Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 60 of 292
Found at i:17801173 original size:7 final size:7
Alignment explanation
Indices: 17801161--17801185 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
17801151 TCACTCATTT
17801161 TCTTTTC
1 TCTTTTC
17801168 TCTTTTC
1 TCTTTTC
17801175 TCTTTTC
1 TCTTTTC
17801182 TCTT
1 TCTT
17801186 AATATTGTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (7 bp):
TCTTTTC
Found at i:17802221 original size:8 final size:8
Alignment explanation
Indices: 17802210--17802238 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
17802200 GAAAATGTGA
17802210 ACATGTTT
1 ACATGTTT
17802218 ACATGTTT
1 ACATGTTT
17802226 ACATGTTT
1 ACATGTTT
17802234 ACATG
1 ACATG
17802239 CAAATGTGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.45
Consensus pattern (8 bp):
ACATGTTT
Found at i:17806830 original size:79 final size:79
Alignment explanation
Indices: 17806739--17806898 Score: 302
Period size: 79 Copynumber: 2.0 Consensus size: 79
17806729 ACCGCTATAC
17806739 TATAAGTTCCTAGTCAAGCATATGACCTGTAGACAGATTTTTGGTAGTTTCTAAATGTTTGGTCA
1 TATAAGTTCCTAGTCAAGCATATGACCTGTAGACAGATTTTTGGTAGTTTCTAAATGTTTGGTCA
17806804 TCTAGGCAGATTCT
66 TCTAGGCAGATTCT
* *
17806818 TATAAGTTCCTAGTCGAGCATATGACCTGTTGACAGATTTTTGGTAGTTTCTAAATGTTTGGTCA
1 TATAAGTTCCTAGTCAAGCATATGACCTGTAGACAGATTTTTGGTAGTTTCTAAATGTTTGGTCA
17806883 TCTAGGCAGATTCT
66 TCTAGGCAGATTCT
17806897 TA
1 TA
17806899 CTTAACCATT
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
79 79 1.00
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.39
Consensus pattern (79 bp):
TATAAGTTCCTAGTCAAGCATATGACCTGTAGACAGATTTTTGGTAGTTTCTAAATGTTTGGTCA
TCTAGGCAGATTCT
Found at i:17809933 original size:147 final size:147
Alignment explanation
Indices: 17809666--17809937 Score: 341
Period size: 147 Copynumber: 1.9 Consensus size: 147
17809656 CATTTCATCT
* * *
17809666 CATTTCAAACCTTGATGCTCGAACACAACAATGTCCCCTCCACAAGGCCCGGAGCTTCACATATC
1 CATTTCAAACATTGATGCTCGAACACAACAATATCACCTCCACAAGGCCCGGAGCTTCACATATC
* * * * **** ** *
17809731 ATGGTTTGTACCTAGCAATACTGGATTGTGGAATCTAATGAAAATTCCATTTCCCTATCCCTCGG
66 ACGGTTTGAACCTAGCAAGACCGGATTCCAAAATCTAACAAAAACTCCATTTCCCTATCCCTCGG
17809796 CCTATTCCTCCATTTGC
131 CCTATTCCTCCATTTGC
* * * * *
17809813 CATTTCTAACATTGATGCTTGAACATC-ACAATATCACCTCTACAAGGTCTGGAGCTTCACATAT
1 CATTTCAAACATTGATGCTCGAACA-CAACAATATCACCTCCACAAGGCCCGGAGCTTCACATAT
17809877 CACGGTTTGCAACC-AGCAAGACCGGATTCCAAAATCTAACAAAAACTCCATTTCCCTATCC
65 CACGGTTTG-AACCTAGCAAGACCGGATTCCAAAATCTAACAAAAACTCCATTTCCCTATCC
17809938 ATCTCATCAA
Statistics
Matches: 104, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
147 100 0.96
148 4 0.04
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.28
Consensus pattern (147 bp):
CATTTCAAACATTGATGCTCGAACACAACAATATCACCTCCACAAGGCCCGGAGCTTCACATATC
ACGGTTTGAACCTAGCAAGACCGGATTCCAAAATCTAACAAAAACTCCATTTCCCTATCCCTCGG
CCTATTCCTCCATTTGC
Found at i:17810355 original size:20 final size:20
Alignment explanation
Indices: 17810330--17810375 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 20
17810320 AGAAAAATAA
17810330 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
*
17810350 TTTCT-GAAAATGGTTTACT
1 TTTCTGGAAAATGATTTACT
17810369 TTTCTGG
1 TTTCTGG
17810376 TGTTTGGATG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.24, C:0.11, G:0.17, T:0.48
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:17810435 original size:32 final size:33
Alignment explanation
Indices: 17810368--17810435 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
17810358 AATGGTTTAC
*
17810368 TTTTCTGGTGTTTGGATGAATTTGTGTAAAATA
1 TTTTCTGGTGTTTGGATGAATTTCTGTAAAATA
* *
17810401 TTTTCTGTTGTTTGG-TAGATTTTCT-TAAAATA
1 TTTTCTGGTGTTTGGAT-GAATTTCTGTAAAATA
17810433 TTT
1 TTT
17810436 CATAAAAGCT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
32 11 0.35
33 20 0.65
ACGTcount: A:0.22, C:0.04, G:0.19, T:0.54
Consensus pattern (33 bp):
TTTTCTGGTGTTTGGATGAATTTCTGTAAAATA
Found at i:17813748 original size:46 final size:46
Alignment explanation
Indices: 17813580--17813755 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 46
17813570 TGTAACCCGC
* * *
17813580 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * * * *
17813626 CCATAGGTGAACTCGGACTCAACTCAACGAGTTTAGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAG-TTCG--GAC-A-TTCGCAT
* *
17813676 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
17813719 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
17813756 TGCTCAACCT
Statistics
Matches: 103, Mismatches: 18, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 59 0.57
47 25 0.24
48 1 0.01
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:17813758 original size:93 final size:93
Alignment explanation
Indices: 17813587--17813758 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
17813577 CGCCCATAAG
* * * *
17813587 CGAACTCGGACTCAACTCAATGAGCTCGGGCATTCGCATCCATAGGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
*
17813652 ACGAGTTTAGATGCCTAGTTACATTTCA
66 ACGAGTTCAGATGCCTAGTTACATTTCA
*
17813680 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
*
17813745 ACGAGTTCGGATGC
66 ACGAGTTCAGATGC
17813759 TCAACCTGTG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
ACGAGTTCAGATGCCTAGTTACATTTCA
Found at i:17815604 original size:40 final size:40
Alignment explanation
Indices: 17815549--17815712 Score: 179
Period size: 40 Copynumber: 4.1 Consensus size: 40
17815539 TGAATGATAC
* * * *
17815549 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTAAAT
* *
17815589 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTAAAT
* * **
17815629 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTAAAT
* * *
17815669 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTAAAT
17815709 CCGG
1 CCGG
17815713 TTAAATCCCG
Statistics
Matches: 104, Mismatches: 16, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
39 3 0.03
40 96 0.92
41 5 0.05
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTAAAT
Found at i:17818470 original size:39 final size:40
Alignment explanation
Indices: 17818393--17818472 Score: 110
Period size: 39 Copynumber: 2.0 Consensus size: 40
17818383 AACCATAAAC
*
17818393 AGTCTAAGCTTCAATTGCAATATTCTCCATACACATTATG
1 AGTCTAAGCTTCAAGTGCAATATTCTCCATACACATTATG
* *
17818433 AGTCTGAA-CTTCAAGTGCAA-ATTCTCTATACAGATTATG
1 AGTCT-AAGCTTCAAGTGCAATATTCTCCATACACATTATG
17818472 A
1 A
17818473 AAGCATATCA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
39 18 0.50
40 16 0.44
41 2 0.06
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (40 bp):
AGTCTAAGCTTCAAGTGCAATATTCTCCATACACATTATG
Found at i:17820876 original size:40 final size:40
Alignment explanation
Indices: 17820831--17820969 Score: 158
Period size: 40 Copynumber: 3.5 Consensus size: 40
17820821 GGATATAACG
*
17820831 ACTCGCTCAAATGCCTTCGGGAC-AAAGCCC-GGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTAAA-CCCGGGTT-TAGTA
* *
17820871 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTAAACCCGGGTTTAGTA
* * * *
17820911 ACTCGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAATGCCTTCGGGACTAAACCCGGGTTTAGTA
* *
17820950 ACTCGCACGAACGCCTTCGG
1 ACTCGCACAAATGCCTTCGG
17820970 ATCTTAGTCC
Statistics
Matches: 88, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 33 0.38
40 49 0.56
41 6 0.07
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTAAACCCGGGTTTAGTA
Found at i:17820952 original size:79 final size:81
Alignment explanation
Indices: 17820831--17821022 Score: 223
Period size: 79 Copynumber: 2.4 Consensus size: 81
17820821 GGATATAACG
* ** *
17820831 ACTCGCTCAAATGCCTTCGGGACAAAGCCCGG-TTATAGTAACTCGCACGAATGCCTTCGGGA-C
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAACGCCTTC-GGATC
* *
17820894 TTAACCCGGGTTTAGTA
65 TTAACCCGGATATAGTA
*
17820911 ACTCGCACAAATGCCTTCGGG-CTTAGCCCGGATT-TATTAACTCGCACGAACGCCTTCGGATCT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAACGCCTTCGGATCT
** *
17820974 TAGTCCGGATATAGTC
66 TAACCCGGATATAGTA
**
17820990 ACTTAACACAAA-GCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
17821023 CATCATTCAA
Statistics
Matches: 96, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 53 0.55
80 40 0.42
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (81 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAACGCCTTCGGATCT
TAACCCGGATATAGTA
Found at i:17840059 original size:17 final size:18
Alignment explanation
Indices: 17840037--17840072 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
17840027 TATAGTTTGA
*
17840037 TATTCG-GTTATTTGAAT
1 TATTCGAGTTATTCGAAT
17840054 TATTCGAGTTATTCGAAT
1 TATTCGAGTTATTCGAAT
17840072 T
1 T
17840073 TGAAAACTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.25, C:0.08, G:0.17, T:0.50
Consensus pattern (18 bp):
TATTCGAGTTATTCGAAT
Found at i:17848373 original size:40 final size:39
Alignment explanation
Indices: 17848307--17848457 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
17848297 AAATTGAATG
* * *
17848307 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GGTAATT
* * ***
17848346 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GGTAATT
*
17848386 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCG-GTAATT
* *
17848426 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
17848458 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
39 16 0.17
40 74 0.80
41 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGGTAATT
Found at i:17848471 original size:40 final size:39
Alignment explanation
Indices: 17848344--17848473 Score: 161
Period size: 40 Copynumber: 3.3 Consensus size: 39
17848334 ATGCTGGAAA
* *
17848344 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-TGG
* * * **
17848384 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATGG
*
17848424 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA-ATGG
17848464 TTATATCCGG
1 TTATATCCGG
17848474 TTATATTCCG
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
39 1 0.01
40 72 0.97
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATGG
Found at i:17853946 original size:46 final size:46
Alignment explanation
Indices: 17853879--17854052 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 46
17853869 GTAACCCGCC
17853879 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATT
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATT
*
17853925 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACA-T
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCATT
* * * ** * *
17853974 C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATC
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATT
*
17854018 CATAAGTGAACTCGAACTCAACTCAACGAGCTCGG
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
17854053 ATGCCCAAAT
Statistics
Matches: 105, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 2 0.02
44 2 0.02
45 2 0.02
46 60 0.57
47 26 0.25
48 3 0.03
49 3 0.03
50 2 0.02
51 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATT
Found at i:17853998 original size:93 final size:93
Alignment explanation
Indices: 17853886--17854057 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
17853876 GCCCATAAGT
** * * *
17853886 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATTCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
17853951 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
*
17853979 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
17854044 CGAGCTCGGATGCC
66 CGAGCTCGGATGCC
17854058 CAAATATTCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:17859703 original size:47 final size:46
Alignment explanation
Indices: 17859584--17859757 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
17859574 GGGATATTTG
*
17859584 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGA
* * *
17859631 -GCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATG---CGA
*
17859677 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGA
* * *
17859724 -AC-GCCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
17859758 TATGGGCGGG
Statistics
Matches: 109, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
43 4 0.04
45 32 0.29
46 34 0.31
47 33 0.30
48 2 0.02
50 4 0.04
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGA
Found at i:17859751 original size:45 final size:46
Alignment explanation
Indices: 17859588--17859762 Score: 225
Period size: 45 Copynumber: 3.8 Consensus size: 46
17859578 TATTTGGGCA
*
17859588 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
17859634 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
17859679 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*
17859727 -CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
17859763 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 8, Indels: 19
0.81 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 38 0.34
46 29 0.26
47 29 0.26
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:17863993 original size:19 final size:19
Alignment explanation
Indices: 17863964--17864006 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
17863954 ATATGGGTAT
*
17863964 AATAA-TTCTAGTCCTCAA
1 AATAACTTCTAGACCTCAA
17863982 AATAACTTCTAGACCTCAA
1 AATAACTTCTAGACCTCAA
17864001 AATAAC
1 AATAAC
17864007 CCATACAGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.44, C:0.23, G:0.05, T:0.28
Consensus pattern (19 bp):
AATAACTTCTAGACCTCAA
Found at i:17865931 original size:42 final size:41
Alignment explanation
Indices: 17865815--17865934 Score: 109
Period size: 43 Copynumber: 2.9 Consensus size: 41
17865805 GTTTGAGACA
* * * *
17865815 TCGTGTAAGACCGTGTTTGGGACATAGGCCTCGATTGAGATT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGATT-AGATT
* *
17865857 TACATATAAGACCATGTCTGGGACATCA-GCATCGTATCT-GATT
1 T-CGTGTAAGACCATGTCTGGGACA-CAGGCATCG-AT-TAGATT
* *
17865900 TCGTGTAAGACCCTGTCTGGGACAGAGGCATCGAT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGAT
17865935 ATTGAATTAC
Statistics
Matches: 63, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
41 3 0.05
42 27 0.43
43 29 0.46
44 3 0.05
45 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (41 bp):
TCGTGTAAGACCATGTCTGGGACACAGGCATCGATTAGATT
Found at i:17866385 original size:13 final size:13
Alignment explanation
Indices: 17866367--17866396 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
17866357 TTCTGAAAGT
*
17866367 GTATTTTTGTTAA
1 GTATTTTTCTTAA
17866380 GTATTTTTCTTAA
1 GTATTTTTCTTAA
17866393 GTAT
1 GTAT
17866397 GGCGTGTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.23, C:0.03, G:0.13, T:0.60
Consensus pattern (13 bp):
GTATTTTTCTTAA
Found at i:17872131 original size:46 final size:45
Alignment explanation
Indices: 17872064--17872331 Score: 176
Period size: 46 Copynumber: 5.8 Consensus size: 45
17872054 TGTAACCCGC
* *
17872064 CCATAAGTGAACTCAGACTCAACTCAAGGAGCTCGGGCGTTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCG-AT
*
17872110 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGATGCCTAGTTAC-AT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTT-CGAT
* * *
17872160 CTCA-AA---AACTCGGACTCAACTCAACGAGTTCGGACGTTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCG-AT
*
17872203 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTAC-AT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTT-CGAT
* * * ** *
17872253 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCG-AT
* * * *
17872296 CCATAAGTGATCTCGGACTCAAGTCAATGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
17872332 ATGCCCAAAT
Statistics
Matches: 178, Mismatches: 20, Indels: 48
0.72 0.08 0.20
Matches are distributed among these distances:
41 1 0.01
42 7 0.04
43 7 0.04
44 3 0.02
45 2 0.01
46 84 0.47
47 52 0.29
48 3 0.02
49 3 0.02
50 7 0.04
51 8 0.04
52 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGAT
Found at i:17872177 original size:93 final size:93
Alignment explanation
Indices: 17872073--17872336 Score: 393
Period size: 93 Copynumber: 2.8 Consensus size: 93
17872063 CCCATAAGTG
* * * * *
17872073 AACTCAGACTCAACTCAAGGAGCTCGGGCGTTCGTATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
* *
17872138 AAGCTCGGATGCCTAGTTACATCTCAAA
66 GAGTTCGGATGCCTAGTTACATCTCAAA
*
17872166 AACTCGGACTCAACTCAACGAGTTCGGACGTTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
**
17872231 GAGTTCGGATGCCTAGTTACATCTCACG
66 GAGTTCGGATGCCTAGTTACATCTCAAA
* * * * *
17872259 AACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGATCTCGGACTCAAGTCAAT
1 AACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
17872324 GAGTTCGGATGCC
66 GAGTTCGGATGCC
17872337 CAAATATCTG
Statistics
Matches: 155, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 155 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAAA
Found at i:17872182 original size:47 final size:47
Alignment explanation
Indices: 17872119--17872284 Score: 207
Period size: 47 Copynumber: 3.6 Consensus size: 47
17872109 TCCATAAGTG
* *
17872119 AACTCGGACTCAACTCAACAAGCTCGGATGCCTAGTTACATCTCAAA
1 AACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAAA
* *
17872166 AACTCGGACTCAACTCAACGAGTTCGGA--CGT--TTGCATC-CATAA
1 AACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCA-AA
**
17872209 GTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACG
1 ---AACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAAA
17872259 AACTCGGACTCAACTCAACGAGTTCG
1 AACTCGGACTCAACTCAACGAGTTCG
17872285 AACATTCGCA
Statistics
Matches: 102, Mismatches: 8, Indels: 18
0.80 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 8 0.08
45 2 0.02
46 28 0.27
47 52 0.51
48 2 0.02
50 6 0.06
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (47 bp):
AACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAAA
Found at i:17875393 original size:28 final size:28
Alignment explanation
Indices: 17875357--17875415 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
17875347 TAGAGGTATA
17875357 TCGGTAATTTTGCTCTTTAGGGGTAATT
1 TCGGTAATTTTGCTCTTTAGGGGTAATT
17875385 TCGGTAATTTTGCTCTTTAGGGGTAATT
1 TCGGTAATTTTGCTCTTTAGGGGTAATT
17875413 TCG
1 TCG
17875416 TGATCTACGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.17, C:0.12, G:0.25, T:0.46
Consensus pattern (28 bp):
TCGGTAATTTTGCTCTTTAGGGGTAATT
Found at i:17876108 original size:27 final size:27
Alignment explanation
Indices: 17876078--17876149 Score: 108
Period size: 27 Copynumber: 2.7 Consensus size: 27
17876068 TTTACCCTAT
*
17876078 AGGGGTATTTTAGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
* *
17876105 AGGGGTATTTTGGTGATTTTATAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
*
17876132 AAGGGTATTTTGGTAATT
1 AGGGGTATTTTGGTAATT
17876150 CTGTAAATTG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.29, C:0.07, G:0.24, T:0.40
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACC
Found at i:17876163 original size:27 final size:27
Alignment explanation
Indices: 17876133--17876203 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
17876123 TTATAAACCA
* *
17876133 AGGGTATTTTGGTAATTCTGTAAATTG
1 AGGGTAATTTGGTAATTCTGTAAATCG
***
17876160 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAATTTGGTAATTCTGTAAATCG
*
17876187 -GGAGTACTTTGGTAATT
1 AGG-GTAATTTGGTAATT
17876204 TTACAAGTCG
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
26 2 0.06
27 32 0.94
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (27 bp):
AGGGTAATTTGGTAATTCTGTAAATCG
Found at i:17879464 original size:28 final size:28
Alignment explanation
Indices: 17879432--17879490 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
17879422 CTAGAGTATA
17879432 TCGGTAATTTTGCTCTTTAGGGGTAATT
1 TCGGTAATTTTGCTCTTTAGGGGTAATT
17879460 TCGGTAATTTTGCTCTTTAGGGGTAATT
1 TCGGTAATTTTGCTCTTTAGGGGTAATT
17879488 TCG
1 TCG
17879491 TGATCTACGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.17, C:0.12, G:0.25, T:0.46
Consensus pattern (28 bp):
TCGGTAATTTTGCTCTTTAGGGGTAATT
Found at i:17880140 original size:26 final size:27
Alignment explanation
Indices: 17880111--17880171 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 27
17880101 GGGCAAAATG
*
17880111 GTAATTTTACCCCACA-AGGTATTTCA
1 GTAATTTTACCCCACAGAGGCATTTCA
* * *
17880137 GTAATTTTACCCTACAGGGGCATTTTA
1 GTAATTTTACCCCACAGAGGCATTTCA
17880164 GTAATTTT
1 GTAATTTT
17880172 TCAAACCATG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 15 0.50
27 15 0.50
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (27 bp):
GTAATTTTACCCCACAGAGGCATTTCA
Found at i:17880225 original size:81 final size:81
Alignment explanation
Indices: 17880128--17880277 Score: 205
Period size: 81 Copynumber: 1.9 Consensus size: 81
17880118 TACCCCACAA
** *
17880128 GGTATTTCAGTAATTTTACCCTA-CAGGGGCATTTTAGTAATTTT-TCAAACCATGGGTATTTTG
1 GGTATTTCAGTAATTTTA-CAAACCAGGGGCATTTTAGTAATTTTAT-AAACCAAGGGTATTTTG
17880191 GTAATTTTATAAACAAAG
64 GTAATTTTATAAACAAAG
* * * *
17880209 GGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGT
1 GGTATTTCAGTAATTTTACAAACCAGGGGCATTTTAGTAATTTTATAAACCAAGGGTATTTTGGT
17880274 AATT
66 AATT
17880278 CTGTAAATTA
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
80 2 0.03
81 57 0.95
82 1 0.02
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (81 bp):
GGTATTTCAGTAATTTTACAAACCAGGGGCATTTTAGTAATTTTATAAACCAAGGGTATTTTGGT
AATTTTATAAACAAAG
Found at i:17880293 original size:27 final size:27
Alignment explanation
Indices: 17880158--17880277 Score: 161
Period size: 27 Copynumber: 4.4 Consensus size: 27
17880148 CTACAGGGGC
* *
17880158 ATTTTAGTAATTTT-TCAAACCATGGGT
1 ATTTTGGTAATTTTAT-AAACCAAGGGT
*
17880185 ATTTTGGTAATTTTATAAACAAAGGGT
1 ATTTTGGTAATTTTATAAACCAAGGGT
* * *
17880212 ATTTTAGTAATTTTACAAACCAGGGGT
1 ATTTTGGTAATTTTATAAACCAAGGGT
*
17880239 ATTTTGGTGATTTTATAAACCAAGGGT
1 ATTTTGGTAATTTTATAAACCAAGGGT
17880266 ATTTTGGTAATT
1 ATTTTGGTAATT
17880278 CTGTAAATTA
Statistics
Matches: 80, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
27 79 0.99
28 1 0.01
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.42
Consensus pattern (27 bp):
ATTTTGGTAATTTTATAAACCAAGGGT
Found at i:17880303 original size:81 final size:81
Alignment explanation
Indices: 17880151--17880304 Score: 175
Period size: 81 Copynumber: 1.9 Consensus size: 81
17880141 TTTTACCCTA
* * ***
17880151 CAGGGGCATTTTAGTAATTTTTCAAACCATGGGTATTTTGGTAATTTTATAAACAAAGGGTATTT
1 CAGGGGCATTTTAGTAATTTTTCAAACCAAGGGTATTTTGGTAATTCTATAAACAAAGGGTAAAA
*
17880216 TAGTAATTTTACAAAC
66 CAGTAATTTTACAAAC
* * * * **
17880232 CAGGGGTATTTTGGTGATTTTAT-AAACCAAGGGTATTTTGGTAATTCTGTAAATTAAGGGTAAA
1 CAGGGGCATTTTAGTAATTTT-TCAAACCAAGGGTATTTTGGTAATTCTATAAACAAAGGGTAAA
*
17880296 ACGGTAATT
65 ACAGTAATT
17880305 CTGTAAATCG
Statistics
Matches: 59, Mismatches: 13, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
81 58 0.98
82 1 0.02
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.38
Consensus pattern (81 bp):
CAGGGGCATTTTAGTAATTTTTCAAACCAAGGGTATTTTGGTAATTCTATAAACAAAGGGTAAAA
CAGTAATTTTACAAAC
Found at i:17881816 original size:30 final size:30
Alignment explanation
Indices: 17881772--17881840 Score: 97
Period size: 30 Copynumber: 2.3 Consensus size: 30
17881762 TAAAGATAAC
*
17881772 AAGAAAACC-GAATAAAGAAATCCA-AGATA
1 AAGAAACCCAGAATAAAGAAATCCAGA-ATA
*
17881801 GAGAAACCCAGAATAAAGAAATCCAGAATA
1 AAGAAACCCAGAATAAAGAAATCCAGAATA
17881831 AAGAAACCCA
1 AAGAAACCCA
17881841 AGATATGATA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
29 7 0.20
30 27 0.77
31 1 0.03
ACGTcount: A:0.59, C:0.17, G:0.14, T:0.09
Consensus pattern (30 bp):
AAGAAACCCAGAATAAAGAAATCCAGAATA
Found at i:17881820 original size:15 final size:15
Alignment explanation
Indices: 17881772--17881840 Score: 79
Period size: 15 Copynumber: 4.7 Consensus size: 15
17881762 TAAAGATAAC
*
17881772 AAGAAAACC-GAATA
1 AAGAAACCCAGAATA
*
17881786 AAGAAATCCA-AGATA
1 AAGAAACCCAGA-ATA
*
17881801 GAGAAACCCAGAATA
1 AAGAAACCCAGAATA
*
17881816 AAGAAATCCAGAATA
1 AAGAAACCCAGAATA
17881831 AAGAAACCCA
1 AAGAAACCCA
17881841 AGATATGATA
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
14 9 0.20
15 36 0.78
16 1 0.02
ACGTcount: A:0.59, C:0.17, G:0.14, T:0.09
Consensus pattern (15 bp):
AAGAAACCCAGAATA
Found at i:17884920 original size:47 final size:47
Alignment explanation
Indices: 17884803--17884921 Score: 166
Period size: 47 Copynumber: 2.5 Consensus size: 47
17884793 TCCATCAGTG
* * **
17884803 AACTCGGGCTCAACTCAACGAGCTCAGATGCCTAGTTACATCTCATG
1 AACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATCTCACA
* **
17884850 AACTCAGACTCAACTCAACGAGTTGGGATGCCTAGTTACATCTCACA
1 AACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATCTCACA
*
17884897 AACTCGGACTCAACTCAATGAGTTC
1 AACTCGGACTCAACTCAACGAGTTC
17884922 GGACGTTCGC
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 62 1.00
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.24
Consensus pattern (47 bp):
AACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATCTCACA
Found at i:17892802 original size:20 final size:19
Alignment explanation
Indices: 17892774--17892811 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
17892764 TTTTAAAGAC
*
17892774 TTTACTTTATTTTTATTTG
1 TTTACTTTATCTTTATTTG
17892793 TTTACTTTTATCTTTATTT
1 TTTAC-TTTATCTTTATTT
17892812 ACCTTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.16, C:0.08, G:0.03, T:0.74
Consensus pattern (19 bp):
TTTACTTTATCTTTATTTG
Found at i:17900962 original size:2 final size:2
Alignment explanation
Indices: 17900955--17900984 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
17900945 ATTATAACGA
*
17900955 AT AT AT AT AT AT AT AT AC AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17900985 TAATCTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:17902650 original size:43 final size:44
Alignment explanation
Indices: 17902589--17902705 Score: 116
Period size: 44 Copynumber: 2.7 Consensus size: 44
17902579 CAACGCCAAC
* *
17902589 GTCCCAGACGTGGTCTTACATGT-AATCACATATCGATGCCATT
1 GTCCCAGACGTGGTCTTACACGTAAATCACAAATCGATGCCATT
* * *
17902632 GTCCCAGACAG-GGTCTTACACGTAAATCACAAATTGATGCTAACT
1 GTCCCAGAC-GTGGTCTTACACGTAAATCACAAATCGATGC-CATT
** *
17902677 -TCCCAGGTGTGGTCTTACAC-AAAATCACA
1 GTCCCAGACGTGGTCTTACACGTAAATCACA
17902706 TATCAGAATC
Statistics
Matches: 62, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
43 29 0.47
44 31 0.50
45 2 0.03
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (44 bp):
GTCCCAGACGTGGTCTTACACGTAAATCACAAATCGATGCCATT
Found at i:17906134 original size:40 final size:40
Alignment explanation
Indices: 17906043--17906205 Score: 190
Period size: 40 Copynumber: 4.1 Consensus size: 40
17906033 ACCCAATTAT
* * *
17906043 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAATCACTAGCACAAATGC
*
17906081 CTTCGGGTCTTAGCCCGGATATAATCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAATCACTAGCACAAATGC
*
17906121 CTTCGGGTCTTAGCCCGGATAT-AGCAACTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCACAAATGC
* * * * *
17906161 CTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAATCACTAGCACAAATGC
17906201 CTTCG
1 CTTCG
17906206 TGTAACACCC
Statistics
Matches: 108, Mismatches: 12, Indels: 8
0.84 0.09 0.06
Matches are distributed among these distances:
37 1 0.01
38 11 0.10
39 19 0.18
40 76 0.70
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAATCACTAGCACAAATGC
Found at i:17907703 original size:39 final size:39
Alignment explanation
Indices: 17907622--17907784 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
17907612 TATGGTAACC
* *
17907622 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
17907662 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
17907701 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
17907740 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
17907779 CGCACA
1 CGCACA
17907785 TTCATACACA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:17915624 original size:39 final size:39
Alignment explanation
Indices: 17915543--17915705 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
17915533 TATGGTAACC
* *
17915543 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
17915583 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
17915622 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
17915661 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
17915700 CGCACA
1 CGCACA
17915706 TTCATACACA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:17924246 original size:36 final size:36
Alignment explanation
Indices: 17924199--17924271 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
17924189 AAAGGGTAAG
17924199 TACATAAGTGTTTGGATTTGGAAATTTAAGAGCAAA
1 TACATAAGTGTTTGGATTTGGAAATTTAAGAGCAAA
17924235 TACATAAGTGTTTGGATTTGGAAATTTAAGAGCAAA
1 TACATAAGTGTTTGGATTTGGAAATTTAAGAGCAAA
17924271 T
1 T
17924272 TGTAATAATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.38, C:0.05, G:0.22, T:0.34
Consensus pattern (36 bp):
TACATAAGTGTTTGGATTTGGAAATTTAAGAGCAAA
Found at i:17924992 original size:48 final size:48
Alignment explanation
Indices: 17924921--17925026 Score: 176
Period size: 48 Copynumber: 2.2 Consensus size: 48
17924911 CAAGATAAAT
* * *
17924921 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
17924969 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
17925017 ATGTGTATAT
1 ATATGTATAT
17925027 ATTGTGGCCG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.34, C:0.06, G:0.27, T:0.33
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:17925210 original size:37 final size:37
Alignment explanation
Indices: 17925160--17925231 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
17925150 GAAATATATT
*
17925160 CCGGGTAAGACCCGATGGCTACGTGTGGAGATTATGC
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGC
*
17925197 CCGGGTAAGACCCGATGACTACGTGTGGGGATTAT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
17925232 TCGAGCTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.22, C:0.21, G:0.35, T:0.22
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGC
Found at i:17926993 original size:42 final size:43
Alignment explanation
Indices: 17926921--17927136 Score: 319
Period size: 42 Copynumber: 4.9 Consensus size: 43
17926911 TGCATAAACT
*
17926921 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
1 CGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
* *
17926964 TGGTGATATGTATTC-GGCCTTCGTGCCTAGCAGGCTTCGTAC
1 CGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
17927006 CGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGACTTCGTGACTTCGTGC
1 CGGTGATATGTATTCGGGCCTTCGTGCCTAGC--A----G-G-CTTCGTGC
17927057 CGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
1 CGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
17927100 CGGTGATATGTATTCGGG-CTTCGTGCCTAGCAGGCTT
1 CGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTT
17927137 AATACCGATG
Statistics
Matches: 159, Mismatches: 5, Indels: 19
0.87 0.03 0.10
Matches are distributed among these distances:
42 59 0.37
43 55 0.35
44 1 0.01
45 2 0.01
49 2 0.01
50 1 0.01
51 39 0.25
ACGTcount: A:0.12, C:0.25, G:0.31, T:0.31
Consensus pattern (43 bp):
CGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
Found at i:17927074 original size:51 final size:45
Alignment explanation
Indices: 17926921--17927132 Score: 287
Period size: 43 Copynumber: 4.8 Consensus size: 45
17926911 TGCATAAACT
*
17926921 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGC--AGGCTTCGTGC
1 CGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGAGGCTTCGTGC
* *
17926964 TGGTGATATGTATTC-GGCCTTCGTGCCTAGC--AGGCTTCGTAC
1 CGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGAGGCTTCGTGC
17927006 CGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGACTTCGTGACTTCGTGC
1 CGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGA----G-G-CTTCGTGC
17927057 CGGTGATATGTATTCGGGCCTTCGTGCCTAGC--AGGCTTCGTGC
1 CGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGAGGCTTCGTGC
17927100 CGGTGATATGTATTCGGG-CTTCGTGCCTAGCAG
1 CGGTGATATGTATTCGGGCCTTCGTGCCTAGCAG
17927133 GCTTAATACC
Statistics
Matches: 153, Mismatches: 5, Indels: 21
0.85 0.03 0.12
Matches are distributed among these distances:
42 53 0.35
43 55 0.36
44 1 0.01
45 2 0.01
49 2 0.01
50 1 0.01
51 39 0.25
ACGTcount: A:0.13, C:0.25, G:0.32, T:0.31
Consensus pattern (45 bp):
CGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGAGGCTTCGTGC
Found at i:17927080 original size:27 final size:27
Alignment explanation
Indices: 17926998--17927084 Score: 85
Period size: 27 Copynumber: 3.3 Consensus size: 27
17926988 GCCTAGCAGG
*
17926998 CTTCGTACCGGTGATATGTATTCGGGC
1 CTTCGTGCCGGTGATATGTATTCGGGC
* * *
17927025 CTTCGTGCC--T-AGCA-G-ACTTCGTGA
1 CTTCGTGCCGGTGA-TATGTA-TTCGGGC
17927049 CTTCGTGCCGGTGATATGTATTCGGGC
1 CTTCGTGCCGGTGATATGTATTCGGGC
17927076 CTTCGTGCC
1 CTTCGTGCC
17927085 TAGCAGGCTT
Statistics
Matches: 46, Mismatches: 7, Indels: 14
0.69 0.10 0.21
Matches are distributed among these distances:
23 1 0.02
24 16 0.35
25 2 0.04
26 2 0.04
27 24 0.52
28 1 0.02
ACGTcount: A:0.13, C:0.26, G:0.29, T:0.32
Consensus pattern (27 bp):
CTTCGTGCCGGTGATATGTATTCGGGC
Found at i:17927116 original size:94 final size:92
Alignment explanation
Indices: 17926956--17927132 Score: 318
Period size: 94 Copynumber: 1.9 Consensus size: 92
17926946 GCCTAGCAGG
*
17926956 CTTCGTGCTGGTGATATGTATTCGGCCTTCGTGCCTAGCAGGCTTCGTACCGGTGATATGTATTC
1 CTTCGTGCCGGTGATATGTATTCGGCCTTCGTGCCTAGCAGGCTTCGTACCGGTGATATGTATTC
17927021 GGGCCTTCGTGCCTAGCAGACTTCGTGA
66 GGG-CTTCGTGCCTAGCAGACTTCGTGA
*
17927049 CTTCGTGCCGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATATGTATT
1 CTTCGTGCCGGTGATATGTATTC-GGCCTTCGTGCCTAGCAGGCTTCGTACCGGTGATATGTATT
17927114 CGGGCTTCGTGCCTAGCAG
65 CGGGCTTCGTGCCTAGCAG
17927133 GCTTAATACC
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
93 37 0.46
94 44 0.54
ACGTcount: A:0.13, C:0.25, G:0.31, T:0.32
Consensus pattern (92 bp):
CTTCGTGCCGGTGATATGTATTCGGCCTTCGTGCCTAGCAGGCTTCGTACCGGTGATATGTATTC
GGGCTTCGTGCCTAGCAGACTTCGTGA
Found at i:17930867 original size:48 final size:48
Alignment explanation
Indices: 17930803--17930908 Score: 158
Period size: 48 Copynumber: 2.2 Consensus size: 48
17930793 CAAGATAAAT
* * * * *
17930803 ATATATATGTGTGGTAAAGCTGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATAAG
17930851 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATAAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATAAG
*
17930899 ATGTGTATAT
1 ATATGTATAT
17930909 ATTGTGGCCA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.35, C:0.05, G:0.26, T:0.34
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATAAG
Found at i:17931101 original size:37 final size:37
Alignment explanation
Indices: 17931042--17931113 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
17931032 GAAATATATT
* *
17931042 CCGGGTAAGACCTGATGGCTACGTATGGAGATTATGC
1 CCGGGTAAGACCCGATGACTACGTATGGAGATTATGC
* *
17931079 CCGGGTAAGACCCGATGACTACGTGTGGGGATTAT
1 CCGGGTAAGACCCGATGACTACGTATGGAGATTAT
17931114 TCGAGCTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.24, C:0.19, G:0.33, T:0.24
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTATGGAGATTATGC
Found at i:17934071 original size:54 final size:54
Alignment explanation
Indices: 17933878--17934139 Score: 323
Period size: 54 Copynumber: 4.9 Consensus size: 54
17933868 TTTTCTTTTT
* * * * * *
17933878 GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-
1 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATA
* * *
17933931 GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACAT--TTGCCTTATA
1 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACAT--GATATCCTTGCCTTATA
* * * * *
17933985 GTAACTCATCAATGCCATGTCTTGACATGGTCTTAAATGATTTCCTTGCCTTATA
1 G-AACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATA
* *
17934040 AAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATTTCCTTGCCTTATA
1 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATA
*
17934094 GAACTTATCAATACCATGCCTTGGCATGGTCTTACATGATATCCTT
1 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTT
17934140 ATCTTACCAA
Statistics
Matches: 182, Mismatches: 21, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
53 44 0.24
54 93 0.51
55 45 0.25
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (54 bp):
GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATA
Found at i:17934218 original size:47 final size:47
Alignment explanation
Indices: 17934119--17934326 Score: 169
Period size: 47 Copynumber: 4.5 Consensus size: 47
17934109 ATGCCTTGGC
* * *** *
17934119 ATGGTCTTACATGATATCCTTATCTTA--CCAAATGCCATGTTCCAAAC
1 ATGGTCTTACATGGTATCCTTACCTTATGCC-AATGCCATG-TCTTGAT
* *
17934166 ATGGTCTTACATGGTATCCTTACCTTAGTGCCAATG-CATATTTTGAT
1 ATGGTCTTACATGGTATCCTTACCTTA-TGCCAATGCCATGTCTTGAT
* * * * *
17934213 GTGGTCTTACATGG-AGCCCTTA-ATCAATGCCGATGCCATGTCTTGAT
1 ATGGTCTTACATGGTA-TCCTTACCT-TATGCCAATGCCATGTCTTGAT
* * * *
17934260 ATGGTCTTACACGGGATCCTTGCCTTA--CCAATGCCATGTCTTGAC
1 ATGGTCTTACATGGTATCCTTACCTTATGCCAATGCCATGTCTTGAT
17934305 ATGGTCTTACATGGTATCCTTA
1 ATGGTCTTACATGGTATCCTTA
17934327 ACCGTCAATT
Statistics
Matches: 127, Mismatches: 26, Indels: 18
0.74 0.15 0.11
Matches are distributed among these distances:
45 35 0.28
46 9 0.07
47 72 0.57
48 5 0.04
49 4 0.03
50 2 0.02
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.35
Consensus pattern (47 bp):
ATGGTCTTACATGGTATCCTTACCTTATGCCAATGCCATGTCTTGAT
Found at i:17934380 original size:44 final size:44
Alignment explanation
Indices: 17934331--17934415 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
17934321 TCCTTAACCG
* *
17934331 TCAATTCCTCCTTAAATGCCATGTTATGAA-CATGGACTTTTCCA
1 TCAATTCCTCCTTAAATGCCATGGTA-CAACCATGGACTTTTCCA
* * *
17934375 TCAATTCTTCCTTAATTTCCATGGTACAACCATGGACTTTT
1 TCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTTT
17934416 GAGAAATCAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 2 0.06
44 33 0.94
ACGTcount: A:0.26, C:0.25, G:0.11, T:0.39
Consensus pattern (44 bp):
TCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTTTCCA
Found at i:17946027 original size:22 final size:22
Alignment explanation
Indices: 17945963--17946051 Score: 97
Period size: 22 Copynumber: 4.0 Consensus size: 22
17945953 ATAAGTCAAT
*
17945963 AGGAAGGCTCAACGCCATAGAC
1 AGGATGGCTCAACGCCATAGAC
*
17945985 AAGATGGCTCAACGCCATAGAC
1 AGGATGGCTCAACGCCATAGAC
* * *
17946007 AGGATGGCTCAACACCGTAGAT
1 AGGATGGCTCAACGCCATAGAC
** * *
17946029 AGGACAGTTCAACGCCGTAGAC
1 AGGATGGCTCAACGCCATAGAC
17946051 A
1 A
17946052 TCACAGCAAT
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 56 1.00
ACGTcount: A:0.35, C:0.26, G:0.26, T:0.13
Consensus pattern (22 bp):
AGGATGGCTCAACGCCATAGAC
Found at i:17969983 original size:27 final size:27
Alignment explanation
Indices: 17969886--17969967 Score: 85
Period size: 27 Copynumber: 3.0 Consensus size: 27
17969876 TATAGGCCAT
* *
17969886 CAGGACAATAAACACGAGGTA-ATCTAC
1 CAGGACAATAAACACGGGGTAGTTC-AC
** * *
17969913 TGGGACAATAAGCACGGGGTAGTTCGC
1 CAGGACAATAAACACGGGGTAGTTCAC
*
17969940 CAGGACAATAAACACGGGGTTGTTCAC
1 CAGGACAATAAACACGGGGTAGTTCAC
17969967 C
1 C
17969968 GGGCCAGTAA
Statistics
Matches: 43, Mismatches: 11, Indels: 2
0.77 0.20 0.04
Matches are distributed among these distances:
27 41 0.95
28 2 0.05
ACGTcount: A:0.34, C:0.22, G:0.27, T:0.17
Consensus pattern (27 bp):
CAGGACAATAAACACGGGGTAGTTCAC
Found at i:17970003 original size:27 final size:27
Alignment explanation
Indices: 17969973--17970035 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
17969963 TCACCGGGCC
*
17969973 AGTAACCACGGCATAGCCCATCGAGAT
1 AGTAAACACGGCATAGCCCATCGAGAT
* ** *
17970000 AGTAAACATGGGGTAGCCCATTGAGAT
1 AGTAAACACGGCATAGCCCATCGAGAT
17970027 AGTAAACAC
1 AGTAAACAC
17970036 AGGGTGTCCA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (27 bp):
AGTAAACACGGCATAGCCCATCGAGAT
Found at i:17970053 original size:26 final size:27
Alignment explanation
Indices: 17969986--17970061 Score: 100
Period size: 27 Copynumber: 2.9 Consensus size: 27
17969976 AACCACGGCA
* **
17969986 TAGCCCATCGAGATAGTAAACATGGGG
1 TAGCCCATTGAGATAGTAAACACAGGG
17970013 TAGCCCATTGAGATAGTAAACACAGGG
1 TAGCCCATTGAGATAGTAAACACAGGG
* *
17970040 T-GTCCATTGGGATAGTAAACAC
1 TAGCCCATTGAGATAGTAAACAC
17970062 TGGTTTGCAC
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
26 19 0.43
27 25 0.57
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.21
Consensus pattern (27 bp):
TAGCCCATTGAGATAGTAAACACAGGG
Found at i:17971441 original size:46 final size:44
Alignment explanation
Indices: 17971383--17971498 Score: 151
Period size: 44 Copynumber: 2.6 Consensus size: 44
17971373 GACAGGACAG
* *
17971383 GACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGA
1 GACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGA
* *
17971429 GACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGA
* **
17971473 GACAGGAATAATTCATGTAAGTCCAT
1 GACAGGAATGAGCCATGTAAGTCCAT
17971499 GTCAAAGACA
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.56
46 27 0.44
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
GACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGA
Found at i:17971479 original size:44 final size:45
Alignment explanation
Indices: 17971383--17971517 Score: 155
Period size: 46 Copynumber: 3.0 Consensus size: 45
17971373 GACAGGACAG
* *
17971383 GACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGA
1 GACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGA
* *
17971429 GACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGA
* ** * * *
17971473 GACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 GACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
17971518 CAGGATATTG
Statistics
Matches: 75, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.48
45 1 0.01
46 38 0.51
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
GACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGA
Found at i:17978811 original size:46 final size:44
Alignment explanation
Indices: 17978752--17978866 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
17978742 ACAGGACAGA
* *
17978752 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
17978798 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
17978842 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
17978867 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:17978847 original size:44 final size:45
Alignment explanation
Indices: 17978752--17978885 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
17978742 ACAGGACAGA
* *
17978752 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
17978798 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
17978842 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
17978886 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:17982719 original size:49 final size:49
Alignment explanation
Indices: 17982662--17982946 Score: 479
Period size: 49 Copynumber: 5.9 Consensus size: 49
17982652 TGTATGGATG
*
17982662 TATATATGTGATACGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
17982711 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG--
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
17982758 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
17982807 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAG--
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
17982854 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
17982903 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
17982947 TATATGTGTG
Statistics
Matches: 224, Mismatches: 8, Indels: 8
0.93 0.03 0.03
Matches are distributed among these distances:
47 89 0.40
49 135 0.60
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.29
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:17982744 original size:22 final size:22
Alignment explanation
Indices: 17982716--17982791 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
17982706 GTGTATATAT
17982716 ATGTGATAAGGCCTAATGGCCA
1 ATGTGATAAGGCCTAATGGCCA
* *** ***
17982738 ATGTGATGAATGTGAAAGTGTATA
1 ATGTGAT-AAGGCCTAA-TGGCCA
17982762 TATGTGATAAGGCCTAATGGCCA
1 -ATGTGATAAGGCCTAATGGCCA
17982785 ATGTGAT
1 ATGTGAT
17982792 GAATGTGAAA
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 14 0.38
23 8 0.22
24 8 0.22
25 7 0.19
ACGTcount: A:0.33, C:0.11, G:0.28, T:0.29
Consensus pattern (22 bp):
ATGTGATAAGGCCTAATGGCCA
Found at i:17982824 original size:96 final size:96
Alignment explanation
Indices: 17982660--17982946 Score: 511
Period size: 96 Copynumber: 3.0 Consensus size: 96
17982650 TATGTATGGA
*
17982660 TGTATATATGTGATACGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAA
1 TGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAA
17982725 GGCCTAATGGCCAATGTGATGAATGTGAAAG
66 GGCCTAATGGCCAATGTGATGAATGTGAAAG
* *
17982756 TGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATACATGTGATAA
1 TGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAA
17982821 GGCCTAATGGCCAATGTGATGAATGTGAAAG
66 GGCCTAATGGCCAATGTGATGAATGTGAAAG
* * *
17982852 AGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTATATATATGTGATAA
1 TGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAA
*
17982917 GGCCTAATGGCCGATGTGATGAATGTGAAA
66 GGCCTAATGGCCAATGTGATGAATGTGAAA
17982947 TATATGTGTG
Statistics
Matches: 182, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
96 182 1.00
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.29
Consensus pattern (96 bp):
TGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAA
GGCCTAATGGCCAATGTGATGAATGTGAAAG
Found at i:17982995 original size:48 final size:48
Alignment explanation
Indices: 17982938--17983041 Score: 199
Period size: 48 Copynumber: 2.2 Consensus size: 48
17982928 CGATGTGATG
17982938 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
*
17982986 AATGTGAAATATATGTGTGATATGTATGTGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
17983034 AATGTGAA
1 AATGTGAA
17983042 TGTTGTAACA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 55 1.00
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.33
Consensus pattern (48 bp):
AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
Found at i:17983135 original size:37 final size:37
Alignment explanation
Indices: 17983081--17983208 Score: 238
Period size: 37 Copynumber: 3.4 Consensus size: 37
17983071 AACTTGGAAA
*
17983081 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGTAAGACCCGATGACTACGTGTGGAGAT
17983119 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
17983156 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
17983193 TATGTCCGGGTAAGAC
1 TATGTCCGGGTAAGAC
17983209 TTCGTAATAA
Statistics
Matches: 89, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
37 85 0.96
38 4 0.04
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (37 bp):
TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
Found at i:17985158 original size:40 final size:40
Alignment explanation
Indices: 17985112--17985412 Score: 308
Period size: 40 Copynumber: 7.5 Consensus size: 40
17985102 TGAATGATAC
**
17985112 CCGGGCTAAGTCCCGAAG-GCATTTATGCTAGTGAATATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG-ATATAT
* * * *
17985152 CCGGGCTAAGACCCGAAG-GCATTTGTG-TGAGTTGTTATAC
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AG-TGATATAT
* * * *
17985192 CCGGGTTAAGACCCGAAG-GCAATT-GTGCTTGTGGTTATAT
1 CCGGGCTAAGTCCCGAAGAGC-ATTCGTGCTAGT-GATATAT
* * *
17985232 CC-GGCTAAATTCCGAAGAGCATTCGTGCTAATGATATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
* * *
17985271 CCGGGCTAAATTCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
* * *
17985311 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
* * *
17985351 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
*
17985391 CCGGGCTAGGTCCCGAAGAGCA
1 CCGGGCTAAGTCCCGAAGAGCA
17985413 ATCATGCTGG
Statistics
Matches: 232, Mismatches: 21, Indels: 16
0.86 0.08 0.06
Matches are distributed among these distances:
39 24 0.10
40 202 0.87
41 6 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
Found at i:17989247 original size:49 final size:49
Alignment explanation
Indices: 17989189--17989569 Score: 648
Period size: 49 Copynumber: 7.9 Consensus size: 49
17989179 GTATGAGATG
*
17989189 TATATATGTGATACGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
17989238 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
17989287 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
17989336 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAG--
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
17989383 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
17989432 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAG--
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
17989479 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAG-GTG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
17989526 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
17989570 TATATGTGTG
Statistics
Matches: 318, Mismatches: 9, Indels: 11
0.94 0.03 0.03
Matches are distributed among these distances:
45 1 0.00
46 3 0.01
47 125 0.39
48 2 0.01
49 187 0.59
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.29
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:17989413 original size:96 final size:96
Alignment explanation
Indices: 17989188--17989569 Score: 678
Period size: 96 Copynumber: 4.0 Consensus size: 96
17989178 TGTATGAGAT
* *
17989188 GTATATATGTGATACGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
1 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATAAG
*
17989253 GCCTAATGGCCAATGTGATGAATGTGAAAGT
66 GCCTAATGGCCAATGTGATGAATGTGAAAGA
17989284 GTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATA
1 G--TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATA
17989349 AGGCCTAATGGCCAATGTGATGAATGTGAAAGA
64 AGGCCTAATGGCCAATGTGATGAATGTGAAAGA
17989382 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATAAG
1 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATAAG
17989447 GCCTAATGGCCAATGTGATGAATGTGAAAGA
66 GCCTAATGGCCAATGTGATGAATGTGAAAGA
* *
17989478 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTATAT--ATGTGATAAG
1 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATAAG
*
17989541 GCCTAATGGCCGATGTGATGAATGTGAAA
66 GCCTAATGGCCAATGTGATGAATGTGAAA
17989570 TATATGTGTG
Statistics
Matches: 278, Mismatches: 6, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
94 38 0.14
96 147 0.53
98 93 0.33
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.29
Consensus pattern (96 bp):
GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATAAG
GCCTAATGGCCAATGTGATGAATGTGAAAGA
Found at i:17989618 original size:48 final size:48
Alignment explanation
Indices: 17989561--17989664 Score: 199
Period size: 48 Copynumber: 2.2 Consensus size: 48
17989551 CGATGTGATG
17989561 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
*
17989609 AATGTGAAATATATGTGTGATATGTATGTGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
17989657 AATGTGAA
1 AATGTGAA
17989665 TGTTGTAACA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 55 1.00
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.33
Consensus pattern (48 bp):
AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
Found at i:17989758 original size:37 final size:37
Alignment explanation
Indices: 17989704--17989831 Score: 238
Period size: 37 Copynumber: 3.4 Consensus size: 37
17989694 AACTTGGAAA
*
17989704 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGTAAGACCCGATGACTACGTGTGGAGAT
17989742 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
17989779 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
17989816 TATGTCCGGGTAAGAC
1 TATGTCCGGGTAAGAC
17989832 TTCGTAATAA
Statistics
Matches: 89, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
37 85 0.96
38 4 0.04
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (37 bp):
TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
Found at i:17995872 original size:40 final size:40
Alignment explanation
Indices: 17995706--17995890 Score: 189
Period size: 40 Copynumber: 4.6 Consensus size: 40
17995696 TTCGAATGAT
* * *
17995706 ATCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAA
1 ATCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAA
* * *
17995746 ATCCGGACTAAGAT-CCGACGGCATACGTGCGAGTTACTAA
1 ATCCGGGCTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAA
* * * *
17995786 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGCGAGCTACTAA
1 ATCCGGGCTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAA
* *
17995826 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTGTA
1 ATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACT-AA
*
17995867 A-CCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATT
17995891 TGAATGTGTA
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 1 0.01
40 113 0.93
41 8 0.07
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTAA
Found at i:17998372 original size:37 final size:36
Alignment explanation
Indices: 17998327--17998402 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
17998317 ATTCCAAAAA
*
17998327 TAATTTTATTTTAATAGT-TTGATATTAAATTTAAT-T
1 TAATTTTATCTTAATAGTATT-ATATT-AATTTAATAT
*
17998363 TAATATTTATCTTAATAGTATTTTATTAATTTAATAT
1 TAAT-TTTATCTTAATAGTATTATATTAATTTAATAT
17998400 TAA
1 TAA
17998403 AGTGATTCTC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 12 0.34
37 21 0.60
38 2 0.06
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.57
Consensus pattern (36 bp):
TAATTTTATCTTAATAGTATTATATTAATTTAATAT
Found at i:18007753 original size:21 final size:20
Alignment explanation
Indices: 18007728--18007766 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
18007718 GAGTATTTTG
*
18007728 ATGTTTTATGATAGATTATGA
1 ATGTTTGATGATAG-TTATGA
18007749 ATGTTTGATGATAGTTAT
1 ATGTTTGATGATAGTTAT
18007767 ACAAGTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.49
Consensus pattern (20 bp):
ATGTTTGATGATAGTTATGA
Found at i:18022136 original size:29 final size:29
Alignment explanation
Indices: 18022102--18022233 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
18022092 TACTCGATTT
** * *
18022102 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* **** * *
18022131 CGCACACATAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
18022160 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
18022189 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
18022218 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
18022234 ATCTCGTCAC
Statistics
Matches: 86, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 2 0.02
29 84 0.98
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:18029987 original size:29 final size:29
Alignment explanation
Indices: 18029953--18030084 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
18029943 TACTCGATTT
** * *
18029953 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* **** * *
18029982 CGCACACATAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
18030011 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
18030040 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
18030069 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
18030085 ATCTCGTCAC
Statistics
Matches: 86, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 2 0.02
29 84 0.98
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:18041705 original size:26 final size:27
Alignment explanation
Indices: 18041675--18041736 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 27
18041665 CGTAGCTGCT
* *
18041675 AGTAACAGTAAGTGTGGCA-AGCCACC
1 AGTAACAGTAAATGTGACATAGCCACC
* * *
18041701 AGTAATAATAAATGTGACATAGTCACC
1 AGTAACAGTAAATGTGACATAGCCACC
18041728 AGT-ACAGTA
1 AGTAACAGTA
18041737 CTTCCTCCAT
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
26 19 0.68
27 9 0.32
ACGTcount: A:0.40, C:0.18, G:0.21, T:0.21
Consensus pattern (27 bp):
AGTAACAGTAAATGTGACATAGCCACC
Found at i:18045604 original size:40 final size:40
Alignment explanation
Indices: 18045498--18045673 Score: 218
Period size: 40 Copynumber: 4.5 Consensus size: 40
18045488 TGGATGATAA
* * * *
18045498 CCGGGCTAAGTCCC-AAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTA-TAT
*
18045537 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
18045576 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* *
18045616 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATAT
* *
18045656 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
18045674 TACTTGGCTT
Statistics
Matches: 124, Mismatches: 9, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
38 3 0.02
39 57 0.46
40 64 0.52
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
Found at i:18052730 original size:46 final size:45
Alignment explanation
Indices: 18052663--18052836 Score: 215
Period size: 46 Copynumber: 3.8 Consensus size: 45
18052653 TGTAACCCGC
* *
18052663 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-ATCGCAT
* * *
18052709 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--GCATCGCAT
* *** *
18052755 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGGCATCGCAT
18052801 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
18052837 ATGCCCAAAA
Statistics
Matches: 108, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
45 31 0.29
46 45 0.42
47 30 0.28
48 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATCGCAT
Found at i:18052829 original size:92 final size:93
Alignment explanation
Indices: 18052671--18052841 Score: 308
Period size: 92 Copynumber: 1.8 Consensus size: 93
18052661 GCCCATAAGT
* *
18052671 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGATCGCATCCATAAGTGAACTCGGACTCAACTCAA
18052736 CGAGTTCGGATGCCTAGTTACATCTCTC
66 CGAGTTCGGATGCCTAGTTACATCTCTC
*
18052764 GAACTCGGACTCAACTCAACGAGTTCGGAC-ATCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGATCGCATCCATAAGTGAACTCGGACTCAACTCAA
18052828 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
18052842 CAAAATCCTA
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 47 0.63
93 28 0.37
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGATCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCTC
Found at i:18055245 original size:29 final size:29
Alignment explanation
Indices: 18055206--18055293 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
18055196 CAAAGATAAC
*
18055206 AAGAAAACCGAATAAAGAAATCCAAGATA
1 AAGAAACCCGAATAAAGAAATCCAAGATA
*
18055235 GAGAAACCCGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGAATAAAGAAATCCAAG-ATA
* * * *
18055264 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGA-AACCCGAATAAAGAAATCCAAGATA
18055294 CGATACTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 2 0.04
29 27 0.55
30 18 0.37
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (29 bp):
AAGAAACCCGAATAAAGAAATCCAAGATA
Found at i:18055264 original size:15 final size:15
Alignment explanation
Indices: 18055206--18055284 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
18055196 CAAAGATAAC
*
18055206 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
18055220 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
18055235 GAGAAA-CCCGAATA
1 AAGAAATCCAGAATA
18055249 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
18055264 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
18055279 AAGAAA
1 AAGAAA
18055285 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 19 0.36
15 34 0.64
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:18055293 original size:15 final size:15
Alignment explanation
Indices: 18055217--18055293 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
18055207 AGAAAACCGA
18055217 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
18055232 ATAGAGAAACCCGA-
1 ATAAAGAAATCCAAG
18055246 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
18055260 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
18055276 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
18055291 ATA
1 ATA
18055294 CGATACTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 37 0.76
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:18058342 original size:93 final size:93
Alignment explanation
Indices: 18058230--18058401 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
18058220 GCCCATAAGT
* *
18058230 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
18058295 CGAGTTCGGATGCCTAGTTACATCTCTC
66 CGAGTTCGGATGCCTAGTTACATCTCTC
*
18058323 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
18058388 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
18058402 CAAACATCCT
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCTC
Found at i:18058397 original size:46 final size:46
Alignment explanation
Indices: 18058222--18058397 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
18058212 TGTAACCCGC
* * *
18058222 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
18058268 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--T
* ***
18058314 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
18058361 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
18058398 TGCCCAAACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 69 0.62
47 33 0.30
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:18066511 original size:14 final size:14
Alignment explanation
Indices: 18066492--18066521 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
18066482 TATGAGGCTC
18066492 ATCCTTAAATAGAA
1 ATCCTTAAATAGAA
*
18066506 ATCCTTAAGTAGAA
1 ATCCTTAAATAGAA
18066520 AT
1 AT
18066522 AATTATTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.10, T:0.30
Consensus pattern (14 bp):
ATCCTTAAATAGAA
Found at i:18069020 original size:285 final size:284
Alignment explanation
Indices: 18068482--18069255 Score: 1146
Period size: 285 Copynumber: 2.7 Consensus size: 284
18068472 CTTATATAGC
** * *
18068482 CCTCCCGAAGAATA--TGTG-TAAACAGATTTAGCCCAGATGGGTAAT-TCGATTAGGATTTGAA
1 CCTCCCGAAGAATATGTGTGCTAAATGGATTTAGCCCGGATGGGTAATCT-GATTAGGATATGAA
* * *
18068543 TTTAGCCTAGACTGGTAATTCAGATCCGAGCTCATTAGAGTATATGTCATTGTAGGGGATTT-TC
65 TTTAGCCTGGACTGGTAATTCAGATCCGAGCTCATTAGAGTATATGTCGTTGTAGGGGATTTAAC
*
18068607 CGTGGATTGGTAATCCTGACGATACTCTATGAGTTTATATTACGGAGGATTTAGCCTGGACTGGT
130 C-TGGATTGGTAATCCTGACGATACTCTATGAGTTTATATTACGGGGGATTTAGCCTGGACTGGT
* * *
18068672 AATCCTACTGTAAGAAAGGAGGTTCACAGGAGTGTGCTTTTTAGAAAGGGAACATACGAATTGAC
194 AATCCCACTGTAAGAAAGGAGGTTCACAGGAGTCTGCTTTTTAGAAAGGGAAAATACGAATTGAC
18068737 GGACATGAACTTGTAAAGTGATCTAG
259 GGACATGAACTTGTAAAGTGATCTAG
*
18068763 CCTCCCGAAGAATATGTGTGCTGAAATGGATTTAGCCCGGATGGGTAATCTGATTAGGATCTGAA
1 CCTCCCGAAGAATATGTGTGCT-AAATGGATTTAGCCCGGATGGGTAATCTGATTAGGATATGAA
* *
18068828 TTTAGCCTGGACTGGTAATTTAGATCCGTGCTCATTAGAGTATATGTCGTTGTAGGGGATTTAAC
65 TTTAGCCTGGACTGGTAATTCAGATCCGAGCTCATTAGAGTATATGTCGTTGTAGGGGATTTAAC
* * *
18068893 TTGGATTGGTAATCCCGATGATACTCTATGAGTTTATATTACGGGGGATTTAGCCTGGACTGGTA
130 CTGGATTGGTAATCCTGACGATACTCTATGAGTTTATATTACGGGGGATTTAGCCTGGACTGGTA
* * ** * *
18068958 ATCCCGCTGTAAGAAAGGTGGTTCATGGGAGTCTGCTTTTTAGAAAGGGAAAATATGAATTGATG
195 ATCCCACTGTAAGAAAGGAGGTTCACAGGAGTCTGCTTTTTAGAAAGGGAAAATACGAATTGACG
18069023 GACATGAACTTGTAAAGTGATCTAG
260 GACATGAACTTGTAAAGTGATCTAG
* * * * *
18069048 CCTCTCGAAGAATATGTGTGCTAAAATGGATTTAGCTCGGATAGATAATCCGATTAGGATATGAA
1 CCTCCCGAAGAATATGTGTGCT-AAATGGATTTAGCCCGGATGGGTAATCTGATTAGGATATGAA
* * * * *
18069113 TTTAGCTTGGACTGGTAATTCAGATCCGAGCTCATTAGAGTATATGTTGTTGCAAGGGA-TTAGC
65 TTTAGCCTGGACTGGTAATTCAGATCCGAGCTCATTAGAGTATATGTCGTTGTAGGGGATTTAAC
* * *
18069177 CTGGACTGGTAATTCTGACGATACTCTATGAGTTTATATTACGAGGGATTTAGCCTGGACTGGTA
130 CTGGATTGGTAATCCTGACGATACTCTATGAGTTTATATTACGGGGGATTTAGCCTGGACTGGTA
18069242 ATCCCACTGTAAGA
195 ATCCCACTGTAAGA
18069256 GCAAGGTTCG
Statistics
Matches: 444, Mismatches: 43, Indels: 9
0.90 0.09 0.02
Matches are distributed among these distances:
281 14 0.03
283 4 0.01
284 77 0.17
285 347 0.78
286 2 0.00
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (284 bp):
CCTCCCGAAGAATATGTGTGCTAAATGGATTTAGCCCGGATGGGTAATCTGATTAGGATATGAAT
TTAGCCTGGACTGGTAATTCAGATCCGAGCTCATTAGAGTATATGTCGTTGTAGGGGATTTAACC
TGGATTGGTAATCCTGACGATACTCTATGAGTTTATATTACGGGGGATTTAGCCTGGACTGGTAA
TCCCACTGTAAGAAAGGAGGTTCACAGGAGTCTGCTTTTTAGAAAGGGAAAATACGAATTGACGG
ACATGAACTTGTAAAGTGATCTAG
Found at i:18072260 original size:29 final size:29
Alignment explanation
Indices: 18072193--18072288 Score: 149
Period size: 29 Copynumber: 3.3 Consensus size: 29
18072183 AAGTCTACAT
* *
18072193 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
18072221 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
18072250 ACATTCGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
18072279 ACATTCATAT
1 ACATTCATAT
18072289 TCATGCTTTC
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
28 21 0.34
29 40 0.66
ACGTcount: A:0.29, C:0.31, G:0.15, T:0.25
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:18073307 original size:4 final size:4
Alignment explanation
Indices: 18073300--18073326 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
18073290 ATATATACTA
18073300 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
18073327 AATACAAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:18075836 original size:41 final size:40
Alignment explanation
Indices: 18075786--18075948 Score: 156
Period size: 41 Copynumber: 4.0 Consensus size: 40
18075776 AGCCCGATTC
18075786 TTAG-CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
* * * *
18075825 TTAGATAACTGGCTCGAAGGCCCTTCG-GAACTAAG-TCCGG-
1 TTAGA-CACTGGCTCAAAAGCCCTTCGAG-ACCAAGCT-CGGA
* * * *
18075865 TTATGACACTGGCTCTAAAGCCCTTCGAAACAAAGTTCGGTTA
1 TTA-GACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGG--A
*
18075908 TTAG-CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCAGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
18075947 TT
1 TT
18075949 TAAACCCCGA
Statistics
Matches: 100, Mismatches: 14, Indels: 20
0.75 0.10 0.15
Matches are distributed among these distances:
39 7 0.07
40 31 0.31
41 58 0.58
42 1 0.01
43 3 0.03
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
Found at i:18083787 original size:27 final size:28
Alignment explanation
Indices: 18083757--18083826 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
18083747 ATAGTGAGTC
*
18083757 CGCATACTTAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
18083784 CGCACACTTACTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
18083812 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
18083827 GTACAAATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 21 0.54
28 18 0.46
ACGTcount: A:0.31, C:0.27, G:0.11, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:18086292 original size:41 final size:40
Alignment explanation
Indices: 18086243--18086405 Score: 165
Period size: 41 Copynumber: 4.0 Consensus size: 40
18086233 AGCCCAATTC
18086243 TTAG-CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
* * *
18086282 TTAGATCACTGGCTCGAAGGCCCTTC-AGAACTAAG-TCCGG-
1 TTAGA-CACTGGCTCAAAAGCCCTTCGAG-ACCAAGCT-CGGA
* * * *
18086322 TTATGACACTGGCTCTAAAGCCCTTCGAAACTAAGTTCGGTTA
1 TTA-GACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGG--A
*
18086365 TTAG-CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCAGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
18086404 TT
1 TT
18086406 TAAACCCCGA
Statistics
Matches: 103, Mismatches: 11, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
39 7 0.07
40 33 0.32
41 59 0.57
42 1 0.01
43 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
Found at i:18094398 original size:40 final size:42
Alignment explanation
Indices: 18094349--18094534 Score: 124
Period size: 40 Copynumber: 4.6 Consensus size: 42
18094339 GACTAGCTCG
* * *
18094349 ATTGTCTTCGGGACAGT-GCCCGG-TTATAGTGATTCGCAC-A
1 ATTGCCTTCGGGACAGTAGCCCGGATT-TAGTAACTCGCACGA
*
18094389 ATTGCCTTCGGGA-ATTAGCCCGGATTTAGTAACTCGCACGA
1 ATTGCCTTCGGGACAGTAGCCCGGATTTAGTAACTCGCACGA
* * *
18094430 A-TGCCTTCGGGAC-TTAACCC-GATTTTGGTAACTCGCAC-A
1 ATTGCCTTCGGGACAGTAGCCCGGA-TTTAGTAACTCGCACGA
* * * * * *
18094469 AATGCCTTCGGGAC-TTAACCCGGTTTTAGTCACTTAGCAC-A
1 ATTGCCTTCGGGACAGTAGCCCGGATTTAGTAAC-TCGCACGA
** *
18094510 AAAGCCTTCGGGAC-TTAGCCCGGAT
1 ATTGCCTTCGGGACAGTAGCCCGGAT
18094535 ACCATTCGAA
Statistics
Matches: 125, Mismatches: 13, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
39 6 0.05
40 86 0.69
41 33 0.26
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (42 bp):
ATTGCCTTCGGGACAGTAGCCCGGATTTAGTAACTCGCACGA
Found at i:18094521 original size:41 final size:40
Alignment explanation
Indices: 18094367--18094532 Score: 197
Period size: 40 Copynumber: 4.1 Consensus size: 40
18094357 CGGGACAGTG
* * * * * *
18094367 CCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATTAG
1 CCCGGTTTTAGTAACTCGCACAAATGCCTTCGGGACTTAA
* *
18094407 CCCGGATTTAGTAACTCGCACGAATGCCTTCGGGACTTAA
1 CCCGGTTTTAGTAACTCGCACAAATGCCTTCGGGACTTAA
* *
18094447 CCCGATTTTGGTAACTCGCACAAATGCCTTCGGGACTTAA
1 CCCGGTTTTAGTAACTCGCACAAATGCCTTCGGGACTTAA
* * * *
18094487 CCCGGTTTTAGTCACTTAGCACAAAAGCCTTCGGGACTTAG
1 CCCGGTTTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAA
18094528 CCCGG
1 CCCGG
18094533 ATACCATTCG
Statistics
Matches: 107, Mismatches: 18, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
40 80 0.75
41 27 0.25
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
CCCGGTTTTAGTAACTCGCACAAATGCCTTCGGGACTTAA
Found at i:18099567 original size:18 final size:19
Alignment explanation
Indices: 18099544--18099582 Score: 71
Period size: 18 Copynumber: 2.1 Consensus size: 19
18099534 GTTACCGGAG
18099544 GTATTGTAGTGC-GGGTGT
1 GTATTGTAGTGCGGGGTGT
18099562 GTATTGTAGTGCGGGGTGT
1 GTATTGTAGTGCGGGGTGT
18099581 GT
1 GT
18099583 TTTGGGAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.10, C:0.05, G:0.46, T:0.38
Consensus pattern (19 bp):
GTATTGTAGTGCGGGGTGT
Found at i:18101367 original size:40 final size:40
Alignment explanation
Indices: 18101318--18101451 Score: 184
Period size: 40 Copynumber: 3.4 Consensus size: 40
18101308 GACTAGCTCG
* *
18101318 ATTGTCTTCGGGACAGTGCCCGGTTATAGTGATTCGCACA
1 ATTGCCTTCGGGACATTGCCCGGTTATAGTGATTCGCACA
18101358 ATTGCCTTCGGGACATTGCCCGGTTATAGTGATTCGCACA
1 ATTGCCTTCGGGACATTGCCCGGTTATAGTGATTCGCACA
* *
18101398 ATTGCCTTCGGGA-ATTAGCCCGGATT-TAGTAACTCGCACGA
1 ATTGCCTTCGGGACATT-GCCCGG-TTATAGTGATTCGCAC-A
18101439 A-TGCCTTCGGGAC
1 ATTGCCTTCGGGAC
18101452 TTAACTCGGT
Statistics
Matches: 86, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
39 3 0.03
40 79 0.92
41 4 0.05
ACGTcount: A:0.21, C:0.25, G:0.26, T:0.28
Consensus pattern (40 bp):
ATTGCCTTCGGGACATTGCCCGGTTATAGTGATTCGCACA
Found at i:18101466 original size:40 final size:40
Alignment explanation
Indices: 18101318--18101497 Score: 159
Period size: 40 Copynumber: 4.5 Consensus size: 40
18101308 GACTAGCTCG
* * * * *
18101318 ATTGTCTTCGGGACAGT-GCCCGGTTATAGTGATTCGCACA
1 ATTGCCTTCGGGAC-TTAGCCCGGTTTTAGTAACTCGCACA
* * *
18101358 ATTGCCTTCGGGACATT-GCCCGGTTATAGTGATTCGCACA
1 ATTGCCTTCGGGAC-TTAGCCCGGTTTTAGTAACTCGCACA
* *
18101398 ATTGCCTTCGGGAATTAGCCCGGATTTAGTAACTCGCACGA
1 ATTGCCTTCGGGACTTAGCCCGGTTTTAGTAACTCGCAC-A
* * * *
18101439 A-TGCCTTCGGGACTTAACTCGGTTTTAGTCACTTAGCACA
1 ATTGCCTTCGGGACTTAGCCCGGTTTTAGTAAC-TCGCACA
**
18101479 AAAGCCTTCGGGACTTAGC
1 ATTGCCTTCGGGACTTAGC
18101498 TCGGATACCA
Statistics
Matches: 121, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
39 2 0.02
40 97 0.80
41 22 0.18
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.29
Consensus pattern (40 bp):
ATTGCCTTCGGGACTTAGCCCGGTTTTAGTAACTCGCACA
Found at i:18101490 original size:41 final size:40
Alignment explanation
Indices: 18101401--18101503 Score: 125
Period size: 41 Copynumber: 2.5 Consensus size: 40
18101391 TCGCACAATT
* * * * *
18101401 GCCTTCGGGAATTAGCCCGGATTTAGTAACTCGCACGAAT
1 GCCTTCGGGACTTAGCTCGGATTTAGTAACTAGCACAAAA
* * *
18101441 GCCTTCGGGACTTAACTCGGTTTTAGTCACTTAGCACAAAA
1 GCCTTCGGGACTTAGCTCGGATTTAGTAAC-TAGCACAAAA
18101482 GCCTTCGGGACTTAGCTCGGAT
1 GCCTTCGGGACTTAGCTCGGAT
18101504 ACCATTCGAA
Statistics
Matches: 52, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
40 25 0.48
41 27 0.52
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCTCGGATTTAGTAACTAGCACAAAA
Found at i:18105761 original size:40 final size:39
Alignment explanation
Indices: 18105704--18105888 Score: 217
Period size: 40 Copynumber: 4.6 Consensus size: 39
18105694 ATTAAATGAT
* * *
18105704 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
* * * *
18105744 ATCCGGGTTAAGACCCGAAGGCAATTATGCTAGTGACTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTG-TTAA
**
18105784 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAG-TGTTAA
* * **
18105824 ATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCT
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
18105864 ATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATT
18105889 CGTGCATGTG
Statistics
Matches: 126, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
39 2 0.02
40 122 0.97
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (39 bp):
ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTGTTAA
Found at i:18105840 original size:80 final size:80
Alignment explanation
Indices: 18105703--18105909 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
18105693 AATTAAATGA
* * ** * *
18105703 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAAATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
*
18105768 TTATGCTAGT-G-AC
66 TTATGCAAGTCGTAC
* *
18105781 TAAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGC
* * *
18105846 ATTTGTGCAAGTCGTTC
64 AATTATGCAAGTCGTAC
* * *
18105863 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGG
18105910 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
78 1 0.01
80 106 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
TTATGCAAGTCGTAC
Found at i:18105894 original size:40 final size:39
Alignment explanation
Indices: 18105702--18105909 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 39
18105692 CAATTAAATG
* * ** *
18105702 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* * * * *
18105742 AAATCCGGGTTAAGACCCGAAGGCAATT-ATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTG-TT
*
18105782 AAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAG-TGTT
* * *
18105822 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* *
18105862 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
18105902 ATATCCGG
1 ATATCCGG
18105910 TTGTATTCCG
Statistics
Matches: 145, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
39 5 0.03
40 135 0.93
41 5 0.03
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTT
Found at i:18113741 original size:40 final size:39
Alignment explanation
Indices: 18113684--18113868 Score: 217
Period size: 40 Copynumber: 4.6 Consensus size: 39
18113674 ATTAAATGAT
* * *
18113684 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
* * * *
18113724 ATCCGGGTTAAGACCCGAAGGCAATTATGCTAGTGACTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTG-TTAA
**
18113764 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAG-TGTTAA
* * **
18113804 ATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCT
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
18113844 ATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATT
18113869 CGTGCATGTG
Statistics
Matches: 126, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
39 2 0.02
40 122 0.97
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (39 bp):
ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTGTTAA
Found at i:18113820 original size:80 final size:80
Alignment explanation
Indices: 18113683--18113889 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
18113673 AATTAAATGA
* * ** * *
18113683 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAAATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
*
18113748 TTATGCTAGT-G-AC
66 TTATGCAAGTCGTAC
* *
18113761 TAAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGC
* * *
18113826 ATTTGTGCAAGTCGTTC
64 AATTATGCAAGTCGTAC
* * *
18113843 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGG
18113890 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
78 1 0.01
80 106 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
TTATGCAAGTCGTAC
Found at i:18113874 original size:40 final size:39
Alignment explanation
Indices: 18113682--18113889 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 39
18113672 CAATTAAATG
* * ** *
18113682 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* * * * *
18113722 AAATCCGGGTTAAGACCCGAAGGCAATT-ATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTG-TT
*
18113762 AAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAG-TGTT
* * *
18113802 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* *
18113842 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
18113882 ATATCCGG
1 ATATCCGG
18113890 TTGTATTCCG
Statistics
Matches: 145, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
39 5 0.03
40 135 0.93
41 5 0.03
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTT
Found at i:18124214 original size:46 final size:46
Alignment explanation
Indices: 18124161--18124336 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
18124151 TATTTGGGCA
18124161 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
18124207 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
18124254 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
18124300 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
18124337 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:18124316 original size:93 final size:93
Alignment explanation
Indices: 18124157--18124328 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
18124147 GGGATATTTG
* *
18124157 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
18124222 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
18124250 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
18124315 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
18124329 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:18131192 original size:47 final size:46
Alignment explanation
Indices: 18131074--18131247 Score: 189
Period size: 45 Copynumber: 3.8 Consensus size: 46
18131064 GGGATATTTG
*
18131074 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGA
* * *
18131121 TG--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATG---CGA
*
18131166 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCG-A
* *
18131214 CGC--CCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
18131248 TATGGGCGGG
Statistics
Matches: 108, Mismatches: 10, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
42 4 0.04
44 2 0.02
45 32 0.30
46 30 0.28
47 31 0.29
48 5 0.05
50 4 0.04
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGA
Found at i:18131243 original size:46 final size:46
Alignment explanation
Indices: 18131079--18131252 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
18131069 ATTTGGGCAT
* *
18131079 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-ATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
18131124 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
18131169 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
18131217 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
18131253 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 9, Indels: 19
0.80 0.07 0.14
Matches are distributed among these distances:
42 5 0.05
44 2 0.02
45 29 0.26
46 35 0.32
47 28 0.25
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:18134957 original size:40 final size:40
Alignment explanation
Indices: 18134898--18135066 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
18134888 CGGGACTTTA
* * *
18134898 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
18134938 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
18134978 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
18135018 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
18135058 CCCGGATAT
1 CCCGGATAT
18135067 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:18142886 original size:40 final size:40
Alignment explanation
Indices: 18142827--18142957 Score: 172
Period size: 40 Copynumber: 3.3 Consensus size: 40
18142817 CGGGACTTTA
* * *
18142827 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
18142867 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
18142907 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
18142947 CCCGGATATAA
1 CCCGGATATAA
18142958 TTTCAGCATA
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 78 1.00
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:18142990 original size:39 final size:40
Alignment explanation
Indices: 18142844--18142994 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 40
18142834 ATCACGATTT
* * * *
18142844 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
*
18142884 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
* * *
18142924 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-A
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
* * *
18142963 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
18142995 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
39 31 0.32
40 64 0.66
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
Found at i:18145478 original size:15 final size:15
Alignment explanation
Indices: 18145439--18145518 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
18145429 GTATCTTGGG
*
18145439 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
18145454 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
18145469 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
18145484 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
18145499 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
18145513 TTTCTT
1 TTTCTT
18145519 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:18145508 original size:30 final size:30
Alignment explanation
Indices: 18145430--18145517 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
18145420 CATAGTATCG
* * *
18145430 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
18145460 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
18145490 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
18145518 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:18147950 original size:46 final size:46
Alignment explanation
Indices: 18147897--18148072 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
18147887 TATTTGGGCA
18147897 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
18147943 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
18147988 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
18148036 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
18148073 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:18148052 original size:93 final size:93
Alignment explanation
Indices: 18147893--18148064 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
18147883 GGGATATTTG
* *
18147893 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
18147958 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
18147986 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
18148051 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
18148065 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:18151892 original size:27 final size:27
Alignment explanation
Indices: 18151852--18151958 Score: 144
Period size: 27 Copynumber: 4.0 Consensus size: 27
18151842 AGGAAGCGTC
* *
18151852 CTGGTGGCTATGCCACATTTATCTGAT
1 CTGGTGGCTCTGCCACATTTATCTGTT
*
18151879 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGTT
*
18151906 CTGGTGGCTCTGCCACAATTATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGTT
* * *
18151933 CTAGTGACTCTGTCACA-TTATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGTT
18151959 ATGGCAGCCA
Statistics
Matches: 72, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
26 9 0.12
27 63 0.88
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTTATCTGTT
Found at i:18159764 original size:27 final size:27
Alignment explanation
Indices: 18159703--18159808 Score: 119
Period size: 27 Copynumber: 4.0 Consensus size: 27
18159693 AGTGTCCTGA
* * *
18159703 TGGCTATGCCACATTTATCTG-ACTGG
1 TGGCTCTGCCACATATATCTGTTCTGG
18159729 TGGCTCTGCCACATATATCTGTTCTGG
1 TGGCTCTGCCACATATATCTGTTCTGG
* *
18159756 TGGCACTGCCACA-ATTATATGTTCTGG
1 TGGCTCTGCCACATA-TATCTGTTCTGG
* *
18159783 TGACTCTGTCACAT-TATCTGTTCTGG
1 TGGCTCTGCCACATATATCTGTTCTGG
18159809 CAGCCATGCT
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
26 31 0.46
27 37 0.54
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.37
Consensus pattern (27 bp):
TGGCTCTGCCACATATATCTGTTCTGG
Found at i:18162146 original size:13 final size:14
Alignment explanation
Indices: 18162118--18162146 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
18162108 AAGTGCAAAA
18162118 CAAAAAGAAAAGTC
1 CAAAAAGAAAAGTC
18162132 CAAAAAGAAAA-TC
1 CAAAAAGAAAAGTC
18162145 CA
1 CA
18162147 TTATGAGTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.66, C:0.17, G:0.10, T:0.07
Consensus pattern (14 bp):
CAAAAAGAAAAGTC
Found at i:18165871 original size:14 final size:15
Alignment explanation
Indices: 18165854--18165882 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
18165844 TCACAAAAAT
18165854 TTCACACAT-ATAAA
1 TTCACACATAATAAA
18165868 TTCACACATAATAAA
1 TTCACACATAATAAA
18165883 CACAGAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Done.