Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 71 of 207
Found at i:20563379 original size:31 final size:30
Alignment explanation
Indices: 20563327--20563388 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 30
20563317 AACCATTAAC
* * *
20563327 TTTTATTTTTATTTTATTGTTTGTTTTTCTT
1 TTTTATTTTTAGTTTAGTGTTTG-GTTTCTT
20563358 TTTTATTTATTAGTTT-GTGTTTGGTTTCTT
1 TTTTATTT-TTAGTTTAGTGTTTGGTTTCTT
20563388 T
1 T
20563389 AGCGGGCCGG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 7 0.26
31 14 0.52
32 6 0.22
ACGTcount: A:0.10, C:0.03, G:0.11, T:0.76
Consensus pattern (30 bp):
TTTTATTTTTAGTTTAGTGTTTGGTTTCTT
Found at i:20563957 original size:129 final size:129
Alignment explanation
Indices: 20563681--20564106 Score: 446
Period size: 129 Copynumber: 3.3 Consensus size: 129
20563671 CTGCTCCACT
* ** * * *
20563681 CAACTTCAGAGAGATAAGATTGGTTTCTTCTGTCTGCTCCATTGCAACTTCAGGGAGATAAGACT
1 CAACTTCAGGGAGATAAGATTGGTTTCTTCAATCTGATCCACTGCAACTTCAGGGAGATAAGATT
* ** * * * * * *
20563746 AGATTTTTCAATCTGCTCCATTGCAACTTCA-AGGAGATAAGA-CTG-GATTCTTCAATCTGCTC
66 GGA---CGCGATCTACTCTACTGCAACTTCAGA-GAGATAAGATCTGTGGTT-TT-AATCCGCTC
*
20563808 C-ATTG
125 CGA-TA
* * * * *
20563813 TAACTTCAGGGAGATAAGACTGGATCCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
1 CAACTTCAGGGAGATAAGATTGGTTTCTTCAATCTGATCCACTGCAACTTCAGGGAGATAAGATT
* * * *
20563878 GGGCGTGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTATTCCGCTCCGATG
66 GGACGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCGATA
* * * **
20563942 CAACTTCAGGGAGATATGATTAGTTTTTTCAATCTGATTTACTGCAACTTCAGGGAGATAAGATT
1 CAACTTCAGGGAGATAAGATTGGTTTCTTCAATCTGATCCACTGCAACTTCAGGGAGATAAGATT
* * * *
20564007 GGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCTGCTCCGCTA
66 GGACGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCGATA
*
20564071 CAACTTCAGGGAGATAGGATTGGTTTCTTCAATCTG
1 CAACTTCAGGGAGATAAGATTGGTTTCTTCAATCTG
20564107 TTCTCTGAGG
Statistics
Matches: 248, Mismatches: 42, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
129 181 0.73
130 7 0.03
131 3 0.01
132 57 0.23
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.32
Consensus pattern (129 bp):
CAACTTCAGGGAGATAAGATTGGTTTCTTCAATCTGATCCACTGCAACTTCAGGGAGATAAGATT
GGACGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCGATA
Found at i:20564105 original size:44 final size:44
Alignment explanation
Indices: 20563584--20564106 Score: 464
Period size: 44 Copynumber: 12.0 Consensus size: 44
20563574 GGATGCGATT
* ** *
20563584 TGCTCAACTGCAACTTCAGAAAGATAAGATCTGTGCTT-TT-AATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGAT-TG-GTTTCTTCAATC
* *
20563628 TGCTCCACTGCAACTTCAGGGACATAGGATTGGTTTCTTCAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTCTTCAATC
* **
20563672 TGCTCCACT-CAACTTCAGAGAGATAAGATTGGTTTCTTCTGTC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTCTTCAATC
* * *
20563715 TGCTCCATTGCAACTTCAGGGAGATAAGACTAGATTT-TTCAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGA-TTGGTTTCTTCAATC
* * * *
20563759 TGCTCCATTGCAACTTCAAGGAGATAAGACTGGATTCTTCAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTCTTCAATC
* * * * *
20563803 TGCTCCATTGTAACTTCAGGGAGATAAGACTGGATCCTTCAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTCTTCAATC
* * *
20563847 TGCTCCACTGCAACTTCAGGGAGATAAGATTGG--GCGT-GATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTCTTCAATC
* * * * *
20563888 TACTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTT-TT-ATTC
1 TGCTCCACTGCAACTTCAGGGAGATAAGAT-TG-GTTTCTTCAATC
* * * *
20563932 CGCTCCGA-TGCAACTTCAGGGAGATATGATTAGTTTTTTCAATC
1 TGCTCC-ACTGCAACTTCAGGGAGATAAGATTGGTTTCTTCAATC
* ** * * *
20563976 TGATTTACTGCAACTTCAGGGAGATAAGATTGG---ATGCGATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTCTTCAATC
* * *
20564017 TGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTT-TT-AATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGAT-TG-GTTTCTTCAATC
* * *
20564061 TGCTCCGCTACAACTTCAGGGAGATAGGATTGGTTTCTTCAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTCTTCAATC
20564105 TG
1 TG
20564107 TTCTCTGAGG
Statistics
Matches: 393, Mismatches: 66, Indels: 40
0.79 0.13 0.08
Matches are distributed among these distances:
41 62 0.16
42 15 0.04
43 54 0.14
44 255 0.65
45 7 0.02
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.32
Consensus pattern (44 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTCTTCAATC
Found at i:20564997 original size:26 final size:26
Alignment explanation
Indices: 20564938--20564991 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
20564928 AGTATCTTGA
* *
20564938 AAAGATTAAAGTATTCCAAGAACAGC
1 AAAGAATAAAGTATTCCAAGAACAAC
* *
20564964 AAAGAATAAAGTATTCTAAGAATAAC
1 AAAGAATAAAGTATTCCAAGAACAAC
20564990 AA
1 AA
20564992 GTAATATGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.56, C:0.11, G:0.13, T:0.20
Consensus pattern (26 bp):
AAAGAATAAAGTATTCCAAGAACAAC
Found at i:20565328 original size:45 final size:44
Alignment explanation
Indices: 20565266--20565350 Score: 118
Period size: 45 Copynumber: 1.9 Consensus size: 44
20565256 CCTCTCCCTT
20565266 TTTTTTTAGACTCAAAGCACCCTTTG-AGGGTTTTCACCTTAGTC
1 TTTTTTTAGACTCAAAGCACCCTTTGCA-GGTTTTCACCTTAGTC
* * *
20565310 TTTTTTTAGGATTCAAAGCGCTCTTTGCAGGTTTTCACCTT
1 TTTTTTTA-GACTCAAAGCACCCTTTGCAGGTTTTCACCTT
20565351 GATCCATCCT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
44 8 0.22
45 27 0.75
46 1 0.03
ACGTcount: A:0.19, C:0.21, G:0.16, T:0.44
Consensus pattern (44 bp):
TTTTTTTAGACTCAAAGCACCCTTTGCAGGTTTTCACCTTAGTC
Found at i:20583079 original size:23 final size:23
Alignment explanation
Indices: 20583053--20583100 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
20583043 GGGGAATGAG
20583053 TAAAGATAACCAATATTGAATAA
1 TAAAGATAACCAATATTGAATAA
20583076 TAAAGATAACCAATATTGAATAA
1 TAAAGATAACCAATATTGAATAA
20583099 TA
1 TA
20583101 TAAAGAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.56, C:0.08, G:0.08, T:0.27
Consensus pattern (23 bp):
TAAAGATAACCAATATTGAATAA
Found at i:20583405 original size:19 final size:19
Alignment explanation
Indices: 20583381--20583434 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
20583371 AATCTTCAAG
20583381 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
20583400 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
20583419 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
20583435 AGATATGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:20583410 original size:36 final size:36
Alignment explanation
Indices: 20583370--20583441 Score: 94
Period size: 38 Copynumber: 2.0 Consensus size: 36
20583360 TATGGAAACA
20583370 TAATCTT-CA-AGGATATGCAATCTTAGATATGATATG
1 TAATCTTACATAGGATATGCAATCTTAGA-A-GATATG
* *
20583406 TAATCTTAGATATGATATGCAATCTTAGAAGATATG
1 TAATCTTACATAGGATATGCAATCTTAGAAGATATG
20583442 ATTTTGTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 13 0.41
37 2 0.06
38 17 0.53
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.36
Consensus pattern (36 bp):
TAATCTTACATAGGATATGCAATCTTAGAAGATATG
Found at i:20583470 original size:21 final size:23
Alignment explanation
Indices: 20583394--20583470 Score: 60
Period size: 19 Copynumber: 3.7 Consensus size: 23
20583384 ATGCAATCTT
*
20583394 AGATATG-ATATGTAATCTT---
1 AGATATGAATTTGTAATCTTAGA
* *
20583413 AGATATG-ATATGCAATCTTAGA
1 AGATATGAATTTGTAATCTTAGA
*
20583435 AGATATGATTTTGTAATCTTA-A
1 AGATATGAATTTGTAATCTTAGA
*
20583457 AGAT-TTAATTTGTA
1 AGATATGAATTTGTA
20583471 GATACCTTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
19 18 0.38
21 8 0.17
22 12 0.25
23 10 0.21
ACGTcount: A:0.38, C:0.05, G:0.16, T:0.42
Consensus pattern (23 bp):
AGATATGAATTTGTAATCTTAGA
Found at i:20583683 original size:23 final size:23
Alignment explanation
Indices: 20583639--20583683 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
20583629 TCTTATTTTG
* *
20583639 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
20583662 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
20583684 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:20587203 original size:20 final size:20
Alignment explanation
Indices: 20587178--20587220 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
20587168 CTTCCGCATC
20587178 ATTCTTTCATTCATAATTAT
1 ATTCTTTCATTCATAATTAT
20587198 ATTCTTTCATTCATAATTAT
1 ATTCTTTCATTCATAATTAT
20587218 ATT
1 ATT
20587221 GTACAAATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.14, G:0.00, T:0.56
Consensus pattern (20 bp):
ATTCTTTCATTCATAATTAT
Found at i:20589413 original size:44 final size:43
Alignment explanation
Indices: 20589365--20589508 Score: 121
Period size: 44 Copynumber: 3.3 Consensus size: 43
20589355 GATAGCAGAT
20589365 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACTAGC
1 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACAC-AGC
* ** * ** * * *
20589409 CTTGCC-TCCTTGGATTG-CAGCGAAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTTCC-TGCACCGACAGCGAAGCAGATCGAAGACA-CAG-C
* *
20589453 CTTGTCTTCCTGCACCGACAGCAAAGCAGATCGAAGACACCAGC
1 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACA-CAGC
*
20589497 CTTGCCTCCCTG
1 CTTGCCTTCCTG
20589509 GGTTGCAATA
Statistics
Matches: 72, Mismatches: 23, Indels: 10
0.69 0.22 0.10
Matches are distributed among these distances:
43 21 0.29
44 30 0.42
45 21 0.29
ACGTcount: A:0.26, C:0.31, G:0.22, T:0.20
Consensus pattern (43 bp):
CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACAGC
Found at i:20589505 original size:88 final size:88
Alignment explanation
Indices: 20589356--20589926 Score: 799
Period size: 88 Copynumber: 6.5 Consensus size: 88
20589346 ATCAGTGAAG
* *
20589356 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCTTG
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
*
20589421 GATTGCAGCGAAGCAGGTTAAAA
66 GGTTGCAGCGAAGCAGGTTAAAA
* *
20589444 ATAGCAGATCTTGTCTTCCTGCACCGACAGCAAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
**
20589509 GGTTGCA-ATAGAGCAGGTTAAAA
66 GGTTGCAGCGA-AGCAGGTTAAAA
** * *
20589532 ATTA-CAGATCTTATCTTCCTGCACCAACAGCGAAGCAGATCGAAGACACCAACCTTGCCTCCCT
1 A-TAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCT
* *
20589596 GGGTTGTAGCGGAGCAGGTTAAAA
65 GGGTTGCAGCGAAGCAGGTTAAAA
* * * *
20589620 ATAGCAGATCTTGCCTTCCTGC-CTCGACAACGAAGCTGATCAAAGACACTAGCCTTGCCTCCCT
1 ATAGCAGATCTTGCCTTCCTGCAC-CGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCT
*
20589684 GGGTTGCAGCGGAGCAGGTTAAAA
65 GGGTTGCAGCGAAGCAGGTTAAAA
* * * * *
20589708 ATAGCAGATCTTGCCTTCCTGTACCAACAGCGAAACAGATCGAAGACACCAGCCTTGCCTTCCTA
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
20589773 GGTTGCAGC-AGAGCAGGTTAAAA
66 GGTTGCAGCGA-AGCAGGTTAAAA
* * **
20589796 ATAGCAGATCTTGCCTTCCTGCACCGACAGTGAAGTAGATTAAAGACACCAGCCTTGCCTCCCTG
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
*
20589861 GGTTGCAGCGAAGTAGGTTAAAA
66 GGTTGCAGCGAAGCAGGTTAAAA
* * *
20589884 ATAGGAGATCTTGCCTTCCTACATCGACAGCGAAGCAGATCGA
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGA
20589927 TGACCCTAAA
Statistics
Matches: 424, Mismatches: 51, Indels: 16
0.86 0.10 0.03
Matches are distributed among these distances:
87 4 0.01
88 416 0.98
89 4 0.01
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.21
Consensus pattern (88 bp):
ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
GGTTGCAGCGAAGCAGGTTAAAA
Found at i:20589635 original size:44 final size:44
Alignment explanation
Indices: 20589585--20589899 Score: 143
Period size: 44 Copynumber: 7.2 Consensus size: 44
20589575 AGACACCAAC
*
20589585 CTTGCCTCCCTGGGTTGTAGCGGAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGAT
* ** * * * * * * * * *
20589629 CTTGCCTTCCTGCCTCGACAACGAAGCTGATCAAAGACA-CTAG-C
1 CTTGCCTCCCTGGGTTG-CAGCGGAGCAGGTTAAAAATAGC-AGAT
20589673 CTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGAT
* ***** * * * ** * * * *
20589717 CTTGCCTTCCTGTACCAACAGCGAAACAGATCGAAGACACCAG-C
1 CTTGCCTCCCTG-GGTTGCAGCGGAGCAGGTTAAAAATAGCAGAT
* * *
20589761 CTTGCCTTCCTAGGTTGCAGCAGAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGAT
* **** * * * * * * * *
20589805 CTTGCCTTCCTGCACCGACAGTGAAGTAGATTAAAGACACCAG-C
1 CTTGCCTCCCTGGGTTG-CAGCGGAGCAGGTTAAAAATAGCAGAT
* * *
20589849 CTTGCCTCCCTGGGTTGCAGCGAAGTAGGTTAAAAATAGGAGAT
1 CTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGAT
20589893 CTTGCCT
1 CTTGCCT
20589900 TCCTACATCG
Statistics
Matches: 181, Mismatches: 82, Indels: 16
0.65 0.29 0.06
Matches are distributed among these distances:
43 51 0.28
44 81 0.45
45 49 0.27
ACGTcount: A:0.27, C:0.26, G:0.24, T:0.23
Consensus pattern (44 bp):
CTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGAT
Found at i:20589986 original size:44 final size:44
Alignment explanation
Indices: 20589937--20590036 Score: 148
Period size: 44 Copynumber: 2.3 Consensus size: 44
20589927 TGACCCTAAA
* *
20589937 CCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGT-AAGT
1 CCTATCTCCCTGGACAGCAGTGAAATAGGTTAAAGATTGTGAA-T
*
20589981 CCTATCTCCCTGGTCAGCAGTGAAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGGACAGCAGTGAAATAGGTTAAAGATTGTGAAT
*
20590025 CCTATCTTCCTG
1 CCTATCTCCCTG
20590037 AGCAATAGTA
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 49 0.96
45 2 0.04
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (44 bp):
CCTATCTCCCTGGACAGCAGTGAAATAGGTTAAAGATTGTGAAT
Found at i:20590462 original size:45 final size:44
Alignment explanation
Indices: 20590411--20590528 Score: 130
Period size: 45 Copynumber: 2.7 Consensus size: 44
20590401 GAAGATGGCG
*
20590411 AGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTCAAGAAATCA
1 AGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAGAAA-CA
* * * *
20590456 AGTCTTATCCCCCTGAAA-TTACAGTGGGGCAGACTAAATAAACA
1 AGTCTTATCTCCCT-AAAGTTGCAGTGGAGCAGACTAAAGAAACA
* ** *
20590500 AATCACATCTCCCTAAAGTTGTAGTGGAG
1 AGTCTTATCTCCCTAAAGTTGCAGTGGAG
20590529 TGGATTAGAA
Statistics
Matches: 59, Mismatches: 12, Indels: 5
0.78 0.16 0.07
Matches are distributed among these distances:
43 3 0.05
44 20 0.34
45 33 0.56
46 3 0.05
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (44 bp):
AGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAGAAACA
Found at i:20591072 original size:18 final size:19
Alignment explanation
Indices: 20591039--20591091 Score: 90
Period size: 18 Copynumber: 2.8 Consensus size: 19
20591029 AATCTTCAAG
20591039 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
20591058 GATATGTAA-CTTAGATAT
1 GATATGCAATCTTAGATAT
20591076 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
20591092 AGATATGATT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
18 17 0.55
19 14 0.45
ACGTcount: A:0.38, C:0.09, G:0.17, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:20591117 original size:22 final size:22
Alignment explanation
Indices: 20591039--20591114 Score: 67
Period size: 18 Copynumber: 3.7 Consensus size: 22
20591029 AATCTTCAAG
20591039 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
*
20591058 GATATGTAA-CTTAG---ATAT
1 GATATGCAATCTTAGAAGATAT
20591076 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
20591098 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
20591115 GATTTAATTT
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
18 15 0.33
19 13 0.28
22 6 0.13
23 12 0.26
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:20591341 original size:23 final size:23
Alignment explanation
Indices: 20591293--20591341 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
20591283 GCGTTCTTAT
* *
20591293 TTTATTGATTTGTGTATAATTTA
1 TTTATTGATTTGTATATAATTGA
**
20591316 TTTATTGATTTGTATATTGTTGA
1 TTTATTGATTTGTATATAATTGA
20591339 TTT
1 TTT
20591342 CAAATCTCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.14, T:0.63
Consensus pattern (23 bp):
TTTATTGATTTGTATATAATTGA
Found at i:20596575 original size:9 final size:9
Alignment explanation
Indices: 20596557--20596625 Score: 54
Period size: 10 Copynumber: 7.3 Consensus size: 9
20596547 ATTAATTTTT
20596557 AAAATT-TA
1 AAAATTATA
20596565 AAAATTATA
1 AAAATTATA
20596574 AAAATTATAA
1 AAAATTAT-A
*
20596584 AAACTATTTTTA
1 AAA--A-TTATA
20596596 AAAA--ATA
1 AAAATTATA
20596603 AAAATTATTA
1 AAAATTA-TA
20596613 AAAATATATA
1 AAAAT-TATA
20596623 AAA
1 AAA
20596626 CAATATTTTT
Statistics
Matches: 50, Mismatches: 2, Indels: 16
0.74 0.03 0.24
Matches are distributed among these distances:
7 6 0.12
8 6 0.12
9 11 0.22
10 17 0.34
11 2 0.04
12 5 0.10
13 3 0.06
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.33
Consensus pattern (9 bp):
AAAATTATA
Found at i:20596605 original size:38 final size:41
Alignment explanation
Indices: 20596551--20596636 Score: 124
Period size: 38 Copynumber: 2.2 Consensus size: 41
20596541 CATTTAATTA
** *
20596551 ATTTTTAAAATTTAAAAATTA-TAAAAAT-TATAAAA-ACT
1 ATTTTTAAAAAATAAAAATTATTAAAAATATATAAAACAAT
20596589 ATTTTTAAAAAATAAAAATTATTAAAAATATATAAAACAAT
1 ATTTTTAAAAAATAAAAATTATTAAAAATATATAAAACAAT
20596630 ATTTTTA
1 ATTTTTA
20596637 TATTTTAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
38 19 0.45
39 7 0.17
40 7 0.17
41 9 0.21
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (41 bp):
ATTTTTAAAAAATAAAAATTATTAAAAATATATAAAACAAT
Found at i:20604208 original size:5 final size:5
Alignment explanation
Indices: 20604194--20604222 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
20604184 AAGTATTAAG
20604194 TATA- TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT
20604223 AATAATAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:20604254 original size:15 final size:14
Alignment explanation
Indices: 20604234--20604297 Score: 58
Period size: 15 Copynumber: 4.3 Consensus size: 14
20604224 ATAATAAAAC
20604234 AAAGAAATAAAAGAA
1 AAAGAAA-AAAAGAA
*
20604249 AAAGAAACAAAGAA
1 AAAGAAAAAAAGAA
20604263 CAAACGAAACAAGAAGAA
1 -AAA-GAAA-AA-AAGAA
*
20604281 AAAGAAAGAAA-AA
1 AAAGAAAAAAAGAA
20604294 AAAG
1 AAAG
20604298 GGGGGAAGAA
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
13 6 0.14
14 8 0.19
15 11 0.26
16 8 0.19
17 4 0.10
18 5 0.12
ACGTcount: A:0.77, C:0.06, G:0.16, T:0.02
Consensus pattern (14 bp):
AAAGAAAAAAAGAA
Found at i:20604273 original size:16 final size:14
Alignment explanation
Indices: 20604243--20604297 Score: 58
Period size: 16 Copynumber: 3.7 Consensus size: 14
20604233 CAAAGAAATA
20604243 AAAGAAAAAGAAAC
1 AAAGAAAAAGAAAC
20604257 AAAGAACAAACGAAAC
1 AAAGAA-AAA-GAAAC
*
20604273 AAGAAGAAAAAGAAAG
1 -A-AAGAAAAAGAAAC
20604289 AAA-AAAAAG
1 AAAGAAAAAG
20604298 GGGGGAAGAA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
13 6 0.17
14 8 0.22
15 4 0.11
16 9 0.25
17 4 0.11
18 5 0.14
ACGTcount: A:0.76, C:0.07, G:0.16, T:0.00
Consensus pattern (14 bp):
AAAGAAAAAGAAAC
Found at i:20604285 original size:9 final size:10
Alignment explanation
Indices: 20604229--20604297 Score: 54
Period size: 10 Copynumber: 6.9 Consensus size: 10
20604219 ATATAATAAT
*
20604229 AAAACAAAGA
1 AAAAGAAAGA
*
20604239 AATA-AAAGA
1 AAAAGAAAGA
*
20604248 AAAAGAAACA
1 AAAAGAAAGA
*
20604258 AAGAACAAACGA
1 AA-AAGAAA-GA
20604270 AACAAG-AAGA
1 AA-AAGAAAGA
20604280 AAAAGAAAGA
1 AAAAGAAAGA
20604290 AAAA-AAAG
1 AAAAGAAAG
20604298 GGGGGAAGAA
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
9 15 0.31
10 21 0.44
11 7 0.15
12 5 0.10
ACGTcount: A:0.77, C:0.07, G:0.14, T:0.01
Consensus pattern (10 bp):
AAAAGAAAGA
Found at i:20611801 original size:17 final size:17
Alignment explanation
Indices: 20611779--20611819 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
20611769 AAAAAGAAAC
20611779 AAAGAACAAA-CGAAAGA
1 AAAGAA-AAAGCGAAAGA
20611796 AAAGAAAAAGGCGAAAG-
1 AAAGAAAAA-GCGAAAGA
20611813 AAAGAAA
1 AAAGAAA
20611820 GGAGAAGCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 3 0.14
17 13 0.59
18 6 0.27
ACGTcount: A:0.71, C:0.07, G:0.22, T:0.00
Consensus pattern (17 bp):
AAAGAAAAAGCGAAAGA
Found at i:20612752 original size:40 final size:40
Alignment explanation
Indices: 20612697--20612772 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
20612687 GAGTGCCAAT
* *
20612697 TTACTTCAATTTAGCCGATGATACACTTGGTGCCAATTTA
1 TTACTTCAATTTAGCCGATGAGACACTAGGTGCCAATTTA
*
20612737 TTACTTCGAA-TTAGCCGATGAGGCACTAGGTGCCAA
1 TTACTTC-AATTTAGCCGATGAGACACTAGGTGCCAA
20612773 ACTGGTGTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
40 30 0.94
41 2 0.06
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.32
Consensus pattern (40 bp):
TTACTTCAATTTAGCCGATGAGACACTAGGTGCCAATTTA
Found at i:20614409 original size:18 final size:17
Alignment explanation
Indices: 20614386--20614421 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
20614376 TCAATTTTCG
20614386 AATTCAAAAAACTCGAAT
1 AATTCAAAAAACT-GAAT
*
20614404 AATTCAAATAACTGAAT
1 AATTCAAAAAACTGAAT
20614421 A
1 A
20614422 CCAAACTACC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.56, C:0.14, G:0.06, T:0.25
Consensus pattern (17 bp):
AATTCAAAAAACTGAAT
Found at i:20614592 original size:32 final size:31
Alignment explanation
Indices: 20614515--20614594 Score: 94
Period size: 32 Copynumber: 2.5 Consensus size: 31
20614505 AATCCCCCAC
*
20614515 AAATCTTTTATTTCCCCTTCTTTACCCTAAA
1 AAATCTTTTATTTCCCCTCCTTTACCCTAAA
20614546 AAATC-TTTACTTTCCTTCC-CCTTTACTCC-AAA
1 AAATCTTTTA-TTTCC--CCTCCTTTAC-CCTAAA
20614578 AAATCTTTTATTTCCCC
1 AAATCTTTTATTTCCCC
20614595 ATTTACCCCC
Statistics
Matches: 43, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
30 6 0.14
31 10 0.23
32 19 0.44
33 8 0.19
ACGTcount: A:0.25, C:0.31, G:0.00, T:0.44
Consensus pattern (31 bp):
AAATCTTTTATTTCCCCTCCTTTACCCTAAA
Found at i:20625831 original size:28 final size:28
Alignment explanation
Indices: 20625800--20625857 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
20625790 TTAAAAGGAC
20625800 TGAAGATATTAAATATAAAGAGATAGGG
1 TGAAGATATTAAATATAAAGAGATAGGG
20625828 TGAAGATATTAAATATAAAGAGATAGGG
1 TGAAGATATTAAATATAAAGAGATAGGG
20625856 TG
1 TG
20625858 GGGATGAATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.48, C:0.00, G:0.26, T:0.26
Consensus pattern (28 bp):
TGAAGATATTAAATATAAAGAGATAGGG
Found at i:20628298 original size:25 final size:26
Alignment explanation
Indices: 20628260--20628317 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
20628250 AAATTTAGGA
*
20628260 GTAAAATGGATAAAA-TTTACCAGGG
1 GTAAAATCGATAAAATTTTACCAGGG
* **
20628285 GTAAAATCGTTAAAATTTTATTAGGG
1 GTAAAATCGATAAAATTTTACCAGGG
20628311 GTAAAAT
1 GTAAAAT
20628318 AGGGATGAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 13 0.46
26 15 0.54
ACGTcount: A:0.43, C:0.05, G:0.21, T:0.31
Consensus pattern (26 bp):
GTAAAATCGATAAAATTTTACCAGGG
Found at i:20628311 original size:26 final size:25
Alignment explanation
Indices: 20628254--20628317 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
20628244 TCTCAAAAAT
* *
20628254 TTAGGAGTAAAATGGATAAAATTTA
1 TTAGGGGTAAAATCGATAAAATTTA
** *
20628279 CCAGGGGTAAAATCGTTAAAATTTTA
1 TTAGGGGTAAAATCGATAAAA-TTTA
20628305 TTAGGGGTAAAAT
1 TTAGGGGTAAAAT
20628318 AGGGATGAGA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
25 16 0.52
26 15 0.48
ACGTcount: A:0.42, C:0.05, G:0.22, T:0.31
Consensus pattern (25 bp):
TTAGGGGTAAAATCGATAAAATTTA
Found at i:20633206 original size:15 final size:15
Alignment explanation
Indices: 20633186--20633219 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
20633176 CTAACTCATT
*
20633186 TTATTTCTTTTATTA
1 TTATTTATTTTATTA
*
20633201 TTATTTATTTTATTT
1 TTATTTATTTTATTA
20633216 TTAT
1 TTAT
20633220 AGCCACTACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (15 bp):
TTATTTATTTTATTA
Found at i:20633753 original size:25 final size:26
Alignment explanation
Indices: 20633705--20633768 Score: 85
Period size: 25 Copynumber: 2.5 Consensus size: 26
20633695 ACATATTTTC
20633705 TCAAAATTTTACTAGGGGTAAAATCA
1 TCAAAATTTTACTAGGGGTAAAATCA
* **
20633731 TCAAAATTTTA-TCGGGGTAAAATTG
1 TCAAAATTTTACTAGGGGTAAAATCA
*
20633756 TTAAAATTTTACT
1 TCAAAATTTTACT
20633769 GGGACTGAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 21 0.64
26 12 0.36
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (26 bp):
TCAAAATTTTACTAGGGGTAAAATCA
Found at i:20634914 original size:36 final size:36
Alignment explanation
Indices: 20634874--20635097 Score: 206
Period size: 35 Copynumber: 6.3 Consensus size: 36
20634864 GTTTTAAACA
*
20634874 GTTGGGATAGACCATTCTATGCCAACCTTAAAAAAG
1 GTTGGGATAGACCAGTCTATGCCAACCTTAAAAAAG
* * *
20634910 GTTGGGATAGACCCA-TCTAAGGCAA-CTTTAAAAAG
1 GTTGGGATAGA-CCAGTCTATGCCAACCTTAAAAAAG
* * * *
20634945 TTTGGGATAAACCATTCTATGCTAACCTTAAAAAAG
1 GTTGGGATAGACCAGTCTATGCCAACCTTAAAAAAG
* * ** **
20634981 GTTGGGATAGACCCGTCTAAGGTAA-CTTTTAAAAG
1 GTTGGGATAGACCAGTCTATGCCAACCTTAAAAAAG
* *
20635016 TTTGGGATAGACTAGTCTATGCCAACCTT-AAAAAG
1 GTTGGGATAGACCAGTCTATGCCAACCTTAAAAAAG
* * * * *
20635051 GTTGGGATAGACCCGTCTAAGGCAA-ATTTAAAAAG
1 GTTGGGATAGACCAGTCTATGCCAACCTTAAAAAAG
*
20635086 GTTGGAATAGAC
1 GTTGGGATAGAC
20635098 TTTATCTGTG
Statistics
Matches: 152, Mismatches: 31, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
34 5 0.03
35 94 0.62
36 50 0.33
37 3 0.02
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (36 bp):
GTTGGGATAGACCAGTCTATGCCAACCTTAAAAAAG
Found at i:20634959 original size:71 final size:71
Alignment explanation
Indices: 20634866--20635097 Score: 351
Period size: 71 Copynumber: 3.3 Consensus size: 71
20634856 TATGCTGAGT
* *
20634866 TTTAAACAG-TTGGGATAGACCATTCTATGCCAACCTTAAAAAAGGTTGGGATAGACCCATCTAA
1 TTTAAAAAGTTTGGGATAGACCATTCTATGCCAACCTTAAAAAAGGTTGGGATAGACCCGTCTAA
20634930 GGCAAC
66 GGCAAC
* *
20634936 TTTAAAAAGTTTGGGATAAACCATTCTATGCTAACCTTAAAAAAGGTTGGGATAGACCCGTCTAA
1 TTTAAAAAGTTTGGGATAGACCATTCTATGCCAACCTTAAAAAAGGTTGGGATAGACCCGTCTAA
*
20635001 GGTAAC
66 GGCAAC
* * *
20635007 TTTTAAAAGTTTGGGATAGACTAGTCTATGCCAACCTT-AAAAAGGTTGGGATAGACCCGTCTAA
1 TTTAAAAAGTTTGGGATAGACCATTCTATGCCAACCTTAAAAAAGGTTGGGATAGACCCGTCTAA
*
20635071 GGCAAA
66 GGCAAC
* *
20635077 TTTAAAAAGGTTGGAATAGAC
1 TTTAAAAAGTTTGGGATAGAC
20635098 TTTATCTGTG
Statistics
Matches: 146, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
70 56 0.38
71 90 0.62
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (71 bp):
TTTAAAAAGTTTGGGATAGACCATTCTATGCCAACCTTAAAAAAGGTTGGGATAGACCCGTCTAA
GGCAAC
Found at i:20636261 original size:110 final size:110
Alignment explanation
Indices: 20636064--20636267 Score: 268
Period size: 110 Copynumber: 1.9 Consensus size: 110
20636054 TTCAACCTCA
* * * * * * *
20636064 AAACTCTAAATTATAACTTCAGTTCCTTATTAAAGGTTAAAATTTTCAGATTAGTTGAGTTTTTA
1 AAACTCTAAATTATAACTTCAGTTCCTTATTAAAGGATAAAACTTTAAGATTAATTCACTCTTTA
*
20636129 AGTATCAATTCAACCTTAAAGCTC-AAAATTCTAACTTTTTTTTG
66 AGTATCAATTCAAACTTAAAGCTCTAAAATTCTAACTTTTTTTTG
* * *
20636173 AAACTTCTAAATTCTAGCTTCAGTTCTTTATTAAAGGATAAAACTTTAAG-TGTAATTCACTCTT
1 AAAC-TCTAAATTATAACTTCAGTTCCTTATTAAAGGATAAAACTTTAAGAT-TAATTCACTCTT
*
20636237 TAAGTTTCAATTCAAACTTAAAGCTCTAAAA
64 TAAGTATCAATTCAAACTTAAAGCTCTAAAA
20636268 CACAAGTAAT
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
109 5 0.06
110 71 0.89
111 4 0.05
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (110 bp):
AAACTCTAAATTATAACTTCAGTTCCTTATTAAAGGATAAAACTTTAAGATTAATTCACTCTTTA
AGTATCAATTCAAACTTAAAGCTCTAAAATTCTAACTTTTTTTTG
Found at i:20637097 original size:17 final size:18
Alignment explanation
Indices: 20637075--20637109 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
20637065 CAAATGGTTT
*
20637075 GGTTATAA-ATTTTTTAA
1 GGTTATAATATTTATTAA
20637092 GGTTATAATATTTATTAA
1 GGTTATAATATTTATTAA
20637110 TTTTTAGGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.51
Consensus pattern (18 bp):
GGTTATAATATTTATTAA
Found at i:20637443 original size:126 final size:126
Alignment explanation
Indices: 20637208--20637592 Score: 337
Period size: 126 Copynumber: 3.0 Consensus size: 126
20637198 AGTCAACATT
* * * * * *
20637208 GTGTTGGACAAAGTCGACTCTTATTTAAGTGTTGCCTTAGGCATTCATATCTCAGCCCTTATACA
1 GTGTTGGAAAAAGTCGAATCTTATTTAAGTGTTGCCTTAGGCATGCATATCACAACACTTATACA
* * *
20637273 AAGAGTTGGCCTAAGTGTATGTCGACAAGTCTGTCCCAACACTTAGGAAAGTGTCGGCTTA
66 AAGAGTTGGCCTAAGTGTATGTCGACAAGTCTATCCAAACACTTAAGAAAGTGTCGGCTTA
* * *
20637334 GTGTTGGAAAAAGTCGAATCTTATTTGAGTGTTGCCTTAGGCGTGCATTTCACAACACTTATACA
1 GTGTTGGAAAAAGTCGAATCTTATTTAAGTGTTGCCTTAGGCATGCATATCACAACACTTATACA
* * *
20637399 AAGAGTTGG-CTAAAGTGTATGTC-AGGAAGTCTATCCAAATACTTAAGAAAGTTTCAGGCCAAA
66 AAGAGTTGGCCT-AAGTGTATGTCGA-CAAGTCTATCCAAACACTTAAGAAAGTGTC-GG-C---
20637462 AGTGTCAACATA
124 ----T-----TA
* * * * * *
20637474 GTATTGGACAAAGTCGACTCTTATTTAAGTGTTGCCTTACGCATGCATATCCCAACCCTTATACA
1 GTGTTGGAAAAAGTCGAATCTTATTTAAGTGTTGCCTTAGGCATGCATATCACAACACTTATACA
* * * * * * *
20637539 AAGACTT-GCCAAAATGTATGTCTG-CAAATCTAGCCCAACACTTAGGAAAGTGTC
66 AAGAGTTGGCCTAAGTGTATGTC-GACAAGTCTATCCAAACACTTAAGAAAGTGTC
20637593 AGCCCAAAAG
Statistics
Matches: 206, Mismatches: 34, Indels: 25
0.78 0.13 0.09
Matches are distributed among these distances:
125 3 0.01
126 100 0.49
127 2 0.01
128 1 0.00
135 1 0.00
139 34 0.17
140 65 0.32
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (126 bp):
GTGTTGGAAAAAGTCGAATCTTATTTAAGTGTTGCCTTAGGCATGCATATCACAACACTTATACA
AAGAGTTGGCCTAAGTGTATGTCGACAAGTCTATCCAAACACTTAAGAAAGTGTCGGCTTA
Found at i:20637631 original size:139 final size:139
Alignment explanation
Indices: 20637335--20637740 Score: 498
Period size: 139 Copynumber: 2.9 Consensus size: 139
20637325 GTCGGCTTAG
* * * * *
20637335 TGTTGGAAAAAGTCGAATCTTATTTGAGTGTTGCCTTAGGCGTGCATTTCACAACACTTATACAA
1 TGTTGGAAAAAGTCGACTCTTATTTAAGTGTTGCCTTAGGCATGCATATC-CAACCCTTATACAA
* * * * * * * * *
20637400 AGAGTTGGCTAAAGTGTATGTCAGGAAGTCTATCCAAATACTTAAGAAAGTTTCAGGCCAAAAGT
65 AGACTTGGCCAAAGTGTATGTCTGCAAGTCTATCCCAACACTTAGGAAAGTGTCAGCCCAAAAGT
*
20637465 GTCAACATAG
130 GTCAACATAA
* * *
20637475 TATTGGACAAAGTCGACTCTTATTTAAGTGTTGCCTTACGCATGCATATCCCAACCCTTATACAA
1 TGTTGGAAAAAGTCGACTCTTATTTAAGTGTTGCCTTAGGCATGCATAT-CCAACCCTTATACAA
* * *
20637540 AGACTT-GCCAAAATGTATGTCTGCAAATCTAGCCCAACACTTAGGAAAGTGTCAGCCCAAAAGT
65 AGACTTGGCCAAAGTGTATGTCTGCAAGTCTATCCCAACACTTAGGAAAGTGTCAGCCCAAAAGT
20637604 GTCAACATAA
130 GTCAACATAA
* * *
20637614 TGTTGGATAAAGCCGACTCTTATTTAAGTGTTACCTTAGGCATGCATAT----CCCTTATACAAA
1 TGTTGGAAAAAGTCGACTCTTATTTAAGTGTTGCCTTAGGCATGCATATCCAACCCTTATACAAA
* * * * *
20637675 GACTTGGCCAAAGCGTATGTCTGTAAGTCTATCCCAACACTTAGGAAACTGTCGGCTCAAAAGTG
66 GACTTGGCCAAAGTGTATGTCTGCAAGTCTATCCCAACACTTAGGAAAGTGTCAGCCCAAAAGTG
20637740 T
131 T
20637741 TGTCTTAGGA
Statistics
Matches: 230, Mismatches: 34, Indels: 9
0.84 0.12 0.03
Matches are distributed among these distances:
134 17 0.07
135 52 0.23
139 100 0.43
140 60 0.26
141 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (139 bp):
TGTTGGAAAAAGTCGACTCTTATTTAAGTGTTGCCTTAGGCATGCATATCCAACCCTTATACAAA
GACTTGGCCAAAGTGTATGTCTGCAAGTCTATCCCAACACTTAGGAAAGTGTCAGCCCAAAAGTG
TCAACATAA
Found at i:20641358 original size:35 final size:35
Alignment explanation
Indices: 20641302--20641453 Score: 178
Period size: 35 Copynumber: 4.3 Consensus size: 35
20641292 ACTCCCTGTT
* * * * *
20641302 TTGGTGTGTTTCGGTTCGATTATCTCTTCTAAGCA
1 TTGGTGTGTTTCGGATGGATTAGCTCTTTTGAGCA
* * *
20641337 TTGGTGTGTTTTGGATGGATTATCTCTTTTGTGCA
1 TTGGTGTGTTTCGGATGGATTAGCTCTTTTGAGCA
* *
20641372 TTGATGTGTTTAGGATGGATTAGCTCTTTTGAGCA
1 TTGGTGTGTTTCGGATGGATTAGCTCTTTTGAGCA
* *
20641407 TTGGTGTGTTTCAGATGGATTAGCTCTTATGAGCA
1 TTGGTGTGTTTCGGATGGATTAGCTCTTTTGAGCA
*
20641442 TCTAGTGTGTTT
1 T-TGGTGTGTTT
20641454 GGTTGGAATA
Statistics
Matches: 101, Mismatches: 15, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
35 92 0.91
36 9 0.09
ACGTcount: A:0.16, C:0.11, G:0.27, T:0.46
Consensus pattern (35 bp):
TTGGTGTGTTTCGGATGGATTAGCTCTTTTGAGCA
Found at i:20643650 original size:138 final size:139
Alignment explanation
Indices: 20643458--20643769 Score: 425
Period size: 138 Copynumber: 2.3 Consensus size: 139
20643448 AAAATATTTT
* * * *
20643458 TATTCTTTCCAAAAGAATATTAACTTCCACGTCTTTTATATTTTGACCGAAATTAATTAATATAA
1 TATTCTTTCCAAAAGAATATTAATTTCCACGTCTTTTATATTTCGACCAAAATTAACTAATATAA
* *
20643523 CTATTTATTTTAATAAA-TTCG-ACAAAATATATACA-ATTAATATTTTGTATGAATCAAATTCA
66 CTATTTATATTAATAAATTTCGTA-AAAATATATA-ATATTAATATTTTGTATAAATCAAATTCA
* *
20643585 TATGTTAGTTA
129 TATATTAATTA
* * ** *
20643596 TATTTTTTCTAAAAGAATATTAATTTCCTTGTTTTTTATATTTCGACCAAAATTAACTAATATAA
1 TATTCTTTCCAAAAGAATATTAATTTCCACGTCTTTTATATTTCGACCAAAATTAACTAATATAA
* * *
20643661 TTGTTTATATTAATAAATTTGGTAAAAATATATAATATTAATATTTTGTATAAATCAAATTCATA
66 CTATTTATATTAATAAATTTCGTAAAAATATATAATATTAATATTTTGTATAAATCAAATTCATA
20643726 TATTAATTA
131 TATTAATTA
*
20643735 TATTCTTTCCAAAA-AATATTAATTTCCATGTCTTT
1 TATTCTTTCCAAAAGAATATTAATTTCCACGTCTTT
20643770 ATTTGTGTAC
Statistics
Matches: 151, Mismatches: 20, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
138 90 0.60
139 60 0.40
140 1 0.01
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.46
Consensus pattern (139 bp):
TATTCTTTCCAAAAGAATATTAATTTCCACGTCTTTTATATTTCGACCAAAATTAACTAATATAA
CTATTTATATTAATAAATTTCGTAAAAATATATAATATTAATATTTTGTATAAATCAAATTCATA
TATTAATTA
Found at i:20688934 original size:16 final size:18
Alignment explanation
Indices: 20688913--20688949 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
20688903 CCCTTGCTGA
20688913 TCATTC-CA-CTCATCCC
1 TCATTCACATCTCATCCC
*
20688929 TCATTCACATCTTATCCC
1 TCATTCACATCTCATCCC
20688947 TCA
1 TCA
20688950 CACTCTCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 6 0.33
17 2 0.11
18 10 0.56
ACGTcount: A:0.22, C:0.43, G:0.00, T:0.35
Consensus pattern (18 bp):
TCATTCACATCTCATCCC
Found at i:20690479 original size:148 final size:148
Alignment explanation
Indices: 20690211--20690506 Score: 502
Period size: 148 Copynumber: 2.0 Consensus size: 148
20690201 CATGGACCGG
* *
20690211 CTAGGGGTAATAATGGTATGGGCCGAGGACAGAGAGCACCGGGCAGAGGTGCTAATCAGACTGAG
1 CTAGGAGTAATAATGGTATGGGCCGAGGACAGAGAGCACCAGGCAGAGGTGCTAATCAGACTGAG
* *
20690276 GCGAGGCAACCTGCACTAGTTTATGCTGCTCAACGCCGAGAGGACAGAGTCACCCCTGACGTAAT
66 GCGAGGCAACCTGCACTAGTTTATGCTGCTCAACGCCGAGAGGACAGAGACACCCCTAACGTAAT
20690341 CATGAGTACGTTCTTTAT
131 CATGAGTACGTTCTTTAT
*
20690359 CTAGGAGTAATAATGGTATGGGCCGAGGACAGAGAGCACCAGGTAGAGGTGCTAATCAGACTGAG
1 CTAGGAGTAATAATGGTATGGGCCGAGGACAGAGAGCACCAGGCAGAGGTGCTAATCAGACTGAG
* * * *
20690424 GCGAGGCAACCTGTACTGGTTTATGTTGTTCAACGCCGAGAGGACAGAGACACCCCTAACGTAAT
66 GCGAGGCAACCTGCACTAGTTTATGCTGCTCAACGCCGAGAGGACAGAGACACCCCTAACGTAAT
*
20690489 CATGGGTACGTTCTTTAT
131 CATGAGTACGTTCTTTAT
20690507 TTTTTATTTT
Statistics
Matches: 138, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
148 138 1.00
ACGTcount: A:0.28, C:0.21, G:0.30, T:0.21
Consensus pattern (148 bp):
CTAGGAGTAATAATGGTATGGGCCGAGGACAGAGAGCACCAGGCAGAGGTGCTAATCAGACTGAG
GCGAGGCAACCTGCACTAGTTTATGCTGCTCAACGCCGAGAGGACAGAGACACCCCTAACGTAAT
CATGAGTACGTTCTTTAT
Found at i:20702886 original size:28 final size:30
Alignment explanation
Indices: 20702822--20702887 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 30
20702812 ACTACATTGA
*
20702822 TAGTCACCTAATTATTAGTAAATTTCTTTTT
1 TAGTCACCTAATTATTAGT-AATTTCTGTTT
*
20702853 TGGTCATCC-AATTATTAGT-ATTT-TGTTT
1 TAGTCA-CCTAATTATTAGTAATTTCTGTTT
20702881 TAGTCAC
1 TAGTCAC
20702888 TCAACTATGA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
27 1 0.03
28 9 0.29
29 4 0.13
31 15 0.48
32 2 0.06
ACGTcount: A:0.26, C:0.14, G:0.11, T:0.50
Consensus pattern (30 bp):
TAGTCACCTAATTATTAGTAATTTCTGTTT
Found at i:20702973 original size:31 final size:32
Alignment explanation
Indices: 20702916--20702982 Score: 109
Period size: 31 Copynumber: 2.1 Consensus size: 32
20702906 AAAATAGTCT
*
20702916 CCCAACTATTCAACTTTTCTCTTTTTTGGTCA
1 CCCAACTATTCAAATTTTCTCTTTTTTGGTCA
*
20702948 CCCAGCTATTCAAATTTT-TCTTTTTTGGTCA
1 CCCAACTATTCAAATTTTCTCTTTTTTGGTCA
20702979 CCCA
1 CCCA
20702983 TCGTTAATTG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
31 17 0.52
32 16 0.48
ACGTcount: A:0.19, C:0.28, G:0.07, T:0.45
Consensus pattern (32 bp):
CCCAACTATTCAAATTTTCTCTTTTTTGGTCA
Found at i:20703621 original size:3 final size:3
Alignment explanation
Indices: 20703613--20703639 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
20703603 CTTAAAAGGA
20703613 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
20703640 TATTATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:20703874 original size:29 final size:28
Alignment explanation
Indices: 20703814--20703871 Score: 82
Period size: 27 Copynumber: 2.0 Consensus size: 28
20703804 CGAATTTTAA
*
20703814 TATTTTATTTTTATTTTTACTTTAAAAAT
1 TATTTTA-TTTTATTTTTAATTTAAAAAT
20703843 TATTTTA-TTTATTTTTAGATTTAAAAAT
1 TATTTTATTTTATTTTTA-ATTTAAAAAT
20703871 T
1 T
20703872 TATATAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 10 0.37
28 10 0.37
29 7 0.26
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (28 bp):
TATTTTATTTTATTTTTAATTTAAAAAT
Found at i:20703883 original size:29 final size:27
Alignment explanation
Indices: 20703824--20703884 Score: 68
Period size: 29 Copynumber: 2.2 Consensus size: 27
20703814 TATTTTATTT
* * * *
20703824 TTATTTTTACTTTAAAAATTATTTTAT
1 TTATTTTTAATTTAAAAATTATATAAA
20703851 TTATTTTTAGATTTAAAAATTTATATAAA
1 TTATTTTTA-ATTTAAAAA-TTATATAAA
20703880 TTATT
1 TTATT
20703885 AACAGTATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 9 0.32
28 8 0.29
29 11 0.39
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (27 bp):
TTATTTTTAATTTAAAAATTATATAAA
Found at i:20706629 original size:20 final size:19
Alignment explanation
Indices: 20706584--20706635 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 19
20706574 CATATCACCG
* *
20706584 TCTCTTTGTTTCATTCCTT
1 TCTCTCTGTTTCACTCCTT
*
20706603 CCGTCTCTGTTTCACTCTCTT
1 TC-TCTCTGTTTCACTC-CTT
*
20706624 TCTCTCTCTTTC
1 TCTCTCTGTTTC
20706636 TCAGTCTTCA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 1 0.04
20 21 0.81
21 4 0.15
ACGTcount: A:0.04, C:0.35, G:0.06, T:0.56
Consensus pattern (19 bp):
TCTCTCTGTTTCACTCCTT
Found at i:20713325 original size:16 final size:16
Alignment explanation
Indices: 20713306--20713347 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
20713296 TAGGTAAAAT
20713306 AAAATATTTTATGTTA
1 AAAATATTTTATGTTA
* *
20713322 AAAATATTCTATTTTA
1 AAAATATTTTATGTTA
20713338 AAAATTATTT
1 AAAA-TATTT
20713348 AATAATAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 18 0.82
17 4 0.18
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (16 bp):
AAAATATTTTATGTTA
Found at i:20732564 original size:6 final size:6
Alignment explanation
Indices: 20732553--20732581 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
20732543 GATTTCTAAA
20732553 ATTATC ATTATC ATTATC ATTATC ATTAT
1 ATTATC ATTATC ATTATC ATTATC ATTAT
20732582 AATTTAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.14, G:0.00, T:0.52
Consensus pattern (6 bp):
ATTATC
Found at i:20733848 original size:22 final size:22
Alignment explanation
Indices: 20733812--20733863 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
20733802 AATTTAAACT
*
20733812 AAAAATGTATCAAACTTAATATA
1 AAAAATTTATCAAACTTAATA-A
*
20733835 AAAAATTTAT-AAACTTTATAA
1 AAAAATTTATCAAACTTAATAA
20733856 AAGAAATT
1 AA-AAATT
20733864 AAGCAAAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 3 0.12
22 14 0.54
23 9 0.35
ACGTcount: A:0.58, C:0.06, G:0.04, T:0.33
Consensus pattern (22 bp):
AAAAATTTATCAAACTTAATAA
Found at i:20737507 original size:22 final size:21
Alignment explanation
Indices: 20737466--20737509 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
20737456 AAGGTTGATA
*
20737466 TTAAATTAAAACATTCCCTTT
1 TTAAATTAAAACACTCCCTTT
20737487 TTAACATTAAAAGCACT-CCTTT
1 TTAA-ATTAAAA-CACTCCCTTT
20737509 T
1 T
20737510 ACCATCCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 4 0.20
22 13 0.65
23 3 0.15
ACGTcount: A:0.36, C:0.20, G:0.02, T:0.41
Consensus pattern (21 bp):
TTAAATTAAAACACTCCCTTT
Found at i:20741442 original size:54 final size:54
Alignment explanation
Indices: 20741384--20741494 Score: 213
Period size: 54 Copynumber: 2.1 Consensus size: 54
20741374 AATTCATGTT
*
20741384 AATTTTCAATCCACATATTATTATGAATATGCCACAAATACACCAATTATGCCA
1 AATTTTCAATCCACATATCATTATGAATATGCCACAAATACACCAATTATGCCA
20741438 AATTTTCAATCCACATATCATTATGAATATGCCACAAATACACCAATTATGCCA
1 AATTTTCAATCCACATATCATTATGAATATGCCACAAATACACCAATTATGCCA
20741492 AAT
1 AAT
20741495 GAATCAACTA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.41, C:0.23, G:0.05, T:0.31
Consensus pattern (54 bp):
AATTTTCAATCCACATATCATTATGAATATGCCACAAATACACCAATTATGCCA
Found at i:20744486 original size:17 final size:17
Alignment explanation
Indices: 20744464--20744497 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
20744454 TGGCTTCATA
20744464 GTGGTTTTTTTTTAATT
1 GTGGTTTTTTTTTAATT
20744481 GTGGTTTTTTTTTAATT
1 GTGGTTTTTTTTTAATT
20744498 TCAAAATATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.18, T:0.71
Consensus pattern (17 bp):
GTGGTTTTTTTTTAATT
Found at i:20745589 original size:16 final size:16
Alignment explanation
Indices: 20745568--20745598 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20745558 TACCCATACC
*
20745568 CTGAAATGATCCAAAT
1 CTGAAATGACCCAAAT
20745584 CTGAAATGACCCAAA
1 CTGAAATGACCCAAA
20745599 CTTAAAATTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.23, G:0.13, T:0.19
Consensus pattern (16 bp):
CTGAAATGACCCAAAT
Found at i:20751553 original size:204 final size:204
Alignment explanation
Indices: 20751198--20751614 Score: 825
Period size: 204 Copynumber: 2.0 Consensus size: 204
20751188 TTACGGTTTG
*
20751198 ATGTACACTCGCACGACGTGGGTGAAGCAAAATGTTTATAGACCGATTGGGCTTTTATGCCTTTT
1 ATGTTCACTCGCACGACGTGGGTGAAGCAAAATGTTTATAGACCGATTGGGCTTTTATGCCTTTT
20751263 TTTCTCAGCAGAACTTATTTCGATCCAGTCTTTATTTATTCTTTTATTAAATATATGTATATTTT
66 TTTCTCAGCAGAACTTATTTCGATCCAGTCTTTATTTATTCTTTTATTAAATATATGTATATTTT
20751328 TATTCTCGTTCGATCTTGTGATTTAAATAAATATTTTATATTACTGGTTATTTTACCAACGTGTG
131 TATTCTCGTTCGATCTTGTGATTTAAATAAATATTTTATATTACTGGTTATTTTACCAACGTGTG
20751393 TGAAAGACC
196 TGAAAGACC
20751402 ATGTTCACTCGCACGACGTGGGTGAAGCAAAATGTTTATAGACCGATTGGGCTTTTATGCCTTTT
1 ATGTTCACTCGCACGACGTGGGTGAAGCAAAATGTTTATAGACCGATTGGGCTTTTATGCCTTTT
20751467 TTTCTCAGCAGAACTTATTTCGATCCAGTCTTTATTTATTCTTTTATTAAATATATGTATATTTT
66 TTTCTCAGCAGAACTTATTTCGATCCAGTCTTTATTTATTCTTTTATTAAATATATGTATATTTT
20751532 TATTCTCGTTCGATCTTGTGATTTAAATAAATATTTTATATTACTGGTTATTTTACCAACGTGTG
131 TATTCTCGTTCGATCTTGTGATTTAAATAAATATTTTATATTACTGGTTATTTTACCAACGTGTG
20751597 TGAAAGACC
196 TGAAAGACC
20751606 ATGTTCACT
1 ATGTTCACT
20751615 TCAATTTAAA
Statistics
Matches: 212, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
204 212 1.00
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.43
Consensus pattern (204 bp):
ATGTTCACTCGCACGACGTGGGTGAAGCAAAATGTTTATAGACCGATTGGGCTTTTATGCCTTTT
TTTCTCAGCAGAACTTATTTCGATCCAGTCTTTATTTATTCTTTTATTAAATATATGTATATTTT
TATTCTCGTTCGATCTTGTGATTTAAATAAATATTTTATATTACTGGTTATTTTACCAACGTGTG
TGAAAGACC
Found at i:20752736 original size:643 final size:645
Alignment explanation
Indices: 20751502--20753183 Score: 2561
Period size: 656 Copynumber: 2.6 Consensus size: 645
20751492 CAGTCTTTAT
* * *
20751502 TTATTCTTTTATTAAATATATGTATATTTTTATTCTCGTTCGATCTTGTGATTTAAATAAATATT
1 TTATTATTTTATTATATATATGTATATTTTTGTTCTCGTTCGATCTTGTGATTTAAATAAATATT
* * * * *
20751567 TTATATTACTGGTTATTTTACCAACGTGTGTGAAAGACCATGTTCACTTCAATTTAAAGCCAAAT
66 TTATATTACTGTTTATTTTACTAACGTGTGTGCAAGATCATATTCACTTCAATTTAAAGCCAAAT
* * * * *
20751632 TTGATTTTCTTTTCTGTTTTCACCATTTATGACTCATTCGCTCCATTAGGTCTTGCTAATTTCCC
131 TTGATTTTCCTTTCCGTTTTCACCATTTATGACTCATTCCCTCAATTAGGTCTTGTTAATTTCCC
* * *
20751697 ATTTTCCTAAGCTTTTGCTACTTTTAGTGGGATTT-ATTCAAGAATCGCATTTAAAATTTGGGAA
196 ATTTTCCTAAGCTTTTGCTACTTTTAGTGGGATTTAACTCAAGAATCACATTTAAAATTT-GAAA
* * *
20751761 AAGAACTAAGTT-TTTTAGCTTTATGAAACTCAATGCAATGAAGTGTTTTCACTATTTCAAGGAC
260 AAGAATTGAGTTCTTTTAGCTTTATGAAATTCAATGCAATGAAGTGTTTTCACTATTTCAAGGAC
* *
20751825 AAGTATTGAAGCAAGGGCAAAATATTAGCCTCAGAATTAAAAGAATGAAGGAACGAAATCAAAGG
325 AAGTTTTGAAGCAAGGG-AAAATATTAGCCTCAGAATTGAAAGAATGAAGGAACGAAATCAAAGG
* * * *
20751890 AACATTCAAAGGCATTTTTCAAACTGTTTTTGGTGATAGCCGAAGGCAAGACTATTGTTCGTTGA
389 AACATTCAAAGGCATTTTTCAAACTATTTTCGGTGATAGACGAAGGCAAGACTACTGTTCGTTGA
* *
20751955 TCACTGTAGCCGTGCTACTACCGTGCTCATCTTATTGTTGTGTTCTAGGAGACAATCGACCAACG
454 TCACTGCAGCCGTGCTACTACCGTGCTCATCTTATTGTTGTATTCTAGGAGACAATCGACCAACG
* * *
20752020 TTTCTCCAGCACCAAAGAAGCAGTCGGATTTATCTTAAGGAAACTATGAAAATAGGCCTCAACTA
519 TTTCTCCAGCACCAAAGAAGCAGCCGAATCTATCTTAAGGAAACTATGAAAATAGGCCTCAACTA
* *
20752085 CCAGTCCGTTTTTCCTGCCTACGTACGAGTATAATATTTCAATCCAGTC-TTTCT-TTC-TG
584 CCAGTCCGTTTTTCCTGCCTACCTACGAGTATAATATTTCAATCCAGTCTTTTCTATTCTTA
*
20752144 TTCTT-TTTTATTATATATATGTATATTTTTGTTCTCGTTCGATCTTGTGATTTAAATAAATATT
1 TTATTATTTTATTATATATATGTATATTTTTGTTCTCGTTCGATCTTGTGATTTAAATAAATATT
*
20752208 TTATATTACTATTTATTTTACTAACGTGTGTGCAAGATCATATTCACTTCAATTTAAAGCCAAAT
66 TTATATTACTGTTTATTTTACTAACGTGTGTGCAAGATCATATTCACTTCAATTTAAAGCCAAAT
* *
20752273 TTGATTTTCCTTTCCATTTTCACCATTTATGACTCATTCCCTCGATTAGGTCTTGTTAATTTCCC
131 TTGATTTTCCTTTCCGTTTTCACCATTTATGACTCATTCCCTCAATTAGGTCTTGTTAATTTCCC
* *
20752338 ATTTTCCTAAGCTTTTGCTACTTTTAGTGGGATTTAACTCAAGAATCATATTTAAAATTTGATAC
196 ATTTTCCTAAGCTTTTGCTACTTTTAGTGGGATTTAACTCAAGAATCACATTTAAAATTTGA-AA
*
20752403 AAGAATTGAGTTCTTTTAGCTTTATGAAATTCAATGTAATGAAGTGTTTTCACTATTTCAAGGAC
260 AAGAATTGAGTTCTTTTAGCTTTATGAAATTCAATGCAATGAAGTGTTTTCACTATTTCAAGGAC
* * * * *
20752468 AAGTTTTGAAGCAAAGGAAAACTATTTGCCTCAGAAATGAAAGAATGAATGAAGGAAATCAAAGG
325 AAGTTTTGAAGCAAGGGAAAA-TATTAGCCTCAGAATTGAAAGAATGAAGGAACGAAATCAAAGG
* *
20752533 AACATTCAAAGGCGTTTTTCAAACTATTTTCGGTGATAGACGAAGGCAAGGCTACTGTTCGTTGA
389 AACATTCAAAGGCATTTTTCAAACTATTTTCGGTGATAGACGAAGGCAAGACTACTGTTCGTTGA
** * * *
20752598 TCACTGCAGTTGTGCTACTATCGTGCTCATCTTGTTGTTGTA-TCTTGGGAGACAATCGACCAAC
454 TCACTGCAGCCGTGCTACTACCGTGCTCATCTTATTGTTGTATTC-TAGGAGACAATCGACCAAC
* * *
20752662 GTTTCTCCAGCACCAAAGGAGC-GACCGAATCTGTCTTAAGGAAACTGTGAAAATAGGCCTCAAC
518 GTTTCTCCAGCACCAAAGAAGCAG-CCGAATCTATCTTAAGGAAACTATGAAAATAGGCCTCAAC
* * * *
20752726 TACTAGTCCGTTTTTCCTGCCTACCTATGAGTATAATATTTCGATCTAGTCTTTATTTCTATTCT
582 TACCAGTCCGTTTTTCCTGCCTACCTACGAGTATAATATTTCAATCCAGTC--T-TTTCTATTC-
20752791 TTATTA
643 ---TTA
*
20752797 TTATTATTATTATTATTATATATGTATATTTTTGTTCTCGTTTGATCTTGTGATTTAAATAAATA
1 TTATTATT-TTATTA-TATATATGTATATTTTTGTTCTCGTTCGATCTTGTGATTTAAATAAATA
* *
20752862 TTTTATATTATTGTTTATTTTACTAACATGTGTGCAAGATCATATTCACTTCAATTTAAAGCCAA
64 TTTTATATTACTGTTTATTTTACTAACGTGTGTGCAAGATCATATTCACTTCAATTTAAAGCCAA
20752927 ATTTGATTTTCCTTTCCGTTTTCACCATTTATGACTCATTCCCTCAATTAGGTCTTGTTAATTTC
129 ATTTGATTTTCCTTTCCGTTTTCACCATTTATGACTCATTCCCTCAATTAGGTCTTGTTAATTTC
* * *
20752992 CCATTTTTCTAAGCTTTTGCTACTTTTAGTGGGATTTAGCTTAAGAATCACATTTAAAATTTGGA
194 CCATTTTCCTAAGCTTTTGCTACTTTTAGTGGGATTTAACTCAAGAATCACATTTAAAATTT-GA
*
20753057 AAAAGAATCGAGTTCTTTTAGCTTTATGAAATTCAATGCAATGAAGTGTTTTCACTATTTCAAGG
258 AAAAGAATTGAGTTCTTTTAGCTTTATGAAATTCAATGCAATGAAGTGTTTTCACTATTTCAAGG
*
20753122 ACAAGTTTTGAAGCAAGGGAAAAATATTAGCCTCAGAATTGAAAGAATGAAGGAACAAAATC
323 ACAAGTTTTGAAGCAAGGG-AAAATATTAGCCTCAGAATTGAAAGAATGAAGGAACGAAATC
20753184 TGTTAGAGTT
Statistics
Matches: 943, Mismatches: 76, Indels: 28
0.90 0.07 0.03
Matches are distributed among these distances:
641 211 0.22
642 43 0.05
643 318 0.34
647 5 0.01
648 3 0.00
653 5 0.01
654 2 0.00
655 6 0.01
656 344 0.36
657 6 0.01
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39
Consensus pattern (645 bp):
TTATTATTTTATTATATATATGTATATTTTTGTTCTCGTTCGATCTTGTGATTTAAATAAATATT
TTATATTACTGTTTATTTTACTAACGTGTGTGCAAGATCATATTCACTTCAATTTAAAGCCAAAT
TTGATTTTCCTTTCCGTTTTCACCATTTATGACTCATTCCCTCAATTAGGTCTTGTTAATTTCCC
ATTTTCCTAAGCTTTTGCTACTTTTAGTGGGATTTAACTCAAGAATCACATTTAAAATTTGAAAA
AGAATTGAGTTCTTTTAGCTTTATGAAATTCAATGCAATGAAGTGTTTTCACTATTTCAAGGACA
AGTTTTGAAGCAAGGGAAAATATTAGCCTCAGAATTGAAAGAATGAAGGAACGAAATCAAAGGAA
CATTCAAAGGCATTTTTCAAACTATTTTCGGTGATAGACGAAGGCAAGACTACTGTTCGTTGATC
ACTGCAGCCGTGCTACTACCGTGCTCATCTTATTGTTGTATTCTAGGAGACAATCGACCAACGTT
TCTCCAGCACCAAAGAAGCAGCCGAATCTATCTTAAGGAAACTATGAAAATAGGCCTCAACTACC
AGTCCGTTTTTCCTGCCTACCTACGAGTATAATATTTCAATCCAGTCTTTTCTATTCTTA
Found at i:20752799 original size:3 final size:3
Alignment explanation
Indices: 20752791--20752815 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
20752781 TTTCTATTCT
20752791 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
20752816 ATATGTATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:20756887 original size:15 final size:14
Alignment explanation
Indices: 20756866--20756903 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
20756856 TTGTTACAAA
20756866 AACTTTTCTTC-CTT
1 AACTTTTCTTCTC-T
20756880 AACGTTTTCTTCTCT
1 AAC-TTTTCTTCTCT
20756895 AACTTTTCT
1 AACTTTTCT
20756904 ATTTTTCTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 9 0.41
15 12 0.55
16 1 0.05
ACGTcount: A:0.16, C:0.26, G:0.03, T:0.55
Consensus pattern (14 bp):
AACTTTTCTTCTCT
Found at i:20756903 original size:14 final size:14
Alignment explanation
Indices: 20756866--20756903 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
20756856 TTGTTACAAA
20756866 AACTTTTCTTCCTT
1 AACTTTTCTTCCTT
20756880 AACGTTTTCTT-CTCT
1 AAC-TTTTCTTCCT-T
20756895 AACTTTTCT
1 AACTTTTCT
20756904 ATTTTTCTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.16, C:0.26, G:0.03, T:0.55
Consensus pattern (14 bp):
AACTTTTCTTCCTT
Found at i:20761176 original size:29 final size:29
Alignment explanation
Indices: 20761144--20761203 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
20761134 GAAAATTGAG
20761144 TAAGTATTGGGATAATTGTGGTTGCTATA
1 TAAGTATTGGGATAATTGTGGTTGCTATA
20761173 TAAGTATTGGGATAATTGTGGTTGCTATA
1 TAAGTATTGGGATAATTGTGGTTGCTATA
20761202 TA
1 TA
20761204 TATGTTGAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.28, C:0.03, G:0.27, T:0.42
Consensus pattern (29 bp):
TAAGTATTGGGATAATTGTGGTTGCTATA
Found at i:20766981 original size:18 final size:19
Alignment explanation
Indices: 20766941--20766984 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
20766931 ATAAACAACC
*
20766941 TAAAAAATTAAAAAGAAAT
1 TAAAAAAATAAAAAGAAAT
20766960 TAAAAAAATAAATAA-AAA-
1 TAAAAAAATAAA-AAGAAAT
20766978 TAAAAAA
1 TAAAAAA
20766985 TATCATATCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 7 0.30
19 14 0.61
20 2 0.09
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (19 bp):
TAAAAAAATAAAAAGAAAT
Found at i:20771933 original size:20 final size:22
Alignment explanation
Indices: 20771894--20771941 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 22
20771884 TAGAAACTGG
20771894 TAGAA-TTGTTATTCTAGAAAA
1 TAGAATTTGTTATTCTAGAAAA
20771915 TAGAATTTG-TATT-TAGAAAA
1 TAGAATTTGTTATTCTAGAAAA
20771935 TA-AATTT
1 TAGAATTT
20771942 TCACTGTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.19
20 9 0.35
21 9 0.35
22 3 0.12
ACGTcount: A:0.44, C:0.02, G:0.12, T:0.42
Consensus pattern (22 bp):
TAGAATTTGTTATTCTAGAAAA
Found at i:20772291 original size:16 final size:16
Alignment explanation
Indices: 20772270--20772302 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
20772260 TAATTTAAAT
*
20772270 TAATTAATTAATTTTC
1 TAATTAAGTAATTTTC
20772286 TAATTAAGTAATTTTC
1 TAATTAAGTAATTTTC
20772302 T
1 T
20772303 CTACCTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.55
Consensus pattern (16 bp):
TAATTAAGTAATTTTC
Found at i:20774951 original size:33 final size:33
Alignment explanation
Indices: 20774909--20774974 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
20774899 AATAAAGGGA
20774909 AAATTTCATTTCTTACATTGTTTTGGTGATAAT
1 AAATTTCATTTCTTACATTGTTTTGGTGATAAT
20774942 AAATTTCATTTCTTACATTGTTTTGGTGATAAT
1 AAATTTCATTTCTTACATTGTTTTGGTGATAAT
20774975 GCTGTCATTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.09, G:0.12, T:0.52
Consensus pattern (33 bp):
AAATTTCATTTCTTACATTGTTTTGGTGATAAT
Found at i:20777155 original size:25 final size:25
Alignment explanation
Indices: 20777126--20777188 Score: 108
Period size: 25 Copynumber: 2.5 Consensus size: 25
20777116 TAGCTCTCAT
*
20777126 GAGCTTTCTGTTATATGGTTATTGC
1 GAGCTTCCTGTTATATGGTTATTGC
20777151 GAGCTTCCTGTTATATGGTTATTGC
1 GAGCTTCCTGTTATATGGTTATTGC
*
20777176 GGGCTTCCTGTTA
1 GAGCTTCCTGTTA
20777189 ATAGCTCTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.14, C:0.16, G:0.25, T:0.44
Consensus pattern (25 bp):
GAGCTTCCTGTTATATGGTTATTGC
Found at i:20777289 original size:25 final size:25
Alignment explanation
Indices: 20777261--20777352 Score: 98
Period size: 25 Copynumber: 3.6 Consensus size: 25
20777251 CTTATGAGTA
*
20777261 TCCCGA-TATATGGCTCTTTGGAGCT
1 TCCCGATTA-ATGGCTCTTCGGAGCT
* *
20777286 TCCCGATTAAAGGCTCTTCGTGAGTT
1 TCCCGATTAATGGCTCTTCG-GAGCT
*
20777312 TCCCGATTAATGGCTCTCCGGAGCT
1 TCCCGATTAATGGCTCTTCGGAGCT
*
20777337 TCCTG-TTACATGGCTC
1 TCCCGATTA-ATGGCTC
20777353 ACATGAGCTT
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
24 3 0.05
25 30 0.53
26 24 0.42
ACGTcount: A:0.16, C:0.27, G:0.23, T:0.34
Consensus pattern (25 bp):
TCCCGATTAATGGCTCTTCGGAGCT
Found at i:20777326 original size:26 final size:26
Alignment explanation
Indices: 20777255--20777328 Score: 89
Period size: 26 Copynumber: 2.9 Consensus size: 26
20777245 GTAGCTCTTA
* *
20777255 TGAGTATCCCGA-TATATGGCTCTTTG
1 TGAGTTTCCCGATTA-ATGGCTCTTCG
* *
20777281 -GAGCTTCCCGATTAAAGGCTCTTCG
1 TGAGTTTCCCGATTAATGGCTCTTCG
20777306 TGAGTTTCCCGATTAATGGCTCT
1 TGAGTTTCCCGATTAATGGCTCT
20777329 CCGGAGCTTC
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
25 18 0.45
26 22 0.55
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (26 bp):
TGAGTTTCCCGATTAATGGCTCTTCG
Found at i:20777409 original size:24 final size:25
Alignment explanation
Indices: 20777355--20777416 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 25
20777345 CATGGCTCAC
20777355 ATGAGCTTCTCGTTATATAGCTCGA
1 ATGAGCTTCTCGTTATATAGCTCGA
* * *
20777380 AAGAGCTT-TCCGTTATGTA-CTCGT
1 ATGAGCTTCT-CGTTATATAGCTCGA
20777404 ATGAGCATTCTCG
1 ATGAGC-TTCTCG
20777417 AATACAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
24 10 0.33
25 19 0.63
26 1 0.03
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (25 bp):
ATGAGCTTCTCGTTATATAGCTCGA
Found at i:20779354 original size:17 final size:17
Alignment explanation
Indices: 20779332--20779404 Score: 58
Period size: 17 Copynumber: 4.2 Consensus size: 17
20779322 GAACTCACAA
*
20779332 GTGAGCTCTCAAGTTTG
1 GTGAGCTCACAAGTTTG
** *
20779349 GTGAGCTTGC-TGTCTTG
1 GTGAGCTCACAAGT-TTG
**
20779366 GTGAGCTCACATTTTTTG
1 GTGAGCTCACA-AGTTTG
*
20779384 GTGAGCTCACAATTTTG
1 GTGAGCTCACAAGTTTG
20779401 GTGA
1 GTGA
20779405 ATTCGCAGTT
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
16 2 0.04
17 28 0.61
18 14 0.30
19 2 0.04
ACGTcount: A:0.16, C:0.16, G:0.29, T:0.38
Consensus pattern (17 bp):
GTGAGCTCACAAGTTTG
Found at i:20779386 original size:18 final size:17
Alignment explanation
Indices: 20779363--20779404 Score: 66
Period size: 18 Copynumber: 2.4 Consensus size: 17
20779353 GCTTGCTGTC
*
20779363 TTGGTGAGCTCACATTTT
1 TTGGTGAGCTCACA-ATT
20779381 TTGGTGAGCTCACAATT
1 TTGGTGAGCTCACAATT
20779398 TTGGTGA
1 TTGGTGA
20779405 ATTCGCAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.19, C:0.14, G:0.26, T:0.40
Consensus pattern (17 bp):
TTGGTGAGCTCACAATT
Found at i:20784263 original size:47 final size:47
Alignment explanation
Indices: 20784198--20784291 Score: 143
Period size: 47 Copynumber: 2.0 Consensus size: 47
20784188 ATATATGCAC
*
20784198 CAACTTGAGATAGAGTGTTGAAATATGTAAAACCCATATATTCTGGG
1 CAACTTGAGAGAGAGTGTTGAAATATGTAAAACCCATATATTCTGGG
* * * *
20784245 CAACTTGAGGGAGGGTGTTGAAATATGTGAAACCCATATATTTTGGG
1 CAACTTGAGAGAGAGTGTTGAAATATGTAAAACCCATATATTCTGGG
20784292 GATATATTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.30
Consensus pattern (47 bp):
CAACTTGAGAGAGAGTGTTGAAATATGTAAAACCCATATATTCTGGG
Found at i:20786313 original size:21 final size:21
Alignment explanation
Indices: 20786287--20786328 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
20786277 GTGGAAAAGG
20786287 TTAGAAACTATTTATGTGACT
1 TTAGAAACTATTTATGTGACT
*
20786308 TTAGAAACTCTTTATGTGACT
1 TTAGAAACTATTTATGTGACT
20786329 AAGTCTTTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.43
Consensus pattern (21 bp):
TTAGAAACTATTTATGTGACT
Found at i:20787863 original size:38 final size:38
Alignment explanation
Indices: 20787809--20787885 Score: 138
Period size: 38 Copynumber: 2.0 Consensus size: 38
20787799 ATATCTATCT
20787809 TTTGTACTTTTCGTTCTTTTGCTATTATAGTAAAATTA
1 TTTGTACTTTTCGTTCTTTTGCTATTATAGTAAAATTA
20787847 TTTGTACTCTTT-GTTCTTTTGCTATTATAGTAAAATTA
1 TTTGTACT-TTTCGTTCTTTTGCTATTATAGTAAAATTA
20787885 T
1 T
20787886 CTTTACCCGT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
38 35 0.92
39 3 0.08
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.56
Consensus pattern (38 bp):
TTTGTACTTTTCGTTCTTTTGCTATTATAGTAAAATTA
Found at i:20792701 original size:15 final size:15
Alignment explanation
Indices: 20792681--20792709 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
20792671 GTTATGTAAG
20792681 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
20792696 TGAAAGGTCAAGAG
1 TGAAAGGTCAAGAG
20792710 CTATGTTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.07, G:0.34, T:0.17
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:20795401 original size:16 final size:16
Alignment explanation
Indices: 20795371--20795400 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20795361 TAAATGTAAC
20795371 ATATAATATGAAAAAT
1 ATATAATATGAAAAAT
20795387 ATATAATA-GAAAAA
1 ATATAATATGAAAAA
20795401 ACTAAACAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (16 bp):
ATATAATATGAAAAAT
Found at i:20796299 original size:6 final size:6
Alignment explanation
Indices: 20796285--20796316 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
20796275 ATTTCCACTG
*
20796285 CCTCCA CCTCTA CCTCTA CCTCTA CCTCTA CC
1 CCTCTA CCTCTA CCTCTA CCTCTA CCTCTA CC
20796317 GCCACCAACA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.56, G:0.00, T:0.28
Consensus pattern (6 bp):
CCTCTA
Found at i:20798572 original size:27 final size:27
Alignment explanation
Indices: 20798542--20798620 Score: 72
Period size: 27 Copynumber: 2.9 Consensus size: 27
20798532 TTTCTTTTTA
20798542 TTTATATATTTTATAAATTTATAAATT
1 TTTATATATTTTATAAATTTATAAATT
* * * * *
20798569 TTTAGT-TCTTTTATATAGTCATATATT
1 TTTA-TATATTTTATAAATTTATAAATT
20798596 TTTATATATTTT-TCATAATTTATAA
1 TTTATATATTTTAT-A-AATTTATAA
20798621 CTTTCTATTT
Statistics
Matches: 38, Mismatches: 10, Indels: 7
0.69 0.18 0.13
Matches are distributed among these distances:
26 2 0.05
27 30 0.79
28 6 0.16
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.59
Consensus pattern (27 bp):
TTTATATATTTTATAAATTTATAAATT
Found at i:20804820 original size:96 final size:96
Alignment explanation
Indices: 20804697--20805113 Score: 602
Period size: 97 Copynumber: 4.4 Consensus size: 96
20804687 GTTTTTAGAT
* * * * *
20804697 TTTAGGGTTTTAAGGAAAAAATTAAATAAATAAGGGTTTAAGGTTTCTTAAGTAAATTAATTATA
1 TTTAGGGTTTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATA
20804762 AA-TTTTAAAAAAATAGATTAGGGTTTAGTG
66 AATTTTTAAAAAAATAGATTAGGGTTTAGTG
*
20804792 TTTAGGGTTCTTAAGGAGAAAATCAAATAAATTAGGGTTT-GGTGTTACTTGAGTAAATTAATTA
1 TTTAGGGTT-TTAAGGAAAAAATCAAATAAATTAGGGTTTAGG-GTTACTTGAGTAAATTAATTA
20804856 TAAA-TTTTAAAAAAATTAGATTAGGGTTTAGTG
64 TAAATTTTTAAAAAAA-TAGATTAGGGTTTAGTG
*
20804889 TTTAGGGTTTTAAAGAAAAAATTCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAT
1 TTTAGGGTTTTAAGGAAAAAA-TCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAT
* *
20804954 AAATTTTTAAAAAATTAGATTAGGGTTTAGTC
65 AAATTTTTAAAAAAATAGATTAGGGTTTAGTG
*
20804986 TTTAGGGTTTTTAAGGAAAAAATCAAATAAATTAGGGTTTGGGGTTACTTGAGTAAATTAATTAT
1 TTTAGGG-TTTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAT
* *
20805051 AAATTTTTTAAAAAATAGAATAGGGTTTAG-G
65 AAATTTTTAAAAAAATAGATTAGGGTTTAGTG
*
20805082 ---A--TTTTTAAGG-AAAAATCAAATAAATTAGGGTT
1 TTTAGGGTTTTAAGGAAAAAATCAAATAAATTAGGGTT
20805114 GGGGTTTAGG
Statistics
Matches: 298, Mismatches: 17, Indels: 20
0.89 0.05 0.06
Matches are distributed among these distances:
89 22 0.07
90 8 0.03
93 1 0.00
95 10 0.03
96 71 0.24
97 161 0.54
98 25 0.08
ACGTcount: A:0.41, C:0.02, G:0.19, T:0.38
Consensus pattern (96 bp):
TTTAGGGTTTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATA
AATTTTTAAAAAAATAGATTAGGGTTTAGTG
Found at i:20805523 original size:126 final size:126
Alignment explanation
Indices: 20805152--20805569 Score: 678
Period size: 126 Copynumber: 3.3 Consensus size: 126
20805142 TTTTTAATTT
**
20805152 AAAAAAGCTCCCACGTGGACGCTCTTTTGCTATTGTAGTTCTTGAAAAAATAATTTTGAGAAGAC
1 AAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGAC
*
20805217 GTTTCTGAGCAAATAGTGTCAAAAACTCTTTAAGCAGGATGCATTGTCAGCAAAAGTACTG
66 GTTTCTGAGCAAATAGTGTTAAAAACTCTTTAAGCAGGATGCATTGTCAGCAAAAGTACTG
* * *
20805278 AAAGAAGCTCCCACGTGGACGCTCTTTTGCTATAGTAGTTCCTG-AAAAATAATTTTGAGAAGAC
1 AAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGAC
* *
20805342 GTTTCTGAGCAAATAGTGTTAAAAACTCTTTAAGCAGGATGCATTGTCAGAAAAAGTATTG
66 GTTTCTGAGCAAATAGTGTTAAAAACTCTTTAAGCAGGATGCATTGTCAGCAAAAGTACTG
* *
20805403 AAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTTTTGAAAAAATAATTTTGAGAAGAT
1 AAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGAC
* * * * *
20805468 ATTTCTGAGCAAATAGTGTTAAAAACGCTTCAAGCAGGATGCAATATCAGCAAAAGTACT-
66 GTTTCTGAGCAAATAGTGTTAAAAACTCTTTAAGCAGGATGCATTGTCAGCAAAAGTACTG
20805528 AAAAGAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTC
1 AAAA-AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTC
20805570 CTATTTGGCC
Statistics
Matches: 271, Mismatches: 19, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
125 122 0.45
126 149 0.55
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (126 bp):
AAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGAC
GTTTCTGAGCAAATAGTGTTAAAAACTCTTTAAGCAGGATGCATTGTCAGCAAAAGTACTG
Found at i:20809165 original size:18 final size:18
Alignment explanation
Indices: 20809139--20809180 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
20809129 GATTAGAAAA
* * *
20809139 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
20809157 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
20809175 AGGATA
1 AGGATA
20809181 TGCACCTGGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.45, C:0.07, G:0.29, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:20810006 original size:19 final size:20
Alignment explanation
Indices: 20809971--20810011 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
20809961 AATTTTAGCA
*
20809971 TACGATTATATT-TTAAATC
1 TACGATTATATTGTAAAATC
20809990 TACG-TTATAATTGTAAAATC
1 TACGATTAT-ATTGTAAAATC
20810010 TA
1 TA
20810012 ATAGAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
18 4 0.21
19 7 0.37
20 8 0.42
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.44
Consensus pattern (20 bp):
TACGATTATATTGTAAAATC
Found at i:20811516 original size:13 final size:11
Alignment explanation
Indices: 20811488--20811519 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
20811478 TTATTCAATA
20811488 TTCTCTCAAAT
1 TTCTCTCAAAT
20811499 TTCTCTCAAAT
1 TTCTCTCAAAT
*
20811510 TCCTCTCAAA
1 TTCTCTCAAA
20811520 GCTCTCTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.28, C:0.31, G:0.00, T:0.41
Consensus pattern (11 bp):
TTCTCTCAAAT
Found at i:20811525 original size:22 final size:22
Alignment explanation
Indices: 20811482--20811526 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
20811472 CTTCAATTAT
**
20811482 TCAATATTCTCTCAAATTTCTC
1 TCAATATTCTCTCAAAGCTCTC
20811504 TCAA-ATTCCTCTCAAAGCTCTC
1 TCAATATT-CTCTCAAAGCTCTC
20811526 T
1 T
20811527 TTAATTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.27, C:0.31, G:0.02, T:0.40
Consensus pattern (22 bp):
TCAATATTCTCTCAAAGCTCTC
Found at i:20812551 original size:95 final size:96
Alignment explanation
Indices: 20812401--20812592 Score: 316
Period size: 95 Copynumber: 2.0 Consensus size: 96
20812391 TTAGAGGTTG
* *
20812401 CCTAATTTATTTGATTTTATCCTTAAGAACCCTAAACACTAAACCCTAATCTAATTTTTTAAAAT
1 CCTAATTTATTTGATTTTATCCTTAAAAACCATAAACACTAAACCCTAATCTAATTTTTTAAAAT
* *
20812466 TTATAATTAATTTACTCAA-ATAACCCTAAAC
66 TTAAAATTAATTTAATCAAGA-AACCCTAAAC
20812497 CCTAATTTATTTGATTTT-TCCTTAAAAACCATAAACACTAAACCCTAATCTAATTTTTTAAAAT
1 CCTAATTTATTTGATTTTATCCTTAAAAACCATAAACACTAAACCCTAATCTAATTTTTTAAAAT
*
20812561 TTAAAATTAATTTAATTAAGAAACCCTAAAC
66 TTAAAATTAATTTAATCAAGAAACCCTAAAC
20812592 C
1 C
20812593 TTAAACCCTT
Statistics
Matches: 90, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
95 71 0.79
96 19 0.21
ACGTcount: A:0.41, C:0.19, G:0.02, T:0.38
Consensus pattern (96 bp):
CCTAATTTATTTGATTTTATCCTTAAAAACCATAAACACTAAACCCTAATCTAATTTTTTAAAAT
TTAAAATTAATTTAATCAAGAAACCCTAAAC
Found at i:20814809 original size:19 final size:19
Alignment explanation
Indices: 20814785--20814895 Score: 177
Period size: 19 Copynumber: 5.8 Consensus size: 19
20814775 AATCTTCAGG
20814785 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
20814804 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* **
20814823 AATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
20814842 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
20814861 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
20814880 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
20814896 AGATATGATT
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 82 1.00
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:20814835 original size:38 final size:38
Alignment explanation
Indices: 20814792--20814895 Score: 199
Period size: 38 Copynumber: 2.7 Consensus size: 38
20814782 AGGGATATGC
20814792 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
*
20814830 AATCTTAGATATGATATGCAATCTTAGATATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
20814868 AATCTTAGATATGATATGCAATCTTAGA
1 AATCTTAGATATGATATGCAATCTTAGA
20814896 AGATATGATT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 65 1.00
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.38
Consensus pattern (38 bp):
AATCTTAGATATGATATGCAATCTTAGATATAATATAT
Found at i:20814921 original size:22 final size:22
Alignment explanation
Indices: 20814874--20814918 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
20814864 ATATAATCTT
*
20814874 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATATTAGA
* *
20814896 AGATATGATTTTGTAATATTAGA
1 AGATATGA-TATGCAATATTAGA
20814919 GATTTAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.40, C:0.04, G:0.18, T:0.38
Consensus pattern (22 bp):
AGATATGATATGCAATATTAGA
Found at i:20815709 original size:21 final size:24
Alignment explanation
Indices: 20815665--20815710 Score: 62
Period size: 21 Copynumber: 2.0 Consensus size: 24
20815655 TTTTTATTCG
20815665 TTTATTAATTTATGTTTGCATATT
1 TTTATTAATTTATGTTTGCATATT
*
20815689 TTTATT-A-TTAT-TTTGCCTATT
1 TTTATTAATTTATGTTTGCATATT
20815710 T
1 T
20815711 ATTTGATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 10 0.48
22 4 0.19
23 1 0.05
24 6 0.29
ACGTcount: A:0.22, C:0.07, G:0.07, T:0.65
Consensus pattern (24 bp):
TTTATTAATTTATGTTTGCATATT
Found at i:20819128 original size:7 final size:7
Alignment explanation
Indices: 20819105--20819140 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
20819095 GATTCAATAA
20819105 AAAAAAG
1 AAAAAAG
20819112 -AAAAAG
1 AAAAAAG
20819118 --AAAAG
1 AAAAAAG
20819123 AAAAAAG
1 AAAAAAG
20819130 AAAAAAG
1 AAAAAAG
20819137 AAAA
1 AAAA
20819141 GGAGAGGCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 5 0.19
6 6 0.22
7 16 0.59
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:20819128 original size:19 final size:19
Alignment explanation
Indices: 20819105--20819141 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
20819095 GATTCAATAA
20819105 AAAAAAG-AAAAAGAAAAG
1 AAAAAAGAAAAAAGAAAAG
20819123 AAAAAAGAAAAAAGAAAAG
1 AAAAAAGAAAAAAGAAAAG
20819142 GAGAGGCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (19 bp):
AAAAAAGAAAAAAGAAAAG
Found at i:20820600 original size:132 final size:131
Alignment explanation
Indices: 20820442--20820935 Score: 732
Period size: 132 Copynumber: 3.8 Consensus size: 131
20820432 TTGACAACAA
* * *
20820442 AGCAGATCGAAGATGACAGATTTTACCTCCCTATGGTTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
* *
20820507 TCTACTTCCCTGGACAACGGTGGAATAGATTGAAGATTTCATATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGG-CAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
20820572 GG
130 GG
20820574 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
20820639 TCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCT-GGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
20820704 GG
130 GG
* *
20820706 AGCAGATCGAAGATGGCGGATTTTACCTCCTTGTGGTTGTAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
* * *
20820771 TCTACTTCTCTAGGCAACAATGGAATAGATCGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCT-GGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
20820836 GG
130 GG
* * * *
20820838 AGCAGATCGAAGAT-----TTTTTACCTCCCTGTGGTTACAGTAGAGTACATTCAAGCCAGTAA-
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
* * *
20820897 TCATA-TCTCCTTGGTCAGCAGTGGAATAGGTTGAAGATT
66 TC-TACT-TCCCTGG-CAACAGTGGAATAGATTGAAGATT
20820936 GTAAGTCCTA
Statistics
Matches: 335, Mismatches: 23, Indels: 13
0.90 0.06 0.04
Matches are distributed among these distances:
126 5 0.01
127 64 0.19
132 264 0.79
133 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (131 bp):
AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
TCTACTTCCCTGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTG
G
Found at i:20820604 original size:44 final size:44
Alignment explanation
Indices: 20820556--20820735 Score: 103
Period size: 44 Copynumber: 4.1 Consensus size: 44
20820546 CATATCTTAT
20820556 CTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTAC
1 CTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTAC
** * * * * *** ** *
20820600 CTCCCTGTGGTTA-TAGTGGAGTACATTGAAGCCAG-TAATTCTAC
1 CTCCCT-AAG-CAGTAGTGGAGCAGATCGAAGATGGCGGATTTTAC
* ** ** ** * ** * * *
20820644 TTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTAT
1 CTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTAC
20820688 CTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTAC
1 CTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTAC
20820732 CTCC
1 CTCC
20820736 TTGTGGTTGT
Statistics
Matches: 92, Mismatches: 40, Indels: 8
0.66 0.29 0.06
Matches are distributed among these distances:
42 1 0.01
43 17 0.18
44 56 0.61
45 17 0.18
46 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.27
Consensus pattern (44 bp):
CTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTAC
Found at i:20821292 original size:19 final size:19
Alignment explanation
Indices: 20821268--20821378 Score: 177
Period size: 19 Copynumber: 5.8 Consensus size: 19
20821258 AATCTTCAGG
20821268 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
20821287 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* **
20821306 AATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
20821325 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
20821344 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
20821363 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
20821379 AGATATGATT
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 82 1.00
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:20821318 original size:38 final size:38
Alignment explanation
Indices: 20821275--20821378 Score: 199
Period size: 38 Copynumber: 2.7 Consensus size: 38
20821265 AGGGATATGC
20821275 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
*
20821313 AATCTTAGATATGATATGCAATCTTAGATATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
20821351 AATCTTAGATATGATATGCAATCTTAGA
1 AATCTTAGATATGATATGCAATCTTAGA
20821379 AGATATGATT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 65 1.00
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.38
Consensus pattern (38 bp):
AATCTTAGATATGATATGCAATCTTAGATATAATATAT
Found at i:20836183 original size:15 final size:16
Alignment explanation
Indices: 20836163--20836192 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
20836153 TAGCAACTAA
20836163 TATATAAT-TATATTT
1 TATATAATATATATTT
20836178 TATATAATATATATT
1 TATATAATATATATT
20836193 AATTGTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATATAATATATATTT
Found at i:20844285 original size:16 final size:16
Alignment explanation
Indices: 20844266--20844296 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20844256 CTTAGGTTCA
*
20844266 CAAACAGATAGGCTCG
1 CAAACAAATAGGCTCG
20844282 CAAACAAATAGGCTC
1 CAAACAAATAGGCTC
20844297 TCATACATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.26, G:0.19, T:0.13
Consensus pattern (16 bp):
CAAACAAATAGGCTCG
Found at i:20846060 original size:200 final size:200
Alignment explanation
Indices: 20845717--20846116 Score: 800
Period size: 200 Copynumber: 2.0 Consensus size: 200
20845707 CTGTAATGGC
20845717 ATTACAGCCTGAATCCATTCCAGCTCTATTACAGGAAAAGGTTGAATAGCCATTCTCTTCCTTCA
1 ATTACAGCCTGAATCCATTCCAGCTCTATTACAGGAAAAGGTTGAATAGCCATTCTCTTCCTTCA
20845782 CTAGTGAATAGCCATTCCATTCCACGGGAGTAATTTTTTTCCCTATTTTAAATTTTTCCCCTCAC
66 CTAGTGAATAGCCATTCCATTCCACGGGAGTAATTTTTTTCCCTATTTTAAATTTTTCCCCTCAC
20845847 CTTTACCCAGAGAGAATGAAGAAGCTGTAATGGAACCATCATCTTCTCCTTCAGTCTGGTAACTT
131 CTTTACCCAGAGAGAATGAAGAAGCTGTAATGGAACCATCATCTTCTCCTTCAGTCTGGTAACTT
20845912 TCTTT
196 TCTTT
20845917 ATTACAGCCTGAATCCATTCCAGCTCTATTACAGGAAAAGGTTGAATAGCCATTCTCTTCCTTCA
1 ATTACAGCCTGAATCCATTCCAGCTCTATTACAGGAAAAGGTTGAATAGCCATTCTCTTCCTTCA
20845982 CTAGTGAATAGCCATTCCATTCCACGGGAGTAATTTTTTTCCCTATTTTAAATTTTTCCCCTCAC
66 CTAGTGAATAGCCATTCCATTCCACGGGAGTAATTTTTTTCCCTATTTTAAATTTTTCCCCTCAC
20846047 CTTTACCCAGAGAGAATGAAGAAGCTGTAATGGAACCATCATCTTCTCCTTCAGTCTGGTAACTT
131 CTTTACCCAGAGAGAATGAAGAAGCTGTAATGGAACCATCATCTTCTCCTTCAGTCTGGTAACTT
20846112 TCTTT
196 TCTTT
20846117 CCTTTCCATC
Statistics
Matches: 200, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
200 200 1.00
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (200 bp):
ATTACAGCCTGAATCCATTCCAGCTCTATTACAGGAAAAGGTTGAATAGCCATTCTCTTCCTTCA
CTAGTGAATAGCCATTCCATTCCACGGGAGTAATTTTTTTCCCTATTTTAAATTTTTCCCCTCAC
CTTTACCCAGAGAGAATGAAGAAGCTGTAATGGAACCATCATCTTCTCCTTCAGTCTGGTAACTT
TCTTT
Found at i:20847466 original size:23 final size:23
Alignment explanation
Indices: 20847426--20847545 Score: 118
Period size: 23 Copynumber: 5.2 Consensus size: 23
20847416 TTTATCATGT
*
20847426 TTGAAGTGTTAAAGTGTTGCATA
1 TTGAAGTGTTAAAGTGTTGCAAA
* **
20847449 TTGAAGTATTTAAA-TGTTGTGAA
1 TTGAAGT-GTTAAAGTGTTGCAAA
*
20847472 TTGAAGTGTTAAAGTGCTGCAAA
1 TTGAAGTGTTAAAGTGTTGCAAA
*
20847495 TTGAAGTGTTTAAA-TGTTGTAAA
1 TTGAAGTG-TTAAAGTGTTGCAAA
* **
20847518 TTGAAGTGTTTTAAGTACTGCAAA
1 TTGAAGTG-TTAAAGTGTTGCAAA
20847542 TTGA
1 TTGA
20847546 TTTGTTTAGT
Statistics
Matches: 79, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
22 5 0.06
23 54 0.68
24 20 0.25
ACGTcount: A:0.33, C:0.04, G:0.23, T:0.39
Consensus pattern (23 bp):
TTGAAGTGTTAAAGTGTTGCAAA
Found at i:20847498 original size:46 final size:46
Alignment explanation
Indices: 20847426--20847545 Score: 177
Period size: 46 Copynumber: 2.6 Consensus size: 46
20847416 TTTATCATGT
* * *
20847426 TTGAAGTGTTAAAGTGTTGCATATTGAAGTATTTAAATGTTGTGAA
1 TTGAAGTGTTAAAGTGCTGCAAATTGAAGTATTTAAATGTTGTAAA
*
20847472 TTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGTTGTAAA
1 TTGAAGTGTTAAAGTGCTGCAAATTGAAGTATTTAAATGTTGTAAA
* *
20847518 TTGAAGTGTTTTAAGTACTGCAAATTGA
1 TTGAAGTG-TTAAAGTGCTGCAAATTGA
20847546 TTTGTTTAGT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
46 50 0.75
47 17 0.25
ACGTcount: A:0.33, C:0.04, G:0.23, T:0.39
Consensus pattern (46 bp):
TTGAAGTGTTAAAGTGCTGCAAATTGAAGTATTTAAATGTTGTAAA
Found at i:20847566 original size:47 final size:47
Alignment explanation
Indices: 20847426--20847622 Score: 116
Period size: 46 Copynumber: 4.3 Consensus size: 47
20847416 TTTATCATGT
* ** * * * ***
20847426 TTGAAGTG-TTAAAGTGTTGCATATTGAAGTATTTAAATGTTGTGAA
1 TTGAAGTGTTTTAAGTACTGCAAATTGAAGTGTTTAAATGCTAAAAA
* * * **
20847472 TTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTTTAAATGTTGTAAA
1 TTGAAGTGTTTTAAGTACTGCAAATTGAAGTGTTTAAATGCTAAAAA
** **
20847518 TTGAAGTGTTTTAAGTACTGCAAATTGATTTGTTTAGTTGCTAAAAA
1 TTGAAGTGTTTTAAGTACTGCAAATTGAAGTGTTTAAATGCTAAAAA
* * * * * * **
20847565 TTG-AGATGTTTT-ATTGCTG-TAATTGAGGTGTATAAATGTTGTAAA
1 TTGAAG-TGTTTTAAGTACTGCAAATTGAAGTGTTTAAATGCTAAAAA
20847610 TTGAAGTGTTTTA
1 TTGAAGTGTTTTA
20847623 TTGCTGAAAA
Statistics
Matches: 123, Mismatches: 24, Indels: 8
0.79 0.15 0.05
Matches are distributed among these distances:
45 26 0.21
46 59 0.48
47 38 0.31
ACGTcount: A:0.31, C:0.04, G:0.23, T:0.42
Consensus pattern (47 bp):
TTGAAGTGTTTTAAGTACTGCAAATTGAAGTGTTTAAATGCTAAAAA
Found at i:20847633 original size:23 final size:23
Alignment explanation
Indices: 20847470--20847635 Score: 95
Period size: 23 Copynumber: 7.2 Consensus size: 23
20847460 AAATGTTGTG
** * *
20847470 AATTGAAGTGTTAAAGTGCTGCA
1 AATTGAAGTGTTTTATTGCTGAA
* * * *
20847493 AATTGAAGTGTTTAAATGTTGTA
1 AATTGAAGTGTTTTATTGCTGAA
* * *
20847516 AATTGAAGTGTTTTAAGTACTGCA
1 AATTGAAGTGTTTT-ATTGCTGAA
** *
20847540 AATTGATTTG-TTTAGTTGCTAAA
1 AATTGAAGTGTTTTA-TTGCTGAA
*
20847563 AATTG-AGATGTTTTATTGCTG-T
1 AATTGAAG-TGTTTTATTGCTGAA
* * * * * *
20847585 AATTGAGGTGTATAAATGTTGTA
1 AATTGAAGTGTTTTATTGCTGAA
20847608 AATTGAAGTGTTTTATTGCTGAA
1 AATTGAAGTGTTTTATTGCTGAA
20847631 AATTG
1 AATTG
20847636 GATGGTATAA
Statistics
Matches: 106, Mismatches: 31, Indels: 12
0.71 0.21 0.08
Matches are distributed among these distances:
22 15 0.14
23 74 0.70
24 17 0.16
ACGTcount: A:0.32, C:0.04, G:0.22, T:0.42
Consensus pattern (23 bp):
AATTGAAGTGTTTTATTGCTGAA
Found at i:20848248 original size:45 final size:44
Alignment explanation
Indices: 20848164--20848259 Score: 140
Period size: 45 Copynumber: 2.2 Consensus size: 44
20848154 ATTACAACAT
* *
20848164 CATTCCATTCAACCAAACACAAGAATACTATTATAGTTCTATTC
1 CATTACATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
*
20848208 CATTACATTCAACCAAACA-ATTGAATTACTATTACAGTTCTATTC
1 CATTACATTCAACCAAACACA-AGAA-TACTATTACAGTTCTATTC
20848253 CATTACA
1 CATTACA
20848260 GCTCTATTCC
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 21 0.45
45 25 0.53
ACGTcount: A:0.39, C:0.24, G:0.04, T:0.33
Consensus pattern (44 bp):
CATTACATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
Found at i:20848259 original size:16 final size:16
Alignment explanation
Indices: 20848238--20848309 Score: 108
Period size: 16 Copynumber: 4.5 Consensus size: 16
20848228 TTGAATTACT
*
20848238 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTCC
20848254 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
* * *
20848270 ATTATAGCTTTATTCA
1 ATTACAGCTCTATTCC
20848286 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
20848302 ATTACAGC
1 ATTACAGC
20848310 GAACCAAACG
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.40
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:20850601 original size:48 final size:48
Alignment explanation
Indices: 20850518--20850618 Score: 148
Period size: 48 Copynumber: 2.1 Consensus size: 48
20850508 GAATATGCTT
*
20850518 TTTCATCAAATAATAATAATGAAAGTTTCAAAGGTGATTGAAAACGCG
1 TTTCATCAAATAATAATAATGAAAGCTTCAAAGGTGATTGAAAACGCG
* * * * *
20850566 TTTCATCGAATAATAATAATGAATGCTTCAGAGGTGCTTGAAAACGTG
1 TTTCATCAAATAATAATAATGAAAGCTTCAAAGGTGATTGAAAACGCG
20850614 TTTCA
1 TTTCA
20850619 GTAGATATGT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.32
Consensus pattern (48 bp):
TTTCATCAAATAATAATAATGAAAGCTTCAAAGGTGATTGAAAACGCG
Found at i:20857251 original size:14 final size:14
Alignment explanation
Indices: 20857232--20857261 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
20857222 ATTCAACAGA
20857232 ACTAAAATGATTAT
1 ACTAAAATGATTAT
*
20857246 ACTAAAGTGATTAT
1 ACTAAAATGATTAT
20857260 AC
1 AC
20857262 ATGCTAAATA
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:0.10, G:0.10, T:0.33
Consensus pattern (14 bp):
ACTAAAATGATTAT
Found at i:20858923 original size:38 final size:38
Alignment explanation
Indices: 20858881--20858955 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 38
20858871 CAATACACAA
20858881 CATGTAATTCACTTACCAAAACTTACCAATTGTACATG
1 CATGTAATTCACTTACCAAAACTTACCAATTGTACATG
*
20858919 CATGTAATTCACTTGCCAAAACTTACCAATTGTACAT
1 CATGTAATTCACTTACCAAAACTTACCAATTGTACAT
20858956 CTAATCAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (38 bp):
CATGTAATTCACTTACCAAAACTTACCAATTGTACATG
Found at i:20859876 original size:25 final size:25
Alignment explanation
Indices: 20859742--20859869 Score: 136
Period size: 25 Copynumber: 5.2 Consensus size: 25
20859732 GTACATGTAT
* ** *
20859742 GCTCATACAAGCTCTGAATCGGTAT
1 GCTCATACGAGCTGAGAATCGGTAA
* *
20859767 GCTCTTACGAGCT-ATAATCGGTAA
1 GCTCATACGAGCTGAGAATCGGTAA
20859791 GCTCATACGAGCTGAGTAAT-GGTAA
1 GCTCATACGAGCTGAG-AATCGGTAA
* * *
20859816 GCTCATGCGAGTTGA-ATAACGGTAA
1 GCTCATACGAGCTGAGA-ATCGGTAA
20859841 GCTCATACGAGCTGAGAATCGGTAA
1 GCTCATACGAGCTGAGAATCGGTAA
20859866 GCTC
1 GCTC
20859870 TCACGAGTTG
Statistics
Matches: 85, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
23 1 0.01
24 21 0.25
25 59 0.69
26 4 0.05
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (25 bp):
GCTCATACGAGCTGAGAATCGGTAA
Found at i:20859877 original size:50 final size:50
Alignment explanation
Indices: 20859742--20859881 Score: 162
Period size: 50 Copynumber: 2.8 Consensus size: 50
20859732 GTACATGTAT
* ** * *
20859742 GCTCATACAAGCTCTGAATCGGTATGCTCTTACGAGCT--ATAATCGGTAA
1 GCTCATACGAGCTGAGAATCGGTAAGCTC-TACGAGTTGAATAATCGGTAA
*
20859791 GCTCATACGAGCTGAGTAAT-GGTAAGCTCATGCGAGTTGAATAA-CGGTAA
1 GCTCATACGAGCTGAG-AATCGGTAAGCTC-TACGAGTTGAATAATCGGTAA
20859841 GCTCATACGAGCTGAGAATCGGTAAGCTCTCACGAGTTGAA
1 GCTCATACGAGCTGAGAATCGGTAAGCTCT-ACGAGTTGAA
20859882 ATTGGTAACC
Statistics
Matches: 78, Mismatches: 8, Indels: 9
0.82 0.08 0.09
Matches are distributed among these distances:
49 31 0.40
50 43 0.55
51 4 0.05
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (50 bp):
GCTCATACGAGCTGAGAATCGGTAAGCTCTACGAGTTGAATAATCGGTAA
Found at i:20876608 original size:25 final size:25
Alignment explanation
Indices: 20876566--20876660 Score: 113
Period size: 25 Copynumber: 3.8 Consensus size: 25
20876556 TATGCTCACA
*
20876566 TGAGCTGTA-AACGGTAAGCTCCTC
1 TGAGCTGAATAACGGTAAGCTCCTC
*
20876590 TAAGCTGAATAACGGTAAGCTCCT-
1 TGAGCTGAATAACGGTAAGCTCCTC
*
20876614 TCGAGCTGAATAACGCTAAGCTCCTC
1 T-GAGCTGAATAACGGTAAGCTCCTC
* * *
20876640 CGAGTTGAATAATGGTAAGCT
1 TGAGCTGAATAACGGTAAGCT
20876661 TACACAAGCT
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
24 8 0.13
25 52 0.87
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.25
Consensus pattern (25 bp):
TGAGCTGAATAACGGTAAGCTCCTC
Found at i:20887082 original size:30 final size:29
Alignment explanation
Indices: 20887048--20887128 Score: 125
Period size: 25 Copynumber: 2.9 Consensus size: 29
20887038 CTAATATATC
20887048 GATACCCATATCTTTGACTTTCCAATATTT
1 GATACCCATATCTTTGACTTTCC-ATATTT
20887078 GATACCCATATCTTTGAC-TT---TATTT
1 GATACCCATATCTTTGACTTTCCATATTT
20887103 GATACCCATATCTTTGACTTTCCATA
1 GATACCCATATCTTTGACTTTCCATA
20887129 AATATGGATG
Statistics
Matches: 47, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
25 23 0.49
26 2 0.04
29 4 0.09
30 18 0.38
ACGTcount: A:0.26, C:0.23, G:0.07, T:0.43
Consensus pattern (29 bp):
GATACCCATATCTTTGACTTTCCATATTT
Found at i:20887093 original size:15 final size:15
Alignment explanation
Indices: 20887048--20887094 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
20887038 CTAATATATC
20887048 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
20887063 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
20887078 GATACCCATATCTTT
1 GATACCCATATCTTT
20887093 GA
1 GA
20887095 CTTTATTTGA
Statistics
Matches: 24, Mismatches: 6, Indels: 4
0.71 0.18 0.12
Matches are distributed among these distances:
14 4 0.17
15 16 0.67
16 4 0.17
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:20891757 original size:30 final size:29
Alignment explanation
Indices: 20891707--20891792 Score: 108
Period size: 25 Copynumber: 3.0 Consensus size: 29
20891697 ATTTCTTATG
*
20891707 TCAATATCTCGATACCCATATCTTTGACTT
1 TCAATAT-TTGATACCCATATCTTTGACTT
*
20891737 TCCAATATTTGATACTCATATCTTTGAC-T
1 T-CAATATTTGATACCCATATCTTTGACTT
20891766 T---TATTTGATACCCATATCTTTGACTT
1 TCAATATTTGATACCCATATCTTTGACTT
20891792 T
1 T
20891793 TCATAAATAT
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
25 22 0.43
26 2 0.04
29 2 0.04
30 19 0.37
31 6 0.12
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.45
Consensus pattern (29 bp):
TCAATATTTGATACCCATATCTTTGACTT
Found at i:20892464 original size:137 final size:139
Alignment explanation
Indices: 20892263--20892596 Score: 507
Period size: 139 Copynumber: 2.4 Consensus size: 139
20892253 GAGAACATAT
* *
20892263 ATATAATTAATATATGAATTT-ATTAATATATACAAAATATTAATTGTATATATTTTA-TTGAAT
1 ATATAATTAATATATGAATTTGA-T--T-CATACAAAATATTAATTGTATATATTTTACCTGAAT
* *
20892326 TTATTAACATAAACAGTTATATTATTTAATTTCGGTCA-AA-ATATAAGACATGAAAATTAATAT
62 TTATTAACATAAACAGTTATATTAATTAATTTCGGTCAGAATATAAAAGACATGAAAATTAATAT
*
20892389 TTTTTTAGAAAGA
127 TCTTTTAGAAAGA
20892402 ATATAATTAATATATGAATTTGATTCATACGAAAATATTAATTGTATATATTTTACCT-AATTTA
1 ATATAATTAATATATGAATTTGATTCATAC-AAAATATTAATTGTATATATTTTACCTGAATTTA
*
20892466 TTAATATAAACAGTTATATTAATTAATTTCGGTCAGAATATAAAAGACATGAAAATTAATATTCT
65 TTAACATAAACAGTTATATTAATTAATTTCGGTCAGAATATAAAAGACATGAAAATTAATATTCT
* *
20892531 TTTGGAAATA
130 TTTAGAAAGA
*
20892541 ATATAATTAATATATGAATTTGATTCATACAAAATATTATTTGTATATATTTTACC
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACC
20892597 AGGAAATTAA
Statistics
Matches: 181, Mismatches: 9, Indels: 11
0.90 0.04 0.05
Matches are distributed among these distances:
136 4 0.02
137 64 0.35
138 28 0.15
139 84 0.46
140 1 0.01
ACGTcount: A:0.44, C:0.06, G:0.07, T:0.43
Consensus pattern (139 bp):
ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCTGAATTTAT
TAACATAAACAGTTATATTAATTAATTTCGGTCAGAATATAAAAGACATGAAAATTAATATTCTT
TTAGAAAGA
Found at i:20892672 original size:82 final size:82
Alignment explanation
Indices: 20892518--20892675 Score: 280
Period size: 82 Copynumber: 1.9 Consensus size: 82
20892508 AAAGACATGA
* *
20892518 AAATTAATATTCTTTTGGAAATAATATAATTAATATATGAATTTGATTCATACAAAATATTATTT
1 AAATTAATATTCTTTTGGAAAGAATATAATTAATATATGAATTTGATTCATACAAAATATTAATT
20892583 GTATATATTTTACCAGG
66 GTATATATTTTACCAGG
* *
20892600 AAATTAATATTCTTTTGGAAAGAATATAATTAATATTTGAATTTGATTCATACAAATTATTAATT
1 AAATTAATATTCTTTTGGAAAGAATATAATTAATATATGAATTTGATTCATACAAAATATTAATT
20892665 GTATATATTTT
66 GTATATATTTT
20892676 TCCGAATTTA
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 72 1.00
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.46
Consensus pattern (82 bp):
AAATTAATATTCTTTTGGAAAGAATATAATTAATATATGAATTTGATTCATACAAAATATTAATT
GTATATATTTTACCAGG
Found at i:20892762 original size:220 final size:220
Alignment explanation
Indices: 20892379--20892988 Score: 1049
Period size: 220 Copynumber: 2.8 Consensus size: 220
20892369 TAAGACATGA
* * * *
20892379 AAATTAATATTTTTTTAGAAAGAATATAATTAATATATGAATTTGATTCATACGAAAATATTAAT
1 AAATTAATATTCTTTTGGAAAGAATATAATTAATATTTGAATTTGATTCATAC-AAATTATTAAT
* *
20892444 TGTATATATTTTACCTAATTTATTAATATAAACAGTTATATTAATTAATTTCGGTCAGAATATAA
65 TGTATATATTTTACCTAATTTAGTAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAA
*
20892509 AAGACATGAAAATTAATATTCTTTTGGAAATAATATAATTAATATATGAATTTGATTCATACAAA
130 AAGACATGAAAATTAATATTCTTTTGGAAATAATATAATTAAGATATGAATTTGATTCATACAAA
20892574 ATATTATTTGTATATATTTTACCAGG
195 ATATTATTTGTATATATTTTACCAGG
20892600 AAATTAATATTCTTTTGGAAAGAATATAATTAATATTTGAATTTGATTCATACAAATTATTAATT
1 AAATTAATATTCTTTTGGAAAGAATATAATTAATATTTGAATTTGATTCATACAAATTATTAATT
* *
20892665 GTATATATTTTTCCGAATTTAGTAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAA
66 GTATATATTTTACCTAATTTAGTAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAA
*
20892730 AGACATTAAAATTAATATTCTTTTGGAAATAATATAATTAAGATATGAATTTGATTCATACAAAA
131 AGACATGAAAATTAATATTCTTTTGGAAATAATATAATTAAGATATGAATTTGATTCATACAAAA
* *
20892795 TATTATTTGTATGTATTTTACCGGG
196 TATTATTTGTATATATTTTACCAGG
*
20892820 AAATTAATATTCTTTTGGAAAGAATATAATTAATATTTGAACTTGATTCATACAAATTATTAATT
1 AAATTAATATTCTTTTGGAAAGAATATAATTAATATTTGAATTTGATTCATACAAATTATTAATT
* * *
20892885 GTATATATTTTACCTAATTTAGTAATATAAATAGTTATATTAATTAATTTTGGTTAAAATATAAA
66 GTATATATTTTACCTAATTTAGTAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAA
* *
20892950 AGACATGGAAATTAATATTCTTTTGGAAAGAATATAATT
131 AGACATGAAAATTAATATTCTTTTGGAAATAATATAATT
20892989 TATTTTTCTA
Statistics
Matches: 368, Mismatches: 21, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
220 318 0.86
221 50 0.14
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.42
Consensus pattern (220 bp):
AAATTAATATTCTTTTGGAAAGAATATAATTAATATTTGAATTTGATTCATACAAATTATTAATT
GTATATATTTTACCTAATTTAGTAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAA
AGACATGAAAATTAATATTCTTTTGGAAATAATATAATTAAGATATGAATTTGATTCATACAAAA
TATTATTTGTATATATTTTACCAGG
Found at i:20892875 original size:82 final size:82
Alignment explanation
Indices: 20892738--20892898 Score: 259
Period size: 82 Copynumber: 2.0 Consensus size: 82
20892728 AAAGACATTA
* * *
20892738 AAATTAATATTCTTTTGGAAATAATATAATTAAGATATGAATTTGATTCATACAAAATATTATTT
1 AAATTAATATTCTTTTGGAAAGAATATAATTAAGATATGAACTTGATTCATACAAAATATTAATT
*
20892803 GTATGTATTTTACCGGG
66 GTATATATTTTACCGGG
* * *
20892820 AAATTAATATTCTTTTGGAAAGAATATAATTAATATTTGAACTTGATTCATACAAATTATTAATT
1 AAATTAATATTCTTTTGGAAAGAATATAATTAAGATATGAACTTGATTCATACAAAATATTAATT
20892885 GTATATATTTTACC
66 GTATATATTTTACC
20892899 TAATTTAGTA
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 72 1.00
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (82 bp):
AAATTAATATTCTTTTGGAAAGAATATAATTAAGATATGAACTTGATTCATACAAAATATTAATT
GTATATATTTTACCGGG
Found at i:20897041 original size:101 final size:101
Alignment explanation
Indices: 20896866--20897072 Score: 351
Period size: 101 Copynumber: 2.0 Consensus size: 101
20896856 AAAGTCCATA
* * **
20896866 AAATTTAATAAAAAATCATTTAAACCATATTGTGAGAGTATGATCAATTTGTGTTCCCGAACACC
1 AAATTTAATAAAAAATCATTTAAACCATATTATGAGAGTATGACCAATCCGTGTTCCCGAACACC
20896931 GCCCCAATCCTAAGTCCACGAATTACCTGAAATGAT
66 GCCCCAATCCTAAGTCCACGAATTACCTGAAATGAT
*
20896967 AAATTTAATAAAAAATCATTTAAACCATATTATGATAGTATGACCAATCCGTGTTCCCGAACACC
1 AAATTTAATAAAAAATCATTTAAACCATATTATGAGAGTATGACCAATCCGTGTTCCCGAACACC
* *
20897032 GCCCCAATCCTAAGTCCATGATTTACCTGAAATGAT
66 GCCCCAATCCTAAGTCCACGAATTACCTGAAATGAT
20897068 AAATT
1 AAATT
20897073 AGTATGGTGA
Statistics
Matches: 99, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
101 99 1.00
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.29
Consensus pattern (101 bp):
AAATTTAATAAAAAATCATTTAAACCATATTATGAGAGTATGACCAATCCGTGTTCCCGAACACC
GCCCCAATCCTAAGTCCACGAATTACCTGAAATGAT
Done.