Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 47 of 352
Found at i:14950025 original size:19 final size:19
Alignment explanation
Indices: 14949957--14950025 Score: 52
Period size: 21 Copynumber: 3.4 Consensus size: 19
14949947 CACAGATATT
*
14949957 TCTTTTTCTTTTTCTTTTTC
1 TCTTTCTCTTTTT-TTTTTC
*
14949977 -CTTTACTGTTCCTTTTTTTT-
1 TCTTT-CTCTT--TTTTTTTTC
14949997 TCTTGGTCTCTTTTTTTTTTC
1 TCTT--TCTCTTTTTTTTTTC
14950018 TCTTTCTC
1 TCTTTCTC
14950026 ACTCTCTTTC
Statistics
Matches: 39, Mismatches: 3, Indels: 15
0.68 0.05 0.26
Matches are distributed among these distances:
19 8 0.21
20 11 0.28
21 12 0.31
22 7 0.18
23 1 0.03
ACGTcount: A:0.01, C:0.22, G:0.04, T:0.72
Consensus pattern (19 bp):
TCTTTCTCTTTTTTTTTTC
Found at i:14951771 original size:20 final size:21
Alignment explanation
Indices: 14951729--14951771 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
14951719 ACTCAATTGA
* *
14951729 GATTCAAATTATTGATTATAT
1 GATTCAAATTACTGATTACAT
*
14951750 GATT-AAATTACTGTTTACAT
1 GATTCAAATTACTGATTACAT
14951770 GA
1 GA
14951772 ATGAAAGAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.37, C:0.07, G:0.12, T:0.44
Consensus pattern (21 bp):
GATTCAAATTACTGATTACAT
Found at i:14952166 original size:22 final size:22
Alignment explanation
Indices: 14952138--14952208 Score: 88
Period size: 22 Copynumber: 3.2 Consensus size: 22
14952128 TCTATGAACA
*
14952138 TACTGTTCAGCTCCATAGAGTT
1 TACTGTTCAGCTCAATAGAGTT
* * *
14952160 TATTGTTCAGCTCGATAGAGCT
1 TACTGTTCAGCTCAATAGAGTT
*
14952182 TACCGTTTCAGCTCAATAGAGTT
1 TACTG-TTCAGCTCAATAGAGTT
14952205 TACT
1 TACT
14952209 ATTTATCAGT
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
22 22 0.55
23 18 0.45
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (22 bp):
TACTGTTCAGCTCAATAGAGTT
Found at i:14956147 original size:30 final size:30
Alignment explanation
Indices: 14956112--14956173 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
14956102 CACCCTGAAG
14956112 ATAATAAAAATAGCTTTTTAAAGTAAAACT
1 ATAATAAAAATAGCTTTTTAAAGTAAAACT
14956142 ATAATAAAAATAGCTTTTTAAAGTAAAACT
1 ATAATAAAAATAGCTTTTTAAAGTAAAACT
14956172 AT
1 AT
14956174 CTTTGTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.34
Consensus pattern (30 bp):
ATAATAAAAATAGCTTTTTAAAGTAAAACT
Found at i:14957690 original size:2 final size:2
Alignment explanation
Indices: 14957683--14957709 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
14957673 GAGTTGATTT
14957683 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
14957710 TTCATTGCGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:14961200 original size:143 final size:143
Alignment explanation
Indices: 14960942--14961231 Score: 553
Period size: 143 Copynumber: 2.0 Consensus size: 143
14960932 TACAATAAGA
*
14960942 AAGAAGTATAAAGGAGGTAGTGATGATTGTTATAAAGGTTCTAGTCGGGATAGAGAGTTGGAGAT
1 AAGAAGTATAAAGGAGGTAGTGATGATTGTTATAAAGGTTCTAGTCGGGATAGAAAGTTGGAGAT
*
14961007 TATAAAGAGTGAAGGTGAAGAGAGCGCCAAAGCTAAGAGTTGGAGGTATGGTGACAGAGTGCATG
66 TATAAAGAGTGAAGGTGAAGAGAGCGCCAAAGCTAAGAGTTGAAGGTATGGTGACAGAGTGCATG
14961072 TATGGTATTTTTG
131 TATGGTATTTTTG
*
14961085 AAGAAGTATAAAGGAGGTAGTGATGATTGTTATGAAGGTTCTAGTCGGGATAGAAAGTTGGAGAT
1 AAGAAGTATAAAGGAGGTAGTGATGATTGTTATAAAGGTTCTAGTCGGGATAGAAAGTTGGAGAT
14961150 TATAAAGAGTGAAGGTGAAGAGAGCGCCAAAGCTAAGAGTTGAAGGTATGGTGACAGAGTGCATG
66 TATAAAGAGTGAAGGTGAAGAGAGCGCCAAAGCTAAGAGTTGAAGGTATGGTGACAGAGTGCATG
14961215 TATGGTATTTTTG
131 TATGGTATTTTTG
14961228 AAGA
1 AAGA
14961232 GTCAATAACT
Statistics
Matches: 144, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
143 144 1.00
ACGTcount: A:0.34, C:0.06, G:0.34, T:0.26
Consensus pattern (143 bp):
AAGAAGTATAAAGGAGGTAGTGATGATTGTTATAAAGGTTCTAGTCGGGATAGAAAGTTGGAGAT
TATAAAGAGTGAAGGTGAAGAGAGCGCCAAAGCTAAGAGTTGAAGGTATGGTGACAGAGTGCATG
TATGGTATTTTTG
Found at i:14962554 original size:50 final size:50
Alignment explanation
Indices: 14962497--14962597 Score: 193
Period size: 50 Copynumber: 2.0 Consensus size: 50
14962487 AAAAAAAGTT
14962497 AACATTATAATGAACCTGACCCTAGTAAAAGAAATAATGTTAATAATTGA
1 AACATTATAATGAACCTGACCCTAGTAAAAGAAATAATGTTAATAATTGA
*
14962547 AACATTATAATGAACTTGACCCTAGTAAAAGAAATAATGTTAATAATTGA
1 AACATTATAATGAACCTGACCCTAGTAAAAGAAATAATGTTAATAATTGA
14962597 A
1 A
14962598 CTTGAATTTT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.49, C:0.11, G:0.12, T:0.29
Consensus pattern (50 bp):
AACATTATAATGAACCTGACCCTAGTAAAAGAAATAATGTTAATAATTGA
Found at i:14973818 original size:46 final size:45
Alignment explanation
Indices: 14973745--14973918 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 45
14973735 GTAACCCGCC
* *
14973745 CCTAAATGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
14973790 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* ** *
14973840 -CTCA-TGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
14973883 CCGTAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
14973919 ATGCTCAACC
Statistics
Matches: 109, Mismatches: 10, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 4 0.04
46 59 0.54
47 28 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (45 bp):
CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:14973858 original size:93 final size:93
Alignment explanation
Indices: 14973750--14973922 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
14973740 CCGCCCCTAA
** *
14973750 ATGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 ATGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTC
14973815 AACGAGTTCGGATGCCTAGTTACATCTC
66 AACGAGTTCGGATGCCTAGTTACATCTC
* *
14973843 ATGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGTGAACTCGGACTCAACTC
1 ATGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTC
14973908 AACGAGTTCGGATGC
66 AACGAGTTCGGATGC
14973923 TCAACCATCC
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
ATGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTC
AACGAGTTCGGATGCCTAGTTACATCTC
Found at i:14981843 original size:15 final size:15
Alignment explanation
Indices: 14981823--14981853 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
14981813 TTTATCCGTT
14981823 GATTTAACTAGCTTG
1 GATTTAACTAGCTTG
14981838 GATTTAACTAGCTTG
1 GATTTAACTAGCTTG
14981853 G
1 G
14981854 TGTGTGGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (15 bp):
GATTTAACTAGCTTG
Found at i:14990671 original size:3 final size:3
Alignment explanation
Indices: 14990663--14990699 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
14990653 GGTAAGCATG
*
14990663 TAT TAT TAT TAT TAT TAC TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
14990700 CTGTGTTTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:15001747 original size:49 final size:47
Alignment explanation
Indices: 15001663--15002167 Score: 803
Period size: 47 Copynumber: 10.6 Consensus size: 47
15001653 TATTTGAATA
* *
15001663 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
15001710 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
15001759 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
15001806 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
15001855 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
15001904 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
15001951 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
15002000 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
15002047 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
15002094 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
15002141 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
15002168 TCCCGAAGGG
Statistics
Matches: 430, Mismatches: 22, Indels: 12
0.93 0.05 0.03
Matches are distributed among these distances:
47 245 0.57
49 185 0.43
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:15001771 original size:96 final size:94
Alignment explanation
Indices: 15001663--15002167 Score: 812
Period size: 96 Copynumber: 5.3 Consensus size: 94
15001653 TATTTGAATA
* *
15001663 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
*
15001728 TATGTGATAAGGCCTAATGGCCGATGTGATG
64 TATGTGATAAGGCCTAATGGCCAATGTGATG
*
15001759 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
*
15001824 TATGTGATAAGGCCTAATGGCCGATGTGATG
64 TATGTGATAAGGCCTAATGGCCAATGTGATG
15001855 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
15001920 TATGTGATAAGGCCGAATGGCCAATGTGATG
64 TATGTGATAAGGCCTAATGGCCAATGTGATG
15001951 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
15002016 TATGTGATAAGGCCTAATAGCCAATGTGATG
64 TATGTGATAAGGCCTAATGGCCAATGTGATG
15002047 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * *
15002112 TGTGACAGGGCCGAGTGGCCAACGTGATG
66 TGTGATAAGGCCTAATGGCCAATGTGATG
* *
15002141 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
15002168 TCCCGAAGGG
Statistics
Matches: 393, Mismatches: 14, Indels: 6
0.95 0.03 0.01
Matches are distributed among these distances:
94 101 0.26
96 246 0.63
98 46 0.12
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (94 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATGGCCAATGTGATG
Found at i:15010334 original size:14 final size:13
Alignment explanation
Indices: 15010314--15010345 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
15010304 AATATTTGAC
15010314 TTGTTCTTAATTA
1 TTGTTCTTAATTA
15010327 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
15010341 TTGTT
1 TTGTT
15010346 TTGATATTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:15012767 original size:29 final size:29
Alignment explanation
Indices: 15012726--15012785 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
15012716 CGCACAGAAG
*
15012726 AAAAATTTGGTAAATTCCTT-AAATTATTA
1 AAAAATTCGGTAAATT-CTTCAAATTATTA
*
15012755 AAAAATTCGGTAAATTCTTCAAATTTTTA
1 AAAAATTCGGTAAATTCTTCAAATTATTA
15012784 AA
1 AA
15012786 GGAGCTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 3 0.11
29 25 0.89
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (29 bp):
AAAAATTCGGTAAATTCTTCAAATTATTA
Found at i:15021569 original size:18 final size:20
Alignment explanation
Indices: 15021527--15021563 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
15021517 ATATTTTATG
*
15021527 ATTA-TTTAATTAGATATAT
1 ATTATTTTAATGAGATATAT
15021546 ATTATTTTAATGAGATAT
1 ATTATTTTAATGAGATAT
15021564 TTTATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
ATTATTTTAATGAGATATAT
Found at i:15023773 original size:46 final size:46
Alignment explanation
Indices: 15023721--15024179 Score: 630
Period size: 46 Copynumber: 10.0 Consensus size: 46
15023711 AGTGTGCTCT
*
15023721 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
15023767 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
*
15023813 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
*
15023859 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
* ** ***
15023905 ATGATGGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
*
15023951 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
*
15023997 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
* *** ***
15024043 ATGACGGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
* * ** *
15024089 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
* * ** * * * *
15024135 ATGACAAAAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGA-TATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
15024180 TCATGTCAAA
Statistics
Matches: 371, Mismatches: 41, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
46 338 0.91
47 33 0.09
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
Found at i:15023969 original size:138 final size:138
Alignment explanation
Indices: 15023721--15024184 Score: 721
Period size: 138 Copynumber: 3.4 Consensus size: 138
15023711 AGTGTGCTCT
* ** ***
15023721 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATGGGAAATAAATAAG
15023786 ACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAACGTGTAAGACCATGGTTGAAAGATACC
66 ACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAACGTGTAAGACCATGGTTGAAAGATACC
15023851 ATGGCAGC
131 ATGGCAGC
15023859 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATGGGAAATAAATAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATGGGAAATAAATAAG
15023924 ACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAACGTGTAAGACCATGGTTGAAAGATACC
66 ACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAACGTGTAAGACCATGGTTGAAAGATACC
15023989 ATGGCAGC
131 ATGGCAGC
*
15023997 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATAAATAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATGGGAAATAAATAAG
* * * **
15024062 ACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGAATAAGACCATGGTTGAAAGATACC
66 ACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAACGTGTAAGACCATGGTTGAAAGATACC
*
15024127 ATGGCAAC
131 ATGGCAGC
* * ** * * * * *
15024135 ATGACAAAAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 CTGA-TATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
15024185 TCAAAGATAA
Statistics
Matches: 303, Mismatches: 22, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
138 266 0.88
139 37 0.12
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.22
Consensus pattern (138 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATGGGAAATAAATAAG
ACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAACGTGTAAGACCATGGTTGAAAGATACC
ATGGCAGC
Found at i:15029161 original size:37 final size:37
Alignment explanation
Indices: 15029096--15029241 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
15029086 TACGTATCAT
* *
15029096 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
* *
15029131 CACCTATCACTTTGTTTCTTGATCACATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
15029168 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
15029205 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
15029242 TAAAGCTATC
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 90 0.88
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:15029258 original size:46 final size:46
Alignment explanation
Indices: 15029205--15029571 Score: 446
Period size: 46 Copynumber: 7.6 Consensus size: 46
15029195 TAAGTGTAGC
* **
15029205 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
15029251 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
15029297 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
15029349 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
15029401 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
15029447 CACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
15029493 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
15029545 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
15029572 AGTACTCAAA
Statistics
Matches: 291, Mismatches: 17, Indels: 26
0.87 0.05 0.08
Matches are distributed among these distances:
46 155 0.53
48 1 0.00
49 1 0.00
50 2 0.01
51 3 0.01
52 129 0.44
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:15029324 original size:52 final size:52
Alignment explanation
Indices: 15029248--15029565 Score: 426
Period size: 52 Copynumber: 6.3 Consensus size: 52
15029238 TAGCTAAAGC
* *
15029248 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
15029301 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * *
15029353 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
15029405 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
15029451 TATCAC-TTT-A----TCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
15029497 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
15029549 TATCACTTTATCACTTG
1 TATCACTTT-TCACTTG
15029566 ATCAGAAGTA
Statistics
Matches: 239, Mismatches: 16, Indels: 20
0.87 0.06 0.07
Matches are distributed among these distances:
46 84 0.35
47 2 0.01
48 2 0.01
52 133 0.56
53 18 0.08
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:15029327 original size:98 final size:98
Alignment explanation
Indices: 15029205--15029571 Score: 503
Period size: 98 Copynumber: 3.7 Consensus size: 98
15029195 TAAGTGTAGC
* * * * *
15029205 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACT
15029270 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
*
15029304 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCACTTG
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTT--A----
* *
15029369 TCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTAT
60 TCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
15029408 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTATCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACTT
*
15029467 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* * *
15029500 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACTT
15029565 GATCAGA
66 GATCAGA
15029572 AGTACTCAAA
Statistics
Matches: 239, Mismatches: 17, Indels: 25
0.85 0.06 0.09
Matches are distributed among these distances:
92 39 0.16
96 1 0.00
98 150 0.63
99 9 0.04
101 1 0.00
104 39 0.16
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:15029446 original size:196 final size:196
Alignment explanation
Indices: 15029205--15029557 Score: 607
Period size: 196 Copynumber: 1.8 Consensus size: 196
15029195 TAAGTGTAGC
* * * * *
15029205 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACT
*
15029270 TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTTCACTTGTCACTTGATCAGATAAGT
66 TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
* *
15029335 GTAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTA
131 GTAGCCAAAGCTACCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTA
15029400 T
196 T
*
15029401 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTATCACT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACT
*
15029466 TGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
66 TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
*
15029531 GTAGCTAAAGCTACCACTTATCACTTT
131 GTAGCCAAAGCTACCACTTATCACTTT
15029558 ATCACTTGAT
Statistics
Matches: 146, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
196 146 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (196 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACT
TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
GTAGCCAAAGCTACCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTA
T
Found at i:15042286 original size:13 final size:13
Alignment explanation
Indices: 15042260--15042301 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
15042250 TACTAGACTC
15042260 ATAAATATTT-CTA
1 ATAAA-ATTTACTA
15042273 ATAAAATTTACTA
1 ATAAAATTTACTA
**
15042286 ATTCAATTTACTA
1 ATAAAATTTACTA
15042299 ATA
1 ATA
15042302 CGGATGCCCG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 4 0.16
13 21 0.84
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.43
Consensus pattern (13 bp):
ATAAAATTTACTA
Found at i:15061675 original size:30 final size:30
Alignment explanation
Indices: 15061641--15061702 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
15061631 ACTTATTTTA
15061641 TTGTTAATTTTGTTATTATTTTAAAAACAT
1 TTGTTAATTTTGTTATTATTTTAAAAACAT
* *
15061671 TTGTTAATTTTGTTATTATTTTAGACACAT
1 TTGTTAATTTTGTTATTATTTTAAAAACAT
15061701 TT
1 TT
15061703 ACTTGTTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.29, C:0.05, G:0.08, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAAACAT
Found at i:15066616 original size:31 final size:29
Alignment explanation
Indices: 15066585--15066642 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
15066575 ATTCGAACCA
* *
15066585 AAACTAAAGTTTCACATGTATAATTACACC
1 AAACTAAAG-TTCACATATACAATTACACC
* *
15066615 AAATTAAAGTTCATATATACAATTACAC
1 AAACTAAAGTTCACATATACAATTACAC
15066643 ATTAAACCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 16 0.67
30 8 0.33
ACGTcount: A:0.47, C:0.17, G:0.05, T:0.31
Consensus pattern (29 bp):
AAACTAAAGTTCACATATACAATTACACC
Found at i:15069932 original size:45 final size:45
Alignment explanation
Indices: 15069870--15070045 Score: 189
Period size: 45 Copynumber: 3.9 Consensus size: 45
15069860 GGTGCTTTCA
* *
15069870 CATGATGTCATAGCATCTTTCAGCTACGGTCTTACTCATTTCTTT
1 CATGATGCCATAGCATCTTTCAGCTATGGTCTTACTCATTTCTTT
* *
15069915 CATGATGCCATAACATCTTTCAGTTATGGTCTTACTCA--TCTTT
1 CATGATGCCATAGCATCTTTCAGCTATGGTCTTACTCATTTCTTT
* * * *
15069958 -ATGGTGACACCATAGCTTCTTTCAGCTATGGTTTTACTCATCTT-TAT
1 CATGATG---CCATAGCATCTTTCAGCTATGGTCTTACTCAT-TTCTTT
** *
15070005 CATGATTTCATAGCATCTTTCAGCTATGATCTTACTCATTT
1 CATGATGCCATAGCATCTTTCAGCTATGGTCTTACTCATTT
15070046 TAAATCCACA
Statistics
Matches: 108, Mismatches: 16, Indels: 15
0.78 0.12 0.11
Matches are distributed among these distances:
42 5 0.05
43 5 0.05
44 2 0.02
45 89 0.82
47 2 0.02
48 5 0.05
ACGTcount: A:0.22, C:0.23, G:0.12, T:0.43
Consensus pattern (45 bp):
CATGATGCCATAGCATCTTTCAGCTATGGTCTTACTCATTTCTTT
Found at i:15069985 original size:90 final size:89
Alignment explanation
Indices: 15069878--15070047 Score: 234
Period size: 90 Copynumber: 1.9 Consensus size: 89
15069868 CACATGATGT
* *
15069878 CATAGCATCTTTCAGCTACGGTCTTACTCAT-TTCTTTCATGATGCCATAACATCTTTCAGTTAT
1 CATAGCATCTTTCAGCTACGGTCTTACTCATCTT-TATCATGATGCCATAACATCTTTCAGCTAT
*
15069942 GGTCTTACTCATCTTTATGGTGACAC
65 GATCTTACTCAT-TTTATGGTGACAC
* * * ** *
15069968 CATAGCTTCTTTCAGCTATGGTTTTACTCATCTTTATCATGATTTCATAGCATCTTTCAGCTATG
1 CATAGCATCTTTCAGCTACGGTCTTACTCATCTTTATCATGATGCCATAACATCTTTCAGCTATG
15070033 ATCTTACTCATTTTA
66 ATCTTACTCATTTTA
15070048 AATCCACAGC
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
89 4 0.06
90 64 0.91
91 2 0.03
ACGTcount: A:0.22, C:0.23, G:0.12, T:0.43
Consensus pattern (89 bp):
CATAGCATCTTTCAGCTACGGTCTTACTCATCTTTATCATGATGCCATAACATCTTTCAGCTATG
ATCTTACTCATTTTATGGTGACAC
Found at i:15075873 original size:2 final size:2
Alignment explanation
Indices: 15075866--15075897 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
15075856 CTTCACTATT
15075866 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15075898 ACGTGCTGTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15079993 original size:158 final size:158
Alignment explanation
Indices: 15079699--15080016 Score: 510
Period size: 158 Copynumber: 2.0 Consensus size: 158
15079689 TTTACCAAGA
15079699 AAACTCATTGGGATAAAACCTTGGTTAAAAGAAAAGAGGACAGTGTGTTTTAGACTCCCCCTAAT
1 AAACTCATTGGGATAAAACCTTGGTTAAAAGAAAAGAGGACAGTGTGTTTTAGACTCCCCCTAAT
* * *
15079764 GGCAACATCACATTATATCTTTGAGCTGCCGCATTCAATCTTGTATACTAGCCTTTCAAACATTA
66 GGCAACATCACATTATATCTTTGAACCGCCACATTCAATCTTGTATACTAGCCTTTCAAACATTA
15079829 TCGTTGGTAATGCCTTAGTAAAAAGATC
131 TCGTTGGTAATGCCTTAGTAAAAAGATC
*
15079857 AAACTCATTGGGATAAAACCTTGGTTAAAAGAAAAGAGGACAGTGTTTTTTAGACTCCCCCTAAT
1 AAACTCATTGGGATAAAACCTTGGTTAAAAGAAAAGAGGACAGTGTGTTTTAGACTCCCCCTAAT
* * * * * *
15079922 GGCAACATCATATTATATCTTTGAACCGGCACATTCAATCTTGTATGCTAGTCTTTCAAACGTTG
66 GGCAACATCACATTATATCTTTGAACCGCCACATTCAATCTTGTATACTAGCCTTTCAAACATTA
* * * *
15079987 TGGTTGGTAATGGCTTGGTAAAAGGATC
131 TCGTTGGTAATGCCTTAGTAAAAAGATC
15080015 AA
1 AA
15080017 TCAAATTATT
Statistics
Matches: 146, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
158 146 1.00
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (158 bp):
AAACTCATTGGGATAAAACCTTGGTTAAAAGAAAAGAGGACAGTGTGTTTTAGACTCCCCCTAAT
GGCAACATCACATTATATCTTTGAACCGCCACATTCAATCTTGTATACTAGCCTTTCAAACATTA
TCGTTGGTAATGCCTTAGTAAAAAGATC
Found at i:15083779 original size:37 final size:37
Alignment explanation
Indices: 15083718--15083864 Score: 244
Period size: 37 Copynumber: 4.0 Consensus size: 37
15083708 TACGTATGAT
* *
15083718 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
15083753 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
15083790 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
15083827 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
15083864 C
1 C
15083865 GAAGCTATCA
Statistics
Matches: 105, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 93 0.89
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:15083907 original size:52 final size:52
Alignment explanation
Indices: 15083827--15084095 Score: 379
Period size: 52 Copynumber: 5.2 Consensus size: 52
15083817 TAAGTGTAGC
* *
15083827 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
*
15083880 CACTTTTCACTTGTCACTTGATTAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* *
15083932 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* *
15083984 CAC-TTT-A----TCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* ** *
15084030 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
15084082 CACTTTATCACTTG
1 CACTTT-TCACTTG
15084096 ATCAGAAGTA
Statistics
Matches: 192, Mismatches: 17, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
46 39 0.20
47 2 0.01
48 1 0.01
50 1 0.01
51 2 0.01
52 132 0.69
53 15 0.08
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
Found at i:15084017 original size:98 final size:98
Alignment explanation
Indices: 15083838--15084101 Score: 411
Period size: 98 Copynumber: 2.6 Consensus size: 98
15083828 ACTTATCACT
* * *
15083838 TTGTCTCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTTCACTTGTCACTTGATT
1 TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCAC-TTT-A----TCACTTGATC
*
15083903 AGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCAC
60 AGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCAC
15083942 TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTATCACTTGATCAGATAA
1 TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTATCACTTGATCAGATAA
*
15084007 GTATAGCCGAAGCTATTACTTATCACTTTCCAC
66 GTATAGCCGAAGCTATCACTTATCACTTTCCAC
* *
15084040 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTTGATCAGA
1 TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTATCACTTGATCAGA
15084102 AGTACTCAAA
Statistics
Matches: 153, Mismatches: 7, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
98 106 0.69
102 1 0.01
103 3 0.02
104 43 0.28
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (98 bp):
TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTATCACTTGATCAGATAA
GTATAGCCGAAGCTATCACTTATCACTTTCCAC
Found at i:15089945 original size:21 final size:21
Alignment explanation
Indices: 15089919--15089961 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
15089909 TTTATTTTTT
* * *
15089919 ATTTAATTTATATTGATTATA
1 ATTTAAATTATAATCATTATA
15089940 ATTTAAATTATAATCATTATA
1 ATTTAAATTATAATCATTATA
15089961 A
1 A
15089962 AAAAATTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (21 bp):
ATTTAAATTATAATCATTATA
Found at i:15090104 original size:23 final size:23
Alignment explanation
Indices: 15090074--15090121 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
15090064 CATGCACGGA
15090074 GAAAAAAATTAGTTCATGAATAT
1 GAAAAAAATTAGTTCATGAATAT
15090097 GAAAAAAATTAGTTCATGAATAT
1 GAAAAAAATTAGTTCATGAATAT
15090120 GA
1 GA
15090122 TATTTCAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.52, C:0.04, G:0.15, T:0.29
Consensus pattern (23 bp):
GAAAAAAATTAGTTCATGAATAT
Found at i:15118079 original size:25 final size:25
Alignment explanation
Indices: 15118051--15118127 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 25
15118041 CTTTTTTTCA
15118051 TTAATATTTCATGACTTCTTGGTCC
1 TTAATATTTCATGACTTCTTGGTCC
* **
15118076 TTAATAATTC-T-A--TCTTATTCAC
1 TTAATATTTCATGACTTCTTGGTC-C
*
15118098 -AAATATTTCATGACTTCTTGGTCC
1 TTAATATTTCATGACTTCTTGGTCC
15118122 TTAATA
1 TTAATA
15118128 ATTCTATCTT
Statistics
Matches: 38, Mismatches: 8, Indels: 12
0.66 0.14 0.21
Matches are distributed among these distances:
21 13 0.34
22 2 0.05
23 2 0.05
24 2 0.05
25 19 0.50
ACGTcount: A:0.27, C:0.18, G:0.08, T:0.47
Consensus pattern (25 bp):
TTAATATTTCATGACTTCTTGGTCC
Found at i:15118104 original size:46 final size:46
Alignment explanation
Indices: 15118053--15118145 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
15118043 TTTTTTCATT
15118053 AATATTTCATGACTTCTTGGTCCTTAATAATTCTATCTTATTCACA
1 AATATTTCATGACTTCTTGGTCCTTAATAATTCTATCTTATTCACA
15118099 AATATTTCATGACTTCTTGGTCCTTAATAATTCTATCTTATTCACA
1 AATATTTCATGACTTCTTGGTCCTTAATAATTCTATCTTATTCACA
15118145 A
1 A
15118146 CGTCTGCTTC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.29, C:0.19, G:0.06, T:0.45
Consensus pattern (46 bp):
AATATTTCATGACTTCTTGGTCCTTAATAATTCTATCTTATTCACA
Found at i:15129813 original size:11 final size:11
Alignment explanation
Indices: 15129797--15129821 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
15129787 AAAGCCTACG
15129797 AAGAAAAAACT
1 AAGAAAAAACT
15129808 AAGAAAAAACT
1 AAGAAAAAACT
15129819 AAG
1 AAG
15129822 TATAGAGCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.08, G:0.12, T:0.08
Consensus pattern (11 bp):
AAGAAAAAACT
Found at i:15133596 original size:13 final size:13
Alignment explanation
Indices: 15133563--15133614 Score: 56
Period size: 13 Copynumber: 4.2 Consensus size: 13
15133553 CACTCGAATT
15133563 TTTAATAATAAAAA
1 TTTAATAA-AAAAA
* *
15133577 ATGAATAAAAAAA
1 TTTAATAAAAAAA
15133590 TTTAAT---AAAA
1 TTTAATAAAAAAA
15133600 TTTAATAAAAAAA
1 TTTAATAAAAAAA
15133613 TT
1 TT
15133615 AGTTTACTCT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
10 10 0.32
13 15 0.48
14 6 0.19
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (13 bp):
TTTAATAAAAAAA
Found at i:15134340 original size:20 final size:19
Alignment explanation
Indices: 15134315--15134354 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
15134305 AGATCATTAG
15134315 TATTTTAATTATTATAGAAA
1 TATTTTAA-TATTATAGAAA
* *
15134335 TATTTTTATATTATATAAA
1 TATTTTAATATTATAGAAA
15134354 T
1 T
15134355 TATATAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (19 bp):
TATTTTAATATTATAGAAA
Found at i:15140753 original size:135 final size:141
Alignment explanation
Indices: 15140592--15140864 Score: 387
Period size: 135 Copynumber: 1.9 Consensus size: 141
15140582 CTTTTTGTTT
* *
15140592 TAATGATTGAGCTGTAACACAAGCTTTACGAAGGCATATGATAG-T-T-A-TTCTAATCAGCATG
1 TAATGATTGAGCTGTAACACAAGCTTTACAAAAGCATATGATAGTTCTAATTTCTAATCAGCATG
* *
15140653 CTCCCAAATCTTATACTAATAAGCAAA-GGCC-ATCTGTTTTGGGCCTTTCAATCAATTCAAGTT
66 CTCCCAAATCTTATACTAATAAGCAAAGGGCCTATCTATTTTGGGCCTTTCAATCAATTCAAGAT
15140716 GTTGATTTGTG
131 GTTGATTTGTG
15140727 TAATGATTGAGCTGTAACACAAGCTTTACAAAAGCATATGATAGTTATTCTAAATTTCTAATCAG
1 TAATGATTGAGCTGTAACACAAGCTTTACAAAAGCATATGATAG---TTCT-AATTTCTAATCAG
* * * *
15140792 CTTGCTTCCGAATCTTATACTAATAAGCAAAGGGGCCTATCTATTTTGGGTCTTTCAATCAATTC
62 CATGCTCCCAAATCTTATACTAATAAGCAAA-GGGCCTATCTATTTTGGGCCTTTCAATCAATTC
15140857 AAGATGTT
126 AAGATGTT
15140865 TATTCTTTTG
Statistics
Matches: 119, Mismatches: 8, Indels: 11
0.86 0.06 0.08
Matches are distributed among these distances:
135 42 0.35
139 1 0.01
140 1 0.01
142 1 0.01
143 38 0.32
145 4 0.03
146 32 0.27
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (141 bp):
TAATGATTGAGCTGTAACACAAGCTTTACAAAAGCATATGATAGTTCTAATTTCTAATCAGCATG
CTCCCAAATCTTATACTAATAAGCAAAGGGCCTATCTATTTTGGGCCTTTCAATCAATTCAAGAT
GTTGATTTGTG
Found at i:15151947 original size:23 final size:23
Alignment explanation
Indices: 15151878--15151965 Score: 94
Period size: 21 Copynumber: 4.0 Consensus size: 23
15151868 ACCTGATCAG
**
15151878 AATACGACACATAAAGTGCCT-A
1 AATACGACACACGAAGTGCCTGA
*
15151900 AA-ACGACACACGAAGTGACTG-
1 AATACGACACACGAAGTGCCTGA
*
15151921 -ATACGACACACGAGGTGCCTGA
1 AATACGACACACGAAGTGCCTGA
**
15151943 AATACGACACATAAAGTGCCTGA
1 AATACGACACACGAAGTGCCTGA
15151966 TCAGTAAAGT
Statistics
Matches: 54, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
20 1 0.02
21 32 0.59
22 2 0.04
23 19 0.35
ACGTcount: A:0.41, C:0.24, G:0.20, T:0.15
Consensus pattern (23 bp):
AATACGACACACGAAGTGCCTGA
Found at i:15153156 original size:23 final size:21
Alignment explanation
Indices: 15153103--15153162 Score: 66
Period size: 23 Copynumber: 2.7 Consensus size: 21
15153093 GTAAATTAGT
* *
15153103 TATTTTTATTACAAGTGTAGA
1 TATTTTTATTACAAATGTAAA
15153124 TATCTATTTATTACAAATGTACCAA
1 TAT-T-TTTATTACAAATGTA--AA
15153149 TATTTTTATTACAA
1 TATTTTTATTACAA
15153163 TTGTCATTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 3 0.09
22 1 0.03
23 24 0.73
24 1 0.03
25 4 0.12
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.47
Consensus pattern (21 bp):
TATTTTTATTACAAATGTAAA
Found at i:15153407 original size:3 final size:3
Alignment explanation
Indices: 15153399--15153456 Score: 50
Period size: 3 Copynumber: 20.0 Consensus size: 3
15153389 ATATGAAACC
* ** *
15153399 ATA ATA ATA ATA ATA ATA AT- TTA AT- ATA A-A ACC ATA CTA ATA ATTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA
15153445 ATA ATA ATA ATA
1 ATA ATA ATA ATA
15153457 TCTTAGATTT
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
2 5 0.11
3 36 0.82
4 3 0.07
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:15153423 original size:33 final size:33
Alignment explanation
Indices: 15153374--15153452 Score: 113
Period size: 33 Copynumber: 2.4 Consensus size: 33
15153364 ATACCAATTA
* * *
15153374 AATAATTATAACTTAATATGAAACCATAATAAT
1 AATAATAATAATTTAATATAAAACCATAATAAT
*
15153407 AATAATAATAATTTAATATAAAACCATACTAAT
1 AATAATAATAATTTAATATAAAACCATAATAAT
15153440 AATTAATAATAAT
1 AA-TAATAATAAT
15153453 AATATCTTAG
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 31 0.76
34 10 0.24
ACGTcount: A:0.57, C:0.08, G:0.01, T:0.34
Consensus pattern (33 bp):
AATAATAATAATTTAATATAAAACCATAATAAT
Found at i:15160853 original size:6 final size:6
Alignment explanation
Indices: 15160842--15160867 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
15160832 TTCCTCAATT
15160842 CCTTTG CCTTTG CCTTTG CCTTTG CC
1 CCTTTG CCTTTG CCTTTG CCTTTG CC
15160868 GCCGCTAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.38, G:0.15, T:0.46
Consensus pattern (6 bp):
CCTTTG
Found at i:15166323 original size:18 final size:17
Alignment explanation
Indices: 15166296--15166329 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
15166286 TTTGGTTAAA
*
15166296 GTATTTTTGGAAGTTTTT
1 GTATTATTGGAA-TTTTT
15166314 GTATTATTGGAATTTT
1 GTATTATTGGAATTTT
15166330 ATTAAATTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.59
Consensus pattern (17 bp):
GTATTATTGGAATTTTT
Found at i:15167352 original size:29 final size:29
Alignment explanation
Indices: 15167298--15167389 Score: 94
Period size: 29 Copynumber: 3.1 Consensus size: 29
15167288 GTAATTTACA
* * *
15167298 AAAATTGGACCAAATCAAAATTTCATGTAT
1 AAAATTGCACAAAATC-AAAGTTCATGTAT
*
15167328 AAAATTGCACAAAATCAAAGTTCATATAT
1 AAAATTGCACAAAATCAAAGTTCATGTAT
* * *
15167357 AAAATTACACATTAAACCATAGTTCATGTAT
1 AAAATTGCACA--AAATCAAAGTTCATGTAT
15167388 AA
1 AA
15167390 TTTTGAGATT
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
29 21 0.40
30 14 0.27
31 17 0.33
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.29
Consensus pattern (29 bp):
AAAATTGCACAAAATCAAAGTTCATGTAT
Found at i:15171839 original size:33 final size:31
Alignment explanation
Indices: 15171763--15171854 Score: 76
Period size: 33 Copynumber: 2.7 Consensus size: 31
15171753 ATAATTTATA
* * * *
15171763 TTATTATAAATTTTTAAACAATAAAATTATTT
1 TTATTATATATTTTTAAA-ATTTAAATTAATT
*
15171795 TTATTTTTATATTTTTAAAAGTTTAAATATAATT
1 TTA-TTATATATTTTTAAAA-TTTAAAT-TAATT
15171829 TTATTATATATTAATTTAAAACTTTA
1 TTATTATATATT--TTTAAAA-TTTA
15171855 TAAATTTTAA
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
32 4 0.08
33 26 0.54
34 7 0.15
35 11 0.23
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.54
Consensus pattern (31 bp):
TTATTATATATTTTTAAAATTTAAATTAATT
Found at i:15174711 original size:111 final size:113
Alignment explanation
Indices: 15174515--15174738 Score: 434
Period size: 111 Copynumber: 2.0 Consensus size: 113
15174505 AATCATACGT
15174515 ATGGTCGAAATGCAAAGAGGGAAGTGAGAGAACACTTTTATCTTTTTTATTTTAAAAAAAAAAAA
1 ATGGTCGAAATGCAAAGAGGGAAGTGAGAGAACACTTTTATCTTTTTTATTTTAAAAAAAAAAAA
15174580 CCTACAGCCGACAGAAAAATCTTAGGAAAAACTAAAGAAGAAAAATTA
66 CCTACAGCCGACAGAAAAATCTTAGGAAAAACTAAAGAAGAAAAATTA
15174628 ATGGTCGAAATGCAAAGAGGGAAGTGAGAGAA-ACTTTTATC-TTTTTATTTTAAAAAAAAAAAA
1 ATGGTCGAAATGCAAAGAGGGAAGTGAGAGAACACTTTTATCTTTTTTATTTTAAAAAAAAAAAA
15174691 CCTACAGCCGACAGAAAAATCTTAGGAAAAACTAAAGAAGAAAAATTA
66 CCTACAGCCGACAGAAAAATCTTAGGAAAAACTAAAGAAGAAAAATTA
15174739 TGTTTATTTT
Statistics
Matches: 111, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
111 70 0.63
112 9 0.08
113 32 0.29
ACGTcount: A:0.49, C:0.11, G:0.17, T:0.23
Consensus pattern (113 bp):
ATGGTCGAAATGCAAAGAGGGAAGTGAGAGAACACTTTTATCTTTTTTATTTTAAAAAAAAAAAA
CCTACAGCCGACAGAAAAATCTTAGGAAAAACTAAAGAAGAAAAATTA
Found at i:15179026 original size:23 final size:25
Alignment explanation
Indices: 15179000--15179052 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 25
15178990 TGTATATTTT
*
15179000 TAATAGTTTTC-AATTTATAT-AAA
1 TAATAGTTTTCAAAGTTATATAAAA
*
15179023 TAATATTTTTCTAAAGTTATATAAAA
1 TAATAGTTTTC-AAAGTTATATAAAA
15179049 TAAT
1 TAAT
15179053 GTATATATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 10 0.40
25 8 0.32
26 7 0.28
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (25 bp):
TAATAGTTTTCAAAGTTATATAAAA
Found at i:15179484 original size:3 final size:3
Alignment explanation
Indices: 15179476--15179502 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
15179466 GGGTTACTCA
15179476 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
15179503 AGATGGTACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:15182199 original size:17 final size:17
Alignment explanation
Indices: 15182177--15182212 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
15182167 TTTTAACTGG
*
15182177 TTTTCTTCTGTTTTTTT
1 TTTTCTTCTCTTTTTTT
*
15182194 TTTTCTTTTCTTTTTTT
1 TTTTCTTCTCTTTTTTT
15182211 TT
1 TT
15182213 GGTACATGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.00, C:0.11, G:0.03, T:0.86
Consensus pattern (17 bp):
TTTTCTTCTCTTTTTTT
Found at i:15187504 original size:11 final size:11
Alignment explanation
Indices: 15187490--15187514 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
15187480 TAGTATTTAA
15187490 AAAATTAATTT
1 AAAATTAATTT
15187501 AAAATTAATTT
1 AAAATTAATTT
15187512 AAA
1 AAA
15187515 TTTTTTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AAAATTAATTT
Found at i:15191707 original size:12 final size:12
Alignment explanation
Indices: 15191684--15191716 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
15191674 AAAACGAAAC
15191684 AGAAAG-AAAAA
1 AGAAAGAAAAAA
*
15191695 AGGAAGAAAAAA
1 AGAAAGAAAAAA
15191707 AGAAAGAAAA
1 AGAAAGAAAA
15191717 GGGAGAAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 5 0.26
12 14 0.74
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (12 bp):
AGAAAGAAAAAA
Found at i:15211542 original size:8 final size:9
Alignment explanation
Indices: 15211524--15211550 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
15211514 GCTCAAGATG
15211524 TTTTTATTT
1 TTTTTATTT
15211533 TTTTTATTT
1 TTTTTATTT
15211542 TTTTTATTT
1 TTTTTATTT
15211551 CTTAAGGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (9 bp):
TTTTTATTT
Found at i:15222850 original size:31 final size:30
Alignment explanation
Indices: 15222793--15222851 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
15222783 GTAAATACTC
* *
15222793 AAAATTTGAGGGATTAAAGTGTAAATATGA
1 AAAAGTTGAGGGATTAAAGTGAAAATATGA
15222823 AAAAGTTGAAGGGA-TAATAGTGAAAATAT
1 AAAAGTTG-AGGGATTAA-AGTGAAAATAT
15222852 TTTAAGGGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 10 0.40
31 15 0.60
ACGTcount: A:0.49, C:0.00, G:0.24, T:0.27
Consensus pattern (30 bp):
AAAAGTTGAGGGATTAAAGTGAAAATATGA
Found at i:15223138 original size:11 final size:11
Alignment explanation
Indices: 15223122--15223146 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
15223112 ATATAATATT
15223122 TTATTATTTTA
1 TTATTATTTTA
15223133 TTATTATTTTA
1 TTATTATTTTA
15223144 TTA
1 TTA
15223147 GTATATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:15223142 original size:19 final size:20
Alignment explanation
Indices: 15223108--15223156 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
15223098 AATTTGATTT
15223108 TTTTATATAATATTTTATTA
1 TTTTATATAATATTTTATTA
*
15223128 TTTTAT-TATTATTTTATTA
1 TTTTATATAATATTTTATTA
* *
15223147 GTATATATAA
1 TTTTATATAA
15223157 AGAAAGAAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (20 bp):
TTTTATATAATATTTTATTA
Found at i:15228773 original size:17 final size:17
Alignment explanation
Indices: 15228751--15228784 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
15228741 ATTTTATATA
15228751 TATTAAATATTA-ATTAT
1 TATT-AATATTATATTAT
15228768 TATTAATATTATATTAT
1 TATTAATATTATATTAT
15228785 GAAATAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TATTAATATTATATTAT
Found at i:15228782 original size:14 final size:15
Alignment explanation
Indices: 15228744--15228790 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
15228734 TTCTTAGATT
15228744 TTATATATATTAAATA
1 TTATAT-TATTAAATA
15228760 TTA-ATTATTATTAATA
1 TTATATTATTA--AATA
*
15228776 TTATATTATGAAATA
1 TTATATTATTAAATA
15228791 AATTAAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
16 10 0.37
17 6 0.22
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
TTATATTATTAAATA
Found at i:15228952 original size:31 final size:32
Alignment explanation
Indices: 15228891--15228954 Score: 78
Period size: 31 Copynumber: 2.0 Consensus size: 32
15228881 GTAGATATTT
* *
15228891 ATTATTTATAAATGATATTTATTAATTAAATA
1 ATTATTTATAAATGATATTTATGAAATAAATA
*
15228923 ATTATATTAT-AAT-ATTTTTATGAAATAAATA
1 ATTAT-TTATAAATGATATTTATGAAATAAATA
15228954 A
1 A
15228955 ATACAAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 16 0.57
32 8 0.29
33 4 0.14
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (32 bp):
ATTATTTATAAATGATATTTATGAAATAAATA
Found at i:15233005 original size:21 final size:21
Alignment explanation
Indices: 15232963--15233007 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
15232953 AAAATTTAAT
**
15232963 AAAATAATATTCAAATTATTA
1 AAAATAATATGAAAATTATTA
15232984 AAAATAATATGAACAATT-TTA
1 AAAATAATATGAA-AATTATTA
15233005 AAA
1 AAA
15233008 TAAACTTAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.33
Consensus pattern (21 bp):
AAAATAATATGAAAATTATTA
Found at i:15233663 original size:24 final size:20
Alignment explanation
Indices: 15233612--15233663 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
15233602 TATTTTCAAT
15233612 AAAT-AAAATAATTAAATAA
1 AAATAAAAATAATTAAATAA
*
15233631 AACTAAAAATAATTGAACATATA
1 AAATAAAAATAATT-AA-ATA-A
15233654 AAATACAAAA
1 AAATA-AAAA
15233664 AATATCATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 3 0.12
20 9 0.35
21 2 0.08
22 3 0.12
23 5 0.19
24 4 0.15
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.23
Consensus pattern (20 bp):
AAATAAAAATAATTAAATAA
Found at i:15239377 original size:24 final size:25
Alignment explanation
Indices: 15239328--15239379 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
15239318 TTTTGAGCAA
* *
15239328 TTTAATTTTTTTTCTTTTATGTTCT
1 TTTAACTTTTTTTCTTTCATGTTCT
15239353 TTTAACTTTTTTT-TTTCAT-TCTCT
1 TTTAACTTTTTTTCTTTCATGT-TCT
15239377 TTT
1 TTT
15239380 GTTTCTCCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 1 0.04
24 11 0.46
25 12 0.50
ACGTcount: A:0.12, C:0.12, G:0.02, T:0.75
Consensus pattern (25 bp):
TTTAACTTTTTTTCTTTCATGTTCT
Found at i:15246484 original size:43 final size:43
Alignment explanation
Indices: 15246423--15246510 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
15246413 AAAGTCATGC
15246423 AAAGATTGGCCTCAAATTTCTTGTAACATCATATTATTACATT
1 AAAGATTGGCCTCAAATTTCTTGTAACATCATATTATTACATT
15246466 AAAGATTGGCCTCAAATTTCTTGTAACATCATATTATTACATT
1 AAAGATTGGCCTCAAATTTCTTGTAACATCATATTATTACATT
15246509 AA
1 AA
15246511 CATGAACAAC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (43 bp):
AAAGATTGGCCTCAAATTTCTTGTAACATCATATTATTACATT
Found at i:15250875 original size:16 final size:16
Alignment explanation
Indices: 15250854--15250908 Score: 92
Period size: 16 Copynumber: 3.4 Consensus size: 16
15250844 GTTTGGTTCA
*
15250854 CTGTAATGGAATAGGG
1 CTGTAATGGAATAGAG
15250870 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
*
15250886 CTGTAATTGAATAGAG
1 CTGTAATGGAATAGAG
15250902 CTGTAAT
1 CTGTAAT
15250909 AAGTTATTCA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.35, C:0.07, G:0.29, T:0.29
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:15251172 original size:58 final size:58
Alignment explanation
Indices: 15251093--15251218 Score: 184
Period size: 58 Copynumber: 2.2 Consensus size: 58
15251083 TTTTAATAAG
*
15251093 ATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAACT-ATATT-TTAACATA
1 ATTATTATTAAAAATAATTTAAT-AAAATAATAAATAATTTAA-TAAAATTCTTAACATA
* * *
15251151 ATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATAAAATTCTTAATATA
1 ATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAATAAAATTCTTAACATA
15251209 ATTATTATTA
1 ATTATTATTA
15251219 TATGAATTAA
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
56 1 0.02
57 22 0.35
58 39 0.63
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (58 bp):
ATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAATAAAATTCTTAACATA
Found at i:15251239 original size:58 final size:56
Alignment explanation
Indices: 15251079--15251246 Score: 173
Period size: 58 Copynumber: 2.9 Consensus size: 56
15251069 TTATTGTTAT
* * *
15251079 TAAATTTTAATA-AGATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAAC
1 TAAATTTTAACATA-ATTATTATT-AATATAATTTAA-AAAAATAATATATAATTTAAC
* *
15251137 TATATTTTAACATAATTATTATTAAATATAATTTAATAAAATAATATATAATTTAA-
1 TAAATTTTAACATAATTATTATT-AATATAATTTAAAAAAATAATATATAATTTAAC
*
15251193 TAAAATTCTTAATATAATTATTATT-ATATGAA-TTAAAAAATCATAATATATAAT
1 T-AAATT-TTAACATAATTATTATTAATAT-AATTTAAAAAA--ATAATATATAAT
15251247 ACTATAAAAA
Statistics
Matches: 96, Mismatches: 8, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
56 12 0.12
57 24 0.25
58 59 0.61
59 1 0.01
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (56 bp):
TAAATTTTAACATAATTATTATTAATATAATTTAAAAAAATAATATATAATTTAAC
Found at i:15269823 original size:30 final size:30
Alignment explanation
Indices: 15269759--15269816 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
15269749 TGACAAATTA
*
15269759 ATAAAA-G-TAAAATTATACTTTAACTTTC
1 ATAAAATGATAAAATTATAATTTAACTTTC
*
15269787 ATAAAATGATAAAATTTTAATTTAATCTTT
1 ATAAAATGATAAAATTATAATTTAA-CTTT
15269817 TAAAAATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 6 0.24
29 1 0.04
30 14 0.56
31 4 0.16
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.43
Consensus pattern (30 bp):
ATAAAATGATAAAATTATAATTTAACTTTC
Found at i:15275770 original size:32 final size:32
Alignment explanation
Indices: 15275734--15275800 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
15275724 CACTGCAATT
15275734 TTAGTACCGATTTAAGACTGGAACAATATGTA
1 TTAGTACCGATTTAAGACTGGAACAATATGTA
* *
15275766 TTAGTACTGATTTAAGACTGGAACAGTATGTA
1 TTAGTACCGATTTAAGACTGGAACAATATGTA
15275798 TTA
1 TTA
15275801 ACCGGTACCG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.34
Consensus pattern (32 bp):
TTAGTACCGATTTAAGACTGGAACAATATGTA
Found at i:15277468 original size:22 final size:22
Alignment explanation
Indices: 15277440--15277482 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
15277430 GAGATTTCAG
*
15277440 GTTTTCAATGTATAAGTCAACA
1 GTTTTCAATGTATAAGCCAACA
*
15277462 GTTTTCATTGTATAAGCCAAC
1 GTTTTCAATGTATAAGCCAAC
15277483 CTTAAAGGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (22 bp):
GTTTTCAATGTATAAGCCAACA
Found at i:15278739 original size:27 final size:27
Alignment explanation
Indices: 15278709--15278761 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
15278699 ACAGCTACAA
15278709 CTAAAAGAACTTCCTCGCCGGATCACT
1 CTAAAAGAACTTCCTCGCCGGATCACT
15278736 CTAAAAGAACTTCCTCGCCGGATCAC
1 CTAAAAGAACTTCCTCGCCGGATCAC
15278762 AGAAGCAGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.30, C:0.34, G:0.15, T:0.21
Consensus pattern (27 bp):
CTAAAAGAACTTCCTCGCCGGATCACT
Found at i:15284299 original size:71 final size:71
Alignment explanation
Indices: 15284219--15284354 Score: 254
Period size: 71 Copynumber: 1.9 Consensus size: 71
15284209 AACGGGTAAC
*
15284219 CTAATCTGTACTTTACAGCTTTGGCCAAGTTATTTGATGTGTCATTAAAAGGTTTAGCCCGGACA
1 CTAATCTGTACTTTACAGCTTTGGCCAAGTTATTTGACGTGTCATTAAAAGGTTTAGCCCGGACA
15284284 AGTACT
66 AGTACT
*
15284290 CTAATCTGTACTTTATAGCTTTGGCCAAGTTATTTGACGTGTCATTAAAAGGTTTAGCCCGGACA
1 CTAATCTGTACTTTACAGCTTTGGCCAAGTTATTTGACGTGTCATTAAAAGGTTTAGCCCGGACA
15284355 GGTAACCTAA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 63 1.00
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.35
Consensus pattern (71 bp):
CTAATCTGTACTTTACAGCTTTGGCCAAGTTATTTGACGTGTCATTAAAAGGTTTAGCCCGGACA
AGTACT
Found at i:15287795 original size:16 final size:18
Alignment explanation
Indices: 15287776--15287822 Score: 62
Period size: 16 Copynumber: 2.7 Consensus size: 18
15287766 TCTTTTATGT
15287776 TTTATTATATT-T-TTAA
1 TTTATTATATTATATTAA
15287792 TTTATTATATTATATTAA
1 TTTATTATATTATATTAA
*
15287810 TATATTATTATTA
1 TTTATTA-TATTA
15287823 ATTTCTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 11 0.41
17 1 0.04
18 10 0.37
19 5 0.19
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTATTATATTATATTAA
Found at i:15287873 original size:28 final size:28
Alignment explanation
Indices: 15287839--15287898 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
15287829 TAAATACTAA
15287839 ATATATAATATATGTATATTATACATAC
1 ATATATAATATATGTATATTATACATAC
15287867 ATATATAATATATGTATATTATACATAC
1 ATATATAATATATGTATATTATACATAC
15287895 ATAT
1 ATAT
15287899 GGAATAATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.43
Consensus pattern (28 bp):
ATATATAATATATGTATATTATACATAC
Found at i:15290342 original size:9 final size:9
Alignment explanation
Indices: 15290328--15290352 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
15290318 TTGATTGTAA
15290328 GAAGTTTAT
1 GAAGTTTAT
15290337 GAAGTTTAT
1 GAAGTTTAT
15290346 GAAGTTT
1 GAAGTTT
15290353 CTAAAGATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (9 bp):
GAAGTTTAT
Found at i:15301476 original size:15 final size:15
Alignment explanation
Indices: 15301456--15301505 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
15301446 ATAGCACGGT
15301456 AATATAAGTGACTAA
1 AATATAAGTGACTAA
* * *
15301471 AATATAAAT--TTCA
1 AATATAAGTGACTAA
*
15301484 AACATAAGTGACTAA
1 AATATAAGTGACTAA
15301499 AATATAA
1 AATATAA
15301506 TCAAAGGGAA
Statistics
Matches: 25, Mismatches: 8, Indels: 4
0.68 0.22 0.11
Matches are distributed among these distances:
13 9 0.36
15 16 0.64
ACGTcount: A:0.56, C:0.08, G:0.08, T:0.28
Consensus pattern (15 bp):
AATATAAGTGACTAA
Found at i:15305489 original size:31 final size:33
Alignment explanation
Indices: 15305448--15305512 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 33
15305438 CTTCGAGCTT
*
15305448 CTTAATTTGCACA-TTG-AAGCAATCATTTGAG
1 CTTAATTTGCACATTTGAAAGCAAGCATTTGAG
*
15305479 CTTATTTTGCACATTTGAAAAGCAAGCATTTGAG
1 CTTAATTTGCACATTTG-AAAGCAAGCATTTGAG
15305513 GGATAACTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 12 0.41
32 3 0.10
34 14 0.48
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.35
Consensus pattern (33 bp):
CTTAATTTGCACATTTGAAAGCAAGCATTTGAG
Found at i:15312965 original size:40 final size:40
Alignment explanation
Indices: 15312910--15312990 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
15312900 TGGAACCTTG
15312910 TATAGTTAATTTGTTACTAGTCTAGGTAAGATTTTTTTTT
1 TATAGTTAATTTGTTACTAGTCTAGGTAAGATTTTTTTTT
15312950 TATAGTTAATTTGTTACTAGTCTAGGTAAGATTTTTTTTT
1 TATAGTTAATTTGTTACTAGTCTAGGTAAGATTTTTTTTT
15312990 T
1 T
15312991 CTTATTTTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.25, C:0.05, G:0.15, T:0.56
Consensus pattern (40 bp):
TATAGTTAATTTGTTACTAGTCTAGGTAAGATTTTTTTTT
Found at i:15315468 original size:10 final size:9
Alignment explanation
Indices: 15315308--15315577 Score: 101
Period size: 9 Copynumber: 28.8 Consensus size: 9
15315298 TTTATAAATT
15315308 TTTTTATAA
1 TTTTTATAA
15315317 TTTTATATTAA
1 TTTT-TA-TAA
*
15315328 TTTTAATACA
1 TTTTTATA-A
15315338 TTTTTTATAA
1 -TTTTTATAA
**
15315348 TATTTTATGG
1 T-TTTTATAA
15315358 TTTTTAT-A
1 TTTTTATAA
15315366 TTTTTATAAAA
1 TTTTTAT--AA
*
15315377 TTTTTAAATA
1 TTTTTATA-A
*
15315387 TGTTTTGTTAA
1 T-TTTT-ATAA
15315398 -TTTTATAA
1 TTTTTATAA
15315406 TTTTTTTATAA
1 --TTTTTATAA
* *
15315417 TTGATTAGAA
1 TT-TTTATAA
*
15315427 TTTTT-GAA
1 TTTTTATAA
*
15315435 TTTTAAT-A
1 TTTTTATAA
15315443 TTTTTAATAA
1 TTTTT-ATAA
*
15315453 TATTTATAA
1 TTTTTATAA
*
15315462 GTTTT-T-A
1 TTTTTATAA
15315469 TTTTTATAA
1 TTTTTATAA
15315478 TTTTTATAA
1 TTTTTATAA
*
15315487 GTTTATATAA
1 -TTTTTATAA
* **
15315497 CTTAGA-AA
1 TTTTTATAA
15315505 TTTTTCATTGAA
1 TTTTT-A-T-AA
15315517 TATTTTA-AA
1 T-TTTTATAA
* *
15315526 TATTAATAA
1 TTTTTATAA
15315535 TTTTT-TAA
1 TTTTTATAA
*
15315543 TTTTTA-ATT
1 TTTTTATA-A
15315552 TTTTTATAA
1 TTTTTATAA
* *
15315561 TTTCTAATGA
1 TTT-TTATAA
15315571 TTTTTAT
1 TTTTTAT
15315578 GAGAAAATAT
Statistics
Matches: 196, Mismatches: 34, Indels: 62
0.67 0.12 0.21
Matches are distributed among these distances:
7 5 0.03
8 40 0.20
9 66 0.34
10 42 0.21
11 34 0.17
12 5 0.03
13 4 0.02
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.61
Consensus pattern (9 bp):
TTTTTATAA
Found at i:15315477 original size:25 final size:26
Alignment explanation
Indices: 15315441--15315490 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 26
15315431 TGAATTTTAA
15315441 TATTTTTAATAATATTTATAAGTTTT
1 TATTTTTAATAATATTTATAAGTTTT
*
15315467 TATTTTT-ATAATTTTTATAAGTTT
1 TATTTTTAATAATATTTATAAGTTT
15315491 ATATAACTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (26 bp):
TATTTTTAATAATATTTATAAGTTTT
Found at i:15315483 original size:15 final size:16
Alignment explanation
Indices: 15315455--15315484 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
15315445 TTTAATAATA
15315455 TTTATAAGTTTTTATT
1 TTTATAAGTTTTTATT
15315471 TTTATAA-TTTTTAT
1 TTTATAAGTTTTTAT
15315485 AAGTTTATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (16 bp):
TTTATAAGTTTTTATT
Found at i:15325588 original size:24 final size:23
Alignment explanation
Indices: 15325544--15325589 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
15325534 AACTTTTTAC
15325544 TAAATTTATATATTTTAAATTTT
1 TAAATTTATATATTTTAAATTTT
* *
15325567 TAAATTTTTTATATTTTTAATTT
1 TAAA-TTTATATATTTTAAATTT
15325590 CAAAATAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (23 bp):
TAAATTTATATATTTTAAATTTT
Found at i:15326592 original size:35 final size:35
Alignment explanation
Indices: 15326546--15326615 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
15326536 TATGCGACTA
15326546 AGTCTTTGGCTAACCGTTTAGTGTTGAAACAACGT
1 AGTCTTTGGCTAACCGTTTAGTGTTGAAACAACGT
15326581 AGTCTTTGGCTAACCGTTTAGTGTTGAAACAACGT
1 AGTCTTTGGCTAACCGTTTAGTGTTGAAACAACGT
15326616 CTATTTACGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (35 bp):
AGTCTTTGGCTAACCGTTTAGTGTTGAAACAACGT
Found at i:15327522 original size:17 final size:17
Alignment explanation
Indices: 15327500--15327539 Score: 71
Period size: 17 Copynumber: 2.3 Consensus size: 17
15327490 CATGTTACAC
15327500 ATAAATCATCACACCAA
1 ATAAATCATCACACCAA
15327517 ATAAATCATCACACCAA
1 ATAAATCATCACACCAA
15327534 ACTAAA
1 A-TAAA
15327540 ATTTCAATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.55, C:0.28, G:0.00, T:0.17
Consensus pattern (17 bp):
ATAAATCATCACACCAA
Found at i:15327807 original size:21 final size:22
Alignment explanation
Indices: 15327760--15327810 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
15327750 CGATTAAAGA
15327760 ATTAAAATATTACATATATAAT
1 ATTAAAATATTACATATATAAT
* *
15327782 TTTAAAATATT-GATA-ATTAAT
1 ATTAAAATATTACATATA-TAAT
15327803 ATTAAAAT
1 ATTAAAAT
15327811 GATAATTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 14 0.56
22 10 0.40
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (22 bp):
ATTAAAATATTACATATATAAT
Found at i:15342866 original size:5 final size:5
Alignment explanation
Indices: 15342856--15342882 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
15342846 CTTACAAGGA
15342856 TTATT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TT
15342883 TATAATTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:15342905 original size:23 final size:22
Alignment explanation
Indices: 15342879--15342929 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
15342869 TTTTATTTTA
*
15342879 TTTTTATAATT-TGTTTTTGATT
1 TTTTTATAATTAT-CTTTTGATT
*
15342901 CTTTTCATAATTATCTTTTGATT
1 -TTTTTATAATTATCTTTTGATT
15342924 TTTTTA
1 TTTTTA
15342930 GTTTTTTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
22 5 0.21
23 18 0.75
24 1 0.04
ACGTcount: A:0.20, C:0.06, G:0.06, T:0.69
Consensus pattern (22 bp):
TTTTTATAATTATCTTTTGATT
Found at i:15352259 original size:11 final size:12
Alignment explanation
Indices: 15352218--15352268 Score: 50
Period size: 12 Copynumber: 4.0 Consensus size: 12
15352208 GAAAAGGTAA
15352218 ATTTTTT-TTAT
1 ATTTTTTATTAT
*
15352229 ATTTGTTTTGTATAT
1 A-TT-TTTTAT-TAT
15352244 ATATTTTTATTAT
1 AT-TTTTTATTAT
15352257 ATTTTTTATTAT
1 ATTTTTTATTAT
15352269 GATGTATATA
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
11 1 0.03
12 12 0.35
13 9 0.26
14 7 0.21
15 5 0.15
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.73
Consensus pattern (12 bp):
ATTTTTTATTAT
Found at i:15352635 original size:27 final size:28
Alignment explanation
Indices: 15352593--15352646 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 28
15352583 TGGGGTTAGG
15352593 TTTTTTTTTTTGGGGTTAGGTTTTTTTC
1 TTTTTTTTTTTGGGGTTAGGTTTTTTTC
15352621 TTTTTTTTTTT-GGGTTAGGTTTTTTT
1 TTTTTTTTTTTGGGGTTAGGTTTTTTT
15352647 GGGGAGGGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 15 0.58
28 11 0.42
ACGTcount: A:0.04, C:0.02, G:0.20, T:0.74
Consensus pattern (28 bp):
TTTTTTTTTTTGGGGTTAGGTTTTTTTC
Found at i:15352646 original size:20 final size:20
Alignment explanation
Indices: 15352574--15352624 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
15352564 GTTTCTTGGG
15352574 TTTTTTTTTTGGGGTTAGGT
1 TTTTTTTTTTGGGGTTAGGT
15352594 TTTTTTTTTTGGGGTTAGGT
1 TTTTTTTTTTGGGGTTAGGT
15352614 TTTTTTCTTTT
1 TTTTTT-TTTT
15352625 TTTTTTTGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 26 0.87
21 4 0.13
ACGTcount: A:0.04, C:0.02, G:0.24, T:0.71
Consensus pattern (20 bp):
TTTTTTTTTTGGGGTTAGGT
Found at i:15353865 original size:74 final size:73
Alignment explanation
Indices: 15353506--15354210 Score: 1001
Period size: 72 Copynumber: 9.6 Consensus size: 73
15353496 GATCTGAAGT
15353506 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAACAGAAATTGAAATTACCTCAGCGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAACAGAAATTGAAATTACCTCAGCGTGT
15353571 -CTCGAGGC
66 CCT-GAGGC
*
15353579 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAACAGAAATTGAAATTACCTCAGCGTGT
15353643 CCTGAGGC
66 CCTGAGGC
* * *
15353651 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAAAAATTGAAAATACCTCAGCAT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTT--AAAACAGAAATTGAAATTACCTCAGCGT
*
15353716 GTCTTGAGGC
64 GTCCTGAGGC
** * ** *
15353726 TCAACTCATTTCTCGCAATATGAGTTGA-ATTTAGAAAACAGAAATTGAAATTACCTCAGTGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAACAGAAATTGAAATTACCTCAGCGTGT
15353790 CCTGAGGC
66 CCTGAGGC
** *
15353798 TCAACTCATTTCTCGCAATATGATTTGATTTTTTTAACAACAGAAATTGAAATTACCTCAGCGTG
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAA-AACAGAAATTGAAATTACCTCAGCGTG
*
15353863 TCCTAAGGC
65 TCCTGAGGC
* * * *
15353872 TCAACTCACCTCTCGCAGTATGAGTTGATTTTTTTTGAAAGACAAAAATTGAAAATACCTCAACG
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTT-AAA-ACAGAAATTGAAATTACCTCAGCG
*
15353937 TGTCTTGAGGC
63 TGTCCTGAGGC
** * *
15353948 TCAACTCATTTCTCGCAATATGAGTTGA-ATTTTGAAAACAGAAATTGAAATTACCTCA--GTGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAACAGAAATTGAAATTACCTCAGCGTGT
*
15354010 CCCGAGGC
66 CCTGAGGC
*
15354018 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAACAGAAATTGAAATTACCTCAGCGTGT
*
15354082 CCCGAGGC
66 CCTGAGGC
* *
15354090 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCATG
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTT-AAAACAGAAATTGAAATTACCTCAGCGTG
15354155 TCCTGAGGC
65 TCCTGAGGC
* *
15354164 TCAACTCACCTCTCGCAGTATGAGTTGATTTTTTTTGAAACAGAAAT
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTAAAACAGAAAT
15354211 AAAAACATCA
Statistics
Matches: 568, Mismatches: 50, Indels: 27
0.88 0.08 0.04
Matches are distributed among these distances:
70 65 0.11
72 187 0.33
73 48 0.08
74 136 0.24
75 75 0.13
76 57 0.10
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.31
Consensus pattern (73 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAACAGAAATTGAAATTACCTCAGCGTGT
CCTGAGGC
Found at i:15354045 original size:292 final size:294
Alignment explanation
Indices: 15353506--15354203 Score: 1088
Period size: 292 Copynumber: 2.4 Consensus size: 294
15353496 GATCTGAAGT
15353506 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAA-AACAGAAATTGAAATTACCTCAGCGTG
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTGAAATTACCTCAGCGTG
* * *
15353570 T-CTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTGAAAACAGAAATTGAAATT
66 TCCT-GAGGCTCAACTCACCTCTCGCAGTATGAGTTGATTTTTTTTGAAAACAAAAATTGAAAAT
* *
15353631 ACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAAA
130 ACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TATTTTGAAAAACAAA
** **
15353696 AATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTAGA
194 AATTGAAAATACCTCAG-ATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTAGA
* *
15353761 AAACAGAAATTGAAATTACCTCAGTGTGTCCTGAGGC
258 AAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGC
** *
15353798 TCAACTCATTTCTCGCAATATGATTTGATTTTTTTAACAACAGAAATTGAAATTACCTCAGCGTG
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTGAAATTACCTCAGCGTG
*
15353863 TCCTAAGGCTCAACTCACCTCTCGCAGTATGAGTTGATTTTTTTTGAAAGACAAAAATTGAAAAT
66 TCCTGAGGCTCAACTCACCTCTCGCAGTATGAGTTGATTTTTTTTGAAA-ACAAAAATTGAAAAT
* ** *
15353928 ACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTG-AAAACAGAA
130 ACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATATTTTGAAAAACAAAA
* * *
15353991 ATTGAAATTACCTCAG-TGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
195 ATTGAAAATACCTCAGATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTAGAAA
15354055 ACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGC
260 ACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGC
* *
15354090 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCATG
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTGAAATTACCTCAGCGTG
15354155 TCCTGAGGCTCAACTCACCTCTCGCAGTATGAGTTGATTTTTTTTGAAA
66 TCCTGAGGCTCAACTCACCTCTCGCAGTATGAGTTGATTTTTTTTGAAA
15354204 CAGAAATAAA
Statistics
Matches: 372, Mismatches: 28, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
292 217 0.58
293 59 0.16
294 25 0.07
295 5 0.01
296 9 0.02
297 57 0.15
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.31
Consensus pattern (294 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTGAAATTACCTCAGCGTG
TCCTGAGGCTCAACTCACCTCTCGCAGTATGAGTTGATTTTTTTTGAAAACAAAAATTGAAAATA
CCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATATTTTGAAAAACAAAAA
TTGAAAATACCTCAGATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTAGAAAA
CAGAAATTGAAATTACCTCAGCGTGTCCCGAGGC
Found at i:15362520 original size:12 final size:12
Alignment explanation
Indices: 15362503--15362533 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
15362493 TATGCAATAA
*
15362503 ATGAATGGATGC
1 ATGAATGAATGC
15362515 ATGAATGAATGC
1 ATGAATGAATGC
15362527 ATGAATG
1 ATGAATG
15362534 TCAAATGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.39, C:0.06, G:0.29, T:0.26
Consensus pattern (12 bp):
ATGAATGAATGC
Found at i:15364128 original size:16 final size:15
Alignment explanation
Indices: 15364102--15364136 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
15364092 TGATGTGAAT
15364102 AATATAAAATATTAA
1 AATATAAAATATTAA
*
15364117 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
15364133 AATA
1 AATA
15364137 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:15364323 original size:20 final size:21
Alignment explanation
Indices: 15364281--15364323 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
15364271 CCTTTTTTAG
* *
15364281 AATAATAATTAAATATACGAA
1 AATAATAATTAAATACACAAA
*
15364302 AATAAT-ATTATATACACAAA
1 AATAATAATTAAATACACAAA
15364322 AA
1 AA
15364324 GGTATATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (21 bp):
AATAATAATTAAATACACAAA
Found at i:15364556 original size:14 final size:14
Alignment explanation
Indices: 15364526--15364558 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
15364516 CATTAAGAAT
15364526 ATATATATATATAA
1 ATATATATATATAA
15364540 ATATA-ATATATACA
1 ATATATATATATA-A
15364554 ATATA
1 ATATA
15364559 CACATATGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (14 bp):
ATATATATATATAA
Found at i:15365355 original size:20 final size:20
Alignment explanation
Indices: 15365330--15365381 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
15365320 GTTTCTTGGT
15365330 TTTTTTTTGGGGGGGTTAGG
1 TTTTTTTTGGGGGGGTTAGG
****
15365350 TTTTTTTTTTTTGGGTTAGG
1 TTTTTTTTGGGGGGGTTAGG
15365370 TTTTTTTTGGGG
1 TTTTTTTTGGGG
15365382 AGGGCTTAAT
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.04, C:0.00, G:0.35, T:0.62
Consensus pattern (20 bp):
TTTTTTTTGGGGGGGTTAGG
Found at i:15373587 original size:24 final size:22
Alignment explanation
Indices: 15373551--15373595 Score: 54
Period size: 24 Copynumber: 2.0 Consensus size: 22
15373541 TGGAATGGTT
*
15373551 TATATATGATATATTGATATATGG
1 TATAGATGATATA-TG-TATATGG
*
15373575 TATAGATGTTATATGTATATG
1 TATAGATGATATATGTATATG
15373596 TAATCTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 6 0.32
23 2 0.11
24 11 0.58
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.47
Consensus pattern (22 bp):
TATAGATGATATATGTATATGG
Found at i:15379060 original size:19 final size:18
Alignment explanation
Indices: 15379017--15379062 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
15379007 TTATAAAATT
*
15379017 TTAATAAAATAACAATAA
1 TTAATAAAATAAAAATAA
15379035 TTAATAAAATAAAACAT-A
1 TTAATAAAATAAAA-ATAA
15379053 TGTAATAAAA
1 T-TAATAAAA
15379063 ATATGATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 15 0.60
19 10 0.40
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.28
Consensus pattern (18 bp):
TTAATAAAATAAAAATAA
Found at i:15380086 original size:22 final size:22
Alignment explanation
Indices: 15380061--15380104 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
15380051 TTATATGTAG
*
15380061 ATAATAATATTATTTTTCATTT
1 ATAATAATATTATTTTGCATTT
15380083 ATAATAATATTATTTTGCATTT
1 ATAATAATATTATTTTGCATTT
15380105 GAACTTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (22 bp):
ATAATAATATTATTTTGCATTT
Found at i:15385471 original size:22 final size:22
Alignment explanation
Indices: 15385446--15385487 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
15385436 TTTTTTACCA
*
15385446 ATTTTATATTTTTTTAATTTAT
1 ATTTTATATGTTTTTAATTTAT
15385468 ATTTTATATGTTTTTAATTT
1 ATTTTATATGTTTTTAATTT
15385488 TTAATTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.71
Consensus pattern (22 bp):
ATTTTATATGTTTTTAATTTAT
Found at i:15385495 original size:22 final size:22
Alignment explanation
Indices: 15385448--15385495 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
15385438 TTTTACCAAT
* *
15385448 TTTATATTTTTTTAATTTATAT
1 TTTATATGTTTTTAATTTATAA
*
15385470 TTTATATGTTTTTAATTTTTAA
1 TTTATATGTTTTTAATTTATAA
15385492 TTTA
1 TTTA
15385496 AACTTTATAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (22 bp):
TTTATATGTTTTTAATTTATAA
Found at i:15385516 original size:29 final size:29
Alignment explanation
Indices: 15385456--15385517 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
15385446 ATTTTATATT
* * * **
15385456 TTTTTAATTTATATTTTATATGTTTTTAA
1 TTTTTAATTTAAACTTTATACGGATTTAA
*
15385485 TTTTTAATTTAAACTTTATACGGATTTCA
1 TTTTTAATTTAAACTTTATACGGATTTAA
15385514 TTTT
1 TTTT
15385518 ATTTTTTGGT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.63
Consensus pattern (29 bp):
TTTTTAATTTAAACTTTATACGGATTTAA
Found at i:15385659 original size:25 final size:23
Alignment explanation
Indices: 15385630--15385685 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 23
15385620 TAGAATTAGG
15385630 ATTAAATTGATAAAATGTATAAAA
1 ATTAAATTGATAAAATGT-TAAAA
* * *
15385654 TGTTAAAATGTTAAAATGTTAAAA
1 -ATTAAATTGATAAAATGTTAAAA
15385678 ATTAAATT
1 ATTAAATT
15385686 TATTATTTCA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 6 0.23
24 5 0.19
25 15 0.58
ACGTcount: A:0.54, C:0.00, G:0.09, T:0.38
Consensus pattern (23 bp):
ATTAAATTGATAAAATGTTAAAA
Found at i:15385660 original size:8 final size:8
Alignment explanation
Indices: 15385640--15385677 Score: 67
Period size: 8 Copynumber: 4.6 Consensus size: 8
15385630 ATTAAATTGA
15385640 TAAAATGT
1 TAAAATGT
15385648 ATAAAATGT
1 -TAAAATGT
15385657 TAAAATGT
1 TAAAATGT
15385665 TAAAATGT
1 TAAAATGT
15385673 TAAAA
1 TAAAA
15385678 ATTAAATTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 21 0.72
9 8 0.28
ACGTcount: A:0.55, C:0.00, G:0.11, T:0.34
Consensus pattern (8 bp):
TAAAATGT
Found at i:15386425 original size:15 final size:16
Alignment explanation
Indices: 15386395--15386428 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
15386385 GTCTCTATTT
*
15386395 TATTTTATTTTAACTA
1 TATTTTATTATAACTA
15386411 TATTTTA-TATAACTA
1 TATTTTATTATAACTA
15386426 TAT
1 TAT
15386429 CGTGTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTTTATTATAACTA
Found at i:15387129 original size:78 final size:78
Alignment explanation
Indices: 15386993--15387139 Score: 197
Period size: 78 Copynumber: 1.9 Consensus size: 78
15386983 TTCATTTTTT
* * * *
15386993 TTTAGAAAAAAATAATTAAGTAATTTTTTTACTTAATTGGATACTTAAATTTTTAAAATACATAA
1 TTTAGAAAAAAATAATTAAGTAATTTTTTTACTTAATTAGATACTTAAACTGTCAAAATACATAA
15387058 AAAAGACCTTACA
66 AAAAGACCTTACA
** * * *
15387071 TTTA-AAAAAAAGTAATTAAGTTTTTTTTTTACTTAATTAGATACTTGAACTGTCAAAATGCATC
1 TTTAGAAAAAAA-TAATTAAGTAATTTTTTTACTTAATTAGATACTTAAACTGTCAAAATACATA
15387135 AAAAA
65 AAAAA
15387140 TGTCATTTGG
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
77 7 0.12
78 52 0.88
ACGTcount: A:0.46, C:0.08, G:0.07, T:0.39
Consensus pattern (78 bp):
TTTAGAAAAAAATAATTAAGTAATTTTTTTACTTAATTAGATACTTAAACTGTCAAAATACATAA
AAAAGACCTTACA
Found at i:15387270 original size:9 final size:9
Alignment explanation
Indices: 15387239--15387309 Score: 56
Period size: 9 Copynumber: 7.7 Consensus size: 9
15387229 AGGATGAAAA
15387239 ATAAAAATT
1 ATAAAAATT
* *
15387248 AATTAAACTT
1 -ATAAAAATT
15387258 ATAAAAATT
1 ATAAAAATT
*
15387267 ATAAAATTTT
1 ATAAAA-ATT
15387277 AATAAAAA-T
1 -ATAAAAATT
15387286 ATAAAAA-T
1 ATAAAAATT
15387294 ATTAAAAATT
1 A-TAAAAATT
*
15387304 AGAAAA
1 ATAAAA
15387310 CACATCATAA
Statistics
Matches: 50, Mismatches: 7, Indels: 9
0.76 0.11 0.14
Matches are distributed among these distances:
8 9 0.18
9 24 0.48
10 11 0.22
11 6 0.12
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (9 bp):
ATAAAAATT
Found at i:15387272 original size:28 final size:26
Alignment explanation
Indices: 15387235--15387331 Score: 72
Period size: 28 Copynumber: 3.5 Consensus size: 26
15387225 AAAAAGGATG
**
15387235 AAAA-ATAAAAATTAATTAAACTTATA
1 AAAATATAAAAATTAA-TAAAAATATA
*
15387261 AAAATTATAAAATTTTAATAAAAATATA
1 AAAA-TATAAAA-ATTAATAAAAATATA
15387289 AAAATATTAAAAATTAGA-AAACACATCATA
1 AAAATA-TAAAAATTA-ATAAA-A-AT-ATA
15387319 AAAATAGTAAAAA
1 AAAATA-TAAAAA
15387332 AATATTAAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
26 4 0.07
27 8 0.14
28 25 0.43
29 6 0.10
30 15 0.26
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.28
Consensus pattern (26 bp):
AAAATATAAAAATTAATAAAAATATA
Found at i:15387292 original size:20 final size:20
Alignment explanation
Indices: 15387258--15387298 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
15387248 AATTAAACTT
*
15387258 ATAAAAATTATAAAATTTTA
1 ATAAAAATTATAAAATATTA
15387278 ATAAAAA-TATAAAAATATTA
1 ATAAAAATTAT-AAAATATTA
15387298 A
1 A
15387299 AAATTAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
ATAAAAATTATAAAATATTA
Found at i:15387321 original size:21 final size:21
Alignment explanation
Indices: 15387290--15387355 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
15387280 AAAAATATAA
15387290 AAATATTAAAAATTAGAAAAC
1 AAATATTAAAAATTAGAAAAC
*
15387311 ACATCA-TAAAAA-TAGTAAAA-
1 AAAT-ATTAAAAATTAG-AAAAC
*
15387331 AAATATTAAAAATTAGAGAAC
1 AAATATTAAAAATTAGAAAAC
15387352 AAAT
1 AAAT
15387356 TACAAAAATC
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
19 1 0.03
20 15 0.41
21 20 0.54
22 1 0.03
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.23
Consensus pattern (21 bp):
AAATATTAAAAATTAGAAAAC
Found at i:15387337 original size:41 final size:41
Alignment explanation
Indices: 15387288--15387381 Score: 136
Period size: 41 Copynumber: 2.3 Consensus size: 41
15387278 ATAAAAATAT
* *
15387288 AAAAATATTAAAAATTAGAAAACACATCATAAAAATAGTAA
1 AAAAATATTAAAAATTAGAAAACAAATCACAAAAATAGTAA
* * *
15387329 AAAAATATTAAAAATTAGAGAACAAATTACAAAAATCGTAA
1 AAAAATATTAAAAATTAGAAAACAAATCACAAAAATAGTAA
15387370 AAAAATA-TAAAA
1 AAAAATATTAAAA
15387382 TTTTATAAAG
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 5 0.10
41 43 0.90
ACGTcount: A:0.67, C:0.06, G:0.05, T:0.21
Consensus pattern (41 bp):
AAAAATATTAAAAATTAGAAAACAAATCACAAAAATAGTAA
Found at i:15387467 original size:20 final size:19
Alignment explanation
Indices: 15387442--15387515 Score: 64
Period size: 20 Copynumber: 3.9 Consensus size: 19
15387432 TGTAATTTTA
*
15387442 TATTTATTCTAATTTTTAAT
1 TATTTATTAT-ATTTTTAAT
15387462 TATTTATTATATTTTTAAT
1 TATTTATTATATTTTTAAT
* * *
15387481 AAAATTTAATA-ATTTTTATT
1 --TATTTATTATATTTTTAAT
15387501 TATTT-TTAT-TTTTTA
1 TATTTATTATATTTTTA
15387516 TAATTTTATG
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
17 8 0.18
18 4 0.09
19 9 0.20
20 17 0.38
21 7 0.16
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.66
Consensus pattern (19 bp):
TATTTATTATATTTTTAAT
Found at i:15390970 original size:13 final size:14
Alignment explanation
Indices: 15390942--15390971 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
15390932 TAAATTAAAT
15390942 TTTAATATTCTTTG
1 TTTAATATTCTTTG
15390956 TTTAATATT-TTTG
1 TTTAATATTCTTTG
15390969 TTT
1 TTT
15390972 TTATAATTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.20, C:0.03, G:0.07, T:0.70
Consensus pattern (14 bp):
TTTAATATTCTTTG
Found at i:15391173 original size:59 final size:59
Alignment explanation
Indices: 15391081--15391200 Score: 240
Period size: 59 Copynumber: 2.0 Consensus size: 59
15391071 TAATATTCGG
15391081 TACATTGTCAGTGGAGTTTTTAGACTCCACAAGCAACGTCAAGGGATTGACAAGTGTCT
1 TACATTGTCAGTGGAGTTTTTAGACTCCACAAGCAACGTCAAGGGATTGACAAGTGTCT
15391140 TACATTGTCAGTGGAGTTTTTAGACTCCACAAGCAACGTCAAGGGATTGACAAGTGTCT
1 TACATTGTCAGTGGAGTTTTTAGACTCCACAAGCAACGTCAAGGGATTGACAAGTGTCT
15391199 TA
1 TA
15391201 TAGAGGTATA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 61 1.00
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.29
Consensus pattern (59 bp):
TACATTGTCAGTGGAGTTTTTAGACTCCACAAGCAACGTCAAGGGATTGACAAGTGTCT
Found at i:15391407 original size:146 final size:146
Alignment explanation
Indices: 15391143--15391426 Score: 412
Period size: 146 Copynumber: 1.9 Consensus size: 146
15391133 AGTGTCTTAC
* * *
15391143 ATTGTCAGTGGAGTTTTTAGACTCCACAAGCAACGTCAAGGGATTGACAAGTGTCTTATAGAGGT
1 ATTGTCAGTGAAGTTTTTAGACTACACAAGCAACATCAAGGGATTGACAAGTGTCTTATAGAGGT
*
15391208 ATATAAAGTATAAAAAAAATAATTAAAAAACGAGAAACATGTCAATTTTTTAAGGTTACTTGCGT
66 ATATAAAATATAAAAAAAATAATTAAAAAACGAGAAACATGTCAATTTTTTAAGGTTACTTGCGT
15391273 ACCAAATATTCAGTAT
131 ACCAAATATTCAGTAT
*
15391289 ATTGTCAGTGAAGTTTTTAGACTACACAAGTAACATCAATGGGA-TGACAAGTGTCTTATAGAGG
1 ATTGTCAGTGAAGTTTTTAGACTACACAAGCAACATCAA-GGGATTGACAAGTGTCTTATAGAGG
* * * * *
15391353 TATATAAAATATTAATAAAACAT-TTTAAAAAA-GAGACATATGTCAATTTTTTAAGGTTGCTTG
65 TATATAAAATA-TAA-AAAAAATAATTAAAAAACGAGAAACATGTCAATTTTTTAAGGTTACTTG
* *
15391416 TGTACTAAATA
128 CGTACCAAATA
15391427 CTAACAATTT
Statistics
Matches: 123, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
146 102 0.83
147 15 0.12
148 6 0.05
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.32
Consensus pattern (146 bp):
ATTGTCAGTGAAGTTTTTAGACTACACAAGCAACATCAAGGGATTGACAAGTGTCTTATAGAGGT
ATATAAAATATAAAAAAAATAATTAAAAAACGAGAAACATGTCAATTTTTTAAGGTTACTTGCGT
ACCAAATATTCAGTAT
Found at i:15391541 original size:202 final size:191
Alignment explanation
Indices: 15391254--15391628 Score: 520
Period size: 191 Copynumber: 1.9 Consensus size: 191
15391244 ACATGTCAAT
*
15391254 TTTTTAAGGTTACTTGCGTACCAAATATTCAGTATATTGTCAGTGAAGTTTTTAGACTACACAAG
1 TTTTTAAGGTTACTTGCGTACCAAATATTCAGTACATTGTCAGTGAAG-TTTTAGACTACACAAG
* *
15391319 TAACATCAATGGGATGACAAGTGTCTTATAGAGGTATATAAAATATTAATAAAACATTTTAAAAA
65 CAACATCAATGGGATGACAAGTATCTTAT--A-G------AAATA-T-ATAAAACATTTTAAAAA
* *
15391384 AGAGACATATGTCAATTTTTTAAGGTTGCTTGTGTACTAAATACTAACAATTTTAGTACATTGTC
119 AGAGACATATGTCAATTTTTTAAGATTGCTTGTGTACCAAATACTAACAATTTTAGTACATTGTC
15391449 AATGGAGC
184 AATGGAGC
* *
15391457 TTTTTAAGGTTGCTTGTGTACCAAATATTC-GATACATTGTCAGTGGAA-TTTTAGACTACACAA
1 TTTTTAAGGTTACTTGCGTACCAAATATTCAG-TACATTGTCAGT-GAAGTTTTAGACTACACAA
* * *
15391520 GCAACATCAATGGGTTGACAAGTATCTTATAGAAATATATAAAATATTTTAAAAAAGAGACATGT
64 GCAACATCAATGGGATGACAAGTATCTTATAGAAATATATAAAACATTTTAAAAAAGAGACATAT
15391585 GTCAATTTTTTAAGATTGCTTGTGTACCAAATACTAACAATTTT
129 GTCAATTTTTTAAGATTGCTTGTGTACCAAATACTAACAATTTT
15391629 TTTTAATTCC
Statistics
Matches: 160, Mismatches: 10, Indels: 16
0.86 0.05 0.09
Matches are distributed among these distances:
191 67 0.42
192 1 0.01
193 5 0.03
199 1 0.01
200 1 0.01
202 43 0.27
203 39 0.24
204 3 0.02
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.36
Consensus pattern (191 bp):
TTTTTAAGGTTACTTGCGTACCAAATATTCAGTACATTGTCAGTGAAGTTTTAGACTACACAAGC
AACATCAATGGGATGACAAGTATCTTATAGAAATATATAAAACATTTTAAAAAAGAGACATATGT
CAATTTTTTAAGATTGCTTGTGTACCAAATACTAACAATTTTAGTACATTGTCAATGGAGC
Found at i:15396430 original size:30 final size:30
Alignment explanation
Indices: 15396396--15396508 Score: 101
Period size: 30 Copynumber: 3.9 Consensus size: 30
15396386 TAGTAAATAT
* * *
15396396 TTAAAATTTTATAAAAACGCATAAAAATTC
1 TTAAAAATTTATAAAAAAGCATAAAAATTA
*
15396426 TTAAAAATTTATAAAAAATCATAAAAATTA
1 TTAAAAATTTATAAAAAAGCATAAAAATTA
* ** *
15396456 TTAAAAA--TATTAAATTG-ATATAAACTTA
1 TTAAAAATTTATAAAAAAGCATA-AAAATTA
*
15396484 -TAAAAA-TTATAAAAAATCATAAAAA
1 TTAAAAATTTATAAAAAAGCATAAAAA
15396509 ACTTGAATTG
Statistics
Matches: 66, Mismatches: 14, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
27 9 0.14
28 21 0.32
29 3 0.05
30 33 0.50
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (30 bp):
TTAAAAATTTATAAAAAAGCATAAAAATTA
Done.