Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
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: 20687664
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 55 of 91
Found at i:12531572 original size:23 final size:24
Alignment explanation
Indices: 12531534--12531594 Score: 72
Period size: 22 Copynumber: 2.6 Consensus size: 24
12531524 ATAATTTTCA
* *
12531534 AAATATTATTTATATTTTTATAATT
1 AAATAATATTT-TATTTTTATAAAT
*
12531559 AAATTA-ATTTTA-TTTTATAAAT
1 AAATAATATTTTATTTTTATAAAT
12531581 AAATAATATTTTAT
1 AAATAATATTTTAT
12531595 GAAAGTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
22 14 0.47
23 8 0.27
24 4 0.13
25 4 0.13
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
AAATAATATTTTATTTTTATAAAT
Found at i:12540999 original size:16 final size:15
Alignment explanation
Indices: 12540974--12541003 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
12540964 ATTTTTTAAG
12540974 AAAAAATAAATATAC
1 AAAAAATAAATATAC
12540989 AAAATAATAAATATA
1 AAAA-AATAAATATA
12541004 TAATAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.23
Consensus pattern (15 bp):
AAAAAATAAATATAC
Found at i:12541504 original size:31 final size:30
Alignment explanation
Indices: 12541460--12541527 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 30
12541450 GCAATACAGT
*
12541460 TCCCCAACTTTTAGTCCATTTACAATATGG
1 TCCCCAACATTTAGTCCATTTACAATATGG
** *
12541490 TCCCTCAACATTTAGTCTGTTTGCAATATGG
1 TCCC-CAACATTTAGTCCATTTACAATATGG
12541521 TCCCCAA
1 TCCCCAA
12541528 AGTAACTGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 7 0.21
31 26 0.79
ACGTcount: A:0.25, C:0.28, G:0.12, T:0.35
Consensus pattern (30 bp):
TCCCCAACATTTAGTCCATTTACAATATGG
Found at i:12543535 original size:31 final size:31
Alignment explanation
Indices: 12543497--12543562 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
12543487 CAGTTACATC
*
12543497 AGGGACCATATTGCAAACGGACTAAATGTTG
1 AGGGACCATATTGCAAACAGACTAAATGTTG
12543528 AGGGACCATATTGCAAACAGACTAAATGTTG
1 AGGGACCATATTGCAAACAGACTAAATGTTG
12543559 -GGGA
1 AGGGA
12543563 ATTATATAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 4 0.12
31 30 0.88
ACGTcount: A:0.36, C:0.15, G:0.27, T:0.21
Consensus pattern (31 bp):
AGGGACCATATTGCAAACAGACTAAATGTTG
Found at i:12544845 original size:31 final size:31
Alignment explanation
Indices: 12544791--12544851 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
12544781 TATAATCCTC
* *
12544791 CAACATTTAGTTTGTTTTCAATATGGTCCCT
1 CAACATTTAGTCTATTTTCAATATGGTCCCT
12544822 CAACATTTAGTCTATTTGT-AATATGGTCCC
1 CAACATTTAGTCTATTT-TCAATATGGTCCC
12544852 CGACGTAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 26 0.96
32 1 0.04
ACGTcount: A:0.25, C:0.20, G:0.13, T:0.43
Consensus pattern (31 bp):
CAACATTTAGTCTATTTTCAATATGGTCCCT
Found at i:12545426 original size:31 final size:31
Alignment explanation
Indices: 12545391--12545457 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
12545381 TTACAATACA
*
12545391 ATCCCCCAACATTTAGTCCGTTTGCAATATG
1 ATCCCCCAACATTTAGTCCATTTGCAATATG
* *
12545422 ATCCCCCAACATTTAGTCTATTTGTAATATG
1 ATCCCCCAACATTTAGTCCATTTGCAATATG
*
12545453 GTCCC
1 ATCCC
12545458 TGAAGTAACC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.25, C:0.28, G:0.12, T:0.34
Consensus pattern (31 bp):
ATCCCCCAACATTTAGTCCATTTGCAATATG
Found at i:12545722 original size:2 final size:2
Alignment explanation
Indices: 12545717--12545761 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
12545707 TATTTTTTTA
12545717 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12545758 AT AT
1 AT AT
12545762 TAGTTTTATA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:12548289 original size:59 final size:59
Alignment explanation
Indices: 12548191--12548319 Score: 152
Period size: 59 Copynumber: 2.2 Consensus size: 59
12548181 AGCAGGCTGT
* ** * *
12548191 ATATTCGGGAATACACTAAAGGATACCTAGTGTATATGGTGGGCACGACCAT-ATGTGTC
1 ATATTCGGGATTACACTAAAGGATACCTAGTACAGATGGTGGACACGACC-TCATGTGTC
** * *
12548250 ATATTCGGGATTGTACTTAAGGATACCTAGTACAGATGGTGGACACGACCTCATGTTTC
1 ATATTCGGGATTACACTAAAGGATACCTAGTACAGATGGTGGACACGACCTCATGTGTC
*
12548309 ATACTCGGGAT
1 ATATTCGGGAT
12548320 AGCACTACGG
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
58 1 0.02
59 58 0.98
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.29
Consensus pattern (59 bp):
ATATTCGGGATTACACTAAAGGATACCTAGTACAGATGGTGGACACGACCTCATGTGTC
Found at i:12548456 original size:44 final size:44
Alignment explanation
Indices: 12548408--12548651 Score: 389
Period size: 44 Copynumber: 5.5 Consensus size: 44
12548398 GTAATGGAAT
* * *
12548408 AATGGCAAGTGTATTGGTAAAATAAGATTTCGAGCTTATGGATA
1 AATGGTAAGTATATTGGTAAAATAAGCTTTCGAGCTTATGGATA
* * *
12548452 AATGGTAAATATATAGGTAAAATAAGCTTACGAGCTTATGGATA
1 AATGGTAAGTATATTGGTAAAATAAGCTTTCGAGCTTATGGATA
*
12548496 AATGGTAAGTGTATTGGTAAAATAAGCTTTCGAGCTTATGGATA
1 AATGGTAAGTATATTGGTAAAATAAGCTTTCGAGCTTATGGATA
* *
12548540 AATGGTAAGTATATAGGTAAAATAAGCTTACGAGCTTATGGATA
1 AATGGTAAGTATATTGGTAAAATAAGCTTTCGAGCTTATGGATA
* *
12548584 AATGGTAAGTGTATTGGTAAAATAAGCTTTCGAGCTTATGAATA
1 AATGGTAAGTATATTGGTAAAATAAGCTTTCGAGCTTATGGATA
12548628 AATGGTAAGTATATTGGTAAAATA
1 AATGGTAAGTATATTGGTAAAATA
12548652 TTTCATATGC
Statistics
Matches: 182, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 182 1.00
ACGTcount: A:0.39, C:0.06, G:0.23, T:0.32
Consensus pattern (44 bp):
AATGGTAAGTATATTGGTAAAATAAGCTTTCGAGCTTATGGATA
Found at i:12548553 original size:88 final size:88
Alignment explanation
Indices: 12548408--12548651 Score: 443
Period size: 88 Copynumber: 2.8 Consensus size: 88
12548398 GTAATGGAAT
* * *
12548408 AATGGCAAGTGTATTGGTAAAATAAGATTTCGAGCTTATGGATAAATGGTAAATATATAGGTAAA
1 AATGGTAAGTGTATTGGTAAAATAAGCTTTCGAGCTTATGGATAAATGGTAAGTATATAGGTAAA
12548473 ATAAGCTTACGAGCTTATGGATA
66 ATAAGCTTACGAGCTTATGGATA
12548496 AATGGTAAGTGTATTGGTAAAATAAGCTTTCGAGCTTATGGATAAATGGTAAGTATATAGGTAAA
1 AATGGTAAGTGTATTGGTAAAATAAGCTTTCGAGCTTATGGATAAATGGTAAGTATATAGGTAAA
12548561 ATAAGCTTACGAGCTTATGGATA
66 ATAAGCTTACGAGCTTATGGATA
* *
12548584 AATGGTAAGTGTATTGGTAAAATAAGCTTTCGAGCTTATGAATAAATGGTAAGTATATTGGTAAA
1 AATGGTAAGTGTATTGGTAAAATAAGCTTTCGAGCTTATGGATAAATGGTAAGTATATAGGTAAA
12548649 ATA
66 ATA
12548652 TTTCATATGC
Statistics
Matches: 151, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
88 151 1.00
ACGTcount: A:0.39, C:0.06, G:0.23, T:0.32
Consensus pattern (88 bp):
AATGGTAAGTGTATTGGTAAAATAAGCTTTCGAGCTTATGGATAAATGGTAAGTATATAGGTAAA
ATAAGCTTACGAGCTTATGGATA
Found at i:12548996 original size:22 final size:23
Alignment explanation
Indices: 12548957--12548999 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
12548947 CATCGGTACG
12548957 ATGTTCACGGGTACTGTTCATAA
1 ATGTTCACGGGTACTGTTCATAA
*
12548980 ATGTTCAC-GGTATTGTTCAT
1 ATGTTCACGGGTACTGTTCAT
12549000 CATTATTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.23, C:0.16, G:0.21, T:0.40
Consensus pattern (23 bp):
ATGTTCACGGGTACTGTTCATAA
Found at i:12549008 original size:22 final size:23
Alignment explanation
Indices: 12548960--12549008 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 23
12548950 CGGTACGATG
*
12548960 TTCACGGGTACTGTTCATAAATG
1 TTCACGGGTACTGTTCATAAATA
* * *
12548983 TTCAC-GGTATTGTTCATCATTA
1 TTCACGGGTACTGTTCATAAATA
12549005 TTCA
1 TTCA
12549009 TAATTTTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.41
Consensus pattern (23 bp):
TTCACGGGTACTGTTCATAAATA
Found at i:12558420 original size:21 final size:21
Alignment explanation
Indices: 12558396--12558438 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
12558386 ATTCGAGGGT
*
12558396 TCTACGCGGTCCTTCGGGACA
1 TCTACGCGGTCATTCGGGACA
* * *
12558417 TCTATGTGGTCATTTGGGACA
1 TCTACGCGGTCATTCGGGACA
12558438 T
1 T
12558439 TCTATGTGGC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.16, C:0.23, G:0.28, T:0.33
Consensus pattern (21 bp):
TCTACGCGGTCATTCGGGACA
Found at i:12575883 original size:131 final size:131
Alignment explanation
Indices: 12575533--12575988 Score: 398
Period size: 131 Copynumber: 3.4 Consensus size: 131
12575523 TTTAATATTC
* ** *
12575533 AGATTTGATATTCCCTGAGTAACAGTGGAACAAGTCAAAATCGATTCAATCTTCGCTGAGTGATA
1 AGATTTGATATTCCCTGAGTAACAGTGGAACAAGTCTACCTCAATTCAATCTTC-CTGAGTGATA
* * *
12575598 GTGGAATAAATCAACATCCCCCTGATCTATATCAGATTATCCCTCACAAAGAAGT-GAA-ATAAA
65 GTAGAATAAATCAAC-GCCCCC--A--TATAT--GATTTTCCCT--CAAAGAAGTAGAACAT--A
*
12575661 TCCCTCTATTTCA
119 TCCCTCTCTTTCA
* * * * * * * *
12575674 AGATTCGATATTCTCTAAGTAACAGTAGAACAAATTTTCCTCAATTTAATCTTCCTTGAGTGATA
1 AGATTTGATATTCCCTGAGTAACAGTGGAACAAGTCTACCTCAATTCAATCTTCC-TGAGTGATA
* **
12575739 ATAGAATGGATCAACGCCCCCATATATGATTTTCCCTC-AAGAAGTAGAACATATCCCTCTCTTT
65 GTAGAATAAATCAACGCCCCCATATATGATTTTCCCTCAAAGAAGTAGAACATATCCCTCTCTTT
12575803 CA
130 CA
* *
12575805 AGATTTGATATTCCCTGAGTAATAGTGGAACAAGTCTACCTCAATTCAATCTTCCATGAGTGATG
1 AGATTTGATATTCCCTGAGTAACAGTGGAACAAGTCTACCTCAATTCAATCTTCC-TGAGTGATA
*** * * * * * * *
12575870 GTAGAATAAATCAACGCCTATAGATTTGATTTTCCCTCTAGAAGAAGCAAAACAGATTCATCTCT
65 GTAGAATAAATCAACGCCCCCATATATGATTTTCCCTC-A-AAGAAGTAGAACATATCCCTCTCT
12575935 TTCA
128 TTCA
* * * * * *
12575939 ATATTTGCTCTTCCCTGAGTAATAGCGAAACAAGTCTACCTCGAA-TCAAT
1 AGATTTGATATTCCCTGAGTAACAGTGGAACAAGTCTACCTC-AATTCAAT
12575989 ATTTCCTAAA
Statistics
Matches: 260, Mismatches: 48, Indels: 21
0.79 0.15 0.06
Matches are distributed among these distances:
131 104 0.40
132 4 0.02
133 2 0.01
134 74 0.28
135 2 0.01
136 5 0.02
138 1 0.00
140 6 0.02
141 62 0.24
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.31
Consensus pattern (131 bp):
AGATTTGATATTCCCTGAGTAACAGTGGAACAAGTCTACCTCAATTCAATCTTCCTGAGTGATAG
TAGAATAAATCAACGCCCCCATATATGATTTTCCCTCAAAGAAGTAGAACATATCCCTCTCTTTC
A
Found at i:12576034 original size:134 final size:133
Alignment explanation
Indices: 12575533--12576046 Score: 292
Period size: 131 Copynumber: 3.8 Consensus size: 133
12575523 TTTAATATTC
* * * * ** * *
12575533 AGATTTGATATTCCCTGAGTAACAGTGGAACAAGTCAAAATCGATTCAATCTTCGC-TGAGTGAT
1 AGATTTGATATTCCCTGAGTAATAGCGAAACAAGTCTACCTCAATTCAATCTTC-CATAAGTGAT
* * * ** * *
12575597 AGTGGAATAAATCAACATCCCCCTGATCTATATCAGATTATCCCTCACA-AAGAAGTGAAATAAA
65 AGTAGAATAAATCAACA----CCT-A-C-AGATCTGATT-TCCCTCA-AGAAGAAGCAAAACAGA
* * *
12575661 TCCCTCTATTTCA
121 TTCATCTCTTTCA
* * * * * * * * * * *
12575674 AGATTCGATATTCTCTAAGTAACAG-TAGAACAAATTTTCCTCAATTTAATCTTCCTTGAGTGAT
1 AGATTTGATATTCCCTGAGTAATAGCGA-AACAAGTCTACCTCAATTCAATCTTCCATAAGTGAT
* ** * ** * * * * * *
12575738 AATAGAATGGATCAACGCCCCCATATATGATTTTCCCTCAAGAAGTAG---AACATATCCCTCTC
65 AGTAGAATAAATCAACACCTACAGATCTGA-TTTCCCTCAAGAAGAAGCAAAACAGATTCATCTC
12575800 TTTCA
129 TTTCA
* * * *
12575805 AGATTTGATATTCCCTGAGTAATAGTGGAACAAGTCTACCTCAATTCAATCTTCCATGAGTGATG
1 AGATTTGATATTCCCTGAGTAATAGCGAAACAAGTCTACCTCAATTCAATCTTCCATAAGTGATA
* * * *
12575870 GTAGAATAAATCAACGCCTATAGATTTGATTTTCCCTCTAGAAGAAGCAAAACAGATTCATCTCT
66 GTAGAATAAATCAACACCTACAGATCTGA-TTTCCCTCAAGAAGAAGCAAAACAGATTCATCTCT
12575935 TTCA
130 TTCA
* * * *
12575939 ATATTTGCTCTTCCCTGAGTAATAGCGAAACAAGTCTACCTCGAA-TCAATATTTCC-TAAAG-G
1 AGATTTGATATTCCCTGAGTAATAGCGAAACAAGTCTACCTC-AATTCAAT-CTTCCAT-AAGTG
* ** *
12576001 ATAGT-GAAATGAATCAACATTTCCAGATCTGATTTCCCTCAAGAAG
63 ATAGTAG-AATAAATCAACACCTACAGATCTGATTTCCCTCAAGAAG
12576047 CACTAGAACA
Statistics
Matches: 294, Mismatches: 67, Indels: 32
0.75 0.17 0.08
Matches are distributed among these distances:
131 105 0.36
133 15 0.05
134 100 0.34
135 11 0.04
137 2 0.01
140 1 0.00
141 60 0.20
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.31
Consensus pattern (133 bp):
AGATTTGATATTCCCTGAGTAATAGCGAAACAAGTCTACCTCAATTCAATCTTCCATAAGTGATA
GTAGAATAAATCAACACCTACAGATCTGATTTCCCTCAAGAAGAAGCAAAACAGATTCATCTCTT
TCA
Found at i:12576351 original size:134 final size:134
Alignment explanation
Indices: 12576118--12577614 Score: 1538
Period size: 134 Copynumber: 11.2 Consensus size: 134
12576108 AAAAATTTGT
* * * * * * *
12576118 TTTTCCCTCAATAAGAAGTGGAACAGAT-CATTCTCATTCAAGATTTGATCTTCCTTGAGTAACA
1 TTTTCCCTCAAGAAAAAGCGGAACAAATCCA-TCTCTTTCAAGATTTGATATTCCCTGAGTAACA
** * ** * * *
12576182 ACGGAACAAGTCTACTTTAATTCAATATTCCCTGAAGAACAGTGGAATGAATCAACATCCCCATA
65 GTGGAACAAGTCTACCTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACGTCCCCAGA
*
12576247 TTTGA
130 TATGA
** * * * * *
12576252 TTTTTGTCTCAAGAAGAAGCAGAACAAATCCA-CATCTTTCAAGATTTAATCTTCCCTAAGTAAC
1 -TTTTCCCTCAAGAAAAAGCGGAACAAATCCATC-TCTTTCAAGATTTGATATTCCCTGAGTAAC
* * * * *
12576316 A-TGGAACAAGTTTACCTCGATTCAATCTTCCCTGAATAATAGTGAAATGAATCAACGTCCCCAT
64 AGTGGAACAAGTCTACCTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACGTCCCCAG
*
12576380 ACATGA
129 ATATGA
** * * *
12576386 TTTTCCCTCAAGAAAAAATGGAACAAATCCATCTCTTTCAAGATTTTATCTTTCCTGAGTAACA-
1 TTTTCCCTCAAGAAAAAGCGGAACAAATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAACAG
* * * * * * * *
12576450 TCGAAACAAGTTTACCTCGATTTAATCTTACCAGAAGAATAGTGGAATGAATCAACATCCCAAGA
66 T-GGAACAAGTCTACCTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACGTCCCCAGA
12576515 TCAT-A
130 T-ATGA
* * * *
12576520 TTTTCCCTTAAGAACAA-CTGGAAACAAATCCCA-CTCTATCAAGATTTGATCTTCCCTGAGTAA
1 TTTTCCCTCAAGAAAAAGC-GG-AACAAAT-CCATCTCTTTCAAGATTTGATATTCCCTGAGTAA
* * * * *
12576583 CAGCGGAATAAGTCTACCTCGATTCAATCTTCCCTAAAGAACAGTGGAATGTATCAACATCCCCA
63 CAGTGGAACAAGTCTACCTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACGTCCCCA
* *
12576648 TATCTGA
128 GATATGA
* * ** *
12576655 TTTTACCT-AGAGAAAAAGCGGAACATATCCCGCTCTTTCAAGATTTGATATTCCCTGAGTAAAA
1 TTTTCCCTCA-AGAAAAAGCGGAACAAATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAACA
* ** *
12576719 GTAGAACAAACCTATCTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACGTCCCCAGA
65 GTGGAACAAGTCTACCTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACGTCCCCAGA
*
12576784 TCTGA
130 TATGA
* ** *
12576789 TTTTCCCTCAAGAAAAAGTGGAGTAGATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAACA-
1 TTTTCCCTCAAGAAAAAGCGGAACAAATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAACAG
*** * * * *
12576853 CAAAACAAGTTTGCCTCGATTCAATCTTCCTTGAAGAATAGTGGAATGAATCAACGTCCCCAGAT
66 TGGAACAAGTCTACCTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACGTCCCCAGAT
* *
12576918 CTAA
131 ATGA
* * *
12576922 TTTTCCCTCAAGAAAAAGCAGAACAAATCCATATATTTCAAGATTTGATATTCCCTGAGTAACAG
1 TTTTCCCTCAAGAAAAAGCGGAACAAATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAACAG
* * * * * * *
12576987 TGAAACAAATATGCCTCGATTCAATCTTCCCTG-AGTGACAGTGGAATGAATCAAC-ACCCCTAA
66 TGGAACAAGTCTACCTCGATTCAATCTTCCCTGAAG-AACAGTGGAATGAATCAACGTCCCC-AG
*
12577050 ATTCTGA
129 A-TATGA
* * * ** * *
12577057 TATTACCTCAAGAATAAGAAGAACATATCTATCTCTTTCAAGATTTGATATTCCCTGAGTAACAG
1 TTTTCCCTCAAGAAAAAGCGGAACAAATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAACAG
* * * * * *
12577122 TGGAACAAGTCTGCCCCGATTCAATCTTCCCTG-AGTGACAGTAGAATGAATCAACGCCCCCATA
66 TGGAACAAGTCTACCTCGATTCAATCTTCCCTGAAG-AACAGTGGAATGAATCAACGTCCCCAGA
*
12577186 TAGGA
130 TATGA
* * * * * *
12577191 TCTTCCCTCCAGAAGAAGCGAAACATATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAACAC
1 TTTTCCCTCAAGAAAAAGCGGAACAAATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAACAG
* * * * * *
12577256 TAGAAC-A-TC-ACCTCAATTCAATCTTCTCT-AGGTGACAGTAGAATGAATCAACGTCCCCAGA
66 TGGAACAAGTCTACCTCGATTCAATCTTCCCTGAAG-AACAGTGGAATGAATCAACGTCCCCAGA
12577317 TATGA
130 TATGA
* * *
12577322 TCTTCCCTCTAGAAGAAA-CGGAACAAATCCATCTCTTTCAAGATTTGATATTCCTTGAGTAACA
1 TTTTCCCTCAAGAA-AAAGCGGAACAAATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAACA
* * *
12577386 GTGGAACAAGTCTGCCTCGATTCAATCTTCCCTG-AGTGACAGTGGAATGAATAAACGTCCCCAG
65 GTGGAACAAGTCTACCTCGATTCAATCTTCCCTGAAG-AACAGTGGAATGAATCAACGTCCCCAG
*
12577450 ATCTGA
129 ATATGA
* * * *
12577456 TTTTCCCTCAAGGAGAAGGGGAACAAATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAG
1 TTTTCCCTCAAGAAAAAGCGGAACAAATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAACAG
* * * *
12577521 TGGAAAAAGTCTACCTCGATTCAATCTTCCCT-CAGTAATAGTGGAATGAATCAATGTCCCCAGA
66 TGGAACAAGTCTACCTCGATTCAATCTTCCCTGAAG-AACAGTGGAATGAATCAACGTCCCCAGA
*
12577585 TTTGA
130 TATGA
*
12577590 TTTTCCCTCAAGAAAAAGTGGAACA
1 TTTTCCCTCAAGAAAAAGCGGAACA
12577615 TATGCCTCAT
Statistics
Matches: 1157, Mismatches: 178, Indels: 55
0.83 0.13 0.04
Matches are distributed among these distances:
131 109 0.09
132 5 0.00
133 183 0.16
134 580 0.50
135 270 0.23
136 10 0.01
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (134 bp):
TTTTCCCTCAAGAAAAAGCGGAACAAATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAACAG
TGGAACAAGTCTACCTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACGTCCCCAGAT
ATGA
Found at i:12576740 original size:269 final size:265
Alignment explanation
Indices: 12576118--12577606 Score: 1439
Period size: 269 Copynumber: 5.6 Consensus size: 265
12576108 AAAAATTTGT
* * * * * * *
12576118 TTTTCCCTCAATAAGAAGTGGAACAGAT-CATTCTCATTCAAGATTTGATCTTCCTTGAGTAACA
1 TTTTCCCTCAAGAAAAAGCGGAACAAATCCA-TCTCTTTCAAGATTTGATATTCCCTGAGTAACA
*** * * ** * * * *
12576182 ACGGAACAAGTCTACTTTAATTCAATATTCCCTGAAGAACAGTGGAATGAATCAACATCCCCATA
65 GTAGAACAAATCTACCTCGATTCAATCTT-CCAGAAGAACAGTGGAATGAATCAACATCCCAAGA
* ** * * * * *
12576247 TTTGATTTTTGTCTCAAGAAGAAGCAGAACAAATCCA-CATCTTTCAAGATTTAATCTTCCCTAA
129 TCTGA-TTTTCCCTCAAGAA-AAACGGAACAAATCCATC-TCTTTCAAGATTTGATATTCCCTGA
* * * * *
12576311 GTAACA-TGGAACAAGTTTACCTCGATTCAATCTTCCCTGAATAATAGTGAAATGAATCAACGTC
191 GTAACAGTGGAACAAGTCTGCCTCGATTCAATCTTCCCT-AAGAACAGTGGAATGAATCAACGTC
12576375 CCCATA-CATGA
255 CCCATATC-TGA
** * * *
12576386 TTTTCCCTCAAGAAAAAATGGAACAAATCCATCTCTTTCAAGATTTTATCTTTCCTGAGTAACA-
1 TTTTCCCTCAAGAAAAAGCGGAACAAATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAACAG
* * * * *
12576450 TCGAAACAAGTTTACCTCGATTTAATCTTACCAGAAGAATAGTGGAATGAATCAACATCCCAAGA
66 TAG-AACAAATCTACCTCGATTCAATCTT-CCAGAAGAACAGTGGAATGAATCAACATCCCAAGA
* * * *
12576515 TCAT-ATTTTCCCTTAAGAACAACTGGAAACAAATCCCA-CTCTATCAAGATTTGATCTTCCCTG
129 TC-TGATTTTCCCTCAAGAAAAAC-GG-AACAAAT-CCATCTCTTTCAAGATTTGATATTCCCTG
* * * * *
12576578 AGTAACAGCGGAATAAGTCTACCTCGATTCAATCTTCCCTAAAGAACAGTGGAATGTATCAACAT
190 AGTAACAGTGGAACAAGTCTGCCTCGATTCAATCTTCCCT-AAGAACAGTGGAATGAATCAACGT
12576643 CCCCATATCTGA
254 CCCCATATCTGA
* * ** *
12576655 TTTTACCT-AGAGAAAAAGCGGAACATATCCCGCTCTTTCAAGATTTGATATTCCCTGAGTAAAA
1 TTTTCCCTCA-AGAAAAAGCGGAACAAATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAACA
* * * * *
12576719 GTAGAACAAACCTATCTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACGTCCCCAGA
65 GTAGAACAAATCTACCTCGATTCAATCTT-CCAGAAGAACAGTGGAATGAATCAACATCCCAAGA
* ** *
12576784 TCTGATTTTCCCTCAAGAAAAAGTGGAGTAGATCCATCTCTTTCAAGATTTGATATTCCCTGAGT
129 TCTGATTTTCCCTCAAGAAAAA-CGGAACAAATCCATCTCTTTCAAGATTTGATATTCCCTGAGT
*** * * *
12576849 AACA-CAAAACAAGTTTGCCTCGATTCAATCTTCCTTGAAGAATAGTGGAATGAATCAACGTCCC
193 AACAGTGGAACAAGTCTGCCTCGATTCAATCTTCCCT-AAGAACAGTGGAATGAATCAACGTCCC
* *
12576913 CAGATCTAA
257 CATATCTGA
* * *
12576922 TTTTCCCTCAAGAAAAAGCAGAACAAATCCATATATTTCAAGATTTGATATTCCCTGAGTAACAG
1 TTTTCCCTCAAGAAAAAGCGGAACAAATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAACAG
* * * * *
12576987 T-GAAACAAATATGCCTCGATTCAATCTTCCCTG-AGTGACAGTGGAATGAATCAACACCCCTAA
66 TAG-AACAAATCTACCTCGATTCAATCTT-CCAGAAG-AACAGTGGAATGAATCAACATCCC-AA
* * * * *
12577050 -ATTCTGATATTACCTCAAGAATAAGA-AGAACATATCTATCTCTTTCAAGATTTGATATTCCCT
127 GA-TCTGATTTTCCCTCAAGAA-AA-ACGGAACAAATCCATCTCTTTCAAGATTTGATATTCCCT
* * * *
12577113 GAGTAACAGTGGAACAAGTCTGCCCCGATTCAATCTTCCCTGAGTGACAGTAGAATGAATCAACG
189 GAGTAACAGTGGAACAAGTCTGCCTCGATTCAATCTTCCCTAAG-AACAGTGGAATGAATCAACG
* **
12577178 CCCCCATATAGGA
253 TCCCCATATCTGA
* * * * * *
12577191 TCTTCCCTCCAGAAGAAGCGAAACATATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAACAC
1 TTTTCCCTCAAGAAAAAGCGGAACAAATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAACAG
* ** * * *
12577256 TAGAAC--ATC-ACCTCAATTCAATCTTCTCTAGGTG-ACAGTAGAATGAATCAACGTCCCCAGA
66 TAGAACAAATCTACCTCGATTCAATCTTC-C-AGAAGAACAGTGGAATGAATCAACATCCCAAGA
* * * *
12577317 TATGATCTTCCCTCTAGAAGAAACGGAACAAATCCATCTCTTTCAAGATTTGATATTCCTTGAGT
129 TCTGATTTTCCCTCAAGAA-AAACGGAACAAATCCATCTCTTTCAAGATTTGATATTCCCTGAGT
* * *
12577382 AACAGTGGAACAAGTCTGCCTCGATTCAATCTTCCCTGAGTGACAGTGGAATGAATAAACGTCCC
193 AACAGTGGAACAAGTCTGCCTCGATTCAATCTTCCCTAAG-AACAGTGGAATGAATCAACGTCCC
*
12577447 CAGATCTGA
257 CATATCTGA
* * * *
12577456 TTTTCCCTCAAGGAGAAGGGGAACAAATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAG
1 TTTTCCCTCAAGAAAAAGCGGAACAAATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAACAG
* *** * ** *
12577521 TGGAA-AAAGTCTACCTCGATTCAATCTTCCCTCAGTAATAGTGGAATGAATCAATGTCCCCAGA
66 TAGAACAAA-TCTACCTCGATTCAATCTTCCAGAAG-AACAGTGGAATGAATCAACATCCCAAGA
*
12577585 TTTGATTTTCCCTCAAGAAAAA
129 TCTGATTTTCCCTCAAGAAAAA
12577607 GTGGAACATA
Statistics
Matches: 1014, Mismatches: 173, Indels: 69
0.81 0.14 0.05
Matches are distributed among these distances:
264 1 0.00
265 184 0.18
266 43 0.04
267 186 0.18
268 294 0.29
269 301 0.30
270 5 0.00
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (265 bp):
TTTTCCCTCAAGAAAAAGCGGAACAAATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAACAG
TAGAACAAATCTACCTCGATTCAATCTTCCAGAAGAACAGTGGAATGAATCAACATCCCAAGATC
TGATTTTCCCTCAAGAAAAACGGAACAAATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAAC
AGTGGAACAAGTCTGCCTCGATTCAATCTTCCCTAAGAACAGTGGAATGAATCAACGTCCCCATA
TCTGA
Found at i:12577773 original size:14 final size:14
Alignment explanation
Indices: 12577754--12577781 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
12577744 AATGTTTAAT
12577754 TATTATTTTTATTA
1 TATTATTTTTATTA
12577768 TATTATTTTTATTA
1 TATTATTTTTATTA
12577782 ATATGAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
TATTATTTTTATTA
Found at i:12580773 original size:18 final size:18
Alignment explanation
Indices: 12580747--12580782 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
12580737 TCGGAAGGAC
*
12580747 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
12580765 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
12580783 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:12586172 original size:18 final size:18
Alignment explanation
Indices: 12586146--12586181 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
12586136 TCGGAAGGAC
*
12586146 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
12586164 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
12586182 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:12602026 original size:208 final size:207
Alignment explanation
Indices: 12601669--12602089 Score: 734
Period size: 208 Copynumber: 2.0 Consensus size: 207
12601659 GATGACCTAC
* *
12601669 AAAGAGTTATACAAGATATTATATGACAAACATATAATATCAACCTATCATGTATCACATATACA
1 AAAGAGTTATACAAGATATTATATGAAAAAAATATAATATCAACCTATCATGTATCACATATACA
* * *
12601734 ACCTCCATATCCTAAGTGGTACAATGATAACTTACATTGTGAATATCATGCAGGGGCTCGTGGGC
66 ACCTCCATATCCTAAGTGGTACAATGATAACTTACAGTGCGAATATCATGCAGGGGCTCGAGGGC
* *
12601799 ATTCTATAGAAAGTTGCATTGCATTCAAAAGAATTGTTCAAAGCCTGAGAACAAATAATATCATA
131 ATTCTATAAAAAGTTGCATTGCATTCAAAAGAATTGTTCAAAGCCTGAGAACAAAGAATATCATA
12601864 AATTTTGGTGAT
196 AATTTTGGTGAT
* * *
12601876 AAAGAGTTATACTAGATATTATATGAAAAAAAATATAATATCACCCTATCATGTATCACCTATAC
1 AAAGAGTTATACAAGATATTATATG-AAAAAAATATAATATCAACCTATCATGTATCACATATAC
*
12601941 AACCTCCATATCCTAAGTGGTACAATGATAACTTACAGTGCGAATATCATGCCGGGGCTCGAGGG
65 AACCTCCATATCCTAAGTGGTACAATGATAACTTACAGTGCGAATATCATGCAGGGGCTCGAGGG
12602006 CATTCTATAAAAAGTTGCATTGCATTCAAAAGAATTGTTCAAAGCCTGAGAACAAAGAATATCAT
130 CATTCTATAAAAAGTTGCATTGCATTCAAAAGAATTGTTCAAAGCCTGAGAACAAAGAATATCAT
12602071 AAATTTTGGTGAT
195 AAATTTTGGTGAT
12602084 AAAGAG
1 AAAGAG
12602090 CAACCAAATG
Statistics
Matches: 202, Mismatches: 11, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
207 24 0.12
208 178 0.88
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (207 bp):
AAAGAGTTATACAAGATATTATATGAAAAAAATATAATATCAACCTATCATGTATCACATATACA
ACCTCCATATCCTAAGTGGTACAATGATAACTTACAGTGCGAATATCATGCAGGGGCTCGAGGGC
ATTCTATAAAAAGTTGCATTGCATTCAAAAGAATTGTTCAAAGCCTGAGAACAAAGAATATCATA
AATTTTGGTGAT
Found at i:12610954 original size:17 final size:18
Alignment explanation
Indices: 12610924--12610957 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
12610914 AAGGACTCGA
*
12610924 AGAATCCTATAAATAGGG
1 AGAATCCTACAAATAGGG
12610942 AGAA-CCTACAAATAGG
1 AGAATCCTACAAATAGG
12610958 AAAACACAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.47, C:0.15, G:0.21, T:0.18
Consensus pattern (18 bp):
AGAATCCTACAAATAGGG
Found at i:12611747 original size:19 final size:19
Alignment explanation
Indices: 12611711--12611749 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
12611701 TTTTCTATAT
*
12611711 TAATTATTAATTATTAGTA
1 TAATTATTAATTACTAGTA
12611730 TAATTAATTAA-TACTAGTA
1 TAATT-ATTAATTACTAGTA
12611749 T
1 T
12611750 TTTTACTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.49
Consensus pattern (19 bp):
TAATTATTAATTACTAGTA
Found at i:12622038 original size:20 final size:20
Alignment explanation
Indices: 12622013--12622058 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
12622003 GATGTTTAGT
12622013 GATTTCAGTATCACTAGGGA
1 GATTTCAGTATCACTAGGGA
12622033 GATTTCAGTATCACTAGGGA
1 GATTTCAGTATCACTAGGGA
12622053 GATTTC
1 GATTTC
12622059 CTTGTGGGCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (20 bp):
GATTTCAGTATCACTAGGGA
Found at i:12628883 original size:33 final size:34
Alignment explanation
Indices: 12628817--12628883 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
12628807 ACAATATTTT
* *
12628817 ATAAAAAATATAATTTTTAATTAAAAATTATAAA
1 ATAAAAAATATAATTTTTAATCAAAAATAATAAA
**
12628851 ATAAAAAATATAATTTTT-ATCAATTATAATAAA
1 ATAAAAAATATAATTTTTAATCAAAAATAATAAA
12628884 GATTAGAACT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 11 0.38
34 18 0.62
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (34 bp):
ATAAAAAATATAATTTTTAATCAAAAATAATAAA
Found at i:12628940 original size:29 final size:28
Alignment explanation
Indices: 12628864--12628943 Score: 97
Period size: 29 Copynumber: 2.8 Consensus size: 28
12628854 AAAAATATAA
* * *
12628864 TTTTTATCAATTATAATAAAGATTAGAAC
1 TTTTTAT-AATTATAATAGAGGTAAGAAC
*
12628893 TTTTAATAAATTATAATAGAGGTAAGAAC
1 TTTTTAT-AATTATAATAGAGGTAAGAAC
12628922 TTTTTATAATTTATAATAGAGG
1 TTTTTATAA-TTATAATAGAGG
12628944 ACAAAAACTT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
28 2 0.05
29 42 0.95
ACGTcount: A:0.44, C:0.04, G:0.11, T:0.41
Consensus pattern (28 bp):
TTTTTATAATTATAATAGAGGTAAGAAC
Found at i:12629017 original size:26 final size:28
Alignment explanation
Indices: 12628988--12629055 Score: 86
Period size: 26 Copynumber: 2.5 Consensus size: 28
12628978 TACATTCTAA
* *
12628988 AAATTGCAATAAAACCCTAT-TTTTT-T
1 AAATTACAATAAAACCCTATATTTTTAC
**
12629014 AAATTACTGTAAAACCCTATATTTTTAC
1 AAATTACAATAAAACCCTATATTTTTAC
12629042 AAATTACAATAAAA
1 AAATTACAATAAAA
12629056 TCTCATATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
26 17 0.50
27 5 0.15
28 12 0.35
ACGTcount: A:0.46, C:0.15, G:0.03, T:0.37
Consensus pattern (28 bp):
AAATTACAATAAAACCCTATATTTTTAC
Found at i:12629037 original size:28 final size:26
Alignment explanation
Indices: 12628997--12629048 Score: 68
Period size: 28 Copynumber: 1.9 Consensus size: 26
12628987 AAAATTGCAA
**
12628997 TAAAACCCTATTTTTTTAAATTACTG
1 TAAAACCCTATTTTTACAAATTACTG
12629023 TAAAACCCTATATTTTTACAAATTAC
1 TAAAACCC--TATTTTTACAAATTAC
12629049 AATAAAATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 8 0.36
28 14 0.64
ACGTcount: A:0.38, C:0.17, G:0.02, T:0.42
Consensus pattern (26 bp):
TAAAACCCTATTTTTACAAATTACTG
Found at i:12629414 original size:29 final size:29
Alignment explanation
Indices: 12629372--12629430 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
12629362 GGAATGCACT
12629372 AGCTCATCAAAAATCCTGTTACTCCTTCA
1 AGCTCATCAAAAATCCTGTTACTCCTTCA
12629401 AGCTCATCAAAAATCCTGTTACTCCTTCA
1 AGCTCATCAAAAATCCTGTTACTCCTTCA
12629430 A
1 A
12629431 AACTAACTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.32, C:0.31, G:0.07, T:0.31
Consensus pattern (29 bp):
AGCTCATCAAAAATCCTGTTACTCCTTCA
Found at i:12630103 original size:3 final size:3
Alignment explanation
Indices: 12630095--12630122 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
12630085 CATTTTACTT
12630095 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
12630123 ATATATTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:12631697 original size:2 final size:2
Alignment explanation
Indices: 12631685--12631725 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
12631675 ATATCTTATT
*
12631685 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
12631726 TTACTTCATT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:12634800 original size:15 final size:15
Alignment explanation
Indices: 12634782--12634830 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
12634772 TTTCCTTACA
12634782 TTTGCATTTTT-TAT
1 TTTGCATTTTTATAT
12634796 GTTTGCATTTTTATAT
1 -TTTGCATTTTTATAT
12634812 TTT-CA-TTTTATA-
1 TTTGCATTTTTATAT
12634824 TTTGCAT
1 TTTGCAT
12634831 CTTTGCATTG
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
12 3 0.10
13 9 0.29
14 2 0.06
15 14 0.45
16 3 0.10
ACGTcount: A:0.18, C:0.08, G:0.08, T:0.65
Consensus pattern (15 bp):
TTTGCATTTTTATAT
Found at i:12634820 original size:13 final size:14
Alignment explanation
Indices: 12634781--12634830 Score: 66
Period size: 13 Copynumber: 3.6 Consensus size: 14
12634771 TTTTCCTTAC
12634781 ATTTGCATTTTTTAT
1 ATTTGCA-TTTTTAT
*
12634796 GTTTGCATTTTTAT
1 ATTTGCATTTTTAT
*
12634810 ATTTTCA-TTTTAT
1 ATTTGCATTTTTAT
12634823 ATTTGCAT
1 ATTTGCAT
12634831 CTTTGCATTG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
13 12 0.40
14 12 0.40
15 6 0.20
ACGTcount: A:0.20, C:0.08, G:0.08, T:0.64
Consensus pattern (14 bp):
ATTTGCATTTTTAT
Found at i:12637119 original size:18 final size:17
Alignment explanation
Indices: 12637096--12637144 Score: 66
Period size: 15 Copynumber: 2.9 Consensus size: 17
12637086 TTCAAATAGT
12637096 AAAAAGAAATGAAGAAAG
1 AAAAAGAAA-GAAGAAAG
12637114 AAAAAGAAAGAA-AAAG
1 AAAAAGAAAGAAGAAAG
*
12637130 -GAAAGAAAGAAGAAA
1 AAAAAGAAAGAAGAAA
12637145 AAGAGAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 10 0.34
16 7 0.24
17 3 0.10
18 9 0.31
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (17 bp):
AAAAAGAAAGAAGAAAG
Found at i:12637133 original size:11 final size:10
Alignment explanation
Indices: 12637107--12637144 Score: 58
Period size: 10 Copynumber: 3.6 Consensus size: 10
12637097 AAAAGAAATG
12637107 AAGAAAGAAA
1 AAGAAAGAAA
12637117 AAGAAAGAAA
1 AAGAAAGAAA
12637127 AAGGAAAGAAA
1 AA-GAAAGAAA
12637138 GAAGAAA
1 -AAGAAA
12637145 AAGAGAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 12 0.46
11 12 0.46
12 2 0.08
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (10 bp):
AAGAAAGAAA
Found at i:12637140 original size:19 final size:19
Alignment explanation
Indices: 12637116--12637152 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 19
12637106 GAAGAAAGAA
12637116 AAAGAAAGAAAAAG-GAAAG
1 AAAG-AAGAAAAAGAGAAAG
12637135 AAAGAAGAAAAAGAGAAA
1 AAAGAAGAAAAAGAGAAA
12637153 AAAAAGGGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (19 bp):
AAAGAAGAAAAAGAGAAAG
Found at i:12640734 original size:22 final size:20
Alignment explanation
Indices: 12640684--12640738 Score: 83
Period size: 20 Copynumber: 2.6 Consensus size: 20
12640674 ACATCTACAA
*
12640684 TCTTCAAAGAAGATAGATTC
1 TCTTCAAAGATGATAGATTC
12640704 TCTTCAAAGATGATAGATTC
1 TCTTCAAAGATGATAGATTC
12640724 TCTTTTCAAAGATGA
1 TC--TTCAAAGATGA
12640739 AAGCTTTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 21 0.66
22 11 0.34
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.35
Consensus pattern (20 bp):
TCTTCAAAGATGATAGATTC
Found at i:12641512 original size:45 final size:45
Alignment explanation
Indices: 12641443--12641691 Score: 356
Period size: 45 Copynumber: 5.5 Consensus size: 45
12641433 GGGAACTTTT
*
12641443 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCA
* **
12641488 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGATATACAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCA
* *
12641533 TTG-TGTTTTTAAAACCTTCGGGTCATCTGTAAGACCTTCAGTGCA
1 -TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCA
* *
12641578 TGATGTTTTCAAAACCTTCGGGTAATTTGTAAGACCTACAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCA
**
12641623 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCA
* *
12641668 GGATGTTTTTAAAAAGCCTTCGGG
1 TGATG-TTTTCAAAA-CCTTCGGG
12641692 AGCTTTTTGA
Statistics
Matches: 181, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
44 2 0.01
45 161 0.89
46 10 0.06
47 8 0.04
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCA
Found at i:12641524 original size:76 final size:75
Alignment explanation
Indices: 12641372--12641524 Score: 182
Period size: 76 Copynumber: 2.0 Consensus size: 75
12641362 GTGCATGATG
* *
12641372 TTTTCAAAACCATCGGGTCATCCATAAGACCTATAGTGCAGGATGTTTTCAAAAATCCTTCGGGA
1 TTTTCAAAACCATCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTC-AAAAGCCTTCGGGA
* **
12641437 ACTTTTTGATA
65 ACTGTAAGATA
* ** *
12641448 TTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTC-AAAGCCTTCGGGTC
1 TTTTCAAAACCATCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAGCCTTCGGG--
*
12641512 ATCTGTAAGATA
64 AACTGTAAGATA
12641524 T
1 T
12641525 ACAGTGCATT
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
74 11 0.17
76 54 0.83
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.33
Consensus pattern (75 bp):
TTTTCAAAACCATCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAGCCTTCGGGAA
CTGTAAGATA
Found at i:12641866 original size:76 final size:75
Alignment explanation
Indices: 12641633--12641892 Score: 314
Period size: 76 Copynumber: 3.5 Consensus size: 75
12641623 TGATGTTTTC
* * *
12641633 AAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTTAAAAAGCCTTCGGGAGCTTT
1 AAAACCTTCGGGTCATCTATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTC-GGAGATTT
*
12641698 TTGATATCTTT
65 TTGATATATTT
* * * *
12641709 AAAACCTTCGGGGCATCTGTATGACCTACAGTGC---ATATTTTCAAAAAGCCTTCGGCA-ACTT
1 AAAACCTTCGGGTCATCTATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGG-AGA-TT
12641770 TTTGATATATTT
64 TTTGATATATTT
** * *
12641782 AAAACCTTCGGGTCATCTGCAAGACCTATAGTGCAGGATGTTTTCAAAAAGACTTCAGGAGATTT
1 AAAACCTTCGGGTCATCTATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTC-GGAGATTT
12641847 TTGATAT-TTT
65 TTGATATATTT
* *
12641857 CAAAGCCTTCGGGTCATCTATAAGACCTATAGTGCA
1 -AAAACCTTCGGGTCATCTATAAGACCTACAGTGCA
12641893 ATATGATAAG
Statistics
Matches: 159, Mismatches: 17, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
72 2 0.01
73 61 0.38
75 3 0.02
76 90 0.57
77 3 0.02
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (75 bp):
AAAACCTTCGGGTCATCTATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGAGATTTT
TGATATATTT
Found at i:12642209 original size:3 final size:3
Alignment explanation
Indices: 12642201--12642263 Score: 58
Period size: 3 Copynumber: 21.0 Consensus size: 3
12642191 CATTTTACTT
* * * *
12642201 TTA TTA TTA TTA TTG TTA TTA TTA TAA ATA TTA TTA TTA ATA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
12642248 TATA TT- TTA TATA TTA
1 T-TA TTA TTA T-TA TTA
12642264 AATAAAAAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
2 4 0.08
3 38 0.79
4 6 0.12
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:12642232 original size:21 final size:21
Alignment explanation
Indices: 12642208--12642257 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
12642198 CTTTTATTAT
* *
12642208 TATTATTGTTATTATTATAAA
1 TATTATTATTAATATTATAAA
*
12642229 TATTATTATTAATATTATATA
1 TATTATTATTAATATTATAAA
12642250 TATT-TTAT
1 TATTATTAT
12642258 ATATTAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 4 0.15
21 22 0.85
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
TATTATTATTAATATTATAAA
Found at i:12645032 original size:21 final size:21
Alignment explanation
Indices: 12645008--12645059 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
12644998 TACTAACCAA
*
12645008 TTTATTTTTTCCTTTCTCATT
1 TTTATTTTTCCCTTTCTCATT
*
12645029 TTTATTTTTCCCTTTCTCTTT
1 TTTATTTTTCCCTTTCTCATT
12645050 TTTATTTTTC
1 TTTATTTTTC
12645060 ATACATTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.08, C:0.19, G:0.00, T:0.73
Consensus pattern (21 bp):
TTTATTTTTCCCTTTCTCATT
Found at i:12647732 original size:14 final size:13
Alignment explanation
Indices: 12647715--12647744 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
12647705 TATTATTTCA
12647715 AATTAATTAAATAT
1 AATTAATTAAAT-T
12647729 AATTAATTAAATT
1 AATTAATTAAATT
12647742 AAT
1 AAT
12647745 AATCCATTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
AATTAATTAAATT
Found at i:12654554 original size:90 final size:90
Alignment explanation
Indices: 12654398--12654578 Score: 299
Period size: 90 Copynumber: 2.0 Consensus size: 90
12654388 CCTAACACAC
* * *
12654398 CCTTTTATAGCCAAGTTATCCTAATCATATTAGGGTTTTTATTATTTAAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTAAAATTAATTAAATATAT
* *
12654463 ATTTAATTAATTGGAATTTAATATT
66 ATTTAATTAATTGAAATTAAATATT
* *
12654488 CCTTTTATATCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATATAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTAAAATTAATTAAATATAT
12654553 ATTTAATTAATTGAAATTAAATATT
66 ATTTAATTAATTGAAATTAAATATT
12654578 C
1 C
12654579 GGGATTATTA
Statistics
Matches: 84, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
90 84 1.00
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.46
Consensus pattern (90 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTAAAATTAATTAAATATAT
ATTTAATTAATTGAAATTAAATATT
Found at i:12658619 original size:20 final size:20
Alignment explanation
Indices: 12658603--12658869 Score: 281
Period size: 20 Copynumber: 13.2 Consensus size: 20
12658593 GAGAGTATTG
*
12658603 ATACTTTTCCAAGAGTATCA
1 ATACTTTTCCAAGAGTATCC
* *
12658623 AGACTTTCCCAAGAGTATCC
1 ATACTTTTCCAAGAGTATCC
*
12658643 ATACTTTCCCAAGAGTATCC
1 ATACTTTTCCAAGAGTATCC
* *
12658663 ATACTTTACCATGAGTATCC
1 ATACTTTTCCAAGAGTATCC
*
12658683 ATACTTTTCCCAAGAGTATAC
1 ATACTTTT-CCAAGAGTATCC
*
12658704 ATACTTTCCCAAGCA-TATCC
1 ATACTTTTCCAAG-AGTATCC
12658724 ATACTTTTCCCAAGAGTATCC
1 ATACTTTT-CCAAGAGTATCC
* * *
12658745 ATACTTTTCTAAGAATATTC
1 ATACTTTTCCAAGAGTATCC
12658765 ATAC-TTTCACAAGAGTATCC
1 ATACTTTTC-CAAGAGTATCC
* * *
12658785 ATACTTTTCTAAGAATATTC
1 ATACTTTTCCAAGAGTATCC
*
12658805 ATAC-TTTCACAAGAGTATAC
1 ATACTTTTC-CAAGAGTATCC
* * *
12658825 ATACTTTTCTAAGAATATTC
1 ATACTTTTCCAAGAGTATCC
*
12658845 ATAC-TTTCACAAGAGTATTC
1 ATACTTTTC-CAAGAGTATCC
12658865 ATACT
1 ATACT
12658870 AAGTAAATGA
Statistics
Matches: 208, Mismatches: 29, Indels: 19
0.81 0.11 0.07
Matches are distributed among these distances:
19 12 0.06
20 152 0.73
21 44 0.21
ACGTcount: A:0.33, C:0.23, G:0.09, T:0.35
Consensus pattern (20 bp):
ATACTTTTCCAAGAGTATCC
Found at i:12658689 original size:60 final size:60
Alignment explanation
Indices: 12658594--12658869 Score: 313
Period size: 60 Copynumber: 4.6 Consensus size: 60
12658584 TTTCTAGTTG
** * * *
12658594 AGAGTATTGATACTTTTCCAAGAGTATCAAGACTTTCCCAAGAGTATCCATACTTTCCCA
1 AGAGTATCCATACTTTTCCAAGAGTATCCATACTTTCCCAAGAGTATACATACTTTCCCA
* *
12658654 AGAGTATCCATACTTTACCATGAGTATCCATACTTTTCCCAAGAGTATACATACTTTCCCA
1 AGAGTATCCATACTTTTCCAAGAGTATCCATAC-TTTCCCAAGAGTATACATACTTTCCCA
* * * * *
12658715 AGCA-TATCCATACTTTTCCCAAGAGTATCCATACTTTTCTAAGAATATTCATACTTTCACA
1 AG-AGTATCCATACTTTT-CCAAGAGTATCCATACTTTCCCAAGAGTATACATACTTTCCCA
* * * * * *
12658776 AGAGTATCCATACTTTTCTAAGAATATTCATACTTTCACAAGAGTATACATACTTTTCTA
1 AGAGTATCCATACTTTTCCAAGAGTATCCATACTTTCCCAAGAGTATACATACTTTCCCA
* * *
12658836 AGAATATTCATAC-TTTCACAAGAGTATTCATACT
1 AGAGTATCCATACTTTTC-CAAGAGTATCCATACT
12658870 AAGTAAATGA
Statistics
Matches: 182, Mismatches: 29, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
59 4 0.02
60 85 0.47
61 77 0.42
62 16 0.09
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.35
Consensus pattern (60 bp):
AGAGTATCCATACTTTTCCAAGAGTATCCATACTTTCCCAAGAGTATACATACTTTCCCA
Found at i:12658868 original size:40 final size:40
Alignment explanation
Indices: 12658598--12658869 Score: 312
Period size: 40 Copynumber: 6.8 Consensus size: 40
12658588 TAGTTGAGAG
* * * * *
12658598 TATTGATACTTTTC-CAAGAGTATCAAGACTTTCCCAAGAG
1 TATTCATAC-TTTCACAAGAGTATCCATACTTTTCCAAGAA
* * * * *
12658638 TATCCATACTTTCCCAAGAGTATCCATACTTTACCATGAG
1 TATTCATACTTTCACAAGAGTATCCATACTTTTCCAAGAA
* * * * *
12658678 TATCCATACTTTTCCCAAGAGTATACATACTTTCCCAAGCA
1 TATTCATAC-TTTCACAAGAGTATCCATACTTTTCCAAGAA
* * *
12658719 TATCCATACTTTTCCCAAGAGTATCCATACTTTTCTAAGAA
1 TATTCATAC-TTTCACAAGAGTATCCATACTTTTCCAAGAA
*
12658760 TATTCATACTTTCACAAGAGTATCCATACTTTTCTAAGAA
1 TATTCATACTTTCACAAGAGTATCCATACTTTTCCAAGAA
* *
12658800 TATTCATACTTTCACAAGAGTATACATACTTTTCTAAGAA
1 TATTCATACTTTCACAAGAGTATCCATACTTTTCCAAGAA
*
12658840 TATTCATACTTTCACAAGAGTATTCATACT
1 TATTCATACTTTCACAAGAGTATCCATACT
12658870 AAGTAAATGA
Statistics
Matches: 211, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 4 0.02
40 136 0.64
41 71 0.34
ACGTcount: A:0.33, C:0.23, G:0.09, T:0.35
Consensus pattern (40 bp):
TATTCATACTTTCACAAGAGTATCCATACTTTTCCAAGAA
Found at i:12659121 original size:20 final size:20
Alignment explanation
Indices: 12659096--12659316 Score: 248
Period size: 20 Copynumber: 10.9 Consensus size: 20
12659086 TATCTAGTTG
* *
12659096 AGAGTATCGATTCTTTTCCA
1 AGAGTATCCATACTTTTCCA
* * *
12659116 AGAGTATCAAGACTTTCCCA
1 AGAGTATCCATACTTTTCCA
* *
12659136 AGAGTATCCGTACTTTCCCA
1 AGAGTATCCATACTTTTCCA
*
12659156 ACAGTATCCATACTTTTCCA
1 AGAGTATCCATACTTTTCCA
*
12659176 AGAGTAACCATACTTTTCCCA
1 AGAGTATCCATACTTTT-CCA
* *
12659197 AGAGTATCCATACATTCCCA
1 AGAGTATCCATACTTTTCCA
12659217 AGCA-TATCCATACTTTTCCCA
1 AG-AGTATCCATACTTTT-CCA
* *
12659238 AGAGTATCTATACTTTTCTA
1 AGAGTATCCATACTTTTCCA
* *
12659258 AGAATATTCATAC-TTTCACA
1 AGAGTATCCATACTTTTC-CA
12659278 AGAGTATCCATACTTTTCCA
1 AGAGTATCCATACTTTTCCA
*
12659298 GGAGTATCCATACTTTTCC
1 AGAGTATCCATACTTTTCC
12659317 CAAGGGTATT
Statistics
Matches: 169, Mismatches: 26, Indels: 12
0.82 0.13 0.06
Matches are distributed among these distances:
19 4 0.02
20 126 0.75
21 39 0.23
ACGTcount: A:0.30, C:0.26, G:0.10, T:0.33
Consensus pattern (20 bp):
AGAGTATCCATACTTTTCCA
Found at i:12659194 original size:41 final size:41
Alignment explanation
Indices: 12659096--12659325 Score: 270
Period size: 41 Copynumber: 5.7 Consensus size: 41
12659086 TATCTAGTTG
* * * * *
12659096 AGAGTATCGATTCTTTT-CCAAGAGTATCAAGACTTTCCCA
1 AGAGTATCCATACTTTTCCCAAGAGTATCCATACTTTTCCA
* *
12659136 AGAGTATCCGTAC-TTTCCCAACAGTATCCATACTTTTCCA
1 AGAGTATCCATACTTTTCCCAAGAGTATCCATACTTTTCCA
* * *
12659176 AGAGTAACCATACTTTTCCCAAGAGTATCCATACATTCCCA
1 AGAGTATCCATACTTTTCCCAAGAGTATCCATACTTTTCCA
* *
12659217 AGCA-TATCCATACTTTTCCCAAGAGTATCTATACTTTTCTA
1 AG-AGTATCCATACTTTTCCCAAGAGTATCCATACTTTTCCA
* * *
12659258 AGAATATTCATAC-TTTCACAAGAGTATCCATACTTTTCCA
1 AGAGTATCCATACTTTTCCCAAGAGTATCCATACTTTTCCA
* *
12659298 GGAGTATCCATACTTTTCCCAAGGGTAT
1 AGAGTATCCATACTTTTCCCAAGAGTAT
12659326 TGATATTACT
Statistics
Matches: 159, Mismatches: 26, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
39 3 0.02
40 75 0.47
41 80 0.50
42 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.33
Consensus pattern (41 bp):
AGAGTATCCATACTTTTCCCAAGAGTATCCATACTTTTCCA
Found at i:12659225 original size:61 final size:62
Alignment explanation
Indices: 12659098--12659325 Score: 286
Period size: 61 Copynumber: 3.7 Consensus size: 62
12659088 TCTAGTTGAG
* * * * *
12659098 AGTATCGATTCTTTTCCAAGAGTATCAAGAC-TTTCCCAAGAGTATCCGTACTTTCCCAA-C
1 AGTATCCATACTTTTCCAAGAGTATCCATACTTTTCCCAAGAGTATCCATACTTTCCCAAGC
* *
12659158 AGTATCCATACTTTTCCAAGAGTAACCATACTTTTCCCAAGAGTATCCATACATTCCCAAGC
1 AGTATCCATACTTTTCCAAGAGTATCCATACTTTTCCCAAGAGTATCCATACTTTCCCAAGC
* * * * *
12659220 A-TATCCATACTTTTCCCAAGAGTATCTATACTTTT-CTAAGAATATTCATACTTTCACAAG-
1 AGTATCCATACTTTT-CCAAGAGTATCCATACTTTTCCCAAGAGTATCCATACTTTCCCAAGC
* *
12659280 AGTATCCATACTTTTCCAGGAGTATCCATACTTTTCCCAAGGGTAT
1 AGTATCCATACTTTTCCAAGAGTATCCATACTTTTCCCAAGAGTAT
12659326 TGATATTACT
Statistics
Matches: 144, Mismatches: 19, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
60 45 0.31
61 79 0.55
62 20 0.14
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.33
Consensus pattern (62 bp):
AGTATCCATACTTTTCCAAGAGTATCCATACTTTTCCCAAGAGTATCCATACTTTCCCAAGC
Found at i:12659313 original size:502 final size:502
Alignment explanation
Indices: 12658371--12659313 Score: 1679
Period size: 502 Copynumber: 1.9 Consensus size: 502
12658361 ATTACATTAT
*
12658371 TAAATGACATTTTAGATGTAAACAAGGTGTTTTTATGTCACTTTAGGATCCTAAGTAACCTCCTA
1 TAAATGACATTTTAGATGTAAACAAGGTGTATTTATGTCACTTTAGGATCCTAAGTAACCTCCTA
* *
12658436 AAGCTTTAGTATAGGATTAGGAACCAAACTAAGACCTTTGGGATGAATTCTAAGCATTTCCCAAG
66 AAGCTTTAGTACAGGATTAGGAACCAAACTAAGACCTTTGGGATAAATTCTAAGCATTTCCCAAG
*
12658501 CCTAAACAATTCATTTCTAGGTTTGAGTATCGATACTGGATGAACAATATTGATATTGAATGAAT
131 CATAAACAATTCATTTCTAGGTTTGAGTATCGATACTGGATGAACAATATTGATATTGAATGAAT
* * *
12658566 TCGTATGAAATATGGGCTTTTCTAGTTGAGAGTATTGATACTTTTCCAAGAGTATCAAGACTTTC
196 TCGGATGAAATATGGGCTTATCTAGTTGAGAGTATCGATACTTTTCCAAGAGTATCAAGACTTTC
* * *
12658631 CCAAGAGTATCCATACTTTCCCAAGAGTATCCATACTTTACCATGAGTATCCATACTTTTCCCAA
261 CCAAGAGTATCCATACTTTCCCAACAGTATCCATACTTTACCAAGAGTAACCATACTTTTCCCAA
*
12658696 GAGTATACATACTTTCCCAAGCATATCCATACTTTTCCCAAGAGTATCCATACTTTTCTAAGAAT
326 GAGTATACATACATTCCCAAGCATATCCATACTTTTCCCAAGAGTATCCATACTTTTCTAAGAAT
* *
12658761 ATTCATACTTTCACAAGAGTATCCATACTTTTCTAAGAATATTCATACTTTCACAAGAGTATACA
391 ATTCATACTTTCACAAGAGTATCCATACTTTTCCAAGAATATCCATACTTTCACAAGAGTATACA
12658826 TACTTTTCTAAGAATATTCATACTTTCACAAGAGTATTCATACTAAG
456 TACTTTTCTAAGAATATTCATACTTTCACAAGAGTATTCATACTAAG
12658873 TAAATGACATTTTAGATGTAAACAAGGTGTATTTATGTCACTTTAGGATCCTAAGTAACCTCCTA
1 TAAATGACATTTTAGATGTAAACAAGGTGTATTTATGTCACTTTAGGATCCTAAGTAACCTCCTA
12658938 AAGCTTTAGTACAGGATTAGGAACCAAACTAAGACCTTTGGGATAAATTCTAAGCATTTCCCAAG
66 AAGCTTTAGTACAGGATTAGGAACCAAACTAAGACCTTTGGGATAAATTCTAAGCATTTCCCAAG
* *
12659003 CATAAACAATTCATTTCTAGGTTTGAGTATCGATATTGGATGAACAATATTGATATTGGATGAAT
131 CATAAACAATTCATTTCTAGGTTTGAGTATCGATACTGGATGAACAATATTGATATTGAATGAAT
* *
12659068 TGGGATGAAATATGGGCTTATCTAGTTGAGAGTATCGATTCTTTTCCAAGAGTATCAAGACTTTC
196 TCGGATGAAATATGGGCTTATCTAGTTGAGAGTATCGATACTTTTCCAAGAGTATCAAGACTTTC
* *
12659133 CCAAGAGTATCCGTACTTTCCCAACAGTATCCATACTTTTCCAAGAGTAACCATACTTTTCCCAA
261 CCAAGAGTATCCATACTTTCCCAACAGTATCCATACTTTACCAAGAGTAACCATACTTTTCCCAA
* *
12659198 GAGTATCCATACATTCCCAAGCATATCCATACTTTTCCCAAGAGTATCTATACTTTTCTAAGAAT
326 GAGTATACATACATTCCCAAGCATATCCATACTTTTCCCAAGAGTATCCATACTTTTCTAAGAAT
* *
12659263 ATTCATACTTTCACAAGAGTATCCATACTTTTCCAGGAGTATCCATACTTT
391 ATTCATACTTTCACAAGAGTATCCATACTTTTCCAAGAATATCCATACTTT
12659314 TCCCAAGGGT
Statistics
Matches: 418, Mismatches: 23, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
502 418 1.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (502 bp):
TAAATGACATTTTAGATGTAAACAAGGTGTATTTATGTCACTTTAGGATCCTAAGTAACCTCCTA
AAGCTTTAGTACAGGATTAGGAACCAAACTAAGACCTTTGGGATAAATTCTAAGCATTTCCCAAG
CATAAACAATTCATTTCTAGGTTTGAGTATCGATACTGGATGAACAATATTGATATTGAATGAAT
TCGGATGAAATATGGGCTTATCTAGTTGAGAGTATCGATACTTTTCCAAGAGTATCAAGACTTTC
CCAAGAGTATCCATACTTTCCCAACAGTATCCATACTTTACCAAGAGTAACCATACTTTTCCCAA
GAGTATACATACATTCCCAAGCATATCCATACTTTTCCCAAGAGTATCCATACTTTTCTAAGAAT
ATTCATACTTTCACAAGAGTATCCATACTTTTCCAAGAATATCCATACTTTCACAAGAGTATACA
TACTTTTCTAAGAATATTCATACTTTCACAAGAGTATTCATACTAAG
Found at i:12660512 original size:90 final size:89
Alignment explanation
Indices: 12660391--12660569 Score: 295
Period size: 90 Copynumber: 2.0 Consensus size: 89
12660381 TAATCCCGAA
* * * *
12660391 TATTTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTAATGTGAT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATAAATTTGAAATAATAAAA-CCCTAATATGAT
12660456 TAGGGTAACTTGAATATAAAAGGGT
65 TAGGGTAACTTGAATATAAAAGGGT
12660481 TATTAAATTCCAATTAATTAAATATAGATTTAATAAATTTGAAATAATAAAACCCTAATATGATT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATAAATTTGAAATAATAAAACCCTAATATGATT
**
12660546 AGGGTAACTTGGCTATAAAAGGGT
66 AGGGTAACTTGAATATAAAAGGGT
12660570 GTGTTAGGTC
Statistics
Matches: 83, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
89 34 0.41
90 49 0.59
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.37
Consensus pattern (89 bp):
TATTAAATTCCAATTAATTAAATATAGATTTAATAAATTTGAAATAATAAAACCCTAATATGATT
AGGGTAACTTGAATATAAAAGGGT
Found at i:12667339 original size:90 final size:89
Alignment explanation
Indices: 12667239--12667403 Score: 276
Period size: 90 Copynumber: 1.8 Consensus size: 89
12667229 ATTTAATTTT
*
12667239 AATTAATTAAATATAGATTTAATTAATTTGAAATAACAAAATCCCTTATATGATTAGGGTAACTT
1 AATTAATTAAATATAGATTTAATTAATTTGAAATAACAAAA-CCCTAATATGATTAGGGTAACTT
12667304 GGATATAAAAGGATTATTAAATTCC
65 GGATATAAAAGGATTATTAAATTCC
* * *
12667329 AATTAATTAAATATAGATTTAATTAATTTTAATTAATAAAACCCTAATATGATTAGGGTAACTTG
1 AATTAATTAAATATAGATTTAATTAATTTGAAATAACAAAACCCTAATATGATTAGGGTAACTTG
*
12667394 GCTATAAAAG
66 GATATAAAAG
12667404 AGTGTGTTAG
Statistics
Matches: 70, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
89 32 0.46
90 38 0.54
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.37
Consensus pattern (89 bp):
AATTAATTAAATATAGATTTAATTAATTTGAAATAACAAAACCCTAATATGATTAGGGTAACTTG
GATATAAAAGGATTATTAAATTCC
Found at i:12672300 original size:22 final size:22
Alignment explanation
Indices: 12672261--12672302 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
12672251 CCTTCATTTC
*
12672261 TTCTTATTCTTTTCTCCACCTT
1 TTCTTATTCTTCTCTCCACCTT
12672283 TTCTTATTCATTCT-TCCACC
1 TTCTTATTC-TTCTCTCCACC
12672303 CAAGTACCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.12, C:0.33, G:0.00, T:0.55
Consensus pattern (22 bp):
TTCTTATTCTTCTCTCCACCTT
Found at i:12672667 original size:48 final size:48
Alignment explanation
Indices: 12672571--12672709 Score: 132
Period size: 42 Copynumber: 3.0 Consensus size: 48
12672561 TTCCCATAAG
* * * *
12672571 TATCCATTCTTT-TCCCAAGAGTATACATAC-TTTCCCAAGAGTATCCA
1 TATCCATACTTTCT-CCAAGAATATCCACACTTTTCCCAAGAGTATCCA
* * *
12672618 TA-CC-T--TTT-TCCAAGAGTATCCACAC-TTTCCGAAGAGTATTCA
1 TATCCATACTTTCTCCAAGAATATCCACACTTTTCCCAAGAGTATCCA
* *
12672660 TATCCATACTTTCTCTAAGAATATCCATACTTTTCCCAAGAGTATCCA
1 TATCCATACTTTCTCCAAGAATATCCACACTTTTCCCAAGAGTATCCA
12672708 TA
1 TA
12672710 CTTCTCAAGA
Statistics
Matches: 77, Mismatches: 9, Indels: 11
0.79 0.09 0.11
Matches are distributed among these distances:
42 31 0.40
43 6 0.08
44 1 0.01
45 1 0.01
46 5 0.06
47 16 0.21
48 17 0.22
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.35
Consensus pattern (48 bp):
TATCCATACTTTCTCCAAGAATATCCACACTTTTCCCAAGAGTATCCA
Found at i:12672688 original size:27 final size:26
Alignment explanation
Indices: 12672634--12672688 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
12672624 TTTCCAAGAG
* *
12672634 TATCCACACTTTCCGAAGAGTATTCA
1 TATCCACACTTTCCGAAGAATATCCA
* *
12672660 TATCCATACTTTCTCTAAGAATATCCA
1 TATCCACACTTTC-CGAAGAATATCCA
12672687 TA
1 TA
12672689 CTTTTCCCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 12 0.50
27 12 0.50
ACGTcount: A:0.33, C:0.25, G:0.07, T:0.35
Consensus pattern (26 bp):
TATCCACACTTTCCGAAGAATATCCA
Found at i:12672739 original size:40 final size:39
Alignment explanation
Indices: 12672505--12672846 Score: 256
Period size: 41 Copynumber: 8.2 Consensus size: 39
12672495 TTTTCTATCT
* * * * *
12672505 AAGAGTATCGATACTTTTCCTAGGTGTATCAATACTTTCC
1 AAGAGTATCCATACTTTTCC-AAGAGTATCCATACTTCCC
* * * *
12672545 AAGGAGTATCGATACATTCCCATA-AGTATCCATTCTTTTCCC
1 AA-GAGTATCCATACTTTTCCA-AGAGTATCCATAC--TTCCC
* * *
12672587 AAGAGTATACATACTTTCCCAAGAGTATCCATACCTTTTTCC
1 AAGAGTATCCATACTTTTCCAAGAGTATCCATA-C--TTCCC
* *
12672629 AAGAGTATCCACAC-TTTCCGAAGAGTATTCATATCCATACTTTCTCT
1 AAGAGTATCCATACTTTTCC-AAGAG------TATCCATAC-TTC-CC
* *
12672676 AAGAATATCCATACTTTTCCCAAGAGTATCCATACTTCTC
1 AAGAGTATCCATACTTTT-CCAAGAGTATCCATACTTCCC
* *
12672716 AAGAGTATTCATACTTTTTCCAAGTGTATCCATACTTCCC
1 AAGAGTATCCATAC-TTTTCCAAGAGTATCCATACTTCCC
*
12672756 AAGAGTATCCATACTTTTCCAAGAGTATTCATACTTTTCCC
1 AAGAGTATCCATACTTTTCCAAGAGTATCCATAC--TTCCC
* * *
12672797 AAGAGTATCCATACCTTTCAAAAAGTATCCATACTTTTCCC
1 AAGAGTATCCATACTTTTCCAAGAGTATCCATAC--TTCCC
*
12672838 TAGAGTATC
1 AAGAGTATC
12672847 GATATTACTC
Statistics
Matches: 250, Mismatches: 33, Indels: 37
0.78 0.10 0.12
Matches are distributed among these distances:
39 18 0.07
40 56 0.22
41 102 0.41
42 39 0.16
46 3 0.01
47 14 0.06
48 16 0.06
49 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.35
Consensus pattern (39 bp):
AAGAGTATCCATACTTTTCCAAGAGTATCCATACTTCCC
Found at i:12672846 original size:21 final size:21
Alignment explanation
Indices: 12672505--12672846 Score: 303
Period size: 20 Copynumber: 16.4 Consensus size: 21
12672495 TTTTCTATCT
* *
12672505 AAGAGTATCGATACTTTTCCT
1 AAGAGTATCCATACTTTTCCC
* * *
12672526 AGGTGTATCAATAC-TTT-CC
1 AAGAGTATCCATACTTTTCCC
* *
12672545 AAGGAGTATCGATAC-ATTCCC
1 AA-GAGTATCCATACTTTTCCC
*
12672566 ATA-AGTATCCATTCTTTTCCC
1 A-AGAGTATCCATACTTTTCCC
*
12672587 AAGAGTATACATAC-TTTCCC
1 AAGAGTATCCATACTTTTCCC
*
12672607 AAGAGTATCCATACCTTTTTCC
1 AAGAGTATCCATA-CTTTTCCC
* *
12672629 AAGAGTATCCACAC-TTTCCG
1 AAGAGTATCCATACTTTTCCC
* *
12672649 AAGAGTATTCATATCCATACTTTCTCT
1 AAGAGTATCCATA--C-T--TTTC-CC
*
12672676 AAGAATATCCATACTTTTCCC
1 AAGAGTATCCATACTTTTCCC
*
12672697 AAGAGTATCCATAC--TTCTC
1 AAGAGTATCCATACTTTTCCC
* *
12672716 AAGAGTATTCATACTTTTTCC
1 AAGAGTATCCATACTTTTCCC
*
12672737 AAGTGTATCCATAC--TTCCC
1 AAGAGTATCCATACTTTTCCC
12672756 AAGAGTATCCATACTTTT-CC
1 AAGAGTATCCATACTTTTCCC
*
12672776 AAGAGTATTCATACTTTTCCC
1 AAGAGTATCCATACTTTTCCC
* *
12672797 AAGAGTATCCATACCTTT-CA
1 AAGAGTATCCATACTTTTCCC
*
12672817 AAAAGTATCCATACTTTTCCC
1 AAGAGTATCCATACTTTTCCC
*
12672838 TAGAGTATC
1 AAGAGTATC
12672847 GATATTACTC
Statistics
Matches: 259, Mismatches: 42, Indels: 40
0.76 0.12 0.12
Matches are distributed among these distances:
19 36 0.14
20 94 0.36
21 88 0.34
22 23 0.09
24 1 0.00
25 1 0.00
26 4 0.02
27 12 0.05
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.35
Consensus pattern (21 bp):
AAGAGTATCCATACTTTTCCC
Found at i:12674901 original size:9 final size:10
Alignment explanation
Indices: 12674872--12674910 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
12674862 TTATTAAGAC
12674872 AACGAAGATA
1 AACGAAGATA
12674882 AACGAAAGATA
1 AACG-AAGATA
12674893 AA-GAAGATA
1 AACGAAGATA
*
12674902 AACAAAGAT
1 AACGAAGAT
12674911 GATAAATGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
9 8 0.31
10 10 0.38
11 8 0.31
ACGTcount: A:0.64, C:0.08, G:0.18, T:0.10
Consensus pattern (10 bp):
AACGAAGATA
Found at i:12676988 original size:15 final size:16
Alignment explanation
Indices: 12676963--12676992 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
12676953 CTTTCCATCC
12676963 ATTGAATTTTGGAATG
1 ATTGAATTTTGGAATG
12676979 ATTG-ATTTTGGAAT
1 ATTGAATTTTGGAAT
12676993 ACTTGGCTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (16 bp):
ATTGAATTTTGGAATG
Found at i:12680819 original size:20 final size:20
Alignment explanation
Indices: 12680794--12680964 Score: 126
Period size: 20 Copynumber: 7.7 Consensus size: 20
12680784 TAATTAATAT
*
12680794 GCATGAAATGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
12680814 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
12680834 GCATGAAAGGATGGCATAGTTAAAAT
1 GCATGAAAGGAT-GC--A-TT--AAG
*
12680860 GCATGAAAGGATACATTAAG
1 GCATGAAAGGATGCATTAAG
*
12680880 GCATGAACGGATGTCATAATTAAAG
1 GCATGAAAGGATG-C---ATT-AAG
*
12680905 TGCATGAAAGGATGTCATAATTAAAAT
1 -GCATGAAAGGATG-C---ATT--AAG
12680932 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
12680952 GCATGAACGGATG
1 GCATGAAAGGATG
12680965 TCATAACTAA
Statistics
Matches: 128, Mismatches: 10, Indels: 26
0.78 0.06 0.16
Matches are distributed among these distances:
20 58 0.45
21 3 0.02
22 5 0.04
23 2 0.02
24 5 0.04
25 5 0.04
26 47 0.37
27 3 0.02
ACGTcount: A:0.41, C:0.10, G:0.26, T:0.23
Consensus pattern (20 bp):
GCATGAAAGGATGCATTAAG
Found at i:12680863 original size:26 final size:26
Alignment explanation
Indices: 12680834--12680944 Score: 126
Period size: 26 Copynumber: 4.5 Consensus size: 26
12680824 ATGCATTAAG
* *
12680834 GCATGAAAGGATGGCATAGTTAAAAT
1 GCATGAAAGGATGTCATAATTAAAAT
* *
12680860 GCATGAAAGGA--T-A-CATT--AAG
1 GCATGAAAGGATGTCATAATTAAAAT
* *
12680880 GCATGAACGGATGTCATAATTAAAGT
1 GCATGAAAGGATGTCATAATTAAAAT
12680906 GCATGAAAGGATGTCATAATTAAAAT
1 GCATGAAAGGATGTCATAATTAAAAT
12680932 GCATGAAAGGATG
1 GCATGAAAGGATG
12680945 CATTAAGGCA
Statistics
Matches: 69, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
20 12 0.17
22 3 0.04
23 2 0.03
24 3 0.04
26 49 0.71
ACGTcount: A:0.42, C:0.09, G:0.25, T:0.23
Consensus pattern (26 bp):
GCATGAAAGGATGTCATAATTAAAAT
Found at i:12680864 original size:46 final size:46
Alignment explanation
Indices: 12680814--12680918 Score: 165
Period size: 46 Copynumber: 2.3 Consensus size: 46
12680804 ATGCATTAAG
*
12680814 GCATGAAAGGATGCATTAAGGCATGAAAGGATGGCATAGTTAAAAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGGCATAATTAAAAT
* * * *
12680860 GCATGAAAGGATACATTAAGGCATGAACGGATGTCATAATTAAAGT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGGCATAATTAAAAT
12680906 GCATGAAAGGATG
1 GCATGAAAGGATG
12680919 TCATAATTAA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 53 1.00
ACGTcount: A:0.41, C:0.10, G:0.28, T:0.22
Consensus pattern (46 bp):
GCATGAAAGGATGCATTAAGGCATGAAAGGATGGCATAATTAAAAT
Found at i:12680933 original size:72 final size:71
Alignment explanation
Indices: 12680765--12680975 Score: 290
Period size: 72 Copynumber: 3.0 Consensus size: 71
12680755 TGTTATCATT
* * * *
12680765 AAGGCATGAAATGAT-TCCATAATTAATATGCATGAAATGATGCATTAAGGCATGAAAGGATG-C
1 AAGGCATGAAAGGATGT-CATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAACGGATGTC
12680828 ---ATT-
65 ATAATTA
* * *
12680831 AAGGCATGAAAGGATGGCATAGTTAAAATGCATGAAAGGATACATTAAGGCATGAACGGATGTCA
1 AAGGCATGAAAGGATGTCATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAACGGATGTCA
12680896 TAATTA
66 TAATTA
12680902 AAGTGCATGAAAGGATGTCATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAACGGATGTC
1 AAG-GCATGAAAGGATGTCATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAACGGATGTC
*
12680967 ATAACTA
65 ATAATTA
12680974 AA
1 AA
12680976 ATTTACAAGA
Statistics
Matches: 127, Mismatches: 11, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
66 54 0.43
67 1 0.01
70 3 0.02
71 3 0.02
72 66 0.52
ACGTcount: A:0.42, C:0.10, G:0.23, T:0.24
Consensus pattern (71 bp):
AAGGCATGAAAGGATGTCATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAACGGATGTCA
TAATTA
Found at i:12680956 original size:46 final size:46
Alignment explanation
Indices: 12680761--12680977 Score: 136
Period size: 46 Copynumber: 4.7 Consensus size: 46
12680751 AATATGTTAT
* * *
12680761 CATTAAGGCATGAAATGAT-TCCATAATTAATATGCATGAAATGATG
1 CATTAAGGCATGAAAGGATGT-CATAATTAAAATGCATGAAAGGATG
*
12680807 CATTAAGGCATGAAAGGATG-C---ATT--AAGGCATGAAAGGATGG
1 CATTAAGGCATGAAAGGATGTCATAATTAAAATGCATGAAAGGAT-G
* * * *
12680848 CATAGTTAAAATGCATGAAAGGA--T-A-CATT--AAGGCATGAACGGATG
1 C--A-TT--AAGGCATGAAAGGATGTCATAATTAAAATGCATGAAAGGATG
12680893 TCATAATTAAAGTGCATGAAAGGATGTCATAATTAAAATGCATGAAAGGATG
1 -C---ATT-AAG-GCATGAAAGGATGTCATAATTAAAATGCATGAAAGGATG
* *
12680945 CATTAAGGCATGAACGGATGTCATAACTAAAAT
1 CATTAAGGCATGAAAGGATGTCATAATTAAAAT
12680978 TTACAAGAAG
Statistics
Matches: 138, Mismatches: 14, Indels: 38
0.73 0.07 0.20
Matches are distributed among these distances:
40 12 0.09
41 2 0.01
42 3 0.02
43 1 0.01
44 2 0.01
45 5 0.04
46 86 0.62
47 4 0.03
48 4 0.03
49 1 0.01
50 3 0.02
51 1 0.01
52 14 0.10
ACGTcount: A:0.42, C:0.11, G:0.23, T:0.25
Consensus pattern (46 bp):
CATTAAGGCATGAAAGGATGTCATAATTAAAATGCATGAAAGGATG
Found at i:12687567 original size:26 final size:25
Alignment explanation
Indices: 12687546--12687971 Score: 149
Period size: 26 Copynumber: 18.2 Consensus size: 25
12687536 AGGCATTAAC
12687546 AGATGCCATAATTAAAATGCATGAA
1 AGATGCCATAATTAAAATGCATGAA
*
12687571 AGAATG-C---ATT--AAGGCATGAA
1 AG-ATGCCATAATTAAAATGCATGAA
12687591 AGGATGCCATAATTAAAATGCATGAAA
1 A-GATGCCATAATTAAAATGCATG-AA
*
12687618 AGATG-C---ATT-ATA-GCATGAA
1 AGATGCCATAATTAAAATGCATGAA
*
12687637 AGGATTCCATAATTAAAATGCATGAA
1 A-GATGCCATAATTAAAATGCATGAA
*
12687663 CGAATGCCATAATTAAAATGCATGAA
1 AG-ATGCCATAATTAAAATGCATGAA
* *
12687689 AGGATG-C---ATT--AAGGTATGAA
1 A-GATGCCATAATTAAAATGCATGAA
* *
12687709 AGGATGCAATAATTAAAATGCGTGAA
1 A-GATGCCATAATTAAAATGCATGAA
*
12687735 ATGATG-C---ATT--AAGGCATGAA
1 A-GATGCCATAATTAAAATGCATGAA
* * *
12687755 CGGATGACATAATTAAAATGAATGAA
1 -AGATGCCATAATTAAAATGCATGAA
12687781 AGGATG-C---ATT---ATGGCATGAA
1 A-GATGCCATAATTAAAAT-GCATGAA
*
12687801 AGGATGACATAATTAAAATGCATGAA
1 A-GATGCCATAATTAAAATGCATGAA
*
12687827 AGGATG-C-T--TT--AAGGCATGAA
1 A-GATGCCATAATTAAAATGCATGAA
* *
12687847 TGGATGCCATAATTAAAATGCATTAA
1 -AGATGCCATAATTAAAATGCATGAA
*
12687873 ATGATG-C---ATT--AAGGCATGAA
1 A-GATGCCATAATTAAAATGCATGAA
* *
12687893 CGGATGCCATAATTAAAATGCATTAA
1 -AGATGCCATAATTAAAATGCATGAA
*
12687919 AGGATG-C---ATT--AAGGCATGAA
1 A-GATGCCATAATTAAAATGCATGAA
*
12687939 CGGATGCCATAATTAAAATGCATGAA
1 -AGATGCCATAATTAAAATGCATGAA
12687965 ATGATGC
1 A-GATGC
12687972 ATTAAGGCAT
Statistics
Matches: 298, Mismatches: 39, Indels: 127
0.64 0.08 0.27
Matches are distributed among these distances:
19 5 0.02
20 96 0.32
21 10 0.03
22 24 0.08
24 24 0.08
25 12 0.04
26 121 0.41
27 6 0.02
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.24
Consensus pattern (25 bp):
AGATGCCATAATTAAAATGCATGAA
Found at i:12687584 original size:46 final size:46
Alignment explanation
Indices: 12687531--12687669 Score: 203
Period size: 46 Copynumber: 3.0 Consensus size: 46
12687521 AATATGTTAT
*
12687531 CATTAAGGCATTAACA-GATGCCATAATTAAAATGCATGAAAGAATG
1 CATTAAGGCATGAA-AGGATGCCATAATTAAAATGCATGAAAGAATG
12687577 CATTAAGGCATGAAAGGATGCCATAATTAAAATGCATGAAA-AGATG
1 CATTAAGGCATGAAAGGATGCCATAATTAAAATGCATGAAAGA-ATG
* *
12687623 CATTATA-GCATGAAAGGATTCCATAATTAAAATGCATGAACGAATG
1 CATTA-AGGCATGAAAGGATGCCATAATTAAAATGCATGAAAGAATG
12687669 C
1 C
12687670 CATAATTAAA
Statistics
Matches: 86, Mismatches: 3, Indels: 8
0.89 0.03 0.08
Matches are distributed among these distances:
45 2 0.02
46 82 0.95
47 2 0.02
ACGTcount: A:0.45, C:0.13, G:0.19, T:0.24
Consensus pattern (46 bp):
CATTAAGGCATGAAAGGATGCCATAATTAAAATGCATGAAAGAATG
Found at i:12687660 original size:72 final size:72
Alignment explanation
Indices: 12687584--12688003 Score: 255
Period size: 72 Copynumber: 6.0 Consensus size: 72
12687574 ATGCATTAAG
* *
12687584 GCATGAAAGGATGCCATAATTAAAATGCATGAAAAGATGCATTATA-GCATGAAAGGATTCCATA
1 GCATGAAAGGATGCCATAATTAAAATGCATGAAAAGATGCATTA-AGGCATGAAAGGATGCAATA
12687648 ATTAAAAT
65 ATTAAAAT
* * * *
12687656 GCATGAACGAATGCCATAATTAAAATGCATGAAAGGATGCATTAAGGTATGAAAGGATGCAATAA
1 GCATGAAAGGATGCCATAATTAAAATGCATGAAAAGATGCATTAAGGCATGAAAGGATGCAATAA
12687721 TTAAAAT
66 TTAAAAT
* * * ** * *
12687728 GCGTGAAATGATG-C---ATT--AAGGCATGAACGGATGACATAATTAAAATGAATGAAAGGATG
1 GCATGAAAGGATGCCATAATTAAAATGCATGAAAAGATG-C---ATT--AAGGCATGAAAGGATG
12687787 C----ATT---AT
60 CAATAATTAAAAT
* * * * *
12687793 GGCATGAAAGGATGACATAATTAAAATGCATGAAAGGATGCTTTAAGGCATGAATGGATGCCATA
1 -GCATGAAAGGATGCCATAATTAAAATGCATGAAAAGATGCATTAAGGCATGAAAGGATGCAATA
12687858 ATTAAAAT
65 ATTAAAAT
* * * ** * *
12687866 GCATTAAATGATG-C---ATT--AAGGCATGAACGGATGCCATAATTAAAATGCATTAAAGGATG
1 GCATGAAAGGATGCCATAATTAAAATGCATGAAAAGATG-C---ATT--AAGGCATGAAAGGATG
*
12687925 C----ATT--AAG
60 CAATAATTAAAAT
* *
12687932 GCATGAACGGATGCCATAATTAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGTC-ATA
1 GCATGAAAGGATGCCATAATTAAAATGCATGAAAAGATGCATTAAGGCATGAAAGGATG-CAATA
*
12687996 ACTAAAAT
65 ATTAAAAT
12688004 TTACAAGAAA
Statistics
Matches: 268, Mismatches: 41, Indels: 78
0.69 0.11 0.20
Matches are distributed among these distances:
65 2 0.01
66 79 0.29
67 5 0.02
68 17 0.06
70 16 0.06
71 5 0.02
72 142 0.53
73 2 0.01
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.25
Consensus pattern (72 bp):
GCATGAAAGGATGCCATAATTAAAATGCATGAAAAGATGCATTAAGGCATGAAAGGATGCAATAA
TTAAAAT
Found at i:12687721 original size:46 final size:46
Alignment explanation
Indices: 12687656--12688003 Score: 507
Period size: 46 Copynumber: 7.6 Consensus size: 46
12687646 TAATTAAAAT
* *
12687656 GCATGAACGAATGCCATAATTAAAATGCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCCATAATTAAAATGCATGAAAGGATGCATTAAG
* * * *
12687702 GTATGAAAGGATGCAATAATTAAAATGCGTGAAATGATGCATTAAG
1 GCATGAAAGGATGCCATAATTAAAATGCATGAAAGGATGCATTAAG
* * * *
12687748 GCATGAACGGATGACATAATTAAAATGAATGAAAGGATGCATTATG
1 GCATGAAAGGATGCCATAATTAAAATGCATGAAAGGATGCATTAAG
* *
12687794 GCATGAAAGGATGACATAATTAAAATGCATGAAAGGATGCTTTAAG
1 GCATGAAAGGATGCCATAATTAAAATGCATGAAAGGATGCATTAAG
* * *
12687840 GCATGAATGGATGCCATAATTAAAATGCATTAAATGATGCATTAAG
1 GCATGAAAGGATGCCATAATTAAAATGCATGAAAGGATGCATTAAG
* *
12687886 GCATGAACGGATGCCATAATTAAAATGCATTAAAGGATGCATTAAG
1 GCATGAAAGGATGCCATAATTAAAATGCATGAAAGGATGCATTAAG
* *
12687932 GCATGAACGGATGCCATAATTAAAATGCATGAAATGATGCATTAAG
1 GCATGAAAGGATGCCATAATTAAAATGCATGAAAGGATGCATTAAG
* *
12687978 GCATGAAAGGATGTCATAACTAAAAT
1 GCATGAAAGGATGCCATAATTAAAAT
12688004 TTACAAGAAA
Statistics
Matches: 272, Mismatches: 30, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 272 1.00
ACGTcount: A:0.43, C:0.11, G:0.22, T:0.24
Consensus pattern (46 bp):
GCATGAAAGGATGCCATAATTAAAATGCATGAAAGGATGCATTAAG
Found at i:12689045 original size:14 final size:14
Alignment explanation
Indices: 12689026--12689052 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
12689016 AATGCATCTA
12689026 AAAAGTATATATAC
1 AAAAGTATATATAC
12689040 AAAAGTATATATA
1 AAAAGTATATATA
12689053 TATAGCCTTC
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:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (14 bp):
AAAAGTATATATAC
Found at i:12689952 original size:24 final size:24
Alignment explanation
Indices: 12689877--12689940 Score: 119
Period size: 24 Copynumber: 2.7 Consensus size: 24
12689867 AAACGAACAC
*
12689877 GTTCGTGAACTTATAAAAGAACGA
1 GTTCGTGAACATATAAAAGAACGA
12689901 GTTCGTGAACATATAAAAGAACGA
1 GTTCGTGAACATATAAAAGAACGA
12689925 GTTCGTGAACATATAA
1 GTTCGTGAACATATAA
12689941 CCAGACATGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.42, C:0.12, G:0.20, T:0.25
Consensus pattern (24 bp):
GTTCGTGAACATATAAAAGAACGA
Found at i:12689975 original size:23 final size:24
Alignment explanation
Indices: 12689866--12689976 Score: 95
Period size: 24 Copynumber: 4.7 Consensus size: 24
12689856 AAACGAGCAT
* * * *
12689866 TAAACGAACACGTTCGTGAACTTA
1 TAAAAGAACATGTTCATGAACATA
*
12689890 TAAAAGAACGA-GTTCGTGAACATA
1 TAAAAGAAC-ATGTTCATGAACATA
*
12689914 TAAAAGAACGA-GTTCGTGAACATA
1 TAAAAGAAC-ATGTTCATGAACATA
*
12689938 TAACCAG-ACATGTTCATGAACAT-
1 TAA-AAGAACATGTTCATGAACATA
*
12689961 TAATAGAACATGTTCA
1 TAAAAGAACATGTTCA
12689977 CGATCAATAA
Statistics
Matches: 78, Mismatches: 5, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
22 2 0.03
23 13 0.17
24 60 0.77
25 3 0.04
ACGTcount: A:0.42, C:0.16, G:0.17, T:0.24
Consensus pattern (24 bp):
TAAAAGAACATGTTCATGAACATA
Found at i:12691337 original size:81 final size:80
Alignment explanation
Indices: 12691201--12691857 Score: 805
Period size: 81 Copynumber: 8.1 Consensus size: 80
12691191 ATTCCTTTAG
* * * * * * *
12691201 TCTTTTACACAAAGGCATTTAGCCTTTTATCTAACTTGCATGATTGACACCTTTCTGCCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAAC-TGCATAATTAACACCTTTCTGTCAAATGC
*
12691266 ACAGCTAGGCTATTAA
65 ACAGCTAGGCCATTAA
* * * * *
12691282 TCGTTTACTCATAGGTATTTAACCTTTCAGCTAACTGCTATAATTAACTCATTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGC-ATAATTAACACCTTTCTGTCAAATGC
** *
12691347 ACAAATAGGCCATTAG
65 ACAGCTAGGCCATTAA
12691363 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGAA-ACCTTTCTGTCAAATG
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACT-GCATAATT-AACACCTTTCTGTCAAATG
* *
12691427 CACAGTTAGGCTATTAA
64 CACAGCTAGGCCATTAA
* * * * **
12691444 TATTTTACTCAAACGTATTTAACCTTTCATCTAACTTGTATAATTGACATATTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAAC-TGCATAATTAACACCTTTCTGTCAAATGC
12691509 ACAGCTAGGCCATTAA
65 ACAGCTAGGCCATTAA
* * * * *
12691525 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAATTGGTATAATTGACACCTTTCTTTCAAATGT
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACT-GCATAATTAACACCTTTCTGTCAAATGC
* *
12691590 ACAGCTAGGCAATTAG
65 ACAGCTAGGCCATTAA
* *
12691606 TCTTTTACTCAAAGGTGTTTAACCATTCATCTAACTGGCATAATTAACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACT-GCATAATTAACACCTTTCTGTCAAATGC
*
12691671 ATAGCTAGGCCATTAA
65 ACAGCTAGGCCATTAA
* * * * *
12691687 TCTTTTAGTCAAAGGTATTTAACCTTTCATCTAACTAGCATAATTCACATCTTTATATCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACT-GCATAATTAACACCTTTCTGTCAAATGC
12691752 ACAGCTAGGCCATTAA
65 ACAGCTAGGCCATTAA
* * * *
12691768 TATTTTACTCAAAGGTTTTTAACCTTTCATCTAACGAGCATAATTGACACCTTTCT-TCCAAATG
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAAC-TGCATAATTAACACCTTTCTGT-CAAATG
*
12691832 CACAGCTAGGTCATTAA
64 CACAGCTAGGCCATTAA
*
12691849 TCATTTACT
1 TCTTTTACT
12691858 TTGGAATAGT
Statistics
Matches: 497, Mismatches: 71, Indels: 16
0.85 0.12 0.03
Matches are distributed among these distances:
80 6 0.01
81 486 0.98
82 5 0.01
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.37
Consensus pattern (80 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGCATAATTAACACCTTTCTGTCAAATGCA
CAGCTAGGCCATTAA
Found at i:12692618 original size:20 final size:20
Alignment explanation
Indices: 12692593--12692642 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
12692583 TGGCTCAATA
12692593 GTATCGATACCCCTACCATG
1 GTATCGATACCCCTACCATG
12692613 GTATCGATACCCCTACCATG
1 GTATCGATACCCCTACCATG
12692633 GTATCGATAC
1 GTATCGATAC
12692643 TACTATACTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (20 bp):
GTATCGATACCCCTACCATG
Found at i:12701310 original size:40 final size:40
Alignment explanation
Indices: 12701265--12701340 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
12701255 CTCTTACCTT
* * *
12701265 TGGTATCAATACTGCAAGAACAGTATCGGTACTGCTCATG
1 TGGTATCAATAATGCAAGAACAATATCAGTACTGCTCATG
* *
12701305 TGGTATCGATAATGTAAGAACAATATCAGTACTGCT
1 TGGTATCAATAATGCAAGAACAATATCAGTACTGCT
12701341 TACTTAGAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (40 bp):
TGGTATCAATAATGCAAGAACAATATCAGTACTGCTCATG
Found at i:12702031 original size:16 final size:16
Alignment explanation
Indices: 12702010--12702041 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
12702000 CCAATATAAC
12702010 CAAACCCAAAACACAA
1 CAAACCCAAAACACAA
12702026 CAAACCCAAAACACAA
1 CAAACCCAAAACACAA
12702042 TGTCGCGCCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.62, C:0.38, G:0.00, T:0.00
Consensus pattern (16 bp):
CAAACCCAAAACACAA
Found at i:12709614 original size:188 final size:188
Alignment explanation
Indices: 12709290--12709717 Score: 563
Period size: 188 Copynumber: 2.3 Consensus size: 188
12709280 TGTGACAACA
* * * * * * ** *
12709290 AGACCTCCTCAACATGAAGGAGCATTGTCATCATAAGCGACCATATTCTCTTCATCGTGGATGAG
1 AGACCTCCTCAACATGAAGGAGAAATGTCATCATAAGTGGCCAAATTCTCTTCATCATGGAAAAA
* * * * * * *
12709355 CAGTGTCGTTTTCAATATCAAATTATCTTCATGCAATCAGATTTCCTCAACAAGAAGGAACGATG
66 CAGTGTCATTTCCAACATCAAATTATCTCCAGGCAATCAGATTTCCTCAACAAGAAAGAACAATG
** * * *
12709420 TTGTCTTCAGATGAGA-CTAGATGTCC-ATATCAAGTAGGAACAATGTTGTCCACTGACT
131 TTGTCTTCAGATGA-ACCTAGACATCCTA-ATCAAGTAGGAACAATATCGTCCACTAACT
* * *
12709478 AGACCTACTCAACATGAAGGAGAAATGTCATCATAAGTGGCGAAATTCTCTTCATCATTGAAAAA
1 AGACCTCCTCAACATGAAGGAGAAATGTCATCATAAGTGGCCAAATTCTCTTCATCATGGAAAAA
* * *
12709543 CAGTGTCATTTCCAACATCAATTTATCTCCAGGCAGTCAGATTTCCTCAATAAGAAAGAACAATG
66 CAGTGTCATTTCCAACATCAAATTATCTCCAGGCAATCAGATTTCCTCAACAAGAAAGAACAATG
12709608 TTGTCTTCAGATGAACCTAGACATCCTAATCAAGTAGGAACAATATCGTCCACTAACT
131 TTGTCTTCAGATGAACCTAGACATCCTAATCAAGTAGGAACAATATCGTCCACTAACT
* *
12709666 AGACCTCCTAAACATGAAGGAGAAATATCATCATAAGTGGCCAAATTCTCTT
1 AGACCTCCTCAACATGAAGGAGAAATGTCATCATAAGTGGCCAAATTCTCTT
12709718 GAAAGGTGTA
Statistics
Matches: 207, Mismatches: 31, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
187 1 0.00
188 205 0.99
189 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (188 bp):
AGACCTCCTCAACATGAAGGAGAAATGTCATCATAAGTGGCCAAATTCTCTTCATCATGGAAAAA
CAGTGTCATTTCCAACATCAAATTATCTCCAGGCAATCAGATTTCCTCAACAAGAAAGAACAATG
TTGTCTTCAGATGAACCTAGACATCCTAATCAAGTAGGAACAATATCGTCCACTAACT
Found at i:12710150 original size:620 final size:620
Alignment explanation
Indices: 12709129--12710292 Score: 1623
Period size: 620 Copynumber: 1.9 Consensus size: 620
12709119 AAGAAGCTTT
* *
12709129 GATTTGTCCCTTATAAGGATACCTTCAAAATTTCTCTTGAAATTACATCTGACCAAAAATGAATT
1 GATTTCTCCCTTATAAGGATACCTTCAAAATTTATCTTGAAATTACATCTGACCAAAAATGAATT
* * * *
12709194 GCATACTATTATTCATGGAAACCCTTAAAATAGTTGCATTTATACATATACACCTTTTTTCACAA
66 ACATACTATCATTCATGAAAACCCTTAAAATAGTTGCATTCATACATATACACCTTTTTTCACAA
* * *
12709259 GTATTTCAGGATAGAAGAACTTGTGACAACAAGACCTCCTCAACATGAAGGAGCATTGTCATCAT
131 GTATTTCAGGAAAGAAGAACTAGTGAAAACAAGACCTCCTCAACATGAAGGAGCATTGTCATCAT
* * * * *
12709324 AAGCGACCATATTCTCTTCATCGTGGATGAGCAGTGTCGTTTTCAATATCAAATTATCTTCATGC
196 AAGCGACCAGATTCTCTTCATCATAGATGAGCAGTGTCATTTTCAACATCAAATTATCTTCATGC
12709389 AATCAGATTTCCTCAACAAGAAGGAACGATGTTGTCTTCAGATGAGACTAGATGTCCATATCAAG
261 AATCAGATTTCCTCAACAAGAAGGAACGATGTTGTCTTCAGATGAGACTAGATGTCCATATCAAG
* **
12709454 TAGGAACAATGTTGTCCACTGACTAGACCTACTCAACATGAAGGAGAAATGTCATCATAAGTGGC
326 TAGGAACAATATCATCCACTGACTAGACCTACTCAACATGAAGGAGAAATGTCATCATAAGTGGC
* * * * *
12709519 GAAATTCTCTTCATCA-TTGAAAAACAGTGTCATTTCCAACATCAATTTATCTCCAGGCAGTCAG
391 AAAATTCTCTTCAT-AGTTGAAAAACAATATCATTTCCAACATCAATTTATCTCCAGGAAATCAG
* *
12709583 A-TTTCCTCAATAAGAAA-GAACAATGTTGTCTTCAGAT-GAACCTAGACATCCTAATCAAGTAG
455 ACTTT-CTCAATAA-AAATGAACAATGTTATCTTCAGATCCAA-CTAGACATCCTAATCAAGTAG
*
12709645 GAACAATATCGTCCACTAACTAGACCTCCTAAACATGAAGGAGAAATATCATCATAAGTGGCCAA
517 GAACAATATCGTCCACGAACTAGACCTCCTAAACATGAAGGAGAAATATCATCATAAGTGGCCAA
12709710 ATTCTCTTGAAAGGTGTACATGTATGAATGCAATTATAA
582 ATTCTCTTGAAAGGTGTACATGTATGAATGCAATTATAA
* * * *
12709749 GATTTCTCTCTTATGAGGATACCTT-AAAATTTATGTTGAAATTACATCTGACTAAAAATGAATT
1 GATTTCTCCCTTATAAGGATACCTTCAAAATTTATCTTGAAATTACATCTGACCAAAAATGAATT
* * * * *
12709813 ACATACTATCATTCATGAAAACCCTTAAGATATTTGGATTCATACATGTACACCTTTTTTTTTAC
66 ACATACTATCATTCATGAAAACCCTTAAAATAGTTGCATTCATACATATACACC--TTTTTTCAC
* * * **
12709878 AA-TCCTTTTAGGAAATAATTACTAGTGAAAACAAGACCTCCTCAACATGACA-GAGCATTGTCA
129 AAGT-ATTTCAGGAAAGAAGAACTAGTGAAAACAAGACCTCCTCAACATGA-AGGAGCATTGTCA
*
12709941 TCATAAGCGACCAGATTCTCTTCATCATAGATGAGCAGTG-CAATTTTCAACATTAAATTATCTT
192 TCATAAGCGACCAGATTCTCTTCATCATAGATGAGCAGTGTC-ATTTTCAACATCAAATTATCTT
* *
12710005 CA-GGAATCAGATTTCCTCAACAAGAAGGAAC-AGTGTTGTCTTCAGAT-ACGACTCGATGTCC-
256 CATGCAATCAGATTTCCTCAACAAGAAGGAACGA-TGTTGTCTTCAGATGA-GACTAGATGTCCA
* * * *
12710066 TCATCAAGTAGGAACAATATCATCCACTGACTAGATCTCCTCAACATTAAGGAGCAATGTCATCA
319 T-ATCAAGTAGGAACAATATCATCCACTGACTAGACCTACTCAACATGAAGGAGAAATGTCATCA
** * *
12710131 TAAGTGGCAAAATTCTCTTCATAGTTGATGAGCAATATCGTTTCCAACATCAATTTATCTCCAGG
383 TAAGTGGCAAAATTCTCTTCATAGTTGAAAAACAATATCATTTCCAACATCAATTTATCTCCAGG
* * * * * *
12710196 AAATCATACTTTCTCAATAAAAATGAATAGTGTTATCTTCATATCCAACTAGACGTCCTCATCAA
448 AAATCAGACTTTCTCAATAAAAATGAACAATGTTATCTTCAGATCCAACTAGACATCCTAATCAA
*
12710261 GTAGGAACAATATCGTCCACGGACTAGACCTC
513 GTAGGAACAATATCGTCCACGAACTAGACCTC
12710293 TTCAAAATAA
Statistics
Matches: 475, Mismatches: 57, Indels: 24
0.85 0.10 0.04
Matches are distributed among these distances:
619 89 0.19
620 263 0.55
621 122 0.26
622 1 0.00
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (620 bp):
GATTTCTCCCTTATAAGGATACCTTCAAAATTTATCTTGAAATTACATCTGACCAAAAATGAATT
ACATACTATCATTCATGAAAACCCTTAAAATAGTTGCATTCATACATATACACCTTTTTTCACAA
GTATTTCAGGAAAGAAGAACTAGTGAAAACAAGACCTCCTCAACATGAAGGAGCATTGTCATCAT
AAGCGACCAGATTCTCTTCATCATAGATGAGCAGTGTCATTTTCAACATCAAATTATCTTCATGC
AATCAGATTTCCTCAACAAGAAGGAACGATGTTGTCTTCAGATGAGACTAGATGTCCATATCAAG
TAGGAACAATATCATCCACTGACTAGACCTACTCAACATGAAGGAGAAATGTCATCATAAGTGGC
AAAATTCTCTTCATAGTTGAAAAACAATATCATTTCCAACATCAATTTATCTCCAGGAAATCAGA
CTTTCTCAATAAAAATGAACAATGTTATCTTCAGATCCAACTAGACATCCTAATCAAGTAGGAAC
AATATCGTCCACGAACTAGACCTCCTAAACATGAAGGAGAAATATCATCATAAGTGGCCAAATTC
TCTTGAAAGGTGTACATGTATGAATGCAATTATAA
Found at i:12714081 original size:148 final size:147
Alignment explanation
Indices: 12713692--12714092 Score: 545
Period size: 148 Copynumber: 2.7 Consensus size: 147
12713682 TTTGAGACAC
* *
12713692 TTCATACCATAGTATTATAAATAATTACAATTAAAAATTTGAATAGAAATTCAAATAATTAGAGT
1 TTCATACCATAGTATTATAAATAA-TACAATT--AAATTTGAATAGAAATTCAAATAACTAGACT
* ** *
12713757 CGACTCAAATTTTATAAACATAACCTGATTCAAAAAAATATTTAATAAAATTTTAGTCATAAAAT
63 CGACTCAAATTTTATAAACATAACTTGATTCAAAAAAATATCAAATAAAATTTGAGTCATAAAAT
*
12713822 ATAACTCGTCAACTTGTATA
128 ATAACTCGTCAACTCGTATA
*
12713842 TTCATACCATAGTATTATAAATAATGACAATTAAATTTGAATAGAAATTCAAATAACTAGATTCG
1 TTCATACCATAGTATTATAAATAAT-ACAATTAAATTTGAATAGAAATTCAAATAACTAGACTCG
*
12713907 ACTCAAATTTTATAAACATAACTTGATTCGAAAAAAAT-TCAAATAAAGTTTGAGTCATAAAATA
65 ACTCAAATTTTATAAACATAACTTGATTC-AAAAAAATATCAAATAAAATTTGAGTCATAAAATA
* *
12713971 TGACTCGTCAGCTCGTATA
129 TAACTCGTCAACTCGTATA
* * * * *
12713990 TTCATACCATGGTATTATAAATAACTACAATTACATTTGAATAGAAATTCAAATGACTGGACTCC
1 TTCATACCATAGTATTATAAATAA-TACAATTAAATTTGAATAGAAATTCAAATAACTAGACTCG
* * * *
12714055 ACAT-AAATTTTATAAACTTGATTTGATACAAAAAAATA
65 AC-TCAAATTTTATAAACATAACTTGATTCAAAAAAATA
12714093 AACTGAAATT
Statistics
Matches: 226, Mismatches: 20, Indels: 12
0.88 0.08 0.05
Matches are distributed among these distances:
147 8 0.04
148 177 0.78
149 11 0.05
150 30 0.13
ACGTcount: A:0.46, C:0.12, G:0.08, T:0.33
Consensus pattern (147 bp):
TTCATACCATAGTATTATAAATAATACAATTAAATTTGAATAGAAATTCAAATAACTAGACTCGA
CTCAAATTTTATAAACATAACTTGATTCAAAAAAATATCAAATAAAATTTGAGTCATAAAATATA
ACTCGTCAACTCGTATA
Found at i:12714401 original size:60 final size:61
Alignment explanation
Indices: 12714325--12714463 Score: 176
Period size: 60 Copynumber: 2.3 Consensus size: 61
12714315 TCATATGTCC
* * * *
12714325 TCAAACTATGATTCTCATTTC-AAATTAGTTCTTAAACTTTTAAACATTTC-AATTTCATTA
1 TCAAACTATGAATCTCATTTCTAAATTACTCCTTAAACTTTTAAACA-TTCGAATTTCATCA
* * *
12714385 TCAAACTATGAATCTCA-TTCTAAATTACTCCTTAAGCTTTTGAACATTCGAATTTCATCC
1 TCAAACTATGAATCTCATTTCTAAATTACTCCTTAAACTTTTAAACATTCGAATTTCATCA
*
12714445 TTAAACTATGAATCTCATT
1 TCAAACTATGAATCTCATT
12714464 ATTAAATGGT
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
59 6 0.09
60 61 0.90
61 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.05, T:0.42
Consensus pattern (61 bp):
TCAAACTATGAATCTCATTTCTAAATTACTCCTTAAACTTTTAAACATTCGAATTTCATCA
Found at i:12715888 original size:525 final size:517
Alignment explanation
Indices: 12714863--12715893 Score: 1281
Period size: 525 Copynumber: 2.0 Consensus size: 517
12714853 GCCTCCTCCC
* * *
12714863 TTAATTTGATTTTTAGATTTGTTCCTAGCCATGCATGTGCTCAAACATAAATTGTTACATGAAAT
1 TTAATTTGATTTTTAGATTTGTCCCTAACCATGCATGTGCTCAAACATAAATTGGTACATGAAAT
* *
12714928 TTAAGTATATAAAATTTATGGTTTACCACTTGAGCTAGGTAGTACAATACGACTAAAAGAATTCC
66 TCAAGTATATAAAATTTATGGATTACCACTTGAGCTAGGTAGTACAATACGACTAAAAGAATTCC
* * * * *
12714993 TATATATTTTAAATTATAGATTTGAATTTTGTTAGGAACGAATTTTCTTTATTTTAGGCATAATA
131 TATATATTTTAAACTATAGATCTGAATTTTCTCACGAACGAATTTTCTTTATTTTAGGCATAATA
* * ** * *
12715058 CTAAAATTAAATCTTAATATTTACGAAATAGTCATTTTATTCATATTATTTTTAAAATATTTTAG
196 CTAAAATTAAATCTTAATATTTACAAAAAAAACATTTTATCCATATTATTTTTAAAATATTTTAA
** * * * *
12715123 CTCTCCACATTTGAGTGAATAATCACTCTAACCCCTTTTTTTTGAGAATTTTGACTCTAATATTT
261 CTCTAAACATTTGAGGGAATAACCACTCTAACCCCTTTTTTTAGAAAATTTTGACTCTAATATTT
*
12715188 TATTTTAGGATAAAAATGTCTCTATTTTAAAGCGTTAATCATTTATTAACAACGATTTTCATTCA
326 TATTTTAGGATAAAAATGTCTCTATTTTAAAGCATTAATCATTTATTAACAACGATTTTCATTCA
* * * **
12715253 TATAAGAACCTTTTTACACTAAAATAAAATATTATGGACAAAAATACTTAAAAAATAAAAACCAA
391 CAGAAAAACCTTTTTACAC-AAAATAAAATATTATAAACAAAAATACTTAAAAAATAAAAACCAA
* * * *
12715318 AATAATTATTTAATTTCACTTTAGAATTTTCGTTTTACATTGTGCCTTTATTTTTAATTGAACTA
455 AATAACTATTTAA-TTCAC--TAAAAATTTCCTTTTACATTGTGCCTTTATTTTTAATTGAACTA
12715383 T
517 T
* *
12715384 TTAATTTGATTTTTAGATTTGTCCCTAACCATGTATGTGCTGAATCAAACATATATTGGTACATG
1 TTAATTTGATTTTTAGATTTGTCCCTAACCATGCATGTGC----TCAAACATAAATTGGTACATG
* * * * *
12715449 CAATTCAAGTATATAACATTTATGGATTACCACTTGAGCTAGGTGGTACACTACGCCTAAAAGAA
62 AAATTCAAGTATATAAAATTTATGGATTACCACTTGAGCTAGGTAGTACAATACGACTAAAAGAA
12715514 TGTCCTATATATTTTTAAACTATAGATCTGAATTTTCTCACGAAC-AA-TTT-TTTATTTTAGGC
127 T-TCCTATATA-TTTTAAACTATAGATCTGAATTTTCTCACGAACGAATTTTCTTTATTTTAGGC
* * * * *
12715576 ATAATATTAGAATTAACTCTTAATATTTATAAAAAAAACTATTTTGATCCATATTATTTTTAGAA
190 ATAATACTAAAATTAAATCTTAATATTTACAAAAAAAAC-ATTTT-ATCCATATTATTTTTAAAA
** * * *
12715641 TATTTTAACTCTAAATGTTTGAGGGAATAGCCACTTTAATCTCTCTTTTTTTAGAAAATTTTGAC
253 TATTTTAACTCTAAACATTTGAGGGAATAACCACTCTAA-C-CCCTTTTTTTAGAAAATTTTGAC
*
12715706 TCTCAAATATTTTATTTTAGGGTAAAAA-GTCTCTATTTTAGAA-CATTAA-CTATTTATTAACA
316 TCT--AATATTTTATTTTAGGATAAAAATGTCTCTATTTTA-AAGCATTAATC-ATTTATTAACA
* * * * *
12715768 ATGATTTTCATTTACAGAAAAACTTTTTGTTCA-AAAATAAAATATTATAAACTAAAATACTTAC
377 ACGATTTTCATTCACAGAAAAACCTTTT-TACACAAAATAAAATATTATAAACAAAAATACTT--
* *
12715832 AAAAAATTAAAAATCAAAATAACTATTTAA-T-AC-AAAAATTTCCTTTTACGTTGTGCCTTTAT
439 AAAAAA-TAAAAACCAAAATAACTATTTAATTCACTAAAAATTTCCTTTTACATTGTGCCTTTAT
12715894 CATGTTATAG
Statistics
Matches: 435, Mismatches: 57, Indels: 32
0.83 0.11 0.06
Matches are distributed among these distances:
521 37 0.09
524 43 0.10
525 111 0.26
526 58 0.13
527 29 0.07
528 52 0.12
529 51 0.12
530 33 0.08
531 21 0.05
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.41
Consensus pattern (517 bp):
TTAATTTGATTTTTAGATTTGTCCCTAACCATGCATGTGCTCAAACATAAATTGGTACATGAAAT
TCAAGTATATAAAATTTATGGATTACCACTTGAGCTAGGTAGTACAATACGACTAAAAGAATTCC
TATATATTTTAAACTATAGATCTGAATTTTCTCACGAACGAATTTTCTTTATTTTAGGCATAATA
CTAAAATTAAATCTTAATATTTACAAAAAAAACATTTTATCCATATTATTTTTAAAATATTTTAA
CTCTAAACATTTGAGGGAATAACCACTCTAACCCCTTTTTTTAGAAAATTTTGACTCTAATATTT
TATTTTAGGATAAAAATGTCTCTATTTTAAAGCATTAATCATTTATTAACAACGATTTTCATTCA
CAGAAAAACCTTTTTACACAAAATAAAATATTATAAACAAAAATACTTAAAAAATAAAAACCAAA
ATAACTATTTAATTCACTAAAAATTTCCTTTTACATTGTGCCTTTATTTTTAATTGAACTAT
Found at i:12716705 original size:75 final size:75
Alignment explanation
Indices: 12716582--12716730 Score: 289
Period size: 75 Copynumber: 2.0 Consensus size: 75
12716572 TCTCGTATTG
12716582 TCGCTTAAAACATGTCTTCGGCTAATAATAATCCCTCCCAGTTTCCTCCTCCACTCTCTTCGGAG
1 TCGCTTAAAACATGTCTTCGGCTAATAATAATCCCTCCCAGTTTCCTCCTCCACTCTCTTCGGAG
12716647 TTTCTCACCA
66 TTTCTCACCA
12716657 TCGCTTAAAACATGTCTTCGGCTAATAATAATCCCTCCCAGTTTCCTCCTCCACTCTCTTCGGAG
1 TCGCTTAAAACATGTCTTCGGCTAATAATAATCCCTCCCAGTTTCCTCCTCCACTCTCTTCGGAG
*
12716722 TTTGTCACC
66 TTTCTCACC
12716731 GTCGATTTTT
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 73 1.00
ACGTcount: A:0.21, C:0.34, G:0.11, T:0.34
Consensus pattern (75 bp):
TCGCTTAAAACATGTCTTCGGCTAATAATAATCCCTCCCAGTTTCCTCCTCCACTCTCTTCGGAG
TTTCTCACCA
Found at i:12722717 original size:37 final size:36
Alignment explanation
Indices: 12722642--12722717 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
12722632 TTTTTATATT
*
12722642 TTTAATTTTGTAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
* *
12722678 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAA-AAAATTATATAAATATTAT-CAA
12722715 TTT
1 TTT
12722718 GTAATATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
36 26 0.74
37 9 0.26
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
Found at i:12722901 original size:20 final size:20
Alignment explanation
Indices: 12722865--12722902 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
12722855 ATCCTATTCC
**
12722865 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
12722885 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
12722903 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:12725028 original size:13 final size:13
Alignment explanation
Indices: 12725010--12725060 Score: 66
Period size: 13 Copynumber: 3.9 Consensus size: 13
12725000 GATATACCTG
*
12725010 AATGTGAATATGA
1 AATGTGAATGTGA
*
12725023 AATGTGAATGTGG
1 AATGTGAATGTGA
* *
12725036 GACGTGAATGTGA
1 AATGTGAATGTGA
12725049 AATGTGAATGTG
1 AATGTGAATGTG
12725061 TTGTAAATGA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.35, C:0.02, G:0.33, T:0.29
Consensus pattern (13 bp):
AATGTGAATGTGA
Found at i:12725032 original size:6 final size:6
Alignment explanation
Indices: 12725008--12725060 Score: 52
Period size: 6 Copynumber: 8.3 Consensus size: 6
12724998 GTGATATACC
* * *
12725008 TGAATG TGAATA TGAAATG TGAATG TGGGACG TGAATG TGAAATG TGAATG
1 TGAATG TGAATG TG-AATG TGAATG T-GAATG TGAATG TG-AATG TGAATG
12725059 TG
1 TG
12725061 TTGTAAATGA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
6 23 0.61
7 15 0.39
ACGTcount: A:0.34, C:0.02, G:0.34, T:0.30
Consensus pattern (6 bp):
TGAATG
Found at i:12726492 original size:20 final size:21
Alignment explanation
Indices: 12726457--12726511 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 21
12726447 TATCCAACAT
* * *
12726457 AGGATCGAACCTTTTTGA-AA
1 AGGATCGATCCCTTTTCAGAA
12726477 AGGATCGATCCCTTTTCAGAA
1 AGGATCGATCCCTTTTCAGAA
* *
12726498 AGAATCAATCCCTT
1 AGGATCGATCCCTT
12726512 CTCTGTGAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 15 0.52
21 14 0.48
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (21 bp):
AGGATCGATCCCTTTTCAGAA
Found at i:12731038 original size:13 final size:13
Alignment explanation
Indices: 12730992--12731042 Score: 57
Period size: 13 Copynumber: 3.9 Consensus size: 13
12730982 GATATACCCG
*
12730992 AATGTGAATATGA
1 AATGTGAATGTGA
*
12731005 AATGTGAATGTGG
1 AATGTGAATGTGA
* **
12731018 GACATGAATGTGA
1 AATGTGAATGTGA
12731031 AATGTGAATGTG
1 AATGTGAATGTG
12731043 TTGTATTGTG
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.37, C:0.02, G:0.31, T:0.29
Consensus pattern (13 bp):
AATGTGAATGTGA
Found at i:12742712 original size:25 final size:25
Alignment explanation
Indices: 12742684--12742733 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
12742674 TGAGTCTTTA
12742684 TTTC-TCTTCT-CTTCATCTTCTTCCT
1 TTTCATCTTCTAC-TCAT-TTCTTCCT
*
12742709 TTTCATTTTCTACTCATTTCTTCCT
1 TTTCATCTTCTACTCATTTCTTCCT
12742734 CCAAGTGCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
25 12 0.55
26 9 0.41
27 1 0.05
ACGTcount: A:0.08, C:0.32, G:0.00, T:0.60
Consensus pattern (25 bp):
TTTCATCTTCTACTCATTTCTTCCT
Found at i:12744514 original size:20 final size:20
Alignment explanation
Indices: 12744489--12744557 Score: 102
Period size: 20 Copynumber: 3.5 Consensus size: 20
12744479 CTTTTTTATT
*
12744489 TGTAGTATTGATATTGTTCA
1 TGTAGTATCGATATTGTTCA
* *
12744509 TGTAGTATCAATATTTTTCA
1 TGTAGTATCGATATTGTTCA
*
12744529 TTTAGTATCGATATTGTTCA
1 TGTAGTATCGATATTGTTCA
12744549 TGTAGTATC
1 TGTAGTATC
12744558 AATACTATTT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.26, C:0.09, G:0.16, T:0.49
Consensus pattern (20 bp):
TGTAGTATCGATATTGTTCA
Found at i:12744576 original size:40 final size:40
Alignment explanation
Indices: 12744492--12744577 Score: 120
Period size: 40 Copynumber: 2.1 Consensus size: 40
12744482 TTTTATTTGT
* * **
12744492 AGTATTGATATTGTTCATGTAGTATCAATATTTTTCATTT
1 AGTATCGATATTGTTCATGTAGTATCAATATATTTCATAA
12744532 AGTATCGATATTGTTCATGTAGTATCAATACTATTT-ATAA
1 AGTATCGATATTGTTCATGTAGTATCAATA-TATTTCATAA
12744572 AGTATC
1 AGTATC
12744578 AATGCTCCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
40 37 0.90
41 4 0.10
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.47
Consensus pattern (40 bp):
AGTATCGATATTGTTCATGTAGTATCAATATATTTCATAA
Found at i:12748477 original size:8 final size:8
Alignment explanation
Indices: 12748436--12748468 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
12748426 AATGGAAATT
12748436 TATATTAA
1 TATATTAA
*
12748444 -ATAATAA
1 TATATTAA
12748451 TATATTAA
1 TATATTAA
12748459 TATATTAA
1 TATATTAA
12748467 TA
1 TA
12748469 ATATAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
7 6 0.27
8 16 0.73
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (8 bp):
TATATTAA
Found at i:12756979 original size:19 final size:19
Alignment explanation
Indices: 12756955--12756991 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
12756945 AAGAGGCGGT
12756955 TGGGTTTTCTAGGATTAGA
1 TGGGTTTTCTAGGATTAGA
*
12756974 TGGGTTTTTTAGGATTAG
1 TGGGTTTTCTAGGATTAG
12756992 GTTATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.19, C:0.03, G:0.32, T:0.46
Consensus pattern (19 bp):
TGGGTTTTCTAGGATTAGA
Found at i:12757809 original size:199 final size:198
Alignment explanation
Indices: 12757299--12758020 Score: 943
Period size: 199 Copynumber: 3.6 Consensus size: 198
12757289 TAGGTAGTGC
* * * * *
12757299 TTATATTGACATATTTTCTAACTAAACTGATATATTTATACCGGTAACATTGCAAATTTACCTAT
1 TTATGTTGACCTATTTTCTCA-TAAACTGATATATTTATACCGGTTACATTGTAAATTTACCTAT
* * *
12757364 TACATTATAATTATTGGTTTCGATGTTTTGGA-ATCGATACAATTT--TAAATGTATCGACACTT
65 TACATTATAATTATCGGTTTCGATGTTTTTGAGATCGATAC-TTTTAATAAATGTATCGACACTT
* * * * * * *
12757426 TATGTGTGCACCTCGTTGGGCATTCATTCTAGAAAAAAGTATCAACACAAACTTAAAAAGTGTTG
129 TATGCGTGCACCTCGTTTGGCATTCATTCTGGACAAAAGTATCGACACAAATTTAAAAAGTGTCG
12757491 ATACA
194 ATACA
* * *
12757496 TTATGTAGACCTATTTTCTCATAAACTGATATATTTCTACCGGGTACATTGTAAATTTACCTATT
1 TTATGTTGACCTATTTTCTCATAAACTGATATATTTATACCGGTTACATTGTAAATTTACCTATT
* * * *
12757561 ACATTGTAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATTGACAATTTA
66 ACATTATAATTATCGGTTTCGATGTTTTTGAGATCGATACTTTTAATAAATGTATCGACACTTTA
12757626 TGCGTGCACCTC-TTTGGCATTCATTCTGGACAAAATGTATCGACACAAATTTAAAAAGTGTCGA
131 TGCGTGCACCTCGTTTGGCATTCATTCTGGACAAAA-GTATCGACACAAATTTAAAAAGTGTCGA
12757690 TACA
195 TACA
* * * *
12757694 TTATGTTGACCTATTCTCTCATAAAACTGGTATATTTATACCAGTTACATTATAAATTTACCTAT
1 TTATGTTGACCTATTTTCTCAT-AAACTGATATATTTATACCGGTTACATTGTAAATTTACCTAT
*
12757759 TATATTATAATTATCGGTTTCGATGTTTTTGAGATCGATACTTTTAATAAATGTATCGACACTTT
65 TACATTATAATTATCGGTTTCGATGTTTTTGAGATCGATACTTTTAATAAATGTATCGACACTTT
** *
12757824 ATGCGTGCACCTCGTTTGGGCATTCATTCTGGACAATAAGTATCGACACAAATTCCACAAGTGTC
130 ATGCGTGCACCTCGTTT-GGCATTCATTCTGGACAA-AAGTATCGACACAAATTTAAAAAGTGTC
12757889 GATACA
193 GATACA
* * * * * * * *
12757895 TTATGTTGACATGTTTTCTAATTAACCGGTATATTTATACCGTTTACATTGTTAATTTACCTATT
1 TTATGTTGACCTATTTTCTCATAAACTGATATATTTATACCGGTTACATTGTAAATTTACCTATT
** * * *
12757960 ACATTATAATTATTAGTTTCGA-GATTTTTGGGGTTGATACTTTTAGA-AAATGTATCGACAC
66 ACATTATAATTATCGGTTTCGATG-TTTTTGAGATCGATACTTTTA-ATAAATGTATCGACAC
12758021 ATATGTTTAC
Statistics
Matches: 462, Mismatches: 53, Indels: 17
0.87 0.10 0.03
Matches are distributed among these distances:
196 70 0.15
197 45 0.10
198 77 0.17
199 111 0.24
200 91 0.20
201 66 0.14
202 2 0.00
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.39
Consensus pattern (198 bp):
TTATGTTGACCTATTTTCTCATAAACTGATATATTTATACCGGTTACATTGTAAATTTACCTATT
ACATTATAATTATCGGTTTCGATGTTTTTGAGATCGATACTTTTAATAAATGTATCGACACTTTA
TGCGTGCACCTCGTTTGGCATTCATTCTGGACAAAAGTATCGACACAAATTTAAAAAGTGTCGAT
ACA
Found at i:12760772 original size:19 final size:19
Alignment explanation
Indices: 12760748--12760814 Score: 107
Period size: 19 Copynumber: 3.5 Consensus size: 19
12760738 TTACATTCAC
* *
12760748 ATACAAAATTATAAATCTT
1 ATACAAAATTATGAATCAT
*
12760767 ATACAAAATTATGAATCGT
1 ATACAAAATTATGAATCAT
12760786 ATACAAAATTATGAATCAT
1 ATACAAAATTATGAATCAT
12760805 ATACAAAATT
1 ATACAAAATT
12760815 TCCCCTACAT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 45 1.00
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATGAATCAT
Found at i:12762470 original size:21 final size:21
Alignment explanation
Indices: 12762445--12762484 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
12762435 CACGCGTAAT
12762445 TTTAAAGAA-TATCGATACAAA
1 TTTAAA-AAGTATCGATACAAA
*
12762466 TTTAAAAAGTGTCGATACA
1 TTTAAAAAGTATCGATACA
12762485 TTATGTAGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.47, C:0.10, G:0.12, T:0.30
Consensus pattern (21 bp):
TTTAAAAAGTATCGATACAAA
Found at i:12762937 original size:199 final size:198
Alignment explanation
Indices: 12762454--12763008 Score: 826
Period size: 199 Copynumber: 2.8 Consensus size: 198
12762444 TTTTAAAGAA
* * ** *
12762454 TATCGATACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAGTCGTTAT-
1 TATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACATATTTTCTCATAAAACCGGTATA
* * *
12762518 TTTCTACCGGTTACATTGTAAAGTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGA
66 TTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATATTTTTGGGA
* *
12762583 TCGATACAATTTTAAATCTATCGACACTTTATCCGTGCACCTCGTTGTCATTCATTCTGGACAAA
131 TCGATACAATTTTAAATGTATCGACACTTTATCCGTGCACCTCGTTGGCATTCATTCTGGACAAA
12762648 AAG
196 AAG
* * *
12762651 TATCGACACAAATTTCAAAAGTGTCGATACATTATGTAGACATATTCTCTCATAAAACTGGTATA
1 TATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACATATTTTCTCATAAAACCGGTATA
* *
12762716 TTTCTAACGGTTACATTGTAAATTTACCTATTAAATTATAATTATCGGTTTCGATATTTTTGGGA
66 TTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATATTTTTGGGA
*
12762781 TCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTCGTTGAGCATTCATTCTGGACAA
131 TCGATACAATTTTAAATGTATCGACACTTTATCCGTGCACCTCGTTG-GCATTCATTCTGGACAA
12762846 AAAG
195 AAAG
* * * * *
12762850 TATTGACACAAATTTAAAAAGTGTTGATGCATTATGTATACTTATTTTCTCATAAAACCGGTATA
1 TATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACATATTTTCTCATAAAACCGGTATA
* * * *
12762915 TTTATACCGATTACATTGTAAATTTACCTATTACATCATAATTATCGGTTTCGATGTTTTTTGGG
66 TTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGAT-ATTTTTGGG
*
12762980 ATCGATAC-TTTTAATAAATGTATCGACAC
130 ATCGATACAATTT--TAAATGTATCGACAC
12763009 GTTTGTTTAC
Statistics
Matches: 322, Mismatches: 31, Indels: 6
0.90 0.09 0.02
Matches are distributed among these distances:
197 56 0.17
198 105 0.33
199 130 0.40
200 16 0.05
201 15 0.05
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.39
Consensus pattern (198 bp):
TATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACATATTTTCTCATAAAACCGGTATA
TTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATATTTTTGGGA
TCGATACAATTTTAAATGTATCGACACTTTATCCGTGCACCTCGTTGGCATTCATTCTGGACAAA
AAG
Found at i:12763138 original size:15 final size:15
Alignment explanation
Indices: 12763118--12763148 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
12763108 TCGACACTTT
12763118 TTTGGAAACTTTATG
1 TTTGGAAACTTTATG
12763133 TTTGGAAACTTTATG
1 TTTGGAAACTTTATG
12763148 T
1 T
12763149 GTCGATACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.06, G:0.19, T:0.48
Consensus pattern (15 bp):
TTTGGAAACTTTATG
Found at i:12764593 original size:18 final size:18
Alignment explanation
Indices: 12764570--12764606 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
12764560 TGAAATTTAT
12764570 ATTGAAATTCAAAATCAA
1 ATTGAAATTCAAAATCAA
* *
12764588 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAAATCAA
12764606 A
1 A
12764607 CTCCAATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.54, C:0.08, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAAATCAA
Found at i:12766007 original size:3 final size:3
Alignment explanation
Indices: 12765999--12766039 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
12765989 ACTTGTTTGG
* * *
12765999 ATC ATC ATC ATC ATC ATC ATC ATC TTC ATC GTC ATC TTC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
12766040 TGAGCACTTG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.27, C:0.32, G:0.02, T:0.39
Consensus pattern (3 bp):
ATC
Found at i:12767985 original size:201 final size:197
Alignment explanation
Indices: 12767540--12768807 Score: 1296
Period size: 201 Copynumber: 6.5 Consensus size: 197
12767530 GTAATTAAAA
* *
12767540 AAAAGTATCGACACAAATTTAAAAAGTGTAGATACATTATGTAGACATATTCTCTCATAAAACCG
1 AAAA-TATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACATATTCTCTCATAAAACAG
* * * * *
12767605 GTATATTTTTACCGGTTACATTGTAAATTTACCCATTACATTATAATTATAGGTTTCGATGTTTT
65 GTATATTTATACCGGTTACATTGCAAAATTACCTATTACATTATAATTATCGGTTTCGATGTTTT
* *
12767670 TGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCATCTAGTTTGTCATTCATTTTT
130 TGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTAGTTTGGCATTCA-TTTT
12767735 GGAC
194 GGAC
* * *
12767739 AAAAAGTATCGACACAAATTTAAAAAGTGTTGATACATTATGTAGACCTATTTTCTCATAAAACA
1 -AAAA-TATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACATATTCTCTCATAAAACA
* * * *
12767804 TGTATATTTATACCTGTTACATTGCAAAATTACCTATTACATTATAATTATGGGTTTTGATGTTT
64 GGTATATTTATACCGGTTACATTGCAAAATTACCTATTACATTATAATTATCGGTTTCGATGTTT
* * ** *
12767869 TTGAGATTGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGACATTCATT
129 TTGGGATCGATACAATTT-TAAATGTATCGACACTTTATGCGTGCACCTAGTTTGG-CATTCATT
*
12767934 TTGCAC
192 TTGGAC
* * *
12767940 AAGAATAATCGACACAATTTTCAAAAGTGTCGATACATTATGTAGAGC-TATTCTCTCATAAAAT
1 AA-AAT-ATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGA-CATATTCTCTCATAAAAC
* * * * * *
12768004 TGGTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTGTAA-TAT-GGTTTTGATGTT
63 AGGTATATTTATACCGGTTACATTGCAAAATTACCTATTACATTATAATTATCGGTTTCGATGTT
* *
12768067 TTTGAGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTAGTTTGGCATTCATTC
128 TTTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTAGTTTGGCATTCATTT
*
12768132 TAGAC
193 TGGAC
* * * * * * *
12768137 AAAATGTATTGACACAAATTTAAAAAGTGTCGATATATTATGTTGACATGTTTTCTAATTAAATC
1 AAAA--TATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACATATTCTCTCA-TAAAAC
*
12768202 -GGTATATTTATACTGGTTACATTGCAAAATTACCTATTACATTATAATTAT-GGCTTTCGATGT
63 AGGTATATTTATACCGGTTACATTGCAAAATTACCTATTACATTATAATTATCGG-TTTCGATGT
*
12768265 TTTTGGGATCAATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTAGTTTGGCATTCATT
127 TTTTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTAGTTTGGCATTCATT
*
12768330 ATGGAC
192 TTGGAC
* ** * * * * *
12768336 AAAATGTATCG--AC-TATTTAGACCTATTTTCTCATA-A-AACTG--G-TATA-T-T-TC-T--
1 AAAA--TATCGACACAAATTTA-A-AAAGTGTC-GATACATTA-TGTAGACATATTCTCTCATAA
* * * ** * * *
12768387 ACCGGGTACATTGTA-A--ATTTAC----C--TATTA-C-A-T----TGTAATTATCGATTTCGA
60 AACAGGTATATT-TATACCGGTTACATTGCAAAATTACCTATTACATTATAATTATCGGTTTCGA
* ** *
12768436 TGTTTTTGGGATCAATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCTTGTTTGGGCAT
124 TGTTTTTGGGATCGATACAATTT-TAAATGTATCGACACTTTATGCGTGCACCTAGTTT-GGCAT
*
12768501 TCATTATGGAC
187 TCATTTTGGAC
* * * *
12768512 AAAAAATATCGACACAAATTTCAAAAGTGTTGATACATTATGTAGACATATTCTCTCGTAAAACC
1 --AAAATATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACATATTCTCTCATAAAACA
* * * *
12768577 GGTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTGTAATTATCGGTTTCGATGTTT
64 GGTATATTTATACCGGTTACATTGCAAAATTACCTATTACATTATAATTATCGGTTTCGATGTTT
** *
12768642 TTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGGCATTCATT
129 TTGGGATCGATACAATTT-TAAATGTATCGACACTTTATGCGTGCACCTAGTTT-GGCATTCATT
*
12768707 CTGGAC
192 TTGGAC
* * *
12768713 AAAAGTATCGACACAAATTTCAAAAGTGTCGATACATTATATAGACCTATTCTCTCATAAAACCA
1 AAAA-TATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACATATTCTCTCATAAAA-CA
*
12768778 -GTATATTTATA-CGGTTATATTGCAAAATTA
64 GGTATATTTATACCGGTTACATTGCAAAATTA
12768808 GGCGATGTGG
Statistics
Matches: 902, Mismatches: 112, Indels: 109
0.80 0.10 0.10
Matches are distributed among these distances:
174 35 0.04
175 35 0.04
176 24 0.03
177 6 0.01
178 9 0.01
179 6 0.01
180 4 0.00
181 5 0.01
182 1 0.00
183 3 0.00
184 1 0.00
185 1 0.00
186 10 0.01
187 4 0.00
188 6 0.01
189 8 0.01
190 3 0.00
192 1 0.00
193 1 0.00
194 4 0.00
195 3 0.00
196 10 0.01
197 101 0.11
198 53 0.06
199 136 0.15
200 200 0.22
201 225 0.25
202 7 0.01
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.39
Consensus pattern (197 bp):
AAAATATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACATATTCTCTCATAAAACAGG
TATATTTATACCGGTTACATTGCAAAATTACCTATTACATTATAATTATCGGTTTCGATGTTTTT
GGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTAGTTTGGCATTCATTTTGG
AC
Found at i:12769142 original size:20 final size:20
Alignment explanation
Indices: 12769098--12769142 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 20
12769088 ATTCACATAT
12769098 AAAA-TTATAAATCGTATAC
1 AAAATTTATAAATCGTATAC
12769117 -AAATTTATAAATCGTATAC
1 AAAATTTATAAATCGTATAC
12769136 AAAATTT
1 AAAATTT
12769143 CCCCTACATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 3 0.12
19 15 0.62
20 6 0.25
ACGTcount: A:0.51, C:0.09, G:0.04, T:0.36
Consensus pattern (20 bp):
AAAATTTATAAATCGTATAC
Found at i:12771113 original size:14 final size:15
Alignment explanation
Indices: 12771072--12771114 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
12771062 ACTCTGTTTT
12771072 CCCTCACTATCATCC
1 CCCTCACTATCATCC
**
12771087 CCCTCACCGTCATCC
1 CCCTCACTATCATCC
12771102 CCCT-ACTATCATC
1 CCCTCACTATCATC
12771115 TCTTATTCCT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 7 0.29
15 17 0.71
ACGTcount: A:0.19, C:0.53, G:0.02, T:0.26
Consensus pattern (15 bp):
CCCTCACTATCATCC
Found at i:12773774 original size:182 final size:183
Alignment explanation
Indices: 12773461--12774187 Score: 1091
Period size: 182 Copynumber: 4.0 Consensus size: 183
12773451 GTAGCGCTTT
* * *
12773461 ACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATTGATACTTTTTTTATAAAGTATCG
1 ACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACTTTTTTTATAAAGTATCG
* * *
12773526 ACATTTTATAGGCTCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAG
66 ACACTTTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACCTATATTAAAG
*
12773591 TATCGACACTTTCAACATATCCGGTAGCGCTTTACCGTTTTTGTCATTTCAAG
131 TATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTCAAG
*
12773644 ACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATAC-TTTTTTATAAAGTATTG
1 ACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACTTTTTTTATAAAGTATCG
* *
12773708 ACACTTTATAGGCTCTATTACTGCTTCTCTTTTAAATTACAAAAGTGTCGATACCTATATTAAAG
66 ACACTTTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACCTATATTAAAG
* * *
12773773 TATCGAGACTTTCAACATATCCGTTAGCGCTTTACCGGTTTTGTCATTTCCAG
131 TATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTCAAG
* * *
12773826 ACCGGTTTTGTCATGTTTTTACCTGTTATATTGTTATGGATCGATACTTTTTTTTAAAAATGTAT
1 ACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATAC-TTTTTTTATAAA-GTAT
* * *
12773891 CGACACTTTATAGGCGCTATTACTGCTTCCCTTTTAAATTTCAAAAGGGTCGATACCTATATTAA
64 CGACACTTTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACCTATATTAA
* *
12773956 AGTATCAACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTCGAG
129 AGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTCAAG
** * *
12774011 ACCGATTTTGTCATATTTTTAGTTGTTATATTGTTATGAATCGATAC-GTTTTTATAAAGTATCG
1 ACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACTTTTTTTATAAAGTATCG
* * **
12774075 ACACTTTATAGGCGCTATTACTACTTCTCTTTTAAATTCCAAAAGTGTCGATACTTAT-TTCATT
66 ACACTTTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACCTATATT-AAA
* * * * *
12774139 CTAATCGATACTTTCAACATATCTGGTAGCACTTTATCGGTTTTGTCAT
130 GT-ATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCAT
12774188 ATTTTTACCT
Statistics
Matches: 496, Mismatches: 43, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
181 2 0.00
182 233 0.47
183 94 0.19
184 10 0.02
185 157 0.32
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.43
Consensus pattern (183 bp):
ACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACTTTTTTTATAAAGTATCG
ACACTTTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACCTATATTAAAG
TATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTCAAG
Found at i:12779572 original size:20 final size:22
Alignment explanation
Indices: 12779533--12779574 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
12779523 TAAAAGAAAA
12779533 TAAAGAAATATGAGAAAAAGCT
1 TAAAGAAATATGAGAAAAAGCT
*
12779555 TAAA-AAATA-GAGAGAAAGCT
1 TAAAGAAATATGAGAAAAAGCT
12779575 AGAGAGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 5 0.26
22 4 0.21
ACGTcount: A:0.60, C:0.05, G:0.19, T:0.17
Consensus pattern (22 bp):
TAAAGAAATATGAGAAAAAGCT
Found at i:12781632 original size:11 final size:11
Alignment explanation
Indices: 12781614--12781660 Score: 76
Period size: 11 Copynumber: 4.3 Consensus size: 11
12781604 ATTTTGCTTA
*
12781614 AAAATAAAGTG
1 AAAATAAAATG
*
12781625 AAATTAAAATG
1 AAAATAAAATG
12781636 AAAATAAAATG
1 AAAATAAAATG
12781647 AAAATAAAATG
1 AAAATAAAATG
12781658 AAA
1 AAA
12781661 TGGGTTGCCT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 33 1.00
ACGTcount: A:0.70, C:0.00, G:0.11, T:0.19
Consensus pattern (11 bp):
AAAATAAAATG
Found at i:12783127 original size:169 final size:169
Alignment explanation
Indices: 12782848--12783185 Score: 631
Period size: 169 Copynumber: 2.0 Consensus size: 169
12782838 ATAGAATTAA
12782848 CTCTTTCAACATGATCCGGGCATTTCATTGCTTTGTAAACATCAAATTCAATGATCTCATCATCA
1 CTCTTTCAACATGATCCGGGCATTTCATTGCTTTGTAAACATCAAATTCAATGATCTCATCATCA
*
12782913 AATTCCATTGTCAGTATACCACTTCTAACATCAATCACTGTATGTGCTGTGCTTAGGAAGGGTCG
66 AATTCCATTGTCAGTATACCACTTCTAACATCAATCACTGTATGTGCTGTGATTAGGAAGGGTCG
12782978 GCCAAAGAGTGCCTCAGAATAATAATCTGACCTATCATG
131 GCCAAAGAGTGCCTCAGAATAATAATCTGACCTATCATG
*
12783017 CTCTTTCAACATGATCTGGGCATTTCATTGCTTTGTAAACATCAAATTCAATGATCTCATCATCA
1 CTCTTTCAACATGATCCGGGCATTTCATTGCTTTGTAAACATCAAATTCAATGATCTCATCATCA
*
12783082 AATTCCATTGTCAGTATACCACTTCTAACATCAATCTCTGTATGTGCTGTGATTAGGAAGGGTCG
66 AATTCCATTGTCAGTATACCACTTCTAACATCAATCACTGTATGTGCTGTGATTAGGAAGGGTCG
* *
12783147 GCCTAAGAGTGCCTCGGAATAATAATCTGACCTATCATG
131 GCCAAAGAGTGCCTCAGAATAATAATCTGACCTATCATG
12783186 TTCCATGTCA
Statistics
Matches: 164, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
169 164 1.00
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.32
Consensus pattern (169 bp):
CTCTTTCAACATGATCCGGGCATTTCATTGCTTTGTAAACATCAAATTCAATGATCTCATCATCA
AATTCCATTGTCAGTATACCACTTCTAACATCAATCACTGTATGTGCTGTGATTAGGAAGGGTCG
GCCAAAGAGTGCCTCAGAATAATAATCTGACCTATCATG
Found at i:12784659 original size:11 final size:10
Alignment explanation
Indices: 12784597--12784705 Score: 65
Period size: 10 Copynumber: 9.9 Consensus size: 10
12784587 TAAATTTCAA
12784597 AAAACAAAAAT
1 AAAA-AAAAAT
* *
12784608 AATAAAATAT
1 AAAAAAAAAT
***
12784618 AAAAAATGTT
1 AAAAAAAAAT
12784628 AAAAGAGAAAAT
1 AAAA-A-AAAAT
12784640 AAAAAAAAAT
1 AAAAAAAAAT
12784650 AAAAATAAAAT
1 AAAAA-AAAAT
*
12784661 AAAAAACAAGTGT
1 AAAAAA-AA--AT
12784674 GAAAATAAAAAT
1 -AAAA-AAAAAT
*
12784686 AAAACAAAAT
1 AAAAAAAAAT
12784696 AAAATAAAAA
1 AAAA-AAAAA
12784706 AGAAGTGTTA
Statistics
Matches: 76, Mismatches: 13, Indels: 18
0.71 0.12 0.17
Matches are distributed among these distances:
10 35 0.46
11 25 0.33
12 7 0.09
13 1 0.01
14 6 0.08
15 2 0.03
ACGTcount: A:0.76, C:0.03, G:0.06, T:0.16
Consensus pattern (10 bp):
AAAAAAAAAT
Found at i:12784659 original size:45 final size:46
Alignment explanation
Indices: 12784595--12784704 Score: 129
Period size: 45 Copynumber: 2.4 Consensus size: 46
12784585 ATTAAATTTC
* * *
12784595 AAAAAACAAA-AATAATAAAATATAAAA-AA-TGTTAAAAGAGAAAAT
1 AAAAAA-AAATAAAAATAAAATAAAAAACAAGTGTGAAAAGA-AAAAT
*
12784640 AAAAAAAAATAAAAATAAAATAAAAAACAAGTGTGAAAATAAAAAT
1 AAAAAAAAATAAAAATAAAATAAAAAACAAGTGTGAAAAGAAAAAT
*
12784686 AAAACAAAAT-AAAATAAAA
1 AAAAAAAAATAAAAATAAAA
12784705 AAGAAGTGTT
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
44 3 0.05
45 30 0.53
46 16 0.28
47 8 0.14
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.15
Consensus pattern (46 bp):
AAAAAAAAATAAAAATAAAATAAAAAACAAGTGTGAAAAGAAAAAT
Found at i:12784678 original size:40 final size:40
Alignment explanation
Indices: 12784634--12784732 Score: 130
Period size: 40 Copynumber: 2.5 Consensus size: 40
12784624 TGTTAAAAGA
12784634 GAAAATAAAAAAAAATAAAAATAAAATAAAAAACAAGTGT
1 GAAAATAAAAAAAAATAAAAATAAAATAAAAAACAAGTGT
* *
12784674 GAAAATAAAAATAAAA-CAAAATAAAATAAAAAAGAAGTGT
1 GAAAATAAAAA-AAAATAAAAATAAAATAAAAAACAAGTGT
*
12784714 -TAAATAAAATAATAAATAA
1 GAAAATAAAA-AA-AAATAA
12784733 TAGTAGTAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
39 9 0.18
40 37 0.73
41 5 0.10
ACGTcount: A:0.74, C:0.02, G:0.07, T:0.17
Consensus pattern (40 bp):
GAAAATAAAAAAAAATAAAAATAAAATAAAAAACAAGTGT
Found at i:12784725 original size:5 final size:5
Alignment explanation
Indices: 12784635--12784704 Score: 52
Period size: 5 Copynumber: 12.8 Consensus size: 5
12784625 GTTAAAAGAG
*
12784635 AAAAT AAAAA AAAAT AAAAAT AAAAT AAAA- AACAAGTGT GAAAAT AAAAAT
1 AAAAT AAAAT AAAAT -AAAAT AAAAT AAAAT AA-AA---T -AAAAT -AAAAT
*
12784686 AAAAC AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAA
12784705 AAGAAGTGTT
Statistics
Matches: 53, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
4 2 0.04
5 36 0.68
6 11 0.21
9 2 0.04
10 2 0.04
ACGTcount: A:0.79, C:0.03, G:0.04, T:0.14
Consensus pattern (5 bp):
AAAAT
Found at i:12784794 original size:18 final size:18
Alignment explanation
Indices: 12784773--12784815 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
12784763 GTTGTTTTTA
*
12784773 AAATAAAAGATAAGAATT
1 AAATAAAAGAAAAGAATT
*
12784791 AAATAAAAGAAAATAATT
1 AAATAAAAGAAAAGAATT
12784809 AAATAAA
1 AAATAAA
12784816 TAATCTAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (18 bp):
AAATAAAAGAAAAGAATT
Found at i:12786554 original size:167 final size:168
Alignment explanation
Indices: 12786272--12786697 Score: 602
Period size: 167 Copynumber: 2.5 Consensus size: 168
12786262 CAGGAAAACC
* ** *
12786272 AAGTGTTATATTCTTCAGGTGGTTCCCCTTAATGGGTCTGAACCAGGTGAGATGATATTTGGATG
1 AAGTGATATATTCTTCAGGTGGTTCCCCTTCGTGGGTCTGAACCAGGTGAGATGATCTTTGGATG
* * *
12786337 ACTCCCCTTCACGGGAAAGTCATGTGGTATATTCTTCAGGTGGTTCCCCTTCGCGGTTCTGAACC
66 ACTCCCCTTCACGGGAAAGTCACGTGGTATATTCTTCAGGTGGTTCCCCTTCGCGGGTCTAAACC
* * * *
12786402 AGGTGAGATGATCTTTGGATGACTCCCTTTCACGGG-A
131 AAGTGAGATGATCTTTAGATGACTCCCCTTCAAGGGAA
* **
12786439 AAGTGATATATTCTTCATGTGGTTCCCCTTCGTGGGTCTGAACCAATTGAGATGATCTTTGGATG
1 AAGTGATATATTCTTCAGGTGGTTCCCCTTCGTGGGTCTGAACCAGGTGAGATGATCTTTGGATG
* * *
12786504 ACTCCCGTTCATGGGAAAGTCACGTGGTATATTCTTCAGGTGGTTCCCCTTTGCGGGTCTAAACC
66 ACTCCCCTTCACGGGAAAGTCACGTGGTATATTCTTCAGGTGGTTCCCCTTCGCGGGTCTAAACC
12786569 AAGTGAGATGATCTTTAGATGACTCCCCTTCAAGGGAA
131 AAGTGAGATGATCTTTAGATGACTCCCCTTCAAGGGAA
* * * * *
12786607 AGTCATGTGGTATATTCTTCAGGTGGTTCCCATTCGCGGGTCTGAACCAGGTGAGATTATCTATG
1 A---A-GTGATATATTCTTCAGGTGGTTCCCCTTCGTGGGTCTGAACCAGGTGAGATGATCTTTG
*
12786672 AATGACTCCCCTTCACGGGAAAGTCA
62 GATGACTCCCCTTCACGGGAAAGTCA
12786698 TGTGAGGTGT
Statistics
Matches: 226, Mismatches: 28, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
167 149 0.66
168 2 0.01
171 1 0.00
172 74 0.33
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (168 bp):
AAGTGATATATTCTTCAGGTGGTTCCCCTTCGTGGGTCTGAACCAGGTGAGATGATCTTTGGATG
ACTCCCCTTCACGGGAAAGTCACGTGGTATATTCTTCAGGTGGTTCCCCTTCGCGGGTCTAAACC
AAGTGAGATGATCTTTAGATGACTCCCCTTCAAGGGAA
Found at i:12786712 original size:86 final size:86
Alignment explanation
Indices: 12786249--12786701 Score: 610
Period size: 86 Copynumber: 5.3 Consensus size: 86
12786239 ATTCTTTAGT
* * ** * * ***
12786249 TGACTCCCCTACACAGGAAAACCAAGTGTTATATTCTTCAGGTGGTTCCCCTTAATGGGTCTGAA
1 TGACTCCCCTTCACGGGAAAGTCATGTGGTATATTCTTCAGGTGGTTCCCCTTCGCGGGTCTGAA
*
12786314 CCAGGTGAGATGATATTTGGA
66 CCAGGTGAGATGATCTTTGGA
*
12786335 TGACTCCCCTTCACGGGAAAGTCATGTGGTATATTCTTCAGGTGGTTCCCCTTCGCGGTTCTGAA
1 TGACTCCCCTTCACGGGAAAGTCATGTGGTATATTCTTCAGGTGGTTCCCCTTCGCGGGTCTGAA
12786400 CCAGGTGAGATGATCTTTGGA
66 CCAGGTGAGATGATCTTTGGA
* * * *
12786421 TGACTCCCTTTCACGGG-AA---A-GTGATATATTCTTCATGTGGTTCCCCTTCGTGGGTCTGAA
1 TGACTCCCCTTCACGGGAAAGTCATGTGGTATATTCTTCAGGTGGTTCCCCTTCGCGGGTCTGAA
**
12786481 CCAATTGAGATGATCTTTGGA
66 CCAGGTGAGATGATCTTTGGA
* * * * *
12786502 TGACTCCCGTTCATGGGAAAGTCACGTGGTATATTCTTCAGGTGGTTCCCCTTTGCGGGTCTAAA
1 TGACTCCCCTTCACGGGAAAGTCATGTGGTATATTCTTCAGGTGGTTCCCCTTCGCGGGTCTGAA
* *
12786567 CCAAGTGAGATGATCTTTAGA
66 CCAGGTGAGATGATCTTTGGA
* *
12786588 TGACTCCCCTTCAAGGGAAAGTCATGTGGTATATTCTTCAGGTGGTTCCCATTCGCGGGTCTGAA
1 TGACTCCCCTTCACGGGAAAGTCATGTGGTATATTCTTCAGGTGGTTCCCCTTCGCGGGTCTGAA
* * *
12786653 CCAGGTGAGATTATCTATGAA
66 CCAGGTGAGATGATCTTTGGA
12786674 TGACTCCCCTTCACGGGAAAGTCATGTG
1 TGACTCCCCTTCACGGGAAAGTCATGTG
12786702 AGGTGTTCTT
Statistics
Matches: 323, Mismatches: 39, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
81 70 0.22
82 3 0.01
85 3 0.01
86 247 0.76
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (86 bp):
TGACTCCCCTTCACGGGAAAGTCATGTGGTATATTCTTCAGGTGGTTCCCCTTCGCGGGTCTGAA
CCAGGTGAGATGATCTTTGGA
Found at i:12787297 original size:15 final size:15
Alignment explanation
Indices: 12787277--12787315 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
12787267 CATAATGCAA
12787277 TAATCAAGGGGTCTT
1 TAATCAAGGGGTCTT
12787292 TAATCAAGGGGTCTT
1 TAATCAAGGGGTCTT
*
12787307 TAAACAAGG
1 TAATCAAGG
12787316 TGTAATGGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (15 bp):
TAATCAAGGGGTCTT
Found at i:12791783 original size:64 final size:63
Alignment explanation
Indices: 12791665--12791783 Score: 143
Period size: 64 Copynumber: 1.9 Consensus size: 63
12791655 TCAAATAATT
* ** *
12791665 AAAAAATAAATCAAAGAAGGAAATATTAAATTTAAAAAAATGTTATATAAAAAATGTTAAAAG
1 AAAAAATAAATCAAAGAAGAAAATATTAAATTTAAAAAAATGAAAAATAAAAAATGTTAAAAG
* *
12791728 AAAAAATAAAAT-AAATGAAGAAAATATTAAATTTCAGAAAA-GAAAAATAATAAAAT
1 AAAAAAT-AAATCAAA-GAAGAAAATATTAAATTTAAAAAAATGAAAAATAA-AAAAT
12791784 ATAAAAATTT
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
63 16 0.34
64 31 0.66
ACGTcount: A:0.66, C:0.02, G:0.08, T:0.24
Consensus pattern (63 bp):
AAAAAATAAATCAAAGAAGAAAATATTAAATTTAAAAAAATGAAAAATAAAAAATGTTAAAAG
Found at i:12791932 original size:18 final size:18
Alignment explanation
Indices: 12791906--12791949 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
12791896 TTTTTCTTTA
*
12791906 AAATAAAAAGATAAGAATT
1 AAAT-AAAAGAAAAGAATT
*
12791925 AAATAAAAGAAAATAATT
1 AAATAAAAGAAAAGAATT
12791943 AAATAAA
1 AAATAAA
12791950 TAATCTAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (18 bp):
AAATAAAAGAAAAGAATT
Found at i:12800269 original size:20 final size:20
Alignment explanation
Indices: 12800244--12800281 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
12800234 TTTTGGTGCA
*
12800244 GAGGGAATCGATACCCCCAT
1 GAGGGAACCGATACCCCCAT
*
12800264 GAGGGAACCGATTCCCCC
1 GAGGGAACCGATACCCCC
12800282 TTTGAAGGGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.34, G:0.26, T:0.13
Consensus pattern (20 bp):
GAGGGAACCGATACCCCCAT
Found at i:12804664 original size:17 final size:17
Alignment explanation
Indices: 12804638--12804696 Score: 54
Period size: 17 Copynumber: 3.6 Consensus size: 17
12804628 ACTAAATTTG
*
12804638 TAAAAAAATATAATATT
1 TAAAATAATATAATATT
**
12804655 TAAAATAATATCCTA--
1 TAAAATAATATAATATT
12804670 -AAACA-AATATAATATT
1 TAAA-ATAATATAATATT
12804686 TAAAATAATAT
1 TAAAATAATAT
12804697 CCTAAAACTT
Statistics
Matches: 32, Mismatches: 5, Indels: 10
0.68 0.11 0.21
Matches are distributed among these distances:
14 10 0.31
15 1 0.03
16 1 0.03
17 20 0.62
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (17 bp):
TAAAATAATATAATATT
Done.