Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 72 of 318
Found at i:20904591 original size:17 final size:18
Alignment explanation
Indices: 20904571--20904614 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
20904561 TATTAAATTA
*
20904571 TATAAGATATTAT-TTAT
1 TATAAAATATTATCTTAT
20904588 TATAAAATATTATCTTAT
1 TATAAAATATTATCTTAT
20904606 TATAAAATA
1 TATAAAATA
20904615 AAATTCAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 12 0.48
18 13 0.52
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (18 bp):
TATAAAATATTATCTTAT
Found at i:20905762 original size:51 final size:51
Alignment explanation
Indices: 20905705--20905808 Score: 208
Period size: 51 Copynumber: 2.0 Consensus size: 51
20905695 TTAGTCTTTC
20905705 AATGTTTGTTTAATAATGATTTATGAGGAATTAGGAAAACAAAATGGAGCA
1 AATGTTTGTTTAATAATGATTTATGAGGAATTAGGAAAACAAAATGGAGCA
20905756 AATGTTTGTTTAATAATGATTTATGAGGAATTAGGAAAACAAAATGGAGCA
1 AATGTTTGTTTAATAATGATTTATGAGGAATTAGGAAAACAAAATGGAGCA
20905807 AA
1 AA
20905809 AATCTTATAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.44, C:0.04, G:0.21, T:0.31
Consensus pattern (51 bp):
AATGTTTGTTTAATAATGATTTATGAGGAATTAGGAAAACAAAATGGAGCA
Found at i:20907882 original size:1 final size:1
Alignment explanation
Indices: 20907842--20907866 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
20907832 ATTCTTCTTC
20907842 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
20907867 GTCTTCACTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:20910474 original size:38 final size:38
Alignment explanation
Indices: 20910423--20910499 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
20910413 TTGCTCAGAA
20910423 TAATTGTTGTTTAAGAATAAGTATCTTAAGAACACGAC
1 TAATTGTTGTTTAAGAATAAGTATCTTAAGAACACGAC
* *
20910461 TAATTGTTGTTTAAGAATAAGTATGTTAAGAACATGAC
1 TAATTGTTGTTTAAGAATAAGTATCTTAAGAACACGAC
20910499 T
1 T
20910500 TTAGTTGAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.39, C:0.08, G:0.17, T:0.36
Consensus pattern (38 bp):
TAATTGTTGTTTAAGAATAAGTATCTTAAGAACACGAC
Found at i:20910651 original size:32 final size:31
Alignment explanation
Indices: 20910585--20910655 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 31
20910575 CAATTAATTT
* *
20910585 TTTAGAATAATGACGTTTTTGGAATAGTTATA
1 TTTAGAATAAT-ACATTTTTGGAATACTTATA
*
20910617 TTTAGAATAAT-CATTATTTGGAATAACTTGTA
1 TTTAGAATAATACATT-TTTGGAAT-ACTTATA
20910649 TTTAGAA
1 TTTAGAA
20910656 CAATTGTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 3 0.09
31 8 0.24
32 23 0.68
ACGTcount: A:0.37, C:0.04, G:0.15, T:0.44
Consensus pattern (31 bp):
TTTAGAATAATACATTTTTGGAATACTTATA
Found at i:20912881 original size:28 final size:27
Alignment explanation
Indices: 20912824--20912875 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
20912814 TACAAATGAT
*
20912824 CCAAAGAGAATATTCAAAGTAGCATTAA
1 CCAAAGAGAACATTCAAAG-AGCATTAA
*
20912852 CCAAAGATAACATTCAAA-AGCATT
1 CCAAAGAGAACATTCAAAGAGCATT
20912876 GCAACCTAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 6 0.27
28 16 0.73
ACGTcount: A:0.50, C:0.17, G:0.12, T:0.21
Consensus pattern (27 bp):
CCAAAGAGAACATTCAAAGAGCATTAA
Found at i:20916595 original size:75 final size:75
Alignment explanation
Indices: 20916505--20916657 Score: 306
Period size: 75 Copynumber: 2.0 Consensus size: 75
20916495 GGGATTTCGA
20916505 ATGTCGAATCATAGTCAAATCACTACCGATCATATCCATAATCTCATATTCATAAGTTATGCAAT
1 ATGTCGAATCATAGTCAAATCACTACCGATCATATCCATAATCTCATATTCATAAGTTATGCAAT
20916570 ATCAAAGCAT
66 ATCAAAGCAT
20916580 ATGTCGAATCATAGTCAAATCACTACCGATCATATCCATAATCTCATATTCATAAGTTATGCAAT
1 ATGTCGAATCATAGTCAAATCACTACCGATCATATCCATAATCTCATATTCATAAGTTATGCAAT
20916645 ATCAAAGCAT
66 ATCAAAGCAT
20916655 ATG
1 ATG
20916658 AAATAAATTT
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 78 1.00
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.31
Consensus pattern (75 bp):
ATGTCGAATCATAGTCAAATCACTACCGATCATATCCATAATCTCATATTCATAAGTTATGCAAT
ATCAAAGCAT
Found at i:20916627 original size:35 final size:35
Alignment explanation
Indices: 20916513--20916627 Score: 81
Period size: 35 Copynumber: 3.1 Consensus size: 35
20916503 GAATGTCGAA
20916513 TCATAGTCAAATCACTACCGATCATATCCATAATC
1 TCATAGTCAAATCACTACCGATCATATCCATAATC
* * * ** ** *
20916548 TCATATTCATAAGTTA-TGCAATATCA-AAGCATATGTC
1 TCATAGTCA-AA-TCACTAC-CGATCATATCCATA-ATC
20916585 GAATCATAGTCAAATCACTACCGATCATATCCATAATC
1 ---TCATAGTCAAATCACTACCGATCATATCCATAATC
20916623 TCATA
1 TCATA
20916628 TTCATAAGTT
Statistics
Matches: 55, Mismatches: 16, Indels: 18
0.62 0.18 0.20
Matches are distributed among these distances:
35 13 0.24
36 9 0.16
37 8 0.15
38 8 0.15
39 9 0.16
40 8 0.15
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.30
Consensus pattern (35 bp):
TCATAGTCAAATCACTACCGATCATATCCATAATC
Found at i:20919485 original size:28 final size:28
Alignment explanation
Indices: 20919414--20919487 Score: 114
Period size: 28 Copynumber: 2.6 Consensus size: 28
20919404 ATAATAAGCC
* *
20919414 CGCACACTTAGTGCT-TAATAGTCGAACT
1 CGCACACTTAGTGCTAT-ATAATCAAACT
20919442 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
20919470 CGCACACTTAGTGCTATA
1 CGCACACTTAGTGCTATA
20919488 CAATTTGAAC
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
28 42 0.98
29 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:20927466 original size:28 final size:29
Alignment explanation
Indices: 20927434--20927532 Score: 105
Period size: 28 Copynumber: 3.5 Consensus size: 29
20927424 ATAATAAGCC
* *
20927434 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATAGAACT
* *
20927462 CGCACACTTAGTGC-TATATAATAAAACT
1 CGCACACTTAGTGCTTACATAATAGAACT
* * *
20927490 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATAGAACT
20927519 CGCACACTTAGTGC
1 CGCACACTTAGTGC
20927533 CAATCTCATG
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
27 2 0.03
28 36 0.60
29 19 0.32
30 3 0.05
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATAGAACT
Found at i:20927676 original size:28 final size:29
Alignment explanation
Indices: 20927644--20927742 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
20927634 ATAATAAGCC
*
20927644 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
20927672 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
20927700 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
20927729 CGCACACTTAGTGC
1 CGCACACTTAGTGC
20927743 CAATCTCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:20927739 original size:210 final size:210
Alignment explanation
Indices: 20927377--20927785 Score: 791
Period size: 210 Copynumber: 1.9 Consensus size: 210
20927367 CCATGATTGA
20927377 CTCGATAAGGCCGCACACTTAGAGCATGTATATTTATTAGAGAATGTATAATAAGCCCGCACACT
1 CTCGATAAGGCCGCACACTTAGAGCATGTATATTTATTAGAGAATGTATAATAAGCCCGCACACT
20927442 TAGTGCTTAATAGTCGAACTCGCACACTTAGTGCTATATAATAAAACTCGCACACTTAGTGCTAT
66 TAGTGCTTAATAGTCGAACTCGCACACTTAGTGCTATATAATAAAACTCGCACACTTAGTGCTAT
20927507 ACAATTTGAACCCGCACACTTAGTGCCAATCTCATGATCATGAATGTTTACACCCACACACTTAG
131 ACAATTTGAACCCGCACACTTAGTGCCAATCTCATGATCATGAATGTTTACACCCACACACTTAG
20927572 TGCCAATCTCATGAT
196 TGCCAATCTCATGAT
20927587 CTCGATAAGGCCGCACACTTAGAGCATGTATATTTATTAGAGAATGTATAATAAGCCCGCACACT
1 CTCGATAAGGCCGCACACTTAGAGCATGTATATTTATTAGAGAATGTATAATAAGCCCGCACACT
*
20927652 TAGTGCTTAATAGTCGAACTCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTAT
66 TAGTGCTTAATAGTCGAACTCGCACACTTAGTGCTATATAATAAAACTCGCACACTTAGTGCTAT
* *
20927717 ACAATTTGAACCCGCACACTTAGTGCCAATCTCATGATCATGAATGTTTACACCCGCACTCTTAG
131 ACAATTTGAACCCGCACACTTAGTGCCAATCTCATGATCATGAATGTTTACACCCACACACTTAG
20927782 TGCC
196 TGCC
20927786 GAAACCAACA
Statistics
Matches: 196, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
210 196 1.00
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.28
Consensus pattern (210 bp):
CTCGATAAGGCCGCACACTTAGAGCATGTATATTTATTAGAGAATGTATAATAAGCCCGCACACT
TAGTGCTTAATAGTCGAACTCGCACACTTAGTGCTATATAATAAAACTCGCACACTTAGTGCTAT
ACAATTTGAACCCGCACACTTAGTGCCAATCTCATGATCATGAATGTTTACACCCACACACTTAG
TGCCAATCTCATGAT
Found at i:20933913 original size:44 final size:42
Alignment explanation
Indices: 20933860--20933963 Score: 122
Period size: 41 Copynumber: 2.5 Consensus size: 42
20933850 GAAGCTGGAA
* *
20933860 CGATCTCGCACACTTAGTGCCATCTCAAATAACCGAAGTTATCT
1 CGATATCGCACACTTAGTG-CA-CTCAAATAACCGAAGCTATCT
* * *
20933904 CGATATCGCACACTTAGTG-ACTCATATAGCCGAAGCTATTT
1 CGATATCGCACACTTAGTGCACTCAAATAACCGAAGCTATCT
*
20933945 C-ATTTCGCACACTTAGTGC
1 CGATATCGCACACTTAGTGC
20933964 TATTTATAGT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
40 16 0.30
41 18 0.34
42 1 0.02
44 18 0.34
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (42 bp):
CGATATCGCACACTTAGTGCACTCAAATAACCGAAGCTATCT
Found at i:20933962 original size:40 final size:40
Alignment explanation
Indices: 20933865--20934002 Score: 136
Period size: 40 Copynumber: 3.4 Consensus size: 40
20933855 TGGAACGATC
* * * *
20933865 TCGCACACTTAGTGCCATCTCAAATAACCGAAGTTATCTCGATA
1 TCGCACACTTAGTG--A-CTCATATAGCCGAAGCTATTTC-ATA
*
20933909 TCGCACACTTAGTGACTCATATAGCCGAAGCTATTTCATT
1 TCGCACACTTAGTGACTCATATAGCCGAAGCTATTTCATA
* *
20933949 TCGCACACTTAGTG-CT-ATTTATAGTCGAAGCTATTTCAAA
1 TCGCACACTTAGTGACTCA--TATAGCCGAAGCTATTTCATA
*
20933989 TCACACACTTAGTG
1 TCGCACACTTAGTG
20934003 CCAAACATAG
Statistics
Matches: 83, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
38 1 0.01
39 2 0.02
40 47 0.57
41 18 0.22
42 1 0.01
44 14 0.17
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (40 bp):
TCGCACACTTAGTGACTCATATAGCCGAAGCTATTTCATA
Found at i:20934013 original size:40 final size:40
Alignment explanation
Indices: 20933929--20934013 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
20933919 AGTGACTCAT
* ** * * ***
20933929 ATAGCCGAAGCTATTTCATTTCGCACACTTAGTGCTATTT
1 ATAGTCGAAGCTATTTCAAATCACACACTTAGTGCCAAAC
20933969 ATAGTCGAAGCTATTTCAAATCACACACTTAGTGCCAAAC
1 ATAGTCGAAGCTATTTCAAATCACACACTTAGTGCCAAAC
20934009 ATAGT
1 ATAGT
20934014 TGATTTATCA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (40 bp):
ATAGTCGAAGCTATTTCAAATCACACACTTAGTGCCAAAC
Found at i:20935021 original size:21 final size:21
Alignment explanation
Indices: 20934980--20935021 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
20934970 GATGTTTTAA
* *
20934980 CATGTTTTGAGCTTGTTTAAT
1 CATGTTTTGAGCTGGTATAAT
20935001 CATGTTTTGAG-TAGGTATAAT
1 CATGTTTTGAGCT-GGTATAAT
20935022 TGATGGTAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.24, C:0.07, G:0.21, T:0.48
Consensus pattern (21 bp):
CATGTTTTGAGCTGGTATAAT
Found at i:20939174 original size:28 final size:28
Alignment explanation
Indices: 20939137--20939193 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
20939127 TATTTTGATG
20939137 TTTGATGAGAGAAAATGCATGTTGTTGT
1 TTTGATGAGAGAAAATGCATGTTGTTGT
20939165 TTTGATGAGAGAAAATGCATGTTGTTGT
1 TTTGATGAGAGAAAATGCATGTTGTTGT
20939193 T
1 T
20939194 AGATAAACAA
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:0.28, C:0.04, G:0.28, T:0.40
Consensus pattern (28 bp):
TTTGATGAGAGAAAATGCATGTTGTTGT
Found at i:20947999 original size:15 final size:15
Alignment explanation
Indices: 20947958--20948001 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 15
20947948 TGTGTTTTTG
*
20947958 GATTAAATTGAATGA
1 GATTAATTTGAATGA
* *
20947973 AAATATATTTGAATGA
1 GATTA-ATTTGAATGA
20947989 GATTAATTTGAAT
1 GATTAATTTGAAT
20948002 ATGTTTAGAT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
15 11 0.48
16 12 0.52
ACGTcount: A:0.45, C:0.00, G:0.16, T:0.39
Consensus pattern (15 bp):
GATTAATTTGAATGA
Found at i:20949783 original size:30 final size:30
Alignment explanation
Indices: 20949747--20949803 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
20949737 AATCCGAGCC
20949747 TAGGGGCAAAAATGTAAATATGCAAAAGTT
1 TAGGGGCAAAAATGTAAATATGCAAAAGTT
* * *
20949777 TAGGGGCAAAATTGTAATTTTGCAAAA
1 TAGGGGCAAAAATGTAAATATGCAAAA
20949804 TTTGAGTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.26
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAAATATGCAAAAGTT
Found at i:20950273 original size:46 final size:45
Alignment explanation
Indices: 20950223--20950396 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 45
20950213 TGGTTGAGCA
20950223 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *
20950269 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT-TATG-GA-T-GCGAAG
20950315 TCCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
20950360 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
20950397 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 1 0.01
43 3 0.03
44 1 0.01
45 30 0.28
46 68 0.63
47 1 0.01
48 3 0.03
49 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:20950376 original size:91 final size:92
Alignment explanation
Indices: 20950220--20950389 Score: 306
Period size: 91 Copynumber: 1.9 Consensus size: 92
20950210 GGATGGTTGA
* *
20950220 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
20950285 TGAGTCCGAGTTCGTGAATGTAACTAG
66 TGAGTCCGAGTTCGTGAATGTAACTAG
*
20950312 GCATCCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
20950376 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
20950390 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
91 51 0.68
92 24 0.32
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAATGTAACTAG
Found at i:20957801 original size:46 final size:46
Alignment explanation
Indices: 20957751--20957926 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
20957741 TGGTTGAGCA
20957751 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
20957797 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
20957842 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
20957890 CCCGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
20957927 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.57
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:20957907 original size:93 final size:93
Alignment explanation
Indices: 20957748--20957919 Score: 326
Period size: 93 Copynumber: 1.8 Consensus size: 93
20957738 GGATGGTTGA
* *
20957748 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCATTGAGT
20957813 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
20957841 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCATTGAGT
20957906 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
20957920 CTTATGGGCG
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 77 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCATTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:20960279 original size:3 final size:3
Alignment explanation
Indices: 20960271--20960335 Score: 62
Period size: 3 Copynumber: 21.3 Consensus size: 3
20960261 GTGCGTGGGT
** *
20960271 GAA GAA GAA GAAA GGG GAA GGA GAA G-A GAA -AGA GAA GAGA GAA GAA
1 GAA GAA GAA G-AA GAA GAA GAA GAA GAA GAA GA-A GAA GA-A GAA GAA
20960317 GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA G
20960336 GAGGAGGAGG
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
2 3 0.06
3 41 0.80
4 7 0.14
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:20960379 original size:6 final size:6
Alignment explanation
Indices: 20960368--20960398 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
20960358 TGAGGGAAGA
*
20960368 AAAAAG AAAAAG AAAAAG AGAAAG AAAAAG A
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG A
20960399 GAAGGAGAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:20960399 original size:12 final size:12
Alignment explanation
Indices: 20960368--20960434 Score: 64
Period size: 12 Copynumber: 5.4 Consensus size: 12
20960358 TGAGGGAAGA
*
20960368 AAAAAGAAAAAG
1 AAAAAGAGAAAG
20960380 AAAAAGAGAAAG
1 AAAAAGAGAAAG
20960392 AAAAAGAGAAGGAG
1 AAAAAGAGAA--AG
*
20960406 AAGAAGA-AGAAG
1 AAAAAGAGA-AAG
* *
20960418 AGAAAGAGAAGG
1 AAAAAGAGAAAG
20960430 AAAAA
1 AAAAA
20960435 AAAGGTAATA
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
12 34 0.76
13 2 0.04
14 9 0.20
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
AAAAAGAGAAAG
Found at i:20960401 original size:26 final size:26
Alignment explanation
Indices: 20960363--20960427 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
20960353 ATTGGTGAGG
20960363 GAAGAAAAA-AGAAAAAGAAAAAG-A
1 GAAGAAAAAGAGAAAAAGAAAAAGAA
** *
20960387 GAAAGAAAAAGAGAAGGAGAAGAAGAA
1 G-AAGAAAAAGAGAAAAAGAAAAAGAA
*
20960414 GAAGAGAAAGAGAA
1 GAAGAAAAAGAGAA
20960428 GGAAAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
24 1 0.03
25 8 0.24
26 23 0.68
27 2 0.06
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (26 bp):
GAAGAAAAAGAGAAAAAGAAAAAGAA
Found at i:20961371 original size:142 final size:143
Alignment explanation
Indices: 20960869--20961603 Score: 927
Period size: 142 Copynumber: 5.2 Consensus size: 143
20960859 AATATTTTAA
* *
20960869 AAAATCCGAAAAT-AAAAT-AAAAAAGGCCAAGATCAGAGGTTTTTTACTAAATTAATATAAATA
1 AAAATCCGAAAATAAAAATAAAAAAAGGCCAAAATCAGA-GTTTTTTACTAAATTAATATAAAAA
* * *
20960932 TACTAAAATAATATATATGAAACATTATGTACTAAAATAATA-AAAAAATAAAATACAAAAATAA
65 AACTAAAATAATACAT-TGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAA
**
20960996 TATATTTTGGAAAAT
129 TATATTTTAAAAAAT
* * * * **
20961011 AAAATCCAAAAAT-AAAATAAAAACAAACGGCTAAAATAAAAAATTTTTACTAAATTAATATAAA
1 AAAATCCGAAAATAAAAAT-AAAA-AAA-GGCCAAAATCAGAGTTTTTTACTAAATTAATATAAA
* * *
20961075 AAAACCAAAATAATACATTTGAAATATTATTTACTAAAATAATATAAAAAATAAAATACGAAAAT
63 AAAACTAAAATAATACA-TTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAAT
* *
20961140 AGTATATTTT--TAAA-
127 AATATATTTTAAAAAAT
* * * *
20961154 AAAACCCGAAAA-CAAAATAAAAAAAAGGCCAAAATCACAGATTTTTACTAAATTAATATAAAAA
1 AAAATCCGAAAATAAAAAT-AAAAAAAGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAA
* * * *
20961218 AACAAAAATAATACA-AGGAACATTATGTACTAAAATAATATAAAAAACAAAATACGAAAATAAT
65 AACTAAAATAATACATTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAAT
*
20961282 ATATCTTAAAAAAT
130 ATATTTTAAAAAAT
* * * * *
20961296 AAAATCCAAAAATAAAAATTAAAAAGGGCCAAAATCAGGGTTTTTTTCTAAATTAATATAAAAAA
1 AAAATCCGAAAATAAAAATAAAAAAAGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAA
*
20961361 ACTAAAATAATACA-TGAAACATTATGTACTAAAATAATATAAAAAATAAAATATGAAAATAATA
66 ACTAAAATAATACATTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAATA
*
20961425 AATTTTAAAAAAT
131 TATTTTAAAAAAT
* * *
20961438 AAAATCTGAAAATAAAAATAAAAAAAGGCCAAAATCAGAGTTTTTTTCTAAATTAATA-GAAAAA
1 AAAATCCGAAAATAAAAATAAAAAAAGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAA
* *
20961502 ACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATCAAAGAATAAAATACGAAAATAG
66 ACTAAAATAATACA-TTGAAACATTATGTACTAAAATAATAT-AAAAAATAAAATACGAAAATAA
*
20961567 TATATTTTAAAAATTT
129 TATATTTTAAAAA-AT
*
20961583 AAAATCTGAAAAT-AAAATAAA
1 AAAATCCGAAAATAAAAATAAA
20961604 TACCAAAATA
Statistics
Matches: 520, Mismatches: 58, Indels: 28
0.86 0.10 0.05
Matches are distributed among these distances:
139 49 0.09
141 70 0.13
142 193 0.37
143 51 0.10
144 45 0.09
145 74 0.14
146 38 0.07
ACGTcount: A:0.59, C:0.08, G:0.06, T:0.27
Consensus pattern (143 bp):
AAAATCCGAAAATAAAAATAAAAAAAGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAA
ACTAAAATAATACATTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAATA
TATTTTAAAAAAT
Found at i:20961419 original size:14 final size:14
Alignment explanation
Indices: 20961396--20961462 Score: 66
Period size: 13 Copynumber: 4.8 Consensus size: 14
20961386 GTACTAAAAT
20961396 AATATAAAAAATAA
1 AATATAAAAAATAA
20961410 AATATGAAAATAATAA
1 AATAT-AAAA-AATAA
* *
20961426 ATTTTAAAAAATAA
1 AATATAAAAAATAA
* *
20961440 AATCT-GAAAATAA
1 AATATAAAAAATAA
20961453 AA-ATAAAAAA
1 AATATAAAAAA
20961463 AGGCCAAAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
12 1 0.02
13 13 0.30
14 13 0.30
15 8 0.19
16 8 0.19
ACGTcount: A:0.72, C:0.01, G:0.03, T:0.24
Consensus pattern (14 bp):
AATATAAAAAATAA
Found at i:20961436 original size:30 final size:29
Alignment explanation
Indices: 20961400--20961456 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 29
20961390 TAAAATAATA
20961400 TAAAAAATAAAATATGAAAATAATAAATTT
1 TAAAAAATAAAATATGAAAATAA-AAATTT
*
20961430 TAAAAAATAAAATCTGAAAATAAAAAT
1 TAAAAAATAAAATATGAAAATAAAAAT
20961457 AAAAAAAGGC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 4 0.15
30 22 0.85
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (29 bp):
TAAAAAATAAAATATGAAAATAAAAATTT
Found at i:20961458 original size:285 final size:284
Alignment explanation
Indices: 20960867--20961603 Score: 957
Period size: 285 Copynumber: 2.6 Consensus size: 284
20960857 AAAATATTTT
* *
20960867 AAAAAATCCGAAAATAAAAT-AAAAAAGGCCAAGATCAGAGGTTTTTTACTAAATTAATATAAAT
1 AAAAAATCCGAAAATAAAATAAAAAAAGGCCAAAATCAGA-GTTTTTTACTAAATTAATATAAAA
* * *
20960931 ATACTAAAATAATATATATGAAACATTATGTACTAAAATAATA-AAAAAATAAAATACAAAAATA
65 AAACTAAAATAATACATA-GAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATA
** *
20960995 ATATATTTTGGAAAATAAAATCCAAAAATAAAATAAAAACAAACGGCTAAAATAAAAAATTTTTA
129 ATATATTTTAAAAAATAAAATCCAAAAATAAAATAAAAACAAACGGCCAAAATAAAAAATTTTTA
* *
20961060 CTAAATTAATATAAAAAAACCAAAATAATACATTTGAAATATTATTTACTAAAATAATATAAAAA
194 CTAAATTAATATAAAAAAACCAAAATAATACA-TTGAAACATTATGTACTAAAATAATATAAAAA
* * *
20961125 ATAAAATACGAAAATAGTATATTTTTA
258 ATAAAATACGAAAATAATAAATTTTAA
* * * *
20961152 AAAAAACCCGAAAACAAAATAAAAAAAAGGCCAAAATCACAGATTTTTACTAAATTAATATAAAA
1 AAAAAATCCGAAAATAAAAT-AAAAAAAGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAA
* * *
20961217 AAACAAAAATAATACA-AGGAACATTATGTACTAAAATAATATAAAAAACAAAATACGAAAATAA
65 AAACTAAAATAATACATAGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAA
* ** * * **** *
20961281 TATATCTTAAAAAATAAAATCCAAAAATAAAA-ATTAA-AAAGGGCCAAAATCAGGGTTTTTTTC
130 TATATTTTAAAAAATAAAATCCAAAAATAAAATAAAAACAAACGGCCAAAATAAAAAATTTTTAC
*
20961344 TAAATTAATATAAAAAAACTAAAATAATACA-TGAAACATTATGTACTAAAATAATATAAAAAAT
195 TAAATTAATATAAAAAAACCAAAATAATACATTGAAACATTATGTACTAAAATAATATAAAAAAT
*
20961408 AAAATATGAAAATAATAAATTTTAAAA
260 AAAATACGAAAATAATAAATTTT--AA
* * *
20961435 AATAAAATCTGAAAATAAAAATAAAAAAAGGCCAAAATCAGAGTTTTTTTCTAAATTAATA-GAA
1 AA-AAAATCCGAAAAT-AAAATAAAAAAAGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAA
* *
20961499 AAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATCAAAGAATAAAATACGAAAA
64 AAAACTAAAATAATACA-TAGAAACATTATGTACTAAAATAATAT-AAAAAATAAAATACGAAAA
* * **
20961564 TAGTATATTTTAAAAATTTAAAATCTGAAAATAAAATAAA
127 TAATATATTTTAAAAA-ATAAAATCCAAAAATAAAATAAA
20961604 TACCAAAATA
Statistics
Matches: 389, Mismatches: 51, Indels: 21
0.84 0.11 0.05
Matches are distributed among these distances:
281 51 0.13
283 69 0.18
284 72 0.19
285 97 0.25
286 66 0.17
287 33 0.08
288 1 0.00
ACGTcount: A:0.59, C:0.08, G:0.06, T:0.26
Consensus pattern (284 bp):
AAAAAATCCGAAAATAAAATAAAAAAAGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAA
AACTAAAATAATACATAGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAAT
ATATTTTAAAAAATAAAATCCAAAAATAAAATAAAAACAAACGGCCAAAATAAAAAATTTTTACT
AAATTAATATAAAAAAACCAAAATAATACATTGAAACATTATGTACTAAAATAATATAAAAAATA
AAATACGAAAATAATAAATTTTAA
Found at i:20967862 original size:29 final size:26
Alignment explanation
Indices: 20967797--20967862 Score: 60
Period size: 29 Copynumber: 2.3 Consensus size: 26
20967787 TTACCTTTTC
**
20967797 TTTTTTTTCTTCTTCTTCTCCTTTCT
1 TTTTTTTTCTTCTTCTTCTCCTTAAT
*
20967823 TTCTTTCTTTCTATCTTCTTCTTCTGTAAAT
1 TT-TTT-TTTCT-TCTTCTTCTCCT-T-AAT
20967854 TTTTTTTTC
1 TTTTTTTTC
20967863 CAATCTGGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
26 2 0.06
27 3 0.09
28 5 0.16
29 15 0.47
30 4 0.12
31 3 0.09
ACGTcount: A:0.06, C:0.23, G:0.02, T:0.70
Consensus pattern (26 bp):
TTTTTTTTCTTCTTCTTCTCCTTAAT
Found at i:20967960 original size:27 final size:27
Alignment explanation
Indices: 20967930--20968015 Score: 127
Period size: 27 Copynumber: 3.2 Consensus size: 27
20967920 GAGAAAGGCA
20967930 CCACCGGTGCCGCCTGTGGGGTACCCT
1 CCACCGGTGCCGCCTGTGGGGTACCCT
* *
20967957 CCACTGGTGCCACCTGTGGGGTACCCT
1 CCACCGGTGCCGCCTGTGGGGTACCCT
* *
20967984 CCACTGGTGCTGCCTGTGGGGTACCCT
1 CCACCGGTGCCGCCTGTGGGGTACCCT
*
20968011 TCACC
1 CCACC
20968016 CCTATTTTAT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.09, C:0.38, G:0.30, T:0.22
Consensus pattern (27 bp):
CCACCGGTGCCGCCTGTGGGGTACCCT
Found at i:20974658 original size:48 final size:48
Alignment explanation
Indices: 20974587--20974940 Score: 520
Period size: 48 Copynumber: 7.7 Consensus size: 48
20974577 CAAGATAAAT
20974587 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
*
20974635 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAACATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
*
20974683 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* * *
20974731 AGATATGTATACGTGGTAAAGTCGAATGGCT-A--TG--AGA--TAT-
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* *
20974771 -G-TA--TA--CGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
*
20974813 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
*
20974861 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
*
20974909 AGATATGTATATGTGGTAAAGCTGAATGGCTA
1 AGATATGTATATGTGGTAAAGCCGAATGGCTA
20974941 GTGATTCGGC
Statistics
Matches: 278, Mismatches: 14, Indels: 28
0.87 0.04 0.09
Matches are distributed among these distances:
34 19 0.07
36 2 0.01
37 2 0.01
38 2 0.01
39 3 0.01
41 6 0.02
43 3 0.01
44 2 0.01
45 2 0.01
46 2 0.01
48 235 0.85
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (48 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
Found at i:20974770 original size:34 final size:34
Alignment explanation
Indices: 20974727--20974796 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
20974717 GTGAAATATG
*
20974727 TATGAGATATGTATACGTGGTAAAGTCGAATGGC
1 TATGAGATATGTATACGTGGTAAAGCCGAATGGC
20974761 TATGAGATATGTATACGTGGTAAAGCCGAATGGC
1 TATGAGATATGTATACGTGGTAAAGCCGAATGGC
20974795 TA
1 TA
20974797 GTGTGAAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.29
Consensus pattern (34 bp):
TATGAGATATGTATACGTGGTAAAGCCGAATGGC
Found at i:20974781 original size:82 final size:81
Alignment explanation
Indices: 20974679--20974940 Score: 335
Period size: 82 Copynumber: 3.0 Consensus size: 81
20974669 GTGAAACATG
*
20974679 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATACG
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATG
20974744 TGGTAAAGTCGAATGGC
66 TGGTAAAG-CGAATGGC
*
20974761 TATGAGATATGTATACGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATG
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATG
20974826 TGGTAAAGCCGAATGGCTAATGC
66 TGGTAAAG-CGAAT-G-----GC
* *
20974849 GAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATA
1 ----TA--T--GAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATA
20974914 TGTATATGTGGTAAAGCTGAATGGC
58 TGTATATGTGGTAAAGC-GAATGGC
20974939 TA
1 TA
20974941 GTGATTCGGC
Statistics
Matches: 159, Mismatches: 6, Indels: 26
0.83 0.03 0.14
Matches are distributed among these distances:
82 76 0.48
83 1 0.01
86 2 0.01
88 2 0.01
90 2 0.01
92 2 0.01
94 1 0.01
95 2 0.01
96 71 0.45
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (81 bp):
TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATG
TGGTAAAGCGAATGGC
Found at i:20974783 original size:130 final size:130
Alignment explanation
Indices: 20974631--20974892 Score: 461
Period size: 130 Copynumber: 2.0 Consensus size: 130
20974621 GTGAAATATG
*
20974631 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAACATGTATGAGATATGTATATG
1 TATGAGATATGTATACGTGGTAAAGCCGAATGGCTAATGTGAAACATGTATGAGATATGTATATG
* * *
20974696 TGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATACGTGGTAAAGTCGAATGGC
66 TGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTATACGTGGTAAAGCCGAATGGC
* *
20974761 TATGAGATATGTATACGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATG
1 TATGAGATATGTATACGTGGTAAAGCCGAATGGCTAATGTGAAACATGTATGAGATATGTATATG
*
20974826 TGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGC
66 TGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTATACGTGGTAAAGCCGAATGGC
20974891 TA
1 TA
20974893 ATGCGAAATA
Statistics
Matches: 125, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
130 125 1.00
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (130 bp):
TATGAGATATGTATACGTGGTAAAGCCGAATGGCTAATGTGAAACATGTATGAGATATGTATATG
TGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTATACGTGGTAAAGCCGAATGGC
Found at i:20974886 original size:178 final size:178
Alignment explanation
Indices: 20974587--20974940 Score: 629
Period size: 178 Copynumber: 2.0 Consensus size: 178
20974577 CAAGATAAAT
*
20974587 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
1 AGATATGTATACGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
* *
20974652 AAAGCCGAATGGCTAATGTGAAACATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGT
66 AAAGCCGAATGGCTAATGCGAAACATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAAT
*
20974717 GTGAAATATGTATGAGATATGTATACGTGGTAAAG-TCGAATGGCTATG
131 GCGAAATATGTATGAGATATGTATACGTGGTAAAGCT-GAATGGCTATG
*
20974765 AGATATGTATACGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGT
1 AGATATGTATACGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
*
20974830 AAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAAT
66 AAAGCCGAATGGCTAATGCGAAACATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAAT
*
20974895 GCGAAATATGTATGAGATATGTATATGTGGTAAAGCTGAATGGCTA
131 GCGAAATATGTATGAGATATGTATACGTGGTAAAGCTGAATGGCTA
20974941 GTGATTCGGC
Statistics
Matches: 168, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
178 167 0.99
179 1 0.01
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (178 bp):
AGATATGTATACGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
AAAGCCGAATGGCTAATGCGAAACATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAAT
GCGAAATATGTATGAGATATGTATACGTGGTAAAGCTGAATGGCTATG
Found at i:20975163 original size:37 final size:37
Alignment explanation
Indices: 20975113--20975245 Score: 212
Period size: 37 Copynumber: 3.6 Consensus size: 37
20975103 GGAAATATAT
20975113 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
20975150 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * * * *
20975187 TCTGGGTAAGACCCAATGACTACGTTTGGAGATTTTA
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
20975224 TCCGGGTAAGACCCGATAACTA
1 TCCGGGTAAGACCCGATGACTA
20975246 TTTGTGGGGA
Statistics
Matches: 88, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 88 1.00
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:20976377 original size:40 final size:40
Alignment explanation
Indices: 20976318--20976476 Score: 191
Period size: 40 Copynumber: 4.0 Consensus size: 40
20976308 TGAGAATTGA
* *
20976318 GAGTTATATAGCCGGGCTAAGTCCCGAAGAGCATTCGTGCC
1 GAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTG-C
* * *
20976359 GA-TGTTATGTCCGGGCTAAGTCCCGAAGAGCATTTGTG-
1 GAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGC
*
20976397 GTAGTGATATATCCGGGCTAAGTCCCGAAGAGTATTCGTGC
1 G-AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGC
* *
20976438 TAGTGATATATCCGGGCTAA-ACCTCGAAG-GCATTCGTGC
1 GAGTGATATATCCGGGCTAAGTCC-CGAAGAGCATTCGTGC
20976477 TGGAATTATG
Statistics
Matches: 102, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
38 1 0.01
39 12 0.12
40 87 0.85
41 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
GAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGC
Found at i:20976594 original size:29 final size:29
Alignment explanation
Indices: 20976485--20976614 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
20976475 GCTGGAATTA
* * *
20976485 TGAGGCACTGTGTGTGCAAGTTCTTCAAT
1 TGAGGCACTATGTGTGCGAGTTCTTTAAT
* * **
20976514 CGA-GCGCTATGTGTGCGAGATT-GGTAAT
1 TGAGGCACTATGTGTGCGAG-TTCTTTAAT
20976542 TGAGGCACTATGTGTGCGAGTTCTTTAAT
1 TGAGGCACTATGTGTGCGAGTTCTTTAAT
*
20976571 TGAGGCACTATGTGTGCGAGTTCTATAAT
1 TGAGGCACTATGTGTGCGAGTTCTTTAAT
* *
20976600 CGA-GCGCTATGTGTG
1 TGAGGCACTATGTGTG
20976615 TGCGAAACTA
Statistics
Matches: 84, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
28 31 0.37
29 53 0.63
ACGTcount: A:0.21, C:0.15, G:0.31, T:0.33
Consensus pattern (29 bp):
TGAGGCACTATGTGTGCGAGTTCTTTAAT
Found at i:20976610 original size:57 final size:57
Alignment explanation
Indices: 20976486--20976614 Score: 145
Period size: 57 Copynumber: 2.3 Consensus size: 57
20976476 CTGGAATTAT
* * * *
20976486 GAGGCACTGTGTGTGCAAGTTCTTCAATCGAGCGCTATGTGTGCGAGATTGGTAATT
1 GAGGCACTATGTGTGCAAGTTCTTCAATCGAGCACTATGTGTGCGAGATTGATAATC
* * * *
20976543 GAGGCACTATGTGTGCGAGTTCTTTAATTGAGGCACTATGTGTGCGAG-TTCTATAATC
1 GAGGCACTATGTGTGCAAGTTCTTCAATCGA-GCACTATGTGTGCGAGATT-GATAATC
*
20976601 GA-GCGCTATGTGTG
1 GAGGCACTATGTGTG
20976615 TGCGAAACTA
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
57 40 0.66
58 21 0.34
ACGTcount: A:0.21, C:0.16, G:0.31, T:0.33
Consensus pattern (57 bp):
GAGGCACTATGTGTGCAAGTTCTTCAATCGAGCACTATGTGTGCGAGATTGATAATC
Found at i:20980227 original size:48 final size:48
Alignment explanation
Indices: 20980152--20980553 Score: 589
Period size: 48 Copynumber: 8.7 Consensus size: 48
20980142 CAAGATAAAT
20980152 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* *
20980200 AGATATGTATATGTGGTAAAGCTGAATGGCTAATGTGAAACATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* *
20980248 AGATATGTACATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* * *
20980296 AGATATGTATACGTGGTAAAGCTGAATGGCT-A--TG--AGA--TAT-
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
*
20980336 -G-TA--TA--TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* *
20980378 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAGATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
*
20980426 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
**
20980474 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGCAAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
20980522 AGATATGTATATGTGGTAAAGCCGAATGGCTA
1 AGATATGTATATGTGGTAAAGCCGAATGGCTA
20980554 GTGATTCGGC
Statistics
Matches: 320, Mismatches: 20, Indels: 28
0.87 0.05 0.08
Matches are distributed among these distances:
34 18 0.06
36 2 0.01
37 2 0.01
38 2 0.01
39 3 0.01
41 6 0.02
43 3 0.01
44 2 0.01
45 2 0.01
46 2 0.01
48 278 0.87
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.30
Consensus pattern (48 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
Found at i:20980335 original size:34 final size:34
Alignment explanation
Indices: 20980292--20980361 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
20980282 GTGAAATATG
*
20980292 TATGAGATATGTATACGTGGTAAAGCTGAATGGC
1 TATGAGATATGTATACGTGGTAAAGCCGAATGGC
*
20980326 TATGAGATATGTATATGTGGTAAAGCCGAATGGC
1 TATGAGATATGTATACGTGGTAAAGCCGAATGGC
20980360 TA
1 TA
20980362 GTGTGAAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.30
Consensus pattern (34 bp):
TATGAGATATGTATACGTGGTAAAGCCGAATGGC
Found at i:20980451 original size:178 final size:178
Alignment explanation
Indices: 20980152--20980505 Score: 645
Period size: 178 Copynumber: 2.0 Consensus size: 178
20980142 CAAGATAAAT
20980152 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
*
20980217 AAAGCTGAATGGCTAATGTGAAACATGTATGAGATATGTACATGTGGTAAAGCCGAATGGCTAGT
66 AAAGCCGAATGGCTAATGTGAAACATGTATGAGATATGTACATGTGGTAAAGCCGAATGGCTAGT
*
20980282 GTGAAATATGTATGAGATATGTATACGTGGTAAAGCTGAATGGCTATG
131 GTGAAATATGTATGAGATATGTATACGTGGTAAAGCCGAATGGCTATG
*
20980330 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
* * *
20980395 AAAGCCGAATGGCTAGTGTGAAAGATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGT
66 AAAGCCGAATGGCTAATGTGAAACATGTATGAGATATGTACATGTGGTAAAGCCGAATGGCTAGT
*
20980460 GTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
131 GTGAAATATGTATGAGATATGTATACGTGGTAAAGCCGAATGGCTA
20980506 ATGCAAAATA
Statistics
Matches: 169, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
178 169 1.00
ACGTcount: A:0.34, C:0.07, G:0.29, T:0.30
Consensus pattern (178 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
AAAGCCGAATGGCTAATGTGAAACATGTATGAGATATGTACATGTGGTAAAGCCGAATGGCTAGT
GTGAAATATGTATGAGATATGTATACGTGGTAAAGCCGAATGGCTATG
Found at i:20980776 original size:37 final size:37
Alignment explanation
Indices: 20980726--20980865 Score: 235
Period size: 37 Copynumber: 3.8 Consensus size: 37
20980716 GGAAATATAT
20980726 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
20980763 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
20980800 TCTGGGTTAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
20980837 TCCGGGTAAGACCTGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
20980866 GGACTATTCG
Statistics
Matches: 96, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 96 1.00
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:20982315 original size:40 final size:39
Alignment explanation
Indices: 20982270--20982476 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
20982260 CGGAATACAA
*
20982270 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
20982310 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
20982350 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** *
20982390 CCGGATGT-GTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
20982429 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
20982469 CCGGATAT
1 CCGGATAT
20982477 CATTCAATTG
Statistics
Matches: 141, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
38 4 0.03
39 28 0.20
40 106 0.75
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:20982459 original size:79 final size:80
Alignment explanation
Indices: 20982270--20982475 Score: 222
Period size: 79 Copynumber: 2.6 Consensus size: 80
20982260 CGGAATACAA
* * *
20982270 CCGGATATAACCAC-ATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT
1 CCGGATATAACAACTA-GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAAT
*
20982334 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * * **
20982350 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTGTC-ACTAGCAC-AAT
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAG-AACGACTAGCACAAAT
*
20982412 GGCCTTCGGGTCTTAAC
65 -GCCTTCGGGTATTAAC
** * * *
20982429 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATA
20982476 TCATTCAATT
Statistics
Matches: 106, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
78 3 0.03
79 60 0.57
80 43 0.41
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:20990335 original size:40 final size:39
Alignment explanation
Indices: 20990290--20990496 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
20990280 CGGAATACAA
*
20990290 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
20990330 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
20990370 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** *
20990410 CCGGATGT-GTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
20990449 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
20990489 CCGGATAT
1 CCGGATAT
20990497 CATTCAATTG
Statistics
Matches: 141, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
38 4 0.03
39 28 0.20
40 106 0.75
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:20990479 original size:79 final size:80
Alignment explanation
Indices: 20990290--20990495 Score: 222
Period size: 79 Copynumber: 2.6 Consensus size: 80
20990280 CGGAATACAA
* * *
20990290 CCGGATATAACCAC-ATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT
1 CCGGATATAACAACTA-GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAAT
*
20990354 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * * **
20990370 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTGTC-ACTAGCAC-AAT
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAG-AACGACTAGCACAAAT
*
20990432 GGCCTTCGGGTCTTAAC
65 -GCCTTCGGGTATTAAC
** * * *
20990449 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATA
20990496 TCATTCAATT
Statistics
Matches: 106, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
78 3 0.03
79 60 0.57
80 43 0.41
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:20997817 original size:12 final size:12
Alignment explanation
Indices: 20997802--20997923 Score: 74
Period size: 12 Copynumber: 10.1 Consensus size: 12
20997792 TTTATTTGTG
20997802 TATTATTTATTA
1 TATTATTTATTA
*
20997814 TATTATTTACATTT
1 TATTATTT--ATTA
*
20997828 TATTATATATT-
1 TATTATTTATTA
*
20997839 T-TGATTTA-TA
1 TATTATTTATTA
* *
20997849 CATTTTATTATATA
1 TATTAT-TTAT-TA
*
20997863 TATTATTCATTA
1 TATTATTTATTA
*
20997875 TATTATTTTTATTT
1 TATTA--TTTATTA
*
20997889 TATTATATATTA
1 TATTATTTATTA
*
20997901 TATAATTTA-T-
1 TATTATTTATTA
20997911 TATTATTTATTA
1 TATTATTTATTA
20997923 T
1 T
20997924 TATGTATAAT
Statistics
Matches: 82, Mismatches: 17, Indels: 22
0.68 0.14 0.18
Matches are distributed among these distances:
9 1 0.01
10 13 0.16
11 5 0.06
12 34 0.41
13 3 0.04
14 26 0.32
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (12 bp):
TATTATTTATTA
Found at i:20997862 original size:14 final size:14
Alignment explanation
Indices: 20997814--20997877 Score: 62
Period size: 14 Copynumber: 4.6 Consensus size: 14
20997804 TTATTTATTA
*
20997814 TATTATTTACATTT
1 TATTATATACATTT
20997828 TATTATAT--ATTT
1 TATTATATACATTT
20997840 TGATT-TATACATTT
1 T-ATTATATACATTT
*
20997854 TATTATATATATTAT
1 TATTATATACATT-T
20997869 TCATTATAT
1 T-ATTATAT
20997878 TATTTTTATT
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
12 8 0.19
13 6 0.14
14 19 0.45
15 2 0.05
16 7 0.17
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.61
Consensus pattern (14 bp):
TATTATATACATTT
Found at i:20997869 original size:3 final size:3
Alignment explanation
Indices: 20997853--20997926 Score: 57
Period size: 3 Copynumber: 24.3 Consensus size: 3
20997843 TTTATACATT
*
20997853 TTA TTA -TA TATA TTA TTCA TTA -TA TTA TTT TTA TT- TTA TTA TATA
1 TTA TTA TTA T-TA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA T-TA
*
20997898 TTA -TA TAA TTTA TTA TTA TTTA TTA TTA T
1 TTA TTA TTA -TTA TTA TTA -TTA TTA TTA T
20997927 GTATAATTTT
Statistics
Matches: 58, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
2 8 0.14
3 36 0.62
4 14 0.24
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:20997889 original size:35 final size:36
Alignment explanation
Indices: 20997850--20997931 Score: 100
Period size: 33 Copynumber: 2.3 Consensus size: 36
20997840 TGATTTATAC
*
20997850 ATTTTATTATATATATTAT-TCATTATATTATT-TTT
1 ATTTTATTATATATATTATATAATT-TATTATTATTT
20997885 ATTTTA-T-TATATATTATATAATTTATTATTATTT
1 ATTTTATTATATATATTATATAATTTATTATTATTT
20997919 ATTATTATGTATA
1 ATT-TTAT-TATA
20997932 ATTTTAAAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
33 17 0.43
34 11 0.28
35 9 0.22
37 1 0.03
38 2 0.05
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (36 bp):
ATTTTATTATATATATTATATAATTTATTATTATTT
Found at i:20997920 original size:19 final size:18
Alignment explanation
Indices: 20997852--20997922 Score: 60
Period size: 19 Copynumber: 3.9 Consensus size: 18
20997842 ATTTATACAT
*
20997852 TTTATTATATATATTATTCA
1 TTTATTAT-TAT-TTATTAA
*
20997872 -TTA-TATTATTT-TTAT
1 TTTATTATTATTTATTAA
20997887 TTTATTA-TATATTATATAA
1 TTTATTATTAT-TTAT-TAA
20997906 TTTATTATTATTTATTA
1 TTTATTATTATTTATTA
20997923 TTATGTATAA
Statistics
Matches: 42, Mismatches: 3, Indels: 14
0.71 0.05 0.24
Matches are distributed among these distances:
15 2 0.05
16 8 0.19
17 7 0.17
18 6 0.14
19 16 0.38
20 3 0.07
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTATTATTATTTATTAA
Found at i:20997920 original size:26 final size:26
Alignment explanation
Indices: 20997802--20997935 Score: 89
Period size: 26 Copynumber: 4.9 Consensus size: 26
20997792 TTTATTTGTG
*
20997802 TATTATTTATTATATTATTTACATTTTAT
1 TATTATTTA-TATATTATATA-A-TTTAT
* *
20997831 TATATATTT-TGAT-TTATACATTTTAT
1 TAT-TATTTAT-ATATTATATAATTTAT
*
20997857 TATATATATTAT-TCATTATATTATTT-T
1 TAT-TAT-TTATAT-ATTATATAATTTAT
*
20997884 TATTTTATTATATATTATATAATTTAT
1 TATTAT-TTATATATTATATAATTTAT
20997911 TATTATTTAT-TATTATGTATAATTT
1 TATTATTTATATATTA--TATAATTT
20997936 TAAAAATTTG
Statistics
Matches: 86, Mismatches: 9, Indels: 22
0.74 0.08 0.19
Matches are distributed among these distances:
25 5 0.06
26 35 0.41
27 21 0.24
28 15 0.17
29 5 0.06
30 5 0.06
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.63
Consensus pattern (26 bp):
TATTATTTATATATTATATAATTTAT
Found at i:20998329 original size:18 final size:18
Alignment explanation
Indices: 20998306--20998340 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
20998296 ATCTAATAAA
*
20998306 TTATTTGTTATTTTTATG
1 TTATTTATTATTTTTATG
*
20998324 TTATTTATTGTTTTTAT
1 TTATTTATTATTTTTAT
20998341 ATATTTGCAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.09, T:0.74
Consensus pattern (18 bp):
TTATTTATTATTTTTATG
Found at i:21002010 original size:12 final size:12
Alignment explanation
Indices: 21001993--21002031 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
21001983 TAAAATTAAC
*
21001993 AGAGAGAGAGAT
1 AGAGAGAGAGAA
21002005 AGAGAGAGAGAA
1 AGAGAGAGAGAA
*
21002017 AGAGAGAGTGAA
1 AGAGAGAGAGAA
21002029 AGA
1 AGA
21002032 AAAAGAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.54, C:0.00, G:0.41, T:0.05
Consensus pattern (12 bp):
AGAGAGAGAGAA
Found at i:21010017 original size:42 final size:42
Alignment explanation
Indices: 21009964--21010105 Score: 178
Period size: 42 Copynumber: 3.3 Consensus size: 42
21009954 ATTGACAGGG
*
21009964 AGCAGACCGAAGAAGCAAATTTGCCGTCTCTAATTGACGGAA
1 AGCAGATCGAAGAAGCAAATTTGCCGTCTCTAATTGACGGAA
* * * * * * *
21010006 AGCAGATCGAAGAAAGCACATCTGGCATCTCTGTATTGACAGAG
1 AGCAGATCGAAG-AAGCAAATTTGCCGTCTCT-AATTGACGGAA
21010050 AGCAGATC-AAGAAGCAAATTTGCCGTCTCTATATTGACGGAA
1 AGCAGATCGAAGAAGCAAATTTGCCGTCTCTA-ATTGACGGAA
21010092 AGCAGATCGAAGAA
1 AGCAGATCGAAGAA
21010106 AGCACATCTG
Statistics
Matches: 81, Mismatches: 15, Indels: 7
0.79 0.15 0.07
Matches are distributed among these distances:
42 42 0.52
43 23 0.28
44 16 0.20
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.20
Consensus pattern (42 bp):
AGCAGATCGAAGAAGCAAATTTGCCGTCTCTAATTGACGGAA
Found at i:21010054 original size:44 final size:44
Alignment explanation
Indices: 21009930--21010705 Score: 535
Period size: 44 Copynumber: 17.6 Consensus size: 44
21009920 TATATCTTTT
** * *
21009930 AGAAAGCAGATTTGGTGTCTCTGTATTGACAGGGAGCAGACCGA
1 AGAAAGCAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGA
* * * * * *
21009974 AG-AAGCAAATTTGCCGTCTCT-AATTGACGGAAAGCAGATCGA
1 AGAAAGCAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGA
* *
21010016 AGAAAGCACATCTGGCATCTCTGTATTGACAGAGAGCAGATC-A
1 AGAAAGCAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGA
* * * * * *
21010059 AG-AAGCAAATTTGCCGTCTCTATATTGACGGAAAGCAGATCGA
1 AGAAAGCAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGA
* * *
21010102 AGAAAGCACATCTGGCATCTCTGTATTGACAGAGAGCAGATCAA
1 AGAAAGCAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGA
* * * * * *
21010146 AGATAGTAGATCTGACAT-TCGTGTGTTTACATCGA-AGCAGATCGA
1 AGAAAGCAGATTTGGCATCTC-TGTATTGACA--GAGAGCAGATCGA
* * * *
21010191 AG-ATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGA
1 AGAAAG-CAGATTTGGCATCTCTGTATT-GACAGAGAGCAGATCGA
* * * * * * *
21010236 AGATAGTAGATCTGACATTTGTGTGTTTG-CATCGA-AGCAGATCGA
1 AGAAAGCAGATTTGGCATCTCTGT-ATTGACA--GAGAGCAGATCGA
* ** * * * *
21010281 AG-ATGACAGATTTTTCGTCTCTGTATTAGACGGGGAGCAGATCAA
1 AGAAAG-CAGATTTGGCATCTCTGTATT-GACAGAGAGCAGATCGA
* * * *
21010326 AGATAGCAGATCTGACAT-TCGTGTGGTT-ACATCGA-AGCAGATC-A
1 AGAAAGCAGATTTGGCATCTC-TGT-ATTGACA--GAGAGCAGATCGA
* ** * *
21010370 A-AATGACAGATTTGGTGTCTCTGTATTAGACGGGGAGCAGATCGA
1 AGAAAG-CAGATTTGGCATCTCTGTATT-GACAGAGAGCAGATCGA
* * *
21010415 AG-AAGCAGATTTGGAAACTCTGTATTGACGGAGAGCAGATCGA
1 AGAAAGCAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGA
* * *
21010458 AAAAAGCACATTTGGCATCTCTGTATTGACAGAGAGCAGATCTA
1 AGAAAGCAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGA
* * ** *
21010502 AGATAGCAAATTTGGTGTCTCTGTATTAGAC-GGGAGCAGATCGA
1 AGAAAGCAGATTTGGCATCTCTGTATT-GACAGAGAGCAGATCGA
*
21010546 AG-AAGCAGATTTGGCATCTCTGTATTGACGGAGAGCAGATCGAAA
1 AGAAAGCAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCG--A
* * * * *
21010591 AAAAAGCACATCTGGCATCTCTGTATTGATAGAGAGCAGATCAA
1 AGAAAGCAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGA
* ** * * *
21010635 AGATAGCAGATTTGGTGTCTCTGTATTGACGGGGATCAGATCGA
1 AGAAAGCAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGA
* * *
21010679 GGATAGCAGATTTGGCGTCTCTGTATT
1 AGAAAGCAGATTTGGCATCTCTGTATT
21010706 AGACGGGGTG
Statistics
Matches: 564, Mismatches: 131, Indels: 74
0.73 0.17 0.10
Matches are distributed among these distances:
42 53 0.09
43 92 0.16
44 253 0.45
45 116 0.21
46 50 0.09
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (44 bp):
AGAAAGCAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGA
Found at i:21010086 original size:86 final size:85
Alignment explanation
Indices: 21009947--21010145 Score: 362
Period size: 86 Copynumber: 2.3 Consensus size: 85
21009937 AGATTTGGTG
* *
21009947 TCTCTGTATTGACAGGGAGCAGACCGAAGAAGCAAATTTGCCGTCTCTAATTGACGGAAAGCAGA
1 TCTCTGTATTGACAGAGAGCAGATC-AAGAAGCAAATTTGCCGTCTCTAATTGACGGAAAGCAGA
21010012 TCGAAGAAAGCACATCTGGCA
65 TCGAAGAAAGCACATCTGGCA
21010033 TCTCTGTATTGACAGAGAGCAGATCAAGAAGCAAATTTGCCGTCTCTATATTGACGGAAAGCAGA
1 TCTCTGTATTGACAGAGAGCAGATCAAGAAGCAAATTTGCCGTCTCTA-ATTGACGGAAAGCAGA
21010098 TCGAAGAAAGCACATCTGGCA
65 TCGAAGAAAGCACATCTGGCA
21010119 TCTCTGTATTGACAGAGAGCAGATCAA
1 TCTCTGTATTGACAGAGAGCAGATCAA
21010146 AGATAGTAGA
Statistics
Matches: 110, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
85 23 0.21
86 87 0.79
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (85 bp):
TCTCTGTATTGACAGAGAGCAGATCAAGAAGCAAATTTGCCGTCTCTAATTGACGGAAAGCAGAT
CGAAGAAAGCACATCTGGCA
Found at i:21010187 original size:45 final size:45
Alignment explanation
Indices: 21010136--21010371 Score: 155
Period size: 45 Copynumber: 5.2 Consensus size: 45
21010126 ATTGACAGAG
* *
21010136 AGCAGATCAAAGATAGTAGATCTGACATTCGTGTGTTTACATCGA
1 AGCAGATCAAAGATAGCAGATCTGACATTCGTGTGATTACATCGA
* * * * * *
21010181 AGCAGATCGAAGAT-GACAGATTTGGCGTCTC-TGT-ATTAGA-CGGGG
1 AGCAGATCAAAGATAG-CAGATCTGACAT-TCGTGTGATTACATC--GA
* * * * *
21010226 AGCAGATCGAAGATAGTAGATCTGACATTTGTGTGTTTGCATCGA
1 AGCAGATCAAAGATAGCAGATCTGACATTCGTGTGATTACATCGA
* * ** * * *
21010271 AGCAGATCGAAGAT-GACAGATTTTTCGTCTC-TGT-ATTAGA-CGGGG
1 AGCAGATCAAAGATAG-CAGATCTGACAT-TCGTGTGATTACATC--GA
*
21010316 AGCAGATCAAAGATAGCAGATCTGACATTCGTGTGGTTACATCGA
1 AGCAGATCAAAGATAGCAGATCTGACATTCGTGTGATTACATCGA
21010361 AGCAGATCAAA
1 AGCAGATCAAA
21010372 ATGACAGATT
Statistics
Matches: 140, Mismatches: 35, Indels: 32
0.68 0.17 0.15
Matches are distributed among these distances:
43 2 0.01
44 12 0.09
45 112 0.80
46 12 0.09
47 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.27
Consensus pattern (45 bp):
AGCAGATCAAAGATAGCAGATCTGACATTCGTGTGATTACATCGA
Found at i:21010615 original size:177 final size:176
Alignment explanation
Indices: 21009932--21010711 Score: 642
Period size: 177 Copynumber: 4.4 Consensus size: 176
21009922 TATCTTTTAG
* * * * *
21009932 AAAGCAGATTTGGTGTCTCTGTATTGACAGGGAGCAGACCGAAGA-AGCAAATTTGCCGTCTCT-
1 AAAGCAGATTTGGCGTCTCTGTATTGACAGGGAGCAGATCAAAGATAGCAGATTTGACGTCTCTG
* * * *
21009995 AATT-GACGGAAAGCAGATCGAAGAA-AGCACATCTGGCATCTCTGTATT-GACAGAGAGCAGAT
66 TATTAGACGG-AAGCAGATCGAAGAAGA-CAGATTTGGCATCTCTGTATTAGACGGAGAGCAGAT
* * * * * * * *
21010057 C-AAGAAGCAAATTTGCCGTCTCTATATTGACGGAAAGCAGATCGAAG
129 CGAAAAAGCAGATCTGGCATCTCTGTATTGACGGAGAGCAGATCGAAA
* * * * * * *
21010104 AAAGCACATCTGGCATCTCTGTATTGACAGAGAGCAGATCAAAGATAGTAGATCTGACAT-TCGT
1 AAAGCAGATTTGGCGTCTCTGTATTGACAGGGAGCAGATCAAAGATAGCAGATTTGACGTCTC-T
* * * * *
21010168 GTGTTTACATC-GAAGCAGATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGA
65 GT-ATTAGA-CGGAAGCAGATCGAAGAAGACAGATTTGGCATCTCTGTATTAGACGGAGAGCAGA
* * * * * *
21010232 TCGAAGATAGTAGATCTGACATTTGTGTGTTTGCATC-GA-AGCAGATCG-AA
128 TCGAA-AAAGCAGATCTGGCATCTCTGT-ATTG-A-CGGAGAGCAGATCGAAA
* * ** * * *
21010282 GATGACAGATTTTTCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGCAGATCTGACAT-TC
1 AAAG-CAGATTTGGCGTCTCTGTATT-GACAGGGAGCAGATCAAAGATAGCAGATTTGACGTCTC
* * ** *
21010346 GTGTGGTTACATC-GAAGCAGATC-AA-AATGACAGATTTGGTGTCTCTGTATTAGACGGGGAGC
64 -TGT-ATTAGA-CGGAAGCAGATCGAAGAA-GACAGATTTGGCATCTCTGTATTAGACGGAGAGC
* * * *
21010408 AGATCGAAGAAGCAGATTTGGAAACTCTGTATTGACGGAGAGCAGATCGAAA
125 AGATCGAAAAAGCAGATCTGGCATCTCTGTATTGACGGAGAGCAGATCGAAA
* * * * * **
21010460 AAAGCACATTTGGCATCTCTGTATTGACAGAGAGCAGATCTAAGATAGCAAATTTGGTGTCTCTG
1 AAAGCAGATTTGGCGTCTCTGTATTGACAGGGAGCAGATCAAAGATAGCAGATTTGACGTCTCTG
*
21010525 TATTAGACGGGAGCAGATCGAAGAAG-CAGATTTGGCATCTCTGTATT-GACGGAGAGCAGATCG
66 TATTAGACGGAAGCAGATCGAAGAAGACAGATTTGGCATCTCTGTATTAGACGGAGAGCAGATCG
* **
21010588 AAAAAAAAGCACATCTGGCATCTCTGTATTGATAGAGAGCAGATC-AAA
131 ---AAAAAGCAGATCTGGCATCTCTGTATTGACGGAGAGCAGATCGAAA
* * * * * * *
21010636 GATAGCAGATTTGGTGTCTCTGTATTGACGGGGATCAGATCGAGGATAGCAGATTTGGCGTCTCT
1 -AAAGCAGATTTGGCGTCTCTGTATTGACAGGGAGCAGATCAAAGATAGCAGATTTGACGTCTCT
21010701 GTATTAGACGG
65 GTATTAGACGG
21010712 GGTGTAAATC
Statistics
Matches: 487, Mismatches: 94, Indels: 49
0.77 0.15 0.08
Matches are distributed among these distances:
172 40 0.08
173 10 0.02
174 16 0.03
175 67 0.14
176 55 0.11
177 135 0.28
178 33 0.07
179 71 0.15
180 59 0.12
181 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (176 bp):
AAAGCAGATTTGGCGTCTCTGTATTGACAGGGAGCAGATCAAAGATAGCAGATTTGACGTCTCTG
TATTAGACGGAAGCAGATCGAAGAAGACAGATTTGGCATCTCTGTATTAGACGGAGAGCAGATCG
AAAAAGCAGATCTGGCATCTCTGTATTGACGGAGAGCAGATCGAAA
Found at i:21010651 original size:133 final size:132
Alignment explanation
Indices: 21009947--21010711 Score: 569
Period size: 133 Copynumber: 5.8 Consensus size: 132
21009937 AGATTTGGTG
* * * * ** * **
21009947 TCTCTGTATTGACAGGGAGCAGACCGAAGA-AGCAAATTTGCCGTCTCT-AATT-GACGGAAAGC
1 TCTCTGTATTGACAGAGAGCAGATCAAAGATAGCAGATTTGGTGTCTCTGTATTAGACGGGGAGC
* * * * * *
21010009 AGATCGAAGAAAGCACATCTGGCATCTCTGTATTGACAGAGAGCAGATC--AAGAAGCAAATTTG
66 AGATCGAAG-AAGCAGATTTGGCATCTCTGTATTGACGGAGAGCAGATCGAAAAAAGCACATCTG
* *
21010072 CCG
130 GCA
* * * * * * * ** * *
21010075 TCTCTATATTGACGGAAAGCAGATCGAAGAAAGCACATCTGGCATCTCTGTATT-GACAGAGAGC
1 TCTCTGTATTGACAGAGAGCAGATCAAAGATAGCAGATTTGGTGTCTCTGTATTAGACGGGGAGC
* * * * * * * * * *
21010139 AGATCAAAGATAGTAGATCTGACAT-TCGTGTGTTTACATCGA-AGCAGATCG-AAGATGACAGA
66 AGATCGAAGA-AGCAGATTTGGCATCTC-TGTATTGAC--GGAGAGCAGATCGAAAAAAG-CACA
* *
21010201 TTTGGCG
126 TCTGGCA
* * * * * *** * * * * *
21010208 TCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTTGTGTGTTTGCATC--GA
1 TCTCTGTATT-GACAGAGAGCAGATCAAAGATAGCAGATTTGGTGTCTCTGTATTAG-A-CGGGG
* ** * * * *
21010271 AGCAGATCGAAGATGACAGATTTTTCGTCTCTGTATTAGACGGGGAGCAGATC-AAAGATAGCAG
63 AGCAGATCGAAGAAG-CAGATTTGGCATCTCTGTATT-GACGGAGAGCAGATCGAAA-AAAGCAC
*
21010335 ATCTGACA
125 ATCTGGCA
*
21010343 T-TCGTGTGGTT-ACATCGA-AGCAGATCAAA-AT-GACAGATTTGGTGTCTCTGTATTAGACGG
1 TCTC-TGT-ATTGACA--GAGAGCAGATCAAAGATAG-CAGATTTGGTGTCTCTGTATTAGACGG
* *
21010403 GGAGCAGATCGAAGAAGCAGATTTGGAAACTCTGTATTGACGGAGAGCAGATCGAAAAAAGCACA
61 GGAGCAGATCGAAGAAGCAGATTTGGCATCTCTGTATTGACGGAGAGCAGATCGAAAAAAGCACA
*
21010468 TTTGGCA
126 TCTGGCA
* *
21010475 TCTCTGTATTGACAGAGAGCAGATCTAAGATAGCAAATTTGGTGTCTCTGTATTAGAC-GGGAGC
1 TCTCTGTATTGACAGAGAGCAGATCAAAGATAGCAGATTTGGTGTCTCTGTATTAGACGGGGAGC
21010539 AGATCGAAGAAGCAGATTTGGCATCTCTGTATTGACGGAGAGCAGATCGAAAAAAAAGCACATCT
66 AGATCGAAGAAGCAGATTTGGCATCTCTGTATTGACGGAGAGCAGATCG--AAAAAAGCACATCT
21010604 GGCA
129 GGCA
* *
21010608 TCTCTGTATTGATAGAGAGCAGATCAAAGATAGCAGATTTGGTGTCTCTGTATT-GACGGGGATC
1 TCTCTGTATTGACAGAGAGCAGATCAAAGATAGCAGATTTGGTGTCTCTGTATTAGACGGGGAGC
* *
21010672 AGATCGAGGATAGCAGATTTGGCGTCTCTGTATTAGACGG
66 AGATCGAAGA-AGCAGATTTGGCATCTCTGTATT-GACGG
21010712 GGTGTAAATC
Statistics
Matches: 513, Mismatches: 88, Indels: 65
0.77 0.13 0.10
Matches are distributed among these distances:
128 25 0.05
129 17 0.03
130 39 0.08
131 73 0.14
132 69 0.13
133 124 0.24
134 94 0.18
135 62 0.12
136 9 0.02
137 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.25
Consensus pattern (132 bp):
TCTCTGTATTGACAGAGAGCAGATCAAAGATAGCAGATTTGGTGTCTCTGTATTAGACGGGGAGC
AGATCGAAGAAGCAGATTTGGCATCTCTGTATTGACGGAGAGCAGATCGAAAAAAGCACATCTGG
CA
Found at i:21010661 original size:90 final size:89
Alignment explanation
Indices: 21009936--21010705 Score: 512
Period size: 90 Copynumber: 8.7 Consensus size: 89
21009926 TTTTAGAAAG
* * * * * * * *
21009936 CAGATTTGGTGTCTCTGTATT-GACAGGGAGCAGACCGAAGA-AGCAAATTTGCCGTCTCT-AAT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGGCATCTCTGTAT
* * *
21009998 TGA-CGGAAAGCAGATCGAAGA-AA
66 TGATC-GAGAGCAGATCAAAGATGA
* * * * * * * * * *
21010021 GCACATCTGGCATCTCTGTATT-GACAGAGAGCAGATC-AAGA-AGCAAATTTGCCGTCTCTATA
1 -CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGGCATCTCTGTA
* * *
21010083 TTGA-CGGAAAGCAGATCGAAGA-AA
65 TTGATC-GAGAGCAGATCAAAGATGA
* * * * * * * *
21010107 GCACATCTGGCATCTCTGTATT-GACAGAGAGCAGATCAAAGATAGTAGATCTGACAT-TCGTGT
1 -CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGGCATCTC-TGT
* * *
21010170 GTTTACATCGA-AGCAGATCGAAGATGA
64 -ATT-GATCGAGAGCAGATCAAAGATGA
* * * * *
21010197 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTTGTGTGT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGGCATCTCTGT-A
*
21010262 TTGCATCGA-AGCAGATCGAAGATGA
65 TTG-ATCGAGAGCAGATCAAAGATGA
** * *
21010287 CAGATTTTTCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGCAGATCTGACAT-TCGTGTG
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGGCATCTC-TGT-
* *
21010351 GTTACATCGA-AGCAGATCAAA-ATGA
64 ATT-GATCGAGAGCAGATCAAAGATGA
* * * *
21010376 CAGATTTGGTGTCTCTGTATTAGACGGGGAGCAGATCGAAGA-AGCAGATTTGGAAACTCTGTAT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGGCATCTCTGTAT
* *
21010440 TGA-CGGAGAGCAGATCGAAAAAAG-
66 TGATC-GAGAGCAGATC-AAAGATGA
* * * * * * * **
21010464 CACATTTGGCATCTCTGTATT-GACAGAGAGCAGATCTAAGATAGCAAATTTGGTGTCTCTGTAT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGGCATCTCTGTAT
* * *
21010528 TAGA-CGGGAGCAGATCGAAGAAG-
66 T-GATCGAGAGCAGATCAAAGATGA
* * * * *
21010551 CAGATTTGGCATCTCTGTATT-GACGGAGAGCAGATCGAAAAAAAAGCACATCTGGCATCTCTGT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCG--AAGATAGCAGATCTGGCATCTCTGT
*
21010615 ATTGATAGAGAGCAGATCAAAGAT-A
64 ATTGATCGAGAGCAGATCAAAGATGA
* * * * *
21010640 GCAGATTTGGTGTCTCTGTATT-GACGGGGATCAGATCGAGGATAGCAGATTTGGCGTCTCTGTA
1 -CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGGCATCTCTGTA
21010704 TT
65 TT
21010706 AGACGGGGTG
Statistics
Matches: 580, Mismatches: 79, Indels: 48
0.82 0.11 0.07
Matches are distributed among these distances:
85 23 0.04
86 95 0.16
87 72 0.12
88 98 0.17
89 119 0.21
90 171 0.29
91 2 0.00
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.25
Consensus pattern (89 bp):
CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGGCATCTCTGTAT
TGATCGAGAGCAGATCAAAGATGA
Found at i:21013233 original size:40 final size:40
Alignment explanation
Indices: 21013159--21013383 Score: 285
Period size: 40 Copynumber: 5.6 Consensus size: 40
21013149 AACCCAAGTA
* * * *
21013159 CCTTCAGGATTTAG-CCGGATATAG-CAACTTGCACACATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
21013198 CCTTTGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
21013238 CCTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATG
*
21013281 CCTTCGGGACTTCGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
21013321 TCTTCGGGACTTAGCCCGGATATGGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
21013361 CCTTCGAGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
21013384 CATCCGAATA
Statistics
Matches: 163, Mismatches: 16, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
39 11 0.07
40 114 0.70
41 1 0.01
43 36 0.22
44 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:21013282 original size:83 final size:81
Alignment explanation
Indices: 21013159--21013383 Score: 305
Period size: 83 Copynumber: 2.8 Consensus size: 81
21013149 AACCCAAGTA
* * * * *
21013159 CCTTCAGGATTTAG-CCGGATATAGCAACT-TGCACACATGCCTTTGGGTCTTAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAGCAACTATGCACAAATGCCTTCGGGACTTAGCCCGGATATA
21013222 GTCACTAGCACAAATG
66 GTCACTAGCACAAATG
* *
21013238 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTCGCCCGGATA
1 CCTTCGGGACTTAGCCCGGATATAGCAACTA-T-GCACAAATGCCTTCGGGACTTAGCCCGGATA
21013303 TAGTCACTAGCACAAATG
64 TAGTCACTAGCACAAATG
* * *
21013321 TCTTCGGGACTTAGCCCGGATATGGTC-ACTA-GCACAAATGCCTTCGAGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATATAG-CAACTATGCACAAATGCCTTCGGGACTTAGCCCGGATAT
21013384 CATCCGAATA
Statistics
Matches: 129, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
79 12 0.09
80 44 0.34
82 1 0.01
83 71 0.55
84 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CCTTCGGGACTTAGCCCGGATATAGCAACTATGCACAAATGCCTTCGGGACTTAGCCCGGATATA
GTCACTAGCACAAATG
Found at i:21015032 original size:40 final size:39
Alignment explanation
Indices: 21014976--21015074 Score: 112
Period size: 40 Copynumber: 2.5 Consensus size: 39
21014966 GGATATAGCG
* * *
21014976 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGG-TTAT-AA
1 ACTCGCACAAATGCCTTCGGGACATAACCCGGATT-TGAA
* *
21015014 TAGCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGA
1 -A-CTCGCACAAATGCCTTCGGGACATAACCCGGATTTGAA
21015055 ACTCGCACAAATGCCTTCGG
1 ACTCGCACAAATGCCTTCGG
21015075 ATCTTAGTCC
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
39 20 0.38
40 29 0.56
41 3 0.06
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.22
Consensus pattern (39 bp):
ACTCGCACAAATGCCTTCGGGACATAACCCGGATTTGAA
Found at i:21015071 original size:39 final size:40
Alignment explanation
Indices: 21014976--21015126 Score: 148
Period size: 39 Copynumber: 3.8 Consensus size: 40
21014966 GGATATAGCG
* * * * **
21014976 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGGTTATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGTA
* * *
21015016 GCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGG-A
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGTA
* *
21015055 ACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATATGGTA
*
21015095 ACTTAGCACAAA-GCCTT-GGGACTTAGCCCGGA
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
21015127 CATCATTCGA
Statistics
Matches: 91, Mismatches: 16, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
38 3 0.03
39 41 0.45
40 39 0.43
41 8 0.09
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGTA
Found at i:21023785 original size:36 final size:36
Alignment explanation
Indices: 21023745--21023818 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
21023735 AAAAATGATT
21023745 ATAATGCTATGCTCAAAATATATAAGCCATTTTCGC
1 ATAATGCTATGCTCAAAATATATAAGCCATTTTCGC
21023781 ATAATGCTATGCTCAAAATATATAAGCCATTTTCGC
1 ATAATGCTATGCTCAAAATATATAAGCCATTTTCGC
21023817 AT
1 AT
21023819 GGCCATCCGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.34
Consensus pattern (36 bp):
ATAATGCTATGCTCAAAATATATAAGCCATTTTCGC
Found at i:21025951 original size:78 final size:81
Alignment explanation
Indices: 21025812--21025993 Score: 257
Period size: 78 Copynumber: 2.3 Consensus size: 81
21025802 TCGAATGATG
* *
21025812 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
21025877 GTGCGAGTTACTA-AA
66 GTGCGAGTTACTATAA
* * **
21025892 TCCGGGCTAAG-CCCGAAGGCATTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCATT
21025954 TGTGCGAGTTACTATAA
65 TGTGCGAGTTACTATAA
*
21025971 -CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
21025994 TGAACGAGTA
Statistics
Matches: 92, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
77 1 0.01
78 51 0.55
79 29 0.32
80 11 0.12
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTATAA
Found at i:21026009 original size:40 final size:40
Alignment explanation
Indices: 21025812--21025995 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
21025802 TCGAATGATG
* * *
21025812 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
21025852 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
21025892 TCCGGGCTAAG-CCCGAAGGCA-TTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
21025930 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
21025971 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
21025996 AACGAGTAGC
Statistics
Matches: 130, Mismatches: 8, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
38 27 0.21
39 19 0.15
40 74 0.57
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:21026026 original size:118 final size:118
Alignment explanation
Indices: 21025812--21026028 Score: 271
Period size: 118 Copynumber: 1.8 Consensus size: 118
21025802 TCGAATGATG
*
21025812 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATAACCGGACTAAGATCCGAAGGCATTT
** *
21025877 GTGCGAGTTACTAAATCCGGGCTAAGCCCGAAGGCATTGTGCGAGTTACTAAA
66 GAACGAGTTACTAAATCCGGGCTAAACCCGAAGGCATTGTGCGAGTTACTAAA
* * * * *
21025930 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAACCGGACTAAGAT-CCGAAGGCAT
* *
21025993 TTGAACGAG-TAGCTATATCC-GGTTAAACTCCGAAGG
64 TTGAACGAGTTA-CTAAATCCGGGCTAAAC-CCGAAGG
21026029 TACGTGATTC
Statistics
Matches: 84, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
117 9 0.11
118 68 0.81
119 7 0.08
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (118 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGTTACTAAATCCGGGCTAAACCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:21034004 original size:39 final size:40
Alignment explanation
Indices: 21033903--21034087 Score: 175
Period size: 40 Copynumber: 4.7 Consensus size: 40
21033893 TCAAATGATG
* * *
21033903 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTTA-A
* *
21033943 TCCGGACTAAGAT-CCAAAGGCATTTGTGCGAGTTA-TTAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTTAA
* *
21033982 TCCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 T-CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTTAA
* * *
21034022 TCCGGGTTAAGTCCCCAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-TAA
* *
21034063 -CCGGGCTATGTCTCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
21034088 AACGAGTAGC
Statistics
Matches: 119, Mismatches: 18, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
39 31 0.26
40 78 0.66
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTTAA
Found at i:21034109 original size:79 final size:78
Alignment explanation
Indices: 21033959--21034110 Score: 175
Period size: 79 Copynumber: 1.9 Consensus size: 78
21033949 CTAAGATCCA
* **
21033959 AAGGCATTTGTGCGAGTTATTAATCCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATC
1 AAGGCATTTGTGCGAGCTATTAA-CCCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAATC
21034024 CGGGTTAAGTCCCC
65 CGGGTTAAGTCCCC
* * * *
21034038 AAGGCATTTGTGCGAGCTACTATAA-CCGGGCTATGTCTCGAAGGCATTTGAACGAG-TAGCTAT
1 AAGGCATTTGTGCGAGCTA-T-TAACCCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAA
21034101 ATCC-GGTTAA
62 ATCCGGGTTAA
21034111 ATTCCGAAGG
Statistics
Matches: 62, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
79 35 0.56
80 24 0.39
81 3 0.05
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (78 bp):
AAGGCATTTGTGCGAGCTATTAACCCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAATCC
GGGTTAAGTCCCC
Found at i:21038188 original size:42 final size:40
Alignment explanation
Indices: 21038072--21038192 Score: 125
Period size: 42 Copynumber: 2.9 Consensus size: 40
21038062 ACACATAGTA
* *
21038072 TCATATCAATGCCATATCCCAGATATGGCCTTACATGGGATC
1 TCATATCAATGCCATATCCCAGATATGGTCTTACA--CGATC
* * * *
21038114 TCGTATCAATGCCAATAGCCCAGCTGTGGTCTTACACGACTCC
1 TCATATCAATGCC-ATATCCCAGATATGGTCTTACACGA-T-C
**
21038157 TCATATTGATGCCATATCCCAGATATGGTCTTACAC
1 TCATATCAATGCCATATCCCAGATATGGTCTTACAC
21038193 ATAATCTCAA
Statistics
Matches: 64, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
41 2 0.03
42 33 0.52
43 29 0.45
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (40 bp):
TCATATCAATGCCATATCCCAGATATGGTCTTACACGATC
Found at i:21044410 original size:40 final size:40
Alignment explanation
Indices: 21044350--21044513 Score: 170
Period size: 40 Copynumber: 4.1 Consensus size: 40
21044340 CGGGATTCAA
* ** *
21044350 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
* *** *
21044390 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
21044430 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATTGCCTTCGGGTCTTAGC
* * * * *
21044470 CCGGATATAATC-ACTAGCATAAATGCCTTCGAGACTTAGC
1 CCGGATATAA-CAACTCGCACAATTGCCTTCGGGTCTTAGC
21044510 CCGG
1 CCGG
21044514 GTATCATTCA
Statistics
Matches: 104, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
39 2 0.02
40 99 0.95
41 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
Found at i:21044497 original size:80 final size:80
Alignment explanation
Indices: 21044350--21044513 Score: 195
Period size: 80 Copynumber: 2.0 Consensus size: 80
21044340 CGGGATTCAA
* * ** * *
21044350 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAATTG
1 CCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATG
* *
21044415 CCTTCGGGTCTTAGC
66 CCTTCGAGACTTAGC
** * * *
21044430 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAAT
1 CCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAAT
21044494 GCCTTCGAGACTTAGC
65 GCCTTCGAGACTTAGC
21044510 CCGG
1 CCGG
21044514 GTATCATTCA
Statistics
Matches: 70, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
80 68 0.97
81 2 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATG
CCTTCGAGACTTAGC
Found at i:21057936 original size:29 final size:29
Alignment explanation
Indices: 21057908--21058009 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
21057898 CCTCCGAGCT
** * * *
21057908 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
21057937 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
21057966 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
21057995 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
21058010 GATCTCGTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:21069433 original size:40 final size:40
Alignment explanation
Indices: 21069359--21069579 Score: 281
Period size: 40 Copynumber: 5.6 Consensus size: 40
21069349 AACCCAAGTA
* * *
21069359 CCTTCGGAATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
21069398 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
21069438 CCTTCGGGACTTAGCCCGGATATAG-CAACTCGCACAAACG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
21069478 CCTTCGGGACTTAGCCCAGG-TATAGTCAATAGCACAACTG
1 CCTTCGGGACTTAGCCC-GGATATAGTCACTAGCACAAATG
*
21069518 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-CATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
21069557 CCTTTGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
21069580 CATCCGAATA
Statistics
Matches: 160, Mismatches: 16, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
39 38 0.24
40 118 0.74
41 4 0.03
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:21073748 original size:47 final size:47
Alignment explanation
Indices: 21073694--21073887 Score: 271
Period size: 47 Copynumber: 4.1 Consensus size: 47
21073684 TTAGGATTTT
** * *
21073694 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
21073741 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATAGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
21073788 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * ** *
21073835 ATGTGGTGAATATGAACATGCATATATGTGGTAAAACCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
21073882 ATGTGA
1 ATGTGA
21073888 AATATGTATG
Statistics
Matches: 130, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 130 1.00
ACGTcount: A:0.34, C:0.11, G:0.28, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:21073769 original size:25 final size:25
Alignment explanation
Indices: 21073741--21073819 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 25
21073731 CGAATGGCCA
21073741 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
* * * *
21073766 ATGTGAT-AAGGCCGAATA-GC-CA-
1 ATGTGATGAATG-TGAACATGCATAT
*
21073788 ATGTGATGAATGTGAGCATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
*
21073813 GTGTGAT
1 ATGTGAT
21073820 AAGGCCGAAT
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 10 0.26
23 6 0.15
24 6 0.15
25 17 0.44
ACGTcount: A:0.33, C:0.10, G:0.28, T:0.29
Consensus pattern (25 bp):
ATGTGATGAATGTGAACATGCATAT
Found at i:21073923 original size:48 final size:48
Alignment explanation
Indices: 21073857--21074047 Score: 240
Period size: 48 Copynumber: 3.8 Consensus size: 48
21073847 TGAACATGCA
* *
21073857 TATATGTGGTAAAACCGAATGGCTAATGTGAAATATGTATGAGAAATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
21073905 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* * *
21073953 CATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG------A-A-ATATGTATGAGATATG
*
21074009 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
21074048 GGCGATGTGC
Statistics
Matches: 124, Mismatches: 9, Indels: 20
0.81 0.06 0.13
Matches are distributed among these distances:
47 1 0.01
48 78 0.63
49 1 0.01
50 1 0.01
54 1 0.01
55 1 0.01
56 40 0.32
57 1 0.01
ACGTcount: A:0.37, C:0.06, G:0.25, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:21074004 original size:56 final size:56
Alignment explanation
Indices: 21073937--21074044 Score: 164
Period size: 56 Copynumber: 1.9 Consensus size: 56
21073927 CTAATGTGAA
* *
21073937 ATATGTATGAGATATGCATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATAT
1 ATATATATGAGATATGCATATGTGGTAAAGCCGAATGGCT-AATGTGAAATATATAT
* *
21073993 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT
1 ATATATATGAGATATGCATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT
21074045 GTAGGCGATG
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
56 46 0.98
57 1 0.02
ACGTcount: A:0.37, C:0.06, G:0.24, T:0.33
Consensus pattern (56 bp):
ATATATATGAGATATGCATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATAT
Found at i:21074300 original size:37 final size:37
Alignment explanation
Indices: 21074192--21074300 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
21074182 GGAAATATAT
*
21074192 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
21074229 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
21074266 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
21074301 CGTCTGAGCT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:21075970 original size:40 final size:40
Alignment explanation
Indices: 21075569--21075958 Score: 681
Period size: 40 Copynumber: 9.8 Consensus size: 40
21075559 GAATTGAGAA
*
21075569 TGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
1 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
21075609 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
1 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
*
21075649 TGATGTATCCGGGCTAAGTCCTGAAGAGCATTCGTGCTAG
1 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
*
21075689 TGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAG
1 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
21075729 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
1 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
21075769 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
1 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
*
21075809 TGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAG
1 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
21075849 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
1 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
** * *
21075889 TGATGTATCCGAACTAAGTTCCGAAGAGCATTCGTGCTGG
1 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
* * *
21075929 TGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 TGATGTATCCGGGCTAAGTCCCGAAGAGCA
21075959 ATCATGCTGG
Statistics
Matches: 333, Mismatches: 17, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 333 1.00
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
Found at i:21080147 original size:47 final size:47
Alignment explanation
Indices: 21080093--21080286 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
21080083 TTAGGATTTT
** * *
21080093 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
21080140 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
21080187 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
21080234 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
21080281 ATGTGA
1 ATGTGA
21080287 AATATGTATG
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:21080193 original size:22 final size:22
Alignment explanation
Indices: 21080122--21080193 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
21080112 GTATATATGA
21080122 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
21080144 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
21080169 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
21080191 GAT
1 GAT
21080194 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:21080242 original size:25 final size:25
Alignment explanation
Indices: 21080167--21080242 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
21080157 ATGCATATAT
21080167 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
21080192 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
21080214 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
21080239 GTGA
1 GTGA
21080243 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:21080319 original size:48 final size:48
Alignment explanation
Indices: 21080256--21080446 Score: 249
Period size: 48 Copynumber: 3.8 Consensus size: 48
21080246 TGAACATGCA
*
21080256 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAAATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
21080304 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* * *
21080352 CATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG------A-A-ATATGTATGAGATATG
*
21080408 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
21080447 GGCGATGTGC
Statistics
Matches: 125, Mismatches: 8, Indels: 20
0.82 0.05 0.13
Matches are distributed among these distances:
47 1 0.01
48 79 0.63
49 1 0.01
50 1 0.01
54 1 0.01
55 1 0.01
56 40 0.32
57 1 0.01
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:21080403 original size:56 final size:56
Alignment explanation
Indices: 21080336--21080443 Score: 164
Period size: 56 Copynumber: 1.9 Consensus size: 56
21080326 CTAATGTGAA
* *
21080336 ATATGTATGAGATATGCATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATAT
1 ATATATATGAGATATGCATATGTGGTAAAGCCGAATGGCT-AATGTGAAATATATAT
* *
21080392 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT
1 ATATATATGAGATATGCATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT
21080444 GTAGGCGATG
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
56 46 0.98
57 1 0.02
ACGTcount: A:0.37, C:0.06, G:0.24, T:0.33
Consensus pattern (56 bp):
ATATATATGAGATATGCATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATAT
Found at i:21080700 original size:37 final size:37
Alignment explanation
Indices: 21080594--21080700 Score: 178
Period size: 37 Copynumber: 2.9 Consensus size: 37
21080584 AAATATATTT
*
21080594 CGGGTAAGACCCGATGACTACGTGTGGAGATTATGGC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGGC
*
21080631 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGGC
* *
21080668 CGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTT
21080701 CGTCTGAGCT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (37 bp):
CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGGC
Found at i:21085100 original size:29 final size:29
Alignment explanation
Indices: 21085066--21085143 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
21085056 GTGACGAGAT
* *
21085066 CGGCACTAAGTGTGCGTGCTGGAAATATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
* *
21085095 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
**
21085124 CGGCACTGGGTGTGCGAGCT
1 CGGCACTAAGTGTGCGAGCT
21085144 CGGAGGGTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.18, G:0.33, T:0.22
Consensus pattern (29 bp):
CGGCACTAAGTGTGCGAGCTGGAAAAATA
Found at i:21089152 original size:24 final size:24
Alignment explanation
Indices: 21089120--21089167 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
21089110 AAAATACAAT
21089120 TTAAAATTGTTAGGAACCATCACA
1 TTAAAATTGTTAGGAACCATCACA
21089144 TTAAAATTGTTAGGAACCATCACA
1 TTAAAATTGTTAGGAACCATCACA
21089168 CTATCAGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.29
Consensus pattern (24 bp):
TTAAAATTGTTAGGAACCATCACA
Found at i:21090768 original size:43 final size:42
Alignment explanation
Indices: 21090706--21090816 Score: 143
Period size: 43 Copynumber: 2.6 Consensus size: 42
21090696 TACCATACCA
* * *
21090706 ATGCCATATCCCAGATATGGTCTTACATGGGAT-CTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACA-CGAATCCTCATATCG
* * *
21090748 ATGCCAATAGCCCAGCTATGGTCTTACACGAATCCTCATATTG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAATCCTCATATCG
21090791 ATGCCATATCCCAGATATGGTCTTAC
1 ATGCCATATCCCAGATATGGTCTTAC
21090817 TGCAAACTGA
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
42 27 0.46
43 32 0.54
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAATCCTCATATCG
Found at i:21091590 original size:18 final size:17
Alignment explanation
Indices: 21091550--21091592 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
21091540 CACTTTTTCA
*
21091550 ATCATCCCTCATCCCTC
1 ATCATCCCTCATCACTC
*
21091567 ATTCATCCCTCACTCATTC
1 A-TCATCCCTCA-TCACTC
21091586 ATCATCC
1 ATCATCC
21091593 TCTCTCAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 1 0.05
18 16 0.73
19 5 0.23
ACGTcount: A:0.21, C:0.47, G:0.00, T:0.33
Consensus pattern (17 bp):
ATCATCCCTCATCACTC
Found at i:21110925 original size:23 final size:23
Alignment explanation
Indices: 21110891--21110936 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
21110881 CATCTTTGGA
*
21110891 ACTGATCAATCTATTTTTTATTC
1 ACTGATCAATCTATTATTTATTC
*
21110914 ACTGATCCATCTATTATTTATTC
1 ACTGATCAATCTATTATTTATTC
21110937 TAACTTATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.26, C:0.20, G:0.04, T:0.50
Consensus pattern (23 bp):
ACTGATCAATCTATTATTTATTC
Found at i:21113419 original size:17 final size:18
Alignment explanation
Indices: 21113387--21113420 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
21113377 TATTCTTCAT
*
21113387 TTTAATTTTCACAATTTA
1 TTTAATTTTCAAAATTTA
21113405 TTTAA-TTTCAAAATTT
1 TTTAATTTTCAAAATTT
21113421 CAATTCAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTAATTTTCAAAATTTA
Found at i:21119014 original size:5 final size:5
Alignment explanation
Indices: 21118991--21119057 Score: 54
Period size: 5 Copynumber: 14.0 Consensus size: 5
21118981 AGGCAACCCA
* *
21118991 ATTTT -TTTT A-TTA ATTTT ATTTT A-TTT ATTTT AATATTT A--TT ATTTC
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT -AT-TTT ATTTT ATTTT
*
21119038 ATTTT ATTTT ATTTC ATTTT
1 ATTTT ATTTT ATTTT ATTTT
21119058 TTGGATGTTG
Statistics
Matches: 49, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
3 3 0.06
4 11 0.22
5 29 0.59
6 3 0.06
7 3 0.06
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (5 bp):
ATTTT
Found at i:21119036 original size:15 final size:13
Alignment explanation
Indices: 21118991--21119045 Score: 58
Period size: 14 Copynumber: 4.0 Consensus size: 13
21118981 AGGCAACCCA
21118991 ATTTT-TTTTATT
1 ATTTTATTTTATT
21119003 AATTTTATTTTATTT
1 -ATTTTATTTTA-TT
21119018 ATTTTAATATTTATT
1 ATTTT-AT-TTTATT
*
21119033 ATTTCATTTTATT
1 ATTTTATTTTATT
21119046 TTATTTCATT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
13 11 0.30
14 12 0.32
15 10 0.27
16 4 0.11
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (13 bp):
ATTTTATTTTATT
Found at i:21120673 original size:20 final size:20
Alignment explanation
Indices: 21120648--21120686 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
21120638 ATTTATTTTC
21120648 ATTTATCTT-TAATCATCTTT
1 ATTTAT-TTGTAATCATCTTT
*
21120668 ATTTATTTGTAATTATCTT
1 ATTTATTTGTAATCATCTT
21120687 GTAGAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.26, C:0.10, G:0.03, T:0.62
Consensus pattern (20 bp):
ATTTATTTGTAATCATCTTT
Found at i:21121410 original size:17 final size:18
Alignment explanation
Indices: 21121382--21121415 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
21121372 TACTCTTCAT
21121382 TTTAATTTTCGCAATTTA
1 TTTAATTTTCGCAATTTA
21121400 TTTAA-TTTCGCAATTT
1 TTTAATTTTCGCAATTT
21121416 CAATTCAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.26, C:0.12, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTAATTTTCGCAATTTA
Found at i:21123177 original size:50 final size:48
Alignment explanation
Indices: 21123018--21123392 Score: 282
Period size: 50 Copynumber: 7.8 Consensus size: 48
21123008 TGACATGTGT
* *
21123018 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCA--CATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC-GGCATGGA-TATGAGA
* * *
21123064 GCCAGTGTAAGACCATGTCTGTGACATGGCATCGGCATGGAGATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGATATGAGA
* * * *
21123112 GCTAGTGTAAGACCATATCTGGGACATGGCATTGGCCTCGAGATATGAAA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-G-GATATGAGA
* * * *
21123162 GCTAGTGTAATACCATGTCTGGGACATGGCATCAGC-TTGATATGTG-
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGATATGAGA
* * ** *
21123208 TC-AGTGTAAGACCATGTCTGGGACATGGCATCAGCACCGACA-GATGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGATATGA-GA
* * * * *
21123255 GGACCAGTGTAAGTCCATGTCTGGGACATGGCATCAGCCTCGATATATGAGA
1 -G-CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-G-GATATGAGA
* * * * * * *
21123307 G-TCAGTGAAAGACCAAGTCTGGGACATGGCATCGACCTTGATGTGTGA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGATATGAGA
* * * * *
21123355 GCCAGTGTAAGACCATTTTTAGGACATGACATCGGCAT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
21123393 CTTACCCTAT
Statistics
Matches: 261, Mismatches: 51, Indels: 32
0.76 0.15 0.09
Matches are distributed among these distances:
45 33 0.13
46 16 0.06
47 22 0.08
48 78 0.30
49 4 0.02
50 101 0.39
51 1 0.00
52 4 0.02
53 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGATATGAGA
Found at i:21123232 original size:95 final size:94
Alignment explanation
Indices: 21123019--21123339 Score: 305
Period size: 95 Copynumber: 3.3 Consensus size: 94
21123009 GACATGTGTG
* * *
21123019 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCAC-ATTATGAGAGCCAGTGTAAGACCATG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCAGCC-CGAATATGAAAGCCAGTGTAATACCATG
* * * * *
21123081 TCTGTGACATGGCATCGGCATGGAGATGAGAG
65 TCTGGGACATGGCATCAGC-TCGATATGAG-T
* ** *
21123113 CTAGTGTAAGACCATATCTGGGACATGGCATTGGCCTCGAGATATGAAAGCTAGTGTAATACCAT
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCAGCC-CGA-ATATGAAAGCCAGTGTAATACCAT
* *
21123178 GTCTGGGACATGGCATCAGCTTGATATGTGT
64 GTCTGGGACATGGCATCAGCTCGATATGAGT
* *
21123209 C-AGTGTAAGACCATGTCTGGGACATGGCATCAGCACCGACAGATG-AGGACCAGTGTAAGT-CC
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCAGC-CCGA-ATATGAAAG-CCAGTGTAA-TACC
21123271 ATGTCTGGGACATGGCATCAGCCTCGATATATGAGAGT
62 ATGTCTGGGACATGGCATCAG-CTCG--ATAT--GAGT
* *
21123309 C-AGTGAAAGACCAAGTCTGGGACATGGCATC
1 CTAGTGTAAGACCATGTCTGGGACATGGCATC
21123340 GACCTTGATG
Statistics
Matches: 190, Mismatches: 25, Indels: 18
0.82 0.11 0.08
Matches are distributed among these distances:
94 13 0.07
95 81 0.43
96 14 0.07
97 8 0.04
98 42 0.22
100 32 0.17
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (94 bp):
CTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCCGAATATGAAAGCCAGTGTAATACCATGT
CTGGGACATGGCATCAGCTCGATATGAGT
Found at i:21123295 original size:145 final size:143
Alignment explanation
Indices: 21123018--21123370 Score: 399
Period size: 145 Copynumber: 2.4 Consensus size: 143
21123008 TGACATGTGT
*** *
21123018 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCACATTATGAGAGCCAGTGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCTTGA-TAT--GTGCCAGTGTAAGACCATG
* * * * * **
21123081 TCTGTGACATGGCATCGGCATGGAGATGAGAGCTAGTGTAAGACCATATCTGGGACATGGCATTG
63 TCTGGGACATGGCATCAGCACGCAGATGAGAGCCAGTGTAAGACCATATCTGGGACATGGCATCA
21123146 GCCTCGAGATATGAAA
128 GCCTCGAGATATGAAA
* *
21123162 GCTAGTGTAATACCATGTCTGGGACATGGCATCAGCTTGATATGTGTCAGTGTAAGACCATGTCT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCTTGATATGTGCCAGTGTAAGACCATGTCT
* *
21123227 GGGACATGGCATCAGCACCGACAGATGAG-GACCAGTGTAAGTCCATGTCTGGGACATGGCATCA
66 GGGACATGGCATCAGCA-CG-CAGATGAGAG-CCAGTGTAAGACCATATCTGGGACATGGCATCA
* *
21123291 GCCTCGATATATGAGA
128 GCCTCGAGATATGAAA
* * * *
21123307 G-TCAGTGAAAGACCAAGTCTGGGACATGGCATCGACCTTGATGTGTGAGCCAGTGTAAGACCAT
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATC-AGCTTGATATGT--GCCAGTGTAAGACCAT
21123371 TTTTAGGACA
Statistics
Matches: 177, Mismatches: 23, Indels: 14
0.83 0.11 0.07
Matches are distributed among these distances:
143 35 0.20
144 14 0.08
145 94 0.53
146 19 0.11
148 15 0.08
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (143 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCTTGATATGTGCCAGTGTAAGACCATGTCT
GGGACATGGCATCAGCACGCAGATGAGAGCCAGTGTAAGACCATATCTGGGACATGGCATCAGCC
TCGAGATATGAAA
Found at i:21126960 original size:24 final size:24
Alignment explanation
Indices: 21126933--21127095 Score: 272
Period size: 24 Copynumber: 6.8 Consensus size: 24
21126923 CTTATTATGT
**
21126933 TCGCACACATAGTGCCATAGCGAA
1 TCGCACACATAGTGCCATAGTAAA
21126957 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
21126981 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
**
21127005 TCGCACACATAGTGCCATAGTGGA
1 TCGCACACATAGTGCCATAGTAAA
**
21127029 TCGCACACATAGTGCCATAGTGGA
1 TCGCACACATAGTGCCATAGTAAA
21127053 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
21127077 TCGCACACATAGTGCCATA
1 TCGCACACATAGTGCCATA
21127096 TATTTCCAGC
Statistics
Matches: 133, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 133 1.00
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:21131859 original size:28 final size:28
Alignment explanation
Indices: 21131777--21131866 Score: 110
Period size: 29 Copynumber: 3.1 Consensus size: 28
21131767 TGAACATGAC
21131777 TATAAATGTGAATTGGGCCT-GATGGGCCA
1 TATAAATGTG-ATTGGGCCTAG-TGGGCCA
* * *
21131806 TATAAATATGATTTGGGCCTAATGGGCTA
1 TATAAATGTGA-TTGGGCCTAGTGGGCCA
*
21131835 TATAAACGTGATTGGGCCTAGTGGGCCA
1 TATAAATGTGATTGGGCCTAGTGGGCCA
21131863 TATA
1 TATA
21131867 CAAGTATGTG
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
28 20 0.38
29 32 0.62
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.30
Consensus pattern (28 bp):
TATAAATGTGATTGGGCCTAGTGGGCCA
Found at i:21145887 original size:32 final size:32
Alignment explanation
Indices: 21145841--21145904 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
21145831 GAACCTGAGG
* *
21145841 ACTAAATGCATCAATAGTATCCTTATTTGTTC
1 ACTAAATGCATCAATAGTATCCTCATCTGTTC
*
21145873 ACTAAATGCGTCAATAGTATCCTCATCTGTTC
1 ACTAAATGCATCAATAGTATCCTCATCTGTTC
21145905 TGATCAGGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.38
Consensus pattern (32 bp):
ACTAAATGCATCAATAGTATCCTCATCTGTTC
Found at i:21148475 original size:49 final size:49
Alignment explanation
Indices: 21148401--21148611 Score: 318
Period size: 49 Copynumber: 4.3 Consensus size: 49
21148391 CCCTTCGGGA
* * * * *
21148401 CTTATCACAT-T-TATACACTTCCACATCCATCACGTTGGCCACTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21148448 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
21148497 CTTATCACATATATACACACTTTCACATTCGTCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
21148546 CTTATCACATATATACACACTTTCACATTCGTCACATTGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21148595 CTTATCACATATATATA
1 CTTATCACATATATATA
21148612 TCTCATACAT
Statistics
Matches: 153, Mismatches: 9, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
47 10 0.07
48 1 0.01
49 142 0.93
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:21152949 original size:46 final size:45
Alignment explanation
Indices: 21152899--21153069 Score: 168
Period size: 46 Copynumber: 3.7 Consensus size: 45
21152889 GACAAGAGCT
* *
21152899 AGTGTAAGA-CATGTCTAGGACATGTATCGGCCTCGAGACGTCAGCC
1 AGTGTAAGACCATGTCTAGGACATGCATCGG-CTCGAGATGT-AGCC
* * *
21152945 AGTGTAAGA-CATGACTAGGACATGCATCGGCTACGAGATGATGGTC
1 AGTGTAAGACCATGTCTAGGACATGCATCGGCT-CGAGATG-TAGCC
* * * *
21152991 AATGTAAGACCATGTCTGGGACATGGCATCGGCT-TAGATATGAGCC
1 AGTGTAAGACCATGTCTAGGACAT-GCATCGGCTCGAGATGT-AGCC
*
21153037 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGACCATGTCTAGGACAT-GCATCGGC
21153070 ACCTTACCCA
Statistics
Matches: 107, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
45 3 0.03
46 82 0.77
47 13 0.12
48 9 0.08
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.22
Consensus pattern (45 bp):
AGTGTAAGACCATGTCTAGGACATGCATCGGCTCGAGATGTAGCC
Found at i:21153013 original size:93 final size:93
Alignment explanation
Indices: 21152901--21153069 Score: 218
Period size: 93 Copynumber: 1.8 Consensus size: 93
21152891 CAAGAGCTAG
* *
21152901 TGTAAGACATGTCTAGGACAT-GTATCGGCCTCGAGACGTCAGCCAGTGTAAGA-CATGACTAGG
1 TGTAAGACATGTCTAGGACATGGCATCGG-CT-GAGACATCAGCCAGTGTAAGACCATGACTAGG
21152964 ACAT-GCATCGGCTACGAGATGATGGTCAA
64 ACATGGCATCGGCTACGAGATGATGGTCAA
* * * * * *
21152993 TGTAAGACCATGTCTGGGACATGGCATCGGCTTAGATATGAGCCAGTGTAAGACCATGTCTGGGA
1 TGTAAGA-CATGTCTAGGACATGGCATCGGCTGAGACATCAGCCAGTGTAAGACCATGACTAGGA
21153058 CATGGCATCGGC
65 CATGGCATCGGC
21153070 ACCTTACCCA
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
92 24 0.37
93 27 0.42
94 14 0.22
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (93 bp):
TGTAAGACATGTCTAGGACATGGCATCGGCTGAGACATCAGCCAGTGTAAGACCATGACTAGGAC
ATGGCATCGGCTACGAGATGATGGTCAA
Found at i:21157060 original size:16 final size:16
Alignment explanation
Indices: 21157039--21157077 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
21157029 CCCAATACAA
21157039 ACCCAAATAAACCTAG
1 ACCCAAATAAACCTAG
*
21157055 ACCCAAATAAATCTAG
1 ACCCAAATAAACCTAG
21157071 ACCCAAA
1 ACCCAAA
21157078 ATTGCATCGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.51, C:0.31, G:0.05, T:0.13
Consensus pattern (16 bp):
ACCCAAATAAACCTAG
Found at i:21158804 original size:25 final size:26
Alignment explanation
Indices: 21158775--21158830 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 26
21158765 ATATTTTTTC
21158775 ATATAATTGTTTTTAAAT-TATT-TAT
1 ATATAA-TGTTTTTAAATCTATTATAT
* *
21158800 ATAT-ATGTTTTTTAATCTATTATGT
1 ATATAATGTTTTTAAATCTATTATAT
21158825 ATATAA
1 ATATAA
21158831 CTTATTTCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.38
24 5 0.19
25 10 0.38
26 1 0.04
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (26 bp):
ATATAATGTTTTTAAATCTATTATAT
Found at i:21163367 original size:93 final size:94
Alignment explanation
Indices: 21163200--21163423 Score: 246
Period size: 93 Copynumber: 2.4 Consensus size: 94
21163190 ACATTATGAG
* ** * *
21163200 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGG-TATTGAGA-CAAGAG-CTAGTGTAAAAC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTA-CAAGATGATG-GTC-AGTGTAAAAC
* *
21163262 ATGTCTGAGACAT-GCATCGGCCTCGAGATGTA
63 ATGTCTGAGACATGGCATC-GACTCGAGATATA
*
21163294 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACAAGATGATGGTCAGTGTAAGACCAT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACAAGATGATGGTCAGTGTAA-AACAT
* *
21163357 GTCT-AGGACATGGCATCGACTTGAGATATG
65 GTCTGA-GACATGGCATCGACTCGAGATATA
*
21163387 AGCCAGTGTAAGACCATGTCTGGGACTTGGCATCGGC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
21163424 ACCTTACCCA
Statistics
Matches: 111, Mismatches: 11, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
92 19 0.17
93 53 0.48
94 31 0.28
95 8 0.07
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (94 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACAAGATGATGGTCAGTGTAAAACATG
TCTGAGACATGGCATCGACTCGAGATATA
Found at i:21163394 original size:47 final size:47
Alignment explanation
Indices: 21163199--21163421 Score: 208
Period size: 47 Copynumber: 4.8 Consensus size: 47
21163189 CACATTATGA
* * *
21163199 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGTA-TTGAGACAA
1 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATC-G-ACTCGAGATAT
* * * *
21163247 GAGCTAGTGTAA-AACATGTCT-GAGACAT-GCATCGGCCTCGAGATGT
1 GAGCCAGTGTAAGACCATGTCTAG-GACATGGCATC-GACTCGAGATAT
* * * *
21163293 AAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACAAGATGAT
1 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACT-CGAGAT-AT
* *
21163340 G-GTCAGTGTAAGACCATGTCTAGGACATGGCATCGACTTGAGATAT
1 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACTCGAGATAT
* *
21163386 GAGCCAGTGTAAGACCATGTCTGGGACTTGGCATCG
1 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCG
21163422 GCACCTTACC
Statistics
Matches: 145, Mismatches: 21, Indels: 19
0.78 0.11 0.10
Matches are distributed among these distances:
45 3 0.02
46 59 0.41
47 64 0.44
48 19 0.13
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (47 bp):
GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACTCGAGATAT
Found at i:21163406 original size:140 final size:141
Alignment explanation
Indices: 21163154--21163423 Score: 359
Period size: 140 Copynumber: 1.9 Consensus size: 141
21163144 TTTGTTTGTG
* **
21163154 AGCCAGTGTAAGGCATGTCTGGGACATACATCAACCACATTATGAGAGCCAGTGTAAGACCATGT
1 AGCCAGTGTAAGACATGTCTGGGACATACATCAACCACAAGATGAGAGCCAGTGTAAGACCATGT
*
21163219 CTAGGACATGGCATCGGTATTGAGACAAGAGCTAGTGTAAAACATGTCTGAGACAT-GCATCGGC
66 CTAGGACATGGCATCGGTATTGAGACAAGAGCCAGTGTAAAACATGTCTGAGACATGGCATCGGC
21163283 CTCGAGATGTA
131 CTCGAGATGTA
* ** * *
21163294 AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGATGATG-GTCAGTGTAAGACCATG
1 AGCCAGTGTAAGACATGTCTGGGACATACATCAACCACAAGATGA-GAGCCAGTGTAAGACCATG
* * * * *
21163358 TCTAGGACATGGCATC-G-ACTTGAGATATGAGCCAGTGTAAGACCATGTCTGGGACTTGGCATC
65 TCTAGGACATGGCATCGGTA-TTGAGACAAGAGCCAGTGTAA-AACATGTCTGAGACATGGCATC
21163421 GGC
128 GGC
21163424 ACCTTACCCA
Statistics
Matches: 112, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
138 1 0.01
139 19 0.17
140 83 0.74
141 9 0.08
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (141 bp):
AGCCAGTGTAAGACATGTCTGGGACATACATCAACCACAAGATGAGAGCCAGTGTAAGACCATGT
CTAGGACATGGCATCGGTATTGAGACAAGAGCCAGTGTAAAACATGTCTGAGACATGGCATCGGC
CTCGAGATGTA
Found at i:21173338 original size:42 final size:42
Alignment explanation
Indices: 21173226--21173380 Score: 204
Period size: 42 Copynumber: 3.7 Consensus size: 42
21173216 TACCATACTA
* *
21173226 ATGCCATATCCCAGATATGGTCTTACATGTAA-TCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACG-AAGTCTCATATCG
* * * *
21173268 ATGCCAATAGCCCTGCTATGGTCTTACACGAAGTCTCATGTCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
* *
21173311 ATGCCATATCCCATATATGGTCTTACACGAAGTCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
*
21173353 ATGTCATATCCCAGATATGGTCTTACAC
1 ATGCCATATCCCAGATATGGTCTTACAC
21173381 ATAATCTCAG
Statistics
Matches: 97, Mismatches: 14, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
42 64 0.66
43 33 0.34
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
Found at i:21182776 original size:39 final size:40
Alignment explanation
Indices: 21182681--21182871 Score: 194
Period size: 40 Copynumber: 4.8 Consensus size: 40
21182671 TCGAATGATG
* * *
21182681 TCCGGGCTAAGTCCCGAAGGC-TT-GTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
* * *
21182720 TCCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
21182760 TCCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
21182799 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTA-AA
** * *
21182840 -CCGGGCTTTGTCCCGAAGGCATTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGT
21182872 CGTTATATCC
Statistics
Matches: 126, Mismatches: 20, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
39 50 0.40
40 70 0.56
41 6 0.05
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:21182816 original size:79 final size:82
Alignment explanation
Indices: 21182681--21182864 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
21182671 TCGAATGATG
* * *
21182681 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
21182744 CGTGCGAGTTAATA-AA
66 CGTGCGAGTTAATATAA
* **
21182760 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
21182822 TCGTGCGAGTTACTATAA
65 TCGTGCGAGTTAATATAA
**
21182840 -CCGGGCTTTGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
21182865 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
78 10 0.11
79 59 0.65
80 22 0.24
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTAATATAA
Found at i:21182886 original size:79 final size:79
Alignment explanation
Indices: 21182733--21182899 Score: 194
Period size: 79 Copynumber: 2.1 Consensus size: 79
21182723 GGACTAGGAT
* *
21182733 CCGAAGGCATTCGTGCGAGTTAATAAATCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAA
1 CCGAAGGCATTCGTGCGAGTTAATAAATCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAA
*
21182798 ACCCGGGTTAAGTC
66 ACCCGGGTTAAATC
* ** * **
21182812 CCGAAGGCATTCGTGCGAGTTACTATAA-CCGGGCTTTGTCCCGAAGGCATTTGAGCGAGTCGTT
1 CCGAAGGCATTCGTGCGAGTTAATA-AATCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACT
* * *
21182876 ATATCC-GGTTAAATT
64 AAACCCGGGTTAAATC
21182891 CCGAAGGCA
1 CCGAAGGCA
21182900 CGTGATTCGA
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
79 48 0.65
80 26 0.35
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTCGTGCGAGTTAATAAATCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAA
ACCCGGGTTAAATC
Done.