Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 2 of 259
Found at i:342740 original size:23 final size:21
Alignment explanation
Indices: 342701--342765 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 21
342691 TTCATATACA
* *
342701 TTTTATATATTTAAAATTTAG
1 TTTTTTATTTTTAAAATTTAG
342722 TGTTTTTATTTTTAGAAATTTAG
1 T-TTTTTATTTTTA-AAATTTAG
*
342745 TTTCTTTATTTTTTAAATTTA
1 TTT-TTTATTTTTAAAATTTA
342766 AAATTTTAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
21 1 0.03
22 19 0.50
23 18 0.47
ACGTcount: A:0.29, C:0.02, G:0.06, T:0.63
Consensus pattern (21 bp):
TTTTTTATTTTTAAAATTTAG
Found at i:342756 original size:22 final size:22
Alignment explanation
Indices: 342701--342765 Score: 78
Period size: 23 Copynumber: 2.9 Consensus size: 22
342691 TTCATATACA
*
342701 TTTTATATATTTAAAATTTAGTG
1 TTTT-TATTTTTAAAATTTAGTG
342724 TTTTTATTTTTAGAAATTTAGT-
1 TTTTTATTTTTA-AAATTTAGTG
*
342746 TTCTTTATTTTTTAAATTTA
1 TT-TTTATTTTTAAAATTTA
342766 AAATTTTAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
22 16 0.42
23 22 0.58
ACGTcount: A:0.29, C:0.02, G:0.06, T:0.63
Consensus pattern (22 bp):
TTTTTATTTTTAAAATTTAGTG
Found at i:342902 original size:33 final size:33
Alignment explanation
Indices: 342860--342932 Score: 130
Period size: 33 Copynumber: 2.2 Consensus size: 33
342850 GCTTGGTATC
*
342860 GATGT-AACATAAAAAATTACAATGAAAAGACT
1 GATGTGAACATAAAAAATTACAATGAAAAAACT
342892 GATGTGAACATAAAAAATTACAATGAAAAAACT
1 GATGTGAACATAAAAAATTACAATGAAAAAACT
342925 GATGTGAA
1 GATGTGAA
342933 TTTTTCTTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
32 5 0.13
33 34 0.87
ACGTcount: A:0.55, C:0.08, G:0.15, T:0.22
Consensus pattern (33 bp):
GATGTGAACATAAAAAATTACAATGAAAAAACT
Found at i:357748 original size:17 final size:19
Alignment explanation
Indices: 357712--357749 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
357702 TTGGCTGGTT
*
357712 AGATGAAAGAAATGAAACA
1 AGATGAAAGAAATAAAACA
357731 AGATGAAA-AAA-AAAACA
1 AGATGAAAGAAATAAAACA
357748 AG
1 AG
357750 TTTCTCTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 3 0.17
19 8 0.44
ACGTcount: A:0.68, C:0.05, G:0.18, T:0.08
Consensus pattern (19 bp):
AGATGAAAGAAATAAAACA
Found at i:360813 original size:34 final size:34
Alignment explanation
Indices: 360771--360840 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
360761 TTAGGTTATC
360771 TTACATTTAATAAAACAAACAACAAAATTTTACA
1 TTACATTTAATAAAACAAACAACAAAATTTTACA
360805 TTACATTTAATAAAACAAACAACAAAATTTTACA
1 TTACATTTAATAAAACAAACAACAAAATTTTACA
360839 TT
1 TT
360841 TTAACAAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.31
Consensus pattern (34 bp):
TTACATTTAATAAAACAAACAACAAAATTTTACA
Found at i:372671 original size:10 final size:10
Alignment explanation
Indices: 372658--372713 Score: 67
Period size: 10 Copynumber: 5.6 Consensus size: 10
372648 GATTAAAATA
*
372658 TATACACATT
1 TATATACATT
372668 TATATACATT
1 TATATACATT
*
372678 TACATACATT
1 TATATACATT
*
372688 CATATACATT
1 TATATACATT
* *
372698 TACATGCATT
1 TATATACATT
372708 TATATA
1 TATATA
372714 AAATGGCATA
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
10 37 1.00
ACGTcount: A:0.39, C:0.16, G:0.02, T:0.43
Consensus pattern (10 bp):
TATATACATT
Found at i:372692 original size:20 final size:20
Alignment explanation
Indices: 372663--372713 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
372653 AAATATATAC
372663 ACATTTATATACATTTACAT
1 ACATTTATATACATTTACAT
*
372683 ACATTCATATACATTTACAT
1 ACATTTATATACATTTACAT
*
372703 GCATTTATATA
1 ACATTTATATA
372714 AAATGGCATA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.39, C:0.16, G:0.02, T:0.43
Consensus pattern (20 bp):
ACATTTATATACATTTACAT
Found at i:381862 original size:18 final size:19
Alignment explanation
Indices: 381819--381863 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
381809 CTCATCAATT
381819 TTAAAAT-AATTTAATAAA
1 TTAAAATAAATTTAATAAA
381837 --AAATATAAATTTAA-AAA
1 TTAAA-ATAAATTTAATAAA
381854 TTAAAATAAA
1 TTAAAATAAA
381864 CGAAAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
16 3 0.13
17 5 0.22
18 12 0.52
19 3 0.13
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
TTAAAATAAATTTAATAAA
Found at i:381885 original size:30 final size:32
Alignment explanation
Indices: 381834--381892 Score: 95
Period size: 30 Copynumber: 1.9 Consensus size: 32
381824 ATAATTTAAT
*
381834 AAAAAATATAAATTTAAAAATTAAAATAAACG
1 AAAAAATATAAATTAAAAAATTAAAATAAACG
381866 AAAAAAT-TAAA-TAAAAAATTAAAATAA
1 AAAAAATATAAATTAAAAAATTAAAATAA
381893 TTATTACTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 15 0.58
31 4 0.15
32 7 0.27
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.24
Consensus pattern (32 bp):
AAAAAATATAAATTAAAAAATTAAAATAAACG
Found at i:391528 original size:69 final size:69
Alignment explanation
Indices: 391443--391802 Score: 184
Period size: 69 Copynumber: 5.2 Consensus size: 69
391433 GGTAGCTGGA
* * * * ** *
391443 AGCTTTACTCTAGCTAACTATTTTAAAGGTTGTAGTTTTTCACCTACGAACCTTAATATTACAAT
1 AGCTTTGCTCTTGCTAACTGTTTTAAAGGTTGCAACTTTTCACCTACGAACCTTAATATTACAAC
*
391508 TAGG
66 TAAG
* * * * * * *
391512 AGTTTTGCTCTTGCTAATTGTTTTAGAGGTTGCAACTTTTCACCTGCGGACCTTAATATTATAGC
1 AGCTTTGCTCTTGCTAACTGTTTTAAAGGTTGCAACTTTTCACCTACGAACCTTAATATTACAAC
391577 TAAG
66 TAAG
* ** ** ** * * * *
391581 AGCTTTGCTCTTACTAACTGTTTTGGAGGTTGCGGCTATTT-GTCTACGAATCTTAACATTATAG
1 AGCTTTGCTCTTGCTAACTGTTTTAAAGGTTGCAACT-TTTCACCTACGAACCTTAATATTACAA
* *
391645 TTATG
65 CTAAG
* * * ** **** * * * * **
391650 AGCTTTGCTCTCGTTAATTGTTTTGGAGGTTGTGGTTTTTCGCCTGCAAACCTTAATATGACAGT
1 AGCTTTGCTCTTGCTAACTGTTTTAAAGGTTGCAACTTTTCACCTACGAACCTTAATATTACAAC
*
391715 TGAG
66 TAAG
* * * * * ** * * *
391719 AGGTTTGCTCTCGCTAACTGTTTTAGAGGTTACAA-TTCTTCGCCTGTGAACCTTAATATGATAG
1 AGCTTTGCTCTTGCTAACTGTTTTAAAGGTTGCAACTT-TTCACCTACGAACCTTAATATTACAA
*
391783 CTAGG
65 CTAAG
*
391788 AGCTTTGCTTTTGCT
1 AGCTTTGCTCTTGCT
391803 CACTATGTTG
Statistics
Matches: 227, Mismatches: 61, Indels: 6
0.77 0.21 0.02
Matches are distributed among these distances:
68 5 0.02
69 219 0.96
70 3 0.01
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.40
Consensus pattern (69 bp):
AGCTTTGCTCTTGCTAACTGTTTTAAAGGTTGCAACTTTTCACCTACGAACCTTAATATTACAAC
TAAG
Found at i:391628 original size:138 final size:138
Alignment explanation
Indices: 391486--391749 Score: 312
Period size: 138 Copynumber: 1.9 Consensus size: 138
391476 AGTTTTTCAC
* * *
391486 CTACGAACCTTAATATTACAATTAGGAGTTTTGCTCTTGCTAATTGTTTTAGAGGTTGCAACTTT
1 CTACGAACCTTAACATTACAATTAGGAGCTTTGCTCTCGCTAATTGTTTTAGAGGTTGCAACTTT
** * * * *
391551 TCACCTGCGGACCTTAATATTATAGCTAAGAGCTTTGCTCTTACTAACTGTTTTGGAGGTTGCGG
66 TCACCTGCAAACCTTAATATGACAGCTAAGAGCTTTGCTCTCACTAACTGTTTTAGAGGTTGCGG
391616 CTATTTGT
131 CTATTTGT
* * * * * * ****
391624 CTACGAATCTTAACATTATAGTTATGAGCTTTGCTCTCGTTAATTGTTTTGGAGGTTGTGGTTTT
1 CTACGAACCTTAACATTACAATTAGGAGCTTTGCTCTCGCTAATTGTTTTAGAGGTTGCAACTTT
* * * * *
391689 TCGCCTGCAAACCTTAATATGACAGTTGAGAGGTTTGCTCTCGCTAACTGTTTTAGAGGTT
66 TCACCTGCAAACCTTAATATGACAGCTAAGAGCTTTGCTCTCACTAACTGTTTTAGAGGTT
391750 ACAATTCTTC
Statistics
Matches: 102, Mismatches: 24, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
138 102 1.00
ACGTcount: A:0.22, C:0.17, G:0.21, T:0.40
Consensus pattern (138 bp):
CTACGAACCTTAACATTACAATTAGGAGCTTTGCTCTCGCTAATTGTTTTAGAGGTTGCAACTTT
TCACCTGCAAACCTTAATATGACAGCTAAGAGCTTTGCTCTCACTAACTGTTTTAGAGGTTGCGG
CTATTTGT
Found at i:419515 original size:19 final size:19
Alignment explanation
Indices: 419491--419536 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
419481 ATGTTTGAGC
*
419491 ACTCAATTTAGTAAAAATG
1 ACTCAATTTAGTAAAAAGG
419510 ACTCAATTTAGTAAAAAGG
1 ACTCAATTTAGTAAAAAGG
*
419529 ACTAAATT
1 ACTCAATT
419537 GCAATAGGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.48, C:0.11, G:0.11, T:0.30
Consensus pattern (19 bp):
ACTCAATTTAGTAAAAAGG
Found at i:422332 original size:24 final size:24
Alignment explanation
Indices: 422305--422367 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
422295 AGAATCATTT
*
422305 AGAATACACCATAAGACATCGTAC
1 AGAATACACCATAAGACATCATAC
* *
422329 AGAA-ATCACCATAAGGCATCATAT
1 AGAATA-CACCATAAGACATCATAC
* *
422353 AGAGTACGCCATAAG
1 AGAATACACCATAAG
422368 GCTTCATAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
23 1 0.03
24 30 0.94
25 1 0.03
ACGTcount: A:0.44, C:0.22, G:0.16, T:0.17
Consensus pattern (24 bp):
AGAATACACCATAAGACATCATAC
Found at i:424127 original size:28 final size:28
Alignment explanation
Indices: 424087--424150 Score: 128
Period size: 28 Copynumber: 2.3 Consensus size: 28
424077 TTACGTTTTT
424087 TTACACACATAGGCAGAGATTTACACAC
1 TTACACACATAGGCAGAGATTTACACAC
424115 TTACACACATAGGCAGAGATTTACACAC
1 TTACACACATAGGCAGAGATTTACACAC
424143 TTACACAC
1 TTACACAC
424151 GCAAAGATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.39, C:0.27, G:0.12, T:0.22
Consensus pattern (28 bp):
TTACACACATAGGCAGAGATTTACACAC
Found at i:425043 original size:16 final size:17
Alignment explanation
Indices: 425022--425080 Score: 63
Period size: 16 Copynumber: 3.6 Consensus size: 17
425012 ATATTATATG
425022 TTATATGATTATTT-TA
1 TTATATGATTATTTATA
*
425038 TTATATG-TTATTTATT
1 TTATATGATTATTTATA
*
425054 TTATAT-ATTATTACATA
1 TTATATGATTATT-TATA
425071 TTATAT-ATTA
1 TTATATGATTA
425081 CATATTTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
15 6 0.16
16 19 0.51
17 12 0.32
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (17 bp):
TTATATGATTATTTATA
Found at i:425062 original size:23 final size:23
Alignment explanation
Indices: 424977--425064 Score: 71
Period size: 23 Copynumber: 3.9 Consensus size: 23
424967 GCCCTATGTT
424977 TTATTTAATTTTATA-A-T-TAT-
1 TTATTT-ATTTTATATATTATATG
*
424997 TTATTTTATTTTCCTATATTATATG
1 TTA-TTTATTTT-ATATATTATATG
*
425022 TTATATGATTATT-T-TATTATATG
1 TTAT-TTATT-TTATATATTATATG
425045 TTATTTATTTTATATATTAT
1 TTATTTATTTTATATATTAT
425065 TACATATTAT
Statistics
Matches: 55, Mismatches: 3, Indels: 17
0.73 0.04 0.23
Matches are distributed among these distances:
20 8 0.15
21 7 0.13
22 6 0.11
23 20 0.36
24 5 0.09
25 7 0.13
26 2 0.04
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.65
Consensus pattern (23 bp):
TTATTTATTTTATATATTATATG
Found at i:425064 original size:7 final size:7
Alignment explanation
Indices: 425011--425086 Score: 57
Period size: 7 Copynumber: 10.9 Consensus size: 7
425001 TTTATTTTCC
425011 TATATTA
1 TATATTA
*
425018 TATGTTA
1 TATATTA
425025 TATGATTA
1 TAT-ATTA
*
425033 TTTTATTA
1 -TATATTA
*
425041 TATGTTA
1 TATATTA
* *
425048 TTTATTT
1 TATATTA
425055 TATA-TA
1 TATATTA
425061 T-TATTA
1 TATATTA
*
425067 CATATTA
1 TATATTA
425074 TATATTA
1 TATATTA
*
425081 CATATT
1 TATATT
425087 TTTATATATT
Statistics
Matches: 52, Mismatches: 13, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
5 2 0.04
6 4 0.08
7 37 0.71
8 7 0.13
9 2 0.04
ACGTcount: A:0.34, C:0.03, G:0.04, T:0.59
Consensus pattern (7 bp):
TATATTA
Found at i:425091 original size:17 final size:17
Alignment explanation
Indices: 425050--425096 Score: 55
Period size: 14 Copynumber: 2.8 Consensus size: 17
425040 ATATGTTATT
425050 TATTTTATATATTATTACA
1 TATTTT-TATA-TATTACA
425069 TA---TTATATATTACA
1 TATTTTTATATATTACA
425083 TATTTTTATATATT
1 TATTTTTATATATT
425097 TTGTATCTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
14 9 0.36
15 4 0.16
16 1 0.04
17 9 0.36
19 2 0.08
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (17 bp):
TATTTTTATATATTACA
Found at i:434351 original size:40 final size:40
Alignment explanation
Indices: 434260--434429 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
434250 TCCTCGTTCA
* * * * *
434260 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
434299 CATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
434339 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * *
434379 AATGCCCTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
434419 AAGGCCTTCGG
1 AATGCCTTCGG
434430 ATCTTAGTCC
Statistics
Matches: 112, Mismatches: 18, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 32 0.29
40 80 0.71
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:440711 original size:87 final size:89
Alignment explanation
Indices: 440529--440712 Score: 225
Period size: 87 Copynumber: 2.1 Consensus size: 89
440519 CGGAGAGTAG
* ** * *
440529 ATCGAAGACATAGCAGATCTGACCTTTTGATGTTTTCACATCGAAGCAGATCCACGATGATTTGG
1 ATCGAAGACATAGCAGAGCTGACCTTCAGATGTTTACACATCGAAGCAGATCCAAGATGATTTGG
* *
440594 CATTCTTGTGTTTACAAGGAGCAA
66 CATTCTTGTATTTACAAGGAACAA
* *
440618 ATCGAAGACATAGCAGAGCTGACCTTCAGGTGTTTACAC-T-GAAGTAGATCCAAGATGATTTGG
1 ATCGAAGACATAGCAGAGCTGACCTTCAGATGTTTACACATCGAAGCAGATCCAAGATGATTTGG
440681 CA-TCTCTGTATTGT-C-AGAGAACAA
66 CATTCT-TGTATT-TACAAG-GAACAA
440705 ATCGAAGA
1 ATCGAAGA
440713 AACAGATTTG
Statistics
Matches: 83, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
86 5 0.06
87 42 0.51
88 2 0.02
89 34 0.41
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (89 bp):
ATCGAAGACATAGCAGAGCTGACCTTCAGATGTTTACACATCGAAGCAGATCCAAGATGATTTGG
CATTCTTGTATTTACAAGGAACAA
Found at i:440789 original size:220 final size:219
Alignment explanation
Indices: 440407--441186 Score: 1187
Period size: 220 Copynumber: 3.6 Consensus size: 219
440397 AGGTTAAAGT
* * *
440407 ATAGCAGATCTGGCCTTCAGGTGTTCACGCTGAAGCAGATCCAAGATGATTTGGCATCTCTGTAT
1 ATAGCAGATCTGACCTTCAGGTGTTTACACTGAAGCAGATCCAAGATGATTTGGCATCTCTGTAT
* *
440472 TGTCAGAGAACAAATCGAAGAAGCAGATTTGGCATCTCCATATTCGACGGAGAGTAGATCGAAGA
66 TGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCG-AGA
* *
440537 CATAGCAGATCTGACCTTTTGATGTTTTCACATCGAAGCAGATCCACGATGATTTGGCATTCTTG
130 CATAGCAGATCTGACCTTTAGATGTTTTCACATCGAAGCAGATCCAAGATGATTTGGCATTCTTG
440602 TGTTTACAAGGAGCAAATCGAAGAC
195 TGTTTACAAGGAGCAAATCGAAGAC
* *
440627 ATAGCAGAGCTGACCTTCAGGTGTTTACACTGAAGTAGATCCAAGATGATTTGGCATCTCTGTAT
1 ATAGCAGATCTGACCTTCAGGTGTTTACACTGAAGCAGATCCAAGATGATTTGGCATCTCTGTAT
*
440692 TGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCTATATTCGACGGAGAGCAGATCGTAGA
66 TGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCG-AGA
440757 CATAGCAGATCTGACCTTTAGATGTTTTCACATCGAAGCAGATCCAAGATGATTTGGCATTCTTG
130 CATAGCAGATCTGACCTTTAGATGTTTTCACATCGAAGCAGATCCAAGATGATTTGGCATTCTTG
440822 TGTTTACAAGGAGCAAATCGAAGAC
195 TGTTTACAAGGAGCAAATCGAAGAC
440847 ATAGCAGATCTGACCTTCAGGTGTTTACACTGAAGCAGATCCAAGATGATTTGGCATCTCTGTAT
1 ATAGCAGATCTGACCTTCAGGTGTTTACACTGAAGCAGATCCAAGATGATTTGGCATCTCTGTAT
* *
440912 TGTCAGAGAACCAATTGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGA-C---AC
66 TGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAGAC
* * *
440973 ATAGCAGATCTAACCTTCAGATGTTTAT-AC-T-GAAGCAGATCCAAGATGATTTGGCATCCTTG
131 ATAGCAGATCTGACCTTTAGATGTTT-TCACATCGAAGCAGATCCAAGATGATTTGGCATTCTTG
441035 TGTTTACAAGGAGCAAATCGAAGAC
195 TGTTTACAAGGAGCAAATCGAAGAC
* * * * * * * *
441060 ATAACAGATTTGGCTTTCATGTGTTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTAT
1 ATAGCAGATCTGACCTTCAGGTGTTTACACTGAAGCAGATCCAAGATGATTTGGCATCTCTGTAT
* * * * * * ** * *
441125 TGTCAGGGAACAAATTGAATAAGCATATTTGGCGTCTCTGTGTTCGACAGAGAGCAGATCGA
66 TGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGA
441187 AGATATCAAC
Statistics
Matches: 519, Mismatches: 37, Indels: 12
0.91 0.07 0.02
Matches are distributed among these distances:
213 160 0.31
214 2 0.00
215 28 0.05
216 1 0.00
219 1 0.00
220 327 0.63
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.28
Consensus pattern (219 bp):
ATAGCAGATCTGACCTTCAGGTGTTTACACTGAAGCAGATCCAAGATGATTTGGCATCTCTGTAT
TGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAGAC
ATAGCAGATCTGACCTTTAGATGTTTTCACATCGAAGCAGATCCAAGATGATTTGGCATTCTTGT
GTTTACAAGGAGCAAATCGAAGAC
Found at i:440872 original size:89 final size:87
Alignment explanation
Indices: 440743--440903 Score: 259
Period size: 89 Copynumber: 1.8 Consensus size: 87
440733 ATTCGACGGA
* * * *
440743 GAGCAGATCGTAGACATAGCAGATCTGACCTTTAGATGTTTTCACATCGAAGCAGATCCAAGATG
1 GAGCAAATCGAAGACATAGCAGATCTGACCTTCAGATGTTTACAC-T-GAAGCAGATCCAAGATG
440808 ATTTGGCATTCTTGTGTTTACAAG
64 ATTTGGCATTCTTGTGTTTACAAG
*
440832 GAGCAAATCGAAGACATAGCAGATCTGACCTTCAGGTGTTTACACTGAAGCAGATCCAAGATGAT
1 GAGCAAATCGAAGACATAGCAGATCTGACCTTCAGATGTTTACACTGAAGCAGATCCAAGATGAT
440897 TTGGCAT
66 TTGGCAT
440904 CTCTGTATTG
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
87 26 0.39
88 1 0.01
89 40 0.60
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (87 bp):
GAGCAAATCGAAGACATAGCAGATCTGACCTTCAGATGTTTACACTGAAGCAGATCCAAGATGAT
TTGGCATTCTTGTGTTTACAAG
Found at i:441495 original size:17 final size:17
Alignment explanation
Indices: 441473--441505 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
441463 AATAATTTTC
441473 AAACCCAAACTTAAACT
1 AAACCCAAACTTAAACT
*
441490 AAACCCACACTTAAAC
1 AAACCCAAACTTAAAC
441506 CCGTTATACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.33, G:0.00, T:0.15
Consensus pattern (17 bp):
AAACCCAAACTTAAACT
Found at i:442051 original size:28 final size:28
Alignment explanation
Indices: 442019--442081 Score: 117
Period size: 28 Copynumber: 2.2 Consensus size: 28
442009 TTACGTTTTT
442019 TACACACATAGGCAGAGATTTACACACG
1 TACACACATAGGCAGAGATTTACACACG
*
442047 TACACACATAGGCAGAGATTTACACACT
1 TACACACATAGGCAGAGATTTACACACG
442075 TACACAC
1 TACACAC
442082 GCAGAGATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.40, C:0.27, G:0.14, T:0.19
Consensus pattern (28 bp):
TACACACATAGGCAGAGATTTACACACG
Found at i:442090 original size:24 final size:25
Alignment explanation
Indices: 442030--442091 Score: 81
Period size: 28 Copynumber: 2.4 Consensus size: 25
442020 ACACACATAG
442030 GCAGAGATTTACACACGTACACACATA
1 GCAGAGATTTACACACGTACACAC--A
*
442057 GGCAGAGATTTACACACTTACACAC-
1 -GCAGAGATTTACACACGTACACACA
442082 GCAGAGATTT
1 GCAGAGATTT
442092 TTTCACACAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
24 10 0.30
28 23 0.70
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.21
Consensus pattern (25 bp):
GCAGAGATTTACACACGTACACACA
Found at i:442974 original size:16 final size:17
Alignment explanation
Indices: 442908--442996 Score: 60
Period size: 16 Copynumber: 5.3 Consensus size: 17
442898 GCCCTATGTT
* *
442908 TTATTTAT-TTTTATAA
1 TTATTTATATTATATGA
* * **
442924 TTATTTATTTTATTTTC
1 TTATTTATATTATATGA
442941 TTATATTATATGTTATATGA
1 TTAT-TTATA--TTATATGA
442961 TTATTT-TATTATATG-
1 TTATTTATATTATATGA
*
442976 TTATTTATTTTATAT-A
1 TTATTTATATTATATGA
442992 TTATT
1 TTATT
442997 ACATATTATT
Statistics
Matches: 58, Mismatches: 9, Indels: 12
0.73 0.11 0.15
Matches are distributed among these distances:
15 6 0.10
16 27 0.47
17 8 0.14
18 6 0.10
19 2 0.03
20 9 0.16
ACGTcount: A:0.28, C:0.01, G:0.03, T:0.67
Consensus pattern (17 bp):
TTATTTATATTATATGA
Found at i:442993 original size:23 final size:22
Alignment explanation
Indices: 442908--442995 Score: 83
Period size: 23 Copynumber: 3.9 Consensus size: 22
442898 GCCCTATGTT
*
442908 TTATTTATTTTTATAAT-TAT-
1 TTATTTATTTTTATATTATATG
442928 TTATTTTATTTTCTTATATTATATG
1 TTA-TTTA-TTT-TTATATTATATG
*
442953 TTATATGATTATTT-TATTATATG
1 TTAT-TTATT-TTTATATTATATG
442976 TTATTTATTTTATATATTAT
1 TTATTTATTTT-TATATTAT
442996 TACATATTAT
Statistics
Matches: 56, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
20 3 0.05
21 6 0.11
22 8 0.14
23 25 0.45
24 8 0.14
25 6 0.11
ACGTcount: A:0.28, C:0.01, G:0.03, T:0.67
Consensus pattern (22 bp):
TTATTTATTTTTATATTATATG
Found at i:443012 original size:14 final size:14
Alignment explanation
Indices: 442960--443022 Score: 60
Period size: 14 Copynumber: 4.6 Consensus size: 14
442950 ATGTTATATG
*
442960 ATTATTTTATTATAT
1 ATTA-TTTATTACAT
* **
442975 GTTATTTATTTTAT
1 ATTATTTATTACAT
442989 A-TA-TTATTACAT
1 ATTATTTATTACAT
443001 ATTATTTATTACAT
1 ATTATTTATTACAT
443015 ATT-TTTAT
1 ATTATTTAT
443023 ATATTTTGTA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
12 8 0.20
13 9 0.22
14 21 0.51
15 3 0.07
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (14 bp):
ATTATTTATTACAT
Found at i:443016 original size:26 final size:26
Alignment explanation
Indices: 442966--443016 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
442956 TATGATTATT
* * **
442966 TTATTATATGTTATTTATTTTATATA
1 TTATTACATATTATTTATTACATATA
442992 TTATTACATATTATTTATTACATAT
1 TTATTACATATTATTTATTACATAT
443017 TTTTATATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (26 bp):
TTATTACATATTATTTATTACATATA
Found at i:447397 original size:46 final size:46
Alignment explanation
Indices: 447344--447519 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
447334 TATTTGGGCA
447344 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * * *
447390 TCCGAACTTGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
* * * *
447437 TCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTCTGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * *
447483 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
447520 GCGGGTTAGA
Statistics
Matches: 105, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 64 0.61
47 30 0.29
48 1 0.01
50 4 0.04
ACGTcount: A:0.19, C:0.22, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:447499 original size:93 final size:93
Alignment explanation
Indices: 447340--447512 Score: 283
Period size: 93 Copynumber: 1.9 Consensus size: 93
447330 GGGATATTTG
* * * *
447340 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTTGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
447405 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
447433 GGCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTCTGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
447498 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
447513 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.20, C:0.22, G:0.31, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:453511 original size:21 final size:21
Alignment explanation
Indices: 453471--453528 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
453461 ATAATAAATC
*
453471 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
453491 AACA-AATATTAAAACAAATAA
1 AA-ATAATATTAAAACAAATAA
*
453512 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
453529 TTCTTAAAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
20 9 0.28
21 23 0.72
ACGTcount: A:0.69, C:0.09, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:453799 original size:42 final size:44
Alignment explanation
Indices: 453741--453864 Score: 132
Period size: 43 Copynumber: 2.9 Consensus size: 44
453731 GGCATTGACT
* *
453741 TTTGATTTATGTGTAAGACCATGTTTGGTACA-TCGGCATCG-TA
1 TTTGATTTATGTGTAAGACCATGTCTGGGACAGT-GGCATCGATA
*
453784 TTTGATTT-TGTGTAAGACCCTGTCTGGGACAGTGGCATCGATA
1 TTTGATTTATGTGTAAGACCATGTCTGGGACAGTGGCATCGATA
** * *
453827 TTTGA-TTACATGTAAGACTACGTCTGGGAC-GTTGGCAT
1 TTTGATTTATGTGTAAGACCATGTCTGGGACAG-TGGCAT
453865 TGTATGAGCT
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
42 30 0.43
43 39 0.57
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.36
Consensus pattern (44 bp):
TTTGATTTATGTGTAAGACCATGTCTGGGACAGTGGCATCGATA
Found at i:458412 original size:27 final size:27
Alignment explanation
Indices: 458382--458440 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
458372 ATTCTAATTC
458382 TAAA-ATATACAAAGAAATATATAAAAA
1 TAAATATATACAAA-AAATATATAAAAA
* * *
458409 TAAATATTTTCAAAAAATATATAATAA
1 TAAATATATACAAAAAATATATAAAAA
458436 TAAAT
1 TAAAT
458441 TTAAATTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 21 0.75
28 7 0.25
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (27 bp):
TAAATATATACAAAAAATATATAAAAA
Found at i:458413 original size:14 final size:14
Alignment explanation
Indices: 458382--458440 Score: 50
Period size: 14 Copynumber: 4.4 Consensus size: 14
458372 ATTCTAATTC
*
458382 TAAA-ATATACAAA
1 TAAATATATAAAAA
*
458395 GAAATATATAAAAA
1 TAAATATATAAAAA
* **
458409 TAAATATTTTCAAA
1 TAAATATATAAAAA
*
458423 -AAATATATAATAA
1 TAAATATATAAAAA
458436 TAAAT
1 TAAAT
458441 TTAAATTTTA
Statistics
Matches: 34, Mismatches: 10, Indels: 3
0.72 0.21 0.06
Matches are distributed among these distances:
13 12 0.35
14 22 0.65
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (14 bp):
TAAATATATAAAAA
Found at i:458829 original size:52 final size:53
Alignment explanation
Indices: 458734--458840 Score: 153
Period size: 52 Copynumber: 2.0 Consensus size: 53
458724 ATTGAGACAA
* *
458734 ATTTGATGAGATTTTATTTCTTTATTTCTTTAGGATGGGGTCAATCTTTGATTATC
1 ATTTGATGAGATTTTA--T-TTTATTTCTTTAGGATGGAGTCAATCGTTGATTATC
*
458790 ATTTGATGAGATTTTA-TTTATTTCTTTAGGATTGAGTCAATCGTTGATTAT
1 ATTTGATGAGATTTTATTTTATTTCTTTAGGATGGAGTCAATCGTTGATTAT
458841 AAGGATTCTT
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
52 32 0.67
56 16 0.33
ACGTcount: A:0.23, C:0.07, G:0.18, T:0.51
Consensus pattern (53 bp):
ATTTGATGAGATTTTATTTTATTTCTTTAGGATGGAGTCAATCGTTGATTATC
Found at i:465806 original size:24 final size:23
Alignment explanation
Indices: 465740--465808 Score: 59
Period size: 25 Copynumber: 2.8 Consensus size: 23
465730 GGATTTTTAT
*
465740 TTTATTTAATATTAA-ATTAATCATA
1 TTTAATTAATATTAATA-TAA--ATA
*
465765 TTTATTTAATATTAATATAAATA
1 TTTAATTAATATTAATATAAATA
465788 TTTAAATTAATTATTATATAT
1 TTT-AATTAA-TATTA-ATAT
465809 TTTTAATATT
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
23 6 0.15
24 5 0.13
25 23 0.59
26 5 0.13
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (23 bp):
TTTAATTAATATTAATATAAATA
Found at i:465810 original size:20 final size:19
Alignment explanation
Indices: 465751--465810 Score: 68
Period size: 19 Copynumber: 3.1 Consensus size: 19
465741 TTATTTAATA
* *
465751 TTAAATTAATCATATTTAT
1 TTAAATTAATTATATATAT
*
465770 TTAATATTAA-TATAAATAT
1 TTAA-ATTAATTATATATAT
465789 TTAAATTAATTATTATATAT
1 TTAAATTAATTA-TATATAT
465809 TT
1 TT
465811 TTAATATTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
18 5 0.15
19 16 0.47
20 13 0.38
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
TTAAATTAATTATATATAT
Found at i:465836 original size:23 final size:22
Alignment explanation
Indices: 465785--465841 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
465775 ATTAATATAA
* *
465785 ATATTTAAATTAATTATTATAT
1 ATATTTAAATTTATTATTACAT
* *
465807 ATTTTTAATATTTATTTTTACAT
1 ATATTTAA-ATTTATTATTACAT
465830 ATATTTAAATTT
1 ATATTTAAATTT
465842 TACATATTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
22 11 0.38
23 18 0.62
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (22 bp):
ATATTTAAATTTATTATTACAT
Found at i:465993 original size:12 final size:12
Alignment explanation
Indices: 465976--466001 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
465966 ATTTAAAATG
465976 AAAAAATTTGAA
1 AAAAAATTTGAA
465988 AAAAAATTTGAA
1 AAAAAATTTGAA
466000 AA
1 AA
466002 TAATATAGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (12 bp):
AAAAAATTTGAA
Found at i:471959 original size:30 final size:30
Alignment explanation
Indices: 471919--471986 Score: 118
Period size: 30 Copynumber: 2.3 Consensus size: 30
471909 TAGAATAGGG
471919 CCACACGGGTGTTTGGACCACCCGTATGGA
1 CCACACGGGTGTTTGGACCACCCGTATGGA
* *
471949 CCACATGGGTGTTTGGGCCACCCGTATGGA
1 CCACACGGGTGTTTGGACCACCCGTATGGA
471979 CCACACGG
1 CCACACGG
471987 CCCCTTACAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.19, C:0.31, G:0.31, T:0.19
Consensus pattern (30 bp):
CCACACGGGTGTTTGGACCACCCGTATGGA
Found at i:473721 original size:21 final size:22
Alignment explanation
Indices: 473690--473792 Score: 63
Period size: 21 Copynumber: 4.6 Consensus size: 22
473680 AGTATGATAC
473690 AAATATTTTAATTATGATTTGA-
1 AAAT-TTTTAATTATGATTTGAG
*
473712 AAATTTTTAATGT-T-A-TTAAG
1 AAATTTTTAAT-TATGATTTGAG
* * *
473732 AAATTATTAATTTATAATATTGTAT
1 AAATTTTTAA-TTATGAT-TTG-AG
*
473757 AAATTCTTTAATTATGATTTCA-
1 AAATT-TTTAATTATGATTTGAG
*
473779 AAATTTTTCATTAT
1 AAATTTTTAATTAT
473793 ATATCAATTT
Statistics
Matches: 64, Mismatches: 8, Indels: 19
0.70 0.09 0.21
Matches are distributed among these distances:
19 3 0.05
20 11 0.17
21 18 0.28
22 11 0.17
23 1 0.02
24 4 0.06
25 12 0.19
26 4 0.06
ACGTcount: A:0.40, C:0.03, G:0.06, T:0.51
Consensus pattern (22 bp):
AAATTTTTAATTATGATTTGAG
Found at i:478631 original size:56 final size:56
Alignment explanation
Indices: 478534--478642 Score: 132
Period size: 56 Copynumber: 1.9 Consensus size: 56
478524 ACATTAGAGT
* * *
478534 CGATATGTGTGTGCAAGTAAGACCATGTTTAATACGTTGGCATCGA-TATGTGACTC
1 CGATATATGTGTGCAAGTAAGACCATGTCTAAGACGTTGGCATC-ATTATGTGACTC
* * *
478590 CGATATATGTGTGCGAGTAAGACCCTGTCTGAGACAG-TGGCATCATTATGTGA
1 CGATATATGTGTGCAAGTAAGACCATGTCTAAGAC-GTTGGCATCATTATGTGA
478643 TTATATGTAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
55 1 0.02
56 43 0.96
57 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.30
Consensus pattern (56 bp):
CGATATATGTGTGCAAGTAAGACCATGTCTAAGACGTTGGCATCATTATGTGACTC
Found at i:484307 original size:43 final size:43
Alignment explanation
Indices: 484245--484331 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
484235 CAGTTTAATA
* * *
484245 ATTTGCAAACACTAATGGTTTATCCATATCTTACTGGCAGTTT
1 ATTTGCAAACACTAATGGTTTATCCACAACGTACTGGCAGTTT
* *
484288 ATTTGCAAACATTAGTGGTTTATCCACAACGTACTGGCAGTTT
1 ATTTGCAAACACTAATGGTTTATCCACAACGTACTGGCAGTTT
484331 A
1 A
484332 ACTGCAAATT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (43 bp):
ATTTGCAAACACTAATGGTTTATCCACAACGTACTGGCAGTTT
Found at i:487185 original size:27 final size:27
Alignment explanation
Indices: 487155--487259 Score: 102
Period size: 29 Copynumber: 3.7 Consensus size: 27
487145 ATTTTGTTAT
487155 AATTTAGTACCTAAACTTTTTTTATCC
1 AATTTAGTACCTAAACTTTTTTTATCC
* * *
487182 AATTTAGTACCTGAACTTGATATTTTTTCTT
1 AATTTAGTACCTAAACTT--T-TTTTATC-C
*
487213 AATTTGGTACCTAAACTTTTTTGTAGTCC
1 AATTTAGTACCTAAACTTTTTT-TA-TCC
* *
487242 AATTTGGTACCTTAACTT
1 AATTTAGTACCTAAACTT
487260 GGCATTTTTC
Statistics
Matches: 64, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
27 17 0.27
28 3 0.05
29 20 0.31
30 8 0.12
31 16 0.25
ACGTcount: A:0.27, C:0.16, G:0.10, T:0.48
Consensus pattern (27 bp):
AATTTAGTACCTAAACTTTTTTTATCC
Found at i:487277 original size:59 final size:59
Alignment explanation
Indices: 487154--487312 Score: 205
Period size: 59 Copynumber: 2.7 Consensus size: 59
487144 CATTTTGTTA
* * *
487154 TAATTTAGTACCTAAACTTTTTTTA-TCCAATTTAGTACCTGAACTTGATATTTTTTCT
1 TAATTTGGTACCTAAACTTTTTTTAGTCCAATTTGGTACCTGAACTTGACATTTTTTCT
* *
487212 TAATTTGGTACCTAAACTTTTTTGTAGTCCAATTTGGTACCTTAACTTGGCA-TTTTTCT
1 TAATTTGGTACCTAAACTTTTTT-TAGTCCAATTTGGTACCTGAACTTGACATTTTTTCT
** * *
487271 TAATTTGGTACCTAAGTTTTTTTTAGGTTCAATTTGATACCT
1 TAATTTGGTACCTAAACTTTTTTTA-GTCCAATTTGGTACCT
487313 CAATTTATTA
Statistics
Matches: 89, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
58 24 0.27
59 44 0.49
60 21 0.24
ACGTcount: A:0.25, C:0.15, G:0.11, T:0.49
Consensus pattern (59 bp):
TAATTTGGTACCTAAACTTTTTTTAGTCCAATTTGGTACCTGAACTTGACATTTTTTCT
Found at i:491371 original size:39 final size:40
Alignment explanation
Indices: 491328--491495 Score: 148
Period size: 40 Copynumber: 4.2 Consensus size: 40
491318 CTCGTTCAAG
* * * *
491328 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAA
* *
491367 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
* * *
491407 TGCCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * * *
491447 GGCCTTCGGGACTTAACCCGGAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTATAAAACTCACACGAA
491487 TGCCTTCGG
1 TGCCTTCGG
491496 ATCTTAGTCC
Statistics
Matches: 111, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
39 26 0.23
40 81 0.73
41 3 0.03
42 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
Found at i:491479 original size:80 final size:80
Alignment explanation
Indices: 491363--491548 Score: 229
Period size: 80 Copynumber: 2.3 Consensus size: 80
491353 AGTAACTCAT
* * *
491363 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTC-GGATCTTAACCCG
*
491427 GA-ATTAGT-A-TCTCGC
65 GATA-TAGTCACT-TAGC
**
491442 ACAAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATGCCTTCGGATCTTAACCC
491506 GGATATAGTCACTTAGC
64 GGATATAGTCACTTAGC
*
491523 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
491549 CAGCATTCAA
Statistics
Matches: 94, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
79 11 0.12
80 72 0.77
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:491508 original size:40 final size:40
Alignment explanation
Indices: 491365--491548 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
491355 TAACTCATAC
* *
491365 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
491405 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
491445 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
491485 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
491526 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
491549 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
39 8 0.06
40 105 0.85
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:498891 original size:27 final size:27
Alignment explanation
Indices: 498861--499038 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
498851 ATATTGAGTC
* * * *
498861 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
498888 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
498915 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
498943 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
498970 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
498997 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
499024 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
499039 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:499000 original size:82 final size:81
Alignment explanation
Indices: 498882--499037 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
498872 TGCTATATAA
* *
498882 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
498947 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
498964 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
499028 CACTTAGTGC
65 CACTTAGTGC
499038 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:505740 original size:27 final size:27
Alignment explanation
Indices: 505710--505884 Score: 172
Period size: 27 Copynumber: 6.4 Consensus size: 27
505700 TTGAGCCCGT
* * * *
505710 ACACTCAGTGCTATATAATCAACTCGC
1 ACACTTAGTGCTACATAGTCAAATCGC
* *
505737 ACACTTAGTGCTACGTAATCAAATCGC
1 ACACTTAGTGCTACATAGTCAAATCGC
* **
505764 ACACTTAGTGCCACATAGTCCATCTCGC
1 ACACTTAGTGCTACATAGT-CAAATCGC
** * *
505792 ACACTTAGTGCCGCATGGTCAATTCGC
1 ACACTTAGTGCTACATAGTCAAATCGC
* **
505819 ACACTTAGTGC-ATCATATTCATTTCGC
1 ACACTTAGTGCTA-CATAGTCAAATCGC
*
505846 ACACTTAGTGCAACATAGTCAAATCGC
1 ACACTTAGTGCTACATAGTCAAATCGC
505873 ACACTTAGTGCT
1 ACACTTAGTGCT
505885 GTACAATTTA
Statistics
Matches: 124, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 100 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
ACACTTAGTGCTACATAGTCAAATCGC
Found at i:505847 original size:82 final size:81
Alignment explanation
Indices: 505728--505883 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
505718 TGCTATATAA
* * **
505728 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCCACATAGTCCATCTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGT-CAAATCGCA
505793 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
505810 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
505874 CACTTAGTGC
65 CACTTAGTGC
505884 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 18 0.28
82 47 0.72
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:505867 original size:54 final size:54
Alignment explanation
Indices: 505732--505883 Score: 198
Period size: 54 Copynumber: 2.8 Consensus size: 54
505722 ATATAATCAA
* * *
505732 CTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCCACATAGTCCAT
1 CTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTG-CACATAGTCCAT
** * * *
505787 CTCGCACACTTAGTGCCGCATGGTCAATTCGCACACTTAGTGCATCATA-TTCAT
1 CTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCA-CATAGTCCAT
*
505841 TTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGC
1 CTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGC
505884 TGTACAATTT
Statistics
Matches: 84, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
54 44 0.52
55 40 0.48
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.27
Consensus pattern (54 bp):
CTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCACATAGTCCAT
Found at i:512993 original size:27 final size:27
Alignment explanation
Indices: 512963--513137 Score: 172
Period size: 27 Copynumber: 6.4 Consensus size: 27
512953 TTGAGCCCGT
* * * *
512963 ACACTCAGTGCTATATAATCAACTCGC
1 ACACTTAGTGCTACATAGTCAAATCGC
* *
512990 ACACTTAGTGCTACGTAATCAAATCGC
1 ACACTTAGTGCTACATAGTCAAATCGC
* **
513017 ACACTTAGTGCCACATAGTCCATCTCGC
1 ACACTTAGTGCTACATAGT-CAAATCGC
** * *
513045 ACACTTAGTGCCGCATGGTCAATTCGC
1 ACACTTAGTGCTACATAGTCAAATCGC
* **
513072 ACACTTAGTGC-ATCATATTCATTTCGC
1 ACACTTAGTGCTA-CATAGTCAAATCGC
*
513099 ACACTTAGTGCAACATAGTCAAATCGC
1 ACACTTAGTGCTACATAGTCAAATCGC
513126 ACACTTAGTGCT
1 ACACTTAGTGCT
513138 GTACAATTTA
Statistics
Matches: 124, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 100 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
ACACTTAGTGCTACATAGTCAAATCGC
Found at i:513100 original size:82 final size:81
Alignment explanation
Indices: 512981--513136 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
512971 TGCTATATAA
* * **
512981 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCCACATAGTCCATCTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGT-CAAATCGCA
513046 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
513063 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
513127 CACTTAGTGC
65 CACTTAGTGC
513137 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 18 0.28
82 47 0.72
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:513120 original size:54 final size:54
Alignment explanation
Indices: 512985--513136 Score: 198
Period size: 54 Copynumber: 2.8 Consensus size: 54
512975 ATATAATCAA
* * *
512985 CTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCCACATAGTCCAT
1 CTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTG-CACATAGTCCAT
** * * *
513040 CTCGCACACTTAGTGCCGCATGGTCAATTCGCACACTTAGTGCATCATA-TTCAT
1 CTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCA-CATAGTCCAT
*
513094 TTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGC
1 CTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGC
513137 TGTACAATTT
Statistics
Matches: 84, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
54 44 0.52
55 40 0.48
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.27
Consensus pattern (54 bp):
CTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCACATAGTCCAT
Found at i:516727 original size:27 final size:27
Alignment explanation
Indices: 516697--516874 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
516687 ATATTGAGTC
* * * *
516697 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
516724 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
516751 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
516779 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
516806 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
516833 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
516860 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
516875 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:516836 original size:82 final size:81
Alignment explanation
Indices: 516718--516873 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
516708 TGCTATATAA
* *
516718 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
516783 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
516800 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
516864 CACTTAGTGC
65 CACTTAGTGC
516874 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:518782 original size:12 final size:12
Alignment explanation
Indices: 518767--518796 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
518757 GGTAGTAAAC
518767 ACACGGGCAGAG
1 ACACGGGCAGAG
518779 ACACGGGCAGAG
1 ACACGGGCAGAG
518791 ACACGG
1 ACACGG
518797 CCGTGTGTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.33, C:0.27, G:0.40, T:0.00
Consensus pattern (12 bp):
ACACGGGCAGAG
Found at i:520454 original size:47 final size:49
Alignment explanation
Indices: 520383--520747 Score: 289
Period size: 47 Copynumber: 7.7 Consensus size: 49
520373 AGGGTAGAAT
*
520383 GCCGATGCCATGTCCCAGACATGGTCATACACT-ATCTCATACATC-AA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGATCTCATACATCGAA
* * * *
520430 GTCGATGCCATGTCCCAGACATGGTCTTATACTGACTATCATA-ATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGA-TCTCATACATCGAA
* * * * * * * *
520479 GCCGACGCCATGTCCCAAACATAGTCTTACACTGGCTCTCACATATCCAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT-GATCTCATACATCGAA
* * *
520529 GCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CACGT-C-TCGTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGATCTCATACATCGAA
** * * *
520575 GTTGATGCCATGTCCCAAACATGGTCTTACACTG-GCT--TACATCTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGATCTCATACA--TCGAA
* *
520623 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGT-C-TC-AA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT-GATCTCATACATCGAA
* * **
520668 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTTCATA-AT-GTG
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACT-GATCTCATACATCGAA
*
520717 GCCGATG-CATGTCCTAGACAT-GTCTTACACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT
520748 AGAACACAAA
Statistics
Matches: 255, Mismatches: 43, Indels: 41
0.75 0.13 0.12
Matches are distributed among these distances:
44 1 0.00
45 2 0.01
46 63 0.25
47 71 0.28
48 39 0.15
49 43 0.17
50 36 0.14
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (49 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGATCTCATACATCGAA
Found at i:520749 original size:94 final size:97
Alignment explanation
Indices: 520380--520747 Score: 359
Period size: 94 Copynumber: 3.9 Consensus size: 97
520370 CATAGGGTAG
* * * * *
520380 AATGCCGATGCCATGTCCCAGACATGGTCATACACT--ATCTCATACATC-AAGTCGATGCCATG
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATACATCGAGGCCGATGCCATG
* * * *
520442 TCCCAGACATGGTCTTATACTGACTATCATAATC
66 TCCCAGACATGGTCTTACACTG-CTCTCGT-CTC
* * * * * * * *
520476 GAGGCCGACGCCATGTCCCAAACATAGTCTTACACTGGCTCTCACATATCCATGCCGATGCCATG
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATACATCGAGGCCGATGCCATG
* *
520541 TCCCAGACATGGTCTTACACTG-ACACGTCTC
66 TCCCAGACATGGTCTTACACTGCTCTCGTCTC
* **
520572 -GTAGTTGATGCCATGTCCCAAACATGGTCTTACACTGGCT-TACAT-C-TCGAGGCCGATG-CA
1 AAT-GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCT-CATACATCGAGGCCGATGCCA
520632 TGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTC
64 TGTCCCAGACATGGTCTTACACT-GCTCTCGTCTC
* * *
520666 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTTCATA-AT-GTGGCCGATG-CATG
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATACATCGAGGCCGATGCCATG
*
520728 TCCTAGACAT-GTCTTACACT
66 TCCCAGACATGGTCTTACACT
520748 AGAACACAAA
Statistics
Matches: 226, Mismatches: 35, Indels: 24
0.79 0.12 0.08
Matches are distributed among these distances:
92 10 0.04
93 15 0.07
94 86 0.38
95 4 0.02
96 67 0.30
97 2 0.01
98 9 0.04
99 33 0.15
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (97 bp):
AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATACATCGAGGCCGATGCCATG
TCCCAGACATGGTCTTACACTGCTCTCGTCTC
Found at i:524617 original size:13 final size:13
Alignment explanation
Indices: 524595--524626 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
524585 TTAGCTGAAG
*
524595 TTTTGGTGACCAA
1 TTTTGATGACCAA
524608 TTTTGATGACCAA
1 TTTTGATGACCAA
524621 TTTTGA
1 TTTTGA
524627 CTAGTAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.44
Consensus pattern (13 bp):
TTTTGATGACCAA
Found at i:541705 original size:43 final size:43
Alignment explanation
Indices: 541658--541750 Score: 168
Period size: 43 Copynumber: 2.2 Consensus size: 43
541648 TGGAAAGTGA
* *
541658 GTAAGTAAGTTGTTCTAAATGACTTTTATATTTGGCCACATAG
1 GTAAGTAAGTTGATCTAAATGACTTCTATATTTGGCCACATAG
541701 GTAAGTAAGTTGATCTAAATGACTTCTATATTTGGCCACATAG
1 GTAAGTAAGTTGATCTAAATGACTTCTATATTTGGCCACATAG
541744 GTAAGTA
1 GTAAGTA
541751 TAAGTGAGGT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (43 bp):
GTAAGTAAGTTGATCTAAATGACTTCTATATTTGGCCACATAG
Found at i:541795 original size:35 final size:35
Alignment explanation
Indices: 541755--541964 Score: 171
Period size: 35 Copynumber: 6.1 Consensus size: 35
541745 TAAGTATAAG
* *
541755 TGAGGTTATATTGAACTTGTATGTTCGGCTGCATA
1 TGAGGTTATATTGAACTTGTATATTCGGCTACATA
* * ** *
541790 TGAGGTTATATTGAACTTGTGTATCCGATTACATG
1 TGAGGTTATATTGAACTTGTATATTCGGCTACATA
* * *
541825 TGAGCTTATATTGAACTTGTATATT-GGTTACATG
1 TGAGGTTATATTGAACTTGTATATTCGGCTACATA
* *
541859 TGAGATTATATTGAATTTGTATATTCGGC--CATA
1 TGAGGTTATATTGAACTTGTATATTCGGCTACATA
* * * * *
541892 TGAGATGTT-TATTTGAACTTGAACATTAGGTTACATG
1 TGAG--GTTATA-TTGAACTTGTATATTCGGCTACATA
* * *
541929 TGATGATATATTGAACTTATATATTCGGC--CATA
1 TGAGGTTATATTGAACTTGTATATTCGGCTACATA
541962 TGA
1 TGA
541965 AATAATATAA
Statistics
Matches: 138, Mismatches: 30, Indels: 16
0.75 0.16 0.09
Matches are distributed among these distances:
33 13 0.09
34 33 0.24
35 84 0.61
36 2 0.01
37 6 0.04
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.41
Consensus pattern (35 bp):
TGAGGTTATATTGAACTTGTATATTCGGCTACATA
Found at i:541941 original size:70 final size:70
Alignment explanation
Indices: 541830--541964 Score: 202
Period size: 70 Copynumber: 1.9 Consensus size: 70
541820 ACATGTGAGC
* * * *
541830 TTATATTGAACTTGTATATTGGTTACATGTGAGATTATATTGAATTTGTATATTCGGCCATATGA
1 TTATATTGAACTTGAACATTGGTTACATGTGAGATTATATTGAACTTATATATTCGGCCATATGA
541895 GATGT
66 GATGT
541900 TTAT-TTGAACTTGAACATTAGGTTACATGTGATGA-TATATTGAACTTATATATTCGGCCATAT
1 TTATATTGAACTTGAACATT-GGTTACATGTGA-GATTATATTGAACTTATATATTCGGCCATAT
541963 GA
64 GA
541965 AATAATATAA
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
69 13 0.22
70 44 0.75
71 2 0.03
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (70 bp):
TTATATTGAACTTGAACATTGGTTACATGTGAGATTATATTGAACTTATATATTCGGCCATATGA
GATGT
Found at i:541979 original size:70 final size:68
Alignment explanation
Indices: 541831--541979 Score: 183
Period size: 70 Copynumber: 2.1 Consensus size: 68
541821 CATGTGAGCT
* * * * *
541831 TATATTGAACTTGTATATTGGTTACATGTGAGATTATATTGAATTTGTATATTCGGCCATATGAG
1 TATATTGAACTTGAACATTGGTTACATGTGAGATTATATTGAACTTATATATTCGGCCATATGAA
*
541896 ATG
66 ATA
*
541899 TTTATTTGAACTTGAACATTAGGTTACATGTGATGA-TATATTGAACTTATATATTCGGCCATAT
1 TATA-TTGAACTTGAACATT-GGTTACATGTGA-GATTATATTGAACTTATATATTCGGCCATAT
541963 GAAATAA
63 GAAAT-A
*
541970 TATAATGAAC
1 TATATTGAAC
541980 CTTGTGTATT
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
68 3 0.04
69 13 0.19
70 47 0.69
71 5 0.07
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (68 bp):
TATATTGAACTTGAACATTGGTTACATGTGAGATTATATTGAACTTATATATTCGGCCATATGAA
ATA
Found at i:554944 original size:9 final size:9
Alignment explanation
Indices: 554930--554954 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
554920 TGGGCCATAT
554930 TGAATTTTG
1 TGAATTTTG
554939 TGAATTTTG
1 TGAATTTTG
554948 TGAATTT
1 TGAATTT
554955 ATGAAATAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.20, T:0.56
Consensus pattern (9 bp):
TGAATTTTG
Found at i:558248 original size:13 final size:13
Alignment explanation
Indices: 558230--558255 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
558220 TGGTCTAATA
558230 TATATATATACCC
1 TATATATATACCC
558243 TATATATATACCC
1 TATATATATACCC
558256 ATGATTTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.38
Consensus pattern (13 bp):
TATATATATACCC
Found at i:561556 original size:27 final size:27
Alignment explanation
Indices: 561518--561571 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
561508 GTAACAATGG
561518 GATGAAGTTATGCACTAAAATAATTAA
1 GATGAAGTTATGCACTAAAATAATTAA
561545 GATGAAGTTATGCACTAAAATAATTAA
1 GATGAAGTTATGCACTAAAATAATTAA
561572 CTCATCCTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.48, C:0.07, G:0.15, T:0.30
Consensus pattern (27 bp):
GATGAAGTTATGCACTAAAATAATTAA
Found at i:568317 original size:16 final size:17
Alignment explanation
Indices: 568291--568331 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
568281 ATAATATGTT
*
568291 TTATAAGTATTAATATA
1 TTATAAATATTAATATA
*
568308 -TATAAATATTATTATA
1 TTATAAATATTAATATA
568324 TTATAAAT
1 TTATAAAT
568332 TATAGTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (17 bp):
TTATAAATATTAATATA
Found at i:572887 original size:49 final size:47
Alignment explanation
Indices: 572828--572937 Score: 139
Period size: 49 Copynumber: 2.3 Consensus size: 47
572818 ATCAACATAC
*
572828 ATAATTGATTTCCCCGAGAAAATTATGGAGCCAGACATCATCCCAAAAA
1 ATAATTGATTTCCCCGAGAAAATTATGGAGACAGACATCATCCC--AAA
** * * *
572877 ATAATTGATTTCATCGAGGAAATTATGGGGATAGACATCATCCCAAA
1 ATAATTGATTTCCCCGAGAAAATTATGGAGACAGACATCATCCCAAA
*
572924 ATAATTTATTTCCC
1 ATAATTGATTTCCC
572938 TAAGGAAGTT
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
47 14 0.27
49 38 0.73
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (47 bp):
ATAATTGATTTCCCCGAGAAAATTATGGAGACAGACATCATCCCAAA
Found at i:577608 original size:18 final size:16
Alignment explanation
Indices: 577567--577609 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
577557 ATGTGAAATT
*
577567 AGCATGATTAATTTGG
1 AGCATGATAAATTTGG
*
577583 AACATGATAAATGTTGTG
1 AGCATGATAAAT-TTG-G
577601 AGCATGATA
1 AGCATGATA
577610 GTGGATGGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 10 0.45
17 3 0.14
18 9 0.41
ACGTcount: A:0.37, C:0.07, G:0.23, T:0.33
Consensus pattern (16 bp):
AGCATGATAAATTTGG
Found at i:578533 original size:66 final size:66
Alignment explanation
Indices: 578391--578517 Score: 200
Period size: 66 Copynumber: 1.9 Consensus size: 66
578381 TTACACTCAA
* * * *
578391 ACACTCGTGTGCTAGGTCGTGTGAAAACTAGAGGGTATACTGACTTGTGCCACACGGCCAAGCCA
1 ACACTCGTGTGCCAGGCCGTGTGAAAACTAGAGGGTATACTGACTTGCGCCACAAGGCCAAGCCA
578456 T
66 T
* *
578457 ACACTCGTGTGCCAGGCCGTGTGAAAACTGGAGGGTATACTGGCTTGCGCCACAAGGCCAA
1 ACACTCGTGTGCCAGGCCGTGTGAAAACTAGAGGGTATACTGACTTGCGCCACAAGGCCAA
578518 TGTGCTAGGC
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 55 1.00
ACGTcount: A:0.25, C:0.25, G:0.29, T:0.20
Consensus pattern (66 bp):
ACACTCGTGTGCCAGGCCGTGTGAAAACTAGAGGGTATACTGACTTGCGCCACAAGGCCAAGCCA
T
Found at i:591204 original size:22 final size:22
Alignment explanation
Indices: 591177--591218 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
591167 ACAAAATGAT
591177 CTGTTGATTATCAAAATATACC
1 CTGTTGATTATCAAAATATACC
* *
591199 CTGTTGATTATTAAGATATA
1 CTGTTGATTATCAAAATATA
591219 TTCAGGAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (22 bp):
CTGTTGATTATCAAAATATACC
Found at i:594827 original size:54 final size:54
Alignment explanation
Indices: 594767--594888 Score: 158
Period size: 54 Copynumber: 2.3 Consensus size: 54
594757 GTGTCCTCAC
*
594767 CCATGTAACTCACTGAGATGCCCCACACAC-CT-GTGTGCCAGGTCGTGTGCTAGG
1 CCATGTAACTCACTGAGATG--CCACACACGCTCGTGTGCCAGGCCGTGTGCTAGG
* ** *
594821 CTATGTAACTCTTTGAGTTGCCACACACGCTCGTGTGCCAGGCCGTGTGCTAGG
1 CCATGTAACTCACTGAGATGCCACACACGCTCGTGTGCCAGGCCGTGTGCTAGG
*
594875 CCATGTAATTCACT
1 CCATGTAACTCACT
594889 AACTTGGAAC
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
52 8 0.14
53 2 0.04
54 47 0.82
ACGTcount: A:0.20, C:0.30, G:0.25, T:0.26
Consensus pattern (54 bp):
CCATGTAACTCACTGAGATGCCACACACGCTCGTGTGCCAGGCCGTGTGCTAGG
Found at i:598061 original size:4 final size:4
Alignment explanation
Indices: 598031--598088 Score: 57
Period size: 4 Copynumber: 14.0 Consensus size: 4
598021 TTTTCCCTTC
*
598031 TTCT CTTCT TT-T TTCTT TTCTT TTCT TTCT TTCT TTCT TTCA TTC- TTCT
1 TTCT -TTCT TTCT TTC-T TTC-T TTCT TTCT TTCT TTCT TTCT TTCT TTCT
598080 TCTCT TTCT
1 T-TCT TTCT
598089 CCTTAGCTTG
Statistics
Matches: 48, Mismatches: 1, Indels: 9
0.83 0.02 0.16
Matches are distributed among these distances:
3 6 0.12
4 25 0.52
5 17 0.35
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.72
Consensus pattern (4 bp):
TTCT
Found at i:603237 original size:54 final size:54
Alignment explanation
Indices: 603155--603283 Score: 204
Period size: 54 Copynumber: 2.4 Consensus size: 54
603145 CTTACAGCGG
603155 GATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGCATTGTCGA
1 GATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGCATTGTCGA
* * *
603209 GATTACCAGTCCATGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTCGG
1 GATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGCATTGTCGA
* * *
603263 GATTATCAATCCAGGTTAAAT
1 GATTACCAGTCCAGGCTAAAT
603284 TTAGACCCTG
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 68 1.00
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (54 bp):
GATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGCATTGTCGA
Found at i:605972 original size:47 final size:49
Alignment explanation
Indices: 605850--606028 Score: 223
Period size: 47 Copynumber: 3.8 Consensus size: 49
605840 TGTAACCCGC
* *
605850 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GC-GTTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCAGTTCACAT
*
605896 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATG-C-AGTTCACAT
* *
605946 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA--CATTTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCAGTTCACAT
*
605990 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATG
606029 TTCAACCATC
Statistics
Matches: 116, Mismatches: 6, Indels: 19
0.82 0.04 0.13
Matches are distributed among these distances:
43 3 0.03
44 5 0.04
45 1 0.01
46 37 0.32
47 58 0.50
48 3 0.03
49 2 0.02
50 4 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (49 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCAGTTCACAT
Found at i:606018 original size:94 final size:93
Alignment explanation
Indices: 605858--606028 Score: 306
Period size: 94 Copynumber: 1.8 Consensus size: 93
605848 GCCCATAAGT
*
605858 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
605923 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
605951 GAACTCGGACTCAACTCAACGAGTTCGGACATTTCACATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGAC-GTTCACATCCATAAGTGAACTCGGACTCAACTCA
606016 ACGAGTTCGGATG
65 ACGAGTTCGGATG
606029 TTCAACCATC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
93 28 0.38
94 46 0.62
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:612415 original size:24 final size:24
Alignment explanation
Indices: 612388--612439 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
612378 TACAATGCCA
612388 TATCCCATTTATGGTCTTACATGT
1 TATCCCATTTATGGTCTTACATGT
612412 TATCCCATTTATGGTCTTACATGT
1 TATCCCATTTATGGTCTTACATGT
612436 TATC
1 TATC
612440 ACATATCGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.21, C:0.21, G:0.12, T:0.46
Consensus pattern (24 bp):
TATCCCATTTATGGTCTTACATGT
Found at i:612515 original size:43 final size:45
Alignment explanation
Indices: 612442--612561 Score: 135
Period size: 43 Copynumber: 2.8 Consensus size: 45
612432 ATGTTATCAC
* * * *
612442 ATAT-CGATGCCACTGTCCCAGATAGGGTCTTACACGA-AAT-TGA
1 ATATACGATGCCAATGTCCCAGACATGGTCTTACAC-ATAATCTCA
* *
612485 TTA-ACGATGCCAATGTCCCAGACATAGTCTTACACATAATCTCA
1 ATATACGATGCCAATGTCCCAGACATGGTCTTACACATAATCTCA
612529 ATATA--ATGCCAATGTCCCAGACATGGTCTTACA
1 ATATACGATGCCAATGTCCCAGACATGGTCTTACA
612562 TGTAATCACA
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
42 1 0.02
43 59 0.91
44 4 0.06
45 1 0.02
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.27
Consensus pattern (45 bp):
ATATACGATGCCAATGTCCCAGACATGGTCTTACACATAATCTCA
Found at i:612568 original size:43 final size:43
Alignment explanation
Indices: 612422--612568 Score: 129
Period size: 43 Copynumber: 3.4 Consensus size: 43
612412 TATCCCATTT
* * * * * *
612422 ATGGTCTTACATGTTATCAC-ATATCGATGCCACTGTCCCAGAT
1 ATGGTCTTACACGTAATCTCAATAT-AATGCCAATGTCCCAGAC
* * * *
612465 AGGGTCTTACACGAAAT-TGATTA-ACGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCTCAATATA--ATGCCAATGTCCCAGAC
* *
612508 ATAGTCTTACACATAATCTCAATATAATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCTCAATATAATGCCAATGTCCCAGAC
*
612551 ATGGTCTTACATGTAATC
1 ATGGTCTTACACGTAATC
612569 ACATCTTGAT
Statistics
Matches: 80, Mismatches: 19, Indels: 10
0.73 0.17 0.09
Matches are distributed among these distances:
43 75 0.94
44 4 0.05
45 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCTCAATATAATGCCAATGTCCCAGAC
Found at i:613166 original size:36 final size:37
Alignment explanation
Indices: 613119--613196 Score: 140
Period size: 37 Copynumber: 2.1 Consensus size: 37
613109 TTTCACTAAA
*
613119 AATCACTTTAT-AAAACAAGATAATCTATCAACAAAT
1 AATCACTTTATAAAAAAAAGATAATCTATCAACAAAT
613155 AATCACTTTATAAAAAAAAGATAATCTATCAACAAAT
1 AATCACTTTATAAAAAAAAGATAATCTATCAACAAAT
613192 AATCA
1 AATCA
613197 TTTTCCATCA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
36 11 0.28
37 29 0.73
ACGTcount: A:0.55, C:0.15, G:0.03, T:0.27
Consensus pattern (37 bp):
AATCACTTTATAAAAAAAAGATAATCTATCAACAAAT
Found at i:615729 original size:16 final size:16
Alignment explanation
Indices: 615708--615742 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
615698 GTAGAACGGC
615708 AAAAGCTGAAAAGTCG
1 AAAAGCTGAAAAGTCG
615724 AAAAGCTGAAAAGTCG
1 AAAAGCTGAAAAGTCG
615740 AAA
1 AAA
615743 GAATGCCCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.54, C:0.11, G:0.23, T:0.11
Consensus pattern (16 bp):
AAAAGCTGAAAAGTCG
Found at i:616218 original size:27 final size:27
Alignment explanation
Indices: 616141--616217 Score: 82
Period size: 28 Copynumber: 2.8 Consensus size: 27
616131 CCCCAAGACA
**
616141 GGTAAAATGACACAAAATACCCCTAAAG
1 GGTAAAATGAC-CATTATACCCCTAAAG
* *
616169 GGTAAAATGACTATTTTACCCCTAATAG
1 GGTAAAATGACCATTATACCCCTAA-AG
* *
616197 GTTAAAATGACCGTTATACCC
1 GGTAAAATGACCATTATACCC
616218 TTAGAGGTAG
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
27 10 0.25
28 30 0.75
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.25
Consensus pattern (27 bp):
GGTAAAATGACCATTATACCCCTAAAG
Found at i:616385 original size:27 final size:26
Alignment explanation
Indices: 616345--616418 Score: 112
Period size: 27 Copynumber: 2.8 Consensus size: 26
616335 AGAGGAAGTG
616345 TACTGTACTGGTGGCTTTGCCATATA
1 TACTGTACTGGTGGCTTTGCCATATA
*
616371 TACTGTTAATGGTGGCTTTGCCATATA
1 TACTG-TACTGGTGGCTTTGCCATATA
*
616398 TACTGATACTGGTAGCTTTGC
1 TACTG-TACTGGTGGCTTTGC
616419 TGTGTTACTT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
26 5 0.12
27 38 0.88
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.39
Consensus pattern (26 bp):
TACTGTACTGGTGGCTTTGCCATATA
Found at i:621446 original size:3 final size:3
Alignment explanation
Indices: 621438--621467 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
621428 CTCCGTCTTA
621438 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
621468 CTCAAGTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:626348 original size:21 final size:21
Alignment explanation
Indices: 626302--626348 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
626292 TTTACTCATT
626302 CTTTTGGTCAAAATCAAAATG
1 CTTTTGGTCAAAATCAAAATG
* **
626323 ATTTTGGTCAAAATCAGCATG
1 CTTTTGGTCAAAATCAAAATG
626344 CTTTT
1 CTTTT
626349 AGACCACATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (21 bp):
CTTTTGGTCAAAATCAAAATG
Found at i:633404 original size:14 final size:13
Alignment explanation
Indices: 633369--633400 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
633359 TTTTTTATAA
633369 AATTATAAAAAAG
1 AATTATAAAAAAG
633382 AATTATAAAAAAG
1 AATTATAAAAAAG
633395 -ATTATA
1 AATTATA
633401 TAAATTATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (13 bp):
AATTATAAAAAAG
Found at i:633506 original size:10 final size:10
Alignment explanation
Indices: 633458--633510 Score: 58
Period size: 9 Copynumber: 5.5 Consensus size: 10
633448 GCCCTTTTAA
633458 AATTTTATA-
1 AATTTTATAT
633467 AATTTT-TAT
1 AATTTTATAT
*
633476 CATTTTA-AT
1 AATTTTATAT
*
633485 GATTTATATAT
1 AATTT-TATAT
633496 AATTTTATAT
1 AATTTTATAT
633506 AATTT
1 AATTT
633511 CTAACAAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
8 2 0.05
9 17 0.46
10 12 0.32
11 6 0.16
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (10 bp):
AATTTTATAT
Found at i:642044 original size:3 final size:3
Alignment explanation
Indices: 642036--642074 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
642026 AGAGAATTGC
642036 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
642075 AAGCAAAACC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:643907 original size:25 final size:25
Alignment explanation
Indices: 643854--643908 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
643844 ATAATACTAG
*
643854 TTTTTAACAATAAAAATTAATAAAT
1 TTTTTAACAATAAAAATTAATAAAC
**
643879 TTTTTAAC-ATAAAATATTAATTTAC
1 TTTTTAACAATAAAA-ATTAATAAAC
643904 TTTTT
1 TTTTT
643909 TATCCAAAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 6 0.23
25 20 0.77
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.49
Consensus pattern (25 bp):
TTTTTAACAATAAAAATTAATAAAC
Found at i:644171 original size:20 final size:21
Alignment explanation
Indices: 644131--644174 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
644121 TAATTAAGAT
*
644131 AAAATTGTAGTGATAATATTA
1 AAAATTATAGTGATAATATTA
*
644152 AAAATTATAGTGATTA-ATTA
1 AAAATTATAGTGATAATATTA
644172 AAA
1 AAA
644175 TTAGTTGTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.36
Consensus pattern (21 bp):
AAAATTATAGTGATAATATTA
Found at i:644184 original size:20 final size:21
Alignment explanation
Indices: 644130--644184 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
644120 TTAATTAAGA
644130 TAAAATT-GTAGTGATAATAT
1 TAAAATTAGTAGTGATAATAT
*
644150 TAAAAATTA-TAGTGATTA-AT
1 T-AAAATTAGTAGTGATAATAT
*
644170 TAAAATTAGTTGTGA
1 TAAAATTAGTAGTGA
644185 GATGTATTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
19 7 0.23
20 9 0.30
21 14 0.47
ACGTcount: A:0.45, C:0.00, G:0.15, T:0.40
Consensus pattern (21 bp):
TAAAATTAGTAGTGATAATAT
Found at i:646741 original size:22 final size:22
Alignment explanation
Indices: 646716--646765 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
646706 ACATGTATTG
*
646716 AGACATTGG-CTCTTATGTCTCA
1 AGACATTGGTC-CTTATGTCACA
* *
646738 AGACTTTGGTCCTTATGTCACG
1 AGACATTGGTCCTTATGTCACA
646760 AGACAT
1 AGACAT
646766 GACCTTAGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (22 bp):
AGACATTGGTCCTTATGTCACA
Found at i:653037 original size:30 final size:29
Alignment explanation
Indices: 653001--653057 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 29
652991 AGAGACAAAA
653001 ATGTAACATTTAATAACATT-AATAATTATT
1 ATGTAACATTTAA-AA-ATTAAATAATTATT
*
653031 ATGTAACTTTTAAAAATTAAATAATTA
1 ATGTAACATTTAAAAATTAAATAATTA
653058 AAATATAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 3 0.12
29 10 0.40
30 12 0.48
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.42
Consensus pattern (29 bp):
ATGTAACATTTAAAAATTAAATAATTATT
Found at i:653314 original size:11 final size:11
Alignment explanation
Indices: 653294--653331 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
653284 TAATTGAACT
653294 TATTTTTTTTA
1 TATTTTTTTTA
*
653305 TATTTCTTTTGA
1 TATTT-TTTTTA
653317 -ATTTTTTTTA
1 TATTTTTTTTA
653327 TATTT
1 TATTT
653332 GTCTAGCTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
10 5 0.22
11 13 0.57
12 5 0.22
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (11 bp):
TATTTTTTTTA
Found at i:653769 original size:23 final size:22
Alignment explanation
Indices: 653729--653774 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
653719 AGAGATAAAG
*
653729 AAAAATACCTAAATAAATTCTAA
1 AAAAATACATAAATAAATT-TAA
653752 AAAAATACATATAA-AAATTTAA
1 AAAAATACATA-AATAAATTTAA
653774 A
1 A
653775 TAATATTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 4 0.19
23 15 0.71
24 2 0.10
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (22 bp):
AAAAATACATAAATAAATTTAA
Found at i:660635 original size:28 final size:28
Alignment explanation
Indices: 660551--660647 Score: 97
Period size: 28 Copynumber: 3.4 Consensus size: 28
660541 AATTATTGCA
* *
660551 CTTATCG-TATTATTTTACACTTCGGTG
1 CTTATCGTTATTATTTTGCACTTAGGTG
** * *
660578 CTTATCGTTGCAAAAATTTGCACTTTGGTG
1 CTTATCGTT--ATTATTTTGCACTTAGGTG
*
660608 CTTATCGTTATTATTTTGCACCTAGGTG
1 CTTATCGTTATTATTTTGCACTTAGGTG
*
660636 CTTTTCGTTATT
1 CTTATCGTTATT
660648 TTCACTTTTT
Statistics
Matches: 56, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
27 7 0.12
28 26 0.46
30 23 0.41
ACGTcount: A:0.19, C:0.18, G:0.16, T:0.47
Consensus pattern (28 bp):
CTTATCGTTATTATTTTGCACTTAGGTG
Found at i:665512 original size:10 final size:10
Alignment explanation
Indices: 665497--665556 Score: 70
Period size: 10 Copynumber: 6.0 Consensus size: 10
665487 TAATTTTAGG
665497 ATTTAT-TTT
1 ATTTATCTTT
665506 CATTTATCTTT
1 -ATTTATCTTT
665517 ATTTATCTTT
1 ATTTATCTTT
*
665527 AATTATCTTT
1 ATTTATCTTT
*
665537 ATTTAT-TTGC
1 ATTTATCTT-T
665547 ATTTATCTTT
1 ATTTATCTTT
665557 TAGAATTTCA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
9 2 0.05
10 36 0.84
11 5 0.12
ACGTcount: A:0.22, C:0.10, G:0.02, T:0.67
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:665522 original size:20 final size:20
Alignment explanation
Indices: 665497--665556 Score: 86
Period size: 20 Copynumber: 3.0 Consensus size: 20
665487 TAATTTTAGG
665497 ATTTATTTTCATTTATCTTT
1 ATTTATTTTCATTTATCTTT
*
665517 ATTTATCTTT-AATTATCTTT
1 ATTTAT-TTTCATTTATCTTT
*
665537 ATTTATTTGCATTTATCTTT
1 ATTTATTTTCATTTATCTTT
665557 TAGAATTTCA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.06
20 30 0.86
21 3 0.09
ACGTcount: A:0.22, C:0.10, G:0.02, T:0.67
Consensus pattern (20 bp):
ATTTATTTTCATTTATCTTT
Found at i:666313 original size:18 final size:18
Alignment explanation
Indices: 666278--666311 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
666268 TATTCCTCAT
666278 TTTAATTTCTGCAATTTA
1 TTTAATTTCTGCAATTTA
666296 TTTAATTTC-GCAATTT
1 TTTAATTTCTGCAATTT
666312 TAATTCACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.26, C:0.12, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTAATTTCTGCAATTTA
Found at i:669267 original size:15 final size:15
Alignment explanation
Indices: 669247--669330 Score: 64
Period size: 15 Copynumber: 5.1 Consensus size: 15
669237 GGCAACCGAA
669247 TTTTTATTTTTATTT
1 TTTTTATTTTTATTT
669262 TTTTTA-TTTTAGTTT
1 TTTTTATTTTTA-TTT
669277 AGTTGAGTTTATTTTTATTT
1 --TT---TTTATTTTTATTT
669297 ATTTTTATTTATTA-TT
1 -TTTTTATTT-TTATTT
*
669313 TTTTTACTTATTATTT
1 TTTTTA-TTTTTATTT
669329 TT
1 TT
669331 AGATATTAAT
Statistics
Matches: 57, Mismatches: 2, Indels: 19
0.73 0.03 0.24
Matches are distributed among these distances:
14 5 0.09
15 18 0.32
16 15 0.26
17 5 0.09
19 2 0.04
20 7 0.12
21 5 0.09
ACGTcount: A:0.18, C:0.01, G:0.05, T:0.76
Consensus pattern (15 bp):
TTTTTATTTTTATTT
Found at i:669302 original size:10 final size:10
Alignment explanation
Indices: 669249--669328 Score: 63
Period size: 10 Copynumber: 7.3 Consensus size: 10
669239 CAACCGAATT
669249 TTTATTTTTA
1 TTTATTTTTA
669259 TTT-TTTTTA
1 TTTATTTTTA
669268 TTTTAGTTTAGTTGA
1 -TTTA-TTT--TT-A
669283 GTTTATTTTTA
1 -TTTATTTTTA
669294 TTTATTTTTA
1 TTTATTTTTA
*
669304 TTTATTATTTT
1 TTTATT-TTTA
*
669315 TTTACTTATTA
1 TTTA-TTTTTA
669326 TTT
1 TTT
669329 TTAGATATTA
Statistics
Matches: 58, Mismatches: 4, Indels: 15
0.75 0.05 0.19
Matches are distributed among these distances:
9 6 0.10
10 22 0.38
11 13 0.22
12 7 0.12
14 5 0.09
15 5 0.09
ACGTcount: A:0.19, C:0.01, G:0.05, T:0.75
Consensus pattern (10 bp):
TTTATTTTTA
Found at i:670239 original size:96 final size:98
Alignment explanation
Indices: 670075--670262 Score: 308
Period size: 96 Copynumber: 1.9 Consensus size: 98
670065 TTTAAGAATG
* * *
670075 TGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTATCTTCGCGTCAAAAGGTTCGAT
1 TGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTATCATCTATCTTCGCATCAAAAGGTTCAAT
*
670140 ATATTCTTAAG-AAAAATAAA-AATTAGGAGTA
66 ATATTCCTAAGTAAAAATAAATAATTAGGAGTA
* *
670171 TGTTGGGCTGAGTAACCGGGGTGGGGTGCTTGGCTATCATCTCTCTTCGCATCAAAAGGTTCAAT
1 TGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTATCATCTATCTTCGCATCAAAAGGTTCAAT
670236 ATATTCCTAAGTAAAAATAAATAATTA
66 ATATTCCTAAGTAAAAATAAATAATTA
670263 AAATTAAAAT
Statistics
Matches: 84, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
96 70 0.83
97 9 0.11
98 5 0.06
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (98 bp):
TGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTATCATCTATCTTCGCATCAAAAGGTTCAAT
ATATTCCTAAGTAAAAATAAATAATTAGGAGTA
Found at i:670293 original size:12 final size:12
Alignment explanation
Indices: 670278--670304 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
670268 AAAATTCTAT
670278 AAAAAAAAGAAA
1 AAAAAAAAGAAA
670290 AAAAAAAAGAAA
1 AAAAAAAAGAAA
670302 AAA
1 AAA
670305 GAGACATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (12 bp):
AAAAAAAAGAAA
Found at i:672358 original size:10 final size:10
Alignment explanation
Indices: 672343--672402 Score: 70
Period size: 10 Copynumber: 6.0 Consensus size: 10
672333 TAATTTTAGG
672343 ATTTAT-TTT
1 ATTTATCTTT
672352 CATTTATCTTT
1 -ATTTATCTTT
672363 ATTTATCTTT
1 ATTTATCTTT
* *
672373 AATTCTCTTT
1 ATTTATCTTT
672383 ATTTAT-TTGT
1 ATTTATCTT-T
672393 ATTTATCTTT
1 ATTTATCTTT
672403 TAGAATTTCA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
9 2 0.05
10 36 0.84
11 5 0.12
ACGTcount: A:0.20, C:0.10, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:673147 original size:18 final size:18
Alignment explanation
Indices: 673112--673145 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
673102 TATTCCTCAT
*
673112 TTTAATTTCTGCAATTTA
1 TTTAATTTCTACAATTTA
673130 TTTAATTTC-ACAATTT
1 TTTAATTTCTACAATTT
673146 TAATTCACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.12, G:0.03, T:0.56
Consensus pattern (18 bp):
TTTAATTTCTACAATTTA
Found at i:675892 original size:42 final size:42
Alignment explanation
Indices: 675833--675917 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
675823 TCTACTTCAT
675833 CGGAATCAGCTCAGTTGAATGCTATTGCTATATAAAAACATA
1 CGGAATCAGCTCAGTTGAATGCTATTGCTATATAAAAACATA
675875 CGGAATCAGCTCAGTTGAATGCTATTGCTATATAAAAACATA
1 CGGAATCAGCTCAGTTGAATGCTATTGCTATATAAAAACATA
675917 C
1 C
675918 TTTAAAATGG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (42 bp):
CGGAATCAGCTCAGTTGAATGCTATTGCTATATAAAAACATA
Found at i:677258 original size:25 final size:24
Alignment explanation
Indices: 677230--677312 Score: 78
Period size: 25 Copynumber: 3.3 Consensus size: 24
677220 AGGTGTAAAC
677230 GTAAGCTCCTCCGAGCTAAACAATG
1 GTAAGCTCCTCCGAGCTAAA-AATG
* * * *
677255 GTAAGCTCCTCCAAAC-AGAATATCA
1 GTAAGCTCCTCCGAGCTA-AAAAT-G
*
677280 GTAAGCTCTTCCGAGCTAAATAATG
1 GTAAGCTCCTCCGAGCTAAA-AATG
677305 GTAAGCTC
1 GTAAGCTC
677313 GTATGAGCTG
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
24 3 0.07
25 39 0.87
26 3 0.07
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (24 bp):
GTAAGCTCCTCCGAGCTAAAAATG
Found at i:682246 original size:27 final size:27
Alignment explanation
Indices: 682215--682392 Score: 223
Period size: 27 Copynumber: 6.6 Consensus size: 27
682205 TAAATTGTAC
682215 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
682242 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
682268 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
682296 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
682324 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
682351 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
682378 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
682393 GGCTCAATAT
Statistics
Matches: 133, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
27 110 0.83
28 23 0.17
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:682383 original size:82 final size:81
Alignment explanation
Indices: 682214--682392 Score: 234
Period size: 82 Copynumber: 2.2 Consensus size: 81
682204 TTAAATTGTA
* *
682214 CAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGT
1 CAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGT
*
682279 GTGCGAATTGACCATG
66 GTGCGAATTGACCACG
* ** *
682295 CGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAA
1 CAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAA
* **
682359 GTGTGCGATTTGATTACG
64 GTGTGCGAATTGACCACG
*
682377 TAGCACTAAGTGTGCG
1 CAGCACTAAGTGTGCG
682393 GGCTCAATAT
Statistics
Matches: 84, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
81 17 0.20
82 67 0.80
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (81 bp):
CAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGT
GTGCGAATTGACCACG
Found at i:695391 original size:56 final size:55
Alignment explanation
Indices: 695293--695454 Score: 182
Period size: 56 Copynumber: 2.9 Consensus size: 55
695283 CGAAGCCAAC
* * * * *
695293 TCGCACATACTTTTCAGGAAAC-TCAAAAAGGTCCGCCTTAGGTCACAAGACTGGA
1 TCGCACATACTTATCAGAAAACATGAACAAGGTCTGCCTTAGGTCA-AAGACTGGA
* * *
695348 TGGCACATACTTATCAGAAAACATGAACAAGGTCTGCCTTAGGTCGAGAGACTGGT
1 TCGCACATACTTATCAGAAAACATGAACAAGGTCTGCCTTAGGTC-AAAGACTGGA
* * * *
695404 TCGTACATACTTATTAAAAAACATGAACAAGGTTTGCCTTAGGTCATAAGA
1 TCGCACATACTTATCAGAAAACATGAACAAGGTCTGCCTTAGGTCA-AAGA
695455 TCGGTTCACT
Statistics
Matches: 90, Mismatches: 14, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
55 20 0.22
56 69 0.77
57 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (55 bp):
TCGCACATACTTATCAGAAAACATGAACAAGGTCTGCCTTAGGTCAAAGACTGGA
Found at i:713696 original size:40 final size:40
Alignment explanation
Indices: 713650--713726 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
713640 ACACACCATG
* *
713650 TGGGGATAGAATCGACCCACCCAACCCTTCAAACCAAGTA
1 TGGGGATAGAATCAACCCACCCAACCCTACAAACCAAGTA
* * * *
713690 TGGGGATATAATCAACCCATCCAGCCCTACACACCAA
1 TGGGGATAGAATCAACCCACCCAACCCTACAAACCAA
713727 AAGGTACCGT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.35, C:0.34, G:0.16, T:0.16
Consensus pattern (40 bp):
TGGGGATAGAATCAACCCACCCAACCCTACAAACCAAGTA
Found at i:717585 original size:3 final size:3
Alignment explanation
Indices: 717579--717653 Score: 60
Period size: 3 Copynumber: 25.0 Consensus size: 3
717569 TTTTTTATAC
* * * * * * * *
717579 ATT ATT ATT AAT ATC ATA ATC ATT ATT ATT ATT ATC GTT ATT AAT GTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
717627 ATT ATT ATC ATT ACT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
717654 CTTACCCCTT
Statistics
Matches: 54, Mismatches: 18, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.56
Consensus pattern (3 bp):
ATT
Found at i:727328 original size:23 final size:23
Alignment explanation
Indices: 727279--727329 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
727269 TCTAAAAATT
727279 ATATC-TCTAAGATTACAGAATC
1 ATATCTTCTAAGATTACAGAATC
* *
727301 GTATCTTCTAAAGATTACA-TATC
1 ATATCTTCT-AAGATTACAGAATC
727324 ATATCT
1 ATATCT
727330 AAGATTACAC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
22 4 0.17
23 11 0.46
24 9 0.38
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (23 bp):
ATATCTTCTAAGATTACAGAATC
Found at i:729895 original size:18 final size:18
Alignment explanation
Indices: 729874--729917 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
729864 CCTATTTTCT
729874 ATTATTGAAAGTTTTGAA
1 ATTATTGAAAGTTTTGAA
**
729892 ATTATTGAACTTTTTGAA
1 ATTATTGAAAGTTTTGAA
729910 ATTTATTG
1 A-TTATTG
729918 GTGAAAGGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 17 0.74
19 6 0.26
ACGTcount: A:0.34, C:0.02, G:0.14, T:0.50
Consensus pattern (18 bp):
ATTATTGAAAGTTTTGAA
Found at i:732419 original size:66 final size:65
Alignment explanation
Indices: 732307--732446 Score: 208
Period size: 66 Copynumber: 2.1 Consensus size: 65
732297 AGATCTTCAT
* * * *
732307 CACACCAAATAGACTCATAGAGTCAGACATGTCCCATAAGTGAAGCATAAAACTAACACTCTCCA
1 CACACC-AATAGACTCATACAGTCAAACATATCCCAAAAGTGAAGCATAAAACTAACACTCTCCA
732372 A
65 A
* *
732373 CACACCAATTGACTCATACAGTCAAACATATCCCAAAAAGTGAAGCATAAAGCTAACACTCTCCA
1 CACACCAATAGACTCATACAGTCAAACATATCCC-AAAAGTGAAGCATAAAACTAACACTCTCCA
732438 A
65 A
732439 CACACCAA
1 CACACCAA
732447 ACATGTCCCG
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
65 24 0.36
66 43 0.64
ACGTcount: A:0.44, C:0.29, G:0.10, T:0.17
Consensus pattern (65 bp):
CACACCAATAGACTCATACAGTCAAACATATCCCAAAAGTGAAGCATAAAACTAACACTCTCCAA
Found at i:734856 original size:30 final size:28
Alignment explanation
Indices: 734816--734873 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
734806 TGGAGAACTC
734816 ACAGTAAGTGGCGAGCGCTACCTCAAATGA
1 ACAGTAAGTGGCGA--GCTACCTCAAATGA
* * *
734846 ACAGTGAGTGGTGAGCTACCTCGAATGA
1 ACAGTAAGTGGCGAGCTACCTCAAATGA
734874 GTATAAGCGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 13 0.52
30 12 0.48
ACGTcount: A:0.31, C:0.21, G:0.29, T:0.19
Consensus pattern (28 bp):
ACAGTAAGTGGCGAGCTACCTCAAATGA
Done.