Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 68 of 172
Found at i:22298769 original size:44 final size:43
Alignment explanation
Indices: 22298363--22298830 Score: 333
Period size: 44 Copynumber: 10.6 Consensus size: 43
22298353 AACTTTAGCT
* *
22298363 TGTTACCCTACTGCTTAGGGGGTTAAAGCTCGTCGCCTTCGATC
1 TGTTACCCTACTGCTTAGGGGGTT-AAGCTTGTCACCTTCGATC
* * * * * *
22298407 TGTTTCCCTACTGCTTAGGGGGATAAGATCTATG-AACTTTAGCT-
1 TGTTACCCTACTGCTTAGGGGGTTAAG--CT-TGTCACCTTCGATC
* *
22298451 TGTTACCCTACTGCTTAGGGGGTTAAAGCTCGTCGCCTTCGATC
1 TGTTACCCTACTGCTTAGGGGGTT-AAGCTTGTCACCTTCGATC
* * * * * *
22298495 TGTTTCCCTACTGCTTAGGGGGATAAGATCTATG-AACTTTAGCT-
1 TGTTACCCTACTGCTTAGGGGGTTAAG--CT-TGTCACCTTCGATC
* *
22298539 TGTTACCCTACTGCTTAGGGGGTTAAAGCTCGTCGCCTTCGATC
1 TGTTACCCTACTGCTTAGGGGGTT-AAGCTTGTCACCTTCGATC
* * * * * *
22298583 TGTTTCCCTACTGCTTAGGGGGATAAGATCTATG-AACTTTAGCT-
1 TGTTACCCTACTGCTTAGGGGGTTAAG--CT-TGTCACCTTCGATC
* *
22298627 TGTTACCCTACTGCTTAGGGGGTTAAAGCTCGTCGCCTTCGATC
1 TGTTACCCTACTGCTTAGGGGGTT-AAGCTTGTCACCTTCGATC
* * * * * *
22298671 TGTTTCCCTACTGCTTAGGGGGATAAGATCTGTAAATCTTC-AGCC
1 TGTTACCCTACTGCTTAGGGGGTTAAGCT-TGT-CACCTTCGA-TC
* *
22298716 TGTTACCCTACTGTTTAGGGGGTTAATGCTTGTCATCTTCGATC
1 TGTTACCCTACTGCTTAGGGGGTTAA-GCTTGTCACCTTCGATC
* * * * *
22298760 TGTTTCCCTACTGCTTAGGGGGGTTAAGATCTG-CGA-ATTCAACC
1 TGTTACCCTACTGCTTA-GGGGGTTAAGCT-TGTC-ACCTTCGATC
*
22298804 TATTACCCTACTGCTTAGGGGGTTAAG
1 TGTTACCCTACTGCTTAGGGGGTTAAG
22298831 GTCTGGTGAA
Statistics
Matches: 328, Mismatches: 70, Indels: 53
0.73 0.16 0.12
Matches are distributed among these distances:
42 3 0.01
43 44 0.13
44 202 0.62
45 74 0.23
46 5 0.02
ACGTcount: A:0.19, C:0.23, G:0.24, T:0.34
Consensus pattern (43 bp):
TGTTACCCTACTGCTTAGGGGGTTAAGCTTGTCACCTTCGATC
Found at i:22298842 original size:44 final size:43
Alignment explanation
Indices: 22298318--22298844 Score: 281
Period size: 44 Copynumber: 12.0 Consensus size: 43
22298308 GTCTTTTGAT
* * * * * * *
22298318 CTGTTTCCCTACTGCTTAGGGTGATAAGATCTATGAACTTTAGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGTCTGTGAA-TTCAAC
* * ** * *
22298362 TTGTTACCCTACTGCTTAGGGGGTTAAAG-CTCGTCGCCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGTCT-GT-GAATTCAAC
* * * * * *
22298406 CTGTTTCCCTACTGCTTAGGGGGATAAGATCTATGAACTTTAGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGTCTGTGAA-TTCAAC
* * ** * *
22298450 TTGTTACCCTACTGCTTAGGGGGTTAAAG-CTCGTCGCCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGTCT-GT-GAATTCAAC
* * * * * *
22298494 CTGTTTCCCTACTGCTTAGGGGGATAAGATCTATGAACTTTAGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGTCTGTGAA-TTCAAC
* * ** * *
22298538 TTGTTACCCTACTGCTTAGGGGGTTAAAG-CTCGTCGCCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGTCT-GT-GAATTCAAC
* * * * * *
22298582 CTGTTTCCCTACTGCTTAGGGGGATAAGATCTATGAACTTTAGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGTCTGTGAA-TTCAAC
* * ** * *
22298626 TTGTTACCCTACTGCTTAGGGGGTTAAAG-CTCGTCGCCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGTCT-GT-GAATTCAAC
* * * * *
22298670 CTGTTTCCCTACTGCTTAGGGGGATAAGATCTGTAAATCTTCAGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGTCTGTGAA--TTCAAC
* * * * * *
22298715 CTGTTACCCTACTGTTTAGGGGGTTAATG-CTTGTCATCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGTC-TGTGA-ATTCAAC
* * *
22298759 CTGTTTCCCTACTGCTTAGGGGGGTTAAGATCTGCGAATTCAAC
1 CTGTTACCCTACTGCTTA-GGGGGTTAAGGTCTGTGAATTCAAC
*
22298803 CTATTACCCTACTGCTTAGGGGGTTAAGGTCTGGTGAATTCA
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGTCT-GTGAATTCA
22298845 CTGATTCTAG
Statistics
Matches: 342, Mismatches: 119, Indels: 44
0.68 0.24 0.09
Matches are distributed among these distances:
43 24 0.07
44 262 0.77
45 55 0.16
46 1 0.00
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.35
Consensus pattern (43 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAGGTCTGTGAATTCAAC
Found at i:22309312 original size:27 final size:29
Alignment explanation
Indices: 22309282--22309349 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 29
22309272 ATTTTAATTT
22309282 AATAATATATATTTTA-A-AATATAAATA
1 AATAATATATATTTTATATAATATAAATA
* *
22309309 AATAAAAT-TATTTTTATATTATATAAATA
1 AATAATATATA-TTTTATATAATATAAATA
* *
22309338 AAAAATAAATAT
1 AATAATATATAT
22309350 GGAATTTTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
26 2 0.06
27 12 0.38
28 1 0.03
29 15 0.47
30 2 0.06
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (29 bp):
AATAATATATATTTTATATAATATAAATA
Found at i:22311303 original size:22 final size:22
Alignment explanation
Indices: 22311277--22311336 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 22
22311267 AATATGCGTA
22311277 AATAAAAAAATAAAAAAATGAT
1 AATAAAAAAATAAAAAAATGAT
*
22311299 AATAACAAAAA-AAAATAATGAT
1 AATAA-AAAAATAAAAAAATGAT
*
22311321 AAAAAAAATAATAAAA
1 AATAAAAA-AATAAAA
22311337 TCTAAATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
21 3 0.09
22 21 0.64
23 9 0.27
ACGTcount: A:0.78, C:0.02, G:0.03, T:0.17
Consensus pattern (22 bp):
AATAAAAAAATAAAAAAATGAT
Found at i:22311310 original size:19 final size:18
Alignment explanation
Indices: 22311277--22311334 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 18
22311267 AATATGCGTA
*
22311277 AATAAAAAAATAAAAAAAT
1 AATAATAAAA-AAAAAAAT
*
22311296 GATAATAACAAAAAAAAAT
1 AATAATAA-AAAAAAAAAT
* *
22311315 AATGATAAAAAAAATAAT
1 AATAATAAAAAAAAAAAT
22311333 AA
1 AA
22311335 AATCTAAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
18 11 0.33
19 20 0.61
20 2 0.06
ACGTcount: A:0.78, C:0.02, G:0.03, T:0.17
Consensus pattern (18 bp):
AATAATAAAAAAAAAAAT
Found at i:22311316 original size:16 final size:15
Alignment explanation
Indices: 22311280--22311336 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 15
22311270 ATGCGTAAAT
22311280 AAAAA-AAT-AAAAA
1 AAAAATAATAAAAAA
**
22311293 AATGATAATAACAAAA
1 AAAAATAATAA-AAAA
* *
22311309 AAAAATAATGATAAA
1 AAAAATAATAAAAAA
22311324 AAAAATAATAAAA
1 AAAAATAATAAAA
22311337 TCTAAATTTT
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
13 3 0.09
14 3 0.09
15 15 0.45
16 12 0.36
ACGTcount: A:0.79, C:0.02, G:0.04, T:0.16
Consensus pattern (15 bp):
AAAAATAATAAAAAA
Found at i:22311374 original size:4 final size:4
Alignment explanation
Indices: 22311365--22311391 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
22311355 TTGAAAGTAG
22311365 TAAA TAAA TAAA TAAA TAAA TAAA TAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAA
22311392 GGCACAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:22311456 original size:27 final size:27
Alignment explanation
Indices: 22311426--22311514 Score: 85
Period size: 27 Copynumber: 3.1 Consensus size: 27
22311416 AAATCCAATT
22311426 GTAAAAATAAAATAAAGGAAATATTAA
1 GTAAAAATAAAATAAAGGAAATATTAA
*
22311453 GTAAATAAGTAATAAATAAA--AAA-ATCCAA
1 GTAAA-AA-T-A-AAATAAAGGAAATAT-TAA
22311482 TTGTAAAAATAAAATAAAGGAAATATTAA
1 --GTAAAAATAAAATAAAGGAAATATTAA
22311511 GTAA
1 GTAA
22311515 GAAAATATAA
Statistics
Matches: 50, Mismatches: 2, Indels: 20
0.69 0.03 0.28
Matches are distributed among these distances:
27 16 0.32
28 5 0.10
29 12 0.24
30 5 0.10
31 12 0.24
ACGTcount: A:0.64, C:0.02, G:0.10, T:0.24
Consensus pattern (27 bp):
GTAAAAATAAAATAAAGGAAATATTAA
Found at i:22311610 original size:113 final size:113
Alignment explanation
Indices: 22311455--22311800 Score: 511
Period size: 113 Copynumber: 3.1 Consensus size: 113
22311445 AATATTAAGT
*
22311455 AAATAAGTAATAAATAAAAAAATCCAATTGTAAAAATAAAATAAAGGAAATATTAAGTAAGA-AA
1 AAATAAGTAATAAAT-AAAAAATCCAATTGTAAAACTAAAATAAAGGAAATATTAAGTAA-ATAA
22311519 AT-ATAAA-AAAATCCAATTG-TAAAAATAAGAAACTAAATAAATAAATAATA
64 ATAATAAAGAAAA--CAATTGATAAAAAT-AGAAACTAAATAAATAAATAATA
*
22311569 AAATAAGTAATAAATAAAAAATCCAATTGTAAAACTAAAATAAAGGAAATATTAAGTAAATAAGT
1 AAATAAGTAATAAATAAAAAATCCAATTGTAAAACTAAAATAAAGGAAATATTAAGTAAATAAAT
* * * *
22311634 AATAAAGGAAACATTTGATTAAAATTGAAACTAAATAAATAAATAATA
66 AATAAAGAAAACAATTGATAAAAATAGAAACTAAATAAATAAATAATA
*
22311682 AAATAAGTAATAAATAAAAAATCCAATTGTAAAACTAAAATAAAGGAAATATTAAGTAAATAAGT
1 AAATAAGTAATAAATAAAAAATCCAATTGTAAAACTAAAATAAAGGAAATATTAAGTAAATAAAT
* * * * *
22311747 AATAAAGGAAACATTTGATTAAAATTGAAACTAAATAAATAAAAAATA
66 AATAAAGAAAACAATTGATAAAAATAGAAACTAAATAAATAAATAATA
22311795 AAATAA
1 AAATAA
22311801 CAAATGACAG
Statistics
Matches: 221, Mismatches: 7, Indels: 9
0.93 0.03 0.04
Matches are distributed among these distances:
112 1 0.00
113 191 0.86
114 26 0.12
115 3 0.01
ACGTcount: A:0.63, C:0.04, G:0.08, T:0.24
Consensus pattern (113 bp):
AAATAAGTAATAAATAAAAAATCCAATTGTAAAACTAAAATAAAGGAAATATTAAGTAAATAAAT
AATAAAGAAAACAATTGATAAAAATAGAAACTAAATAAATAAATAATA
Found at i:22313561 original size:45 final size:44
Alignment explanation
Indices: 22313495--22313692 Score: 161
Period size: 45 Copynumber: 4.5 Consensus size: 44
22313485 AATTTGTAGC
*
22313495 TTTAATCTG-TTCCACTGCAACTTCAGGGAAATAAGATTTGCTAT
1 TTTAATCTGCTT-CACTGCAACTTCAGAGAAATAAGATTTGCTAT
* * *
22313539 TTTCAATCTGCTTCACTACAACTTTAGAGAGATAAGATTTGCTAT
1 TTT-AATCTGCTTCACTGCAACTTCAGAGAAATAAGATTTGCTAT
* * * * * * * *
22313584 CTTTGATCTACTCCAATGCAACTTCAGGGAAATAAGGTTT-ATAGC
1 -TTTAATCTGCTTCACTGCAACTTCAGAGAAATAAGATTTGCTA-T
* * *
22313629 TTTAATATGC-TCTACTGCAACTTCAGAGAGATAAGATTTACTAT
1 TTTAATCTGCTTC-ACTGCAACTTCAGAGAAATAAGATTTGCTAT
* *
22313673 CTTCATCTGC-TCTACTGCAA
1 TTTAATCTGCTTC-ACTGCAA
22313693 TGTAACATCC
Statistics
Matches: 120, Mismatches: 28, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
43 1 0.01
44 51 0.43
45 63 0.52
46 5 0.04
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (44 bp):
TTTAATCTGCTTCACTGCAACTTCAGAGAAATAAGATTTGCTAT
Found at i:22313661 original size:89 final size:90
Alignment explanation
Indices: 22313505--22313675 Score: 231
Period size: 89 Copynumber: 1.9 Consensus size: 90
22313495 TTTAATCTGT
* * * * *
22313505 TCCACTGCAACTTCAGGGAAATAAGATTTGCTATTTTCAATCTGCTTCACTACAACTTTAGAGAG
1 TCCAATGCAACTTCAGGGAAATAAGATTTGATACTTTCAATATGCTTCACTACAACTTCAGAGAG
*
22313570 ATAAGATTTGCTATCTTTGATCTAC
66 ATAAGATTTACTATCTTTGATCTAC
* *
22313595 TCCAATGCAACTTCAGGGAAATAAGGTTT-ATAGCTTT-AATATGC-TCTACTGCAACTTCAGAG
1 TCCAATGCAACTTCAGGGAAATAAGATTTGATA-CTTTCAATATGCTTC-ACTACAACTTCAGAG
22313657 AGATAAGATTTACTATCTT
64 AGATAAGATTTACTATCTT
22313676 CATCTGCTCT
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
88 2 0.03
89 39 0.55
90 30 0.42
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.35
Consensus pattern (90 bp):
TCCAATGCAACTTCAGGGAAATAAGATTTGATACTTTCAATATGCTTCACTACAACTTCAGAGAG
ATAAGATTTACTATCTTTGATCTAC
Found at i:22317263 original size:46 final size:47
Alignment explanation
Indices: 22317210--22317431 Score: 176
Period size: 46 Copynumber: 4.8 Consensus size: 47
22317200 GGACTATTGT
*
22317210 GAGCTAGTGTAAGACATGTCTGAGACATGCATCGGCCAC-ATTACGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGATTACGA
* * *
22317256 GAGCTAGTGTAAGACCATGTCTGGGACATGGTC-TCGG-CATTGA-GACAA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-G-CATCGGCCA-CGATTACGA
* * * * * *
22317304 GAGTTAGTGTAAGACATGTCTGAGACATGCATCAGCCTCGA-GATGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGATTACG-A
* * *
22317351 -AGCCAGTGTAAGACATGTTTGGGACATGCATCGGCTACGAGTT----
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGA-TTACGA
*
22317394 GAGCTAGTGTAAGACCACGTCTGGGACATGGCATCGGC
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
22317432 ATCTTACCCC
Statistics
Matches: 141, Mismatches: 22, Indels: 26
0.75 0.12 0.14
Matches are distributed among these distances:
44 12 0.09
45 13 0.09
46 63 0.45
47 30 0.21
48 21 0.15
49 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (47 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGATTACGA
Found at i:22318167 original size:15 final size:13
Alignment explanation
Indices: 22318134--22318166 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
22318124 GGCACACGGG
22318134 CGTGTGTCTAGGC
1 CGTGTGTCTAGGC
22318147 CGTGTGTCTAGGC
1 CGTGTGTCTAGGC
22318160 CGTGTGT
1 CGTGTGT
22318167 GACACACAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.06, C:0.21, G:0.39, T:0.33
Consensus pattern (13 bp):
CGTGTGTCTAGGC
Found at i:22318574 original size:21 final size:22
Alignment explanation
Indices: 22318535--22318575 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
22318525 TTGAATTGGT
22318535 CACACGGGCATGTTGCCCCTCC
1 CACACGGGCATGTTGCCCCTCC
*
22318557 CACACTGGCATG-TGCCCCT
1 CACACGGGCATGTTGCCCCT
22318576 GTATCTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.15, C:0.44, G:0.22, T:0.20
Consensus pattern (22 bp):
CACACGGGCATGTTGCCCCTCC
Found at i:22318992 original size:46 final size:45
Alignment explanation
Indices: 22318942--22319069 Score: 157
Period size: 46 Copynumber: 2.8 Consensus size: 45
22318932 GCGACATTAT
* *
22318942 GAGAGCCAGTGTAAGACATGTCTGCGACATGCATCAACTTTGAGGC
1 GAGAGCTAGTGTAAGACATGTCTG-GACATGCATCAACTTTGAGAC
* * * **
22318988 GAGAGCTAGTTTAAGACATTTCTGGGACCTGCATCGGCTTTGAGAC
1 GAGAGCTAGTGTAAGACATGTCT-GGACATGCATCAACTTTGAGAC
*
22319034 GAGAGCTAGTGTAAGACATGTCCAGGACATGCATCA
1 GAGAGCTAGTGTAAGACATGT-CTGGACATGCATCA
22319070 GCCTCAAGAT
Statistics
Matches: 68, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
46 66 0.97
47 2 0.03
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.23
Consensus pattern (45 bp):
GAGAGCTAGTGTAAGACATGTCTGGACATGCATCAACTTTGAGAC
Found at i:22319191 original size:49 final size:49
Alignment explanation
Indices: 22319132--22319404 Score: 218
Period size: 49 Copynumber: 5.6 Consensus size: 49
22319122 TGTTGTGTGT
* *
22319132 CAGTGTAAGACCTGTCTGGGACCTGGCATCGACAC-CGATAAATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACCTGGCATCGAC-CTCAATAAATGAAAGC
* * * *
22319181 CAGTGCAAGACCTGTCTGGGACAC-GGCATCGGCCTCAATATATGAAAGT
1 CAGTGTAAGACCTGTCTGGGAC-CTGGCATCGACCTCAATAAATGAAAGC
* * * * * *
22319230 CTGTGCAAGACTTGTCTGGGGCATGGCATCGACACT-AATAAATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACCTGGCATCGAC-CTCAATAAATGAAAGC
* * * * *
22319279 CAGTGTAAGACCTGTTTGGGACAC-GACATC-AGCCTCGATATATGAAAGT
1 CAGTGTAAGACCTGTCTGGGAC-CTGGCATCGA-CCTCAATAAATGAAAGC
* * * * * **
22319328 CATTGTAAGACCTGTCTGGGACATGGCATCGACTTTAAT--GTGCTAGC
1 CAGTGTAAGACCTGTCTGGGACCTGGCATCGACCTCAATAAATGAAAGC
*
22319375 CAGTGTAAGACCATGTCTGGGACATGGCAT
1 CAGTGTAAGACC-TGTCTGGGACCTGGCAT
22319405 TGGCATCTTA
Statistics
Matches: 177, Mismatches: 37, Indels: 21
0.75 0.16 0.09
Matches are distributed among these distances:
47 15 0.08
48 21 0.12
49 137 0.77
50 4 0.02
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACCTGGCATCGACCTCAATAAATGAAAGC
Found at i:22319260 original size:98 final size:98
Alignment explanation
Indices: 22319138--22319360 Score: 331
Period size: 98 Copynumber: 2.3 Consensus size: 98
22319128 GTGTCAGTGT
* *
22319138 AAGACCTGTCTGGGACCTGGCATCGACACCGATAAATGAGAGCCAGTGCAAGACCTGTCTGGGAC
1 AAGACCTGTCTGGGACATGGCATCGACACCAATAAATGAGAGCCAGTGCAAGACCTGTCTGGGAC
* *
22319203 ACGGCATCGGCCTCAATATATGAAAGTC-TGTGC
66 ACGACATCAGCCTCAATATATGAAAGTCAT-TGC
* * * * *
22319236 AAGACTTGTCTGGGGCATGGCATCGACACTAATAAATGAGAGCCAGTGTAAGACCTGTTTGGGAC
1 AAGACCTGTCTGGGACATGGCATCGACACCAATAAATGAGAGCCAGTGCAAGACCTGTCTGGGAC
* *
22319301 ACGACATCAGCCTCGATATATGAAAGTCATTGT
66 ACGACATCAGCCTCAATATATGAAAGTCATTGC
22319334 AAGACCTGTCTGGGACATGGCATCGAC
1 AAGACCTGTCTGGGACATGGCATCGAC
22319361 TTTAATGTGC
Statistics
Matches: 111, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
98 110 0.99
99 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.27, T:0.22
Consensus pattern (98 bp):
AAGACCTGTCTGGGACATGGCATCGACACCAATAAATGAGAGCCAGTGCAAGACCTGTCTGGGAC
ACGACATCAGCCTCAATATATGAAAGTCATTGC
Found at i:22319884 original size:61 final size:61
Alignment explanation
Indices: 22319789--22319911 Score: 246
Period size: 61 Copynumber: 2.0 Consensus size: 61
22319779 CATGCGACTT
22319789 ACTAAGCTTTATACTTACCACTTTTCTTTTCCATTTTCTTATAGTGCCGCCAAAGTAGCTC
1 ACTAAGCTTTATACTTACCACTTTTCTTTTCCATTTTCTTATAGTGCCGCCAAAGTAGCTC
22319850 ACTAAGCTTTATACTTACCACTTTTCTTTTCCATTTTCTTATAGTGCCGCCAAAGTAGCTC
1 ACTAAGCTTTATACTTACCACTTTTCTTTTCCATTTTCTTATAGTGCCGCCAAAGTAGCTC
22319911 A
1 A
22319912 TGGATCATCG
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.24, C:0.26, G:0.10, T:0.41
Consensus pattern (61 bp):
ACTAAGCTTTATACTTACCACTTTTCTTTTCCATTTTCTTATAGTGCCGCCAAAGTAGCTC
Found at i:22327050 original size:46 final size:46
Alignment explanation
Indices: 22326960--22327082 Score: 142
Period size: 46 Copynumber: 2.7 Consensus size: 46
22326950 TGATATGTGT
* * *
22326960 GCTAGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTACGAGA
1 GCTAGTGTAAGACATTTCTGGGACATGCATCGGCCACATGACGAGA
****
22327006 GCTAGTGTAAGACATTTCTGGGACATGCATCGGTTTTGA-GACGAGA
1 GCTAGTGTAAGACATTTCTGGGACATGCATCGG-CCACATGACGAGA
*
22327052 GCTAGTGTAAGACATGTT-TAGGACATGCATC
1 GCTAGTGTAAGACAT-TTCTGGGACATGCATC
22327083 AGCCTCAAGA
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
46 64 0.96
47 3 0.04
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (46 bp):
GCTAGTGTAAGACATTTCTGGGACATGCATCGGCCACATGACGAGA
Found at i:22327205 original size:49 final size:48
Alignment explanation
Indices: 22327128--22327288 Score: 180
Period size: 49 Copynumber: 3.3 Consensus size: 48
22327118 TGTTGTGTGT
* *
22327128 CAGTGTAAGACCTGTCTGGGACATGGCATCGACACTGATAAATGAGAGC
1 CAGTGCAAGACCTGTCTGGG-CATGGCATCGACACTAATAAATGAGAGC
* * * * *
22327177 CAGTGCAAGACCTGTCTGGTGCACGGCATCGGC-CTCAATATATGAAAGT
1 CAGTGCAAGACCTGTCTGG-GCATGGCATCGACACT-AATAAATGAGAGC
* * *
22327226 CTGTGCAAGACTTGTCTGGGGCATGGCATCGACACCAATAAATGAGAGC
1 CAGTGCAAGACCTGTCT-GGGCATGGCATCGACACTAATAAATGAGAGC
*
22327275 CAGTGTAAGACCTG
1 CAGTGCAAGACCTG
22327289 CTTGGGACAC
Statistics
Matches: 90, Mismatches: 18, Indels: 8
0.78 0.16 0.07
Matches are distributed among these distances:
48 2 0.02
49 84 0.93
50 4 0.04
ACGTcount: A:0.29, C:0.22, G:0.28, T:0.21
Consensus pattern (48 bp):
CAGTGCAAGACCTGTCTGGGCATGGCATCGACACTAATAAATGAGAGC
Found at i:22327310 original size:98 final size:98
Alignment explanation
Indices: 22327134--22327356 Score: 308
Period size: 98 Copynumber: 2.3 Consensus size: 98
22327124 GTGTCAGTGT
**
22327134 AAGACCTGTCTGGGACATGGCATCGACACTGATAAATGAGAGCCAGTGCAAGACCTGTCTGGTGC
1 AAGACCTGTCTGGGACATGGCATCGACACCAATAAATGAGAGCCAGTGCAAGACCTGTCTGGTGC
* *
22327199 ACGGCATCGGCCTCAATATATGAAAGTC-TGTGC
66 ACGACATCAGCCTCAATATATGAAAGTCAT-TGC
* * *
22327232 AAGACTTGTCTGGGGCATGGCATCGACACCAATAAATGAGAGCCAGTGTAAGACCTG-CTTGG-G
1 AAGACCTGTCTGGGACATGGCATCGACACCAATAAATGAGAGCCAGTGCAAGACCTGTC-TGGTG
* *
22327295 ACACGACATCAGCCTCGATATATGAAAGTCATTGT
65 -CACGACATCAGCCTCAATATATGAAAGTCATTGC
*
22327330 AAGACCTATCTGGGACATGGCATCGAC
1 AAGACCTGTCTGGGACATGGCATCGAC
22327357 TTTAATGTGC
Statistics
Matches: 110, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
97 2 0.02
98 107 0.97
99 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.22
Consensus pattern (98 bp):
AAGACCTGTCTGGGACATGGCATCGACACCAATAAATGAGAGCCAGTGCAAGACCTGTCTGGTGC
ACGACATCAGCCTCAATATATGAAAGTCATTGC
Found at i:22356516 original size:21 final size:21
Alignment explanation
Indices: 22356492--22356534 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
22356482 ACATAATTAT
22356492 AATTAAAACCTAATTAATTTA
1 AATTAAAACCTAATTAATTTA
22356513 AATTAAAACCTAATTAATTTA
1 AATTAAAACCTAATTAATTTA
22356534 A
1 A
22356535 CTTTAATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.37
Consensus pattern (21 bp):
AATTAAAACCTAATTAATTTA
Found at i:22363045 original size:20 final size:20
Alignment explanation
Indices: 22363017--22363054 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
22363007 CTAGGAATTA
22363017 TGTGATCTGAGCTCATGAGT
1 TGTGATCTGAGCTCATGAGT
* *
22363037 TGTGGTCTGAGTTCATGA
1 TGTGATCTGAGCTCATGA
22363055 TATATGTGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.13, G:0.32, T:0.37
Consensus pattern (20 bp):
TGTGATCTGAGCTCATGAGT
Found at i:22365260 original size:3 final size:3
Alignment explanation
Indices: 22365252--22365276 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
22365242 AGTCATTTGT
22365252 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
22365277 GAATAAAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:22365725 original size:24 final size:25
Alignment explanation
Indices: 22365693--22365739 Score: 71
Period size: 24 Copynumber: 1.9 Consensus size: 25
22365683 TTTCAATTTA
22365693 AAATTTATT-T-AATAATTTAAAATT
1 AAATTTATTATAAAT-ATTTAAAATT
22365717 AAATTTATTATAAATATTTAAAA
1 AAATTTATTATAAATATTTAAAA
22365740 CAAAATATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 9 0.43
25 9 0.43
26 3 0.14
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
AAATTTATTATAAATATTTAAAATT
Found at i:22365735 original size:25 final size:24
Alignment explanation
Indices: 22365693--22365739 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 24
22365683 TTTCAATTTA
22365693 AAATTTATTTAATAATTTAAAATT
1 AAATTTATTTAATAATTTAAAATT
22365717 AAATTTATTATAA-ATATTTAAAA
1 AAATTTATT-TAATA-ATTTAAAA
22365740 CAAAATATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
AAATTTATTTAATAATTTAAAATT
Found at i:22365745 original size:25 final size:24
Alignment explanation
Indices: 22365692--22365745 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
22365682 ATTTCAATTT
*
22365692 AAAATTTATTTAATAATTTAAAAT
1 AAAATTTATTTAATAATTTAAAAC
*
22365716 TAAATTTATTATAA-ATATTTAAAAC
1 AAAATTTATT-TAATA-ATTTAAAAC
22365741 AAAAT
1 AAAAT
22365746 ATTAATATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 10 0.40
25 15 0.60
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (24 bp):
AAAATTTATTTAATAATTTAAAAC
Found at i:22366513 original size:27 final size:27
Alignment explanation
Indices: 22366459--22366513 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
22366449 AATTTTTTTC
* *
22366459 TTTTTTAGTCACCTAATTATAAGTAAT
1 TTTTTTAATCACCTAATTATAAGAAAT
*
22366486 TTTTTTAATCATCTAATTATGAA-AAAT
1 TTTTTTAATCACCTAATTAT-AAGAAAT
22366513 T
1 T
22366514 ATAAAATGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 22 0.92
28 2 0.08
ACGTcount: A:0.36, C:0.09, G:0.05, T:0.49
Consensus pattern (27 bp):
TTTTTTAATCACCTAATTATAAGAAAT
Found at i:22369849 original size:28 final size:25
Alignment explanation
Indices: 22369810--22369862 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 25
22369800 AATTATACTA
**
22369810 TTTTTTTTCAAGTTTATACCTAAACT
1 TTTTTTTTCAAG-AGATACCTAAACT
22369836 TTTTTTCTTACAAGAGATACCTAAACT
1 TTTTTT-TT-CAAGAGATACCTAAACT
22369863 AGACTTTGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 6 0.26
27 13 0.57
28 4 0.17
ACGTcount: A:0.30, C:0.17, G:0.06, T:0.47
Consensus pattern (25 bp):
TTTTTTTTCAAGAGATACCTAAACT
Found at i:22369988 original size:16 final size:16
Alignment explanation
Indices: 22369967--22369998 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22369957 AGTGACACTT
22369967 TTAAATTAAAATAAAA
1 TTAAATTAAAATAAAA
*
22369983 TTAAATTAAATTAAAA
1 TTAAATTAAAATAAAA
22369999 AATTTCAAAA
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:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
TTAAATTAAAATAAAA
Found at i:22371721 original size:26 final size:26
Alignment explanation
Indices: 22371692--22371745 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
22371682 AATTTATAAG
* * *
22371692 AATCATTAGAAATTATAAAAAATTTA
1 AATCATTAAAAATGATAAAAAAATTA
*
22371718 AATCTTTAAAAATGATAAAAAAATTA
1 AATCATTAAAAATGATAAAAAAATTA
22371744 AA
1 AA
22371746 AAATATAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (26 bp):
AATCATTAAAAATGATAAAAAAATTA
Found at i:22371744 original size:18 final size:18
Alignment explanation
Indices: 22371723--22371764 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
22371713 ATTTAAATCT
22371723 TTAAAAATGATAAAAAA-A
1 TTAAAAAT-ATAAAAAACA
22371741 TTAAAAAATATAAAAAACA
1 TT-AAAAATATAAAAAACA
22371760 TTAAA
1 TTAAA
22371765 TTTATAATCG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (18 bp):
TTAAAAATATAAAAAACA
Found at i:22371749 original size:19 final size:19
Alignment explanation
Indices: 22371725--22371764 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
22371715 TTAAATCTTT
22371725 AAAAATGATAAAAAA-ATTA
1 AAAAAT-ATAAAAAACATTA
22371744 AAAAATATAAAAAACATTA
1 AAAAATATAAAAAACATTA
22371763 AA
1 AA
22371765 TTTATAATCG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.20
Consensus pattern (19 bp):
AAAAATATAAAAAACATTA
Found at i:22372122 original size:11 final size:10
Alignment explanation
Indices: 22372106--22372147 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
22372096 AATTTTATGA
22372106 TTTTAATTAAT
1 TTTTAA-TAAT
22372117 TTTTAAT-AT
1 TTTTAATAAT
*
22372126 TTTAAATAAT
1 TTTTAATAAT
*
22372136 TTTTAAAAAT
1 TTTTAATAAT
22372146 TT
1 TT
22372148 AATTTTTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
9 8 0.30
10 13 0.48
11 6 0.22
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (10 bp):
TTTTAATAAT
Found at i:22372127 original size:19 final size:19
Alignment explanation
Indices: 22372105--22372151 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
22372095 AAATTTTATG
*
22372105 ATTTTAATTAATTTTTAAT
1 ATTTTAATTAATTTTTAAA
*
22372124 ATTTTAAATAATTTTTAAA
1 ATTTTAATTAATTTTTAAA
*
22372143 AATTTAATT
1 ATTTTAATT
22372152 TTTTTAGTGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
ATTTTAATTAATTTTTAAA
Found at i:22381254 original size:9 final size:9
Alignment explanation
Indices: 22381240--22381266 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
22381230 TTTACATGGT
22381240 AATATAACC
1 AATATAACC
22381249 AATATAACC
1 AATATAACC
22381258 AATATAACC
1 AATATAACC
22381267 TATACATGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.56, C:0.22, G:0.00, T:0.22
Consensus pattern (9 bp):
AATATAACC
Found at i:22381793 original size:23 final size:22
Alignment explanation
Indices: 22381751--22381793 Score: 52
Period size: 23 Copynumber: 1.9 Consensus size: 22
22381741 ACACTCATGG
*
22381751 TGTACAAGTCTATAATTAAAGA
1 TGTACAAGTCTATAAATAAAGA
22381773 TGTACATAGTC-ATCAAATAAA
1 TGTACA-AGTCTAT-AAATAAA
22381794 TTCCATGTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.30
Consensus pattern (22 bp):
TGTACAAGTCTATAAATAAAGA
Found at i:22389262 original size:23 final size:22
Alignment explanation
Indices: 22389219--22389262 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
22389209 GGGGTGTTGC
*
22389219 ATTTAGTGGTTTTAGAGCTACG
1 ATTTAGTGGTTTAAGAGCTACG
22389241 ATTTAGTCGGTTCTAAGA-CTAC
1 ATTTAGT-GGTT-TAAGAGCTAC
22389263 CGTAGAGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 7 0.37
23 8 0.42
24 4 0.21
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.39
Consensus pattern (22 bp):
ATTTAGTGGTTTAAGAGCTACG
Found at i:22401565 original size:50 final size:50
Alignment explanation
Indices: 22401438--22401817 Score: 325
Period size: 50 Copynumber: 7.5 Consensus size: 50
22401428 TGAGAACACA
* * * *
22401438 TGTGTAGTACTATGTGCAGGCTACTATGTGT-TTAAGACAGTTTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-AGATAG--TTAGGTCACG
* * * * ** *
22401490 TGTGTAGTACTAAGTGCAAGATACTAAGTGTACTAGATTGTTAGGTTGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAGTTAGGTCACG
* ** ** * *
22401540 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAGCTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAG-TTAGGTCACG
* * * *
22401591 TCTATAGTACTAAGTGCATGCTACTACGTGTA-TCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-AGATAGTTAGGTCACG
* * ** ** * *
22401641 TATGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAGCTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAG-TTAGGTCACG
* * * *
22401692 TCTATAGTACTAAGTGCATGCTACTACGTGTA-TCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-AGATAGTTAGGTCACG
* * * *
22401742 TATGTAGTACTAAGTGCAGGCTACTACGTGTACGAGATAGTTAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAGTTAGGTCACG
*
22401792 TGTGTAGTGCTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
22401818 TGCATACCAG
Statistics
Matches: 256, Mismatches: 65, Indels: 16
0.76 0.19 0.05
Matches are distributed among these distances:
50 151 0.59
51 73 0.29
52 31 0.12
53 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAGTTAGGTCACG
Found at i:22401622 original size:101 final size:101
Alignment explanation
Indices: 22401485--22401767 Score: 460
Period size: 101 Copynumber: 2.8 Consensus size: 101
22401475 CAGTTTTAGG
* * * * * * ** * *
22401485 TCACGTGTGTAGTACTAAGTGCAAGATACTAAGTGTA-CTAGATTGTTAGGTTGCATGTGTAGTA
1 TCACGTCTATAGTACTAAGTGCATGCTACTACGTGTATC-AGATGGTTAGGTCACGTATGTAGTA
22401549 CTAAGTGCAGGCTACTATGCATACCCGATAGCTTCGA
65 CTAAGTGCAGGCTACTATGCATACCCGATAGCTTCGA
22401586 TCACGTCTATAGTACTAAGTGCATGCTACTACGTGTATCAGATGGTTAGGTCACGTATGTAGTAC
1 TCACGTCTATAGTACTAAGTGCATGCTACTACGTGTATCAGATGGTTAGGTCACGTATGTAGTAC
22401651 TAAGTGCAGGCTACTATGCATACCCGATAGCTTCGA
66 TAAGTGCAGGCTACTATGCATACCCGATAGCTTCGA
22401687 TCACGTCTATAGTACTAAGTGCATGCTACTACGTGTATCAGATGGTTAGGTCACGTATGTAGTAC
1 TCACGTCTATAGTACTAAGTGCATGCTACTACGTGTATCAGATGGTTAGGTCACGTATGTAGTAC
22401752 TAAGTGCAGGCTACTA
66 TAAGTGCAGGCTACTA
22401768 CGTGTACGAG
Statistics
Matches: 171, Mismatches: 10, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
101 170 0.99
102 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (101 bp):
TCACGTCTATAGTACTAAGTGCATGCTACTACGTGTATCAGATGGTTAGGTCACGTATGTAGTAC
TAAGTGCAGGCTACTATGCATACCCGATAGCTTCGA
Found at i:22406064 original size:80 final size:79
Alignment explanation
Indices: 22405980--22406151 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
22405970 GGACTAAGAT
*
22405980 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
22406044 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
22406060 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
22406125 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
22406139 CCGAAGGCATTTG
1 CCGAAGGCATTTG
22406152 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:22406131 original size:39 final size:39
Alignment explanation
Indices: 22405927--22406149 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 39
22405917 TTGAATGCTG
* * * * *
22405927 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
22405967 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
22406006 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
22406047 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
22406087 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
22406126 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
22406150 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
39 40 0.25
40 103 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:22406169 original size:79 final size:80
Alignment explanation
Indices: 22406007--22406184 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
22405997 AGATACAAAT
* * * *
22406007 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
22406072 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
22406087 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
22406151 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
22406166 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
22406185 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:22413918 original size:40 final size:39
Alignment explanation
Indices: 22413887--22414096 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
22413877 GGACTAAGAT
* *
22413887 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
22413927 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
22413967 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
22414007 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
22414047 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
22414086 CCGAAGGCATT
1 CCGAAGGCATT
22414097 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:22414050 original size:120 final size:120
Alignment explanation
Indices: 22413834--22414096 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
22413824 TTGAATGCTG
* *
22413834 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
22413898 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
22413954 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
22414017 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
22414073 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
22414097 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:22414116 original size:79 final size:80
Alignment explanation
Indices: 22413835--22414131 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
22413825 TGAATGCTGT
* ** * * * **
22413835 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
22413898 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
22413915 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
22413979 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
22413995 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
22414059 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
22414074 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
22414132 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:22419059 original size:50 final size:50
Alignment explanation
Indices: 22418982--22419218 Score: 267
Period size: 50 Copynumber: 4.7 Consensus size: 50
22418972 TAAGACGGTT
* *
22418982 TTAGGTCACGTGTGTAGTACAAAGTGCAGGCTACTACGTGTACCAGATTG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* * * * ** *
22419032 TTAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCCCATAG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* * * * * * *
22419082 CTTCGATCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCGGATGG
1 -TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* ** * *
22419133 TTAGGTCACGTGCATAGTACTAAGTGTAGGCTACTACGTGTACGAGATTG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
*
22419183 TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
22419219 TGCATACCCG
Statistics
Matches: 152, Mismatches: 34, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
50 114 0.75
51 38 0.25
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (50 bp):
TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
Found at i:22419117 original size:101 final size:101
Alignment explanation
Indices: 22418987--22419168 Score: 265
Period size: 101 Copynumber: 1.8 Consensus size: 101
22418977 CGGTTTTAGG
* * **
22418987 TCACGTGTGTAGTACAAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACAAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCACATGCATAGTAC
*
22419052 TATGTGCAGGCTACTATGCGTACCCCATAGCTTCGA
66 TAAGTGCAGGCTACTATGCGTACCCCATAGCTTCGA
* * * * *
22419088 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCGGATGGTTAGGTCACGTGCATAGTAC
1 TCACGTGTGTAGTACAAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCACATGCATAGTAC
*
22419153 TAAGTGTAGGCTACTA
66 TAAGTGCAGGCTACTA
22419169 CGTGTACGAG
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
101 70 1.00
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (101 bp):
TCACGTGTGTAGTACAAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCACATGCATAGTAC
TAAGTGCAGGCTACTATGCGTACCCCATAGCTTCGA
Found at i:22419216 original size:151 final size:152
Alignment explanation
Indices: 22418940--22419236 Score: 434
Period size: 151 Copynumber: 2.0 Consensus size: 152
22418930 TGAGAACACA
* * * **
22418940 TGTGTAGTACTATGTATAGGCTACTATGTGTTTAAGACGGTTTTAGGTCACGTGTGTAGTACAAA
1 TGTGTAGTACTAAGTATAGGCTACTACGTGTATAAGACGG-TTTAGGTCACGTGCATAGTACAAA
*
22419005 GTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATG
65 GTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATG
* *
22419070 CGTACCCCATAGCTTCGATCACG
130 CATACCCCAGAGCTTCGATCACG
* ** * *
22419093 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCGGATGG-TTAGGTCACGTGCATAGTACTAAG
1 TGTGTAGTACTAAGTATAGGCTACTACGTGTATAAGACGGTTTAGGTCACGTGCATAGTACAAAG
* *
22419157 TGTAGGCTACTACGTGTACGAGATTGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGC
66 TGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGC
*
22419222 ATACCCGAGAGCTTC
131 ATACCCCAGAGCTTC
22419237 AGTTACAAGG
Statistics
Matches: 128, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
151 95 0.74
153 33 0.26
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (152 bp):
TGTGTAGTACTAAGTATAGGCTACTACGTGTATAAGACGGTTTAGGTCACGTGCATAGTACAAAG
TGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGC
ATACCCCAGAGCTTCGATCACG
Found at i:22425196 original size:18 final size:18
Alignment explanation
Indices: 22425161--22425195 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
22425151 TAGTCCTTAA
*
22425161 ACCAACTTATATAATTTT
1 ACCAACCTATATAATTTT
22425179 ACCAACCTA-ATAATTTT
1 ACCAACCTATATAATTTT
22425196 TTTCTATTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (18 bp):
ACCAACCTATATAATTTT
Found at i:22433335 original size:33 final size:33
Alignment explanation
Indices: 22433265--22433355 Score: 96
Period size: 33 Copynumber: 2.7 Consensus size: 33
22433255 GTTTCAGTTA
22433265 GGGCCTAGCCCATTCCAGAATCAGAAACAGTGT
1 GGGCCTAGCCCATTCCAGAATCAGAAACAGTGT
* * *
22433298 GGGCCTGAGCCCATTTCAGTAA-CAGTATCAGTG-
1 GGGCCT-AGCCCATTCCAG-AATCAGAAACAGTGT
* *
22433331 GGGCCTAAGCCCATTACAAAATCAG
1 GGGCCT-AGCCCATTCCAGAATCAG
22433356 TACAGTATGC
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
32 2 0.04
33 25 0.51
34 20 0.41
35 2 0.04
ACGTcount: A:0.30, C:0.26, G:0.24, T:0.20
Consensus pattern (33 bp):
GGGCCTAGCCCATTCCAGAATCAGAAACAGTGT
Found at i:22433750 original size:27 final size:27
Alignment explanation
Indices: 22433720--22433839 Score: 186
Period size: 27 Copynumber: 4.4 Consensus size: 27
22433710 GGCAAATCAT
*
22433720 TCATTTTACCTTACAGGGGTATTACAG
1 TCATTTTACCTTACAGGGGTATTATAG
*
22433747 TCATTTTACCCTACAGGGGTATTATAG
1 TCATTTTACCTTACAGGGGTATTATAG
* * *
22433774 TCATTTGACCCTATAGGGGTATTATAG
1 TCATTTTACCTTACAGGGGTATTATAG
*
22433801 TCATTTTACCTTACAAGGGTATTATAG
1 TCATTTTACCTTACAGGGGTATTATAG
22433828 TCATTTTACCTT
1 TCATTTTACCTT
22433840 CTAGCCCAAC
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 85 1.00
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (27 bp):
TCATTTTACCTTACAGGGGTATTATAG
Found at i:22438677 original size:47 final size:46
Alignment explanation
Indices: 22438613--22438740 Score: 150
Period size: 47 Copynumber: 2.7 Consensus size: 46
22438603 ACAACTTTTA
* * *
22438613 GCCGGTGCGTGTCCCAGACACGTCTTACACTGGCTATCACT-ATCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCA-TAAT-GAG
* *
22438660 GCCGATGCATGTCCCAGACATTGTCTTACACTGGCTCTCATAATGTG
1 GCCGATGCATGTCCCAGACA-TGTCTTACACTGGCTATCATAATGAG
* * *
22438707 GCTGAAGCACGTCCCAGACATGTCTTACACTGGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC
22438741 GCACAAATCA
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
46 14 0.20
47 38 0.54
48 19 0.27
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.25
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCATAATGAG
Found at i:22446156 original size:22 final size:22
Alignment explanation
Indices: 22446128--22446171 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
22446118 GTGGAGGCCG
22446128 ATGCATGTCCCAGACATGGTCT
1 ATGCATGTCCCAGACATGGTCT
22446150 ATGCATGTCCCAGACATGGTCT
1 ATGCATGTCCCAGACATGGTCT
22446172 TACACTAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (22 bp):
ATGCATGTCCCAGACATGGTCT
Found at i:22450410 original size:23 final size:23
Alignment explanation
Indices: 22450384--22450436 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
22450374 TCTAAATCCA
*
22450384 TTGTGGCATTTTCTATAAAGCCT
1 TTGTGGCATGTTCTATAAAGCCT
* **
22450407 TTGTAGTGTGTTCTATAAAGCCT
1 TTGTGGCATGTTCTATAAAGCCT
22450430 TTGTGGC
1 TTGTGGC
22450437 TTATTCTGTG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.19, C:0.15, G:0.23, T:0.43
Consensus pattern (23 bp):
TTGTGGCATGTTCTATAAAGCCT
Found at i:22450443 original size:23 final size:22
Alignment explanation
Indices: 22450384--22450443 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 22
22450374 TCTAAATCCA
22450384 TTGTGGCATTTTCTATAAAGCCT
1 TTGTGGC-TTTTCTATAAAGCCT
*
22450407 TTGTAGTG-TGTTCTATAAAGCCT
1 TTGT-G-GCTTTTCTATAAAGCCT
22450430 TTGTGGCTTATTCT
1 TTGTGGCTT-TTCT
22450444 GTGATGCATA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
21 1 0.03
22 2 0.06
23 26 0.84
24 1 0.03
25 1 0.03
ACGTcount: A:0.18, C:0.15, G:0.20, T:0.47
Consensus pattern (22 bp):
TTGTGGCTTTTCTATAAAGCCT
Found at i:22455751 original size:21 final size:21
Alignment explanation
Indices: 22455726--22455770 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
22455716 TACTGATTGT
22455726 TTGTAGGTCTACTATTAGAAG
1 TTGTAGGTCTACTATTAGAAG
22455747 TTGTAGGTCTACTATTAGAAG
1 TTGTAGGTCTACTATTAGAAG
22455768 TTG
1 TTG
22455771 GTTCTATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.27, C:0.09, G:0.24, T:0.40
Consensus pattern (21 bp):
TTGTAGGTCTACTATTAGAAG
Found at i:22464585 original size:47 final size:45
Alignment explanation
Indices: 22464473--22464690 Score: 244
Period size: 47 Copynumber: 4.7 Consensus size: 45
22464463 GATTACTTAT
* * * * *
22464473 GTGCCATTGTAAGACATGTCTGGGGCATGCATCGGCCATATTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTAGA-GATGA
*
22464519 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCGTAGAGATGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TAGAGATGA
*
22464567 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACGATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CTAGA-GATGA
* * *
22464614 -TAGCCAGTGTAAGACATGTCTAGGACATTCATCGGCT-GAGA-GTT
1 GT-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTAGAGATG-A
*
22464658 GTGCTAGTGTAAGACATGTCTGGGACATGCATC
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATC
22464691 AACACGTATA
Statistics
Matches: 150, Mismatches: 14, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
43 1 0.01
44 30 0.20
45 3 0.02
46 25 0.17
47 64 0.43
48 25 0.17
49 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (45 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTAGAGATGA
Found at i:22464687 original size:91 final size:94
Alignment explanation
Indices: 22464473--22464791 Score: 280
Period size: 94 Copynumber: 3.4 Consensus size: 94
22464463 GATTACTTAT
* * **
22464473 GTGCCATTGTAAGACATGTCTGGGGCATGCATCGGCCATATTATGAGTGCCAGTGTAAGACCATG
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATACGATGAGTGCCAGTGTAAGACCATG
* *
22464538 TCTGGGACATGGCATTGGCGTAGAGATGA
66 TCTAGGACATGGCATCGGCGTAGAGATGA
22464567 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCC-TCGACGATGA-TAGCCAGTGTAAGA-C
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAT--ACGATGAGT-GCCAGTGTAAGACC
* *
22464629 ATGTCTAGGACAT-TCATCGGC-T-GAGA-GTT
63 ATGTCTAGGACATGGCATCGGCGTAGAGATG-A
* ** * * * * *
22464658 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAACACGTATA-TACGAGAGCTAGTATAAGACC
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGC-C--ATACGATGAGTGCCAGTGTAAGACC
* * *
22464722 ATGTC-AGGGACATGGCATCGACCTTGATGATGA
63 ATGTCTA-GGACATGGCATCGGCGTAGA-GATGA
*
22464755 -TAGCCAGTGTAAGACCATATCTGGGACATGACATCGG
1 GT-GCCAGTGTAAGA-CATGTCTGGGACATG-CATCGG
22464792 TAACTTATCC
Statistics
Matches: 183, Mismatches: 23, Indels: 33
0.77 0.10 0.14
Matches are distributed among these distances:
90 1 0.01
91 37 0.20
92 16 0.09
93 20 0.11
94 55 0.30
95 19 0.10
96 3 0.02
97 13 0.07
98 15 0.08
99 4 0.02
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (94 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATACGATGAGTGCCAGTGTAAGACCATG
TCTAGGACATGGCATCGGCGTAGAGATGA
Found at i:22466392 original size:22 final size:22
Alignment explanation
Indices: 22466364--22466409 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
22466354 CTCCGAATGA
*
22466364 TGGATGCTTGGTATTCGGAGTT
1 TGGATGCTTGGTATTAGGAGTT
22466386 TGGATGCTTGGTATTAGGAGTT
1 TGGATGCTTGGTATTAGGAGTT
22466408 TG
1 TG
22466410 TTCATTCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.15, C:0.07, G:0.37, T:0.41
Consensus pattern (22 bp):
TGGATGCTTGGTATTAGGAGTT
Found at i:22471414 original size:12 final size:12
Alignment explanation
Indices: 22471397--22471421 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22471387 ATGTAAGTGA
22471397 TCTTGATGATTT
1 TCTTGATGATTT
22471409 TCTTGATGATTT
1 TCTTGATGATTT
22471421 T
1 T
22471422 TACATTTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:22472209 original size:47 final size:47
Alignment explanation
Indices: 22472139--22472307 Score: 170
Period size: 44 Copynumber: 3.7 Consensus size: 47
22472129 TACTTATGTC
* **
22472139 CCAGTGTAAGACATGTCTGGGACATGCATCAGCCATA-TTATGAGTG
1 CCAGTGTAAGACATGTCTAGGACATGCATCAGCCATAGAGATGAGTG
* * *
22472185 CCAGTGTAAGACCATGTCTAGGACATGGCAT-TGGCGTAGAGATGAGTG
1 CCAGTGTAAGA-CATGTCTAGGACAT-GCATCAGCCATAGAGATGAGTG
* *
22472233 CCAGTGTAAGACATGTCTAGGACATGCATC-GAC-T-GAGA-GTTGTG
1 CCAGTGTAAGACATGTCTAGGACATGCATCAGCCATAGAGATG-AGTG
* * *
22472277 CTAGTGTAAGACATGCCTGGGACATGCATCA
1 CCAGTGTAAGACATGTCTAGGACATGCATCA
22472308 ACACATATAT
Statistics
Matches: 106, Mismatches: 11, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
43 1 0.01
44 34 0.32
45 1 0.01
46 17 0.16
47 31 0.29
48 22 0.21
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (47 bp):
CCAGTGTAAGACATGTCTAGGACATGCATCAGCCATAGAGATGAGTG
Found at i:22480245 original size:44 final size:41
Alignment explanation
Indices: 22480173--22480314 Score: 142
Period size: 44 Copynumber: 3.3 Consensus size: 41
22480163 ATATGTGTTA
* *
22480173 TCGTGTAAGACCACGTCTGGGACGTTGGCATTG-ACTTATGATT
1 TCGTGTAAGACCATGTCT-GGACATTGGCATTGTA-TT-TGATT
*
22480216 TACGTGTAAGACCATGTCTAGGACATTGGCATCGTATTTGATT
1 T-CGTGTAAGACCATGTCT-GGACATTGGCATTGTATTTGATT
* * *
22480259 TCATGTAAGACCTTGTCTGGAACAGTGGCATTGGTATTTGATT
1 TCGTGTAAGACCATGTCTGG-ACATTGGCATT-GTATTTGATT
* *
22480302 ACATGTAAGACCA
1 TCGTGTAAGACCA
22480315 CGTTTTGGAT
Statistics
Matches: 85, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
41 2 0.02
42 24 0.28
43 28 0.33
44 30 0.35
45 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (41 bp):
TCGTGTAAGACCATGTCTGGACATTGGCATTGTATTTGATT
Found at i:22480296 original size:43 final size:42
Alignment explanation
Indices: 22480176--22480314 Score: 131
Period size: 43 Copynumber: 3.2 Consensus size: 42
22480166 TGTGTTATCG
* * * *
22480176 TGTAAGACCACGTCTGGGAC-GTTGGCATTG-ACTTATGATTTACG
1 TGTAAGACCATGTCTAGGACAG-TGGCATCGTA-TT-TGATTT-CA
*
22480220 TGTAAGACCATGTCTAGGACATTGGCATCGTATTTGATTTCA
1 TGTAAGACCATGTCTAGGACAGTGGCATCGTATTTGATTTCA
* * *
22480262 TGTAAGACCTTGTCT-GGAACAGTGGCATTGGTATTTGATTACA
1 TGTAAGACCATGTCTAGG-ACAGTGGCA-TCGTATTTGATTTCA
22480305 TGTAAGACCA
1 TGTAAGACCA
22480315 CGTTTTGGAT
Statistics
Matches: 81, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
41 2 0.02
42 23 0.28
43 28 0.35
44 27 0.33
45 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (42 bp):
TGTAAGACCATGTCTAGGACAGTGGCATCGTATTTGATTTCA
Found at i:22484769 original size:15 final size:14
Alignment explanation
Indices: 22484745--22484785 Score: 52
Period size: 15 Copynumber: 3.1 Consensus size: 14
22484735 ATTACAAAAG
22484745 TTATAATATTTTAT
1 TTATAATATTTTAT
22484759 TTATAAATATTTTA-
1 TTAT-AATATTTTAT
22484773 TTA-AAT-TTTTAT
1 TTATAATATTTTAT
22484785 T
1 T
22484786 ACAAAAGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 5 0.20
12 4 0.16
14 7 0.28
15 9 0.36
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
TTATAATATTTTAT
Found at i:22487096 original size:49 final size:50
Alignment explanation
Indices: 22487016--22487262 Score: 318
Period size: 49 Copynumber: 5.0 Consensus size: 50
22487006 ATCTATTGTG
*
22487016 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * ** *
22487066 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCTGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * * **
22487116 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
22487166 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
22487216 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA
22487263 CCTTGTCTGC
Statistics
Matches: 168, Mismatches: 27, Indels: 5
0.84 0.14 0.03
Matches are distributed among these distances:
49 83 0.49
50 48 0.29
51 37 0.22
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:22488876 original size:79 final size:79
Alignment explanation
Indices: 22488745--22488904 Score: 320
Period size: 79 Copynumber: 2.0 Consensus size: 79
22488735 TCTTGATCAA
22488745 CATTCATTATCTCTAAACCCTTGGTACCGGTCGGCAGCATTATTCCAAGGTTACAGCCTCGAGTC
1 CATTCATTATCTCTAAACCCTTGGTACCGGTCGGCAGCATTATTCCAAGGTTACAGCCTCGAGTC
22488810 GTCATCGTCTTCAC
66 GTCATCGTCTTCAC
22488824 CATTCATTATCTCTAAACCCTTGGTACCGGTCGGCAGCATTATTCCAAGGTTACAGCCTCGAGTC
1 CATTCATTATCTCTAAACCCTTGGTACCGGTCGGCAGCATTATTCCAAGGTTACAGCCTCGAGTC
22488889 GTCATCGTCTTCAC
66 GTCATCGTCTTCAC
22488903 CA
1 CA
22488905 GTTAAAAAGC
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 81 1.00
ACGTcount: A:0.22, C:0.31, G:0.17, T:0.30
Consensus pattern (79 bp):
CATTCATTATCTCTAAACCCTTGGTACCGGTCGGCAGCATTATTCCAAGGTTACAGCCTCGAGTC
GTCATCGTCTTCAC
Found at i:22489453 original size:8 final size:8
Alignment explanation
Indices: 22489440--22489464 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
22489430 CTAGATCGGC
22489440 AAAAGCCG
1 AAAAGCCG
22489448 AAAAGCCG
1 AAAAGCCG
22489456 AAAAGCCG
1 AAAAGCCG
22489464 A
1 A
22489465 CATTTGTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.24, G:0.24, T:0.00
Consensus pattern (8 bp):
AAAAGCCG
Found at i:22493626 original size:21 final size:21
Alignment explanation
Indices: 22493582--22493627 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
22493572 TACAGGGCAC
* *
22493582 ACACGCCTGTGTGGTCCAGGG
1 ACACGCCTGTGTGATCCAGAG
22493603 ACACGCCTGTGTGATCCTA-AG
1 ACACGCCTGTGTGATCC-AGAG
22493624 ACAC
1 ACAC
22493628 ACCCGTGTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.22, C:0.30, G:0.28, T:0.20
Consensus pattern (21 bp):
ACACGCCTGTGTGATCCAGAG
Found at i:22503496 original size:48 final size:48
Alignment explanation
Indices: 22503340--22503506 Score: 176
Period size: 48 Copynumber: 3.5 Consensus size: 48
22503330 GAGCCACTGG
* * * *
22503340 AAGACATTTCTAGGACATGCATCAGTCTAGAGATATACAAGCTAGTGT
1 AAGACATGTCTGGGACATGCATCGGCCTAGAGATATACAAGCTAGTGT
* * ** *
22503388 AAGACATGTCTGGGACATGCATCGGCATTGAGA-CGA-GAGCTAGTGT
1 AAGACATGTCTGGGACATGCATCGGCCTAGAGATATACAAGCTAGTGT
* * * *
22503434 AAAATATGTCTGGGACATGCATCGGCCTCGAGATATACAAGCTAGTCT
1 AAGACATGTCTGGGACATGCATCGGCCTAGAGATATACAAGCTAGTGT
**
22503482 AAGACCCGTCTGGGACATGACATCG
1 AAGACATGTCTGGGACATG-CATCG
22503507 ACACTGATAG
Statistics
Matches: 95, Mismatches: 21, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
46 38 0.40
47 2 0.02
48 50 0.53
49 5 0.05
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (48 bp):
AAGACATGTCTGGGACATGCATCGGCCTAGAGATATACAAGCTAGTGT
Found at i:22503584 original size:98 final size:94
Alignment explanation
Indices: 22503328--22503603 Score: 264
Period size: 94 Copynumber: 2.9 Consensus size: 94
22503318 GCCACATATT
* * * * * * * *
22503328 GAGAGCCACTGGAAGACATTTCTAGGACATGCATCAGTCTAGAGATATACAAGCTAGTGTAAGAC
1 GAGAGCCAGTGTAAAACATGTCTAGGACACGCATCGGCCTCGAGATATACAAGCTAGTGTAAGAC
* * *
22503393 ATGTCTGGGACATGCATCGGCATTGAGAC
66 CTGTCTGGGACATGCATCGACACTGAGAC
* * * * *
22503422 GAGAGCTAGTGTAAAATATGTCTGGGACATGCATCGGCCTCGAGATATACAAGCTAGTCTAAGAC
1 GAGAGCCAGTGTAAAACATGTCTAGGACACGCATCGGCCTCGAGATATACAAGCTAGTGTAAGAC
* *
22503487 CCGTCTGGGACATGACATCGACACTGATAGAT
66 CTGTCTGGGACATG-CATCGACACTG--AGAC
* * * * ** *
22503519 GAGAGCCAGTGTAAGACCTGTTTAGGACACGACATCGGCCTCGATATATGGAAGTTAGTGTAAGA
1 GAGAGCCAGTGTAAAACATGTCTAGGACACG-CATCGGCCTCGAGATATACAAGCTAGTGTAAGA
* *
22503584 CCTATCTGAGACATGGCATC
65 CCTGTCTGGGACAT-GCATC
22503604 AACTTTGATG
Statistics
Matches: 146, Mismatches: 31, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
94 66 0.45
95 9 0.06
97 27 0.18
98 43 0.29
99 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (94 bp):
GAGAGCCAGTGTAAAACATGTCTAGGACACGCATCGGCCTCGAGATATACAAGCTAGTGTAAGAC
CTGTCTGGGACATGCATCGACACTGAGAC
Found at i:22503895 original size:28 final size:28
Alignment explanation
Indices: 22503864--22503920 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
22503854 ACCATTTGTG
22503864 TATTTTACATGAAGTATGAAGTGTGAAT
1 TATTTTACATGAAGTATGAAGTGTGAAT
22503892 TATTTTACATGAAGTATGAAGTGTGAAT
1 TATTTTACATGAAGTATGAAGTGTGAAT
22503920 T
1 T
22503921 CAATCAACGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.35, C:0.04, G:0.21, T:0.40
Consensus pattern (28 bp):
TATTTTACATGAAGTATGAAGTGTGAAT
Found at i:22508459 original size:18 final size:18
Alignment explanation
Indices: 22508426--22508461 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
22508416 GAGATGGTTG
*
22508426 GAGTTGATAAAGGACTAC
1 GAGTTGATAAACGACTAC
*
22508444 GAGTTGATAATCGACTAC
1 GAGTTGATAAACGACTAC
22508462 CACCCAGGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (18 bp):
GAGTTGATAAACGACTAC
Found at i:22511944 original size:27 final size:27
Alignment explanation
Indices: 22511894--22511979 Score: 104
Period size: 27 Copynumber: 3.2 Consensus size: 27
22511884 GCGACGAAGT
22511894 CACCAGATACAGATAT-TGTGGCAGAGC
1 CACCAGA-ACAGATATATGTGGCAGAGC
*
22511921 CACTAGAACAGATATATGTGGCAGAGC
1 CACCAGAACAGATATATGTGGCAGAGC
* * *
22511948 CACCAGATCAAATA-ATTGTGGCATAGC
1 CACCAGAACAGATATA-TGTGGCAGAGC
22511975 CACCA
1 CACCA
22511980 AGACGCTTCC
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
26 9 0.17
27 43 0.83
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.19
Consensus pattern (27 bp):
CACCAGAACAGATATATGTGGCAGAGC
Found at i:22514007 original size:14 final size:14
Alignment explanation
Indices: 22513988--22514018 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
22513978 TCTCAATAGA
22513988 TTTATTCAAGATCC
1 TTTATTCAAGATCC
22514002 TTTATTCAAGATCC
1 TTTATTCAAGATCC
22514016 TTT
1 TTT
22514019 TTTTATTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.26, C:0.19, G:0.06, T:0.48
Consensus pattern (14 bp):
TTTATTCAAGATCC
Found at i:22516497 original size:28 final size:27
Alignment explanation
Indices: 22516447--22516560 Score: 79
Period size: 28 Copynumber: 3.9 Consensus size: 27
22516437 CTATTCAGAA
*
22516447 ATCAGTGTTAA-CTGGGCCTTAGCCCAT
1 ATCAGTATTAATCTGGGCC-TAGCCCAT
22516474 ATCAGTATTAATCTGGGCCATAGCCC-T
1 ATCAGTATTAATCTGGGCC-TAGCCCAT
* *
22516501 ATTACAATATCAGAGCATACTGGGCCTAGCCCAT
1 A-T-CAGTAT--TA--AT-CTGGGCCTAGCCCAT
* *
22516535 ATCAGTATCAGTCTGGGCCGTAGCCC
1 ATCAGTATTAATCTGGGCC-TAGCCC
22516561 TATTACAAGT
Statistics
Matches: 70, Mismatches: 7, Indels: 19
0.73 0.07 0.20
Matches are distributed among these distances:
27 19 0.27
28 21 0.30
29 5 0.07
30 1 0.01
31 1 0.01
32 5 0.07
33 9 0.13
34 9 0.13
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (27 bp):
ATCAGTATTAATCTGGGCCTAGCCCAT
Found at i:22516502 original size:62 final size:60
Alignment explanation
Indices: 22516424--22516568 Score: 177
Period size: 61 Copynumber: 2.4 Consensus size: 60
22516414 TCAAGCTTTA
* * *
22516424 CTGGGCCTAAGCCCTATT-CAGAAATCAGTG-TTAACTGGGCCTTAGCCCATATCAGTATTAAT
1 CTGGGCCT-AGCCCTATTACA-AAATCAGAGCAT-ACTGGGCC-TAGCCCATATCAGTATCAAT
* *
22516486 CTGGGCCATAGCCCTATTACAATATCAGAGCATACTGGGCCTAGCCCATATCAGTATCAGT
1 CTGGGCC-TAGCCCTATTACAAAATCAGAGCATACTGGGCCTAGCCCATATCAGTATCAAT
22516547 CTGGGCCGTAGCCCTATTACAA
1 CTGGGCC-TAGCCCTATTACAA
22516569 GTCGAGATAT
Statistics
Matches: 74, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
61 39 0.53
62 31 0.42
63 4 0.05
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (60 bp):
CTGGGCCTAGCCCTATTACAAAATCAGAGCATACTGGGCCTAGCCCATATCAGTATCAAT
Found at i:22516632 original size:19 final size:20
Alignment explanation
Indices: 22516589--22516644 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
22516579 ATTGGGTCTT
22516589 GCCCATATTAACACAGTTGG
1 GCCCATATTAACACAGTTGG
* *
22516609 GCCCATTTTAATACAGTT-G
1 GCCCATATTAACACAGTTGG
* *
22516628 GCCCATAATAAAACAGT
1 GCCCATATTAACACAGT
22516645 CTCATATGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (20 bp):
GCCCATATTAACACAGTTGG
Found at i:22520320 original size:32 final size:32
Alignment explanation
Indices: 22520282--22520345 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
22520272 TTAGATTGAC
*
22520282 TTACATTACTATAGATGAGAAGTAGTAATTAT
1 TTACATTACCATAGATGAGAAGTAGTAATTAT
22520314 TTACATTACCATAGATGAGAAGTAGTAATTAT
1 TTACATTACCATAGATGAGAAGTAGTAATTAT
22520346 AAACATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.36
Consensus pattern (32 bp):
TTACATTACCATAGATGAGAAGTAGTAATTAT
Found at i:22520352 original size:32 final size:32
Alignment explanation
Indices: 22520284--22520352 Score: 111
Period size: 32 Copynumber: 2.2 Consensus size: 32
22520274 AGATTGACTT
* **
22520284 ACATTACTATAGATGAGAAGTAGTAATTATTT
1 ACATTACCATAGATGAGAAGTAGTAATTATAA
22520316 ACATTACCATAGATGAGAAGTAGTAATTATAA
1 ACATTACCATAGATGAGAAGTAGTAATTATAA
22520348 ACATT
1 ACATT
22520353 CTTTGTAATG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.33
Consensus pattern (32 bp):
ACATTACCATAGATGAGAAGTAGTAATTATAA
Found at i:22521525 original size:7 final size:7
Alignment explanation
Indices: 22521515--22521540 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
22521505 TTAATGTATA
22521515 ATAAAAT
1 ATAAAAT
22521522 ATAAAAT
1 ATAAAAT
22521529 ATAAAAT
1 ATAAAAT
22521536 ATAAA
1 ATAAA
22521541 TAAGCAAGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
ATAAAAT
Found at i:22523626 original size:16 final size:17
Alignment explanation
Indices: 22523602--22523647 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
22523592 TTATAATTTA
22523602 TTAAATAAAA-ATTATC
1 TTAAATAAAATATTATC
*
22523618 TTAATTAAAATATTAT-
1 TTAAATAAAATATTATC
*
22523634 TTCAATAAAATATT
1 TTAAATAAAATATT
22523648 TAAATTTCAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
16 21 0.81
17 5 0.19
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (17 bp):
TTAAATAAAATATTATC
Found at i:22524228 original size:22 final size:22
Alignment explanation
Indices: 22524184--22524227 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
22524174 CAAAACTTAA
*
22524184 GTTTATATAATACTTAAATTTT
1 GTTTATATAAGACTTAAATTTT
*
22524206 GTTTATATAAGAGTTATAATTT
1 GTTTATATAAGACTTA-AATTT
22524228 GATCACTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.52
Consensus pattern (22 bp):
GTTTATATAAGACTTAAATTTT
Found at i:22525021 original size:16 final size:17
Alignment explanation
Indices: 22524990--22525022 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
22524980 TTGTAACGCC
22524990 CCAAATTTTCGTAAATT
1 CCAAATTTTCGTAAATT
*
22525007 CCAACTTTT-GTAAATT
1 CCAAATTTTCGTAAATT
22525023 AGTAGCACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.33, C:0.18, G:0.06, T:0.42
Consensus pattern (17 bp):
CCAAATTTTCGTAAATT
Found at i:22526657 original size:46 final size:48
Alignment explanation
Indices: 22526581--22526673 Score: 145
Period size: 46 Copynumber: 2.0 Consensus size: 48
22526571 AGAGGTTGGT
* * *
22526581 GGGTAGGATTCTGATATTTTGTCTGTATTCTAT-T-TGATGGGCTAAG
1 GGGTAGGATTCTGATATTCTATCTGCATTCTATATCTGATGGGCTAAG
22526627 GGGTAGGATTCTGATATTCTATCTGCATTCTATATCTGATGGGCTAA
1 GGGTAGGATTCTGATATTCTATCTGCATTCTATATCTGATGGGCTAA
22526674 AGCCCTAACT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
46 30 0.71
47 1 0.02
48 11 0.26
ACGTcount: A:0.22, C:0.12, G:0.26, T:0.41
Consensus pattern (48 bp):
GGGTAGGATTCTGATATTCTATCTGCATTCTATATCTGATGGGCTAAG
Found at i:22527446 original size:22 final size:21
Alignment explanation
Indices: 22527410--22527465 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
22527400 GTAAGTTTCC
* *
22527410 GAAACTCTGTTAGAAT-TGTCT
1 GAAACTATGTTAGAATAT-ACT
22527431 GAAACTATGATTAGAATATACT
1 GAAACTATG-TTAGAATATACT
*
22527453 GAAACTATTTTAG
1 GAAACTATGTTAG
22527466 GCAGTATATT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 12 0.40
22 17 0.57
23 1 0.03
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (21 bp):
GAAACTATGTTAGAATATACT
Found at i:22576361 original size:42 final size:42
Alignment explanation
Indices: 22576315--22576453 Score: 161
Period size: 42 Copynumber: 3.3 Consensus size: 42
22576305 AGACCGTATT
* * * *
22576315 TGGGATATGGCGTTGATATGAGATTTCGTGTAAGACCACATC
1 TGGGACATGGCATCGATATGAGATTTCGTATAAGACCACATC
* *
22576357 TGGGACATGGCATCGAAATGAGATTTCGTATAAGACCATATC
1 TGGGACATGGCATCGATATGAGATTTCGTATAAGACCACATC
* * * ** * *
22576399 TGAGATATGGCATCGATGTGAGATCCCATATAAGACCACGTC
1 TGGGACATGGCATCGATATGAGATTTCGTATAAGACCACATC
22576441 TGGGACATGGCAT
1 TGGGACATGGCAT
22576454 TGGCATCTTA
Statistics
Matches: 80, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 80 1.00
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (42 bp):
TGGGACATGGCATCGATATGAGATTTCGTATAAGACCACATC
Found at i:22582218 original size:17 final size:17
Alignment explanation
Indices: 22582159--22582222 Score: 56
Period size: 17 Copynumber: 3.8 Consensus size: 17
22582149 ACAATGTGCG
**
22582159 AGCTGTGTTTATATGTG
1 AGCTGTGTTTATATGAA
* * **
22582176 TGTTGTGTTTATATGCT
1 AGCTGTGTTTATATGAA
* *
22582193 ACCTTTGTTTATATGAA
1 AGCTGTGTTTATATGAA
22582210 AGCTGTGTTTATA
1 AGCTGTGTTTATA
22582223 AGAGATCCGT
Statistics
Matches: 35, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
17 35 1.00
ACGTcount: A:0.20, C:0.08, G:0.22, T:0.50
Consensus pattern (17 bp):
AGCTGTGTTTATATGAA
Found at i:22582356 original size:68 final size:68
Alignment explanation
Indices: 22582268--22582394 Score: 193
Period size: 68 Copynumber: 1.9 Consensus size: 68
22582258 ACAAACTGTT
* * **
22582268 TCAATGTGTGGACCGTGTAAATATGTGA-CATGTGACAATGTGTGTGTTGTGTTTATATGTATAC
1 TCAATATGTGGACCGTGTAAATATGCGAGC-TGTGACAATGTCCGTGTTGTGTTTATATGTATAC
22582332 TATG
65 TATG
*
22582336 TCAATATGTGGACTGTGTAAATATGCGAGCTGTGACAATGTCCGTGTTGTGTTTATATG
1 TCAATATGTGGACCGTGTAAATATGCGAGCTGTGACAATGTCCGTGTTGTGTTTATATG
22582395 CAAATTGTCA
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
68 52 0.98
69 1 0.02
ACGTcount: A:0.24, C:0.10, G:0.27, T:0.39
Consensus pattern (68 bp):
TCAATATGTGGACCGTGTAAATATGCGAGCTGTGACAATGTCCGTGTTGTGTTTATATGTATACT
ATG
Found at i:22587566 original size:12 final size:12
Alignment explanation
Indices: 22587549--22587573 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22587539 TGTAAATGAA
22587549 TCATTTCCATTT
1 TCATTTCCATTT
22587561 TCATTTCCATTT
1 TCATTTCCATTT
22587573 T
1 T
22587574 GGAAACCTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.60
Consensus pattern (12 bp):
TCATTTCCATTT
Found at i:22589909 original size:26 final size:26
Alignment explanation
Indices: 22589873--22589922 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
22589863 ACACTAATCA
*
22589873 GTATCGCAGCAAAGCTGCTAGTAACG
1 GTATCGCAGCAAAGCTGCCAGTAACG
22589899 GTATCGCAGCAAAGCTGCCAGTAA
1 GTATCGCAGCAAAGCTGCCAGTAA
22589923 TCAGTATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.32, C:0.24, G:0.26, T:0.18
Consensus pattern (26 bp):
GTATCGCAGCAAAGCTGCCAGTAACG
Found at i:22590115 original size:27 final size:27
Alignment explanation
Indices: 22590062--22590115 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
22590052 ATCATAGCAC
* *
22590062 AAATCAGTCATTTACCCTCGAGGGGTA
1 AAATCAGTCATTTACCCTAGAGAGGTA
*
22590089 AAAT-AGTCATTTTACCCTATAGAGGTA
1 AAATCAGTCA-TTTACCCTAGAGAGGTA
22590116 TTTTGGTCCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30
Consensus pattern (27 bp):
AAATCAGTCATTTACCCTAGAGAGGTA
Found at i:22592338 original size:39 final size:39
Alignment explanation
Indices: 22592295--22592434 Score: 133
Period size: 40 Copynumber: 3.5 Consensus size: 39
22592285 CTCGTTCAAG
* *
22592295 TGCCTTCGGGACATAGCCCGGTTATAGTAACTCATACAA
1 TGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACACAA
* *
22592334 TGCCTTCGGGACTTAACCCGGAATTA-A-TAACTCGCACAAA
1 TGCCTTCGGGACTTAGCCCGG--TTATAGTAACTCACAC-AA
* * * *
22592374 TGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAA
1 TGCCTTCGGGA-CTTAGCCCGGTTATAGTAACTCA-CACAA
*
22592414 AGCCTTCGGGACTTAGCCCGG
1 TGCCTTCGGGACTTAGCCCGG
22592435 ACAGCATTCA
Statistics
Matches: 81, Mismatches: 12, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
38 2 0.02
39 31 0.38
40 39 0.48
41 9 0.11
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
TGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACACAA
Found at i:22593681 original size:40 final size:39
Alignment explanation
Indices: 22593583--22593845 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
22593573 TTTGTATTCA
* * * *
22593583 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
22593622 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
22593661 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
22593701 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
22593741 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
22593781 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
22593822 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
22593846 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:22593805 original size:120 final size:119
Alignment explanation
Indices: 22593583--22593845 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
22593573 TTTGTATTCA
* * *
22593583 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
22593648 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
22593701 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
22593766 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
22593822 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
22593846 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:22593854 original size:41 final size:41
Alignment explanation
Indices: 22593777--22593854 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
22593767 TTTGTATCTC
* * *
22593777 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
22593818 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
22593855 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:22601578 original size:39 final size:40
Alignment explanation
Indices: 22601533--22601664 Score: 194
Period size: 40 Copynumber: 3.3 Consensus size: 40
22601523 GCTCCTCGTT
* * * *
22601533 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
22601573 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
* * *
22601612 CGAATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
22601652 CAAATGCCTTCGG
1 CAAATGCCTTCGG
22601665 ATCTTAGTCT
Statistics
Matches: 84, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
39 35 0.42
40 49 0.58
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
Found at i:22602534 original size:49 final size:49
Alignment explanation
Indices: 22602481--22602577 Score: 185
Period size: 49 Copynumber: 2.0 Consensus size: 49
22602471 ATCAAACATC
22602481 AACCAAGAATGATGCATCCATGGTCAAGTGTCATTTCCATCACATAGCT
1 AACCAAGAATGATGCATCCATGGTCAAGTGTCATTTCCATCACATAGCT
*
22602530 AACCAAGAATGATGCATCCATGGTCAAGTGTCATTTTCATCACATAGC
1 AACCAAGAATGATGCATCCATGGTCAAGTGTCATTTCCATCACATAGC
22602578 AAGATTTAGA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (49 bp):
AACCAAGAATGATGCATCCATGGTCAAGTGTCATTTCCATCACATAGCT
Found at i:22610490 original size:40 final size:40
Alignment explanation
Indices: 22610430--22610613 Score: 173
Period size: 40 Copynumber: 4.6 Consensus size: 40
22610420 TATTCGAATG
* *
22610430 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGACTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
22610470 ATATCCGGACTAAGATCCGAAGGCATTTGTG-TGAGTTG-CT
1 ATATCCGGACTAAGATCCGAAGGCATTTATGCT-AG-TGACT
* * * * * *
22610510 ATATCAGGGCTAAGACCCGAAGGCATTTGTGATAGCGACT
1 ATATCCGGACTAAGATCCGAAGGCATTTATGCTAGTGACT
*
22610550 ATATCCAGG-CTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCC-GGACTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
22610590 ATATCC-GAGCTAAGACCCGAAGGC
1 ATATCCGGA-CTAAGATCCGAAGGC
22610614 CTTGTGCGAG
Statistics
Matches: 120, Mismatches: 14, Indels: 20
0.78 0.09 0.13
Matches are distributed among these distances:
38 1 0.01
39 2 0.02
40 111 0.93
41 6 0.05
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGACTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:22610563 original size:80 final size:80
Alignment explanation
Indices: 22610430--22610613 Score: 223
Period size: 80 Copynumber: 2.3 Consensus size: 80
22610420 TATTCGAATG
* * * *
22610430 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGATAGCGACTATATCCGGACTAAG-TCCCGAAGGC
* *
22610494 ATTTGTG-TGAGTTG-CT
65 ATTTATGCT-AG-TGACC
* *
22610510 ATATCAGGGCTAAGACCCGAAGGCATTTGTGATAGCGACTATATCCAGG-CTAAGTCCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGATAGCGACTATATCC-GGACTAAGTCCCGAAGGC
22610574 ATTTATGCTAGTGACC
65 ATTTATGCTAGTGACC
*
22610590 ATATCCGAGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
22610614 CTTGTGCGAG
Statistics
Matches: 90, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
79 3 0.03
80 84 0.93
81 3 0.03
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGATAGCGACTATATCCGGACTAAGTCCCGAAGGCA
TTTATGCTAGTGACC
Found at i:22615767 original size:12 final size:13
Alignment explanation
Indices: 22615751--22615783 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
22615741 CAAATAATGA
22615751 AAATACTTTTTAC
1 AAATACTTTTTAC
22615764 AATATACTTTTTAC
1 AA-ATACTTTTTAC
22615778 -AATACT
1 AAATACT
22615784 AAGTCTAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 5 0.26
13 3 0.16
14 11 0.58
ACGTcount: A:0.39, C:0.15, G:0.00, T:0.45
Consensus pattern (13 bp):
AAATACTTTTTAC
Found at i:22615772 original size:14 final size:14
Alignment explanation
Indices: 22615753--22615781 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
22615743 AATAATGAAA
22615753 ATACTTTTTACAAT
1 ATACTTTTTACAAT
22615767 ATACTTTTTACAAT
1 ATACTTTTTACAAT
22615781 A
1 A
22615782 CTAAGTCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.14, G:0.00, T:0.48
Consensus pattern (14 bp):
ATACTTTTTACAAT
Found at i:22623152 original size:54 final size:55
Alignment explanation
Indices: 22623089--22623214 Score: 134
Period size: 54 Copynumber: 2.3 Consensus size: 55
22623079 GGCGGACCCC
* * **
22623089 AGCTTGCCAAACAGACTGA-TGAAC-TTCTAGTTCACAACTCAACTAGCGAA-CACT
1 AGCTCGCCAAACAGACTGAGTGAACTTTC-AATTCACAACTCAACT-GAAAAGCACT
* **
22623143 AGCTCGCCAAATAGACT-AGTGAACTTTCAATTTGCAACTCAACTGAAAAGCACT
1 AGCTCGCCAAACAGACTGAGTGAACTTTCAATTCACAACTCAACTGAAAAGCACT
*
22623197 AGATCGCCAAACAGACTG
1 AGCTCGCCAAACAGACTG
22623215 GCGAACCCAC
Statistics
Matches: 59, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
53 4 0.07
54 52 0.88
55 3 0.05
ACGTcount: A:0.37, C:0.26, G:0.16, T:0.21
Consensus pattern (55 bp):
AGCTCGCCAAACAGACTGAGTGAACTTTCAATTCACAACTCAACTGAAAAGCACT
Found at i:22632559 original size:58 final size:58
Alignment explanation
Indices: 22632461--22632576 Score: 214
Period size: 58 Copynumber: 2.0 Consensus size: 58
22632451 CGAGTGGAGG
* *
22632461 TATGATTTATTAATTGTTTTATAGGGTTACTTAATGGATCATCTATTTGGGAAAGGAA
1 TATGATTTATTAATTGTTTTATAGGGTTACTCAATAGATCATCTATTTGGGAAAGGAA
22632519 TATGATTTATTAATTGTTTTATAGGGTTACTCAATAGATCATCTATTTGGGAAAGGAA
1 TATGATTTATTAATTGTTTTATAGGGTTACTCAATAGATCATCTATTTGGGAAAGGAA
22632577 GAACGTGAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.32, C:0.06, G:0.20, T:0.42
Consensus pattern (58 bp):
TATGATTTATTAATTGTTTTATAGGGTTACTCAATAGATCATCTATTTGGGAAAGGAA
Found at i:22641150 original size:42 final size:42
Alignment explanation
Indices: 22641104--22641254 Score: 142
Period size: 42 Copynumber: 3.6 Consensus size: 42
22641094 GTGTTATCAA
* * * *
22641104 GTAAGACCATATATGGGATATGGCATTGATATGAGATTTCAT
1 GTAAGACCACATCTGGGACATGGCATCGATATGAGATTTCAT
* * * * *
22641146 GTAAGACTACGTCTGGGACATGGCATCAAAATGAGATTTCGT
1 GTAAGACCACATCTGGGACATGGCATCGATATGAGATTTCAT
* * * * * **
22641188 ATAAGACCATATCTGGGA-TTGGCACCGATGTGAGATCCCAT
1 GTAAGACCACATCTGGGACATGGCATCGATATGAGATTTCAT
*
22641229 GTAAAACCACATCTGGGACATGGCAT
1 GTAAGACCACATCTGGGACATGGCAT
22641255 TGTCATCTTA
Statistics
Matches: 82, Mismatches: 26, Indels: 2
0.75 0.24 0.02
Matches are distributed among these distances:
41 30 0.37
42 52 0.63
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (42 bp):
GTAAGACCACATCTGGGACATGGCATCGATATGAGATTTCAT
Found at i:22643649 original size:40 final size:40
Alignment explanation
Indices: 22643584--22643660 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
22643574 GATTAAGTTC
*
22643584 GACACTAAGTGTGCGGTTTGAAATAGCTTCGGCTACAAAT
1 GACACTAAGTGTGCGGTTTGAAATAGCTTCGACTACAAAT
*
22643624 GACACTAAGTGTGCGAG-TTGGAATAGCTTCGACTACA
1 GACACTAAGTGTGCG-GTTTGAAATAGCTTCGACTACA
22643661 TGAGGCACTA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
40 33 0.97
41 1 0.03
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (40 bp):
GACACTAAGTGTGCGGTTTGAAATAGCTTCGACTACAAAT
Found at i:22643670 original size:40 final size:39
Alignment explanation
Indices: 22643584--22643695 Score: 111
Period size: 40 Copynumber: 2.8 Consensus size: 39
22643574 GATTAAGTTC
*
22643584 GACACTAAGTGTGCGGTTTGAAATAGCTTCGGCTACAAAT
1 GACACTAAGTGTGCGGTTTGAAATAGCTTCGACTAC-AAT
*
22643624 GACACTAAGTGTGCGAG-TTGGAATAGCTTCGACTAC-AT
1 GACACTAAGTGTGCG-GTTTGAAATAGCTTCGACTACAAT
* * * *
22643662 GAGGCACTAACTGTGTGATATCGAAATAGCTTCG
1 GA--CACTAAGTGTGCGGT-TTGAAATAGCTTCG
22643696 GTTTATTGAA
Statistics
Matches: 60, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
38 4 0.07
40 43 0.72
41 13 0.22
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (39 bp):
GACACTAAGTGTGCGGTTTGAAATAGCTTCGACTACAAT
Found at i:22658314 original size:150 final size:150
Alignment explanation
Indices: 22658043--22658341 Score: 571
Period size: 150 Copynumber: 2.0 Consensus size: 150
22658033 CAATTATTTC
22658043 TGATCGAGATCCTAGATTCACATCTCAGTTTTGGAAAAAGTTGTATGAGGCGTTGGGTACGCGGT
1 TGATCGAGATCCTAGATTCACATCTCAGTTTTGGAAAAAGTTGTATGAGGCGTTGGGTACGCGGT
*
22658108 TGAACTTTAGTACAGCCTTTCATCCTCAGACTGATGGTCAGTCAGAAAGGGTTATTCAGATTCTG
66 TGAACTTTAGTACAGCCTTTCATCCTCAGACAGATGGTCAGTCAGAAAGGGTTATTCAGATTCTG
22658173 GAAGACATGTTGAGGGGATA
131 GAAGACATGTTGAGGGGATA
22658193 TGATCGAGATCCTAGATTCACATCTCAGTTTTGGAAAAAGTTGTATGAGGCGTTGGGTACGCGGT
1 TGATCGAGATCCTAGATTCACATCTCAGTTTTGGAAAAAGTTGTATGAGGCGTTGGGTACGCGGT
*
22658258 TGAACTTTAGTACAGCCTTTCATCCTCAGACAGATGGTCAGTTAGAAAGGGTTATTCAGATTCTG
66 TGAACTTTAGTACAGCCTTTCATCCTCAGACAGATGGTCAGTCAGAAAGGGTTATTCAGATTCTG
*
22658323 GAAGACATTTTGAGGGGAT
131 GAAGACATGTTGAGGGGAT
22658342 GTGTTATCGA
Statistics
Matches: 146, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
150 146 1.00
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (150 bp):
TGATCGAGATCCTAGATTCACATCTCAGTTTTGGAAAAAGTTGTATGAGGCGTTGGGTACGCGGT
TGAACTTTAGTACAGCCTTTCATCCTCAGACAGATGGTCAGTCAGAAAGGGTTATTCAGATTCTG
GAAGACATGTTGAGGGGATA
Found at i:22659759 original size:27 final size:26
Alignment explanation
Indices: 22659715--22659766 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
22659705 AGACTACCGA
*
22659715 TTTACCCCTAGAGGGTAAAATGACTAT
1 TTTACCCCTAGAGCGT-AAATGACTAT
* *
22659742 TTTACCCCTCGTGCGTAAATGACTA
1 TTTACCCCTAGAGCGTAAATGACTA
22659767 ACTTGTGTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (26 bp):
TTTACCCCTAGAGCGTAAATGACTAT
Found at i:22666094 original size:24 final size:26
Alignment explanation
Indices: 22666067--22666126 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
22666057 GGGGAATTTA
*
22666067 AACAATGTTTTG-A-GATAGAATACC
1 AACAATGTATTGCAGGATAGAATACC
*
22666091 AACAGTGTATTGCTAGGATAGAATACC
1 AACAATGTATTGC-AGGATAGAATACC
*
22666118 AACAGTGTA
1 AACAATGTA
22666127 CTGCTAGGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
24 10 0.32
26 1 0.03
27 20 0.65
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (26 bp):
AACAATGTATTGCAGGATAGAATACC
Found at i:22666111 original size:27 final size:27
Alignment explanation
Indices: 22666080--22666134 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
22666070 AATGTTTTGA
*
22666080 GATAGAATACCAACAGTGTATTGCTAG
1 GATAGAATACCAACAGTGTACTGCTAG
22666107 GATAGAATACCAACAGTGTACTGCTAG
1 GATAGAATACCAACAGTGTACTGCTAG
22666134 G
1 G
22666135 TTATAATCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (27 bp):
GATAGAATACCAACAGTGTACTGCTAG
Found at i:22674144 original size:27 final size:27
Alignment explanation
Indices: 22674068--22674172 Score: 102
Period size: 27 Copynumber: 3.9 Consensus size: 27
22674058 AAAATAACCA
*
22674068 AAATACCCTTATAGGGTAAAATGACCG
1 AAATACCCTTATAGGGTAAAATGACTG
** ** *
22674095 AAATACCCCAATAAAGTAGAATGACTG
1 AAATACCCTTATAGGGTAAAATGACTG
* *
22674122 AAATACCCTTGTTGGGTAAAATGACTG
1 AAATACCCTTATAGGGTAAAATGACTG
* ** *
22674149 TAATACCCCGATATGGTAAAATGA
1 AAATACCCTTATAGGGTAAAATGA
22674173 TAGATTTTTT
Statistics
Matches: 59, Mismatches: 19, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
27 59 1.00
ACGTcount: A:0.41, C:0.17, G:0.18, T:0.24
Consensus pattern (27 bp):
AAATACCCTTATAGGGTAAAATGACTG
Found at i:22674172 original size:54 final size:54
Alignment explanation
Indices: 22674068--22674172 Score: 138
Period size: 54 Copynumber: 1.9 Consensus size: 54
22674058 AAAATAACCA
*
22674068 AAATACCCTTATAGGGTAAAATGACCGAAATACCCCAATAAAGTAGAATGACTG
1 AAATACCCTTATAGGGTAAAATGACCGAAATACCCCAATAAAGTAAAATGACTG
* * * * * **
22674122 AAATACCCTTGTTGGGTAAAATGACTGTAATACCCCGATATGGTAAAATGA
1 AAATACCCTTATAGGGTAAAATGACCGAAATACCCCAATAAAGTAAAATGA
22674173 TAGATTTTTT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 43 1.00
ACGTcount: A:0.41, C:0.17, G:0.18, T:0.24
Consensus pattern (54 bp):
AAATACCCTTATAGGGTAAAATGACCGAAATACCCCAATAAAGTAAAATGACTG
Found at i:22674251 original size:23 final size:23
Alignment explanation
Indices: 22674208--22674257 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
22674198 TTGTATTTGA
22674208 GCATGCCATGTTATATGTATGTT
1 GCATGCCATGTTATATGTATGTT
22674231 GCAT-CCATGTATGATAT-TATGTT
1 GCATGCCATGT-T-ATATGTATGTT
22674254 GCAT
1 GCAT
22674258 TGCATGGGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.24
23 15 0.60
24 4 0.16
ACGTcount: A:0.24, C:0.14, G:0.20, T:0.42
Consensus pattern (23 bp):
GCATGCCATGTTATATGTATGTT
Found at i:22682492 original size:24 final size:25
Alignment explanation
Indices: 22682451--22682507 Score: 73
Period size: 24 Copynumber: 2.3 Consensus size: 25
22682441 GGAAGCTCAT
*
22682451 AAGAGCCATAATTAGGAAGT-TCACA
1 AAGAACCATAATTAGGAA-TCTCACA
*
22682476 AAGAACCAT-ATTGGGAATCTCACA
1 AAGAACCATAATTAGGAATCTCACA
22682500 AAGAACCA
1 AAGAACCA
22682508 AGAAAGCTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 1 0.03
24 20 0.69
25 8 0.28
ACGTcount: A:0.46, C:0.19, G:0.18, T:0.18
Consensus pattern (25 bp):
AAGAACCATAATTAGGAATCTCACA
Found at i:22686047 original size:22 final size:23
Alignment explanation
Indices: 22686004--22686047 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
22685994 TATTGATCAA
* *
22686004 ATCACAACATATAGTATACATTT
1 ATCACAACATAAAGCATACATTT
*
22686027 ATCA-AACATAAAGCATTCATT
1 ATCACAACATAAAGCATACATT
22686048 CTCATAAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.45, C:0.18, G:0.05, T:0.32
Consensus pattern (23 bp):
ATCACAACATAAAGCATACATTT
Found at i:22687450 original size:28 final size:28
Alignment explanation
Indices: 22687419--22687488 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
22687409 TGCCTCGCAA
22687419 ACTAAGTGCCATACTCGATATCTCACAC
1 ACTAAGTGCCATACTCGATATCTCACAC
* * *
22687447 ACTAAGTGCCACATTCGATATCTCGCAC
1 ACTAAGTGCCATACTCGATATCTCACAC
22687475 ACTAAGTGCCATAC
1 ACTAAGTGCCATAC
22687489 ATAGCCGAAG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.31, C:0.31, G:0.13, T:0.24
Consensus pattern (28 bp):
ACTAAGTGCCATACTCGATATCTCACAC
Found at i:22687524 original size:40 final size:39
Alignment explanation
Indices: 22687469--22687575 Score: 133
Period size: 40 Copynumber: 2.7 Consensus size: 39
22687459 ATTCGATATC
* *
22687469 TCGCACACTAAGTGCCATACATAGCCGAAGTTATCTCAAA
1 TCGCACACTAAGTGCCATAAATAGCCGAAGCTATCTC-AA
* * * *
22687509 TCGCACACTAAGTGCCATATATAGCCAAAGCTATGTCGA
1 TCGCACACTAAGTGCCATAAATAGCCGAAGCTATCTCAA
* *
22687548 TCACACACTAAGTGCCACAAATAGCCGA
1 TCGCACACTAAGTGCCATAAATAGCCGA
22687576 TTTTTCATCA
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
39 25 0.43
40 33 0.57
ACGTcount: A:0.36, C:0.28, G:0.16, T:0.21
Consensus pattern (39 bp):
TCGCACACTAAGTGCCATAAATAGCCGAAGCTATCTCAA
Found at i:22694096 original size:42 final size:42
Alignment explanation
Indices: 22694049--22694140 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
22694039 TGGCCCATAG
* ** *
22694049 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
22694091 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
22694133 GCCCATTT
1 GCCCATTT
22694141 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:22694356 original size:26 final size:26
Alignment explanation
Indices: 22694285--22694407 Score: 196
Period size: 26 Copynumber: 4.8 Consensus size: 26
22694275 CCTCTTTAAT
**
22694285 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
22694310 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
**
22694335 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
22694361 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
22694387 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
22694408 GCACTTCCTC
Statistics
Matches: 91, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
25 33 0.36
26 58 0.64
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.26
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Done.