Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 91 of 444
Found at i:21763445 original size:86 final size:85
Alignment explanation
Indices: 21763330--21763924 Score: 311
Period size: 86 Copynumber: 6.9 Consensus size: 85
21763320 TGAAGATTTA
* * *
21763330 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCG
1 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAA-GATCTTAAACCCCTAAGCA
*
21763395 GTAGGGTAACAGACCAAATTG
65 GTAGGGAAACAGACCAAATTG
* * * *
21763416 CAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGATCTTAACCCCCTAAGCAG
1 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGATCTTAAACCCCTAAGCAG
* *
21763481 TAGGGAAACAGATCAAAGATG
66 TAGGGAAACAGACCAAA-TTG
** * * * * *
21763502 -ATGGGCTTTAACCCCCTAAGCAGTAGGGTAACA-AGCCAA-ATCTGCAAGCT-TTAACCCCCTA
1 CA-GATC-TTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGA-C-G-AAGATCTTAAACCCCTA
* * *
21763563 AGCAGTAGGGTAACA-AGCCAGATTTA
61 AGCAGTAGGGAAACAGA-CCA-AATTG
* * * * * * * * ** *
21763589 CAGACCTTAACCCCCTAGGTAGTAGGGTAATAGGTTGAAAATTACAGATCTT--GCCTCCTTGAA
1 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGA-AGATCTTAAACC-CC-T-AA
* * **
21763652 TGCAGT---GAAGCAGATTCAAACTAC
62 -GCAGTAGGGAAACAGA-CCAAA-TTG
* * * * * * *
21763676 CA-AGCTTTAACCCCCTAAGCAGAAGGGTAACA-AGCTGATGTTC-ATAGGGTCTTAAACCCCTA
1 CAGATC-TTAACCCCCTAAGCAGTAGGGAAACAGATC-GAAG-ACGA-A-GATCTTAAACCCCTA
21763738 AGCAGTAGGGAAACAGACCAAATTG
61 AGCAGTAGGGAAACAGACCAAATTG
* * *** *
21763763 CAGATCTTATCTCCCTAAGCAGTAGTGG-TGTAGATCGAAGACGAAGAACCTTAAACCCCTAAGC
1 CAGATCTTAACCCCCTAAGCAGTAG-GGAAACAGATCGAAGACGAAG-ATCTTAAACCCCTAAGC
* ***
21763827 AGTAGGGTAACAGGTTAAATTG
64 AGTAGGGAAACAGACCAAATTG
* * * * * * * *
21763849 CAGATCTTATCTCCTTAAGCAGTAGTGG-AGCAGATCGAAGACGCAGAACCTTAAGCCCCTAAGT
1 CAGATCTTAACCCCCTAAGCAGTAG-GGAAACAGATCGAAGACGAAG-ATCTTAAACCCCTAAGC
*
21763913 AGTAGGGTAACA
64 AGTAGGGAAACA
21763925 AGTTGAGTAT
Statistics
Matches: 391, Mismatches: 85, Indels: 66
0.72 0.16 0.12
Matches are distributed among these distances:
85 37 0.09
86 196 0.50
87 117 0.30
88 25 0.06
89 14 0.04
90 2 0.01
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (85 bp):
CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGATCTTAAACCCCTAAGCAG
TAGGGAAACAGACCAAATTG
Found at i:21763475 original size:43 final size:43
Alignment explanation
Indices: 21763331--21763577 Score: 234
Period size: 43 Copynumber: 5.7 Consensus size: 43
21763321 GAAGATTTAC
* *
21763331 AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGA
1 AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCCAAGATGA
* * * * * *
21763374 AGGGTCTTAAACCCCTAATCGGTAGGGTAACAGA-CCAA-ATTGC
1 A-GATCTTAACCCCCTAAGCAGTAGGGAAACAGATCCAAGA-TGA
* * *
21763417 AGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGA
1 AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCCAAGATGA
*
21763460 AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGATGA
1 AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCCAAGATGA
* ** * *
21763503 TGGGCTTTAACCCCCTAAGCAGTAGGGTAACA-AGCCAA-ATCTGCA
1 AGATC-TTAACCCCCTAAGCAGTAGGGAAACAGATCCAAGA--TG-A
* *
21763548 AGCT-TTAACCCCCTAAGCAGTAGGGTAACA
1 AGATCTTAACCCCCTAAGCAGTAGGGAAACA
21763578 AGCCAGATTT
Statistics
Matches: 167, Mismatches: 29, Indels: 16
0.79 0.14 0.08
Matches are distributed among these distances:
42 27 0.16
43 83 0.50
44 55 0.33
45 2 0.01
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.19
Consensus pattern (43 bp):
AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCCAAGATGA
Found at i:21763528 original size:129 final size:131
Alignment explanation
Indices: 21763290--21763615 Score: 371
Period size: 129 Copynumber: 2.5 Consensus size: 131
21763280 ATTCATAAGC
* * *
21763290 CTTACCTCCCTAAGCAGTAGGGTAATAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAG
1 CTTAACTCCCTAAGCAGTAGGGTAACAGGCTGAAGATTGACAGATCTTAACCCCCTAAGCAGTAG
* * *
21763355 GGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAAC-AGACCAAAT-TGCA
66 GGAAACAGATCAAAGACGAAGGGTCTTAAACCCCTAAGCAGTAGGGTAACAAG-CCAAATCTGCA
*
21763418 GAT
130 -AG
* * *
21763421 CTTATCTCCCTAAGCAGTAGGGAAACA-GATCGAAGA-TGA-AGATCTTAACCCCCTAAGCAGTA
1 CTTAACTCCCTAAGCAGTAGGGTAACAGGCT-GAAGATTGACAGATCTTAACCCCCTAAGCAGTA
* * *
21763483 GGGAAACAGATCAAAGATGATGGG-CTTTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATCTGC
65 GGGAAACAGATCAAAGACGAAGGGTC-TTAAACCCCTAAGCAGTAGGGTAACAAGCCAAATCTGC
21763547 AAG
129 AAG
* * * * * * *
21763550 CTTTAACCCCCTAAGCAGTAGGGTAACAAGC--CAGATTTACAGACCTTAACCCCCTAGGTAGTA
1 C-TTAACTCCCTAAGCAGTAGGGTAACAGGCTGAAGATTGACAGATCTTAACCCCCTAAGCAGTA
21763613 GGG
65 GGG
21763616 TAATAGGTTG
Statistics
Matches: 166, Mismatches: 21, Indels: 17
0.81 0.10 0.08
Matches are distributed among these distances:
128 4 0.02
129 76 0.46
130 56 0.34
131 30 0.18
ACGTcount: A:0.34, C:0.23, G:0.22, T:0.20
Consensus pattern (131 bp):
CTTAACTCCCTAAGCAGTAGGGTAACAGGCTGAAGATTGACAGATCTTAACCCCCTAAGCAGTAG
GGAAACAGATCAAAGACGAAGGGTCTTAAACCCCTAAGCAGTAGGGTAACAAGCCAAATCTGCAA
G
Found at i:21763578 original size:43 final size:42
Alignment explanation
Indices: 21763506--21763618 Score: 154
Period size: 43 Copynumber: 2.6 Consensus size: 42
21763496 AAGATGATGG
*
21763506 GCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATCTGCAA
1 GCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATCTAC-A
* *
21763549 GCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCAGATTTACA
1 GCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATCTACA
* * *
21763591 GACCTTAACCCCCTAGGTAGTAGGGTAA
1 G-CTTTAACCCCCTAAGCAGTAGGGTAA
21763619 TAGGTTGAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
42 2 0.03
43 61 0.97
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (42 bp):
GCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATCTACA
Found at i:21763954 original size:86 final size:83
Alignment explanation
Indices: 21763726--21764010 Score: 250
Period size: 86 Copynumber: 3.3 Consensus size: 83
21763716 TTCATAGGGT
* ** * **
21763726 CTTAAACCCCTAAGCAGTAGGGAAAC-AGACCAAATTGCAGATCTTATCTCCCTAAGCAGTAGTG
1 CTTAAACCCCTAAGCAGTAGGGTAACAAG-TTAAATTACAGATC-TA-AACCCTAAGCAGTAGTG
* *
21763790 GTGTAGATCGAAGACGAAGAAC
63 GAGCAGATCGAAGACG-AGAAC
* * * *
21763812 CTTAAACCCCTAAGCAGTAGGGTAACAGGTTAAATTGCAGATCTTATCTCCTTAAGCAGTAGTGG
1 CTTAAACCCCTAAGCAGTAGGGTAACAAGTTAAATTACAGATCTAAAC-CC-TAAGCAGTAGTGG
21763877 AGCAGATCGAAGACGCAGAAC
64 AGCAGATCGAAGACG-AGAAC
* * * * *
21763898 CTTAAGCCCCTAAGTAGTAGGGTAACAAGTTGAGTATACATATCTAAAACCCTAAGCAGTAG-GG
1 CTTAAACCCCTAAGCAGTAGGGTAACAAGTTAAAT-TACAGATCT-AAACCCTAAGCAGTAGTGG
* * * *
21763962 AAACAGATCAAAGATGACGAGC
64 -AGCAGATCGAAGACGA-GAAC
* *
21763984 CTTAATCCCTTAAGCAGTAGGGTAACA
1 CTTAAACCCCTAAGCAGTAGGGTAACA
21764011 GGCTGAAAAT
Statistics
Matches: 167, Mismatches: 25, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
84 2 0.01
85 6 0.04
86 147 0.88
87 10 0.06
88 2 0.01
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (83 bp):
CTTAAACCCCTAAGCAGTAGGGTAACAAGTTAAATTACAGATCTAAACCCTAAGCAGTAGTGGAG
CAGATCGAAGACGAGAAC
Found at i:21764514 original size:34 final size:34
Alignment explanation
Indices: 21764471--21764537 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
21764461 GAACCCTAGC
21764471 CGCCAGCATGTGCTCCCCTCTGCTCCACCACCGA
1 CGCCAGCATGTGCTCCCCTCTGCTCCACCACCGA
*
21764505 CGCCAGCATGTGTTCCCCTCTGCTCCACCACCG
1 CGCCAGCATGTGCTCCCCTCTGCTCCACCACCG
21764538 TTTACCTGCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.13, C:0.49, G:0.18, T:0.19
Consensus pattern (34 bp):
CGCCAGCATGTGCTCCCCTCTGCTCCACCACCGA
Found at i:21766969 original size:74 final size:74
Alignment explanation
Indices: 21766886--21767030 Score: 290
Period size: 74 Copynumber: 2.0 Consensus size: 74
21766876 AAAGGATCGG
21766886 TGGCGACTCCCGTTCTTTTATTTTCAAAAATCCAGGTCGATTCCCGTTTTTTCAAAAAAATGGTT
1 TGGCGACTCCCGTTCTTTTATTTTCAAAAATCCAGGTCGATTCCCGTTTTTTCAAAAAAATGGTT
21766951 ACGACAGCT
66 ACGACAGCT
21766960 TGGCGACTCCCGTTCTTTTATTTTCAAAAATCCAGGTCGATTCCCGTTTTTTCAAAAAAATGGTT
1 TGGCGACTCCCGTTCTTTTATTTTCAAAAATCCAGGTCGATTCCCGTTTTTTCAAAAAAATGGTT
21767025 ACGACA
66 ACGACA
21767031 TTTATAATTC
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 71 1.00
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (74 bp):
TGGCGACTCCCGTTCTTTTATTTTCAAAAATCCAGGTCGATTCCCGTTTTTTCAAAAAAATGGTT
ACGACAGCT
Found at i:21771702 original size:16 final size:16
Alignment explanation
Indices: 21771683--21771713 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21771673 ATAAAAAATA
21771683 ATATAAAATTTATAAT
1 ATATAAAATTTATAAT
*
21771699 ATATAACATTTATAA
1 ATATAAAATTTATAA
21771714 ATAAGGTTTT
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:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATAAAATTTATAAT
Found at i:21775676 original size:22 final size:22
Alignment explanation
Indices: 21775651--21775707 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 22
21775641 TTATTTTATT
* *
21775651 TTTGTTTTTAAAAATTTTAAAA
1 TTTGTTTTAAAAAATTGTAAAA
* * * *
21775673 TTTGATTTCAAATATTGTATAA
1 TTTGTTTTAAAAAATTGTAAAA
21775695 TTT-TTTTAAAAAA
1 TTTGTTTTAAAAAA
21775708 ATTCAAAGAA
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
21 7 0.26
22 20 0.74
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (22 bp):
TTTGTTTTAAAAAATTGTAAAA
Found at i:21780677 original size:96 final size:95
Alignment explanation
Indices: 21780451--21780872 Score: 508
Period size: 96 Copynumber: 4.4 Consensus size: 95
21780441 GAGTTGTAGA
* * ** * * * *
21780451 TTCAATCTACTCCGCTGTAACTTTAGGGAGGTAAGATTTGTAGCTTGTAGCTTTAGTCTATTCCA
1 TTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTATTCCA
* * * * *
21780516 CTCCAACTTCAAGCAAATAATATTCGCATC
66 CTACAACTTTAGGAAAATAAGATTCGCATC
* * * * *
21780546 TTCAATCTGCTCCACTACAACTTTAGGGATATAAGATTTGTAACTTATAGCTTTAATCTGTTCTA
1 TTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTATTCCA
* *
21780611 CTATAACTTTAGGAAAATAAGATTCACTATC
66 CTACAACTTTAGGAAAATAAGATTCGC-ATC
* * * * *
21780642 TTCAATTTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTCCCA
1 TTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTATTCCA
*
21780707 CTACAACTTTAAGG-AAATAAGATTCGCTATT
66 CTACAACTTT-AGGAAAATAAGATTCGC-ATC
*
21780738 TTCAATCTGCTCCACTACAACTTTAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTATTCCA
1 TTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTATTCCA
*
21780803 CTATAACTTTAGGGAAAA-AA-ATTCGCATC
66 CTACAACTTTA-GGAAAATAAGATTCGCATC
* * *
21780832 TTCAATCTACTTCACTGCAACTTCAGGGAGATAAGATTTGT
1 TTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGT
21780873 GGTTTTAATC
Statistics
Matches: 282, Mismatches: 41, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
94 39 0.14
95 81 0.29
96 156 0.55
97 6 0.02
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (95 bp):
TTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTATTCCA
CTACAACTTTAGGAAAATAAGATTCGCATC
Found at i:21780679 original size:45 final size:45
Alignment explanation
Indices: 21780512--21780775 Score: 165
Period size: 45 Copynumber: 5.6 Consensus size: 45
21780502 TTTAGTCTAT
* * * * * *
21780512 TCCACTCCAACTTCAAGCAAATAATATTCGC-ATCTTCAATCTGC
1 TCCACTACAACTTTAAGGAGATAAGATTCACTATCTTCAATCTGC
* * * * *
21780556 TCCACTACAACTTTAGGGATATAAGATTTGTAACTTATAGCTTTAATCTGT
1 TCCACTACAACTTTAAGGAGATAAGA--T-TCAC-TAT--CTTCAATCTGC
* * * *
21780607 TCTACTATAACTTT-AGGAAAATAAGATTCACTATCTTCAATTTGC
1 TCCACTACAACTTTAAGG-AGATAAGATTCACTATCTTCAATCTGC
* * * * *
21780652 TCCACTGCAACTTCAAGGAGATAAGATTTGTAACTTGTAGCTTTAATCTG-
1 TCCACTACAACTTTAAGGAGATAAGA--T-TCAC---TATCTTCAATCTGC
* * *
21780702 TCCCACTACAACTTTAAGGAAATAAGATTCGCTATTTTCAATCTGC
1 T-CCACTACAACTTTAAGGAGATAAGATTCACTATCTTCAATCTGC
*
21780748 TCCACTACAACTTTAGGGAGATAAGATT
1 TCCACTACAACTTTAAGGAGATAAGATT
21780776 TGTAACTTGT
Statistics
Matches: 166, Mismatches: 37, Indels: 33
0.70 0.16 0.14
Matches are distributed among these distances:
44 20 0.12
45 60 0.36
46 5 0.03
47 6 0.04
48 8 0.05
49 4 0.02
50 3 0.02
51 60 0.36
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (45 bp):
TCCACTACAACTTTAAGGAGATAAGATTCACTATCTTCAATCTGC
Found at i:21780808 original size:192 final size:189
Alignment explanation
Indices: 21780451--21780872 Score: 594
Period size: 191 Copynumber: 2.2 Consensus size: 189
21780441 GAGTTGTAGA
* * * * * * * *
21780451 TTCAATCTACTCCGCTGTAACTTTAGGGAGGTAAGATTTGTAGCTTGTAGCTTTAGTCTATTCCA
1 TTCAATCTACTCCACTGCAACTTCAAGGAGATAAGATTTGTAACTTGTAGCTTTAATCTATCCCA
* * *
21780516 CTCCAACTTCAAGCAAATAATATTCGCATCTTCAATCTGCTCCACTACAACTTTAGGGATATAAG
66 CTACAACTTCAAGCAAATAAGATTCGCATCTTCAATCTGCTCCACTACAACTTTAGGGAGATAAG
* *
21780581 ATTTGTAACTTATAGCTTTAATCTGTTCTACTATAACTTTA-GGAAAATAAGATTCACTATC
131 ATTTGTAACTTATAGCTTTAATCTATTCCACTATAACTTTAGGGAAAA-AA-ATTCAC-ATC
* * *
21780642 TTCAATTTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTCCCA
1 TTCAATCTACTCCACTGCAACTTCAAGGAGATAAGATTTGTAACTTGTAGCTTTAATCTATCCCA
* * *
21780707 CTACAACTTTAAGGAAATAAGATTCGCTATTTTCAATCTGCTCCACTACAACTTTAGGGAGATAA
66 CTACAACTTCAAGCAAATAAGATTCGC-ATCTTCAATCTGCTCCACTACAACTTTAGGGAGATAA
* *
21780772 GATTTGTAACTTGTAGCTTTAATCTATTCCACTATAACTTTAGGGAAAAAAATTCGCATC
130 GATTTGTAACTTATAGCTTTAATCTATTCCACTATAACTTTAGGGAAAAAAATTCACATC
* *
21780832 TTCAATCTACTTCACTGCAACTTCAGGGAGATAAGATTTGT
1 TTCAATCTACTCCACTGCAACTTCAAGGAGATAAGATTTGT
21780873 GGTTTTAATC
Statistics
Matches: 204, Mismatches: 25, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
190 40 0.20
191 82 0.40
192 76 0.37
193 6 0.03
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (189 bp):
TTCAATCTACTCCACTGCAACTTCAAGGAGATAAGATTTGTAACTTGTAGCTTTAATCTATCCCA
CTACAACTTCAAGCAAATAAGATTCGCATCTTCAATCTGCTCCACTACAACTTTAGGGAGATAAG
ATTTGTAACTTATAGCTTTAATCTATTCCACTATAACTTTAGGGAAAAAAATTCACATC
Found at i:21780817 original size:51 final size:50
Alignment explanation
Indices: 21780549--21780819 Score: 231
Period size: 51 Copynumber: 5.6 Consensus size: 50
21780539 TCGCATCTTC
* *
21780549 AATCTGCTCCACTACAACTTTAGGGATATAAGATTTGTAACTTATAGCTTT
1 AATCTGTTCCACTACAACTTTAGGGAAATAAGATTTGTAACTT-TAGCTTT
* * * * * *
21780600 AATCTGTTCTACTATAACTTTAGGAAAATAAGA--T-TCAC--TATCTTC
1 AATCTGTTCCACTACAACTTTAGGGAAATAAGATTTGTAACTTTAGCTTT
* * * * * *
21780645 AATTTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAACTTGTAGCTTT
1 AATCTGTTCCACTACAACTTTAGGGAAATAAGATTTGTAACTT-TAGCTTT
* * * *
21780696 AATCTGTCCCACTACAACTTTAAGGAAATAAGATTCG---CTATT---TTC
1 AATCTGTTCCACTACAACTTTAGGGAAATAAGATTTGTAACT-TTAGCTTT
* *
21780741 AATCTGCTCCACTACAACTTTAGGGAGATAAGATTTGTAACTTGTAGCTTT
1 AATCTGTTCCACTACAACTTTAGGGAAATAAGATTTGTAACTT-TAGCTTT
* *
21780792 AATCTATTCCACTATAACTTTAGGGAAA
1 AATCTGTTCCACTACAACTTTAGGGAAA
21780820 AAAATTCGCA
Statistics
Matches: 168, Mismatches: 38, Indels: 28
0.72 0.16 0.12
Matches are distributed among these distances:
45 63 0.38
47 2 0.01
48 12 0.07
49 2 0.01
51 89 0.53
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.35
Consensus pattern (50 bp):
AATCTGTTCCACTACAACTTTAGGGAAATAAGATTTGTAACTTTAGCTTT
Found at i:21798535 original size:27 final size:27
Alignment explanation
Indices: 21798505--21798565 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
21798495 GGGCAAAATG
21798505 GTAATTTTACCCCACAAGGGTATTTCA
1 GTAATTTTACCCCACAAGGGTATTTCA
* * *
21798532 GTAATTTTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCCACAAGGGTATTTCA
21798559 GTAATTT
1 GTAATTT
21798566 GTCAAACCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.39
Consensus pattern (27 bp):
GTAATTTTACCCCACAAGGGTATTTCA
Found at i:21798580 original size:54 final size:54
Alignment explanation
Indices: 21798522--21798672 Score: 144
Period size: 54 Copynumber: 2.8 Consensus size: 54
21798512 TACCCCACAA
** * *
21798522 GGGTATTTCAGTAATTTTACCCTAC-AGGGGTATTTTAGTAATTTGT-CAAACCAT
1 GGGTATTTCAGTAATTTTA-CAAACAAAGGGTATTTTAGTAATTT-TACAAACCAG
** * *
21798576 GGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
** * * * *
21798630 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATT
1 GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATT
21798673 CTGTAAATTG
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
53 3 0.04
54 81 0.96
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.41
Consensus pattern (54 bp):
GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:21798638 original size:81 final size:81
Alignment explanation
Indices: 21798520--21798672 Score: 211
Period size: 81 Copynumber: 1.9 Consensus size: 81
21798510 TTTACCCCAC
** *
21798520 AAGGGTATTTCAGTAATTTTACCCTACAGGGGTATTTTAGTAATTTGT-CAAACCATGGGTATTT
1 AAGGGTATTTCAGTAATTTTACCAAACAGGGGTATTTTAGTAATTT-TACAAACCAAGGGTATTT
21798584 TGGTAATTTTATAAACA
65 TGGTAATTTTATAAACA
* * * *
21798601 AAGGGTATTTTAGTAATTTTA-CAAACTAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTT
1 AAGGGTATTTCAGTAATTTTACCAAAC-AGGGGTATTTTAGTAATTTTACAAACCAAGGGTATTT
21798665 TGGTAATT
65 TGGTAATT
21798673 CTGTAAATTG
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
80 4 0.06
81 59 0.94
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (81 bp):
AAGGGTATTTCAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTT
GGTAATTTTATAAACA
Found at i:21798679 original size:27 final size:27
Alignment explanation
Indices: 21798549--21798672 Score: 151
Period size: 27 Copynumber: 4.6 Consensus size: 27
21798539 TACCCTACAG
* * *
21798549 GGGTATTTTAGTAATTTGT-CAAACCAT
1 GGGTATTTTGGTAATTT-TATAAACCAA
*
21798576 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * * *
21798603 GGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAA
*
21798630 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
21798657 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
21798673 CTGTAAATTG
Statistics
Matches: 82, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
26 1 0.01
27 81 0.99
ACGTcount: A:0.31, C:0.06, G:0.21, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAA
Found at i:21798688 original size:54 final size:54
Alignment explanation
Indices: 21798549--21798674 Score: 173
Period size: 54 Copynumber: 2.3 Consensus size: 54
21798539 TACCCTACAG
* * *
21798549 GGGTATTTTAGTAATT-TGTCAAACCATGGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTAGTAATTCT-ACAAACTAGGGGTATTTTGGTAATTTTATAAACAAA
* * *
21798603 GGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTAGTAATTCTACAAACTAGGGGTATTTTGGTAATTTTATAAACAAA
*
21798657 GGGTATTTTGGTAATTCT
1 GGGTATTTTAGTAATTCT
21798675 GTAAATTGAG
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
54 63 0.98
55 1 0.02
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.42
Consensus pattern (54 bp):
GGGTATTTTAGTAATTCTACAAACTAGGGGTATTTTGGTAATTTTATAAACAAA
Found at i:21800454 original size:17 final size:17
Alignment explanation
Indices: 21800421--21800454 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
21800411 CATCAAATCC
*
21800421 TAATAGTTTATTACTTT
1 TAATAGTTTAGTACTTT
*
21800438 TAATAGTTTAGTCCTTT
1 TAATAGTTTAGTACTTT
21800455 AACATTAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.09, G:0.09, T:0.56
Consensus pattern (17 bp):
TAATAGTTTAGTACTTT
Found at i:21803148 original size:53 final size:53
Alignment explanation
Indices: 21803068--21803175 Score: 216
Period size: 53 Copynumber: 2.0 Consensus size: 53
21803058 TTAACAAATG
21803068 TAAGTGGAATCTTCCATAATCAAGCACTAATTCATATTACAAAATGGTTTAAT
1 TAAGTGGAATCTTCCATAATCAAGCACTAATTCATATTACAAAATGGTTTAAT
21803121 TAAGTGGAATCTTCCATAATCAAGCACTAATTCATATTACAAAATGGTTTAAT
1 TAAGTGGAATCTTCCATAATCAAGCACTAATTCATATTACAAAATGGTTTAAT
21803174 TA
1 TA
21803176 CTATTTTGGA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34
Consensus pattern (53 bp):
TAAGTGGAATCTTCCATAATCAAGCACTAATTCATATTACAAAATGGTTTAAT
Found at i:21805178 original size:15 final size:15
Alignment explanation
Indices: 21805158--21805196 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
21805148 ATAACCTTTA
*
21805158 TTAATAAATTTAATT
1 TTAATAAATATAATT
*
21805173 TTAATAAATATATTT
1 TTAATAAATATAATT
21805188 TTAAGTAAA
1 TTAA-TAAA
21805197 AAATAATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (15 bp):
TTAATAAATATAATT
Found at i:21807483 original size:2 final size:2
Alignment explanation
Indices: 21807476--21807512 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
21807466 CCTCAAGGGC
* *
21807476 AT AT AT AT AT AT AT AG AT AT AT AT AT AT AT AT CT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
21807513 CAATAATAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:21813858 original size:17 final size:17
Alignment explanation
Indices: 21813838--21813871 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
21813828 TATATTTATT
21813838 TTTA-TTAATTTAAATTA
1 TTTATTTAA-TTAAATTA
21813855 TTTATTTAATTAAATTA
1 TTTATTTAATTAAATTA
21813872 AATAAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTATTTAATTAAATTA
Found at i:21813859 original size:23 final size:24
Alignment explanation
Indices: 21813822--21813892 Score: 85
Period size: 23 Copynumber: 3.1 Consensus size: 24
21813812 AATTAGATTT
*
21813822 TTTAAATATATTTATTTTTATTAA
1 TTTAAATATATTTATTTTAATTAA
21813846 TTTAAAT-TATTTA-TTTAATTAA
1 TTTAAATATATTTATTTTAATTAA
* * *
21813868 ATTAAATAAATTTA-TTAAATTAA
1 TTTAAATATATTTATTTTAATTAA
21813891 TT
1 TT
21813893 GAATCAACGA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
22 14 0.34
23 20 0.49
24 7 0.17
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
TTTAAATATATTTATTTTAATTAA
Found at i:21813871 original size:27 final size:24
Alignment explanation
Indices: 21813822--21813883 Score: 83
Period size: 22 Copynumber: 2.7 Consensus size: 24
21813812 AATTAGATTT
21813822 TTTAAATATATTTATTTTTATTAA
1 TTTAAATATATTTATTTTTATTAA
*
21813846 TTTAAAT-TATTTA-TTTAATTAA
1 TTTAAATATATTTATTTTTATTAA
* *
21813868 ATTAAATAAATTTATT
1 TTTAAATATATTTATT
21813884 AAATTAATTG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 14 0.42
23 11 0.33
24 8 0.24
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (24 bp):
TTTAAATATATTTATTTTTATTAA
Found at i:21813872 original size:9 final size:9
Alignment explanation
Indices: 21813841--21813892 Score: 52
Period size: 9 Copynumber: 5.8 Consensus size: 9
21813831 ATTTATTTTT
21813841 ATTAATTTAA
1 ATTAA-TTAA
*
21813851 ATT-ATTTA
1 ATTAATTAA
*
21813859 TTTAATTAA
1 ATTAATTAA
*
21813868 ATTAAATAA
1 ATTAATTAA
*
21813877 ATTTATTAA
1 ATTAATTAA
21813886 ATTAATT
1 ATTAATT
21813893 GAATCAACGA
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
8 5 0.15
9 25 0.76
10 3 0.09
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (9 bp):
ATTAATTAA
Found at i:21814234 original size:28 final size:28
Alignment explanation
Indices: 21814203--21814257 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
21814193 CATATTAATG
*
21814203 GGGTATAGGAAAAGTCTCATAACTTATA
1 GGGTATAAGAAAAGTCTCATAACTTATA
* * *
21814231 GGGTATAAGAAGAGTTTTATAACTTAT
1 GGGTATAAGAAAAGTCTCATAACTTAT
21814258 GGAGTTGATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.38, C:0.07, G:0.22, T:0.33
Consensus pattern (28 bp):
GGGTATAAGAAAAGTCTCATAACTTATA
Found at i:21819638 original size:28 final size:28
Alignment explanation
Indices: 21819607--21819669 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
21819597 TCCCATATTA
21819607 ATGGGGTATAGGAAAAGTCTCATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
* * *
21819635 ATGGGGTATAGGAAGAGTTTTATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
21819663 ATGGGGT
1 ATGGGGT
21819670 TGATAATGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.32, C:0.06, G:0.30, T:0.32
Consensus pattern (28 bp):
ATGGGGTATAGGAAAAGTCTCATAACTT
Found at i:21820603 original size:22 final size:21
Alignment explanation
Indices: 21820578--21820621 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
21820568 TCTCTAATTA
21820578 TTTTCATAATAGATATTTTATT
1 TTTTCATAATAG-TATTTTATT
**
21820600 TTTTGGTAATAGTATTTTATT
1 TTTTCATAATAGTATTTTATT
21820621 T
1 T
21820622 AAATAATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.27, C:0.02, G:0.09, T:0.61
Consensus pattern (21 bp):
TTTTCATAATAGTATTTTATT
Found at i:21828250 original size:22 final size:22
Alignment explanation
Indices: 21828222--21828263 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
21828212 AAAGCATCGA
21828222 TGAAGCTTGGTTCAATCTTGAG
1 TGAAGCTTGGTTCAATCTTGAG
*
21828244 TGAAGCTTGGTTCGATCTTG
1 TGAAGCTTGGTTCAATCTTG
21828264 GGTTTTGTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.19, C:0.14, G:0.29, T:0.38
Consensus pattern (22 bp):
TGAAGCTTGGTTCAATCTTGAG
Found at i:21833734 original size:29 final size:29
Alignment explanation
Indices: 21833690--21833747 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
21833680 AACCGACAAA
21833690 TAAAGATCAAACTCTAAACTTTTATCAAT
1 TAAAGATCAAACTCTAAACTTTTATCAAT
*
21833719 TAAAGATCAAATTCTAAACTTTTATCAAT
1 TAAAGATCAAACTCTAAACTTTTATCAAT
21833748 CAACTTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.45, C:0.16, G:0.03, T:0.36
Consensus pattern (29 bp):
TAAAGATCAAACTCTAAACTTTTATCAAT
Found at i:21837527 original size:21 final size:21
Alignment explanation
Indices: 21837501--21837540 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
21837491 TACTGGACTG
21837501 GGTCTTACAAGGTCAAGAAAA
1 GGTCTTACAAGGTCAAGAAAA
21837522 GGTCTTACAAGGTCAAGAA
1 GGTCTTACAAGGTCAAGAA
21837541 GATTAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.20
Consensus pattern (21 bp):
GGTCTTACAAGGTCAAGAAAA
Found at i:21843668 original size:25 final size:25
Alignment explanation
Indices: 21843615--21843714 Score: 103
Period size: 25 Copynumber: 4.0 Consensus size: 25
21843605 ACCACAACTT
** * * *
21843615 GTATGAGCTTCCCAATTTACAACTT
1 GTATGAGCTTCCTGATTTATAGCTC
*
21843640 GTATGAGCTT-CTCGATTTATGGCTC
1 GTATGAGCTTCCT-GATTTATAGCTC
*
21843665 GTATGAGCTTCCTGATTTGTAGCTC
1 GTATGAGCTTCCTGATTTATAGCTC
* *
21843690 GTTTGAGCTTCCTGATTCATAGCTC
1 GTATGAGCTTCCTGATTTATAGCTC
21843715 ATGATAGCAT
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
24 1 0.02
25 59 0.95
26 2 0.03
ACGTcount: A:0.19, C:0.22, G:0.20, T:0.39
Consensus pattern (25 bp):
GTATGAGCTTCCTGATTTATAGCTC
Found at i:21851211 original size:15 final size:15
Alignment explanation
Indices: 21851191--21851219 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
21851181 AGAGAAAGAT
21851191 AGTTTTTGGGCTAAC
1 AGTTTTTGGGCTAAC
21851206 AGTTTTTGGGCTAA
1 AGTTTTTGGGCTAA
21851220 GCTTCTTGTT
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:0.21, C:0.10, G:0.28, T:0.41
Consensus pattern (15 bp):
AGTTTTTGGGCTAAC
Found at i:21852794 original size:21 final size:20
Alignment explanation
Indices: 21852770--21852815 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
21852760 TAATTAGTAC
*
21852770 TAATATTGGAAATATACTATA
1 TAATATTAGAAATATAC-ATA
*
21852791 TAATATTAGAGATATACATA
1 TAATATTAGAAATATACATA
*
21852811 GAATA
1 TAATA
21852816 GTAAAGATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.50, C:0.04, G:0.11, T:0.35
Consensus pattern (20 bp):
TAATATTAGAAATATACATA
Found at i:21852823 original size:20 final size:21
Alignment explanation
Indices: 21852781--21852830 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
21852771 AATATTGGAA
* * *
21852781 ATATACTATATAATATTAGAG
1 ATATACTATAGAATAGTAAAG
21852802 ATATAC-ATAGAATAGTAAAG
1 ATATACTATAGAATAGTAAAG
21852822 ATATA-TATA
1 ATATACTATA
21852831 TATATAACTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 19 0.76
21 6 0.24
ACGTcount: A:0.52, C:0.04, G:0.10, T:0.34
Consensus pattern (21 bp):
ATATACTATAGAATAGTAAAG
Found at i:21852826 original size:34 final size:36
Alignment explanation
Indices: 21852788--21852877 Score: 86
Period size: 34 Copynumber: 2.7 Consensus size: 36
21852778 GAAATATACT
21852788 ATATAATATTAGAGATATAC-A-TAGAATAGT-AAAG
1 ATATAATATTAGAGATA-ACTAGTAGAATAGTAAAAG
* *
21852822 ATAT-ATA-TATATATAACTAGTAGAATAGTAAAAG
1 ATATAATATTAGAGATAACTAGTAGAATAGTAAAAG
* *
21852856 ATAT-ATA-TATATATAACTAGTA
1 ATATAATATTAGAGATAACTAGTA
21852878 ATGTTAAAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
31 2 0.04
32 7 0.14
33 12 0.24
34 30 0.59
ACGTcount: A:0.52, C:0.03, G:0.11, T:0.33
Consensus pattern (36 bp):
ATATAATATTAGAGATAACTAGTAGAATAGTAAAAG
Found at i:21852886 original size:32 final size:33
Alignment explanation
Indices: 21852812--21852878 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 33
21852802 ATATACATAG
21852812 AATAGT-AAAGATATATATATATATAACTAGTA
1 AATAGTAAAAGATATATATATATATAACTAGTA
21852844 GAATAGTAAAAGATATATATATATATAACTAGTA
1 -AATAGTAAAAGATATATATATATATAACTAGTA
21852878 A
1 A
21852879 TGTTAAAATG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 7 0.21
34 26 0.79
ACGTcount: A:0.54, C:0.03, G:0.10, T:0.33
Consensus pattern (33 bp):
AATAGTAAAAGATATATATATATATAACTAGTA
Found at i:21854567 original size:73 final size:74
Alignment explanation
Indices: 21854452--21854592 Score: 221
Period size: 73 Copynumber: 1.9 Consensus size: 74
21854442 AAGTAGATTT
* *
21854452 TGAAAATACCTCATCATGTGACTCGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTCGAA
1 TGAAAATACCTCA-CATGTGACTCGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTCGAA
21854517 AAATAAAAAC
65 AAATAAAAAC
* * *
21854527 TGAAAATACCTCA-ATGTGTCTCGAGACTCAACTCACCTCTCGCAATATGAGTTGTTTTTTGAAA
1 TGAAAATACCTCACATGTGACTCGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTCGAAA
21854591 AA
66 AA
21854593 CATGAATTAA
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
73 48 0.79
75 13 0.21
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (74 bp):
TGAAAATACCTCACATGTGACTCGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTCGAAA
AATAAAAAC
Found at i:21854620 original size:54 final size:55
Alignment explanation
Indices: 21854553--21854704 Score: 263
Period size: 54 Copynumber: 2.8 Consensus size: 55
21854543 TGTCTCGAGA
21854553 CTCAACTCACCTCTCGCAATATGAGTTG-TTTTTTGAAAAACATGAATTAAAAGG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACATGAATTAAAAGG
*
21854607 CTTAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAACATGAATTAAAAGG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACATGAATTAAAAGG
*
21854661 CTCAACTCACCTCTCGCAATATGAATTGACTTTTTTGAAAAACA
1 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACA
21854705 AAAATTGAAA
Statistics
Matches: 92, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
54 72 0.78
55 14 0.15
56 6 0.07
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.32
Consensus pattern (55 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACATGAATTAAAAGG
Found at i:21854924 original size:174 final size:162
Alignment explanation
Indices: 21854657--21855111 Score: 506
Period size: 172 Copynumber: 2.7 Consensus size: 162
21854647 CATGAATTAA
* * ** ** *
21854657 AAGGCTCAACTCACCTCTCGCAATATGAATTGACTTTTTTGA-AA-AACAAAAATTGAAATTACC
1 AAGGCTCAACTCACCTCTCGCAATATGAGTCGAC-TTTCAGACAATAA-GTAAATTGAAAATACC
* *
21854720 TCAGCGT-TCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAATTT
64 TCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATT
21854784 GGAAAAAAAACATAAATTGAAAATACCTCAACGTGTCCT
128 -G---AAAAACATAAATTGAAAATACCTCAACGTGTCCT
* * * *
21854823 AAGGCTCAACTCACCTTTTGCAATATGAGTTGA-TTTAAAAACAGACATTAAGAATAGAAATTGA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTCGACTTT-----CAGACAATAAG--T--AAATTGA
*
21854887 AAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGCAAAA
57 AAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAA
* *
21854952 TATAAATTGAAAAACATAAATTGAAATTACCTCAGCGTGTCCT
120 TATAAATTGAAAAACATAAATTGAAAATACCTCAACGTGTCCT
* ** *
21854995 GAGGCTCAACTCACCTCTCGCAATATGAGTCGACTTTTTGACAATCAGT-AATTGAAAATACCTC
1 AAGGCTCAACTCACCTCTCGCAATATGAGTCGACTTTCAGACAATAAGTAAATTGAAAATACCTC
* * *
21855059 AGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGAATTTTGAAAA
66 AGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA
21855112 CAGAAAAACA
Statistics
Matches: 248, Mismatches: 26, Indels: 35
0.80 0.08 0.11
Matches are distributed among these distances:
161 8 0.03
163 56 0.23
164 3 0.01
166 31 0.12
168 7 0.03
169 2 0.01
170 1 0.00
171 2 0.01
172 61 0.25
173 3 0.01
174 55 0.22
175 2 0.01
176 17 0.07
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (162 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTCGACTTTCAGACAATAAGTAAATTGAAAATACCTC
AGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAA
AAACATAAATTGAAAATACCTCAACGTGTCCT
Found at i:21854970 original size:14 final size:14
Alignment explanation
Indices: 21854948--21854977 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
21854938 ATTTTTTTGC
*
21854948 AAAATATAAATTGA
1 AAAACATAAATTGA
21854962 AAAACATAAATTGA
1 AAAACATAAATTGA
21854976 AA
1 AA
21854978 TTACCTCAGC
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:0.67, C:0.03, G:0.07, T:0.23
Consensus pattern (14 bp):
AAAACATAAATTGA
Found at i:21855001 original size:89 final size:87
Alignment explanation
Indices: 21854695--21855035 Score: 422
Period size: 89 Copynumber: 3.9 Consensus size: 87
21854685 ATTGACTTTT
* * *
21854695 TTGAAAAACAAAAATTGAAATTACCTCAGCGT-TCCCCGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACATAAATTGAAAATACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATG
*
21854759 AGTTGATTTTTGAAAAATATAAT
65 AGTTGATTTTTGAAAAATATAAA
* * * *
21854782 TTGGAAAAAAAACATAAATTGAAAATACCTCAACGTGTCCTAAGGCTCAACTCACCTTTTGCAAT
1 TT-G---AAAAACATAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
* * *
21854847 ATGAGTTGA--TTT-AAAAACAGACA
62 ATGAGTTGATTTTTGAAAAATATAAA
* * *
21854870 TT-AAGAATAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACATAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
21854934 GTTGATTTTTTTGCAAAATATAAA
66 GTTGA--TTTTTGAAAAATATAAA
*
21854958 TTGAAAAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACATAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
21855023 GTCGACTTTTTGA
66 GTTGA-TTTTTGA
21855036 CAATCAGTAA
Statistics
Matches: 214, Mismatches: 29, Indels: 21
0.81 0.11 0.08
Matches are distributed among these distances:
83 60 0.28
87 5 0.02
88 25 0.12
89 65 0.30
91 58 0.27
92 1 0.00
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (87 bp):
TTGAAAAACATAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTGAAAAATATAAA
Found at i:21865865 original size:46 final size:45
Alignment explanation
Indices: 21865790--21865960 Score: 150
Period size: 46 Copynumber: 3.7 Consensus size: 45
21865780 TGTAACCCGC
* *
21865790 CCATAAGAGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TCGGGCATTTGCAT
* * * *
21865836 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACGT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TCGG--G-C-ATTTGCAT
* * * *
21865886 -C-TCA-CGAACTCGGACTCAACTCAACGAGTCCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGT-CGGGCATTTGCAT
**
21865929 CCATAAGTGAACTAAGACTCAACTCAACGAGT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGT
21865961 TCAGATGCCC
Statistics
Matches: 99, Mismatches: 18, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
43 4 0.04
44 2 0.02
45 2 0.02
46 56 0.57
47 26 0.26
48 3 0.03
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTCGGGCATTTGCAT
Found at i:21865911 original size:93 final size:93
Alignment explanation
Indices: 21865798--21865969 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
21865788 GCCCATAAGA
* * * * **
21865798 GAACTCGGACTCAACTCAACGAG-CTCGGGCGTTTGCATCCATGAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGTC-CGGACATTCGCATCCATAAGTGAACTAAGACTCAACTCA
*
21865862 ACGAGTTCGGATGCCTAGTTACGTCTCAC
65 ACGAGTTCAGATGCCTAGTTACGTCTCAC
21865891 GAACTCGGACTCAACTCAACGAGTCCGGACATTCGCATCCATAAGTGAACTAAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTCCGGACATTCGCATCCATAAGTGAACTAAGACTCAACTCAA
21865956 CGAGTTCAGATGCC
66 CGAGTTCAGATGCC
21865970 CAAACATCCT
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
93 70 0.99
94 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTCCGGACATTCGCATCCATAAGTGAACTAAGACTCAACTCAA
CGAGTTCAGATGCCTAGTTACGTCTCAC
Found at i:21869672 original size:7 final size:7
Alignment explanation
Indices: 21869662--21869704 Score: 61
Period size: 7 Copynumber: 6.3 Consensus size: 7
21869652 AAGAAAAAAA
21869662 GAGAGGG
1 GAGAGGG
*
21869669 GAGAAGG
1 GAGAGGG
21869676 GAGAGGG
1 GAGAGGG
21869683 GAGAGGG
1 GAGAGGG
21869690 GAGA-GG
1 GAGAGGG
*
21869696 AAGAGGG
1 GAGAGGG
21869703 GA
1 GA
21869705 ATCCAGCCCC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
6 5 0.16
7 26 0.84
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (7 bp):
GAGAGGG
Found at i:21869688 original size:21 final size:20
Alignment explanation
Indices: 21869662--21869704 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
21869652 AAGAAAAAAA
*
21869662 GAGAGGGGAGAAGGGAGAGGG
1 GAGAGGGGAG-AGGAAGAGGG
21869683 GAGAGGGGAGAGGAAGAGGG
1 GAGAGGGGAGAGGAAGAGGG
21869703 GA
1 GA
21869705 ATCCAGCCCC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (20 bp):
GAGAGGGGAGAGGAAGAGGG
Found at i:21877645 original size:28 final size:29
Alignment explanation
Indices: 21877547--21877645 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
21877537 TCACAAATTG
* *
21877547 GCACTAAGTGTGCGGGTTCAAAT-TGTATA
1 GCACTAAGTGTGCGAGTTCGAATAT-TATA
* * *
21877576 GCACTAAGTGTGCAAGTTTGATTA-TATA
1 GCACTAAGTGTGCGAGTTCGAATATTATA
*
21877604 GCACTAAGTGTGCGAGTTCGACTATTA-A
1 GCACTAAGTGTGCGAGTTCGAATATTATA
21877632 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
21877646 GGCTTATTAC
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 40 0.67
29 20 0.33
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTCGAATATTATA
Found at i:21889171 original size:14 final size:15
Alignment explanation
Indices: 21889154--21889183 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
21889144 TAAAGAGGTT
21889154 GTTTT-ATTGTTTTA
1 GTTTTAATTGTTTTA
21889168 GTTTTAATTGTTTTA
1 GTTTTAATTGTTTTA
21889183 G
1 G
21889184 CCAAAGAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.67
Consensus pattern (15 bp):
GTTTTAATTGTTTTA
Found at i:21898840 original size:47 final size:47
Alignment explanation
Indices: 21898766--21898863 Score: 126
Period size: 47 Copynumber: 2.1 Consensus size: 47
21898756 CGTAAGTTTT
* * *
21898766 TTTTAATGATGTTACATTTTGAAATCAAAACACGTGATAAAATAAAA
1 TTTTAATGATCTTACATTTAGAAATCAAAACACATGATAAAATAAAA
* * *
21898813 TTTTAATGATCTTACACTTTAG-GATCAAAACACATGATGAAATAATA
1 TTTTAATGATCTTACA-TTTAGAAATCAAAACACATGATAAAATAAAA
21898860 TTTT
1 TTTT
21898864 TTTATTTCTC
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
47 40 0.91
48 4 0.09
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.37
Consensus pattern (47 bp):
TTTTAATGATCTTACATTTAGAAATCAAAACACATGATAAAATAAAA
Found at i:21901680 original size:66 final size:66
Alignment explanation
Indices: 21901568--21901695 Score: 222
Period size: 66 Copynumber: 1.9 Consensus size: 66
21901558 TTGCAGTTTG
*
21901568 GCTTATATTTTATTTCTAGTCAAATTATATCAGAATGAGCTAGCTGGCTTAAGGGGTAAGAATTT
1 GCTTATATTTTATTTCTAGTCAAATCATATCAGAATGAGCTAGCTGGCTTAAGGGGTAAGAATTT
21901633 A
66 A
*
21901634 GCTTATATTTTATTTCTAGTCAAATCATATCAGAATGAGCCT-GCTGGTTTAAGGGGTAAGAA
1 GCTTATATTTTATTTCTAGTCAAATCATATCAGAATGAG-CTAGCTGGCTTAAGGGGTAAGAA
21901696 GTTTGGTTGC
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
66 57 0.97
67 2 0.03
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.37
Consensus pattern (66 bp):
GCTTATATTTTATTTCTAGTCAAATCATATCAGAATGAGCTAGCTGGCTTAAGGGGTAAGAATTT
A
Found at i:21921569 original size:33 final size:35
Alignment explanation
Indices: 21921515--21921579 Score: 82
Period size: 33 Copynumber: 1.9 Consensus size: 35
21921505 TAATCCTTGC
* *
21921515 AATTAAGAATAACATTTAAAA-TGT-AATTAATTG
1 AATTAAGAATAAAATTAAAAATTGTAAATTAATTG
21921548 AATTAA-ATATAAAATTAAAAATTGTAAATTAA
1 AATTAAGA-ATAAAATTAAAAATTGTAAATTAA
21921580 AAAGAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 1 0.04
33 17 0.63
34 3 0.11
35 6 0.22
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (35 bp):
AATTAAGAATAAAATTAAAAATTGTAAATTAATTG
Found at i:21921702 original size:17 final size:17
Alignment explanation
Indices: 21921677--21921711 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
21921667 TTTCTTAAAC
*
21921677 TTAACATGGTCTAAATA
1 TTAAAATGGTCTAAATA
21921694 TTAAAATGGTCTAAATA
1 TTAAAATGGTCTAAATA
21921711 T
1 T
21921712 GTGTCTCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.37
Consensus pattern (17 bp):
TTAAAATGGTCTAAATA
Found at i:21922086 original size:16 final size:16
Alignment explanation
Indices: 21922065--21922103 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
21922055 AACTCGATTA
21922065 ACTTGATTTCTTTTTC
1 ACTTGATTTCTTTTTC
21922081 ACTTGATTTCTTTTTC
1 ACTTGATTTCTTTTTC
21922097 ACTTGAT
1 ACTTGAT
21922104 CAAACGCTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.15, C:0.18, G:0.08, T:0.59
Consensus pattern (16 bp):
ACTTGATTTCTTTTTC
Found at i:21922280 original size:31 final size:31
Alignment explanation
Indices: 21922179--21922346 Score: 120
Period size: 31 Copynumber: 5.5 Consensus size: 31
21922169 TTAATATAAC
* * * * *
21922179 ATTTGGTATCTGAACTTGACATTTTTTTCTTC
1 ATTTGGTACCTAAACTTGACA-CTTTTTCCTA
* *
21922211 ATTTGGTACCTAAACTT----TTTTTTGGCCCA
1 ATTTGGTACCTAAACTTGACACTTTTT--CCTA
*
21922240 ATTTAGTACCTAAACTTGACACTTTTTCCTA
1 ATTTGGTACCTAAACTTGACACTTTTTCCTA
** *
21922271 ATTTGGTACCTAAACTT-----TTTGGGGCCCA
1 ATTTGGTACCTAAACTTGACACTTT--TTCCTA
21922299 ATTTGGTACCTAAACTTGACACTTTTTCCTA
1 ATTTGGTACCTAAACTTGACACTTTTTCCTA
*
21922330 ATTTGGTATCTAAACTT
1 ATTTGGTACCTAAACTT
21922347 TTTTGGGCGG
Statistics
Matches: 107, Mismatches: 16, Indels: 27
0.71 0.11 0.18
Matches are distributed among these distances:
26 3 0.03
27 6 0.06
28 20 0.19
29 17 0.16
31 38 0.36
32 15 0.14
33 8 0.07
ACGTcount: A:0.24, C:0.20, G:0.12, T:0.44
Consensus pattern (31 bp):
ATTTGGTACCTAAACTTGACACTTTTTCCTA
Found at i:21922314 original size:59 final size:59
Alignment explanation
Indices: 21922179--21922409 Score: 302
Period size: 59 Copynumber: 3.9 Consensus size: 59
21922169 TTAATATAAC
* * * * * *
21922179 ATTTGGTATCTGAACTTGACATTTTTTTCTTCATTTGGTACCTAAACTTTTTTTTGGCCCA
1 ATTTGGTACCTAAACTTGACA-CTTTTTCCTAATTTGGTACCTAAAC-TTTTTTGGGCCCA
* *
21922240 ATTTAGTACCTAAACTTGACACTTTTTCCTAATTTGGTACCTAAACTTTTTGGGGCCCA
1 ATTTGGTACCTAAACTTGACACTTTTTCCTAATTTGGTACCTAAACTTTTTTGGGCCCA
* **
21922299 ATTTGGTACCTAAACTTGACACTTTTTCCTAATTTGGTATCTAAACTTTTTTGGGCGGA
1 ATTTGGTACCTAAACTTGACACTTTTTCCTAATTTGGTACCTAAACTTTTTTGGGCCCA
* * *
21922358 ATTTGGTACCTAAACTTGAC-CTTTTTTCCTAATTTGATATCTAAGCTTTTTT
1 ATTTGGTACCTAAACTTGACAC-TTTTTCCTAATTTGGTACCTAAACTTTTTT
21922410 TTAGGTTCAA
Statistics
Matches: 154, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
58 1 0.01
59 113 0.73
60 22 0.14
61 18 0.12
ACGTcount: A:0.23, C:0.19, G:0.13, T:0.45
Consensus pattern (59 bp):
ATTTGGTACCTAAACTTGACACTTTTTCCTAATTTGGTACCTAAACTTTTTTGGGCCCA
Found at i:21925881 original size:13 final size:13
Alignment explanation
Indices: 21925865--21925889 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21925855 TGCAAACATT
21925865 AAAGAAAGAAAAG
1 AAAGAAAGAAAAG
21925878 AAAGAAAGAAAA
1 AAAGAAAGAAAA
21925890 TGAGAAGAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAGAAAGAAAAG
Found at i:21927052 original size:43 final size:45
Alignment explanation
Indices: 21926999--21927086 Score: 108
Period size: 43 Copynumber: 2.0 Consensus size: 45
21926989 TATGTGATTG
* * * * * *
21926999 ATATTGAAATGGCAAATATTAG-AAATAAATATGAAATGA-GAAA
1 ATATTAAAATGGAAAAGATGAGAAAAGAAATATCAAATGATGAAA
21927042 ATATTAAAATGGAAAAGATGAGAAAAGAAATATCAAATGATGAAA
1 ATATTAAAATGGAAAAGATGAGAAAAGAAATATCAAATGATGAAA
21927087 TGAGATGTGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
43 18 0.49
44 15 0.41
45 4 0.11
ACGTcount: A:0.58, C:0.02, G:0.17, T:0.23
Consensus pattern (45 bp):
ATATTAAAATGGAAAAGATGAGAAAAGAAATATCAAATGATGAAA
Found at i:21928619 original size:49 final size:49
Alignment explanation
Indices: 21928558--21928651 Score: 161
Period size: 49 Copynumber: 1.9 Consensus size: 49
21928548 TAAAAAGGGG
*
21928558 ATAAATAATGATAAGAGTGTAGAAAGTGGAAGACTAAGTTTAGCAATGT
1 ATAAATAATGATAAGAGTGTAGAAAGTGGAAGACCAAGTTTAGCAATGT
* *
21928607 ATAAATAGTGATAAGAGTGTAGACAGTGGAAGACCAAGTTTAGCA
1 ATAAATAATGATAAGAGTGTAGAAAGTGGAAGACCAAGTTTAGCA
21928652 TTGCATAGCA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 42 1.00
ACGTcount: A:0.44, C:0.06, G:0.26, T:0.24
Consensus pattern (49 bp):
ATAAATAATGATAAGAGTGTAGAAAGTGGAAGACCAAGTTTAGCAATGT
Found at i:21930356 original size:46 final size:47
Alignment explanation
Indices: 21930289--21930418 Score: 208
Period size: 47 Copynumber: 2.8 Consensus size: 47
21930279 TGTAACCCGC
* * * * *
21930289 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTT-CGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCCACAT
21930335 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCCACAT
21930382 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
21930419 TGCTCAACCA
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
46 37 0.47
47 41 0.53
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (47 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCCACAT
Found at i:21930874 original size:30 final size:30
Alignment explanation
Indices: 21930840--21930899 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
21930830 CCTTAATACG
21930840 AACTTAGGCAAAATTAC-CATTTTGCCCCTA
1 AACTTAGGCAAAATTACAC-TTTTGCCCCTA
** *
21930870 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTAGGCAAAATTACACTTTTGCCCCTA
21930900 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.27, G:0.08, T:0.35
Consensus pattern (30 bp):
AACTTAGGCAAAATTACACTTTTGCCCCTA
Found at i:21936790 original size:26 final size:25
Alignment explanation
Indices: 21936747--21936806 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
21936737 TGTAACTAAT
* *
21936747 TGAATTAAATATAGAATAAAAAGTTG
1 TGAATTAAAAAAAGAATAAAAA-TTG
* *
21936773 TGAATTAAAAAAATAATAAAAATTT
1 TGAATTAAAAAAAGAATAAAAATTG
21936798 TG-ATTAAAA
1 TGAATTAAAA
21936807 GATATTCATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 7 0.23
25 4 0.13
26 19 0.63
ACGTcount: A:0.58, C:0.00, G:0.10, T:0.32
Consensus pattern (25 bp):
TGAATTAAAAAAAGAATAAAAATTG
Found at i:21937311 original size:19 final size:19
Alignment explanation
Indices: 21937281--21937330 Score: 68
Period size: 18 Copynumber: 2.7 Consensus size: 19
21937271 AATTTCAAAA
*
21937281 AAAAATTCAAAATAATTTTT
1 AAAAATTCAAAAT-ATTTAT
21937301 AAAAATT-AAAATATTTAT
1 AAAAATTCAAAATATTTAT
21937319 -AAAATTCAAAAT
1 AAAAATTCAAAAT
21937331 TTATATTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 6 0.21
18 10 0.36
19 5 0.18
20 7 0.25
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:21937321 original size:18 final size:18
Alignment explanation
Indices: 21937281--21937335 Score: 60
Period size: 17 Copynumber: 3.1 Consensus size: 18
21937271 AATTTCAAAA
*
21937281 AAAAATTCAAAATAATTTTT
1 AAAAATT-AAAAT-ATTTAT
21937301 AAAAATTAAAATATTTAT
1 AAAAATTAAAATATTTAT
*
21937319 -AAAATTCAAA-ATTTAT
1 AAAAATTAAAATATTTAT
21937335 A
1 A
21937336 TTTTTTAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 6 0.19
17 9 0.28
18 5 0.16
19 5 0.16
20 7 0.22
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (18 bp):
AAAAATTAAAATATTTAT
Found at i:21937356 original size:10 final size:10
Alignment explanation
Indices: 21937341--21937384 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
21937331 TTATATTTTT
21937341 TAAAAAATTA
1 TAAAAAATTA
*
21937351 T-AAAAATTC
1 TAAAAAATTA
*
21937360 TAAAAAATTC
1 TAAAAAATTA
21937370 TAAAAAATATA
1 TAAAAAAT-TA
21937381 TAAA
1 TAAA
21937385 GAAAGTTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
9 8 0.27
10 17 0.57
11 5 0.17
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.30
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:21937844 original size:31 final size:30
Alignment explanation
Indices: 21937809--21937896 Score: 83
Period size: 28 Copynumber: 2.9 Consensus size: 30
21937799 TTGGTATCTG
21937809 AACTTGATACTTTTTCCTAATTTGGTACCCA
1 AACTTGATA-TTTTTCCTAATTTGGTACCCA
* * *
21937840 AACTT--T-TTTTGCCCCAATTTGGTACCTA
1 AACTTGATATTTT-TCCTAATTTGGTACCCA
* *
21937868 AACTTGACATTTTTTCCTTATTTGGTACC
1 AACTTGATA-TTTTTCCTAATTTGGTACC
21937897 TAAGCTTTTT
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
27 4 0.09
28 19 0.42
29 1 0.02
31 17 0.38
32 4 0.09
ACGTcount: A:0.23, C:0.23, G:0.10, T:0.44
Consensus pattern (30 bp):
AACTTGATATTTTTCCTAATTTGGTACCCA
Found at i:21937891 original size:59 final size:59
Alignment explanation
Indices: 21937797--21937908 Score: 161
Period size: 59 Copynumber: 1.9 Consensus size: 59
21937787 GTAATATAAT
* * *
21937797 ATTTGGTATCTGAACTTGATACTTTTTCCTAATTTGGTACCCAAACTTTTTTTGCCCCA
1 ATTTGGTACCTAAACTTGACACTTTTTCCTAATTTGGTACCCAAACTTTTTTTGCCCCA
* * * *
21937856 ATTTGGTACCTAAACTTGACATTTTTTCCTTATTTGGTACCTAAGCTTTTTTT
1 ATTTGGTACCTAAACTTGACACTTTTTCCTAATTTGGTACCCAAACTTTTTTT
21937909 TAGGTTCAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
59 46 1.00
ACGTcount: A:0.21, C:0.20, G:0.12, T:0.47
Consensus pattern (59 bp):
ATTTGGTACCTAAACTTGACACTTTTTCCTAATTTGGTACCCAAACTTTTTTTGCCCCA
Found at i:21937897 original size:31 final size:30
Alignment explanation
Indices: 21937797--21937899 Score: 95
Period size: 31 Copynumber: 3.4 Consensus size: 30
21937787 GTAATATAAT
* * *
21937797 ATTTGGTATCTGAACTTGATACTTTTTCCTA
1 ATTTGGTACCTAAACTTGA-ATTTTTTCCTA
* * *
21937828 ATTTGGTACCCAAACTT---TTTTTGCCCCA
1 ATTTGGTACCTAAACTTGAATTTTT-TCCTA
*
21937856 ATTTGGTACCTAAACTTGACATTTTTTCCTT
1 ATTTGGTACCTAAACTTGA-ATTTTTTCCTA
21937887 ATTTGGTACCTAA
1 ATTTGGTACCTAA
21937900 GCTTTTTTTT
Statistics
Matches: 57, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
27 4 0.07
28 19 0.33
31 29 0.51
32 5 0.09
ACGTcount: A:0.23, C:0.20, G:0.12, T:0.45
Consensus pattern (30 bp):
ATTTGGTACCTAAACTTGAATTTTTTCCTA
Found at i:21942671 original size:4 final size:4
Alignment explanation
Indices: 21942662--21942688 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
21942652 ATTTGGCAAT
21942662 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
21942689 TCTCTTTTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:21944178 original size:17 final size:18
Alignment explanation
Indices: 21944153--21944193 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
21944143 TTAAAAGCTT
21944153 AAATCCATTAAAATTTAA
1 AAATCCATTAAAATTTAA
*
21944171 AAAT-CATTAATATTT-A
1 AAATCCATTAAAATTTAA
21944187 AAATCCA
1 AAATCCA
21944194 AATTGATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 5 0.24
17 12 0.57
18 4 0.19
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (18 bp):
AAATCCATTAAAATTTAA
Found at i:21950159 original size:16 final size:15
Alignment explanation
Indices: 21950138--21950167 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
21950128 TCATGGGGTA
21950138 TTTTCTTTTCTTTTTT
1 TTTTCTTTT-TTTTTT
21950154 TTTTCTTTTTTTTT
1 TTTTCTTTTTTTTT
21950168 CCCCAAAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (15 bp):
TTTTCTTTTTTTTTT
Found at i:21950168 original size:10 final size:11
Alignment explanation
Indices: 21950138--21950167 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
21950128 TCATGGGGTA
*
21950138 TTTTCTTTTCT
1 TTTTTTTTTCT
21950149 TTTTTTTTTCT
1 TTTTTTTTTCT
21950160 TTTTTTTT
1 TTTTTTTT
21950168 CCCCAAAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (11 bp):
TTTTTTTTTCT
Found at i:21950752 original size:10 final size:10
Alignment explanation
Indices: 21950733--21950806 Score: 55
Period size: 10 Copynumber: 7.4 Consensus size: 10
21950723 ATATTTAAAT
*
21950733 TTATAAAAAA
1 TTATAGAAAA
21950743 TTATAGAAAA
1 TTATAGAAAA
**
21950753 TTTATTTAAAA
1 -TTATAGAAAA
*
21950764 TTATATAAGAA
1 TTATAGAA-AA
21950775 -TATAGAAAA
1 TTATAGAAAA
*
21950784 TTATTGCAAAA
1 TTATAG-AAAA
21950795 -TATA-AAAA
1 TTATAGAAAA
21950803 TTAT
1 TTAT
21950807 TAACATTTTA
Statistics
Matches: 52, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
8 4 0.08
9 5 0.10
10 29 0.56
11 14 0.27
ACGTcount: A:0.57, C:0.01, G:0.05, T:0.36
Consensus pattern (10 bp):
TTATAGAAAA
Found at i:21950753 original size:21 final size:21
Alignment explanation
Indices: 21950729--21950768 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
21950719 AAAAATATTT
21950729 AAATTTATAAAAAATTATAGA
1 AAATTTATAAAAAATTATAGA
**
21950750 AAATTTATTTAAAATTATA
1 AAATTTATAAAAAATTATA
21950769 TAAGAATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (21 bp):
AAATTTATAAAAAATTATAGA
Found at i:21950762 original size:31 final size:31
Alignment explanation
Indices: 21950724--21950785 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
21950714 TCTAAAAAAA
*
21950724 TATTTAAATTTATA-AAAAATTATAGAAAATT
1 TATTTAAAATTATATAAAAA-TATAGAAAATT
*
21950755 TATTTAAAATTATATAAGAATATAGAAAATT
1 TATTTAAAATTATATAAAAATATAGAAAATT
21950786 ATTGCAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 24 0.86
32 4 0.14
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (31 bp):
TATTTAAAATTATATAAAAATATAGAAAATT
Found at i:21950927 original size:20 final size:20
Alignment explanation
Indices: 21950872--21950928 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
21950862 AATTTTTACA
* *
21950872 TAAAAATTATTCAAA-TGAT
1 TAAAAATTATTAAAATTTAT
* *
21950891 AAAAAATTA-TAGGAATTTAT
1 TAAAAATTATTA-AAATTTAT
21950911 TAAAAATTATTAAAATTT
1 TAAAAATTATTAAAATTT
21950929 TAGTTGAGGA
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
18 1 0.03
19 10 0.34
20 16 0.55
21 2 0.07
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (20 bp):
TAAAAATTATTAAAATTTAT
Found at i:21955397 original size:20 final size:19
Alignment explanation
Indices: 21955372--21955448 Score: 55
Period size: 20 Copynumber: 3.6 Consensus size: 19
21955362 TATTTGGGCA
21955372 TCCGAGCTCGTTGAGTCGAG
1 TCCGAGCTCGTTGAGT-GAG
*
21955392 TCCGAGTTCACGTATGGATGTGAATG
1 TCCGAG--CTCGT-T-GA-GTG-A-G
21955418 TCCGAGCTCGTTGAGTTGAG
1 TCCGAGCTCGTTGAG-TGAG
*
21955438 TCCGAGTTCGT
1 TCCGAGCTCGT
21955449 GAAATGTAAC
Statistics
Matches: 46, Mismatches: 3, Indels: 16
0.71 0.05 0.25
Matches are distributed among these distances:
20 17 0.37
21 2 0.04
22 8 0.17
23 2 0.04
24 7 0.15
25 3 0.07
26 7 0.15
ACGTcount: A:0.17, C:0.21, G:0.32, T:0.30
Consensus pattern (19 bp):
TCCGAGCTCGTTGAGTGAG
Found at i:21960781 original size:21 final size:21
Alignment explanation
Indices: 21960739--21960782 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
21960729 CTTAATTCAT
* *
21960739 TTCATACTAAAACATTCCCAA
1 TTCATACTAAAACATACACAA
*
21960760 TTCATACTTAAACATACACAA
1 TTCATACTAAAACATACACAA
21960781 TT
1 TT
21960783 GTCCATAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.43, C:0.25, G:0.00, T:0.32
Consensus pattern (21 bp):
TTCATACTAAAACATACACAA
Found at i:21968492 original size:43 final size:43
Alignment explanation
Indices: 21968435--21968551 Score: 135
Period size: 43 Copynumber: 2.7 Consensus size: 43
21968425 AAATGTATTG
** *
21968435 ACACACATAGTGCATCATCGGATATACCGAAACATTTATACTGGC
1 ACACACA-A-TGCATCATCGGATATACCGAAACAAATATACTAGC
* * * *
21968480 ACACACAATGCATCATCGAATAAACTGAAAGAAATATACTAGC
1 ACACACAATGCATCATCGGATATACCGAAACAAATATACTAGC
* *
21968523 ACACATAGTGCATCATCGGATATACCGAA
1 ACACACAATGCATCATCGGATATACCGAA
21968552 GTATAACTTG
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
43 52 0.87
44 1 0.02
45 7 0.12
ACGTcount: A:0.41, C:0.23, G:0.15, T:0.21
Consensus pattern (43 bp):
ACACACAATGCATCATCGGATATACCGAAACAAATATACTAGC
Found at i:21982644 original size:15 final size:15
Alignment explanation
Indices: 21982626--21982681 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
21982616 TGAAGTCGAA
21982626 GATGATGAAGATTAT
1 GATGATGAAGATTAT
** *
21982641 GATGATGGTGATGAT
1 GATGATGAAGATTAT
21982656 GTAT-ATGAAG-TTGAT
1 G-ATGATGAAGATT-AT
21982671 GATGATGAAGA
1 GATGATGAAGA
21982682 GCTGGAGGAG
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
14 3 0.10
15 26 0.84
16 2 0.06
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (15 bp):
GATGATGAAGATTAT
Found at i:21983184 original size:166 final size:160
Alignment explanation
Indices: 21982910--21983235 Score: 580
Period size: 166 Copynumber: 2.0 Consensus size: 160
21982900 TCTTGGAAGG
*
21982910 TTTGTATGTTTATGAAATTTCATGACTATTTTTAGTGTTAAATGAAGAAATTATATTTTTGATAT
1 TTTGTATGTTTATGAAATTTCATGACTATTTTTAGTATTAAATGAAGAAATTATATTTTTGATAT
21982975 GAACAATGGAAATCATCTACAAACCTCAAGACCCACACTTGCTATGACAACACTTTCAATGCCAA
66 GAACAATGGAAATCATCTACAAACCTCAAGACCCACACTTGCTATGACAACACTTTCAATG-C--
21983040 GTTAAAATTACTGATAGAAAACACTTCAGCTGACCC
128 --T-AAATTACTGATAGAAAACACTTCAGCTGACCC
21983076 TTTGTATGTTTATGAAATTTCATGACTATTTTTAGTATTAAATGAAGAAATTATATTTTTGATAT
1 TTTGTATGTTTATGAAATTTCATGACTATTTTTAGTATTAAATGAAGAAATTATATTTTTGATAT
21983141 GAACAATGGAAATCATCTACAAACCTCAAGACCCACACTTGCTATGACAACACTTTCAATGCTAA
66 GAACAATGGAAATCATCTACAAACCTCAAGACCCACACTTGCTATGACAACACTTTCAATGCTAA
*
21983206 CTTACTGATAGAAAACACTTCAGCTGACCC
131 ATTACTGATAGAAAACACTTCAGCTGACCC
21983236 AACCATTGAT
Statistics
Matches: 158, Mismatches: 2, Indels: 6
0.95 0.01 0.04
Matches are distributed among these distances:
160 31 0.20
161 1 0.01
165 1 0.01
166 125 0.79
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (160 bp):
TTTGTATGTTTATGAAATTTCATGACTATTTTTAGTATTAAATGAAGAAATTATATTTTTGATAT
GAACAATGGAAATCATCTACAAACCTCAAGACCCACACTTGCTATGACAACACTTTCAATGCTAA
ATTACTGATAGAAAACACTTCAGCTGACCC
Found at i:21983848 original size:3 final size:3
Alignment explanation
Indices: 21983840--21983867 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
21983830 CTGGTGCTTT
21983840 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
21983868 CTTTTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:21984328 original size:21 final size:21
Alignment explanation
Indices: 21984298--21984339 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
21984288 CATTTAATTT
21984298 AAAAATATATCAAAGA-ATAA
1 AAAAATATATCAAAGAGATAA
21984318 AAAATATATATCAAAGAGATAA
1 AAAA-ATATATCAAAGAGATAA
21984340 TATATCATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 4 0.20
21 12 0.60
22 4 0.20
ACGTcount: A:0.67, C:0.05, G:0.07, T:0.21
Consensus pattern (21 bp):
AAAAATATATCAAAGAGATAA
Found at i:21985578 original size:25 final size:24
Alignment explanation
Indices: 21985549--21985597 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
21985539 TGTTAAATTA
*
21985549 AAATACATTACAATATTATTTTTTT
1 AAATACATTACAAT-TAATTTTTTT
*
21985574 AAATACATTGCAATTAATTTTTTT
1 AAATACATTACAATTAATTTTTTT
21985598 TTTTAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 9 0.41
25 13 0.59
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.51
Consensus pattern (24 bp):
AAATACATTACAATTAATTTTTTT
Found at i:21985594 original size:23 final size:25
Alignment explanation
Indices: 21985549--21985596 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 25
21985539 TGTTAAATTA
*
21985549 AAATACATTACAATATTATTTTTTT
1 AAATACATTACAATATTAATTTTTT
*
21985574 AAATACATTGC-A-ATTAATTTTTT
1 AAATACATTACAATATTAATTTTTT
21985597 TTTTTAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 10 0.48
24 1 0.05
25 10 0.48
ACGTcount: A:0.40, C:0.08, G:0.02, T:0.50
Consensus pattern (25 bp):
AAATACATTACAATATTAATTTTTT
Found at i:21986079 original size:119 final size:121
Alignment explanation
Indices: 21985888--21986104 Score: 323
Period size: 119 Copynumber: 1.8 Consensus size: 121
21985878 TCTTTCATCT
* * *
21985888 TCTTCTTCTTTTTAACATGAGAACATAATGAGTAAAGTTTAATTCTAACCCCTCTAATTTTTTAA
1 TCTTCTTCTTTTTAACATGAGAACATAATGAGTAAAGTTTAACTCCAACCCCTCTAATTCTTTAA
*
21985953 GATTATAAGAATGGTGAAATTTCAATTTTATCCATGGACACTTGTCGATTGTTTTA
66 GATTATAAGAATGGTGAAATTTCAATTTGATCCATGGACACTTGTCGATTGTTTTA
* * *
21986009 TCTT-TTCTTTTTCACATGAGAACAT-ATGGGTAAA-TTTCAACTCCAATCCCTCTAATTCTTTA
1 TCTTCTTCTTTTTAACATGAGAACATAATGAGTAAAGTTT-AACTCCAACCCCTCTAATTCTTTA
* *
21986071 CGATTATAAGAATGGTTAAATTTCAATTTGATCC
65 AGATTATAAGAATGGTGAAATTTCAATTTGATCC
21986105 TCATATTTCA
Statistics
Matches: 86, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
118 3 0.03
119 59 0.69
120 20 0.23
121 4 0.05
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (121 bp):
TCTTCTTCTTTTTAACATGAGAACATAATGAGTAAAGTTTAACTCCAACCCCTCTAATTCTTTAA
GATTATAAGAATGGTGAAATTTCAATTTGATCCATGGACACTTGTCGATTGTTTTA
Found at i:21990426 original size:32 final size:32
Alignment explanation
Indices: 21990390--21990454 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
21990380 GATCCTGGCA
21990390 TTTGCAATCGGATTCCATGTTTTTGTTACCTT
1 TTTGCAATCGGATTCCATGTTTTTGTTACCTT
21990422 TTTGCAATCGGATTCCATGTTTTTGTTACCTT
1 TTTGCAATCGGATTCCATGTTTTTGTTACCTT
21990454 T
1 T
21990455 CTTCTTTTAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.15, C:0.18, G:0.15, T:0.51
Consensus pattern (32 bp):
TTTGCAATCGGATTCCATGTTTTTGTTACCTT
Found at i:22000950 original size:20 final size:20
Alignment explanation
Indices: 22000903--22000941 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
22000893 CTAAGTCAAT
* *
22000903 GGAATGGAAAGTAAGTAAAA
1 GGAATGGTAAGTAAATAAAA
22000923 GGAATGGTAAGTAAATAAA
1 GGAATGGTAAGTAAATAAA
22000942 CGGAGTGGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.28, T:0.18
Consensus pattern (20 bp):
GGAATGGTAAGTAAATAAAA
Found at i:22001988 original size:36 final size:37
Alignment explanation
Indices: 22001921--22001991 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
22001911 TCATACACCG
22001921 AAACTAAGACAAAGAAATAGAAAAAAAAAAACAAAGA
1 AAACTAAGACAAAGAAATAGAAAAAAAAAAACAAAGA
*
22001958 AAACTAAGCCAAAGAAATA-AAAAAAAAAAACAAA
1 AAACTAAGACAAAGAAATAGAAAAAAAAAAACAAA
22001992 AGCTAGGGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
36 15 0.45
37 18 0.55
ACGTcount: A:0.76, C:0.10, G:0.08, T:0.06
Consensus pattern (37 bp):
AAACTAAGACAAAGAAATAGAAAAAAAAAAACAAAGA
Found at i:22004203 original size:44 final size:45
Alignment explanation
Indices: 22004113--22004241 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
22004103 GACAGAACGA
*
22004113 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
22004159 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
22004203 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
22004242 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:22011584 original size:44 final size:45
Alignment explanation
Indices: 22011494--22011622 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
22011484 GACAGAACGA
*
22011494 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
22011540 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
22011584 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
22011623 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:22014462 original size:9 final size:8
Alignment explanation
Indices: 22014447--22014473 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
22014437 TATTTATTTG
22014447 TAAAAAAA
1 TAAAAAAA
22014455 TAAAAAAA
1 TAAAAAAA
22014463 TAAAAAAA
1 TAAAAAAA
22014471 TAA
1 TAA
22014474 TCTGTGGTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (8 bp):
TAAAAAAA
Found at i:22022953 original size:50 final size:51
Alignment explanation
Indices: 22022851--22022956 Score: 124
Period size: 50 Copynumber: 2.1 Consensus size: 51
22022841 AATAAAACCA
* * *
22022851 CATAAATACTTACCTATATAACCGAAAATATATAAGATCCAATATATCATCT
1 CATAAAAACTTACCTATATAACC-AAAATACACAAGATCCAATATATCATCT
* * * * *
22022903 CATAAAAACTTACCTATATAGCC-AAATACACAAGGTTCATTATATTATCT
1 CATAAAAACTTACCTATATAACCAAAATACACAAGATCCAATATATCATCT
22022953 CATA
1 CATA
22022957 TGGCCGAATA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
50 25 0.54
52 21 0.46
ACGTcount: A:0.44, C:0.20, G:0.05, T:0.31
Consensus pattern (51 bp):
CATAAAAACTTACCTATATAACCAAAATACACAAGATCCAATATATCATCT
Found at i:22023063 original size:70 final size:70
Alignment explanation
Indices: 22022924--22023084 Score: 171
Period size: 70 Copynumber: 2.3 Consensus size: 70
22022914 ACCTATATAG
* * * * * * *
22022924 CCAAATACACAAGGTTCATTATATTATCTCATATGGCCGAATATATAAGTTCAAATTATCATCAC
1 CCAAATATACAA-GTTCAATAAAATATCTCATATGGCCGAATATACAAATTCAAATTAACATCAC
22022989 ATGTAA
65 ATGTAA
* * * * * *
22022995 CCTAATGTTCAAGTTCAATAAAATATCTCATATGGCTGAATATACAAATTC-AATATAACCTCAT
1 CCAAATATACAAGTTCAATAAAATATCTCATATGGCCGAATATACAAATTCAAAT-TAACATCAC
22023059 ATGTAA
65 ATGTAA
*
22023065 TCAAATATACAAGTTCAATA
1 CCAAATATACAAGTTCAATA
22023085 TAACTTCACA
Statistics
Matches: 72, Mismatches: 17, Indels: 3
0.78 0.18 0.03
Matches are distributed among these distances:
69 3 0.04
70 61 0.85
71 8 0.11
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.32
Consensus pattern (70 bp):
CCAAATATACAAGTTCAATAAAATATCTCATATGGCCGAATATACAAATTCAAATTAACATCACA
TGTAA
Found at i:22023107 original size:35 final size:35
Alignment explanation
Indices: 22023032--22023125 Score: 98
Period size: 35 Copynumber: 2.7 Consensus size: 35
22023022 TCATATGGCT
* * * *
22023032 GAATATACAAATTCAATATAACCTCATATGTAATC
1 GAATATACAAATTCAATATAACCTCACAAGCAACC
* * * *
22023067 AAATATACAAGTTCAATATAACTTCACAAGCAGCC
1 GAATATACAAATTCAATATAACCTCACAAGCAACC
* *
22023102 GAATATACAAACTCAATATGACCT
1 GAATATACAAATTCAATATAACCT
22023126 TACATGTACA
Statistics
Matches: 46, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
35 46 1.00
ACGTcount: A:0.46, C:0.20, G:0.07, T:0.27
Consensus pattern (35 bp):
GAATATACAAATTCAATATAACCTCACAAGCAACC
Found at i:22030968 original size:46 final size:44
Alignment explanation
Indices: 22030864--22030971 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
22030854 TGTCTTTGAC
** * * *
22030864 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
22030908 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
22030954 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
22030972 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:22032554 original size:19 final size:18
Alignment explanation
Indices: 22032511--22032555 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
22032501 GAAAGGCTGA
*
22032511 GAAAGAAAAGGGAATTGG
1 GAAAGAAAAGGGAATGGG
22032529 GAAAGAAAAGGGAATCGGG
1 GAAAGAAAAGGGAAT-GGG
*
22032548 GAGAGAAA
1 GAAAGAAA
22032556 TAGAAGTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.51, C:0.02, G:0.40, T:0.07
Consensus pattern (18 bp):
GAAAGAAAAGGGAATGGG
Found at i:22032780 original size:38 final size:40
Alignment explanation
Indices: 22032711--22032811 Score: 136
Period size: 38 Copynumber: 2.6 Consensus size: 40
22032701 ATAAATTACT
*
22032711 TTTTGCGGCGTTTTTATCATAAACACTGCTATTGA-TTGCC
1 TTTTGCGGCGTTTTTATCATAAACACCGCTATT-ACTTGCC
* * *
22032751 TTTTGTGGCG-TTTTAT-ATAAACGCCGCTATTACTTGTC
1 TTTTGCGGCGTTTTTATCATAAACACCGCTATTACTTGCC
22032789 TTTTGCGGCGTTTTTATCATAAA
1 TTTTGCGGCGTTTTTATCATAAA
22032812 TGCTGCTAAT
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
37 1 0.02
38 26 0.49
39 12 0.23
40 14 0.26
ACGTcount: A:0.20, C:0.18, G:0.18, T:0.45
Consensus pattern (40 bp):
TTTTGCGGCGTTTTTATCATAAACACCGCTATTACTTGCC
Found at i:22032832 original size:40 final size:40
Alignment explanation
Indices: 22032706--22032832 Score: 120
Period size: 40 Copynumber: 3.2 Consensus size: 40
22032696 TTAAAATAAA
*
22032706 TTACTTTTTGCGGCGTTTTTATCATAAACACTGCTATTGA-T
1 TTAC-TTTTGCGGCGTTTTTATCATAAACGCTGCTATT-ATT
** * *
22032747 TGCCTTTTGTGGCG-TTTTAT-ATAAACGCCGCTATTACTT
1 TTACTTTTGCGGCGTTTTTATCATAAACGCTGCTATTA-TT
* *
22032786 GT-CTTTTGCGGCGTTTTTATCATAAATGCTGCTAATT-TT
1 TTACTTTTGCGGCGTTTTTATCATAAACGCTGCT-ATTATT
22032825 TTACTTTT
1 TTACTTTT
22032833 TTATAATTTT
Statistics
Matches: 69, Mismatches: 11, Indels: 13
0.74 0.12 0.14
Matches are distributed among these distances:
37 1 0.01
38 23 0.33
39 16 0.23
40 24 0.35
41 5 0.07
ACGTcount: A:0.19, C:0.17, G:0.16, T:0.48
Consensus pattern (40 bp):
TTACTTTTGCGGCGTTTTTATCATAAACGCTGCTATTATT
Found at i:22032855 original size:22 final size:21
Alignment explanation
Indices: 22032830--22032887 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 21
22032820 ATTTTTTACT
22032830 TTTTTATAATTTTTATATTGAA
1 TTTTTATAATTTTTATATT-AA
22032852 TTTTTAT-ATCTTTTATATTAA
1 TTTTTATAAT-TTTTATATTAA
*
22032873 TTTTAAATAATTTTT
1 TTTT-TATAATTTTT
22032888 TTTAAAAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
21 8 0.25
22 22 0.69
23 2 0.06
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (21 bp):
TTTTTATAATTTTTATATTAA
Found at i:22033475 original size:14 final size:14
Alignment explanation
Indices: 22033456--22033522 Score: 89
Period size: 14 Copynumber: 4.7 Consensus size: 14
22033446 CCAGAAAAGT
22033456 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
22033470 AAATCATTTTTCAAG
1 AAATCA-TTTTCCAG
*
22033485 AAATTATTTTCCAG
1 AAATCATTTTCCAG
*
22033499 AAATCATTTTCCAA
1 AAATCATTTTCCAG
*
22033513 AAAACATTTT
1 AAATCATTTT
22033523 ACCTGCAAAC
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
14 34 0.74
15 12 0.26
ACGTcount: A:0.40, C:0.16, G:0.04, T:0.39
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:22033696 original size:14 final size:14
Alignment explanation
Indices: 22033677--22033724 Score: 78
Period size: 14 Copynumber: 3.4 Consensus size: 14
22033667 ACCCTTAAAT
22033677 CCCTAACCCATAAC
1 CCCTAACCCATAAC
22033691 CCCTAACCCATAAC
1 CCCTAACCCATAAC
*
22033705 CCCTAACCCCTAAC
1 CCCTAACCCATAAC
*
22033719 ACCTAA
1 CCCTAA
22033725 ACCTTAAACC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.35, C:0.50, G:0.00, T:0.15
Consensus pattern (14 bp):
CCCTAACCCATAAC
Found at i:22033718 original size:28 final size:29
Alignment explanation
Indices: 22033672--22033741 Score: 81
Period size: 28 Copynumber: 2.5 Consensus size: 29
22033662 ACATAACCCT
* * *
22033672 TAAATCCCTAACCCATAACCCCTAACCCA
1 TAAACCCCTAACCCATAACACCTAAACCA
* *
22033701 T-AACCCCTAACCCCTAACACCTAAACCT
1 TAAACCCCTAACCCATAACACCTAAACCA
22033729 TAAACCCC-AACCC
1 TAAACCCCTAACCC
22033742 TTAAACCATA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
28 28 0.80
29 7 0.20
ACGTcount: A:0.37, C:0.47, G:0.00, T:0.16
Consensus pattern (29 bp):
TAAACCCCTAACCCATAACACCTAAACCA
Found at i:22033748 original size:14 final size:13
Alignment explanation
Indices: 22033666--22033745 Score: 52
Period size: 14 Copynumber: 5.7 Consensus size: 13
22033656 CATACAACAT
*
22033666 AACCCTTAAATCCCT
1 AACCCTT-AA-CCCC
*
22033681 AACCCATAACCCC
1 AACCCTTAACCCC
*
22033694 TAACCCATAACCCC
1 -AACCCTTAACCCC
* *
22033708 TAACCCCTAACACCT
1 -AACCCTTAAC-CCC
*
22033723 AAACCTTAAACCCC
1 AACCCTT-AACCCC
22033737 AACCCTTAA
1 AACCCTTAA
22033746 ACCATAAATT
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
13 5 0.09
14 38 0.70
15 11 0.20
ACGTcount: A:0.38, C:0.45, G:0.00, T:0.17
Consensus pattern (13 bp):
AACCCTTAACCCC
Found at i:22033753 original size:21 final size:20
Alignment explanation
Indices: 22033663--22033752 Score: 74
Period size: 21 Copynumber: 4.2 Consensus size: 20
22033653 AATCATACAA
* *
22033663 CATAACCCTTAAATCCCTAACC
1 CATAACCCCT-AA-CCCTAAAC
*
22033685 CATAACCCCTAACCCATAACC
1 CATAACCCCTAACCC-TAAAC
*
22033706 CCTAACCCCTAACACCTAAAC
1 CATAACCCCTAAC-CCTAAAC
*
22033727 CTTAAACCCC-AACCCTTAAAC
1 CAT-AACCCCTAACCC-TAAAC
22033748 CATAA
1 CATAA
22033753 ATTGTAAACC
Statistics
Matches: 59, Mismatches: 5, Indels: 10
0.80 0.07 0.14
Matches are distributed among these distances:
20 7 0.12
21 35 0.59
22 17 0.29
ACGTcount: A:0.39, C:0.43, G:0.00, T:0.18
Consensus pattern (20 bp):
CATAACCCCTAACCCTAAAC
Found at i:22033771 original size:7 final size:7
Alignment explanation
Indices: 22033761--22033795 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
22033751 AAATTGTAAA
22033761 CCATAAT
1 CCATAAT
*
22033768 CCATAAAC
1 CCAT-AAT
22033776 CCATAAT
1 CCATAAT
22033783 CCATAAT
1 CCATAAT
22033790 CCATAA
1 CCATAA
22033796 ACCTTAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 19 0.76
8 6 0.24
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (7 bp):
CCATAAT
Found at i:22033781 original size:15 final size:14
Alignment explanation
Indices: 22033757--22033795 Score: 60
Period size: 15 Copynumber: 2.7 Consensus size: 14
22033747 CCATAAATTG
22033757 TAAACCATAATCCA
1 TAAACCATAATCCA
22033771 TAAACCCATAATCCA
1 TAAA-CCATAATCCA
*
22033786 TAATCCATAA
1 TAAACCATAA
22033796 ACCTTAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.23
Consensus pattern (14 bp):
TAAACCATAATCCA
Found at i:22034108 original size:24 final size:24
Alignment explanation
Indices: 22034081--22034129 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
22034071 TTAAAATAAC
*
22034081 AATTAATTTTTATATAGACTTTTA
1 AATTAATTTTTATATAAACTTTTA
22034105 AATTAATTTTTATATAAACTTTTA
1 AATTAATTTTTATATAAACTTTTA
22034129 A
1 A
22034130 TAAATATACG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (24 bp):
AATTAATTTTTATATAAACTTTTA
Found at i:22034803 original size:41 final size:41
Alignment explanation
Indices: 22034746--22035007 Score: 425
Period size: 41 Copynumber: 6.4 Consensus size: 41
22034736 AGTTATATGA
22034746 CTTTTAGCGGCGTTTTACCAAAAGCGCCACTAATGCTCTGT
1 CTTTTAGCGGCGTTTTACCAAAAGCGCCACTAATGCTCTGT
* *
22034787 CTTTTAGCGGCGTTTTACCAAAAGCGCCACTACTACTCTGT
1 CTTTTAGCGGCGTTTTACCAAAAGCGCCACTAATGCTCTGT
* *
22034828 CTTTTAGCAGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
1 CTTTTAGCGGCGTTTTACCAAAAGCGCCACTAATGCTCTGT
*
22034869 CTTTTAGCGGCGTTTTACCAAAAGCGCCACTATTGCTCTGT
1 CTTTTAGCGGCGTTTTACCAAAAGCGCCACTAATGCTCTGT
* *
22034910 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAAAGCTCTGT
1 CTTTTAGCGGCGTTTTACCAAAAGCGCCACTAATGCTCTGT
* * * *
22034951 CTTTTAGCGGCATTTTACCAAAAGCGCCGCTAAAGCTCTGC
1 CTTTTAGCGGCGTTTTACCAAAAGCGCCACTAATGCTCTGT
22034992 CTTTTAGCGGCGTTTT
1 CTTTTAGCGGCGTTTT
22035008 TGGTAAAACG
Statistics
Matches: 206, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 206 1.00
ACGTcount: A:0.21, C:0.27, G:0.20, T:0.32
Consensus pattern (41 bp):
CTTTTAGCGGCGTTTTACCAAAAGCGCCACTAATGCTCTGT
Found at i:22036457 original size:54 final size:54
Alignment explanation
Indices: 22036375--22036483 Score: 175
Period size: 54 Copynumber: 2.0 Consensus size: 54
22036365 AAAGTATGCA
*
22036375 AGCAGTAAAAGCGCCATCAGACATTAACAGGAATCAAAGGAATCAAGAAGACAT
1 AGCAGTAAAAGCGCCATCAGACATTAACAGGAATCAAAGAAATCAAGAAGACAT
* *
22036429 AGCAGTAAAAG-GTCCATCATACATTAACATGAATCAAAGAAATCAAGAAGACAT
1 AGCAGTAAAAGCG-CCATCAGACATTAACAGGAATCAAAGAAATCAAGAAGACAT
22036483 A
1 A
22036484 CTGAGAATGC
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
53 1 0.02
54 50 0.98
ACGTcount: A:0.50, C:0.17, G:0.17, T:0.16
Consensus pattern (54 bp):
AGCAGTAAAAGCGCCATCAGACATTAACAGGAATCAAAGAAATCAAGAAGACAT
Found at i:22041726 original size:31 final size:31
Alignment explanation
Indices: 22041691--22041761 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
22041681 GTATCAAATT
*
22041691 TTCATATTTATATGA-TCATACCATGTATTCA
1 TTCATATTT-TATGATTCATACCATGTAATCA
* *
22041722 TTCATATTTTATTATTCATACCCTGTAATCA
1 TTCATATTTTATGATTCATACCATGTAATCA
22041753 TTCATATTT
1 TTCATATTT
22041762 GCACATTTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
30 4 0.11
31 32 0.89
ACGTcount: A:0.30, C:0.17, G:0.04, T:0.49
Consensus pattern (31 bp):
TTCATATTTTATGATTCATACCATGTAATCA
Found at i:22046968 original size:18 final size:18
Alignment explanation
Indices: 22046947--22047003 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 18
22046937 TTTTTTAAAA
22046947 TATAAAT-TTTAGAATTTT
1 TATAAATATTT-GAATTTT
22046965 TATAAATATTCTGAATTTT
1 TATAAATATT-TGAATTTT
* *
22046984 AAAAAATATTTTGAATTTT
1 TATAAATA-TTTGAATTTT
22047003 T
1 T
22047004 GGTTACGAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
18 7 0.21
19 23 0.70
20 3 0.09
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (18 bp):
TATAAATATTTGAATTTT
Found at i:22046982 original size:19 final size:19
Alignment explanation
Indices: 22046958--22047003 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
22046948 ATAAATTTTA
*
22046958 GAATTTTTATAAATATTCT
1 GAATTTTTAAAAATATTCT
* *
22046977 GAATTTTAAAAAATATTTT
1 GAATTTTTAAAAATATTCT
22046996 GAATTTTT
1 GAATTTTT
22047004 GGTTACGAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.52
Consensus pattern (19 bp):
GAATTTTTAAAAATATTCT
Found at i:22047767 original size:22 final size:23
Alignment explanation
Indices: 22047742--22047785 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
22047732 TATTATTATC
22047742 AATACAACAAAATATA-AATTTG
1 AATACAACAAAATATATAATTTG
* **
22047764 AATATATTAAAATATATAATTT
1 AATACAACAAAATATATAATTT
22047786 TTTTATTTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (23 bp):
AATACAACAAAATATATAATTTG
Found at i:22050317 original size:73 final size:74
Alignment explanation
Indices: 22050168--22050324 Score: 291
Period size: 73 Copynumber: 2.1 Consensus size: 74
22050158 GTTAACGATT
22050168 TAATAA-AATTTAGACAAATTTGATGAAAAATTGATCATAAAATTAAACACAAAAAGTTATTATT
1 TAATAATAA-TTAGACAAATTTGATGAAAAATTGATCATAAAATTAAACACAAAAAGTTATTATT
22050232 ATTAAATTAA
65 ATTAAATTAA
22050242 TAATAATAATTAGACAAATTTGATGAAAAATTGATCAT-AAATTAAACACAAAAAGTTATTATTA
1 TAATAATAATTAGACAAATTTGATGAAAAATTGATCATAAAATTAAACACAAAAAGTTATTATTA
22050306 TTAAATTAA
66 TTAAATTAA
22050315 TAATAATAAT
1 TAATAATAAT
22050325 AGCATGAGAG
Statistics
Matches: 82, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
73 45 0.55
74 35 0.43
75 2 0.02
ACGTcount: A:0.54, C:0.05, G:0.06, T:0.34
Consensus pattern (74 bp):
TAATAATAATTAGACAAATTTGATGAAAAATTGATCATAAAATTAAACACAAAAAGTTATTATTA
TTAAATTAA
Found at i:22052163 original size:29 final size:29
Alignment explanation
Indices: 22052112--22052168 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 29
22052102 GATTTTAGTT
22052112 TTTAAAATATATTGGTTTTTTCACTTTCATC
1 TTTAAAATATATT-GTTTTTTCA-TTTCATC
22052143 TTTAAAATAT-TT-TTTTATTCATTTCA
1 TTTAAAATATATTGTTTT-TTCATTTCA
22052169 GTCCCTAACG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
28 9 0.36
29 4 0.16
30 2 0.08
31 10 0.40
ACGTcount: A:0.28, C:0.11, G:0.04, T:0.58
Consensus pattern (29 bp):
TTTAAAATATATTGTTTTTTCATTTCATC
Found at i:22053040 original size:2 final size:2
Alignment explanation
Indices: 22053033--22053063 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
22053023 CTAATAACCG
22053033 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22053064 TAAGTTTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22055999 original size:7 final size:7
Alignment explanation
Indices: 22055987--22056013 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
22055977 TATAATGACT
22055987 AAACTTG
1 AAACTTG
22055994 AAACTTG
1 AAACTTG
22056001 AAACTTG
1 AAACTTG
22056008 AAACTT
1 AAACTT
22056014 ACCATTATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.11, T:0.30
Consensus pattern (7 bp):
AAACTTG
Found at i:22056231 original size:29 final size:29
Alignment explanation
Indices: 22056189--22056247 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
22056179 CATATAAAAT
*
22056189 TTAATTGAAATAATATTAATTATTTGGAC
1 TTAATTGAAATAATATTAATTATTTCGAC
22056218 TTAATTGAAATAATATTAATTATTTCGAC
1 TTAATTGAAATAATATTAATTATTTCGAC
22056247 T
1 T
22056248 AATACTATTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.46
Consensus pattern (29 bp):
TTAATTGAAATAATATTAATTATTTCGAC
Found at i:22057687 original size:12 final size:13
Alignment explanation
Indices: 22057671--22057745 Score: 50
Period size: 12 Copynumber: 5.8 Consensus size: 13
22057661 ATTTAATAAA
22057671 ATAATATATAATT
1 ATAATATATAATT
*
22057684 -TAATA-ATTATT
1 ATAATATATAATT
*
22057695 ATAATAT-GAATT
1 ATAATATATAATT
*
22057707 A-AAAATCATAATAT
1 ATAATAT-ATAAT-T
**
22057721 ATAATATTATAAAA
1 ATAATA-TATAATT
22057735 ATAATATATAA
1 ATAATATATAA
22057746 CCTACTTTAA
Statistics
Matches: 47, Mismatches: 8, Indels: 14
0.68 0.12 0.20
Matches are distributed among these distances:
11 9 0.19
12 14 0.30
13 8 0.17
14 8 0.17
15 7 0.15
16 1 0.02
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (13 bp):
ATAATATATAATT
Done.