Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 71 of 344
Found at i:23027438 original size:41 final size:41
Alignment explanation
Indices: 23027391--23027483 Score: 127
Period size: 41 Copynumber: 2.3 Consensus size: 41
23027381 TTAAAATTCT
*
23027391 TAAACCCTAAACTTAAATTA-TTTTAATAAA-ACCCTAACCC
1 TAAACCCTAAACCTAAATTATTTTTAA-AAAGACCCTAACCC
* *
23027431 TACAACCCTAAACCTAAATTATTTTTAAAAAGATCCTAACCT
1 TA-AACCCTAAACCTAAATTATTTTTAAAAAGACCCTAACCC
23027473 TAAACCCTAAA
1 TAAACCCTAAA
23027484 AACCCTAAAC
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
40 2 0.04
41 29 0.62
42 16 0.34
ACGTcount: A:0.45, C:0.25, G:0.01, T:0.29
Consensus pattern (41 bp):
TAAACCCTAAACCTAAATTATTTTTAAAAAGACCCTAACCC
Found at i:23027870 original size:26 final size:25
Alignment explanation
Indices: 23027823--23027879 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
23027813 TTAAAATTGA
*
23027823 TTTTATTTTGAAATTTAAATCTTATT
1 TTTTATTTAGAAATTTAAATCTT-TT
**
23027849 TTTTATTTAGAAATTTTGATCTTTT
1 TTTTATTTAGAAATTTAAATCTTTT
23027874 TATTTA
1 T-TTTA
23027880 GTTTTTTCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 3 0.11
26 24 0.89
ACGTcount: A:0.28, C:0.04, G:0.05, T:0.63
Consensus pattern (25 bp):
TTTTATTTAGAAATTTAAATCTTTT
Found at i:23029124 original size:29 final size:26
Alignment explanation
Indices: 23029066--23029135 Score: 88
Period size: 29 Copynumber: 2.6 Consensus size: 26
23029056 TATAATTTTT
*
23029066 TAAAACAATAAAAAAATCTTTAAAAA
1 TAAAAAAATAAAAAAATCTTTAAAAA
23029092 TAAAAAAATAAAAACACAT-TTTAAAAATA
1 TAAAAAAATAAAAA-A-ATCTTT-AAAA-A
23029121 TAAAAAAATAAAAAA
1 TAAAAAAATAAAAAA
23029136 TTCAATGTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
26 13 0.33
27 4 0.10
28 7 0.18
29 15 0.38
ACGTcount: A:0.73, C:0.06, G:0.00, T:0.21
Consensus pattern (26 bp):
TAAAAAAATAAAAAAATCTTTAAAAA
Found at i:23031685 original size:46 final size:45
Alignment explanation
Indices: 23031632--23031807 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 45
23031622 TATTTGGGCA
* *
23031632 TCCGAACTCGTTGATTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
23031678 TCCGAACTCATTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCATTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* **
23031725 TCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
23031771 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGG
23031808 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 65 0.62
47 30 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (45 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:23031787 original size:93 final size:93
Alignment explanation
Indices: 23031628--23031799 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
23031618 AGGATATTTG
* * *
23031628 GGCATCCGAACTCGTTGATTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
23031693 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
23031721 GGCATCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
23031786 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
23031800 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:23043302 original size:24 final size:24
Alignment explanation
Indices: 23043270--23043386 Score: 135
Period size: 24 Copynumber: 4.9 Consensus size: 24
23043260 TCGGTCAAGG
*
23043270 AAATTCGCACACATAGTGCCATGC
1 AAATCCGCACACATAGTGCCATGC
* * *
23043294 TAACCCGCACACATAGTGCCTTGC
1 AAATCCGCACACATAGTGCCATGC
* * * *
23043318 TAATCCACACACGTAGTGCCATTC
1 AAATCCGCACACATAGTGCCATGC
* *
23043342 AAATCTGCACACATAGTGCCATTC
1 AAATCCGCACACATAGTGCCATGC
*
23043366 AAATCTGCACACATAGTGCCA
1 AAATCCGCACACATAGTGCCA
23043387 ATGTCATTTC
Statistics
Matches: 80, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 80 1.00
ACGTcount: A:0.32, C:0.32, G:0.15, T:0.22
Consensus pattern (24 bp):
AAATCCGCACACATAGTGCCATGC
Found at i:23044688 original size:17 final size:17
Alignment explanation
Indices: 23044666--23044699 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
23044656 CCCCACTTAA
*
23044666 TATATTATAACTTATTT
1 TATATTATAACATATTT
23044683 TATATTATAACATATTT
1 TATATTATAACATATTT
23044700 CAAATATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (17 bp):
TATATTATAACATATTT
Found at i:23048894 original size:19 final size:20
Alignment explanation
Indices: 23048870--23048907 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
23048860 ATGATATACC
*
23048870 ACATTTAACCATC-ACATGA
1 ACATTTAAACATCAACATGA
23048889 ACATTTAAACATCAACATG
1 ACATTTAAACATCAACATG
23048908 CATAATTAGT
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:0.45, C:0.24, G:0.05, T:0.26
Consensus pattern (20 bp):
ACATTTAAACATCAACATGA
Found at i:23049861 original size:14 final size:14
Alignment explanation
Indices: 23049842--23049872 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
23049832 CATGCAATCA
23049842 ATATCTAAATTAAC
1 ATATCTAAATTAAC
23049856 ATATCTAAATTAAC
1 ATATCTAAATTAAC
23049870 ATA
1 ATA
23049873 CATTTAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (14 bp):
ATATCTAAATTAAC
Found at i:23051859 original size:39 final size:39
Alignment explanation
Indices: 23051816--23051938 Score: 201
Period size: 39 Copynumber: 3.2 Consensus size: 39
23051806 GCAATTAGCA
* *
23051816 TGCTAGGTATAAACCTGAACTTATCACCGGCATGAGGCC
1 TGCTAGGTATAAACATGAACTTATCACCGGCACGAGGCC
* *
23051855 TGCTAGGTATAAACTTGAACTTATCACTGGCACGAGGCC
1 TGCTAGGTATAAACATGAACTTATCACCGGCACGAGGCC
*
23051894 TACTAGGTATAAACATGAACTTATCACCGGCACGAGGCC
1 TGCTAGGTATAAACATGAACTTATCACCGGCACGAGGCC
23051933 TGCTAG
1 TGCTAG
23051939 ACATTAAGTC
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 77 1.00
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (39 bp):
TGCTAGGTATAAACATGAACTTATCACCGGCACGAGGCC
Found at i:23059673 original size:39 final size:39
Alignment explanation
Indices: 23059619--23059702 Score: 114
Period size: 39 Copynumber: 2.2 Consensus size: 39
23059609 GCAATTAGCA
*
23059619 TGCTAGGTATAAACCTAAACTTATCATCGACACGAGGCC
1 TGCTAGGTATAAACCTAAACTTATCACCGACACGAGGCC
* * * * *
23059658 TGCTAGGTATAAACCTGAATTTATCACCGGCATGAGGCT
1 TGCTAGGTATAAACCTAAACTTATCACCGACACGAGGCC
23059697 TGCTAG
1 TGCTAG
23059703 ACATTAAGTT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (39 bp):
TGCTAGGTATAAACCTAAACTTATCACCGACACGAGGCC
Found at i:23061177 original size:25 final size:25
Alignment explanation
Indices: 23061149--23061198 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
23061139 TCCAAATATA
23061149 CAAAGATTTTAAATGAAAGAGCATT
1 CAAAGATTTTAAATGAAAGAGCATT
23061174 CAAAGATTTTAAATGAAAGAGCATT
1 CAAAGATTTTAAATGAAAGAGCATT
23061199 AAACATACCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.48, C:0.08, G:0.16, T:0.28
Consensus pattern (25 bp):
CAAAGATTTTAAATGAAAGAGCATT
Found at i:23063770 original size:21 final size:20
Alignment explanation
Indices: 23063744--23063791 Score: 69
Period size: 21 Copynumber: 2.4 Consensus size: 20
23063734 CAGATAATAA
* *
23063744 TTAACTATTAACTAACTGTGT
1 TTAACTACTAACTAACTCT-T
23063765 TTAACTACTAACTAACTCTT
1 TTAACTACTAACTAACTCTT
23063785 TTAACTA
1 TTAACTA
23063792 ACTTTATCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.35, C:0.19, G:0.04, T:0.42
Consensus pattern (20 bp):
TTAACTACTAACTAACTCTT
Found at i:23066459 original size:10 final size:10
Alignment explanation
Indices: 23066434--23066478 Score: 65
Period size: 10 Copynumber: 4.5 Consensus size: 10
23066424 TCTTAAAAAA
23066434 TAAAAAAGATT
1 TAAAAAA-ATT
*
23066445 T-AAAAATTT
1 TAAAAAAATT
23066454 TAAAAAAATT
1 TAAAAAAATT
23066464 TAAAAAAATT
1 TAAAAAAATT
23066474 TAAAA
1 TAAAA
23066479 CTCAAAGTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
9 3 0.10
10 27 0.87
11 1 0.03
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (10 bp):
TAAAAAAATT
Found at i:23068628 original size:20 final size:21
Alignment explanation
Indices: 23068591--23068640 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
23068581 AGAAACAAAT
*
23068591 TATTTTATTCATTCATTTA-A
1 TATTTTATTCATTAATTTATA
**
23068611 TATTTTATTTTTTAATTTATA
1 TATTTTATTCATTAATTTATA
*
23068632 TAATTTATT
1 TATTTTATT
23068641 AAATCACTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 16 0.64
21 9 0.36
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (21 bp):
TATTTTATTCATTAATTTATA
Found at i:23068752 original size:9 final size:9
Alignment explanation
Indices: 23068735--23068783 Score: 64
Period size: 9 Copynumber: 5.4 Consensus size: 9
23068725 TTATATTTTT
23068735 AAATATTAA
1 AAATATTAA
*
23068744 AAATTTTAA
1 AAATATTAA
*
23068753 AAA-ATAAAA
1 AAATAT-TAA
23068762 AAATATTAA
1 AAATATTAA
23068771 AAATATTAA
1 AAATATTAA
23068780 AAAT
1 AAAT
23068784 TAAAGTTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
8 1 0.03
9 31 0.91
10 2 0.06
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (9 bp):
AAATATTAA
Found at i:23068765 original size:27 final size:27
Alignment explanation
Indices: 23068735--23068787 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
23068725 TTATATTTTT
*
23068735 AAATATTAAAAATTTTAAAAAATAAAA
1 AAATATTAAAAATATTAAAAAATAAAA
*
23068762 AAATATTAAAAATATTAAAAATTAAA
1 AAATATTAAAAATATTAAAAAATAAA
23068788 GTTTTTAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (27 bp):
AAATATTAAAAATATTAAAAAATAAAA
Found at i:23082453 original size:30 final size:30
Alignment explanation
Indices: 23082419--23082480 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
23082409 ACTGAATTGG
23082419 TTGAAATTTGGAGACAGAAATACATCATTT
1 TTGAAATTTGGAGACAGAAATACATCATTT
23082449 TTGAAATTTGGAGACAGAAATACATCATTT
1 TTGAAATTTGGAGACAGAAATACATCATTT
23082479 TT
1 TT
23082481 TCACATCCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (30 bp):
TTGAAATTTGGAGACAGAAATACATCATTT
Found at i:23089747 original size:9 final size:9
Alignment explanation
Indices: 23089723--23089800 Score: 120
Period size: 9 Copynumber: 8.3 Consensus size: 9
23089713 TTCATTTAAC
23089723 AAACACATT
1 AAACACATT
23089732 GAAACACATT
1 -AAACACATT
23089742 AAACACATT
1 AAACACATT
23089751 AAACACATT
1 AAACACATT
23089760 AAACACATT
1 AAACACATT
*
23089769 AATTAGACATT
1 AA--ACACATT
23089780 AAACACATT
1 AAACACATT
23089789 AAACACATT
1 AAACACATT
23089798 AAA
1 AAA
23089801 TTATTCCAGC
Statistics
Matches: 64, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
9 47 0.73
10 9 0.14
11 8 0.12
ACGTcount: A:0.55, C:0.19, G:0.03, T:0.23
Consensus pattern (9 bp):
AAACACATT
Found at i:23092236 original size:26 final size:25
Alignment explanation
Indices: 23092206--23092275 Score: 97
Period size: 24 Copynumber: 2.8 Consensus size: 25
23092196 GAGTAACGGT
* *
23092206 TAGTAAGCTCCTCTTGAGCTGGTAAA
1 TAGTAAGCT-CTATTGAGCTGGAAAA
23092232 TAGTAAGCTCTATTGAGCT-GAAAA
1 TAGTAAGCTCTATTGAGCTGGAAAA
*
23092256 TGGTAAGCTCTATTGAGCTG
1 TAGTAAGCTCTATTGAGCTG
23092276 AACATAAGCT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
24 22 0.55
25 9 0.22
26 9 0.22
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (25 bp):
TAGTAAGCTCTATTGAGCTGGAAAA
Found at i:23092261 original size:24 final size:23
Alignment explanation
Indices: 23092208--23092298 Score: 96
Period size: 24 Copynumber: 3.9 Consensus size: 23
23092198 GTAACGGTTA
* *
23092208 GTAAGCTCCTCTTGAGCTGGTAAAT
1 GTAAGCT-CTATTGAGCT-GAAAAT
23092233 AGTAAGCTCTATTGAGCTGAAAAT
1 -GTAAGCTCTATTGAGCTGAAAAT
*
23092257 GGTAAGCTCTATTGAGCTGAACA-
1 -GTAAGCTCTATTGAGCTGAAAAT
*
23092280 -TAAGCTCTATCGAGCTGAA
1 GTAAGCTCTATTGAGCTGAA
23092299 TCGGTAAGCT
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
21 18 0.30
24 26 0.43
25 9 0.15
26 7 0.12
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.29
Consensus pattern (23 bp):
GTAAGCTCTATTGAGCTGAAAAT
Found at i:23092285 original size:21 final size:22
Alignment explanation
Indices: 23092207--23092333 Score: 96
Period size: 23 Copynumber: 5.5 Consensus size: 22
23092197 AGTAACGGTT
*
23092207 AGTAAGCTCCTCTTGAGCTGGTAAA
1 AGTAAGCT-CTATTGAGCT-G-AAA
23092232 TAGTAAGCTCTATTGAGCTGAAA
1 -AGTAAGCTCTATTGAGCTGAAA
*
23092255 ATGGTAAGCTCTATTGAGCTGAAC
1 A--GTAAGCTCTATTGAGCTGAAA
* *
23092279 A-TAAGCTCTATCGAGCTGAATC
1 AGTAAGCTCTATTGAGCTGAA-A
* * *
23092301 GGTAAGCT-TCAATGAACTGAAA
1 AGTAAGCTCT-ATTGAGCTGAAA
23092323 CAGTAAGCTCT
1 -AGTAAGCTCT
23092334 TACAAGCTGA
Statistics
Matches: 85, Mismatches: 9, Indels: 16
0.77 0.08 0.15
Matches are distributed among these distances:
21 18 0.21
22 3 0.04
23 24 0.28
24 23 0.27
25 9 0.11
26 8 0.09
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (22 bp):
AGTAAGCTCTATTGAGCTGAAA
Found at i:23106357 original size:27 final size:27
Alignment explanation
Indices: 23106327--23106450 Score: 101
Period size: 27 Copynumber: 4.6 Consensus size: 27
23106317 TATAGGGTAG
23106327 AATTACAAAAATACCCCTAGTTTGTAA
1 AATTACAAAAATACCCCTAGTTTGTAA
* * * *
23106354 AATTACCAAAATACCACTGGTTTGTGA
1 AATTACAAAAATACCCCTAGTTTGTAA
* * *
23106381 AATGATC-GAAATA-CCCTCAATTTGTAA
1 AATTA-CAAAAATACCCCT-AGTTTGTAA
* **
23106408 AATTACCAAAATACCCCT-GATTTACAA
1 AATTACAAAAATACCCCTAG-TTTGTAA
*
23106435 AATTATAAAAATACCC
1 AATTACAAAAATACCC
23106451 TTGACTTTCT
Statistics
Matches: 75, Mismatches: 17, Indels: 10
0.74 0.17 0.10
Matches are distributed among these distances:
26 4 0.05
27 66 0.88
28 5 0.07
ACGTcount: A:0.44, C:0.20, G:0.08, T:0.28
Consensus pattern (27 bp):
AATTACAAAAATACCCCTAGTTTGTAA
Found at i:23106447 original size:54 final size:55
Alignment explanation
Indices: 23106327--23106451 Score: 146
Period size: 54 Copynumber: 2.3 Consensus size: 55
23106317 TATAGGGTAG
* * * ***
23106327 AATTACAAAAATACCC-CTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGA
1 AATTATAAAAATACCCTCTAATTTGTAAAATTACCAAAATACCACTGATTTACAA
* ** *
23106381 AATGATCGAAATACCCTC-AATTTGTAAAATTACCAAAATACCCCTGATTTACAA
1 AATTATAAAAATACCCTCTAATTTGTAAAATTACCAAAATACCACTGATTTACAA
23106435 AATTATAAAAATACCCT
1 AATTATAAAAATACCCT
23106452 TGACTTTCTA
Statistics
Matches: 57, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
54 56 0.98
55 1 0.02
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.29
Consensus pattern (55 bp):
AATTATAAAAATACCCTCTAATTTGTAAAATTACCAAAATACCACTGATTTACAA
Found at i:23107459 original size:25 final size:25
Alignment explanation
Indices: 23107431--23107500 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
23107421 AGGAAGTGCT
* * *
23107431 AAAAGGGCTATACCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
23107456 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
23107481 AAAAGGCCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
23107501 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:23107512 original size:25 final size:26
Alignment explanation
Indices: 23107443--23107512 Score: 85
Period size: 25 Copynumber: 2.8 Consensus size: 26
23107433 AAGGGCTATA
*
23107443 CCCCAGTTTACCGAAAAG-GG-CTTTG
1 CCCCAGTTTATC-AAAAGAGGCCTTTG
23107468 CCCCAGTTTATCAAAA-AGGCCTTTG
1 CCCCAGTTTATCAAAAGAGGCCTTTG
*
23107493 CCCCAG-TTATTAAAAGAGGC
1 CCCCAGTTTATCAAAAGAGGC
23107513 TAGGCCTCCA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
24 14 0.35
25 26 0.65
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (26 bp):
CCCCAGTTTATCAAAAGAGGCCTTTG
Found at i:23107709 original size:42 final size:42
Alignment explanation
Indices: 23107648--23107739 Score: 175
Period size: 42 Copynumber: 2.2 Consensus size: 42
23107638 TAGTCTCCCC
*
23107648 AAATGGGCTTGCATGCATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
23107690 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
23107732 AAATGGGC
1 AAATGGGC
23107740 CTAAGGGCCA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
Found at i:23107832 original size:31 final size:31
Alignment explanation
Indices: 23107763--23107833 Score: 124
Period size: 31 Copynumber: 2.3 Consensus size: 31
23107753 CGTTTACAAT
*
23107763 AAAGGCTCCGGCCCAGTGATATGATTAATGA
1 AAAGGCTTCGGCCCAGTGATATGATTAATGA
*
23107794 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTAATGA
23107825 AAAGGCTTC
1 AAAGGCTTC
23107834 AGCCGAGTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTAATGA
Found at i:23114155 original size:26 final size:27
Alignment explanation
Indices: 23114082--23114146 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
23114072 ATTACCAAAG
* * *
23114082 TACCCTCGATTTATAGAATCA-CTGTTT
1 TACCCTCGATTTACAAAATTATC-GTTT
23114109 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTATCGTTT
23114136 TACCCTC-ATTT
1 TACCCTCGATTT
23114147 GTGAAATTAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 4 0.12
27 29 0.85
28 1 0.03
ACGTcount: A:0.26, C:0.25, G:0.08, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTATCGTTT
Found at i:23114208 original size:27 final size:27
Alignment explanation
Indices: 23114178--23114301 Score: 87
Period size: 27 Copynumber: 4.6 Consensus size: 27
23114168 TATAGGGTAG
23114178 AATTACAAAAATACCCCTAGTTTGTAA
1 AATTACAAAAATACCCCTAGTTTGTAA
* * * *
23114205 AATTACCAAAAA-AACACTGGTTTGT-G
1 AATTA-CAAAAATACCCCTAGTTTGTAA
* *
23114231 AATTGATC-GAAATA-CCCTCAATTTGTAA
1 AATT-A-CAAAAATACCCCT-AGTTTGTAA
* **
23114259 AATTACCAAAATACCCCT-GATTTACAA
1 AATTACAAAAATACCCCTAG-TTTGTAA
23114286 AATTACAAAAATACCC
1 AATTACAAAAATACCC
23114302 TTGACTTTCT
Statistics
Matches: 74, Mismatches: 15, Indels: 16
0.70 0.14 0.15
Matches are distributed among these distances:
26 11 0.15
27 49 0.66
28 14 0.19
ACGTcount: A:0.44, C:0.20, G:0.08, T:0.27
Consensus pattern (27 bp):
AATTACAAAAATACCCCTAGTTTGTAA
Found at i:23115319 original size:25 final size:25
Alignment explanation
Indices: 23115281--23115350 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
23115271 AGGAAGTGCT
* *
23115281 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
23115306 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
23115331 AAAAGGCCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
23115351 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:23115362 original size:25 final size:26
Alignment explanation
Indices: 23115291--23115362 Score: 89
Period size: 25 Copynumber: 2.9 Consensus size: 26
23115281 AAAAGGGCTA
*
23115291 TGCCCCAGTTTACCGAAAAG-GG-CTT
1 TGCCCCAGTTTATC-AAAAGAGGCCTT
23115316 TGCCCCAGTTTATCAAAA-AGGCCTT
1 TGCCCCAGTTTATCAAAAGAGGCCTT
*
23115341 TGCCCCAG-TTATTAAAAGAGGC
1 TGCCCCAGTTTATCAAAAGAGGC
23115363 TAGGCCTCCA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
24 14 0.33
25 28 0.67
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (26 bp):
TGCCCCAGTTTATCAAAAGAGGCCTT
Found at i:23115559 original size:42 final size:42
Alignment explanation
Indices: 23115498--23115589 Score: 175
Period size: 42 Copynumber: 2.2 Consensus size: 42
23115488 TAGTCTCCCC
*
23115498 AAATGGGCTTGCATGCATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
23115540 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
23115582 AAATGGGC
1 AAATGGGC
23115590 CTAAGGGCCA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
Found at i:23123722 original size:5 final size:5
Alignment explanation
Indices: 23123707--23123798 Score: 55
Period size: 5 Copynumber: 17.2 Consensus size: 5
23123697 TTTTTAGTTC
* *
23123707 TTTATT TTTAT TTTAT TTTAT TATT-T GTTAT TGTT-T GTTATT TTATAT
1 TTTA-T TTTAT TTTAT TTTAT T-TTAT TTTAT T-TTAT TTTA-T TT-TAT
*
23123755 TTTAT ATTTAT TTTAGT TTCT-T TCTTAA TTTAT TTTAT TTTAT T
1 TTTAT -TTTAT TTTA-T TT-TAT T-TTAT TTTAT TTTAT TTTAT T
23123799 ATTCTGCTTC
Statistics
Matches: 69, Mismatches: 6, Indels: 23
0.70 0.06 0.23
Matches are distributed among these distances:
4 4 0.06
5 39 0.57
6 23 0.33
7 3 0.04
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.74
Consensus pattern (5 bp):
TTTAT
Found at i:23123968 original size:12 final size:12
Alignment explanation
Indices: 23123953--23124003 Score: 66
Period size: 12 Copynumber: 4.2 Consensus size: 12
23123943 TTACTATATA
*
23123953 TTTTATTATTCT
1 TTTTATTCTTCT
23123965 TTTTATTCTTCT
1 TTTTATTCTTCT
*
23123977 TCTTATTCTTCT
1 TTTTATTCTTCT
* *
23123989 TATTATTCTTAT
1 TTTTATTCTTCT
23124001 TTT
1 TTT
23124004 AAGTATGTCA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTTATTCTTCT
Found at i:23125494 original size:5 final size:5
Alignment explanation
Indices: 23125475--23125508 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
23125465 TTTTATTCGT
*
23125475 TTTAT TTTAA TTTTAA TTTAA TTTAA TTTAA TTT
1 TTTAA TTTAA -TTTAA TTTAA TTTAA TTTAA TTT
23125509 TTATGTTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
5 22 0.81
6 5 0.19
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (5 bp):
TTTAA
Found at i:23125494 original size:11 final size:11
Alignment explanation
Indices: 23125474--23125509 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
23125464 ATTTTATTCG
*
23125474 TTTTATTTTAA
1 TTTTAATTTAA
23125485 TTTTAATTTAA
1 TTTTAATTTAA
23125496 -TTTAATTTAA
1 TTTTAATTTAA
23125506 TTTT
1 TTTT
23125510 TATGTTTATG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 10 0.43
11 13 0.57
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTTAATTTAA
Found at i:23125549 original size:26 final size:24
Alignment explanation
Indices: 23125505--23125559 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 24
23125495 ATTTAATTTA
23125505 ATTTTTATGTTTATGTTTATTTCT
1 ATTTTTATGTTTATGTTTATTTCT
*
23125529 ATTTTTAGTTGTTT-TGTTTTATTTTT
1 ATTTTTA--TGTTTATG-TTTATTTCT
23125555 ATTTT
1 ATTTT
23125560 CTTATACTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 7 0.26
25 2 0.07
26 18 0.67
ACGTcount: A:0.15, C:0.02, G:0.09, T:0.75
Consensus pattern (24 bp):
ATTTTTATGTTTATGTTTATTTCT
Found at i:23127432 original size:18 final size:18
Alignment explanation
Indices: 23127401--23127480 Score: 58
Period size: 18 Copynumber: 4.3 Consensus size: 18
23127391 ATTGTTAATG
*
23127401 TTTTTAACAA-TTTTACAA
1 TTTTT-ACAATTTTTATAA
*
23127419 TTTTTATAATTTTTAGTAA
1 TTTTTACAATTTTTA-TAA
*
23127438 -TTTTGCAATTTTTA-ATA
1 TTTTTACAATTTTTATA-A
*
23127455 TTTTTAAATATTTGTTATAA
1 TTTTTACA-ATTT-TTATAA
23127475 TTTTTA
1 TTTTTA
23127481 ATTTTAAAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
16 1 0.02
17 4 0.08
18 27 0.55
19 6 0.12
20 10 0.20
21 1 0.02
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.60
Consensus pattern (18 bp):
TTTTTACAATTTTTATAA
Found at i:23127467 original size:27 final size:27
Alignment explanation
Indices: 23127384--23127482 Score: 78
Period size: 27 Copynumber: 3.6 Consensus size: 27
23127374 TATTTTTTTA
* *
23127384 TTTACAAATTGTTAATGTTTTTAACA-AT
1 TTTAC-AATTTTTAATATTTTTAA-ATAT
*
23127412 TTTACAATTTTT-ATAATTTTT-AGTAAT
1 TTTACAATTTTTAAT-ATTTTTAAAT-AT
*
23127439 TTTGCAATTTTTAATATTTTTAAATATT
1 TTTACAATTTTTAATATTTTTAAATA-T
*
23127467 TGTTATAATTTTTAAT
1 T-TTACAATTTTTAAT
23127483 TTTAAAATAA
Statistics
Matches: 57, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
26 3 0.05
27 31 0.54
28 11 0.19
29 12 0.21
ACGTcount: A:0.33, C:0.04, G:0.05, T:0.58
Consensus pattern (27 bp):
TTTACAATTTTTAATATTTTTAAATAT
Found at i:23129520 original size:30 final size:32
Alignment explanation
Indices: 23129484--23129548 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
23129474 AAAATAATTA
**
23129484 TTAGTGATTGA-TT-TGGTATTTTTTTTAAAT
1 TTAGTGATTGAGTTATAATATTTTTTTTAAAT
*
23129514 TTAGTGATTGAGTTATAATTTTTTTTTTAAAT
1 TTAGTGATTGAGTTATAATATTTTTTTTAAAT
23129546 TTA
1 TTA
23129549 ATGGCTGTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 11 0.37
31 2 0.07
32 17 0.57
ACGTcount: A:0.26, C:0.00, G:0.14, T:0.60
Consensus pattern (32 bp):
TTAGTGATTGAGTTATAATATTTTTTTTAAAT
Found at i:23129913 original size:22 final size:21
Alignment explanation
Indices: 23129875--23129919 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
23129865 GAAAATTAAT
23129875 AATTATTATTAATTAATTATA
1 AATTATTATTAATTAATTATA
* *
23129896 AATTTTTATTAAATTAATTTTA
1 AATTATTATT-AATTAATTATA
23129918 AA
1 AA
23129920 ATTCAAATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
AATTATTATTAATTAATTATA
Found at i:23144611 original size:17 final size:17
Alignment explanation
Indices: 23144589--23144625 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
23144579 ATGCACTAAC
* *
23144589 ATGAAAATGTAATGACA
1 ATGAAAACGCAATGACA
23144606 ATGAAAACGCAATGACA
1 ATGAAAACGCAATGACA
23144623 ATG
1 ATG
23144626 TATACTTATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.51, C:0.11, G:0.19, T:0.19
Consensus pattern (17 bp):
ATGAAAACGCAATGACA
Found at i:23145072 original size:17 final size:18
Alignment explanation
Indices: 23145050--23145084 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
23145040 TTCTTCGTTT
23145050 CTTTCTCAT-TTTAGCAA
1 CTTTCTCATCTTTAGCAA
*
23145067 CTTTCTCTTCTTTAGCAA
1 CTTTCTCATCTTTAGCAA
23145085 TAGCTTCCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.20, C:0.26, G:0.06, T:0.49
Consensus pattern (18 bp):
CTTTCTCATCTTTAGCAA
Found at i:23145534 original size:24 final size:24
Alignment explanation
Indices: 23145502--23145572 Score: 124
Period size: 24 Copynumber: 3.0 Consensus size: 24
23145492 CTGTCAGGAG
23145502 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
23145526 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
**
23145550 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGTTGATAAGGGA
23145573 GGAAATCAAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.35, C:0.01, G:0.38, T:0.25
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:23148139 original size:46 final size:46
Alignment explanation
Indices: 23148071--23148161 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
23148061 TATATATACA
* * **
23148071 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATCTCACATTAACCATTCAGCTTTACCACATATC
* *
23148117 CATCTCATACACATTTCGCATTAACCATTCAGCTTTACCACATAT
1 CATCTCATACACATCTCACATTAACCATTCAGCTTTACCACATAT
23148162 ATACACTTCC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.30, C:0.31, G:0.05, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAACCATTCAGCTTTACCACATATC
Found at i:23148210 original size:47 final size:47
Alignment explanation
Indices: 23148175--23148607 Score: 733
Period size: 47 Copynumber: 9.2 Consensus size: 47
23148165 CACTTCCACG
*
23148175 TTCATCACATTGGCCATTCTGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
23148222 TTTATCACATTGGCCATTCGGCCTTATCACATA-AGTGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATA-TGCATGTTCACA
23148269 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
23148316 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
23148363 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGATCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
23148410 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
23148457 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACC
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* * *
23148504 TTTATCACATTGGTCATTCGGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* * * * **
23148551 TTCATCACATTTGCCATTCGGCCTTAGCTCATATATACACATTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
23148598 TTCATCACAT
1 TTCATCACAT
23148608 AAAATCCTAA
Statistics
Matches: 365, Mismatches: 19, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
46 1 0.00
47 363 0.99
48 1 0.00
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.34
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
Found at i:23151598 original size:29 final size:28
Alignment explanation
Indices: 23151562--23151639 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
23151552 TCATGAGATT
*
23151562 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGAGTTTAAA--GTACA
23151592 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGAGTTTAAAGTACA
23151619 TGGCACTAAGTGTGCGCAGTT
1 -GGCACTAAGTGTGCG-AGTT
23151640 GATTATTAAG
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
27 5 0.11
29 35 0.80
30 4 0.09
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGAGTTTAAAGTACA
Found at i:23152003 original size:175 final size:174
Alignment explanation
Indices: 23151592--23152094 Score: 916
Period size: 175 Copynumber: 2.9 Consensus size: 174
23151582 AAATTGTACA
* * *
23151592 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCAGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
23151657 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
*
23151722 TTTGGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
23151766 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTATTGAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
23151831 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
23151896 TTTTGGACAGCGGAAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGG-AAAAGGTAAGTGTGCGAACTTGAAATGCATG
23151941 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* * *
23152006 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACGTGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
23152071 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
23152095 ACCTTGAGTT
Statistics
Matches: 317, Mismatches: 11, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
174 148 0.47
175 169 0.53
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:23155564 original size:13 final size:13
Alignment explanation
Indices: 23155546--23155571 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23155536 ATTTTTATTT
23155546 TTAACATAAAATA
1 TTAACATAAAATA
23155559 TTAACATAAAATA
1 TTAACATAAAATA
23155572 ATTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:23157015 original size:11 final size:10
Alignment explanation
Indices: 23156987--23157020 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
23156977 AGCCTGTAAG
23156987 TATTCTGAAT
1 TATTCTGAAT
*
23156997 TTTTCTGAAT
1 TATTCTGAAT
23157007 ATATTCTGAAT
1 -TATTCTGAAT
23157018 TAT
1 TAT
23157021 CTGTCTATAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:23162227 original size:24 final size:24
Alignment explanation
Indices: 23162195--23162263 Score: 102
Period size: 24 Copynumber: 2.9 Consensus size: 24
23162185 GTCAGGAGAG
23162195 GATTTAGGAGTTGATAAGGGATAA
1 GATTTAGGAGTTGATAAGGGATAA
* *
23162219 GATTTAGGAGTTGACAAGGGATAG
1 GATTTAGGAGTTGATAAGGGATAA
**
23162243 GATTTAGGAGCAGATAAGGGA
1 GATTTAGGAGTTGATAAGGGA
23162264 GGAAATCTAG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.36, C:0.03, G:0.36, T:0.25
Consensus pattern (24 bp):
GATTTAGGAGTTGATAAGGGATAA
Found at i:23163721 original size:27 final size:26
Alignment explanation
Indices: 23163682--23163790 Score: 101
Period size: 27 Copynumber: 4.0 Consensus size: 26
23163672 AAGCGTCCTA
* *
23163682 GTGGCTATACCACAATTATCTGATCTG
1 GTGGCTCTGCCAC-ATTATCTGATCTG
* *
23163709 GTGGCTCTGCCACATATACCTGTTCTG
1 GTGGCTCTGCCACAT-TATCTGATCTG
* *
23163736 GTGGTTCTGCCATGATTATCTGTATCTG
1 GTGGCTCTGCCA-CATTATCTG-ATCTG
* * *
23163764 GTGACTCTGTCACATTATCTGTTCTG
1 GTGGCTCTGCCACATTATCTGATCTG
23163790 G
1 G
23163791 CGCCATGCTG
Statistics
Matches: 66, Mismatches: 13, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
26 7 0.11
27 44 0.67
28 15 0.23
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (26 bp):
GTGGCTCTGCCACATTATCTGATCTG
Found at i:23165856 original size:23 final size:23
Alignment explanation
Indices: 23165826--23165876 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
23165816 TGAGCTTTCA
23165826 ATTCTTTTAACTCTGTCAGAGTC
1 ATTCTTTTAACTCTGTCAGAGTC
*
23165849 ATTCTTTTAACTCTGTCGGAGTC
1 ATTCTTTTAACTCTGTCAGAGTC
23165872 ATTCT
1 ATTCT
23165877 GTACGGAGCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.45
Consensus pattern (23 bp):
ATTCTTTTAACTCTGTCAGAGTC
Found at i:23173623 original size:20 final size:23
Alignment explanation
Indices: 23173575--23173632 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
23173565 CTAGTGATAA
*
23173575 ACATTTCAGTGCTAGTGAAAGTG
1 ACATTTCAGTGCTAGTGAAAGTC
*
23173598 ACATTTCGGTGC-AGT-AAAG-C
1 ACATTTCAGTGCTAGTGAAAGTC
23173618 ACATTT--GTGCTAGTG
1 ACATTTCAGTGCTAGTG
23173633 GAGTGATGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
18 4 0.13
19 3 0.10
20 6 0.19
21 4 0.13
22 3 0.10
23 11 0.35
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.31
Consensus pattern (23 bp):
ACATTTCAGTGCTAGTGAAAGTC
Found at i:23179323 original size:67 final size:65
Alignment explanation
Indices: 23179182--23179359 Score: 207
Period size: 67 Copynumber: 2.7 Consensus size: 65
23179172 CATCATGTGT
* * * *
23179182 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTATGTGTACACCAT
1 ACAAGAGAGCTAC--GAGA-TAT-ATGTAGCTAGGTCGCATGGGTGGTTACAATGTGGACACCAT
23179246 GTAG
62 GTAG
* *
23179250 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGATGGACACCATGT
1 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGTGGTTACAA-TG-TGGACACCATGT
23179315 AG
64 AG
* * *
23179317 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATGGGTGGT
1 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGTGGT
23179360 ACTAAGTGTT
Statistics
Matches: 97, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
64 20 0.21
65 7 0.07
66 23 0.24
67 34 0.35
68 13 0.13
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.23
Consensus pattern (65 bp):
ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGTGGTTACAATGTGGACACCATGTAG
Found at i:23183529 original size:36 final size:36
Alignment explanation
Indices: 23183461--23183533 Score: 103
Period size: 36 Copynumber: 2.0 Consensus size: 36
23183451 ACGATAGGAG
*
23183461 TCTGTTGAAAAAACTTCAGGTAAAATCGACATGGAT
1 TCTGTTGAAAAAACTTCAGGTAAAATCAACATGGAT
**
23183497 TCTGTTGGTAAAACTTCAGGTAAAA-CTAACATGGAT
1 TCTGTTGAAAAAACTTCAGGTAAAATC-AACATGGAT
23183533 T
1 T
23183534 GATTAGATCA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 1 0.03
36 32 0.97
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (36 bp):
TCTGTTGAAAAAACTTCAGGTAAAATCAACATGGAT
Found at i:23200396 original size:59 final size:59
Alignment explanation
Indices: 23200308--23200425 Score: 211
Period size: 59 Copynumber: 2.0 Consensus size: 59
23200298 GAAAGACTAT
23200308 TATAGTAGAGCAAAAAGAAAGAGAAGTGGCAC-ACTCGTGAACCCACACATTGGAGATAG
1 TATAGTAGAGCAAAAAGAAAGAGAAGTGGCACAAC-CGTGAACCCACACATTGGAGATAG
*
23200367 TATAGTAGAGCAAAAAGAAAGAGAAGTGGCACAACCGTGAACCTACACATTGGAGATAG
1 TATAGTAGAGCAAAAAGAAAGAGAAGTGGCACAACCGTGAACCCACACATTGGAGATAG
23200426 CAATAGCAAG
Statistics
Matches: 57, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
59 55 0.96
60 2 0.04
ACGTcount: A:0.43, C:0.16, G:0.25, T:0.15
Consensus pattern (59 bp):
TATAGTAGAGCAAAAAGAAAGAGAAGTGGCACAACCGTGAACCCACACATTGGAGATAG
Found at i:23204212 original size:27 final size:28
Alignment explanation
Indices: 23204128--23204225 Score: 144
Period size: 27 Copynumber: 3.5 Consensus size: 28
23204118 CATGAGATTG
* * *
23204128 GCACTAAGTGTGCGGGTTTAAATTGTATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
23204157 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
23204185 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
23204212 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
23204226 GACTTAATAT
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
27 24 0.37
28 23 0.35
29 18 0.28
ACGTcount: A:0.27, C:0.12, G:0.29, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:23204236 original size:27 final size:27
Alignment explanation
Indices: 23204153--23204239 Score: 111
Period size: 28 Copynumber: 3.1 Consensus size: 27
23204143 GTTTAAATTG
*
23204153 TATAGCACTAAGTGTGCGAGTTTGATTA
1 TATAGCACTAAGTGTGCGA-CTTGATTA
*
23204181 TATAGCACTAAGTGTGCGAGTTGATTA
1 TATAGCACTAAGTGTGCGACTTGATTA
* *
23204208 TATAGCACTGAGTGTGCGGACTTAATATA
1 TATAGCACTAAGTGTGC-GACTTGAT-TA
23204237 TAT
1 TAT
23204240 TTTTGAATCA
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 23 0.43
28 25 0.47
29 5 0.09
ACGTcount: A:0.30, C:0.11, G:0.24, T:0.34
Consensus pattern (27 bp):
TATAGCACTAAGTGTGCGACTTGATTA
Found at i:23211982 original size:18 final size:18
Alignment explanation
Indices: 23211940--23211982 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
23211930 GCCCATTCCG
*
23211940 AAGTATATATATATACAT
1 AAGTATGTATATATACAT
23211958 ATA-TATGTATATATACAT
1 A-AGTATGTATATATACAT
23211976 AAGTATG
1 AAGTATG
23211983 CCCATTCGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 1 0.05
18 20 0.91
19 1 0.05
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.40
Consensus pattern (18 bp):
AAGTATGTATATATACAT
Found at i:23212505 original size:27 final size:28
Alignment explanation
Indices: 23212421--23212518 Score: 144
Period size: 27 Copynumber: 3.5 Consensus size: 28
23212411 CATGAGATTG
* * *
23212421 GCACTAAGTGTGCGGGTTTAAATTGTATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
23212450 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
23212478 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
23212505 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
23212519 GACTTAATAT
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
27 24 0.37
28 23 0.35
29 18 0.28
ACGTcount: A:0.27, C:0.12, G:0.29, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:23212529 original size:27 final size:27
Alignment explanation
Indices: 23212446--23212532 Score: 111
Period size: 28 Copynumber: 3.1 Consensus size: 27
23212436 GTTTAAATTG
*
23212446 TATAGCACTAAGTGTGCGAGTTTGATTA
1 TATAGCACTAAGTGTGCGA-CTTGATTA
*
23212474 TATAGCACTAAGTGTGCGAGTTGATTA
1 TATAGCACTAAGTGTGCGACTTGATTA
* *
23212501 TATAGCACTGAGTGTGCGGACTTAATATA
1 TATAGCACTAAGTGTGC-GACTTGAT-TA
23212530 TAT
1 TAT
23212533 TTTTGAATCA
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 23 0.43
28 25 0.47
29 5 0.09
ACGTcount: A:0.30, C:0.11, G:0.24, T:0.34
Consensus pattern (27 bp):
TATAGCACTAAGTGTGCGACTTGATTA
Found at i:23219042 original size:27 final size:27
Alignment explanation
Indices: 23219018--23219079 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
23219008 AATGTGGCGT
*
23219018 AGCCACTAATAATAG-AATACATGGCAA
1 AGCCACTAA-AATAGTAAAACATGGCAA
*
23219045 AGCCACCAAAATAGTAAAACATGGCAA
1 AGCCACTAAAATAGTAAAACATGGCAA
23219072 AGCCACTA
1 AGCCACTA
23219080 GTACAGTACT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.16
27 26 0.84
ACGTcount: A:0.48, C:0.23, G:0.15, T:0.15
Consensus pattern (27 bp):
AGCCACTAAAATAGTAAAACATGGCAA
Found at i:23222905 original size:16 final size:16
Alignment explanation
Indices: 23222884--23222915 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
23222874 AATCGGGTTG
*
23222884 AGAAAATTATTTAATT
1 AGAAAATTAATTAATT
23222900 AGAAAATTAATTAATT
1 AGAAAATTAATTAATT
23222916 TAAATTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (16 bp):
AGAAAATTAATTAATT
Found at i:23228896 original size:17 final size:18
Alignment explanation
Indices: 23228855--23228897 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
23228845 TGTATTTACT
23228855 TATTATATAAGTAAATAA
1 TATTATATAAGTAAATAA
* *
23228873 TAATATA-AAGTAAATTA
1 TATTATATAAGTAAATAA
23228890 TATTATAT
1 TATTATAT
23228898 TATATAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
TATTATATAAGTAAATAA
Found at i:23229884 original size:6 final size:6
Alignment explanation
Indices: 23229873--23229904 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
23229863 TCTGTACCTG
*
23229873 ACTGTT ACTGTT ACTGTT ACTATT ACTGTT AC
1 ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT AC
23229905 CCTTACGGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.22, C:0.19, G:0.12, T:0.47
Consensus pattern (6 bp):
ACTGTT
Found at i:23232700 original size:43 final size:43
Alignment explanation
Indices: 23232633--23232732 Score: 182
Period size: 43 Copynumber: 2.3 Consensus size: 43
23232623 CTTTAAGCAT
23232633 CCGCACACTTAGTGCTTTAAGGTTTAGGCGAAGCTAGAATGATTA
1 CCGCACACTTA--GCTTTAAGGTTTAGGCGAAGCTAGAATGATTA
23232678 CCGCACACTTAGCTTTAAGGTTTAGGCGAAGCTAGAATGATTA
1 CCGCACACTTAGCTTTAAGGTTTAGGCGAAGCTAGAATGATTA
23232721 CCGCACACTTAG
1 CCGCACACTTAG
23232733 TGCCATCTCA
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
43 44 0.80
45 11 0.20
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (43 bp):
CCGCACACTTAGCTTTAAGGTTTAGGCGAAGCTAGAATGATTA
Found at i:23237489 original size:19 final size:20
Alignment explanation
Indices: 23237465--23237502 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
23237455 GGTACCACCA
23237465 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
23237484 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
23237503 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:23237839 original size:93 final size:93
Alignment explanation
Indices: 23237732--23237902 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
23237722 GCCCCTAAGT
* * *
23237732 GAACTCAGACTCAACTCAACTAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
23237797 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * * *
23237825 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
23237890 CGAGTTCGGATGC
66 CGAGTTCGGATGC
23237903 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:23237892 original size:46 final size:46
Alignment explanation
Indices: 23237727--23237899 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
23237717 AACCCGCCCC
* * * * * *
23237727 TAAGTGAACTCAGACTCAACTCAACTAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
23237773 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
23237821 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
*
23237866 TAAGTGAACTTGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
23237900 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 57 0.55
47 29 0.28
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:23237918 original size:46 final size:45
Alignment explanation
Indices: 23237777--23237918 Score: 123
Period size: 46 Copynumber: 3.1 Consensus size: 45
23237767 CATCCATAAA
23237777 TGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTCA-
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT-AG
* * * *
23237824 CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-AAG
1 TGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCTAG
*
23237870 TGAACTTGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CTAG
23237916 TGA
1 TGA
23237919 CATGTCACTT
Statistics
Matches: 77, Mismatches: 9, Indels: 19
0.73 0.09 0.18
Matches are distributed among these distances:
44 8 0.10
45 2 0.03
46 32 0.42
47 31 0.40
49 3 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCTAG
Found at i:23238356 original size:30 final size:30
Alignment explanation
Indices: 23238322--23238381 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
23238312 ATTTAATACG
23238322 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
23238352 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
23238382 GGCTCAGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:23245075 original size:19 final size:20
Alignment explanation
Indices: 23245051--23245088 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
23245041 GGTACCACCA
23245051 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
23245070 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
23245089 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:23245384 original size:46 final size:45
Alignment explanation
Indices: 23245317--23245483 Score: 169
Period size: 46 Copynumber: 3.6 Consensus size: 45
23245307 CGCCCCTAAG
*
23245317 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGGCGTT-GCATCCATAAA
* * *
23245363 TGAACTCGAACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-T-CA
1 TGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCATCCATAAA
* * * *
23245410 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGGC-GTTGCATCCATAAA
*
23245456 TGAACTTGGACTCAACTCAACGAGTTCG
1 TGAACTCGGACTCAACTCAACGAGTTCG
23245484 AATGCTCAAC
Statistics
Matches: 100, Mismatches: 13, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 1 0.01
46 53 0.53
47 28 0.28
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGGCGTTGCATCCATAAA
Found at i:23245428 original size:93 final size:93
Alignment explanation
Indices: 23245318--23245488 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
23245308 GCCCCTAAGT
* *
23245318 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGAACTCAACTCAA
*
23245383 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGAATGCCTAGTTACATCTCAC
* * * * *
23245411 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGAACTCAACTCAA
23245476 CGAGTTCGAATGC
66 CGAGTTCGAATGC
23245489 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGAACTCAACTCAA
CGAGTTCGAATGCCTAGTTACATCTCAC
Found at i:23248487 original size:27 final size:26
Alignment explanation
Indices: 23248447--23248558 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
23248437 AGCATGGCTG
* *
23248447 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
* *
23248473 CCAGATACATATAATCGTGGCAGAACCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
23248501 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
23248528 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
23248555 CCAG
1 CCAG
23248559 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 6 0.08
27 52 0.70
28 16 0.22
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:23248541 original size:54 final size:54
Alignment explanation
Indices: 23248447--23248558 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
23248437 AGCATGGCTG
* *
23248447 CCAGAACAGATAATGTGACAGAGTCACCAGATACATATAATCGTGGCAGAACCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAACCA
* * * *
23248501 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAACCA
23248555 CCAG
1 CCAG
23248559 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAACCA
Found at i:23249995 original size:24 final size:24
Alignment explanation
Indices: 23249968--23250014 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
23249958 CTAGATTTCC
**
23249968 TCCCTTATCTGCTCCGAAATCCTA
1 TCCCTTATCAACTCCGAAATCCTA
*
23249992 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCGAAATCCT
23250015 CTCCTGACAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.23, C:0.38, G:0.04, T:0.34
Consensus pattern (24 bp):
TCCCTTATCAACTCCGAAATCCTA
Found at i:23252018 original size:46 final size:46
Alignment explanation
Indices: 23251951--23252126 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 46
23251941 TGTAACCCGC
*
23251951 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
*
23251997 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGC-A--T
* *** * **
23252044 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
*
23252091 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
23252127 ATGCCCAAAT
Statistics
Matches: 109, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
44 1 0.01
45 3 0.03
46 64 0.59
47 10 0.09
48 26 0.24
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
Found at i:23252073 original size:94 final size:93
Alignment explanation
Indices: 23251959--23252131 Score: 292
Period size: 94 Copynumber: 1.8 Consensus size: 93
23251949 GCCCATAAGT
** *
23251959 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
23252024 CGAGCTCGGGATGCCTAGTTACATCTCTC
66 CGAGCTC-GGATGCCTAGTTACATCTCTC
*
23252053 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
23252118 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
23252132 CAAATATCCT
Statistics
Matches: 74, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
93 7 0.09
94 67 0.91
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:23252146 original size:46 final size:44
Alignment explanation
Indices: 23251956--23252146 Score: 111
Period size: 46 Copynumber: 4.1 Consensus size: 44
23251946 CCCGCCCATA
* ** ** **
23251956 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCC-T
* *
23252001 AAGTGAACTCGGACTCAACTCAACGAGCTCGGGATGCCTAGTTACATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTC-GGATGCCCA---A-ATC-CT
* * * *
23252052 --CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCG--GATGCCCAAATCC-T
23252095 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AA-ATCCT
23252142 AGTGA
1 AGTGA
23252147 CATGTCACTT
Statistics
Matches: 112, Mismatches: 17, Indels: 32
0.70 0.11 0.20
Matches are distributed among these distances:
42 1 0.01
43 4 0.04
44 4 0.04
46 61 0.54
47 5 0.04
48 29 0.26
49 3 0.03
51 4 0.04
52 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCCT
Found at i:23258698 original size:12 final size:12
Alignment explanation
Indices: 23258681--23258706 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
23258671 GACTCTTAAG
23258681 TTTATTTGGGTT
1 TTTATTTGGGTT
23258693 TTTATTTGGGTT
1 TTTATTTGGGTT
23258705 TT
1 TT
23258707 CTAGTATGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.00, G:0.23, T:0.69
Consensus pattern (12 bp):
TTTATTTGGGTT
Found at i:23278767 original size:18 final size:19
Alignment explanation
Indices: 23278740--23278779 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
23278730 TCTATAGACT
* *
23278740 TTTGGGTTTT-ATTTTGGA
1 TTTGGATTTTAATTTGGGA
23278758 TTTGGATTTTAATTTGGGA
1 TTTGGATTTTAATTTGGGA
23278777 TTT
1 TTT
23278780 CTAGCATGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.15, C:0.00, G:0.25, T:0.60
Consensus pattern (19 bp):
TTTGGATTTTAATTTGGGA
Found at i:23286546 original size:48 final size:48
Alignment explanation
Indices: 23286420--23286701 Score: 275
Period size: 48 Copynumber: 5.9 Consensus size: 48
23286410 AGTACCAATT
* * * **
23286420 CCATGTCCCCAACATGGTCTTACA-T-GAATCCACATATCATTACCGATG
1 CCATGTCCCAAACATGGTCTTACACTGGCA--CATATATCATCGCCGATG
** * * * **
23286468 CCATGT-TTAGACATGGTCTTACTCTGGCACACATATCATCGTTGATG
1 CCATGTCCCAAACATGGTCTTACACTGGCACATATATCATCGCCGATG
* *
23286515 CCATGTCCCAAACATGGTCTTACACTGGCACACATATCATCACCGATG
1 CCATGTCCCAAACATGGTCTTACACTGGCACATATATCATCGCCGATG
* * *
23286563 CCATGTCCCAAACAAGGTCTTACACTGGCATATATATCATCGCTGATG
1 CCATGTCCCAAACATGGTCTTACACTGGCACATATATCATCGCCGATG
* * * ***
23286611 CCATGTCCCAGACATGGTCTTAC-GTAGGCAAATATATCATTATCGATG
1 CCATGTCCCAAACATGGTCTTACACT-GGCACATATATCATCGCCGATG
* * *
23286659 CCATGTCCCAGACATTGTCTTACACAGGCACATATATCATCGC
1 CCATGTCCCAAACATGGTCTTACACTGGCACATATATCATCGC
23286702 TCATGCTGTA
Statistics
Matches: 192, Mismatches: 37, Indels: 10
0.80 0.15 0.04
Matches are distributed among these distances:
47 33 0.17
48 157 0.82
49 2 0.01
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (48 bp):
CCATGTCCCAAACATGGTCTTACACTGGCACATATATCATCGCCGATG
Found at i:23286619 original size:96 final size:95
Alignment explanation
Indices: 23286420--23286707 Score: 355
Period size: 96 Copynumber: 3.0 Consensus size: 95
23286410 AGTACCAATT
* * **
23286420 CCATGTCCCCAACATGGTCTTACAT-GAATCCACATATCATTACCGATGCCATGT-TTAGACATG
1 CCATGTCCCAAACATGGTCTTACATGGCA--CACATATCATTACCGATGCCATGTCCCAGACATG
* * *
23286483 GTCTTACTCTGGCACACATATCATCGTTGATG
64 GTCTTACACTGGCACATATATCATCGCTGATG
* * *
23286515 CCATGTCCCAAACATGGTCTTACACTGGCACACATATCATCACCGATGCCATGTCCCAAACAAGG
1 CCATGTCCCAAACATGGTCTTACA-TGGCACACATATCATTACCGATGCCATGTCCCAGACATGG
*
23286580 TCTTACACTGGCATATATATCATCGCTGATG
65 TCTTACACTGGCACATATATCATCGCTGATG
* * * * * *
23286611 CCATGTCCCAGACATGGTCTTACGTAGGCAAATATATCATTATCGATGCCATGTCCCAGACATTG
1 CCATGTCCCAAACATGGTCTTACAT-GGCACACATATCATTACCGATGCCATGTCCCAGACATGG
* *
23286676 TCTTACACAGGCACATATATCATCGCTCATG
65 TCTTACACTGGCACATATATCATCGCTGATG
23286707 C
1 C
23286708 TGTAACAGCC
Statistics
Matches: 166, Mismatches: 23, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
95 47 0.28
96 117 0.70
97 2 0.01
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (95 bp):
CCATGTCCCAAACATGGTCTTACATGGCACACATATCATTACCGATGCCATGTCCCAGACATGGT
CTTACACTGGCACATATATCATCGCTGATG
Found at i:23288500 original size:28 final size:28
Alignment explanation
Indices: 23288462--23288641 Score: 281
Period size: 28 Copynumber: 6.5 Consensus size: 28
23288452 TAAATTGTAC
*
23288462 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
* *
23288490 AGCACTAAGTGTGCGAGCTTCATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
* *
23288518 AGCCCTAAGTGTGCGAATTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
23288546 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
23288574 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
23288602 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
23288629 AGCACTGAGTGTG
1 AGCACTAAGTGTG
23288642 TGGACTTAAT
Statistics
Matches: 143, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
27 22 0.15
28 121 0.85
ACGTcount: A:0.26, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:23296718 original size:28 final size:28
Alignment explanation
Indices: 23296680--23296858 Score: 288
Period size: 28 Copynumber: 6.4 Consensus size: 28
23296670 TAAATTGTAC
*
23296680 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
23296708 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
23296736 AGCACTAAGTGTGCGAATTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
23296764 AGCATTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
23296792 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
23296820 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
23296847 AGCACTGAGTGT
1 AGCACTAAGTGT
23296859 ACGGACTTAA
Statistics
Matches: 144, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
27 21 0.15
28 123 0.85
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.34
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:23300650 original size:13 final size:13
Alignment explanation
Indices: 23300632--23300657 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23300622 GCTCGACAGG
23300632 GACACGCCCGTGT
1 GACACGCCCGTGT
23300645 GACACGCCCGTGT
1 GACACGCCCGTGT
23300658 ACAATTACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:23304593 original size:37 final size:37
Alignment explanation
Indices: 23304538--23304637 Score: 146
Period size: 37 Copynumber: 2.7 Consensus size: 37
23304528 CGAATAGTCC
* * *
23304538 CCACTCGTAGTTATCGGGTCTTACCTAGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCAGACAAAATCT
* *
23304575 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCAGACAAAATCT
*
23304612 CCACACGTAGCCATCGGGTCTTACCC
1 CCACACGTAGTCATCGGGTCTTACCC
23304638 GGAATATATT
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.24, C:0.33, G:0.18, T:0.25
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCAGACAAAATCT
Found at i:23304839 original size:48 final size:48
Alignment explanation
Indices: 23304781--23305454 Score: 1123
Period size: 48 Copynumber: 14.0 Consensus size: 48
23304771 ATATACACAC
* * *
23304781 ATCTCCTACATATTTCACATTAGCCATTCGGCTTTACCAAATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
23304829 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
23304877 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * * *
23304925 ATCTCATATATATTTCACATTAGCCATACGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
23304973 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
23305021 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
23305069 ATCTCATACATATTTCACACTAGCCATTCGACTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * * *
23305117 ATCTCATATATATTTCACATTAGCCATACGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
23305165 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
23305213 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * * *
23305261 ATCTCATATATATTTCACATTAGCCATACGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
23305309 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * * * *
23305357 ATCTCATATATATTTCACATTAGCCATACGGCTTTACCACATTTATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
23305405 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATGCAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
23305453 AT
1 AT
23305455 ATTTATCTTG
Statistics
Matches: 580, Mismatches: 46, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 580 1.00
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:23309308 original size:46 final size:46
Alignment explanation
Indices: 23309255--23309390 Score: 164
Period size: 46 Copynumber: 3.0 Consensus size: 46
23309245 TATATATACA
* * * * *
23309255 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACGTATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* * * * *
23309301 CATCTCATACACGTTTTGCATTAGCTACTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
**
23309347 CATCTCATACACATTTCGCATTAGCCATTCGGCTTCGCCACATA
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATA
23309391 CATACACTTC
Statistics
Matches: 73, Mismatches: 17, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
46 73 1.00
ACGTcount: A:0.24, C:0.32, G:0.10, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:23309456 original size:47 final size:47
Alignment explanation
Indices: 23309405--23309581 Score: 309
Period size: 47 Copynumber: 3.8 Consensus size: 47
23309395 CACTTCCACG
*** *
23309405 TTCATCACATTGGCCATTTTACCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
*
23309452 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
23309499 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
23309546 TTCATCACATTGGCCATTCGGCCTTATCACACATAT
1 TTCATCACATTGGCCATTCGGCCTTATCACACATAT
23309582 TCGGCCTTAT
Statistics
Matches: 124, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 124 1.00
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
Found at i:23309585 original size:19 final size:19
Alignment explanation
Indices: 23309561--23309600 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
23309551 CACATTGGCC
23309561 ATTCGGCCTTATCACACAT
1 ATTCGGCCTTATCACACAT
23309580 ATTCGGCCTTATCACACAT
1 ATTCGGCCTTATCACACAT
23309599 AT
1 AT
23309601 GCATGTTCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.33
Consensus pattern (19 bp):
ATTCGGCCTTATCACACAT
Found at i:23309591 original size:66 final size:66
Alignment explanation
Indices: 23309514--23309647 Score: 259
Period size: 66 Copynumber: 2.0 Consensus size: 66
23309504 CACATTGGCC
23309514 ATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
1 ATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
23309579 T
66 T
*
23309580 ATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATA
1 ATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
23309645 T
66 T
23309646 AT
1 AT
23309648 GCATGCTCAC
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (66 bp):
ATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
T
Found at i:23309636 original size:47 final size:47
Alignment explanation
Indices: 23309580--23309669 Score: 162
Period size: 47 Copynumber: 1.9 Consensus size: 47
23309570 TATCACACAT
*
23309580 ATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCC
1 ATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCC
*
23309627 ATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATT
1 ATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATT
23309670 AAAATCCTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
ATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCC
Found at i:23309708 original size:113 final size:110
Alignment explanation
Indices: 23309467--23309689 Score: 299
Period size: 113 Copynumber: 2.0 Consensus size: 110
23309457 CACATTGGCC
*
23309467 ATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
1 ATTCGGCATTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
* ** * * *
23309532 TATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACAT
66 TATGCATGCTCACATTCATCACATT-GAAAAT--GCCTAATCACAAAT
* * *
23309580 ATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATA
1 ATTCGGCATTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
23309645 TATGCATGCTCACATTCATCACATT-AAAAT-CCTAAATCA-AAAT
66 TATGCATGCTCACATTCATCACATTGAAAATGCCT-AATCACAAAT
23309688 AT
1 AT
23309690 AAATTTTCAT
Statistics
Matches: 101, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
108 8 0.08
109 4 0.04
111 2 0.02
113 87 0.86
ACGTcount: A:0.29, C:0.29, G:0.11, T:0.31
Consensus pattern (110 bp):
ATTCGGCATTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
TATGCATGCTCACATTCATCACATTGAAAATGCCTAATCACAAAT
Found at i:23313003 original size:55 final size:55
Alignment explanation
Indices: 23312944--23313047 Score: 145
Period size: 55 Copynumber: 1.9 Consensus size: 55
23312934 ACCACAGGTG
*
23312944 TTCCACACGGGCGTGTCGAACGCCCATACCGTTTTGGCAGGCTCGACCACGATTC
1 TTCCACACGGGCGTGTCGAACGCCCATACCGTTTTGCCAGGCTCGACCACGATTC
* * * ***
23312999 TTCCACACGGGTGTGTCGCACGCCCGTGTTGTTTTGCCAGGCTCGACCA
1 TTCCACACGGGCGTGTCGAACGCCCATACCGTTTTGCCAGGCTCGACCA
23313048 TGGTCATATC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
55 42 1.00
ACGTcount: A:0.15, C:0.34, G:0.27, T:0.24
Consensus pattern (55 bp):
TTCCACACGGGCGTGTCGAACGCCCATACCGTTTTGCCAGGCTCGACCACGATTC
Found at i:23320756 original size:21 final size:19
Alignment explanation
Indices: 23320728--23320773 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
23320718 TGGGACTAAA
23320728 TCAAAAAC-TTAGAGAATTTT
1 TCAAAAACATT-GA-AATTTT
23320748 TCGAAAAACATTGAAATTTT
1 TC-AAAAACATTGAAATTTT
23320768 TCAAAA
1 TCAAAA
23320774 CTGTAGGGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 4 0.17
20 10 0.42
21 8 0.33
22 2 0.08
ACGTcount: A:0.48, C:0.11, G:0.09, T:0.33
Consensus pattern (19 bp):
TCAAAAACATTGAAATTTT
Found at i:23329830 original size:11 final size:11
Alignment explanation
Indices: 23329814--23329852 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
23329804 GTGCTAAGTG
23329814 ATGATTTTAAA
1 ATGATTTTAAA
23329825 ATGATTTTAAA
1 ATGATTTTAAA
* * *
23329836 CTTATTTTAAC
1 ATGATTTTAAA
23329847 ATGATT
1 ATGATT
23329853 AAGAGGTTTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.38, C:0.05, G:0.08, T:0.49
Consensus pattern (11 bp):
ATGATTTTAAA
Found at i:23330589 original size:17 final size:17
Alignment explanation
Indices: 23330567--23330603 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
23330557 AATGCATGCA
* *
23330567 AGCCTTAATTTTATATG
1 AGCCTTAAATATATATG
23330584 AGCCTTAAATATATATG
1 AGCCTTAAATATATATG
23330601 AGC
1 AGC
23330604 ACTATATCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.38
Consensus pattern (17 bp):
AGCCTTAAATATATATG
Found at i:23336626 original size:40 final size:40
Alignment explanation
Indices: 23336564--23336785 Score: 313
Period size: 40 Copynumber: 5.6 Consensus size: 40
23336554 ATTCGGATTG
*
23336564 ATAACCGGGCTAAGTCCCGAAGGTATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
23336604 ATACCCAGGCTAAGTCCCGAAGGCATTTGGGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
23336644 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
23336684 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGTGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
23336724 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* **
23336764 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
23336786 TACTTGGTTT
Statistics
Matches: 164, Mismatches: 17, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 16 0.10
40 148 0.90
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.22
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:23346552 original size:15 final size:16
Alignment explanation
Indices: 23346518--23346553 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
23346508 TTGGATTAAA
23346518 TTGAATGAAATTATGT
1 TTGAATGAAATTATGT
*
23346534 TTGAATGAGATTA-GT
1 TTGAATGAAATTATGT
23346549 TTGAA
1 TTGAA
23346554 ATTGTATAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.36, C:0.00, G:0.22, T:0.42
Consensus pattern (16 bp):
TTGAATGAAATTATGT
Found at i:23350189 original size:30 final size:30
Alignment explanation
Indices: 23350155--23350215 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
23350145 TCCTTAACTC
23350155 AAACTTTTGAAAAATTACGA-TTTTGCCCCT
1 AAACTTTTGAAAAATTAC-ACTTTTGCCCCT
* * *
23350185 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGAAAAATTACACTTTTGCCCCT
23350215 A
1 A
23350216 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 1 0.04
30 26 0.96
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACACTTTTGCCCCT
Found at i:23356611 original size:58 final size:58
Alignment explanation
Indices: 23356541--23356654 Score: 219
Period size: 58 Copynumber: 2.0 Consensus size: 58
23356531 AATATCCCAC
*
23356541 CCCATGCACATGTGATATGTCATACAATATTTTAGTCAAATGCACATTTCATATGTGT
1 CCCATGCACATGTGATATGTCATACAATATTTTAGTCAAATGCACATTTCACATGTGT
23356599 CCCATGCACATGTGATATGTCATACAATATTTTAGTCAAATGCACATTTCACATGT
1 CCCATGCACATGTGATATGTCATACAATATTTTAGTCAAATGCACATTTCACATGT
23356655 ATTCTTTCAG
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.35
Consensus pattern (58 bp):
CCCATGCACATGTGATATGTCATACAATATTTTAGTCAAATGCACATTTCACATGTGT
Found at i:23358156 original size:44 final size:42
Alignment explanation
Indices: 23358102--23358204 Score: 127
Period size: 44 Copynumber: 2.4 Consensus size: 42
23358092 TTCCGATATG
**
23358102 TGATTTCGTGTAAGACCACGTCTGGGACATTAGCATC-CATT
1 TGATTTCGTGTAAGACCACGTCTAAGACATTAGCATCGCATT
* * *
23358143 TGAGATTTACGTGTAAGACCATGTCTAAGACATTGGCATCGTATT
1 T--GATTT-CGTGTAAGACCACGTCTAAGACATTAGCATCGCATT
23358188 TGATTTCGTGTAAGACC
1 TGATTTCGTGTAAGACC
23358205 CTGTCTAGGA
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
41 1 0.02
42 11 0.21
43 10 0.19
44 27 0.51
45 4 0.08
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.33
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCACGTCTAAGACATTAGCATCGCATT
Found at i:23358235 original size:43 final size:42
Alignment explanation
Indices: 23358146--23358248 Score: 116
Period size: 42 Copynumber: 2.4 Consensus size: 42
23358136 ATCCATTTGA
* * *
23358146 GATTTACGTGTAAGACCATGTCTAAGACATTGGCATCGTATTT
1 GATTT-CGTGTAAGACCATGTCTAAGACAGTGACATCGTACTT
* * *
23358189 GATTTCGTGTAAGACCCTGTCTAGGATAGTGACATCGATACTT
1 GATTTCGTGTAAGACCATGTCTAAGACAGTGACATCG-TACTT
* *
23358232 GATTACATGTAAGACCA
1 GATTTCGTGTAAGACCA
23358249 CATCTGAGAC
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 27 0.54
43 23 0.46
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.32
Consensus pattern (42 bp):
GATTTCGTGTAAGACCATGTCTAAGACAGTGACATCGTACTT
Found at i:23363136 original size:5 final size:5
Alignment explanation
Indices: 23363126--23363152 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
23363116 TTGTGTGTTC
23363126 TTTAT TTTAT TTTAT TTTAT TTTAT TT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TT
23363153 ACAATAACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:23364597 original size:60 final size:60
Alignment explanation
Indices: 23364508--23364674 Score: 158
Period size: 60 Copynumber: 2.8 Consensus size: 60
23364498 AAACAAGGAA
* *
23364508 TGCCAAGGCCTCCATTTGGT-GTGGGTAGCTCCTCAAATGTTGTTGCTAATGGCTTGGGGT
1 TGCCAAGGCCTCCATTTGGTAAT-GATAGCTCCTCAAATGTTGTTGCTAATGGCTTGGGGT
* * * ** * * *
23364568 TGCCCAGTCCTCCATTTGGTAATGATAGCTCTTCGGATGTTGCTT-TTGATTGCTTGGGGT
1 TGCCAAGGCCTCCATTTGGTAATGATAGCTCCTCAAATGTTG-TTGCTAATGGCTTGGGGT
* * * * **
23364628 TGCTAAGGCCTCCATTTGGTAAGGACAACTCCTCCCATGTTGTTGCT
1 TGCCAAGGCCTCCATTTGGTAATGATAGCTCCTCAAATGTTGTTGCT
23364675 TATGCCTTAG
Statistics
Matches: 84, Mismatches: 20, Indels: 6
0.76 0.18 0.05
Matches are distributed among these distances:
59 2 0.02
60 79 0.94
61 3 0.04
ACGTcount: A:0.16, C:0.22, G:0.27, T:0.35
Consensus pattern (60 bp):
TGCCAAGGCCTCCATTTGGTAATGATAGCTCCTCAAATGTTGTTGCTAATGGCTTGGGGT
Found at i:23364805 original size:60 final size:60
Alignment explanation
Indices: 23364714--23364855 Score: 144
Period size: 60 Copynumber: 2.4 Consensus size: 60
23364704 TGGTGAGAGA
* * *
23364714 AGCTCCTTAAATGTTGCTT-CTGATCACTTGGGACTACCAAGG-CTTCCATTTGGTGAAGGT
1 AGCTCCTCAAATGTTG-TTGTTGATCACTTGGGACTACCAAGGCCTT-CATTTGGGGAAGGT
* * * ** ** *
23364774 CGCTCCTCAAATGTTGTTGTTGATTATTTGGGGTTGTCAAGGCCTTCATTTGGGGAGGGT
1 AGCTCCTCAAATGTTGTTGTTGATCACTTGGGACTACCAAGGCCTTCATTTGGGGAAGGT
*
23364834 AACTCCTCAAATGTTGTTGTTG
1 AGCTCCTCAAATGTTGTTGTTG
23364856 GCCACTTTGG
Statistics
Matches: 67, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
59 2 0.03
60 62 0.93
61 3 0.04
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.37
Consensus pattern (60 bp):
AGCTCCTCAAATGTTGTTGTTGATCACTTGGGACTACCAAGGCCTTCATTTGGGGAAGGT
Found at i:23366361 original size:40 final size:40
Alignment explanation
Indices: 23366306--23366387 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
23366296 TAAAAGAAAA
23366306 AACAAAAGGTAAAGATTGGGTGTTGTACTCTTTAATTAGT
1 AACAAAAGGTAAAGATTGGGTGTTGTACTCTTTAATTAGT
23366346 AACAAAAGGTAAAGATTGGGTGTTGTACTCTTTAATTAGT
1 AACAAAAGGTAAAGATTGGGTGTTGTACTCTTTAATTAGT
23366386 AA
1 AA
23366388 AGTAGATTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.34
Consensus pattern (40 bp):
AACAAAAGGTAAAGATTGGGTGTTGTACTCTTTAATTAGT
Found at i:23366622 original size:22 final size:23
Alignment explanation
Indices: 23366597--23366642 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
23366587 CAACCAAACC
23366597 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
23366619 AATTCATACATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
23366642 A
1 A
23366643 CGACATCACA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.27
23 15 0.68
24 1 0.05
ACGTcount: A:0.48, C:0.11, G:0.04, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:23381951 original size:40 final size:40
Alignment explanation
Indices: 23381896--23382151 Score: 365
Period size: 40 Copynumber: 6.4 Consensus size: 40
23381886 GATGATAACG
* *
23381896 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
23381936 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* * *
23381976 GGGCTAAGTTCCGAAGGCATTTGTGCGAGTTAATATATTC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
23382016 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* *
23382056 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* *
23382096 GGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
* *
23382136 -GGCTAAATTCCGAAGG
1 GGGCTAAGTCCCGAAGG
23382152 TACTTGGTTT
Statistics
Matches: 200, Mismatches: 14, Indels: 5
0.91 0.06 0.02
Matches are distributed among these distances:
39 16 0.08
40 183 0.92
41 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:23385351 original size:19 final size:19
Alignment explanation
Indices: 23385329--23385366 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
23385319 TTAAAACCAT
23385329 AAAA-TTAATTTTTCTAAAA
1 AAAATTTAATTTTTC-AAAA
*
23385348 AAAATTTTATTTTTCAAAA
1 AAAATTTAATTTTTCAAAA
23385367 CATTGTTTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (19 bp):
AAAATTTAATTTTTCAAAA
Found at i:23387824 original size:41 final size:41
Alignment explanation
Indices: 23387779--23387968 Score: 245
Period size: 41 Copynumber: 4.6 Consensus size: 41
23387769 AATTATTCTT
*
23387779 TGAATTGCACATACATGCCCTTGTTTGTACTTTGATACCCC
1 TGAATTGCACATACATGCCCCTGTTTGTACTTTGATACCCC
** * *
23387820 TGAATTGCACATATGTGCCCCTGTTTCTACTTTGATACCAC
1 TGAATTGCACATACATGCCCCTGTTTGTACTTTGATACCCC
*
23387861 TGAATTGCACATATATGCCCCTGTTTGTACTTTGATACCCC
1 TGAATTGCACATACATGCCCCTGTTTGTACTTTGATACCCC
* * * * * *
23387902 TGAATTGAACATACGTGCCCTTATTTGTACTTCGGTACCCC
1 TGAATTGCACATACATGCCCCTGTTTGTACTTTGATACCCC
* * *
23387943 TGAATAGCACCTACTTGCCCCTGTTT
1 TGAATTGCACATACATGCCCCTGTTT
23387969 ACACTCCGGC
Statistics
Matches: 128, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 128 1.00
ACGTcount: A:0.22, C:0.27, G:0.15, T:0.36
Consensus pattern (41 bp):
TGAATTGCACATACATGCCCCTGTTTGTACTTTGATACCCC
Found at i:23387903 original size:20 final size:20
Alignment explanation
Indices: 23387800--23387903 Score: 68
Period size: 20 Copynumber: 5.1 Consensus size: 20
23387790 TACATGCCCT
23387800 TGTTTGTACTTTGATACCCC
1 TGTTTGTACTTTGATACCCC
* * * *
23387820 TGAATTGCACATATG-TGCCCC
1 TG-TTTGTAC-TTTGATACCCC
* *
23387841 TGTTTCTACTTTGATACCAC
1 TGTTTGTACTTTGATACCCC
* * * *
23387861 TGAATTGCACATAT-ATGCCCC
1 TG-TTTGTAC-TTTGATACCCC
23387882 TGTTTGTACTTTGATACCCC
1 TGTTTGTACTTTGATACCCC
23387902 TG
1 TG
23387904 AATTGAACAT
Statistics
Matches: 58, Mismatches: 20, Indels: 12
0.64 0.22 0.13
Matches are distributed among these distances:
19 5 0.09
20 25 0.43
21 23 0.40
22 5 0.09
ACGTcount: A:0.20, C:0.26, G:0.15, T:0.38
Consensus pattern (20 bp):
TGTTTGTACTTTGATACCCC
Found at i:23390671 original size:93 final size:93
Alignment explanation
Indices: 23390564--23390734 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
23390554 GCCCCTAAGT
* *
23390564 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
23390629 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
23390657 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
23390722 CGAGTTCGGATGC
66 CGAGTTCGGATGC
23390735 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:23390731 original size:46 final size:46
Alignment explanation
Indices: 23390559--23390731 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
23390549 AACCCGCCCC
* * *
23390559 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
23390605 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
23390653 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
23390698 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
23390732 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 61 0.57
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:23391186 original size:30 final size:29
Alignment explanation
Indices: 23391152--23391210 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
23391142 ATTTAATACG
23391152 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACA-TTTTGCCCCTA
* * *
23391182 AACTTTTGTATAATTACATTTTGCCCCTA
1 AACTTTGGAAAAATTACATTTTGCCCCTA
23391211 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 11 0.42
30 15 0.58
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (29 bp):
AACTTTGGAAAAATTACATTTTGCCCCTA
Found at i:23397335 original size:40 final size:40
Alignment explanation
Indices: 23397252--23397437 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
23397242 TTGAATGATG
* * * *
23397252 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
23397292 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
23397332 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
23397372 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
23397413 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
23397438 AACGAGTAGC
Statistics
Matches: 133, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
39 1 0.01
40 122 0.92
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Done.