Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 56 of 185
Found at i:16020241 original size:74 final size:74
Alignment explanation
Indices: 16020120--16020264 Score: 272
Period size: 74 Copynumber: 2.0 Consensus size: 74
16020110 TATGATACTT
*
16020120 GTATTAACTTTTGTCTAGTATAGTATTTGTGTCTGACAAAAGTTATACATTTTGGTACCTGAAGA
1 GTATTAACTTTTGTCTAGTATAGTACTTGTGTCTGACAAAAGTTATACATTTTGGTACCTGAAGA
16020185 TAATAACTC
66 TAATAACTC
*
16020194 GTATTAACTTTTGTCTAGTATAGTACTTGTGTCTGACAAAAGTTATACATTTTGGTAGCTGAAGA
1 GTATTAACTTTTGTCTAGTATAGTACTTGTGTCTGACAAAAGTTATACATTTTGGTACCTGAAGA
16020259 TAATAA
66 TAATAA
16020265 TGTTTAATTT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 69 1.00
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (74 bp):
GTATTAACTTTTGTCTAGTATAGTACTTGTGTCTGACAAAAGTTATACATTTTGGTACCTGAAGA
TAATAACTC
Found at i:16026606 original size:61 final size:60
Alignment explanation
Indices: 16026529--16026654 Score: 148
Period size: 61 Copynumber: 2.1 Consensus size: 60
16026519 TCTTAAATAT
* ** * * * *
16026529 TAAAAGTTCAACAAATTTAGCCCTC-AATGTTTACAAAATTTGTCATTTTAGTTCTAATTC
1 TAAAAGTTCAACAAATTT-GCCCCCTAACATTTACAAAATTTGTCAATCTAGTCCTAACTC
16026589 TAAAAGATTCTAA-AAATTTGCCCCCTAACATTTACAAAATTTGTCAATCTAGTCCTAACTC
1 TAAAAG-TTC-AACAAATTTGCCCCCTAACATTTACAAAATTTGTCAATCTAGTCCTAACTC
16026650 TAAAA
1 TAAAA
16026655 CTTACTACAT
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
60 11 0.20
61 43 0.77
62 2 0.04
ACGTcount: A:0.38, C:0.19, G:0.07, T:0.36
Consensus pattern (60 bp):
TAAAAGTTCAACAAATTTGCCCCCTAACATTTACAAAATTTGTCAATCTAGTCCTAACTC
Found at i:16027140 original size:61 final size:61
Alignment explanation
Indices: 16027027--16027147 Score: 138
Period size: 61 Copynumber: 2.0 Consensus size: 61
16027017 TATTTTTAAA
* * * * **
16027027 TTTTTAGACTTAAGAATAAATTGATAGATTTTGTAAATGTTGAGGGACAAATTTATTGATT
1 TTTTTAGAATTAAGAATAAAATGACAAATTTTGTAAACATTGAGGGACAAATTTATTGATT
* *
16027088 TTTTTAGAATT-AGAACTAAAATGACAAATTTTGTAAACATTTAGGG-CTAAATTTGTTGAT
1 TTTTTAGAATTAAGAA-TAAAATGACAAATTTTGTAAACATTGAGGGAC-AAATTTATTGAT
16027148 GTTGGGATAA
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
60 5 0.10
61 45 0.90
ACGTcount: A:0.37, C:0.05, G:0.17, T:0.41
Consensus pattern (61 bp):
TTTTTAGAATTAAGAATAAAATGACAAATTTTGTAAACATTGAGGGACAAATTTATTGATT
Found at i:16030086 original size:3 final size:3
Alignment explanation
Indices: 16030078--16030140 Score: 58
Period size: 3 Copynumber: 20.3 Consensus size: 3
16030068 AAACTATCAT
* *
16030078 ATA ATA AT- ATGA ACA ATA AT- ATA AGTA ATA ATA ATA ATA GTA ATA
1 ATA ATA ATA AT-A ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA
16030123 ATAA ATA ATAA ATA ATA A
1 AT-A ATA AT-A ATA ATA A
16030141 AAGATGATAA
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
2 4 0.08
3 36 0.72
4 10 0.20
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:16030131 original size:7 final size:7
Alignment explanation
Indices: 16030092--16030141 Score: 52
Period size: 7 Copynumber: 7.3 Consensus size: 7
16030082 TAATATGAAC
16030092 AATAATA
1 AATAATA
16030099 TAAGTAAT-
1 -AA-TAATA
16030107 AATAAT-
1 AATAATA
*
16030113 AATAGT-
1 AATAATA
16030119 AATAATA
1 AATAATA
16030126 AATAATA
1 AATAATA
16030133 AATAATA
1 AATAATA
16030140 AA
1 AA
16030142 AGATGATAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
6 14 0.37
7 18 0.47
8 2 0.05
9 4 0.11
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (7 bp):
AATAATA
Found at i:16031881 original size:44 final size:43
Alignment explanation
Indices: 16031809--16032059 Score: 188
Period size: 44 Copynumber: 5.8 Consensus size: 43
16031799 ACCTAATACG
* * * *
16031809 ATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCATTTATTTTA
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCA-TTATTTCA
* * * * *
16031853 ATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCATTA-TTTCA
* * * * *
16031897 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGA-CCTGA-TACG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCATTATTTCA
* * * *
16031938 ATCTAC-CCTACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTA
1 ATCTGCTCC-ACTGTAATC-TCAGGGAGATAAGAT-CATTATTTCA
* * * * * *
16031982 ACCCGCTCCACTGTAATCTGAGGGAGATAGGATTACTATCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCATTAT-TTCA
16032026 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATC
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATC
16032060 TGAAATTCTT
Statistics
Matches: 156, Mismatches: 41, Indels: 20
0.72 0.19 0.09
Matches are distributed among these distances:
40 3 0.02
41 26 0.17
43 9 0.06
44 114 0.73
45 4 0.03
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.30
Consensus pattern (43 bp):
ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCATTATTTCA
Found at i:16031977 original size:129 final size:129
Alignment explanation
Indices: 16031743--16032062 Score: 489
Period size: 129 Copynumber: 2.5 Consensus size: 129
16031733 CACTGCTGCC
* * * * * * * *
16031743 CAGGGAGATA-GAGTTACTGGATTCAATGTACTCCACTGTAATCACAGGGAGGTAAAACCTAATA
1 CAGGGAGATAGGA-TTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGATA
* *
16031807 CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCATTTATTTTAATCCGCTCCACTGTAATCT
65 CGATCTACCCTACTGTAACTTCAGAGAGATAAGATCATTTATTTTAACCCGCTCCACTGTAATCT
*
16031872 CAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATAC
1 CAGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGATAC
*
16031937 GATCTACCCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAACCCGCTCCACTGTAATCT
66 GATCTACCCTACTGTAACTTCAGAGAGATAAGATCATTTATTTTAACCCGCTCCACTGTAATCT
* * *
16032001 GAGGGAGATAGGATTACTATCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGA
1 CAGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGA
16032063 AATTCTTCGG
Statistics
Matches: 174, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
129 172 0.99
130 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (129 bp):
CAGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGATAC
GATCTACCCTACTGTAACTTCAGAGAGATAAGATCATTTATTTTAACCCGCTCCACTGTAATCT
Found at i:16046353 original size:52 final size:51
Alignment explanation
Indices: 16046295--16046547 Score: 165
Period size: 54 Copynumber: 4.8 Consensus size: 51
16046285 ATTGGGGTGT
* *
16046295 TGGGACATTAATGGCCAACACCCCTTTATCTAGTAAAAAAAATTTTAG-GTGC
1 TGGGACACTGATGGCCAACACCCCTTTATCT-GTAAAAAAAA-TTTAGAGTGC
* * * * * * * *
16046347 TAGGACATTGATGACCGACAACCCTTTTAT-TGGATTTTAAAAAAATTTAGGGTGT
1 TGGGACACTGATGGCCAAC-ACCCCTTTATCT-G---TAAAAAAAATTTAGAGTGC
* * * * *
16046402 TGGGATAGTGATGGCCAACACCCCCTTTATCTGATAAAAATAATTTTGGAGTGT
1 TGGGACACTGATGGCCAACA-CCCCTTTATCTG-TAAAAA-AAATTTAGAGTGC
*
16046456 TGGGA-AGCTGATGGCCAACACCCCTTTTATCTG-ATAAAAAAA-TTAGAATGC
1 TGGGACA-CTGATGGCCAACACCCC-TTTATCTGTA-AAAAAAATTTAGAGTGC
* * *
16046507 TGGGACACTAATGGCCGACACCCCCTTTATTTGATAAAAAA
1 TGGGACACTGATGGCCAACA-CCCCTTTATCTG-TAAAAAA
16046548 GTTTTGGGGT
Statistics
Matches: 159, Mismatches: 27, Indels: 30
0.74 0.12 0.14
Matches are distributed among these distances:
51 29 0.18
52 30 0.19
53 24 0.15
54 41 0.26
55 34 0.21
56 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.29
Consensus pattern (51 bp):
TGGGACACTGATGGCCAACACCCCTTTATCTGTAAAAAAAATTTAGAGTGC
Found at i:16046468 original size:54 final size:54
Alignment explanation
Indices: 16046278--16046562 Score: 211
Period size: 51 Copynumber: 5.4 Consensus size: 54
16046268 TACCACTATT
* * *
16046278 TAAAAAAA--TTGGGGTGTTGGGACA-TTAATGGCCAACA-CCCCTTTATCT-A
1 TAAAAAAATTTTGGAGTGTTGGGACAGCTGATGGCCAACACCCCCTTTATCTGA
* * * * * * * *
16046327 GTAAAAAAAATTTTAG-GTGCTAGGACA-TTGATGACCGACAACCCTTTTAT-TGGA
1 -T-AAAAAAATTTTGGAGTGTTGGGACAGCTGATGGCCAACACCCCCTTTATCT-GA
* *
16046381 TTTTAAAAAAATTTAGG-GTGTTGGGATAG-TGATGGCCAACACCCCCTTTATCTGA
1 ---TAAAAAAATTTTGGAGTGTTGGGACAGCTGATGGCCAACACCCCCTTTATCTGA
*
16046436 TAAAAATAATTTTGGAGTGTTGGGA-AGCTGATGGCCAACACCCCTTTTATCTGA
1 TAAAAA-AATTTTGGAGTGTTGGGACAGCTGATGGCCAACACCCCCTTTATCTGA
* * * * * *
16046490 TAAAAAAA--TTAGAATGCTGGGACA-CTAATGGCCGACACCCCCTTTATTTGA
1 TAAAAAAATTTTGGAGTGTTGGGACAGCTGATGGCCAACACCCCCTTTATCTGA
* *
16046541 TAAAAAAGTTTTGGGGTGTTGG
1 TAAAAAAATTTTGGAGTGTTGG
16046563 AACATTGATG
Statistics
Matches: 188, Mismatches: 31, Indels: 29
0.76 0.12 0.12
Matches are distributed among these distances:
50 1 0.01
51 48 0.26
52 27 0.14
53 30 0.16
54 41 0.22
55 39 0.21
56 2 0.01
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (54 bp):
TAAAAAAATTTTGGAGTGTTGGGACAGCTGATGGCCAACACCCCCTTTATCTGA
Found at i:16046536 original size:51 final size:52
Alignment explanation
Indices: 16046384--16046547 Score: 172
Period size: 54 Copynumber: 3.1 Consensus size: 52
16046374 TATTGGATTT
** * *
16046384 TAAAAAAATTTAGGGTGTTGGGATAG-TGATGGCCAACACCCCCTTTATCTGA
1 TAAAAAAATTTAGAATGCTGGGA-AGCTAATGGCCAACACCCCCTTTATCTGA
* * * * *
16046436 TAAAAATAATTTTGGAGTGTTGGGAAGCTGATGGCCAACACCCCTTTTATCTGA
1 TAAAAA-AA-TTTAGAATGCTGGGAAGCTAATGGCCAACACCCCCTTTATCTGA
* *
16046490 TAAAAAAA-TTAGAATGCTGGGACA-CTAATGGCCGACACCCCCTTTATTTGA
1 TAAAAAAATTTAGAATGCTGGGA-AGCTAATGGCCAACACCCCCTTTATCTGA
16046541 TAAAAAA
1 TAAAAAA
16046548 GTTTTGGGGT
Statistics
Matches: 98, Mismatches: 10, Indels: 9
0.84 0.09 0.08
Matches are distributed among these distances:
51 41 0.42
52 7 0.07
53 6 0.06
54 44 0.45
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (52 bp):
TAAAAAAATTTAGAATGCTGGGAAGCTAATGGCCAACACCCCCTTTATCTGA
Found at i:16049031 original size:127 final size:127
Alignment explanation
Indices: 16048799--16049053 Score: 429
Period size: 127 Copynumber: 2.0 Consensus size: 127
16048789 ATGGCATCTA
* * *
16048799 TAATGTCCATGATTGCAACAAAAGGCAGCAACCGCTCATGTCCTTCATTTTTGGCTTTGTCGCTT
1 TAATGTCCATGATTGCAACAAAAGGCAGCAACCACTCATGTCCTTCATATTTGGCTTTGTCGATT
* * *
16048864 GACAAAGCTCGTGATATAGGCATACCAAAACTGCAGAGCCCCAATTGTAAGTCCTGACATGG
66 GACAAAGCTCGTGATATAGGCATACCAAAACCGCAAAGCCCCAATTGTAAGTCCCGACATGG
* *
16048926 TAATGTCCATGATTGCAGCAAAAGGCAGCAACCACTCATGTCCTTCATATTTGGCTTTGTCTATT
1 TAATGTCCATGATTGCAACAAAAGGCAGCAACCACTCATGTCCTTCATATTTGGCTTTGTCGATT
*
16048991 GACAAAGCTCGTGATATAGGCATACCAAAACCGCAAAGCCCCAATTGTAATTCCCGACATGG
66 GACAAAGCTCGTGATATAGGCATACCAAAACCGCAAAGCCCCAATTGTAAGTCCCGACATGG
16049053 T
1 T
16049054 TCAGATCTTT
Statistics
Matches: 119, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
127 119 1.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (127 bp):
TAATGTCCATGATTGCAACAAAAGGCAGCAACCACTCATGTCCTTCATATTTGGCTTTGTCGATT
GACAAAGCTCGTGATATAGGCATACCAAAACCGCAAAGCCCCAATTGTAAGTCCCGACATGG
Found at i:16050192 original size:32 final size:33
Alignment explanation
Indices: 16050153--16050248 Score: 88
Period size: 36 Copynumber: 2.8 Consensus size: 33
16050143 AGAGGTTTTT
16050153 TTTCTTTCACTGTAGGGTTTTTTC-TTTCTTTC
1 TTTCTTTCACTGTAGGGTTTTTTCTTTTCTTTC
** **
16050185 TTTCTTTCAC-CAAGTTTTTTTAAATTCTTTTCTTTC
1 TTTCTTTCACTGTAG-GGTTTT---TTCTTTTCTTTC
* *
16050221 TTTCTTTCACTGTAGGGGTTTTTATTTT
1 TTTCTTTCACTGTAGGGTTTTTTCTTTT
16050249 TTAGTTTTTT
Statistics
Matches: 48, Mismatches: 10, Indels: 11
0.70 0.14 0.16
Matches are distributed among these distances:
31 2 0.04
32 14 0.29
33 6 0.12
35 3 0.06
36 21 0.44
37 2 0.04
ACGTcount: A:0.11, C:0.17, G:0.10, T:0.61
Consensus pattern (33 bp):
TTTCTTTCACTGTAGGGTTTTTTCTTTTCTTTC
Found at i:16051691 original size:38 final size:36
Alignment explanation
Indices: 16051632--16051737 Score: 92
Period size: 37 Copynumber: 2.9 Consensus size: 36
16051622 TTAAAATAAT
* *
16051632 TTTTAAAAAATGCTATATGAAAAATTTTGAATCAAT-A
1 TTTTAAAAAATGATAGATGAAAAATTTTGAA--AATGA
* * *
16051669 TTTTAAAAAATTATAGAGTGAAAGATTTTGGAAATGA
1 TTTTAAAAAATGATAGA-TGAAAAATTTTGAAAATGA
* *
16051706 TTTTAAAAAA--ATAAAATGATAAATTTTGAAAA
1 TTTTAAAAAATGAT-AGATGAAAAATTTTGAAAA
16051738 CATATTTTTT
Statistics
Matches: 57, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
35 15 0.26
36 5 0.09
37 25 0.44
38 12 0.21
ACGTcount: A:0.51, C:0.02, G:0.11, T:0.36
Consensus pattern (36 bp):
TTTTAAAAAATGATAGATGAAAAATTTTGAAAATGA
Found at i:16053857 original size:51 final size:51
Alignment explanation
Indices: 16053713--16053891 Score: 166
Period size: 51 Copynumber: 3.5 Consensus size: 51
16053703 GAAAATGATA
* * *
16053713 AAAGGGGTGTTGGCCATCAGTGTCCTAGCACGTCAAAATTTTTTAAATCAGAT
1 AAAGGGGTGTCGGCCATCAGTGTCCCAGCAC-ACAAAATTTTTT-AATCAGAT
* * * * ** * *
16053766 AAAGGGGTGCCAGCCA-CCG-G-CACTTCAAAAAAAATATTTTTTAATCAGAT
1 AAAGGGGTGTCGGCCATCAGTGTCCCAGC-ACACAAA-ATTTTTTAATCAGAT
* *
16053816 AAAGGGGTGTCGGCCATCAGTGTCCCAGCACCCAAAATTTTTTTATCAGAT
1 AAAGGGGTGTCGGCCATCAGTGTCCCAGCACACAAAATTTTTTAATCAGAT
*
16053867 AAAGGGGATGTCGACCATCAGTGTC
1 AAAGGGG-TGTCGGCCATCAGTGTC
16053892 TTGACACCCA
Statistics
Matches: 98, Mismatches: 22, Indels: 13
0.74 0.17 0.10
Matches are distributed among these distances:
50 27 0.28
51 32 0.33
52 23 0.23
53 16 0.16
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.26
Consensus pattern (51 bp):
AAAGGGGTGTCGGCCATCAGTGTCCCAGCACACAAAATTTTTTAATCAGAT
Found at i:16056473 original size:40 final size:41
Alignment explanation
Indices: 16056418--16056500 Score: 141
Period size: 40 Copynumber: 2.0 Consensus size: 41
16056408 CGAAGCCTTG
* *
16056418 ATATGTGGGTGAGAAGTCATT-AAAAAAAAAAACTATGGTC
1 ATATGTGGGCGAGAAGTCATTAAAAAAAAAAAACTACGGTC
16056458 ATATGTGGGCGAGAAGTCATTAAAAAAAAAAAACTACGGTC
1 ATATGTGGGCGAGAAGTCATTAAAAAAAAAAAACTACGGTC
16056499 AT
1 AT
16056501 TTAAAATTCC
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
40 20 0.50
41 20 0.50
ACGTcount: A:0.46, C:0.10, G:0.22, T:0.23
Consensus pattern (41 bp):
ATATGTGGGCGAGAAGTCATTAAAAAAAAAAAACTACGGTC
Found at i:16057837 original size:38 final size:38
Alignment explanation
Indices: 16057786--16057862 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
16057776 TCATACTTAG
* *
16057786 TGAGAAAATCACATTTATTTTTGAATGTGACCCATTTA
1 TGAGAAAACCACATTCATTTTTGAATGTGACCCATTTA
*
16057824 TGAGAAAACCACATTCATTTTTGAATGTGGCCCATTTA
1 TGAGAAAACCACATTCATTTTTGAATGTGACCCATTTA
16057862 T
1 T
16057863 CTAACTTTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (38 bp):
TGAGAAAACCACATTCATTTTTGAATGTGACCCATTTA
Found at i:16060709 original size:19 final size:20
Alignment explanation
Indices: 16060670--16060717 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
16060660 AACCATATTT
16060670 AAAACAGTCCAAAAAAATCC
1 AAAACAGTCCAAAAAAATCC
* *
16060690 AAAACAGTCC-TAAAAGTCC
1 AAAACAGTCCAAAAAAATCC
16060709 AAAACAGTC
1 AAAACAGTC
16060718 AAACAAAACG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.54, C:0.25, G:0.08, T:0.12
Consensus pattern (20 bp):
AAAACAGTCCAAAAAAATCC
Found at i:16060960 original size:23 final size:23
Alignment explanation
Indices: 16060934--16061005 Score: 99
Period size: 23 Copynumber: 3.1 Consensus size: 23
16060924 TACAGACATC
*
16060934 GATGCATAGCAGATACAGATTCA
1 GATGCATAACAGATACAGATTCA
* *
16060957 GATGCATAACAGTTATAGATTCA
1 GATGCATAACAGATACAGATTCA
* *
16060980 AATGCATAACAGATACAGATTTA
1 GATGCATAACAGATACAGATTCA
16061003 GAT
1 GAT
16061006 CCTATCCCCA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.42, C:0.14, G:0.18, T:0.26
Consensus pattern (23 bp):
GATGCATAACAGATACAGATTCA
Found at i:16061835 original size:17 final size:17
Alignment explanation
Indices: 16061787--16061827 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
16061777 GAAAAATATG
*
16061787 TATGACTTTGAAATTGAA
1 TATGA-TTTGATATTGAA
16061805 TATGATTTGATATTGAA
1 TATGATTTGATATTGAA
*
16061822 TTTGAT
1 TATGAT
16061828 ATTGTATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.34, C:0.02, G:0.17, T:0.46
Consensus pattern (17 bp):
TATGATTTGATATTGAA
Found at i:16062313 original size:42 final size:41
Alignment explanation
Indices: 16062256--16062373 Score: 137
Period size: 42 Copynumber: 2.8 Consensus size: 41
16062246 TCGGTATATT
*
16062256 CGATGATGCATTTACGTGCTAGTATATTTTCTTCAGCTTATC
1 CGATGATGCACTTACGTGCTAGTATA-TTTCTTCAGCTTATC
* * * *
16062298 CGATAATGCACTTACGTGCTAGTATGATTACTTCAGTTTATT
1 CGATGATGCACTTACGTGCTAGTAT-ATTTCTTCAGCTTATC
**
16062340 CGATGATGCACTATGTGTGCTAGTATAATTTCTT
1 CGATGATGCACT-TACGTGCTAGTAT-ATTTCTT
16062374 TGGTTCATCC
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
42 46 0.72
43 18 0.28
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.42
Consensus pattern (41 bp):
CGATGATGCACTTACGTGCTAGTATATTTCTTCAGCTTATC
Found at i:16062389 original size:43 final size:43
Alignment explanation
Indices: 16062339--16062444 Score: 119
Period size: 43 Copynumber: 2.5 Consensus size: 43
16062329 TTCAGTTTAT
* * *
16062339 TCGATGATGCACTATGTGTGCTAGTATAATTTCTTTG-GTT-C
1 TCGATGATGCACTATGTGTGCCAATATAATTACTTTGTGTTGC
*
16062380 ATCCTATGATGCACCT-TGTGTGCCAATATAATTACTTTGTGTTGC
1 -T-CGATGATGCA-CTATGTGTGCCAATATAATTACTTTGTGTTGC
*
16062425 TCGATGATGTACTATGTGTG
1 TCGATGATGCACTATGTGTG
16062445 TCAGTATCTT
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
42 3 0.06
43 43 0.81
44 6 0.11
45 1 0.02
ACGTcount: A:0.21, C:0.16, G:0.22, T:0.42
Consensus pattern (43 bp):
TCGATGATGCACTATGTGTGCCAATATAATTACTTTGTGTTGC
Found at i:16066690 original size:31 final size:31
Alignment explanation
Indices: 16066644--16066714 Score: 126
Period size: 31 Copynumber: 2.3 Consensus size: 31
16066634 CAATATCATC
*
16066644 ATCCATGT-TATACATAATAATCCATCCAAA
1 ATCCATTTATATACATAATAATCCATCCAAA
16066674 ATCCATTTATATACATAATAATCCATCCAAA
1 ATCCATTTATATACATAATAATCCATCCAAA
16066705 ATCCATTTAT
1 ATCCATTTAT
16066715 CTTACTTTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
30 7 0.18
31 32 0.82
ACGTcount: A:0.42, C:0.23, G:0.01, T:0.34
Consensus pattern (31 bp):
ATCCATTTATATACATAATAATCCATCCAAA
Found at i:16069074 original size:28 final size:28
Alignment explanation
Indices: 16069043--16069139 Score: 88
Period size: 28 Copynumber: 3.5 Consensus size: 28
16069033 ACATGGTGCA
16069043 AATAACGATAAGCACTGAAGTGCAAAAT
1 AATAACGATAAGCACTGAAGTGCAAAAT
* * * * *
16069071 AATATCGATAAACACCGAATTGCAAATTT
1 AATAACGATAAGCACTGAAGTGCAAA-AT
* * * * *
16069100 TACAACAATAAGCATTCAAGTGCAAAAT
1 AATAACGATAAGCACTGAAGTGCAAAAT
16069128 AAT-ACGATAAGC
1 AATAACGATAAGC
16069140 GCGTTAATTT
Statistics
Matches: 50, Mismatches: 18, Indels: 3
0.70 0.25 0.04
Matches are distributed among these distances:
27 8 0.16
28 24 0.48
29 18 0.36
ACGTcount: A:0.48, C:0.16, G:0.13, T:0.22
Consensus pattern (28 bp):
AATAACGATAAGCACTGAAGTGCAAAAT
Found at i:16073975 original size:31 final size:30
Alignment explanation
Indices: 16073907--16073980 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 30
16073897 AAAATCCAAG
* *
16073907 ATAGTTGGGTGACACAAAAGAAATTTACTA
1 ATAGTTGGGTGACACAAAAGAAAATGACTA
* *
16073937 ATAGTTGGGTGACCCAAAAATGAAAATGAC-C
1 ATAGTTGGGTGACAC-AAAA-GAAAATGACTA
16073968 ATAGTTGGGTGAC
1 ATAGTTGGGTGAC
16073981 TACTAATATA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 14 0.37
31 17 0.45
32 7 0.18
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.24
Consensus pattern (30 bp):
ATAGTTGGGTGACACAAAAGAAAATGACTA
Found at i:16074910 original size:22 final size:22
Alignment explanation
Indices: 16074880--16074921 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
16074870 TATGTAAATA
*
16074880 TAAATTATTTAAAATAAAAACT
1 TAAAATATTTAAAATAAAAACT
**
16074902 TAAAATATTTATGATAAAAA
1 TAAAATATTTAAAATAAAAA
16074922 AAAGAGAAGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (22 bp):
TAAAATATTTAAAATAAAAACT
Found at i:16079870 original size:35 final size:35
Alignment explanation
Indices: 16079831--16079901 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
16079821 ATCTCTAGCC
16079831 AGGTCATTTTCTTAATTGTTATGGAAGGCATTGAG
1 AGGTCATTTTCTTAATTGTTATGGAAGGCATTGAG
16079866 AGGTCATTTTCTTAATTGTTATGGAAGGCATTGAG
1 AGGTCATTTTCTTAATTGTTATGGAAGGCATTGAG
16079901 A
1 A
16079902 AAACTATAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.27, C:0.08, G:0.25, T:0.39
Consensus pattern (35 bp):
AGGTCATTTTCTTAATTGTTATGGAAGGCATTGAG
Found at i:16086886 original size:15 final size:16
Alignment explanation
Indices: 16086866--16086897 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
16086856 GTCAAATTTT
16086866 ATTATTTGTTT-TTGC
1 ATTATTTGTTTGTTGC
16086881 ATTATTTGTTTGTTGC
1 ATTATTTGTTTGTTGC
16086897 A
1 A
16086898 CATTATACTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.16, C:0.06, G:0.16, T:0.62
Consensus pattern (16 bp):
ATTATTTGTTTGTTGC
Found at i:16089292 original size:3 final size:3
Alignment explanation
Indices: 16089284--16089308 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
16089274 GGCCAAAAAT
16089284 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
16089309 GGGTTAATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:16098712 original size:22 final size:22
Alignment explanation
Indices: 16098670--16098712 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
16098660 TACAATAAAA
* *
16098670 TAGACTTTTAGCGGCGTTTTTT
1 TAGACATTTAGCGGCGCTTTTT
*
16098692 TAGACATTTAGCGGTGCTTTT
1 TAGACATTTAGCGGCGCTTTT
16098713 AAGCGCTACT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.16, C:0.14, G:0.23, T:0.47
Consensus pattern (22 bp):
TAGACATTTAGCGGCGCTTTTT
Found at i:16098915 original size:44 final size:43
Alignment explanation
Indices: 16098792--16099020 Score: 235
Period size: 43 Copynumber: 5.3 Consensus size: 43
16098782 TTATGTGAAA
**
16098792 AAACGCCGCTAAAGATCATGGTCTTTAGCGGCGCTTTTATCAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTATCAC
* * * * *
16098835 AAACGCCGCTACAGATCACGACCTTTAGCGGTGCTTTTGTCAT
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTATCAC
* * * *
16098878 AAATGCCGCTAAAGGTCATGGCCTTTTAGCGGTGCTTTTATCAC
1 AAACGCCGCTAAAGATCATGACC-TTTAGCGGCGCTTTTATCAC
* *
16098922 AAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTTTATCAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGC-TTTTATCAC
* * * * * * ** *
16098966 AAATGCCGCTATAGAACA-AACCTTTAGCGACGCTTCTCGCAA
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTATCAC
16099008 AAACGCCGCTAAA
1 AAACGCCGCTAAA
16099021 AACATAAGCT
Statistics
Matches: 153, Mismatches: 31, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
42 16 0.10
43 75 0.49
44 62 0.41
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTATCAC
Found at i:16098917 original size:87 final size:87
Alignment explanation
Indices: 16098796--16099024 Score: 257
Period size: 87 Copynumber: 2.7 Consensus size: 87
16098786 GTGAAAAAAC
* * *
16098796 GCCGCTAAAGATCATGGTCTTTAGCGGCGCTTTTATCACAAACGCCGCTACAGATCACGACCTTT
1 GCCGCTAAAGATCATGGCCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGAACACGACCTTT
** * *
16098861 AGCGGTGC-TTTTGTCATAAAT
66 AGCGGCACTTTTTATCACAAAT
* * *
16098882 GCCGCTAAAGGTCATGGCCTTTTAGCGGTGCTTTTATCACAAACGCCGCTAAAGAACATGACCTT
1 GCCGCTAAAGATCATGGCC-TTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGAACACGACCTT
16098947 TAGCGGCACTTTTTATCACAAAT
65 TAGCGGCACTTTTTATCACAAAT
* * ** * * ** *
16098970 GCCGCTATAGAACA-AACCTTTAGCGACGCTTCTCGCAAAAACGCCGCTAAA-AACA
1 GCCGCTAAAGATCATGGCCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGAACA
16099025 TAAGCTTTAA
Statistics
Matches: 120, Mismatches: 21, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
85 4 0.03
86 44 0.37
87 50 0.42
88 22 0.18
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (87 bp):
GCCGCTAAAGATCATGGCCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGAACACGACCTTT
AGCGGCACTTTTTATCACAAAT
Found at i:16099402 original size:43 final size:43
Alignment explanation
Indices: 16099336--16099426 Score: 112
Period size: 43 Copynumber: 2.1 Consensus size: 43
16099326 CACATTGCAA
* * * **
16099336 GGTAATAAAAAATGCAATGCATTTTCTTAATCAATTAAATCTT
1 GGTAATAAAAAATACAATACATTTACTTAATCAAGGAAATCTT
* *
16099379 GGTAATAAAAGATATAATACATTTACTTAATCAAGGAAATCTT
1 GGTAATAAAAAATACAATACATTTACTTAATCAAGGAAATCTT
16099422 -GTAAT
1 GGTAAT
16099427 GAAGTCAAAG
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 5 0.12
43 36 0.88
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.35
Consensus pattern (43 bp):
GGTAATAAAAAATACAATACATTTACTTAATCAAGGAAATCTT
Found at i:16107217 original size:7 final size:7
Alignment explanation
Indices: 16107205--16107337 Score: 56
Period size: 7 Copynumber: 18.7 Consensus size: 7
16107195 ACTAGTTAAT
16107205 CTAAACC
1 CTAAACC
16107212 CTAAACC
1 CTAAACC
* *
16107219 ATAAA-T
1 CTAAACC
16107225 CTAAACC
1 CTAAACC
16107232 CTAAAACC
1 CT-AAACC
*
16107240 ATAAACC
1 CTAAACC
*
16107247 ATAAACC
1 CTAAACC
* *
16107254 CTTAACA
1 CTAAACC
16107261 C-ATAACC
1 CTA-AACC
16107268 TCTAAACC
1 -CTAAACC
*
16107276 TTAAACC
1 CTAAACC
* *
16107283 C-CAGCC
1 CTAAACC
*
16107289 TTTAAACC
1 -CTAAACC
*
16107297 ATAAACC
1 CTAAACC
* *
16107304 ATAATCC
1 CTAAACC
16107311 CTAAACC
1 CTAAACC
*
16107318 CATAATCC
1 C-TAAACC
*
16107326 ATAAACC
1 CTAAACC
*
16107333 TTAAA
1 CTAAA
16107338 ATGGTAACAT
Statistics
Matches: 93, Mismatches: 25, Indels: 16
0.69 0.19 0.12
Matches are distributed among these distances:
6 7 0.08
7 66 0.71
8 19 0.20
9 1 0.01
ACGTcount: A:0.46, C:0.33, G:0.01, T:0.20
Consensus pattern (7 bp):
CTAAACC
Found at i:16107282 original size:15 final size:14
Alignment explanation
Indices: 16107206--16107337 Score: 81
Period size: 14 Copynumber: 9.3 Consensus size: 14
16107196 CTAGTTAATC
16107206 TAAACCCTAAACCA
1 TAAACCCTAAACCA
* *
16107220 TAAA-TCTAAACCC
1 TAAACCCTAAACCA
*
16107233 TAAAACCATAAACCA
1 T-AAACCCTAAACCA
*
16107248 TAAACCCTTAACACA
1 TAAACCCTAAAC-CA
*
16107263 T-AACCTCTAAACCT
1 TAAACC-CTAAACCA
* * *
16107277 TAAACCC-CAGCCTT
1 TAAACCCTAAACC-A
*
16107291 TAAACCATAAACCA
1 TAAACCCTAAACCA
*
16107305 TAATCCCTAAACCCA
1 TAAACCCTAAA-CCA
* * *
16107320 TAATCCATAAACCT
1 TAAACCCTAAACCA
16107334 TAAA
1 TAAA
16107338 ATGGTAACAT
Statistics
Matches: 90, Mismatches: 20, Indels: 16
0.71 0.16 0.13
Matches are distributed among these distances:
13 11 0.12
14 44 0.49
15 35 0.39
ACGTcount: A:0.46, C:0.33, G:0.01, T:0.20
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:16107337 original size:22 final size:21
Alignment explanation
Indices: 16107206--16107337 Score: 81
Period size: 22 Copynumber: 6.2 Consensus size: 21
16107196 CTAGTTAATC
* *
16107206 TAAACCCTAAACCATAAATC-
1 TAAACCATAAACCATAAACCT
* *
16107226 TAAACCCTAAAACCATAAACCA
1 TAAACCAT-AAACCATAAACCT
* *
16107248 TAAACCCTTAACACAT-AACCT
1 TAAACCATAAAC-CATAAACCT
* ** *
16107269 CTAAACCTTAAACC-CCAGCCTT
1 -TAAACCATAAACCATAAACC-T
* *
16107291 TAAACCATAAACCATAATCCC
1 TAAACCATAAACCATAAACCT
*
16107312 TAAACCCATAATCCATAAACCT
1 TAAA-CCATAAACCATAAACCT
16107334 TAAA
1 TAAA
16107338 ATGGTAACAT
Statistics
Matches: 89, Mismatches: 15, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
20 8 0.09
21 38 0.43
22 43 0.48
ACGTcount: A:0.46, C:0.33, G:0.01, T:0.20
Consensus pattern (21 bp):
TAAACCATAAACCATAAACCT
Found at i:16107401 original size:75 final size:75
Alignment explanation
Indices: 16107298--16107466 Score: 284
Period size: 75 Copynumber: 2.3 Consensus size: 75
16107288 CTTTAAACCA
* * **
16107298 TAAACCATAATCCCTAAACCCATAATCCATAAACCTTAAAATGGTAACATTTAAACCTATCTAAA
1 TAAACCAAAAACCCTAAACCCATAATCCATAAACCTTAAAATGGTAACACATAAACCTATCTAAA
16107363 ACATATACCC
66 ACATATACCC
*
16107373 TAAACCAAAAACCTTAAACCCATAATCCATAAACCTTAAAATGGTAACACATAAACCTATCTAAA
1 TAAACCAAAAACCCTAAACCCATAATCCATAAACCTTAAAATGGTAACACATAAACCTATCTAAA
*
16107438 CCATATACCC
66 ACATATACCC
16107448 TAAACCAAAAACCCTAAAC
1 TAAACCAAAAACCCTAAAC
16107467 TATAGTGATA
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 87 1.00
ACGTcount: A:0.48, C:0.28, G:0.02, T:0.22
Consensus pattern (75 bp):
TAAACCAAAAACCCTAAACCCATAATCCATAAACCTTAAAATGGTAACACATAAACCTATCTAAA
ACATATACCC
Found at i:16107452 original size:14 final size:14
Alignment explanation
Indices: 16107433--16107466 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
16107423 ATAAACCTAT
* *
16107433 CTAAACCATATACC
1 CTAAACCAAAAACC
16107447 CTAAACCAAAAACC
1 CTAAACCAAAAACC
16107461 CTAAAC
1 CTAAAC
16107467 TATAGTGATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.50, C:0.35, G:0.00, T:0.15
Consensus pattern (14 bp):
CTAAACCAAAAACC
Found at i:16107698 original size:41 final size:41
Alignment explanation
Indices: 16107636--16107765 Score: 197
Period size: 41 Copynumber: 3.2 Consensus size: 41
16107626 TAAATTACTT
* *
16107636 TAAATCCCTGAGCATTAGCGGCGTTTTCTCAAAAACACAGC
1 TAAATCCCTGAGCATTAGCGGCGCTTTCTCAAAAACACCGC
* *
16107677 TAAAGCCCTGAGCATTAGCGGCACTTTCTCAAAAACACCGC
1 TAAATCCCTGAGCATTAGCGGCGCTTTCTCAAAAACACCGC
* * *
16107718 TAAATCCCTGAGCATTAGTGGCGCTTTCTTAAAAACGCCGC
1 TAAATCCCTGAGCATTAGCGGCGCTTTCTCAAAAACACCGC
16107759 TAAATCC
1 TAAATCC
16107766 TCGAAAGCTC
Statistics
Matches: 80, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 80 1.00
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (41 bp):
TAAATCCCTGAGCATTAGCGGCGCTTTCTCAAAAACACCGC
Found at i:16123563 original size:27 final size:27
Alignment explanation
Indices: 16123533--16123586 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
16123523 TACTGCTGAA
* *
16123533 GCATAGGGAACCTTTCTCATGTTCTAT
1 GCATAAGGAACCTTTCTCACGTTCTAT
16123560 GCATAAGGAACCTTTCTCACGTTCTAT
1 GCATAAGGAACCTTTCTCACGTTCTAT
16123587 CTTTCTTCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (27 bp):
GCATAAGGAACCTTTCTCACGTTCTAT
Found at i:16130624 original size:20 final size:20
Alignment explanation
Indices: 16130607--16130645 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
16130597 TATCGATACT
*
16130607 TTTATTAAGGTATTGATATA
1 TTTACTAAGGTATTGATATA
*
16130627 TTTCCTAAGGTATTGATAT
1 TTTACTAAGGTATTGATAT
16130646 TCCTACTCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.05, G:0.15, T:0.49
Consensus pattern (20 bp):
TTTACTAAGGTATTGATATA
Found at i:16130650 original size:17 final size:19
Alignment explanation
Indices: 16130612--16130650 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
16130602 ATACTTTTAT
16130612 TAAGGTATTGATATATTTCC
1 TAAGGTATTGA-ATATTTCC
16130632 TAAGGTATTG-ATA-TTCC
1 TAAGGTATTGAATATTTCC
16130649 TA
1 TA
16130651 CTCCAATGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 3 0.16
20 10 0.53
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (19 bp):
TAAGGTATTGAATATTTCC
Found at i:16133434 original size:17 final size:17
Alignment explanation
Indices: 16133404--16133473 Score: 56
Period size: 17 Copynumber: 4.1 Consensus size: 17
16133394 GATTTATGAT
16133404 TTGAATATGA-AATGAAA
1 TTGAA-ATGAGAATGAAA
16133421 TTGAAATGAGAATGAGAA
1 TTGAAATGAGAATGA-AA
* *
16133439 -TGATATGAAAATGGAAA
1 TTGAAATGAGAAT-GAAA
*
16133456 TGGAAATG-GAAATGAAA
1 TTGAAATGAG-AATGAAA
16133473 T
1 T
16133474 GGATGTTATA
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
16 4 0.09
17 27 0.63
18 12 0.28
ACGTcount: A:0.51, C:0.00, G:0.24, T:0.24
Consensus pattern (17 bp):
TTGAAATGAGAATGAAA
Found at i:16133456 original size:6 final size:6
Alignment explanation
Indices: 16133447--16133476 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
16133437 AATGATATGA
16133447 AAATGG AAATGG AAATGG AAAT-G AAATGG A
1 AAATGG AAATGG AAATGG AAATGG AAATGG A
16133477 TGTTATAGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.53, C:0.00, G:0.30, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:16133464 original size:12 final size:11
Alignment explanation
Indices: 16133410--16133476 Score: 59
Period size: 11 Copynumber: 5.9 Consensus size: 11
16133400 TGATTTGAAT
16133410 ATGAAAT-GAA
1 ATGAAATGGAA
16133420 ATTGAAAT-GAGA
1 A-TGAAATGGA-A
*
16133432 ATGAGAAT-GAT
1 ATGA-AATGGAA
16133443 ATGAAAATGGAA
1 ATG-AAATGGAA
16133455 ATGGAAATGGAA
1 AT-GAAATGGAA
16133467 ATGAAATGGA
1 ATGAAATGGA
16133477 TGTTATAGTC
Statistics
Matches: 49, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
10 1 0.02
11 25 0.51
12 22 0.45
13 1 0.02
ACGTcount: A:0.52, C:0.00, G:0.27, T:0.21
Consensus pattern (11 bp):
ATGAAATGGAA
Found at i:16133474 original size:17 final size:17
Alignment explanation
Indices: 16133412--16133476 Score: 62
Period size: 17 Copynumber: 3.8 Consensus size: 17
16133402 ATTTGAATAT
*
16133412 GAAATGAAATTGAAAT-
1 GAAATGAAATGGAAATG
*
16133428 GAGAATGAGAAT-GATATG
1 GA-AATGA-AATGGAAATG
*
16133446 AAAATGGAAATGGAAATG
1 GAAAT-GAAATGGAAATG
16133464 GAAATGAAATGGA
1 GAAATGAAATGGA
16133477 TGTTATAGTC
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
16 2 0.05
17 23 0.57
18 15 0.38
ACGTcount: A:0.52, C:0.00, G:0.28, T:0.20
Consensus pattern (17 bp):
GAAATGAAATGGAAATG
Found at i:16136439 original size:41 final size:41
Alignment explanation
Indices: 16136299--16136439 Score: 128
Period size: 41 Copynumber: 3.4 Consensus size: 41
16136289 GTATTGGGTT
* *
16136299 TTGAACCTAGTAGGCTTCATGCCGGTGTAACGATTCAGGCC
1 TTGAGCCTAGTAGGCTTCATGTCGGTGTAACGATTCAGGCC
* **
16136340 TTGAGCCTAGCAGGC--CCCGTACTGGTGTAACGATTCAGGCC
1 TTGAGCCTAGTAGGCTTCATGT-C-GGTGTAACGATTCAGGCC
* * * * *
16136381 CTGGGCCTA-TCAAGCTTCATGTCGGTGT-ATGAAATCAGGCC
1 TTGAGCCTAGT-AGGCTTCATGTCGGTGTAACG-ATTCAGGCC
16136422 TTGAGCCTAGTAGGCTTC
1 TTGAGCCTAGTAGGCTTC
16136440 GTGCCAGTGT
Statistics
Matches: 77, Mismatches: 16, Indels: 14
0.72 0.15 0.13
Matches are distributed among these distances:
39 2 0.03
40 3 0.04
41 67 0.87
42 2 0.03
43 3 0.04
ACGTcount: A:0.21, C:0.26, G:0.28, T:0.26
Consensus pattern (41 bp):
TTGAGCCTAGTAGGCTTCATGTCGGTGTAACGATTCAGGCC
Found at i:16141061 original size:131 final size:131
Alignment explanation
Indices: 16140813--16141370 Score: 632
Period size: 131 Copynumber: 4.3 Consensus size: 131
16140803 TTACTTTATC
* * *
16140813 TATCATGAATAATCTTATTTGAGTTAGCTAATTTAATATCGCTACTCCAAACAACTCACTGATTT
1 TATCATGAACAATCTTATTTGAGTTAGCTGATTTAATATCGCTACTCCAAACAACTCATTGATTT
* * * * * * * ** * ** *
16140878 AATATTACAGTTGATATCGTTAAGGTTCGCTAATTTAATATTTCTATTTAAGTTCATTCA-ATTT
66 AAGATTACAGCTAATATCATTAAGGTTCACTGATTTAAGATCACAACCTAAGTTTATT-AGATTT
16140942 AA
130 AA
* * * *
16140944 TATCATGAACAATCTTATTTGAGTTAGTTGATTTAATATCGCTACTTCAAACAGCTCGTTGATTT
1 TATCATGAACAATCTTATTTGAGTTAGCTGATTTAATATCGCTACTCCAAACAACTCATTGATTT
* * ** * *
16141009 AAGATTGCAGCTAATGTCATTAAGGTTCGTTGATTTAAGATCACAACCTAAGTTAATTTGATTTA
66 AAGATTACAGCTAATATCATTAAGGTTCACTGATTTAAGATCACAACCTAAGTTTATTAGATTTA
16141074 A
131 A
* * * * * *
16141075 AATCATGAACAATATTATTTAAGTTAGCTAATTTAATATTGCTACTCCAAACAACTCGTTGATTT
1 TATCATGAACAATCTTATTTGAGTTAGCTGATTTAATATCGCTACTCCAAACAACTCATTGATTT
* ** *
16141140 AAGATTACAGCTAATATCGTTAAGGTTCACTGATTTAAGATTGCAACCGAAGTTTATTAGATTTA
66 AAGATTACAGCTAATATCATTAAGGTTCACTGATTTAAGATCACAACCTAAGTTTATTAGATTTA
16141205 A
131 A
* * * * * *
16141206 TATCATCAACAATCATATCTGAGTTAGCTGATTTACTATCGCTACTCCAAACAGCTTATTGATTT
1 TATCATGAACAATCTTATTTGAGTTAGCTGATTTAATATCGCTACTCCAAACAACTCATTGATTT
** * * * * * *
16141271 AAGATCGCAGTTGACATCATTAAAGTTCATTGATTTAAGATCACAACCTAAGTTTATTAGATCTA
66 AAGATTACAGCTAATATCATTAAGGTTCACTGATTTAAGATCACAACCTAAGTTTATTAGATTTA
16141336 A
131 A
* *
16141337 TATCATGAACAATCTCATTTGTGTTAGCTGATTT
1 TATCATGAACAATCTTATTTGAGTTAGCTGATTT
16141371 TCCAAACACT
Statistics
Matches: 356, Mismatches: 70, Indels: 2
0.83 0.16 0.00
Matches are distributed among these distances:
131 356 1.00
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.39
Consensus pattern (131 bp):
TATCATGAACAATCTTATTTGAGTTAGCTGATTTAATATCGCTACTCCAAACAACTCATTGATTT
AAGATTACAGCTAATATCATTAAGGTTCACTGATTTAAGATCACAACCTAAGTTTATTAGATTTA
A
Found at i:16141365 original size:262 final size:262
Alignment explanation
Indices: 16140813--16141370 Score: 740
Period size: 262 Copynumber: 2.1 Consensus size: 262
16140803 TTACTTTATC
*
16140813 TATCATGAATAATCTTATTTGAGTTAGCTAATTTAATATCGCTACTCCAAACAACTCACTGATTT
1 TATCATGAACAATCTTATTTGAGTTAGCTAATTTAATATCGCTACTCCAAACAACTCACTGATTT
* * * * * * * ***
16140878 AATATTACAGTTGATATCGTTAAGGTTCGCTAATTTAATATTTCTATTTAAGTTCATTCAATTTA
66 AAGATTACAGCTAATATCGTTAAGGTTCACTAATTTAAGATTGCAACCGAAGTTCATTCAATTTA
* * * * * *
16140943 ATATCATGAACAATCTTATTTGAGTTAGTTGATTTAATATCGCTACTTCAAACAGCTCGTTGATT
131 ATATCATCAACAATCATATCTGAGTTAGCTGATTTAATATCGCTACTCCAAACAGCTCATTGATT
* ** * * * *
16141008 TAAGATTGCAGCTAATGTCATTAAGGTTCGTTGATTTAAGATCACAACCTAAGTTAATTTGATTT
196 TAAGATCGCAGCTAACATCATTAAAGTTCATTGATTTAAGATCACAACCTAAGTTAATTAGATCT
16141073 AA
261 AA
* * * * **
16141075 AATCATGAACAATATTATTTAAGTTAGCTAATTTAATATTGCTACTCCAAACAACTCGTTGATTT
1 TATCATGAACAATCTTATTTGAGTTAGCTAATTTAATATCGCTACTCCAAACAACTCACTGATTT
* *
16141140 AAGATTACAGCTAATATCGTTAAGGTTCACTGATTTAAGATTGCAACCGAAGTTTATT-AGATTT
66 AAGATTACAGCTAATATCGTTAAGGTTCACTAATTTAAGATTGCAACCGAAGTTCATTCA-ATTT
* *
16141204 AATATCATCAACAATCATATCTGAGTTAGCTGATTTACTATCGCTACTCCAAACAGCTTATTGAT
130 AATATCATCAACAATCATATCTGAGTTAGCTGATTTAATATCGCTACTCCAAACAGCTCATTGAT
* * *
16141269 TTAAGATCGCAGTTGACATCATTAAAGTTCATTGATTTAAGATCACAACCTAAGTTTATTAGATC
195 TTAAGATCGCAGCTAACATCATTAAAGTTCATTGATTTAAGATCACAACCTAAGTTAATTAGATC
16141334 TAA
260 TAA
* * *
16141337 TATCATGAACAATCTCATTTGTGTTAGCTGATTT
1 TATCATGAACAATCTTATTTGAGTTAGCTAATTT
16141371 TCCAAACACT
Statistics
Matches: 252, Mismatches: 43, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
261 1 0.00
262 251 1.00
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.39
Consensus pattern (262 bp):
TATCATGAACAATCTTATTTGAGTTAGCTAATTTAATATCGCTACTCCAAACAACTCACTGATTT
AAGATTACAGCTAATATCGTTAAGGTTCACTAATTTAAGATTGCAACCGAAGTTCATTCAATTTA
ATATCATCAACAATCATATCTGAGTTAGCTGATTTAATATCGCTACTCCAAACAGCTCATTGATT
TAAGATCGCAGCTAACATCATTAAAGTTCATTGATTTAAGATCACAACCTAAGTTAATTAGATCT
AA
Found at i:16142555 original size:22 final size:20
Alignment explanation
Indices: 16142507--16142545 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
16142497 TTTAAATTAA
*
16142507 TTAAAATCATTTTGACTTGG
1 TTAAAATCATTTTCACTTGG
16142527 TTAAAATCATTTTCACTTG
1 TTAAAATCATTTTCACTTG
16142546 ATTTTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.31, C:0.13, G:0.10, T:0.46
Consensus pattern (20 bp):
TTAAAATCATTTTCACTTGG
Found at i:16142684 original size:13 final size:13
Alignment explanation
Indices: 16142668--16142692 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16142658 CACTTCAATT
16142668 TATTTTATCAAAA
1 TATTTTATCAAAA
16142681 TATTTTATCAAA
1 TATTTTATCAAA
16142693 TAAAGCTTGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (13 bp):
TATTTTATCAAAA
Found at i:16142806 original size:39 final size:39
Alignment explanation
Indices: 16142750--16142824 Score: 132
Period size: 39 Copynumber: 1.9 Consensus size: 39
16142740 ATTATGAATT
* *
16142750 AGCGTTGGTATCTTGGGGGCCAACGAGCTCTTCATCCTC
1 AGCGTTAGTATCCTGGGGGCCAACGAGCTCTTCATCCTC
16142789 AGCGTTAGTATCCTGGGGGCCAACGAGCTCTTCATC
1 AGCGTTAGTATCCTGGGGGCCAACGAGCTCTTCATC
16142825 TTTTCATTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.17, C:0.28, G:0.28, T:0.27
Consensus pattern (39 bp):
AGCGTTAGTATCCTGGGGGCCAACGAGCTCTTCATCCTC
Found at i:16147214 original size:47 final size:47
Alignment explanation
Indices: 16147088--16147470 Score: 580
Period size: 47 Copynumber: 8.1 Consensus size: 47
16147078 TATGAAATGA
16147088 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATG
16147137 TGATAA----T-A-GGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
16147178 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATG
16147227 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
*
16147274 TGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
16147321 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
*
16147368 TGATAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATG
* * * * * * * *
16147417 TGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
16147464 TGATAAG
1 TGATAAG
16147471 TCCCGAAGGG
Statistics
Matches: 310, Mismatches: 14, Indels: 22
0.90 0.04 0.06
Matches are distributed among these distances:
41 14 0.05
43 25 0.08
44 1 0.00
45 2 0.01
46 1 0.00
47 175 0.56
49 92 0.30
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
Found at i:16147272 original size:96 final size:96
Alignment explanation
Indices: 16147088--16147470 Score: 620
Period size: 96 Copynumber: 4.1 Consensus size: 96
16147078 TATGAAATGA
16147088 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAA----T-A-GG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG
16147147 CCGATGTGATGAATGTGAAAGTGTATATATG
66 CCGATGTGATGAATGTGAAAGTGTATATATG
16147178 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG
16147243 CCGATGTGATGAATGTGAAAGTGTATATATG
66 CCGATGTGATGAATGTGAAAGTGTATATATG
*
16147274 TGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG
16147337 CCGATGTGATGAATGTGAAAGTGTATATATG
66 CCGATGTGATGAATGTGAAAGTGTATATATG
* * * * *
16147368 TGATAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGACAGGGCCGAGTGG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG
* * * *
16147433 CCAACGTGATGGATGTGAAAGTGTATAAATG
66 CCGATGTGATGAATGTGAAAGTGTATATATG
16147464 TGATAAG
1 TGATAAG
16147471 TCCCGAAGGG
Statistics
Matches: 274, Mismatches: 11, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
90 55 0.20
94 93 0.34
95 1 0.00
96 125 0.46
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (96 bp):
TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG
CCGATGTGATGAATGTGAAAGTGTATATATG
Found at i:16147342 original size:143 final size:141
Alignment explanation
Indices: 16147088--16147470 Score: 596
Period size: 143 Copynumber: 2.7 Consensus size: 141
16147078 TATGAAATGA
* *
16147088 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA--T-AT-GTG-ATAATAGGC
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCTAAT-GGC
16147148 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
65 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
16147213 AGTGTATATATATG
130 AGTG--TATATATG
16147227 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCTAATGGCC
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCTAATGGCC
16147292 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
66 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
16147357 GTGTATATATG
131 GTGTATATATG
* * * *
16147368 TGATAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGACAGGGCCGAGTGG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAGGGCCTAATGG
* * * *
16147433 CCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
64 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
16147471 TCCCGAAGGG
Statistics
Matches: 227, Mismatches: 10, Indels: 10
0.92 0.04 0.04
Matches are distributed among these distances:
139 45 0.20
141 47 0.21
142 2 0.01
143 129 0.57
144 4 0.02
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (141 bp):
TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCTAATGGCC
GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
GTGTATATATG
Found at i:16147645 original size:37 final size:37
Alignment explanation
Indices: 16147589--16147667 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
16147579 CCGAGCTCTA
* * * *
16147589 AAGACCTGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
16147626 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
16147663 AAGAC
1 AAGAC
16147668 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:16149572 original size:43 final size:43
Alignment explanation
Indices: 16149524--16149626 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
16149514 TTGGTTTTCA
16149524 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
16149567 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
16149610 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
16149627 TTGAAATGCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:16149645 original size:29 final size:29
Alignment explanation
Indices: 16149610--16149681 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
16149600 TGTGAGATTG
* *
16149610 GCACTAAGTGTGCGGGCTTGAAA-TGCATA
1 GCACTAAGTGTGCGAG-TTGAAAGTACATA
* *
16149639 GCACTAAGTGTGCGAGTTTAAAGTACATG
1 GCACTAAGTGTGCGAGTTGAAAGTACATA
16149668 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
16149682 TGGTTGATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
28 5 0.13
29 33 0.87
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.25
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTGAAAGTACATA
Found at i:16150093 original size:39 final size:40
Alignment explanation
Indices: 16149992--16150135 Score: 145
Period size: 40 Copynumber: 3.6 Consensus size: 40
16149982 TCGAATGATG
* *
16149992 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAAT
*
16150031 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCG-AGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAAG-TACTAAT
* * *
16150072 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAATTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAAT
*
16150111 TCCGGGCTAAGTTCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAG-GCATT
16150136 CATGCTAGTG
Statistics
Matches: 88, Mismatches: 8, Indels: 15
0.79 0.07 0.14
Matches are distributed among these distances:
39 33 0.38
40 39 0.44
41 16 0.18
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAAT
Found at i:16150154 original size:40 final size:40
Alignment explanation
Indices: 16150110--16150306 Score: 268
Period size: 40 Copynumber: 4.9 Consensus size: 40
16150100 GAATTACTAA
*
16150110 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATAT
*
16150150 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATAT
*
16150190 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATAT
* *** * * *
16150230 ATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATAT
* * * *
16150270 ATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGA
16150307 CGTGTATTCG
Statistics
Matches: 142, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATAT
Found at i:16153809 original size:49 final size:47
Alignment explanation
Indices: 16153608--16154133 Score: 839
Period size: 47 Copynumber: 11.1 Consensus size: 47
16153598 TATGAAATGA
16153608 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
16153655 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATG
16153704 TGATAA----T-A-GGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
16153745 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATG
16153794 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA--TG
*
16153843 TGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
16153890 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
*
16153937 TGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
16153984 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
*
16154031 TGATAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATG
* * * * * * * *
16154080 TGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
16154127 TGATAAG
1 TGATAAG
16154134 TCCCGAAGGG
Statistics
Matches: 449, Mismatches: 16, Indels: 28
0.91 0.03 0.06
Matches are distributed among these distances:
41 14 0.03
43 25 0.06
44 1 0.00
45 2 0.00
46 1 0.00
47 260 0.58
49 146 0.33
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
Found at i:16153960 original size:94 final size:95
Alignment explanation
Indices: 16153608--16154133 Score: 852
Period size: 96 Copynumber: 5.6 Consensus size: 95
16153598 TATGAAATGA
16153608 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
16153673 GATGTGATGAATGTGAAAGTGTATATATATG
66 GATGTGATGAATGTGAAAGTG-ATATATATG
16153704 TGATAA----T-A-GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
16153763 GATGTGATGAATGTGAAAGTGTATATATATG
66 GATGTGATGAATGTGAAAGTG-ATATATATG
*
16153794 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGTGATAGGGCCTAATGG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA--TGTGATAAGGCCTAATGG
16153859 CCGATGTGATGAATGTGAAAGTG-TATATATG
64 CCGATGTGATGAATGTGAAAGTGATATATATG
*
16153890 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCTAATGGCC
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
16153955 GATGTGATGAATGTGAAAGTG-TATATATG
66 GATGTGATGAATGTGAAAGTGATATATATG
16153984 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
*
16154049 GATGTGATGAATGTGGAAGTGTATATATATG
66 GATGTGATGAATGTGAAAGTG-ATATATATG
* * * * * * * *
16154080 TGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
16154134 TCCCGAAGGG
Statistics
Matches: 409, Mismatches: 11, Indels: 20
0.93 0.03 0.05
Matches are distributed among these distances:
90 88 0.22
91 1 0.00
92 1 0.00
94 134 0.33
95 1 0.00
96 144 0.35
98 40 0.10
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (95 bp):
TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
GATGTGATGAATGTGAAAGTGATATATATG
Found at i:16154308 original size:37 final size:37
Alignment explanation
Indices: 16154252--16154330 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
16154242 CCGAGCTCTA
* * * *
16154252 AAGACCTGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
16154289 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
16154326 AAGAC
1 AAGAC
16154331 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:16162623 original size:23 final size:22
Alignment explanation
Indices: 16162571--16162623 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
16162561 TCCACGTCTT
*
16162571 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
16162593 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
16162616 TTTCTTTT
1 TTTCTTTT
16162624 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:16172674 original size:2 final size:2
Alignment explanation
Indices: 16172667--16172694 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
16172657 TTTCATTTAA
16172667 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
16172695 ATATATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:16183464 original size:9 final size:9
Alignment explanation
Indices: 16183450--16183493 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
16183440 AATAAGTATT
16183450 AATTAATTA
1 AATTAATTA
16183459 AATTAATTA
1 AATTAATTA
*
16183468 AATTAATCAA
1 AATTAAT-TA
*
16183478 AATT-ACTA
1 AATTAATTA
16183486 AATTAATT
1 AATTAATT
16183494 TCCCACTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
8 5 0.17
9 19 0.66
10 5 0.17
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (9 bp):
AATTAATTA
Found at i:16187176 original size:25 final size:25
Alignment explanation
Indices: 16187148--16187236 Score: 76
Period size: 25 Copynumber: 3.6 Consensus size: 25
16187138 CTTATGAGTG
*
16187148 TCCCGATATATGGCTCTTCGGAGCT
1 TCCCGATATATGGCTCTTCAGAGCT
**
16187173 TCCCGATAGCTGGCTCTT-ATGAGCT
1 TCCCGATATATGGCTCTTCA-GAGCT
** *
16187198 TCTTGAT-TAATGGCTCTCCAGAGCT
1 TCCCGATAT-ATGGCTCTTCAGAGCT
*
16187223 TCCCAATAT-TGGCT
1 TCCCGATATATGGCT
16187237 TGCTTGAACT
Statistics
Matches: 49, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
24 5 0.10
25 42 0.86
26 2 0.04
ACGTcount: A:0.18, C:0.27, G:0.21, T:0.34
Consensus pattern (25 bp):
TCCCGATATATGGCTCTTCAGAGCT
Found at i:16187292 original size:25 final size:24
Alignment explanation
Indices: 16187264--16187354 Score: 83
Period size: 25 Copynumber: 3.7 Consensus size: 24
16187254 TGCGGCTCTT
*
16187264 ATGAGCTTCCCGTTATACAGCTCGA
1 ATGAGCTTCCCATTATACAGCTC-A
** *
16187289 ATGAGCTTTTCATTATACAACTCAA
1 ATGAGCTTCCCATTATACAGCTC-A
* * **
16187314 ATGAGCTTCCCGTTACATGGCTCA
1 ATGAGCTTCCCATTATACAGCTCA
16187338 CATGAGCTTCCCATTAT
1 -ATGAGCTTCCCATTAT
16187355 TTAGCTTGAA
Statistics
Matches: 51, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
24 1 0.02
25 50 0.98
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.32
Consensus pattern (24 bp):
ATGAGCTTCCCATTATACAGCTCA
Found at i:16189085 original size:41 final size:41
Alignment explanation
Indices: 16189028--16189266 Score: 290
Period size: 41 Copynumber: 5.8 Consensus size: 41
16189018 GAATATAATA
* *
16189028 CAGACGTTACGTCTAGCAGGCTTAATGCCGGTGAAGTA-A-TT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG-A-TACATTT
*
16189069 CAGACTTTAAGTCTAGCAGGCTAAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
16189110 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
* *
16189151 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
* * *
16189192 CAGACTATATGTCTAGCAGGC-TAAGTGCCGGTG-TAC-TGAAT
1 CAGACTTTAAGTCTAGCAGGCTTAA-TGCCGGTGATACAT--TT
* * **
16189233 CAGGCTTTAAGCCTAGCAGGCAAAATGCCGGTGA
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
16189267 ATCTGTTTAA
Statistics
Matches: 179, Mismatches: 12, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
39 3 0.02
40 8 0.04
41 166 0.93
42 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (41 bp):
CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
Found at i:16189249 original size:123 final size:123
Alignment explanation
Indices: 16189038--16189266 Score: 322
Period size: 123 Copynumber: 1.9 Consensus size: 123
16189028 CAGACGTTAC
*
16189038 GTCTAGCAGGCTTAATGCCGGTGAAGTAATTCAGACTTTAAGTCTAGCAGGCTAAATGCCGGTGA
1 GTCTAGCAGGCTTAATGCCGGTGAAGTAATTCAGACTATAAGTCTAGCAGGCTAAATGCCGGTGA
* * **
16189103 TACATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATAT
66 TACATATCAGACTTTAAGCCTAGCAGGCAAAATGCCGGTGATACATTTCAGACTATAT
* *
16189161 GTCTAGCAGGCTTAATGCCGGTG-A-TACATTTCAGACTATATGTCTAGCAGGCTAAGTGCCGGT
1 GTCTAGCAGGCTTAATGCCGGTGAAGTA-A-TTCAGACTATAAGTCTAGCAGGCTAAATGCCGGT
*
16189224 G-TAC-TGAATCAGGCTTTAAGCCTAGCAGGCAAAATGCCGGTGA
64 GATACAT--ATCAGACTTTAAGCCTAGCAGGCAAAATGCCGGTGA
16189267 ATCTGTTTAA
Statistics
Matches: 94, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
121 3 0.03
122 5 0.05
123 86 0.91
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (123 bp):
GTCTAGCAGGCTTAATGCCGGTGAAGTAATTCAGACTATAAGTCTAGCAGGCTAAATGCCGGTGA
TACATATCAGACTTTAAGCCTAGCAGGCAAAATGCCGGTGATACATTTCAGACTATAT
Found at i:16196719 original size:41 final size:41
Alignment explanation
Indices: 16196662--16196900 Score: 290
Period size: 41 Copynumber: 5.8 Consensus size: 41
16196652 GAATATAATA
* *
16196662 CAGACGTTACGTCTAGCAGGCTTAATGCCGGTGAAGTA-A-TT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG-A-TACATTT
*
16196703 CAGACTTTAAGTCTAGCAGGCTAAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
16196744 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
* *
16196785 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
* * *
16196826 CAGACTATATGTCTAGCAGGC-TAAGTGCCGGTG-TAC-TGAAT
1 CAGACTTTAAGTCTAGCAGGCTTAA-TGCCGGTGATACAT--TT
* * **
16196867 CAGGCTTTAAGCCTAGCAGGCAAAATGCCGGTGA
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
16196901 ATCTGTTTAA
Statistics
Matches: 179, Mismatches: 12, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
39 3 0.02
40 8 0.04
41 166 0.93
42 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (41 bp):
CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
Found at i:16196883 original size:123 final size:123
Alignment explanation
Indices: 16196672--16196900 Score: 322
Period size: 123 Copynumber: 1.9 Consensus size: 123
16196662 CAGACGTTAC
*
16196672 GTCTAGCAGGCTTAATGCCGGTGAAGTAATTCAGACTTTAAGTCTAGCAGGCTAAATGCCGGTGA
1 GTCTAGCAGGCTTAATGCCGGTGAAGTAATTCAGACTATAAGTCTAGCAGGCTAAATGCCGGTGA
* * **
16196737 TACATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATAT
66 TACATATCAGACTTTAAGCCTAGCAGGCAAAATGCCGGTGATACATTTCAGACTATAT
* *
16196795 GTCTAGCAGGCTTAATGCCGGTG-A-TACATTTCAGACTATATGTCTAGCAGGCTAAGTGCCGGT
1 GTCTAGCAGGCTTAATGCCGGTGAAGTA-A-TTCAGACTATAAGTCTAGCAGGCTAAATGCCGGT
*
16196858 G-TAC-TGAATCAGGCTTTAAGCCTAGCAGGCAAAATGCCGGTGA
64 GATACAT--ATCAGACTTTAAGCCTAGCAGGCAAAATGCCGGTGA
16196901 ATCTGTTTAA
Statistics
Matches: 94, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
121 3 0.03
122 5 0.05
123 86 0.91
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (123 bp):
GTCTAGCAGGCTTAATGCCGGTGAAGTAATTCAGACTATAAGTCTAGCAGGCTAAATGCCGGTGA
TACATATCAGACTTTAAGCCTAGCAGGCAAAATGCCGGTGATACATTTCAGACTATAT
Found at i:16201687 original size:42 final size:42
Alignment explanation
Indices: 16201636--16201720 Score: 143
Period size: 42 Copynumber: 2.0 Consensus size: 42
16201626 TGAGTAAGGC
* **
16201636 TCCGTAGATGTAGAATTAGTGAATCTGAATTATGTTAAAAAA
1 TCCGTAGATGTAGAATTAGTGAATCCGAATTACATTAAAAAA
16201678 TCCGTAGATGTAGAATTAGTGAATCCGAATTACATTAAAAAA
1 TCCGTAGATGTAGAATTAGTGAATCCGAATTACATTAAAAAA
16201720 T
1 T
16201721 ATCATCTATT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.32
Consensus pattern (42 bp):
TCCGTAGATGTAGAATTAGTGAATCCGAATTACATTAAAAAA
Found at i:16202049 original size:17 final size:17
Alignment explanation
Indices: 16202023--16202059 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
16202013 CATTAACTAA
16202023 TTTTTTTATATAT-ATT
1 TTTTTTTATATATAATT
16202039 TTTTGTTTATATATAATT
1 TTTT-TTTATATATAATT
16202057 TTT
1 TTT
16202060 ATGTCAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.21
17 9 0.47
18 6 0.32
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (17 bp):
TTTTTTTATATATAATT
Found at i:16202167 original size:32 final size:32
Alignment explanation
Indices: 16202130--16202215 Score: 111
Period size: 31 Copynumber: 2.7 Consensus size: 32
16202120 ATAAAATCAT
* *
16202130 TATTTCTAATAACATTATTTTTATATAAAAAA
1 TATTTCAAATATCATTATTTTTATATAAAAAA
***
16202162 TATTTCAAATATCATTA-TTTTATATGTGAAA
1 TATTTCAAATATCATTATTTTTATATAAAAAA
16202193 TATTTCAAATATCATTATATTTT
1 TATTTCAAATATCATTAT-TTTT
16202216 TACCTATATT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
31 28 0.60
32 15 0.32
33 4 0.09
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.50
Consensus pattern (32 bp):
TATTTCAAATATCATTATTTTTATATAAAAAA
Found at i:16202214 original size:17 final size:17
Alignment explanation
Indices: 16202161--16202214 Score: 51
Period size: 15 Copynumber: 3.4 Consensus size: 17
16202151 TATATAAAAA
16202161 ATATTTCAAATATCATT
1 ATATTTCAAATATCATT
* * * *
16202178 AT-TTT-ATATGTGA-A
1 ATATTTCAAATATCATT
16202192 ATATTTCAAATATCATT
1 ATATTTCAAATATCATT
16202209 ATATTT
1 ATATTT
16202215 TTACCTATAT
Statistics
Matches: 26, Mismatches: 8, Indels: 6
0.65 0.20 0.15
Matches are distributed among these distances:
14 2 0.08
15 8 0.31
16 8 0.31
17 8 0.31
ACGTcount: A:0.39, C:0.07, G:0.04, T:0.50
Consensus pattern (17 bp):
ATATTTCAAATATCATT
Found at i:16208935 original size:45 final size:44
Alignment explanation
Indices: 16208885--16208977 Score: 118
Period size: 44 Copynumber: 2.1 Consensus size: 44
16208875 GGTTCGCTGT
*
16208885 AATGGAATAGAGGC-GTAATAGTAATTCAAT-TGTTTGGTTGAATGA
1 AATGGAATAGA-ACTGTAATAGT-ATT-AATGTGTTTGGTTGAATGA
* *
16208930 AATGGAATAGAACTGTAATAGTATTATTGTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAGTATTAATGTGTTTGGTTGAATGA
16208974 AATG
1 AATG
16208978 ATGTTGTAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
43 2 0.05
44 22 0.51
45 19 0.44
ACGTcount: A:0.34, C:0.03, G:0.27, T:0.35
Consensus pattern (44 bp):
AATGGAATAGAACTGTAATAGTATTAATGTGTTTGGTTGAATGA
Found at i:16215743 original size:92 final size:91
Alignment explanation
Indices: 16215586--16215793 Score: 274
Period size: 92 Copynumber: 2.3 Consensus size: 91
16215576 TTGATTTTAG
* * *
16215586 TAAATTCATATAAGAACATTTTATTATTAACAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAACAATTTTATGAAATTATATATAACTATTAAATTAT
* * *
16215651 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
* *
16215678 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATT-TAATATTAATTATTAAATTA
1 TAAATTCATATAAGAAAATTTATTATCAACAATTTTATGAAATTAT-ATA-TAACTATTAAATTA
16215742 TATGTAATAATAATTATTTTAAATTATA
64 TATGTAATAATAATTATTTTAAATTATA
* * * *
16215770 CAAATTCATAAAATATAATTTATT
1 TAAATTCATATAAGAAAATTTATT
16215794 TGTTATAATT
Statistics
Matches: 102, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
90 1 0.01
91 28 0.27
92 73 0.72
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAACAATTTTATGAAATTATATATAACTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:16215755 original size:24 final size:25
Alignment explanation
Indices: 16215722--16215769 Score: 71
Period size: 24 Copynumber: 1.9 Consensus size: 25
16215712 TTATGAAATT
*
16215722 TAATATTAATTA-TTAAATTATATG
1 TAATAATAATTATTTAAATTATATG
16215746 TAATAATAATTATTTTAAATTATA
1 TAATAATAATTA-TTTAAATTATA
16215770 CAAATTCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 11 0.52
26 10 0.48
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (25 bp):
TAATAATAATTATTTAAATTATATG
Found at i:16215925 original size:66 final size:62
Alignment explanation
Indices: 16215848--16216058 Score: 181
Period size: 66 Copynumber: 3.4 Consensus size: 62
16215838 AAATATATTT
16215848 AATATTAATTATTTCAAATTTTCATTTATAGTATCATATATTATGATTTGAGTAAATTAATATAA
1 AATATTAATTATTT-AAATTTT-ATTTA-AGTATCATATATTATGATTTGAGTAAATT-ATATAA
16215913 G
62 G
* * * * **
16215914 AATATTAATTATTAAGAATTTTA-TTAA--ATTATATATT-TTAATT-A-T-AA-TATAT-TT
1 AATATTAATTATTTA-AATTTTATTTAAGTATCATATATTATGATTTGAGTAAATTATATAAG
*
16215968 AATAATAATTATGTT-AATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATA
1 AATATTAATTAT-TTAAATTT-TA-TTTA-AGTATCATATATTATGATTTGAGTAAATT-ATATA
16216032 AG
61 AG
*
16216034 AATATTAATTATTAAGAATTTTATT
1 AATATTAATTATTTA-AATTTTATT
16216059 AAATTATATA
Statistics
Matches: 113, Mismatches: 15, Indels: 35
0.69 0.09 0.21
Matches are distributed among these distances:
53 5 0.04
54 13 0.12
55 5 0.04
56 4 0.04
57 3 0.03
58 1 0.01
59 10 0.09
60 8 0.07
61 10 0.09
62 1 0.01
63 3 0.03
64 4 0.04
65 9 0.08
66 32 0.28
67 5 0.04
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (62 bp):
AATATTAATTATTTAAATTTTATTTAAGTATCATATATTATGATTTGAGTAAATTATATAAG
Found at i:16215948 original size:120 final size:120
Alignment explanation
Indices: 16215810--16216102 Score: 493
Period size: 120 Copynumber: 2.4 Consensus size: 120
16215800 AATTATTTTA
* * *
16215810 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCA-
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTAT-AT
*
16215872 TTTATAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAG
63 TTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAG
16215930 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
*
16215995 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAG
16216050 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
16216103 TAAATATGAT
Statistics
Matches: 165, Mismatches: 5, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
119 6 0.04
120 157 0.95
121 2 0.01
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAG
Found at i:16215970 original size:15 final size:15
Alignment explanation
Indices: 16215935--16215986 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
16215925 TTAAGAATTT
*
16215935 TATTAAATTAT-ATA
1 TATTTAATTATAATA
16215949 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
16215963 TATTTAATAATAAT-
1 TATTTAATTATAATA
16215977 TATGTTAATT
1 TAT-TTAATT
16215987 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:16216085 original size:16 final size:16
Alignment explanation
Indices: 16216064--16216105 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
16216054 TTATTAAATT
*
16216064 ATATATTTTAATTATA
1 ATATATTTTAATAATA
16216080 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
16216095 AT-TATGTTTAA
1 ATATAT-TTTAA
16216106 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:16216090 original size:15 final size:15
Alignment explanation
Indices: 16216055--16216096 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
16216045 TTAAGAATTT
*
16216055 TATTAAATTAT-ATA
1 TATTTAATTATAATA
16216069 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
16216083 TATTTAATAATAAT
1 TATTTAATTATAAT
16216097 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:16216211 original size:157 final size:157
Alignment explanation
Indices: 16216039--16216348 Score: 584
Period size: 157 Copynumber: 2.0 Consensus size: 157
16216029 ATAAGAATAT
*
16216039 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
* *
16216104 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
16216169 TAATAATTTACCAAAACAAATTTCTGG
131 TAATAATTTACCAAAACAAATTTCTGG
16216196 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
16216261 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
16216326 TAATCATTTACCAAAACAAATTT
131 TAATAATTTACCAAAACAAATTT
16216349 ATGCTAAGGG
Statistics
Matches: 149, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
157 149 1.00
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.45
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTCTGG
Found at i:16216236 original size:18 final size:17
Alignment explanation
Indices: 16216208--16216242 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
16216198 ATTATTAAGA
*
16216208 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
16216225 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
16216243 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:16217431 original size:19 final size:20
Alignment explanation
Indices: 16217409--16217453 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
16217399 TAAGAAAATG
*
16217409 ATAAAAAAT-GTAAAGAATT
1 ATAAAAAATCATAAAGAATT
*
16217428 AT-AAAATTCATAAAGAATT
1 ATAAAAAATCATAAAGAATT
16217447 ATAAAAA
1 ATAAAAA
16217454 TTATCGTATC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 5 0.23
19 13 0.59
20 4 0.18
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.27
Consensus pattern (20 bp):
ATAAAAAATCATAAAGAATT
Found at i:16217774 original size:10 final size:10
Alignment explanation
Indices: 16217717--16217801 Score: 70
Period size: 10 Copynumber: 8.8 Consensus size: 10
16217707 ATATATTCTC
*
16217717 TAATTTTTAG
1 TAATTTTTAA
*
16217727 TAAATTTTAAA
1 T-AATTTTTAA
16217738 TAATTTTT-A
1 TAATTTTTAA
*
16217747 TAATTTTTAT
1 TAATTTTTAA
*
16217757 TAAATTTTAA
1 TAATTTTTAA
*
16217767 TAATTTTTAT
1 TAATTTTTAA
*
16217777 TGATTTTT-A
1 TAATTTTTAA
*
16217786 T--TTTTTTA
1 TAATTTTTAA
16217794 TAATTTTT
1 TAATTTTT
16217802 TTACCACATG
Statistics
Matches: 60, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
7 5 0.08
8 2 0.03
9 10 0.17
10 35 0.58
11 8 0.13
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (10 bp):
TAATTTTTAA
Found at i:16217784 original size:20 final size:20
Alignment explanation
Indices: 16217717--16217801 Score: 79
Period size: 20 Copynumber: 4.4 Consensus size: 20
16217707 ATATATTCTC
* * *
16217717 TAATTTTTAGTAAATTTTAAA
1 TAATTTTTAAT-AATTTTTAT
16217738 TAATTTTT-ATAATTTTTAT
1 TAATTTTTAATAATTTTTAT
*
16217757 TAAATTTTAATAATTTTTAT
1 TAATTTTTAATAATTTTTAT
* *
16217777 TGATTTTT-AT-TTTTTTA-
1 TAATTTTTAATAATTTTTAT
16217794 TAATTTTT
1 TAATTTTT
16217802 TTACCACATG
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
17 7 0.13
18 6 0.11
19 16 0.29
20 18 0.33
21 8 0.15
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (20 bp):
TAATTTTTAATAATTTTTAT
Found at i:16217786 original size:30 final size:30
Alignment explanation
Indices: 16217717--16217787 Score: 108
Period size: 30 Copynumber: 2.4 Consensus size: 30
16217707 ATATATTCTC
*
16217717 TAATTTTTAGTAAATTTTAAATAATTTTTA
1 TAATTTTTATTAAATTTTAAATAATTTTTA
16217747 TAATTTTTATTAAATTTT-AATAATTTTTA
1 TAATTTTTATTAAATTTTAAATAATTTTTA
*
16217776 TTGATTTTTATT
1 -TAATTTTTATT
16217788 TTTTTATAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
29 11 0.29
30 27 0.71
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (30 bp):
TAATTTTTATTAAATTTTAAATAATTTTTA
Found at i:16217802 original size:10 final size:9
Alignment explanation
Indices: 16217717--16217801 Score: 73
Period size: 9 Copynumber: 8.9 Consensus size: 9
16217707 ATATATTCTC
16217717 TAATTTTTA
1 TAATTTTTA
*
16217726 GTAAATTTTAAA
1 -T-AATTTT-TA
16217738 TAATTTTTA
1 TAATTTTTA
16217747 TAATTTTTA
1 TAATTTTTA
*
16217756 TTAAATTTTAA
1 -T-AATTTTTA
16217767 TAATTTTTA
1 TAATTTTTA
*
16217776 TTGATTTTTA
1 -TAATTTTTA
*
16217786 T-TTTTTTA
1 TAATTTTTA
16217794 TAATTTTT
1 TAATTTTT
16217802 TTACCACATG
Statistics
Matches: 62, Mismatches: 7, Indels: 13
0.76 0.09 0.16
Matches are distributed among these distances:
8 7 0.11
9 23 0.37
10 17 0.27
11 14 0.23
12 1 0.02
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (9 bp):
TAATTTTTA
Found at i:16219235 original size:16 final size:15
Alignment explanation
Indices: 16219195--16219243 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
16219185 AGTTGCATAT
**
16219195 AATTACTAAAAATTG
1 AATTACTAAAAATAA
16219210 AATTATCTAAAAATAA
1 AATTA-CTAAAAATAA
16219226 AAGTTACTAAAAAATAA
1 AA-TTACT-AAAAATAA
16219243 A
1 A
16219244 CCCAAAGTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 5 0.17
16 12 0.41
17 12 0.41
ACGTcount: A:0.61, C:0.06, G:0.04, T:0.29
Consensus pattern (15 bp):
AATTACTAAAAATAA
Found at i:16221339 original size:19 final size:20
Alignment explanation
Indices: 16221310--16221347 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
16221300 TGCAACTTGC
16221310 TTTGTTTGTTGGTATGTTTT
1 TTTGTTTGTTGGTATGTTTT
16221330 TTTG-TTGTTGGTATGTTT
1 TTTGTTTGTTGGTATGTTT
16221348 GATCAATGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.05, C:0.00, G:0.26, T:0.68
Consensus pattern (20 bp):
TTTGTTTGTTGGTATGTTTT
Found at i:16231570 original size:21 final size:21
Alignment explanation
Indices: 16231544--16231584 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
16231534 CACCTACAGT
16231544 GGTATCGCGAGACCCACCTTG
1 GGTATCGCGAGACCCACCTTG
* *
16231565 GGTATCGCGATATCCACCTT
1 GGTATCGCGAGACCCACCTT
16231585 CCAAGAGGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.32, G:0.24, T:0.24
Consensus pattern (21 bp):
GGTATCGCGAGACCCACCTTG
Found at i:16232799 original size:33 final size:32
Alignment explanation
Indices: 16232762--16232904 Score: 115
Period size: 33 Copynumber: 4.3 Consensus size: 32
16232752 TGGCCCTGCC
* * *
16232762 ATGGTCTTACATTTGTAGTGCCATAACCCAGTT
1 ATGGTCTTACATTAG-AATGCCATAACCCAGCT
*
16232795 ATGGTCTTATCATTAGAATGCCATAGCCCAGCT
1 ATGGTCTTA-CATTAGAATGCCATAACCCAGCT
* * *** * *
16232828 ATGATCTTACATATAAACACTGCCATGGTCCAACC
1 ATGGTCTTACAT-TAGA-A-TGCCATAACCCAGCT
* *
16232863 ATGGTCTTACATTCATAATGCCATAACCCAGTT
1 ATGGTCTTACATT-AGAATGCCATAACCCAGCT
16232896 ATGGTCTTA
1 ATGGTCTTA
16232905 TCCATCAATT
Statistics
Matches: 87, Mismatches: 18, Indels: 10
0.76 0.16 0.09
Matches are distributed among these distances:
32 3 0.03
33 52 0.60
34 8 0.09
35 24 0.28
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (32 bp):
ATGGTCTTACATTAGAATGCCATAACCCAGCT
Found at i:16237075 original size:19 final size:20
Alignment explanation
Indices: 16237051--16237094 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
16237041 AGCTAAAATT
16237051 AAGTAAAG-AGAGTACACTA
1 AAGTAAAGAAGAGTACACTA
* **
16237070 AAGTAAGGAAGAGTTTACTA
1 AAGTAAAGAAGAGTACACTA
16237090 AAGTA
1 AAGTA
16237095 TTGGGCGCAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.50, C:0.07, G:0.23, T:0.20
Consensus pattern (20 bp):
AAGTAAAGAAGAGTACACTA
Found at i:16241394 original size:17 final size:18
Alignment explanation
Indices: 16241374--16241407 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
16241364 ACAAATTAGT
*
16241374 AAAAAATTCAAA-CAAAA
1 AAAAAACTCAAATCAAAA
16241391 AAAAAACTCAAATCAAA
1 AAAAAACTCAAATCAAA
16241408 TTCATATCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.74, C:0.15, G:0.00, T:0.12
Consensus pattern (18 bp):
AAAAAACTCAAATCAAAA
Found at i:16242888 original size:21 final size:21
Alignment explanation
Indices: 16242862--16242902 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
16242852 TCATTTTTAG
*
16242862 AAGGTGGATATCACGATACCC
1 AAGGTGGATATAACGATACCC
16242883 AAGGTGGATATAACGATACC
1 AAGGTGGATATAACGATACC
16242903 ATTGTAGGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.20
Consensus pattern (21 bp):
AAGGTGGATATAACGATACCC
Found at i:16245465 original size:19 final size:19
Alignment explanation
Indices: 16245437--16245492 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 19
16245427 CTTTTTATAC
* *
16245437 TTTAGATTAAATTTATTAA
1 TTTAGTTTAAATTAATTAA
*
16245456 TTTAGTTTAACTTAATTAA
1 TTTAGTTTAAATTAATTAA
* *
16245475 TTTAATTT-AGTTAATTAA
1 TTTAGTTTAAATTAATTAA
16245493 GATAATTTAC
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
18 9 0.28
19 23 0.72
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (19 bp):
TTTAGTTTAAATTAATTAA
Found at i:16245498 original size:18 final size:18
Alignment explanation
Indices: 16245467--16245501 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
16245457 TTAGTTTAAC
**
16245467 TTAATTAATTTAATTTAG
1 TTAATTAAGATAATTTAG
16245485 TTAATTAAGATAATTTA
1 TTAATTAAGATAATTTA
16245502 CTATTATTAA
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:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (18 bp):
TTAATTAAGATAATTTAG
Found at i:16247247 original size:17 final size:16
Alignment explanation
Indices: 16247225--16247272 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
16247215 GAACTTACTA
16247225 TTCATTTTTATGTTAT
1 TTCATTTTTATGTTAT
*
16247241 GTTCATTTTTGT-TCTAT
1 -TTCATTTTTATGT-TAT
*
16247258 TTCATTTATATGTTA
1 TTCATTTTTATGTTA
16247273 CATTGGAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
16 12 0.46
17 14 0.54
ACGTcount: A:0.19, C:0.08, G:0.08, T:0.65
Consensus pattern (16 bp):
TTCATTTTTATGTTAT
Found at i:16251128 original size:66 final size:66
Alignment explanation
Indices: 16251058--16251241 Score: 228
Period size: 66 Copynumber: 2.8 Consensus size: 66
16251048 TGGTGTTCGT
* * * *
16251058 TAGGACATTAAATATGGGGTACATGTGTAAGCCCTTAACTCAGCTATGGCAACGTATGGAGTCCC
1 TAGGACATTAAACATGGGGTACATGTGTAAGACCTTAGCTCAGCTATGGCAACGTATGGAGTCCA
16251123 C
66 C
* * * *
16251124 TAGGACATTAAACATGAGGTACATGTGTAAGACCTTAGCTC-GACTATGGCAATGTGTGGAGTCT
1 TAGGACATTAAACATGGGGTACATGTGTAAGACCTTAGCTCAG-CTATGGCAACGTATGGAGTCC
16251188 AC
65 AC
* * *
16251190 TAAGACATTAAACATGGGGT-TATGTATGTAAGACCATAGCTCAGCTATGGCA
1 TAGGACATTAAACATGGGGTACATG--TGTAAGACCTTAGCTCAGCTATGGCA
16251242 GCATGTAGAG
Statistics
Matches: 102, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
65 4 0.04
66 74 0.73
67 23 0.23
68 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (66 bp):
TAGGACATTAAACATGGGGTACATGTGTAAGACCTTAGCTCAGCTATGGCAACGTATGGAGTCCA
C
Found at i:16251253 original size:67 final size:66
Alignment explanation
Indices: 16251012--16251256 Score: 226
Period size: 66 Copynumber: 3.7 Consensus size: 66
16251002 AAAAAGAGGT
* * * * * * * ** * *
16251012 TACATGT-TAATACCTGAACTCAGCTAGGGCAACATGTGGTGTTCGTTAGGACATTAAATATGGG
1 TACATGTGTAAGACCTTAGCTCAGCTATGGCAACGTGTGGAGTCCACTAAGACATTAAACATGGG
16251076 G
66 G
* * * * * *
16251077 TACATGTGTAAGCCCTTAACTCAGCTATGGCAACGTATGGAGTCCCCTAGGACATTAAACATGAG
1 TACATGTGTAAGACCTTAGCTCAGCTATGGCAACGTGTGGAGTCCACTAAGACATTAAACATGGG
16251142 G
66 G
* *
16251143 TACATGTGTAAGACCTTAGCTC-GACTATGGCAATGTGTGGAGTCTACTAAGACATTAAACATGG
1 TACATGTGTAAGACCTTAGCTCAG-CTATGGCAACGTGTGGAGTCCACTAAGACATTAAACATGG
16251207 GG
65 GG
* * * * *
16251209 T-TATGTATGTAAGACCATAGCTCAGCTATGGCAGCATGTAGAGTCCAC
1 TACATG--TGTAAGACCTTAGCTCAGCTATGGCAACGTGTGGAGTCCAC
16251257 AGATCAATAA
Statistics
Matches: 148, Mismatches: 27, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
65 11 0.07
66 103 0.70
67 33 0.22
68 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (66 bp):
TACATGTGTAAGACCTTAGCTCAGCTATGGCAACGTGTGGAGTCCACTAAGACATTAAACATGGG
G
Found at i:16267801 original size:24 final size:24
Alignment explanation
Indices: 16267773--16267824 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
16267763 TTTATAGATC
**
16267773 AAATAAATTATGCTAATAAATACT
1 AAATAAATTATAATAATAAATACT
*
16267797 AAATATATTATAATAATAAATACT
1 AAATAAATTATAATAATAAATACT
16267821 AAAT
1 AAAT
16267825 CTTCTAGAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.35
Consensus pattern (24 bp):
AAATAAATTATAATAATAAATACT
Found at i:16271719 original size:17 final size:17
Alignment explanation
Indices: 16271697--16271746 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
16271687 TTGAAGAATA
16271697 TGTTTGGATTTTGCATC
1 TGTTTGGATTTTGCATC
*
16271714 TGTTT-G--TTT-AATC
1 TGTTTGGATTTTGCATC
*
16271727 TATTTGGATTTTGCATC
1 TGTTTGGATTTTGCATC
16271744 TGT
1 TGT
16271747 CTGTTGAAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 8
0.68 0.11 0.22
Matches are distributed among these distances:
13 7 0.28
14 4 0.16
16 4 0.16
17 10 0.40
ACGTcount: A:0.14, C:0.10, G:0.20, T:0.56
Consensus pattern (17 bp):
TGTTTGGATTTTGCATC
Found at i:16274977 original size:32 final size:31
Alignment explanation
Indices: 16274937--16275076 Score: 148
Period size: 32 Copynumber: 4.5 Consensus size: 31
16274927 AAATTTTAGT
* *
16274937 TTGTTAGATTTTGAAATTATTATGTCTTGAA-T
1 TTGTTAGATATTGAAATTATTATGT-TT-AAGC
16274969 TTGTTAGATATTG--ATTA-TAT-TTTAAGC
1 TTGTTAGATATTGAAATTATTATGTTTAAGC
*
16274996 TTGTTAGATATTGAATTTATTATGTTTTAAGC
1 TTGTTAGATATTGAAATTATTATG-TTTAAGC
* *
16275028 TTGTTGGATATTGAATTTATTATGTTTTAAGC
1 TTGTTAGATATTGAAATTATTATG-TTTAAGC
16275060 TTGTT-GAATATTGAAAT
1 TTGTTAG-ATATTGAAAT
16275077 GATTGACAAT
Statistics
Matches: 96, Mismatches: 5, Indels: 14
0.83 0.04 0.12
Matches are distributed among these distances:
26 2 0.02
27 15 0.16
28 1 0.01
29 6 0.06
30 7 0.07
31 1 0.01
32 64 0.67
ACGTcount: A:0.29, C:0.03, G:0.16, T:0.52
Consensus pattern (31 bp):
TTGTTAGATATTGAAATTATTATGTTTAAGC
Found at i:16275010 original size:59 final size:62
Alignment explanation
Indices: 16274929--16275076 Score: 164
Period size: 59 Copynumber: 2.4 Consensus size: 62
16274919 TAATATTGAA
* * *
16274929 ATTTT-AGTTTGTTAGATTTTGAAATTATTATGTCTTGAA-TTTGTTAGATATTG-A-TTA-T
1 ATTTTAAGCTTGTTAGATATTGAAATTATTATGT-TTGAAGCTTGTTAGATATTGAATTTATT
* * *
16274987 ATTTTAAGCTTGTTAGATATTGAATTTATTATGTTTTAAGCTTGTTGGATATTGAATTTATT
1 ATTTTAAGCTTGTTAGATATTGAAATTATTATGTTTGAAGCTTGTTAGATATTGAATTTATT
16275049 ATGTTTTAAGCTTGTT-GAATATTGAAAT
1 A--TTTTAAGCTTGTTAG-ATATTGAAAT
16275077 GATTGACAAT
Statistics
Matches: 75, Mismatches: 7, Indels: 10
0.82 0.08 0.11
Matches are distributed among these distances:
58 9 0.12
59 37 0.49
60 1 0.01
61 3 0.04
62 2 0.03
63 1 0.01
64 22 0.29
ACGTcount: A:0.28, C:0.03, G:0.16, T:0.53
Consensus pattern (62 bp):
ATTTTAAGCTTGTTAGATATTGAAATTATTATGTTTGAAGCTTGTTAGATATTGAATTTATT
Found at i:16276322 original size:36 final size:36
Alignment explanation
Indices: 16276282--16276353 Score: 94
Period size: 36 Copynumber: 2.0 Consensus size: 36
16276272 AATTTTATTT
16276282 ATTTACAA-ATAAA-TCATTGCAATATAAGTAAAAACA
1 ATTTACAATATAAATTCATT--AATATAAGTAAAAACA
* *
16276318 ATTTACAATATAAATTTATTAATATATGTAAAAACA
1 ATTTACAATATAAATTCATTAATATAAGTAAAAACA
16276354 GCTTTTTCGG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 23 0.72
37 5 0.16
38 4 0.12
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.33
Consensus pattern (36 bp):
ATTTACAATATAAATTCATTAATATAAGTAAAAACA
Found at i:16278174 original size:68 final size:69
Alignment explanation
Indices: 16278013--16278222 Score: 264
Period size: 68 Copynumber: 3.0 Consensus size: 69
16278003 CATCATTTAT
* * * **
16278013 ATACCAAATTAAACAGCATTTATACACCAAAATTTGGACAGT-TTATATACAACAAATGGGCCGC
1 ATACCAAATTAAACAGCATTTTTACACCAAAATTT-AACA-TCATATATACAACAAATGGGCAAC
16278077 ATATAC
64 ATATAC
* * *
16278083 ATACCAAATTTAATAGCACTTTTACACCAAAATTTAACATCATATATACAACAAATGGGCAAC-T
1 ATACCAAATTAAACAGCATTTTTACACCAAAATTTAACATCATATATACAACAAATGGGCAACAT
16278147 ATAC
66 ATAC
* * * *
16278151 ATACCAAATTGAGCAGTATTTTTACACCAAAATTTAACAGCATATATACAACAAATGGG-AAGCA
1 ATACCAAATTAAACAGCATTTTTACACCAAAATTTAACATCATATATACAACAAATGGGCAA-CA
16278215 TATAC
65 TATAC
16278220 ATA
1 ATA
16278223 ATACATCATA
Statistics
Matches: 123, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
67 2 0.02
68 60 0.49
69 30 0.24
70 31 0.25
ACGTcount: A:0.45, C:0.19, G:0.10, T:0.27
Consensus pattern (69 bp):
ATACCAAATTAAACAGCATTTTTACACCAAAATTTAACATCATATATACAACAAATGGGCAACAT
ATAC
Found at i:16279075 original size:41 final size:41
Alignment explanation
Indices: 16279030--16279186 Score: 215
Period size: 41 Copynumber: 3.8 Consensus size: 41
16279020 CTTTATAAAA
* * * * *
16279030 CACCGGCATAAAGCCTGCTAGGCACAAAGCCCGATACATTT
1 CACCGGCACAAAGCCTGCTAGGCATAAAGCCTGATATAATT
* * *
16279071 CACCGTCACAAAGCCTGCTAGACATAAAGTCTGATATAATT
1 CACCGGCACAAAGCCTGCTAGGCATAAAGCCTGATATAATT
* *
16279112 CACCGGCACAGAGCCTGCTAGGCATAAAGCCTAATATAATT
1 CACCGGCACAAAGCCTGCTAGGCATAAAGCCTGATATAATT
*
16279153 CACCGGCACAGAGCCTGCTAGGCATAAAGCCTGA
1 CACCGGCACAAAGCCTGCTAGGCATAAAGCCTGA
16279187 ACTTACAAAA
Statistics
Matches: 102, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 102 1.00
ACGTcount: A:0.33, C:0.29, G:0.20, T:0.18
Consensus pattern (41 bp):
CACCGGCACAAAGCCTGCTAGGCATAAAGCCTGATATAATT
Found at i:16306232 original size:16 final size:16
Alignment explanation
Indices: 16306213--16306243 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16306203 TCCCACGTTA
*
16306213 GGTTTTGGGTTTTTAG
1 GGTTTAGGGTTTTTAG
16306229 GGTTTAGGGTTTTTA
1 GGTTTAGGGTTTTTA
16306244 AAGTTTTAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.00, G:0.35, T:0.55
Consensus pattern (16 bp):
GGTTTAGGGTTTTTAG
Found at i:16306545 original size:48 final size:47
Alignment explanation
Indices: 16306491--16306635 Score: 236
Period size: 48 Copynumber: 3.0 Consensus size: 47
16306481 CGTTTTTGAG
16306491 CAAATAATATACAAATATTCAAATAAACTATTTTGTATTTTATTACAT
1 CAAATAATAT-CAAATATTCAAATAAACTATTTTGTATTTTATTACAT
* *
16306539 CAAATAATATCAAAATATTCAAAATAAACTATTTTATATTTTATTATAT
1 CAAATAATATC-AAATATTC-AAATAAACTATTTTGTATTTTATTACAT
16306588 CAAATAATATCAAATATTCAAATTAAACTATTTTGTATTTTATTACAT
1 CAAATAATATCAAATATTCAAA-TAAACTATTTTGTATTTTATTACAT
16306636 TAATATAAAC
Statistics
Matches: 90, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
47 4 0.04
48 49 0.54
49 37 0.41
ACGTcount: A:0.46, C:0.10, G:0.01, T:0.43
Consensus pattern (47 bp):
CAAATAATATCAAATATTCAAATAAACTATTTTGTATTTTATTACAT
Found at i:16314735 original size:6 final size:6
Alignment explanation
Indices: 16314724--16314763 Score: 73
Period size: 6 Copynumber: 6.8 Consensus size: 6
16314714 TAAACTTATT
16314724 ATATAA ATATAA A-ATAA ATATAA ATATAA ATATAA ATATA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATA
16314764 TTATTATATA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 5 0.15
6 28 0.85
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
ATATAA
Found at i:16314803 original size:18 final size:19
Alignment explanation
Indices: 16314767--16314804 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
16314757 AAATATATTA
* *
16314767 TTATATAATGCTTGTAAAT
1 TTATATAATACTTGCAAAT
16314786 TTATA-AATACTTGCAAAT
1 TTATATAATACTTGCAAAT
16314804 T
1 T
16314805 ATTTAATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (19 bp):
TTATATAATACTTGCAAAT
Found at i:16329762 original size:15 final size:15
Alignment explanation
Indices: 16329737--16329772 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
16329727 TTAATATATG
16329737 TTTTA-TTTTATTTA
1 TTTTATTTTTATTTA
16329751 TTTTATTTTTATTTA
1 TTTTATTTTTATTTA
16329766 TTTTATT
1 TTTTATT
16329773 AATACAACAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTTATTTTTATTTA
Found at i:16330940 original size:25 final size:24
Alignment explanation
Indices: 16330895--16330941 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
16330885 TGGGTTAATA
* * *
16330895 GGGAGTGATTTTAGGAGATAATTG
1 GGGAGAGATTTTAGAAAATAATTG
16330919 GGGAGAGATTATTAGAAAATAAT
1 GGGAGAGATT-TTAGAAAATAAT
16330942 CTGATTATCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 9 0.47
25 10 0.53
ACGTcount: A:0.38, C:0.00, G:0.32, T:0.30
Consensus pattern (24 bp):
GGGAGAGATTTTAGAAAATAATTG
Found at i:16334966 original size:50 final size:50
Alignment explanation
Indices: 16334842--16335090 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
16334832 GATAATAACA
* * ** * *
16334842 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
16334893 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
16334943 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
16334993 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
16335048 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
16335091 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:16335020 original size:100 final size:104
Alignment explanation
Indices: 16334841--16335090 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
16334831 TGATAATAAC
**
16334841 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
16334906 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
16334943 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
16335006 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
16335048 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
16335091 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:16335206 original size:13 final size:13
Alignment explanation
Indices: 16335185--16335216 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
16335175 GCTTGGATCA
*
16335185 TCATCAAATAAAT
1 TCATAAAATAAAT
16335198 TCATAAAATAAAT
1 TCATAAAATAAAT
16335211 TCATAA
1 TCATAA
16335217 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:16335331 original size:66 final size:66
Alignment explanation
Indices: 16335249--16335380 Score: 264
Period size: 66 Copynumber: 2.0 Consensus size: 66
16335239 ATAATAAATA
16335249 TTGAAATATTGCATTTATTTACCGTAAACTTACCTCGGTACCAATTATAGCCAAATTCACCAACT
1 TTGAAATATTGCATTTATTTACCGTAAACTTACCTCGGTACCAATTATAGCCAAATTCACCAACT
16335314 T
66 T
16335315 TTGAAATATTGCATTTATTTACCGTAAACTTACCTCGGTACCAATTATAGCCAAATTCACCAACT
1 TTGAAATATTGCATTTATTTACCGTAAACTTACCTCGGTACCAATTATAGCCAAATTCACCAACT
16335380 T
66 T
16335381 AGTCTTCAAC
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.33, C:0.23, G:0.09, T:0.35
Consensus pattern (66 bp):
TTGAAATATTGCATTTATTTACCGTAAACTTACCTCGGTACCAATTATAGCCAAATTCACCAACT
T
Found at i:16335530 original size:30 final size:30
Alignment explanation
Indices: 16335494--16335551 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
16335484 CCTCGACTCT
*
16335494 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
16335524 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
16335552 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Done.