Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 46 of 345
Found at i:13656886 original size:24 final size:25
Alignment explanation
Indices: 13656802--13656886 Score: 88
Period size: 25 Copynumber: 3.4 Consensus size: 25
13656792 GGAGGAAGTG
* *
13656802 CAAAAG-GGCTTTTGCCCTAGTTTAC
1 CAAAAGAGGC-TTTGCCCCAGTTTAT
13656827 CGAAAAG-GGCTTTGCCCCAGTTTAT
1 C-AAAAGAGGCTTTGCCCCAGTTTAT
13656852 CAAAA-AGGGCTTTGCCCCAG-TTAT
1 CAAAAGA-GGCTTTGCCCCAGTTTAT
*
13656876 TAAAAGAGGCT
1 CAAAAGAGGCT
13656887 AGGCCTCCAA
Statistics
Matches: 53, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
24 16 0.30
25 29 0.55
26 8 0.15
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.27
Consensus pattern (25 bp):
CAAAAGAGGCTTTGCCCCAGTTTAT
Found at i:13664587 original size:25 final size:25
Alignment explanation
Indices: 13664550--13664620 Score: 115
Period size: 25 Copynumber: 2.8 Consensus size: 25
13664540 GAGGAAGTGC
13664550 AAAAGGGCTTTTGCCCCAGTTTACCA
1 AAAAGGGC-TTTGCCCCAGTTTACCA
*
13664576 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
13664601 AAAAGGGCTTTGCCCTAGTT
1 AAAAGGGCTTTGCCCCAGTT
13664621 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
25 35 0.81
26 8 0.19
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:13687166 original size:10 final size:10
Alignment explanation
Indices: 13687148--13687186 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
13687138 GATTTTTGGG
*
13687148 AAATAAAATA
1 AAATTAAATA
13687158 AAATTAAATAA
1 AAATTAAAT-A
*
13687169 AAATTAAATT
1 AAATTAAATA
13687179 AAATTAAA
1 AAATTAAA
13687187 AGAAATGATC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 16 0.62
11 10 0.38
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
AAATTAAATA
Found at i:13687177 original size:16 final size:16
Alignment explanation
Indices: 13687148--13687187 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
13687138 GATTTTTGGG
13687148 AAAT-AAAATAAAATT
1 AAATAAAAATAAAATT
*
13687163 AAATAAAAATTAAATT
1 AAATAAAAATAAAATT
13687179 AAATTAAAA
1 AAA-TAAAA
13687188 GAAATGATCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 4 0.18
16 13 0.59
17 5 0.23
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
AAATAAAAATAAAATT
Found at i:13694465 original size:16 final size:16
Alignment explanation
Indices: 13694444--13694476 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
13694434 TAAAAATACA
13694444 TATTTTACCATGAGTC
1 TATTTTACCATGAGTC
13694460 TATTTTACCATGAGTC
1 TATTTTACCATGAGTC
13694476 T
1 T
13694477 CTTACGTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.12, T:0.45
Consensus pattern (16 bp):
TATTTTACCATGAGTC
Found at i:13694981 original size:23 final size:23
Alignment explanation
Indices: 13694955--13695003 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
13694945 ACCTTTTGTT
13694955 TTTATTATTTTAATCAATTTAAG
1 TTTATTATTTTAATCAATTTAAG
*
13694978 TTTATTATTTTAATTAATTTAAG
1 TTTATTATTTTAATCAATTTAAG
13695001 TTT
1 TTT
13695004 TTTTTTCTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (23 bp):
TTTATTATTTTAATCAATTTAAG
Found at i:13697496 original size:23 final size:23
Alignment explanation
Indices: 13697466--13697512 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
13697456 AATATCTGCC
*
13697466 TAACATCCCAATAATGTACGCAA
1 TAACATCCCAATAATGAACGCAA
13697489 TAACATCCCAATAATGAACGCAA
1 TAACATCCCAATAATGAACGCAA
13697512 T
1 T
13697513 GTCCGGATGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.26, G:0.09, T:0.21
Consensus pattern (23 bp):
TAACATCCCAATAATGAACGCAA
Found at i:13702994 original size:46 final size:46
Alignment explanation
Indices: 13702937--13703209 Score: 386
Period size: 46 Copynumber: 5.9 Consensus size: 46
13702927 GTGTGCTCTT
* **
13702937 TGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
* *
13702983 TGATATGAAATGAATAAGACCATGGTTGAAAAATACCATGGCAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
** *
13703029 TGATGGGAAATGAATAAGACCATGGTTGACAGATACCATGGCAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
*
13703075 TGATATGAAATGAATAAGACCGTGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
* *
13703121 TGATATGAAATGAATAAGACCATGATTGAAAGATACCATGGCAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
* * * * *
13703167 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGATATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCA
13703210 TCATGTCAAA
Statistics
Matches: 203, Mismatches: 23, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 1 0.00
46 202 1.00
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (46 bp):
TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
Found at i:13709714 original size:39 final size:40
Alignment explanation
Indices: 13709655--13709915 Score: 345
Period size: 39 Copynumber: 6.6 Consensus size: 40
13709645 CGGATGATAA
* *
13709655 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
13709695 CCGGGCTAAG-CCCGAAGGCATTTGTACGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
13709734 CCGGGCTAAGTCCCGAAGGCA-TGGTGCGAGCTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
13709773 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
13709813 CCGGGCTAAGTCCCGAAGGCA-TGGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
13709852 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
13709892 CC-GGCTAAATTCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
13709916 GTTTGGGAAT
Statistics
Matches: 196, Mismatches: 20, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 127 0.65
40 69 0.35
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:13709792 original size:79 final size:78
Alignment explanation
Indices: 13709655--13709912 Score: 346
Period size: 79 Copynumber: 3.3 Consensus size: 78
13709645 CGGATGATAA
* * *
13709655 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAG-CCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCA-TGGTGCGAGT-ACTATA-ACCGGGCTAAGTCCCGAAGGCATTT
13709718 GTACGAGTTACTATAT
63 GTACGAGTTACTATAT
*
13709734 CCGGGCTAAGTCCCGAAGGCATGGTGCGAGCTACTATAACCGGGCTAAGTCCCAAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATGGTGCGAG-TACTATAACCGGGCTAAGTCCCGAAGGCATTTGT
*
13709799 GCGAGTTACTATAT
65 ACGAGTTACTATAT
13709813 CCGGGCTAAGTCCCGAAGGCATGGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG-
1 CCGGGCTAAGTCCCGAAGGCATGGTGCGAG-TACTATAACCGGGCTAAGTCCCGAAGGCATTTGT
*
13709877 AGCAAG-TAGCTATAT
65 A-CGAGTTA-CTATAT
* *
13709892 CC-GGCTAAATTCCGAAGGCAT
1 CCGGGCTAAGTCCCGAAGGCAT
13709913 TTGGTTTGGG
Statistics
Matches: 163, Mismatches: 11, Indels: 11
0.88 0.06 0.06
Matches are distributed among these distances:
78 40 0.25
79 123 0.75
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.23
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATGGTGCGAGTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTA
CGAGTTACTATAT
Found at i:13709843 original size:118 final size:118
Alignment explanation
Indices: 13709651--13709873 Score: 360
Period size: 118 Copynumber: 1.9 Consensus size: 118
13709641 TATTCGGATG
* *
13709651 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
* *
13709716 TTGTACGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATGGTGCGAGCTACT
66 TGGTACGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATGGTGCGAGCTACT
*
13709769 ATAACCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACT-ATATCCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTGACTAAT-TCCGGGCTAAG-CCCGAAGGC
*
13709833 A-TGGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCAT
64 ATTGGTACGAGTTACTATAACCGGGCTAAGTCCCGAAGGCAT
13709874 TTGAGCAAGT
Statistics
Matches: 97, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
117 2 0.02
118 85 0.88
119 10 0.10
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.23
Consensus pattern (118 bp):
ATAACCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
TGGTACGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATGGTGCGAGCTACT
Found at i:13709898 original size:118 final size:118
Alignment explanation
Indices: 13709651--13709915 Score: 358
Period size: 118 Copynumber: 2.2 Consensus size: 118
13709641 TATTCGGATG
*
13709651 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
* * * *
13709716 TTGTACGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATGGTGCGAGCTACT
66 TGGTACGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATGGAGCAAGCTACT
* *
13709769 ATAACCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACT-ATATCCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-TCCGGGCTAAG-CCCGAAGGC
* *
13709833 A-TGGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCT
64 ATTGGTACGAGTTACTATAACCGGGCTAAGTCCCGAAGGCA-TGGAGCAAGCTA-CT
* * *
13709888 ATATCC-GGCTAAATTCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
13709916 GTTTGGGAAT
Statistics
Matches: 130, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
117 2 0.02
118 105 0.81
119 23 0.18
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (118 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
TGGTACGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATGGAGCAAGCTACT
Found at i:13717781 original size:39 final size:40
Alignment explanation
Indices: 13717726--13717943 Score: 309
Period size: 39 Copynumber: 5.5 Consensus size: 40
13717716 TGATAACCGA
* * *
13717726 GCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCAG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGG
13717766 GCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
* * *
13717805 GCTAAGTCCCGAAGGCA-TGGTGCAAGTTACTATAACCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
* *
13717844 GCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATATCTGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
* *
13717884 GCTAAGTCCCGAAGGCA-TAGTGCGAGTTACTATAACCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
13717923 GCTAAGTCCCGAAGGCATTTG
1 GCTAAGTCCCGAAGGCATTTG
13717944 AGCAAGTAGT
Statistics
Matches: 158, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
39 105 0.66
40 53 0.34
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
Found at i:13717909 original size:118 final size:118
Alignment explanation
Indices: 13717718--13717940 Score: 344
Period size: 118 Copynumber: 1.9 Consensus size: 118
13717708 TATTCGGATG
13717718 ATAACCGAGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCAGGCTAAGCCCGAAGGCAT
1 ATAACCGAGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCAGGCTAAGCCCGAAGGCAT
* *
13717783 TTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATGGTGCAAGTTACT
66 TAGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATGGTGCAAGTTACT
* * **
13717836 ATAACCGGGCTAAGTCCCGAAGGCATTTGTG-TGAGTTACT-ATATCTGGGCTAAGTCCCGAAGG
1 ATAACCGAGCTAAGTCCCGAAGGCATTTGTGCT-AGTGACTAAT-TCCAGGCTAAG-CCCGAAGG
13717899 CA-TAGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCAT
63 CATTAGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCAT
13717941 TTGAGCAAGT
Statistics
Matches: 96, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
117 3 0.03
118 83 0.86
119 10 0.10
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (118 bp):
ATAACCGAGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCAGGCTAAGCCCGAAGGCAT
TAGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATGGTGCAAGTTACT
Found at i:13717959 original size:79 final size:79
Alignment explanation
Indices: 13717726--13717943 Score: 323
Period size: 79 Copynumber: 2.8 Consensus size: 79
13717716 TGATAACCGA
* * * * *
13717726 GCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCAGGCTAAG-CCCGAAGGCATTTGTGC
1 GCTAAGTCCCGAAGGCA-TAGTGCAAGTTACTATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGC
13717789 GAGTTACTATATCCGG
64 GAGTTACTATATCCGG
* *
13717805 GCTAAGTCCCGAAGGCATGGTGCAAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGTGA
1 GCTAAGTCCCGAAGGCATAGTGCAAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGA
*
13717870 GTTACTATATCTGG
66 GTTACTATATCCGG
*
13717884 GCTAAGTCCCGAAGGCATAGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
1 GCTAAGTCCCGAAGGCATAGTGCAAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
13717944 AGCAAGTAGT
Statistics
Matches: 128, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
78 21 0.16
79 107 0.84
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
GCTAAGTCCCGAAGGCATAGTGCAAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGA
GTTACTATATCCGG
Found at i:13717975 original size:118 final size:118
Alignment explanation
Indices: 13717718--13717982 Score: 308
Period size: 118 Copynumber: 2.2 Consensus size: 118
13717708 TATTCGGATG
*
13717718 ATAACC-GAGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCAGGCTAAGCCCGAAGGCA
1 ATAACCGGA-CTAAATCCCGAAGGCATTTGTGCTAGTGACTAATTCCAGGCTAAGCCCGAAGGCA
* * *
13717782 TTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATGGTGCAAGTTACT
65 TTAGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATGGAGCAAGTTACT
* * * **
13717836 ATAACCGGGCTAAGTCCCGAAGGCATTTGTG-TGAGTTACT-ATATCTGGGCTAAGTCCCGAAGG
1 ATAACCGGACTAAATCCCGAAGGCATTTGTGCT-AGTGACTAAT-TCCAGGCTAAG-CCCGAAGG
* *
13717899 CA-TAGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGTT
63 CATTAGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCA-TGGAGCAAGTTA-CT
* **
13717955 ATATCC-GACTAAATTTCGAAGGCATTTG
1 ATAACCGGACTAAATCCCGAAGGCATTTG
13717983 GTTTGGGAAT
Statistics
Matches: 127, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
117 3 0.02
118 100 0.79
119 24 0.19
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (118 bp):
ATAACCGGACTAAATCCCGAAGGCATTTGTGCTAGTGACTAATTCCAGGCTAAGCCCGAAGGCAT
TAGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATGGAGCAAGTTACT
Found at i:13725075 original size:12 final size:13
Alignment explanation
Indices: 13725058--13725095 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
13725048 ATCCTGGAAT
13725058 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
13725070 ATTAAGAACACATA
1 ATTAAGAACA-AGA
13725084 ATTAAGAACAAG
1 ATTAAGAACAAG
13725096 TCAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:13726461 original size:29 final size:29
Alignment explanation
Indices: 13726429--13726522 Score: 84
Period size: 28 Copynumber: 3.3 Consensus size: 29
13726419 TTTTATAAAG
*
13726429 TAGGGGAAAAAATTATAAAATCTGAAAAA
1 TAGGGGACAAAATTATAAAATCTGAAAAA
* * *
13726458 TAGGGG-CAAAATTTTTAAATCTAAAAAA
1 TAGGGGACAAAATTATAAAATCTGAAAAA
* ** *
13726486 TA-AGGACAAAACCATAAAATTTGAAAAA
1 TAGGGGACAAAATTATAAAATCTGAAAAA
* *
13726514 CAAGGGACA
1 TAGGGGACA
13726523 CACGGCCATG
Statistics
Matches: 50, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
27 2 0.04
28 37 0.74
29 11 0.22
ACGTcount: A:0.55, C:0.09, G:0.16, T:0.20
Consensus pattern (29 bp):
TAGGGGACAAAATTATAAAATCTGAAAAA
Found at i:13727530 original size:23 final size:23
Alignment explanation
Indices: 13727486--13727533 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
13727476 ACTAACCTCC
*
13727486 TATATTTTGAGGCATGATATTTA
1 TATATTTTGAGGCATGACATTTA
* **
13727509 TATATTTTGGGGTGTGACATTTA
1 TATATTTTGAGGCATGACATTTA
13727532 TA
1 TA
13727534 ATCTAATAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.27, C:0.04, G:0.21, T:0.48
Consensus pattern (23 bp):
TATATTTTGAGGCATGACATTTA
Found at i:13731086 original size:15 final size:15
Alignment explanation
Indices: 13731066--13731097 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
13731056 AGGCAAAATT
13731066 ACCATTTTGTCCCTA
1 ACCATTTTGTCCCTA
13731081 ACCATTTTGTCCCTA
1 ACCATTTTGTCCCTA
13731096 AC
1 AC
13731098 TTTTCCATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.22, C:0.34, G:0.06, T:0.38
Consensus pattern (15 bp):
ACCATTTTGTCCCTA
Found at i:13736223 original size:154 final size:154
Alignment explanation
Indices: 13735991--13736352 Score: 485
Period size: 156 Copynumber: 2.3 Consensus size: 154
13735981 GTTTTGTAAA
* * * * * *
13735991 ACAAAAGTGTTGAGGAAAACGACGCCGTGTATTGCTCAGCTATATAGGCATTAGCGGCGCTTCCT
1 ACAAAAGTTTTGA-GAAAACGACGTCGTGCATTGGTGAGCTATAGAGGCATTAGCGGCGCTTCCT
* * *
13736056 GAAAATGCTGCAATATATCGAGAATTAGCGGCG-TTTTTTATAAAACGCCACAATAGGTGAAGCA
65 GAAAACGCCGCAATATATCAAGAATTAGCGGCGTTTTTTTATAAAACGCCACAATAGGTGAAGCA
13736120 TTAGCGGCGGTTGTCTAAAAACGCC
130 TTAGCGGCGGTTGTCTAAAAACGCC
** *
13736145 ACAAAAGTTTTGAGAAATACGACGTCGTGCATTGGTGAGCTATAGAGGTGTTAGCGGCGCTTTCT
1 ACAAAAGTTTTGAGAAA-ACGACGTCGTGCATTGGTGAGCTATAGAGGCATTAGCGGCGCTTCCT
* * *
13736210 GTAAACGCCGCAATATATCAAGAATTAGCGGCGTTTTTTTTCTAAAATGCCACAATAGGTGAAGC
65 GAAAACGCCGCAATATATCAAGAATTAGCGGCG-TTTTTTTATAAAACGCCACAATAGGTGAAGC
* *
13736275 ATTAGCGGGGGTTGTTTAAAAACGCC
129 ATTAGCGGCGGTTGTCTAAAAACGCC
* * *
13736301 GCAAAAGTTTTGAGAAAAACGACGTCGT-CTTTTGGTGAGCTATAGGGGCATT
1 ACAAAAGTTTTGAG-AAAACGACGTCGTGC-ATTGGTGAGCTATAGAGGCATT
13736353 TTAAAAAACG
Statistics
Matches: 181, Mismatches: 22, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
153 4 0.02
154 80 0.44
155 1 0.01
156 93 0.51
157 3 0.02
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (154 bp):
ACAAAAGTTTTGAGAAAACGACGTCGTGCATTGGTGAGCTATAGAGGCATTAGCGGCGCTTCCTG
AAAACGCCGCAATATATCAAGAATTAGCGGCGTTTTTTTATAAAACGCCACAATAGGTGAAGCAT
TAGCGGCGGTTGTCTAAAAACGCC
Found at i:13737026 original size:7 final size:7
Alignment explanation
Indices: 13737010--13737084 Score: 64
Period size: 7 Copynumber: 10.9 Consensus size: 7
13737000 TGGGGATATT
*
13737010 GTTTAAG
1 GTTTAGG
13737017 GTTTAGG
1 GTTTAGG
*
13737024 GTTTATG
1 GTTTAGG
13737031 GTTTAGG
1 GTTTAGG
*
13737038 G-AT-GG
1 GTTTAGG
13737043 GTTTAGG
1 GTTTAGG
*
13737050 GCTTAGG
1 GTTTAGG
*
13737057 GGTTAGG
1 GTTTAGG
*
13737064 GTTTATAG
1 GTTTA-GG
*
13737072 TTTTAGG
1 GTTTAGG
13737079 GTTTAG
1 GTTTAG
13737085 AGTATAATTT
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
5 3 0.06
6 2 0.04
7 43 0.81
8 5 0.09
ACGTcount: A:0.17, C:0.01, G:0.39, T:0.43
Consensus pattern (7 bp):
GTTTAGG
Found at i:13737130 original size:15 final size:15
Alignment explanation
Indices: 13737110--13737141 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
13737100 TTTAATTTAG
13737110 AAGATAAATATAAAT
1 AAGATAAATATAAAT
*
13737125 AAGATAAATATATAT
1 AAGATAAATATAAAT
13737140 AA
1 AA
13737142 ATTATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (15 bp):
AAGATAAATATAAAT
Found at i:13738002 original size:45 final size:44
Alignment explanation
Indices: 13737953--13738048 Score: 113
Period size: 44 Copynumber: 2.2 Consensus size: 44
13737943 CCTCCCCTAA
*
13737953 TTCCCCAAACCCGAAATCCCTAATATTTTCCCCAAAT-CCCCTCTT
1 TTCCCCAAACCC-AAATCCCTAACATTTTCCCCAAATCCCCCT-TT
* ** **
13737998 TTCCCCATAGTCATTTCCCTAACATTTTCCCCAAATCCCCCTTT
1 TTCCCCAAACCCAAATCCCTAACATTTTCCCCAAATCCCCCTTT
13738042 TTCCCCA
1 TTCCCCA
13738049 TACTTTTTTC
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
44 30 0.68
45 14 0.32
ACGTcount: A:0.23, C:0.43, G:0.02, T:0.32
Consensus pattern (44 bp):
TTCCCCAAACCCAAATCCCTAACATTTTCCCCAAATCCCCCTTT
Found at i:13738059 original size:44 final size:44
Alignment explanation
Indices: 13737969--13738063 Score: 138
Period size: 44 Copynumber: 2.2 Consensus size: 44
13737959 AAACCCGAAA
* *
13737969 TCCCTAATATTTTCCCCAAATCCCCTCTTTTCCCCATAGTCATT
1 TCCCTAACATTTTCCCCAAATCCCCTCTTTTCCCCATACTCATT
**
13738013 TCCCTAACATTTTCCCCAAATCCCC-CTTTTTCCCCATACTTTTT
1 TCCCTAACATTTTCCCCAAATCCCCTC-TTTTCCCCATACTCATT
13738057 TCCCTAA
1 TCCCTAA
13738064 ATCTATTCCC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
43 1 0.02
44 45 0.98
ACGTcount: A:0.20, C:0.40, G:0.01, T:0.39
Consensus pattern (44 bp):
TCCCTAACATTTTCCCCAAATCCCCTCTTTTCCCCATACTCATT
Found at i:13741411 original size:9 final size:9
Alignment explanation
Indices: 13741388--13741515 Score: 103
Period size: 9 Copynumber: 13.6 Consensus size: 9
13741378 ATTGATCATT
*
13741388 ACTTAAATA
1 ACTTACATA
*
13741397 AATTACATA
1 ACTTACATA
13741406 ACTTACATA
1 ACTTACATA
** *
13741415 ACCCATATA
1 ACTTACATA
13741424 ACTTACATA
1 ACTTACATA
*
13741433 ATTTACATA
1 ACTTACATA
13741442 ACAATTTACATA
1 AC---TTACATA
*
13741454 ACTCACATA
1 ACTTACATA
13741463 ACTTACATA
1 ACTTACATA
*
13741472 ATTTACATA
1 ACTTACATA
* *
13741481 ACTCATATA
1 ACTTACATA
*
13741490 ACGTACATAACA
1 ACTTACAT---A
13741502 ACTTACATA
1 ACTTACATA
13741511 ACTTA
1 ACTTA
13741516 ACTAATACAT
Statistics
Matches: 92, Mismatches: 21, Indels: 12
0.74 0.17 0.10
Matches are distributed among these distances:
9 75 0.82
12 17 0.18
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.32
Consensus pattern (9 bp):
ACTTACATA
Found at i:13741464 original size:39 final size:36
Alignment explanation
Indices: 13741388--13741483 Score: 129
Period size: 39 Copynumber: 2.6 Consensus size: 36
13741378 ATTGATCATT
* * *
13741388 ACTTAAATAAATTACATAACTTACATAACCCATATA
1 ACTTACATAATTTACATAACTTACATAACCCACATA
*
13741424 ACTTACATAATTTACATAACAATTTACATAACTCACATA
1 ACTTACATAATTTACATAAC---TTACATAACCCACATA
13741463 ACTTACATAATTTACATAACT
1 ACTTACATAATTTACATAACT
13741484 CATATAACGT
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
36 19 0.36
39 34 0.64
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (36 bp):
ACTTACATAATTTACATAACTTACATAACCCACATA
Found at i:13747115 original size:21 final size:21
Alignment explanation
Indices: 13747073--13747117 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
13747063 ACTTAGAGCA
*
13747073 GAGGCAGCAGCGCGAGACGCG
1 GAGGCAGCAGCGAGAGACGCG
* *
13747094 GAGGCAGCAGCGAGGGAGGCG
1 GAGGCAGCAGCGAGAGACGCG
13747115 GAG
1 GAG
13747118 CAGAATAGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.22, G:0.53, T:0.00
Consensus pattern (21 bp):
GAGGCAGCAGCGAGAGACGCG
Found at i:13747481 original size:42 final size:42
Alignment explanation
Indices: 13747411--13747527 Score: 159
Period size: 42 Copynumber: 2.8 Consensus size: 42
13747401 ACTGAGCAAA
13747411 TTAGCGGCGTTTTT-TATAAAAGCT-CCGCTAAAGGTCCCTG-TCT
1 TTAGCGGC-TTTTTATA-AAAAG-TGCCGCTAAAGGT-CCTGATCT
13747454 TTAGCGGCTTTTTATAAAAAGTGCCGCTAAAGGTCCTGATCT
1 TTAGCGGCTTTTTATAAAAAGTGCCGCTAAAGGTCCTGATCT
* *
13747496 TTAGCGGCGTTTTATAAAAAGCGCCGCTAAAG
1 TTAGCGGCTTTTTATAAAAAGTGCCGCTAAAG
13747528 ACCAGGACTT
Statistics
Matches: 69, Mismatches: 2, Indels: 7
0.88 0.03 0.09
Matches are distributed among these distances:
41 5 0.07
42 54 0.78
43 10 0.14
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.32
Consensus pattern (42 bp):
TTAGCGGCTTTTTATAAAAAGTGCCGCTAAAGGTCCTGATCT
Found at i:13747541 original size:42 final size:42
Alignment explanation
Indices: 13747411--13747550 Score: 151
Period size: 42 Copynumber: 3.3 Consensus size: 42
13747401 ACTGAGCAAA
* * *
13747411 TTAGCGGCGTTTTTTATAAAAGCTCCGCTAAAGGTCCCTGTC-T
1 TTAGCGGCGTTTTATA-AAAAGCGCCGCTAAAGGT-CCTGACTT
* *
13747454 TTAGCGGCTTTTTATAAAAAGTGCCGCTAAAGGTCCTGA-TCT
1 TTAGCGGCGTTTTATAAAAAGCGCCGCTAAAGGTCCTGACT-T
* *
13747496 TTAGCGGCGTTTTATAAAAAGCGCCGCTAAA-GACCAGGACTT
1 TTAGCGGCGTTTTATAAAAAGCGCCGCTAAAGGTCC-TGACTT
*
13747538 TTAGCGACGTTTT
1 TTAGCGGCGTTTT
13747551 TTTCAAAAAA
Statistics
Matches: 83, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
41 7 0.08
42 61 0.73
43 15 0.18
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (42 bp):
TTAGCGGCGTTTTATAAAAAGCGCCGCTAAAGGTCCTGACTT
Found at i:13749042 original size:42 final size:42
Alignment explanation
Indices: 13748964--13749044 Score: 103
Period size: 42 Copynumber: 1.9 Consensus size: 42
13748954 GTGCAGGTTT
* *
13748964 CACACGGCCAAGACACACGCCCGTGTTCTAGGTCGTGTGGCA
1 CACACGGCCAAGACACACGCCCATGTTCTAGCTCGTGTGGCA
*
13749006 CACACGG-CAGAGACACACGCCCATG-TCTTTGCTCGTGTG
1 CACACGGCCA-AGACACACGCCCATGTTC-TAGCTCGTGTG
13749045 CTCAATTCTG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
41 4 0.12
42 30 0.88
ACGTcount: A:0.21, C:0.33, G:0.27, T:0.19
Consensus pattern (42 bp):
CACACGGCCAAGACACACGCCCATGTTCTAGCTCGTGTGGCA
Found at i:13752444 original size:21 final size:19
Alignment explanation
Indices: 13752420--13752466 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 19
13752410 ACAGAGAGTT
*
13752420 ACACGGACGTGTGGAGTAGTC
1 ACACGG-CGTGTGGA-TAGCC
13752441 ACACAGGCGTGTGGATAGCC
1 ACAC-GGCGTGTGGATAGCC
13752461 ACACGG
1 ACACGG
13752467 TTATGTCTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 2 0.08
20 8 0.33
21 12 0.50
22 2 0.08
ACGTcount: A:0.26, C:0.23, G:0.36, T:0.15
Consensus pattern (19 bp):
ACACGGCGTGTGGATAGCC
Found at i:13752914 original size:21 final size:20
Alignment explanation
Indices: 13752879--13752917 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
13752869 TAAAATATTA
13752879 AAATTTCTAATATTTTTAGC
1 AAATTTCTAATATTTTTAGC
*
13752899 AAATTTTTATATATTTTTA
1 AAATTTCTA-ATATTTTTA
13752918 ATTTTATGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (20 bp):
AAATTTCTAATATTTTTAGC
Found at i:13753287 original size:26 final size:26
Alignment explanation
Indices: 13753258--13753310 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
13753248 CTGGACTTGG
13753258 ACTTTAGAGGTCAAATAAACAGGTGT
1 ACTTTAGAGGTCAAATAAACAGGTGT
*
13753284 ACTTTAGAGGTCAGATAAACAGGTGT
1 ACTTTAGAGGTCAAATAAACAGGTGT
13753310 A
1 A
13753311 AGGCTTTGGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.11, G:0.25, T:0.26
Consensus pattern (26 bp):
ACTTTAGAGGTCAAATAAACAGGTGT
Found at i:13768964 original size:5 final size:5
Alignment explanation
Indices: 13768954--13768978 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
13768944 GAAATCACAC
13768954 CTTGG CTTGG CTTGG CTTGG CTTGG
1 CTTGG CTTGG CTTGG CTTGG CTTGG
13768979 GCCAACCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.40, T:0.40
Consensus pattern (5 bp):
CTTGG
Found at i:13771233 original size:4 final size:4
Alignment explanation
Indices: 13771220--13771248 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
13771210 TGGTTTTTCG
13771220 AATT -ATT AATT AATT AATT AATT AATT AA
1 AATT AATT AATT AATT AATT AATT AATT AA
13771249 CTGAAGTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:13772666 original size:29 final size:29
Alignment explanation
Indices: 13772633--13772691 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
13772623 TGCAACAAAG
*
13772633 TCCATCAGCATTCAGCCTAAAACAGCCAA
1 TCCATCAGCATTCAGCCTAAAACAACCAA
* *
13772662 TCCATTAGCATTTAGCCTAAAACAACCAA
1 TCCATCAGCATTCAGCCTAAAACAACCAA
13772691 T
1 T
13772692 TTTGGTTGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.39, C:0.31, G:0.08, T:0.22
Consensus pattern (29 bp):
TCCATCAGCATTCAGCCTAAAACAACCAA
Found at i:13780986 original size:40 final size:40
Alignment explanation
Indices: 13780923--13781020 Score: 135
Period size: 40 Copynumber: 2.5 Consensus size: 40
13780913 CTATAACGAT
*
13780923 ATCGCACACTTAGTGCCACATATAGCCGAAGCTAT-TCCAA
1 ATCGCACACTAAGTGCCACATATAGCCGAAGCTATCT-CAA
* * *
13780963 TTCGCACACTAAGTGCTATATATAGCCGAAGCTATCTCAA
1 ATCGCACACTAAGTGCCACATATAGCCGAAGCTATCTCAA
*
13781003 ACCGCACACTAAGTGCCA
1 ATCGCACACTAAGTGCCA
13781021 AACATAGTCG
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
40 49 0.98
41 1 0.02
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.22
Consensus pattern (40 bp):
ATCGCACACTAAGTGCCACATATAGCCGAAGCTATCTCAA
Found at i:13782258 original size:36 final size:36
Alignment explanation
Indices: 13782190--13782258 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 36
13782180 TAGTAGATTA
* *
13782190 GTAGATTTCGCTCGATTAAGATTTGTTTAGTATTCC
1 GTAGATTTCGCACGATTAAGATTTGTTCAGTATTCC
* *
13782226 GTAGATTTCGCACGGTTGAGATTCT-TTCAGTAT
1 GTAGATTTCGCACGATTAAGATT-TGTTCAGTAT
13782259 ATTAGTGGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
36 27 0.96
37 1 0.04
ACGTcount: A:0.22, C:0.14, G:0.22, T:0.42
Consensus pattern (36 bp):
GTAGATTTCGCACGATTAAGATTTGTTCAGTATTCC
Found at i:13783364 original size:3 final size:3
Alignment explanation
Indices: 13783358--13783390 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
13783348 ATAATAAAAA
13783358 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
13783391 CAATTTTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:13791595 original size:15 final size:15
Alignment explanation
Indices: 13791571--13791601 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
13791561 AGGGTTGAAA
*
13791571 AGATAGAGAATTCAT
1 AGATAAAGAATTCAT
13791586 AGATAAAGAATTCAT
1 AGATAAAGAATTCAT
13791601 A
1 A
13791602 CCATGAAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.06, G:0.16, T:0.26
Consensus pattern (15 bp):
AGATAAAGAATTCAT
Found at i:13794172 original size:143 final size:147
Alignment explanation
Indices: 13793978--13794296 Score: 445
Period size: 143 Copynumber: 2.2 Consensus size: 147
13793968 AAATTTTGAT
* * * * *
13793978 TTTTTTTTAAAAAAGTGAAAGTTTAGTTTTTTAAAATAAAAATATGTTTTTTAGTCATATTAAAG
1 TTTTTTTT--AAAAGAGAAACTTTAGATTTTTAAAATAAAAATATGGTTTTTAGTCATATTAAAA
* **
13794043 GAAAAGTTT-AAATTTTTAAAATAAAGTTTTGA-TCTTTTTCAACTATTTTGAAATAAAACTTTG
64 GAAAAGTTTAAAATTTTTAAAACAAAGTTTTGATTCTTTTTCAACTATTTCAAAATAAAACTTTG
13794106 ATTTTTAA-AAAA-AGTGA
129 ATTTTTAAGAAAAGAGTGA
* *
13794123 TTTTTTTTAAAAGAGAAATTTTAGATTTTTAAAATAAAAATATGGTTTTTAGTCATTTTAAAAGA
1 TTTTTTTTAAAAGAGAAACTTTAGATTTTTAAAATAAAAATATGGTTTTTAGTCATATTAAAAGA
* **
13794188 AAAGTTTAAAATTTTTAAAACAAAGTTTTGATTTTTTTTCAACTATTTCAAAATAATGCTTTGAT
66 AAAGTTTAAAATTTTTAAAACAAAGTTTTGATTCTTTTTCAACTATTTCAAAATAAAACTTTGAT
13794253 TTTTAAGAAAAGTAGTGA
131 TTTTAAGAAAAG-AGTGA
13794271 -TTTTTTTAAAAGA-AAACTTT-GATTTT
1 TTTTTTTTAAAAGAGAAACTTTAGATTTT
13794297 GCAAAAAAAT
Statistics
Matches: 156, Mismatches: 13, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
143 58 0.37
144 22 0.14
145 48 0.31
146 10 0.06
147 13 0.08
148 5 0.03
ACGTcount: A:0.40, C:0.04, G:0.10, T:0.45
Consensus pattern (147 bp):
TTTTTTTTAAAAGAGAAACTTTAGATTTTTAAAATAAAAATATGGTTTTTAGTCATATTAAAAGA
AAAGTTTAAAATTTTTAAAACAAAGTTTTGATTCTTTTTCAACTATTTCAAAATAAAACTTTGAT
TTTTAAGAAAAGAGTGA
Found at i:13796925 original size:42 final size:42
Alignment explanation
Indices: 13796865--13796959 Score: 147
Period size: 42 Copynumber: 2.3 Consensus size: 42
13796855 AAGGAAAGCA
* *
13796865 TTCATTGCATTTAGAGGCCCAAC-TGTGCATGTCCATTTACTT
1 TTCATTGCATTTAAAGGCCC-ACGTGTGCAGGTCCATTTACTT
*
13796907 TTCATTGCATTTAAAGGCCCACGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAAAGGCCCACGTGTGCAGGTCCATTTACTT
13796949 TTCATTGCATT
1 TTCATTGCATT
13796960 GTATATGAAG
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
41 2 0.04
42 47 0.96
ACGTcount: A:0.21, C:0.22, G:0.18, T:0.39
Consensus pattern (42 bp):
TTCATTGCATTTAAAGGCCCACGTGTGCAGGTCCATTTACTT
Found at i:13797415 original size:3 final size:3
Alignment explanation
Indices: 13797407--13797471 Score: 94
Period size: 3 Copynumber: 21.7 Consensus size: 3
13797397 CAAGGGCCCA
* * * *
13797407 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAC TAC TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
13797455 TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TA
13797472 AATATCATTA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:13797978 original size:21 final size:21
Alignment explanation
Indices: 13797937--13797986 Score: 66
Period size: 22 Copynumber: 2.4 Consensus size: 21
13797927 AATAGTGATT
*
13797937 TTTTTTAAAAGAGAAAGTTTA
1 TTTTTTAAAAGAGAAAATTTA
*
13797958 TATTTTTAAAATA-AAAATTTA
1 T-TTTTTAAAAGAGAAAATTTA
13797979 TTTTTTAA
1 TTTTTTAA
13797987 GTCATTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 7 0.27
21 9 0.35
22 10 0.38
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (21 bp):
TTTTTTAAAAGAGAAAATTTA
Found at i:13798072 original size:148 final size:145
Alignment explanation
Indices: 13797787--13798097 Score: 446
Period size: 148 Copynumber: 2.1 Consensus size: 145
13797777 GGAAAAGTTT
* *
13797787 TGATTTTTTTAAAAAAAGAGAGTTTGTATTTTTAAAATAAAAATATGATTGTTAGTCATATTAAA
1 TGATTTTTTTAAAAAAAGAAAGTTTATATTTTTAAAATAAAAATATGATTGTTAGTCATATTAAA
* * *
13797852 GGAAAAGCTTAAATTTTTAAAAGAAAGTTTTGATTTTTTTAACTATTTCAAAAAAAAGCTTTGAT
66 GGAAAAGCTTAAATTTTTAAAACAAAGTTTTGATTTTTTCAACTATTGCAAAAAAAAGCTTTGAT
13797917 TTTTAAGAAAAATAG
131 TTTTAAGAAAAATAG
* * * * *
13797932 TGATTTTTTTTAAAAGAGAAAGTTTATATTTTTAAAATAAAAAT-TTATTTTTTAAGTCATTTTA
1 TGATTTTTTTAAAAAAAGAAAGTTTATATTTTTAAAATAAAAATATGA-TTGTT-AGTCATATTA
*
13797996 AAGGAAAAGTTTAAAATTTTTAAAACAAAGTTTTGATATTTTTCAACTATTGCAAAATAAAA-CT
64 AAGGAAAAGCTT-AAATTTTTAAAACAAAGTTTTGAT-TTTTTCAACTATTGCAAAA-AAAAGCT
*
13798060 TTGATTTTTAAGAAAAGTAG
126 TTGATTTTTAAGAAAAATAG
13798080 TGATTTTTTTAAAGAAAA
1 TGATTTTTTTAAA-AAAA
13798098 CTTTGATTTT
Statistics
Matches: 146, Mismatches: 14, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
144 2 0.01
145 44 0.30
146 20 0.14
147 23 0.16
148 50 0.34
149 7 0.05
ACGTcount: A:0.43, C:0.04, G:0.11, T:0.42
Consensus pattern (145 bp):
TGATTTTTTTAAAAAAAGAAAGTTTATATTTTTAAAATAAAAATATGATTGTTAGTCATATTAAA
GGAAAAGCTTAAATTTTTAAAACAAAGTTTTGATTTTTTCAACTATTGCAAAAAAAAGCTTTGAT
TTTTAAGAAAAATAG
Found at i:13798104 original size:21 final size:21
Alignment explanation
Indices: 13798054--13798118 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
13798044 ATTGCAAAAT
13798054 AAAACTTTGA--TTTTT-AAG
1 AAAACTTTGATTTTTTTAAAG
* *
13798072 AAAAGTAGTGATTTTTTTAAAG
1 AAAACT-TTGATTTTTTTAAAG
* *
13798094 AAAACTTTGATTTTGTTAAAA
1 AAAACTTTGATTTTTTTAAAG
13798115 AAAA
1 AAAA
13798119 AAGGGGCCAT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
18 5 0.14
19 3 0.08
21 21 0.57
22 8 0.22
ACGTcount: A:0.45, C:0.03, G:0.12, T:0.40
Consensus pattern (21 bp):
AAAACTTTGATTTTTTTAAAG
Found at i:13798795 original size:43 final size:43
Alignment explanation
Indices: 13798729--13798810 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 43
13798719 AAGTAATATG
* * * *
13798729 TAGGATTGCTTTTAGGATTTTAAACTAAT-TTTAAATATCATA
1 TAGGATTCCTTTTAGAATCTTAAACTAATGTGTAAATATCATA
*
13798771 TAGGATTCCTCTTTAGAATCTTAAATTAATGTGTAAATAT
1 TAGGATTCCT-TTTAGAATCTTAAACTAATGTGTAAATAT
13798811 TCTTTAGAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
42 9 0.27
43 16 0.48
44 8 0.24
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.44
Consensus pattern (43 bp):
TAGGATTCCTTTTAGAATCTTAAACTAATGTGTAAATATCATA
Found at i:13803420 original size:38 final size:39
Alignment explanation
Indices: 13803377--13803460 Score: 93
Period size: 38 Copynumber: 2.2 Consensus size: 39
13803367 TTTGGAAAAA
* *
13803377 TTAATTTTAAAG-T-AATTAAAATAATAATTAATTTGGGT
1 TTAATTTT-AAGTTAAATTAAAATAATAATTAAATTGGAT
* * *
13803415 TTAA-TTTGAGTTAAATTTAAATACTAATTAAATTGGAT
1 TTAATTTTAAGTTAAATTAAAATAATAATTAAATTGGAT
13803453 TTAATTTT
1 TTAATTTT
13803461 TTTTAAAAAG
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
36 2 0.05
37 4 0.11
38 29 0.76
39 3 0.08
ACGTcount: A:0.42, C:0.01, G:0.10, T:0.48
Consensus pattern (39 bp):
TTAATTTTAAGTTAAATTAAAATAATAATTAAATTGGAT
Found at i:13810690 original size:16 final size:15
Alignment explanation
Indices: 13810666--13810704 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
13810656 TTGGAAATTG
13810666 AAATAATAAAAGAAAT
1 AAATAATAAAA-AAAT
*
13810682 AAATGATAAAAAAAT
1 AAATAATAAAAAAAT
*
13810697 AAAAAATA
1 AAATAATA
13810705 TCATCATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (15 bp):
AAATAATAAAAAAAT
Found at i:13811143 original size:23 final size:24
Alignment explanation
Indices: 13811099--13811145 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
13811089 TGAAATACAT
13811099 GAAAATGATAATACATGATATATG
1 GAAAATGATAATACATGATATATG
*
13811123 GAAATATGAT-ATA-ATGCTATATG
1 GAAA-ATGATAATACATGATATATG
13811146 AACAAGGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 9 0.43
24 7 0.33
25 5 0.24
ACGTcount: A:0.47, C:0.04, G:0.17, T:0.32
Consensus pattern (24 bp):
GAAAATGATAATACATGATATATG
Found at i:13820307 original size:13 final size:13
Alignment explanation
Indices: 13820291--13820316 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13820281 TAATTAAAGG
13820291 GTTAAAATTTAAA
1 GTTAAAATTTAAA
13820304 GTTAAAATTTAAA
1 GTTAAAATTTAAA
13820317 TATGATAATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (13 bp):
GTTAAAATTTAAA
Found at i:13820773 original size:24 final size:24
Alignment explanation
Indices: 13820746--13820797 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
13820736 TTAGTAAGTC
*
13820746 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
13820770 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
13820794 AAAT
1 AAAT
13820798 CTTCTAGAAA
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:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:13822742 original size:24 final size:24
Alignment explanation
Indices: 13822715--13822766 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
13822705 TTAGTAAGTC
*
13822715 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
13822739 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
13822763 AAAT
1 AAAT
13822767 CTTCTAGAAA
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:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:13822896 original size:22 final size:21
Alignment explanation
Indices: 13822845--13822896 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
13822835 ATTCTAACAC
*
13822845 ATATCATAACTTACATAACTA
1 ATATCATAACTTACATAAATA
13822866 ACT-TGCATAACTTACATAAATA
1 A-TAT-CATAACTTACATAAATA
13822888 TATATCATA
1 -ATATCATA
13822897 TCATAACTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 22 0.85
23 2 0.08
ACGTcount: A:0.46, C:0.17, G:0.02, T:0.35
Consensus pattern (21 bp):
ATATCATAACTTACATAAATA
Found at i:13824702 original size:46 final size:46
Alignment explanation
Indices: 13824635--13825078 Score: 390
Period size: 46 Copynumber: 9.9 Consensus size: 46
13824625 TTATCTTCGA
* * * * * **
13824635 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCAT
* * * *
13824681 CAGGTTGTCATTGTATCTTTCAACCATGGTCTTATTCA-TTCCCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCAT
* * * *
13824726 CATGTTGCCATGGTATCTTTCAACCATGGTTTTATTTA-TTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCAT
* ***
13824771 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCAT
* * * **
13824817 CCTATTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCAT
* **
13824863 CATGTTGCCATGGTGTCTTTCAACCA----C--A-T--TTT-ATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCAT
* * * ***
13824899 CATGTTGCCATGATGTCTTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCAT
* * * * **
13824945 CATTTTGCCATCGTATCTTTTAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCAT
* * **
13824991 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCAT
* * *
13825037 CATATTGCCGTGGTATCTTTCAACCATGGTCTTACACATTTC
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTC
13825079 ATTTCAGAAA
Statistics
Matches: 341, Mismatches: 46, Indels: 22
0.83 0.11 0.05
Matches are distributed among these distances:
36 29 0.09
37 3 0.01
40 2 0.01
42 2 0.01
45 80 0.23
46 225 0.66
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCAT
Found at i:13824888 original size:92 final size:92
Alignment explanation
Indices: 13824635--13825080 Score: 495
Period size: 92 Copynumber: 5.0 Consensus size: 92
13824625 TTATCTTCGA
* * * * * * * *
13824635 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCAGGTTGTCATTGTATCT
1 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACA-TTTCATATCATGTTGCCATGGTATCT
** **
13824699 TTCAACCATGGTCTTATTCA-TTCCCAT
65 TTCAACCATGGTCTTACACATTTCATAT
* * *** ***
13824726 CATGTTGCCATGGTATCTTTCAACCATGGTTTTATTTA-TTCCCGTCATGTTGCCATGGTATCTT
1 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTT
*
13824790 TCAACCATGGTCTTACACATTTTATAT
66 TCAACCATGGTCTTACACATTTCATAT
* * * *
13824817 CCTATTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTGTCTT
1 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTT
*
13824882 TC-A--A----C---CACATTTTATAT
66 TCAACCATGGTCTTACACATTTCATAT
* * * *
13824899 CATGTTGCCATGATGTCTTTCAACCATGGTCTTACACATTTTATATCATTTTGCCATCGTATCTT
1 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTT
*
13824964 TTAACCATGGTCTTACACATTTCATAT
66 TCAACCATGGTCTTACACATTTCATAT
* *
13824991 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATATCATATTGCCGTGGTATCTT
1 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTT
13825056 TCAACCATGGTCTTACACATTTCAT
66 TCAACCATGGTCTTACACATTTCAT
13825081 TTCAGAAAGC
Statistics
Matches: 300, Mismatches: 42, Indels: 25
0.82 0.11 0.07
Matches are distributed among these distances:
82 70 0.23
83 1 0.00
85 2 0.01
89 5 0.02
90 35 0.12
91 68 0.23
92 119 0.40
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.41
Consensus pattern (92 bp):
CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTT
TCAACCATGGTCTTACACATTTCATAT
Found at i:13824891 original size:36 final size:36
Alignment explanation
Indices: 13824851--13824924 Score: 130
Period size: 36 Copynumber: 2.1 Consensus size: 36
13824841 CATGGTCTTA
*
13824851 CACATTTCATATCATGTTGCCATGGTGTCTTTCAAC
1 CACATTTCATATCATGTTGCCATGATGTCTTTCAAC
*
13824887 CACATTTTATATCATGTTGCCATGATGTCTTTCAAC
1 CACATTTCATATCATGTTGCCATGATGTCTTTCAAC
13824923 CA
1 CA
13824925 TGGTCTTACA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.39
Consensus pattern (36 bp):
CACATTTCATATCATGTTGCCATGATGTCTTTCAAC
Found at i:13824941 original size:128 final size:128
Alignment explanation
Indices: 13824770--13825016 Score: 440
Period size: 128 Copynumber: 1.9 Consensus size: 128
13824760 TTTATTCCCG
* * *
13824770 TCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCCTATTGCCATGGTATCT
1 TCATGTTGCCATGATATCTTTCAACCATGGTCTTACACATTTTATATCATATTGCCATCGTATCT
13824835 TTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTGTCTTTCAACCACATTTTATA
66 TTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTGTCTTTCAACCACATTTTATA
* *
13824898 TCATGTTGCCATGATGTCTTTCAACCATGGTCTTACACATTTTATATCATTTTGCCATCGTATCT
1 TCATGTTGCCATGATATCTTTCAACCATGGTCTTACACATTTTATATCATATTGCCATCGTATCT
*
13824963 TTTAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTGTCTTTCAACCA
66 TTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTGTCTTTCAACCA
13825017 TGGTCTTACA
Statistics
Matches: 113, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
128 113 1.00
ACGTcount: A:0.23, C:0.23, G:0.13, T:0.41
Consensus pattern (128 bp):
TCATGTTGCCATGATATCTTTCAACCATGGTCTTACACATTTTATATCATATTGCCATCGTATCT
TTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTGTCTTTCAACCACATTTTATA
Found at i:13830758 original size:21 final size:21
Alignment explanation
Indices: 13830734--13830799 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
13830724 CATGATGGGT
*
13830734 TTCCATTCAACTCTTATGAGC
1 TTCCATTCAACACTTATGAGC
* * * *
13830755 TTCCGTTCAACCCTTGTGGGC
1 TTCCATTCAACACTTATGAGC
* * *
13830776 TTCTATTTAACACTTATGTGC
1 TTCCATTCAACACTTATGAGC
13830797 TTC
1 TTC
13830800 TGTTCAGCCT
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.18, C:0.27, G:0.14, T:0.41
Consensus pattern (21 bp):
TTCCATTCAACACTTATGAGC
Found at i:13841757 original size:3 final size:3
Alignment explanation
Indices: 13841749--13841779 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
13841739 CTTTTTCTTC
13841749 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
13841780 AGAGTTCTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:13845308 original size:16 final size:15
Alignment explanation
Indices: 13845287--13845317 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
13845277 AAAAATGTGT
13845287 ATTAATTTATAATTTA
1 ATTAATTT-TAATTTA
13845303 ATTAATTTTAATTTA
1 ATTAATTTTAATTTA
13845318 TTCCCTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
ATTAATTTTAATTTA
Found at i:13847712 original size:40 final size:40
Alignment explanation
Indices: 13847657--13847913 Score: 369
Period size: 40 Copynumber: 6.5 Consensus size: 40
13847647 GGATGATAAT
* * *
13847657 CGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-TC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TATC
13847697 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
13847737 CGGGCTAAGTCCCGAAGGCATTTGT-CTGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATC
* *
13847777 TGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
13847817 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
* * *
13847857 CGGGCTATGTCCCGAAGGTATTTGAGCGAG-TAGCTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATC
* *
13847897 C-GGTTAAATCCCGAAGG
1 CGGGCTAAGTCCCGAAGG
13847914 TACTTGGCTT
Statistics
Matches: 200, Mismatches: 13, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
39 17 0.09
40 182 0.91
41 1 0.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
Found at i:13852722 original size:43 final size:43
Alignment explanation
Indices: 13852655--13852753 Score: 135
Period size: 43 Copynumber: 2.3 Consensus size: 43
13852645 ACAATAAGTT
* ** * *
13852655 ATGTTCTATAGCGGCGTTTGTGGGAAAAGTACCGCTAAAGGTC
1 ATGTTCTATAGCGACGTTCATGGGAAAAGCACCACTAAAGGTC
*
13852698 ATGTTCTATAGCGACGTTCATGGGAAAAGCATCACTAAAGGTC
1 ATGTTCTATAGCGACGTTCATGGGAAAAGCACCACTAAAGGTC
*
13852741 ATGTTCAATAGCG
1 ATGTTCTATAGCG
13852754 GTGTTTTTTC
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.27
Consensus pattern (43 bp):
ATGTTCTATAGCGACGTTCATGGGAAAAGCACCACTAAAGGTC
Found at i:13852804 original size:30 final size:30
Alignment explanation
Indices: 13852768--13852824 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
13852758 TTTTTCACAT
13852768 AAACGCCGTAAAATTTAACGGCAGTTACCA
1 AAACGCCGTAAAATTTAACGGCAGTTACCA
13852798 AAACGCCGTAAAATTTAACGGCAGTTA
1 AAACGCCGTAAAATTTAACGGCAGTTA
13852825 TTTTAGCGGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.40, C:0.21, G:0.18, T:0.21
Consensus pattern (30 bp):
AAACGCCGTAAAATTTAACGGCAGTTACCA
Found at i:13856031 original size:25 final size:25
Alignment explanation
Indices: 13855985--13856035 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
13855975 CCCTTATAAT
** * *
13855985 GTAAAAATGACTGTTTTGCCCCTAG
1 GTAAAAATGACCATTATACCCCTAG
13856010 GTAAAAATGACCATTATACCCCTAG
1 GTAAAAATGACCATTATACCCCTAG
13856035 G
1 G
13856036 GTTTAATTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (25 bp):
GTAAAAATGACCATTATACCCCTAG
Found at i:13856096 original size:20 final size:20
Alignment explanation
Indices: 13856062--13856137 Score: 95
Period size: 20 Copynumber: 3.9 Consensus size: 20
13856052 GATACGTAGG
13856062 GTATGATAT--ACATGAT-T
1 GTATGATATGCACATGATAT
*
13856079 GATGTGATATGCACATGATAT
1 G-TATGATATGCACATGATAT
*
13856100 GTATGATATACACATGATAT
1 GTATGATATGCACATGATAT
*
13856120 GTATGAAATGCACATGAT
1 GTATGATATGCACATGAT
13856138 GAATTCATAA
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
17 1 0.02
18 7 0.14
20 40 0.80
21 2 0.04
ACGTcount: A:0.37, C:0.09, G:0.20, T:0.34
Consensus pattern (20 bp):
GTATGATATGCACATGATAT
Found at i:13856217 original size:26 final size:25
Alignment explanation
Indices: 13856187--13856283 Score: 140
Period size: 26 Copynumber: 3.8 Consensus size: 25
13856177 GAGGAAGTGC
*
13856187 AAAAGGGCTTATGCCCCAGTTTACCA
1 AAAAGGGCTT-TGCCCCAGTTTACCG
**
13856213 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTT-TGCCCCAGTTTACCG
*
13856239 AAAAGGGCTTTGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
13856264 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
13856284 ATTAAAGAGG
Statistics
Matches: 64, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
25 31 0.48
26 33 0.52
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:13856268 original size:51 final size:51
Alignment explanation
Indices: 13856187--13856283 Score: 160
Period size: 51 Copynumber: 1.9 Consensus size: 51
13856177 GAGGAAGTGC
13856187 AAAAGGGCTTATGCCCCAGTTTACCAAAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCAAAAAGGGCTT-TGCCCCAGTTTATTG
* *
13856239 AAAAGGGCTT-TGCCCTAGTTTACCGAAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGTT
13856284 ATTAAAGAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
50 10 0.23
51 23 0.53
52 10 0.23
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.27
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGTTTATTG
Found at i:13856487 original size:42 final size:42
Alignment explanation
Indices: 13856428--13856517 Score: 153
Period size: 42 Copynumber: 2.1 Consensus size: 42
13856418 TAGTCTCCCT
* *
13856428 AAATGGGCTTGCATACATTTATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
*
13856470 AAATGGGCTTGCATACATTCATTGATATTTCATGTGTTATTG
1 AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
13856512 AAATGG
1 AAATGG
13856518 CCCTATGGGC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.41
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
Found at i:13856578 original size:31 final size:31
Alignment explanation
Indices: 13856543--13856648 Score: 203
Period size: 31 Copynumber: 3.4 Consensus size: 31
13856533 CGTTTACAAT
*
13856543 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATTTGATTTATGA
13856574 AAAGGCTTCGGCCCAGTGATTTGATTTATGA
1 AAAGGCTTCGGCCCAGTGATTTGATTTATGA
13856605 AAAGGCTTCGGCCCAGTGATTTGATTTATGA
1 AAAGGCTTCGGCCCAGTGATTTGATTTATGA
13856636 AAAGGCTTCGGCC
1 AAAGGCTTCGGCC
13856649 TAGTAACCGT
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
31 74 1.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATTTGATTTATGA
Found at i:13858370 original size:40 final size:40
Alignment explanation
Indices: 13858312--13858395 Score: 132
Period size: 40 Copynumber: 2.1 Consensus size: 40
13858302 CGGCCAAGTC
* *
13858312 ACACGCCCTTGTGCTAGGCCGTGTTACCCACACGACTGAG
1 ACACGCCCGTATGCTAGGCCGTGTTACCCACACGACTGAG
* *
13858352 ACACGCCCGTATGGTAGGCCGTGTTACCCACACGGCTGAG
1 ACACGCCCGTATGCTAGGCCGTGTTACCCACACGACTGAG
13858392 ACAC
1 ACAC
13858396 ACGCACGTGT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.21, C:0.35, G:0.26, T:0.18
Consensus pattern (40 bp):
ACACGCCCGTATGCTAGGCCGTGTTACCCACACGACTGAG
Found at i:13866708 original size:18 final size:17
Alignment explanation
Indices: 13866655--13866710 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
13866645 AAAAATTTAT
13866655 TTAATATATT-AATAAAA
1 TTAA-ATATTGAATAAAA
*
13866672 TTAAATATTGAATATAA
1 TTAAATATTGAATAAAA
*
13866689 TTACATTATTTG-ATAAAA
1 TTA-AATA-TTGAATAAAA
13866707 TTAA
1 TTAA
13866711 TTTTTTTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
16 5 0.15
17 14 0.42
18 11 0.33
19 3 0.09
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.43
Consensus pattern (17 bp):
TTAAATATTGAATAAAA
Found at i:13872159 original size:22 final size:22
Alignment explanation
Indices: 13872133--13872213 Score: 108
Period size: 22 Copynumber: 3.7 Consensus size: 22
13872123 ACACCACACC
* *
13872133 AGTAGGCACCGAAGTGTTGAGT
1 AGTAGGCACCGAAGTGTTAAAT
* *
13872155 AGTAGGCACCAAAGTGTTAAAC
1 AGTAGGCACCGAAGTGTTAAAT
* *
13872177 AATAGGCACTGAAGTGTTAAAT
1 AGTAGGCACCGAAGTGTTAAAT
13872199 AGTAGGCACCGAAGT
1 AGTAGGCACCGAAGT
13872214 TCTTAACAAT
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.36, C:0.15, G:0.28, T:0.21
Consensus pattern (22 bp):
AGTAGGCACCGAAGTGTTAAAT
Found at i:13873129 original size:16 final size:17
Alignment explanation
Indices: 13873099--13873131 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
13873089 CTTTCAGGTG
*
13873099 AAAATGATGGGTGATGA
1 AAAATGATGGATGATGA
13873116 AAAATGAT-GATGATGA
1 AAAATGATGGATGATGA
13873132 TGATGATGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.45, C:0.00, G:0.30, T:0.24
Consensus pattern (17 bp):
AAAATGATGGATGATGA
Found at i:13878028 original size:24 final size:25
Alignment explanation
Indices: 13877988--13878040 Score: 90
Period size: 24 Copynumber: 2.1 Consensus size: 25
13877978 AATTGGACAC
13877988 CTTACACATAGAATTCCTCCATGAAA
1 CTTACACA-AGAATTCCTCCATGAAA
13878014 CTTACAC-AGAATTCCTCCATGAAA
1 CTTACACAAGAATTCCTCCATGAAA
13878038 CTT
1 CTT
13878041 TATCGCATGC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 20 0.74
26 7 0.26
ACGTcount: A:0.36, C:0.28, G:0.08, T:0.28
Consensus pattern (25 bp):
CTTACACAAGAATTCCTCCATGAAA
Found at i:13879853 original size:30 final size:30
Alignment explanation
Indices: 13879802--13879858 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
13879792 TACAATCATT
* *
13879802 GGGGCAAAAGTGTAAATATGTAAAAGTTTA
1 GGGGCAAAAGTGCAAACATGTAAAAGTTTA
13879832 GGGGTCAAAA-TGCAAACATGTAAAAGT
1 GGGG-CAAAAGTGCAAACATGTAAAAGT
13879859 ATGACCCATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 19 0.79
31 5 0.21
ACGTcount: A:0.44, C:0.07, G:0.26, T:0.23
Consensus pattern (30 bp):
GGGGCAAAAGTGCAAACATGTAAAAGTTTA
Found at i:13889173 original size:42 final size:40
Alignment explanation
Indices: 13889097--13889258 Score: 128
Period size: 42 Copynumber: 3.9 Consensus size: 40
13889087 GCACATAAGT
* *
13889097 GCTAAACTGAAACCCATAAAGGTTGAA-CGAAAGCTCATAAGA
1 GCTAAA-TGAAACCCATAAGGGTTAAACCG-AAGCTCA-AAGA
* * ** *
13889139 GCTAAATGAAAACTCATGAGGGTTAAATTGAAGCTTGAAAGA
1 GCTAAATG-AAACCCATAAGGGTTAAACCGAAGC-TCAAAGA
* * *
13889181 GCTGAATTGAAACCCAAAAGGGTTATACCGAAGCTCAAAGA
1 GCT-AAATGAAACCCATAAGGGTTAAACCGAAGCTCAAAGA
* * * *
13889222 GCTAAACGGAAACCCATTAGGGTTAAACGGAAACTCA
1 GCTAAA-TGAAACCCATAAGGGTTAAACCGAAGCTCA
13889259 TATAAGTTAA
Statistics
Matches: 94, Mismatches: 21, Indels: 11
0.75 0.17 0.09
Matches are distributed among these distances:
40 2 0.02
41 35 0.37
42 50 0.53
43 7 0.07
ACGTcount: A:0.43, C:0.17, G:0.22, T:0.19
Consensus pattern (40 bp):
GCTAAATGAAACCCATAAGGGTTAAACCGAAGCTCAAAGA
Found at i:13889267 original size:21 final size:21
Alignment explanation
Indices: 13889219--13889268 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
13889209 CGAAGCTCAA
*
13889219 AGAGCTAAACGGAAACCCATT
1 AGAGTTAAACGGAAACCCATT
* *
13889240 AGGGTTAAACGGAAACTCATAT
1 AGAGTTAAACGGAAACCCAT-T
13889262 A-AGTTAA
1 AGAGTTAA
13889269 CTGAAGCTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 22 0.92
22 2 0.08
ACGTcount: A:0.44, C:0.16, G:0.20, T:0.20
Consensus pattern (21 bp):
AGAGTTAAACGGAAACCCATT
Found at i:13891816 original size:8 final size:8
Alignment explanation
Indices: 13891799--13891828 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
13891789 TCTTAAAGGT
*
13891799 TAATTTAG
1 TAATTAAG
13891807 TAATTAAG
1 TAATTAAG
13891815 TAATTAAG
1 TAATTAAG
13891823 TAATTA
1 TAATTA
13891829 TAAACATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.43
Consensus pattern (8 bp):
TAATTAAG
Found at i:13897539 original size:36 final size:36
Alignment explanation
Indices: 13897492--13897569 Score: 138
Period size: 36 Copynumber: 2.2 Consensus size: 36
13897482 GTTTAGGGAC
*
13897492 TCCATCGCGACCACCACCTTCGAGGAGTTCGGGAAA
1 TCCATCGCGACCACCACCTTCAAGGAGTTCGGGAAA
*
13897528 TCCATCGCGACCACCACCTTCAAGGAGTTCGGGAAC
1 TCCATCGCGACCACCACCTTCAAGGAGTTCGGGAAA
13897564 TCCATC
1 TCCATC
13897570 TCGTCCGTCG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.24, C:0.36, G:0.22, T:0.18
Consensus pattern (36 bp):
TCCATCGCGACCACCACCTTCAAGGAGTTCGGGAAA
Found at i:13905707 original size:14 final size:14
Alignment explanation
Indices: 13905690--13905729 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
13905680 TCTGAATTGG
* *
13905690 TACATCTGCATATA
1 TACATATGCATACA
*
13905704 TACATTTGCATACA
1 TACATATGCATACA
13905718 TACATATGCATA
1 TACATATGCATA
13905730 AACTATTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.38, C:0.20, G:0.07, T:0.35
Consensus pattern (14 bp):
TACATATGCATACA
Found at i:13909983 original size:3 final size:3
Alignment explanation
Indices: 13909968--13910016 Score: 52
Period size: 3 Copynumber: 17.7 Consensus size: 3
13909958 TGTTAAAATA
* *
13909968 TAT TAT TA- GAT TAT TAT TAT TAT TA- TAT TA- AAT TA- TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
13910012 TAT TA
1 TAT TA
13910017 AATAAAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
2 6 0.16
3 32 0.84
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:13910024 original size:24 final size:24
Alignment explanation
Indices: 13909979--13910024 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
13909969 ATTATTAGAT
* *
13909979 TATTATTATTATTATATTAAATTA
1 TATTATTATTATTAAATAAAATTA
13910003 TATTATTATTATTAAATAAAAT
1 TATTATTATTATTAAATAAAAT
13910025 AAATAGAGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
TATTATTATTATTAAATAAAATTA
Found at i:13910277 original size:18 final size:17
Alignment explanation
Indices: 13910254--13910291 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
13910244 ACAGAGAAGA
*
13910254 AAAGAAGGAAAGAAAGGG
1 AAAGAAAGAAA-AAAGGG
13910272 AAAGAAAGAAAAAAGGG
1 AAAGAAAGAAAAAAGGG
13910289 AAA
1 AAA
13910292 TTAGGGATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (17 bp):
AAAGAAAGAAAAAAGGG
Found at i:13915391 original size:20 final size:18
Alignment explanation
Indices: 13915366--13915404 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
13915356 TGAGTATTGA
13915366 TATTGAACTGAATGAAAATG
1 TATTGAACTG--TGAAAATG
*
13915386 TATTGAATTGTGAAAATG
1 TATTGAACTGTGAAAATG
13915404 T
1 T
13915405 GTGAATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
20 9 0.50
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.36
Consensus pattern (18 bp):
TATTGAACTGTGAAAATG
Found at i:13915900 original size:26 final size:24
Alignment explanation
Indices: 13915870--13915919 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
13915860 TAAATAAAAA
*
13915870 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
13915896 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
13915920 GAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:13916365 original size:12 final size:13
Alignment explanation
Indices: 13916348--13916385 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
13916338 AAAGATCTCG
13916348 ATTAAGAAATGAA
1 ATTAAGAAATGAA
13916361 A-TAAGAAATTGAA
1 ATTAAGAAA-TGAA
*
13916374 ATTGAGAAATGA
1 ATTAAGAAATGA
13916386 GAATGAATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
12 7 0.32
13 9 0.41
14 6 0.27
ACGTcount: A:0.58, C:0.00, G:0.18, T:0.24
Consensus pattern (13 bp):
ATTAAGAAATGAA
Found at i:13923183 original size:19 final size:19
Alignment explanation
Indices: 13923159--13923196 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
13923149 AAGCTCATAC
*
13923159 AAAATTTTTTAAAATTGTA
1 AAAATTTTTCAAAATTGTA
*
13923178 AAAATTTTTCAAAGTTGTA
1 AAAATTTTTCAAAATTGTA
13923197 CAGGTCACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.45
Consensus pattern (19 bp):
AAAATTTTTCAAAATTGTA
Found at i:13924541 original size:44 final size:43
Alignment explanation
Indices: 13924396--13924552 Score: 174
Period size: 43 Copynumber: 3.7 Consensus size: 43
13924386 AGCTCGTACA
* * *
13924396 ATGCCAACGTCCCAGACGTGGTCTTACATGT-AATCAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCAAA-ATCG
** * * *
13924439 ATGCCTCTGTCCCAGACAGGGTCTTACAC-AAAATCAAATTCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCAAAATCG
** *
13924481 ATGCCAATGTTTCAGACATGGTCTTACACGTAAATCATAAGTCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCA-AAATCG
*
13924525 ATGCCAATGTCCCAGACGTGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
13924553 TGATAACACA
Statistics
Matches: 93, Mismatches: 18, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
42 27 0.29
43 36 0.39
44 30 0.32
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCAAAATCG
Found at i:13928216 original size:51 final size:51
Alignment explanation
Indices: 13928161--13928260 Score: 148
Period size: 51 Copynumber: 2.0 Consensus size: 51
13928151 CTACCACATG
*
13928161 ACATGTAA-CACATCCATAATGAAATTAGACCTCTCAACGAGCTCAGATGTT
1 ACATG-AATCACATCCATAATGAAATCAGACCTCTCAACGAGCTCAGATGTT
* * *
13928212 ACATGAATCGCATCCATAATGAACTCAGACCTCTCAACGAGCTCTGATG
1 ACATGAATCACATCCATAATGAAATCAGACCTCTCAACGAGCTCAGATG
13928261 CTCGCATCCA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
50 2 0.05
51 42 0.95
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (51 bp):
ACATGAATCACATCCATAATGAAATCAGACCTCTCAACGAGCTCAGATGTT
Found at i:13934152 original size:68 final size:68
Alignment explanation
Indices: 13934043--13934175 Score: 266
Period size: 68 Copynumber: 2.0 Consensus size: 68
13934033 TGAGCATTCA
13934043 GGTTCGTTCGAATGAACTCCGTATACTATGCATTCATCATGTAGAGAAAGGCCTCTCTGCCTCCT
1 GGTTCGTTCGAATGAACTCCGTATACTATGCATTCATCATGTAGAGAAAGGCCTCTCTGCCTCCT
13934108 ACG
66 ACG
13934111 GGTTCGTTCGAATGAACTCCGTATACTATGCATTCATCATGTAGAGAAAGGCCTCTCTGCCTCCT
1 GGTTCGTTCGAATGAACTCCGTATACTATGCATTCATCATGTAGAGAAAGGCCTCTCTGCCTCCT
13934176 TCTCCTCTAC
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 65 1.00
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.30
Consensus pattern (68 bp):
GGTTCGTTCGAATGAACTCCGTATACTATGCATTCATCATGTAGAGAAAGGCCTCTCTGCCTCCT
ACG
Found at i:13942408 original size:8 final size:8
Alignment explanation
Indices: 13942395--13942419 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
13942385 AACTTAACTT
13942395 TATAAACA
1 TATAAACA
13942403 TATAAACA
1 TATAAACA
13942411 TATAAACA
1 TATAAACA
13942419 T
1 T
13942420 CATCAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (8 bp):
TATAAACA
Found at i:13942854 original size:44 final size:41
Alignment explanation
Indices: 13942704--13942898 Score: 193
Period size: 38 Copynumber: 4.7 Consensus size: 41
13942694 TCGTACAATA
* * *
13942704 CCAATGTCCCAGGCGTGGTCTTACATGTAATCAAATATCGATG
1 CCAATGTCCCAGACGTGGTCTTACACG-AATCAAA-GTCGATG
** *
13942747 CCTCTATCCCAGACAG-GGTCTTACACGAAATCAAA-TACGATG
1 CCAATGTCCCAGAC-GTGGTCTTACACG-AATCAAAGT-CGATG
*
13942789 CCAATGTCCCAGACATGGTCTTACACGTAAATCATAAGTCGATG
1 CCAATGTCCCAGACGTGGTCTTACACG--AATCA-AAGTCGATG
* * *
13942833 CCAATGTCCCAGGCGTAGTCTTACATG-AT--AAGTCGATG
1 CCAATGTCCCAGACGTGGTCTTACACGAATCAAAGTCGATG
13942871 CCAATGTCCCAGACGTGGTCTTACACGA
1 CCAATGTCCCAGACGTGGTCTTACACGA
13942899 TAACACATAT
Statistics
Matches: 128, Mismatches: 17, Indels: 18
0.79 0.10 0.11
Matches are distributed among these distances:
38 33 0.26
41 3 0.02
42 27 0.21
43 33 0.26
44 31 0.24
45 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (41 bp):
CCAATGTCCCAGACGTGGTCTTACACGAATCAAAGTCGATG
Found at i:13948615 original size:36 final size:36
Alignment explanation
Indices: 13948568--13948641 Score: 130
Period size: 36 Copynumber: 2.1 Consensus size: 36
13948558 TACTATACTA
*
13948568 TGCGTAAAGTTGTAAGTTTAATTCATATTTTCCAAT
1 TGCGTAAAGTTGTAAGTTTAATTCATATTCTCCAAT
*
13948604 TGCGTAAAGTTGTAAGTTTAGTTCATATTCTCCAAT
1 TGCGTAAAGTTGTAAGTTTAATTCATATTCTCCAAT
13948640 TG
1 TG
13948642 GATTATTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.43
Consensus pattern (36 bp):
TGCGTAAAGTTGTAAGTTTAATTCATATTCTCCAAT
Found at i:13957012 original size:19 final size:19
Alignment explanation
Indices: 13956969--13957005 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
13956959 CACATTTTAT
*
13956969 CAAAAATAAGTTAAAAAAA
1 CAAAAACAAGTTAAAAAAA
*
13956988 CCAAAACAAGTTAAAAAA
1 CAAAAACAAGTTAAAAAA
13957006 TAAAAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.70, C:0.11, G:0.05, T:0.14
Consensus pattern (19 bp):
CAAAAACAAGTTAAAAAAA
Found at i:13957515 original size:33 final size:34
Alignment explanation
Indices: 13957472--13957540 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
13957462 AATTTTAACC
13957472 AAGCATTTTTTCAACCTTTTTCATTTTCGAGAAA
1 AAGCATTTTTTCAACCTTTTTCATTTTCGAGAAA
13957506 AAGCATTTTTTCAACCTTTTTCATTTTCGAGAAA
1 AAGCATTTTTTCAACCTTTTTCATTTTCGAGAAA
13957540 A
1 A
13957541 TGAAAATGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.30, C:0.17, G:0.09, T:0.43
Consensus pattern (34 bp):
AAGCATTTTTTCAACCTTTTTCATTTTCGAGAAA
Found at i:13957835 original size:29 final size:30
Alignment explanation
Indices: 13957802--13957860 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
13957792 TTTGGTTCTA
*
13957802 TGTGCAATTTCATATAT-AAATTTTGATTT
1 TGTGCAATTTCATACATAAAATTTTGATTT
* *
13957831 TGTGCGATTTTATACATAAAATTTTGATTT
1 TGTGCAATTTCATACATAAAATTTTGATTT
13957861 AATTTAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 14 0.54
30 12 0.46
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.51
Consensus pattern (30 bp):
TGTGCAATTTCATACATAAAATTTTGATTT
Found at i:13958662 original size:16 final size:17
Alignment explanation
Indices: 13958635--13958668 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
13958625 TCTTTATGTT
13958635 AAATATAAAAAGAGCAA
1 AAATATAAAAAGAGCAA
*
13958652 AAATA-AAAAAGATCAA
1 AAATATAAAAAGAGCAA
13958668 A
1 A
13958669 GTTCAAACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.74, C:0.06, G:0.09, T:0.12
Consensus pattern (17 bp):
AAATATAAAAAGAGCAA
Found at i:13962448 original size:20 final size:20
Alignment explanation
Indices: 13962404--13962442 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
13962394 TGGAGCAGGA
*
13962404 ATATCGATACCCTAGGAAAT
1 ATATCGATACCCTAAGAAAT
*
13962424 ATATCGATACCTTAAGAAA
1 ATATCGATACCCTAAGAAA
13962443 AGTATCAATA
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:0.44, C:0.18, G:0.13, T:0.26
Consensus pattern (20 bp):
ATATCGATACCCTAAGAAAT
Found at i:13972696 original size:23 final size:22
Alignment explanation
Indices: 13972670--13972713 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
13972660 CAAAAGAAAG
13972670 AAAA-AAAAATAGTAAATTAGAAT
1 AAAATAAAAATA--AAATTAGAAT
13972693 AAAATTAAAAATAAAATTAGA
1 AAAA-TAAAAATAAAATTAGA
13972714 TTGCAAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 12 0.63
25 7 0.37
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (22 bp):
AAAATAAAAATAAAATTAGAAT
Found at i:13973981 original size:43 final size:42
Alignment explanation
Indices: 13973893--13974003 Score: 125
Period size: 43 Copynumber: 2.6 Consensus size: 42
13973883 GATTTACGTA
* ***
13973893 TAAGACCATGTCTGGGAC-ATCGACATCATATTTGATTTTGTG
1 TAAGACCATGTCTGGGACAAT-GGCATCATATTTGATTACATG
*
13973935 TAAGACCTTGTCTGGGACAATGGCATCGATATTTGATTACATG
1 TAAGACCATGTCTGGGACAATGGCATC-ATATTTGATTACATG
* * *
13973978 TAAGTCCACGTCTGGGACATTGGCAT
1 TAAGACCATGTCTGGGACAATGGCAT
13974004 TGTATGAGCT
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
42 22 0.38
43 36 0.62
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.32
Consensus pattern (42 bp):
TAAGACCATGTCTGGGACAATGGCATCATATTTGATTACATG
Found at i:13978784 original size:13 final size:11
Alignment explanation
Indices: 13978752--13978794 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
13978742 CCATTTTCTA
*
13978752 AATAAAATAAT
1 AATAAAATATT
13978763 AAT-AAATATTT
1 AATAAAATA-TT
13978774 AAGTAAAATATT
1 AA-TAAAATATT
13978786 AATAAAATA
1 AATAAAATA
13978795 ATATTTAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 5 0.18
11 13 0.46
12 5 0.18
13 5 0.18
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (11 bp):
AATAAAATATT
Found at i:13978794 original size:39 final size:38
Alignment explanation
Indices: 13978751--13978829 Score: 88
Period size: 39 Copynumber: 2.1 Consensus size: 38
13978741 ACCATTTTCT
*
13978751 AAATAAAATAATAA-TAAATATTTAAGTAAAATATTAATA
1 AAATAAAAT-ATAACTAAATAATTAAGTAAAATATT-ATA
* * * *
13978790 AAATAATATTTAACTAATTAATTAATTAAAATATTATA
1 AAATAAAATATAACTAAATAATTAAGTAAAATATTATA
13978828 AA
1 AA
13978830 CATCATCATC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
38 8 0.24
39 26 0.76
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.37
Consensus pattern (38 bp):
AAATAAAATATAACTAAATAATTAAGTAAAATATTATA
Found at i:13980033 original size:18 final size:18
Alignment explanation
Indices: 13980010--13980046 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
13980000 GAAACTAAAA
13980010 GTCATTAATCTCTGGTCG
1 GTCATTAATCTCTGGTCG
13980028 GTCATTAATCTCTGGTCG
1 GTCATTAATCTCTGGTCG
13980046 G
1 G
13980047 GGAAGACTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.38
Consensus pattern (18 bp):
GTCATTAATCTCTGGTCG
Found at i:13981991 original size:23 final size:23
Alignment explanation
Indices: 13981961--13982008 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
13981951 TTAACTCGAG
13981961 AATGATGCTGTTCAGATTGATAA
1 AATGATGCTGTTCAGATTGATAA
13981984 AATGATGCTGTTCAGATTGATAA
1 AATGATGCTGTTCAGATTGATAA
13982007 AA
1 AA
13982009 GATTTTATAG
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:0.38, C:0.08, G:0.21, T:0.33
Consensus pattern (23 bp):
AATGATGCTGTTCAGATTGATAA
Found at i:13990212 original size:20 final size:19
Alignment explanation
Indices: 13990166--13990212 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
13990156 GTAATTCATG
13990166 TTTAATTGCTGAATGGAGT
1 TTTAATTGCTGAATGGAGT
* *
13990185 TTTGAATTGGTAGAATTGAGT
1 TTT-AATTGCT-GAATGGAGT
13990206 TTTAATT
1 TTTAATT
13990213 TTAAGAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 3 0.12
20 10 0.42
21 11 0.46
ACGTcount: A:0.28, C:0.02, G:0.23, T:0.47
Consensus pattern (19 bp):
TTTAATTGCTGAATGGAGT
Found at i:13999206 original size:31 final size:31
Alignment explanation
Indices: 13999171--13999229 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
13999161 ACTTTATTAT
13999171 AATATTATATATGTTTGATTAATTGAATTTG
1 AATATTATATATGTTTGATTAATTGAATTTG
13999202 AATATTATATATGTTTGATTAATTGAAT
1 AATATTATATATGTTTGATTAATTGAAT
13999230 ATTAGTTAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (31 bp):
AATATTATATATGTTTGATTAATTGAATTTG
Found at i:14004721 original size:15 final size:15
Alignment explanation
Indices: 14004701--14004730 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14004691 AAATACTTAT
*
14004701 TTTTTATTTTTATTA
1 TTTTTATATTTATTA
14004716 TTTTTATATTTATTA
1 TTTTTATATTTATTA
14004731 ATTTGAAGAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTTATATTTATTA
Found at i:14005359 original size:21 final size:21
Alignment explanation
Indices: 14005334--14005389 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
14005324 TGTCGATTTT
14005334 CACACGGGCGTGTGCCTTAGA
1 CACACGGGCGTGTGCCTTAGA
* * *
14005355 CACACGGTCGTGTCCCTTAGC
1 CACACGGGCGTGTGCCTTAGA
*
14005376 CGCACGGGCGTGTG
1 CACACGGGCGTGTG
14005390 AGATTTCCAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.14, C:0.32, G:0.34, T:0.20
Consensus pattern (21 bp):
CACACGGGCGTGTGCCTTAGA
Found at i:14005920 original size:17 final size:19
Alignment explanation
Indices: 14005895--14005935 Score: 50
Period size: 17 Copynumber: 2.2 Consensus size: 19
14005885 TTTTTCTCTA
14005895 TTTTCTTTCT-TC-TTTCT
1 TTTTCTTTCTCTCTTTTCT
*
14005912 TTTTTTTTCTCCTCTTTTCT
1 TTTTCTTTCT-CTCTTTTCT
14005932 TTTT
1 TTTT
14005936 GGGTTTTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 9 0.45
19 2 0.10
20 9 0.45
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTCTTTCTCTCTTTTCT
Found at i:14008669 original size:37 final size:38
Alignment explanation
Indices: 14008627--14008716 Score: 103
Period size: 37 Copynumber: 2.4 Consensus size: 38
14008617 TTCCATATTA
*
14008627 TGGTGTGTAGGGTGGAAAAGCCT-ATTATAGTTC-TATG
1 TGGTGTGTAGGGTGGAAAAGCCTGA-TATAGCTCATATG
* *** *
14008664 TGGTGTGCAGGGTGGATGGGCTTGATATAGCTCATATG
1 TGGTGTGTAGGGTGGAAAAGCCTGATATAGCTCATATG
14008702 TGGTGTGTAGGGTGG
1 TGGTGTGTAGGGTGG
14008717 TCGAAGTGGT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
37 25 0.57
38 19 0.43
ACGTcount: A:0.19, C:0.08, G:0.40, T:0.33
Consensus pattern (38 bp):
TGGTGTGTAGGGTGGAAAAGCCTGATATAGCTCATATG
Found at i:14014148 original size:46 final size:46
Alignment explanation
Indices: 14014069--14014181 Score: 122
Period size: 46 Copynumber: 2.4 Consensus size: 46
14014059 TGATGCCATA
* **
14014069 TCCCAGACATGGTCTTACACTGACTATCATCTCGTAG-CTGATGTATG
1 TCCCAGACAT-GTCTTACACTGACTATCATCTCG-AGCCCGATACATG
* * *
14014116 TCCCAGACATGTCTTACAGTGGCT-TACGTCTCGAGCCCGATACATG
1 TCCCAGACATGTCTTACACTGACTAT-CATCTCGAGCCCGATACATG
*
14014162 TCCCAAACATGTCTTACACT
1 TCCCAGACATGTCTTACACT
14014182 AGCACTCGTC
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
45 3 0.05
46 43 0.77
47 10 0.18
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (46 bp):
TCCCAGACATGTCTTACACTGACTATCATCTCGAGCCCGATACATG
Found at i:14014192 original size:46 final size:47
Alignment explanation
Indices: 14014113--14014228 Score: 121
Period size: 46 Copynumber: 2.5 Consensus size: 47
14014103 TAGCTGATGT
* * * *
14014113 ATGTCCCAGACATGTCTTACAGTGGCTTACGTCTCGA-GCCCGAT-AC
1 ATGTCCCAGACATGTCTTACACTAGCCTACGTCTCGATG-CCAATGAC
* * *
14014159 ATGTCCCAAACATGTCTTACACTAGCACT-CGTCTTGATGCCAATGCC
1 ATGTCCCAGACATGTCTTACACTAGC-CTACGTCTCGATGCCAATGAC
14014206 ATGTCCCAGACATGGTCTTACAC
1 ATGTCCCAGACAT-GTCTTACAC
14014229 AGGCTCTCAT
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
46 34 0.59
47 15 0.26
48 9 0.16
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (47 bp):
ATGTCCCAGACATGTCTTACACTAGCCTACGTCTCGATGCCAATGAC
Found at i:14025064 original size:46 final size:46
Alignment explanation
Indices: 14024965--14025084 Score: 129
Period size: 46 Copynumber: 2.6 Consensus size: 46
14024955 GTAGGGTGCT
*
14024965 GATGTCATATCCCAGACATGGTCTTACATTGACTATCATCTCATAGCT
1 GATG-CATATCCCAGACAT-GTCTTACATTGACTATCATCTCATAGCC
* * *
14025013 AATGCATATCCCAGACATGTCTTACATTGGCT-TACATCTCGA-GGCC
1 GATGCATATCCCAGACATGTCTTACATTGACTAT-CATCTC-ATAGCC
*
14025059 GATGCATGTCCC-GAACATGTCTTACA
1 GATGCATATCCCAG-ACATGTCTTACA
14025085 CTAGCACTCG
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
45 2 0.03
46 43 0.68
47 15 0.24
48 3 0.05
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.30
Consensus pattern (46 bp):
GATGCATATCCCAGACATGTCTTACATTGACTATCATCTCATAGCC
Found at i:14027285 original size:31 final size:30
Alignment explanation
Indices: 14027237--14027371 Score: 191
Period size: 31 Copynumber: 4.4 Consensus size: 30
14027227 TATACTAGGC
* *
14027237 CGAAGCC-TTCCATAAATCATATCACTGAGT
1 CGAAGCCTTTTCATAAATCATATCACTG-GG
14027267 CGAAGCCTTTTCATAAATCATATCACTGGG
1 CGAAGCCTTTTCATAAATCATATCACTGGG
*
14027297 CTGAAGCCTTTTCATAAATCATGTCACTGGG
1 C-GAAGCCTTTTCATAAATCATATCACTGGG
*
14027328 CTGAAGCCTTTTCATAAATCGTATCACTGGG
1 C-GAAGCCTTTTCATAAATCATATCACTGGG
14027359 CCGAAGCCTTTTC
1 -CGAAGCCTTTTC
14027372 TGTAAACGGT
Statistics
Matches: 97, Mismatches: 5, Indels: 5
0.91 0.05 0.05
Matches are distributed among these distances:
30 9 0.09
31 87 0.90
32 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.30
Consensus pattern (30 bp):
CGAAGCCTTTTCATAAATCATATCACTGGG
Found at i:14027440 original size:42 final size:42
Alignment explanation
Indices: 14027393--14027526 Score: 241
Period size: 42 Copynumber: 3.2 Consensus size: 42
14027383 TGGCCCTTAG
* *
14027393 GCCCATTTTAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACACGTAATGTCAATGGATGTATGCAA
14027435 GCCCATTTCAATATCACACGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACACGTAATGTCAATGGATGTATGCAA
*
14027477 GCCCATTTCAATATCACACGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACACGTAATGTCAATGGATGTATGCAA
14027519 GCCCATTT
1 GCCCATTT
14027527 GGGGAGACTA
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 89 1.00
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.31
Consensus pattern (42 bp):
GCCCATTTCAATATCACACGTAATGTCAATGGATGTATGCAA
Found at i:14028667 original size:27 final size:27
Alignment explanation
Indices: 14028637--14028907 Score: 145
Period size: 27 Copynumber: 10.0 Consensus size: 27
14028627 GTAAATCTAC
*
14028637 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
14028664 AAACCAATGGTATTTCTA-TAATTTTTAG
1 AAACCAAGGGTATTTC-AGTAA-TTTTAT
* *
14028692 AAAGTCAAGGGTATTTCTA-TAATTTTGT
1 AAA-CCAAGGGTATTTC-AGTAATTTTAT
** * *
14028720 AAATTAGGGGTATTTTAGTAATTTTAT
1 AAACCAAGGGTATTTCAGTAATTTTAT
*** * * *
14028747 AAATTGAGGGTATTTCGGTAATTTCAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
14028774 AAACC-AGTGGTATTTCGGTAATTTTAC
1 AAACCAAG-GGTATTTCAGTAATTTTAT
* * * ** *
14028801 AAACTAGGGGTCTTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* * ** *
14028828 AAACTAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* * ** *
14028855 AAACTAGGGGTATTTTGGTAATTCTAT
1 AAACCAAGGGTATTTCAGTAATTTTAT
**
14028882 CCTA-CAAGGGTATTTCAGTAATTTTA
1 -AAACCAAGGGTATTTCAGTAATTTTA
14028908 CAATCGAGGG
Statistics
Matches: 203, Mismatches: 34, Indels: 14
0.81 0.14 0.06
Matches are distributed among these distances:
26 3 0.01
27 167 0.82
28 17 0.08
29 16 0.08
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.41
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTAT
Found at i:14028786 original size:54 final size:54
Alignment explanation
Indices: 14028725--14028877 Score: 209
Period size: 54 Copynumber: 2.8 Consensus size: 54
14028715 TTTGTAAATT
* * * *
14028725 AGGGGTATTTTAGTAATTTTATAAA-TTGAGGGTATTTCGGTAATTTCACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGGTAATTTCACAAACC
* * * * *
14028779 AGTGGTATTTCGGTAATTTTACAAACTAGGGGTCTTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTCACAAACC
14028833 AGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATT
1 AGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATT
14028878 CTATCCTACA
Statistics
Matches: 86, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
54 84 0.98
55 2 0.02
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (54 bp):
AGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTCACAAACC
Found at i:14028822 original size:81 final size:81
Alignment explanation
Indices: 14028700--14028910 Score: 219
Period size: 81 Copynumber: 2.6 Consensus size: 81
14028690 AGAAAGTCAA
** ** * * *
14028700 GGGTATTTCTATAATTTTGTAAATTAGGGGTATTTTAGTAATTTTATAAA-TTGAGGGTATTTCG
1 GGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAACTAG-GGGTATTTCG
14028764 GTAATTTCACAAACCAG
65 GTAATTTCACAAACCAG
* * * *
14028781 TGGTATTTCGGTAATTTTACAAACTAGGGGTCTTTTGGTAATTTTACAAACTAGGGGTATTTTGG
1 GGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTCGG
* *
14028846 TAATTTTACAAACTAG
66 TAATTTCACAAACCAG
* * ** * *
14028862 GGGTATTTTGGTAATTCTATCCTAC-AAGGGTATTTCAGTAATTTTACAA
1 GGGTATTTCGGTAATTTTA-CAAACTAGGGGTATTTTAGTAATTTTACAA
14028911 TCGAGGGTAA
Statistics
Matches: 106, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
81 101 0.95
82 5 0.05
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.41
Consensus pattern (81 bp):
GGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTCGG
TAATTTCACAAACCAG
Done.