Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 ID=Chr03-JGI_221_v2.0
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: 45765648
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 655849 characters in sequence are not A, C, G, or T
File 32 of 150
Found at i:8410163 original size:23 final size:24
Alignment explanation
Indices: 8410132--8410181 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 24
8410122 TTTAGCGCAC
8410132 TCTCTATTACGCACTTCAATGTTG
1 TCTCTATTACGCACTTCAATGTTG
* *
8410156 TCTC-ATTACGCACTTTAATTTTG
1 TCTCTATTACGCACTTCAATGTTG
8410179 TCT
1 TCT
8410182 TGTACTGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 20 0.83
24 4 0.17
ACGTcount: A:0.20, C:0.24, G:0.10, T:0.46
Consensus pattern (24 bp):
TCTCTATTACGCACTTCAATGTTG
Found at i:8415999 original size:29 final size:29
Alignment explanation
Indices: 8415957--8416018 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 29
8415947 CTTTCAGTGC
*
8415957 ATTTTTTACGGGTGGTTGAGGTTGATCAG
1 ATTTTTTACGGGTGGTTGAGGTTGATCAA
*
8415986 ATTTTTTATGGGTGGTTGAGGTTGATCAA
1 ATTTTTTACGGGTGGTTGAGGTTGATCAA
8416015 ATTT
1 ATTT
8416019 CTGGAAATGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.19, C:0.05, G:0.31, T:0.45
Consensus pattern (29 bp):
ATTTTTTACGGGTGGTTGAGGTTGATCAA
Found at i:8417420 original size:30 final size:30
Alignment explanation
Indices: 8417386--8417448 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
8417376 ACATAACATA
*
8417386 AATTATGTAAGGACATAAACAAAATAAGAT
1 AATTATGTAAGAACATAAACAAAATAAGAT
8417416 AATTATGTAAGAACATAAACAAAATAAGAT
1 AATTATGTAAGAACATAAACAAAATAAGAT
8417446 AAT
1 AAT
8417449 CAAAGGTCCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.59, C:0.06, G:0.11, T:0.24
Consensus pattern (30 bp):
AATTATGTAAGAACATAAACAAAATAAGAT
Found at i:8422825 original size:11 final size:11
Alignment explanation
Indices: 8422791--8422848 Score: 64
Period size: 11 Copynumber: 5.4 Consensus size: 11
8422781 AAATTTAAGT
*
8422791 GAGAAATTAGA
1 GAGAAATTCGA
*
8422802 AAGAAATT-GA
1 GAGAAATTCGA
*
8422812 GAGAAATTCAA
1 GAGAAATTCGA
* *
8422823 GAGAGATTTGA
1 GAGAAATTCGA
8422834 GAGAAATTCGA
1 GAGAAATTCGA
8422845 GAGA
1 GAGA
8422849 GATTTAAAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
10 9 0.24
11 29 0.76
ACGTcount: A:0.50, C:0.03, G:0.28, T:0.19
Consensus pattern (11 bp):
GAGAAATTCGA
Found at i:8422836 original size:22 final size:22
Alignment explanation
Indices: 8422808--8422853 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
8422798 TAGAAAGAAA
8422808 TTGAGAGAAATTCAAGAGAGAT
1 TTGAGAGAAATTCAAGAGAGAT
*
8422830 TTGAGAGAAATTCGAGAGAGAT
1 TTGAGAGAAATTCAAGAGAGAT
8422852 TT
1 TT
8422854 AAAAATATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.41, C:0.04, G:0.28, T:0.26
Consensus pattern (22 bp):
TTGAGAGAAATTCAAGAGAGAT
Found at i:8426878 original size:20 final size:21
Alignment explanation
Indices: 8426853--8426891 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
8426843 ATTTAAAATA
8426853 TTAAAAATAATA-ATTTATTT
1 TTAAAAATAATATATTTATTT
*
8426873 TTAAAAATTATATATTTAT
1 TTAAAAATAATATATTTAT
8426892 AAAGGGTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTAAAAATAATATATTTATTT
Found at i:8441460 original size:30 final size:30
Alignment explanation
Indices: 8441413--8441484 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
8441403 GGCCATGTGA
* *
8441413 CAGCCC-TGATGGCTCACACGACTGTGTGTC
1 CAGCCCGTG-TGGCTCACACAACTGAGTGTC
*
8441443 CAGCCCGTGTGGTTCACACAACTGAGTGTC
1 CAGCCCGTGTGGCTCACACAACTGAGTGTC
**
8441473 CAGGTCGTGTGG
1 CAGCCCGTGTGG
8441485 AATAGCCTAG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
30 34 0.94
31 2 0.06
ACGTcount: A:0.17, C:0.29, G:0.31, T:0.24
Consensus pattern (30 bp):
CAGCCCGTGTGGCTCACACAACTGAGTGTC
Found at i:8453789 original size:12 final size:12
Alignment explanation
Indices: 8453770--8453943 Score: 55
Period size: 12 Copynumber: 14.8 Consensus size: 12
8453760 AATACTAAGT
8453770 AAAT-ATAATAA
1 AAATAATAATAA
8453781 AAATAATAAT-A
1 AAATAATAATAA
8453792 AAAT-AT-ATAA
1 AAATAATAATAA
* *
8453802 ATAATAAT-GTATT
1 A-AATAATAATA-A
**
8453815 AAATAGGAATAA
1 AAATAATAATAA
*
8453827 GAATAATAATAA
1 AAATAATAATAA
* *
8453839 GAATTATAA-AA
1 AAATAATAATAA
*
8453850 CAAAGAA-AGATAA
1 -AAATAATA-ATAA
* *
8453863 TATAATAAGAATAT
1 -A-AATAATAATAA
*
8453877 AAATAAAAATCAA
1 AAATAATAAT-AA
* *
8453890 TAATAA-ACTAA
1 AAATAATAATAA
* *
8453901 ATATGATAATAA
1 AAATAATAATAA
*
8453913 AAATTATAAT-A
1 AAATAATAATAA
8453924 AAATAA-AA-AA
1 AAATAATAATAA
8453934 TAAATAATAA
1 -AAATAATAA
8453944 GGTAAATGAA
Statistics
Matches: 120, Mismatches: 27, Indels: 31
0.67 0.15 0.17
Matches are distributed among these distances:
9 2 0.02
10 7 0.06
11 32 0.27
12 58 0.48
13 13 0.11
14 7 0.06
15 1 0.01
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (12 bp):
AAATAATAATAA
Found at i:8457853 original size:19 final size:19
Alignment explanation
Indices: 8457831--8457870 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
8457821 ATTAAATGTG
*
8457831 AATATAAAATTAAAACAAA
1 AATATAAAAATAAAACAAA
*
8457850 AATATAAAAATAAAATAAA
1 AATATAAAAATAAAACAAA
8457869 AA
1 AA
8457871 CGATTAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.20
Consensus pattern (19 bp):
AATATAAAAATAAAACAAA
Found at i:8462131 original size:16 final size:16
Alignment explanation
Indices: 8462110--8462145 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
8462100 TTTGGTTCGC
8462110 TGTATTGAATTAGAGG
1 TGTATTGAATTAGAGG
*
8462126 TGTATTGGATTAGAGG
1 TGTATTGAATTAGAGG
8462142 TGTA
1 TGTA
8462146 ATGGAATGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.33, T:0.39
Consensus pattern (16 bp):
TGTATTGAATTAGAGG
Found at i:8462150 original size:16 final size:16
Alignment explanation
Indices: 8462118--8462150 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
8462108 GCTGTATTGA
*
8462118 ATTAGAGGTGTATTGG
1 ATTAGAGGTGTAATGG
8462134 ATTAGAGGTGTAATGG
1 ATTAGAGGTGTAATGG
8462150 A
1 A
8462151 ATGAGGCGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.36, T:0.33
Consensus pattern (16 bp):
ATTAGAGGTGTAATGG
Found at i:8462416 original size:18 final size:17
Alignment explanation
Indices: 8462395--8462429 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
8462385 TTATTATTAA
*
8462395 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
8462413 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
8462430 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:8462640 original size:41 final size:40
Alignment explanation
Indices: 8462586--8462779 Score: 107
Period size: 41 Copynumber: 4.8 Consensus size: 40
8462576 ATTTTCTAAA
8462586 ATTATAATATATAATACTATAAAATATAATTTAACATAATT
1 ATTATAA-ATATAATACTATAAAATATAATTTAACATAATT
* * * *
8462627 ATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATT
1 ATTA-TAAATATAA--TACTATAAA-ATATAATTTAACATAATT
* * *** * *
8462671 CTTA-ATAT-TAA-A-TATTCTTATATGAATTT-TC-TAA-A
1 ATTATAAATATAATACTA-TAAAATAT-AATTTAACATAATT
* *
8462706 ATCATAATATATAATACTATGAAATATAATTTAACATAATT
1 ATTATAA-ATATAATACTATAAAATATAATTTAACATAATT
*
8462747 ATTATTAAATATAAT-TTAATAAAATATATATTT
1 ATTA-TAAATATAATACT-ATAAAATATA-ATTT
8462780 TCAATTACTT
Statistics
Matches: 111, Mismatches: 25, Indels: 33
0.66 0.15 0.20
Matches are distributed among these distances:
35 2 0.02
36 3 0.03
37 8 0.07
38 14 0.13
39 7 0.06
40 6 0.05
41 32 0.29
42 13 0.12
43 7 0.06
44 19 0.17
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (40 bp):
ATTATAAATATAATACTATAAAATATAATTTAACATAATT
Found at i:8462798 original size:120 final size:120
Alignment explanation
Indices: 8462375--8462776 Score: 666
Period size: 120 Copynumber: 3.4 Consensus size: 120
8462365 TTAATCATAT
* *
8462375 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATAATTTAATTAAAATATATAATTTAATAAAATTCTTAATATT
* * *
8462440 CAATATTCTTATATGAATTTAT-TCAAATCATAATATATGATACTATAAAATATAA
66 AAATATTCTTATATGAATTT-TCTAAAATCATAATATATAATACTATAAAATATAA
* * *
8462495 TTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAT
1 TTT-AACATAATTATTATTAAATATAATTTAATTAAAATATATAATTTAATAAAATTCTTAATAT
*
8462559 TAAATATTCTTATATGAATTTTCTAAAATTATAATATATAATACTATAAAATATAA
65 TAAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAA
*
8462615 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAACATAATTATTATTAAATATAATTTAATTAAAATATATAATTTAATAAAATTCTTAATATT
*
8462680 AAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATGAAATATAA
66 AAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAA
8462735 TTTAACATAATTATTATTAAATATAATTTAA-TAAAATATATA
1 TTTAACATAATTATTATTAAATATAATTTAATTAAAATATATA
8462777 TTTTCAATTA
Statistics
Matches: 265, Mismatches: 14, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
119 13 0.05
120 250 0.94
121 2 0.01
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAATATAATTTAATTAAAATATATAATTTAATAAAATTCTTAATATT
AAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAA
Found at i:8468527 original size:22 final size:22
Alignment explanation
Indices: 8468508--8468581 Score: 78
Period size: 22 Copynumber: 3.4 Consensus size: 22
8468498 AATGGCTAAG
*
8468508 AGCCGTAAACAGGATAGCTATA
1 AGCCATAAACAGGATAGCTATA
* *
8468530 AGCTATAAATAGGATAGCTATA
1 AGCCATAAACAGGATAGCTATA
* * *
8468552 AGCTATAAACAGAAT-GACTACA
1 AGCCATAAACAGGATAG-CTATA
8468574 AGCCATAA
1 AGCCATAA
8468582 GTACAATAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
21 1 0.02
22 43 0.98
ACGTcount: A:0.46, C:0.16, G:0.18, T:0.20
Consensus pattern (22 bp):
AGCCATAAACAGGATAGCTATA
Found at i:8468681 original size:32 final size:32
Alignment explanation
Indices: 8468645--8468711 Score: 98
Period size: 32 Copynumber: 2.1 Consensus size: 32
8468635 ACAACCATCG
*
8468645 GTAACGATAATATGATCAGTACAAAGCAATTA
1 GTAACGATAATATGATCAGCACAAAGCAATTA
** *
8468677 GTAACGATAATATGATTGGCACAAAGCCATTA
1 GTAACGATAATATGATCAGCACAAAGCAATTA
8468709 GTA
1 GTA
8468712 GCATCCCAGC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.43, C:0.13, G:0.18, T:0.25
Consensus pattern (32 bp):
GTAACGATAATATGATCAGCACAAAGCAATTA
Found at i:8468910 original size:24 final size:24
Alignment explanation
Indices: 8468883--8468937 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
8468873 CCATGCTCAG
8468883 AATCAGTCATACAAATCACAGACA
1 AATCAGTCATACAAATCACAGACA
* *
8468907 AATCAGTCATACCAATCATAGACA
1 AATCAGTCATACAAATCACAGACA
8468931 AATCAGT
1 AATCAGT
8468938 TATTTATATC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.47, C:0.24, G:0.09, T:0.20
Consensus pattern (24 bp):
AATCAGTCATACAAATCACAGACA
Found at i:8468966 original size:24 final size:24
Alignment explanation
Indices: 8468921--8468967 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
8468911 AGTCATACCA
* *
8468921 ATCATAGACAAATCAGTTATTTAT
1 ATCATAGACAAATCAATCATTTAT
*
8468945 ATCATGGACAAATCAATCATTTA
1 ATCATAGACAAATCAATCATTTA
8468968 CACTCGAGGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.34
Consensus pattern (24 bp):
ATCATAGACAAATCAATCATTTAT
Found at i:8469029 original size:27 final size:27
Alignment explanation
Indices: 8468990--8469212 Score: 175
Period size: 27 Copynumber: 8.3 Consensus size: 27
8468980 AAAATAGTCA
* *
8468990 TTTACCCTCTAGGGGCATTACGATCAT
1 TTTACCCTATAGGGGTATTACGATCAT
* * * *
8469017 TTTACCTTATAGGGGTATTTCGGTCAG
1 TTTACCCTATAGGGGTATTACGATCAT
* *
8469044 TTTACCCTATGGGGGTATTACGATTAT
1 TTTACCCTATAGGGGTATTACGATCAT
* * *
8469071 TTTACCCTATAAGGGCATTACGACCAT
1 TTTACCCTATAGGGGTATTACGATCAT
* *
8469098 TTTACCCTAT-GGGGTTTTTC-AGTCAT
1 TTTACCCTATAGGGGTATTACGA-TCAT
* *
8469124 TTTACCCTACAAGGGTATTAC-AGTCAT
1 TTTACCCTATAGGGGTATTACGA-TCAT
* * * * *
8469151 TTTACCTTACAGGGGCATTATGGTCAT
1 TTTACCCTATAGGGGTATTACGATCAT
* * **
8469178 TTGACCCTA-CGAGGGTATTTTGATCAT
1 TTTACCCTATAG-GGGTATTACGATCAT
8469205 TTTACCCT
1 TTTACCCT
8469213 TCGAGGGTAT
Statistics
Matches: 154, Mismatches: 38, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
25 1 0.01
26 19 0.12
27 134 0.87
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.38
Consensus pattern (27 bp):
TTTACCCTATAGGGGTATTACGATCAT
Found at i:8469131 original size:26 final size:27
Alignment explanation
Indices: 8469013--8469304 Score: 144
Period size: 27 Copynumber: 10.9 Consensus size: 27
8469003 GGCATTACGA
* * * * *
8469013 TCATTTTACCTTATAGGGGTATTTCGG
1 TCATTTTACCCTACAAGGGTATTACAG
* ***
8469040 TCAGTTTACCCTATGGGGGTATTAC-G
1 TCATTTTACCCTACAAGGGTATTACAG
* * *
8469066 ATTATTTTACCCTATAAGGGCATTAC-G
1 -TCATTTTACCCTACAAGGGTATTACAG
* ** * *
8469093 ACCATTTTACCCTA-TGGGGTTTTTCAG
1 -TCATTTTACCCTACAAGGGTATTACAG
8469120 TCATTTTACCCTACAAGGGTATTACAG
1 TCATTTTACCCTACAAGGGTATTACAG
* * * **
8469147 TCATTTTACCTTACAGGGGCATTATGG
1 TCATTTTACCCTACAAGGGTATTACAG
* * **
8469174 TCATTTGACCCTACGAGGGTATT-TTG
1 TCATTTTACCCTACAAGGGTATTACAG
* * ***
8469200 ATCATTTTACCCTTCGAGGGTATTTTTG
1 -TCATTTTACCCTACAAGGGTATTACAG
* *
8469228 TCATTTTACCC-ATCAAGGGTATTTCAA
1 TCATTTTACCCTA-CAAGGGTATTACAG
* ** * *
8469255 TAATTTTACCCTTTAAGGGCATTTCAG
1 TCATTTTACCCTACAAGGGTATTACAG
* * *
8469282 TAATTTTACCCTTCGAGGGTATT
1 TCATTTTACCCTACAAGGGTATT
8469305 TCGGTAATTT
Statistics
Matches: 211, Mismatches: 47, Indels: 14
0.78 0.17 0.05
Matches are distributed among these distances:
26 21 0.10
27 187 0.89
28 3 0.01
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.39
Consensus pattern (27 bp):
TCATTTTACCCTACAAGGGTATTACAG
Found at i:8469306 original size:27 final size:27
Alignment explanation
Indices: 8469095--8469306 Score: 166
Period size: 27 Copynumber: 7.9 Consensus size: 27
8469085 GCATTACGAC
*
8469095 CATTTTACCCTAT-G-GGGTTTTTCAGT
1 CATTTTACCCT-TCGAGGGTATTTCAGT
* * *
8469121 CATTTTACCCTACAAGGGTATTACAGT
1 CATTTTACCCTTCGAGGGTATTTCAGT
* *
8469148 CATTTTA-CCTTAC-AGGGGCATTAT-GGT
1 CATTTTACCCTT-CGA-GGGTATT-TCAGT
* * *
8469175 CATTTGACCCTACGAGGGTATTT-TGAT
1 CATTTTACCCTTCGAGGGTATTTCAG-T
**
8469202 CATTTTACCCTTCGAGGGTATTTTTGT
1 CATTTTACCCTTCGAGGGTATTTCAGT
* * *
8469229 CATTTTACCCATCAAGGGTATTTCAAT
1 CATTTTACCCTTCGAGGGTATTTCAGT
* ** *
8469256 AATTTTACCCTTTAAGGGCATTTCAGT
1 CATTTTACCCTTCGAGGGTATTTCAGT
*
8469283 AATTTTACCCTTCGAGGGTATTTC
1 CATTTTACCCTTCGAGGGTATTTC
8469307 GGTAATTTGC
Statistics
Matches: 150, Mismatches: 27, Indels: 17
0.77 0.14 0.09
Matches are distributed among these distances:
26 17 0.11
27 127 0.85
28 6 0.04
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.40
Consensus pattern (27 bp):
CATTTTACCCTTCGAGGGTATTTCAGT
Found at i:8471104 original size:28 final size:28
Alignment explanation
Indices: 8471069--8471124 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
8471059 CATTGCCATC
8471069 TCTCACAATTCTTTTCTCCTTCTTCTCA
1 TCTCACAATTCTTTTCTCCTTCTTCTCA
8471097 TCTCACAATTCTTTTCTCCTTCTTCTCA
1 TCTCACAATTCTTTTCTCCTTCTTCTCA
8471125 AGGTTTTCTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.14, C:0.36, G:0.00, T:0.50
Consensus pattern (28 bp):
TCTCACAATTCTTTTCTCCTTCTTCTCA
Found at i:8474674 original size:57 final size:56
Alignment explanation
Indices: 8474610--8474726 Score: 164
Period size: 57 Copynumber: 2.1 Consensus size: 56
8474600 TCTTTTTCAT
* * *
8474610 TTTTCATTTTCATTTTGGAGAAAACCACATTCATTTCCAAATGATTCC-ATTTCTCCA
1 TTTTCATTTCCATTTTGGAGAAAA--ACAATCATTTCCAAATGATTCCTATTTCACCA
* *
8474667 TTTTCATTTCCATTTTGGAGAAAAATAATCATTTCCAAATGTTTCCTATTTCACCA
1 TTTTCATTTCCATTTTGGAGAAAAACAATCATTTCCAAATGATTCCTATTTCACCA
8474723 TTTT
1 TTTT
8474727 TACCATTTAT
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
55 19 0.35
56 12 0.22
57 23 0.43
ACGTcount: A:0.28, C:0.21, G:0.07, T:0.44
Consensus pattern (56 bp):
TTTTCATTTCCATTTTGGAGAAAAACAATCATTTCCAAATGATTCCTATTTCACCA
Found at i:8477746 original size:30 final size:32
Alignment explanation
Indices: 8477707--8477777 Score: 101
Period size: 31 Copynumber: 2.3 Consensus size: 32
8477697 TAGTTTGCCC
* *
8477707 CCTGAACTTGTCC-AAAAGTACTTAGTTA-TA
1 CCTGAACTTGTCCAAAAAGTACCTAATTAGTA
*
8477737 CCTGCACTTGTCCAAAAAGTACCTAATTAGTA
1 CCTGAACTTGTCCAAAAAGTACCTAATTAGTA
8477769 CCTGAACTT
1 CCTGAACTT
8477778 ATTAAAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 12 0.34
31 13 0.37
32 10 0.29
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.31
Consensus pattern (32 bp):
CCTGAACTTGTCCAAAAAGTACCTAATTAGTA
Found at i:8485008 original size:3 final size:3
Alignment explanation
Indices: 8485000--8485045 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
8484990 ATATTTTAGC
8485000 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
8485046 CCTACTTATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:8485848 original size:111 final size:111
Alignment explanation
Indices: 8485564--8486095 Score: 862
Period size: 111 Copynumber: 4.9 Consensus size: 111
8485554 ATCAAAAACG
*
8485564 AAAAATTTTTCAAATAAGGCAATGTTTTGCGTTT-GGAAATTCGAGAAAACATGCCCTAAGGTGC
1 AAAAATTTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGC
*
8485628 TAGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
66 TGGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
*
8485674 AAAAA-TTTTAAAATAAGGCAATGTTTTGCATTTGGGAAATTCGAGAAAACATGCCCTAAGGTGC
1 AAAAATTTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGC
*
8485738 TGGGTGTCGATTTTTCTTGTTCAACCAAATGGCTTAATATCCTTTT
66 TGGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
*
8485784 AAAAATTTTTAAAATAAGGCAATGTTTTGTGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGC
1 AAAAATTTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGC
8485849 TGGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
66 TGGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
*
8485895 AAAAATTTTTAAAATAAGGCAATGTTTTGCATTTGGGAAATTCGAGAAAACATGCCCTAAGGTGC
1 AAAAATTTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGC
* *
8485960 TGGGTGTCGATTTTTCTCTTTCAACCAAATGGCTAAATATCCTTTT
66 TGGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
* * * ** *
8486006 AAAAA-TTTCAAAATAAGGCAATGTTTTGCGTTT-GGAAATTTGAG-GAATGTACCCTAAGGTGC
1 AAAAATTTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGC
* * *
8486068 TGAGTTTCGA--TTTCTCGTTTAACCAAAT
66 TGGGTGTCGATTTTTCTCGTTCAACCAAAT
8486096 AGCCAAATAT
Statistics
Matches: 398, Mismatches: 22, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
106 16 0.04
108 22 0.06
109 36 0.09
110 110 0.28
111 214 0.54
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (111 bp):
AAAAATTTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGC
TGGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
Found at i:8489950 original size:14 final size:14
Alignment explanation
Indices: 8489933--8489959 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8489923 GAAAAAGGAA
8489933 AAAAAAGAGAAAAG
1 AAAAAAGAGAAAAG
8489947 AAAAAAGAGAAAA
1 AAAAAAGAGAAAA
8489960 AAGAGAGGCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (14 bp):
AAAAAAGAGAAAAG
Found at i:8489961 original size:16 final size:16
Alignment explanation
Indices: 8489911--8489963 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
8489901 CAATAAAACT
*
8489911 AAAA-AAAAAAGGGAA
1 AAAAGAAAAAAGAGAA
* * *
8489926 AAAGGAAAAAAAAGAG
1 AAAAGAAAAAAGAGAA
8489942 AAAAGAAAAAAGAGAA
1 AAAAGAAAAAAGAGAA
8489958 AAAAGA
1 AAAAGA
8489964 GAGGCCAAGG
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
15 3 0.10
16 27 0.90
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAAAGAGAA
Found at i:8491234 original size:43 final size:43
Alignment explanation
Indices: 8491186--8491323 Score: 113
Period size: 44 Copynumber: 3.2 Consensus size: 43
8491176 ACAGATCAGC
8491186 GAAGACACAAACCTTGCCTCTCTCGGTTGTAACAGAGCTGGTT
1 GAAGACACAAACCTTGCCTCTCTCGGTTGTAACAGAGCTGGTT
* * * * * * *
8491229 GAAGACAACAGATCTTGCCT-TC-CTGCATTG-ACAGCAAAACAT-ATC
1 GAAGAC-ACAAACCTTGCCTCTCTC-G-GTTGTA-A-CAGAGC-TGGTT
* *
8491274 GAAGACACAAACCTTACCTCTCTCGGTTGTAGCAGAGCTGGTT
1 GAAGACACAAACCTTGCCTCTCTCGGTTGTAACAGAGCTGGTT
8491317 GAAGACA
1 GAAGACA
8491324 ACAGATCTTA
Statistics
Matches: 69, Mismatches: 16, Indels: 20
0.66 0.15 0.19
Matches are distributed among these distances:
42 2 0.03
43 22 0.32
44 28 0.41
45 15 0.22
46 2 0.03
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.23
Consensus pattern (43 bp):
GAAGACACAAACCTTGCCTCTCTCGGTTGTAACAGAGCTGGTT
Found at i:8491248 original size:44 final size:44
Alignment explanation
Indices: 8491198--8491424 Score: 112
Period size: 44 Copynumber: 5.2 Consensus size: 44
8491188 AGACACAAAC
8491198 CTTGCCTCTCTCGGTTGTAACAGAGCTGGTTGAAGACAACAGAT
1 CTTGCCTCTCTCGGTTGTAACAGAGCTGGTTGAAGACAACAGAT
* * * * * * *
8491242 CTTGCCT-TC-CTGCATTG-ACAGCAAAACAT-ATCGAAGAC-ACAAAC
1 CTTGCCTCTCTC-G-GTTGTA-A-CAGAGC-TGGTTGAAGACAACAGAT
* *
8491286 CTTACCTCTCTCGGTTGTAGCAGAGCTGGTTGAAGACAACAGAT
1 CTTGCCTCTCTCGGTTGTAACAGAGCTGGTTGAAGACAACAGAT
* * * * * * * * *
8491330 CTTACCT-TCCCGCATTG--ACAGTGAAACAGATCGAAGAC-ACAAAC
1 CTTGCCTCTCTCG-GTTGTAACA--G-AGCTGGTTGAAGACAACAGAT
*** *
8491374 CTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGATGACAACAGAT
1 CTTGCCTCTCTCGGTTGTAACAGAGCTGGTTGAAGACAACAGAT
8491418 CTTGCCT
1 CTTGCCT
8491425 TCCTGAATCG
Statistics
Matches: 127, Mismatches: 38, Indels: 36
0.63 0.19 0.18
Matches are distributed among these distances:
42 4 0.03
43 28 0.22
44 64 0.50
45 29 0.23
46 2 0.02
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.26
Consensus pattern (44 bp):
CTTGCCTCTCTCGGTTGTAACAGAGCTGGTTGAAGACAACAGAT
Found at i:8491466 original size:44 final size:44
Alignment explanation
Indices: 8491418--8491556 Score: 120
Period size: 44 Copynumber: 3.2 Consensus size: 44
8491408 GACAACAGAT
8491418 CTTGCCTTCCTGAATCGACAGCGAAGCGGATCGAAGACACAAGC
1 CTTGCCTTCCTGAATCGACAGCGAAGCGGATCGAAGACACAAGC
* * * * * * * * ** *
8491462 CTTGCCTCCCTCAGTTG-TAGTGGAGCTGG-TTGAAGACAGTAGAT
1 CTTGCCTTCCTGAATCGACAGCGAAGC-GGATCGAAGACACAAG-C
* * *
8491506 CTTGCCTTCCTGCATCGACAACGAAGCGGATCGAAGATACAAGC
1 CTTGCCTTCCTGAATCGACAGCGAAGCGGATCGAAGACACAAGC
8491550 CTTGCCT
1 CTTGCCT
8491557 CCCTCTGTTT
Statistics
Matches: 66, Mismatches: 25, Indels: 8
0.67 0.25 0.08
Matches are distributed among these distances:
43 16 0.24
44 36 0.55
45 14 0.21
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.22
Consensus pattern (44 bp):
CTTGCCTTCCTGAATCGACAGCGAAGCGGATCGAAGACACAAGC
Found at i:8492292 original size:88 final size:88
Alignment explanation
Indices: 8491185--8492261 Score: 1553
Period size: 88 Copynumber: 12.2 Consensus size: 88
8491175 AACAGATCAG
***
8491185 CGAAGACACAAACCTTGCCTCTCTCGGTTGTAACAGAGCTGGTTGAAGACAACAGATCTTGCCTT
1 CGAAGACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGACAACAGATCTTGCCTT
* * *
8491250 CCTGCATTGACAGCAAAACATAT
66 CCTGCATTGACAGCGAAGCAGAT
* ** *
8491273 CGAAGACACAAACCTTACCTCTCTCGGTTGTAGCAGAGCTGGTTGAAGACAACAGATCTTACCTT
1 CGAAGACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGACAACAGATCTTGCCTT
* * *
8491338 CCCGCATTGACAGTGAAACAGAT
66 CCTGCATTGACAGCGAAGCAGAT
*
8491361 CGAAGACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGATGACAACAGATCTTGCCTT
1 CGAAGACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGACAACAGATCTTGCCTT
* * *
8491426 CCTGAATCGACAGCGAAGCGGAT
66 CCTGCATTGACAGCGAAGCAGAT
* * * **
8491449 CGAAGACACAAGCCTTGCCTCCCTCAGTTGTAGTGGAGCTGGTTGAAGACAGTAGATCTTGCCTT
1 CGAAGACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGACAACAGATCTTGCCTT
* * *
8491514 CCTGCATCGACAACGAAGCGGAT
66 CCTGCATTGACAGCGAAGCAGAT
* * * * * * * *
8491537 CGAAGATACAAGCCTTGCCTCCCTCTGTTTTAGTGGAGCTAGTTGAAGATAGCAGATCTTGCCTT
1 CGAAGACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGACAACAGATCTTGCCTT
8491602 CCTGCATTGACAGCGAAGCAGAT
66 CCTGCATTGACAGCGAAGCAGAT
8491625 CGAAGACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGACAACAGATCTTGCCTT
1 CGAAGACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGACAACAGATCTTGCCTT
*
8491690 CTTGCATTGACAGCGAAGCAGAT
66 CCTGCATTGACAGCGAAGCAGAT
*
8491713 CGAAGACACAAACCTTGCCTCTCTCGGTTGTAGCGGAGCTGGTTGAAGACAACAGATCTTGCCTT
1 CGAAGACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGACAACAGATCTTGCCTT
8491778 CCTGCATTGACAGCGAAGCAGAT
66 CCTGCATTGACAGCGAAGCAGAT
* *
8491801 CGAAGACACAAACCTTGCCTCTCTCGGTTGCAGCGGAGCTGGTTGAAGACAACAGATCTTGCCTT
1 CGAAGACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGACAACAGATCTTGCCTT
8491866 CCTGCATTGACAGC-AATGCAGAT
66 CCTGCATTGACAGCGAA-GCAGAT
* * *
8491889 CGAAGACACAAACCTTGCCTCTCTCAGTTGTAATGGAGCTGGTTGAAGACAACAAATCTTGCCTT
1 CGAAGACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGACAACAGATCTTGCCTT
8491954 CCTGCATTGACAGCGAAGCAGAT
66 CCTGCATTGACAGCGAAGCAGAT
* *
8491977 CGAAGACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGATGACAACAGATCTTGACTT
1 CGAAGACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGACAACAGATCTTGCCTT
* * * *
8492042 TCTGAATCGACAGCGAAGCGGAT
66 CCTGCATTGACAGCGAAGCAGAT
* * * **
8492065 CGAAGACACAAGCCTTGCCTCCCTCAGTTGTAGTGGAGCTGGTTGAAGACAGTAGATCTTGCCTT
1 CGAAGACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGACAACAGATCTTGCCTT
* * *
8492130 CCTGTATCGACAGCGAAGCGGAT
66 CCTGCATTGACAGCGAAGCAGAT
* ** * * * * *
8492153 CAAAGGTACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATTTTGCCTT
1 CGAAGACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGACAACAGATCTTGCCTT
* *
8492218 CCTGCATCGACAGGGAAGCAGAT
66 CCTGCATTGACAGCGAAGCAGAT
*
8492241 CGAAGACACAAGCCTTGCCTC
1 CGAAGACACAAACCTTGCCTC
8492262 CCTCAGCAGT
Statistics
Matches: 904, Mismatches: 83, Indels: 4
0.91 0.08 0.00
Matches are distributed among these distances:
87 2 0.00
88 900 1.00
89 2 0.00
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (88 bp):
CGAAGACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGACAACAGATCTTGCCTT
CCTGCATTGACAGCGAAGCAGAT
Found at i:8492437 original size:116 final size:116
Alignment explanation
Indices: 8492295--8492515 Score: 363
Period size: 116 Copynumber: 1.9 Consensus size: 116
8492285 GTAGATAGTG
* *
8492295 AATCTTATCTTCCCAAGACAGTGGAGAAGCAGATTTAAGCCATTAGTTCTATCTCCCTAAGCAGT
1 AATCTTATCTTCCCAAGACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCTCCCTAAGCAAT
* * **
8492360 AGTGGAGTAGGTTGAAGATTGCAGATTCTGTCA-CCCTAAGTCGAAGATGGT
66 ACTGGAATAGGTCAAAGATTGCAGATTCTGT-ATCCCTAAGTCGAAGATGGT
8492411 AATCTTATCTTCCCAAGACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCTCCCTAAGCAAT
1 AATCTTATCTTCCCAAGACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCTCCCTAAGCAAT
*
8492476 ACTGGAATAGGTCAAAGATTGTAGATTCTGTATCCCTAAG
66 ACTGGAATAGGTCAAAGATTGCAGATTCTGTATCCCTAAG
8492516 CAGTAGTGGA
Statistics
Matches: 97, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
115 1 0.01
116 96 0.99
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.29
Consensus pattern (116 bp):
AATCTTATCTTCCCAAGACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCTCCCTAAGCAAT
ACTGGAATAGGTCAAAGATTGCAGATTCTGTATCCCTAAGTCGAAGATGGT
Found at i:8492705 original size:99 final size:99
Alignment explanation
Indices: 8492534--8493032 Score: 675
Period size: 99 Copynumber: 5.0 Consensus size: 99
8492524 GAGCAAATCA
*
8492534 ACAACGGCGAATCTTACTTCCAAGCGATGCAGC-AGAACAGATTGAAGTCACAACGGCGAATCTT
1 ACAACGGCGAATCTTACTTCCAAGCGATGCAGCGA-AACAGATTGAAGTCACAACGGTGAATCTT
* * *
8492598 GTGTCCCCGACATTGTAATTCAGAAGATTGAAGCC
65 GCGTCCCCGACATTGCAATTCAAAAGATTGAAGCC
* *
8492633 ACAACGGCAAATCTTACTTCCAAGCGATGCAGCGAAATAGATTGAAGTCACAACGGTGAATCTTG
1 ACAACGGCGAATCTTACTTCCAAGCGATGCAGCGAAACAGATTGAAGTCACAACGGTGAATCTTG
* *
8492698 CATCCCCGACATTGCAATTCAAAAGATTGAAGCT
66 CGTCCCCGACATTGCAATTCAAAAGATTGAAGCC
8492732 ACAACGGCGAATCTTACTTCCAAGCGATGCAGCGGAAA-AGATTGAAGTCACAACGGTGAATCTT
1 ACAACGGCGAATCTTACTTCCAAGCGATGCAGC-GAAACAGATTGAAGTCACAACGGTGAATCTT
8492796 GCGTCCCCGACATTGCAATTCAAAAGATTGAAGCC
65 GCGTCCCCGACATTGCAATTCAAAAGATTGAAGCC
* * *
8492831 ACCACGGCGAATCTTACTTCCCAGGCGATGCAGCGAAACAGATTGAAG-CTACGACGGTGAATCT
1 ACAACGGCGAATCTTACTT-CCAAGCGATGCAGCGAAACAGATTGAAGTC-ACAACGGTGAATCT
* * *
8492895 CGCTTCCCCGACATTGCAATTCAAAATATTGAAGCC
64 TGCGTCCCCGACATTGCAATTCAAAAGATTGAAGCC
* * * * * *
8492931 ACAACGGTGAATCTTACCTTCCCAGGCGGTGCCGTGAAACAGATTGAAG-CTACGACGGTGAATC
1 ACAACGGCGAATCTTA-CTT-CCAAGCGATGCAGCGAAACAGATTGAAGTC-ACAACGGTGAATC
* * * *
8492995 TTACTTCCCCGACATTGTAGTT-AAACAGATTGAAGCC
63 TTGCGTCCCCGACATTGCAATTCAAA-AGATTGAAGCC
8493032 A
1 A
8493033 ATAATTCTAT
Statistics
Matches: 366, Mismatches: 27, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
99 203 0.55
100 90 0.25
101 73 0.20
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (99 bp):
ACAACGGCGAATCTTACTTCCAAGCGATGCAGCGAAACAGATTGAAGTCACAACGGTGAATCTTG
CGTCCCCGACATTGCAATTCAAAAGATTGAAGCC
Found at i:8493025 original size:50 final size:49
Alignment explanation
Indices: 8492572--8493030 Score: 306
Period size: 50 Copynumber: 9.2 Consensus size: 49
8492562 GCAGCAGAAC
* * * * *
8492572 AGATTGAAG-TCACAACGGCGAATCTT-GTGTCCCCGACATTGTAATTCAGA
1 AGATTGAAGCT-ACAACGGTGAATCTTACT-TCCCCGACATTGCAGTT-AAA
* ** ** **
8492622 AGATTGAAGCCACAACGGCAAATCTTACTTCCAAG-CGA-TGCAGCGAAA
1 AGATTGAAGCTACAACGGTGAATCTTACTTCCCCGAC-ATTGCAGTTAAA
* * *
8492670 TAGATTGAAG-TCACAACGGTGAATCTTGCATCCCCGACATTGCAATTCAAA
1 -AGATTGAAGCT-ACAACGGTGAATCTTACTTCCCCGACATTGCAGTT-AAA
* ** **
8492721 AGATTGAAGCTACAACGGCGAATCTTACTTCCAAG-CGA-TGCAGCGGAAA
1 AGATTGAAGCTACAACGGTGAATCTTACTTCCCCGAC-ATTGCAG-TTAAA
* * *
8492770 AGATTGAAG-TCACAACGGTGAATCTTGCGTCCCCGACATTGCAATTCAAA
1 AGATTGAAGCT-ACAACGGTGAATCTTACTTCCCCGACATTGCAGTT-AAA
* * * * * **
8492820 AGATTGAAGCCACCACGGCGAATCTTACTTCCCAGGCGA-TGCAGCGAAA
1 AGATTGAAGCTACAACGGTGAATCTTACTTCCCCGAC-ATTGCAGTTAAA
* ** *
8492869 CAGATTGAAGCTACGACGGTGAATCTCGCTTCCCCGACATTGCAATTCAAA
1 -AGATTGAAGCTACAACGGTGAATCTTACTTCCCCGACATTGCAGTT-AAA
* * * * ** * *
8492920 ATATTGAAGCCACAACGGTGAATCTTACCTTCCCAGGCGGTGCCGTGAAA
1 AGATTGAAGCTACAACGGTGAATCTTA-CTTCCCCGACATTGCAGTTAAA
* *
8492970 CAGATTGAAGCTACGACGGTGAATCTTACTTCCCCGACATTGTAGTTAAA
1 -AGATTGAAGCTACAACGGTGAATCTTACTTCCCCGACATTGCAGTTAAA
8493020 CAGATTGAAGC
1 -AGATTGAAGC
8493031 CAATAATTCT
Statistics
Matches: 309, Mismatches: 78, Indels: 44
0.72 0.18 0.10
Matches are distributed among these distances:
48 3 0.01
49 73 0.24
50 188 0.61
51 45 0.15
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.22
Consensus pattern (49 bp):
AGATTGAAGCTACAACGGTGAATCTTACTTCCCCGACATTGCAGTTAAA
Found at i:8493220 original size:44 final size:43
Alignment explanation
Indices: 8493040--8493350 Score: 130
Period size: 44 Copynumber: 7.2 Consensus size: 43
8493030 CCAATAATTC
* * *
8493040 TATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTTAGATCT
1 TATCTCCCTGGTT-GCAGTGGAGTAGATTGAAGATGTCAGATCT
* ** * * * * *
8493084 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGA-ATTT
1 TATCTCCCT-GGTTGCAGTGGAGTAGATTGAAGAT-GTCAGATCT
* * * *
8493128 TACCTCCCTGTGGTTACAGTAGAGTACATTGAAGCCA-GT-A-AT-T
1 TATCTCCC--TGGTTGCAGTGGAGTAGATTGAAG--ATGTCAGATCT
*
8493171 CTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATGTCAGATCT
1 -TATCTCCCTGGTT-GCAGTGGAGTAGATTGAAGATGTCAGATCT
* * * * *
8493216 TATCTCCC----T-AAGTGGAGCAGATTGAACATGACAGATTT
1 TATCTCCCTGGTTGCAGTGGAGTAGATTGAAGATGTCAGATCT
* * *
8493254 TACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCA-GT-A-AT-T
1 TATCTCCCTG-G-TTGCAGTGGAGTAGATTGAAG--ATGTCAGATCT
* * *
8493297 CAATCTCCCTGGTTGGCAGTGGAATAGATTGAAGAT-TACAGATCC
1 -TATCTCCCTGGTT-GCAGTGGAGTAGATTGAAGATGT-CAGATCT
8493342 TATCTCCCT
1 TATCTCCCT
8493351 AAACAGTAGT
Statistics
Matches: 195, Mismatches: 44, Indels: 56
0.66 0.15 0.19
Matches are distributed among these distances:
38 30 0.15
40 1 0.01
41 3 0.02
42 9 0.05
43 36 0.18
44 77 0.39
45 35 0.18
46 2 0.01
47 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (43 bp):
TATCTCCCTGGTTGCAGTGGAGTAGATTGAAGATGTCAGATCT
Found at i:8493224 original size:132 final size:130
Alignment explanation
Indices: 8493023--8493363 Score: 496
Period size: 126 Copynumber: 2.6 Consensus size: 130
8493013 AGTTAAACAG
* *
8493023 ATTGAAGCCAATAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTTAGATCTTATC
1 ATTGAAGCCAGTAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGA-TTCAGATCTTATC
* ** *
8493088 TCCCTAAGCAGTAGTGGAGCAGATCGAAGATG-GTGAATTTTACCTCCCTGTGGTTACAGTAGAG
65 TCCCTAA-CAGTAGTGGAGCAGATCGAACATGACAG-ATTTTACCTCCCTGTGATTACAGTAGAG
8493152 TAC
128 TAC
8493155 ATTGAAGCCAGTAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATGTCAGATCTTATC
1 ATTGAAGCCAGTAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGAT-TCAGATCTTATC
* *
8493220 TCCCT---A--AGTGGAGCAGATTGAACATGACAGATTTTACCTCCCTGTGATTACAGTGGAGTA
65 TCCCTAACAGTAGTGGAGCAGATCGAACATGACAGATTTTACCTCCCTGTGATTACAGTAGAGTA
8493280 C
130 C
* *
8493281 ATTGAAGCCAGTAATTCAATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTACAGATCCTATC
1 ATTGAAGCCAGTAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATT-CAGATCTTATC
8493346 TCCCTAAACAGTAGTGGA
65 TCCCT-AACAGTAGTGGA
8493364 ATAGGTCAAA
Statistics
Matches: 190, Mismatches: 10, Indels: 18
0.87 0.05 0.08
Matches are distributed among these distances:
125 1 0.01
126 113 0.59
127 1 0.01
128 1 0.01
130 1 0.01
131 1 0.01
132 72 0.38
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (130 bp):
ATTGAAGCCAGTAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTCAGATCTTATCT
CCCTAACAGTAGTGGAGCAGATCGAACATGACAGATTTTACCTCCCTGTGATTACAGTAGAGTAC
Found at i:8493376 original size:44 final size:44
Alignment explanation
Indices: 8493314--8493420 Score: 106
Period size: 44 Copynumber: 2.4 Consensus size: 44
8493304 CCTGGTTGGC
** *
8493314 AGTGGAATAGATTGAAGATTACAGATCCTATCTCCCTAAACAGT
1 AGTGGAATAGATCAAAGATTACAAATCCTATCTCCCTAAACAGT
* * * * * *
8493358 AGTGGAATAGGTCAAAGATTGCAAATTCTGTCTCCTTAAGCAGT
1 AGTGGAATAGATCAAAGATTACAAATCCTATCTCCCTAAACAGT
***
8493402 AGTGGTGCAGATCAAAGAT
1 AGTGGAATAGATCAAAGAT
8493421 GGTGAATCTT
Statistics
Matches: 50, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (44 bp):
AGTGGAATAGATCAAAGATTACAAATCCTATCTCCCTAAACAGT
Found at i:8495053 original size:3 final size:3
Alignment explanation
Indices: 8495045--8495078 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
8495035 ATATTTTAGC
* *
8495045 ATT ATT ATT ATT ATT ATT GTT ATT GTT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
8495079 CCTACTTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:8495462 original size:18 final size:17
Alignment explanation
Indices: 8495439--8495477 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
8495429 TGCTTTAATT
*
8495439 TTTTATTTGTTTATTTAC
1 TTTTATTTGTTGATTT-C
8495457 TTTTATTTGTTGATTTC
1 TTTTATTTGTTGATTTC
8495474 TTTT
1 TTTT
8495478 CATTATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.13, C:0.05, G:0.08, T:0.74
Consensus pattern (17 bp):
TTTTATTTGTTGATTTC
Found at i:8495783 original size:110 final size:109
Alignment explanation
Indices: 8495593--8495908 Score: 444
Period size: 110 Copynumber: 2.9 Consensus size: 109
8495583 ACGAAAAATT
8495593 TTTC-AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
* * *
8495657 CGATTTTTCTCGTTCAATCAAATGGCTTAATATCCTTTTAAAAAA
66 CGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTT-AAAAA
*
8495702 TTT-AAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCTTAAGGTGCTGGGTG
1 TTTCAAAATAAGGCAATGTTTTGCGTTT-GGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTG
8495766 TCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTAAAAA
65 TCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTAAAAA
* * * ** * *
8495811 TTTCAAAATAAGGCAATGTTTTGTGTTTGGAAATTTGAG-GAATGTACCCTAAGGTGCTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
* * * *
8495875 CGA--TTTCTCGTTTAACCAAATAGCCAAATATCCT
66 CGATTTTTCTCATTCAACCAAATGGCTAAATATCCT
8495909 CTCGAATTTC
Statistics
Matches: 188, Mismatches: 16, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
106 27 0.14
108 22 0.12
109 44 0.23
110 95 0.51
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (109 bp):
TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
CGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTAAAAA
Found at i:8496333 original size:18 final size:18
Alignment explanation
Indices: 8496310--8496358 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 18
8496300 TATTTGATTT
8496310 TATTCATTTTTATTATTG
1 TATTCATTTTTATTATTG
*
8496328 TATTCA-TTATATTATTG
1 TATTCATTTTTATTATTG
8496345 ---TCATTTTTATTATT
1 TATTCATTTTTATTATT
8496359 TATGGCATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
14 3 0.11
15 9 0.32
17 10 0.36
18 6 0.21
ACGTcount: A:0.24, C:0.06, G:0.04, T:0.65
Consensus pattern (18 bp):
TATTCATTTTTATTATTG
Found at i:8504638 original size:94 final size:93
Alignment explanation
Indices: 8504477--8505267 Score: 701
Period size: 94 Copynumber: 8.4 Consensus size: 93
8504467 GGTGACTCCC
* * * ** * * *
8504477 ATATCCCTGAAGGTGCAGTGGAT-CAGATCAAAGTTACAAGGGCGAGTCTTATCTCTCTGAAGTT
1 ATATCCCTGAAGTTGCAGTGGATGGA-ATGAAA-TTACAATAGCAAATCTTATCTCCCTGAAGTT
* * *
8504541 GTAGTGGAGCAAGACGAATCTACAAATTCT
64 GTAGTGGAGCAAGATGAAGCTACAAATCCT
* * ** *
8504571 ATATCCCTGAAGTTGCAGTGGAATGGATTGAAATTACAGTAGCAAAT-TCTATCTAACTGAAATT
1 ATATCCCTGAAGTTGCAGTGG-ATGGAATGAAATTACAATAGCAAATCT-TATCTCCCTGAAGTT
* *
8504635 GTAGTGGAGCAAGGTAAAGCTACAAATCCT
64 GTAGTGGAGCAAGATGAAGCTACAAATCCT
** * * * * * * * *
8504665 ATATCTTTGAAGATGCAGTGAATCGAATCAAAGTTTCAATGGCGAATTTTATCTCCCTGAAGTTG
1 ATATCCCTGAAGTTGCAGTGGATGGAATGAAA-TTACAATAGCAAATCTTATCTCCCTGAAGTTG
* * * * *
8504730 CAATGAAGCAAGATGAAGCTATAAATCAT
65 TAGTGGAGCAAGATGAAGCTACAAATCCT
* * * * * * * *
8504759 ATACCCCTAAAGTTGTAGCGGGTTGGAATGAAACTACAATAGCAAACCTTATCTCCCTAAAGTTG
1 ATATCCCTGAAGTTGCAG-TGGATGGAATGAAATTACAATAGCAAATCTTATCTCCCTGAAGTTG
* * * *
8504824 CAGTGGAGCAAGGTAAAGCTACAAATCCA
65 TAGTGGAGCAAGATGAAGCTACAAATCCT
* * * **
8504853 ATATCCCTGAAGATGCAGTGGATCGG-ATCAAAGTTACAATGGTGAATCTTATCTCCCTGAAGTT
1 ATATCCCTGAAGTTGCAGTGGAT-GGAATGAAA-TTACAATAGCAAATCTTATCTCCCTGAAGTT
8504917 GTAGTGGAGCAAGATGAAGCTACAAATCCT
64 GTAGTGGAGCAAGATGAAGCTACAAATCCT
* * * * **
8504947 ATACCCCTGAAGTTGCAGTAGGTTGGAATGAAACTATAATAGCAAATCTTATCTCTATGAAGTTG
1 ATATCCCTGAAGTTGCAGT-GGATGGAATGAAATTACAATAGCAAATCTTATCTCCCTGAAGTTG
* *
8505012 TAGTGGAGCAAAATGAAGCTACATATCCT
65 TAGTGGAGCAAGATGAAGCTACAAATCCT
* * * * * *
8505041 ATA-CCCTTGAAGTTGTAGTGGGTCGGAA-GAAAGCTACAATGGTAAATCTTATCTCTCTGAAGT
1 ATATCCC-TGAAGTTGCAGTGGAT-GGAATGAAA-TTACAATAGCAAATCTTATCTCCCTGAAGT
* *
8505104 TGCAATGGAGCAAGATGAAGCTACAAATCCT
63 TGTAGTGGAGCAAGATGAAGCTACAAATCCT
* * * * * * * *
8505135 ATACCCCTGAAGTTGTAGTGGGTCGGAATAAAACTATAATGGAAAATCTTATCTCCCTGAAGTTG
1 ATATCCCTGAAGTTGCAGTGGAT-GGAATGAAATTACAATAGCAAATCTTATCTCCCTGAAGTTG
*
8505200 TAGTGGAGCAAGATGAAGCTACAAGTCCT
65 TAGTGGAGCAAGATGAAGCTACAAATCCT
* * * * *
8505229 ATACCCCTGAAGTTGTAGTGGGTCAGAATAAAATTACAA
1 ATATCCCTGAAGTTGCAGTGGAT-GGAATGAAATTACAA
8505268 ATCCTATATC
Statistics
Matches: 569, Mismatches: 113, Indels: 30
0.80 0.16 0.04
Matches are distributed among these distances:
93 27 0.05
94 511 0.90
95 30 0.05
96 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (93 bp):
ATATCCCTGAAGTTGCAGTGGATGGAATGAAATTACAATAGCAAATCTTATCTCCCTGAAGTTGT
AGTGGAGCAAGATGAAGCTACAAATCCT
Found at i:8504831 original size:188 final size:188
Alignment explanation
Indices: 8504477--8505267 Score: 872
Period size: 188 Copynumber: 4.2 Consensus size: 188
8504467 GGTGACTCCC
* * * * *
8504477 ATATCCCTGAAGGTGCAGTGGATC-AGATCAAAGTTACAAGGGCGAGTCTTATCTCTCTGAAGTT
1 ATATCCTTGAAGATGCAGTGGATCGA-ATCAAAGTTACAATGGCGAATCTTATCTCCCTGAAGTT
* * * * * * ** * *
8504541 GTAGTGGAGCAAGACGAATCTACAAATTCTATATCCCTGAAGTTGCAGTGGAATGGATTGAAATT
65 GCAATGGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTTGGAATGAAACT
* ** *
8504606 ACAGTAGCAAAT-TCTATCTAACTGAAA-TTGTAGTGGAGCAAGGTAAAGCTACAAATCCT
130 ACAATAGCAAATCT-TATCTCCCT-AAAGTTGTAGTGGAGCAAGATAAAGCTACAAATCCT
* * * *
8504665 ATATCTTTGAAGATGCAGTGAATCGAATCAAAGTTTCAATGGCGAATTTTATCTCCCTGAAGTTG
1 ATATCCTTGAAGATGCAGTGGATCGAATCAAAGTTACAATGGCGAATCTTATCTCCCTGAAGTTG
* * * * * *
8504730 CAATGAAGCAAGATGAAGCTATAAATCATATACCCCTAAAGTTGTAGCGGGTTGGAATGAAACTA
66 CAATGGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTTGGAATGAAACTA
* * * *
8504795 CAATAGCAAACCTTATCTCCCTAAAGTTGCAGTGGAGCAAGGTAAAGCTACAAATCCA
131 CAATAGCAAATCTTATCTCCCTAAAGTTGTAGTGGAGCAAGATAAAGCTACAAATCCT
* * *
8504853 ATATCCCTGAAGATGCAGTGGATCGGATCAAAGTTACAATGGTGAATCTTATCTCCCTGAAGTTG
1 ATATCCTTGAAGATGCAGTGGATCGAATCAAAGTTACAATGGCGAATCTTATCTCCCTGAAGTTG
* * *
8504918 TAGTGGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTAGGTTGGAATGAAACTA
66 CAATGGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTTGGAATGAAACTA
* ** * * * *
8504983 TAATAGCAAATCTTATCTCTATGAAGTTGTAGTGGAGCAAAATGAAGCTACATATCCT
131 CAATAGCAAATCTTATCTCCCTAAAGTTGTAGTGGAGCAAGATAAAGCTACAAATCCT
* * * * * * ** *
8505041 ATACCCTTGAAGTTGTAGTGGGTCGGAA-GAAAGCTACAATGGTAAATCTTATCTCTCTGAAGTT
1 ATATCCTTGAAGATGCAGTGGATC-GAATCAAAGTTACAATGGCGAATCTTATCTCCCTGAAGTT
* * *
8505105 GCAATGGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTGTAGTGGGTCGGAATAAAACT
65 GCAATGGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTTGGAATGAAACT
* * * * * *
8505170 ATAATGGAAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAAGATGAAGCTACAAGTCCT
130 ACAATAGCAAATCTTATCTCCCTAAAGTTGTAGTGGAGCAAGATAAAGCTACAAATCCT
* * * * * *
8505229 ATACCCCTGAAGTTGTAGTGGGTCAGAAT-AAAATTACAA
1 ATATCCTTGAAGATGCAGTGGATC-GAATCAAAGTTACAA
8505268 ATCCTATATC
Statistics
Matches: 513, Mismatches: 85, Indels: 10
0.84 0.14 0.02
Matches are distributed among these distances:
187 3 0.01
188 506 0.99
189 4 0.01
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (188 bp):
ATATCCTTGAAGATGCAGTGGATCGAATCAAAGTTACAATGGCGAATCTTATCTCCCTGAAGTTG
CAATGGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTTGGAATGAAACTA
CAATAGCAAATCTTATCTCCCTAAAGTTGTAGTGGAGCAAGATAAAGCTACAAATCCT
Found at i:8504941 original size:50 final size:48
Alignment explanation
Indices: 8504806--8505223 Score: 170
Period size: 50 Copynumber: 8.9 Consensus size: 48
8504796 AATAGCAAAC
* * * *
8504806 CTTATCTCCCTAAAGTTGCAGTGGAGCAAGGTAAAGCTAC-A---AAT
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAAGATGAAGCTACAATGTAAT
** * * * * * * *
8504850 CCAATATCCCTGAAGATGCAGTGGATC-GGATCAAAGTTACAATGGTGAAT
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAAGAT-GAAGCTACAAT-GT-AAT
8504900 CTTATCTCCCTGAAGTTGTAGTGGAGCAAGATGAAGCTAC-A---AAT
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAAGATGAAGCTACAATGTAAT
* * * * * * *
8504944 CCTATAC-CCCTGAAGTTGCAGTAGGTTG-GA-ATGAAACTATAATAGCAAAT
1 CTTAT-CTCCCTGAAGTTGTAGT-GG-AGCAAGATGAAGCTACAAT-G-TAAT
** *
8504994 CTTATCTCTATGAAGTTGTAGTGGAGCAAAATGAAGCTAC-A--T-AT
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAAGATGAAGCTACAATGTAAT
* *
8505038 CCTATAC-CCTTGAAGTTGTAGTGG-GTCGGAAGA--AAGCTACAATGGTAAAT
1 CTTAT-CTCCCTGAAGTTGTAGTGGAG-C--AAGATGAAGCTACAAT-GT-AAT
* * *
8505088 CTTATCTCTCTGAAGTTGCAATGGAGCAAGATGAAGCTAC-A---AAT
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAAGATGAAGCTACAATGTAAT
* * * * * *
8505132 CCTATAC-CCCTGAAGTTGTAGTGG-GTC-GGAATAAAACTATAATGGAAAAT
1 CTTAT-CTCCCTGAAGTTGTAGTGGAG-CAAG-ATGAAGCTACAAT-G-TAAT
8505182 CTTATCTCCCTGAAGTTGTAGTGGAGCAAGATGAAGCTACAA
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAAGATGAAGCTACAA
8505224 GTCCTATACC
Statistics
Matches: 273, Mismatches: 55, Indels: 86
0.66 0.13 0.21
Matches are distributed among these distances:
43 5 0.02
44 115 0.42
45 10 0.04
46 4 0.01
48 6 0.02
49 9 0.03
50 118 0.43
51 6 0.02
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (48 bp):
CTTATCTCCCTGAAGTTGTAGTGGAGCAAGATGAAGCTACAATGTAAT
Found at i:8505030 original size:282 final size:280
Alignment explanation
Indices: 8504524--8505248 Score: 819
Period size: 282 Copynumber: 2.6 Consensus size: 280
8504514 AAGGGCGAGT
* * * *
8504524 CTTATCTCTCTGAAGTTGTAGTGGAGCAAGACGAATCTACAAATTCTATATCCCTGAAGTTGCAG
1 CTTATCTCTCTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATATCCCTGAAGTTGCAG
* * * ** * * *
8504589 TGGAAT-GGATTGAAATTACAGTAGCAAAT-TCTATCTAACTGAAATTGTAGTGGAGCAAGGTAA
66 TGG-ATCGGA-T-AAATTACAATGGAAAATCT-TATCTCCCTGAAGTTGTAGTGGAGCAAGATGA
* ** * * * * * *
8504652 AGCTACAAATCCTATATCTTTGAAGATGCAGTGAATCGAATCAAAGTTTCAATGGCGAATTTTAT
127 AGCTACAAATCCTATACCCCTGAAGTTGCAGTGAATCGAATCAAACTATCAATAGCAAATCTTAT
* * *
8504717 CTCCCTGAAGTTGCAATGAAGCAAGATGAAGCTATAAATCATATACCCCTAAAGTTGTAGCGGGT
192 CTCCATGAAGTTGCAATGAAGCAAAATGAAGCTACAAATCATATACCCCTAAAGTTGTAGCGGGT
*
8504782 TGGAATGAAA-CTACAATAGCAAAC
257 CGGAA-GAAAGCTACAATAGCAAAC
* * * * * *
8504806 CTTATCTCCCTAAAGTTGCAGTGGAGCAAGGTAAAGCTACAAATCCAATATCCCTGAAGATGCAG
1 CTTATCTCTCTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATATCCCTGAAGTTGCAG
**
8504871 TGGATCGGATCAAAGTTACAATGGTGAATCTTATCTCCCTGAAGTTGTAGTGGAGCAAGATGAAG
66 TGGATCGGAT-AAA-TTACAATGGAAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAAGATGAAG
** * *
8504936 CTACAAATCCTATACCCCTGAAGTTGCAGTAGGTTGGAATGAAACTAT-AATAGCAAATCTTATC
129 CTACAAATCCTATACCCCTGAAGTTGCAGT-GAATCGAATCAAACTATCAATAGCAAATCTTATC
* * * * * * * * *
8505000 TCTATGAAGTTGTAGTGGAGCAAAATGAAGCTACATATCCTATACCCTTGAAGTTGTAGTGGGTC
193 TCCATGAAGTTGCAATGAAGCAAAATGAAGCTACAAATCATATACCCCTAAAGTTGTAGCGGGTC
* * *
8505065 GGAAGAAAGCTACAATGGTAAAT
258 GGAAGAAAGCTACAATAGCAAAC
* * *
8505088 CTTATCTCTCTGAAGTTGCAATGGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTGTAG
1 CTTATCTCTCTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATATCCCTGAAGTTGCAG
* * *
8505153 TGGGTCGGAATAAAACTATAATGGAAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAAGATGAAG
66 TGGATCGG-AT-AAATTACAATGGAAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAAGATGAAG
* *
8505218 CTACAAGTCCTATACCCCTGAAGTTGTAGTG
129 CTACAAATCCTATACCCCTGAAGTTGCAGTG
8505249 GGTCAGAATA
Statistics
Matches: 371, Mismatches: 66, Indels: 13
0.82 0.15 0.03
Matches are distributed among these distances:
281 11 0.03
282 343 0.92
283 17 0.05
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (280 bp):
CTTATCTCTCTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATATCCCTGAAGTTGCAG
TGGATCGGATAAATTACAATGGAAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAAGATGAAGCT
ACAAATCCTATACCCCTGAAGTTGCAGTGAATCGAATCAAACTATCAATAGCAAATCTTATCTCC
ATGAAGTTGCAATGAAGCAAAATGAAGCTACAAATCATATACCCCTAAAGTTGTAGCGGGTCGGA
AGAAAGCTACAATAGCAAAC
Found at i:8505147 original size:44 final size:44
Alignment explanation
Indices: 8504907--8505249 Score: 186
Period size: 44 Copynumber: 7.4 Consensus size: 44
8504897 AATCTTATCT
8504907 CCCTGAAGTTGTAGTGGAGCAAGATGAAGCTACAAATCCTATAC
1 CCCTGAAGTTGTAGTGGAGCAAGATGAAGCTACAAATCCTATAC
* * *
8504951 CCCTGAAGTTGCAGTAGGTTGGAATGAAACTAT-AA--TAGCAAATCTTAT-C
1 CCCTGAAGTT---GTA-G-TGG-A-GCAA-GATGAAGCTA-CAAATCCTATAC
** * *
8505000 TCTATGAAGTTGTAGTGGAGCAAAATGAAGCTACATATCCTATAC
1 -CCCTGAAGTTGTAGTGGAGCAAGATGAAGCTACAAATCCTATAC
* *
8505045 CCTTGAAGTTGTAGTGG-GTCGGAAGA--AAGCTACAATGGTAAATCTTAT-C
1 CCCTGAAGTTGTAGTGGAG-C--AAGATGAAGCTAC------AAATCCTATAC
* * *
8505094 TCTCTGAAGTTGCAATGGAGCAAGATGAAGCTACAAATCCTATAC
1 -CCCTGAAGTTGTAGTGGAGCAAGATGAAGCTACAAATCCTATAC
* * * * *
8505139 CCCTGAAGTTGTAGTGG-GTC-GGAATAAAACTATAATGGAAAATCTTAT-C
1 CCCTGAAGTTGTAGTGGAG-CAAG-ATGAAGC--T-A---CAAATCCTATAC
*
8505188 TCCCTGAAGTTGTAGTGGAGCAAGATGAAGCTACAAGTCCTATAC
1 -CCCTGAAGTTGTAGTGGAGCAAGATGAAGCTACAAATCCTATAC
8505233 CCCTGAAGTTGTAGTGG
1 CCCTGAAGTTGTAGTGG
8505250 GTCAGAATAA
Statistics
Matches: 226, Mismatches: 33, Indels: 80
0.67 0.10 0.24
Matches are distributed among these distances:
42 2 0.01
43 8 0.04
44 94 0.42
45 8 0.04
46 5 0.02
47 8 0.04
48 6 0.03
49 8 0.04
50 77 0.34
51 8 0.04
52 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (44 bp):
CCCTGAAGTTGTAGTGGAGCAAGATGAAGCTACAAATCCTATAC
Found at i:8505267 original size:44 final size:44
Alignment explanation
Indices: 8505125--8505280 Score: 138
Period size: 44 Copynumber: 3.4 Consensus size: 44
8505115 AAGATGAAGC
*
8505125 TACAAATCCTATACCCCTGAAGTTGTAGTGGGTCGGAATAAAACT
1 TACAAATCCTATACCCCTGAAGTTGTAGTGGGTCAGAATAAAA-T
* * * **
8505170 ATAATGGAAAATCTTAT-CTCCCTGAAGTTGTAGTGGAG-CA-AGATGAAGC
1 -T-A---CAAATCCTATAC-CCCTGAAGTTGTAGTGG-GTCAGA-ATAAAAT
*
8505219 TACAAGTCCTATACCCCTGAAGTTGTAGTGGGTCAGAATAAAAT
1 TACAAATCCTATACCCCTGAAGTTGTAGTGGGTCAGAATAAAAT
*
8505263 TACAAATCCTATATCCCT
1 TACAAATCCTATACCCCT
8505281 AAAATTATAG
Statistics
Matches: 86, Mismatches: 14, Indels: 22
0.70 0.11 0.18
Matches are distributed among these distances:
43 1 0.01
44 46 0.53
45 2 0.02
46 1 0.01
47 2 0.02
48 1 0.01
49 2 0.02
50 30 0.35
51 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (44 bp):
TACAAATCCTATACCCCTGAAGTTGTAGTGGGTCAGAATAAAAT
Found at i:8508542 original size:2 final size:2
Alignment explanation
Indices: 8508535--8508564 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
8508525 TAACTCAAAT
8508535 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
8508565 ATAACATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8509839 original size:30 final size:30
Alignment explanation
Indices: 8509803--8509860 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
8509793 AGGTGAGATG
*
8509803 GGAAGGGAATAAAAGTTTTAGGGGAAAAGT
1 GGAAGGGAATAAAAATTTTAGGGGAAAAGT
* *
8509833 GGAAGGGAGTAAAAATTTTGGGGGAAAA
1 GGAAGGGAATAAAAATTTTAGGGGAAAA
8509861 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.43, C:0.00, G:0.38, T:0.19
Consensus pattern (30 bp):
GGAAGGGAATAAAAATTTTAGGGGAAAAGT
Found at i:8510091 original size:9 final size:9
Alignment explanation
Indices: 8510077--8510111 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
8510067 TAGTTTGATG
8510077 TTCGAATTA
1 TTCGAATTA
8510086 TTCGAATTA
1 TTCGAATTA
*
8510095 TTCGAGTTA
1 TTCGAATTA
8510104 TTCGAATT
1 TTCGAATT
8510112 CGAAAACTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.29, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TTCGAATTA
Found at i:8511079 original size:18 final size:17
Alignment explanation
Indices: 8511048--8511082 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
8511038 GATTTAGGGT
8511048 TTAAATTTTTTAATTAA
1 TTAAATTTTTTAATTAA
8511065 TTAAATTTATTTAATTAA
1 TTAAATTT-TTTAATTAA
8511083 AAATCAATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTAAATTTTTTAATTAA
Found at i:8511372 original size:19 final size:19
Alignment explanation
Indices: 8511348--8511388 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
8511338 TATGATTTTA
8511348 AATTATTA-AAAATAATATT
1 AATTATTATAAAA-AATATT
*
8511367 AATTATTATAAAAATTATT
1 AATTATTATAAAAAATATT
8511386 AAT
1 AAT
8511389 AAAACTTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
AATTATTATAAAAAATATT
Found at i:8515717 original size:16 final size:16
Alignment explanation
Indices: 8515696--8515779 Score: 150
Period size: 16 Copynumber: 5.2 Consensus size: 16
8515686 TTTGGTTCGC
8515696 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
8515712 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGG
*
8515728 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGG
8515744 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
8515760 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
8515776 TGTA
1 TGTA
8515780 ATAGCTAATC
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 66 1.00
ACGTcount: A:0.27, C:0.00, G:0.35, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:8516590 original size:120 final size:120
Alignment explanation
Indices: 8516377--8516620 Score: 470
Period size: 120 Copynumber: 2.0 Consensus size: 120
8516367 NNNNNNNNNT
8516377 ATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATTAATTTAC
1 ATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATTAATTTAC
*
8516442 TCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAAA
66 TCAAATCATAATACATGATACTGTAAAATATAAATTAACATAATTATTATTAAAA
8516497 ATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATTAATTTAC
1 ATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATTAATTTAC
*
8516562 TCAAATCATAATACATGATACTGTAAAATATAAATTAACATAATTATTATTAAAT
66 TCAAATCATAATACATGATACTGTAAAATATAAATTAACATAATTATTATTAAAA
8516617 ATAT
1 ATAT
8516621 AACTTGAAAA
Statistics
Matches: 122, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 122 1.00
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (120 bp):
ATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATTAATTTAC
TCAAATCATAATACATGATACTGTAAAATATAAATTAACATAATTATTATTAAAA
Found at i:8520402 original size:15 final size:15
Alignment explanation
Indices: 8520382--8520412 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
8520372 ATATTATGTA
*
8520382 TAATTGACGTAAAAT
1 TAATTGACCTAAAAT
8520397 TAATTGACCTAAAAT
1 TAATTGACCTAAAAT
8520412 T
1 T
8520413 TGAAGGTTGG
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:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (15 bp):
TAATTGACCTAAAAT
Found at i:8529359 original size:18 final size:19
Alignment explanation
Indices: 8529336--8529371 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
8529326 CCCTCGTTTT
8529336 CTTTTCTTTTT-TTCTTTC
1 CTTTTCTTTTTCTTCTTTC
8529354 CTTTTCTTTTTCTTCTTT
1 CTTTTCTTTTTCTTCTTT
8529372 TCAATCTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (19 bp):
CTTTTCTTTTTCTTCTTTC
Found at i:8540061 original size:17 final size:18
Alignment explanation
Indices: 8540039--8540080 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
8540029 GTTTAGAAAT
8540039 TATTTTTATCA-T-ACTAA
1 TATTTTTAT-AGTAACTAA
8540056 TATTTTTTATAGTAACTAA
1 TA-TTTTTATAGTAACTAA
8540075 TATTTT
1 TATTTT
8540081 AAAAAATGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 3 0.14
18 12 0.55
19 7 0.32
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.57
Consensus pattern (18 bp):
TATTTTTATAGTAACTAA
Found at i:8543210 original size:5 final size:5
Alignment explanation
Indices: 8543200--8543228 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
8543190 TCTTGTAAAT
8543200 ATTTG ATTTG ATTTG ATTTG ATTTG ATTT
1 ATTTG ATTTG ATTTG ATTTG ATTTG ATTT
8543229 AATGTAACGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.17, T:0.62
Consensus pattern (5 bp):
ATTTG
Found at i:8549767 original size:54 final size:55
Alignment explanation
Indices: 8549694--8549799 Score: 142
Period size: 54 Copynumber: 1.9 Consensus size: 55
8549684 AACAGGGGCA
* * * *
8549694 TGTGTCCAGACCATGTAACTCTTTGACTTCAGTCACACGAGCATGTGTCAGGCCG
1 TGTGTCCAGACCATATAACTCTCTGACTTCAGTCACACGACCATGTGCCAGGCCG
* **
8549749 TGTG-CCAGACCGTATAACTCTCTGACTTGGGTCACACGACCATGTGCCAGG
1 TGTGTCCAGACCATATAACTCTCTGACTTCAGTCACACGACCATGTGCCAGG
8549800 AAATGTGAGG
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
54 40 0.91
55 4 0.09
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (55 bp):
TGTGTCCAGACCATATAACTCTCTGACTTCAGTCACACGACCATGTGCCAGGCCG
Found at i:8550402 original size:22 final size:22
Alignment explanation
Indices: 8550376--8550420 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
8550366 GGGGTTAAGA
* *
8550376 CTCTGAATCTGAATTTGATATG
1 CTCTGAATCTAAATCTGATATG
* *
8550398 CTCTGTATTTAAATCTGATATG
1 CTCTGAATCTAAATCTGATATG
8550420 C
1 C
8550421 ACTACATTCG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.42
Consensus pattern (22 bp):
CTCTGAATCTAAATCTGATATG
Found at i:8552538 original size:42 final size:42
Alignment explanation
Indices: 8552478--8552587 Score: 123
Period size: 42 Copynumber: 2.6 Consensus size: 42
8552468 CATGACCAGG
* * * * * *
8552478 GACATGGACGTGTGCCCAAGCCGTGTGGGCCATATGGGCAAA
1 GACATGGGCGTGTTCCCAAGCTGTGTGAGCCATACGAGCAAA
** *
8552520 GACATGGGCGTGTTCCCAAGCTGCATGAGCCATACGAGCAAG
1 GACATGGGCGTGTTCCCAAGCTGTGTGAGCCATACGAGCAAA
8552562 GACATGGGCGTGTGT-CCAAGCTGTGT
1 GACATGGGCGTGT-TCCCAAGCTGTGT
8552588 AACTCACTAT
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 55 0.98
43 1 0.02
ACGTcount: A:0.23, C:0.24, G:0.35, T:0.19
Consensus pattern (42 bp):
GACATGGGCGTGTTCCCAAGCTGTGTGAGCCATACGAGCAAA
Found at i:8552636 original size:146 final size:146
Alignment explanation
Indices: 8552371--8552650 Score: 391
Period size: 146 Copynumber: 1.9 Consensus size: 146
8552361 CCACACGAAA
* ** * *
8552371 AAAGACATGGACGTGTGCCCAGGCCGTGTGAGCCACACGGGCAAGGACATGGGCCTGTGTCCAGG
1 AAAGACATGGACGTGTGCCCAAGCCGCATGAGCCACACGAGCAAGGACATGGGCCTGTGTCCAAG
* * *
8552436 CTGTATAACTCACTATTTATGATTTCAGACCACATGACCAGGGACATGGACGTGTGCCCAAGCCG
66 CTGTATAACTCACTATTTATGATTTAAGACCACACGACCAAGGACATGGACGTGTGCCCAAGCCG
8552501 TGTGGGCCATATGGGC
131 TGTGGGCCATATGGGC
* * * * *
8552517 AAAGACATGGGCGTGTTCCCAAGCTGCATGAGCCATACGAGCAAGGACATGGGCGTGTGTCCAAG
1 AAAGACATGGACGTGTGCCCAAGCCGCATGAGCCACACGAGCAAGGACATGGGCCTGTGTCCAAG
* * * *
8552582 CTGTGTAACTCACTATTTATGATTTAAGACCACACGACTAAGGACATAGG-CGTGTGCCCAGGTC
66 CTGTATAACTCACTATTTATGATTTAAGACCACACGACCAAGGACAT-GGACGTGTGCCCAAGCC
8552646 GTGTG
130 GTGTG
8552651 AACCACACAA
Statistics
Matches: 116, Mismatches: 17, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
146 114 0.98
147 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.30, T:0.21
Consensus pattern (146 bp):
AAAGACATGGACGTGTGCCCAAGCCGCATGAGCCACACGAGCAAGGACATGGGCCTGTGTCCAAG
CTGTATAACTCACTATTTATGATTTAAGACCACACGACCAAGGACATGGACGTGTGCCCAAGCCG
TGTGGGCCATATGGGC
Found at i:8556438 original size:27 final size:27
Alignment explanation
Indices: 8556399--8556854 Score: 516
Period size: 27 Copynumber: 17.2 Consensus size: 27
8556389 AGAGGTCAAT
* *
8556399 AAATGATCGAAATACCCCCATAAGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
*
8556426 AAATGACCAAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
*
8556453 AAATGACCGAAA-ACCCTCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
8556479 AAATTATCGAAATACCCCCATAGGATA
1 AAATGACCGAAATACCCCCATAGGGTA
*
8556506 AAATGATCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
8556533 AAATGACCAAAATACCCCCATAGAGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
8556560 AAATGACTGAAATACCCTCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
8556587 AAATGACCAAAATACCCCCATAAGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* ** * *
8556614 AAATAATTGAAATACTCTCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
**
8556641 AAATGACCGAAATATTCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * * * * *
8556668 AAATAATCAAAATACCTCCATAAGTTA
1 AAATGACCGAAATACCCCCATAGGGTA
8556695 AAATGACCGAAATA-----A-A--GTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
8556714 AAATGACTGAAATACCCCCATAGGATA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
8556741 AAATAACTGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
*
8556768 AAATAACCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
8556795 GAATAACCGAAATACCCCAATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
8556822 AAATGATCGAAACACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
8556849 AAATGA
1 AAATGA
8556855 TTGTTATACC
Statistics
Matches: 362, Mismatches: 58, Indels: 18
0.83 0.13 0.04
Matches are distributed among these distances:
19 15 0.04
21 1 0.00
22 1 0.00
24 1 0.00
25 1 0.00
26 23 0.06
27 320 0.88
ACGTcount: A:0.45, C:0.21, G:0.15, T:0.19
Consensus pattern (27 bp):
AAATGACCGAAATACCCCCATAGGGTA
Found at i:8556762 original size:73 final size:73
Alignment explanation
Indices: 8556638--8556781 Score: 191
Period size: 73 Copynumber: 2.0 Consensus size: 73
8556628 CTCTCATAGG
** * * * *
8556638 GTAAAATGACCGAAATATTCCCATAGGGTAAAATAATCAAAATACCTCCATAAGTTAAAATGACC
1 GTAAAATGACCGAAATACCCCCATAGGATAAAATAATCAAAATACCCCCATAAGGTAAAATAACC
8556703 GAAATAAA
66 GAAATAAA
* * *
8556711 GTAAAATGACTGAAATACCCCCATAGGATAAAATAA-CTGAAATACCCCCATAGGGTAAAATAAC
1 GTAAAATGACCGAAATACCCCCATAGGATAAAATAATC-AAAATACCCCCATAAGGTAAAATAAC
8556775 CGAAATA
65 CGAAATA
8556782 CCCCCATAGG
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
72 1 0.02
73 60 0.98
ACGTcount: A:0.49, C:0.18, G:0.13, T:0.20
Consensus pattern (73 bp):
GTAAAATGACCGAAATACCCCCATAGGATAAAATAATCAAAATACCCCCATAAGGTAAAATAACC
GAAATAAA
Found at i:8556779 original size:127 final size:127
Alignment explanation
Indices: 8556584--8556833 Score: 342
Period size: 127 Copynumber: 2.0 Consensus size: 127
8556574 CCCTCATAGG
* * * *
8556584 GTAAAATGACCAAAATACCCCCATAAGGTAAAATAATTGAAATACTCTCATAGGGTAAAATGACC
1 GTAAAATGACCAAAATACCCCCATAAGGTAAAATAACTGAAATACCCCCATAGGGTAAAATAACC
** * *
8556649 GAAATATTCCCATAGGGTAAAATAATCAAAATACCTCC-ATAAGTTAAAATGACCGAAATAAA
66 GAAATACCCCCATAGGGTAAAATAACCAAAATACC-CCAATAAGGTAAAATGACCGAAATAAA
**
8556711 GTAAAATGACTGAAATACCCCCAT-AGGATAAAATAACTGAAATACCCCCATAGGGTAAAATAAC
1 GTAAAATGACCAAAATACCCCCATAAGG-TAAAATAACTGAAATACCCCCATAGGGTAAAATAAC
* * * *
8556775 CGAAATACCCCCATAGGGTAGAATAACCGAAATACCCCAATAGGGTAAAATGATCGAAA
65 CGAAATACCCCCATAGGGTAAAATAACCAAAATACCCCAATAAGGTAAAATGACCGAAA
8556834 CACCCCCATA
Statistics
Matches: 107, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
126 5 0.05
127 102 0.95
ACGTcount: A:0.47, C:0.19, G:0.14, T:0.20
Consensus pattern (127 bp):
GTAAAATGACCAAAATACCCCCATAAGGTAAAATAACTGAAATACCCCCATAGGGTAAAATAACC
GAAATACCCCCATAGGGTAAAATAACCAAAATACCCCAATAAGGTAAAATGACCGAAATAAA
Found at i:8556789 original size:100 final size:100
Alignment explanation
Indices: 8556606--8556808 Score: 253
Period size: 100 Copynumber: 2.0 Consensus size: 100
8556596 AAATACCCCC
* * * * * * **
8556606 ATAAGGTAAAATAATTGAAATACTCTCATAGGGTAAAATGACCGAAATATTCCCATAGGGTAAAA
1 ATAAAGTAAAATAACTGAAATACCCCCATAGGATAAAATAACCGAAATACCCCCATAGGGTAAAA
* * * *
8556671 TAATCAAAATACCTCCATAAGTTAAAATGACCGAA
66 TAACCAAAATACCCCCATAAGGTAAAATAACCGAA
* *
8556706 ATAAAGTAAAATGACTGAAATACCCCCATAGGATAAAATAACTGAAATACCCCCATAGGGTAAAA
1 ATAAAGTAAAATAACTGAAATACCCCCATAGGATAAAATAACCGAAATACCCCCATAGGGTAAAA
* * *
8556771 TAACCGAAATACCCCCATAGGGTAGAATAACCGAA
66 TAACCAAAATACCCCCATAAGGTAAAATAACCGAA
8556806 ATA
1 ATA
8556809 CCCCAATAGG
Statistics
Matches: 86, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
100 86 1.00
ACGTcount: A:0.47, C:0.18, G:0.14, T:0.21
Consensus pattern (100 bp):
ATAAAGTAAAATAACTGAAATACCCCCATAGGATAAAATAACCGAAATACCCCCATAGGGTAAAA
TAACCAAAATACCCCCATAAGGTAAAATAACCGAA
Found at i:8560313 original size:85 final size:86
Alignment explanation
Indices: 8560209--8560403 Score: 202
Period size: 85 Copynumber: 2.3 Consensus size: 86
8560199 ATACAATGCG
* * * ** *
8560209 ATATCCCATATATGGTCTTACATGTTATCACATATCGAT-CTCAATAG-CCCAG-CTATGGTCTT
1 ATATCCCAGACATGGTCTTACACGAAATCACATAACGATGC-CAAT-GTCCCAGAC-ATGGTCTT
* *
8560271 GCACG-AAT-CATATATCGATGCTA
63 ACACGTAATACATATACCGATG-TA
* *
8560294 ATGTCCCAGACATGGTCTTACACGAAATCACATAACGATGCCAATGTCCCAGACATGGTCTTACT
1 ATATCCCAGACATGGTCTTACACGAAATCACATAACGATGCCAATGTCCCAGACATGGTCTTACA
*
8560359 CGTAATCACATATACCGATGTC
66 CGTAAT-ACATATACCGATGTA
*
8560381 ATATCCCAGATATGGTCTTACAC
1 ATATCCCAGACATGGTCTTACAC
8560404 AAAGTCTCAT
Statistics
Matches: 91, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
84 1 0.01
85 52 0.57
86 5 0.05
87 22 0.24
88 11 0.12
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (86 bp):
ATATCCCAGACATGGTCTTACACGAAATCACATAACGATGCCAATGTCCCAGACATGGTCTTACA
CGTAATACATATACCGATGTA
Found at i:8560400 original size:44 final size:43
Alignment explanation
Indices: 8560209--8560454 Score: 205
Period size: 43 Copynumber: 5.7 Consensus size: 43
8560199 ATACAATGCG
* * ** *
8560209 ATATCCCATATATGGTCTTACATGTTATCACATAT-CGATCTC
1 ATATCCCAGATATGGTCTTACACGAAATCACATATACGATGTC
* * * * *
8560251 AATAGCCCAGCTATGGTCTTGCACG-AATCATATAT-CGATGCTA
1 -ATATCCCAGATATGGTCTTACACGAAATCACATATACGATG-TC
* * *
8560294 ATGTCCCAGACATGGTCTTACACGAAATCACATA-ACGATGCC
1 ATATCCCAGATATGGTCTTACACGAAATCACATATACGATGTC
* * * *
8560336 AATGTCCCAGACATGGTCTTACTCGTAATCACATATACCGATGTC
1 -ATATCCCAGATATGGTCTTACACGAAATCACATATA-CGATGTC
*
8560381 ATATCCCAGATATGGTCTTACAC-AAAGTCTCATATATCGATGTC
1 ATATCCCAGATATGGTCTTACACGAAA-TCACATATA-CGATGTC
* * * *
8560425 ATAGCCTAGCTATGGTCTTATACGAAATCA
1 ATATCCCAGATATGGTCTTACACGAAATCA
8560455 TGTAATGCCA
Statistics
Matches: 164, Mismatches: 31, Indels: 15
0.78 0.15 0.07
Matches are distributed among these distances:
42 31 0.19
43 67 0.41
44 57 0.35
45 9 0.05
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (43 bp):
ATATCCCAGATATGGTCTTACACGAAATCACATATACGATGTC
Found at i:8565615 original size:22 final size:22
Alignment explanation
Indices: 8565590--8565638 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
8565580 GGGGTTTGGA
** *
8565590 CTCTGAATCTGAATTTGATATG
1 CTCTGAATAAGAATCTGATATG
*
8565612 CTCTGGATAAGAATCTGATATG
1 CTCTGAATAAGAATCTGATATG
8565634 CTCTG
1 CTCTG
8565639 CATTTGTACC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (22 bp):
CTCTGAATAAGAATCTGATATG
Found at i:8572403 original size:45 final size:45
Alignment explanation
Indices: 8572309--8572427 Score: 125
Period size: 45 Copynumber: 2.6 Consensus size: 45
8572299 AGAAAATGAT
**** *
8572309 TAAGACCATAGTTGAAAGACACTATGGCACTATATTGGAAATAAA
1 TAAGACCATAGTTGAAAGACACTATGGCACTATACCAAAAACAAA
* * *
8572354 TAAGACCATGGTTGAAAGACACTATGGCACCT-TACCAAAAACGAG
1 TAAGACCATAGTTGAAAGACACTATGGCA-CTATACCAAAAACAAA
*
8572399 TAAGACCATAGTT-AAAGGACATTATGGCA
1 TAAGACCATAGTTGAAA-GACACTATGGCA
8572428 TCACAATTCT
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 3 0.05
45 57 0.92
46 2 0.03
ACGTcount: A:0.42, C:0.17, G:0.19, T:0.22
Consensus pattern (45 bp):
TAAGACCATAGTTGAAAGACACTATGGCACTATACCAAAAACAAA
Found at i:8572445 original size:45 final size:45
Alignment explanation
Indices: 8572396--8572493 Score: 110
Period size: 45 Copynumber: 2.2 Consensus size: 45
8572386 TACCAAAAAC
* *
8572396 GAGTAAGACCATAGTTAA-AGGACATTATGGCATCACAATTCTAAT-
1 GAGTAAGAACATAGCTAAGA-GACATTATGGCATCACAATTCT-ATG
* * **
8572441 GAGTAAGAACATAGCTGAGAGACGTTATGGCATCATGATTCTATG
1 GAGTAAGAACATAGCTAAGAGACATTATGGCATCACAATTCTATG
8572486 GAGTAAGA
1 GAGTAAGA
8572494 TTATAGCAGA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
44 2 0.04
45 42 0.93
46 1 0.02
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.26
Consensus pattern (45 bp):
GAGTAAGAACATAGCTAAGAGACATTATGGCATCACAATTCTATG
Found at i:8572500 original size:45 final size:45
Alignment explanation
Indices: 8572420--8572537 Score: 121
Period size: 45 Copynumber: 2.6 Consensus size: 45
8572410 TTAAAGGACA
* *
8572420 TTATGGCATCACAATTCTAATGAGTAAGAACATAGCTGAGAGACG
1 TTATGGCATCACAATTCTAATGAGTAAGAACATAGCAGAAAGACG
** **
8572465 TTATGGCATCATGATTCT-ATGGAGTAAGATTATAGCAGAAAGACG
1 TTATGGCATCACAATTCTAAT-GAGTAAGAACATAGCAGAAAGACG
* * * * *
8572510 CTATGACATCACAAGTCAAATGAATAAG
1 TTATGGCATCACAATTCTAATGAGTAAG
8572538 GCCATAGTTA
Statistics
Matches: 58, Mismatches: 13, Indels: 4
0.77 0.17 0.05
Matches are distributed among these distances:
44 2 0.03
45 54 0.93
46 2 0.03
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.25
Consensus pattern (45 bp):
TTATGGCATCACAATTCTAATGAGTAAGAACATAGCAGAAAGACG
Found at i:8572578 original size:45 final size:46
Alignment explanation
Indices: 8572527--8572686 Score: 171
Period size: 46 Copynumber: 3.5 Consensus size: 46
8572517 ATCACAAGTC
* * *
8572527 AAATGAATAAGGCCATAGTT-AAAAACACTATGGCAATACGACGAA
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCAACACGACGAA
* * * * *
8572572 AAATGAATAAGATCATAGTTGAAAGACACTATGACAACATGATGGA
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCAACACGACGAA
* * * *
8572618 AAATGAATAAGACCATGGTTGAAAGACACTATGGCATCAAGTCG-A
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCAACACGACGAA
* * *
8572663 GAATAAATAAGACCATGGTTGAAA
1 AAATGAATAAGACCATAGTTGAAA
8572687 AACATCATGG
Statistics
Matches: 97, Mismatches: 17, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
45 41 0.42
46 56 0.58
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.20
Consensus pattern (46 bp):
AAATGAATAAGACCATAGTTGAAAGACACTATGGCAACACGACGAA
Found at i:8575578 original size:6 final size:7
Alignment explanation
Indices: 8575561--8575586 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
8575551 AGATGAACTA
8575561 TTTTTTC
1 TTTTTTC
8575568 TTTTTTC
1 TTTTTTC
8575575 TTTTTTC
1 TTTTTTC
8575582 TTTTT
1 TTTTT
8575587 GCGTTGAGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTC
Found at i:8579494 original size:35 final size:35
Alignment explanation
Indices: 8579443--8579646 Score: 182
Period size: 35 Copynumber: 5.9 Consensus size: 35
8579433 CATTTAATAT
* *
8579443 CGTCGGTTTATCCAACTAGCGCTGGGCGCAACTTC
1 CGTCAGTTTATCCGACTAGCGCTGGGCGCAACTTC
* * * *
8579478 CGTCAGTTTATCCAACTATCGCTAGGCGTAACTTC
1 CGTCAGTTTATCCGACTAGCGCTGGGCGCAACTTC
* * * *
8579513 TGTCAGTTTATCTGACTAGTGCTGGGCACATA-TT-
1 CGTCAGTTTATCCGACTAGCGCTGGGCGCA-ACTTC
* *
8579547 CGTCAATTTATCCGACTAGCGCTAGGCGCAACTTC
1 CGTCAGTTTATCCGACTAGCGCTGGGCGCAACTTC
* * * *
8579582 CATCAGTTTATCTGACTAGTGCTGGGCAC-ACATT-
1 CGTCAGTTTATCCGACTAGCGCTGGGCGCAAC-TTC
* * * *
8579616 CTTCGGTTTATCCGACTAGCGTTGGACGCAA
1 CGTCAGTTTATCCGACTAGCGCTGGGCGCAA
8579647 ACCCTTTTGC
Statistics
Matches: 133, Mismatches: 31, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
33 1 0.01
34 50 0.38
35 81 0.61
36 1 0.01
ACGTcount: A:0.21, C:0.26, G:0.22, T:0.30
Consensus pattern (35 bp):
CGTCAGTTTATCCGACTAGCGCTGGGCGCAACTTC
Found at i:8579572 original size:69 final size:69
Alignment explanation
Indices: 8579478--8579636 Score: 237
Period size: 69 Copynumber: 2.3 Consensus size: 69
8579468 GCGCAACTTC
* * * **
8579478 CGTCAGTTTATCCAACTATCGCTAGGCGTAACTTCTGTCAGTTTATCTGACTAGTGCTGGGCACA
1 CGTCAGTTTATCCGACTAGCGCTAGGCGCAACTTCCATCAGTTTATCTGACTAGTGCTGGGCACA
*
8579543 TATT
66 CATT
*
8579547 CGTCAATTTATCCGACTAGCGCTAGGCGCAACTTCCATCAGTTTATCTGACTAGTGCTGGGCACA
1 CGTCAGTTTATCCGACTAGCGCTAGGCGCAACTTCCATCAGTTTATCTGACTAGTGCTGGGCACA
8579612 CATT
66 CATT
* *
8579616 CTTCGGTTTATCCGACTAGCG
1 CGTCAGTTTATCCGACTAGCG
8579637 TTGGACGCAA
Statistics
Matches: 80, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
69 80 1.00
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (69 bp):
CGTCAGTTTATCCGACTAGCGCTAGGCGCAACTTCCATCAGTTTATCTGACTAGTGCTGGGCACA
CATT
Found at i:8587582 original size:5 final size:5
Alignment explanation
Indices: 8587549--8587601 Score: 61
Period size: 5 Copynumber: 10.0 Consensus size: 5
8587539 AATAACTATA
* *
8587549 ATTAT AATTAT AATTATT TTTAT ATTAT ACTAT ATTAT ATTAT ATTAT
1 ATTAT -ATTAT -ATTA-T ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
8587597 ATTAT
1 ATTAT
8587602 TGATTGATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
5 28 0.67
6 13 0.31
7 1 0.02
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (5 bp):
ATTAT
Found at i:8594576 original size:34 final size:34
Alignment explanation
Indices: 8594487--8594584 Score: 90
Period size: 35 Copynumber: 2.9 Consensus size: 34
8594477 GAAAATATTA
* * * *
8594487 AATGTGAGCCAAGCTCTAGTTGGATAAACCAACG
1 AATGTGTGCCTAGCACTAGTCGGATAAACCAACG
* * * *
8594521 -ATGTTTGCGCGTAGCATTAGTCGGATAAATCGACG
1 AATGTGTGC-C-TAGCACTAGTCGGATAAACCAACG
*
8594556 AATGTGTGCCTAGCACTAGTCAGATAAAC
1 AATGTGTGCCTAGCACTAGTCGGATAAAC
8594585 TGACGGAAGT
Statistics
Matches: 49, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
33 6 0.12
34 17 0.35
35 19 0.39
36 7 0.14
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.24
Consensus pattern (34 bp):
AATGTGTGCCTAGCACTAGTCGGATAAACCAACG
Found at i:8594644 original size:35 final size:35
Alignment explanation
Indices: 8594564--8594654 Score: 101
Period size: 35 Copynumber: 2.6 Consensus size: 35
8594554 CGAATGTGTG
* ** **
8594564 CCTAGCACTAGTCAGATAAACTGACGGAAGTTGTG
1 CCTAGCGCTAGTTGGATAAACTGACGGAAGTTGCA
* * * *
8594599 CCTGGTGCTAGTTGGATAAATTGATGGAAGTTGCA
1 CCTAGCGCTAGTTGGATAAACTGACGGAAGTTGCA
8594634 CCTAGCGCTAGTTGGATAAAC
1 CCTAGCGCTAGTTGGATAAAC
8594655 CGATGAATGT
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
35 44 1.00
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (35 bp):
CCTAGCGCTAGTTGGATAAACTGACGGAAGTTGCA
Found at i:8597790 original size:25 final size:25
Alignment explanation
Indices: 8597708--8597801 Score: 95
Period size: 25 Copynumber: 3.8 Consensus size: 25
8597698 CATGTACATA
*
8597708 TATGCTCAT-ACGAGCTGTAAATCGG
1 TATGCTC-TCACGAGCTATAAATCGG
* * *
8597733 TATGCTTACTCA--AGCTGTAGATTGG
1 TATGC-T-CTCACGAGCTATAAATCGG
8597758 TATGCTCTCACGAGCTATAAATCGG
1 TATGCTCTCACGAGCTATAAATCGG
*
8597783 TATGCTCTCACGAGTTATA
1 TATGCTCTCACGAGCTATA
8597802 GAGTATACAC
Statistics
Matches: 58, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
23 4 0.07
24 1 0.02
25 49 0.84
26 2 0.03
27 2 0.03
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (25 bp):
TATGCTCTCACGAGCTATAAATCGG
Found at i:8597960 original size:17 final size:17
Alignment explanation
Indices: 8597934--8597968 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
8597924 GCAATCATGT
8597934 AAATTAATAATAATTCA
1 AAATTAATAATAATTCA
*
8597951 AAATTCATAATAATTCA
1 AAATTAATAATAATTCA
8597968 A
1 A
8597969 TATAAAACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (17 bp):
AAATTAATAATAATTCA
Found at i:8598553 original size:9 final size:9
Alignment explanation
Indices: 8598536--8598572 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
8598526 TGAGTTTTCG
8598536 AATTCGAAT
1 AATTCGAAT
*
8598545 AACTCGAAT
1 AATTCGAAT
8598554 AATTCGAAT
1 AATTCGAAT
8598563 AATTCGAAT
1 AATTCGAAT
8598572 A
1 A
8598573 TCATACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:8598679 original size:29 final size:29
Alignment explanation
Indices: 8598623--8598679 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
8598613 ACCTTTTTAC
* * ** *
8598623 TTTTCCCTCAGAACTTTTATTCCTTCCCA
1 TTTTCCCCCAAAACTTTTACCCCCTCCCA
8598652 TTTTCCCCCAAAACTTTTACCCCCTCCC
1 TTTTCCCCCAAAACTTTTACCCCCTCCC
8598680 CTCCCAACCC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.18, C:0.42, G:0.02, T:0.39
Consensus pattern (29 bp):
TTTTCCCCCAAAACTTTTACCCCCTCCCA
Found at i:8604586 original size:28 final size:28
Alignment explanation
Indices: 8604555--8604615 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
8604545 AATTTTAAAA
*
8604555 TATTTATT-TTTAAATAAAATTATACATT
1 TATTTATTCTTGAAA-AAAATTATACATT
*
8604583 TATTTATTCTTGAGAAAAATTATACATT
1 TATTTATTCTTGAAAAAAATTATACATT
8604611 TATTT
1 TATTT
8604616 TAAATAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 26 0.87
29 4 0.13
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.52
Consensus pattern (28 bp):
TATTTATTCTTGAAAAAAATTATACATT
Found at i:8614653 original size:21 final size:21
Alignment explanation
Indices: 8614601--8614640 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
8614591 AACATTTGTT
8614601 TATCAACTCTTGCAACTGTGA
1 TATCAACTCTTGCAACTGTGA
8614622 TATCAACTCTTGCAACTGT
1 TATCAACTCTTGCAACTGT
8614641 TCTTTCAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (21 bp):
TATCAACTCTTGCAACTGTGA
Found at i:8616995 original size:25 final size:25
Alignment explanation
Indices: 8616954--8617045 Score: 96
Period size: 25 Copynumber: 3.7 Consensus size: 25
8616944 CCATTTTCAC
*
8616954 AGCTCGT-ATGAGCATACTAATTTAT
1 AGCTCGTGA-GAGTATACTAATTTAT
* *
8616979 AGCTTGTGAGAGTATACTGATTTAT
1 AGCTCGTGAGAGTATACTAATTTAT
* * * *
8617004 AGCTCATGAGAGCATACCAATTTAC
1 AGCTCGTGAGAGTATACTAATTTAT
*
8617029 AGCTCGTGTGAGTATAC
1 AGCTCGTGAGAGTATAC
8617046 ATGTACAAGA
Statistics
Matches: 54, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
25 53 0.98
26 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (25 bp):
AGCTCGTGAGAGTATACTAATTTAT
Found at i:8627592 original size:17 final size:17
Alignment explanation
Indices: 8627567--8627599 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8627557 TGTTAGTGCA
8627567 TATTATCATTGCATTTC
1 TATTATCATTGCATTTC
*
8627584 TATTGTCATTGCATTT
1 TATTATCATTGCATTT
8627600 TAATTTTACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.15, G:0.09, T:0.55
Consensus pattern (17 bp):
TATTATCATTGCATTTC
Found at i:8633766 original size:27 final size:26
Alignment explanation
Indices: 8633736--8633810 Score: 82
Period size: 25 Copynumber: 2.9 Consensus size: 26
8633726 GAGTAGGCAC
*
8633736 ATTTTCATAGTTCGTGTGAGCATACCG
1 ATTTTCA-AGCTCGTGTGAGCATACCG
* * *
8633763 ATTTAC-AGCTCGTGAGTGCATACCG
1 ATTTTCAAGCTCGTGTGAGCATACCG
*
8633788 ATTTACAA-CTCGTGTGAGCATAC
1 ATTTTCAAGCTCGTGTGAGCATAC
8633811 ATGTACATGA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
25 35 0.85
26 1 0.02
27 5 0.12
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.32
Consensus pattern (26 bp):
ATTTTCAAGCTCGTGTGAGCATACCG
Found at i:8633783 original size:25 final size:25
Alignment explanation
Indices: 8633747--8633810 Score: 92
Period size: 25 Copynumber: 2.6 Consensus size: 25
8633737 TTTTCATAGT
* *
8633747 TCGTGTGAGCATACCGATTTACAGC
1 TCGTGAGAGCATACCGATTTACAAC
*
8633772 TCGTGAGTGCATACCGATTTACAAC
1 TCGTGAGAGCATACCGATTTACAAC
*
8633797 TCGTGTGAGCATAC
1 TCGTGAGAGCATAC
8633811 ATGTACATGA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.28
Consensus pattern (25 bp):
TCGTGAGAGCATACCGATTTACAAC
Found at i:8636998 original size:26 final size:26
Alignment explanation
Indices: 8636962--8637013 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
8636952 GTTTAAACAA
*
8636962 AAGCGGATCCTCCCAAAGATAATACC
1 AAGCAGATCCTCCCAAAGATAATACC
8636988 AAGCAGATCCTCCCAAAGATAATACC
1 AAGCAGATCCTCCCAAAGATAATACC
8637014 GACTATCATG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.40, C:0.31, G:0.13, T:0.15
Consensus pattern (26 bp):
AAGCAGATCCTCCCAAAGATAATACC
Found at i:8650010 original size:27 final size:27
Alignment explanation
Indices: 8649980--8650034 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
8649970 AAAAAACAAA
8649980 ACAAAG-GAAATAAAACTAAAGAAACCT
1 ACAAAGAGAAATAAAA-TAAAGAAACCT
* * *
8650007 ACAAAGAGAGATTAAATAATGAAACCT
1 ACAAAGAGAAATAAAATAAAGAAACCT
8650034 A
1 A
8650035 ACCTCAGTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 17 0.71
28 7 0.29
ACGTcount: A:0.60, C:0.13, G:0.13, T:0.15
Consensus pattern (27 bp):
ACAAAGAGAAATAAAATAAAGAAACCT
Found at i:8650117 original size:13 final size:15
Alignment explanation
Indices: 8650084--8650122 Score: 55
Period size: 13 Copynumber: 2.7 Consensus size: 15
8650074 GAAAGCCAAA
*
8650084 AAAGGAAGAAAAGTG
1 AAAGGAACAAAAGTG
8650099 AAAGGAACAAAA-T-
1 AAAGGAACAAAAGTG
8650112 AAAGGAACAAA
1 AAAGGAACAAA
8650123 CAGCTAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.48
14 1 0.04
15 11 0.48
ACGTcount: A:0.67, C:0.05, G:0.23, T:0.05
Consensus pattern (15 bp):
AAAGGAACAAAAGTG
Found at i:8651955 original size:22 final size:23
Alignment explanation
Indices: 8651918--8651960 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
8651908 CTACGTTCAG
8651918 TCTGAGTACCAACTAAACTGTAGC
1 TCTGAGTACCAACTAAA-TGTAGC
8651942 TCTGA-TACC-ACTAAATGTA
1 TCTGAGTACCAACTAAATGTA
8651961 ACACCTCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.21
22 6 0.32
23 4 0.21
24 5 0.26
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (23 bp):
TCTGAGTACCAACTAAATGTAGC
Found at i:8652231 original size:19 final size:19
Alignment explanation
Indices: 8652204--8652241 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
8652194 GGGGTGACAC
*
8652204 AGCCGTGTGACATAACCCA
1 AGCCATGTGACATAACCCA
*
8652223 AGCCATGTGACATAGCCCA
1 AGCCATGTGACATAACCCA
8652242 GGCCGTGTAA
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:0.32, C:0.32, G:0.21, T:0.16
Consensus pattern (19 bp):
AGCCATGTGACATAACCCA
Found at i:8657262 original size:25 final size:25
Alignment explanation
Indices: 8657227--8657294 Score: 111
Period size: 25 Copynumber: 2.7 Consensus size: 25
8657217 GGTGGGATCT
*
8657227 GTGAAATCAATTAAAACGGTGCGTG
1 GTGAAATCAATTGAAACGGTGCGTG
8657252 GTGGAAA-CAATTGAAACGGTGCGTG
1 GT-GAAATCAATTGAAACGGTGCGTG
8657277 GTGAAATCAATTGAAACG
1 GTGAAATCAATTGAAACG
8657295 AAATGGTCAG
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
24 4 0.10
25 32 0.80
26 4 0.10
ACGTcount: A:0.37, C:0.12, G:0.29, T:0.22
Consensus pattern (25 bp):
GTGAAATCAATTGAAACGGTGCGTG
Found at i:8657769 original size:52 final size:53
Alignment explanation
Indices: 8657667--8657771 Score: 140
Period size: 52 Copynumber: 2.0 Consensus size: 53
8657657 CAATTAAGAA
* * *
8657667 GTCTAACTTAATAACATGCATTGATACTGTTTGAACTAGAGCATAGTTAATAG
1 GTCTAACTTAATAACATGCATTGATACTGTCTGAACTAGAACATACTTAATAG
* * * *
8657720 GTCTGACTTAA-AACCTGCATTGATGCTGTCTGAATTAGAACATACTTAATAG
1 GTCTAACTTAATAACATGCATTGATACTGTCTGAACTAGAACATACTTAATAG
8657772 ACATAAATCA
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
52 35 0.78
53 10 0.22
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.33
Consensus pattern (53 bp):
GTCTAACTTAATAACATGCATTGATACTGTCTGAACTAGAACATACTTAATAG
Found at i:8658406 original size:86 final size:86
Alignment explanation
Indices: 8658249--8658413 Score: 213
Period size: 86 Copynumber: 1.9 Consensus size: 86
8658239 CTTTAGCCCG
* * * *
8658249 CACATCTGAGGCACCAAGGTACCGATGCTACTCGAGGCACTCGTACATCCAACGTCCTAGGTTGC
1 CACATCTGAAGCACCAAGGTACCGATGCTACTCAAGGCACTCGCACATCCAACGTCCTAGGCTGC
* *
8658314 CGATGGTGTCCGAGGCTCCCC
66 CAATGGTGCCCGAGGCTCCCC
* * * * * *
8658335 CACATCTGAAGCACTAGGGTTCTGATGCTGCTCAAGGCACTCGCACATCCAACGTCTTAGGCTGC
1 CACATCTGAAGCACCAAGGTACCGATGCTACTCAAGGCACTCGCACATCCAACGTCCTAGGCTGC
*
8658400 TAATGGTGCCCGAG
66 CAATGGTGCCCGAG
8658414 TTTCCAGCAT
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
86 66 1.00
ACGTcount: A:0.22, C:0.32, G:0.25, T:0.21
Consensus pattern (86 bp):
CACATCTGAAGCACCAAGGTACCGATGCTACTCAAGGCACTCGCACATCCAACGTCCTAGGCTGC
CAATGGTGCCCGAGGCTCCCC
Found at i:8658587 original size:85 final size:83
Alignment explanation
Indices: 8658424--8658774 Score: 314
Period size: 85 Copynumber: 4.2 Consensus size: 83
8658414 TTTCCAGCAT
* * * * * * *
8658424 GACCAAGGGCTTAGGTTACCGACGGTGTCCTAGG-TCCCGTATATCCAAGCACCAAGGTACCGAT
1 GACCAAGGGCCTAGGTTATCGATGGTGTCCAAGGCTCCCGCACATCCAAGCACCAAGGT-GCGAT
*
8658488 AGTGCCCGAA-GCTCCCGTAC
65 -GTGCCC-AAGGCTCCTGTAC
* *
8658508 GACCAAGGGCCTAGGTTATCGATGGTGTTCAAGGCTCCCGCACATCCAAGCACCAAGTTGTCGAT
1 GACCAAGGGCCTAGGTTATCGATGGTGTCCAAGGCTCCCGCACATCCAAGCACCAAGGTG-CGAT
* **
8658573 GCTACCCAAGGCTCCTACAC
65 G-TGCCCAAGGCTCCTGTAC
* *
8658593 GACCAAGGGCCTATGTT-GCTGATGGTGTCCAAGGCTCCCGCACATCCAAGCACCAAGGTGCTGA
1 GACCAAGGGCCTAGGTTATC-GATGGTGTCCAAGGCTCCCGCACATCCAAGCACCAAGGTGC-GA
* * *
8658657 TGGTGCTCGAGGCTTCTGTAC
64 T-GTGCCCAAGGCTCCTGTAC
* * * * * * * * *
8658678 CACCAATGTCCTAGGTTTTCGATGGTGTCCAAGGCTTCCACACATCAAAGCACCAAGGTTCAATG
1 GACCAAGGGCCTAGGTTATCGATGGTGTCCAAGGCTCCCGCACATCCAAGCACCAAGGTGCGAT-
** *
8658743 GTGCCCAATTCT-CTAGAAC
65 GTGCCCAAGGCTCCT-GTAC
8658762 GACCAAGGGCCTA
1 GACCAAGGGCCTA
8658775 TGGTGCCAGT
Statistics
Matches: 217, Mismatches: 41, Indels: 18
0.79 0.15 0.07
Matches are distributed among these distances:
83 2 0.01
84 58 0.27
85 155 0.71
86 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.25, T:0.21
Consensus pattern (83 bp):
GACCAAGGGCCTAGGTTATCGATGGTGTCCAAGGCTCCCGCACATCCAAGCACCAAGGTGCGATG
TGCCCAAGGCTCCTGTAC
Found at i:8658642 original size:43 final size:43
Alignment explanation
Indices: 8658510--8658642 Score: 128
Period size: 43 Copynumber: 3.1 Consensus size: 43
8658500 TCCCGTACGA
* * *
8658510 CCAAGGGCCTAGGTTATCGATGGTGTTCAAGGCTCCCGCACAT
1 CCAAGGGCCTAAGTTGTCGATGGTGTCCAAGGCTCCCGCACAT
** * ** **
8658553 CCAAGCACC-AAGTTGTCGATGCTACCCAAGGCTCCTACACGA-
1 CCAAGGGCCTAAGTTGTCGATGGTGTCCAAGGCTCCCGCAC-AT
*
8658595 CCAAGGGCCTATGTTG-CTGATGGTGTCCAAGGCTCCCGCACAT
1 CCAAGGGCCTAAGTTGTC-GATGGTGTCCAAGGCTCCCGCACAT
8658638 CCAAG
1 CCAAG
8658643 CACCAAGGTG
Statistics
Matches: 68, Mismatches: 18, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
42 32 0.47
43 36 0.53
ACGTcount: A:0.23, C:0.32, G:0.25, T:0.20
Consensus pattern (43 bp):
CCAAGGGCCTAAGTTGTCGATGGTGTCCAAGGCTCCCGCACAT
Found at i:8658648 original size:170 final size:169
Alignment explanation
Indices: 8658424--8658734 Score: 406
Period size: 170 Copynumber: 1.8 Consensus size: 169
8658414 TTTCCAGCAT
* * * *
8658424 GACCAAGGGCTTAGGTTACCGACGGTGTCCTAGGTCCCGTATATCCAAGCACCAAGGTACCGATA
1 GACCAAGGGCCTAGGTTACCGACGGTGTCCAAGGTCCCGCACATCCAAGCACCAAGGTACCGATA
* * *
8658489 GTGCCCGAAGCTCCCGTACGACCAAGGGCCTAGGTTATCGATGGTGTTCAAGGCTCCCGCACATC
66 GTGCCCGAAGCTCCCGTACCACCAAGGGCCTAGGTTATCGATGGTGTCCAAGGCTCCCACACATC
*
8658554 CAAGCACCAAGTTGTCGATGCTACCCAAGGCTCCTACAC
131 AAAGCACCAAGTTGTCGATGCTACCCAAGGCTCCTACAC
* * * * * *
8658593 GACCAAGGGCCTATGTTGCTGATGGTGTCCAAGGCTCCCGCACATCCAAGCACCAAGGTGCTGAT
1 GACCAAGGGCCTAGGTTACCGACGGTGTCCAAGG-TCCCGCACATCCAAGCACCAAGGTACCGAT
* * * * * * * * *
8658658 GGTGCTCGAGGCTTCTGTACCACCAATGTCCTAGGTTTTCGATGGTGTCCAAGGCTTCCACACAT
65 AGTGCCCGAAGCTCCCGTACCACCAAGGGCCTAGGTTATCGATGGTGTCCAAGGCTCCCACACAT
8658723 CAAAGCACCAAG
130 CAAAGCACCAAG
8658735 GTTCAATGGT
Statistics
Matches: 118, Mismatches: 23, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
169 28 0.24
170 90 0.76
ACGTcount: A:0.24, C:0.30, G:0.25, T:0.21
Consensus pattern (169 bp):
GACCAAGGGCCTAGGTTACCGACGGTGTCCAAGGTCCCGCACATCCAAGCACCAAGGTACCGATA
GTGCCCGAAGCTCCCGTACCACCAAGGGCCTAGGTTATCGATGGTGTCCAAGGCTCCCACACATC
AAAGCACCAAGTTGTCGATGCTACCCAAGGCTCCTACAC
Found at i:8658670 original size:42 final size:43
Alignment explanation
Indices: 8658466--8658670 Score: 118
Period size: 42 Copynumber: 4.8 Consensus size: 43
8658456 GGTCCCGTAT
* * * * *
8658466 ATCCAAGCACCAAGGTACCGATAGTGCCCGAA-GCTCCCGTACG
1 ATCCAAGCACCAAGGTGCTGATGGTGCTC-AAGGCTCCCGCACG
** * ** *
8658509 A-CCAAGGGCCTAGGTTATCGATGGTGTTCAAGGCTCCCGCAC-
1 ATCCAAGCACCAAGGTGCT-GATGGTGCTCAAGGCTCCCGCACG
* * * * **
8658551 ATCCAAGCACCAAGTTG-TCGATGCTACCCAAGGCTCCTACACG
1 ATCCAAGCACCAAGGTGCT-GATGGTGCTCAAGGCTCCCGCACG
** * *
8658594 A-CCAAGGGCCTATGTTGCTGATGGTG-TCCAAGGCTCCCGCAC-
1 ATCCAAGCACC-AAGGTGCTGATGGTGCT-CAAGGCTCCCGCACG
*
8658636 ATCCAAGCACCAAGGTGCTGATGGTGCTCGAGGCT
1 ATCCAAGCACCAAGGTGCTGATGGTGCTCAAGGCT
8658671 TCTGTACCAC
Statistics
Matches: 119, Mismatches: 34, Indels: 19
0.69 0.20 0.11
Matches are distributed among these distances:
42 60 0.50
43 58 0.49
44 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.26, T:0.19
Consensus pattern (43 bp):
ATCCAAGCACCAAGGTGCTGATGGTGCTCAAGGCTCCCGCACG
Found at i:8658737 original size:43 final size:42
Alignment explanation
Indices: 8658611--8658738 Score: 100
Period size: 42 Copynumber: 3.0 Consensus size: 42
8658601 GCCTATGTTG
* * * *
8658611 CTGATGGTGTCCAAGGCTCCCGCACATCCAAGCACCAAGGTG
1 CTGATGGTGTCCAAGGCTTCCACACATCAAAGCACCAAGGTT
* * * * * *
8658653 CTGATGGTG-CTCGAGGCTTCTGTAC-CACCAATG-TCCTAGGTT
1 CTGATGGTGTC-CAAGGCTTC--CACACATCAAAGCACCAAGGTT
*
8658695 TTCGATGGTGTCCAAGGCTTCCACACATCAAAGCACCAAGGTT
1 CT-GATGGTGTCCAAGGCTTCCACACATCAAAGCACCAAGGTT
8658738 C
1 C
8658739 AATGGTGCCC
Statistics
Matches: 61, Mismatches: 18, Indels: 13
0.66 0.20 0.14
Matches are distributed among these distances:
41 3 0.05
42 29 0.48
43 27 0.44
44 2 0.03
ACGTcount: A:0.23, C:0.30, G:0.24, T:0.23
Consensus pattern (42 bp):
CTGATGGTGTCCAAGGCTTCCACACATCAAAGCACCAAGGTT
Found at i:8658821 original size:170 final size:169
Alignment explanation
Indices: 8658468--8658824 Score: 373
Period size: 170 Copynumber: 2.1 Consensus size: 169
8658458 TCCCGTATAT
* * * * * * * * * *
8658468 CCAAGCACCAAGGTACCGATAGTGCCCGAAGCTCCCGTACGACCAAGGGCCTAGGTTATCGATGG
1 CCAAGCACCAAGGTGCTGATGGTGCTCGAGGCTTCTGTACCACCAATGTCCTAGGTTATCGATGG
* * * * * *
8658533 TGTTCAAGGCTCCCGCACATCCAAGCACCAAGTTGTCGATGCTACCCAAGGCTCCTACACGACCA
66 TGTCCAAGGCTCCCACACATCAAAGCACCAAGGTGTCAATGCTACCCAAGGCTCCTAAACGACCA
* * * * *
8658598 AGGGCCTATGTTGCTGATGGTGTCCAAGGCTCCCGCACAT
131 AGGGCCTATGGTGCAGATGGAGT-CAAGGCTACCGCACAA
*
8658638 CCAAGCACCAAGGTGCTGATGGTGCTCGAGGCTTCTGTACCACCAATGTCCTAGGTTTTCGATGG
1 CCAAGCACCAAGGTGCTGATGGTGCTCGAGGCTTCTGTACCACCAATGTCCTAGGTTATCGATGG
* * * **
8658703 TGTCCAAGGCTTCCACACATCAAAGCACCAAGGT-TCAATGGTGCCCAATTCT-CTAGAACGACC
66 TGTCCAAGGCTCCCACACATCAAAGCACCAAGGTGTCAATGCTACCCAAGGCTCCTA-AACGACC
8658766 AAGGGCCTATGGTGCCAG-TGGAGT-AAGGGGCTACCGCACAA
130 AAGGGCCTATGGTG-CAGATGGAGTCAA--GGCTACCGCACAA
8658807 CCAAGGGC-CCAAGGTGCT
1 CCAA--GCACCAAGGTGCT
8658825 AGAGGCTCTT
Statistics
Matches: 154, Mismatches: 27, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
167 2 0.01
168 3 0.02
169 52 0.34
170 95 0.62
171 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.26, T:0.20
Consensus pattern (169 bp):
CCAAGCACCAAGGTGCTGATGGTGCTCGAGGCTTCTGTACCACCAATGTCCTAGGTTATCGATGG
TGTCCAAGGCTCCCACACATCAAAGCACCAAGGTGTCAATGCTACCCAAGGCTCCTAAACGACCA
AGGGCCTATGGTGCAGATGGAGTCAAGGCTACCGCACAA
Found at i:8670002 original size:42 final size:42
Alignment explanation
Indices: 8669954--8670064 Score: 150
Period size: 42 Copynumber: 2.6 Consensus size: 42
8669944 TGCTCCAGGT
* * * *
8669954 TACCGATGGTGTCCGAGGCTCCCGTACATCTAAGCACCAAGG
1 TACCGATGCTGCCCGAGGCTCCCGCACATCCAAGCACCAAGG
8669996 TACCGATGCTGCCCGAGGCTCCCGCACATCCAAGCACCAAGG
1 TACCGATGCTGCCCGAGGCTCCCGCACATCCAAGCACCAAGG
** * *
8670038 TGTCGATGCTACTCGAGGCTCCCGCAC
1 TACCGATGCTGCCCGAGGCTCCCGCAC
8670065 GACCAAGGGC
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 61 1.00
ACGTcount: A:0.22, C:0.36, G:0.25, T:0.17
Consensus pattern (42 bp):
TACCGATGCTGCCCGAGGCTCCCGCACATCCAAGCACCAAGG
Found at i:8672592 original size:41 final size:41
Alignment explanation
Indices: 8672533--8672618 Score: 154
Period size: 41 Copynumber: 2.1 Consensus size: 41
8672523 TGAATTACCT
* *
8672533 AAAAGTTTACAAGCAAACTAAAAGCATCCAAATAAGCATTC
1 AAAAGTTTACAAGAAAACTAAAAGCATCCAAATAAACATTC
8672574 AAAAGTTTACAAGAAAACTAAAAGCATCCAAATAAACATTC
1 AAAAGTTTACAAGAAAACTAAAAGCATCCAAATAAACATTC
8672615 AAAA
1 AAAA
8672619 AGAGCATTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.56, C:0.17, G:0.08, T:0.19
Consensus pattern (41 bp):
AAAAGTTTACAAGAAAACTAAAAGCATCCAAATAAACATTC
Found at i:8680101 original size:27 final size:27
Alignment explanation
Indices: 8680071--8680123 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 27
8680061 AAAGCAAAAT
8680071 AAAGCAGAAAAAAGAAACAAAA-AGAAC
1 AAAG-AGAAAAAAGAAACAAAAGAGAAC
* * *
8680098 AAAGGGAAAAAGGTAACAAAAGAGAA
1 AAAGAGAAAAAAGAAACAAAAGAGAA
8680124 AGAAACATGC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 14 0.64
27 8 0.36
ACGTcount: A:0.70, C:0.08, G:0.21, T:0.02
Consensus pattern (27 bp):
AAAGAGAAAAAAGAAACAAAAGAGAAC
Found at i:8685628 original size:19 final size:20
Alignment explanation
Indices: 8685604--8685642 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
8685594 TTTGAATAAC
8685604 TTTTTGAAAA-ACATATTAA
1 TTTTTGAAAACACATATTAA
*
8685623 TTTTTGAAAACACATCTTAA
1 TTTTTGAAAACACATATTAA
8685643 ACAATTTTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (20 bp):
TTTTTGAAAACACATATTAA
Found at i:8687402 original size:47 final size:45
Alignment explanation
Indices: 8687213--8687468 Score: 167
Period size: 45 Copynumber: 5.6 Consensus size: 45
8687203 GAAGGAAACA
* * * * * * *
8687213 AATAAGACCATAGTTGAAAGATACTATGGCA-CTATATCGAAACTA
1 AATAAGACCATGGTTGAAAGACACTATGGAATCAAGA-CGAAAATG
* * * * * * * *
8687258 AATAAGACTATAGTTGAGAGACAATATGGCATCATA-CCGGAAACG
1 AATAAGACCATGGTTGAAAGACACTATGGAATCA-AGACGAAAATG
* * * ** * * ***
8687303 AATAAGATCATAGCTGAAAGATGCTATGAAATCATGAATTAAATG
1 AATAAGACCATGGTTGAAAGACACTATGGAATCAAGACGAAAATG
* *
8687348 AATAAGACCATGGTTGAAAGACACTATGGAAAT-ATGATGTAAAAATG
1 AATAAGACCATGGTTGAAAGACACTATGG-AATCAAGACG--AAAATG
* * *
8687395 TATAAGACCATGGTTGAAAGACACTATGGCATCAAGACGAGAATG
1 AATAAGACCATGGTTGAAAGACACTATGGAATCAAGACGAAAATG
*
8687440 AATATGACCATGGTTGAAAGACACTATGG
1 AATAAGACCATGGTTGAAAGACACTATGG
8687469 CATCCTTCAA
Statistics
Matches: 163, Mismatches: 41, Indels: 14
0.75 0.19 0.06
Matches are distributed among these distances:
45 119 0.73
46 6 0.04
47 38 0.23
ACGTcount: A:0.43, C:0.13, G:0.21, T:0.23
Consensus pattern (45 bp):
AATAAGACCATGGTTGAAAGACACTATGGAATCAAGACGAAAATG
Found at i:8687468 original size:45 final size:46
Alignment explanation
Indices: 8687343--8687472 Score: 174
Period size: 47 Copynumber: 2.8 Consensus size: 46
8687333 ATCATGAATT
* * *
8687343 AAATGAATAAGACCATGGTTGAAAGACACTATGGAAAT-ATGATGTAA
1 AAATGAATAAGACCATGGTTGAAAGACACTATGG-CATCAAGACG-AA
*
8687390 AAATGTATAAGACCATGGTTGAAAGACACTATGGCATCAAGACG-A
1 AAATGAATAAGACCATGGTTGAAAGACACTATGGCATCAAGACGAA
* *
8687435 GAATGAATATGACCATGGTTGAAAGACACTATGGCATC
1 AAATGAATAAGACCATGGTTGAAAGACACTATGGCATC
8687473 CTTCAATCAT
Statistics
Matches: 75, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
45 36 0.48
46 2 0.03
47 37 0.49
ACGTcount: A:0.42, C:0.13, G:0.22, T:0.22
Consensus pattern (46 bp):
AAATGAATAAGACCATGGTTGAAAGACACTATGGCATCAAGACGAA
Found at i:8694617 original size:29 final size:26
Alignment explanation
Indices: 8694580--8694650 Score: 90
Period size: 29 Copynumber: 2.6 Consensus size: 26
8694570 AATTATAATA
8694580 ATTATCTCTTAAATTTTAAAATAATTATT
1 ATTA-CTCTTAAATTTT-AAA-AATTATT
8694609 ATTAGCTCTTAAAATTTTAAAAATTATT
1 ATTA-CTCTT-AAATTTTAAAAATTATT
8694637 ATTA-TCTTAAATTT
1 ATTACTCTTAAATTT
8694651 ACCATAAAAG
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
25 6 0.15
26 4 0.10
28 11 0.28
29 12 0.30
30 7 0.17
ACGTcount: A:0.41, C:0.07, G:0.01, T:0.51
Consensus pattern (26 bp):
ATTACTCTTAAATTTTAAAAATTATT
Found at i:8694638 original size:31 final size:29
Alignment explanation
Indices: 8694569--8694641 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 29
8694559 ACAAAAAAGT
* * *
8694569 AAATTATAATAATTATCTCTTAAATTTTA
1 AAATTATTATTATTAGCTCTTAAATTTTA
*
8694598 AAATAATTATTATTAGCTCTTAAAATTTTAA
1 AAATTATTATTATTAGCTCTT-AAATTTT-A
8694629 AAATTATTATTAT
1 AAATTATTATTAT
8694642 CTTAAATTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 17 0.46
30 7 0.19
31 13 0.35
ACGTcount: A:0.45, C:0.05, G:0.01, T:0.48
Consensus pattern (29 bp):
AAATTATTATTATTAGCTCTTAAATTTTA
Found at i:8697443 original size:42 final size:42
Alignment explanation
Indices: 8697391--8697490 Score: 164
Period size: 42 Copynumber: 2.4 Consensus size: 42
8697381 GCTCTCGGTA
*
8697391 TCGCACACTTAGTGCCCGCTATACAACATCATCATTTTAATT
1 TCGCACACTTAGTGCCCACTATACAACATCATCATTTTAATT
* * *
8697433 TCGCACACTTAGTGCCCATTATCCAACATCATTATTTTAATT
1 TCGCACACTTAGTGCCCACTATACAACATCATCATTTTAATT
8697475 TCGCACACTTAGTGCC
1 TCGCACACTTAGTGCC
8697491 GTTCATATAG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.34
Consensus pattern (42 bp):
TCGCACACTTAGTGCCCACTATACAACATCATCATTTTAATT
Found at i:8701129 original size:89 final size:89
Alignment explanation
Indices: 8701013--8701177 Score: 260
Period size: 89 Copynumber: 1.9 Consensus size: 89
8701003 TTCAGATATT
* * * * *
8701013 GATATATTAGTTATTCTAGAGCTTTCAACTAGTCTTGTACAACCAAATATTGCAATAATATTGGT
1 GATATATTAGTCATTCTAGAGCTTTCAACTAGTCTTGTACAACCAAATATCGCAATAACACTAGT
8701078 TTGTTTCAATACCACAATAGGTAC
66 TTGTTTCAATACCACAATAGGTAC
*
8701102 GATATATTAGCTCATT-TAGAGCTTTCAACTAGTTTTGTACAACCAAATATCGCAATAACACTAG
1 GATATATTAG-TCATTCTAGAGCTTTCAACTAGTCTTGTACAACCAAATATCGCAATAACACTAG
8701166 TTTGTTTCAATA
65 TTTGTTTCAATA
8701178 TTTCAACAGA
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
89 65 0.94
90 4 0.06
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (89 bp):
GATATATTAGTCATTCTAGAGCTTTCAACTAGTCTTGTACAACCAAATATCGCAATAACACTAGT
TTGTTTCAATACCACAATAGGTAC
Found at i:8706332 original size:12 final size:12
Alignment explanation
Indices: 8706307--8706338 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
8706297 ATAAATAAGC
8706307 ATGCCAAC-CAA
1 ATGCCAACTCAA
8706318 ATGCCAACTCAA
1 ATGCCAACTCAA
8706330 ATGCCAACT
1 ATGCCAACT
8706339 AAGCACTCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.40
12 12 0.60
ACGTcount: A:0.41, C:0.34, G:0.09, T:0.16
Consensus pattern (12 bp):
ATGCCAACTCAA
Found at i:8706758 original size:14 final size:15
Alignment explanation
Indices: 8706739--8706771 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
8706729 CATAATTTCG
8706739 TTAATTAA-ATAAAT
1 TTAATTAAGATAAAT
*
8706753 TTAATTAAGATTAAT
1 TTAATTAAGATAAAT
8706768 TTAA
1 TTAA
8706772 GTATATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (15 bp):
TTAATTAAGATAAAT
Found at i:8710604 original size:36 final size:35
Alignment explanation
Indices: 8710564--8710639 Score: 98
Period size: 35 Copynumber: 2.1 Consensus size: 35
8710554 AATCCCTCCA
*
8710564 AAACACACCAAATGCTCACAAGAGCTAGTCTAACCG
1 AAACACACC-AATGCTCACAAGAGCTAGTCCAACCG
** * *
8710600 AAACATGCCAATGCTCATAAGAGCTAGTCCAACGG
1 AAACACACCAATGCTCACAAGAGCTAGTCCAACCG
8710635 AAACA
1 AAACA
8710640 TGCCAAACAA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
35 28 0.80
36 7 0.20
ACGTcount: A:0.42, C:0.28, G:0.16, T:0.14
Consensus pattern (35 bp):
AAACACACCAATGCTCACAAGAGCTAGTCCAACCG
Found at i:8710613 original size:35 final size:35
Alignment explanation
Indices: 8710574--8710645 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 35
8710564 AAACACACCA
*
8710574 AATGCTCACAAGAGCTAGTCTAACCGAAACATGCC
1 AATGCTCACAAGAGCTAGTCCAACCGAAACATGCC
* *
8710609 AATGCTCATAAGAGCTAGTCCAACGGAAACATGCC
1 AATGCTCACAAGAGCTAGTCCAACCGAAACATGCC
8710644 AA
1 AA
8710646 ACAAAGAGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.39, C:0.26, G:0.18, T:0.17
Consensus pattern (35 bp):
AATGCTCACAAGAGCTAGTCCAACCGAAACATGCC
Found at i:8713634 original size:2 final size:2
Alignment explanation
Indices: 8713627--8713654 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8713617 ATTGAGTTAG
8713627 GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT
8713655 TTTATTTAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:8716931 original size:15 final size:14
Alignment explanation
Indices: 8716885--8716937 Score: 61
Period size: 15 Copynumber: 3.6 Consensus size: 14
8716875 ACTTTTGATT
8716885 AAACTTAATTAATC
1 AAACTTAATTAATC
* *
8716899 AAAATTAATTAATT
1 AAACTTAATTAATC
*
8716913 AAACTTTAATTAACC
1 AAAC-TTAATTAATC
8716928 AAACCTTAAT
1 AAA-CTTAAT
8716938 CTTAATTAGT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
14 15 0.47
15 16 0.50
16 1 0.03
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (14 bp):
AAACTTAATTAATC
Done.