Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 ID=Chr01-JGI_221_v2.0
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: 55868233
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 983842 characters in sequence are not A, C, G, or T
File 76 of 187
Found at i:22193760 original size:123 final size:122
Alignment explanation
Indices: 22193537--22193813 Score: 405
Period size: 123 Copynumber: 2.3 Consensus size: 122
22193527 AGATTTTATT
* * * *
22193537 ATTAGCGGCGCTTTTTAAAAAACGCCGCTAAAGGTCAGCATTAGTGGCGCTTTTTTCAGAAACGC
1 ATTAGCGGCACTTTTTAAAAAACGCCGCTAAAGGTCAGCATTAGCGGCACTTTTTTCAAAAACGC
*
22193602 CGCTAAAGGCACGAGCATCAGCGGCGCTTTATCAAAAACGCCGCTAAAGGTCAGAGC
66 CGCTAAAGGCACGAGCATCAGCGGCGCTTTATCAAAAACGCAGCTAAAGGTCAGAGC
* *
22193659 ATTAGCGGCACTTTTTTAAAAACGCCGTTAAAGG-CAGGAGCATTAGCGGCAC-TTTTTCAAAAA
1 ATTAGCGGCACTTTTTAAAAAACGCCGCTAAAGGTC---AGCATTAGCGGCACTTTTTTCAAAAA
* * * *
22193722 TGCCGCTAAAGGCACGAGCATTAGTGGCGCTTTTTCAAAAACGCAGCTAAAGGTCAGAGC
63 CGCCGCTAAAGGCACGAGCATCAGCGGCGCTTTATCAAAAACGCAGCTAAAGGTCAGAGC
*
22193782 ATTAGCGGCACTTTTTCAAAAACGCCGCTAAA
1 ATTAGCGGCACTTTTTAAAAAACGCCGCTAAA
22193814 TGCCCCTAAA
Statistics
Matches: 139, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
121 1 0.01
122 31 0.22
123 95 0.68
124 12 0.09
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (122 bp):
ATTAGCGGCACTTTTTAAAAAACGCCGCTAAAGGTCAGCATTAGCGGCACTTTTTTCAAAAACGC
CGCTAAAGGCACGAGCATCAGCGGCGCTTTATCAAAAACGCAGCTAAAGGTCAGAGC
Found at i:22193897 original size:39 final size:39
Alignment explanation
Indices: 22193853--22193976 Score: 101
Period size: 40 Copynumber: 3.1 Consensus size: 39
22193843 TGGGCTTAAG
*
22193853 TTTTTTGCGGTGCTTTTTGGAAAA-CGCCGCTAATGCTTA
1 TTTTTTGCGG-GCTTTTTGCAAAATCGCCGCTAATGCTTA
* * *
22193892 TTTTTTGC-GGCGTTTTCCAAAATTCGCCGCTAATGCTCAA
1 TTTTTTGCGGGCTTTTTGCAAAA-TCGCCGCTAATGCT-TA
* * * * *
22193932 TCTTTAGC-GGCGTTTTTGTAAAAGCGCTGCTAATGCTTGA
1 TTTTTTGCGGGC-TTTTTGCAAAATCGCCGCTAATGCTT-A
22193972 TTTTT
1 TTTTT
22193977 AGTGGCGTTT
Statistics
Matches: 67, Mismatches: 13, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
37 10 0.15
38 1 0.01
39 21 0.31
40 27 0.40
41 8 0.12
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.41
Consensus pattern (39 bp):
TTTTTTGCGGGCTTTTTGCAAAATCGCCGCTAATGCTTA
Found at i:22194011 original size:12 final size:12
Alignment explanation
Indices: 22193994--22194019 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
22193984 TTTTTAATTC
22193994 AAACGCCGCTAA
1 AAACGCCGCTAA
22194006 AAACGCCGCTAA
1 AAACGCCGCTAA
22194018 AA
1 AA
22194020 GCCTGTTTTA
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:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAACGCCGCTAA
Found at i:22198496 original size:7 final size:7
Alignment explanation
Indices: 22198484--22198513 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
22198474 AATTTTCCAC
22198484 TAGAGAT
1 TAGAGAT
22198491 TAGAGAT
1 TAGAGAT
*
22198498 TAGAGAA
1 TAGAGAT
22198505 TAGAGAT
1 TAGAGAT
22198512 TA
1 TA
22198514 AAAGTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.27, T:0.27
Consensus pattern (7 bp):
TAGAGAT
Found at i:22198836 original size:2 final size:2
Alignment explanation
Indices: 22198824--22198862 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
22198814 TTTCAGTAAA
*
22198824 AG AG TG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
22198863 TGGAGGGAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.49, T:0.03
Consensus pattern (2 bp):
AG
Found at i:22201486 original size:5 final size:5
Alignment explanation
Indices: 22201476--22201509 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
22201466 ATTTGGCCTA
22201476 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
22201510 AATTTAGCTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTC
Found at i:22201793 original size:22 final size:22
Alignment explanation
Indices: 22201768--22201822 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
22201758 AGTTCTATGT
*
22201768 TTTATTATATATATTTTATAAC
1 TTTAATATATATATTTTATAAC
22201790 TTTAATATATATATTTTATAAC
1 TTTAATATATATATTTTATAAC
* *
22201812 TTAAACATATA
1 TTTAATATATA
22201823 CATATGCACC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (22 bp):
TTTAATATATATATTTTATAAC
Found at i:22202447 original size:70 final size:71
Alignment explanation
Indices: 22202324--22202460 Score: 206
Period size: 70 Copynumber: 1.9 Consensus size: 71
22202314 TCTTTTCAAA
*
22202324 CTCACGTTTTAAACGACCCCGGGAATTAAGAAGAAATCGTGTCCTAACATACTGGGCATGA-TCC
1 CTCAAGTTTTAAACGACCCCGGGAATTAAGAAGAAATCGTGTCCTAACATACTGGGCATGACTCC
22202388 TTTTTT
66 TTTTTT
* * * *
22202394 CTCAAGTTTTAAATGATCTCGGGAATTAAGAA-AAGATCGTGTCCTAACTTACTGGGCATGACTC
1 CTCAAGTTTTAAACGACCCCGGGAATTAAGAAGAA-ATCGTGTCCTAACATACTGGGCATGACTC
22202458 CTT
65 CTT
22202461 CTCTAAACCC
Statistics
Matches: 60, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
69 2 0.03
70 53 0.88
71 5 0.08
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (71 bp):
CTCAAGTTTTAAACGACCCCGGGAATTAAGAAGAAATCGTGTCCTAACATACTGGGCATGACTCC
TTTTTT
Found at i:22203505 original size:16 final size:16
Alignment explanation
Indices: 22203484--22203515 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22203474 TTTTACTTTG
22203484 ACTACATGACATTTCA
1 ACTACATGACATTTCA
*
22203500 ACTACATGGCATTTCA
1 ACTACATGACATTTCA
22203516 TCATAAAAGG
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:0.34, C:0.25, G:0.09, T:0.31
Consensus pattern (16 bp):
ACTACATGACATTTCA
Found at i:22214156 original size:18 final size:19
Alignment explanation
Indices: 22214133--22214169 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
22214123 GAATCTGAAC
22214133 AATGTAATCTTA-ATTTAA
1 AATGTAATCTTAGATTTAA
*
22214151 AATGTAATGTTAGATTTAA
1 AATGTAATCTTAGATTTAA
22214170 TAAATTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.43, C:0.03, G:0.11, T:0.43
Consensus pattern (19 bp):
AATGTAATCTTAGATTTAA
Found at i:22216072 original size:19 final size:19
Alignment explanation
Indices: 22216014--22216070 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 19
22216004 AAATAAACAC
22216014 AAAAAAAT-TTTTAGAAAATT
1 AAAAAAATATTTTA-AAAA-T
22216034 AAAAAAATATTTTAAAAAT
1 AAAAAAATATTTTAAAAAT
22216053 AAAAAAAGTATTTTAAAA
1 AAAAAAA-TATTTTAAAA
22216071 TATTTTTAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.23
20 22 0.63
21 5 0.14
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.32
Consensus pattern (19 bp):
AAAAAAATATTTTAAAAAT
Found at i:22220441 original size:22 final size:22
Alignment explanation
Indices: 22220415--22220467 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
22220405 ATTATCAAAT
* *
22220415 TTAGGGTTTTAGGGTTTAGTAA
1 TTAGGGTTTTAAGGTTTAGGAA
* *
22220437 TTAGGGTTTTAAGTTTTAGGGA
1 TTAGGGTTTTAAGGTTTAGGAA
22220459 TTAGGGTTT
1 TTAGGGTTT
22220468 ATGGTTTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.21, C:0.00, G:0.32, T:0.47
Consensus pattern (22 bp):
TTAGGGTTTTAAGGTTTAGGAA
Found at i:22223361 original size:42 final size:42
Alignment explanation
Indices: 22223302--22223420 Score: 166
Period size: 42 Copynumber: 2.8 Consensus size: 42
22223292 ATGAGTTTCT
* *
22223302 GTTTAACCCTAATGGGTTTCCGTTCAGCTCTTTTAAGCTTCA
1 GTTTAACCCTTATGGGTTTCCGTTCAGCTCTTATAAGCTTCA
* *
22223344 GTTTAACCCTTATGGGTTTCCGTTCAGCTCTTATATGCTTCC
1 GTTTAACCCTTATGGGTTTCCGTTCAGCTCTTATAAGCTTCA
* * * *
22223386 GTTCAACCCTTATGGGTTTCTGTTTAGCACTTATA
1 GTTTAACCCTTATGGGTTTCCGTTCAGCTCTTATA
22223421 TGGCTTTTGA
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 69 1.00
ACGTcount: A:0.18, C:0.24, G:0.17, T:0.42
Consensus pattern (42 bp):
GTTTAACCCTTATGGGTTTCCGTTCAGCTCTTATAAGCTTCA
Found at i:22223385 original size:21 final size:21
Alignment explanation
Indices: 22223319--22223390 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
22223309 CCTAATGGGT
*
22223319 TTCCGTTCAGCTCTTTTAAGC
1 TTCCGTTCAGCTCTTATAAGC
* * * * ** *
22223340 TTCAGTTTAACCCTTATGGGT
1 TTCCGTTCAGCTCTTATAAGC
*
22223361 TTCCGTTCAGCTCTTATATGC
1 TTCCGTTCAGCTCTTATAAGC
22223382 TTCCGTTCA
1 TTCCGTTCA
22223391 ACCCTTATGG
Statistics
Matches: 36, Mismatches: 15, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.15, C:0.26, G:0.15, T:0.43
Consensus pattern (21 bp):
TTCCGTTCAGCTCTTATAAGC
Found at i:22225565 original size:44 final size:43
Alignment explanation
Indices: 22225507--22225639 Score: 122
Period size: 44 Copynumber: 3.0 Consensus size: 43
22225497 GTTAATACAC
*
22225507 TGCCAGTAGGTTGTGAATGCACAACATGTTTGCAAATAAAAGT
1 TGCCAGTAGGTTGTGAATGCACAACATGTTTGCAGATAAAAGT
* * * * * *
22225550 TGCCAGTAAGTTTGTGGATGAACCACCAGTGTTTGCAGGTTAATAAGC
1 TGCCAGT-AGGTTGTGAATGCA-CAACA-TGTTTGCA-GATAA-AAGT
* * * *
22225598 TGCCACTAGGTTGTAAATGCACAACGTGTTTGTAGATAAAAG
1 TGCCAGTAGGTTGTGAATGCACAACATGTTTGCAGATAAAAG
22225640 CTTCTAGTAA
Statistics
Matches: 69, Mismatches: 16, Indels: 10
0.73 0.17 0.11
Matches are distributed among these distances:
43 10 0.14
44 15 0.22
45 11 0.16
46 11 0.16
47 13 0.19
48 9 0.13
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.29
Consensus pattern (43 bp):
TGCCAGTAGGTTGTGAATGCACAACATGTTTGCAGATAAAAGT
Found at i:22225622 original size:91 final size:91
Alignment explanation
Indices: 22225467--22225679 Score: 295
Period size: 91 Copynumber: 2.3 Consensus size: 91
22225457 CGAACACTCC
* * * *
22225467 AGTTTATGGATAAACCACAAGTATTTGCAGGTTAATACACTGCCAGTAGGTTGTGAATGCACAAC
1 AGTTTGTGGATAAACCACCAGTATTTGCAGGTTAATACACTGCCACTAGGTTGTAAATGCACAAC
22225532 ATGTTTGCAAATAAAAG-TTGCCAGTA
66 ATGTTTGCAAATAAAAGCTT-CCAGTA
* *
22225558 AGTTTGTGGATGAACCACCAGTGTTTGCAGGTTAATA-AGCTGCCACTAGGTTGTAAATGCACAA
1 AGTTTGTGGATAAACCACCAGTATTTGCAGGTTAATACA-CTGCCACTAGGTTGTAAATGCACAA
* * * *
22225622 CGTGTTTGTAGATAAAAGCTTCTAGTA
65 CATGTTTGCAAATAAAAGCTTCCAGTA
*
22225649 AGTTTGTGGATAAATCACCAGTATTTGCAGG
1 AGTTTGTGGATAAACCACCAGTATTTGCAGG
22225680 CTATTAAATT
Statistics
Matches: 107, Mismatches: 13, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
90 1 0.01
91 104 0.97
92 2 0.02
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (91 bp):
AGTTTGTGGATAAACCACCAGTATTTGCAGGTTAATACACTGCCACTAGGTTGTAAATGCACAAC
ATGTTTGCAAATAAAAGCTTCCAGTA
Found at i:22225925 original size:38 final size:38
Alignment explanation
Indices: 22225776--22225925 Score: 194
Period size: 38 Copynumber: 3.9 Consensus size: 38
22225766 TGAACATGCC
** * ** *
22225776 TAACATGTATTTGGTTCAACACTAGTAGT-AGACATGCT
1 TAACATGTATTCAGTTCAACAGTAACAGTAAG-CATGTT
* * *
22225814 TAACATGTATTCAATTCAACAGCAACAGTAGGCATGTT
1 TAACATGTATTCAGTTCAACAGTAACAGTAAGCATGTT
*
22225852 TAACATGTATTCAGTTCAACAGTAACAGTAGGCATGTT
1 TAACATGTATTCAGTTCAACAGTAACAGTAAGCATGTT
22225890 TAACATGTATTCAGTTCAACAGTAACAGTAAGCATG
1 TAACATGTATTCAGTTCAACAGTAACAGTAAGCATG
22225926 CAACCAGTAA
Statistics
Matches: 99, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
38 98 0.99
39 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (38 bp):
TAACATGTATTCAGTTCAACAGTAACAGTAAGCATGTT
Found at i:22228448 original size:15 final size:15
Alignment explanation
Indices: 22228415--22228448 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
22228405 AAATCTTAAA
**
22228415 ATTATTATTATTGTT
1 ATTATTATTATTGCC
22228430 ATTATTATTATTGCC
1 ATTATTATTATTGCC
22228445 ATTA
1 ATTA
22228449 AGACTTATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.59
Consensus pattern (15 bp):
ATTATTATTATTGCC
Found at i:22228728 original size:14 final size:13
Alignment explanation
Indices: 22228709--22228739 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
22228699 TTCTCTTCCC
22228709 TTTTTCTTTTCTT
1 TTTTTCTTTTCTT
22228722 ATTTTTCTTTTCTT
1 -TTTTTCTTTTCTT
22228736 TTTT
1 TTTT
22228740 CTAGGCCTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTCTTTTCTT
Found at i:22229038 original size:14 final size:16
Alignment explanation
Indices: 22229009--22229038 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22228999 ACCTACAAAC
22229009 ATATATTTATTAAAAA
1 ATATATTTATTAAAAA
22229025 ATATATTT-TTAAAA
1 ATATATTTATTAAAA
22229039 TTTTCAAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATATATTTATTAAAAA
Found at i:22230693 original size:2 final size:2
Alignment explanation
Indices: 22230686--22230735 Score: 75
Period size: 2 Copynumber: 25.5 Consensus size: 2
22230676 TAATCAAAGG
*
22230686 TA TA TA TA TA TA TA TA TA TA -A AA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
22230727 TA TA CA TA T
1 TA TA TA TA T
22230736 GTGGATCGAA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:22231008 original size:41 final size:41
Alignment explanation
Indices: 22230946--22231121 Score: 253
Period size: 41 Copynumber: 4.3 Consensus size: 41
22230936 GTTTGAAATT
* *
22230946 GGTGATTTGAATCAGGTTATAAACCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
* * *
22230987 GGTGATCTGAATCAGGCTATAAGCCTAGAAGGCTAAGTGTC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
* *
22231028 GGTGATCTGAATCAGGCTATAAGCCTAGTAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
* * **
22231069 GGTGATATGAATCAGGTTATTGACCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
22231110 GGTGATCTGAAT
1 GGTGATCTGAAT
22231122 ATGTTAAATT
Statistics
Matches: 121, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 121 1.00
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (41 bp):
GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
Found at i:22238000 original size:2 final size:2
Alignment explanation
Indices: 22237993--22238047 Score: 78
Period size: 2 Copynumber: 28.5 Consensus size: 2
22237983 TAAAGGTAAG
*
22237993 TA TA TA TA TA TA TA TA TA AA TA -A TA T- TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
22238033 TA TA TA TA TA CA TA T
1 TA TA TA TA TA TA TA T
22238048 GTGGATCGAA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
1 2 0.04
2 45 0.96
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:22238320 original size:41 final size:41
Alignment explanation
Indices: 22238258--22238433 Score: 235
Period size: 41 Copynumber: 4.3 Consensus size: 41
22238248 GTTTGAAATT
* * *
22238258 GGTGATTTGAATCAGGTTATAAACCTAGCAGGCTAAGTGTC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
* * *
22238299 GGTGATCTGAATCAGGCTATAAGCCTAGAAGGCTAAGTGTC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
* *
22238340 GGTGATCTGAATCAGGCTATAAGCCTAGTAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
* * ** *
22238381 GGTGATATGAATCAGGTTATTGACCTAGCAGGCTAAGTACC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
22238422 GGTGATCTGAAT
1 GGTGATCTGAAT
22238434 ATGTTAAATT
Statistics
Matches: 121, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 121 1.00
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.27
Consensus pattern (41 bp):
GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
Found at i:22247634 original size:20 final size:20
Alignment explanation
Indices: 22247609--22247653 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
22247599 TAATTATTTA
*
22247609 GATAAAGTTTGTATTTCATT
1 GATAAAATTTGTATTTCATT
* *
22247629 GATAAAATTTGTGTTTCCTT
1 GATAAAATTTGTATTTCATT
22247649 GATAA
1 GATAA
22247654 TATTCAACGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.31, C:0.07, G:0.16, T:0.47
Consensus pattern (20 bp):
GATAAAATTTGTATTTCATT
Found at i:22252568 original size:14 final size:14
Alignment explanation
Indices: 22252549--22252579 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
22252539 ATGATTGTTT
*
22252549 TAATCTAAATTTAC
1 TAATCTAAATTAAC
22252563 TAATCTAAATTAAC
1 TAATCTAAATTAAC
22252577 TAA
1 TAA
22252580 GAACGCGACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (14 bp):
TAATCTAAATTAAC
Found at i:22253559 original size:22 final size:22
Alignment explanation
Indices: 22253518--22253607 Score: 135
Period size: 22 Copynumber: 4.1 Consensus size: 22
22253508 TGCACTAATG
*
22253518 AACAGAGAGCACTGAAGTGCTA
1 AACAGAGAGCACTGATGTGCTA
* * * *
22253540 TACGGAGAGTACAGATGTGCTA
1 AACAGAGAGCACTGATGTGCTA
22253562 AACAGAGAGCACTGATGTGCTA
1 AACAGAGAGCACTGATGTGCTA
22253584 AACAGAGAGCACTGATGTGCTA
1 AACAGAGAGCACTGATGTGCTA
22253606 AA
1 AA
22253608 TATCAGAGAG
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 59 1.00
ACGTcount: A:0.38, C:0.17, G:0.28, T:0.18
Consensus pattern (22 bp):
AACAGAGAGCACTGATGTGCTA
Found at i:22253923 original size:10 final size:10
Alignment explanation
Indices: 22253908--22253934 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
22253898 TCCATAATCT
22253908 TTTATTTTAC
1 TTTATTTTAC
22253918 TTTATTTTAC
1 TTTATTTTAC
22253928 TTTATTT
1 TTTATTT
22253935 CTAAATAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTATTTTAC
Found at i:22254731 original size:13 final size:13
Alignment explanation
Indices: 22254710--22254745 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
22254700 ATATATACAT
22254710 AATAATATAATAA
1 AATAATATAATAA
*
22254723 AATATTATAATAA
1 AATAATATAATAA
*
22254736 TATAATATAA
1 AATAATATAA
22254746 CAACATACTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AATAATATAATAA
Found at i:22258714 original size:13 final size:13
Alignment explanation
Indices: 22258696--22258720 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22258686 TAAAAATACA
22258696 TTTTAACTTGAAT
1 TTTTAACTTGAAT
22258709 TTTTAACTTGAA
1 TTTTAACTTGAA
22258721 AAAATTTTAA
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:0.32, C:0.08, G:0.08, T:0.52
Consensus pattern (13 bp):
TTTTAACTTGAAT
Found at i:22260163 original size:22 final size:21
Alignment explanation
Indices: 22260113--22260163 Score: 66
Period size: 22 Copynumber: 2.4 Consensus size: 21
22260103 CATATCTATA
*
22260113 TTATAAAAAATATGTTTGTAT
1 TTATAAAAAATATGTATGTAT
* *
22260134 GTACAAAAATATATGTATGTAT
1 TTATAAAAA-ATATGTATGTAT
22260156 TTATAAAA
1 TTATAAAA
22260164 GTTTTTAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.47, C:0.02, G:0.10, T:0.41
Consensus pattern (21 bp):
TTATAAAAAATATGTATGTAT
Found at i:22261734 original size:45 final size:44
Alignment explanation
Indices: 22261683--22261774 Score: 112
Period size: 44 Copynumber: 2.1 Consensus size: 44
22261673 TAAGACTTAT
* ** * *
22261683 ATCTACTTCACCACCAGTATGGGAAGACAGGATCTGCTTTCTTTG
1 ATCTACTTCA-CACCAATACAGGAAGACAAGATCTGCTTTCTTCG
* *
22261728 ATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCG
1 ATCTACTTCACACCAATACAGGAAGACAAGATCTGCTTTCTTCG
22261772 ATC
1 ATC
22261775 GATTCCACTG
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 30 0.75
45 10 0.25
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.30
Consensus pattern (44 bp):
ATCTACTTCACACCAATACAGGAAGACAAGATCTGCTTTCTTCG
Found at i:22262059 original size:44 final size:44
Alignment explanation
Indices: 22261834--22262327 Score: 180
Period size: 44 Copynumber: 11.2 Consensus size: 44
22261824 ATTGCAACCT
* * ** * * * *
22261834 CAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCT
1 CAGGGAGATAAGATCTGTTATCTTTAATCTACTCCACTGCTGCC
* * * * *
22261878 TAGGGAGATAAGATCTGTAATCCTCAATCTATTCCACTGCTGCC
1 CAGGGAGATAAGATCTGTTATCTTTAATCTACTCCACTGCTGCC
* ** * * * *
22261922 CAGGGAGAT-AGAGT-TATTGGCTTCAATGTATTCCACTG-TAACC
1 CAGGGAGATAAGA-TCTGTTATCTTTAATCTACTCCACTGCT-GCC
* * **** * * * * *
22261965 TCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCTCTACTGCT
1 -CAGGGAGATAAGATCTGTTATCTTTAATCTACTCCACTGCTGCC
* *
22262010 TAGGGAGATAAGATCTGTTATCTTTAATCTATTCCACTGCTGCC
1 CAGGGAGATAAGATCTGTTATCTTTAATCTACTCCACTGCTGCC
* * ** * * *
22262054 CAGGGATAT-AGAAT-TATTGGCTTCAATGTACTCCACTG-TAACC
1 CAGGGAGATAAG-ATCTGTTATCTTTAATCTACTCCACTGCT-GCC
* * **** * * * * *
22262097 TCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCTCTACTGCT
1 -CAGGGAGATAAGATCTGTTATCTTTAATCTACTCCACTGCTGCC
* * * * ** *
22262142 TAGGGAGATAAGATCTGTAATCCTCAATCTTTTCCACTACTGCC
1 CAGGGAGATAAGATCTGTTATCTTTAATCTACTCCACTGCTGCC
* * **
22262186 CAGGGAGAT-AGA---GTTACTGGTTTCAATATACTCCACTGCAACC
1 CAGGGAGATAAGATCTGTTA-T-CTTT-AATCTACTCCACTGCTGCC
* * ** * * *
22262229 TCAGGGAGGTAAAATCTGCCATCTTTGATCTACTCCACTACTGCT
1 -CAGGGAGATAAGATCTGTTATCTTTAATCTACTCCACTGCTGCC
* * *
22262274 TAGGGAGATAAGATCTGTTATCTTTAATCTATTCTACTGCTGCC
1 CAGGGAGATAAGATCTGTTATCTTTAATCTACTCCACTGCTGCC
22262318 CAGGGAGATA
1 CAGGGAGATA
22262328 GAATTATTGG
Statistics
Matches: 309, Mismatches: 121, Indels: 40
0.66 0.26 0.09
Matches are distributed among these distances:
40 3 0.01
41 1 0.00
42 3 0.01
43 61 0.20
44 188 0.61
45 45 0.15
46 5 0.02
47 1 0.00
48 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (44 bp):
CAGGGAGATAAGATCTGTTATCTTTAATCTACTCCACTGCTGCC
Found at i:22262445 original size:132 final size:132
Alignment explanation
Indices: 22261766--22262433 Score: 1021
Period size: 132 Copynumber: 5.1 Consensus size: 132
22261756 AGATCTGCTT
* * * * * * * * * *
22261766 TCTTCGATCGATTCCACTGCCGACCGGGGAAATAGAATTACTGGCTTCAATATACTCCATTGCAA
1 TCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTATTGGCTTCAATGTACTCCACTGTAA
**
22261831 CCTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
66 CCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
22261896 AA
131 AA
* * *
22261898 TCCTCAATCTATTCCACTGCTGCCCAGGGAGATAGAGTTATTGGCTTCAATGTATTCCACTGTAA
1 TCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTATTGGCTTCAATGTACTCCACTGTAA
*
22261963 CCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCTCTACTGCTTAGGGAGATAAGATCTGT
66 CCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
*
22262028 TA
131 AA
* *
22262030 TCTTTAATCTATTCCACTGCTGCCCAGGGATATAGAATTATTGGCTTCAATGTACTCCACTGTAA
1 TCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTATTGGCTTCAATGTACTCCACTGTAA
*
22262095 CCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCTCTACTGCTTAGGGAGATAAGATCTGT
66 CCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
22262160 AA
131 AA
* * * * * * * *
22262162 TCCTCAATCTTTTCCACTACTGCCCAGGGAGATAGAGTTACTGGTTTCAATATACTCCACTGCAA
1 TCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTATTGGCTTCAATGTACTCCACTGTAA
** *
22262227 CCTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGT
66 CCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
*
22262292 TA
131 AA
* *
22262294 TCTTTAATCTATTCTACTGCTGCCCAGGGAGATAGAATTATTGGCTTCAATGTACTCCACTGTAA
1 TCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTATTGGCTTCAATGTACTCCACTGTAA
*
22262359 CCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGT
66 CCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
22262424 AA
131 AA
22262426 TCTTCAAT
1 TCTTCAAT
22262434 TTGTTCAACT
Statistics
Matches: 482, Mismatches: 54, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
132 482 1.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (132 bp):
TCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTATTGGCTTCAATGTACTCCACTGTAA
CCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
AA
Found at i:22262489 original size:50 final size:50
Alignment explanation
Indices: 22262427--22262896 Score: 343
Period size: 50 Copynumber: 9.4 Consensus size: 50
22262417 GATCTGTAAT
* *
22262427 CTTCAATTTGTTCAACTGCAATATCAGGGAAACCAGATCCGTCGTCGTAG
1 CTTCAATCTGTTCAACTGCAATATCAGGGAAACCAGATCCGCCGTCGTAG
* * *** *** * *
22262477 CTTCAATCTGTTCCACCGCACCGTCAGGGAAGTAAGATCCGCCGTTGTGG
1 CTTCAATCTGTTCAACTGCAATATCAGGGAAACCAGATCCGCCGTCGTAG
* * *
22262527 CTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCCGCCGTCGTAG
1 CTTCAATCTGTTCAACTGCAATATCAGGGAAACCAGATCCGCCGTCGTAG
* * * * ** *** * *
22262577 CTTCAATATGTTCCACTGCACT-GCTAAAGAAGTAAGATCCGCCGTTGTGG
1 CTTCAATCTGTTCAACTGCAATATC-AGGGAAACCAGATCCGCCGTCGTAG
* * * *
22262627 CTTCAATCTTTTTAAGTGCAATATCAGGGAAACCAGATCCGTCGTCGTAG
1 CTTCAATCTGTTCAACTGCAATATCAGGGAAACCAGATCCGCCGTCGTAG
* * * * ** *** * * *
22262677 CTTCAATCTATTCCACTGCACT-GCTAAAGAAGTAAGATCTGCCGTTGTGG
1 CTTCAATCTGTTCAACTGCAATATC-AGGGAAACCAGATCCGCCGTCGTAG
* * * * *
22262727 CTTCAATCTTTTTAATTACAATATCAGGGAAACCAGATCCGTCGTCGTAG
1 CTTCAATCTGTTCAACTGCAATATCAGGGAAACCAGATCCGCCGTCGTAG
* * * *** * *
22262777 CTTCAATCTGTTCCACTGCACTA-CTAAGGAAGTAAGATCCGCCGTTGTGG
1 CTTCAATCTGTTCAACTGCAATATC-AGGGAAACCAGATCCGCCGTCGTAG
* * * * *
22262827 CTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCCACCATCGTAG
1 CTTCAATCTGTTCAACTGCAATATCAGGGAAACCAGATCCGCCGTCGTAG
*
22262877 CTTCAATCTGTTCCACTGCA
1 CTTCAATCTGTTCAACTGCA
22262897 CTGCGAAGGA
Statistics
Matches: 299, Mismatches: 115, Indels: 12
0.70 0.27 0.03
Matches are distributed among these distances:
49 3 0.01
50 293 0.98
51 3 0.01
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (50 bp):
CTTCAATCTGTTCAACTGCAATATCAGGGAAACCAGATCCGCCGTCGTAG
Found at i:22262555 original size:100 final size:100
Alignment explanation
Indices: 22262443--22262911 Score: 742
Period size: 100 Copynumber: 4.7 Consensus size: 100
22262433 TTTGTTCAAC
* **
22262443 TGCAATATCAGGGAAACCAGATCCGTCGTCGTAGCTTCAATCTGTTCCACCGCACCG-TCAGGGA
1 TGCAATATCAGGGAAACCAGATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACCGCT-AAAGA
22262507 AGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
65 AGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
* * *
22262543 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATATGTTCCACTGCACTGCTAAAGAA
1 TGCAATATCAGGGAAACCAGATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACCGCTAAAGAA
*
22262608 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAG
66 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
* *
22262643 TGCAATATCAGGGAAACCAGATCCGTCGTCGTAGCTTCAATCTATTCCACTGCACTGCTAAAGAA
1 TGCAATATCAGGGAAACCAGATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACCGCTAAAGAA
*
22262708 GTAAGATCTGCCGTTGTGGCTTCAATCTTTTTAAT
66 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
* ** *
22262743 TACAATATCAGGGAAACCAGATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACTACTAAGGAA
1 TGCAATATCAGGGAAACCAGATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACCGCTAAAGAA
22262808 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
66 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
** * * * *
22262843 TGCAATATCAGGGAAACCAGATCCACCATCGTAGCTTCAATCTGTTCCACTGCACTGCGAAGGAA
1 TGCAATATCAGGGAAACCAGATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACCGCTAAAGAA
22262908 GTAA
66 GTAA
22262912 AATCTATGGT
Statistics
Matches: 345, Mismatches: 23, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
100 344 1.00
101 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (100 bp):
TGCAATATCAGGGAAACCAGATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACCGCTAAAGAA
GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
Found at i:22264169 original size:7 final size:7
Alignment explanation
Indices: 22264159--22264193 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
22264149 CCGTTTTTAT
22264159 TTTTTCA
1 TTTTTCA
22264166 TTTTTCA
1 TTTTTCA
22264173 -TTTTCA
1 TTTTTCA
22264179 TCTTTTCA
1 T-TTTTCA
22264187 TTTTTCA
1 TTTTTCA
22264194 CATCACTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 6 0.23
7 13 0.50
8 7 0.27
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (7 bp):
TTTTTCA
Found at i:22264176 original size:14 final size:15
Alignment explanation
Indices: 22264159--22264193 Score: 56
Period size: 13 Copynumber: 2.5 Consensus size: 15
22264149 CCGTTTTTAT
22264159 TTTTTCAT-TTTTCA
1 TTTTTCATCTTTTCA
22264173 -TTTTCATCTTTTCA
1 TTTTTCATCTTTTCA
22264187 TTTTTCA
1 TTTTTCA
22264194 CATCACTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 7 0.37
14 6 0.32
15 6 0.32
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTTCATCTTTTCA
Found at i:22267141 original size:13 final size:13
Alignment explanation
Indices: 22267123--22267149 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
22267113 TGGTTCAATT
22267123 CTTCACTAGAAAA
1 CTTCACTAGAAAA
22267136 CTTCACTAGAAAA
1 CTTCACTAGAAAA
22267149 C
1 C
22267150 AAATCTCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.26, G:0.07, T:0.22
Consensus pattern (13 bp):
CTTCACTAGAAAA
Found at i:22269243 original size:33 final size:33
Alignment explanation
Indices: 22269180--22269243 Score: 76
Period size: 34 Copynumber: 1.9 Consensus size: 33
22269170 TATGCTATAA
* * *
22269180 AAATAATGTATATTTTAAATTATAATATGTAGG
1 AAATAATGTATATTCTAAAATATAACATGTAGG
*
22269213 AAATATATGTATATTCTAAAATGT-ACATGTA
1 AAATA-ATGTATATTCTAAAATATAACATGTA
22269244 TATTTATATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
33 11 0.42
34 15 0.58
ACGTcount: A:0.45, C:0.03, G:0.11, T:0.41
Consensus pattern (33 bp):
AAATAATGTATATTCTAAAATATAACATGTAGG
Found at i:22269414 original size:22 final size:21
Alignment explanation
Indices: 22269364--22269414 Score: 66
Period size: 22 Copynumber: 2.4 Consensus size: 21
22269354 CATATCTATA
*
22269364 TTATAAAAAATATGTTTGTAT
1 TTATAAAAAATATGTATGTAT
* *
22269385 GTACAAAAATATATGTATGTAT
1 TTATAAAAA-ATATGTATGTAT
22269407 TTATAAAA
1 TTATAAAA
22269415 GTTTTTAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.47, C:0.02, G:0.10, T:0.41
Consensus pattern (21 bp):
TTATAAAAAATATGTATGTAT
Found at i:22276362 original size:16 final size:17
Alignment explanation
Indices: 22276330--22276362 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
22276320 GTTAAGGGAA
*
22276330 ATTTTATAAAGTGAATT
1 ATTTTATAAAATGAATT
22276347 ATTTTA-AAAATGAATT
1 ATTTTATAAAATGAATT
22276363 TTAACTTGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (17 bp):
ATTTTATAAAATGAATT
Found at i:22276755 original size:16 final size:16
Alignment explanation
Indices: 22276734--22276767 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
22276724 AAGAGGATAT
22276734 TTCTTGGGTAAGTGCA
1 TTCTTGGGTAAGTGCA
*
22276750 TTCTTGGGTAGGTGCA
1 TTCTTGGGTAAGTGCA
22276766 TT
1 TT
22276768 GTAGTCTCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.15, C:0.12, G:0.32, T:0.41
Consensus pattern (16 bp):
TTCTTGGGTAAGTGCA
Found at i:22277662 original size:9 final size:9
Alignment explanation
Indices: 22277648--22277678 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
22277638 GTTAAACGAA
22277648 TCGAGTTAT
1 TCGAGTTAT
*
22277657 TCGAGTTAA
1 TCGAGTTAT
22277666 TCGAGTTAT
1 TCGAGTTAT
22277675 TCGA
1 TCGA
22277679 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:22277759 original size:9 final size:9
Alignment explanation
Indices: 22277732--22277768 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
22277722 TGAGTTTTCG
22277732 AATTCGAAT
1 AATTCGAAT
* *
22277741 AACTCAAAT
1 AATTCGAAT
22277750 AATTCGAAT
1 AATTCGAAT
22277759 AATTCGAAT
1 AATTCGAAT
22277768 A
1 A
22277769 TTAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:22278016 original size:30 final size:31
Alignment explanation
Indices: 22277982--22278041 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
22277972 AAACCTTTTA
*
22277982 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
22278012 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
22278042 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:22279441 original size:5 final size:5
Alignment explanation
Indices: 22279431--22279456 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
22279421 GGTAAGTTCG
22279431 TAAAT TAAAT TAAAT TAAAT TAAAT T
1 TAAAT TAAAT TAAAT TAAAT TAAAT T
22279457 CTGTTTTGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TAAAT
Found at i:22279631 original size:44 final size:45
Alignment explanation
Indices: 22279567--22279681 Score: 169
Period size: 44 Copynumber: 2.6 Consensus size: 45
22279557 TTCAAACGTG
* * *
22279567 TAAGACCATAATTGAAAGACACTATGACACTATACCATAGATGAA
1 TAAGACCATAGTTGAAAGACACTATGACACTATACCAAAAATGAA
* *
22279612 TAAGACC-TAGTTGAAAGACACTATGGCACTATATCAAAAATGAA
1 TAAGACCATAGTTGAAAGACACTATGACACTATACCAAAAATGAA
*
22279656 TAAGTCCATAGTTGAAAGACACTATG
1 TAAGACCATAGTTGAAAGACACTATG
22279682 GCATCATGTC
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
44 38 0.60
45 25 0.40
ACGTcount: A:0.44, C:0.17, G:0.16, T:0.23
Consensus pattern (45 bp):
TAAGACCATAGTTGAAAGACACTATGACACTATACCAAAAATGAA
Found at i:22279682 original size:45 final size:45
Alignment explanation
Indices: 22279567--22279719 Score: 184
Period size: 45 Copynumber: 3.4 Consensus size: 45
22279557 TTCAAACGTG
* * * * *
22279567 TAAGACCATAATTGAAAGACACTATGACACTATACCATAGATGAA
1 TAAGACCATAGTTGAAAGACACTATGGCACTATATCAAAAATGAA
22279612 TAAGACC-TAGTTGAAAGACACTATGGCACTATATCAAAAATGAA
1 TAAGACCATAGTTGAAAGACACTATGGCACTATATCAAAAATGAA
* * * *
22279656 TAAGTCCATAGTTGAAAGACACTATGGCA-TCATGTCAGAAATAAA
1 TAAGACCATAGTTGAAAGACACTATGGCACT-ATATCAAAAATGAA
* *
22279701 TAAGACCATGGCTGAAAGA
1 TAAGACCATAGTTGAAAGA
22279720 TGCTATGACA
Statistics
Matches: 94, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
44 39 0.41
45 55 0.59
ACGTcount: A:0.44, C:0.16, G:0.17, T:0.22
Consensus pattern (45 bp):
TAAGACCATAGTTGAAAGACACTATGGCACTATATCAAAAATGAA
Found at i:22281559 original size:34 final size:34
Alignment explanation
Indices: 22281510--22281584 Score: 98
Period size: 34 Copynumber: 2.2 Consensus size: 34
22281500 CTAACAAACT
* *
22281510 CTAATAAATTTAGCTTCCTACT-TGTACTAACAAG
1 CTAACAAACTTAGCTTCCTACTCT-TACTAACAAG
* *
22281544 TTAACAAACTTAGCTTCCTACTCTTACTAATAAG
1 CTAACAAACTTAGCTTCCTACTCTTACTAACAAG
22281578 CTAACAA
1 CTAACAA
22281585 TCTCTCTAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
34 34 0.97
35 1 0.03
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (34 bp):
CTAACAAACTTAGCTTCCTACTCTTACTAACAAG
Found at i:22285490 original size:34 final size:34
Alignment explanation
Indices: 22285450--22285524 Score: 125
Period size: 34 Copynumber: 2.2 Consensus size: 34
22285440 CTAACAAACT
*
22285450 CTAACAAA-TTCAACTTCTTACTCGTACTAACAAG
1 CTAACAAACTT-AACTTCTTACTCCTACTAACAAG
22285484 CTAACAAACTTAACTTCTTACTCCTACTAACAAG
1 CTAACAAACTTAACTTCTTACTCCTACTAACAAG
22285518 CTAACAA
1 CTAACAA
22285525 CCTCCTTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
34 37 0.95
35 2 0.05
ACGTcount: A:0.40, C:0.28, G:0.04, T:0.28
Consensus pattern (34 bp):
CTAACAAACTTAACTTCTTACTCCTACTAACAAG
Found at i:22290478 original size:19 final size:19
Alignment explanation
Indices: 22290443--22290480 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
22290433 AAAATATCTC
*
22290443 AAATAATATAACTTATTTT
1 AAATAATATAACATATTTT
22290462 AAAT-ATATAATCATATTTT
1 AAATAATATAA-CATATTTT
22290481 TCATAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (19 bp):
AAATAATATAACATATTTT
Found at i:22295164 original size:20 final size:20
Alignment explanation
Indices: 22295141--22295183 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
22295131 TAAATATATT
*
22295141 TATTATGTT-TTATTATTATA
1 TATTATATTATTA-TATTATA
22295161 TATTATATTATTATATTATA
1 TATTATATTATTATATTATA
22295181 TAT
1 TAT
22295184 AAAGTAAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (20 bp):
TATTATATTATTATATTATA
Found at i:22295175 original size:13 final size:13
Alignment explanation
Indices: 22295111--22295181 Score: 55
Period size: 13 Copynumber: 5.8 Consensus size: 13
22295101 GTTTAATAAA
22295111 TATATTATATTAT
1 TATATTATATTAT
* * *
22295124 TA-AATA-ATAAA
1 TATATTATATTAT
22295135 TATATT-TATTAT
1 TATATTATATTAT
22295147 GT-T-TTATTATTA-
1 -TATATTA-TATTAT
22295159 TATATTATATTAT
1 TATATTATATTAT
22295172 TATATTATAT
1 TATATTATAT
22295182 ATAAAGTAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 16
0.67 0.09 0.24
Matches are distributed among these distances:
11 8 0.18
12 15 0.34
13 21 0.48
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (13 bp):
TATATTATATTAT
Found at i:22295182 original size:15 final size:15
Alignment explanation
Indices: 22295134--22295183 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
22295124 TAAATAATAA
*
22295134 ATATATTTATTATGTT
1 ATATA-TTATTATATT
22295150 -T-TATTATTATA-T
1 ATATATTATTATATT
22295162 ATTATATTATTATATT
1 A-TATATTATTATATT
22295178 ATATAT
1 ATATAT
22295184 AAAGTAAAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
12 1 0.03
13 7 0.24
14 3 0.10
15 16 0.55
16 2 0.07
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (15 bp):
ATATATTATTATATT
Found at i:22295999 original size:36 final size:36
Alignment explanation
Indices: 22295962--22296051 Score: 101
Period size: 37 Copynumber: 2.4 Consensus size: 36
22295952 ATTTGTGGAA
*
22295962 TTGAAATGAATAT-TGACTTGAAAATGGAAAAGTGAAT
1 TTGAAATGAAT-TGTGA-TTGAAAATGAAAAAGTGAAT
* *
22295999 TTTAAATTGAATTGTGATTGAAAGTGAAAAAGTGAAT
1 TTGAAA-TGAATTGTGATTGAAAATGAAAAAGTGAAT
* *
22296036 TTGAATTGAAATGTGA
1 TTGAAATGAATTGTGA
22296052 AATTGGAGAC
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
36 9 0.20
37 28 0.62
38 8 0.18
ACGTcount: A:0.43, C:0.01, G:0.22, T:0.33
Consensus pattern (36 bp):
TTGAAATGAATTGTGATTGAAAATGAAAAAGTGAAT
Found at i:22298471 original size:39 final size:39
Alignment explanation
Indices: 22298343--22298477 Score: 134
Period size: 40 Copynumber: 3.4 Consensus size: 39
22298333 CGTTTGAACA
* * *
22298343 AAAAACGCCACTAAAAATTGAGCATGAGCGGCGCTTTTAT-
1 AAAAACGCCGCTAAAAA-TAAGCATTAGCGGCGCTTTT-TG
* **
22298383 AAAAACGTCGCTAAAGGTAGAGCATTAGCGGCGCTTTTTCG
1 AAAAACGCCGCTAAAAATA-AGCATTAGCGGCGCTTTTT-G
22298424 -AAAACGCCGCTAAAAATAAGCATTAGCGGCG-TTTTCTG
1 AAAAACGCCGCTAAAAATAAGCATTAGCGGCGCTTTT-TG
*
22298462 AAAAGCGCCGC-AAAAA
1 AAAAACGCCGCTAAAAA
22298478 GCCTAAGCCC
Statistics
Matches: 80, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
38 10 0.12
39 25 0.31
40 45 0.56
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (39 bp):
AAAAACGCCGCTAAAAATAAGCATTAGCGGCGCTTTTTG
Found at i:22298574 original size:41 final size:41
Alignment explanation
Indices: 22298517--22298758 Score: 335
Period size: 41 Copynumber: 5.9 Consensus size: 41
22298507 TTTTTGGGGC
* *
22298517 CTTTAGCGGCGTTTTTGAAGAAGCACCGCTAATGCTCTAGT
1 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTGGT
*
22298558 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTGGC
1 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTGGT
*
22298599 CTTTAGCGGCGTTTTTTAAGAAGCGCCGCTAATGCTC-GGAT
1 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTGG-T
* * * *
22298640 CTTTAGCGGCGTTTTTAAATAAGCGCCACTAATGCTCTGGC
1 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTGGT
*
22298681 CTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGCTC-GGAT
1 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTGG-T
* * * *
22298722 CTTTAGCGACGTTTTTTAAAAAGTGCCGCTAATGCTC
1 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
22298759 CGGCCTTTCA
Statistics
Matches: 179, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
40 4 0.02
41 173 0.97
42 2 0.01
ACGTcount: A:0.21, C:0.23, G:0.25, T:0.31
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTGGT
Found at i:22298651 original size:82 final size:82
Alignment explanation
Indices: 22298514--22298766 Score: 382
Period size: 82 Copynumber: 3.1 Consensus size: 82
22298504 AAGTTTTTGG
* * * *
22298514 GGCCTTTAGCGGCGTTTTTGAAGAAGCACCGCTAATGCTC-TAGTCTTTAGCGGCGTTTTTGAAG
1 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGA-TCTTTAGCGGCGTTTTTAAAA
22298578 AAGCGCCGCTAATGCTCT
65 AAGCGCCGCTAATGCTCT
* *
22298596 GGCCTTTAGCGGCGTTTTTTAAGAAGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTTAAATA
1 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTTAAAAA
*
22298661 AGCGCCACTAATGCTCT
66 AGCGCCGCTAATGCTCT
* * *
22298678 GGCCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGCTCGGATCTTTAGCGACGTTTTTTAAAA
1 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTTAAAAA
* *
22298743 AGTGCCGCTAATGCTCC
66 AGCGCCGCTAATGCTCT
22298760 GGCCTTT
1 GGCCTTT
22298767 CAAAAACGCC
Statistics
Matches: 156, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
82 155 0.99
83 1 0.01
ACGTcount: A:0.20, C:0.23, G:0.25, T:0.31
Consensus pattern (82 bp):
GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTTAAAAA
AGCGCCGCTAATGCTCT
Found at i:22298736 original size:123 final size:123
Alignment explanation
Indices: 22298517--22298758 Score: 369
Period size: 123 Copynumber: 2.0 Consensus size: 123
22298507 TTTTTGGGGC
* * * *
22298517 CTTTAGCGGCGTTTTTGAAGAAGCACCGCTAATGCTCTAGTCTTTAGCGGCGTTTTTGAAGAAGC
1 CTTTAGCGGCGTTTTTAAAGAAGCACCACTAATGCTCTAGCCTTTAGCGGCATTTTTGAAGAAGC
* *
22298582 GCCGCTAATGCTCTGGCCTTTAGCGGCGTTTTTTAAGAAGCGCCGCTAATGCTCGGAT
66 GCCGCTAATGCTCTGGCCTTTAGCGACGTTTTTTAAAAAGCGCCGCTAATGCTCGGAT
* * *
22298640 CTTTAGCGGCGTTTTTAAATAAGCGCCACTAATGCTCTGGCCTTTAGCGGCATTTTTGAAGAAGC
1 CTTTAGCGGCGTTTTTAAAGAAGCACCACTAATGCTCTAGCCTTTAGCGGCATTTTTGAAGAAGC
* *
22298705 GCCGCTAATGCTC-GGATCTTTAGCGACGTTTTTTAAAAAGTGCCGCTAATGCTC
66 GCCGCTAATGCTCTGG-CCTTTAGCGACGTTTTTTAAAAAGCGCCGCTAATGCTC
22298759 CGGCCTTTCA
Statistics
Matches: 107, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
122 2 0.02
123 105 0.98
ACGTcount: A:0.21, C:0.23, G:0.25, T:0.31
Consensus pattern (123 bp):
CTTTAGCGGCGTTTTTAAAGAAGCACCACTAATGCTCTAGCCTTTAGCGGCATTTTTGAAGAAGC
GCCGCTAATGCTCTGGCCTTTAGCGACGTTTTTTAAAAAGCGCCGCTAATGCTCGGAT
Found at i:22299298 original size:13 final size:13
Alignment explanation
Indices: 22299280--22299306 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
22299270 ATGAAATTAG
22299280 AGTATTAATTTTA
1 AGTATTAATTTTA
22299293 AGTATTAATTTTA
1 AGTATTAATTTTA
22299306 A
1 A
22299307 AATATTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (13 bp):
AGTATTAATTTTA
Found at i:22299641 original size:33 final size:33
Alignment explanation
Indices: 22299603--22299674 Score: 99
Period size: 33 Copynumber: 2.2 Consensus size: 33
22299593 ATTAAATAAT
* ** * *
22299603 GTTTAGGGGTTAGGGATTCTGGGTTGGGTTAGG
1 GTTTAGGGATTAGGGATTCAAGGTCGGGTTAAG
22299636 GTTTAGGGATTAGGGATTCAAGGTCGGGTTAAG
1 GTTTAGGGATTAGGGATTCAAGGTCGGGTTAAG
22299669 GTTTAG
1 GTTTAG
22299675 AATTTAGATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.18, C:0.04, G:0.43, T:0.35
Consensus pattern (33 bp):
GTTTAGGGATTAGGGATTCAAGGTCGGGTTAAG
Found at i:22302241 original size:14 final size:14
Alignment explanation
Indices: 22302222--22302248 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22302212 TATGTAAGTC
22302222 TTATACATAATTTA
1 TTATACATAATTTA
22302236 TTATACATAATTT
1 TTATACATAATTT
22302249 TTTTCTTGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (14 bp):
TTATACATAATTTA
Found at i:22302825 original size:5 final size:5
Alignment explanation
Indices: 22302815--22302841 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
22302805 GATTCTTGTT
22302815 TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
22302842 GGCAAGAAAG
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):
TTTTA
Found at i:22304164 original size:43 final size:43
Alignment explanation
Indices: 22304062--22304356 Score: 414
Period size: 43 Copynumber: 6.9 Consensus size: 43
22304052 TTTTTGCGAG
* * * *
22304062 AAGCACCGCTAAAGGTCTTGATCTTTAGCGGCGTTTGTG-GGA
1 AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGAGAA
* * *
22304104 AAGCACCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTGGGAA
1 AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGAGAA
*
22304147 AAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTG-GAAA
1 AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGAG-AA
* *
22304190 AAGCGCTGCTAAAGATCATGGTCTTTAGCGGCGTTTGTGAGAA
1 AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGAGAA
* * *
22304233 AAGCGCCTCTAAAGATCATGGTCTTTAGCGGTGTTTGTGAGAA
1 AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGAGAA
* *
22304276 AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCATTTGTGAGAG
1 AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGAGAA
**
22304319 AAGCGCCGCTAAAGGTCATTATCTTTAGCGGCGTTTGT
1 AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGT
22304357 TTCTAAAAAC
Statistics
Matches: 232, Mismatches: 18, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
42 38 0.16
43 193 0.83
44 1 0.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (43 bp):
AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGAGAA
Found at i:22308295 original size:42 final size:42
Alignment explanation
Indices: 22308186--22308344 Score: 147
Period size: 48 Copynumber: 3.6 Consensus size: 42
22308176 TATCGTACAA
* * * **
22308186 ATGCCATGTCCCAGACATTGTCTTACGTGGAAATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTAC-ACGAAATCTCATATCG
* * * *
22308229 ATGCAAATAGCCCAGCTATGGTCTTACACGAAGTCTCATATCG
1 ATGC-CATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* *
22308272 ATGCCATATCCCAGATATGGTCTTATACAAAATCTCAAATCAATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAA--TC---TC-ATATCG
22308320 ATGCCATATCCCAGATATGGTCTTA
1 ATGCCATATCCCAGATATGGTCTTA
22308345 TACAGTATCT
Statistics
Matches: 94, Mismatches: 15, Indels: 9
0.80 0.13 0.08
Matches are distributed among these distances:
42 22 0.23
43 21 0.22
44 18 0.19
47 2 0.02
48 31 0.33
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
Found at i:22308337 original size:48 final size:48
Alignment explanation
Indices: 22308266--22308367 Score: 179
Period size: 48 Copynumber: 2.1 Consensus size: 48
22308256 ACGAAGTCTC
22308266 ATATCGATGCCATATCCCAGATATGGTCTTATACAAAATCTCAAATCA
1 ATATCGATGCCATATCCCAGATATGGTCTTATACAAAATCTCAAATCA
**
22308314 ATATCGATGCCATATCCCAGATATGGTCTTATACAGTATCTCAAATCA
1 ATATCGATGCCATATCCCAGATATGGTCTTATACAAAATCTCAAATCA
22308362 AT-TCGA
1 ATATCGA
22308368 CAATATATAT
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
47 4 0.08
48 48 0.92
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.30
Consensus pattern (48 bp):
ATATCGATGCCATATCCCAGATATGGTCTTATACAAAATCTCAAATCA
Found at i:22308390 original size:30 final size:32
Alignment explanation
Indices: 22308355--22308438 Score: 109
Period size: 32 Copynumber: 2.7 Consensus size: 32
22308345 TACAGTATCT
* *
22308355 CAAATCAATTCGACAATATATATA-C-ATATA
1 CAAATCAATTCGGCAATATATATATCTACATA
* *
22308385 CAAATCAATTCGGCAATGTACATATCTACATA
1 CAAATCAATTCGGCAATATATATATCTACATA
*
22308417 TAAATCAATTCGGCAATATATA
1 CAAATCAATTCGGCAATATATA
22308439 AAACAAATAC
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
30 21 0.47
31 1 0.02
32 23 0.51
ACGTcount: A:0.45, C:0.18, G:0.07, T:0.30
Consensus pattern (32 bp):
CAAATCAATTCGGCAATATATATATCTACATA
Found at i:22310798 original size:43 final size:41
Alignment explanation
Indices: 22310706--22310854 Score: 122
Period size: 42 Copynumber: 3.6 Consensus size: 41
22310696 AGATTTCCCG
* ** * ** *
22310706 AGGGGTTGCTAAGTGTTGATTCCTGGAATTATTGATTCTAA
1 AGGGGTTGCTAAGTGCTGATTCCCCGTATCCTTGATTATAA
*
22310747 AGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAA
1 AGG-GGTTGCTAAGTGCTGATTCC-CCGTATCCTTGATTAT-AA
* * * *
22310791 AGGGGTTGCTATGTGCTAATTCCCCGTATCAC-TAAATAT-A
1 AGGGGTTGCTAAGTGCTGATTCCCCGTATC-CTTGATTATAA
*
22310831 AGTTGGTTGCTAAGTGCTGATTCC
1 AG-GGGTTGCTAAGTGCTGATTCC
22310855 ACCGAGTAAC
Statistics
Matches: 88, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
40 3 0.03
41 21 0.24
42 30 0.34
43 29 0.33
44 5 0.06
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.36
Consensus pattern (41 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGTATCCTTGATTATAA
Found at i:22311186 original size:18 final size:19
Alignment explanation
Indices: 22311163--22311198 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
22311153 AGCAAAAGAG
22311163 TTTAATATTA-TGAGATAT
1 TTTAATATTAGTGAGATAT
*
22311181 TTTAATTTTAGTGAGATA
1 TTTAATATTAGTGAGATA
22311199 GGGCCAGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (19 bp):
TTTAATATTAGTGAGATAT
Found at i:22313843 original size:21 final size:21
Alignment explanation
Indices: 22313817--22313858 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
22313807 GAAATTGAAA
22313817 TGTTTTAATTTCACA-TTAATT
1 TGTTTTAATTTC-CATTTAATT
22313838 TGTTTTAATTTCCATTTAATT
1 TGTTTTAATTTCCATTTAATT
22313859 ACAAAATTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.26, C:0.10, G:0.05, T:0.60
Consensus pattern (21 bp):
TGTTTTAATTTCCATTTAATT
Found at i:22317746 original size:21 final size:21
Alignment explanation
Indices: 22317721--22317784 Score: 93
Period size: 21 Copynumber: 3.3 Consensus size: 21
22317711 TAGATGATTT
22317721 TAATAAGATTATTAATATAAA
1 TAATAAGATTATTAATATAAA
22317742 TAATAAGATTATT-AT-T---
1 TAATAAGATTATTAATATAAA
22317758 TAATAAGATTATTAATATAAA
1 TAATAAGATTATTAATATAAA
22317779 TAATAA
1 TAATAA
22317785 ATAATTTAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
16 13 0.34
17 2 0.05
18 1 0.03
19 1 0.03
20 2 0.05
21 19 0.50
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.41
Consensus pattern (21 bp):
TAATAAGATTATTAATATAAA
Found at i:22317770 original size:13 final size:12
Alignment explanation
Indices: 22317752--22317834 Score: 59
Period size: 13 Copynumber: 6.9 Consensus size: 12
22317742 TAATAAGATT
22317752 ATTATTTAATAA
1 ATTATTTAATAA
22317764 GATTA-TTAATATA
1 -ATTATTTAATA-A
22317777 A--A--TAATAA
1 ATTATTTAATAA
* *
22317785 ATAATTTAAAATA
1 ATTATTTAATA-A
*
22317798 ATTATTTAATATT
1 ATTATTTAATA-A
22317811 ATTATTTAATAA
1 ATTATTTAATAA
22317823 GATTATTTAATA
1 -ATTATTTAATA
22317835 TTGTTATTGT
Statistics
Matches: 58, Mismatches: 5, Indels: 14
0.75 0.06 0.18
Matches are distributed among these distances:
8 2 0.03
9 5 0.09
10 2 0.03
12 11 0.19
13 38 0.66
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (12 bp):
ATTATTTAATAA
Found at i:22317817 original size:26 final size:26
Alignment explanation
Indices: 22317788--22317842 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
22317778 ATAATAAATA
22317788 ATTTAA-AATAATTATTTAATATTATT
1 ATTTAATAA-AATTATTTAATATTATT
* *
22317814 ATTTAATAAGATTATTTAATATTGTT
1 ATTTAATAAAATTATTTAATATTATT
22317840 ATT
1 ATT
22317843 GTTATTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 24 0.92
27 2 0.08
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (26 bp):
ATTTAATAAAATTATTTAATATTATT
Found at i:22317841 original size:13 final size:13
Alignment explanation
Indices: 22317799--22317842 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
22317789 TTTAAAATAA
*
22317799 TTATTTAATATTA
1 TTATTTAATATTG
*
22317812 TTATTTAATA-AG
1 TTATTTAATATTG
22317824 ATTATTTAATATTG
1 -TTATTTAATATTG
22317838 TTATT
1 TTATT
22317843 GTTATTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 25 0.96
14 1 0.04
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (13 bp):
TTATTTAATATTG
Found at i:22317866 original size:19 final size:20
Alignment explanation
Indices: 22317815--22317872 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 20
22317805 AATATTATTA
22317815 TTTAATAAGATTATTTAATAT
1 TTTAATAAGATTA-TTAATAT
*
22317836 TGTT-AT-TG-TTATTAA-AT
1 T-TTAATAAGATTATTAATAT
22317853 TTTAATAAGATTATTAATAT
1 TTTAATAAGATTATTAATAT
22317873 AAATAATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 11
0.70 0.05 0.26
Matches are distributed among these distances:
16 2 0.07
17 5 0.17
18 5 0.17
19 10 0.33
20 3 0.10
21 3 0.10
22 2 0.07
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (20 bp):
TTTAATAAGATTATTAATAT
Found at i:22317895 original size:11 final size:11
Alignment explanation
Indices: 22317876--22317908 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
22317866 TTAATATAAA
22317876 TAATAAATAATT
1 TAAT-AATAATT
22317888 TAATAATAATT
1 TAATAATAATT
22317899 TAA-AATAATT
1 TAATAATAATT
22317909 GTTATTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 7 0.33
11 10 0.48
12 4 0.19
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
TAATAATAATT
Found at i:22318019 original size:38 final size:39
Alignment explanation
Indices: 22317935--22318021 Score: 99
Period size: 38 Copynumber: 2.3 Consensus size: 39
22317925 TAATAAAAAT
* * * * *
22317935 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTAT
1 ATATAATTTAATAAAATTCATAATATTAAATACTATAAA
22317974 ATA-AATTTAATAAAA-TCATAATA-TATAATACTATAAA
1 ATATAATTTAATAAAATTCATAATATTA-AATACTATAAA
22318011 ATATAATTTAA
1 ATATAATTTAA
22318022 AATAATAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
36 2 0.05
37 17 0.41
38 19 0.46
39 3 0.07
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.43
Consensus pattern (39 bp):
ATATAATTTAATAAAATTCATAATATTAAATACTATAAA
Found at i:22318063 original size:12 final size:12
Alignment explanation
Indices: 22318046--22318070 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22318036 AATATTTAAA
22318046 ATAAATATTCTT
1 ATAAATATTCTT
22318058 ATAAATATTCTT
1 ATAAATATTCTT
22318070 A
1 A
22318071 ATATTAAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (12 bp):
ATAAATATTCTT
Found at i:22318407 original size:12 final size:12
Alignment explanation
Indices: 22318390--22318415 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
22318380 TGTATACAAG
22318390 GTTTATCATATT
1 GTTTATCATATT
22318402 GTTTATCATATT
1 GTTTATCATATT
22318414 GT
1 GT
22318416 ACAAATTTTC
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:0.23, C:0.08, G:0.12, T:0.58
Consensus pattern (12 bp):
GTTTATCATATT
Found at i:22318442 original size:67 final size:67
Alignment explanation
Indices: 22318364--22318509 Score: 175
Period size: 67 Copynumber: 2.2 Consensus size: 67
22318354 AACTAAATAC
* *
22318364 AATATTAATTACAGAATGTATACAAGGTTTATCATATTGTTTATCATATTGTACAAATTTTCTAT
1 AATA-TAATTACACAATATATACAAGGTTTATCATATTGTTTATCATATTGTACAAATTTTCTAT
22318429 AAT
65 AAT
* * ** * * ** * *
22318432 ATTATAATTACCCTTTATTTAGATTGTTTATCGTATTGTTTATCATATTGTTCAAATTTTCTATA
1 AATATAATTACACAATATATACAAGGTTTATCATATTGTTTATCATATTGTACAAATTTTCTATA
22318497 AT
66 AT
22318499 AATATAATTAC
1 AATATAATTAC
22318510 CCTTTATTTA
Statistics
Matches: 65, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
67 62 0.95
68 3 0.05
ACGTcount: A:0.35, C:0.10, G:0.08, T:0.48
Consensus pattern (67 bp):
AATATAATTACACAATATATACAAGGTTTATCATATTGTTTATCATATTGTACAAATTTTCTATA
AT
Found at i:22318471 original size:12 final size:12
Alignment explanation
Indices: 22318454--22318483 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
22318444 CTTTATTTAG
*
22318454 ATTGTTTATCGT
1 ATTGTTTATCAT
22318466 ATTGTTTATCAT
1 ATTGTTTATCAT
22318478 ATTGTT
1 ATTGTT
22318484 CAAATTTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.20, C:0.07, G:0.13, T:0.60
Consensus pattern (12 bp):
ATTGTTTATCAT
Found at i:22318510 original size:67 final size:67
Alignment explanation
Indices: 22318390--22318538 Score: 271
Period size: 67 Copynumber: 2.2 Consensus size: 67
22318380 TGTATACAAG
*
22318390 GTTTATCATATTGTTTATCATATTGTACAAATTTTCTATAATATTATAATTACCCTTTATTTAGA
1 GTTTATCATATTGTTTATCATATTGTACAAATTTTCTATAATAATATAATTACCCTTTATTTAGA
22318455 TT
66 TT
* *
22318457 GTTTATCGTATTGTTTATCATATTGTTCAAATTTTCTATAATAATATAATTACCCTTTATTTAGA
1 GTTTATCATATTGTTTATCATATTGTACAAATTTTCTATAATAATATAATTACCCTTTATTTAGA
22318522 TT
66 TT
22318524 GTTTATCATATTGTT
1 GTTTATCATATTGTT
22318539 AAAATTTTCT
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 78 1.00
ACGTcount: A:0.30, C:0.10, G:0.07, T:0.53
Consensus pattern (67 bp):
GTTTATCATATTGTTTATCATATTGTACAAATTTTCTATAATAATATAATTACCCTTTATTTAGA
TT
Found at i:22323841 original size:6 final size:6
Alignment explanation
Indices: 22323830--22323854 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
22323820 GATTTCGGGA
22323830 GAGAGG GAGAGG GAGAGG GAGAGG G
1 GAGAGG GAGAGG GAGAGG GAGAGG G
22323855 TGGAGGTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (6 bp):
GAGAGG
Found at i:22323970 original size:88 final size:89
Alignment explanation
Indices: 22323816--22324018 Score: 320
Period size: 88 Copynumber: 2.3 Consensus size: 89
22323806 GAAACGGGAG
* * *
22323816 CGGCGATTTCGGG-AGAGAGGGAGAGGGAGAGGGAGAGGGTGGAGGTAATTTTGCAGAAATAGCT
1 CGGCGATTTCGGGAAG-GAGGGAGAGGGAGAGAGAGAGGGTGGAGGTAATTTTGCAGAAACAACT
22323880 TCTGTTGATGTTGGGAGGTCGATTT
65 TCTGTTGATGTTGGGAGGTCGATTT
* *
22323905 CGGCGATTTCGGGAAGGAGGGAGAGGGAGA-AGAGAGGGTGGAGGTGATTTTGTAGAAACAACTT
1 CGGCGATTTCGGGAAGGAGGGAGAGGGAGAGAGAGAGGGTGGAGGTAATTTTGCAGAAACAACTT
22323969 CTGTTGATGTTGGGAGGTCGATTT
66 CTGTTGATGTTGGGAGGTCGATTT
* *
22323993 CGGTGATTTCGGGAGGGAGGGAGAGG
1 CGGCGATTTCGGGAAGGAGGGAGAGG
22324019 CTGGAGGTCG
Statistics
Matches: 106, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
88 77 0.73
89 27 0.25
90 2 0.02
ACGTcount: A:0.24, C:0.08, G:0.45, T:0.24
Consensus pattern (89 bp):
CGGCGATTTCGGGAAGGAGGGAGAGGGAGAGAGAGAGGGTGGAGGTAATTTTGCAGAAACAACTT
CTGTTGATGTTGGGAGGTCGATTT
Found at i:22333903 original size:126 final size:125
Alignment explanation
Indices: 22333647--22334086 Score: 548
Period size: 126 Copynumber: 3.5 Consensus size: 125
22333637 GATAAAATCA
* * * * * * *
22333647 AAGCAGGATGA-TTTATCAGAAGGATTTTTGAAGTTGCGCCCACGTGTACGCGCTTTTGCTATAG
1 AAGCAGGAT-ACTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAG
* * *
22333711 TAGGTCCTGGAAAAATAGGTTC-GACTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTC
65 TTGGTCCTGGAAAAATA-ATTCTGACTTGACATTTCTGAGCAAATAGTTTAAAAAACGCTTC
* * * *
22333772 AAGCAGGATACTTTGTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACACGCTTTTACTACAGT
1 AAGCAGGATACTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * *
22333837 TGGTCCTGGAAGAAATAATTCTAAGTTGACATTTTTGAGCAAATAGTTTAAAAAACGCTTC
66 TGGTCCTGGAA-AAATAATTCTGACTTGACATTTCTGAGCAAATAGTTTAAAAAACGCTTC
* * * *
22333898 AAGCAGGATGCTTTATAAGAAGAATTTGTGAAGTCGCGCCCGCGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATACTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * * *
22333963 AT-GTCCAGGAAAAATAATTTTGACTTGACGA-TTCTGAGCAAATAGTAT-AAAATCGCTTC
66 -TGGTCCTGGAAAAATAATTCTGACTTGAC-ATTTCTGAGCAAATAGTTTAAAAAACGCTTC
* * *
22334022 TAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCACCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATACTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
22334087 AACATGTTTG
Statistics
Matches: 274, Mismatches: 36, Indels: 11
0.85 0.11 0.03
Matches are distributed among these distances:
124 71 0.26
125 95 0.35
126 107 0.39
127 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.29
Consensus pattern (125 bp):
AAGCAGGATACTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
TGGTCCTGGAAAAATAATTCTGACTTGACATTTCTGAGCAAATAGTTTAAAAAACGCTTC
Found at i:22337225 original size:22 final size:21
Alignment explanation
Indices: 22337184--22337787 Score: 588
Period size: 22 Copynumber: 28.0 Consensus size: 21
22337174 TCAAATTATA
22337184 TTTAAGTTAACGG-TTAGGGTT
1 TTTAAGTTAA-GGTTTAGGGTT
22337205 TTTAAGTTAAGGATTTAGGGTT
1 TTTAAGTTAAGG-TTTAGGGTT
* * *
22337227 TTAAAGTTAAAGATCTAGGGTT
1 TTTAAGTT-AAGGTTTAGGGTT
*
22337249 TTAAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAA-GGTTTAGGGTT
* *
22337271 TTTAGGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGTTTAGGGTT
* *
22337292 TTTATGTTAAGGGTTTAGAGTT
1 TTTAAGTTAA-GGTTTAGGGTT
* * *
22337314 TTTAATTTAAGGGTTAGAGTT
1 TTTAAGTTAAGGTTTAGGGTT
22337335 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAA-GGTTTAGGGTT
*
22337357 TTTAAGTTAAGGGTCTAGGGTT
1 TTTAAGTTAA-GGTTTAGGGTT
*
22337379 TTAAAGTTAAGGTTTAGGGTT
1 TTTAAGTTAAGGTTTAGGGTT
*
22337400 TTTAGGTTAATGG-TTAGGGTTT
1 TTTAAGTTAA-GGTTTAGGG-TT
**
22337422 TTTTGGTTAAGGGTTTAGGGTT
1 TTTAAGTTAA-GGTTTAGGGTT
* *
22337444 TTTAATTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGTTTAGGGTT
22337465 TTTAAGTTAATGGTTTAGGGTT
1 TTTAAGTTAA-GGTTTAGGGTT
22337487 TTTAAGTTAAGAGTTTAGGGTT
1 TTTAAGTTAAG-GTTTAGGGTT
* *
22337509 TTAAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGTTTAGGGTT
* * * *
22337530 TTCAGGTTAAGGGTTAGAGTT
1 TTTAAGTTAAGGTTTAGGGTT
*
22337551 TTTAATTTAAGGGTTTAGGGTT
1 TTTAAGTTAA-GGTTTAGGGTT
* *
22337573 TTTAATTTAAGAG-TTAGTGTT
1 TTTAAGTTAAG-GTTTAGGGTT
* *
22337594 TTTAATTTAAGAGTTTAGGGTC
1 TTTAAGTTAAG-GTTTAGGGTT
*
22337616 TTTAGGTTAAGGGTTTAGGGTT
1 TTTAAGTTAA-GGTTTAGGGTT
* * *
22337638 TTAAAGTTAAGGATTAAGGTT
1 TTTAAGTTAAGGTTTAGGGTT
* * *
22337659 TTTAGGTTAAGGGGTTAAGGTT
1 TTTAAGTTAA-GGTTTAGGGTT
* *
22337681 TTAAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGTTTAGGGTT
*
22337702 TTTAGGTTAAGGGTTTAGGGTT
1 TTTAAGTTAA-GGTTTAGGGTT
*
22337724 TTAAAGTTAATGG-TTAGGGTT
1 TTTAAGTTAA-GGTTTAGGGTT
* **
22337745 TTTAGGTTAAGGGGATAGAGG-T
1 TTTAAGTTAA-GGTTTAG-GGTT
*
22337767 TTTAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGTTTAGGGTT
22337788 AGGGTTTTTA
Statistics
Matches: 495, Mismatches: 68, Indels: 40
0.82 0.11 0.07
Matches are distributed among these distances:
20 4 0.01
21 209 0.42
22 270 0.55
23 12 0.02
ACGTcount: A:0.25, C:0.01, G:0.30, T:0.44
Consensus pattern (21 bp):
TTTAAGTTAAGGTTTAGGGTT
Found at i:22337251 original size:43 final size:41
Alignment explanation
Indices: 22337184--22337787 Score: 607
Period size: 43 Copynumber: 14.0 Consensus size: 41
22337174 TCAAATTATA
* *
22337184 TTTAAGTTAACGGTTAGGGTTTTTAAGTTAAGGATTTAGGGTT
1 TTTAGGTTAAGGGTTAGGG-TTTTAAGTTAAGG-TTTAGGGTT
* * * *
22337227 TTAAAGTTAAAGATCTAGGGTTTTAAAGTTAAGGGTTTAGGGTT
1 TTTAGGTTAAGGGT-TAGGGTTTT-AAGTTAA-GGTTTAGGGTT
* *
22337271 TTTAGGTTAAGGGTTAGGGTTTTTATGTTAAGGGTTTAGAGTT
1 TTTAGGTTAAGGGTTAGGG-TTTTAAGTTAA-GGTTTAGGGTT
** *
22337314 TTTAATTTAAGGGTTAGAGTTTTTAAGTTAAGGGTTTAGGGTT
1 TTTAGGTTAAGGGTTAG-GGTTTTAAGTTAA-GGTTTAGGGTT
*
22337357 TTTAAGTTAAGGGTCTAGGGTTTTAAAGTTAAGGTTTAGGGTT
1 TTTAGGTTAAGGGT-TAGGGTTTT-AAGTTAAGGTTTAGGGTT
* **
22337400 TTTAGGTTAATGGTTAGGGTTTTTTTGGTTAAGGGTTTAGGGTT
1 TTTAGGTTAAGGGTTAGGG--TTTTAAGTTAA-GGTTTAGGGTT
**
22337444 TTTAATTTAAGGGTTAGGGTTTTTAAGTTAATGGTTTAGGGTT
1 TTTAGGTTAAGGGTTAGGG-TTTTAAGTTAA-GGTTTAGGGTT
* * *
22337487 TTTAAGTTAAGAGTTTAGGGTTTTAAAGTTAAGGGTTAGGGTT
1 TTTAGGTTAAG-GGTTAGGGTTTT-AAGTTAAGGTTTAGGGTT
* * *
22337530 TTCAGGTTAAGGGTTAGAGTTTTTAATTTAAGGGTTTAGGGTT
1 TTTAGGTTAAGGGTTAG-GGTTTTAAGTTAA-GGTTTAGGGTT
** * * * *
22337573 TTTAATTTAAGAGTTAGTGTTTTTAATTTAAGAGTTTAGGGTC
1 TTTAGGTTAAGGGTTAG-GGTTTTAAGTTAAG-GTTTAGGGTT
* *
22337616 TTTAGGTTAAGGGTTTAGGGTTTTAAAGTTAAGGATTAAGGTT
1 TTTAGGTTAAGGG-TTAGGGTTTT-AAGTTAAGGTTTAGGGTT
* *
22337659 TTTAGGTTAAGGGGTTAAGGTTTTAAAGTTAAGGGTTAGGGTT
1 TTTAGGTTAA-GGGTTAGGGTTTT-AAGTTAAGGTTTAGGGTT
22337702 TTTAGGTTAAGGGTTTAGGGTTTTAAAGTTAATGG-TTAGGGTT
1 TTTAGGTTAAGGG-TTAGGGTTTT-AAGTTAA-GGTTTAGGGTT
* *
22337745 TTTAGGTTAAGGGGATAGAGGTTTTAAGTTAAGGGTTAGGGTT
1 TTTAGGTTAA-GGGTTAG-GGTTTTAAGTTAAGGTTTAGGGTT
22337788 AGGGTTTTTA
Statistics
Matches: 484, Mismatches: 54, Indels: 46
0.83 0.09 0.08
Matches are distributed among these distances:
42 22 0.05
43 344 0.71
44 116 0.24
45 2 0.00
ACGTcount: A:0.25, C:0.01, G:0.30, T:0.44
Consensus pattern (41 bp):
TTTAGGTTAAGGGTTAGGGTTTTAAGTTAAGGTTTAGGGTT
Found at i:22337301 original size:65 final size:64
Alignment explanation
Indices: 22337187--22337787 Score: 693
Period size: 65 Copynumber: 9.3 Consensus size: 64
22337177 AATTATATTT
* * * * * *
22337187 AAGTTAACGGTTAGGGTTTTTAAGTTAAGGATTTAGGGTTTTAAAGTTAAAGATCTAGGGTTTTA
1 AAGTTAAGGGTTAGGGTTTTTAAGTTAAGG-GTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTA
* * * *
22337252 AAGTTAAGGGTTTAGGGTTTTTAGGTTAAGGGTTAGGGTTTTTATGTTAAGGGTTTAGAGTTTTT
1 AAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTA
* * *
22337317 AATTTAAGGGTTAGAGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTCTAGGGTTTTA
1 AAGTTAAGGGTTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTA
* * * ** *
22337382 AAGTTAAGGTTTAGGGTTTTTAGGTTAATGGTTAGGGTTTTTTTGGTTAAGGGTTTAGGGTTTTT
1 AAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGG-TTTTTAAGTTAAGGGTTTAGGGTTTTA
* * *
22337447 AATTTAAGGGTTAGGGTTTTTAAGTTAATGGTTTAGGGTTTTTAAGTTAAGAGTTTAGGGTTTTA
1 AAGTTAAGGGTTAGGGTTTTTAAGTTAA-GGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTA
* * * * *
22337512 AAGTTAAGGGTTAGGGTTTTCAGGTTAAGGGTTAGAGTTTTTAATTTAAGGGTTTAGGGTTTTT
1 AAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTA
* * * * * * *
22337576 AATTTAAGAGTTAGTGTTTTTAATTTAAGAGTTTAGGGTCTTTAGGTTAAGGGTTTAGGGTTTTA
1 AAGTTAAGGGTTAGGGTTTTTAAGTTAAG-GGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTA
* * * * * *
22337641 AAGTTAAGGATTAAGGTTTTTAGGTTAAGGGGTTAAGGTTTTAAAGTTAAGGG-TTAGGGTTTTT
1 AAGTTAAGGGTTAGGGTTTTTAAGTTAA-GGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTA
* * * * **
22337705 AGGTTAAGGGTTTAGGGTTTTAAAGTTAATGGTTAGGGTTTTTAGGTTAAGGGGATAGAGGTTTT
1 AAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAG-GGTTTT
22337770 -
64 A
22337770 AAGTTAAGGGTTAGGGTT
1 AAGTTAAGGGTTAGGGTT
22337788 AGGGTTTTTA
Statistics
Matches: 448, Mismatches: 79, Indels: 19
0.82 0.14 0.03
Matches are distributed among these distances:
64 125 0.28
65 290 0.65
66 33 0.07
ACGTcount: A:0.25, C:0.01, G:0.30, T:0.44
Consensus pattern (64 bp):
AAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTA
Found at i:22339887 original size:5 final size:5
Alignment explanation
Indices: 22339877--22339925 Score: 64
Period size: 5 Copynumber: 9.8 Consensus size: 5
22339867 TTTTCACACT
* *
22339877 AAAAC AAAAC AAAAC AAAAC AAAAAC AAAAC AAAAT AAAA- TAAAC AAAA
1 AAAAC AAAAC AAAAC AAAAC -AAAAC AAAAC AAAAC AAAAC AAAAC AAAA
22339926 GTTAGAACAC
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
4 3 0.08
5 31 0.79
6 5 0.13
ACGTcount: A:0.82, C:0.14, G:0.00, T:0.04
Consensus pattern (5 bp):
AAAAC
Found at i:22339902 original size:21 final size:21
Alignment explanation
Indices: 22339877--22339916 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
22339867 TTTTCACACT
22339877 AAAACAAAACAAAACAAAACA
1 AAAACAAAACAAAACAAAACA
*
22339898 AAAACAAAACAAAATAAAA
1 AAAACAAAACAAAACAAAA
22339917 TAAACAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.82, C:0.15, G:0.00, T:0.03
Consensus pattern (21 bp):
AAAACAAAACAAAACAAAACA
Found at i:22348654 original size:13 final size:13
Alignment explanation
Indices: 22348636--22348661 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22348626 AAACAATAAC
22348636 CATTCAATATCAA
1 CATTCAATATCAA
22348649 CATTCAATATCAA
1 CATTCAATATCAA
22348662 ATCATGCTAT
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:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (13 bp):
CATTCAATATCAA
Found at i:22353291 original size:57 final size:57
Alignment explanation
Indices: 22353221--22353341 Score: 147
Period size: 57 Copynumber: 2.1 Consensus size: 57
22353211 ATTTTTTAAG
*
22353221 TCATTTTCATTTTGGA-GAAAGCCACATTC-TTTTCCAAATTATTCTATTGCTCCATTT
1 TCATTTTCATTTTGGAGGAAA-CCACAATCATTTT-CAAATTATTCTATTGCTCCATTT
* * * * * *
22353278 TCATTTTTATTTTGGAGGAAACCATAATCATTTTCAAATTTTTCTGTTTCTCTATTT
1 TCATTTTCATTTTGGAGGAAACCACAATCATTTTCAAATTATTCTATTGCTCCATTT
22353335 TCATTTT
1 TCATTTT
22353342 GGAGAAAACC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
57 47 0.85
58 8 0.15
ACGTcount: A:0.24, C:0.17, G:0.08, T:0.50
Consensus pattern (57 bp):
TCATTTTCATTTTGGAGGAAACCACAATCATTTTCAAATTATTCTATTGCTCCATTT
Found at i:22355100 original size:46 final size:51
Alignment explanation
Indices: 22355005--22355104 Score: 147
Period size: 52 Copynumber: 2.0 Consensus size: 51
22354995 GTTAAGTAAC
22355005 TTCTCATGAAGCTCTACTTAAGTTAGAATGATGGCCAAACATTAAATGATTA
1 TTCTCATGAAGCTCTACTTAAGTTAGAATGA-GGCCAAACATTAAATGATTA
*
22355057 TTCTTATGAAGCTCTACTTAAG-T-G-ATG-GG-CAAACATTAAATGATTA
1 TTCTCATGAAGCTCTACTTAAGTTAGAATGAGGCCAAACATTAAATGATTA
22355103 TT
1 TT
22355105 AGTACTTATG
Statistics
Matches: 47, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
46 19 0.40
47 2 0.04
49 3 0.06
50 1 0.02
51 1 0.02
52 21 0.45
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (51 bp):
TTCTCATGAAGCTCTACTTAAGTTAGAATGAGGCCAAACATTAAATGATTA
Found at i:22356470 original size:16 final size:17
Alignment explanation
Indices: 22356443--22356477 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
22356433 TAGAATTGGG
*
22356443 TTGAGAAAATTATTTAA
1 TTGAGAAAATTAATTAA
22356460 TTGAG-AAATTAATTAA
1 TTGAGAAAATTAATTAA
22356476 TT
1 TT
22356478 TAATATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (17 bp):
TTGAGAAAATTAATTAA
Found at i:22362516 original size:25 final size:25
Alignment explanation
Indices: 22362448--22362519 Score: 67
Period size: 25 Copynumber: 2.9 Consensus size: 25
22362438 TTCTCACCCT
*
22362448 AATTTTA-CCCTAGTAAAATTTTGAA
1 AATTTTACCCCTAATAAAA-TTTGAA
* * *
22362473 AATTTTACCTCGTTA-AAAATTTGAC
1 AATTTTACC-CCTAATAAAATTTGAA
*
22362498 GATTTTACCCCTAATAAAATTT
1 AATTTTACCCCTAATAAAATTT
22362520 TGAGAAAATT
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
24 3 0.08
25 27 0.73
26 5 0.14
27 2 0.05
ACGTcount: A:0.38, C:0.15, G:0.07, T:0.40
Consensus pattern (25 bp):
AATTTTACCCCTAATAAAATTTGAA
Found at i:22373363 original size:32 final size:31
Alignment explanation
Indices: 22373318--22373413 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
22373308 CTTAGATAAT
22373318 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
22373349 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
22373381 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
22373412 TT
1 TT
22373414 GTAATTGCCT
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:22378062 original size:36 final size:36
Alignment explanation
Indices: 22378003--22378079 Score: 111
Period size: 36 Copynumber: 2.1 Consensus size: 36
22377993 ATTCCAACTA
*
22378003 AAACACACCAGATGCTCATAAGAGCTAATCAATCTG
1 AAACACACCAGATGCTCAGAAGAGCTAATCAATCTG
* *
22378039 AAACACACCA-ATGGCTCCGAAGAGCTAATCCATCTG
1 AAACACACCAGAT-GCTCAGAAGAGCTAATCAATCTG
22378075 AAACA
1 AAACA
22378080 TATATATATC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
35 2 0.05
36 35 0.95
ACGTcount: A:0.42, C:0.27, G:0.14, T:0.17
Consensus pattern (36 bp):
AAACACACCAGATGCTCAGAAGAGCTAATCAATCTG
Found at i:22384776 original size:53 final size:53
Alignment explanation
Indices: 22384698--22384803 Score: 176
Period size: 53 Copynumber: 2.0 Consensus size: 53
22384688 GGGAAAAATA
* *
22384698 TCATTTTATGGTGAATGAGGGGATTGTCTTTAGGCATTAAATATCTAAAAAAG
1 TCATTTTATGGTGAATGAGGAGATTGTCTTGAGGCATTAAATATCTAAAAAAG
* *
22384751 TCATTTTATGTTGAATGAGGAGATTGTCTTGGGGCATTAAATATCTAAAAAAG
1 TCATTTTATGGTGAATGAGGAGATTGTCTTGAGGCATTAAATATCTAAAAAAG
22384804 GGTTGGAAAG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.34, C:0.08, G:0.23, T:0.36
Consensus pattern (53 bp):
TCATTTTATGGTGAATGAGGAGATTGTCTTGAGGCATTAAATATCTAAAAAAG
Found at i:22395209 original size:15 final size:15
Alignment explanation
Indices: 22395175--22395215 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 15
22395165 AGTAAAAATG
22395175 TAATTTTATCATTTTAA
1 TAATTTT-T-ATTTTAA
*
22395192 TAATTTTTATTTTTA
1 TAATTTTTATTTTAA
22395207 TAATTTTTA
1 TAATTTTTA
22395216 AAGGATTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 15 0.65
16 1 0.04
17 7 0.30
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (15 bp):
TAATTTTTATTTTAA
Found at i:22397761 original size:4 final size:4
Alignment explanation
Indices: 22397752--22397826 Score: 62
Period size: 4 Copynumber: 18.8 Consensus size: 4
22397742 ATATTTGTTT
* * * *
22397752 TAAA TAAA TAAA TAAA TAAA TAAA AACAA CAAA TATA TATA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TA-AA TAAA TAAA TAAA TAAA TAAA
* * * *
22397801 -AAC TAAT TAAA AAAA TAAA GAAA TAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAA
22397827 TTACATTATG
Statistics
Matches: 57, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
3 2 0.04
4 52 0.91
5 3 0.05
ACGTcount: A:0.72, C:0.04, G:0.01, T:0.23
Consensus pattern (4 bp):
TAAA
Found at i:22398337 original size:8 final size:7
Alignment explanation
Indices: 22398310--22398336 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
22398300 TTGATTCCCT
22398310 TTTTTTC
1 TTTTTTC
22398317 TTTTTTC
1 TTTTTTC
22398324 TTTTTTC
1 TTTTTTC
22398331 TTTTTT
1 TTTTTT
22398337 TTACAATGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (7 bp):
TTTTTTC
Found at i:22398474 original size:23 final size:22
Alignment explanation
Indices: 22398431--22398488 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
22398421 AAAGGGTATC
* *
22398431 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
22398452 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
22398475 TACATATCATATCT
1 TACAAATCATATCT
22398489 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:22398491 original size:19 final size:19
Alignment explanation
Indices: 22398444--22398541 Score: 106
Period size: 19 Copynumber: 4.8 Consensus size: 19
22398434 AAATTAAATC
*
22398444 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
22398464 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
22398486 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
22398507 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
22398526 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
22398542 CTCGAAGATT
Statistics
Matches: 69, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
19 33 0.48
21 18 0.26
22 7 0.10
23 11 0.16
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:22398504 original size:21 final size:21
Alignment explanation
Indices: 22398478--22398540 Score: 112
Period size: 21 Copynumber: 3.1 Consensus size: 21
22398468 CTAAGATTAC
22398478 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
22398499 ATATCATATCTAAGATTGC--
1 ATATCATATCTAAGATTGCAT
22398518 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
22398539 AT
1 AT
22398541 CCTCGAAGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
19 19 0.47
21 21 0.52
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:22398963 original size:45 final size:45
Alignment explanation
Indices: 22398853--22398964 Score: 113
Period size: 45 Copynumber: 2.5 Consensus size: 45
22398843 CTAATCCACT
* * *
22398853 CCACTACAACTT-AGGGAGA-CAGGATTTGTTTATTTAGTATGCC
1 CCACTACAACTTCAGGGAGATAAGGACTTGTTTATTGAGTATGCC
* * * * * *
22398896 CCACTGCAATTTCAGGGGGATAAGG-CTTGCTTTCTTGAGTCTGCG
1 CCACTACAACTTCAGGGAGATAAGGACTTG-TTTATTGAGTATGCC
22398941 CCACTACAACTTCAGGGAGATAAG
1 CCACTACAACTTCAGGGAGATAAG
22398965 ACTCGATGTG
Statistics
Matches: 54, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
43 10 0.19
44 9 0.17
45 35 0.65
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (45 bp):
CCACTACAACTTCAGGGAGATAAGGACTTGTTTATTGAGTATGCC
Found at i:22399247 original size:84 final size:84
Alignment explanation
Indices: 22399156--22399437 Score: 253
Period size: 84 Copynumber: 3.3 Consensus size: 84
22399146 TACTTAGTCT
* *
22399156 ACTCCACTGCAACTTTAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATA
1 ACTCCACTGCAACTTCAGGAAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATA
22399221 AGATCTAAGGTTTTAATCC
66 AGATCTAAGGTTTTAATCC
* * * * *** * * *
22399240 ACTCCACTGCAACTTTAGGAAGATAGGATTATCGGCTTTAACCTGCTCCACTGCAACTTCAGGGA
1 ACTCCACTGCAACTTCAGGAAGATAAGACTA---GATGCGATCTGCT-CTCTGCAACTTCAGAGA
* **** * *
22399305 GATAAGATTTTCCATCTTCAGTCTGC
62 GATAAGATCTAAGGT-TTTAATC--C
* * * * *
22399331 -CT-CACTGCAACTTCAAGAGGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAAAGGGATA
1 ACTCCACTGCAACTTCAGGAAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATA
* *
22399394 AGATCCAAGGTTTTAATGC
66 AGATCTAAGGTTTTAATCC
22399413 ACTCCACTGCAACTTCAGGAAGATA
1 ACTCCACTGCAACTTCAGGAAGATA
22399438 GGATTATCGG
Statistics
Matches: 146, Mismatches: 43, Indels: 18
0.71 0.21 0.09
Matches are distributed among these distances:
82 1 0.01
83 2 0.01
84 51 0.35
85 22 0.15
86 8 0.05
87 8 0.05
88 25 0.17
89 26 0.18
90 2 0.01
91 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (84 bp):
ACTCCACTGCAACTTCAGGAAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATA
AGATCTAAGGTTTTAATCC
Found at i:22399252 original size:173 final size:172
Alignment explanation
Indices: 22399070--22399531 Score: 551
Period size: 173 Copynumber: 2.7 Consensus size: 172
22399060 TTAGTATGCC
* * * * *
22399070 CCACTGCAACTTCAGGGAGATAAGATTCGTCATCTTCAGCCTGC-CTCACTGCAACTTCA-AGAG
1 CCACTGCAACTTCAGGAAGATAGGATT-ATCAGCTTCAACCTGCTC-CACTGCAACTTCAGAGA-
* *
22399133 GATAAAACTTGATT-A-CTT-AGTCTA-CTCCACTGCAACTT-TAGGGAGATAAGACTAGATGCG
63 GATAAAA-TT--TTCATCTTCAGTCTACCT-CACTGCAACTTCAAGAG-GATAAGACTAGATGCG
* *
22399193 ATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCACT
123 ATCTGCTCTCTGCAACTTCAAAGAGATAAGATCCAAGGTTTTAATCCACT
* * * *
22399243 CCACTGCAACTTTAGGAAGATAGGATTATCGGCTTTAACCTGCTCCACTGCAACTTCAGGGAGAT
1 CCACTGCAACTTCAGGAAGATAGGATTATCAGCTTCAACCTGCTCCACTGCAACTTCAGAGAGAT
* * *
22399308 AAGATTTTCCATCTTCAGTCTGCCTCACTGCAACTTCAAGAGGATAAGACTTGATGCGATCTGCT
66 AAAATTTT-CATCTTCAGTCTACCTCACTGCAACTTCAAGAGGATAAGACTAGATGCGATCTGCT
* *
22399373 CTCTGCAACTTCAAAGGGATAAGATCCAAGGTTTTAATGCACT
130 CTCTGCAACTTCAAAGAGATAAGATCCAAGGTTTTAATCCACT
* * * * *
22399416 CCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAACCTGCTCCATTGCAACTTTAGGGAGAT
1 CCACTGCAACTTCAGGAAGATAGGATTATCAGCTTCAACCTGCTCCACTGCAACTTCAGAGAGAT
* * *
22399481 AAGATTTGTCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACT
66 AAAATTT-TCATCTTCAGTCTACCTCACTGCAACTTCAAGAGGATAAGACT
22399532 TGCTTGCTTA
Statistics
Matches: 258, Mismatches: 22, Indels: 18
0.87 0.07 0.06
Matches are distributed among these distances:
169 2 0.01
171 3 0.01
172 33 0.13
173 214 0.83
174 6 0.02
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (172 bp):
CCACTGCAACTTCAGGAAGATAGGATTATCAGCTTCAACCTGCTCCACTGCAACTTCAGAGAGAT
AAAATTTTCATCTTCAGTCTACCTCACTGCAACTTCAAGAGGATAAGACTAGATGCGATCTGCTC
TCTGCAACTTCAAAGAGATAAGATCCAAGGTTTTAATCCACT
Found at i:22399425 original size:217 final size:216
Alignment explanation
Indices: 22398975--22399869 Score: 713
Period size: 217 Copynumber: 4.1 Consensus size: 216
22398965 ACTCGATGTG
* * * * *
22398975 ATCTACTCAACTTCAACTTCAGAGAGATAAGATCTGTA-GTTTTAATCCGCTCTACTGCAACTTC
1 ATCTACTCCACTGCAACTTCAGAGAGATAAGAT-TGAAGGCTTTAATCCGCTCCACTGCAACTTC
* * * * * *
22399039 AGGGAGACAGGATTTGTTTATTTAGTATGCCCCACTGCAACTTCAGG-GAGATAAGA-TTCGTCA
65 AGGGAGATAAGATTTG--TCTTTAATCTGCCTCACTGCAACTTCAGGAG-GATAAGACTT-G-CA
* * * * * * *
22399102 T-CTTCAGCCTGCCT-CACTGCAACTTCAAGAG-GATAAAACTTGATTACTTAGTCTACTCCACT
125 TACTT-AGTCTGCCTCCACTGCAACTTCAAGAGAGATAAGACTAGA-TGC-GA-TCTGCT-CTCT
* ** * * ***
22399164 GCAACTTTAGGGAGATAAGA--CTA-GATGCG
185 GCAACTTCAAAGAGATAAGATCCAAGGTTTTA
* * * * *
22399193 ATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCT-AAGGTTTTAATCCACTCCACTGCAACTTT
1 ATCTACTCCACTGCAACTTCAGAGAGATAAGAT-TGAAGGCTTTAATCCGCTCCACTGCAACTTC
* * * * * *
22399256 AGGAAGATAGGATTATCGGCTTTAACCTG-CTCCACTGCAACTTCAGG-GAGATAAGATTTTCCA
65 AGGGAGATAAGATT-T-GTCTTTAATCTGCCT-CACTGCAACTTCAGGAG-GATAAGA-CTTGCA
*
22399319 T-CTTCAGTCTGCCT-CACTGCAACTTCAAGAG-GATAAGACTTGATGCGATCTGCTCTCTGCAA
125 TACTT-AGTCTGCCTCCACTGCAACTTCAAGAGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
*
22399381 CTTCAAAGGGATAAGATCCAAGGTTTTA
189 CTTCAAAGAGATAAGATCCAAGGTTTTA
* * *
22399409 ATGC-ACTCCACTGCAACTTCAG-GAAGATAGGATT-ATCGGCTTTAA-CCTGCTCCATTGCAAC
1 AT-CTACTCCACTGCAACTTCAGAG-AGATAAGATTGA-AGGCTTTAATCC-GCTCCACTGCAAC
* *
22399470 TTTAGGGAGATAAGATTTGTCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGC
62 TTCAGGGAGATAAGATTTGTC-T-TT-AATCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGC
* * * *
22399535 TTGCTTAGTCTG-CTCCATTGCAACTTC-AGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
124 ATACTTAGTCTGCCTCCACTGCAACTTCAAGAGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
* * * *** *
22399598 GTTCAGAGAAATAAGATCTGTGATTTTA
189 CTTCAAAGAGATAAGATCCAAGGTTTTA
* * * ** * *
22399626 ATCTGCTCCACTGCAACTTCAAAGAGATAGGATTGTCGGCTTTAATCTGCTCCACTGCAACCTCA
1 ATCTACTCCACTGCAACTTCAGAGAGATAAGATTGAAGGCTTTAATCCGCTCCACTGCAACTTCA
* * * *
22399691 GGGAGATAAGATTTGCCATCTTCAATTTGCCTCACTGTAACTTCAGGAGGATAAGACTTGCTTAC
66 GGGAGATAAGATTTG---TCTTTAATCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCATAC
* * * *
22399756 TTAGTCT-TCTCCATTGCAACTT-TAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTC
128 TTAGTCTGCCTCCACTGCAACTTCAAGAGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTC
*
22399819 AGAGAGATAAGATCCAAGGTTTTA
193 AAAGAGATAAGATCCAAGGTTTTA
* *
22399843 ATCCACTCCATTGCAACTTCAGAGAGA
1 ATCTACTCCACTGCAACTTCAGAGAGA
22399870 CAAGGCTTGG
Statistics
Matches: 566, Mismatches: 80, Indels: 63
0.80 0.11 0.09
Matches are distributed among these distances:
213 19 0.03
214 5 0.01
215 5 0.01
216 23 0.04
217 466 0.82
218 39 0.07
219 7 0.01
220 2 0.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (216 bp):
ATCTACTCCACTGCAACTTCAGAGAGATAAGATTGAAGGCTTTAATCCGCTCCACTGCAACTTCA
GGGAGATAAGATTTGTCTTTAATCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCATACTTA
GTCTGCCTCCACTGCAACTTCAAGAGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAAA
GAGATAAGATCCAAGGTTTTA
Found at i:22399516 original size:89 final size:88
Alignment explanation
Indices: 22399244--22399573 Score: 276
Period size: 89 Copynumber: 3.8 Consensus size: 88
22399234 TAATCCACTC
* * *
22399244 CACTGCAACTTTAGGAAGATAGGA-TTATCGGCTTTAACCTGCTCCACTGCAACTTCAGGGAGAT
1 CACTGCAACTTCAGGAAGATAAGACTTATCGGC-TTAACCTGCTCCATTGCAACTTCAGGGAGAT
22399308 AAGATTTTCCATCTTCAGTCTGCCT
65 AAGATTTT-CATCTTCAGTCTGCCT
* * * * *
22399333 CACTGCAACTTCAAGAGGATAAGACTTGAT--GC--GATCTGCT-C-TCTGCAACTTCAAAGG-G
1 CACTGCAACTTCAGGAAGATAAGACTT-ATCGGCTTAACCTGCTCCAT-TGCAACTTC-AGGGAG
* * *
22399391 ATAAGA--TCCAAGGT-TTTA--ATGCACT
63 ATAAGATTTTC-A--TCTTCAGTCTGC-CT
* *
22399416 CCACTGCAACTTCAGGAAGATAGGA-TTATCGGCTTTAACCTGCTCCATTGCAACTTTAGGGAGA
1 -CACTGCAACTTCAGGAAGATAAGACTTATCGGC-TTAACCTGCTCCATTGCAACTTCAGGGAGA
22399480 TAAGATTTGTCATCTTCAGTCTGCCT
64 TAAGATTT-TCATCTTCAGTCTGCCT
* * * **
22399506 CACTGCAACTTCAGGAGGATAAGACTT-GCTTGCTTAGTCTGCTCCATTGCAACTTCAGGGAGAT
1 CACTGCAACTTCAGGAAGATAAGACTTATC-GGCTTAACCTGCTCCATTGCAACTTCAGGGAGAT
22399570 AAGA
65 AAGA
22399574 CTAGATGCGA
Statistics
Matches: 188, Mismatches: 28, Indels: 50
0.71 0.11 0.19
Matches are distributed among these distances:
82 6 0.03
83 6 0.03
84 26 0.14
85 18 0.10
86 9 0.05
87 9 0.05
88 17 0.09
89 81 0.43
90 10 0.05
91 6 0.03
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.29
Consensus pattern (88 bp):
CACTGCAACTTCAGGAAGATAAGACTTATCGGCTTAACCTGCTCCATTGCAACTTCAGGGAGATA
AGATTTTCATCTTCAGTCTGCCT
Found at i:22399532 original size:173 final size:173
Alignment explanation
Indices: 22399160--22399533 Score: 626
Period size: 173 Copynumber: 2.2 Consensus size: 173
22399150 TAGTCTACTC
* * *
22399160 CACTGCAACTTTAGG-GAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGA
1 CACTGCAACTTCAGGAG-GATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAAAGAGATAAGA
* *
22399224 TCTAAGGTTTTAATCCACTCCACTGCAACTTTAGGAAGATAGGATTATCGGCTTTAACCTGCTCC
65 TCCAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAACCTGCTCC
22399289 ACTGCAACTTCAGGGAGATAAGATTTTCCATCTTCAGTCTGCCT
130 ACTGCAACTTCAGGGAGATAAGATTTTCCATCTTCAGTCTGCCT
* *
22399333 CACTGCAACTTCAAGAGGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAAAGGGATAAGAT
1 CACTGCAACTTCAGGAGGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAAAGAGATAAGAT
*
22399398 CCAAGGTTTTAATGCACTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAACCTGCTCCA
66 CCAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAACCTGCTCCA
* *
22399463 TTGCAACTTTAGGGAGATAAGATTTGT-CATCTTCAGTCTGCCT
131 CTGCAACTTCAGGGAGATAAGATTT-TCCATCTTCAGTCTGCCT
22399506 CACTGCAACTTCAGGAGGATAAGACTTG
1 CACTGCAACTTCAGGAGGATAAGACTTG
22399534 CTTGCTTAGT
Statistics
Matches: 188, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
173 186 0.99
174 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (173 bp):
CACTGCAACTTCAGGAGGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAAAGAGATAAGAT
CCAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAACCTGCTCCA
CTGCAACTTCAGGGAGATAAGATTTTCCATCTTCAGTCTGCCT
Found at i:22399560 original size:44 final size:43
Alignment explanation
Indices: 22398896--22399830 Score: 329
Period size: 44 Copynumber: 21.6 Consensus size: 43
22398886 TTAGTATGCC
* * * * *
22398896 CCACTGCAATTTCAGGGGGATAAGGCTTGCTTTCTTGAGTCTGCG
1 CCACTGCAACTTCAGGGAGATAAGACTTGC-TTCTT-AATCTGCT
* * * * * *
22398941 CCACTACAACTTCAGGGAGATAAGACTCG-AT-GTGATCTACT
1 CCACTGCAACTTCAGGGAGATAAGACTTGCTTCTTAATCTGCT
* * * *
22398982 CAACTTCAACTTCAGAGAGATAAGATCTGTAG-TT-TTAATCCGCT
1 CCACTGCAACTTCAGGGAGATAAGA-CT-T-GCTTCTTAATCTGCT
* * * * * * * * *
22399026 CTACTGCAACTTCAGGGAGACAGGATTTGTTTATTTAGTATGCC
1 CCACTGCAACTTCAGGGAGATAAGACTTGCTT-CTTAATCTGCT
* **
22399070 CCACTGCAACTTCAGGGAGATAAGA-TTCGTCATCTTCAGCCTGC-
1 CCACTGCAACTTCAGGGAGATAAGACTT-G-CTTCTT-AATCTGCT
* * * * *
22399114 CTCACTGCAACTTCA-AGAGGATAAAACTTGATTACTTAGTCTACT
1 C-CACTGCAACTTCAGGGA-GATAAGACTTGCTT-CTTAATCTGCT
* * * * *
22399159 CCACTGCAACTTTAGGGAGATAAGACTAGATGC--GATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGACTTGCTTCTTAATCTGCT
* * * * **
22399200 -CTCTGCAACTTCAGAGAGATAAGATCTAAGGTT-TTAATCCACT
1 CCACTGCAACTTCAGGGAGATAAGA-CT-TGCTTCTTAATCTGCT
* * * * *
22399243 CCACTGCAACTTTAGGAAGATAGGATTATCGGC-T-TTAACCTGCT
1 CCACTGCAACTTCAGGGAGATAAGACT-T--GCTTCTTAATCTGCT
* * * *
22399287 CCACTGCAACTTCAGGGAGATAAGATTTTCCATCTTCAGTCTGC-
1 CCACTGCAACTTCAGGGAGATAAGA-CTTGCTTCTT-AATCTGCT
* * * *
22399331 CTCACTGCAACTTCA-AGAGGATAAGACTTGATGC--GATCTGCT
1 C-CACTGCAACTTCAGGGA-GATAAGACTTGCTTCTTAATCTGCT
* * ** * *
22399373 -CTCTGCAACTTCAAAGG-GATAAGATCCAAGGTT-TTAATGC-ACT
1 CCACTGCAACTTC-AGGGAGATAAGA--CTTGCTTCTTAAT-CTGCT
* * * *
22399416 CCACTGCAACTTCAGGAAGATAGGATTATCGGC-T-TTAACCTGCT
1 CCACTGCAACTTCAGGGAGATAAGACT-T--GCTTCTTAATCTGCT
* * * * *
22399460 CCATTGCAACTTTAGGGAGATAAGATTTGTCATCTTCAGTCTGC-
1 CCACTGCAACTTCAGGGAGATAAGACTTG-CTTCTT-AATCTGCT
*
22399504 CTCACTGCAACTTCA-GGAGGATAAGACTTGCTTGCTTAGTCTGCT
1 C-CACTGCAACTTCAGGGA-GATAAGACTTGCTT-CTTAATCTGCT
* * * * *
22399549 CCATTGCAACTTCAGGGAGATAAGACTAGATGC--GATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGACTTGCTTCTTAATCTGCT
* * * * *
22399590 -CTCTGCAAGTTCAGAGAAATAAGATCTGTGATT-TTAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGA-CT-TGCTTCTTAATCTGCT
** * **
22399633 CCACTGCAACTTCAAAGAGATAGGA-TTGTCGGCTTTAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGACTTG-CTTC-TTAATCTGCT
* * * *
22399677 CCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCAATTTGC-
1 CCACTGCAACTTCAGGGAGATAAGACTTG-CTTCTT-AATCTGCT
* * *
22399721 CTCACTGTAACTTCA-GGAGGATAAGACTTGCTTACTTAGTCTTCT
1 C-CACTGCAACTTCAGGGA-GATAAGACTTGCTT-CTTAATCTGCT
* * * * * *
22399766 CCATTGCAACTTTAGGGAGATAAGACTAGATGC--GATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGACTTGCTTCTTAATCTGCT
* *
22399807 -CTCTGCAACTTCAGAGAGATAAGA
1 CCACTGCAACTTCAGGGAGATAAGA
22399831 TCCAAGGTTT
Statistics
Matches: 661, Mismatches: 163, Indels: 137
0.69 0.17 0.14
Matches are distributed among these distances:
40 78 0.12
41 56 0.08
42 19 0.03
43 31 0.05
44 318 0.48
45 157 0.24
46 2 0.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (43 bp):
CCACTGCAACTTCAGGGAGATAAGACTTGCTTCTTAATCTGCT
Found at i:22399923 original size:217 final size:214
Alignment explanation
Indices: 22399288--22399937 Score: 756
Period size: 217 Copynumber: 3.0 Consensus size: 214
22399278 TAACCTGCTC
* * * * *
22399288 CACTGCAACTTCAGG-GAGATAAGATTTTC-CATCTTCAGTCTGC-CTCACTGCAACTTCA-AGA
1 CACTGCAACTTCAGGAG-GATAAGACTTGCTTA-CTT-AGTCTGCTC-CATTGCAACTTCAGGGA
* * * *
22399349 GGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAAAGGGATAAGATCCAAGGTTTTAATGCA
62 -GATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCA
* * *
22399414 CTCCACTGCAACTTCAG-GAAGATAGGATTATCGGCTTTAACCTGCTCCATTGCAACTTTAGGGA
126 CTCCACTGCAACTTCAGAG-AGATAGGATTGTCGGCTTTAATCTGCTCCACT-CAAC-TT-GGGA
* *
22399478 GATAAGATTTGTCATCTTCAGTCTGCCT
187 GATAAGATTTGCCATCTTCAATCTGCCT
*
22399506 CACTGCAACTTCAGGAGGATAAGACTTGCTTGCTTAGTCTGCTCCATTGCAACTTCAGGGAGATA
1 CACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCATTGCAACTTCAGGGAGATA
* * *** * **
22399571 AGACTAGATGCGATCTGCTCTCTGCAAGTTCAGAGAAATAAGATCTGTGATTTTAATCTGCTCCA
66 AGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCACTCCA
* *
22399636 CTGCAACTTCAAAGAGATAGGATTGTCGGCTTTAATCTGCTCCACTGCAACCTCAGGGAGATAAG
131 CTGCAACTTCAGAGAGATAGGATTGTCGGCTTTAATCTGCTCCACT-CAA-CT-TGGGAGATAAG
*
22399701 ATTTGCCATCTTCAATTTGCCT
193 ATTTGCCATCTTCAATCTGCCT
* * *
22399723 CACTGTAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTTCTCCATTGCAACTTTAGGGAGATA
1 CACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCATTGCAACTTCAGGGAGATA
22399788 AGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCACTCCA
66 AGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCACTCCA
* * * * * *
22399853 TTGCAACTTCAGAGAGACAAGGCTTGGT-GGCTTAAATCTGCTTCCCACT-ATCTTGGAAAGATA
131 CTGCAACTTCAGAGAGA-TAGGATT-GTCGGCTTTAATCTGC-T-CCACTCAACTTGG-GAGATA
* * *
22399916 TGATTTGCCGTCTTCGATCTGC
191 AGATTTGCCATCTTCAATCTGC
22399938 TCCACTACTG
Statistics
Matches: 370, Mismatches: 50, Indels: 25
0.83 0.11 0.06
Matches are distributed among these distances:
216 2 0.01
217 308 0.83
218 51 0.14
219 4 0.01
220 5 0.01
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (214 bp):
CACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCATTGCAACTTCAGGGAGATA
AGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCACTCCA
CTGCAACTTCAGAGAGATAGGATTGTCGGCTTTAATCTGCTCCACTCAACTTGGGAGATAAGATT
TGCCATCTTCAATCTGCCT
Found at i:22399941 original size:390 final size:388
Alignment explanation
Indices: 22399074--22399893 Score: 870
Period size: 390 Copynumber: 2.1 Consensus size: 388
22399064 TATGCCCCAC
* * * * * ** * * *
22399074 TGCAACTTCAGGGAGATAAGATTCGTCATCTTCAGCCTGCCTCACTGCAACTTCAAGAGGATAAA
1 TGCAACTTCAGAGAGACAAGATTGGTCAGCTTAAATCTGCCTCAC-GCAACTTCAGGAAGATAAG
** * * *
22399139 ACTTGATTACTTAGTCTACTCCACTGCAACTTTAGGGAGATAAGACTAGATGCGATCTGCTCTCT
65 ACTTGCGTGCTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCT
* * * *
22399204 GCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCACTCCACTGCAACTTTAGGAAGATAGGAT
130 GCAACTTCAGAGAAATAAGATCTAAGATTTTAATCCACTCCACTGCAACTTAAAGAAGATAGGAT
* * *
22399269 TATCGGCTTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGATTTTCCATCTTCAGTCTGCCTC
195 TATCGGCTTTAACCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCAATCTGCCTC
*
22399334 ACTGCAACTTCAAGAGGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAAAGGGATAAGATC
260 ACTGCAACTTCAAGAGGATAAGACTTGATACGATCTGCTCTCTGCAACTTCAAAGGGATAAGA-C
* ** * * * *
22399399 CAAGGTTTTAATGCACTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAACCTGCTCCAT
324 CAAGGATGCAATGCACTCCACTGCAACTTCAGGAAGATAAGATCATAGGCTTTAACCTACTCCAT
* * * * * * * *
22399464 TGCAACTTTAGGGAGATAAGATTTGTCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAG
1 TGCAACTTCAGAGAGACAAGATTGGTCAGCTTAAATCTGCCTCAC-GCAACTTCAGGAAGATAAG
* *
22399529 ACTTGCTTGCTTAGTCTGCTCCATTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCT
65 ACTTGCGTGCTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCT
* ** **
22399594 GCAAGTTCAGAGAAATAAGATCTGTGATTTTAATCTGCTCCACTGCAACTTCAAAG-AGATAGGA
130 GCAACTTCAGAGAAATAAGATCTAAGATTTTAATCCACTCCACTGCAACTT-AAAGAAGATAGGA
* * *
22399658 TTGTCGGCTTTAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCAATTTGCCT
194 TTATCGGCTTTAACCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCAATCTGCCT
* * * * * * *
22399723 CACTGTAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTTCTC-CATTGCAACTT-TAGGGAGA
259 CACTGCAACTTCAAGAGGATAAGACTTG-ATAC-GA-TCTGCTCTC--TGCAACTTCAAAGG-GA
* * * * *
22399786 TAAGA-CTA-GATGCGAT-CTGCT-CTCTGCAACTTCA-GAGAGATAAGATCCA-AGGTTTTAAT
318 TAAGACCAAGGATGCAATGC-ACTCCACTGCAACTTCAGGA-AGATAAGAT-CATAGGCTTTAA-
22399845 CC-ACTCCAT
379 CCTACTCCAT
* *
22399854 TGCAACTTCAGAGAGACAAGGCTTGGT-GGCTTAAATCTGC
1 TGCAACTTCAGAGAGACAA-GATTGGTCAGCTTAAATCTGC
22399894 TTCCCACTAT
Statistics
Matches: 364, Mismatches: 54, Indels: 24
0.82 0.12 0.05
Matches are distributed among these distances:
389 2 0.01
390 316 0.87
391 18 0.05
392 4 0.01
393 9 0.02
394 15 0.04
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (388 bp):
TGCAACTTCAGAGAGACAAGATTGGTCAGCTTAAATCTGCCTCACGCAACTTCAGGAAGATAAGA
CTTGCGTGCTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTG
CAACTTCAGAGAAATAAGATCTAAGATTTTAATCCACTCCACTGCAACTTAAAGAAGATAGGATT
ATCGGCTTTAACCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCAATCTGCCTCA
CTGCAACTTCAAGAGGATAAGACTTGATACGATCTGCTCTCTGCAACTTCAAAGGGATAAGACCA
AGGATGCAATGCACTCCACTGCAACTTCAGGAAGATAAGATCATAGGCTTTAACCTACTCCAT
Found at i:22400009 original size:132 final size:132
Alignment explanation
Indices: 22399861--22400269 Score: 638
Period size: 132 Copynumber: 3.1 Consensus size: 132
22399851 CATTGCAACT
* * *
22399861 TCAGAGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATATGATTTGCCG
1 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTACCG
* *
22399926 TCTTCGATCTGCTCCACTACTGTTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCT
66 TCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCT
22399991 GC
131 GC
* * ** *
22399993 TCAAGGAGACAAGGCTTAGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTTCA
1 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTACCG
* * *
22400058 TCTTCAATCTTCCCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCT
66 TCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCT
22400123 GC
131 GC
* *
22400125 TTAGGGAGACAAGGCTTGGTGGCTTAAATATGCTTCCCACTATCTTGGAAAGATAAGATTTACCG
1 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTACCG
* * * * *
22400190 TCCTCGATCTACTCTACTACTGCTTAGGGAGATAAGATCTACGATCCTCAACCTACTCCGCTGTT
66 TCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCT
22400255 GC
131 GC
22400257 TCAGGGAGACAAG
1 TCAGGGAGACAAG
22400270 CTTAATGTTT
Statistics
Matches: 250, Mismatches: 27, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
132 250 1.00
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (132 bp):
TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTACCG
TCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCT
GC
Found at i:22401577 original size:19 final size:22
Alignment explanation
Indices: 22401535--22401580 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
22401525 TCCATTTTCC
*
22401535 TTTTCTTTTTCTTTTTATCATT
1 TTTTCTTCTTCTTTTTATCATT
*
22401557 TTTTCTTCTT-TTTTT-TCTTT
1 TTTTCTTCTTCTTTTTATCATT
22401577 TTTT
1 TTTT
22401581 TATATTTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 8 0.36
21 5 0.23
22 9 0.41
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.83
Consensus pattern (22 bp):
TTTTCTTCTTCTTTTTATCATT
Found at i:22401579 original size:9 final size:9
Alignment explanation
Indices: 22401540--22401581 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
22401530 TTTCCTTTTC
22401540 TTTTTC-TT
1 TTTTTCTTT
*
22401548 TTTATCATTT
1 TTTTTC-TTT
22401558 TTTCTTCTTT
1 TTT-TTCTTT
22401568 TTTTTCTTT
1 TTTTTCTTT
22401577 TTTTT
1 TTTTT
22401582 ATATTTTGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
8 5 0.17
9 11 0.38
10 11 0.38
11 2 0.07
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.83
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:22407040 original size:19 final size:21
Alignment explanation
Indices: 22407002--22407040 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
22406992 CCTTTTTTAA
*
22407002 AATCGTAAATAAGTAAAAAAT
1 AATCGTAAATAAGAAAAAAAT
22407023 AATCG-AAA-AAGAAAAAAA
1 AATCGTAAATAAGAAAAAAA
22407041 AAGAAAACAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (21 bp):
AATCGTAAATAAGAAAAAAAT
Found at i:22407259 original size:23 final size:22
Alignment explanation
Indices: 22407216--22407273 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
22407206 AAAGGGTATC
* *
22407216 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
22407237 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
22407260 TACATATCATATCT
1 TACAAATCATATCT
22407274 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:22407267 original size:17 final size:17
Alignment explanation
Indices: 22407245--22407297 Score: 70
Period size: 19 Copynumber: 3.0 Consensus size: 17
22407235 ATTACAAAAT
22407245 CATATCTTCTAAGATTA
1 CATATCTTCTAAGATTA
*
22407262 CATATCATATCTAAGATTG
1 CATATC-T-TCTAAGATTA
*
22407281 CATATCTTCAAAGATTA
1 CATATCTTCTAAGATTA
22407298 TGTTTCCATA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
17 14 0.45
18 2 0.06
19 15 0.48
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.38
Consensus pattern (17 bp):
CATATCTTCTAAGATTA
Done.