Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12
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: 24583705
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1509421 characters in sequence are not A, C, G, or T
File 33 of 75
Found at i:10368436 original size:34 final size:34
Alignment explanation
Indices: 10368366--10368511 Score: 159
Period size: 34 Copynumber: 4.3 Consensus size: 34
10368356 AATTGATTGA
* * * *
10368366 TTATAAGTATATTATTTGTTACTGTA-TCGATCTG
1 TTATAAGCATATTAATTGCTACCGTACT-GATCTG
* *
10368400 TTATAAGCATATTAATTACTACCGTACTGATTTG
1 TTATAAGCATATTAATTGCTACCGTACTGATCTG
* * *
10368434 TTATAAGCATATTAATTGCGACCGTATTGATCTA
1 TTATAAGCATATTAATTGCTACCGTACTGATCTG
* * *
10368468 TTATATGCATATAAATTGCTACCATACTGATCTG
1 TTATAAGCATATTAATTGCTACCGTACTGATCTG
*
10368502 TAATAAGCAT
1 TTATAAGCAT
10368512 GTCATATTGC
Statistics
Matches: 92, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
34 91 0.99
35 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.41
Consensus pattern (34 bp):
TTATAAGCATATTAATTGCTACCGTACTGATCTG
Found at i:10368674 original size:45 final size:44
Alignment explanation
Indices: 10368618--10368813 Score: 153
Period size: 45 Copynumber: 4.4 Consensus size: 44
10368608 TATCTGCAAA
* * *
10368618 TTTGGTGTGCATCCACAGCCAAAGGTAGATTCTATCTACGGAATT
1 TTTGTTGTGTATCCACAGCCAAAGATAGATTCTATCTACGGAA-T
* * * * *
10368663 TTTGTTGTGCATCCACAGCCAGAGGT-GAATTCTATCTGCGGGAT
1 TTTGTTGTGTATCCACAGCCAAAGATAG-ATTCTATCTACGGAAT
* * * * * * *
10368707 TTTGCTGCGTATTCACAGCCAAAGATAAATTTTATTTGC-GAGAT
1 TTTGTTGTGTATCCACAGCCAAAGATAGATTCTATCTACGGA-AT
* * * * * *
10368751 TTTTTCTATGTACCCATAGCCAGAGATAGATTCTATCTACGGGAT
1 TTTGT-TGTGTATCCACAGCCAAAGATAGATTCTATCTACGGAAT
10368796 TTTGTTGTGTATCCACAG
1 TTTGTTGTGTATCCACAG
10368814 TCATTGGCAG
Statistics
Matches: 115, Mismatches: 31, Indels: 11
0.73 0.20 0.07
Matches are distributed among these distances:
43 1 0.01
44 46 0.40
45 67 0.58
46 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (44 bp):
TTTGTTGTGTATCCACAGCCAAAGATAGATTCTATCTACGGAAT
Found at i:10369957 original size:31 final size:31
Alignment explanation
Indices: 10369891--10369957 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 31
10369881 ATAATTTTTT
*
10369891 TAATTTAGGTAAAAAACACTTATCCCCTTCA
1 TAATTTAGGTAAAAAACACTTATCCACTTCA
* * *
10369922 -AATTTTGTGTAAAATACATTTATCCACTT-A
1 TAATTTAG-GTAAAAAACACTTATCCACTTCA
10369952 TAATTT
1 TAATTT
10369958 CAAGAATTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
30 7 0.23
31 23 0.77
ACGTcount: A:0.37, C:0.16, G:0.06, T:0.40
Consensus pattern (31 bp):
TAATTTAGGTAAAAAACACTTATCCACTTCA
Found at i:10374751 original size:62 final size:63
Alignment explanation
Indices: 10374670--10374797 Score: 249
Period size: 62 Copynumber: 2.0 Consensus size: 63
10374660 ACATCTTCAA
10374670 AGTTTATATTTATAGATATAATAAATATATATGATATGAAATTCTATTTCTAATGACTATTAG
1 AGTTTATATTTATAGATATAATAAATATATATGATATGAAATTCTATTTCTAATGACTATTAG
10374733 AGTTTATATTTA-AGATATAATAAATATATATGATATGAAATTCTATTTCTAATGACTATTAG
1 AGTTTATATTTATAGATATAATAAATATATATGATATGAAATTCTATTTCTAATGACTATTAG
10374795 AGT
1 AGT
10374798 CCTAACATAC
Statistics
Matches: 65, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
62 53 0.82
63 12 0.18
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (63 bp):
AGTTTATATTTATAGATATAATAAATATATATGATATGAAATTCTATTTCTAATGACTATTAG
Found at i:10376394 original size:96 final size:96
Alignment explanation
Indices: 10376222--10376436 Score: 225
Period size: 96 Copynumber: 2.2 Consensus size: 96
10376212 TTTTTTAGTA
* * * * *
10376222 AAAAATTAATTAAATTAGGGTTTAGGGTTACTTGAGTAATTTAATTAAAAATTATTTAAAAGTCA
1 AAAAATTAAATAAATTAGGGTTCAAGGTTACTTGAGTAAATTAATTAAAAATTATTTAAAAATCA
* *
10376287 GATAAGGGTTTAGAGTTAAGGGTTTTTAAGG
66 GATAAGAGTTTAGAGTTAAGGGTTTTAAAGG
** * *
10376318 AAAAATTAAATAAATTAGGGTTCAAGGTTACTTGAGTAAATTAATT-GTAATTTTTTATAAAATT
1 AAAAATTAAATAAATTAGGGTTCAAGGTTACTTGAGTAAATTAATTAAAAATTATTTA-AAAATC
** ** * * *
10376382 TTATTCGAGTTTAGTGTTTAGGGTTTTAAAGT
65 AGATAAGAGTTTAGAGTTAAGGGTTTTAAAGG
* *
10376414 AAAAACTCAAATAAATTAAGGTT
1 AAAAA-TTAAATAAATTAGGGTT
10376437 TAGGGTTTAG
Statistics
Matches: 97, Mismatches: 20, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
95 8 0.08
96 74 0.76
97 15 0.15
ACGTcount: A:0.40, C:0.03, G:0.18, T:0.39
Consensus pattern (96 bp):
AAAAATTAAATAAATTAGGGTTCAAGGTTACTTGAGTAAATTAATTAAAAATTATTTAAAAATCA
GATAAGAGTTTAGAGTTAAGGGTTTTAAAGG
Found at i:10376713 original size:126 final size:126
Alignment explanation
Indices: 10376480--10376766 Score: 432
Period size: 126 Copynumber: 2.3 Consensus size: 126
10376470 TAATTTAAAG
* * *
10376480 AAGCTCCCACGTGGATGCTCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCAAGTATACATTT
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCAAGTAGACATTT
* * * *
10376545 CTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATTCTTTGTCAGCAGAAGTACTGAAAA
66 CTAAGCAAATAGTGTCAAAAACACTTTAAGCAAGATTCTTTGTCAGCAAAAGTACTGAAAA
* * * * *
10376606 AAGCTCCCAAGTGGACGCGCTTTTGCTACAATAGCTCTTGAAAAAATAATTTCGAGTAGACGTTT
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCAAGTAGACATTT
*
10376671 CTAAGCAAATAGTGTCAAAAACACTTTAAGCAAGATGT-TTTGTCAGCAAAAGTACTGAAAG
66 CTAAGCAAATAGTGTCAAAAACACTTTAAGCAAGAT-TCTTTGTCAGCAAAAGTACTGAAAA
*
10376732 AAGCTCCCACGTGGACGCGCTTTTACTACAGTAGC
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGC
10376767 GCATGTTTGG
Statistics
Matches: 144, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
126 143 0.99
127 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (126 bp):
AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCAAGTAGACATTT
CTAAGCAAATAGTGTCAAAAACACTTTAAGCAAGATTCTTTGTCAGCAAAAGTACTGAAAA
Found at i:10380152 original size:21 final size:21
Alignment explanation
Indices: 10380128--10380168 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
10380118 CAGCTTCTGG
* *
10380128 CGGGGGTTGTGGTTGCTCCGC
1 CGGGGATTGTGGTTCCTCCGC
*
10380149 CGGGGATTTTGGTTCCTCCG
1 CGGGGATTGTGGTTCCTCCG
10380169 GTAGGCGATC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.02, C:0.24, G:0.41, T:0.32
Consensus pattern (21 bp):
CGGGGATTGTGGTTCCTCCGC
Found at i:10398557 original size:25 final size:25
Alignment explanation
Indices: 10398529--10398577 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
10398519 TACAATCTAT
* *
10398529 CTATAGTAGTCTCAGTATATACTAC
1 CTATAGCAGTCTCAATATATACTAC
*
10398554 CTATAGCAGTTTCAATATATACTA
1 CTATAGCAGTCTCAATATATACTA
10398578 TCAAAAACAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (25 bp):
CTATAGCAGTCTCAATATATACTAC
Found at i:10399220 original size:40 final size:42
Alignment explanation
Indices: 10399176--10399256 Score: 103
Period size: 40 Copynumber: 2.0 Consensus size: 42
10399166 GGATAAAACA
*
10399176 AGAAAATGCTTCCTCAAGGAAGCG-TTT-TGTCCACGTGGAT
1 AGAAAACGCTTCCTCAAGGAAGCGCTTTGTGTCCACGTGGAT
** **
10399216 AGAAAACGCTTCCTTGAGGGTGCGCTTTGTGTCCACGTGGA
1 AGAAAACGCTTCCTCAAGGAAGCGCTTTGTGTCCACGTGGA
10399257 CAAAGCGCTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
40 19 0.56
41 3 0.09
42 12 0.35
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.27
Consensus pattern (42 bp):
AGAAAACGCTTCCTCAAGGAAGCGCTTTGTGTCCACGTGGAT
Found at i:10399575 original size:97 final size:95
Alignment explanation
Indices: 10399359--10399669 Score: 444
Period size: 97 Copynumber: 3.2 Consensus size: 95
10399349 ATTTTAGGGC
* * * * * *
10399359 TTTAAGGAAAAAATTAAATAAATAAGGGTTTAGGGTTTCTTAATTAAATTAATTATAAATTTTAA
1 TTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTAAA
*
10399424 AAAATTAGATTAGGGTTTAGCGTTTATGGTT
66 AAAATTAGATTAGGGTTTAGTGTTTA-GGTT
* * *
10399455 TTTAAGGAAAAACTCAAACAAATTAGGGTTTAGGGTTACTTGAGTAAATTAAGTATAAATTTAAA
1 TTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTT-AA
*
10399520 AAAAATTAGATTAGGATTTAGTGTTTAGGTTT
65 AAAAATTAGATTAGGGTTTAGTGTTTAGG-TT
*
10399552 TTTAAGGAAAAAATAAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTAA
1 TTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAA-TTTAA
* *
10399617 AAAAATTAGATTGGGGTTTAGTATTTAAGGTT
65 AAAAATTAGATTAGGGTTTAGTGTTT-AGGTT
10399649 TTTAAGG-AAAAATCAAATAAA
1 TTTAAGGAAAAAATCAAATAAA
10399670 GGTAGTTGTT
Statistics
Matches: 192, Mismatches: 19, Indels: 8
0.88 0.09 0.04
Matches are distributed among these distances:
96 69 0.36
97 117 0.61
98 6 0.03
ACGTcount: A:0.43, C:0.03, G:0.17, T:0.37
Consensus pattern (95 bp):
TTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTAAA
AAAATTAGATTAGGGTTTAGTGTTTAGGTT
Found at i:10399758 original size:19 final size:19
Alignment explanation
Indices: 10399718--10399758 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
10399708 AAAAATAAAC
*
10399718 TAATAAAATTAAATGTTTT
1 TAATAAAATTAAATGTTAT
10399737 TAATAACAATTAAAT-TTAT
1 TAATAA-AATTAAATGTTAT
10399756 TAA
1 TAA
10399759 AAGAATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (19 bp):
TAATAAAATTAAATGTTAT
Found at i:10405548 original size:17 final size:17
Alignment explanation
Indices: 10405526--10405564 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
10405516 GTCTCAGCCA
*
10405526 TGTGAATCACACGGTCG
1 TGTGAATCACACGGCCG
*
10405543 TGTGAATCACACTGCCG
1 TGTGAATCACACGGCCG
10405560 TGTGA
1 TGTGA
10405565 CCCCTGCAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (17 bp):
TGTGAATCACACGGCCG
Found at i:10411428 original size:20 final size:20
Alignment explanation
Indices: 10411403--10411447 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
10411393 TTTATATTAC
10411403 TTATATTGTTTCATTAAAAA
1 TTATATTGTTTCATTAAAAA
* *
10411423 TTATATTGTTTGATTAGAAA
1 TTATATTGTTTCATTAAAAA
10411443 TTATA
1 TTATA
10411448 ATTAACACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.38, C:0.02, G:0.09, T:0.51
Consensus pattern (20 bp):
TTATATTGTTTCATTAAAAA
Found at i:10413776 original size:16 final size:16
Alignment explanation
Indices: 10413755--10413806 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
10413745 TAAATTATTG
10413755 ATTACAACTTTATTCC
1 ATTACAACTTTATTCC
* * *
10413771 ATTACAGCTCTATTCA
1 ATTACAACTTTATTCC
*
10413787 ATTAC-AGTTCTATTCC
1 ATTACAACTT-TATTCC
10413803 ATTA
1 ATTA
10413807 TAGTGAACCA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
15 1 0.04
16 27 0.96
ACGTcount: A:0.31, C:0.23, G:0.04, T:0.42
Consensus pattern (16 bp):
ATTACAACTTTATTCC
Found at i:10415143 original size:28 final size:28
Alignment explanation
Indices: 10415109--10415169 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
10415099 CTACTTGTAC
10415109 GAACCTATGTGCAACCCCCCTTAGGTGT
1 GAACCTATGTGCAACCCCCCTTAGGTGT
*
10415137 GAACCTATGTGCGACCCCCCTTAGGTGT
1 GAACCTATGTGCAACCCCCCTTAGGTGT
*
10415165 AAACC
1 GAACC
10415170 CCTAACTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.23, C:0.33, G:0.21, T:0.23
Consensus pattern (28 bp):
GAACCTATGTGCAACCCCCCTTAGGTGT
Found at i:10415220 original size:34 final size:34
Alignment explanation
Indices: 10415182--10415285 Score: 138
Period size: 34 Copynumber: 3.1 Consensus size: 34
10415172 TAACTATGCA
*
10415182 AGCTTATATGTTATACGAACCCTAGGAATGTGCG
1 AGCTTATATGTTATGCGAACCCTAGGAATGTGCG
* * *
10415216 AGCTTATATGTTATGCGAAGCCTAGGAATATGTG
1 AGCTTATATGTTATGCGAACCCTAGGAATGTGCG
* * *
10415250 AGCCTCTATG-TATGTGAACCCTAGGAATGTGCG
1 AGCTTATATGTTATGCGAACCCTAGGAATGTGCG
10415283 AGC
1 AGC
10415286 CTACATGCGA
Statistics
Matches: 60, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
33 22 0.37
34 38 0.63
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (34 bp):
AGCTTATATGTTATGCGAACCCTAGGAATGTGCG
Found at i:10416533 original size:21 final size:21
Alignment explanation
Indices: 10416507--10416553 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
10416497 AATACTAGTG
10416507 ATGTTACTAAAATGAAATATA
1 ATGTTACTAAAATGAAATATA
* *
10416528 ATGTTACTATAATGGAATATA
1 ATGTTACTAAAATGAAATATA
10416549 ATGTT
1 ATGTT
10416554 GGATATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.45, C:0.04, G:0.13, T:0.38
Consensus pattern (21 bp):
ATGTTACTAAAATGAAATATA
Found at i:10420664 original size:30 final size:30
Alignment explanation
Indices: 10420619--10420677 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
10420609 CACAATTGTG
10420619 TTAAACGAAGGTCGAAACCATCTATTTTCT
1 TTAAACGAAGGTCGAAACCATCTATTTTCT
* *
10420649 TTAATCGATGGTCGAAACCATCTATTTTC
1 TTAAACGAAGGTCGAAACCATCTATTTTC
10420678 ATATTCGATG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.36
Consensus pattern (30 bp):
TTAAACGAAGGTCGAAACCATCTATTTTCT
Found at i:10420975 original size:69 final size:69
Alignment explanation
Indices: 10420873--10421024 Score: 196
Period size: 69 Copynumber: 2.2 Consensus size: 69
10420863 TATACACTAC
* * *
10420873 CATGGTCCAACCATGGTATTACGTCTAAAAAACTATCATAGCCTCGCTATGGTCTTACGTAAACA
1 CATGGTCCAACCATAGTATTACGTCTAAAAAACTACCATAGCCTCGCTATGGTCTTACATAAACA
10420938 TTGT
66 TTGT
* * * * * *
10420942 CATGGTCCAGCCATAGTCTTGCGTCTGAAAAACTGCCATAGCCTTGCTATGGTCTTACATAAACA
1 CATGGTCCAACCATAGTATTACGTCTAAAAAACTACCATAGCCTCGCTATGGTCTTACATAAACA
*
10421007 TTGC
66 TTGT
* *
10421011 CATAGTGCAACCAT
1 CATGGTCCAACCAT
10421025 GGTTTTGTAT
Statistics
Matches: 70, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (69 bp):
CATGGTCCAACCATAGTATTACGTCTAAAAAACTACCATAGCCTCGCTATGGTCTTACATAAACA
TTGT
Found at i:10432165 original size:9 final size:9
Alignment explanation
Indices: 10432128--10432173 Score: 56
Period size: 9 Copynumber: 5.1 Consensus size: 9
10432118 GGTTGCAAAA
10432128 AGGACGATG
1 AGGACGATG
* *
10432137 ACGATGATG
1 AGGACGATG
*
10432146 ACGACGATG
1 AGGACGATG
10432155 AGGACGATG
1 AGGACGATG
*
10432164 AGGATGATG
1 AGGACGATG
10432173 A
1 A
10432174 TGTTTCTTTG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.35, C:0.11, G:0.39, T:0.15
Consensus pattern (9 bp):
AGGACGATG
Found at i:10432278 original size:39 final size:39
Alignment explanation
Indices: 10432235--10432318 Score: 168
Period size: 39 Copynumber: 2.2 Consensus size: 39
10432225 AATTTAGCTT
10432235 ACAATTTATATTTTGTTATGAAATTAAATATGTTGATGG
1 ACAATTTATATTTTGTTATGAAATTAAATATGTTGATGG
10432274 ACAATTTATATTTTGTTATGAAATTAAATATGTTGATGG
1 ACAATTTATATTTTGTTATGAAATTAAATATGTTGATGG
10432313 ACAATT
1 ACAATT
10432319 ACTTGTATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.37, C:0.04, G:0.14, T:0.45
Consensus pattern (39 bp):
ACAATTTATATTTTGTTATGAAATTAAATATGTTGATGG
Found at i:10432279 original size:20 final size:20
Alignment explanation
Indices: 10432256--10432319 Score: 71
Period size: 20 Copynumber: 3.2 Consensus size: 20
10432246 TTTGTTATGA
10432256 AATTAAATATGTTGATGGAC
1 AATTAAATATGTTGATGGAC
* *
10432276 AATT-TATATTTTGTTAT-GA-
1 AATTAAATATGTTG--ATGGAC
10432295 AATTAAATATGTTGATGGAC
1 AATTAAATATGTTGATGGAC
10432315 AATTA
1 AATTA
10432320 CTTGTATAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
18 2 0.06
19 13 0.37
20 18 0.51
21 2 0.06
ACGTcount: A:0.39, C:0.03, G:0.16, T:0.42
Consensus pattern (20 bp):
AATTAAATATGTTGATGGAC
Found at i:10432298 original size:19 final size:19
Alignment explanation
Indices: 10432237--10432298 Score: 65
Period size: 19 Copynumber: 3.2 Consensus size: 19
10432227 TTTAGCTTAC
10432237 AATTTATATTTTGTTATGA
1 AATTTATATTTTGTTATGA
* *
10432256 AA-TTA-AATATGTTGATGGA
1 AATTTATATTTTGTT-AT-GA
10432275 CAATTTATATTTTGTTATGA
1 -AATTTATATTTTGTTATGA
10432295 AATT
1 AATT
10432299 AAATATGTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
17 6 0.18
18 5 0.15
19 8 0.24
20 4 0.12
21 5 0.15
22 6 0.18
ACGTcount: A:0.35, C:0.02, G:0.13, T:0.50
Consensus pattern (19 bp):
AATTTATATTTTGTTATGA
Found at i:10436275 original size:111 final size:110
Alignment explanation
Indices: 10436143--10436365 Score: 392
Period size: 111 Copynumber: 2.0 Consensus size: 110
10436133 ATGTTTAGCC
10436143 CAAACCCATTTTAAGTCTACCCATTTTATTTTTCCATTTTTTTGAAAAATATTTATATATTTTTT
1 CAAACCCATTTTAAGTCTACCCATTTTATTTTTCCATTTTTTTGAAAAATATTTATAT-TTTTTT
*
10436208 AATTTAATGTTTACTAAACTTATATATTTTCCCTTTATCAAAATTG
65 AATTTAATGTTGACTAAACTTATATATTTTCCCTTTATCAAAATTG
* **
10436254 CAAACCTATTTTAAGTCTACCCATTTTATTTTTTTATTTTTTTGAAAAATATTTATATTTTTTTA
1 CAAACCCATTTTAAGTCTACCCATTTTATTTTTCCATTTTTTTGAAAAATATTTATATTTTTTTA
*
10436319 ATTTAATGTTGACTAAATTTATATATTTTCCCTTTATCAAAATTG
66 ATTTAATGTTGACTAAACTTATATATTTTCCCTTTATCAAAATTG
10436364 CA
1 CA
10436366 TATATGCAAC
Statistics
Matches: 107, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
110 52 0.49
111 55 0.51
ACGTcount: A:0.31, C:0.13, G:0.04, T:0.52
Consensus pattern (110 bp):
CAAACCCATTTTAAGTCTACCCATTTTATTTTTCCATTTTTTTGAAAAATATTTATATTTTTTTA
ATTTAATGTTGACTAAACTTATATATTTTCCCTTTATCAAAATTG
Found at i:10438674 original size:207 final size:207
Alignment explanation
Indices: 10438319--10438723 Score: 810
Period size: 207 Copynumber: 2.0 Consensus size: 207
10438309 AAGCTTACCG
10438319 ACCCTATAGTAGGTCCACAGTCAACTCGGGTGACCCGTGCAACCTTAGCAGTCAAATAGTAAAAA
1 ACCCTATAGTAGGTCCACAGTCAACTCGGGTGACCCGTGCAACCTTAGCAGTCAAATAGTAAAAA
10438384 TGGGCCCATAGGCCCATATTGTATGCCCATGTGGGCCCACACTCTAGTGTGGCCCACACGTCCCA
66 TGGGCCCATAGGCCCATATTGTATGCCCATGTGGGCCCACACTCTAGTGTGGCCCACACGTCCCA
10438449 AAATGGCATTAGCCGTACGGATCACACGATGTGGCCCAATAATCCCACACGCCCGTGTGATTCAC
131 AAATGGCATTAGCCGTACGGATCACACGATGTGGCCCAATAATCCCACACGCCCGTGTGATTCAC
10438514 TCGGTAAGCTTA
196 TCGGTAAGCTTA
10438526 ACCCTATAGTAGGTCCACAGTCAACTCGGGTGACCCGTGCAACCTTAGCAGTCAAATAGTAAAAA
1 ACCCTATAGTAGGTCCACAGTCAACTCGGGTGACCCGTGCAACCTTAGCAGTCAAATAGTAAAAA
10438591 TGGGCCCATAGGCCCATATTGTATGCCCATGTGGGCCCACACTCTAGTGTGGCCCACACGTCCCA
66 TGGGCCCATAGGCCCATATTGTATGCCCATGTGGGCCCACACTCTAGTGTGGCCCACACGTCCCA
10438656 AAATGGCATTAGCCGTACGGATCACACGATGTGGCCCAATAATCCCACACGCCCGTGTGATTCAC
131 AAATGGCATTAGCCGTACGGATCACACGATGTGGCCCAATAATCCCACACGCCCGTGTGATTCAC
10438721 TCG
196 TCG
10438724 TGTGGGGCCC
Statistics
Matches: 198, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
207 198 1.00
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.21
Consensus pattern (207 bp):
ACCCTATAGTAGGTCCACAGTCAACTCGGGTGACCCGTGCAACCTTAGCAGTCAAATAGTAAAAA
TGGGCCCATAGGCCCATATTGTATGCCCATGTGGGCCCACACTCTAGTGTGGCCCACACGTCCCA
AAATGGCATTAGCCGTACGGATCACACGATGTGGCCCAATAATCCCACACGCCCGTGTGATTCAC
TCGGTAAGCTTA
Found at i:10438825 original size:18 final size:18
Alignment explanation
Indices: 10438802--10438843 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
10438792 AGCCTCGTCT
*
10438802 ATCACATGCCCGTGTTCG
1 ATCACAAGCCCGTGTTCG
10438820 ATCACAAGCCCGTGTTCG
1 ATCACAAGCCCGTGTTCG
*
10438838 GTCACA
1 ATCACA
10438844 CGGCCTACTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.21, C:0.33, G:0.21, T:0.24
Consensus pattern (18 bp):
ATCACAAGCCCGTGTTCG
Found at i:10440469 original size:45 final size:45
Alignment explanation
Indices: 10440418--10440598 Score: 362
Period size: 45 Copynumber: 4.0 Consensus size: 45
10440408 GGTGTTTAGT
10440418 TAAAGCATTGTAGCATTTGGTGTTTAACGTCAAACATGTTAACTA
1 TAAAGCATTGTAGCATTTGGTGTTTAACGTCAAACATGTTAACTA
10440463 TAAAGCATTGTAGCATTTGGTGTTTAACGTCAAACATGTTAACTA
1 TAAAGCATTGTAGCATTTGGTGTTTAACGTCAAACATGTTAACTA
10440508 TAAAGCATTGTAGCATTTGGTGTTTAACGTCAAACATGTTAACTA
1 TAAAGCATTGTAGCATTTGGTGTTTAACGTCAAACATGTTAACTA
10440553 TAAAGCATTGTAGCATTTGGTGTTTAACGTCAAACATGTTAACTA
1 TAAAGCATTGTAGCATTTGGTGTTTAACGTCAAACATGTTAACTA
10440598 T
1 T
10440599 CCTTATTTTA
Statistics
Matches: 136, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 136 1.00
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (45 bp):
TAAAGCATTGTAGCATTTGGTGTTTAACGTCAAACATGTTAACTA
Found at i:10444051 original size:5 final size:5
Alignment explanation
Indices: 10444041--10444065 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
10444031 TTTGGTATAT
10444041 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
10444066 AGGTAATTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:10445186 original size:20 final size:20
Alignment explanation
Indices: 10445157--10445194 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
10445147 CTTGTACGAC
*
10445157 ATTTGTACTTCAATGCCCTT
1 ATTTGCACTTCAATGCCCTT
10445177 ATTTGCACTTCAATGCCC
1 ATTTGCACTTCAATGCCC
10445195 CTGCATACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.29, G:0.11, T:0.39
Consensus pattern (20 bp):
ATTTGCACTTCAATGCCCTT
Found at i:10448088 original size:32 final size:32
Alignment explanation
Indices: 10448033--10448096 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
10448023 ATATATTCCT
*
10448033 AGTTCTATATGTCGATGACATTTTGCTTGCCA
1 AGTTCTAGATGTCGATGACATTTTGCTTGCCA
* * *
10448065 AGTTCTAGATGTTGTTGATATTTTGCTTGCCA
1 AGTTCTAGATGTCGATGACATTTTGCTTGCCA
10448097 CTAATGATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.20, C:0.16, G:0.20, T:0.44
Consensus pattern (32 bp):
AGTTCTAGATGTCGATGACATTTTGCTTGCCA
Found at i:10451038 original size:4 final size:4
Alignment explanation
Indices: 10451019--10451054 Score: 54
Period size: 4 Copynumber: 8.8 Consensus size: 4
10451009 AATTGTATAG
*
10451019 AAAT AATAT GAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AA-AT AAAT AAAT AAAT AAAT AAAT AAAT AAA
10451055 AATAATGACA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 26 0.90
5 3 0.10
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:10452471 original size:18 final size:18
Alignment explanation
Indices: 10452448--10452482 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10452438 TTTTGGGCCG
* *
10452448 CGTTTGTAATTGGGCCAC
1 CGTTTGAAATCGGGCCAC
10452466 CGTTTGAAATCGGGCCA
1 CGTTTGAAATCGGGCCA
10452483 TGTATTTTGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.29
Consensus pattern (18 bp):
CGTTTGAAATCGGGCCAC
Found at i:10453223 original size:32 final size:32
Alignment explanation
Indices: 10453178--10453241 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
10453168 CCACTTCCTA
* *
10453178 CCAATATAGGAAGACAGGATCTGCTATCTTCG
1 CCAATACAGGAAGACAAGATCTGCTATCTTCG
* *
10453210 CCAATACATGAAGACAAGATCTGCTTTCTTCG
1 CCAATACAGGAAGACAAGATCTGCTATCTTCG
10453242 ATCTACTTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (32 bp):
CCAATACAGGAAGACAAGATCTGCTATCTTCG
Found at i:10453439 original size:44 final size:44
Alignment explanation
Indices: 10453210--10454159 Score: 731
Period size: 44 Copynumber: 21.5 Consensus size: 44
10453200 GCTATCTTCG
* * * * *
10453210 CCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCA
1 CCAATATAGGAAGACAAGATCTGC-ATCTTCGATCTACTTCACTA
* * * *
10453255 CTAATAT-GAGAAGACAAGATCT--AGTCTTTGATCCATTTC-CTA
1 CCAATATAG-GAAGACAAGATCTGCA-TCTTCGATCTACTTCACTA
* * *
10453297 CCAATATAGGAAGACAGGATCTACTATCTTCGATCTACTTCAC-G
1 CCAATATAGGAAGACAAGATCTGC-ATCTTCGATCTACTTCACTA
* * * ** * ** * *
10453341 CCAATACATGAGGACAAGATCTGTTTTTTTTTTATCTACTTCGCCA
1 CCAATATAGGAAGACAAGATCTG--CATCTTCGATCTACTTCACTA
* * *
10453387 CCAGTATAGGAAGACAAGATCTGCATCTTCGATCCACTTCGCTA
1 CCAATATAGGAAGACAAGATCTGCATCTTCGATCTACTTCACTA
* * * * *
10453431 CCAATATAGGAAGACAGGATCTGTTATCTTTGATCTATTTCAC-G
1 CCAATATAGGAAGACAAGATCTG-CATCTTCGATCTACTTCACTA
* * * * * *
10453475 CCAATACATGAAGACAAGATCCGCTTTCTTCGATCTATTTCACCA
1 CCAATATAGGAAGACAAGATCTGC-ATCTTCGATCTACTTCACTA
* * * * *
10453520 CCAGTATGGGAAGACAAGATATGCATCTTCGATCCACTTCGCTA
1 CCAATATAGGAAGACAAGATCTGCATCTTCGATCTACTTCACTA
* * * *
10453564 TCAATATAGGAAGACAGGATCTGTTATCTTCGATCTACTTCA-TG
1 CCAATATAGGAAGACAAGATCTG-CATCTTCGATCTACTTCACTA
* * * ** *
10453608 CCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTTGCCA
1 CCAATATAGGAAGACAAGATCTGC-ATCTTCGATCTACTTCACTA
* * * * *
10453653 CCAGTATGGGAAGTCAAAATCTGCATCTTCGATCCACTTCACTA
1 CCAATATAGGAAGACAAGATCTGCATCTTCGATCTACTTCACTA
* * * * *
10453697 CTAATATAGGAAGATAGGATCTGTTATCTTCGATCTACTTCAC-G
1 CCAATATAGGAAGACAAGATCTG-CATCTTCGATCTACTTCACTA
** * * * *
10453741 CCAATATATAAAGGCAAGATCTGCTTTCTTCGATCTACTTCGCCA
1 CCAATATAGGAAGACAAGATCTGC-ATCTTCGATCTACTTCACTA
* * *
10453786 CCAATATGGGAAGACAAGATCTGTATCTTCGATCCACTTC-CTA
1 CCAATATAGGAAGACAAGATCTGCATCTTCGATCTACTTCACTA
* * *
10453829 CCAATATAGGAAGACAGGATATGCTATCTTCGATCTACTTCAC-G
1 CCAATATAGGAAGACAAGATCTGC-ATCTTCGATCTACTTCACTA
* * ** *
10453873 CCAATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCACCA
1 CCAATATAGGAAGACAAGATCTG-CATCTTCGATCTACTTCACTA
* * * *
10453918 CCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCGCTA
1 CCAATATAGGAAGACAAGATCTGCATCTTCGATCTACTTCACTA
* * * *
10453962 CCAATAT-GGAAGACAGGATTTGCCATGTTCGATCTACTTCAC-G
1 CCAATATAGGAAGACAAGATCTG-CATCTTCGATCTACTTCACTA
* * ** * *
10454005 CCAATACATGAAGACAAGATCTGTTTTCTTTGATCTACTTCACCA
1 CCAATATAGGAAGACAAGATCTG-CATCTTCGATCTACTTCACTA
* * * *
10454050 CCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCGCTA
1 CCAATATAGGAAGACAAGATCTGCATCTTCGATCTACTTCACTA
* * * *
10454094 CCAATA-AGGAAGACAGGATTTGCCATGTTCGATCTACTTCAC-G
1 CCAATATAGGAAGACAAGATCTG-CATCTTCGATCTACTTCACTA
* *
10454137 CCAATACATGAAGACAAGATCTG
1 CCAATATAGGAAGACAAGATCTG
10454160 TTTTCTTTTT
Statistics
Matches: 695, Mismatches: 182, Indels: 57
0.74 0.19 0.06
Matches are distributed among these distances:
42 20 0.03
43 73 0.11
44 410 0.59
45 173 0.25
46 19 0.03
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.29
Consensus pattern (44 bp):
CCAATATAGGAAGACAAGATCTGCATCTTCGATCTACTTCACTA
Found at i:10454167 original size:132 final size:133
Alignment explanation
Indices: 10453208--10454166 Score: 1435
Period size: 132 Copynumber: 7.2 Consensus size: 133
10453198 CTGCTATCTT
* * *
10453208 CGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACTAATATGAGAAGACAAG
1 CGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAG
* * *
10453273 ATCT--AGTCTTTGATCCATTTC-CTACCAATATAGGAAGACAGGATCTACTATCTTCGATCTAC
66 ATCTGCA-TCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTAC
10453335 TTCA
130 TTCA
* * * ** *
10453339 CGCCAATACATGAGGACAAGATCTGTTTTTTTTTTATCTACTTCGCCACCAGTATAGGAAGACAA
1 CGCCAATACATGAAGACAAGATCTG-CTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAA
* * *
10453404 GATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGTTATCTTTGATCTAT
65 GATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTAC
10453469 TTCA
130 TTCA
* * *
10453473 CGCCAATACATGAAGACAAGATCCGCTTTCTTCGATCTATTTCACCACCAGTATGGGAAGACAAG
1 CGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAG
* * *
10453538 ATATGCATCTTCGATCCACTTCGCTATCAATATAGGAAGACAGGATCTGTTATCTTCGATCTACT
66 ATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACT
10453603 TCA
131 TCA
* * * *
10453606 TGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTTGCCACCAGTATGGGAAGTCAAA
1 CGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAG
* * * *
10453671 ATCTGCATCTTCGATCCACTTCACTACTAATATAGGAAGATAGGATCTGTTATCTTCGATCTACT
66 ATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACT
10453736 TCA
131 TCA
* * * *
10453739 CGCCAATATATAAAGGCAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAG
1 CGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAG
* *
10453804 ATCTGTATCTTCGATCCACTTC-CTACCAATATAGGAAGACAGGATATGCTATCTTCGATCTACT
66 ATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACT
10453868 TCA
131 TCA
* *
10453871 CGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAG
1 CGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAG
* * *
10453936 ATCTGCATCTTCGATCCACTTCGCTACCAATAT-GGAAGACAGGATTTGCCATGTTCGATCTACT
66 ATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACT
10454000 TCA
131 TCA
* * *
10454003 CGCCAATACATGAAGACAAGATCTGTTTTCTTTGATCTACTTCACCACCAGTATGGGAAGACAAG
1 CGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAG
* * *
10454068 ATCTGCATCTTCGATCCACTTCGCTACCAATA-AGGAAGACAGGATTTGCCATGTTCGATCTACT
66 ATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACT
10454132 TCA
131 TCA
*
10454135 CGCCAATACATGAAGACAAGATCTGTTTTCTT
1 CGCCAATACATGAAGACAAGATCTGCTTTCTT
10454167 TTTAACCTAT
Statistics
Matches: 758, Mismatches: 64, Indels: 11
0.91 0.08 0.01
Matches are distributed among these distances:
131 24 0.03
132 350 0.46
133 319 0.42
134 65 0.09
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (133 bp):
CGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAG
ATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACT
TCA
Found at i:10457856 original size:90 final size:91
Alignment explanation
Indices: 10457702--10457881 Score: 353
Period size: 90 Copynumber: 2.0 Consensus size: 91
10457692 GACTACGAAG
10457702 CCCAACAACTTTTCTGATCTAGCTCTAAAAGTGCATTTTGTTGAATTAAGTTTGAGCTGAAACTT
1 CCCAACAACTTTTCTGATCTAGCTCTAAAAGTGCATTTTGTTGAATTAAGTTTGAGCTGAAACTT
10457767 TCTTAGTCTTAAGAACAATTTTCTCT
66 TCTTAGTCTTAAGAACAATTTTCTCT
10457793 CCCAACAAC-TTTCTGATCTAGCTCTAAAAGTGCATTTTGTTGAATTAAGTTTGAGCTGAAACTT
1 CCCAACAACTTTTCTGATCTAGCTCTAAAAGTGCATTTTGTTGAATTAAGTTTGAGCTGAAACTT
10457857 TCTTAGTCTTAAGAACAATTTTCTC
66 TCTTAGTCTTAAGAACAATTTTCTC
10457882 AAGACCTGCA
Statistics
Matches: 89, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
90 80 0.90
91 9 0.10
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (91 bp):
CCCAACAACTTTTCTGATCTAGCTCTAAAAGTGCATTTTGTTGAATTAAGTTTGAGCTGAAACTT
TCTTAGTCTTAAGAACAATTTTCTCT
Found at i:10466448 original size:3 final size:3
Alignment explanation
Indices: 10466440--10466468 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
10466430 GCGCATGAAT
10466440 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
10466469 GATACAAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:10466944 original size:23 final size:22
Alignment explanation
Indices: 10466916--10466958 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
10466906 AAATTAAATC
10466916 TCTAAGATTACAAAATCATATTT
1 TCTAAGATTAC-AAATCATATTT
*
10466939 TCTAAGATTACATATCATAT
1 TCTAAGATTACAAATCATAT
10466959 CTAAGATTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.42, C:0.14, G:0.05, T:0.40
Consensus pattern (22 bp):
TCTAAGATTACAAATCATATTT
Found at i:10466963 original size:19 final size:19
Alignment explanation
Indices: 10466916--10467013 Score: 97
Period size: 19 Copynumber: 4.8 Consensus size: 19
10466906 AAATTAAATC
*
10466916 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
10466936 TTTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
* *
10466958 TCTAAGATTGCATATATCAAA
1 TCTAAGATT--ACATATCATA
*
10466979 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
10466998 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
10467014 CTTGAAGATT
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
19 32 0.48
21 17 0.25
22 7 0.10
23 11 0.16
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:10466976 original size:21 final size:21
Alignment explanation
Indices: 10466950--10467012 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
10466940 CTAAGATTAC
10466950 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
*
10466971 ATATCAAATCTAAGATTGC--
1 ATATCATATCTAAGATTGCAT
10466990 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
10467011 AT
1 AT
10467013 CCTTGAAGAT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.47
21 20 0.53
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.37
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:10474701 original size:20 final size:22
Alignment explanation
Indices: 10474660--10474702 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
10474650 TATTCCAGCC
*
10474660 TCTTCCTCGAATGACATCTTTT
1 TCTTCCTCAAATGACATCTTTT
10474682 TCTTCCTCAAAT-AC-TCTTTT
1 TCTTCCTCAAATGACATCTTTT
10474702 T
1 T
10474703 AGGCCTTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 7 0.35
21 2 0.10
22 11 0.55
ACGTcount: A:0.19, C:0.28, G:0.05, T:0.49
Consensus pattern (22 bp):
TCTTCCTCAAATGACATCTTTT
Found at i:10479620 original size:46 final size:44
Alignment explanation
Indices: 10479533--10479621 Score: 124
Period size: 44 Copynumber: 2.0 Consensus size: 44
10479523 TTACACCTCT
* *
10479533 ATTCCATTAAACCAAACACAAGAATACCATTACGCCTCTATTCC
1 ATTCCATTAAACCAAACAAAAAAATACCATTACGCCTCTATTCC
* *
10479577 ATTCCATTCAATCAAACAAAAAAATTACCTATTACGCCTCTATTC
1 ATTCCATTAAACCAAACAAAAAAA-TACC-ATTACGCCTCTATTC
10479622 TATTATAGCG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 20 0.51
45 4 0.10
46 15 0.38
ACGTcount: A:0.39, C:0.29, G:0.03, T:0.28
Consensus pattern (44 bp):
ATTCCATTAAACCAAACAAAAAAATACCATTACGCCTCTATTCC
Found at i:10479639 original size:46 final size:43
Alignment explanation
Indices: 10479522--10479639 Score: 102
Period size: 46 Copynumber: 2.7 Consensus size: 43
10479512 TACTTATGCT
* * *
10479522 ATTACACCTCTATTCCATT-A---AACCAAACACAAGAATACC
1 ATTACGCCTCTATTCCATTCATGCAACCAAACAAAAAAATACC
* *
10479561 ATTACGCCTCTATTCCATTCCATTCAATCAAACAAAAAAATTACC
1 ATTACGCCTCTATTCCATT-CATGCAACCAAACAAAAAAA-TACC
*
10479606 TATTACGCCTCTATTCTATT-ATAGCGAACCAAAC
1 -ATTACGCCTCTATTCCATTCAT-GC-AACCAAAC
10479640 GTGTCCAGGG
Statistics
Matches: 63, Mismatches: 7, Indels: 11
0.78 0.09 0.14
Matches are distributed among these distances:
39 18 0.29
41 1 0.02
44 14 0.22
45 5 0.08
46 25 0.40
ACGTcount: A:0.39, C:0.29, G:0.04, T:0.28
Consensus pattern (43 bp):
ATTACGCCTCTATTCCATTCATGCAACCAAACAAAAAAATACC
Found at i:10480348 original size:16 final size:16
Alignment explanation
Indices: 10480321--10480384 Score: 85
Period size: 16 Copynumber: 4.1 Consensus size: 16
10480311 TTCGCTGTAT
10480321 TGGAAT-GAGGCGTAA
1 TGGAATAGAGGCGTAA
10480336 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
* *
10480352 TAGAATAGAGGTGTAA
1 TGGAATAGAGGCGTAA
* *
10480368 TGGATTAGAGGTGTAA
1 TGGAATAGAGGCGTAA
10480384 T
1 T
10480385 AGCAAATCAA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
15 6 0.14
16 38 0.86
ACGTcount: A:0.36, C:0.03, G:0.36, T:0.25
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:10483894 original size:19 final size:19
Alignment explanation
Indices: 10483870--10483908 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
10483860 CTAGAAGGGA
10483870 GGAACAGAAGAGGCAAAGG
1 GGAACAGAAGAGGCAAAGG
*
10483889 GGAACAGAAGAGGCAGAGG
1 GGAACAGAAGAGGCAAAGG
10483908 G
1 G
10483909 TAAAACAGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.44, C:0.10, G:0.46, T:0.00
Consensus pattern (19 bp):
GGAACAGAAGAGGCAAAGG
Found at i:10490583 original size:12 final size:12
Alignment explanation
Indices: 10490566--10490622 Score: 60
Period size: 12 Copynumber: 4.8 Consensus size: 12
10490556 AATCTATACT
10490566 TGAACCCCCATG
1 TGAACCCCCATG
10490578 TGAACCCCCATG
1 TGAACCCCCATG
** *
10490590 CAAAACCCCATG
1 TGAACCCCCATG
* *
10490602 CGAACCCCCTTG
1 TGAACCCCCATG
*
10490614 TCAACCCCC
1 TGAACCCCC
10490623 TACAAACTCT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 37 1.00
ACGTcount: A:0.26, C:0.47, G:0.12, T:0.14
Consensus pattern (12 bp):
TGAACCCCCATG
Found at i:10490622 original size:24 final size:24
Alignment explanation
Indices: 10490568--10490667 Score: 69
Period size: 24 Copynumber: 4.2 Consensus size: 24
10490558 TCTATACTTG
*
10490568 AACCCCCATGTGAACCCCCATGCA
1 AACCCCCATGCGAACCCCCATGCA
* *
10490592 AAACCCCATGCGAACCCCCTTGTC-
1 AACCCCCATGCGAACCCCCATG-CA
* * * * *
10490616 AACCCCC-TACAAACTCTCATGCG
1 AACCCCCATGCGAACCCCCATGCA
* * * *
10490639 AACACCCTTGCAAACCCCCATGCG
1 AACCCCCATGCGAACCCCCATGCA
10490663 AACCC
1 AACCC
10490668 ATATAAACGA
Statistics
Matches: 59, Mismatches: 14, Indels: 6
0.75 0.18 0.08
Matches are distributed among these distances:
22 1 0.02
23 15 0.25
24 42 0.71
25 1 0.02
ACGTcount: A:0.29, C:0.46, G:0.11, T:0.14
Consensus pattern (24 bp):
AACCCCCATGCGAACCCCCATGCA
Found at i:10498580 original size:16 final size:17
Alignment explanation
Indices: 10498553--10498587 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
10498543 TAGAATTGGG
*
10498553 TTGAGAAAATTATTTAA
1 TTGAGAAAATTAATTAA
10498570 TTGAG-AAATTAATTAA
1 TTGAGAAAATTAATTAA
10498586 TT
1 TT
10498588 TAATTTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (17 bp):
TTGAGAAAATTAATTAA
Found at i:10498599 original size:18 final size:18
Alignment explanation
Indices: 10498576--10498610 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
10498566 TTAATTGAGA
*
10498576 AATTAATTAATTTAATTT
1 AATTAATTAAATTAATTT
10498594 AATTAATTAAATTAATT
1 AATTAATTAAATTAATT
10498611 GAATAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
AATTAATTAAATTAATTT
Found at i:10506564 original size:69 final size:69
Alignment explanation
Indices: 10506448--10506584 Score: 184
Period size: 69 Copynumber: 2.0 Consensus size: 69
10506438 TGTCATCTGT
* * * * *
10506448 AAAATTAAGGTTCGCATGCGAAAAGCCGTGACCTCCAGTACAATTAGCGAGAGTAAAGCTCCCAG
1 AAAATTAAGGTTCGCAAGCGAAAAGCCGCGACCTCCAGCACAATTAGCGAGAGCAAAACTCCCAG
10506513 CTGA
66 CTGA
* * * * *
10506517 AAAATTAAGGTTCGCAAGTGAAGAGCTGCGACCTCCAGCACAGTTAGCGAGAGCAAAACTCTCAG
1 AAAATTAAGGTTCGCAAGCGAAAAGCCGCGACCTCCAGCACAATTAGCGAGAGCAAAACTCCCAG
10506582 CTG
66 CTG
10506585 TAAACTATGG
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
69 58 1.00
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.18
Consensus pattern (69 bp):
AAAATTAAGGTTCGCAAGCGAAAAGCCGCGACCTCCAGCACAATTAGCGAGAGCAAAACTCCCAG
CTGA
Found at i:10508544 original size:434 final size:434
Alignment explanation
Indices: 10507736--10508566 Score: 1644
Period size: 434 Copynumber: 1.9 Consensus size: 434
10507726 TACCTAATTA
10507736 ATATAAACCAAATTATAACACGTACTACAAATCATAGTATACTTCATTTACAAATTCCATAATCA
1 ATATAAACCAAATTATAACACGTACTACAAATCATAGTATACTTCATTTACAAATTCCATAATCA
10507801 AGCCATACCATATATATAAACATTACAGTAAGGCCAAATTTATCACTTCACTCATCATGAGGTTA
66 AGCCATACCATATATATAAACATTACAGTAAGGCCAAATTTATCACTTCACTCATCATGAGGTTA
10507866 TGTGCATATATCCACAATATTTTGAGCAAACTTCAATCACTCATATTGAAACATATCATACCCTC
131 TGTGCATATATCCACAATATTTTGAGCAAACTTCAATCACTCATATTGAAACATATCATACCCTC
10507931 ACAAACCTATTCAAAGTAAACCAACCTTAAGTGATTACATTACTAGTTGATACATTTATTTTCAC
196 ACAAACCTATTCAAAGTAAACCAACCTTAAGTGATTACATTACTAGTTGATACATTTATTTTCAC
**
10507996 TATTGAATATCCGAATTTTTGTACACATTATATACTAACTCCCAAACTATTTCCAAGATAATTAT
261 TATTGAATATCCGAATTTTCATACACATTATATACTAACTCCCAAACTATTTCCAAGATAATTAT
10508061 ACTTCAAATTATTACACCAAATCATACATTTTTTATTACAATTTTATGCGCAAGAGACCATGCTA
326 ACTTCAAATTATTACACCAAATCATACATTTTTTATTACAATTTTATGCGCAAGAGACCATGCTA
10508126 TTTCGAACCATTTCGAATATATATAATACTTTAAGTACACCTAC
391 TTTCGAACCATTTCGAATATATATAATACTTTAAGTACACCTAC
10508170 ATATAAACCAAATTATAACACGTACTACAAATCATAGTATACTTCATTTACAAATTCCATAATCA
1 ATATAAACCAAATTATAACACGTACTACAAATCATAGTATACTTCATTTACAAATTCCATAATCA
10508235 AGCCATACCATATATATAAACATTACAGTAAGGCCAAATTTATCACTTCACTCATCATGAGGTTA
66 AGCCATACCATATATATAAACATTACAGTAAGGCCAAATTTATCACTTCACTCATCATGAGGTTA
10508300 TGTGCATATATCCACAATATTTTGAGCAAACTTCAATCACTCATATTGAAACATATCATACCCTC
131 TGTGCATATATCCACAATATTTTGAGCAAACTTCAATCACTCATATTGAAACATATCATACCCTC
10508365 ACAAACCTATTCAAAGTAAACCAACCTTAAGTGATTACATTACTAGTTGATACATTTATTTTCAC
196 ACAAACCTATTCAAAGTAAACCAACCTTAAGTGATTACATTACTAGTTGATACATTTATTTTCAC
10508430 TATTGAATATCCGAATTTTCATACACATTATATACTAACTCCCAAACTATTTCCAAGATAATTAT
261 TATTGAATATCCGAATTTTCATACACATTATATACTAACTCCCAAACTATTTCCAAGATAATTAT
10508495 ACTTCAAATTATTACACCAAATCATACATTTTTTATTACAATTTTATGCGCAAGAGACCATGCTA
326 ACTTCAAATTATTACACCAAATCATACATTTTTTATTACAATTTTATGCGCAAGAGACCATGCTA
10508560 TTTCGAA
391 TTTCGAA
10508567 TATATATAAT
Statistics
Matches: 395, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
434 395 1.00
ACGTcount: A:0.39, C:0.21, G:0.07, T:0.33
Consensus pattern (434 bp):
ATATAAACCAAATTATAACACGTACTACAAATCATAGTATACTTCATTTACAAATTCCATAATCA
AGCCATACCATATATATAAACATTACAGTAAGGCCAAATTTATCACTTCACTCATCATGAGGTTA
TGTGCATATATCCACAATATTTTGAGCAAACTTCAATCACTCATATTGAAACATATCATACCCTC
ACAAACCTATTCAAAGTAAACCAACCTTAAGTGATTACATTACTAGTTGATACATTTATTTTCAC
TATTGAATATCCGAATTTTCATACACATTATATACTAACTCCCAAACTATTTCCAAGATAATTAT
ACTTCAAATTATTACACCAAATCATACATTTTTTATTACAATTTTATGCGCAAGAGACCATGCTA
TTTCGAACCATTTCGAATATATATAATACTTTAAGTACACCTAC
Found at i:10509545 original size:43 final size:42
Alignment explanation
Indices: 10509467--10509584 Score: 114
Period size: 42 Copynumber: 2.8 Consensus size: 42
10509457 AGCTCGTACA
* * *
10509467 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGCAATCAAACAATG
1 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGTAATCAAA-AACG
* *
10509510 ATGCCACTGTCCCAGACAGGGTCTTACACGTAATCATATACG
1 ATGCCACTGTCCCAGACAGGGTCTTACACGTAATCAAAAACG
* * * *
10509552 ACGCCAATGTCCCAGAGATGGTCTTACACGTAA
1 ATGCCACTGTCCCAGACAGGGTCTTACACGTAA
10509585 ATCTCAAATC
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
42 33 0.52
43 30 0.47
44 1 0.02
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (42 bp):
ATGCCACTGTCCCAGACAGGGTCTTACACGTAATCAAAAACG
Found at i:10515082 original size:19 final size:20
Alignment explanation
Indices: 10515026--10515083 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 20
10515016 TGTTATAATT
10515026 TTTTTAAAATATAAATTTTAGAA
1 TTTTTAAAA-AT--ATTTTAGAA
*
10515049 TTTTTATAAATATTTTA-AA
1 TTTTTAAAAATATTTTAGAA
10515068 -TTTTAAAAATCATTTT
1 TTTTTAAAAAT-ATTTT
10515084 GAAAATTAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 9 0.28
19 7 0.22
20 6 0.19
22 2 0.06
23 8 0.25
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (20 bp):
TTTTTAAAAATATTTTAGAA
Found at i:10530774 original size:25 final size:25
Alignment explanation
Indices: 10530735--10530785 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
10530725 ATGATATAAT
*
10530735 ACTTATTATAATCTTTTAAATTATA
1 ACTTATCATAATCTTTTAAATTATA
*
10530760 ACTTATCATATTCTTTTAAATTATA
1 ACTTATCATAATCTTTTAAATTATA
10530785 A
1 A
10530786 TTTTATTATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.51
Consensus pattern (25 bp):
ACTTATCATAATCTTTTAAATTATA
Found at i:10532892 original size:30 final size:30
Alignment explanation
Indices: 10532856--10532916 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
10532846 CATATAAAAG
10532856 TAATACAAAAAATTAAATAAAAAACTTCTT
1 TAATACAAAAAATTAAATAAAAAACTTCTT
10532886 TAATACAAAAAATTAAATAAAAAACTTCTT
1 TAATACAAAAAATTAAATAAAAAACTTCTT
10532916 T
1 T
10532917 TTAGACAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.31
Consensus pattern (30 bp):
TAATACAAAAAATTAAATAAAAAACTTCTT
Found at i:10540898 original size:20 final size:19
Alignment explanation
Indices: 10540862--10540900 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
10540852 ATTAAAGGAG
* *
10540862 AAATTAAATTAATTTGATT
1 AAATTAAATCAAATTGATT
10540881 AAATTCAAATCAAATTGATT
1 AAATT-AAATCAAATTGATT
10540901 TGAATCAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (19 bp):
AAATTAAATCAAATTGATT
Found at i:10548188 original size:43 final size:43
Alignment explanation
Indices: 10547991--10548176 Score: 293
Period size: 43 Copynumber: 4.3 Consensus size: 43
10547981 CTTTTGTGAA
* *
10547991 AAACGCCGCTATAGAACAAGACCTTTAGC-GCGCTTTTCCCAC
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTCTTCCCAC
*
10548033 AAACGCCGCTAAAGATCAAGACCTTTAGCGGCGCTCTTCCCAC
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTCTTCCCAC
* * *
10548076 AAACGCCACTAAAGAACAAGACATTTAGCGACGCTCTTCCCAC
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTCTTCCCAC
* *
10548119 AAACGCCACTAAAGAACAAGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTCTTCCCAC
10548162 AAACGCCGCTAAAGA
1 AAACGCCGCTAAAGA
10548177 TTATGACCTT
Statistics
Matches: 132, Mismatches: 11, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
42 27 0.20
43 105 0.80
ACGTcount: A:0.33, C:0.33, G:0.17, T:0.18
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTCTTCCCAC
Found at i:10549047 original size:19 final size:19
Alignment explanation
Indices: 10549023--10549101 Score: 131
Period size: 19 Copynumber: 4.2 Consensus size: 19
10549013 AATCTTCAGG
10549023 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
10549042 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* **
10549061 AATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
10549080 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
10549099 GAT
1 GAT
10549102 NNNNNNNNNN
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 54 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:10551209 original size:104 final size:104
Alignment explanation
Indices: 10551029--10551237 Score: 418
Period size: 104 Copynumber: 2.0 Consensus size: 104
10551019 GAAGATCGAG
10551029 AAATCTGCTGATTCGGGTACCTTGGCCCTAGAAGCCGAACTTCATATAGTGAACTTTAGGAATTC
1 AAATCTGCTGATTCGGGTACCTTGGCCCTAGAAGCCGAACTTCATATAGTGAACTTTAGGAATTC
10551094 ACCTTAGGTAGAACTATACTAAACCCTAGTAGATATCCT
66 ACCTTAGGTAGAACTATACTAAACCCTAGTAGATATCCT
10551133 AAATCTGCTGATTCGGGTACCTTGGCCCTAGAAGCCGAACTTCATATAGTGAACTTTAGGAATTC
1 AAATCTGCTGATTCGGGTACCTTGGCCCTAGAAGCCGAACTTCATATAGTGAACTTTAGGAATTC
10551198 ACCTTAGGTAGAACTATACTAAACCCTAGTAGATATCCT
66 ACCTTAGGTAGAACTATACTAAACCCTAGTAGATATCCT
10551237 A
1 A
10551238 GTAGGTGTTT
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
104 105 1.00
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (104 bp):
AAATCTGCTGATTCGGGTACCTTGGCCCTAGAAGCCGAACTTCATATAGTGAACTTTAGGAATTC
ACCTTAGGTAGAACTATACTAAACCCTAGTAGATATCCT
Found at i:10552014 original size:24 final size:24
Alignment explanation
Indices: 10551987--10552032 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
10551977 AGAACAATCC
* *
10551987 CAAAAGGAAATGCAGGAGCAGCTT
1 CAAAAGCAAATGAAGGAGCAGCTT
*
10552011 CAAAAGCAAATGAATGAGCAGC
1 CAAAAGCAAATGAAGGAGCAGC
10552033 AAAAAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (24 bp):
CAAAAGCAAATGAAGGAGCAGCTT
Found at i:10554285 original size:8 final size:8
Alignment explanation
Indices: 10554272--10554307 Score: 56
Period size: 8 Copynumber: 4.5 Consensus size: 8
10554262 GGATGACAAA
10554272 AAAAAAAC
1 AAAAAAAC
10554280 AAAAAAAC
1 AAAAAAAC
10554288 -AAAAAAC
1 AAAAAAAC
10554295 AAAAAAAAC
1 -AAAAAAAC
10554304 AAAA
1 AAAA
10554308 TCTACCAGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 7 0.27
8 12 0.46
9 7 0.27
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:10554285 original size:9 final size:9
Alignment explanation
Indices: 10554271--10554307 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
10554261 GGGATGACAA
10554271 AAAAAAAAC
1 AAAAAAAAC
10554280 -AAAAAAAC
1 AAAAAAAAC
10554288 --AAAAAAC
1 AAAAAAAAC
10554295 AAAAAAAAC
1 AAAAAAAAC
10554304 AAAA
1 AAAA
10554308 TCTACCAGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 7 0.27
8 8 0.31
9 11 0.42
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:10554291 original size:15 final size:16
Alignment explanation
Indices: 10554269--10554307 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
10554259 AGGGGATGAC
10554269 AAAA-AAAAAAC-AAA
1 AAAACAAAAAACAAAA
10554283 AAAACAAAAAACAAAA
1 AAAACAAAAAACAAAA
10554299 AAAACAAAA
1 AAAACAAAA
10554308 TCTACCAGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 4 0.17
15 7 0.30
16 12 0.52
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (16 bp):
AAAACAAAAAACAAAA
Found at i:10556165 original size:132 final size:132
Alignment explanation
Indices: 10555989--10556751 Score: 1170
Period size: 132 Copynumber: 5.8 Consensus size: 132
10555979 TTGACAGCGA
*
10555989 AGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
** * * * *
10556054 TCTACTTCCCTAAACAACAGTGGAATAGATTAAAAATTTCAGATCTTATCTACCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
10556119 GG
131 GG
* *
10556121 AGCAGATCGAAGATGTCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
10556186 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
*
10556251 GT
131 GG
* *
10556253 AGCAGATCGAAGATGGCGGATTTTACCTCCATGTGGTTACAGTGGAGTACATTAAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
*
10556318 TCTACTTCCCTGGACAACAGTGGAATAAATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
10556383 GG
131 GG
* *
10556385 AGCAGATCGAAGATGGCGGATTTTACCTCCATGTGGTTACAGTGGAGTACATTAAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
*
10556450 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGGTTTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
*
10556515 AG
131 GG
*
10556517 AGCAGATCGAAGATGACGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * * ** * * *
10556582 TCTACTTCCATGAACAATAGTGGAATAGATTTCAGATTTCAGATCTTCTCTCCTTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
10556647 GG
131 GG
* * * * *
10556649 AGCAGATTGAAGATAGCGAATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCTAGTAA-
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * * * *
10556713 ACATA-TCTCCCTAGTCAGCAGTGGAATAGGTTGAAGATT
66 TC-TACT-TCCCTGGACAACAGTGGAATAGATTGAAGATT
10556752 GTAAGTCCTA
Statistics
Matches: 581, Mismatches: 48, Indels: 4
0.92 0.08 0.01
Matches are distributed among these distances:
131 2 0.00
132 579 1.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (132 bp):
AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
GG
Found at i:10557098 original size:19 final size:19
Alignment explanation
Indices: 10557081--10557245 Score: 231
Period size: 19 Copynumber: 8.5 Consensus size: 19
10557071 AGGGATATGC
**
10557081 AATCTTAGATATGATATGC
1 AATCTTAGATATGATATAT
*
10557100 AATCTTAGATATAATATAT
1 AATCTTAGATATGATATAT
**
10557119 AATCTTAGATATGATATGC
1 AATCTTAGATATGATATAT
10557138 AATCTTAGATATGATATAT
1 AATCTTAGATATGATATAT
10557157 AATCTTAGATATGATATAT
1 AATCTTAGATATGATATAT
10557176 AATCTTAGATATGATATAT
1 AATCTTAGATATGATATAT
10557195 AATCTTAGATATGATATAT
1 AATCTTAGATATGATATAT
* *
10557214 AATATTAGAAGATATGATTTTAT
1 AATCTT---AGATATGA-TATAT
10557237 AATCTTAGA
1 AATCTTAGA
10557246 GATTTAATTT
Statistics
Matches: 131, Mismatches: 11, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
19 111 0.85
20 3 0.02
22 8 0.06
23 9 0.07
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.41
Consensus pattern (19 bp):
AATCTTAGATATGATATAT
Found at i:10566082 original size:21 final size:18
Alignment explanation
Indices: 10566040--10566092 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 18
10566030 CAAAACACGC
*
10566040 AAAAAACTGAACTGAATA
1 AAAAAACTGAACCGAATA
10566058 AAAAAACTGAACCGAGCACTA
1 AAAAAACTGAACCGA--A-TA
*
10566079 AAAATACTGAACCG
1 AAAAAACTGAACCG
10566093 GGATGGGATA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
18 14 0.47
20 1 0.03
21 15 0.50
ACGTcount: A:0.55, C:0.19, G:0.13, T:0.13
Consensus pattern (18 bp):
AAAAAACTGAACCGAATA
Found at i:10566269 original size:13 final size:14
Alignment explanation
Indices: 10566238--10566444 Score: 73
Period size: 14 Copynumber: 14.4 Consensus size: 14
10566228 ACTAGTTAAT
* *
10566238 CTAAACCCTAAATC
1 CTAAACCATAAACC
*
10566252 ATAAACC-TAAACC
1 CTAAACCATAAACC
* **
10566265 TTAAAACGTTAAAACC
1 CT-AAACCATAA-ACC
10566281 CTAAAACCATAAACC
1 CT-AAACCATAAACC
* *
10566296 TTTAACACAT-AACC
1 CTAAAC-CATAAACC
*
10566310 TCTAAACCTTAAACC
1 -CTAAACCATAAACC
* * *
10566325 C-CAGCCTTTAAACC
1 CTAAACC-ATAAACC
*
10566339 ATAAACCATAAACC
1 CTAAACCATAAACC
* * *
10566353 ATAACCCCTAAACC
1 CTAAACCATAAACC
*
10566367 CATAATCCATAAACC
1 C-TAAACCATAAACC
* *
10566382 TTAAA--ATGGTAACAC
1 CTAAACCAT--AAAC-C
* *
10566397 CTAAACCTTAAACT
1 CTAAACCATAAACC
*
10566411 CTAAACCATATACC
1 CTAAACCATAAACC
* *
10566425 CTAAACCAAAAAAC
1 CTAAACCATAAACC
10566439 CTAAAC
1 CTAAAC
10566445 TATACTGATA
Statistics
Matches: 143, Mismatches: 36, Indels: 28
0.69 0.17 0.14
Matches are distributed among these distances:
12 2 0.01
13 9 0.06
14 79 0.55
15 40 0.28
16 12 0.08
17 1 0.01
ACGTcount: A:0.47, C:0.31, G:0.02, T:0.20
Consensus pattern (14 bp):
CTAAACCATAAACC
Found at i:10566343 original size:7 final size:7
Alignment explanation
Indices: 10566333--10566386 Score: 63
Period size: 7 Copynumber: 7.6 Consensus size: 7
10566323 CCCCAGCCTT
10566333 TAAACCA
1 TAAACCA
10566340 TAAACCA
1 TAAACCA
10566347 TAAACCA
1 TAAACCA
* *
10566354 TAACCCC
1 TAAACCA
10566361 TAAACCCA
1 TAAA-CCA
*
10566369 TAATCCA
1 TAAACCA
*
10566376 TAAACCT
1 TAAACCA
10566383 TAAA
1 TAAA
10566387 ATGGTAACAC
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
7 34 0.87
8 5 0.13
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (7 bp):
TAAACCA
Found at i:10566693 original size:41 final size:41
Alignment explanation
Indices: 10566625--10567069 Score: 561
Period size: 41 Copynumber: 10.9 Consensus size: 41
10566615 TTTTATATCT
* *
10566625 CTGAGCATTAGCGGCG-TTTCCTAAAAAACGCCACTAAAGCC
1 CTGAGCATTAGCGGCGCTTT-CTCAAAAACGCCGCTAAAGCC
* * * *
10566666 CTGAGCATTAGCGGCGCTTCCCCAAAAACGCTGCTAAGGCC
1 CTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCC
* *
10566707 CTGAGCATTAGCGGCGCTTCCTCAAAAACGCCGTTAAAGCC
1 CTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCC
* * *
10566748 CTGAACATTAGCGACGCTTTCCCAAAAACGCCG-TAAAGCC
1 CTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCC
* *
10566788 CTGAGCATTAGCGACGCTTCCTCAAAAACGCCGCTAAAGCC
1 CTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCC
* ** * *
10566829 CTAAGCATTAGCGATGCTTTCTCAAAAACACCGCTAAATCC
1 CTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCC
** * * *
10566870 CTGATTATTAGCGGCGCTTTATCAAAAACGCCTCTAAATCC
1 CTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCC
* * *
10566911 CTGAGCATTAGCGGCGCTTTATCAAAAACGCCTCTAAATCC
1 CTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCC
* * *
10566952 CTGAGCATTAGCGGCGCTTTATCAAAAACGCCTCTAAATCC
1 CTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCC
* * *
10566993 CTGAGCATTAGCGGCGCTTTATCAAAAACGCCTCTAAATCC
1 CTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCC
* *
10567034 CTGAGCATTAGTGGCGCTTTCTCAAAAATGCCGCTA
1 CTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTA
10567070 GCGCCCCGAA
Statistics
Matches: 366, Mismatches: 36, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
40 37 0.10
41 327 0.89
42 2 0.01
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.22
Consensus pattern (41 bp):
CTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCC
Found at i:10579360 original size:18 final size:19
Alignment explanation
Indices: 10579339--10579376 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
10579329 ATCAATATTT
10579339 TTAT-AAAAATATCGATAC
1 TTATAAAAAATATCGATAC
10579357 TTATGAAAAAATATCGATAC
1 TTAT-AAAAAATATCGATAC
10579377 CACTGGCTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.22
20 14 0.78
ACGTcount: A:0.50, C:0.11, G:0.08, T:0.32
Consensus pattern (19 bp):
TTATAAAAAATATCGATAC
Found at i:10581764 original size:29 final size:29
Alignment explanation
Indices: 10581732--10581921 Score: 142
Period size: 29 Copynumber: 6.7 Consensus size: 29
10581722 TTTTTCCGAG
* *
10581732 TTTTATAGTTCTGCCATTA-TTTTCTAGAA
1 TTTTATAGTTTTGCCACTAGTTTTCTAG-A
* *
10581761 TTTTATAGTTTTGCCCCTAGTTTTCTGGA
1 TTTTATAGTTTTGCCACTAGTTTTCTAGA
* * *
10581790 TTTTTTAGTTATGCCACTATTTTTCTAGA
1 TTTTATAGTTTTGCCACTAGTTTTCTAGA
* * * *
10581819 TTTTACAGTTTTGCCACT-GGTTTCCAAA
1 TTTTATAGTTTTGCCACTAGTTTTCTAGA
** * *
10581847 GTTTTCA-A-TTCAGCCACT-TTTTTTTAGA
1 -TTTT-ATAGTTTTGCCACTAGTTTTCTAGA
* *
10581875 TTTTACATTTTTGCCACTA-TTTT-TAAGA
1 TTTTATAGTTTTGCCACTAGTTTTCT-AGA
10581903 TTTTATAGTTTTGCCACTA
1 TTTTATAGTTTTGCCACTA
10581922 TTCTTCAAAA
Statistics
Matches: 127, Mismatches: 27, Indels: 15
0.75 0.16 0.09
Matches are distributed among these distances:
26 1 0.01
27 6 0.05
28 51 0.40
29 61 0.48
30 8 0.06
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (29 bp):
TTTTATAGTTTTGCCACTAGTTTTCTAGA
Found at i:10582956 original size:37 final size:36
Alignment explanation
Indices: 10582875--10582964 Score: 101
Period size: 37 Copynumber: 2.4 Consensus size: 36
10582865 TTGAACCGTA
* *
10582875 TTGAATTGATTGATATACGAGACTGTTTGTTATCATG
1 TTGAATTGATTGATATACGAAACTGTTTGTCAT-ATG
* **
10582912 TTAAATTGATTGATATGTGAAACTGTTTGTCAT-TG
1 TTGAATTGATTGATATACGAAACTGTTTGTCATATG
10582947 TACTGAATTGATTGATAT
1 T--TGAATTGATTGATAT
10582965 TGTTTGATAT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
35 3 0.07
37 42 0.93
ACGTcount: A:0.29, C:0.07, G:0.20, T:0.44
Consensus pattern (36 bp):
TTGAATTGATTGATATACGAAACTGTTTGTCATATG
Found at i:10583981 original size:20 final size:20
Alignment explanation
Indices: 10583956--10584017 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 20
10583946 ACAATTTTAA
* *
10583956 AATCAAGTGAAAATGATTTT
1 AATCAAGTCAAAATAATTTT
*
10583976 AATCAAGTCAAAATAATTTC
1 AATCAAGTCAAAATAATTTT
* * *
10583996 AATCAAATTAAAATTATTTT
1 AATCAAGTCAAAATAATTTT
10584016 AA
1 AA
10584018 GACATCAAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.50, C:0.08, G:0.06, T:0.35
Consensus pattern (20 bp):
AATCAAGTCAAAATAATTTT
Found at i:10591050 original size:18 final size:21
Alignment explanation
Indices: 10591022--10591061 Score: 59
Period size: 18 Copynumber: 2.0 Consensus size: 21
10591012 ATATATATGT
10591022 ATTATTTTAAAA-AT-AAAAA
1 ATTATTTTAAAATATGAAAAA
10591041 ATTA-TTTAAAATATGAAAAA
1 ATTATTTTAAAATATGAAAAA
10591061 A
1 A
10591062 AATAAGTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.37
19 6 0.32
20 6 0.32
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (21 bp):
ATTATTTTAAAATATGAAAAA
Found at i:10591282 original size:94 final size:95
Alignment explanation
Indices: 10591168--10591357 Score: 364
Period size: 94 Copynumber: 2.0 Consensus size: 95
10591158 TTATTTTTGG
10591168 CATCCTTATATTTAATGGTAAAATTAGACAGAAAAATTAAGATATTTAAATAAAAATATAAAAAT
1 CATCCTTATA-TTAATGGTAAAATTAGACAGAAAAATTAAGATATTTAAATAAAAATATAAAAAT
10591233 TTAATATCTCAAAATTAAAATATAAGAGTAA
65 TTAATATCTCAAAATTAAAATATAAGAGTAA
10591264 CATCCTTATA-TAATGGTAAAATTAGACAGAAAAATTAAGATATTTAAATAAAAATATAAAAATT
1 CATCCTTATATTAATGGTAAAATTAGACAGAAAAATTAAGATATTTAAATAAAAATATAAAAATT
10591328 TAATATCTCAAAATTAAAATATAAGAGTAA
66 TAATATCTCAAAATTAAAATATAAGAGTAA
10591358 AATTTAAATT
Statistics
Matches: 94, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
94 84 0.89
96 10 0.11
ACGTcount: A:0.55, C:0.06, G:0.07, T:0.32
Consensus pattern (95 bp):
CATCCTTATATTAATGGTAAAATTAGACAGAAAAATTAAGATATTTAAATAAAAATATAAAAATT
TAATATCTCAAAATTAAAATATAAGAGTAA
Found at i:10594239 original size:45 final size:45
Alignment explanation
Indices: 10594175--10594263 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
10594165 TGTGAACTGA
* *
10594175 ACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCCACCGG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCGG
10594220 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCG
10594264 AGTATCTGTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.33
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCGG
Found at i:10595021 original size:11 final size:10
Alignment explanation
Indices: 10594994--10595020 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
10594984 ACAACTTATT
10594994 TAAAAAATTG
1 TAAAAAATTG
10595004 TAAAAAATTG
1 TAAAAAATTG
10595014 TAAAAAA
1 TAAAAAA
10595021 ACTAATTATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (10 bp):
TAAAAAATTG
Found at i:10596847 original size:10 final size:10
Alignment explanation
Indices: 10596832--10596870 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
10596822 TAAACTTGAT
10596832 CAAAACATAC
1 CAAAACATAC
*
10596842 CAAAACATGC
1 CAAAACATAC
*
10596852 CAAAACATGC
1 CAAAACATAC
10596862 CAAAACATA
1 CAAAACATA
10596871 TCATATAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.56, C:0.28, G:0.05, T:0.10
Consensus pattern (10 bp):
CAAAACATAC
Found at i:10596857 original size:20 final size:20
Alignment explanation
Indices: 10596832--10596869 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
10596822 TAAACTTGAT
10596832 CAAAACATACCAAAACATGC
1 CAAAACATACCAAAACATGC
*
10596852 CAAAACATGCCAAAACAT
1 CAAAACATACCAAAACAT
10596870 ATCATATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.55, C:0.29, G:0.05, T:0.11
Consensus pattern (20 bp):
CAAAACATACCAAAACATGC
Found at i:10597162 original size:50 final size:49
Alignment explanation
Indices: 10597087--10597198 Score: 181
Period size: 50 Copynumber: 2.2 Consensus size: 49
10597077 CATTCAAAAT
*
10597087 TAACCATTTAAGAGTGTCAAACACTTAACAAGAGACATATACATATCATA
1 TAACCA-TTAAGAGTGTCAAACACTTAACAAGACACATATACATATCATA
10597137 TAACCATTCAAGAGCT-TCAAACACTTAACAAGACACATATACATATCATA
1 TAACCATT-AAGAG-TGTCAAACACTTAACAAGACACATATACATATCATA
10597187 TAACCATTAAGA
1 TAACCATTAAGA
10597199 ACAAGGTATT
Statistics
Matches: 59, Mismatches: 1, Indels: 5
0.91 0.02 0.08
Matches are distributed among these distances:
49 6 0.10
50 52 0.88
51 1 0.02
ACGTcount: A:0.46, C:0.21, G:0.08, T:0.25
Consensus pattern (49 bp):
TAACCATTAAGAGTGTCAAACACTTAACAAGACACATATACATATCATA
Found at i:10597577 original size:15 final size:14
Alignment explanation
Indices: 10597551--10597580 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
10597541 ATATAACTAT
10597551 CAATTCATTCAGTA
1 CAATTCATTCAGTA
10597565 CAATTCAATTCAGTA
1 CAATTC-ATTCAGTA
10597580 C
1 C
10597581 CATTTCATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (14 bp):
CAATTCATTCAGTA
Found at i:10597817 original size:22 final size:22
Alignment explanation
Indices: 10597783--10597837 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
10597773 GCTTTAACAA
* *
10597783 TAGACACCAAAGTGCTGAGT-AG
1 TAGACACCGAAGTGC-GAATCAG
*
10597805 TAGGCACCGAAGTGCGAATCAG
1 TAGACACCGAAGTGCGAATCAG
10597827 TAGACACCGAA
1 TAGACACCGAA
10597838 ATGCAAATAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 3 0.11
22 25 0.89
ACGTcount: A:0.36, C:0.22, G:0.27, T:0.15
Consensus pattern (22 bp):
TAGACACCGAAGTGCGAATCAG
Found at i:10600680 original size:29 final size:29
Alignment explanation
Indices: 10600645--10600702 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
10600635 ACAAATGTTT
*
10600645 ACTAAAAATATTTACAAGCTCAGTTTACA
1 ACTAAAAATAATTACAAGCTCAGTTTACA
10600674 ACTAAAAATAATTACAAGCTCAGTTTACA
1 ACTAAAAATAATTACAAGCTCAGTTTACA
10600703 TAAACAAGGT
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:0.47, C:0.17, G:0.07, T:0.29
Consensus pattern (29 bp):
ACTAAAAATAATTACAAGCTCAGTTTACA
Found at i:10602201 original size:16 final size:16
Alignment explanation
Indices: 10602180--10602215 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
10602170 TTTGGTTCGC
10602180 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
10602196 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
10602212 TGTA
1 TGTA
10602216 ATAGCTAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:10602472 original size:18 final size:17
Alignment explanation
Indices: 10602451--10602485 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
10602441 TTATTATTAA
*
10602451 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
10602469 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
10602486 TCTTATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:10609958 original size:13 final size:13
Alignment explanation
Indices: 10609940--10609965 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10609930 CAGATAAACT
10609940 GAAACAGAAGGAA
1 GAAACAGAAGGAA
10609953 GAAACAGAAGGAA
1 GAAACAGAAGGAA
10609966 CGCCAGCTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.31, T:0.00
Consensus pattern (13 bp):
GAAACAGAAGGAA
Found at i:10609997 original size:13 final size:13
Alignment explanation
Indices: 10609979--10610004 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10609969 CAGCTAAACT
10609979 GAAACAGAAGGAA
1 GAAACAGAAGGAA
10609992 GAAACAGAAGGAA
1 GAAACAGAAGGAA
10610005 AGGGGAAGCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.31, T:0.00
Consensus pattern (13 bp):
GAAACAGAAGGAA
Found at i:10611239 original size:3 final size:3
Alignment explanation
Indices: 10611231--10611280 Score: 73
Period size: 3 Copynumber: 16.7 Consensus size: 3
10611221 AATATTATCT
* * *
10611231 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG CTG TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10611279 TT
1 TT
10611281 GGAATTATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:10624173 original size:15 final size:15
Alignment explanation
Indices: 10624134--10624199 Score: 82
Period size: 15 Copynumber: 4.5 Consensus size: 15
10624124 GTTCAGATTC
10624134 AAAAAAAGAAAAA-A
1 AAAAAAAGAAAAAGA
* *
10624148 GAAGAAA-AAAAAGA
1 AAAAAAAGAAAAAGA
10624162 AAAAAAAGAAAAAGA
1 AAAAAAAGAAAAAGA
* *
10624177 AGAAAAAGGAAAAGA
1 AAAAAAAGAAAAAGA
10624192 AAAAAAAG
1 AAAAAAAG
10624200 GAAGGAGAGG
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
13 5 0.12
14 11 0.26
15 27 0.63
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
AAAAAAAGAAAAAGA
Found at i:10624198 original size:9 final size:9
Alignment explanation
Indices: 10624134--10624199 Score: 87
Period size: 9 Copynumber: 6.9 Consensus size: 9
10624124 GTTCAGATTC
10624134 AAAAAAAGA
1 AAAAAAAGA
10624143 AAAAAGAAGA
1 AAAAA-AAGA
10624153 AAAAAAAGA
1 AAAAAAAGA
10624162 AAAAAAAGA
1 AAAAAAAGA
*
10624171 AAAAGAAGAA
1 AAAAAAAG-A
10624181 AAAGGAAAAGA
1 AAA--AAAAGA
10624192 AAAAAAAG
1 AAAAAAAG
10624200 GAAGGAGAGG
Statistics
Matches: 51, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
9 30 0.59
10 13 0.25
11 4 0.08
12 4 0.08
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:10625495 original size:44 final size:44
Alignment explanation
Indices: 10625445--10625590 Score: 184
Period size: 44 Copynumber: 3.3 Consensus size: 44
10625435 AGATTCTAAA
*
10625445 TCCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGTAAG
1 TCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGACTGTAAG
* * ** * *
10625489 TCCTAGCTCCCTAAACAGTAGTGGAATAGGCAGAAGATTGTAAA
1 TCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGACTGTAAG
** * * *
10625533 TCCTAGCTCATTGATCAGCGGTGGAATAGGTGGAAGACTTTAAG
1 TCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGACTGTAAG
10625577 TCCTAGCTCCCTGA
1 TCCTAGCTCCCTGA
10625591 GTAGTAGTGG
Statistics
Matches: 82, Mismatches: 20, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
44 82 1.00
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (44 bp):
TCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGACTGTAAG
Found at i:10625614 original size:88 final size:88
Alignment explanation
Indices: 10625433--10625606 Score: 249
Period size: 88 Copynumber: 2.0 Consensus size: 88
10625423 AAAAAACGGG
*
10625433 GAAGATTCTAAATCCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGTAAGTCCTAGCTC
1 GAAGATTCTAAATCCTAGCTCACTGACCAGCAGTGGAATAGGTGGAAGACTGTAAGTCCTAGCTC
*
10625498 CCTAAACAGTAGTGGAATAGGCA
66 CCTAAACAGTAGTGGAACAGGCA
* * * * *
10625521 GAAGATTGTAAATCCTAGCTCATTGATCAGCGGTGGAATAGGTGGAAGACTTTAAGTCCTAGCTC
1 GAAGATTCTAAATCCTAGCTCACTGACCAGCAGTGGAATAGGTGGAAGACTGTAAGTCCTAGCTC
* ** *
10625586 CCTGAGTAGTAGTGGAGCAGG
66 CCTAAACAGTAGTGGAACAGG
10625607 TTGAAGATAG
Statistics
Matches: 75, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
88 75 1.00
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.24
Consensus pattern (88 bp):
GAAGATTCTAAATCCTAGCTCACTGACCAGCAGTGGAATAGGTGGAAGACTGTAAGTCCTAGCTC
CCTAAACAGTAGTGGAACAGGCA
Found at i:10625675 original size:88 final size:88
Alignment explanation
Indices: 10625583--10625746 Score: 251
Period size: 88 Copynumber: 1.9 Consensus size: 88
10625573 TAAGTCCTAG
* * *
10625583 CTCCCT-GAGTAGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCTTGCATCGACAGC-GA
1 CTCCCTCG-GTAGTAGTCGAGCAGGTTGAAGATAGCAGATCTTGCCCTCCTGCATCGACAGCAG-
*
10625646 AGTAGATTGAAGACACAAGCCTTGC
64 AGCAGATTGAAGACACAAGCCTTGC
*
10625671 CTCCCTCGGTTGTAGTCGAGCAGGTTGAAGATAGCAGATCTTGCCCTCCTGCATCGACAGCAGAG
1 CTCCCTCGGTAGTAGTCGAGCAGGTTGAAGATAGCAGATCTTGCCCTCCTGCATCGACAGCAGAG
10625736 CAGATTGAAGA
66 CAGATTGAAGA
10625747 TGGCAGATTT
Statistics
Matches: 69, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
88 67 0.97
89 2 0.03
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (88 bp):
CTCCCTCGGTAGTAGTCGAGCAGGTTGAAGATAGCAGATCTTGCCCTCCTGCATCGACAGCAGAG
CAGATTGAAGACACAAGCCTTGC
Found at i:10625737 original size:45 final size:44
Alignment explanation
Indices: 10625600--10625754 Score: 122
Period size: 45 Copynumber: 3.5 Consensus size: 44
10625590 AGTAGTAGTG
* * *
10625600 GAGCAGGTTGAAGATAGCAGATCTTGCCTTCTTGCATCGACAGC
1 GAGCAGATTGAAGATAGCAGATCTTGCCCTCCTGCATCGACAGC
* * * * * *
10625644 GAAGTAGATTGAAGACA-CA-AGCCTTG-CCTCCCT-CGGTTG-TAGTC
1 G-AGCAGATTGAAGATAGCAGA-TCTTGCCCT-CCTGC-ATCGACAG-C
*
10625688 GAGCAGGTTGAAGATAGCAGATCTTGCCCTCCTGCATCGACAGC
1 GAGCAGATTGAAGATAGCAGATCTTGCCCTCCTGCATCGACAGC
*
10625732 AGAGCAGATTGAAGATGGCAGAT
1 -GAGCAGATTGAAGATAGCAGAT
10625755 TTTACCTCCC
Statistics
Matches: 82, Mismatches: 18, Indels: 21
0.68 0.15 0.17
Matches are distributed among these distances:
43 18 0.22
44 25 0.30
45 39 0.48
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.23
Consensus pattern (44 bp):
GAGCAGATTGAAGATAGCAGATCTTGCCCTCCTGCATCGACAGC
Found at i:10626024 original size:126 final size:126
Alignment explanation
Indices: 10625733--10626707 Score: 1299
Period size: 126 Copynumber: 7.6 Consensus size: 126
10625723 ATCGACAGCA
* *
10625733 GAGCAGATTGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCC-GAAA
1 GAGCAGATTGAAGATGGCAGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAG-TA
* * * *
10625797 ATTCTATCTCCCTAGTTGGCAGTAGAATAGATTGAAGA-TTCAGATCTTATCTCCCAAAGTG
65 ATTCTATCTCCCTGGGTAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCAAAGTG
*
10625858 GAGCAGATTGAAGATGACAGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGTAA
1 GAGCAGATTGAAGATGGCAGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGTAA
* * *
10625923 TTCTATCTCTCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCAAAGTG
66 TTCTATCTCCCTGGGTAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCAAAGTG
*
10625984 GAGCAGATTGAAGATGGCAGACTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGTAA
1 GAGCAGATTGAAGATGGCAGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGTAA
* * *
10626049 TTCTATCTCCCTGGGTAGCAATGGAATAGATTGAAGATTACAGATCATATCTCCCTAAGCAGTAG
66 TTCTATCTCCCTGGGTAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCC--A--A--AG
10626114 TG
125 TG
* *
10626116 GAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGTAA
1 GAGCAGATTGAAGATGGCAGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGTAA
* * * * *
10626181 TTCTATCTCTCTGGTTGGTAGTGGAATAGATTGAAGATTTCAGACCTTATCTCCCAAAGTG
66 TTCTATCTCCCTGGGTAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCAAAGTG
* *
10626242 GAGCAGATTGAAGATGGCAGACTTTACCTCCATGTGATTACAGTGGAGTACATTGAAGCCAGTAA
1 GAGCAGATTGAAGATGGCAGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGTAA
* *
10626307 TTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGACCTTATCTCCCAAAGTG
66 TTCTATCTCCCTGGGTAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCAAAGTG
* *
10626368 GAGCAGATTGAAGATGGCAGACTTTACCTCCATGTGATTACAGTGGAGTACATTGAAGCCAGTAA
1 GAGCAGATTGAAGATGGCAGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGTAA
* * * *
10626433 TTCTATCTCTCTGGGCAGCAGTGGAGTAGATTGAAGATTACAGATCTTATCTCCCTAAGTAGTAG
66 TTCTATCTCCCTGGGTAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCC--A--A--AG
10626498 TG
125 TG
* * * * *
10626500 GAGCAGATCGAAGATGGC-GAATTTTACCTCCCTGTGGTTCCAGTGGAGTACACTAAAGCCAGTA
1 GAGCAGATTGAAGATGGCAG-ATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGTA
* * * *
10626564 ATTCTATCTCCCTGGGCAGCAGTGCAATAGATGGAAGATTACAGATCTTATCTCCCTAAGCAGTA
65 ATTCTATCTCCCTGGGTAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCC--A--A--A
10626629 GTG
124 GTG
* * * ** * * * *
10626632 GAGCAGATCGAAGATGACAAATTTTACCTCCCTAAGGTTACAGTGGAGTACATTAAAGCAAATAA
1 GAGCAGATTGAAGATGGCAGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGTAA
*
10626697 TTTTATCTCCC
66 TTCTATCTCCC
10626708 CGAAGTTGCG
Statistics
Matches: 775, Mismatches: 59, Indels: 25
0.90 0.07 0.03
Matches are distributed among these distances:
125 94 0.12
126 373 0.48
128 3 0.00
130 3 0.00
131 1 0.00
132 301 0.39
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.28
Consensus pattern (126 bp):
GAGCAGATTGAAGATGGCAGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGTAA
TTCTATCTCCCTGGGTAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCAAAGTG
Found at i:10626172 original size:258 final size:252
Alignment explanation
Indices: 10625733--10626705 Score: 1349
Period size: 258 Copynumber: 3.8 Consensus size: 252
10625723 ATCGACAGCA
* * *
10625733 GAGCAGATTGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCC-GAAA
1 GAGCAGATTGAAGATGGCAGACTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAG-TA
* *** *
10625797 ATTCTATCTCCCTAGTTGGCAGTAGAATAGATTGAAGATT-CAGATCTTATCTCCCAAAGTGGAG
65 ATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCAAAGTGGAG
*
10625861 CAGATTGAAGATGACAGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGTAATTC
130 CAGATCGAAGATGACAGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGTAATTC
10625926 TATCTCTCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCAAAGTG
195 TATCTCTCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCAAAGTG
10625984 GAGCAGATTGAAGATGGCAGACTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGTAA
1 GAGCAGATTGAAGATGGCAGACTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGTAA
* * *
10626049 TTCTATCTCCCTGGGTAGCAATGGAATAGATTGAAGATTACAGATCATATCTCCCTAAGCAGTAG
66 TTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCC--A--A--AG
* *
10626114 TGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGT
125 TGGAGCAGATCGAAGATGACAGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGT
* *
10626179 AATTCTATCTCTCTGGTTGGTAGTGGAATAGATTGAAGATTTCAGACCTTATCTCCCAAAGTG
190 AATTCTATCTCTCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCAAAGTG
*
10626242 GAGCAGATTGAAGATGGCAGACTTTACCTCCATGTGATTACAGTGGAGTACATTGAAGCCAGTAA
1 GAGCAGATTGAAGATGGCAGACTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGTAA
* *
10626307 TTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGACCTTATCTCCCAAAGTGGAGC
66 TTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCAAAGTGGAGC
* * * *
10626372 AGATTGAAGATGGCAGACTTTACCTCCATGTGATTACAGTGGAGTACATTGAAGCCAGTAATTCT
131 AGATCGAAGATGACAGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGTAATTCT
*** * *
10626437 ATCTCTCTGGGCAGCAGTGGAGTAGATTGAAGATTACAGATCTTATCTCCCTAAGTAGTAGTG
196 ATCTCTCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCC--A--A--AGTG
* * * * * *
10626500 GAGCAGATCGAAGATGGC-GAATTTTACCTCCCTGTGGTTCCAGTGGAGTACACTAAAGCCAGTA
1 GAGCAGATTGAAGATGGCAG-ACTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGTA
* *
10626564 ATTCTATCTCCCTGGGCAGCAGTGCAATAGATGGAAGATTACAGATCTTATCTCCCTAAGCAGTA
65 ATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCC--A--A--A
* ** * * * *
10626629 GTGGAGCAGATCGAAGATGACAAATTTTACCTCCCTAAGGTTACAGTGGAGTACATTAAAGCAAA
124 GTGGAGCAGATCGAAGATGACAGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAG
*
10626694 TAATTTTATCTC
189 TAATTCTATCTC
10626706 CCCGAAGTTG
Statistics
Matches: 647, Mismatches: 54, Indels: 29
0.89 0.07 0.04
Matches are distributed among these distances:
251 94 0.15
252 128 0.20
254 3 0.00
256 3 0.00
257 1 0.00
258 350 0.54
260 1 0.00
262 1 0.00
264 66 0.10
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.28
Consensus pattern (252 bp):
GAGCAGATTGAAGATGGCAGACTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGTAA
TTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCAAAGTGGAGC
AGATCGAAGATGACAGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGTAATTCT
ATCTCTCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCAAAGTG
Found at i:10626305 original size:384 final size:384
Alignment explanation
Indices: 10625733--10626707 Score: 1477
Period size: 384 Copynumber: 2.5 Consensus size: 384
10625723 ATCGACAGCA
* * * *
10625733 GAGCAGATTGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCC-GAAA
1 GAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAG-TA
* *
10625797 ATTCTATCTCCCTAGTTGGCAGTAGAATAGATTGAAGA-TTCAGATCTTATCTCCCAAAGTGGAG
65 ATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCAAAGTGGAG
10625861 CAGATTGAAGATGACAGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGTAATTC
130 CAGATTGAAGATGACAGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGTAATTC
* *** *
10625926 TATCTCTCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCAAAGTGGAGCAGA
195 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGACCTTATCTCCCAAAGTGGAGCAGA
*
10625991 TTGAAGATGGCAGACTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGTAATTCTATC
260 TTGAAGATGGCAGACTTTACCTCCATGTGATTACAGTGGAGTACATTGAAGCCAGTAATTCTATC
*
10626056 TCCCTGGGTAGCAATGGAATAGATTGAAGATTACAGATCATATCTCCCTAAGCAGTAGTG
325 TCCCTGGGCAGCAATGGAATAGATTGAAGATTACAGATCATATCTCCCTAAGCAGTAGTG
10626116 GAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGTAA
1 GAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGTAA
* * *
10626181 TTCTATCTCTCTGGTTGGTAGTGGAATAGATTGAAGATTTCAGACCTTATCTCCCAAAGTGGAGC
66 TTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCAAAGTGGAGC
* * *
10626246 AGATTGAAGATGGCAGACTTTACCTCCATGTGATTACAGTGGAGTACATTGAAGCCAGTAATTCT
131 AGATTGAAGATGACAGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGTAATTCT
10626311 ATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGACCTTATCTCCCAAAGTGGAGCAGAT
196 ATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGACCTTATCTCCCAAAGTGGAGCAGAT
10626376 TGAAGATGGCAGACTTTACCTCCATGTGATTACAGTGGAGTACATTGAAGCCAGTAATTCTATCT
261 TGAAGATGGCAGACTTTACCTCCATGTGATTACAGTGGAGTACATTGAAGCCAGTAATTCTATCT
* * * * *
10626441 CTCTGGGCAGCAGTGGAGTAGATTGAAGATTACAGATCTTATCTCCCTAAGTAGTAGTG
326 CCCTGGGCAGCAATGGAATAGATTGAAGATTACAGATCATATCTCCCTAAGCAGTAGTG
* * * * *
10626500 GAGCAGATCGAAGATGGCGAATTTTACCTCCCTGTGGTTCCAGTGGAGTACACTAAAGCCAGTAA
1 GAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGTAA
*** * * *
10626565 TTCTATCTCCCTGGGCAGCAGTGCAATAGATGGAAGATTACAGATCTTATCTCCCTAAGCAGTAG
66 TTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCC--A--A--AG
* * ** * * * *
10626630 TGGAGCAGATCGAAGATGACAAATTTTACCTCCCTAAGGTTACAGTGGAGTACATTAAAGCAAAT
125 TGGAGCAGATTGAAGATGACAGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGT
*
10626695 AATTTTATCTCCC
190 AATTCTATCTCCC
10626708 CGAAGTTGCG
Statistics
Matches: 534, Mismatches: 50, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
383 92 0.17
384 372 0.70
386 1 0.00
388 1 0.00
390 68 0.13
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.28
Consensus pattern (384 bp):
GAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGTAA
TTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCAAAGTGGAGC
AGATTGAAGATGACAGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGTAATTCT
ATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGACCTTATCTCCCAAAGTGGAGCAGAT
TGAAGATGGCAGACTTTACCTCCATGTGATTACAGTGGAGTACATTGAAGCCAGTAATTCTATCT
CCCTGGGCAGCAATGGAATAGATTGAAGATTACAGATCATATCTCCCTAAGCAGTAGTG
Found at i:10628161 original size:5 final size:6
Alignment explanation
Indices: 10628147--10628180 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
10628137 AATTTCTTTC
* *
10628147 TTTTAT TTTTAT TTTTAT TTTTCT CTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
10628181 CTTCCTTTCG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTAT
Found at i:10628181 original size:12 final size:11
Alignment explanation
Indices: 10628143--10628183 Score: 55
Period size: 12 Copynumber: 3.5 Consensus size: 11
10628133 CTCTAATTTC
10628143 TTTCTTTTATT
1 TTTCTTTTATT
*
10628154 TTTATTTTTATT
1 TTT-CTTTTATT
10628166 TTTCTCTTTATT
1 TTTCT-TTTATT
10628178 TTTCTT
1 TTTCTT
10628184 CCTTTCGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 5 0.19
12 21 0.81
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTCTTTTATT
Found at i:10628296 original size:442 final size:437
Alignment explanation
Indices: 10627424--10628312 Score: 1602
Period size: 442 Copynumber: 2.0 Consensus size: 437
10627414 CAAATTTCAA
* *
10627424 ACTAGGGTTTCAGTTTTCTGAAACCCTAGCCTAGTCTAGCGCCGCAGCCTACTGGTCTCCCACTC
1 ACTAGGGTTTCAGTTTTCTGAAACCCTAGCCTAGCCTAGCGCCGCAACCTACTGGTCTCCCACTC
10627489 GCCCTGCCACCACCTCTGCCAGCCGCCACACACGCTCCATCGCCATGCCCACTTGCCGCCTGCAA
66 GCCCTGCCACCACCTCTGCCAGCCGCCACACACGCTCCATCGCCATGCCCACTTGCCGCCTGCAA
*
10627554 CACGCAACAGTGAGGAAATAGAAAGAAAATAATAGAAACAAGTTGTAAAAATGGCTATAAAAATC
131 CACGCAACAGTGAGGAAATAGAAAGAAAATAATAGAAACAAGTTGTAAAAATGGCTATAAAAAGC
10627619 CATTCAAAACCATTGTAAAGGGCCCCCCTCTTTCACGATTTCAAGAAATAAAAGCAAAAAACCCT
196 CATTCAAAACCATTGTAAAGGGCCCCCCTCTTTCACGATTTCAAGAAATAAAAGCAAAAAACCCT
10627684 TCTTCGGTATAAGCTCTATTTTCTTTCTTTTATTTTTATTTTTCTCTTTATTTTTCTTCCTTTCG
261 TCTTCGGTATAAGCTCTATTTTCTTTCTTTTATTTTTATTTTTCTCTTTATTTTTCTTCCTTTCG
10627749 AAACTGTTTGCATTCGTTTTTTTATTTTTATTTTTCTTTTATTTTTAAACTATATATATAACGTA
326 AAACTGTTTGCATTCGTTTTTTTATTTTTATTTTTCTTTTATTTTTAAACTATATATATAACGTA
10627814 TAAACGCAAAAAAAGCAAAAAAAATACCTTTTTTGAATTTTTTAGCC
391 TAAACGCAAAAAAAGCAAAAAAAATACCTTTTTTGAATTTTTTAGCC
*
10627861 ACTAGGGTTTCAGTTTTCTGAAACCCTAGCCTAGCCTAGCGCCGCAACCTACTGGTCTCCCACTT
1 ACTAGGGTTTCAGTTTTCTGAAACCCTAGCCTAGCCTAGCGCCGCAACCTACTGGTCTCCCACTC
* * * *
10627926 GCCCTGCCACCACCTCTGCCGGCCGCCGCGCACG-TCCCATCGCCATGCCCACTTGCTGCCTGCA
66 GCCCTGCCACCACCTCTGCCAGCCGCCACACACGCT-CCATCGCCATGCCCACTTGCCGCCTGCA
*
10627990 ACACGCAACAGTGAGGAAATAGAAA-AAAATAATAGAAACAAGTTGTAAAAATGGGTATAAAAAG
130 ACACGCAACAGTGAGGAAATAGAAAGAAAATAATAGAAACAAGTTGTAAAAATGGCTATAAAAAG
10628054 CCATTCAAAACCATTGTAAAGGGCCCCCCTCTTTCACGATTTCAAGAAATAAAAGCAAAAAACCC
195 CCATTCAAAACCATTGTAAAGGGCCCCCCTCTTTCACGATTTCAAGAAATAAAAGCAAAAAACCC
*
10628119 TTCTTCGGTATAAGCTCTAATTTCTTTCTTTTATTTTTATTTTTATTTTTCTCTTTATTTTTCTT
260 TTCTTCGGTATAAGCTCT-A--T-TTTC-TTT-CTTTTATTTTTATTTTTCTCTTTATTTTTCTT
10628184 CCTTTCGAAACTGTTTGCATTCGTTTTTTTATTTTTATTTTTCTTTTATTTTTAAACTATATATA
319 CCTTTCGAAACTGTTTGCATTCGTTTTTTTATTTTTATTTTTCTTTTATTTTTAAACTATATATA
*
10628249 TAACGTATAAACGCAAAAAAAGCAAAAAAAATCCCTTTTTTGAATTTTTTAGCC
384 TAACGTATAAACGCAAAAAAAGCAAAAAAAATACCTTTTTTGAATTTTTTAGCC
10628303 ACTAGGGTTT
1 ACTAGGGTTT
10628313 NNNNNNNNNN
Statistics
Matches: 434, Mismatches: 11, Indels: 9
0.96 0.02 0.02
Matches are distributed among these distances:
436 121 0.28
437 146 0.34
439 1 0.00
440 4 0.01
441 3 0.01
442 159 0.37
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (437 bp):
ACTAGGGTTTCAGTTTTCTGAAACCCTAGCCTAGCCTAGCGCCGCAACCTACTGGTCTCCCACTC
GCCCTGCCACCACCTCTGCCAGCCGCCACACACGCTCCATCGCCATGCCCACTTGCCGCCTGCAA
CACGCAACAGTGAGGAAATAGAAAGAAAATAATAGAAACAAGTTGTAAAAATGGCTATAAAAAGC
CATTCAAAACCATTGTAAAGGGCCCCCCTCTTTCACGATTTCAAGAAATAAAAGCAAAAAACCCT
TCTTCGGTATAAGCTCTATTTTCTTTCTTTTATTTTTATTTTTCTCTTTATTTTTCTTCCTTTCG
AAACTGTTTGCATTCGTTTTTTTATTTTTATTTTTCTTTTATTTTTAAACTATATATATAACGTA
TAAACGCAAAAAAAGCAAAAAAAATACCTTTTTTGAATTTTTTAGCC
Found at i:10635858 original size:3 final size:3
Alignment explanation
Indices: 10635824--10635889 Score: 64
Period size: 3 Copynumber: 22.0 Consensus size: 3
10635814 TTTAGTAATT
* * *
10635824 TTA TTA TT- TTG TTCA TTA TT- TTA ATC TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
10635868 TTA TCA TTA TTAA TTA TTA TTA
1 TTA TTA TTA TT-A TTA TTA TTA
10635890 GTTTTATTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
2 4 0.08
3 43 0.83
4 5 0.10
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:10638386 original size:21 final size:21
Alignment explanation
Indices: 10638356--10638405 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
10638346 GTGGCCTTAA
*
10638356 ACATGGTCGTG-AGGCTAATCC
1 ACATGCTCGTGTA-GCTAATCC
* *
10638377 TCATGCTCGTGTAGCTACTCC
1 ACATGCTCGTGTAGCTAATCC
10638398 ACATGCTC
1 ACATGCTC
10638406 ATGTCTCAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 23 0.96
22 1 0.04
ACGTcount: A:0.20, C:0.30, G:0.22, T:0.28
Consensus pattern (21 bp):
ACATGCTCGTGTAGCTAATCC
Found at i:10646419 original size:27 final size:27
Alignment explanation
Indices: 10645988--10646406 Score: 500
Period size: 27 Copynumber: 15.5 Consensus size: 27
10645978 TAATGGGCCT
* * *
10645988 TAGGATAAAATGACCAAAATACCCCCG
1 TAGGGTAAAATGACCGAAATACCCCCA
* *
10646015 TAGGGTAAAATAATCGAAATACCCCCA
1 TAGGGTAAAATGACCGAAATACCCCCA
* * *
10646042 TAGGGT-AAATAACTGAAATACCCCTA
1 TAGGGTAAAATGACCGAAATACCCCCA
10646068 TAGGGTAAAATGACCGAAATACCCCCCA
1 TAGGGTAAAATGACCGAAATA-CCCCCA
* * * * *
10646096 TAAGGTAGAATGACAGAGATACCCCTA
1 TAGGGTAAAATGACCGAAATACCCCCA
* *
10646123 TAGGGTAGAATGACTGAAATACCCCCA
1 TAGGGTAAAATGACCGAAATACCCCCA
* * *
10646150 TACGGTAGAAA-GACCAAAATACCCTCA
1 TAGGGTA-AAATGACCGAAATACCCCCA
* *
10646177 TAGGGTATAATGATCGAAATACCCCCA
1 TAGGGTAAAATGACCGAAATACCCCCA
* *
10646204 TAGGGTAAATTGACCGAAATACCCCTA
1 TAGGGTAAAATGACCGAAATACCCCCA
10646231 TAGGGTAAAATGACCGAAATACCCCCA
1 TAGGGTAAAATGACCGAAATACCCCCA
* *
10646258 TAGGGTAAAATAATCGAAATACCCCCA
1 TAGGGTAAAATGACCGAAATACCCCCA
**
10646285 TAGGGTAAAATGACCGAAATACCTTCA
1 TAGGGTAAAATGACCGAAATACCCCCA
* *
10646312 TAGGGTAAAATGACCAAAATACCTCCA
1 TAGGGTAAAATGACCGAAATACCCCCA
* *
10646339 TAGGGTTAAATGACCGAAATGCCCCCA
1 TAGGGTAAAATGACCGAAATACCCCCA
* * * *
10646366 TAAGGTAAAATAATCGAAATACCCCTA
1 TAGGGTAAAATGACCGAAATACCCCCA
10646393 TAGGGTAAAATGAC
1 TAGGGTAAAATGAC
10646407 TGTTATACCC
Statistics
Matches: 331, Mismatches: 57, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
26 25 0.08
27 282 0.85
28 24 0.07
ACGTcount: A:0.41, C:0.22, G:0.18, T:0.19
Consensus pattern (27 bp):
TAGGGTAAAATGACCGAAATACCCCCA
Found at i:10647657 original size:54 final size:54
Alignment explanation
Indices: 10647574--10647822 Score: 480
Period size: 54 Copynumber: 4.6 Consensus size: 54
10647564 ATCCTTACAG
* *
10647574 CGGGATTACCAGTCCAGGCTAAATTCCCTGTAATATAAACTCACAGAGTATTGT
1 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCACAGAGTATTGT
10647628 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCACAGAGTATTGT
1 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCACAGAGTATTGT
10647682 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCACAGAGTATTGT
1 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCACAGAGTATTGT
10647736 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCACAGAGTATTGT
1 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCACAGAGTATTGT
10647790 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAA
1 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAA
10647823 CGACAATTAC
Statistics
Matches: 193, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
54 193 1.00
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (54 bp):
CGGGATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCACAGAGTATTGT
Found at i:10657108 original size:17 final size:17
Alignment explanation
Indices: 10657086--10657120 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
10657076 TTTTTTATAG
10657086 TTTAATAATAATTTTAA
1 TTTAATAATAATTTTAA
* *
10657103 TTTAATACTTATTTTAA
1 TTTAATAATAATTTTAA
10657120 T
1 T
10657121 AGTATTTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTAATAATAATTTTAA
Found at i:10657419 original size:15 final size:15
Alignment explanation
Indices: 10657401--10657430 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10657391 TTTAAAATAC
10657401 TTAAAAATTTTTTTT
1 TTAAAAATTTTTTTT
*
10657416 TTAAATATTTTTTTT
1 TTAAAAATTTTTTTT
10657431 GTGTTTATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTAAAAATTTTTTTT
Found at i:10657725 original size:26 final size:25
Alignment explanation
Indices: 10657696--10657760 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
10657686 AGCTGCAGAG
10657696 AGAAAATTCTTT-GAAGAGATTATTCC
1 AGAAAATT-TTTAG-AGAGATTATTCC
* *
10657722 AGAAAATTTTTAGATATATTATTCC
1 AGAAAATTTTTAGAGAGATTATTCC
10657747 AGAAAATTTTTAGA
1 AGAAAATTTTTAGA
10657761 TATATTTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
25 27 0.75
26 9 0.25
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (25 bp):
AGAAAATTTTTAGAGAGATTATTCC
Found at i:10657746 original size:25 final size:25
Alignment explanation
Indices: 10657714--10657766 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
10657704 CTTTGAAGAG
10657714 ATTATTCCAGAAAATTTTTAGATAT
1 ATTATTCCAGAAAATTTTTAGATAT
10657739 ATTATTCCAGAAAATTTTTAGATAT
1 ATTATTCCAGAAAATTTTTAGATAT
10657764 ATT
1 ATT
10657767 TTTATGATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.45
Consensus pattern (25 bp):
ATTATTCCAGAAAATTTTTAGATAT
Found at i:10666766 original size:27 final size:27
Alignment explanation
Indices: 10666736--10666905 Score: 209
Period size: 27 Copynumber: 6.3 Consensus size: 27
10666726 TAAATGACAT
* *
10666736 AAATACCCTCATAGGATAAAATGA-TCG
1 AAATACCCTCATAGGGTAAAATAACT-G
*
10666763 AAATACCCCCATAGGGTAAAATAACTG
1 AAATACCCTCATAGGGTAAAATAACTG
* * ** * *
10666790 AAATACCCTTAGAAAGTAAAATGACCG
1 AAATACCCTCATAGGGTAAAATAACTG
*
10666817 AAATACCCTCATAGGGTAAAATAACTA
1 AAATACCCTCATAGGGTAAAATAACTG
*
10666844 AAATACCCTCATAAGGTAAAATAACTG
1 AAATACCCTCATAGGGTAAAATAACTG
10666871 AAATACCCTCATAGGGTAAAATGAAC-G
1 AAATACCCTCATAGGGTAAAAT-AACTG
10666898 AAATACCC
1 AAATACCC
10666906 CTAGAAGATG
Statistics
Matches: 121, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
27 117 0.97
28 4 0.03
ACGTcount: A:0.46, C:0.20, G:0.14, T:0.20
Consensus pattern (27 bp):
AAATACCCTCATAGGGTAAAATAACTG
Found at i:10666862 original size:81 final size:81
Alignment explanation
Indices: 10666727--10666905 Score: 234
Period size: 81 Copynumber: 2.2 Consensus size: 81
10666717 AGAGACCAAT
** * * *
10666727 AAATGACATAAATACCCTCATAGGATAAAATGATCGAAATACCCCCATAGGGTAAAATAACTGAA
1 AAATGACCGAAATACCCTCATAGGATAAAATAATCAAAATACCCCCATAAGGTAAAATAACTGAA
*
10666792 ATACCCTTAGAAAGTA
66 ATACCCTCAGAAAGTA
* *
10666808 AAATGACCGAAATACCCTCATAGGGTAAAATAA-CTAAAATACCCTCATAAGGTAAAATAACTGA
1 AAATGACCGAAATACCCTCATAGGATAAAATAATC-AAAATACCCCCATAAGGTAAAATAACTGA
* **
10666872 AATACCCTCATAGGGTA
65 AATACCCTCAGAAAGTA
*
10666889 AAATGAACGAAATACCC
1 AAATGACCGAAATACCC
10666906 CTAGAAGATG
Statistics
Matches: 85, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
80 1 0.01
81 84 0.99
ACGTcount: A:0.47, C:0.20, G:0.13, T:0.20
Consensus pattern (81 bp):
AAATGACCGAAATACCCTCATAGGATAAAATAATCAAAATACCCCCATAAGGTAAAATAACTGAA
ATACCCTCAGAAAGTA
Found at i:10667099 original size:26 final size:26
Alignment explanation
Indices: 10667070--10667123 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
10667060 TTGCCACATT
* *
10667070 TACTGTTACTAGTAGCTTCGCTGCGA
1 TACTATTACTAGCAGCTTCGCTGCGA
* *
10667096 TACTATTACTTGCAGCTTTGCTGCGA
1 TACTATTACTAGCAGCTTCGCTGCGA
10667122 TA
1 TA
10667124 TCGGTGTGTT
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:0.20, C:0.22, G:0.20, T:0.37
Consensus pattern (26 bp):
TACTATTACTAGCAGCTTCGCTGCGA
Found at i:10667266 original size:28 final size:28
Alignment explanation
Indices: 10667234--10667319 Score: 118
Period size: 28 Copynumber: 3.1 Consensus size: 28
10667224 GTACTGATAT
*
10667234 TGTATTGGGCTAAGGCTCACACTGTTAC
1 TGTATTGGGCTAAGGCCCACACTGTTAC
*
10667262 TGTATTGGGCTAAGGCCCACATTGTTAC
1 TGTATTGGGCTAAGGCCCACACTGTTAC
* * * *
10667290 TGTATTGGGTTTAGGCCCAGATTGTTAC
1 TGTATTGGGCTAAGGCCCACACTGTTAC
10667318 TG
1 TG
10667320 CATGTCGTAT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 53 1.00
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.35
Consensus pattern (28 bp):
TGTATTGGGCTAAGGCCCACACTGTTAC
Found at i:10667268 original size:33 final size:33
Alignment explanation
Indices: 10667220--10667296 Score: 85
Period size: 28 Copynumber: 2.5 Consensus size: 33
10667210 TGTATTATTG
*
10667220 CACTG-TACTGATATTGTATTGGGCTAAGGCTCA
1 CACTGTTACTG-TATTGTATTGGGCTAAGGCCCA
10667253 CACTGTTAC-----TGTATTGGGCTAAGGCCCA
1 CACTGTTACTGTATTGTATTGGGCTAAGGCCCA
*
10667281 CATTGTTACTGTATTG
1 CACTGTTACTGTATTG
10667297 GGTTTAGGCC
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
28 26 0.72
33 7 0.19
34 3 0.08
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.35
Consensus pattern (33 bp):
CACTGTTACTGTATTGTATTGGGCTAAGGCCCA
Found at i:10671457 original size:30 final size:30
Alignment explanation
Indices: 10671423--10671482 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
10671413 CACCTATTTT
10671423 TCTTTGATCGTCGAATACACCTTTCTCCCC
1 TCTTTGATCGTCGAATACACCTTTCTCCCC
* *
10671453 TCTTTTATTGTCGAATACACCTTTCTCCCC
1 TCTTTGATCGTCGAATACACCTTTCTCCCC
10671483 CTTCTGTCCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.17, C:0.35, G:0.08, T:0.40
Consensus pattern (30 bp):
TCTTTGATCGTCGAATACACCTTTCTCCCC
Found at i:10672414 original size:27 final size:27
Alignment explanation
Indices: 10672384--10672462 Score: 131
Period size: 27 Copynumber: 2.9 Consensus size: 27
10672374 TAAATAACAT
10672384 AAATACCCCCATAGGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
* *
10672411 AAATACCCCTATAGGGTAAAATGATCG
1 AAATACCCCCATAGGGTAAAATGACCG
*
10672438 AAATACCCCCATAGGATAAAATGAC
1 AAATACCCCCATAGGGTAAAATGAC
10672463 TGTTATACCC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.43, C:0.23, G:0.16, T:0.18
Consensus pattern (27 bp):
AAATACCCCCATAGGGTAAAATGACCG
Found at i:10672470 original size:27 final size:27
Alignment explanation
Indices: 10672384--10672491 Score: 112
Period size: 27 Copynumber: 4.0 Consensus size: 27
10672374 TAAATAACAT
* *
10672384 AAATACCCCCATAGGGTAAAATGACCG
1 AAATACCCCCATAGGATAAAATGACTG
* *
10672411 AAATACCCCTATAGGGTAAAATGA-TCG
1 AAATACCCCCATAGGATAAAATGACT-G
10672438 AAATACCCCCATAGGATAAAATGACTG
1 AAATACCCCCATAGGATAAAATGACTG
** * *
10672465 TTATACCCCTA-AGAGATGAAATGACTG
1 AAATACCCCCATAG-GATAAAATGACTG
10672492 TTATGGCCTT
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
26 2 0.03
27 67 0.96
28 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.20
Consensus pattern (27 bp):
AAATACCCCCATAGGATAAAATGACTG
Found at i:10672487 original size:54 final size:54
Alignment explanation
Indices: 10672384--10672488 Score: 140
Period size: 54 Copynumber: 1.9 Consensus size: 54
10672374 TAAATAACAT
* *
10672384 AAATACCCCCATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGATCG
1 AAATACCCCCATAGGATAAAATGACCGAAATACCCCTATAGGATAAAATGATCG
* ** *
10672438 AAATACCCCCATAGGATAAAATGACTGTTATACCCCTA-AGAGATGAAATGA
1 AAATACCCCCATAGGATAAAATGACCGAAATACCCCTATAG-GATAAAATGA
10672489 CTGTTATGGC
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
53 2 0.05
54 42 0.95
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.20
Consensus pattern (54 bp):
AAATACCCCCATAGGATAAAATGACCGAAATACCCCTATAGGATAAAATGATCG
Found at i:10674802 original size:68 final size:72
Alignment explanation
Indices: 10674727--10674859 Score: 202
Period size: 68 Copynumber: 1.9 Consensus size: 72
10674717 TTTTAATTAT
* *
10674727 TTAATATTAAATTAAATTTAATGCTTATC-T-TA-AT-AGTATTTTATTAATTTAATATTAAAGT
1 TTAATATTAAATTAAATTTAATGCTTATCTTGTAGATAAATATTATATTAATTTAATATTAAAGT
10674788 TATTTTC
66 TATTTTC
* *
10674795 TTAATATTAAATTTAATTTAATGTTTATCTTGTAGATAAATATTATATTAATTTAATATTAAAGT
1 TTAATATTAAATTAAATTTAATGCTTATCTTGTAGATAAATATTATATTAATTTAATATTAAAGT
10674860 GATTAAGTTT
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
68 27 0.47
69 1 0.02
70 2 0.04
71 2 0.04
72 25 0.44
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (72 bp):
TTAATATTAAATTAAATTTAATGCTTATCTTGTAGATAAATATTATATTAATTTAATATTAAAGT
TATTTTC
Found at i:10677356 original size:36 final size:35
Alignment explanation
Indices: 10677316--10677408 Score: 98
Period size: 36 Copynumber: 2.5 Consensus size: 35
10677306 TATATGTGTG
*
10677316 GAATTGAATCGAATAT-TGACTTGAAAATGGAAAAGT
1 GAATTGAATCGAAT-TGTGA-TTGAAAATGAAAAAGT
*
10677352 GAATTTTGAATCGAATTGTGATTGAAAGTGAAAAAGT
1 GAA--TTGAATCGAATTGTGATTGAAAATGAAAAAGT
* *
10677389 GAAATTGAATTGAAATGTGA
1 G-AATTGAATCGAATTGTGA
10677409 ATTTGGAGAC
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
36 17 0.35
37 16 0.33
38 16 0.33
ACGTcount: A:0.43, C:0.03, G:0.24, T:0.30
Consensus pattern (35 bp):
GAATTGAATCGAATTGTGATTGAAAATGAAAAAGT
Found at i:10677366 original size:38 final size:37
Alignment explanation
Indices: 10677319--10677408 Score: 103
Period size: 37 Copynumber: 2.4 Consensus size: 37
10677309 ATGTGTGGAA
*
10677319 TTGAATCGAATAT-TGACTTGAAAATGGAAAAGTGAATT
1 TTGAATCGAAT-TGTGA-TTGAAAATGAAAAAGTGAATT
* *
10677357 TTGAATCGAATTGTGATTGAAAGTGAAAAAGTGAA-A
1 TTGAATCGAATTGTGATTGAAAATGAAAAAGTGAATT
* *
10677393 TTGAATTGAAATGTGA
1 TTGAATCGAATTGTGA
10677409 ATTTGGAGAC
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
36 14 0.30
37 18 0.39
38 14 0.30
ACGTcount: A:0.42, C:0.03, G:0.23, T:0.31
Consensus pattern (37 bp):
TTGAATCGAATTGTGATTGAAAATGAAAAAGTGAATT
Done.