
CTAAACC
Found at i:33521794 original size:21 final size:21
Alignment explanation
Indices: 33521770--33521841 Score: 72
Period size: 21 Copynumber: 3.1 Consensus size: 21
33521760 CTAGACCCTG
33521770 AACCCCAACCCGTAAACCTTAA
1 AACCCCAACCCGTAAACCTT-A
33521792 ACCCCAACCCCAACCCGTAAACCTTA
1 A-----ACCCCAACCCGTAAACCTTA
* *
33521818 AACCCCAACTCGTAAACCCTA
1 AACCCCAACCCGTAAACCTTA
33521839 AAC
1 AAC
33521842 TGTAAACCAT
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
21 21 0.49
22 1 0.02
26 2 0.05
27 19 0.44
ACGTcount: A:0.39, C:0.44, G:0.04, T:0.12
Consensus pattern (21 bp):
AACCCCAACCCGTAAACCTTA
Found at i:33521800 original size:27 final size:27
Alignment explanation
Indices: 33521770--33521826 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
33521760 CTAGACCCTG
33521770 AACCCCAACCCGTAAACCTTAAACCCC
1 AACCCCAACCCGTAAACCTTAAACCCC
33521797 AACCCCAACCCGTAAACCTTAAACCCC
1 AACCCCAACCCGTAAACCTTAAACCCC
33521824 AAC
1 AAC
33521827 TCGTAAACCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.39, C:0.47, G:0.04, T:0.11
Consensus pattern (27 bp):
AACCCCAACCCGTAAACCTTAAACCCC
Found at i:33522391 original size:73 final size:72
Alignment explanation
Indices: 33522296--33522433 Score: 197
Period size: 73 Copynumber: 1.9 Consensus size: 72
33522286 AAAGACTCGA
33522296 AAACTAAGAAAACGATGTCGTTGGGCTTAGGCTTTTTGCGGCG-CTTTTACAAAAACGCCACTAA
1 AAACTAAGAAAACGATGTCGTTGGGCTTAGGCTTTTTGCGGCGACTTTTA-AAAAACGCCACTAA
33522360 AGCCTCCC
65 AGCCTCCC
* * * * * *
33522368 AAACTAAGAAAAACGATGTCGTTGGGCTTCGGTTTTTTGTGGCGATTTTTAAAAAATGCCGCTAA
1 AAACTAAG-AAAACGATGTCGTTGGGCTTAGGCTTTTTGCGGCGACTTTTAAAAAACGCCACTAA
33522433 A
65 A
33522434 ACATTGAGCA
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
72 8 0.14
73 45 0.78
74 5 0.09
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (72 bp):
AAACTAAGAAAACGATGTCGTTGGGCTTAGGCTTTTTGCGGCGACTTTTAAAAAACGCCACTAAA
GCCTCCC
Found at i:33522487 original size:114 final size:114
Alignment explanation
Indices: 33522333--33522659 Score: 399
Period size: 113 Copynumber: 2.9 Consensus size: 114
33522323 TAGGCTTTTT
** * ** *
33522333 GCGGCGCTTTTACAAAAACGCCACTAAAGCCTCCCAAACTAAGAAAAACGATGTCGTTGGGCTTC
1 GCGGCGCTTTCCCAAAAACGCCACCAAAGCCTCGAAAACTAAGAAAAACGATGTCGTTGGGCTTA
* * * * * *
33522398 GGTTTTTTGTGGCGATTTTTAAAAAATGCCGCTAAAACATTGAGCATTA
66 GGTTTTTTGCGGCGCTTTTTAAGAAACGCCGCTAAAACACTGAGAATTA
* * *
33522447 GCGGCGCTTTCCCGAAAACGCCACCAAAGCCTCGAAAACTAAG-AAAATGATGACGTTGGGCTTA
1 GCGGCGCTTTCCCAAAAACGCCACCAAAGCCTCGAAAACTAAGAAAAACGATGTCGTTGGGCTTA
* * * *
33522511 GGTCTTTTGCGGCGCTTTTTAAGAAACGCTGCTAAAGCCCTGAGAATTA
66 GGTTTTTTGCGGCGCTTTTTAAGAAACGCCGCTAAAACACTGAGAATTA
* * * *
33522560 -CTTGCGC-TTCTCCAAAAACGCCACCAAAGCCTCGAAAACTAAGAAAAACGACGTCGTTTGGTT
1 GC-GGCGCTTTC-CCAAAAACGCCACCAAAGCCTCGAAAACTAAGAAAAACGATGTCGTTGGGCT
*
33522623 TAGGTTTTTAGCGGCGCTTTTTAAGAAACGCCGCTAA
64 TAGGTTTTTTGCGGCGCTTTTTAAGAAACGCCGCTAA
33522660 TGCTCATTAT
Statistics
Matches: 181, Mismatches: 29, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
112 4 0.02
113 92 0.51
114 85 0.47
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.25
Consensus pattern (114 bp):
GCGGCGCTTTCCCAAAAACGCCACCAAAGCCTCGAAAACTAAGAAAAACGATGTCGTTGGGCTTA
GGTTTTTTGCGGCGCTTTTTAAGAAACGCCGCTAAAACACTGAGAATTA
Found at i:33522673 original size:39 final size:38
Alignment explanation
Indices: 33522630--33522759 Score: 127
Period size: 39 Copynumber: 3.3 Consensus size: 38
33522620 GTTTAGGTTT
* *
33522630 TTAGCGGCGCTTTTTAAGAAACGCCGCTAATGCTCATTA
1 TTAGCGGCGTTTTTTAA-AAACGCCGCTAATGCTAATTA
* * * *
33522669 TTAGCGGCGTTTTTGTAAAAGCGCCGGTAATACTGA-TA
1 TTAGCGGCGTTTTT-TAAAAACGCCGCTAATGCTAATTA
* * *
33522707 TTTAGCGGCGTTTTTTTTAAATCGCCGCTAATGCTTAATTT
1 -TTAGCGGCG-TTTTTTAAAAACGCCGCTAATGC-TAATTA
33522748 TTAGCGGCGTTT
1 TTAGCGGCGTTT
33522760 GTTGTCCAAT
Statistics
Matches: 75, Mismatches: 11, Indels: 10
0.78 0.11 0.10
Matches are distributed among these distances:
38 2 0.03
39 53 0.71
40 19 0.25
41 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.37
Consensus pattern (38 bp):
TTAGCGGCGTTTTTTAAAAACGCCGCTAATGCTAATTA
Found at i:33529611 original size:19 final size:19
Alignment explanation
Indices: 33529574--33529628 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
33529564 AAGTTAATAA
* * *
33529574 CAAATTTGATTATGGTGGG
1 CAAAATTGATTACGATGGG
33529593 CAAAATTGATTACGATGGG
1 CAAAATTGATTACGATGGG
*
33529612 TAACAA-TGATTAC-ATGG
1 CAA-AATTGATTACGATGG
33529629 ACCCAAAGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
18 4 0.13
19 25 0.81
20 2 0.06
ACGTcount: A:0.35, C:0.09, G:0.25, T:0.31
Consensus pattern (19 bp):
CAAAATTGATTACGATGGG
Found at i:33540051 original size:45 final size:45
Alignment explanation
Indices: 33539958--33540053 Score: 113
Period size: 45 Copynumber: 2.1 Consensus size: 45
33539948 TAACCTTTGG
* ** **
33539958 TATCCGGTGAAATCAGCACATAGCAATCACCTTTATTTTCATTAA
1 TATCCGGTGAAATCAGCACATAGCAATCACCTATATTGCCAACAA
* *
33540003 TATCCGGTGGAATCAGCACATAGC-ATCCACCTATATTGCCAACGA
1 TATCCGGTGAAATCAGCACATAGCAAT-CACCTATATTGCCAACAA
33540048 TATCCG
1 TATCCG
33540054 ATCCATTCCG
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
44 2 0.05
45 41 0.95
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (45 bp):
TATCCGGTGAAATCAGCACATAGCAATCACCTATATTGCCAACAA
Found at i:33541545 original size:28 final size:28
Alignment explanation
Indices: 33541505--33541658 Score: 227
Period size: 28 Copynumber: 5.5 Consensus size: 28
33541495 TGACTTTCGA
* *
33541505 CACTAAGTGTGCGAATTTAATTGTGAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
33541533 CACTAAGTGTGCGAGTTTAATTGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
*
33541561 CACTAAGTGTGAGAGTTTAATTGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
*
33541589 CACTAAGTGTGCGAGTTTAATGGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* * * **
33541617 CACTAAGTGTGTGAGTTTGATTATTGAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
33541645 CACTAAGTGTGCGA
1 CACTAAGTGTGCGA
33541659 ACTTATTAAA
Statistics
Matches: 114, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 114 1.00
ACGTcount: A:0.31, C:0.10, G:0.27, T:0.32
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTAATTGTAAAG
Found at i:33542432 original size:47 final size:48
Alignment explanation
Indices: 33542381--33542734 Score: 282
Period size: 47 Copynumber: 7.6 Consensus size: 48
33542371 TTTTTATGCT
* *
33542381 TAAATGCTGCCCAATTTGTGGTA-AT-TATGCTGCCTAATTTTGGTGAA
1 TAAATGCTGTCCAATTT-TGGTATATATATGCTGCCAAATTTTGGTGAA
* * * * ** *
33542428 TAAATTCTGTCTAATTTT-GCATATACATGCTATCAAATTTT-GTGTA
1 TAAATGCTGTCCAATTTTGGTATATATATGCTGCCAAATTTTGGTGAA
* * * *
33542474 TAAGTGCTGTCCAA-ATTGGTATATGTATGCTGCCCAATTTTGGTGAA
1 TAAATGCTGTCCAATTTTGGTATATATATGCTGCCAAATTTTGGTGAA
* * * * *
33542521 TAAATGTTGTCCAATTTT-GCATATACATGCTGTCAAATTTT-GTGTA
1 TAAATGCTGTCCAATTTTGGTATATATATGCTGCCAAATTTTGGTGAA
* * * * * *
33542567 TAAGTGCTGTCCAA-ATTGGTATATGTTTGCTGCCCAATTTAGGTGAA
1 TAAATGCTGTCCAATTTTGGTATATATATGCTGCCAAATTTTGGTGAA
* * ** * *
33542614 TAAATGCTGTCCAATTTT-GCATATACATGCTGTTAGATTTT-GTGTA
1 TAAATGCTGTCCAATTTTGGTATATATATGCTGCCAAATTTTGGTGAA
* * * * * *
33542660 TAAGTACTGTCCAA-ATTGGTATATGTATGCTGCCCAATTTTGGTGTA
1 TAAATGCTGTCCAATTTTGGTATATATATGCTGCCAAATTTTGGTGAA
*
33542707 TAAATGCTGTCTAATTTT-GTATATATAT
1 TAAATGCTGTCCAATTTTGGTATATATAT
33542735 ATATATGTAT
Statistics
Matches: 229, Mismatches: 67, Indels: 22
0.72 0.21 0.07
Matches are distributed among these distances:
45 8 0.03
46 99 0.43
47 116 0.51
48 6 0.03
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (48 bp):
TAAATGCTGTCCAATTTTGGTATATATATGCTGCCAAATTTTGGTGAA
Found at i:33542475 original size:23 final size:23
Alignment explanation
Indices: 33542434--33542731 Score: 117
Period size: 23 Copynumber: 12.8 Consensus size: 23
33542424 TGAATAAATT
* *
33542434 CTGTCTAATTTTGCATATACATG
1 CTGTCAAATTTTGTATATACATG
* *
33542457 CTATCAAATTTTGTGTATA-AGTG
1 CTGTCAAATTTTGTATATACA-TG
* **
33542480 CTGTCCAAA-TTGGTATATGTATG
1 CTGT-CAAATTTTGTATATACATG
* * *
33542503 CTGCCCAATTTTGGTGA-ATAAATG
1 CTGTCAAATTTT-GT-ATATACATG
* * *
33542527 TTGTCCAATTTTGCATATACATG
1 CTGTCAAATTTTGTATATACATG
*
33542550 CTGTCAAATTTTGTGTATA-AGTG
1 CTGTCAAATTTTGTATATACA-TG
* ***
33542573 CTGTCCAAA-TTGGTATATGTTTG
1 CTGT-CAAATTTTGTATATACATG
* * * *
33542596 CTGCCCAATTTAGGTGA-ATAAATG
1 CTGTCAAATTT-TGT-ATATACATG
* *
33542620 CTGTCCAATTTTGCATATACATG
1 CTGTCAAATTTTGTATATACATG
* * * *
33542643 CTGTTAGATTTTGTGTATA-AGTA
1 CTGTCAAATTTTGTATATACA-TG
* **
33542666 CTGTCCAAA-TTGGTATATGTATG
1 CTGT-CAAATTTTGTATATACATG
* * * *
33542689 CTGCCCAATTTTGGTGTATAAATG
1 CTGTCAAATTTT-GTATATACATG
*
33542713 CTGTCTAATTTTGTATATA
1 CTGTCAAATTTTGTATATA
33542732 TATATATATG
Statistics
Matches: 201, Mismatches: 55, Indels: 38
0.68 0.19 0.13
Matches are distributed among these distances:
22 14 0.07
23 121 0.60
24 64 0.32
25 2 0.01
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (23 bp):
CTGTCAAATTTTGTATATACATG
Found at i:33542513 original size:93 final size:93
Alignment explanation
Indices: 33542399--33542731 Score: 535
Period size: 93 Copynumber: 3.6 Consensus size: 93
33542389 GCCCAATTTG
* * * *
33542399 TGGTA-AT-TATGCTGCCTAATTTTGGTGAATAAATTCTGTCTAATTTTGCATATACATGCTATC
1 TGGTATATGTATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACATGCTGTC
33542462 AAATTTTGTGTATAAGTGCTGTCCAAAT
66 AAATTTTGTGTATAAGTGCTGTCCAAAT
*
33542490 TGGTATATGTATGCTGCCCAATTTTGGTGAATAAATGTTGTCCAATTTTGCATATACATGCTGTC
1 TGGTATATGTATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACATGCTGTC
33542555 AAATTTTGTGTATAAGTGCTGTCCAAAT
66 AAATTTTGTGTATAAGTGCTGTCCAAAT
* * *
33542583 TGGTATATGTTTGCTGCCCAATTTAGGTGAATAAATGCTGTCCAATTTTGCATATACATGCTGTT
1 TGGTATATGTATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACATGCTGTC
* *
33542648 AGATTTTGTGTATAAGTACTGTCCAAAT
66 AAATTTTGTGTATAAGTGCTGTCCAAAT
* * *
33542676 TGGTATATGTATGCTGCCCAATTTTGGTGTATAAATGCTGTCTAATTTTGTATATA
1 TGGTATATGTATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATA
33542732 TATATATATG
Statistics
Matches: 224, Mismatches: 16, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
91 5 0.02
92 2 0.01
93 217 0.97
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.41
Consensus pattern (93 bp):
TGGTATATGTATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACATGCTGTC
AAATTTTGTGTATAAGTGCTGTCCAAAT
Found at i:33543369 original size:50 final size:49
Alignment explanation
Indices: 33543247--33543426 Score: 215
Period size: 50 Copynumber: 3.7 Consensus size: 49
33543237 CATATCGGTG
* * *
33543247 CCGATGCTATGTCCAAGACATGGTCTTACACTGACACTCATC-T-CG-A
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCCTCGTCCGTA
* * *
33543293 GCCGATGTCATGTCCCAGACATGGTCTTACGCTGACTCTCCTCTGTCCGTA
1 -CCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCCTC-GTCCGTA
* * *
33543344 CAGATGCCATGTCCCAGACATGGTCTTACACT-AGCACTCCTCGGTCTGTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGA-CACTCCTC-GTCCGTA
33543394 CCGATGCCATGTCCCAGACATGGTCTTACACTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTG
33543427 GCACACTCAC
Statistics
Matches: 113, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
47 36 0.32
49 2 0.02
50 74 0.65
51 1 0.01
ACGTcount: A:0.21, C:0.32, G:0.21, T:0.27
Consensus pattern (49 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCCTCGTCCGTA
Found at i:33547091 original size:114 final size:115
Alignment explanation
Indices: 33546911--33547473 Score: 442
Period size: 114 Copynumber: 4.9 Consensus size: 115
33546901 AAAAATGTTA
* * * * *
33546911 ACCAAAACGCAGCGGTTTGGTCTCGATGTATAATACAATTAGTGGCG-TTA-GTTAAAAACGCCG
1 ACCAAAACGCAG-AGTTTGGTCTTGAGGTATAATAGAATTAGTGGCGCTTACG-GAAAAACGCCG
** * *
33546974 CTAAAGTA-TAAAATTAGCGGCGATTTTTTAGAATCGCCGCAAGATATGCAC
64 CTAAAGTAGTACTATTAGCGGCGCTTTTTTAGAAGCGCCGCAAGATATGCAC
* * *
33547025 ACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGGATTAGTGGCGCTTACGGAAAAACGCTGCT
1 ACCAAAACGCAGAGTTTGGTCTTGAGGTATAATAGAATTAGTGGCGCTTACGGAAAAACGCCGCT
* ** * * *
33547090 AAAG-AGTACTATTAGCGGCGCGTTTGGAGAAGCGCCGCTATAT-TTCTTA-
66 AAAGTAGTACTATTAGCGGCGCTTTTTTAGAAGCGCCGCAAGATATGC--AC
* * * * * *
33547139 ACCAAAACTCA-ACGTTTTGGTCTTGATGTAAAATATAATTAGTGGCGTTTAC-AATAAAACGCC
1 ACCAAAACGCAGA-G-TTTGGTCTTGAGGTATAATAGAATTAGTGGCGCTTACGGA-AAAACGCC
* * *
33547202 GCTAAA-TATTAGTATTAGCGGCGC--TTTCAGTTAAGCGCCGCAAGATATGCAC
63 GCTAAAGTAGTACTATTAGCGGCGCTTTTTTAG--AAGCGCCGCAAGATATGCAC
* * * *
33547254 ACCAAAACGCAGAGTTTGGTATTGAGGTATATTAGAATTAGTGGGGCTTATTGG-AAAACGCCGC
1 ACCAAAACGCAGAGTTTGGTCTTGAGGTATAATAGAATTAGTGGCGCTTA-CGGAAAAACGCCGC
* **
33547318 TAAAGTA-TACTATTAGCGGCGCTTTCTTAGAAGCGCCGCAAGATATATTA-
65 TAAAGTAGTACTATTAGCGGCGCTTTTTTAGAAGCGCCGCAAGATAT-GCAC
* * * ** * * * * *
33547368 ACCGAAACGCTGCGTTTAAATTTTGATGTATACTGGAATTAGTGGCG-TTCAC-GAGAAATCGCC
1 ACCAAAACGCAGAGTTT-GGTCTTGAGGTATAATAGAATTAGTGGCGCTT-ACGGA-AAAACGCC
* * *
33547431 GCTAAA-TCA-TATTATTAGCGGCGCTTTTTTATAAGTGCCGCAA
63 GCTAAAGT-AGTACTATTAGCGGCGCTTTTTTAGAAGCGCCGCAA
33547474 AAGATCTTTA
Statistics
Matches: 359, Mismatches: 65, Indels: 49
0.76 0.14 0.10
Matches are distributed among these distances:
113 37 0.10
114 161 0.45
115 154 0.43
116 7 0.02
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (115 bp):
ACCAAAACGCAGAGTTTGGTCTTGAGGTATAATAGAATTAGTGGCGCTTACGGAAAAACGCCGCT
AAAGTAGTACTATTAGCGGCGCTTTTTTAGAAGCGCCGCAAGATATGCAC
Found at i:33547473 original size:229 final size:228
Alignment explanation
Indices: 33546908--33547473 Score: 599
Period size: 229 Copynumber: 2.5 Consensus size: 228
33546898 ACAAAAAATG
* ** * * * **
33546908 TTAACCAAAACGCAGCGGTTT-GGTCTCGATGTATAATACAATTAGTGGCGTT-AGTTA-AAAAC
1 TTAACCAAAACGCAAC-GTTTAAATCTTGATGTAAAATAGAATTAGTGGCGTTCA-CAAGAAAAC
* * *
33546970 GCCGCTAAAGTATAAAATTAGCGGCGATTTTTTAGAA-TCGCCGCAAGATATGCACACCAAAACG
64 GCCGCTAAA-TATAATATTAGCGGCGCTTTTTTATAAGT-GCCGCAAGATATGCACACCAAAACG
* * *
33547034 CAGAGTTTGGTCTTGAGGTATATTAGGATTAGTGGCGCTTACGGAAAAACGCTGCTAAAGAGTAC
127 CAGAGTTTGGTATTGAGGTATATTAGAATTAGTGGCGCTTACGGAAAAACGCCGCTAAAGAGTAC
* * * *
33547099 TATTAGCGGCGCGTTTGGAGAAGCGCCGCTATATTTC
192 TATTAGCGGCGCGTTTGGAGAAGCGCCGCAAGATATA
* *** * * *
33547136 TTAACCAAAACTCAACGTTTTGGTCTTGATGTAAAATATAATTAGTGGCGTTTACAATAAAACGC
1 TTAACCAAAACGCAACGTTTAAATCTTGATGTAAAATAGAATTAGTGGCGTTCACAAGAAAACGC
* ** *
33547201 CGCTAAATATTAGTATTAGCGGCGCTTTCAGT-TAAGCGCCGCAAGATATGCACACCAAAACGCA
66 CGCTAAATA-TAATATTAGCGGCGCTTT-TTTATAAGTGCCGCAAGATATGCACACCAAAACGCA
* *
33547265 GAGTTTGGTATTGAGGTATATTAGAATTAGTGGGGCTTATTGG-AAAACGCCGCTAAAGTA-TAC
129 GAGTTTGGTATTGAGGTATATTAGAATTAGTGGCGCTTA-CGGAAAAACGCCGCTAAAG-AGTAC
**
33547328 TATTAGCGGCGC-TTTCTTAGAAGCGCCGCAAGATATA
192 TATTAGCGGCGCGTTT-GGAGAAGCGCCGCAAGATATA
* ** * * * * * *
33547365 TTAACCGAAACGCTGCGTTTAAATTTTGATGTATACTGGAATTAGTGGCGTTCACGAGAAATCGC
1 TTAACCAAAACGCAACGTTTAAATCTTGATGTAAAATAGAATTAGTGGCGTTCACAAGAAAACGC
*
33547430 CGCTAAATCATATTATTAGCGGCGCTTTTTTATAAGTGCCGCAA
66 CGCTAAAT-ATAATATTAGCGGCGCTTTTTTATAAGTGCCGCAA
33547474 AAGATCTTTA
Statistics
Matches: 282, Mismatches: 45, Indels: 21
0.81 0.13 0.06
Matches are distributed among these distances:
227 4 0.01
228 49 0.17
229 224 0.79
230 5 0.02
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (228 bp):
TTAACCAAAACGCAACGTTTAAATCTTGATGTAAAATAGAATTAGTGGCGTTCACAAGAAAACGC
CGCTAAATATAATATTAGCGGCGCTTTTTTATAAGTGCCGCAAGATATGCACACCAAAACGCAGA
GTTTGGTATTGAGGTATATTAGAATTAGTGGCGCTTACGGAAAAACGCCGCTAAAGAGTACTATT
AGCGGCGCGTTTGGAGAAGCGCCGCAAGATATA
Found at i:33547831 original size:22 final size:22
Alignment explanation
Indices: 33547815--33547869 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
33547805 GGGTTATGGT
*
33547815 GTTTTGGGTTTAAGGTTTAGGA
1 GTTTGGGGTTTAAGGTTTAGGA
*
33547837 GTTTGGGGTTTAAGATTTAGG-
1 GTTTGGGGTTTAAGGTTTAGGA
33547858 GTTTGGGGTTTA
1 GTTTGGGGTTTA
33547870 GACTACTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 12 0.39
22 19 0.61
ACGTcount: A:0.16, C:0.00, G:0.38, T:0.45
Consensus pattern (22 bp):
GTTTGGGGTTTAAGGTTTAGGA
Found at i:33549099 original size:44 final size:44
Alignment explanation
Indices: 33549036--33549129 Score: 136
Period size: 44 Copynumber: 2.1 Consensus size: 44
33549026 AATTCTTGCG
* * *
33549036 TCCTTCTTGCCCAATTTCTTG-AATTCCCAAATCCGTAAATCTCC
1 TCCTTCTTGCCAAATTTCTTGAAATT-CCAAATCCCTAAATCGCC
*
33549080 TCCTTCTTGCCAAATTTCTTGAAATTCGAAATCCCTAAATCGCC
1 TCCTTCTTGCCAAATTTCTTGAAATTCCAAATCCCTAAATCGCC
33549124 TCCTTC
1 TCCTTC
33549130 CTCCTTCTAG
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 41 0.91
45 4 0.09
ACGTcount: A:0.23, C:0.33, G:0.07, T:0.36
Consensus pattern (44 bp):
TCCTTCTTGCCAAATTTCTTGAAATTCCAAATCCCTAAATCGCC
Found at i:33550798 original size:35 final size:35
Alignment explanation
Indices: 33550754--33550847 Score: 145
Period size: 35 Copynumber: 2.7 Consensus size: 35
33550744 TAAAGTTATA
*
33550754 TTTTAAATATTTTATTTTATTTTAATCACGAATTT
1 TTTTAAATATTTTATTTTATTTTAATCACGAATAT
*
33550789 TTTTAAATATTTTATTTTATTTGAATCACGAATAT
1 TTTTAAATATTTTATTTTATTTTAATCACGAATAT
* *
33550824 TTTTAAATA-TTAATTTTTTTTTAA
1 TTTTAAATATTTTATTTTATTTTAA
33550848 AGTTCAAATT
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
34 12 0.22
35 42 0.78
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (35 bp):
TTTTAAATATTTTATTTTATTTTAATCACGAATAT
Found at i:33550885 original size:18 final size:17
Alignment explanation
Indices: 33550854--33550909 Score: 78
Period size: 16 Copynumber: 3.3 Consensus size: 17
33550844 TTAAAGTTCA
33550854 AATTTCATAACTTACGT
1 AATTTCATAACTTACGT
* *
33550871 AATTTACATATCTTACAT
1 AATTT-CATAACTTACGT
33550889 AA-TTCATAACTTACGT
1 AATTTCATAACTTACGT
33550905 AATTT
1 AATTT
33550910 AAATTTATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 12 0.36
17 9 0.27
18 12 0.36
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (17 bp):
AATTTCATAACTTACGT
Found at i:33550929 original size:29 final size:33
Alignment explanation
Indices: 33550859--33550931 Score: 100
Period size: 34 Copynumber: 2.3 Consensus size: 33
33550849 GTTCAAATTT
*
33550859 CATAACTTACGTAATTTACATATCTTACATAATT
1 CATAACTTACGTAATTTACATATCTTA-ATAATA
33550893 CATAACTTACGTAATTTA-A-AT-TT-ATAATA
1 CATAACTTACGTAATTTACATATCTTAATAATA
33550922 CATAACTTAC
1 CATAACTTAC
33550932 ATATAATACA
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
29 15 0.39
31 2 0.05
32 2 0.05
33 1 0.03
34 18 0.47
ACGTcount: A:0.41, C:0.16, G:0.03, T:0.40
Consensus pattern (33 bp):
CATAACTTACGTAATTTACATATCTTAATAATA
Found at i:33550948 original size:47 final size:45
Alignment explanation
Indices: 33550875--33550963 Score: 115
Period size: 47 Copynumber: 1.9 Consensus size: 45
33550865 TTACGTAATT
* * * *
33550875 TACATATCTTACATAATTCATAACTTACGTAATTTAAATTTATAA
1 TACATAACTTACATAATACATAACTTACATAACTTAAATTTATAA
*
33550920 TACATAACTTACATATAATACATAACTTATATAACTTAAATTTA
1 TACATAACTTAC--ATAATACATAACTTACATAACTTAAATTTA
33550964 GCAATCATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
45 11 0.30
47 26 0.70
ACGTcount: A:0.45, C:0.13, G:0.01, T:0.40
Consensus pattern (45 bp):
TACATAACTTACATAATACATAACTTACATAACTTAAATTTATAA
Found at i:33551033 original size:21 final size:21
Alignment explanation
Indices: 33551008--33551092 Score: 68
Period size: 24 Copynumber: 4.0 Consensus size: 21
33550998 ATCATATCAC
33551008 AACTTACATAACCAACATAAT
1 AACTTACATAACCAACATAAT
* *
33551029 GACTTACATAATAACCTACATAAT
1 AACTTAC---ATAACCAACATAAT
**
33551053 AACTTACATAATAATACATAAT
1 AACTTACATAACCA-ACATAAT
33551075 AA--TACATAA-CATACATAA
1 AACTTACATAACCA-ACATAA
33551093 ATTAAATAAG
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
19 8 0.15
20 7 0.13
21 10 0.19
22 9 0.17
24 19 0.36
ACGTcount: A:0.53, C:0.19, G:0.01, T:0.27
Consensus pattern (21 bp):
AACTTACATAACCAACATAAT
Found at i:33551039 original size:12 final size:12
Alignment explanation
Indices: 33551022--33551076 Score: 78
Period size: 12 Copynumber: 4.8 Consensus size: 12
33551012 TACATAACCA
*
33551022 ACATAATGACTT
1 ACATAATAACTT
*
33551034 ACATAATAACCT
1 ACATAATAACTT
33551046 ACATAATAACTT
1 ACATAATAACTT
33551058 ACATAATAA--T
1 ACATAATAACTT
33551068 ACATAATAA
1 ACATAATAA
33551077 TACATAACAT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
10 10 0.25
12 30 0.75
ACGTcount: A:0.53, C:0.16, G:0.02, T:0.29
Consensus pattern (12 bp):
ACATAATAACTT
Found at i:33551049 original size:24 final size:24
Alignment explanation
Indices: 33551015--33551083 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
33551005 CACAACTTAC
* *
33551015 ATAACCAACATAATGACTTACATA
1 ATAACCTACATAATAACTTACATA
33551039 ATAACCTACATAATAACTTACATA
1 ATAACCTACATAATAACTTACATA
33551063 ATAA--TACATAATAA--TACATA
1 ATAACCTACATAATAACTTACATA
33551083 A
1 A
33551084 CATACATAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.16
22 10 0.23
24 26 0.60
ACGTcount: A:0.54, C:0.17, G:0.01, T:0.28
Consensus pattern (24 bp):
ATAACCTACATAATAACTTACATA
Found at i:33551072 original size:10 final size:10
Alignment explanation
Indices: 33551033--33551092 Score: 68
Period size: 12 Copynumber: 5.7 Consensus size: 10
33551023 CATAATGACT
33551033 TACATAATAA
1 TACATAATAA
33551043 CCTACATAATAA
1 --TACATAATAA
33551055 CTTACATAATAA
1 --TACATAATAA
33551067 TACATAATAA
1 TACATAATAA
*
33551077 TACATAA-CA
1 TACATAATAA
33551086 TACATAA
1 TACATAA
33551093 ATTAAATAAG
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
9 8 0.17
10 17 0.37
12 21 0.46
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (10 bp):
TACATAATAA
Found at i:33551259 original size:95 final size:95
Alignment explanation
Indices: 33551135--33551312 Score: 329
Period size: 95 Copynumber: 1.9 Consensus size: 95
33551125 AACTTACATA
33551135 ACTTACATAATAATACATACCATAAATAAATTAAATAAGTTACATAATACACAAAAACAAAAACT
1 ACTTACATAATAATACATACCATAAATAAATTAAATAAGTTACATAATACACAAAAACAAAAACT
33551200 TACATAACTTACATAATATCCTACATCCCT
66 TACATAACTTACATAATATCCTACATCCCT
** *
33551230 ACTTACATAATAATACATACTGTACATAAATTAAATAAGTTACATAATACACAAAAACAAAAACT
1 ACTTACATAATAATACATACCATAAATAAATTAAATAAGTTACATAATACACAAAAACAAAAACT
33551295 TACATAACTTACATAATA
66 TACATAACTTACATAATA
33551313 ACTTACATAA
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
95 80 1.00
ACGTcount: A:0.53, C:0.18, G:0.02, T:0.28
Consensus pattern (95 bp):
ACTTACATAATAATACATACCATAAATAAATTAAATAAGTTACATAATACACAAAAACAAAAACT
TACATAACTTACATAATATCCTACATCCCT
Found at i:33551315 original size:12 final size:12
Alignment explanation
Indices: 33551298--33551325 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
33551288 AAAAACTTAC
33551298 ATAACTTACATA
1 ATAACTTACATA
33551310 ATAACTTACATA
1 ATAACTTACATA
33551322 ATAA
1 ATAA
33551326 TGCATACCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (12 bp):
ATAACTTACATA
Found at i:33551403 original size:12 final size:12
Alignment explanation
Indices: 33551386--33551412 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
33551376 AAACATAGTG
33551386 TAACTTACATAA
1 TAACTTACATAA
33551398 TAACTTACATAA
1 TAACTTACATAA
33551410 TAA
1 TAA
33551413 TACATACTCT
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:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (12 bp):
TAACTTACATAA
Found at i:33551419 original size:87 final size:83
Alignment explanation
Indices: 33551046--33551447 Score: 395
Period size: 71 Copynumber: 4.8 Consensus size: 83
33551036 ATAATAACCT
*
33551046 ACATA-ATAACTTACATAATAA--TACATAATAATACATAAC-ATACATAAATTAAATAAGTTAC
1 ACATACATAACTTACATAATAACTTACATAATAATACAT-ACTCTACATAAATTAAATAAGTTAC
33551107 ATAATACACAAAAACAAAA
65 ATAATACACAAAAACAAAA
* *
33551126 ACTTACATAACTTACATAATAA--TAC---AT-A-CCATA----A-ATAAATTAAATAAGTTACA
1 ACATACATAACTTACATAATAACTTACATAATAATACATACTCTACATAAATTAAATAAGTTACA
33551179 TAATACACAAAAACAAAA
66 TAATACACAAAAACAAAA
* *
33551197 ACTTACATAACTTACATAATATCCTACATCCCTACTTACATAATAATACATACTGTACATAAATT
1 ACATACATAACTTACAT-A-A---T--A-----ACTTACATAATAATACATACTCTACATAAATT
33551262 AAATAAGTTACATAATACACAAAAACAAAA
54 AAATAAGTTACATAATACACAAAAACAAAA
* * *
33551292 ACTTACATAACTTACATAATAACTTACATAATAATGCATACCCTACATAAATTAAATAAGTTACA
1 ACATACATAACTTACATAATAACTTACATAATAATACATACTCTACATAAATTAAATAAGTTACA
**
33551357 TAATACACAATAAGGTTAAAA
66 TAATACACAA-AA--ACAAAA
** * * *
33551378 ACATAGTGTAACTTACATAATAACTTACATAATAATACATACTCTACATAATAATACATAACTTA
1 ACATA-CATAACTTACATAATAACTTACATAATAATACATACTCTACATAA-ATTAAATAAGTTA
33551443 CATAA
64 CATAA
33551448 GACATAACTT
Statistics
Matches: 276, Mismatches: 16, Indels: 52
0.80 0.05 0.15
Matches are distributed among these distances:
71 54 0.20
72 2 0.01
73 1 0.00
75 1 0.00
76 4 0.01
77 1 0.00
78 3 0.01
80 4 0.01
81 19 0.07
83 52 0.19
84 2 0.01
85 3 0.01
86 8 0.03
87 41 0.15
88 18 0.07
89 1 0.00
90 5 0.02
93 1 0.00
94 2 0.01
95 54 0.20
ACGTcount: A:0.53, C:0.17, G:0.02, T:0.28
Consensus pattern (83 bp):
ACATACATAACTTACATAATAACTTACATAATAATACATACTCTACATAAATTAAATAAGTTACA
TAATACACAAAAACAAAA
Found at i:33551427 original size:19 final size:19
Alignment explanation
Indices: 33551397--33551463 Score: 88
Period size: 19 Copynumber: 3.7 Consensus size: 19
33551387 AACTTACATA
33551397 ATAACTTACATAATAATAC
1 ATAACTTACATAATAATAC
33551416 AT-ACTCTACATAATAATAC
1 ATAACT-TACATAATAATAC
*
33551435 ATAACTTAC---ATAAGAC
1 ATAACTTACATAATAATAC
33551451 ATAACTTACATAA
1 ATAACTTACATAA
33551464 GTTTCATAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
16 15 0.36
18 3 0.07
19 21 0.50
20 3 0.07
ACGTcount: A:0.51, C:0.18, G:0.01, T:0.30
Consensus pattern (19 bp):
ATAACTTACATAATAATAC
Found at i:33551444 original size:9 final size:9
Alignment explanation
Indices: 33551397--33551535 Score: 116
Period size: 9 Copynumber: 15.9 Consensus size: 9
33551387 AACTTACATA
33551397 ATAACTTAC
1 ATAACTTAC
33551406 ATAA-TAATAC
1 ATAACT--TAC
33551416 AT-ACTCTAC
1 ATAACT-TAC
33551425 ATAA-TAATAC
1 ATAACT--TAC
33551435 ATAACTTAC
1 ATAACTTAC
*
33551444 ATAA--GAC
1 ATAACTTAC
33551451 ATAACTTAC
1 ATAACTTAC
* *
33551460 ATAAGTTTC
1 ATAACTTAC
33551469 ATAA--TAC
1 ATAACTTAC
*
33551476 ACAACTTAC
1 ATAACTTAC
*
33551485 ACAACTTAC
1 ATAACTTAC
*
33551494 ACAACTTAC
1 ATAACTTAC
33551503 ATAACTTAC
1 ATAACTTAC
33551512 ATAACTTAC
1 ATAACTTAC
33551521 ATAA--TAC
1 ATAACTTAC
33551528 ATAACTTA
1 ATAACTTA
33551536 TTCCTAAATC
Statistics
Matches: 109, Mismatches: 9, Indels: 24
0.77 0.06 0.17
Matches are distributed among these distances:
7 18 0.17
8 1 0.01
9 75 0.69
10 14 0.13
11 1 0.01
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.30
Consensus pattern (9 bp):
ATAACTTAC
Found at i:33551447 original size:16 final size:16
Alignment explanation
Indices: 33551428--33551535 Score: 86
Period size: 16 Copynumber: 6.9 Consensus size: 16
33551418 ACTCTACATA
33551428 ATAATACATAACTTAC
1 ATAATACATAACTTAC
*
33551444 ATAAGACATAACTTAC
1 ATAATACATAACTTAC
*
33551460 AT-A-A-GT---TT-C
1 ATAATACATAACTTAC
*
33551469 ATAATACACAACTTAC
1 ATAATACATAACTTAC
* *
33551485 ACAACTTACACAACTTAC
1 ATAA--TACATAACTTAC
33551503 ATAACTTACATAACTTAC
1 ATAA--TACATAACTTAC
33551521 ATAATACATAACTTA
1 ATAATACATAACTTA
33551536 TTCCTAAATC
Statistics
Matches: 76, Mismatches: 7, Indels: 18
0.75 0.07 0.18
Matches are distributed among these distances:
9 3 0.04
10 3 0.04
11 1 0.01
13 1 0.01
14 1 0.01
15 3 0.04
16 32 0.42
18 32 0.42
ACGTcount: A:0.47, C:0.21, G:0.02, T:0.30
Consensus pattern (16 bp):
ATAATACATAACTTAC
Found at i:33551471 original size:25 final size:25
Alignment explanation
Indices: 33551432--33551535 Score: 136
Period size: 25 Copynumber: 4.1 Consensus size: 25
33551422 TACATAATAA
*
33551432 TACATAACTTACATAAGACATAACT
1 TACATAACTTACATAATACATAACT
* * *
33551457 TACATAAGTTTCATAATACACAACT
1 TACATAACTTACATAATACATAACT
* *
33551482 TACACAACTTACACAACTTACATAACT
1 TACATAACTTACATAA--TACATAACT
33551509 TACATAACTTACATAATACATAACT
1 TACATAACTTACATAATACATAACT
33551534 TA
1 TA
33551536 TTCCTAAATC
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
25 44 0.67
27 22 0.33
ACGTcount: A:0.46, C:0.22, G:0.02, T:0.30
Consensus pattern (25 bp):
TACATAACTTACATAATACATAACT
Found at i:33557023 original size:21 final size:21
Alignment explanation
Indices: 33556999--33557047 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
33556989 GGCAACAAGG
* *
33556999 GAAGCAGATGCTACAGCGAGA
1 GAAGCAGAGGCCACAGCGAGA
33557020 GAAGCAGAGGCCACAGCGAGA
1 GAAGCAGAGGCCACAGCGAGA
33557041 GAAGCAG
1 GAAGCAG
33557048 CGAGAGAAGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.39, C:0.20, G:0.37, T:0.04
Consensus pattern (21 bp):
GAAGCAGAGGCCACAGCGAGA
Found at i:33557050 original size:12 final size:12
Alignment explanation
Indices: 33557033--33557059 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
33557023 GCAGAGGCCA
33557033 CAGCGAGAGAAG
1 CAGCGAGAGAAG
33557045 CAGCGAGAGAAG
1 CAGCGAGAGAAG
33557057 CAG
1 CAG
33557060 AGGTTCAAAA
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:0.41, C:0.19, G:0.41, T:0.00
Consensus pattern (12 bp):
CAGCGAGAGAAG
Found at i:33557620 original size:43 final size:42
Alignment explanation
Indices: 33557486--33557656 Score: 152
Period size: 43 Copynumber: 4.0 Consensus size: 42
33557476 GTTTGTGAAA
* **
33557486 TAAGCGCCGCTAAATAACACT-A-CTATTAGCGGCGTTTTTGAAC
1 TAAGCGCCGCTAAAGAACA-TGATCT-TTAGCGGCGTTTTT-TTC
* * **
33557529 -AAGCGCCGCTATAGAACATTA-CTTTTAGCGGCGTTTTCTACC
1 TAAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTT-TTTC
*
33557571 AAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT-TTTTC
* * * *
33557614 TTAGCGCCGCTAAAGATCATGTTCTTTAACGGCGTTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
33557656 T
1 T
33557657 GTAAGCGACG
Statistics
Matches: 110, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
41 1 0.01
42 39 0.35
43 68 0.62
44 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (42 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
Found at i:33557979 original size:52 final size:52
Alignment explanation
Indices: 33557907--33558007 Score: 148
Period size: 52 Copynumber: 1.9 Consensus size: 52
33557897 ATTATGGTCA
* * * *
33557907 AACCGTAATTTAGTTTACTTTAGGATTATATTAATTTAATTATCATAAATTG
1 AACCATAATCTAGGTTACTTTAGGATTATATTAATCTAATTATCATAAATTG
* *
33557959 AACCATAATCTAGGTTACTTTCGGATTATATTTATCTAATTATCATAAA
1 AACCATAATCTAGGTTACTTTAGGATTATATTAATCTAATTATCATAAA
33558008 CTTCCTTTGA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.44
Consensus pattern (52 bp):
AACCATAATCTAGGTTACTTTAGGATTATATTAATCTAATTATCATAAATTG
Found at i:33558480 original size:20 final size:19
Alignment explanation
Indices: 33558451--33558502 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
33558441 TTTTCCTTTT
*
33558451 TTTTTGTATTTTTATGAAAA
1 TTTTTATATTTTTA-GAAAA
*
33558471 TTTTTATATTTTTAGGAAA
1 TTTTTATATTTTTAGAAAA
*
33558490 -TTTTAAATTTTTA
1 TTTTTATATTTTTA
33558503 CACGTGACAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 12 0.41
19 4 0.14
20 13 0.45
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (19 bp):
TTTTTATATTTTTAGAAAA
Found at i:33558499 original size:18 final size:20
Alignment explanation
Indices: 33558458--33558502 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 20
33558448 TTTTTTTTGT
*
33558458 ATTTTTATGAAAATTTTTAT
1 ATTTTTATGAAAATTTTTAA
*
33558478 ATTTTTA-GGAAA-TTTTAA
1 ATTTTTATGAAAATTTTTAA
33558496 ATTTTTA
1 ATTTTTA
33558503 CACGTGACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 12 0.52
19 4 0.17
20 7 0.30
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.58
Consensus pattern (20 bp):
ATTTTTATGAAAATTTTTAA
Found at i:33561293 original size:29 final size:30
Alignment explanation
Indices: 33561243--33561317 Score: 93
Period size: 29 Copynumber: 2.6 Consensus size: 30
33561233 TTTGGGTTTT
33561243 TTATAAAAATAATATTAAAAAATTA-ATTAA
1 TTATAAAAATAATATTAAAAAA-TAGATTAA
* *
33561273 TTATAAAAATAGTA-TGAAAAATAGATTAA
1 TTATAAAAATAATATTAAAAAATAGATTAA
*
33561302 TTATGAAAATAA-ATTA
1 TTATAAAAATAATATTA
33561318 TGTTTTACTA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
28 3 0.08
29 22 0.58
30 13 0.34
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (30 bp):
TTATAAAAATAATATTAAAAAATAGATTAA
Found at i:33562437 original size:27 final size:30
Alignment explanation
Indices: 33562377--33562438 Score: 76
Period size: 27 Copynumber: 2.2 Consensus size: 30
33562367 TAGATTTTTA
* * *
33562377 ATTTTTATAATAACAAATTTAACTCTCAAT
1 ATTTATATAATAACAAATTTAACTCCCAAC
33562407 ATTTATATAA-AA-AAATTTAA-TCCCAAC
1 ATTTATATAATAACAAATTTAACTCCCAAC
33562434 ATTTA
1 ATTTA
33562439 CTCATTATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 10 0.34
28 8 0.28
29 2 0.07
30 9 0.31
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (30 bp):
ATTTATATAATAACAAATTTAACTCCCAAC
Found at i:33572470 original size:15 final size:16
Alignment explanation
Indices: 33572445--33572478 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
33572435 TCCGTTTTTC
33572445 TTAGATTAATTTATTT
1 TTAGATTAATTTATTT
*
33572461 TTAG-TTAATTTCTTT
1 TTAGATTAATTTATTT
33572476 TTA
1 TTA
33572479 AATTTAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (16 bp):
TTAGATTAATTTATTT
Found at i:33576433 original size:21 final size:21
Alignment explanation
Indices: 33576390--33576433 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
33576380 ATTGAATAAA
* *
33576390 ATAAAAAATAGTAAAAGACTT
1 ATAAAAAATACTAAAAGAATT
33576411 ATAAATAAATACTAAAA-AATT
1 ATAAA-AAATACTAAAAGAATT
33576432 AT
1 AT
33576434 TTAAATGCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.27
Consensus pattern (21 bp):
ATAAAAAATACTAAAAGAATT
Found at i:33580433 original size:21 final size:20
Alignment explanation
Indices: 33580387--33580437 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
33580377 CCTGATCAAT
**
33580387 ATACGACACATAAGTGCCTG
1 ATACGACACATAAACGCCTG
* *
33580407 AAACGACACATGAAACGTCTG
1 ATACGACACAT-AAACGCCTG
33580428 ATACGACACA
1 ATACGACACA
33580438 CGAGGAGCCT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 10 0.40
21 15 0.60
ACGTcount: A:0.41, C:0.25, G:0.18, T:0.16
Consensus pattern (20 bp):
ATACGACACATAAACGCCTG
Found at i:33580459 original size:23 final size:22
Alignment explanation
Indices: 33580428--33580481 Score: 83
Period size: 21 Copynumber: 2.5 Consensus size: 22
33580418 GAAACGTCTG
33580428 ATACGACACACGAGGAGCCT-A
1 ATACGACACACGAGGAGCCTAA
*
33580449 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACGAGGAGCCT-AA
33580472 ATACGACACA
1 ATACGACACA
33580482 TAAAGTGCCT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 19 0.63
23 11 0.37
ACGTcount: A:0.39, C:0.28, G:0.22, T:0.11
Consensus pattern (22 bp):
ATACGACACACGAGGAGCCTAA
Found at i:33580489 original size:23 final size:22
Alignment explanation
Indices: 33580387--33580517 Score: 121
Period size: 23 Copynumber: 6.0 Consensus size: 22
33580377 CCTGATCAAT
33580387 ATACGACACAT-AAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
33580408 A-ACGACACATGAAACGT--CTG-
1 ATACGACACAT-AAA-GTGCCTGA
** * *
33580428 ATACGACACACGAGGAGCCT-A
1 ATACGACACATAAAGTGCCTGA
** *
33580449 ATACGACACACGAGGTGCCTGAA
1 ATACGACACATAAAGTGCCTG-A
33580472 ATACGACACATAAAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
33580494 TATACGACACATAAAGTGCCTGA
1 -ATACGACACATAAAGTGCCTGA
33580517 A
1 A
33580518 CGGCAAAGTC
Statistics
Matches: 92, Mismatches: 8, Indels: 19
0.77 0.07 0.16
Matches are distributed among these distances:
19 1 0.01
20 11 0.12
21 33 0.36
22 4 0.04
23 43 0.47
ACGTcount: A:0.39, C:0.24, G:0.21, T:0.16
Consensus pattern (22 bp):
ATACGACACATAAAGTGCCTGA
Found at i:33581928 original size:5 final size:5
Alignment explanation
Indices: 33581920--33582000 Score: 137
Period size: 5 Copynumber: 16.0 Consensus size: 5
33581910 TTTATTTTAC
33581920 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
33581970 ATATA ATATA ATATA ATA-A TATATTA ATATA
1 ATATA ATATA ATATA ATATA -ATA-TA ATATA
33582001 TTTAAAACAT
Statistics
Matches: 73, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
4 1 0.01
5 68 0.93
6 3 0.04
7 1 0.01
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:33584670 original size:291 final size:291
Alignment explanation
Indices: 33584146--33584714 Score: 1075
Period size: 291 Copynumber: 2.0 Consensus size: 291
33584136 CTTTTCCATC
* *
33584146 TTGGTGCCTTCCATTGAACAATTGCCTCGACCTTCTTCGGATCAACTCTAATCCCATCAGTAGAT
1 TTGGTGCCTTCCATTGAACAATTGCCTCAACCTTCTTCGGATCAACTCTAATCCCATCAATAGAT
33584211 ACAACATGTCCCAAGAGTACTACCTCTGATAACCAGAATTCACATTTACTCAGCTTCTCGTACAA
66 ACAACATGTCCCAAGAGTACTACCTCTGATAACCAGAATTCACATTTACTCAGCTTCTCGTACAA
*
33584276 CTGTTTTTCCCGTAGAATCTGTAACACTGTTCTGAGATGCTAATTATGTTCTACCTTAGTCTTCG
131 CTGTTTTTCCCGCAGAATCTGTAACACTGTTCTGAGATGCTAATTATGTTCTACCTTAGTCTTCG
*
33584341 AATAAACTAATATATCATCAATAAAAACCACCACGAATTGATCTAAAAACGACTGAAAGACATGA
196 AATAAACCAATATATCATCAATAAAAACCACCACGAATTGATCTAAAAACGACTGAAAGACATGA
33584406 TTCATGATATCTATAAAAACTCCAAATCGTG
261 TTCATGATATCTATAAAAACTCCAAATCGTG
* *
33584437 TTGGTGCCTTCCATTGAACAATTGCCTCAACCTTTTTCGGATCAACTCTAATTCCATCAATAGAT
1 TTGGTGCCTTCCATTGAACAATTGCCTCAACCTTCTTCGGATCAACTCTAATCCCATCAATAGAT
33584502 ACAACATGTCCCAAGAGTACTACCTCTGATAACCAGAATTCACATTTACTCAGCTTCTCGTACAA
66 ACAACATGTCCCAAGAGTACTACCTCTGATAACCAGAATTCACATTTACTCAGCTTCTCGTACAA
*
33584567 CTGTTTTTCTCGCAGAATCTGTAACACTGTTCTGAGATGCTAATTATGTTCTACCTTAGTCTTCG
131 CTGTTTTTCCCGCAGAATCTGTAACACTGTTCTGAGATGCTAATTATGTTCTACCTTAGTCTTCG
33584632 AATAAACCAATATATCATCAATAAAAACCACCACGAATTGATCTAAAAACGACTGAAAGACATGA
196 AATAAACCAATATATCATCAATAAAAACCACCACGAATTGATCTAAAAACGACTGAAAGACATGA
33584697 TTCATGATATCTATAAAA
261 TTCATGATATCTATAAAA
33584715 GCAGCTGGGG
Statistics
Matches: 271, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
291 271 1.00
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.31
Consensus pattern (291 bp):
TTGGTGCCTTCCATTGAACAATTGCCTCAACCTTCTTCGGATCAACTCTAATCCCATCAATAGAT
ACAACATGTCCCAAGAGTACTACCTCTGATAACCAGAATTCACATTTACTCAGCTTCTCGTACAA
CTGTTTTTCCCGCAGAATCTGTAACACTGTTCTGAGATGCTAATTATGTTCTACCTTAGTCTTCG
AATAAACCAATATATCATCAATAAAAACCACCACGAATTGATCTAAAAACGACTGAAAGACATGA
TTCATGATATCTATAAAAACTCCAAATCGTG
Found at i:33585597 original size:18 final size:18
Alignment explanation
Indices: 33585564--33585616 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
33585554 ATTCACCTAA
*
33585564 ACCCAATCCAAACCCAAGT
1 ACCCAA-CCCAACCCAAGT
** *
33585583 ATTCAACCCAACCCAATT
1 ACCCAACCCAACCCAAGT
33585601 ACCCAACCCAACCCAA
1 ACCCAACCCAACCCAA
33585617 TCATAAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.42, C:0.45, G:0.02, T:0.11
Consensus pattern (18 bp):
ACCCAACCCAACCCAAGT
Found at i:33585667 original size:6 final size:6
Alignment explanation
Indices: 33585658--33585698 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
33585648 AAATAAAATT
33585658 CTAAAA CTAAAA CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
1 CTAAAA CTAAAA CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
33585699 GTCTAAAAGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.66, C:0.17, G:0.00, T:0.17
Consensus pattern (6 bp):
CTAAAA
Found at i:33585760 original size:9 final size:9
Alignment explanation
Indices: 33585738--33585813 Score: 89
Period size: 9 Copynumber: 8.4 Consensus size: 9
33585728 GTAGTGATTC
*
33585738 AATTCAGTT
1 AATTCGGTT
*
33585747 GATTCGGTT
1 AATTCGGTT
33585756 AATTCGGTT
1 AATTCGGTT
*
33585765 AATTCGGGT
1 AATTCGGTT
* *
33585774 AATCCGATT
1 AATTCGGTT
33585783 AATTCGGTT
1 AATTCGGTT
* *
33585792 AATTCAGAT
1 AATTCGGTT
33585801 AATTCGGTT
1 AATTCGGTT
33585810 AATT
1 AATT
33585814 TTTAACCAAA
Statistics
Matches: 54, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 54 1.00
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.41
Consensus pattern (9 bp):
AATTCGGTT
Found at i:33588957 original size:23 final size:23
Alignment explanation
Indices: 33588931--33588997 Score: 89
Period size: 23 Copynumber: 2.9 Consensus size: 23
33588921 TGAAACATCT
* *
33588931 AATACGACACACGAGGTGCCTGA
1 AATACGACACACAAAGTGCCTGA
*
33588954 AATACGACACATAAAGTGCCTGA
1 AATACGACACACAAAGTGCCTGA
* *
33588977 TATACGACACATAAAGTGCCT
1 AATACGACACACAAAGTGCCT
33588998 AAACAGTAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.39, C:0.24, G:0.19, T:0.18
Consensus pattern (23 bp):
AATACGACACACAAAGTGCCTGA
Found at i:33588996 original size:46 final size:42
Alignment explanation
Indices: 33588889--33589001 Score: 108
Period size: 46 Copynumber: 2.6 Consensus size: 42
33588879 TACCTGATCA
33588889 ATATACGACACATAAGTGCCTGAAACGACACATGAAACATCT
1 ATATACGACACATAAGTGCCTGAAACGACACATGAAACATCT
* * *
33588931 A-ATACGACACACGAGGTGCCTGAAATACGACACAT-AAA-GTGCCT
1 ATATACGACACA-TAAGTGCCTG-AA-ACGACACATGAAACAT--CT
33588975 GATATACGACACATAAAGTGCCT-AAAC
1 -ATATACGACACAT-AAGTGCCTGAAAC
33589002 AGTAAAGCCG
Statistics
Matches: 58, Mismatches: 5, Indels: 15
0.74 0.06 0.19
Matches are distributed among these distances:
41 10 0.17
42 10 0.17
43 7 0.12
44 13 0.22
45 1 0.02
46 17 0.29
ACGTcount: A:0.42, C:0.24, G:0.17, T:0.18
Consensus pattern (42 bp):
ATATACGACACATAAGTGCCTGAAACGACACATGAAACATCT
Found at i:33590349 original size:5 final size:5
Alignment explanation
Indices: 33590341--33590383 Score: 86
Period size: 5 Copynumber: 8.6 Consensus size: 5
33590331 TTTATTTTAC
33590341 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA
33590384 TTTAAAACAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 38 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:33593115 original size:25 final size:25
Alignment explanation
Indices: 33593052--33593120 Score: 77
Period size: 25 Copynumber: 2.7 Consensus size: 25
33593042 TTCCCGATAT
*
33593052 TGGCTCGTATGAGCTTCCTGTTACA
1 TGGCTCATATGAGCTTCCTGTTACA
* * *
33593077 TGGCTCATAAGAGCTTCCTATTTATA
1 TGGCTCATATGAGCTTCCT-GTTACA
33593103 T-GCTCATATGAGCATTCC
1 TGGCTCATATGAGC-TTCC
33593121 CGAATATGAA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
25 28 0.76
26 9 0.24
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.36
Consensus pattern (25 bp):
TGGCTCATATGAGCTTCCTGTTACA
Found at i:33601152 original size:2 final size:2
Alignment explanation
Indices: 33601145--33601210 Score: 114
Period size: 2 Copynumber: 33.0 Consensus size: 2
33601135 GATACCCTTT
* *
33601145 GA GA GA GA GA GA GA GA GA GA GA GA GA CA GA GG GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
33601187 GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA
33601211 ACGGAATCTG
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.48, C:0.02, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:33602882 original size:17 final size:17
Alignment explanation
Indices: 33602860--33602923 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 17
33602850 AATCTTAGAG
33602860 TTCTAATTGTATACAGC
1 TTCTAATTGTATACAGC
* *
33602877 TTCTAATTGTGT-CTTAGAG
1 TTCTAATTGTATAC--AG-C
33602896 TTCTAATTGTATACAGC
1 TTCTAATTGTATACAGC
*
33602913 TTTTAATTGTA
1 TTCTAATTGTA
33602924 GCCCTTGATG
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
16 1 0.03
17 21 0.55
18 4 0.11
19 11 0.29
20 1 0.03
ACGTcount: A:0.27, C:0.12, G:0.14, T:0.47
Consensus pattern (17 bp):
TTCTAATTGTATACAGC
Found at i:33602899 original size:36 final size:36
Alignment explanation
Indices: 33602852--33602922 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
33602842 GATTATGTAA
33602852 TCTTAGAGTTCTAATTGTATACAGCTTCTAATTGTG
1 TCTTAGAGTTCTAATTGTATACAGCTTCTAATTGTG
*
33602888 TCTTAGAGTTCTAATTGTATACAGCTTTTAATTGT
1 TCTTAGAGTTCTAATTGTATACAGCTTCTAATTGT
33602923 AGCCCTTGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.25, C:0.13, G:0.15, T:0.46
Consensus pattern (36 bp):
TCTTAGAGTTCTAATTGTATACAGCTTCTAATTGTG
Found at i:33602901 original size:19 final size:19
Alignment explanation
Indices: 33602851--33602907 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
33602841 TGATTATGTA
33602851 ATCTTAGAGTTCTAATTGT
1 ATCTTAGAGTTCTAATTGT
*
33602870 ATAC--AG-CTTCTAATTGT
1 AT-CTTAGAGTTCTAATTGT
*
33602887 GTCTTAGAGTTCTAATTGT
1 ATCTTAGAGTTCTAATTGT
33602906 AT
1 AT
33602908 ACAGCTTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
16 1 0.03
17 11 0.37
18 4 0.13
19 13 0.43
20 1 0.03
ACGTcount: A:0.26, C:0.12, G:0.16, T:0.46
Consensus pattern (19 bp):
ATCTTAGAGTTCTAATTGT
Found at i:33607993 original size:17 final size:17
Alignment explanation
Indices: 33607971--33608034 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 17
33607961 AATTTTAGAG
33607971 TTCTAATTGTATACAGC
1 TTCTAATTGTATACAGC
* *
33607988 TTCTAATTGTGT-CTTAGAG
1 TTCTAATTGTATAC--AG-C
33608007 TTCTAATTGTATACAGC
1 TTCTAATTGTATACAGC
*
33608024 TTTTAATTGTA
1 TTCTAATTGTA
33608035 GCCCTTGATG
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
16 1 0.03
17 21 0.55
18 4 0.11
19 11 0.29
20 1 0.03
ACGTcount: A:0.27, C:0.12, G:0.14, T:0.47
Consensus pattern (17 bp):
TTCTAATTGTATACAGC
Found at i:33608012 original size:36 final size:36
Alignment explanation
Indices: 33607965--33608033 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
33607955 TTATGTAATT
33607965 TTAGAGTTCTAATTGTATACAGCTTCTAATTGTGTC
1 TTAGAGTTCTAATTGTATACAGCTTCTAATTGTGTC
*
33608001 TTAGAGTTCTAATTGTATACAGCTTTTAATTGT
1 TTAGAGTTCTAATTGTATACAGCTTCTAATTGT
33608034 AGCCCTTGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.26, C:0.12, G:0.16, T:0.46
Consensus pattern (36 bp):
TTAGAGTTCTAATTGTATACAGCTTCTAATTGTGTC
Found at i:33608300 original size:49 final size:48
Alignment explanation
Indices: 33608228--33608324 Score: 167
Period size: 49 Copynumber: 2.0 Consensus size: 48
33608218 TGAGGGAATT
* *
33608228 CTGTTGAATCCTTTATCATTGCGAGATTAGGTTGACTTAGGTGTTTTTA
1 CTGTTGAATCCGTTATCATTGCGAG-TTAGGTTGACTTAGGCGTTTTTA
33608277 CTGTTGAATCCGTTATCATTGCGAGTTAGGTTGACTTAGGCGTTTTTA
1 CTGTTGAATCCGTTATCATTGCGAGTTAGGTTGACTTAGGCGTTTTTA
33608325 AGCAAAGAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
48 22 0.48
49 24 0.52
ACGTcount: A:0.20, C:0.13, G:0.24, T:0.43
Consensus pattern (48 bp):
CTGTTGAATCCGTTATCATTGCGAGTTAGGTTGACTTAGGCGTTTTTA
Found at i:33609659 original size:22 final size:22
Alignment explanation
Indices: 33609615--33609659 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
33609605 GTTTTTTATT
*
33609615 TAATTTTTATAGTTTTTAAAGA
1 TAATTTTTATAGATTTTAAAGA
33609637 TAATTTTTATA-ATTTTAATAGA
1 TAATTTTTATAGATTTTAA-AGA
33609659 T
1 T
33609660 TTATGAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.56
Consensus pattern (22 bp):
TAATTTTTATAGATTTTAAAGA
Found at i:33609807 original size:23 final size:23
Alignment explanation
Indices: 33609781--33609834 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
33609771 CCAATTTAAT
* *
33609781 AATTTTAAAATCAAATTAAATCA
1 AATTTTAAAAACAAATCAAATCA
*
33609804 AATTTCAAAAACAAATCAAATCA
1 AATTTTAAAAACAAATCAAATCA
33609827 AATTTTAA
1 AATTTTAA
33609835 CAAATTATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.31
Consensus pattern (23 bp):
AATTTTAAAAACAAATCAAATCA
Found at i:33612728 original size:20 final size:20
Alignment explanation
Indices: 33612688--33612825 Score: 109
Period size: 20 Copynumber: 6.9 Consensus size: 20
33612678 ATTTCTGGTG
** *
33612688 GCTTGTCTACAACATTGGCA
1 GCTTGTCTACATTACTGGCA
* *
33612708 GCTTGTCTACAATACTAGCA
1 GCTTGTCTACATTACTGGCA
* * * **
33612728 GTTTATCTGCATTACTGGTG
1 GCTTGTCTACATTACTGGCA
*
33612748 GTTTGTCTACATTACTGGCA
1 GCTTGTCTACATTACTGGCA
*
33612768 GCTTGTCTGCATTACTGGCA
1 GCTTGTCTACATTACTGGCA
33612788 GCTTGT-TCACATTTA-TGGCA
1 GCTTGTCT-ACA-TTACTGGCA
* * *
33612808 GTTTATCTGCATTACTGG
1 GCTTGTCTACATTACTGG
33612826 TGGCTTGTCC
Statistics
Matches: 94, Mismatches: 20, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
19 4 0.04
20 86 0.91
21 4 0.04
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (20 bp):
GCTTGTCTACATTACTGGCA
Found at i:33612777 original size:40 final size:40
Alignment explanation
Indices: 33612708--33612834 Score: 159
Period size: 40 Copynumber: 3.2 Consensus size: 40
33612698 AACATTGGCA
* *
33612708 GCTTGTCTACAATACTAGCAGTTTATCTGCATTACTGGTG
1 GCTTGTCTACATTACTGGCAGTTTATCTGCATTACTGGTG
* * * **
33612748 GTTTGTCTACATTACTGGCAGCTTGTCTGCATTACTGGCA
1 GCTTGTCTACATTACTGGCAGTTTATCTGCATTACTGGTG
33612788 GCTTGT-TCACATTTA-TGGCAGTTTATCTGCATTACTGGTG
1 GCTTGTCT-ACA-TTACTGGCAGTTTATCTGCATTACTGGTG
33612828 GCTTGTC
1 GCTTGTC
33612835 CACAAACTGG
Statistics
Matches: 72, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
39 1 0.01
40 68 0.94
41 3 0.04
ACGTcount: A:0.18, C:0.20, G:0.22, T:0.39
Consensus pattern (40 bp):
GCTTGTCTACATTACTGGCAGTTTATCTGCATTACTGGTG
Found at i:33618893 original size:31 final size:31
Alignment explanation
Indices: 33618858--33618923 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
33618848 TTTTTTAGCT
* *
33618858 AAATTTTACCATAAATATTTTAAAAAGAGTC
1 AAATTTGACCATAAACATTTTAAAAAGAGTC
* * *
33618889 AAATTTGACTATAAACCTTTTAAAAGGAGTC
1 AAATTTGACCATAAACATTTTAAAAAGAGTC
33618920 AAAT
1 AAAT
33618924 AGTTGCTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.47, C:0.11, G:0.09, T:0.33
Consensus pattern (31 bp):
AAATTTGACCATAAACATTTTAAAAAGAGTC
Found at i:33619035 original size:18 final size:19
Alignment explanation
Indices: 33619012--33619054 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 19
33619002 TATTTTATGC
* *
33619012 TATTTTTTTAATTTTT-TA
1 TATTTTTTAAATTTTTGAA
33619030 TA-TTTTTAAATTTTTGAA
1 TATTTTTTAAATTTTTGAA
33619048 TATTTTT
1 TATTTTT
33619055 ATCATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 12 0.57
18 5 0.24
19 4 0.19
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (19 bp):
TATTTTTTAAATTTTTGAA
Found at i:33619061 original size:19 final size:18
Alignment explanation
Indices: 33619015--33619071 Score: 62
Period size: 19 Copynumber: 3.2 Consensus size: 18
33619005 TTTATGCTAT
* *
33619015 TTTTTTAATTTTT-TATA
1 TTTTTAAATTTTTAAATA
*
33619032 TTTTTAAATTTTTGAATA
1 TTTTTAAATTTTTAAATA
*
33619050 TTTTTATCATTTTTAAATA
1 TTTTTA-AATTTTTAAATA
33619069 TTT
1 TTT
33619072 GTTGACGTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
17 12 0.35
18 9 0.26
19 13 0.38
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (18 bp):
TTTTTAAATTTTTAAATA
Found at i:33621528 original size:26 final size:26
Alignment explanation
Indices: 33621464--33621531 Score: 95
Period size: 26 Copynumber: 2.7 Consensus size: 26
33621454 AAAGTTCCGG
*
33621464 AGAGCCATTAAT-GGGAAGCTTACAA
1 AGAGCCATTAATCGGGAAGCTCACAA
*
33621489 AGAGCCTTTAATCGGGAAGCTCACAA
1 AGAGCCATTAATCGGGAAGCTCACAA
33621515 AGAGCCA-TATATCGGGA
1 AGAGCCATTA-ATCGGGA
33621532 CGCTTATAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
25 13 0.34
26 25 0.66
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.19
Consensus pattern (26 bp):
AGAGCCATTAATCGGGAAGCTCACAA
Found at i:33623226 original size:6 final size:6
Alignment explanation
Indices: 33623215--33623245 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
33623205 TAACCAACTT
33623215 TTAGAA TTAGAA TTAGAA TTAGAA TTA-AA TT
1 TTAGAA TTAGAA TTAGAA TTAGAA TTAGAA TT
33623246 GATAAATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.16
6 21 0.84
ACGTcount: A:0.48, C:0.00, G:0.13, T:0.39
Consensus pattern (6 bp):
TTAGAA
Found at i:33625228 original size:15 final size:15
Alignment explanation
Indices: 33625216--33625271 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
33625206 AAAATTCAGT
*
33625216 ACTTAAATTTTCAAT
1 ACTTAAATTTTCAAC
* *
33625231 ACATAATTTTTCAAC
1 ACTTAAATTTTCAAC
** *
33625246 ACTTATTTTTTCAGC
1 ACTTAAATTTTCAAC
33625261 ACTTAAATTTT
1 ACTTAAATTTT
33625272 AGTTTAGTAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.34, C:0.16, G:0.02, T:0.48
Consensus pattern (15 bp):
ACTTAAATTTTCAAC
Found at i:33630113 original size:7 final size:7
Alignment explanation
Indices: 33630089--33630123 Score: 52
Period size: 7 Copynumber: 4.7 Consensus size: 7
33630079 AATGAATATG
33630089 TGTGCTTC
1 TGTG-TTC
33630097 TGTGGTTC
1 TGT-GTTC
33630105 TGTGTTC
1 TGTGTTC
33630112 TGTGTTC
1 TGTGTTC
33630119 TGTGT
1 TGTGT
33630124 GCTCACTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 16 0.62
8 9 0.35
9 1 0.04
ACGTcount: A:0.00, C:0.14, G:0.31, T:0.54
Consensus pattern (7 bp):
TGTGTTC
Found at i:33632502 original size:14 final size:14
Alignment explanation
Indices: 33632483--33632521 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
33632473 AGCTGAGTAC
33632483 GAGGTCGAGTTTTT
1 GAGGTCGAGTTTTT
33632497 GAGGTCGAGTTTTT
1 GAGGTCGAGTTTTT
*
33632511 GAGGTTGAGTT
1 GAGGTCGAGTT
33632522 GGTATGCACG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.15, C:0.05, G:0.38, T:0.41
Consensus pattern (14 bp):
GAGGTCGAGTTTTT
Found at i:33638154 original size:20 final size:20
Alignment explanation
Indices: 33638129--33638169 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
33638119 ATACATGTCA
33638129 TTTTATAACCTGTGATAGTG
1 TTTTATAACCTGTGATAGTG
33638149 TTTTATAACCTGTGATAGTG
1 TTTTATAACCTGTGATAGTG
33638169 T
1 T
33638170 GATGTCTCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.10, G:0.20, T:0.46
Consensus pattern (20 bp):
TTTTATAACCTGTGATAGTG
Found at i:33649239 original size:27 final size:27
Alignment explanation
Indices: 33649209--33649353 Score: 127
Period size: 27 Copynumber: 5.4 Consensus size: 27
33649199 GGTATAACAA
* *
33649209 TCATTTTACCTTATATGGGTATTTTGG
1 TCATTTTACCTTATAGGGGTATTTCGG
** *
33649236 TCATACTA-CTCTATGGGGGTAGTTT-GG
1 TCATTTTACCT-TATAGGGGTA-TTTCGG
* * *
33649263 TTATTTTACCCTATAAGGGTATTTCGG
1 TCATTTTACCTTATAGGGGTATTTCGG
* *
33649290 TCATTTTACCCTAT-GAGGGTATTTCAG
1 TCATTTTACCTTATAG-GGGTATTTCGG
*
33649317 TTATTTTACCTTA-AGGAGGTATTTCGG
1 TCATTTTACCTTATAGG-GGTATTTCGG
33649344 TCATTTTACC
1 TCATTTTACC
33649354 CTATTTTGGG
Statistics
Matches: 94, Mismatches: 17, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
26 6 0.06
27 84 0.89
28 4 0.04
ACGTcount: A:0.21, C:0.15, G:0.20, T:0.44
Consensus pattern (27 bp):
TCATTTTACCTTATAGGGGTATTTCGG
Found at i:33649269 original size:54 final size:54
Alignment explanation
Indices: 33649211--33649357 Score: 163
Period size: 54 Copynumber: 2.7 Consensus size: 54
33649201 TATAACAATC
* * * * *
33649211 ATTTTACCTTATATGGGTATTTTGGTCATACTACTCTATGGGGGTAGTTT-GGTT
1 ATTTTACCTTATAAGGGTATTTCGGTCATACTACCCTATGAGGGTA-TTTCAGTT
* **
33649265 ATTTTACCCTATAAGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTCAGTT
1 ATTTTACCTTATAAGGGTATTTCGGTCATACTACCCTATGAGGGTATTTCAGTT
* **
33649319 ATTTTACCTTA-AGGAGGTATTTCGGTCATTTTACCCTAT
1 ATTTTACCTTATAAG-GGTATTTCGGTCATACTACCCTAT
33649358 TTTGGGGTCT
Statistics
Matches: 81, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
53 5 0.06
54 76 0.94
ACGTcount: A:0.21, C:0.15, G:0.20, T:0.44
Consensus pattern (54 bp):
ATTTTACCTTATAAGGGTATTTCGGTCATACTACCCTATGAGGGTATTTCAGTT
Found at i:33650068 original size:12 final size:12
Alignment explanation
Indices: 33650051--33650092 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
33650041 ATCCCAATAT
33650051 TCTCTCCTCAAA
1 TCTCTCCTCAAA
*
33650063 TCTCTCC-AAATA
1 TCTCTCCTCAA-A
*
33650075 TCCCTCCTCAAA
1 TCTCTCCTCAAA
33650087 TCTCTC
1 TCTCTC
33650093 TATGACCAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
11 2 0.08
12 20 0.83
13 2 0.08
ACGTcount: A:0.24, C:0.43, G:0.00, T:0.33
Consensus pattern (12 bp):
TCTCTCCTCAAA
Found at i:33658047 original size:40 final size:40
Alignment explanation
Indices: 33657992--33658199 Score: 195
Period size: 40 Copynumber: 5.2 Consensus size: 40
33657982 TGAGCCATAC
* *
33657992 CTACTGAAACGTATGCGCTTTCGAGCGATACCGACTAAAT
1 CTACTGAAACGTATGCGCTTTCGAGCCATACCTACTAAAT
* * *
33658032 CTACTGAAATGTATGCACTTTTGAGCCATACCTACTAAAT
1 CTACTGAAACGTATGCGCTTTCGAGCCATACCTACTAAAT
* * * **
33658072 CTATTGAAACGTATGCGCTTTCAAGCGA-ACCTACTGGAT
1 CTACTGAAACGTATGCGCTTTCGAGCCATACCTACTAAAT
* * * * * *
33658111 CTATTGAAACGCATGTGCTTTTGAGCCATACTTACTGAAT
1 CTACTGAAACGTATGCGCTTTCGAGCCATACCTACTAAAT
** * * *
33658151 CTACTGAAGTGTAGGCGCTTTCGAGCCGTACTTAC-AGAAT
1 CTACTGAAACGTATGCGCTTTCGAGCCATACCTACTA-AAT
*
33658191 CTATTGAAA
1 CTACTGAAA
33658200 GGAATGCTCT
Statistics
Matches: 135, Mismatches: 31, Indels: 4
0.79 0.18 0.02
Matches are distributed among these distances:
39 32 0.24
40 103 0.76
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (40 bp):
CTACTGAAACGTATGCGCTTTCGAGCCATACCTACTAAAT
Found at i:33658140 original size:79 final size:79
Alignment explanation
Indices: 33657992--33658199 Score: 236
Period size: 79 Copynumber: 2.6 Consensus size: 79
33657982 TGAGCCATAC
* * * * *
33657992 CTACTGAAACGTATGCGCTTTCGAGCGATACCGACTAAATCTACTGAAATGTATGCACTTTTGAG
1 CTACTGAAACGTATGCGCTTTCGAGCGA-ACCTACTGAATCTATTGAAACGCATGCACTTTTGAG
33658057 CCATACCTACTAAAT
65 CCATACCTACTAAAT
* * * **
33658072 CTATTGAAACGTATGCGCTTTCAAGCGAACCTACTGGATCTATTGAAACGCATGTGCTTTTGAGC
1 CTACTGAAACGTATGCGCTTTCGAGCGAACCTACTGAATCTATTGAAACGCATGCACTTTTGAGC
* *
33658137 CATACTTACTGAAT
66 CATACCTACTAAAT
** * * * *
33658151 CTACTGAAGTGTAGGCGCTTTCGAGCCGTACTTACAGAATCTATTGAAA
1 CTACTGAAACGTATGCGCTTTCGAG-CGAACCTACTGAATCTATTGAAA
33658200 GGAATGCTCT
Statistics
Matches: 106, Mismatches: 21, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
79 61 0.58
80 45 0.42
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (79 bp):
CTACTGAAACGTATGCGCTTTCGAGCGAACCTACTGAATCTATTGAAACGCATGCACTTTTGAGC
CATACCTACTAAAT
Found at i:33659393 original size:10 final size:10
Alignment explanation
Indices: 33659378--33659408 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
33659368 TTTCCTGAAA
33659378 GTTCTGATTT
1 GTTCTGATTT
33659388 GTTCTGATTT
1 GTTCTGATTT
33659398 GTTCTGATTT
1 GTTCTGATTT
33659408 G
1 G
33659409 GTCATTGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.10, C:0.10, G:0.23, T:0.58
Consensus pattern (10 bp):
GTTCTGATTT
Found at i:33662835 original size:16 final size:13
Alignment explanation
Indices: 33662802--33662826 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33662792 AAGAATTGAT
33662802 TTTTTAATTATTA
1 TTTTTAATTATTA
33662815 TTTTTAATTATT
1 TTTTTAATTATT
33662827 GAAATTTTTT
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:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTTAATTATTA
Found at i:33663137 original size:11 final size:11
Alignment explanation
Indices: 33663121--33663146 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
33663111 GAGGTATGTT
33663121 ATTTTGATTAA
1 ATTTTGATTAA
33663132 ATTTTGATTAA
1 ATTTTGATTAA
33663143 ATTT
1 ATTT
33663147 ATGGAGTTGT
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:0.35, C:0.00, G:0.08, T:0.58
Consensus pattern (11 bp):
ATTTTGATTAA
Found at i:33672110 original size:23 final size:23
Alignment explanation
Indices: 33672079--33672123 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
33672069 TACAATCAAC
33672079 ATTACACA-TATCAACAAGCCATA
1 ATTACACATTA-CAACAAGCCATA
*
33672102 ATTAGACATTCACAACAAGCCA
1 ATTACACATT-ACAACAAGCCA
33672124 AAATAAGTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 7 0.37
24 11 0.58
25 1 0.05
ACGTcount: A:0.47, C:0.27, G:0.07, T:0.20
Consensus pattern (23 bp):
ATTACACATTACAACAAGCCATA
Found at i:33673213 original size:33 final size:32
Alignment explanation
Indices: 33673168--33673328 Score: 142
Period size: 33 Copynumber: 4.8 Consensus size: 32
33673158 ACATTCGTAG
* * *
33673168 TGCCATAACCCAGTTATGATCTTATCATCAAAA
1 TGCCATAGCCCAGCTATGGTCTTA-CATCAAAA
*
33673201 TGCCATAGCCCAGCTATGGTCTTACATATAAACA
1 TGCCATAGCCCAGCTATGGTCTTACAT-CAAA-A
* * * * * * *
33673235 CTGCCATGGTCCAACCATGGTCTTACGTTCATAG
1 -TGCCATAGCCCAGCTATGGTCTTAC-ATCAAAA
* *
33673269 TGCCATAACCCAGTTATGGTCTTATCATCAAAA
1 TGCCATAGCCCAGCTATGGTCTTA-CATCAAAA
*
33673302 TGCCATAGCCCAGCTATGGTTTTACAT
1 TGCCATAGCCCAGCTATGGTCTTACAT
33673329 TTAAACACTG
Statistics
Matches: 99, Mismatches: 24, Indels: 11
0.74 0.18 0.08
Matches are distributed among these distances:
32 6 0.06
33 67 0.68
34 2 0.02
35 23 0.23
36 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (32 bp):
TGCCATAGCCCAGCTATGGTCTTACATCAAAA
Found at i:33673340 original size:101 final size:101
Alignment explanation
Indices: 33673156--33673395 Score: 408
Period size: 101 Copynumber: 2.4 Consensus size: 101
33673146 AATTCATCCT
* * *
33673156 TTACATTCGTAGTGCCATAACCCAGTTATGATCTTATCATCAAAATGCCATAGCCCAGCTATGGT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGCCATAGCCCAGCTATGGT
* *
33673221 CTTACATATAAACACTGCCATGGTCCAACCATGGTC
66 CTTACATATAAACACTGCCATGATCCAACCATAGTC
33673257 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGCCATAGCCCAGCTATGGT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGCCATAGCCCAGCTATGGT
* *
33673322 TTTACATTTAAACACTGCCATGATCCAACCATAGTC
66 CTTACATATAAACACTGCCATGATCCAACCATAGTC
*
33673358 TTACGTTCATAGTGTCATAACCCAGTTATGGTCTTATC
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATC
33673396 TGTCAATTCA
Statistics
Matches: 131, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
101 131 1.00
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (101 bp):
TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGCCATAGCCCAGCTATGGT
CTTACATATAAACACTGCCATGATCCAACCATAGTC
Found at i:33681527 original size:23 final size:22
Alignment explanation
Indices: 33681492--33681535 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
33681482 AAAAAATAGT
33681492 TAAATATTAAATTCATATAAATA
1 TAAATATTAAATTCAT-TAAATA
*
33681515 TAAATTATT-AATTTATTAAAT
1 TAAA-TATTAAATTCATTAAAT
33681536 TTTATATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 5 0.26
23 10 0.53
24 4 0.21
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
TAAATATTAAATTCATTAAATA
Found at i:33687658 original size:29 final size:29
Alignment explanation
Indices: 33687618--33687676 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
33687608 TCATGGAAAA
* * *
33687618 GGTGGAGAACTTTTTCGTTGAGAGTTCGT
1 GGTGAAGAACTTATTCGTTGAGAATTCGT
33687647 GGTGAAGAACTTATTCGTTGAGAATTCGT
1 GGTGAAGAACTTATTCGTTGAGAATTCGT
33687676 G
1 G
33687677 TCAAGGTGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.22, C:0.10, G:0.32, T:0.36
Consensus pattern (29 bp):
GGTGAAGAACTTATTCGTTGAGAATTCGT
Found at i:33688480 original size:17 final size:17
Alignment explanation
Indices: 33688458--33688490 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
33688448 ATATTTAATA
33688458 TATATTTAATTAAAAAG
1 TATATTTAATTAAAAAG
*
33688475 TATATTTGATTAAAAA
1 TATATTTAATTAAAAA
33688491 TAAAAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (17 bp):
TATATTTAATTAAAAAG
Found at i:33699216 original size:23 final size:22
Alignment explanation
Indices: 33699173--33699216 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
33699163 TTCTAAGTCG
33699173 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
33699196 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
33699217 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:33699325 original size:45 final size:45
Alignment explanation
Indices: 33699261--33699349 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
33699251 AACAGATACT
* *
33699261 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTG
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTG
*
33699306 CGGTGGAATCAGCACATAGCAACCACTTTACTAATCAATGATGT
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
33699350 TCAGTTCACA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTG
Found at i:33699418 original size:51 final size:50
Alignment explanation
Indices: 33699360--33699537 Score: 180
Period size: 51 Copynumber: 3.5 Consensus size: 50
33699350 TCAGTTCACA
*
33699360 TAGTAGCCTCCACATAGTACTACACATGTGAACATTACCATTCGATACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGAACA-TACCATTCGATACACG
* * * * * * * *
33699411 TAGTAGCCTGCACATTGTACTACACACGTGATCGAAACTA-TCTGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACATGTGAAC-ATACCATTC-GATACACG
* * * *
33699462 TAGTAGCCTGCATATAGTACTACACATGTG-ACCTATCATTCCGACACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGAACATACCATT-CGATACACG
*
33699512 TAGTAGCCTACACATAGTACTACACA
1 TAGTAGCCTGCACATAGTACTACACA
33699538 CGAGACCATC
Statistics
Matches: 100, Mismatches: 23, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
49 2 0.02
50 32 0.32
51 65 0.65
52 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACATGTGAACATACCATTCGATACACG
Found at i:33699566 original size:101 final size:100
Alignment explanation
Indices: 33699357--33699542 Score: 250
Period size: 101 Copynumber: 1.9 Consensus size: 100
33699347 TGTTCAGTTC
* * *
33699357 ACATAGTAGCCTCCACATAGTACTACACATGTGAACATTACCATTCGATACACGTAGTAGCCTGC
1 ACATAGTAGCCTCCACATAGTACTACACATGTGAACACTACCATTCGACACACGTAGTAGCCTAC
* * *
33699422 ACATTGTACTACACACGTGATCGAAACTATCTGGT
66 ACATAGTACTACACACGAGATCCAAACTATCTGGT
* * *
33699457 ACGCATAGTAGCCTGCATATAGTACTACACATGTG-AC-CTATCATTCCGACACACGTAGTAGCC
1 A--CATAGTAGCCTCCACATAGTACTACACATGTGAACACTACCATT-CGACACACGTAGTAGCC
33699520 TACACATAGTACTACACACGAGA
63 TACACATAGTACTACACACGAGA
33699543 CCATCGCTTT
Statistics
Matches: 75, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
100 7 0.09
101 38 0.51
102 30 0.40
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (100 bp):
ACATAGTAGCCTCCACATAGTACTACACATGTGAACACTACCATTCGACACACGTAGTAGCCTAC
ACATAGTACTACACACGAGATCCAAACTATCTGGT
Found at i:33699784 original size:16 final size:16
Alignment explanation
Indices: 33699763--33699793 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
33699753 CATTCCAGTC
33699763 GAAAAATCATATTTTG
1 GAAAAATCATATTTTG
*
33699779 GAAAAATTATATTTT
1 GAAAAATCATATTTT
33699794 TTCCCCTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.03, G:0.10, T:0.42
Consensus pattern (16 bp):
GAAAAATCATATTTTG
Found at i:33708414 original size:23 final size:23
Alignment explanation
Indices: 33708388--33708431 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
33708378 CTTGATTTTC
33708388 TCAAATCTGGTTGGTGGTTGCTT
1 TCAAATCTGGTTGGTGGTTGCTT
* *
33708411 TCAAATTTGGTTGGTTGTTGC
1 TCAAATCTGGTTGGTGGTTGC
33708432 ATGATTTTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.14, C:0.11, G:0.30, T:0.45
Consensus pattern (23 bp):
TCAAATCTGGTTGGTGGTTGCTT
Found at i:33724998 original size:21 final size:21
Alignment explanation
Indices: 33724967--33725058 Score: 100
Period size: 21 Copynumber: 4.4 Consensus size: 21
33724957 CGAGATTCTG
33724967 GGTTT-GGGTTCAAGATTTAA
1 GGTTTAGGGTTCAAGATTTAA
*
33724987 GGTTTAGGGTTCAAGGTTTAA
1 GGTTTAGGGTTCAAGATTTAA
* *
33725008 GGTTTAAAGGTT-AAGGATTTAG
1 GGTTT-AGGGTTCAA-GATTTAA
*
33725030 GGTTT-GGGTTTAAGATTTAA
1 GGTTTAGGGTTCAAGATTTAA
33725050 GGGTTTAGG
1 -GGTTTAGG
33725059 ATTCGTGATT
Statistics
Matches: 60, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
20 15 0.25
21 28 0.47
22 17 0.28
ACGTcount: A:0.25, C:0.02, G:0.34, T:0.39
Consensus pattern (21 bp):
GGTTTAGGGTTCAAGATTTAA
Found at i:33725019 original size:8 final size:7
Alignment explanation
Indices: 33724982--33725056 Score: 64
Period size: 7 Copynumber: 10.6 Consensus size: 7
33724972 GGGTTCAAGA
33724982 TTTAAGG
1 TTTAAGG
*
33724989 TTTAGGG
1 TTTAAGG
*
33724996 TTCAAGG
1 TTTAAGG
33725003 TTTAAGG
1 TTTAAGG
33725010 TTTAAAGG
1 TTT-AAGG
33725018 -TTAAGG
1 TTTAAGG
*
33725024 ATTTAGGG
1 -TTTAAGG
*
33725032 TTT-GGG
1 TTTAAGG
*
33725038 TTTAAGA
1 TTTAAGG
33725045 TTTAAGGG
1 TTTAA-GG
33725053 TTTA
1 TTTA
33725057 GGATTCGTGA
Statistics
Matches: 55, Mismatches: 8, Indels: 9
0.76 0.11 0.12
Matches are distributed among these distances:
6 10 0.18
7 31 0.56
8 14 0.25
ACGTcount: A:0.27, C:0.01, G:0.31, T:0.41
Consensus pattern (7 bp):
TTTAAGG
Found at i:33728501 original size:24 final size:24
Alignment explanation
Indices: 33728473--33728525 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
33728463 TTTTTAGAAG
*
33728473 ATTTAGTATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
* *
33728497 ATTTAGCATTTATTAGCATAGTTT
1 ATTTAGCATTTATTAGCATAATAT
33728521 ATTTA
1 ATTTA
33728526 ACCTACTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.34, C:0.06, G:0.09, T:0.51
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:33730669 original size:21 final size:21
Alignment explanation
Indices: 33730624--33730674 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
33730614 GGTTTAGAGG
* *
33730624 TTAAGGGTTTGGGTTTTGGGGT
1 TTAA-GGTTTAGGTTTTGGGAT
*
33730646 TTAAGGTTTAGGTTTTTGGAT
1 TTAAGGTTTAGGTTTTGGGAT
*
33730667 TTAGGGTT
1 TTAAGGTT
33730675 ACGAGTTTGA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.14, C:0.00, G:0.37, T:0.49
Consensus pattern (21 bp):
TTAAGGTTTAGGTTTTGGGAT
Found at i:33730716 original size:15 final size:16
Alignment explanation
Indices: 33730679--33730718 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
33730669 AGGGTTACGA
33730679 GTTTGAGGTTTAAGAT
1 GTTTGAGGTTTAAGAT
*
33730695 -TTCGAGGTTTAAG-T
1 GTTTGAGGTTTAAGAT
33730709 GTTTGAGGTT
1 GTTTGAGGTT
33730719 ATAGTTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
14 1 0.05
15 20 0.95
ACGTcount: A:0.20, C:0.03, G:0.33, T:0.45
Consensus pattern (16 bp):
GTTTGAGGTTTAAGAT
Found at i:33738390 original size:42 final size:42
Alignment explanation
Indices: 33738307--33738400 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 42
33738297 ACCATGTGGC
* *
33738307 CAGGCCATGTGACTCACACGACTGAGACACATACCCATGTCT
1 CAGGCCATGTGACTCACACGACTAAGACACACACCCATGTCT
* * * * * *
33738349 CAGGCCATGTGGCTGACACGACTAAGATAGACGCCCGTGTCT
1 CAGGCCATGTGACTCACACGACTAAGACACACACCCATGTCT
*
33738391 TAGGCCATGT
1 CAGGCCATGT
33738401 AACAATCGAA
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.26, C:0.30, G:0.24, T:0.20
Consensus pattern (42 bp):
CAGGCCATGTGACTCACACGACTAAGACACACACCCATGTCT
Found at i:33738938 original size:31 final size:31
Alignment explanation
Indices: 33738900--33738961 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
33738890 TAACTTATTT
*
33738900 CCATCTCAAAACATGTCATTCTTGACCTATA
1 CCATCTCAAAACATGTCATTCTTAACCTATA
33738931 CCATCTCAAAACATGTCATTCTTAACCTATA
1 CCATCTCAAAACATGTCATTCTTAACCTATA
33738962 GCATGCATCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.34, C:0.29, G:0.05, T:0.32
Consensus pattern (31 bp):
CCATCTCAAAACATGTCATTCTTAACCTATA
Found at i:33746518 original size:27 final size:27
Alignment explanation
Indices: 33746475--33746526 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
33746465 CAATGAGTCA
*
33746475 GGGAATCAACACTTAGCAACCCCTTAG
1 GGGAATCAACACATAGCAACCCCTTAG
*
33746502 GGGAATCAGCACATAGCAACCCCTT
1 GGGAATCAACACATAGCAACCCCTT
33746527 TCACATTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.33, C:0.31, G:0.19, T:0.17
Consensus pattern (27 bp):
GGGAATCAACACATAGCAACCCCTTAG
Found at i:33746519 original size:102 final size:102
Alignment explanation
Indices: 33746399--33746599 Score: 339
Period size: 102 Copynumber: 2.0 Consensus size: 102
33746389 CCAGTGATTT
* * *
33746399 GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGATGGAATTAGCACTTAGCAACCA
1 GGGGAATCAGCACATAGCAACCCCTTTCACATTTAAAATACGATGGAATCAGCACTTAGCAACCA
33746464 CCAATGAGTCAGGGAATCAACACTTAGCAACCCCTTA
66 CCAATGAGTCAGGGAATCAACACTTAGCAACCCCTTA
*
33746501 GGGGAATCAGCACATAGCAACCCCTTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACATAGCAACCCCTTTCACATTTAAAATACGATGGAATCAGCACTTAGCAACCA
* * *
33746566 CCAATGATTCGGGGAATCAGCACTTAGCAACCCC
66 CCAATGAGTCAGGGAATCAACACTTAGCAACCCC
33746600 CTTTATATTC
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
102 92 1.00
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.20
Consensus pattern (102 bp):
GGGGAATCAGCACATAGCAACCCCTTTCACATTTAAAATACGATGGAATCAGCACTTAGCAACCA
CCAATGAGTCAGGGAATCAACACTTAGCAACCCCTTA
Found at i:33753220 original size:16 final size:16
Alignment explanation
Indices: 33753185--33753218 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
33753175 TTTAATCGCC
33753185 TTTTCTTTTCTTTTCT
1 TTTTCTTTTCTTTTCT
33753201 TTTTCTTTT-TTTT-T
1 TTTTCTTTTCTTTTCT
33753215 TTTT
1 TTTT
33753219 TTGCTCAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.28
15 4 0.22
16 9 0.50
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (16 bp):
TTTTCTTTTCTTTTCT
Found at i:33753593 original size:3 final size:3
Alignment explanation
Indices: 33753585--33753612 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
33753575 AGGCAATAAT
33753585 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
33753613 ACATACTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Done.