Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 78 of 311
Found at i:24393877 original size:54 final size:54
Alignment explanation
Indices: 24393805--24394279 Score: 539
Period size: 54 Copynumber: 8.8 Consensus size: 54
24393795 CCGATTACAG
* *
24393805 AATTACCATTTTACCCTCGATTTACAGAATTACTGTTTTACCTTC-GATTTTTAA
1 AATTACCATTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCAG-TTTATAA
* * * *
24393859 AATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTCACAA
1 AATTACCATTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCAGTTTATAA
* * *
24393913 AATTACCATTTTACCCTCAATTTACA-AAATA-TCGTTTTACCCTCAGTTTATAG
1 AATTACCATTTTACCCTCGATTTACAGAATTACT-GTTTTACCCTCAGTTTATAA
* * * * *
24393966 AATCACCGTTTTACCTTCGATTTATAGAATTACTGTTTTACCCTC-GATTTGTAA
1 AATTACCATTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCAG-TTTATAA
* * * * * *
24394020 AACTACCATTTTACCCTTGATTTACAGAATTACCGTTTTACCTTCAATTTATAG
1 AATTACCATTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCAGTTTATAA
* * *
24394074 AATTACCATTTTATCCTCGATTTACAGAATTA-TCATTTTACCCTCAGTTTATAG
1 AATTACCATTTTACCCTCGATTTACAGAATTACT-GTTTTACCCTCAGTTTATAA
* ** *
24394128 AATTACTATTTTACCCTCGATTTACAGAATTACCATTTTACCCTC-GATTTGTAA
1 AATTACCATTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCAG-TTTATAA
* * * * *
24394182 AATTACCGTTTTTCCCTTGATTTACAGAATTACTGGTTTACCCTCAGTTTAAAA
1 AATTACCATTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCAGTTTATAA
* * * *
24394236 AATTATCGTTTTACACTCGATTTACAGAATTACCGTTTTACCCT
1 AATTACCATTTTACCCTCGATTTACAGAATTACTGTTTTACCCT
24394280 TGATTGTGAA
Statistics
Matches: 352, Mismatches: 59, Indels: 20
0.82 0.14 0.05
Matches are distributed among these distances:
53 44 0.12
54 305 0.87
55 3 0.01
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (54 bp):
AATTACCATTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCAGTTTATAA
Found at i:24394340 original size:27 final size:27
Alignment explanation
Indices: 24394296--24394483 Score: 189
Period size: 27 Copynumber: 7.0 Consensus size: 27
24394286 TGAAATTATT
* * *
24394296 GAAATA-CCCTGTAAGGTAGAATTTCC
1 GAAATACCCCTATAGGGTAGAATTACC
*
24394322 GAAATACCCCTATAGGGTAGAATTACT
1 GAAATACCCCTATAGGGTAGAATTACC
** * *
24394349 GAAATACCTTTATAGGATAGAAGTACC
1 GAAATACCCCTATAGGGTAGAATTACC
* * * *
24394376 AAAATACCCCTGTAAGGTAGAATTATC
1 GAAATACCCCTATAGGGTAGAATTACC
* * *
24394403 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTATAGGGTAGAATTACC
24394430 GAAATACCCCTATAGGGTAGAATTACC
1 GAAATACCCCTATAGGGTAGAATTACC
* ** * *
24394457 GAGATACCATTATGGGGTAAAATTACC
1 GAAATACCCCTATAGGGTAGAATTACC
24394484 ATTTTGCCCC
Statistics
Matches: 131, Mismatches: 30, Indels: 1
0.81 0.19 0.01
Matches are distributed among these distances:
26 6 0.05
27 125 0.95
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.25
Consensus pattern (27 bp):
GAAATACCCCTATAGGGTAGAATTACC
Found at i:24394464 original size:81 final size:81
Alignment explanation
Indices: 24394297--24394456 Score: 225
Period size: 81 Copynumber: 2.0 Consensus size: 81
24394287 GAAATTATTG
* * **
24394297 AAATA-CCCTGTAAGGTAGAATTTCCGAAATACCCCTATAGGGTAGAATTACTGAAATACCTTTA
1 AAATACCCCTGTAAGGTAGAATTTCCGAAATACCCCTATAGGGTAGAAATACCGAAATACCCCTA
24394361 TAGGATAGAAGTACCA
66 TAGGATAGAAGTACCA
* *
24394377 AAATACCCCTGTAAGGTAGAATTAT-CGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCT
1 AAATACCCCTGTAAGGTAGAATT-TCCGAAATACCCCTATAGGGTAGAAATACCGAAATACCCCT
* *
24394441 ATAGGGTAGAATTACC
65 ATAGGATAGAAGTACC
24394457 GAGATACCAT
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
80 5 0.07
81 64 0.91
82 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (81 bp):
AAATACCCCTGTAAGGTAGAATTTCCGAAATACCCCTATAGGGTAGAAATACCGAAATACCCCTA
TAGGATAGAAGTACCA
Found at i:24394561 original size:27 final size:27
Alignment explanation
Indices: 24394539--24394612 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
24394529 TAGGTGGGTT
*
24394539 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
24394566 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* *
24394593 TGTCACGATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
24394613 CAGCCATGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.12
27 36 0.86
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:24394739 original size:6 final size:6
Alignment explanation
Indices: 24394730--24394837 Score: 116
Period size: 6 Copynumber: 17.8 Consensus size: 6
24394720 TTGCATTCAC
* *
24394730 ATTCTG ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
*
24394779 ATTCTG -TTACTA ATAT-TG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG
1 ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG
24394827 ATTCTG ATTCT
1 ATTCTG ATTCT
24394838 CATTTTGGTT
Statistics
Matches: 87, Mismatches: 6, Indels: 18
0.78 0.05 0.16
Matches are distributed among these distances:
5 6 0.07
6 74 0.85
7 5 0.06
8 2 0.02
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:24394799 original size:30 final size:30
Alignment explanation
Indices: 24394730--24394837 Score: 173
Period size: 30 Copynumber: 3.6 Consensus size: 30
24394720 TTGCATTCAC
*
24394730 ATTCTGATTCTGATTCTGATTCTGTCACCTA
1 ATTCTGATTCTGATTCTGATTCTGTTA-CTA
24394761 ATTCTGATTCTGATTCTGATTCTGTTACTA
1 ATTCTGATTCTGATTCTGATTCTGTTACTA
*
24394791 ATAT-TGATTCTGATTCTGATTCTGTTACTG
1 AT-TCTGATTCTGATTCTGATTCTGTTACTA
24394821 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
24394838 CATTTTGGTT
Statistics
Matches: 73, Mismatches: 2, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
29 1 0.01
30 45 0.62
31 27 0.37
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.49
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGATTCTGTTACTA
Found at i:24394855 original size:30 final size:30
Alignment explanation
Indices: 24394730--24394858 Score: 163
Period size: 30 Copynumber: 4.3 Consensus size: 30
24394720 TTGCATTCAC
*
24394730 ATTCTGATTCTGATTCTGATTCTGTCACCTA
1 ATTCTGATTCTGATTCTGATTCTGTTACC-A
*
24394761 ATTCTGATTCTGATTCTGATTCTGTTACTA
1 ATTCTGATTCTGATTCTGATTCTGTTACCA
**
24394791 ATAT-TGATTCTGATTCTGATTCTGTTACTG
1 AT-TCTGATTCTGATTCTGATTCTGTTACCA
* *
24394821 ATTCTGATTCTGATTCTCATTTTGGTT-CCA
1 ATTCTGATTCTGATTCTGATTCT-GTTACCA
24394851 ATTCTGAT
1 ATTCTGAT
24394859 AATGTTTCTT
Statistics
Matches: 88, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.01
30 56 0.64
31 31 0.35
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.49
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGATTCTGTTACCA
Found at i:24395728 original size:50 final size:50
Alignment explanation
Indices: 24395501--24395731 Score: 230
Period size: 50 Copynumber: 4.6 Consensus size: 50
24395491 GGGTGTTACA
* * * ** *
24395501 TACTAAGTCCATGCTACTACGTGTACTGGATTGATAGGTCGCATGTGTAG
1 TACTAAGTGCAGGCTACTACGCGTACCAGATTGATAGGTCACATGTGTAG
* * * * *
24395551 TACTAAGTGCAGGCTACTATGCGTACCCG-TTAACTTCGATCACATGTGTAG
1 TACTAAGTGCAGGCTACTACGCGTACCAGATTGA--TAGGTCACATGTGTAG
* ** * * * *
24395602 TACTAAGTGCAGCCTACTACGTATATCAGATGGATAAGTCACGTGTGTAG
1 TACTAAGTGCAGGCTACTACGCGTACCAGATTGATAGGTCACATGTGTAG
* * *
24395652 TACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGCGTAG
1 TACTAAGTGCAGGCTACTACGCGTACCAGATTGATAGGTCACATGTGTAG
* *
24395702 TACTAAGTGCAGGCTACCATGCGTACCAGA
1 TACTAAGTGCAGGCTACTACGCGTACCAGA
24395732 GAGCTTCGGT
Statistics
Matches: 145, Mismatches: 33, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
49 3 0.02
50 104 0.72
51 36 0.25
52 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.28
Consensus pattern (50 bp):
TACTAAGTGCAGGCTACTACGCGTACCAGATTGATAGGTCACATGTGTAG
Found at i:24398477 original size:21 final size:18
Alignment explanation
Indices: 24398436--24398472 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
24398426 TCAGAATGTC
24398436 AGACAGACTAGCACTACT
1 AGACAGACTAGCACTACT
24398454 AGACAGACTAGCACTACT
1 AGACAGACTAGCACTACT
24398472 A
1 A
24398473 ATAGAGGTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.27, G:0.16, T:0.16
Consensus pattern (18 bp):
AGACAGACTAGCACTACT
Found at i:24401010 original size:182 final size:182
Alignment explanation
Indices: 24400694--24401025 Score: 477
Period size: 182 Copynumber: 1.8 Consensus size: 182
24400684 CATCCGAGAT
* *
24400694 CTGTACCATGAGATAAATAATATTTAGTGAAGAAAGATTGGAACTGTCATACAGTGAAACATGTG
1 CTGTACCATGAGATAAATAATATTTAGTGAAGAAAGATTGGAACTGTCAGACAGTGAAACATGGG
** * * *
24400759 TATTTTTAATGAATAAACTATACTAATTGGCTAAACCAAAAATTATGAAAATTTTGTAGTAATAA
66 TAACTTTAATGAATAAACTATACTAATTGGCTAAACAAAAAATTATGAAAATTTTATAGTAAGAA
*
24400824 TATATGTAAGTATAGTTTTTTTTGTAAAATTAGCTGTTCTTAATTTGGTGTC
131 TATATGTAAGTATAATTTTTTTTGTAAAATTAGCTGTTCTTAATTTGGTGTC
* * * * ** *
24400876 CTGTACCATGAGATAAATAATTTTTTGTGAAGAGAGGTTGGAACTGTTGGACAGTGAAATA-GGG
1 CTGTACCATGAGATAAATAATATTTAGTGAAGAAAGATTGGAACTGTCAGACAGTGAAACATGGG
* * *
24400940 ATAACTTTAATGAATAAACTGTACTAATTGGCTAAACAAAAAATTCTGAAAATTTTATGGTAAGA
66 -TAACTTTAATGAATAAACTATACTAATTGGCTAAACAAAAAATTATGAAAATTTTATAGTAAGA
*
24401005 ATATATGTGAGTATAATTTTT
130 ATATATGTAAGTATAATTTTT
24401026 GGGAAAATTA
Statistics
Matches: 130, Mismatches: 19, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
181 2 0.02
182 128 0.98
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.36
Consensus pattern (182 bp):
CTGTACCATGAGATAAATAATATTTAGTGAAGAAAGATTGGAACTGTCAGACAGTGAAACATGGG
TAACTTTAATGAATAAACTATACTAATTGGCTAAACAAAAAATTATGAAAATTTTATAGTAAGAA
TATATGTAAGTATAATTTTTTTTGTAAAATTAGCTGTTCTTAATTTGGTGTC
Found at i:24406786 original size:27 final size:25
Alignment explanation
Indices: 24406756--24406811 Score: 58
Period size: 26 Copynumber: 2.2 Consensus size: 25
24406746 ATTTTTCCAT
24406756 AAAGACATTCCTTCCATATTACGCCAC
1 AAAG-CATTCCTTCCATATT-CGCCAC
** * *
24406783 AAAGGTTTCCTTTCATATTTGCCAC
1 AAAGCATTCCTTCCATATTCGCCAC
24406808 AAAG
1 AAAG
24406812 GTTTTCCTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 9 0.36
26 12 0.48
27 4 0.16
ACGTcount: A:0.32, C:0.27, G:0.11, T:0.30
Consensus pattern (25 bp):
AAAGCATTCCTTCCATATTCGCCAC
Found at i:24406812 original size:25 final size:27
Alignment explanation
Indices: 24406763--24406820 Score: 84
Period size: 26 Copynumber: 2.2 Consensus size: 27
24406753 CATAAAGACA
24406763 TTCCTTCCATATTACGCCACAAAGG-T
1 TTCCTTCCATATTACGCCACAAAGGTT
* *
24406789 TTCCTTTCATATT-TGCCACAAAGGTT
1 TTCCTTCCATATTACGCCACAAAGGTT
24406815 TTCCTT
1 TTCCTT
24406821 AAAAGTGCAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 10 0.34
26 19 0.66
ACGTcount: A:0.22, C:0.28, G:0.10, T:0.40
Consensus pattern (27 bp):
TTCCTTCCATATTACGCCACAAAGGTT
Found at i:24409820 original size:49 final size:49
Alignment explanation
Indices: 24409761--24410073 Score: 199
Period size: 49 Copynumber: 6.6 Consensus size: 49
24409751 CATCTAAGTC
*
24409761 GATGCCATGTCCCAGACAGGTCTTACATTGACTTTCATATATCGAGGCT
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCT
* * * * *
24409810 GATGCTATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATTG-GTG-T
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAG-GCT
* * * * * *
24409858 CGATGCCATGTCCCAAATAGGTCTTACACAGA----CATATGTC-ATGTT
1 -GATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCT
* * *
24409903 GATGCCATGTCCCAGACAGGTCTTACACT-AGCTTGCATATCTCGAGGCC
1 GATGCCATGTCCCAGACAGGTCTTACACTGA-CTTTCATATATCGAGGCT
* * * * * ** * *
24409952 GATG-GATGTCCCAAACATGTCTTACACT-AGCTCTCGT-T-TTAATGCC
1 GATGCCATGTCCCAGACAGGTCTTACACTGA-CTTTCATATATCGAGGCT
* * * *
24409998 GATGCCATGTCCCAGACATAGTCTTACACTGGCTCTCATA-AT-GTTGGC-
1 GATGCCATGTCCCAGACA-GGTCTTACACTGACTTTCATATATCG-AGGCT
*
24410046 GATG-CATGTCCCAGACATGTCTTACACT
1 GATGCCATGTCCCAGACAGGTCTTACACT
24410074 AGCACACATC
Statistics
Matches: 208, Mismatches: 40, Indels: 35
0.73 0.14 0.12
Matches are distributed among these distances:
43 1 0.00
44 27 0.13
45 6 0.03
46 19 0.09
47 25 0.12
48 56 0.27
49 74 0.36
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.30
Consensus pattern (49 bp):
GATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCT
Found at i:24409955 original size:93 final size:92
Alignment explanation
Indices: 24409809--24410072 Score: 234
Period size: 93 Copynumber: 2.8 Consensus size: 92
24409799 ATATCGAGGC
* * * * *
24409809 TGATGCTATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATTGGTGTCGATGCCATGTCCCAA
1 TGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCATATATCGGTGCCGATG-CATGTCCCAA
*
24409874 ATAGGTCTTACACAGACATATGTCATGT
65 ACAGGTCTTACACAGACATATGTCATGT
* *
24409902 TGATGCCATGTCCCAGACAGGTCTTACACTAGCT-TGCATATCTCGAG-GCCGATGGATGTCCCA
1 TGATGCCATGTCCCAGACAGGTCTTACACTAGCTCT-CATATATCG-GTGCCGATGCATGTCCCA
* * * *
24409965 AACATGTCTTACACTAG-C-TCTCGTTTTAATGC
64 AACAGGTCTTACAC-AGACATAT-G---TCATGT
* * * * * *
24409997 CGATGCCATGTCCCAGACATAGTCTTACACTGGCTCTCATA-AT-GTTGGCGATGCATGTCCCAG
1 TGATGCCATGTCCCAGACA-GGTCTTACACTAGCTCTCATATATCGGTGCCGATGCATGTCCCAA
*
24410060 ACATGTCTTACAC
65 ACAGGTCTTACAC
24410073 TAGCACACAT
Statistics
Matches: 141, Mismatches: 20, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
91 2 0.01
92 23 0.16
93 46 0.33
94 29 0.21
95 23 0.16
96 17 0.12
97 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (92 bp):
TGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCATATATCGGTGCCGATGCATGTCCCAAA
CAGGTCTTACACAGACATATGTCATGT
Found at i:24410054 original size:142 final size:144
Alignment explanation
Indices: 24409707--24410076 Score: 384
Period size: 142 Copynumber: 2.6 Consensus size: 144
24409697 CATAGGGTAC
* * * *
24409707 AATGTCGATGCCAT-TCTCCAAACATTGTCTTACACTGGCTCACA-CATCTAAGTCGATGCCATG
1 AATGTCGATGCCATGTC-CC-AACATAGTCTTACACTGGCTCTCATCATGT-TG-CGATGCCATG
* * * * *
24409770 TCCCAGACAGGTCTTACA-TTGACTTTCATATATCGAGGCTGATGCTATGTCCCAGACAGGTCTT
62 TCCCAGACAGGTCTTACACTAG-CTTGCATATATCGAGGCCGATGCGATGTCCCAAACAGGTCTT
*
24409834 ACACTGGCTCTCATCTATT
126 ACACTAGCTCTCATCTATT
** * * * *
24409853 GGTGTCGATGCCATGTCCCAA-ATAGGTCTTACACAGACATAT-GTCATGTT--GATGCCATGTC
1 AATGTCGATGCCATGTCCCAACATA-GTCTTACACTGGC-TCTCATCATGTTGCGATGCCATGTC
* *
24409914 CCAGACAGGTCTTACACTAGCTTGCATATCTCGAGGCCGATG-GATGTCCCAAACATGTCTTACA
64 CCAGACAGGTCTTACACTAGCTTGCATATATCGAGGCCGATGCGATGTCCCAAACAGGTCTTACA
*
24409978 CTAGCTCTCGT-T-TT
129 CTAGCTCTCATCTATT
* *
24409992 AATGCCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCTCATAATGTTGGCGATG-CATGTC
1 AATGTCGATGCCATGTCCCA-ACATAGTCTTACACTGGCTCTCATCATGTT-GCGATGCCATGTC
*
24410056 CCAGACATGTCTTACACTAGC
64 CCAGACAGGTCTTACACTAGC
24410077 ACACATCCAT
Statistics
Matches: 185, Mismatches: 28, Indels: 26
0.77 0.12 0.11
Matches are distributed among these distances:
139 21 0.11
140 19 0.10
141 31 0.17
142 72 0.39
143 6 0.03
144 2 0.01
145 13 0.07
146 19 0.10
147 2 0.01
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.29
Consensus pattern (144 bp):
AATGTCGATGCCATGTCCCAACATAGTCTTACACTGGCTCTCATCATGTTGCGATGCCATGTCCC
AGACAGGTCTTACACTAGCTTGCATATATCGAGGCCGATGCGATGTCCCAAACAGGTCTTACACT
AGCTCTCATCTATT
Found at i:24410064 original size:94 final size:94
Alignment explanation
Indices: 24409903--24410076 Score: 237
Period size: 94 Copynumber: 1.8 Consensus size: 94
24409893 ATGTCATGTT
* *
24409903 GATGCCATGTCCCAGACAGGTCTTACACTAGCTTGCATATCTCGAGGCCGATGGATGTCCCAAAC
1 GATGCCATGTCCCAGACAAGTCTTACACTAGCTTGCATATCTC-AGGCCGATGCATGTCCCAAAC
24409968 ATGTCTTACACTAGCTCTCGTTTTAATGCC
65 ATGTCTTACACTAGCTCTCGTTTTAATGCC
* * * *
24409998 GATGCCATGTCCCAGACATAGTCTTACACTGGCTCT-CATAATGT-TGG-CGATGCATGTCCCAG
1 GATGCCATGTCCCAGACA-AGTCTTACACTAGCT-TGCAT-ATCTCAGGCCGATGCATGTCCCAA
24410060 ACATGTCTTACACTAGC
63 ACATGTCTTACACTAGC
24410077 ACACATCCAT
Statistics
Matches: 70, Mismatches: 6, Indels: 7
0.84 0.07 0.08
Matches are distributed among these distances:
94 30 0.43
95 20 0.29
96 16 0.23
97 4 0.06
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (94 bp):
GATGCCATGTCCCAGACAAGTCTTACACTAGCTTGCATATCTCAGGCCGATGCATGTCCCAAACA
TGTCTTACACTAGCTCTCGTTTTAATGCC
Found at i:24410319 original size:42 final size:42
Alignment explanation
Indices: 24410265--24410351 Score: 174
Period size: 42 Copynumber: 2.1 Consensus size: 42
24410255 CTTACTCGTT
24410265 TCAATGGAAAATCTTATCCCATCAAATCTCCATTGTATTCAA
1 TCAATGGAAAATCTTATCCCATCAAATCTCCATTGTATTCAA
24410307 TCAATGGAAAATCTTATCCCATCAAATCTCCATTGTATTCAA
1 TCAATGGAAAATCTTATCCCATCAAATCTCCATTGTATTCAA
24410349 TCA
1 TCA
24410352 TCACAAAAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (42 bp):
TCAATGGAAAATCTTATCCCATCAAATCTCCATTGTATTCAA
Found at i:24411896 original size:47 final size:47
Alignment explanation
Indices: 24411822--24412084 Score: 231
Period size: 47 Copynumber: 5.6 Consensus size: 47
24411812 TGAAATACCA
* * *
24411822 ATGCCATGTCCCAGACATTGTCTTACACTGGGTCATCTATCAAGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTATCAAGCCG
* * * * *
24411869 ATGCGATGTCCCAGACATGGTCTTACACTGACT-ATCGAAATCGAGGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC--TATC-AAGCCG
* * * *
24411918 ACGCCATGTCCCAGACATGGTCTTACACTGACACATC--TCATAGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTATCA-AGCCG
* *
24411964 ATG-CATGTCCCAGACAT-GTCTTACACTAGCTC-TCGTCTCAATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-TATCAA-GCCG
* *
24412010 ATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCCTAAT-ATGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-CT-ATCA-AGCCG
24412058 ATG-CATGTCCCAGACAT-GTCTTACACT
1 ATGCCATGTCCCAGACATGGTCTTACACT
24412085 AGCGCACAAA
Statistics
Matches: 179, Mismatches: 23, Indels: 29
0.77 0.10 0.13
Matches are distributed among these distances:
43 2 0.01
44 12 0.07
45 16 0.09
46 28 0.16
47 57 0.32
48 26 0.15
49 35 0.20
50 3 0.02
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTATCAAGCCG
Found at i:24412807 original size:13 final size:13
Alignment explanation
Indices: 24412789--24412813 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24412779 CTAAAAGTGC
24412789 AAAAATCATCAAG
1 AAAAATCATCAAG
24412802 AAAAATCATCAA
1 AAAAATCATCAA
24412814 AATCACTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.16, G:0.04, T:0.16
Consensus pattern (13 bp):
AAAAATCATCAAG
Found at i:24418974 original size:49 final size:49
Alignment explanation
Indices: 24418908--24419085 Score: 223
Period size: 49 Copynumber: 3.6 Consensus size: 49
24418898 TCAAGTTGAT
24418908 GCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATCAAGGCCGAC
1 GCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATCAAGGCCGAC
* * * * * ** *
24418957 ACCATGTCCCAGTCATGGTCTTACACTGGCTCTC-ATATCTCTGTGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATC-AAG-GCCGAC
* ** *
24419007 GCCATGTCCCAGACATGGTCTTACATTGACTATCAAAATTGAGGCTGAC
1 GCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATCAAGGCCGAC
24419056 GCCATGTCCCAGACATGGTCTTACACTGAC
1 GCCATGTCCCAGACATGGTCTTACACTGAC
24419086 ACATCTCATA
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
48 4 0.04
49 64 0.60
50 35 0.33
51 3 0.03
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (49 bp):
GCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATCAAGGCCGAC
Found at i:24419030 original size:99 final size:99
Alignment explanation
Indices: 24418905--24419083 Score: 304
Period size: 99 Copynumber: 1.8 Consensus size: 99
24418895 CCATCAAGTT
*
24418905 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATCAAGGCCGACACCATGTCCCAGT
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATCAAGGCCGACACCATGTCCCAGA
24418970 CATGGTCTTACACTGGCTCTCATATCTCTGTGCC
66 CATGGTCTTACACTGGCTCTCATATCTCTGTGCC
* ** * *
24419004 GATGCCATGTCCCAGACATGGTCTTACATTGACTATCAAAATTGAGGCTGACGCCATGTCCCAGA
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATCAAGGCCGACACCATGTCCCAGA
24419069 CATGGTCTTACACTG
66 CATGGTCTTACACTG
24419084 ACACATCTCA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
99 74 1.00
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (99 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATCAAGGCCGACACCATGTCCCAGA
CATGGTCTTACACTGGCTCTCATATCTCTGTGCC
Found at i:24419160 original size:46 final size:45
Alignment explanation
Indices: 24419047--24419167 Score: 138
Period size: 46 Copynumber: 2.6 Consensus size: 45
24419037 TATCAAAATT
*
24419047 GAGGCTGACGCCATGTCCCAGACATGGTCTTACACTGACACATCTCA
1 GAGGCTGATG-CATGTCCCAGACAT-GTCTTACACTGACACATCTCA
* * * *
24419094 TAGTC-GATGTATGTCCCAGACATGTCTTACACTGGCTTACATCT-A
1 GAGGCTGATGCATGTCCCAGACATGTCTTACACTGAC--ACATCTCA
*
24419139 GAGGCTGATGCATGTCTCAGACATGTCTT
1 GAGGCTGATGCATGTCCCAGACATGTCTT
24419168 GCAATAGCTC
Statistics
Matches: 62, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
44 12 0.19
45 17 0.27
46 30 0.48
47 3 0.05
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.28
Consensus pattern (45 bp):
GAGGCTGATGCATGTCCCAGACATGTCTTACACTGACACATCTCA
Found at i:24419243 original size:94 final size:93
Alignment explanation
Indices: 24418905--24419249 Score: 254
Period size: 99 Copynumber: 3.6 Consensus size: 93
24418895 CCATCAAGTT
* * * * * ** *
24418905 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATCAAGGCCGACACCATGTCCCAGT
1 GATGCCATGTCCCAGACATGGTCTTACATTGGCT-TCATAAT-GAGGCTGA-TGCATGTCCCAGA
* * * *
24418970 CATGGTCTTACACTGGCTCTCATATCTC-TGTGCC
63 CATGGTCTTACAAT-G---ACACATCTCATATGCC
* * *
24419004 GATGCCATGTCCCAGACATGGTCTTACATTGACTATCAAAATTGAGGCTGACGCCATGTCCCAGA
1 GATGCCATGTCCCAGACATGGTCTTACATTGGCT-TCATAA-TGAGGCTGATG-CATGTCCCAGA
* *
24419069 CATGGTCTTACACTGACACATCTCATA-GTC
63 CATGGTCTTACAATGACACATCTCATATGCC
* * * *
24419099 GATG-TATGTCCCAGACAT-GTCTTACACTGGCTTACAT-CTAGAGGCTGATGCATGTCTCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACATTGGCTT-CATAAT-GAGGCTGATGCATGTCCCAGAC
* * * * *
24419161 AT-GTCTTGCAAT-AGCTCTTGTCTTAATGCC
64 ATGGTCTTACAATGA-CACATCTCAT-ATGCC
* *
24419191 GATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATAATGTGGCCGATGCATGTCC
1 GATGCCATGTCCCAGACATGGTCTTACATTGGCT-TCATAATGAGGCTGATGCATGTCC
24419250 TAGGCACGTC
Statistics
Matches: 204, Mismatches: 30, Indels: 29
0.78 0.11 0.11
Matches are distributed among these distances:
89 1 0.00
90 14 0.07
91 15 0.07
92 16 0.08
93 27 0.13
94 43 0.21
95 15 0.07
96 1 0.00
98 1 0.00
99 70 0.34
100 1 0.00
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (93 bp):
GATGCCATGTCCCAGACATGGTCTTACATTGGCTTCATAATGAGGCTGATGCATGTCCCAGACAT
GGTCTTACAATGACACATCTCATATGCC
Found at i:24419982 original size:13 final size:13
Alignment explanation
Indices: 24419964--24419988 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24419954 CTAAAAGTGC
24419964 AAAAATCATCAAG
1 AAAAATCATCAAG
24419977 AAAAATCATCAA
1 AAAAATCATCAA
24419989 AATCACTTAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.16, G:0.04, T:0.16
Consensus pattern (13 bp):
AAAAATCATCAAG
Found at i:24435485 original size:23 final size:23
Alignment explanation
Indices: 24435426--24435549 Score: 92
Period size: 23 Copynumber: 5.3 Consensus size: 23
24435416 TAACTCTATT
*
24435426 GAGCTGAAACAGTAAGCTCTTTA-
1 GAGCTGAAACAGTAAGCTC-ATAC
*
24435449 AAGCT-AAACAGTAAGCTCATAC
1 GAGCTGAAACAGTAAGCTCATAC
* * *
24435471 GAGCTGAAACGGTAAGTTCCA-AT
1 GAGCTGAAACAGTAAGCT-CATAC
* * *
24435494 GAGCTGAAAATAGTAAGCTCTTTC
1 GAGCTG-AAACAGTAAGCTCATAC
*
24435518 GAGCTGATATATCGGTAAGCTCATAC
1 GAGCTGA-A-A-CAGTAAGCTCATAC
24435544 GAGCTG
1 GAGCTG
24435550 TGGTGAGTCT
Statistics
Matches: 77, Mismatches: 16, Indels: 13
0.73 0.15 0.12
Matches are distributed among these distances:
21 2 0.03
22 17 0.22
23 23 0.30
24 18 0.23
25 1 0.01
26 16 0.21
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.24
Consensus pattern (23 bp):
GAGCTGAAACAGTAAGCTCATAC
Found at i:24437071 original size:27 final size:27
Alignment explanation
Indices: 24437036--24437174 Score: 172
Period size: 27 Copynumber: 5.1 Consensus size: 27
24437026 TAGTAAAGTT
* *
24437036 TGACCGAAATGCCCCCATAGGGTAAAA
1 TGACTGAAATACCCCCATAGGGTAAAA
24437063 TGACTGAAATACCCCCATAGGGTAAAA
1 TGACTGAAATACCCCCATAGGGTAAAA
* *
24437090 TGA-TAAAAATACCCCTATAGGGTAAAA
1 TGACT-GAAATACCCCCATAGGGTAAAA
*
24437117 TGACTGAAATACCCCCATAAGGTAAAA
1 TGACTGAAATACCCCCATAGGGTAAAA
* * ** *
24437144 TGACCGTAATACCCCTGTATGGTAAAA
1 TGACTGAAATACCCCCATAGGGTAAAA
24437171 TGAC
1 TGAC
24437175 GATTATGCCC
Statistics
Matches: 98, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
26 1 0.01
27 96 0.98
28 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.20
Consensus pattern (27 bp):
TGACTGAAATACCCCCATAGGGTAAAA
Found at i:24438635 original size:53 final size:54
Alignment explanation
Indices: 24438563--24438667 Score: 158
Period size: 53 Copynumber: 2.0 Consensus size: 54
24438553 AAGTTTAGCC
* * *
24438563 GAAATGCCCCCATATGGTAAAACGACCGTAATA-CCCCATAAGGTAAAATGAAT
1 GAAATACCCCCATAGGGTAAAACGACCGAAATACCCCCATAAGGTAAAATGAAT
* *
24438616 GAAATACCCCCATAGGGTAAAATGATCGAAATACCCCCATAAGGTAAAATGA
1 GAAATACCCCCATAGGGTAAAACGACCGAAATACCCCCATAAGGTAAAATGA
24438668 CCGTAATACC
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
53 28 0.61
54 18 0.39
ACGTcount: A:0.43, C:0.22, G:0.17, T:0.18
Consensus pattern (54 bp):
GAAATACCCCCATAGGGTAAAACGACCGAAATACCCCCATAAGGTAAAATGAAT
Found at i:24438695 original size:27 final size:27
Alignment explanation
Indices: 24438561--24438695 Score: 155
Period size: 27 Copynumber: 5.0 Consensus size: 27
24438551 TAAAGTTTAG
* * *
24438561 CCGAAATGCCCCCATATGGTAAAACGA
1 CCGAAATACCCCCATAAGGTAAAATGA
*
24438588 CCGTAATA-CCCCATAAGGTAAAATGA
1 CCGAAATACCCCCATAAGGTAAAATGA
** *
24438614 ATGAAATACCCCCATAGGGTAAAATGA
1 CCGAAATACCCCCATAAGGTAAAATGA
*
24438641 TCGAAATACCCCCATAAGGTAAAATGA
1 CCGAAATACCCCCATAAGGTAAAATGA
* ** *
24438668 CCGTAATACCCCTGTATGGTAAAATGA
1 CCGAAATACCCCCATAAGGTAAAATGA
24438695 C
1 C
24438696 GATTATGCCC
Statistics
Matches: 91, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
26 21 0.23
27 70 0.77
ACGTcount: A:0.40, C:0.24, G:0.17, T:0.19
Consensus pattern (27 bp):
CCGAAATACCCCCATAAGGTAAAATGA
Found at i:24440466 original size:29 final size:28
Alignment explanation
Indices: 24440412--24440482 Score: 79
Period size: 29 Copynumber: 2.5 Consensus size: 28
24440402 AATGTGACTA
* *
24440412 GGCCTAACGGGCCATATAAAGGTGATTTG
1 GGCCTAATGGGCCATATAAAGATGA-TTG
* *
24440441 GGCCTAATGGGCCATATGAATATGATTG
1 GGCCTAATGGGCCATATAAAGATGATTG
* *
24440469 GTCTTAATGGGCCA
1 GGCCTAATGGGCCA
24440483 GATACAGGTA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
28 15 0.42
29 21 0.58
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.27
Consensus pattern (28 bp):
GGCCTAATGGGCCATATAAAGATGATTG
Found at i:24444709 original size:24 final size:24
Alignment explanation
Indices: 24444676--24444721 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
24444666 ATGTATCGGC
*
24444676 AAAAGTCGAAATGCCAAAAAGCTA
1 AAAAGCCGAAATGCCAAAAAGCTA
24444700 AAAAGCCGAAATGCCAAAAAGC
1 AAAAGCCGAAATGCCAAAAAGC
24444722 CGAAAGTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.54, C:0.20, G:0.17, T:0.09
Consensus pattern (24 bp):
AAAAGCCGAAATGCCAAAAAGCTA
Found at i:24444868 original size:18 final size:19
Alignment explanation
Indices: 24444835--24444870 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
24444825 ATTTGGCCAT
*
24444835 ATGGGCCGGAATGGGCTAA
1 ATGGGCCCGAATGGGCTAA
24444854 ATGGGCCCG-ATGGGCTA
1 ATGGGCCCGAATGGGCTA
24444871 TTGGGCCCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.22, C:0.19, G:0.42, T:0.17
Consensus pattern (19 bp):
ATGGGCCCGAATGGGCTAA
Found at i:24444992 original size:28 final size:28
Alignment explanation
Indices: 24444961--24445026 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 28
24444951 GGGCCTAACA
**
24444961 GGCCATATAAAGGTGATTTGGGC-CAATG
1 GGCCATATAAAAATGA-TTGGGCTCAATG
* *
24444989 GGCCATAAAAAAATGATTGGGCTTAATG
1 GGCCATATAAAAATGATTGGGCTCAATG
*
24445017 GGCCAGATAA
1 GGCCATATAA
24445027 GGTATGTGAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
27 6 0.19
28 25 0.81
ACGTcount: A:0.35, C:0.14, G:0.29, T:0.23
Consensus pattern (28 bp):
GGCCATATAAAAATGATTGGGCTCAATG
Found at i:24445705 original size:43 final size:43
Alignment explanation
Indices: 24445640--24445919 Score: 285
Period size: 43 Copynumber: 6.6 Consensus size: 43
24445630 TTAACTGCGT
* *
24445640 TTTCCCCAAAAATGCCGCTAAAGAACATGACCTTTAGCGGCGC
1 TTTCCCCAAAAACGCCACTAAAGAACATGACCTTTAGCGGCGC
* * ** *
24445683 TTTCCACAGAAACGCCACTAAAGAACATGACCTTTAGCAACAC
1 TTTCCCCAAAAACGCCACTAAAGAACATGACCTTTAGCGGCGC
* * *
24445726 TTTCCCCAAAAACGCCATTAAAGAACATGACCTTTACCAGCGC
1 TTTCCCCAAAAACGCCACTAAAGAACATGACCTTTAGCGGCGC
* ** *
24445769 TTTCCTCAAAAATACCATTAAAGAACATGACCTTTAGCGGCGC
1 TTTCCCCAAAAACGCCACTAAAGAACATGACCTTTAGCGGCGC
** * ** * **
24445812 TTTCCTTAAAAACGCCACTAAA-TACATGATTTTTAACGGCAT
1 TTTCCCCAAAAACGCCACTAAAGAACATGACCTTTAGCGGCGC
* ** * * *
24445854 TTTCTCCTCAAACGTCGCTAAAG-ACATGACCTTTAGCGACGC
1 TTTCCCCAAAAACGCCACTAAAGAACATGACCTTTAGCGGCGC
*
24445896 TTTCCCCAAAAACTCCACTAAAGA
1 TTTCCCCAAAAACGCCACTAAAGA
24445920 CCATATCAAA
Statistics
Matches: 188, Mismatches: 47, Indels: 4
0.79 0.20 0.02
Matches are distributed among these distances:
42 59 0.31
43 129 0.69
ACGTcount: A:0.34, C:0.29, G:0.13, T:0.24
Consensus pattern (43 bp):
TTTCCCCAAAAACGCCACTAAAGAACATGACCTTTAGCGGCGC
Found at i:24446428 original size:23 final size:23
Alignment explanation
Indices: 24446402--24446503 Score: 152
Period size: 23 Copynumber: 4.4 Consensus size: 23
24446392 ACACAAAGAA
24446402 CATTTAAACACTTCAATTTACAG
1 CATTTAAACACTTCAATTTACAG
* * *
24446425 CATTTAAATACTTGAATTTATTA-
1 CATTTAAACACTTCAATTTA-CAG
24446448 CATTTAAACACTTCAATTTACAG
1 CATTTAAACACTTCAATTTACAG
*
24446471 CATTTAAACACTTCAATTTACAA
1 CATTTAAACACTTCAATTTACAG
24446494 CATTTAAACA
1 CATTTAAACA
24446504 GCAGCAACCA
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
22 1 0.01
23 68 0.97
24 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.03, T:0.37
Consensus pattern (23 bp):
CATTTAAACACTTCAATTTACAG
Found at i:24446454 original size:46 final size:46
Alignment explanation
Indices: 24446400--24446503 Score: 172
Period size: 46 Copynumber: 2.3 Consensus size: 46
24446390 CTACACAAAG
* * *
24446400 AACATTTAAACACTTCAATTTACAGCATTTAAATACTTGAATTTAT
1 AACATTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTAC
*
24446446 TACATTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTAC
1 AACATTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTAC
24446492 AACATTTAAACA
1 AACATTTAAACA
24446504 GCAGCAACCA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 53 1.00
ACGTcount: A:0.42, C:0.18, G:0.03, T:0.37
Consensus pattern (46 bp):
AACATTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTAC
Found at i:24449754 original size:21 final size:21
Alignment explanation
Indices: 24449730--24449775 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
24449720 GTCAATATAT
24449730 ATGACAATCTATTGGAAGAAG
1 ATGACAATCTATTGGAAGAAG
*
24449751 ATGACAATCTGTTGGAAGAAG
1 ATGACAATCTATTGGAAGAAG
24449772 ATGA
1 ATGA
24449776 AAGCTTCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.41, C:0.09, G:0.26, T:0.24
Consensus pattern (21 bp):
ATGACAATCTATTGGAAGAAG
Found at i:24450537 original size:71 final size:73
Alignment explanation
Indices: 24450446--24450594 Score: 194
Period size: 71 Copynumber: 2.1 Consensus size: 73
24450436 TTCTGGTATA
* ** *
24450446 AAATAGAAGAACAGGTTGAGAAACGATGAGAAA-AAAAGGAAATTGGGAAAGAAAAGGGAA-TCG
1 AAATAGAAGAACAGGCTGAGAAACGATGAGAAAGAAAAGGAAATCAGGAAAGAAAAGGAAATTCG
24450509 GGGGAGAG
66 GGGGAGAG
* ** * * *
24450517 AAATAGAGGAACAGGCTGAGAATGGCTGAGAAAGAAAAGGAAATCAGGAAAGAAGAGGAAATTGG
1 AAATAGAAGAACAGGCTGAGAAACGATGAGAAAGAAAAGGAAATCAGGAAAGAAAAGGAAATTCG
24450582 GGGGAGAG
66 GGGGAGAG
24450590 AAATA
1 AAATA
24450595 AAACGGCGTC
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
71 28 0.42
72 23 0.35
73 15 0.23
ACGTcount: A:0.50, C:0.05, G:0.36, T:0.10
Consensus pattern (73 bp):
AAATAGAAGAACAGGCTGAGAAACGATGAGAAAGAAAAGGAAATCAGGAAAGAAAAGGAAATTCG
GGGGAGAG
Found at i:24451184 original size:7 final size:7
Alignment explanation
Indices: 24451151--24451349 Score: 57
Period size: 7 Copynumber: 27.9 Consensus size: 7
24451141 ACTAATTAAT
24451151 CTAAACC
1 CTAAACC
*
24451158 CTTAACC
1 CTAAACC
*
24451165 C-ATATCC
1 CTA-AACC
24451172 CATAAACC
1 C-TAAACC
*
24451180 CTAAATC
1 CTAAACC
* *
24451187 ATAAAAC
1 CTAAACC
*
24451194 ATAAACC
1 CTAAACC
*
24451201 ATAAACCC
1 CTAAA-CC
*
24451209 CTAACCC
1 CTAAACC
*
24451216 CTAACCC
1 CTAAACC
24451223 CTAAACC
1 CTAAACC
*
24451230 TTAAATCC
1 CTAAA-CC
24451238 C--AACC
1 CTAAACC
24451243 CTTAAACC
1 C-TAAACC
*
24451251 ATAAACC
1 CTAAACC
* *
24451258 ATAATCC
1 CTAAACC
*
24451265 CAAAACC
1 CTAAACC
* *
24451272 CATAATCT
1 C-TAAACC
*
24451280 ATAAACC
1 CTAAACC
*
24451287 TTAAA--
1 CTAAACC
* *
24451292 ATAGTAACTT
1 CTA--AAC-C
*
24451302 CTAAAGC
1 CTAAACC
*
24451309 TTAAACC
1 CTAAACC
24451316 CTAAACC
1 CTAAACC
* *
24451323 ATATACC
1 CTAAACC
24451330 CTAAACC
1 CTAAACC
*
24451337 CTAAATC
1 CTAAACC
24451344 CTAAAC
1 CTAAAC
24451350 TATAATGATA
Statistics
Matches: 140, Mismatches: 38, Indels: 28
0.68 0.18 0.14
Matches are distributed among these distances:
5 5 0.04
6 2 0.01
7 110 0.79
8 20 0.14
9 1 0.01
10 2 0.01
ACGTcount: A:0.44, C:0.34, G:0.01, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:24451191 original size:14 final size:14
Alignment explanation
Indices: 24451171--24451276 Score: 70
Period size: 14 Copynumber: 7.4 Consensus size: 14
24451161 AACCCATATC
24451171 CCATAAACCCTAAA
1 CCATAAACCCTAAA
* * *
24451185 TCATAAAACATAAA
1 CCATAAACCCTAAA
*
24451199 CCATAAACCCCTAAC
1 CCATAAA-CCCTAAA
* *
24451214 CCCTAACCCCTAAA
1 CCATAAACCCTAAA
* *
24451228 CCTTAAATCCC-AAC
1 CCATAAA-CCCTAAA
* *
24451242 CCTTAAACCATAAA
1 CCATAAACCCTAAA
* *
24451256 CCATAATCCCAAAA
1 CCATAAACCCTAAA
24451270 CCCATAA
1 -CCATAA
24451277 TCTATAAACC
Statistics
Matches: 69, Mismatches: 19, Indels: 7
0.73 0.20 0.07
Matches are distributed among these distances:
13 2 0.03
14 49 0.71
15 18 0.26
ACGTcount: A:0.46, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
CCATAAACCCTAAA
Found at i:24451346 original size:14 final size:14
Alignment explanation
Indices: 24451310--24451354 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
24451300 TTCTAAAGCT
24451310 TAAACCCTAAACCA
1 TAAACCCTAAACCA
* *
24451324 TATACCCTAAACCC
1 TAAACCCTAAACCA
* *
24451338 TAAATCCTAAACTA
1 TAAACCCTAAACCA
24451352 TAA
1 TAA
24451355 TGATAATTAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:24451780 original size:40 final size:40
Alignment explanation
Indices: 24451735--24451880 Score: 148
Period size: 40 Copynumber: 3.6 Consensus size: 40
24451725 TTTTTTTGCT
*
24451735 GCGTTTTTCAAAAAGCGCCATTAATGGTCAACCTATAGCG
1 GCGTTTTTCAAAAAGCGCCGTTAATGGTCAACCTATAGCG
* * * * * * ** *
24451775 ACGTTTTTTAGAAAGAGCCGCTAGTGGTGGACCTATAGTG
1 GCGTTTTTCAAAAAGCGCCGTTAATGGTCAACCTATAGCG
* * * *
24451815 GCGTTTTTTAAAAAGCGCCGTTGATGGTCAATCAATAGCG
1 GCGTTTTTCAAAAAGCGCCGTTAATGGTCAACCTATAGCG
* *
24451855 GCGTTTTTCTAAAAGCGCCGCTAATG
1 GCGTTTTTCAAAAAGCGCCGTTAATG
24451881 CCACTAAAGC
Statistics
Matches: 81, Mismatches: 25, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
40 81 1.00
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (40 bp):
GCGTTTTTCAAAAAGCGCCGTTAATGGTCAACCTATAGCG
Found at i:24452073 original size:193 final size:194
Alignment explanation
Indices: 24451720--24452074 Score: 448
Period size: 193 Copynumber: 1.8 Consensus size: 194
24451710 TACCGCTATA
* * *
24451720 CTTAATTTTTTTGCTGCGTTTTTCAAAAAGCGCCATTAATGGTCAACCTATAGCGACGTTTTTTA
1 CTTAATTTTTTTGCGGCGTTTTTCAAAAAGCGCCATTAATGATCAACCTATAGCGACATTTTTTA
* * * * * *
24451785 GAAAGAGCCGCTAGTGGTGGACCTATAGTGGCGTTTTTTAAAAAGCGCCGTTGATGGTCAATCAA
66 AAAAGAGCCGCTAGTGCTCGACCTATAGTAGCGTTTTTTAAAAAGCGCCGCTAATGGTCAATCAA
* *
24451850 TAGCGGCGTTTTTCTAAAAGCGCCGCTAATGCCACTAAAGCTCAACATAAAACGACGGTGTGTG
131 TAGCGGCGTTTTTCGAAAAACGCCGCTAATGCCACTAAAGCTCAACATAAAACGACGGTGTGTG
* * ** * *
24451914 CTTAATTTTTTTGCGGCGTTTTTTAAAAAGTGCC-TTAATGATTGATCTATAGCGGCATTTTTTA
1 CTTAATTTTTTTGCGGCGTTTTTCAAAAAGCGCCATTAATGATCAACCTATAGCGACATTTTTTA
* * * **
24451978 AAAAGCA-CCGCTAGTGCTCGATCTATAGTAGCGTTTTTTAAAAAGCGTCGCTAATGTTCAATTT
66 AAAAG-AGCCGCTAGTGCTCGACCTATAGTAGCGTTTTTTAAAAAGCGCCGCTAATGGTCAATCA
*
24452042 ATAGCGTTGC-TTTTT-GAAAAACGCTGCTAATGC
130 ATAGCG--GCGTTTTTCGAAAAACGCCGCTAATGC
24452075 TCGATCTGTA
Statistics
Matches: 135, Mismatches: 23, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
193 96 0.71
194 37 0.27
195 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (194 bp):
CTTAATTTTTTTGCGGCGTTTTTCAAAAAGCGCCATTAATGATCAACCTATAGCGACATTTTTTA
AAAAGAGCCGCTAGTGCTCGACCTATAGTAGCGTTTTTTAAAAAGCGCCGCTAATGGTCAATCAA
TAGCGGCGTTTTTCGAAAAACGCCGCTAATGCCACTAAAGCTCAACATAAAACGACGGTGTGTG
Found at i:24458858 original size:42 final size:42
Alignment explanation
Indices: 24458747--24458953 Score: 270
Period size: 43 Copynumber: 4.9 Consensus size: 42
24458737 CACCTTACCA
*** *
24458747 ATGCCATATCCCAGATATGGTCTTACATGGGGTCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACATGAAATCTCATATCG
* *
24458789 ATGCCAATAGCCCAGCTATGGTCTTACATGAAATCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACATGAAATCTCATATCG
*** *
24458832 ATGCCATATCCCAGATATGGTCTTACATGGGGTCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACATGAAATCTCATATCG
* *
24458874 ATGCCAATAGCCCAGCTATGGTCTTACATGAAATCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACATGAAATCTCATATCG
* *
24458917 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACATGAAATCTCA
24458954 AATAACCCTT
Statistics
Matches: 141, Mismatches: 22, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
42 69 0.49
43 72 0.51
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGAAATCTCATATCG
Found at i:24458953 original size:85 final size:85
Alignment explanation
Indices: 24458747--24458943 Score: 394
Period size: 85 Copynumber: 2.3 Consensus size: 85
24458737 CACCTTACCA
24458747 ATGCCATATCCCAGATATGGTCTTACATGGGGTCTCATATTGATGCCAATAGCCCAGCTATGGTC
1 ATGCCATATCCCAGATATGGTCTTACATGGGGTCTCATATTGATGCCAATAGCCCAGCTATGGTC
24458812 TTACATGAAATCTCATATCG
66 TTACATGAAATCTCATATCG
24458832 ATGCCATATCCCAGATATGGTCTTACATGGGGTCTCATATTGATGCCAATAGCCCAGCTATGGTC
1 ATGCCATATCCCAGATATGGTCTTACATGGGGTCTCATATTGATGCCAATAGCCCAGCTATGGTC
24458897 TTACATGAAATCTCATATCG
66 TTACATGAAATCTCATATCG
24458917 ATGCCATATCCCAGATATGGTCTTACA
1 ATGCCATATCCCAGATATGGTCTTACA
24458944 CGTAATCTCA
Statistics
Matches: 112, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 112 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.30
Consensus pattern (85 bp):
ATGCCATATCCCAGATATGGTCTTACATGGGGTCTCATATTGATGCCAATAGCCCAGCTATGGTC
TTACATGAAATCTCATATCG
Found at i:24466807 original size:27 final size:26
Alignment explanation
Indices: 24466763--24466814 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
24466753 CTCACTGCAA
*
24466763 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
24466790 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
24466815 GCAGCCTCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:24466885 original size:73 final size:67
Alignment explanation
Indices: 24466744--24466887 Score: 164
Period size: 73 Copynumber: 2.1 Consensus size: 67
24466734 GAGGAAGCAT
* * *
24466744 TCTGGCAGGCTCACTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCACTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACCTAGTCACAA
24466809 TA
66 TA
* * *
24466811 TCTGGCAGCCTCATTGCAATCTGGTGGCTTCGCCACACATATATATATCTGTTCTGGTGGCCTAG
1 TCTGGCAGCCTCACTGCAATCTGGTGGCCTCG-C-CAC----ATATATCTGTTCTGGTGACCTAG
24466876 -CTACAATA
60 TC-ACAATA
24466884 TCTG
1 TCTG
24466888 TATCTGGTGA
Statistics
Matches: 64, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
67 29 0.45
68 1 0.02
69 3 0.05
72 1 0.02
73 30 0.47
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.31
Consensus pattern (67 bp):
TCTGGCAGCCTCACTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACCTAGTCACAA
TA
Found at i:24470708 original size:16 final size:16
Alignment explanation
Indices: 24470687--24470755 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
24470677 TTTGGTTCGC
24470687 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
24470703 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
24470719 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
*
24470736 TGTATTGGATTAGTGG
1 TGTATTGGATTAGAGG
24470752 TGTA
1 TGTA
24470756 ATAGCTAATC
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
16 35 0.69
17 16 0.31
ACGTcount: A:0.23, C:0.00, G:0.38, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:24470733 original size:33 final size:32
Alignment explanation
Indices: 24470687--24470755 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
24470677 TTTGGTTCGC
24470687 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
*
24470719 TGTATTGGGATTAGAGGTGTATTGGATTAGTGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
24470752 TGTA
1 TGTA
24470756 ATAGCTAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 6 0.17
33 29 0.83
ACGTcount: A:0.23, C:0.00, G:0.38, T:0.39
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:24485941 original size:40 final size:40
Alignment explanation
Indices: 24485867--24486049 Score: 289
Period size: 40 Copynumber: 4.6 Consensus size: 40
24485857 AACCCAAGTA
* * *
24485867 CCTTTGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
24485906 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
24485946 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
24485986 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-AAATG
*
24486027 CCTTCGGGTCTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
24486050 CATCCGAATA
Statistics
Matches: 135, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
39 11 0.08
40 96 0.71
41 28 0.21
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:24494115 original size:40 final size:40
Alignment explanation
Indices: 24494041--24494223 Score: 273
Period size: 40 Copynumber: 4.6 Consensus size: 40
24494031 AACCCAAGTA
*
24494041 CCTTCGGGAT-TTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGG-TCTTAGCCCGGATATAGTC-ACTAGCACAAATG
24494080 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
* *
24494120 CCTTCGGGACTTAGCTCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
* *
24494160 CCTTCGGGACTTATCCCGGATATAGTCACTAGCACAAAATG
1 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCAC-AAATG
24494201 CCTTCGGGTCTTAGCCCGGATAT
1 CCTTCGGGTCTTAGCCCGGATAT
24494224 CATCCGAATA
Statistics
Matches: 133, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
38 1 0.01
39 12 0.09
40 93 0.70
41 27 0.20
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:24497256 original size:25 final size:25
Alignment explanation
Indices: 24497228--24497276 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
24497218 TGTTAAGAGA
*
24497228 ATGAATGAGGAATGAG-GAATGAGGG
1 ATGAAT-AGAAATGAGAGAATGAGGG
*
24497253 ATGAGTAGAAATGAGAGAATGAGG
1 ATGAATAGAAATGAGAGAATGAGG
24497277 TCTTATTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.43, C:0.00, G:0.41, T:0.16
Consensus pattern (25 bp):
ATGAATAGAAATGAGAGAATGAGGG
Found at i:24506668 original size:28 final size:26
Alignment explanation
Indices: 24506637--24506696 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 26
24506627 AATTAATTGA
* *
24506637 ATACCCCTATGTATGGAAAATTACTATT
1 ATACCCCTA-G-ATGCAAAATTACCATT
*
24506665 ATACCCCTAGGTGCAAAATTACCATT
1 ATACCCCTAGATGCAAAATTACCATT
24506691 ATACCC
1 ATACCC
24506697 TTAGGGTTGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 19 0.66
27 1 0.03
28 9 0.31
ACGTcount: A:0.35, C:0.25, G:0.10, T:0.30
Consensus pattern (26 bp):
ATACCCCTAGATGCAAAATTACCATT
Found at i:24506847 original size:27 final size:26
Alignment explanation
Indices: 24506805--24506916 Score: 116
Period size: 27 Copynumber: 4.2 Consensus size: 26
24506795 AGGAAGCGTC
* *
24506805 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTACCAC-ATTATCTGAT
* *
24506832 CTGGTGGCTTTACCACATATATCTGTT
1 CTGGTGGCTCTACCACAT-TATCTGAT
*
24506859 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTACCAC-ATTATCTG-AT
* * *
24506887 CTGGTGACTCTATCACATTATCTGTT
1 CTGGTGGCTCTACCACATTATCTGAT
24506913 CTGG
1 CTGG
24506917 CAGCCATGCT
Statistics
Matches: 72, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
26 7 0.10
27 49 0.68
28 16 0.22
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTACCACATTATCTGAT
Found at i:24506909 original size:54 final size:54
Alignment explanation
Indices: 24506805--24506916 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
24506795 AGGAAGCGTC
* *
24506805 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTTTACCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTACCACATATATCTGTT
* * *
24506859 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTATCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTACCACATATATCTGTT
24506913 CTGG
1 CTGG
24506917 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 35 0.67
55 17 0.33
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTACCACATATATCTGTT
Found at i:24507905 original size:16 final size:16
Alignment explanation
Indices: 24507884--24507915 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
24507874 AATGGGTTTA
*
24507884 CAAAAACAAAGATTTT
1 CAAAAACAAAAATTTT
24507900 CAAAAACAAAAATTTT
1 CAAAAACAAAAATTTT
24507916 ATAAAGATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.12, G:0.03, T:0.25
Consensus pattern (16 bp):
CAAAAACAAAAATTTT
Found at i:24511924 original size:41 final size:41
Alignment explanation
Indices: 24511868--24512052 Score: 298
Period size: 41 Copynumber: 4.5 Consensus size: 41
24511858 TATTCGGGCT
* * *
24511868 TTATTACCTACCAGGCTTTGTGCCGGTGTATTATATCAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTAAATCAGGC
*
24511909 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTAAATCAGGC
* *
24511950 TTATTGCCTAGCAGGCTTTGTGCTGGTGTTTTAAATCAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTAAATCAGGC
* *
24511991 TTATTACCTAGCAGGCTTTGTGCCGATGTATTAAATCAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTAAATCAGGC
24512032 TTATTGCCTAGCAGGCTTTGT
1 TTATTGCCTAGCAGGCTTTGT
24512053 AGCAGGCTTT
Statistics
Matches: 134, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 134 1.00
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.37
Consensus pattern (41 bp):
TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTAAATCAGGC
Found at i:24512057 original size:12 final size:12
Alignment explanation
Indices: 24512040--24512064 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24512030 GCTTATTGCC
24512040 TAGCAGGCTTTG
1 TAGCAGGCTTTG
24512052 TAGCAGGCTTTG
1 TAGCAGGCTTTG
24512064 T
1 T
24512065 GCCGGTGTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.16, G:0.32, T:0.36
Consensus pattern (12 bp):
TAGCAGGCTTTG
Found at i:24512065 original size:94 final size:94
Alignment explanation
Indices: 24511958--24512310 Score: 408
Period size: 84 Copynumber: 4.0 Consensus size: 94
24511948 GCTTATTGCC
* * * *
24511958 TAGCAGGCTTTGTGCTGGTGTTTTAAATCAGGCTTATTACCTAGCAGGCTTTGTGCCGATGTATT
1 TAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTACCTAGCAGGCTTTGTGCCGGTGTATT
24512023 AAATCAGGCTTATTGCCTAGCAGGCTTTG
66 AAATCAGGCTTATTGCCTAGCAGGCTTTG
* *
24512052 TAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTTCCTAACAGGCTTTGTGCCGGTGTATT
1 TAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTACCTAGCAGGCTTTGTGCCGGTGTATT
*
24512117 ATATCAGGCTTATTGCCTAGCAGGC-TT-
66 AAATCAGGCTTATTGCCTAGCAGGCTTTG
* *
24512144 T---A-----TGTGCCGGTGTATTATATCAGGCTTATTGCCTAGCAGGCTCTGTGCCGGTGTATT
1 TAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTACCTAGCAGGCTTTGTGCCGGTGTATT
24512201 AAATCAGGCTTATTGCCT---A------G
66 AAATCAGGCTTATTGCCTAGCAGGCTTTG
* * *
24512221 T---AGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCCTAGCAGGCTTTATATGCCCGTGTA
1 TAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTACCTAGCAGGC-TT-TGTGCCGGTGTA
* *
24512283 TTATATCAGGCTTATTTCCTAGCAGGCT
64 TTAAATCAGGCTTATTGCCTAGCAGGCT
24512311 CTGTGCTGGT
Statistics
Matches: 228, Mismatches: 16, Indels: 33
0.82 0.06 0.12
Matches are distributed among these distances:
77 2 0.01
81 1 0.00
82 39 0.17
83 1 0.00
84 97 0.43
87 1 0.00
89 1 0.00
92 1 0.00
93 2 0.01
94 83 0.36
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.37
Consensus pattern (94 bp):
TAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTACCTAGCAGGCTTTGTGCCGGTGTATT
AAATCAGGCTTATTGCCTAGCAGGCTTTG
Found at i:24512074 original size:53 final size:53
Alignment explanation
Indices: 24511999--24512105 Score: 178
Period size: 53 Copynumber: 2.0 Consensus size: 53
24511989 GCTTATTACC
*
24511999 TAGCAGGCTTTGTGCCGATGTATTAAATCAGGCTTATTGCCTAGCAGGCTTTG
1 TAGCAGGCTTTGTGCCGATGTATTAAATCAGGCTTATTGCCTAACAGGCTTTG
* * *
24512052 TAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTTCCTAACAGGCTTTG
1 TAGCAGGCTTTGTGCCGATGTATTAAATCAGGCTTATTGCCTAACAGGCTTTG
24512105 T
1 T
24512106 GCCGGTGTAT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.36
Consensus pattern (53 bp):
TAGCAGGCTTTGTGCCGATGTATTAAATCAGGCTTATTGCCTAACAGGCTTTG
Found at i:24512102 original size:41 final size:41
Alignment explanation
Indices: 24512052--24512347 Score: 434
Period size: 41 Copynumber: 7.1 Consensus size: 41
24512042 GCAGGCTTTG
*
24512052 TAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTTCC
1 TAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCC
*
24512093 TAACAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCC
1 TAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCC
24512134 TAGCAGGCTTTATGTGCCGGTGTATTATATCAGGCTTATTGCC
1 TAGCAGGC-TT-TGTGCCGGTGTATTATATCAGGCTTATTGCC
* *
24512177 TAGCAGGCTCTGTGCCGGTGTATTAAATCAGGCTTATTGCC
1 TAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCC
*
24512218 TAGTAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCC
1 TAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCC
* * *
24512259 TAGCAGGCTTTATATGCCCGTGTATTATATCAGGCTTATTTCC
1 TAGCAGGC-TT-TGTGCCGGTGTATTATATCAGGCTTATTGCC
* *
24512302 TAGCAGGCTCTGTGCTGGTGTATTATA-CTAGGCTCTA-TGCC
1 TAGCAGGCTTTGTGCCGGTGTATTATATC-AGGCT-TATTGCC
24512343 TAGCA
1 TAGCA
24512348 AATTTTATGT
Statistics
Matches: 232, Mismatches: 17, Indels: 12
0.89 0.07 0.05
Matches are distributed among these distances:
40 1 0.00
41 148 0.64
42 8 0.03
43 75 0.32
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.36
Consensus pattern (41 bp):
TAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCC
Found at i:24512159 original size:84 final size:82
Alignment explanation
Indices: 24512052--24512347 Score: 434
Period size: 84 Copynumber: 3.6 Consensus size: 82
24512042 GCAGGCTTTG
* *
24512052 TAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTTCCTAACAGGCTTTGTGCCGGTGTATT
1 TAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCCTAGCAGGCTTTGTGCCGGTGTATT
24512117 ATATCAGGCTTATTGCC
66 ATATCAGGCTTATTGCC
*
24512134 TAGCAGGCTTTATGTGCCGGTGTATTATATCAGGCTTATTGCCTAGCAGGCTCTGTGCCGGTGTA
1 TAGCAGGC-TT-TGTGCCGGTGTATTATATCAGGCTTATTGCCTAGCAGGCTTTGTGCCGGTGTA
*
24512199 TTAAATCAGGCTTATTGCC
64 TTATATCAGGCTTATTGCC
* * *
24512218 TAGTAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCCTAGCAGGCTTTATATGCCCGTGTA
1 TAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCCTAGCAGGC-TT-TGTGCCGGTGTA
*
24512283 TTATATCAGGCTTATTTCC
64 TTATATCAGGCTTATTGCC
* *
24512302 TAGCAGGCTCTGTGCTGGTGTATTATA-CTAGGCTCTA-TGCCTAGCA
1 TAGCAGGCTTTGTGCCGGTGTATTATATC-AGGCT-TATTGCCTAGCA
24512348 AATTTTATGT
Statistics
Matches: 195, Mismatches: 13, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
82 47 0.24
83 6 0.03
84 140 0.72
85 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.36
Consensus pattern (82 bp):
TAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCCTAGCAGGCTTTGTGCCGGTGTATT
ATATCAGGCTTATTGCC
Found at i:24512335 original size:125 final size:125
Alignment explanation
Indices: 24512052--24512347 Score: 479
Period size: 125 Copynumber: 2.4 Consensus size: 125
24512042 GCAGGCTTTG
* * *
24512052 TAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTTCCTAACAGGCTTTGTGCCGGTGTATT
1 TAGCAGGCTCTGTGCCGGTGTATTATATCAGGCTTATTGCCTAGCAGGCTTTGTGCCGGTGTATT
* *
24512117 ATATCAGGCTTATTGCCTAGCAGGCTTTATGTGCCGGTGTATTATATCAGGCTTATTGCC
66 ATATCAGGCTTATTGCCTAGCAGGCTTTATATGCCCGTGTATTATATCAGGCTTATTGCC
* *
24512177 TAGCAGGCTCTGTGCCGGTGTATTAAATCAGGCTTATTGCCTAGTAGGCTTTGTGCCGGTGTATT
1 TAGCAGGCTCTGTGCCGGTGTATTATATCAGGCTTATTGCCTAGCAGGCTTTGTGCCGGTGTATT
*
24512242 ATATCAGGCTTATTGCCTAGCAGGCTTTATATGCCCGTGTATTATATCAGGCTTATTTCC
66 ATATCAGGCTTATTGCCTAGCAGGCTTTATATGCCCGTGTATTATATCAGGCTTATTGCC
*
24512302 TAGCAGGCTCTGTGCTGGTGTATTATA-CTAGGCTCTA-TGCCTAGCA
1 TAGCAGGCTCTGTGCCGGTGTATTATATC-AGGCT-TATTGCCTAGCA
24512348 AATTTTATGT
Statistics
Matches: 158, Mismatches: 11, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
124 1 0.01
125 155 0.98
126 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.36
Consensus pattern (125 bp):
TAGCAGGCTCTGTGCCGGTGTATTATATCAGGCTTATTGCCTAGCAGGCTTTGTGCCGGTGTATT
ATATCAGGCTTATTGCCTAGCAGGCTTTATATGCCCGTGTATTATATCAGGCTTATTGCC
Found at i:24518925 original size:41 final size:41
Alignment explanation
Indices: 24518879--24519098 Score: 327
Period size: 41 Copynumber: 5.3 Consensus size: 41
24518869 TATTCGGGCT
*
24518879 TTATTGCCTAGTAGGCTTTGTGCCGGTGTATTATATCAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGC
*
24518920 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTAAATCAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGC
*
24518961 TTATTGCCTAGCCGGCTTTGTGCCGGTGTATTATATCAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGC
* * *
24519002 TTATTGCCTAGCAGGCTTTTTGTGCCTGTGTATTTTATTAGGC
1 TTATTGCCTAGCAGGC--TTTGTGCCGGTGTATTATATCAGGC
*
24519045 TTATTGCCTAGCAGGCTCTGTGCCGGTGTATTATA-CTAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATC-AGGC
24519086 TT-TATGCCTAGCA
1 TTAT-TGCCTAGCA
24519099 AATTTTATGT
Statistics
Matches: 163, Mismatches: 12, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
40 1 0.01
41 124 0.76
43 38 0.23
ACGTcount: A:0.17, C:0.20, G:0.25, T:0.38
Consensus pattern (41 bp):
TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGC
Found at i:24519077 original size:84 final size:82
Alignment explanation
Indices: 24518879--24519098 Score: 327
Period size: 84 Copynumber: 2.7 Consensus size: 82
24518869 TATTCGGGCT
*
24518879 TTATTGCCTAGTAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCCTAGCAGGCTTTGTGCC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCCTAGCAGGCTTTGTGCC
24518944 GGTGTATTAAATCAGGC
66 GGTGTATTAAATCAGGC
*
24518961 TTATTGCCTAGCCGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCCTAGCAGGCTTTTTGTG
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCCTAGCAGGC--TTTGTG
* ** *
24519026 CCTGTGTATTTTATTAGGC
64 CCGGTGTATTAAATCAGGC
*
24519045 TTATTGCCTAGCAGGCTCTGTGCCGGTGTATTATA-CTAGGCTT-TATGCCTAGCA
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATC-AGGCTTAT-TGCCTAGCA
24519099 AATTTTATGT
Statistics
Matches: 126, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
82 55 0.44
83 2 0.02
84 69 0.55
ACGTcount: A:0.17, C:0.20, G:0.25, T:0.38
Consensus pattern (82 bp):
TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCCTAGCAGGCTTTGTGCC
GGTGTATTAAATCAGGC
Found at i:24522787 original size:46 final size:46
Alignment explanation
Indices: 24522711--24522886 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
24522701 TGTAACCCGC
* * *
24522711 CCATAAGCGAACTCGAGACTCAACTCAACGAGCTCGGGCGTTTGCAT
1 CCATAAGTGAACTCG-GACTCAACTCAACGAGTTCGGGCATTTGCAT
* * * *
24522758 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-G--GGC-ATTTGCAT
* * * *
24522808 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCAT
*
24522851 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
24522887 ATGCCCAAAT
Statistics
Matches: 105, Mismatches: 17, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
43 6 0.06
44 3 0.03
45 2 0.02
46 44 0.42
47 40 0.38
48 2 0.02
49 3 0.03
50 5 0.05
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCAT
Found at i:24522890 original size:93 final size:94
Alignment explanation
Indices: 24522718--24522891 Score: 278
Period size: 93 Copynumber: 1.9 Consensus size: 94
24522708 CGCCCATAAG
* * * * *
24522718 CGAACTCGAGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATGAGTGAACTCGGACTCAACTC
1 CGAACTCGAGACTCAACTCAACGAGCTCAGACATTTGCATCCATAAGTGAACTCAGACTCAACTC
24522783 AACGAGTTCAGATGCCTAGTTACATCTCA
66 AACGAGTTCAGATGCCTAGTTACATCTCA
*
24522812 CGAACTCG-GACTCAACTCAACGAGTTCAGACATTTGCATCCATAAGTGAACTCAGACTCAACTC
1 CGAACTCGAGACTCAACTCAACGAGCTCAGACATTTGCATCCATAAGTGAACTCAGACTCAACTC
*
24522876 AACGAGTTCGGATGCC
66 AACGAGTTCAGATGCC
24522892 CAAATATCCT
Statistics
Matches: 73, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
93 65 0.89
94 8 0.11
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (94 bp):
CGAACTCGAGACTCAACTCAACGAGCTCAGACATTTGCATCCATAAGTGAACTCAGACTCAACTC
AACGAGTTCAGATGCCTAGTTACATCTCA
Found at i:24525299 original size:15 final size:15
Alignment explanation
Indices: 24525272--24525327 Score: 78
Period size: 15 Copynumber: 3.7 Consensus size: 15
24525262 CAAGGAAACT
*
24525272 GAATAACGAAATCCA
1 GAATAAAGAAATCCA
*
24525287 -AGATAGAGAAATCCA
1 GA-ATAAAGAAATCCA
24525302 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
24525317 GAATAAAGAAA
1 GAATAAAGAAA
24525328 CCCAAGATAC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
14 1 0.03
15 34 0.94
16 1 0.03
ACGTcount: A:0.59, C:0.12, G:0.16, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:24530808 original size:14 final size:14
Alignment explanation
Indices: 24530757--24530812 Score: 62
Period size: 14 Copynumber: 4.0 Consensus size: 14
24530747 ACAAGAAACT
24530757 GAATAAAGAAATCCA
1 GAATAAAGAAA-CCA
* *
24530772 -AGATAGAGAATCCA
1 GA-ATAAAGAAACCA
24530786 GAA-AAAGAAACCA
1 GAATAAAGAAACCA
24530799 GAATAAAGAAACCA
1 GAATAAAGAAACCA
24530813 AGATACGATA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
13 11 0.32
14 15 0.44
15 8 0.24
ACGTcount: A:0.61, C:0.14, G:0.16, T:0.09
Consensus pattern (14 bp):
GAATAAAGAAACCA
Found at i:24533791 original size:46 final size:46
Alignment explanation
Indices: 24533716--24533893 Score: 193
Period size: 46 Copynumber: 3.8 Consensus size: 46
24533706 TGTAACCCGC
* * *
24533716 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGTGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTTGCAT
* *
24533762 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG--T--TTGCAT
* * * **
24533812 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTTGCAT
24533855 CCATAAGTGAACTCAGG-CTCAACTCAACGAGTTCGGATG
1 CCATAAGTGAACTC-GGACTCAACTCAACGAGTTCGGATG
24533894 CCCAAATATC
Statistics
Matches: 108, Mismatches: 16, Indels: 16
0.77 0.11 0.11
Matches are distributed among these distances:
43 5 0.05
44 1 0.01
45 3 0.03
46 60 0.56
47 30 0.28
48 3 0.03
49 1 0.01
50 5 0.05
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTTGCAT
Found at i:24533836 original size:93 final size:93
Alignment explanation
Indices: 24533723--24533895 Score: 276
Period size: 93 Copynumber: 1.9 Consensus size: 93
24533713 CGCCCATAAG
* *** *
24533723 CGAACTCGGACTCAACTCAACGAGCTCGGGTGTTTGCATCCATGAGTGAACTC-GGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTTGCATCCATAAGTGAACTCAGG-CTCAACTC
24533787 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
24533816 CGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAGTGAACTCAGGCTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTTGCATCCATAAGTGAACTCAGGCTCAACTCA
24533881 ACGAGTTCGGATGCC
66 ACGAGTTCGGATGCC
24533896 CAAATATCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
93 71 0.97
94 2 0.03
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGACATTTGCATCCATAAGTGAACTCAGGCTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:24538678 original size:28 final size:26
Alignment explanation
Indices: 24538647--24538710 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
24538637 AATTACTTGA
**
24538647 ATACCCCTATGTATGGAAAATTACTGTT
1 ATACCCCTA-G-ATGGAAAATTACCATT
* *
24538675 ATACCCCTAGGTGTAAAATTACCATT
1 ATACCCCTAGATGGAAAATTACCATT
24538701 ATACCCCTAG
1 ATACCCCTAG
24538711 GGTTTCTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 22 0.69
27 1 0.03
28 9 0.28
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.31
Consensus pattern (26 bp):
ATACCCCTAGATGGAAAATTACCATT
Found at i:24538856 original size:27 final size:26
Alignment explanation
Indices: 24538818--24538920 Score: 118
Period size: 27 Copynumber: 3.8 Consensus size: 26
24538808 AAGTGTCCTA
24538818 GTGGCTAC-GCCACAATTATCTGATCTG
1 GTGGCT-CTGCCAC-ATTATCTGATCTG
*
24538845 GTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTCTGCCACAT-TATCTGATCTG
24538872 GTGGCTCTGCCACGATTATCTGTATCTG
1 GTGGCTCTGCCAC-ATTATCTG-ATCTG
* * *
24538900 GTGACTCTGTCGCATTATCTG
1 GTGGCTCTGCCACATTATCTG
24538921 TTTTGGTAGC
Statistics
Matches: 67, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
26 3 0.04
27 48 0.72
28 16 0.24
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.35
Consensus pattern (26 bp):
GTGGCTCTGCCACATTATCTGATCTG
Found at i:24538919 original size:54 final size:54
Alignment explanation
Indices: 24538818--24538927 Score: 143
Period size: 54 Copynumber: 2.0 Consensus size: 54
24538808 AAGTGTCCTA
*
24538818 GTGGCTACGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTACGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTTCTG
* * * *
24538872 GTGGCT-CTGCCACGATTATCTGTATCTGGTGACTCTGTCGCAT-TATCTGTTTTG
1 GTGGCTAC-GCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTTCTG
24538926 GT
1 GT
24538928 AGCCATGCTG
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
53 1 0.02
54 31 0.63
55 17 0.35
ACGTcount: A:0.15, C:0.24, G:0.24, T:0.37
Consensus pattern (54 bp):
GTGGCTACGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTTCTG
Found at i:24547449 original size:46 final size:44
Alignment explanation
Indices: 24547309--24547519 Score: 183
Period size: 46 Copynumber: 4.6 Consensus size: 44
24547299 ATATATGTGT
* * *
24547309 CGATGCCATATCCCAGACATGGTCTTACACTG-ACACATCTCATAGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGCACTCATCTTAT-GC
* * * *
24547355 CGATACATGTCCCAGACATGTCTTACACTG-ACTTAAGTCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGCAC-TCA-TCT-TATGC
*
24547401 CGATGCATGACCCAGACATGTCTTACACTAGCACTCATCTTAATGC
1 CGATGCATGTCCCAGACATGTCTTACACT-GCACTCATCTT-ATGC
* * * **
24547447 CGATGCCATGTTCCAGACATGGCCTTACACTGGCTCTCATAATATGTC
1 CGATG-CATGTCCCAGACAT-GTCTTACACT-GCACTCATCTTATG-C
24547495 CGATGCATGTCCCAGACATGTCTTA
1 CGATGCATGTCCCAGACATGTCTTA
24547520 TACTAGCTCA
Statistics
Matches: 136, Mismatches: 20, Indels: 18
0.78 0.11 0.10
Matches are distributed among these distances:
44 13 0.10
45 14 0.10
46 52 0.38
47 32 0.24
48 25 0.18
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.27
Consensus pattern (44 bp):
CGATGCATGTCCCAGACATGTCTTACACTGCACTCATCTTATGC
Found at i:24547504 original size:47 final size:47
Alignment explanation
Indices: 24547399--24547514 Score: 137
Period size: 47 Copynumber: 2.5 Consensus size: 47
24547389 AAGTCTCGAG
* * **
24547399 GCCGATGCATGACCCAGACAT-GTCTTACACTAGCACTCATCTTAAT
1 GCCGATGCATGTCCCAGACATGGCCTTACACTAGCACTCATAATAAT
* * *
24547445 GCCGATGCCATGTTCCAGACATGGCCTTACACTGGCTCTCATAAT-AT
1 GCCGATG-CATGTCCCAGACATGGCCTTACACTAGCACTCATAATAAT
24547492 GTCCGATGCATGTCCCAGACATG
1 G-CCGATGCATGTCCCAGACATG
24547515 TCTTATACTA
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
46 7 0.12
47 29 0.49
48 23 0.39
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACATGGCCTTACACTAGCACTCATAATAAT
Found at i:24550423 original size:11 final size:11
Alignment explanation
Indices: 24550407--24550432 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
24550397 TTTTTAAACA
24550407 AAATTTTCACG
1 AAATTTTCACG
24550418 AAATTTTCACG
1 AAATTTTCACG
24550429 AAAT
1 AAAT
24550433 CATTTCATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (11 bp):
AAATTTTCACG
Found at i:24563607 original size:13 final size:13
Alignment explanation
Indices: 24563589--24563630 Score: 57
Period size: 14 Copynumber: 3.1 Consensus size: 13
24563579 AAAGTAGTTT
24563589 TAAAAAGATAAAAG
1 TAAAAA-ATAAAAG
24563603 TAAAAACATAAAAG
1 TAAAAA-ATAAAAG
*
24563617 TAATAAATAAAAG
1 TAAAAAATAAAAG
24563630 T
1 T
24563631 CTTTAAACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
13 8 0.31
14 18 0.69
ACGTcount: A:0.69, C:0.02, G:0.10, T:0.19
Consensus pattern (13 bp):
TAAAAAATAAAAG
Found at i:24567403 original size:37 final size:37
Alignment explanation
Indices: 24567353--24567425 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
24567343 CGAGCTGTCT
**
24567353 TATCTGAGTTTCAAGCCCTTGGATCGATGCTTGTTAC
1 TATCTGAGTTTCAAGCCCTCAGATCGATGCTTGTTAC
24567390 TATCTGAGTTTCAAGCCCTCAGATCGATGCTTGTTA
1 TATCTGAGTTTCAAGCCCTCAGATCGATGCTTGTTA
24567426 TTCTTAAGTG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.37
Consensus pattern (37 bp):
TATCTGAGTTTCAAGCCCTCAGATCGATGCTTGTTAC
Found at i:24571737 original size:25 final size:25
Alignment explanation
Indices: 24571689--24571746 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
24571679 CATTAGGGAT
*
24571689 TACCGATTCT-CAGCTCGTATGAGCT
1 TACCGATT-TACAGCTCGTATGAGCA
*
24571714 TATCGATTTACAGCTCGTGA-GAGCA
1 TACCGATTTACAGCTCGT-ATGAGCA
24571739 TACCGATT
1 TACCGATT
24571747 CATGGCTCGT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
24 1 0.04
25 26 0.93
26 1 0.04
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (25 bp):
TACCGATTTACAGCTCGTATGAGCA
Found at i:24572171 original size:48 final size:48
Alignment explanation
Indices: 24572117--24572212 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
24572107 TCTGAAGAAA
24572117 TAGTTAGTTAAATTCTATATTATATGAACTTACTAAGCTTAAATGTTT
1 TAGTTAGTTAAATTCTATATTATATGAACTTACTAAGCTTAAATGTTT
*
24572165 TAGTTAGTTAAATTCTATGTTATATGAACTTACTAAGCTTAAATGTTT
1 TAGTTAGTTAAATTCTATATTATATGAACTTACTAAGCTTAAATGTTT
24572213 ACTCTGTGTA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.34, C:0.08, G:0.11, T:0.46
Consensus pattern (48 bp):
TAGTTAGTTAAATTCTATATTATATGAACTTACTAAGCTTAAATGTTT
Found at i:24574216 original size:43 final size:42
Alignment explanation
Indices: 24574115--24574230 Score: 117
Period size: 43 Copynumber: 2.7 Consensus size: 42
24574105 AATTTTCGAG
* * *
24574115 ATGTGATTACAAGTAAGACCATGTCTGGGACATTGGCATTGT
1 ATGTGATAACATGTAAGACCATGTCTGGGACATTGGCATAGT
* * **
24574157 AT-TGATATTACGTGTAAGACGATGTCTGGGACATTGGTGTAGAT
1 ATGTGATA--ACATGTAAGACCATGTCTGGGACATTGGCATAG-T
**
24574201 ATGTGATAACATGTAAGACCAAATCTGGGA
1 ATGTGATAACATGTAAGACCATGTCTGGGA
24574231 TATAGCATTG
Statistics
Matches: 59, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
41 4 0.07
42 2 0.03
43 45 0.76
44 3 0.05
45 5 0.08
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.30
Consensus pattern (42 bp):
ATGTGATAACATGTAAGACCATGTCTGGGACATTGGCATAGT
Found at i:24575792 original size:9 final size:9
Alignment explanation
Indices: 24575780--24575805 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
24575770 AACTGGGCCA
24575780 AAATGGGCT
1 AAATGGGCT
24575789 AAATGGGCT
1 AAATGGGCT
24575798 AAATGGGC
1 AAATGGGC
24575806 CCGATAGGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.35, T:0.19
Consensus pattern (9 bp):
AAATGGGCT
Found at i:24575930 original size:28 final size:29
Alignment explanation
Indices: 24575888--24575974 Score: 124
Period size: 28 Copynumber: 3.1 Consensus size: 29
24575878 CATGACTATA
24575888 AATGTGATTTGGGCCTAAT-GGCCATATG
1 AATGTGATTTGGGCCTAATGGGCCATATG
* * **
24575916 AATGTGATTTAGGCCTAATGGGCCACAAA
1 AATGTGATTTGGGCCTAATGGGCCATATG
24575945 AATGTGA-TTGGGCCTAATGGGCCATATG
1 AATGTGATTTGGGCCTAATGGGCCATATG
24575973 AA
1 AA
24575975 AGAGATTGGG
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
28 37 0.74
29 13 0.26
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.28
Consensus pattern (29 bp):
AATGTGATTTGGGCCTAATGGGCCATATG
Found at i:24575981 original size:28 final size:28
Alignment explanation
Indices: 24575891--24575999 Score: 105
Period size: 28 Copynumber: 3.9 Consensus size: 28
24575881 GACTATAAAT
*
24575891 GTGATTTGGGCCTAAT-GGCCATATGAAT
1 GTGA-TTGGGCCTAATGGGCCATATGAAA
* * *
24575919 GTGATTTAGGCCTAATGGGCCACA-AAAA
1 GTGA-TTGGGCCTAATGGGCCATATGAAA
24575947 TGTGATTGGGCCTAATGGGCCATATGAAA
1 -GTGATTGGGCCTAATGGGCCATATGAAA
* * * *
24575976 GAGATTGGGCTTAGTGGGTCATAT
1 GTGATTGGGCCTAATGGGCCATAT
24576000 ACAGGTACAT
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
28 54 0.81
29 13 0.19
ACGTcount: A:0.28, C:0.14, G:0.30, T:0.28
Consensus pattern (28 bp):
GTGATTGGGCCTAATGGGCCATATGAAA
Found at i:24584082 original size:47 final size:45
Alignment explanation
Indices: 24583889--24584104 Score: 190
Period size: 47 Copynumber: 4.7 Consensus size: 45
24583879 TACGCGTGCT
* *
24583889 GATGCATGTCCCAGACATGTCTTACACTAGCA-CAACTCT-TAGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCATC-ATTCTATGGCC
* * * *
24583933 GATGCGTGTCCTAGACACGTCTTACACTGGC-T-ATCTCTATCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCATCAT-TCTAT---GGCC
* * * *
24583980 GATGCATGTCCCAAAAATGTCTTACACTGGCACTCATCTCTAT-ACC
1 GATGCATGTCCCAGACATGTCTTACACTAGCA-TCAT-TCTATGGCC
* *
24584026 GATGCCATGTCCCAGACATAGTCTTACACTAGCTATCATTGTATGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGC-ATCATTCTATGGCC
*
24584074 GATGCATGTCCTAGACATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
24584105 CTTCGTCTAG
Statistics
Matches: 140, Mismatches: 19, Indels: 24
0.77 0.10 0.13
Matches are distributed among these distances:
42 1 0.01
43 3 0.02
44 28 0.20
46 19 0.14
47 58 0.41
48 21 0.15
49 2 0.01
50 8 0.06
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCATCATTCTATGGCC
Found at i:24584083 original size:94 final size:92
Alignment explanation
Indices: 24583837--24584191 Score: 280
Period size: 94 Copynumber: 3.8 Consensus size: 92
24583827 GGACATATTG
* * *
24583837 CCGATGCCATGTCTCAGACATGGTCTTACACTGACTCTCATATACGCGTGCTGATGCATGTCCCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTG-CTATCATATA--TG-GCTGATGCATGTCCCA
*
24583902 GACATGTCTTACACTAGCA--CAACTCT-TA
62 GACATGTCTTACACTAGCACTCATCTCTATA
* * * * *
24583930 GCCGATG-CGTGTCCTAGACA-CGTCTTACACTGGCTATC-TCTATCGAGGCCGATGCATGTCCC
1 -CCGATGCCATGTCCCAGACATGGTCTTACACT-GCTATCATATAT---GGCTGATGCATGTCCC
* * *
24583992 AAAAATGTCTTACACTGGCACTCATCTCTATA
61 AGACATGTCTTACACTAGCACTCATCTCTATA
* * *
24584024 CCGATGCCATGTCCCAGACATAGTCTTACACTAGCTATCATTGTATGGCTGATGCATGTCCTAGA
1 CCGATGCCATGTCCCAGACATGGTCTTACACT-GCTATCA-TATATGGCTGATGCATGTCCCAGA
* ** *
24584089 CATGTCTTACACTAGC-CTTCGTCTAGATG
64 CATGTCTTACACTAGCAC-TCATCTCTATA
* * * * * ** *
24584118 CCGATGCCATGCCCCAAACATGGTCTTATAGTGGCTCTC--ATA-GGCCAAAGCATGTCCCAGAC
1 CCGATGCCATGTCCCAGACATGGTCTTACACT-GCTATCATATATGGCTGATGCATGTCCCAGAC
24584180 ATGTCTTACACT
65 ATGTCTTACACT
24584192 GGCGCATAAA
Statistics
Matches: 211, Mismatches: 38, Indels: 28
0.76 0.14 0.10
Matches are distributed among these distances:
90 28 0.13
91 36 0.17
92 15 0.07
93 24 0.11
94 88 0.42
95 16 0.08
97 4 0.02
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (92 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGCTATCATATATGGCTGATGCATGTCCCAGACA
TGTCTTACACTAGCACTCATCTCTATA
Found at i:24589100 original size:40 final size:40
Alignment explanation
Indices: 24589046--24589123 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
24589036 AAGAGCCATA
* *
24589046 TATATAGCCAAATCTATTTCGATTCGCACACTAAGTGCTT
1 TATATAGCCAAATCTATCTCGATACGCACACTAAGTGCTT
** *
24589086 TATATAGCTGAATCTATCTCGATACGCACATTAAGTGC
1 TATATAGCCAAATCTATCTCGATACGCACACTAAGTGC
24589124 CAAACATAGT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (40 bp):
TATATAGCCAAATCTATCTCGATACGCACACTAAGTGCTT
Found at i:24592822 original size:21 final size:21
Alignment explanation
Indices: 24592798--24592839 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
24592788 GATTGGGCTA
* *
24592798 GCTCTTTTGATGACAGAAGGT
1 GCTCTCTTGATGACAAAAGGT
24592819 GCTCTCTTGATGACAAAAGGT
1 GCTCTCTTGATGACAAAAGGT
24592840 CTACAATGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (21 bp):
GCTCTCTTGATGACAAAAGGT
Found at i:24603513 original size:27 final size:27
Alignment explanation
Indices: 24603482--24603747 Score: 311
Period size: 27 Copynumber: 9.9 Consensus size: 27
24603472 TGTATGACCA
24603482 AAATA-CCCTCATAGGGTAAAATGACAT-
1 AAATACCCCT-ATAGGGTAAAATGAC-TG
**
24603509 AAATACCCCTATAGGGTAAAATGACCA
1 AAATACCCCTATAGGGTAAAATGACTG
* * *
24603536 AAATACCCCTGTAAGGTAAAATGACCG
1 AAATACCCCTATAGGGTAAAATGACTG
*
24603563 AAATACCCTTATAGGGTAAAATGACTG
1 AAATACCCCTATAGGGTAAAATGACTG
*
24603590 AAATACCCCTATAAGGTAAAATGACTG
1 AAATACCCCTATAGGGTAAAATGACTG
* *
24603617 AAATACCCCTACAGGGTAAAATGACTA
1 AAATACCCCTATAGGGTAAAATGACTG
* * * * *
24603644 AAATACCCCTTTAAGGTAAAGTGCCTA
1 AAATACCCCTATAGGGTAAAATGACTG
* * *
24603671 AAATACCCTTATACGATAAAATGACTG
1 AAATACCCCTATAGGGTAAAATGACTG
* *
24603698 TAATACCCCTATAAGGTAAAATGACTG
1 AAATACCCCTATAGGGTAAAATGACTG
* *
24603725 TAATACCCCTATAAGGTAAAATG
1 AAATACCCCTATAGGGTAAAATG
24603748 TTGATTTGCC
Statistics
Matches: 208, Mismatches: 29, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
27 204 0.98
28 4 0.02
ACGTcount: A:0.42, C:0.20, G:0.15, T:0.23
Consensus pattern (27 bp):
AAATACCCCTATAGGGTAAAATGACTG
Found at i:24603557 original size:54 final size:54
Alignment explanation
Indices: 24603475--24603747 Score: 343
Period size: 54 Copynumber: 5.1 Consensus size: 54
24603465 TGGGCCATGT
* *
24603475 ATGACCAAAATA-CCCTCATAGGGTAAAATGACAT-AAATACCCCTATAGGGTAAA
1 ATGACTAAAATACCCCT-ATAAGGTAAAATGAC-TGAAATACCCCTATAGGGTAAA
* * * *
24603529 ATGACCAAAATACCCCTGTAAGGTAAAATGACCGAAATACCCTTATAGGGTAAA
1 ATGACTAAAATACCCCTATAAGGTAAAATGACTGAAATACCCCTATAGGGTAAA
* *
24603583 ATGACTGAAATACCCCTATAAGGTAAAATGACTGAAATACCCCTACAGGGTAAA
1 ATGACTAAAATACCCCTATAAGGTAAAATGACTGAAATACCCCTATAGGGTAAA
* * * * * * *
24603637 ATGACTAAAATACCCCTTTAAGGTAAAGTGCCTAAAATACCCTTATACGATAAA
1 ATGACTAAAATACCCCTATAAGGTAAAATGACTGAAATACCCCTATAGGGTAAA
** * *
24603691 ATGACTGTAATACCCCTATAAGGTAAAATGACTGTAATACCCCTATAAGGTAAA
1 ATGACTAAAATACCCCTATAAGGTAAAATGACTGAAATACCCCTATAGGGTAAA
24603745 ATG
1 ATG
24603748 TTGATTTGCC
Statistics
Matches: 188, Mismatches: 29, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
54 184 0.98
55 4 0.02
ACGTcount: A:0.42, C:0.20, G:0.15, T:0.23
Consensus pattern (54 bp):
ATGACTAAAATACCCCTATAAGGTAAAATGACTGAAATACCCCTATAGGGTAAA
Found at i:24615200 original size:50 final size:50
Alignment explanation
Indices: 24615080--24615368 Score: 294
Period size: 50 Copynumber: 5.7 Consensus size: 50
24615070 ATTGTGAGAA
* * * *** *
24615080 CACATGTGTAGTACTATGTGTAGGCTACTATTTGTTTAAGATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAG--TTAGGT
* * * *
24615132 CACGTGTGTAGTATTAAGTGTAGGCTACTACGTGTACCAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
* * * * * *
24615182 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGACAACTTCA-AT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA-TAGTT-AGGT
* * * * * *
24615233 CACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTTATGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
*
24615283 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTT-GGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
* *
24615332 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTAC
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTAC
24615369 TACATAGCTT
Statistics
Matches: 196, Mismatches: 38, Indels: 9
0.81 0.16 0.04
Matches are distributed among these distances:
49 38 0.19
50 84 0.43
51 38 0.19
52 36 0.18
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
Found at i:24615260 original size:101 final size:101
Alignment explanation
Indices: 24615131--24615320 Score: 308
Period size: 101 Copynumber: 1.9 Consensus size: 101
24615121 TGGTTTTAGG
* * * *
24615131 TCACGTGTGTAGTATTAAGTGTAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTAC
24615196 TAAGTGCAGGCTACTATGCGTACCCGACAACTTCAA
66 TAAGTGCAGGCTACTATGCGTACCCGACAACTTCAA
* * *
24615232 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTTATGTCACATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTAC
*
24615297 TAAGTGCAGGCTACTATGTGTACC
66 TAAGTGCAGGCTACTATGCGTACC
24615321 AGATTGTTGG
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
101 81 1.00
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTAC
TAAGTGCAGGCTACTATGCGTACCCGACAACTTCAA
Found at i:24615594 original size:16 final size:15
Alignment explanation
Indices: 24615573--24615602 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
24615563 GAATGGAGTA
24615573 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
24615589 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
24615603 TAAAATAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:24621046 original size:49 final size:47
Alignment explanation
Indices: 24620931--24621053 Score: 149
Period size: 49 Copynumber: 2.6 Consensus size: 47
24620921 AATACCGATG
** * **
24620931 CCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGTCGATG
1 CCATGTCCCAGACATGGTCTTACACTAACTCATCCATCAAGCCGACA
*
24620978 CCATGTCCTAGACATGGTCTTACACTAACT-ATCCAAATCAAGGCCGACA
1 CCATGTCCCAGACATGGTCTTACACTAACTCATCC--ATCAA-GCCGACA
*
24621027 CCATGTCCCACACATGGTCTTACACTA
1 CCATGTCCCAGACATGGTCTTACACTA
24621054 TCTCTCACAT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
46 4 0.06
47 27 0.42
48 5 0.08
49 29 0.45
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (47 bp):
CCATGTCCCAGACATGGTCTTACACTAACTCATCCATCAAGCCGACA
Found at i:24621337 original size:46 final size:46
Alignment explanation
Indices: 24620925--24621334 Score: 213
Period size: 46 Copynumber: 8.7 Consensus size: 46
24620915 AGGTATAATA
*
24620925 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAA-GT-
1 CCGATG-CATGTCCCAGACATGGTCTTACACTAGCTC-T-CAT-AATGTG
* * *
24620973 -CGATGCCATGTCCTAGACATGGTCTTACACTAACTATCCA-AATCAAG-G
1 CCGATG-CATGTCCCAGACATGGTCTTACACTAGCTCT-CATAAT---GTG
** * * *
24621021 CCGACACCATGTCCCACACATGGTCTTACACTATCTCTCACATATCCGTG
1 CCGA-TGCATGTCCCAGACATGGTCTTACACTAGCTCTCATA-AT--GTG
* * * *
24621071 CTGATGCCATGTCCCAGAGATGGTCTTACACT-GACACCTC-TATACGTG
1 CCGATG-CATGTCCCAGACATGGTCTTACACTAG-C-TCTCATA-ATGTG
* * * * * **
24621119 TCGATGCGATGTCCCAGGCATGGTCTTACAC-CGAT-ACATCTTGTAG
1 CCGATGC-ATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGT-G
* * *
24621165 CCGATACATGTCCCAGACAT-GTCTTACACTAGCT-TACAT-CTCGAGG
1 CCGATGCATGTCCCAGACATGGTCTTACACTAGCTCT-CATAAT-G-TG
* *
24621211 CCGATGCATGTCCCAAACAT-GTCTTACACTAGCTCTCGTCTCAA--TG
1 CCGATGCATGTCCCAGACATGGTCTTACACTAGCTCTC--AT-AATGTG
* * *
24621257 CCGATCCCATGTCTCAGACATGGTCTTACACTGGCTCTCATAATGTGG
1 CCGAT-GCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGT-G
24621305 CCGATGCATGTCCCAGACAT-GTCTTACACT
1 CCGATGCATGTCCCAGACATGGTCTTACACT
24621335 GGCACACAAA
Statistics
Matches: 280, Mismatches: 51, Indels: 64
0.71 0.13 0.16
Matches are distributed among these distances:
44 11 0.04
45 20 0.07
46 66 0.24
47 60 0.21
48 55 0.20
49 32 0.11
50 33 0.12
51 3 0.01
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (46 bp):
CCGATGCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTG
Found at i:24623788 original size:47 final size:49
Alignment explanation
Indices: 24623719--24623943 Score: 249
Period size: 47 Copynumber: 4.8 Consensus size: 49
24623709 ATAATGTACT
* * *
24623719 GATGCCATATCCCAGACATGGTCTTACACTGGCTCAT-ATCTCCA-GTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAAGGCC
* * *
24623766 GATGCCATGTCCCAAACATGGTCTTACACTGACT-ATCATCTCGTA-GCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTC-AAGGCC
* *
24623814 GATG-CATGTCCCAGACAT-GTCTTACACT-GCTTA-CATCTCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAAGGCC
* * *
24623859 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTC-TCGTCTCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAAGGCC
*
24623905 GATGCCATGTCCCAGACATGGTCTTACAGTGGCTC-TCAT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAT
24623944 AATGTGGCCC
Statistics
Matches: 155, Mismatches: 15, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
44 1 0.01
45 39 0.25
46 29 0.19
47 63 0.41
48 23 0.15
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.28
Consensus pattern (49 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAAGGCC
Found at i:24623961 original size:47 final size:46
Alignment explanation
Indices: 24623719--24623985 Score: 215
Period size: 47 Copynumber: 5.7 Consensus size: 46
24623709 ATAATGTACT
* * *
24623719 GATGCCATATCCCAGACATGGTCTTACACTGG--CTCATATC-TCCAGTC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATATCGT--GGCC
* * * * *
24623766 GATGCCATGTCCCAAACATGGTCTTACACTGACTATCATCTCGTAGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATATCGTGGCC
* *
24623814 GATGCATGTCCCAGACATGTCTTACACT-GCT-TACATCTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATATCGTGGCC
* * * *
24623859 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAAT-GCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATATC-GTGGCC
*
24623905 GATGCCATGTCCCAGACATGGTCTTACAGTGGCTCTCATAAT-GTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-ATCGTGGCC
* * * *
24623953 CATGCATGTCCTAGACAAGTCTTACACTAGCTC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTC
24623986 ATACTCAAAT
Statistics
Matches: 186, Mismatches: 23, Indels: 23
0.80 0.10 0.10
Matches are distributed among these distances:
44 1 0.01
45 40 0.22
46 38 0.20
47 70 0.38
48 29 0.16
49 7 0.04
50 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATATCGTGGCC
Found at i:24623975 original size:94 final size:91
Alignment explanation
Indices: 24623811--24623985 Score: 237
Period size: 94 Copynumber: 1.9 Consensus size: 91
24623801 TCATCTCGTA
* *
24623811 GCCGATGCATGTCCCAGACATGTCTTACACTGCTTACATCTCGAGGCCGATGCATGTCCCAGACA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGCTTACATATCGAGGCCCATGCATGTCCCAGACA
*
24623876 TGTCTTACACTAGCTCTCGTCTCAAT
66 AGTCTTACACTAGCTCTCGTCTCAAT
* * *
24623902 GCCGATGCCATGTCCCAGACATGGTCTTACAGTGGCTCT-CATAAT-GTGGCCCATGCATGTCCT
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACT-GCT-TACAT-ATCGAGGCCCATGCATGTCCC
24623965 AGACAAGTCTTACACTAGCTC
61 AGACAAGTCTTACACTAGCTC
24623986 ATACTCAAAT
Statistics
Matches: 73, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
91 7 0.10
92 14 0.19
93 9 0.12
94 41 0.56
95 2 0.03
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (91 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGCTTACATATCGAGGCCCATGCATGTCCCAGACA
AGTCTTACACTAGCTCTCGTCTCAAT
Found at i:24623978 original size:139 final size:140
Alignment explanation
Indices: 24623719--24623980 Score: 343
Period size: 139 Copynumber: 1.9 Consensus size: 140
24623709 ATAATGTACT
* * *
24623719 GATGCCATATCCCAGACATGGTCTTACACTGGCTCATATCTCCAGTCGATGCCATGTCCCAAACA
1 GATGCCATATCCCAGACATGGTCTTACACTAGCTCATATCTCAAGCCGATGCCATGTCCCAAACA
* * *
24623784 TGGTCTTACACTGACTATCATCTCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGCTTACA
66 TGGTCTTACACTGACTATCATATCGTAGCCCATGCATGTCCCAGACAAGTCTTACACTGCTTACA
24623849 TCTCGAGGCC
131 TCTCGAGGCC
* * *
24623859 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTC-TCGTCTCAATGCCGATGCCATGTCCCAGA
1 GATGCCATATCCCAGACATGGTCTTACACTAGCTCAT-ATCTCAA-GCCGATGCCATGTCCCAAA
* * * * *
24623921 CATGGTCTTACAGTGGCTCTCATAAT-GTGGCCCATGCATGTCCTAGACAAGTCTTACACT
64 CATGGTCTTACACTGACTATCAT-ATCGTAGCCCATGCATGTCCCAGACAAGTCTTACACT
24623981 AGCTCATACT
Statistics
Matches: 105, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
137 1 0.01
138 19 0.18
139 80 0.76
140 5 0.05
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (140 bp):
GATGCCATATCCCAGACATGGTCTTACACTAGCTCATATCTCAAGCCGATGCCATGTCCCAAACA
TGGTCTTACACTGACTATCATATCGTAGCCCATGCATGTCCCAGACAAGTCTTACACTGCTTACA
TCTCGAGGCC
Found at i:24633911 original size:40 final size:40
Alignment explanation
Indices: 24633827--24634010 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
24633817 TTGAATGCTG
* * * *
24633827 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
24633866 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
24633907 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
24633947 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
24633987 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
24634011 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:24633964 original size:80 final size:81
Alignment explanation
Indices: 24633827--24634007 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
24633817 TTGAATGCTG
* * *
24633827 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
24633891 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
24633907 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
24633968 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
24633987 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
24634008 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:24634031 original size:39 final size:38
Alignment explanation
Indices: 24633908--24634057 Score: 131
Period size: 40 Copynumber: 3.8 Consensus size: 38
24633898 GTTATTAATT
* ** * *
24633908 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACTAA-A
** *
24633948 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-AAA
*
24633987 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTA-AA
* *
24634027 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
24634058 GAGCTAATCC
Statistics
Matches: 93, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
39 30 0.32
40 63 0.68
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAAA
Found at i:24641740 original size:40 final size:40
Alignment explanation
Indices: 24641656--24641839 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
24641646 TTGAATGCTG
* * * *
24641656 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
24641695 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
24641736 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
24641776 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
24641816 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
24641840 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:24641793 original size:80 final size:81
Alignment explanation
Indices: 24641656--24641836 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
24641646 TTGAATGCTG
* * *
24641656 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
24641720 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
24641736 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
24641797 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
24641816 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
24641837 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:24641860 original size:39 final size:38
Alignment explanation
Indices: 24641737--24641886 Score: 131
Period size: 40 Copynumber: 3.8 Consensus size: 38
24641727 GTTATTAATT
* ** * *
24641737 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACTAA-A
** *
24641777 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-AAA
*
24641816 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTA-AA
* *
24641856 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
24641887 GAGCTAATCC
Statistics
Matches: 93, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
39 30 0.32
40 63 0.68
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAAA
Found at i:24650934 original size:40 final size:40
Alignment explanation
Indices: 24650867--24650994 Score: 166
Period size: 39 Copynumber: 3.4 Consensus size: 40
24650857 GGACTAAGAT
**
24650867 CCGAAGGCATT-GTGCTAGTTATTATAACCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTC
24650906 CCGAAGGCATTCGTGCGGGTTATTATAACC-GG-TAAGT-
1 CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTC
*
24650943 CGGAA-G---TCGTGC-GGTTATTATAACCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTC
24650978 CCGAAGGCATTCGTGCG
1 CCGAAGGCATTCGTGCG
24650995 TTGTTACATC
Statistics
Matches: 76, Mismatches: 4, Indels: 17
0.78 0.04 0.18
Matches are distributed among these distances:
32 13 0.17
33 8 0.11
34 5 0.07
35 4 0.05
36 2 0.03
37 4 0.05
38 5 0.07
39 19 0.25
40 16 0.21
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTC
Found at i:24659045 original size:40 final size:40
Alignment explanation
Indices: 24658983--24659163 Score: 292
Period size: 40 Copynumber: 4.5 Consensus size: 40
24658973 AGACTAAGAT
**
24658983 CCGAAGGCAATT-GTGCTAGTTATTATAACCGGGTTAAGTC
1 CCGAAGGC-ATTCGTGCGGGTTATTATAACCGGGTTAAGTC
24659023 CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTC
*
24659063 CCGAAGTCATTCGTGCGGGTTATTATAACCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTC
* *
24659103 CGGAAGGTATTCGTGCGGGTTATTATAACCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTC
*
24659143 CCGAAGGCATTCGTGCTGGTT
1 CCGAAGGCATTCGTGCGGGTT
24659164 GTTACATCCG
Statistics
Matches: 131, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
39 3 0.02
40 128 0.98
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTC
Found at i:24661985 original size:18 final size:18
Alignment explanation
Indices: 24661962--24662003 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 18
24661952 TGGGTAGGCT
24661962 GTGTGGTCAC-ACACGCTC
1 GTGTGG-CACGACACGCTC
24661980 GTGTGGCACGGGACACGCTC
1 GTGTGGCAC--GACACGCTC
24662000 GTGT
1 GTGT
24662004 CCTCAGCCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 3 0.14
18 6 0.29
20 12 0.57
ACGTcount: A:0.14, C:0.29, G:0.36, T:0.21
Consensus pattern (18 bp):
GTGTGGCACGACACGCTC
Found at i:24671407 original size:43 final size:42
Alignment explanation
Indices: 24671320--24671410 Score: 103
Period size: 43 Copynumber: 2.1 Consensus size: 42
24671310 AACTCATACA
* * * ** *
24671320 ATGCCATATCCCAGATATGGTCTTACATGTTATCACATATCG
1 ATGCCATATCCCAGACAGGGTCTTACACGAAATCACATAACG
24671362 ATGCCACTATCCCAGACAGGGTCTTACACGAAATCGA-ATAACG
1 ATGCCA-TATCCCAGACAGGGTCTTACACGAAATC-ACATAACG
24671405 ATGCCA
1 ATGCCA
24671411 ATGTCCCATA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
42 6 0.15
43 34 0.83
44 1 0.02
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.25
Consensus pattern (42 bp):
ATGCCATATCCCAGACAGGGTCTTACACGAAATCACATAACG
Found at i:24675320 original size:28 final size:28
Alignment explanation
Indices: 24675288--24675371 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
24675278 AACTTTGATC
24675288 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
24675316 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
24675338 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
24675366 ACGTGT
1 ACGTGT
24675372 ACCAGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:24675361 original size:50 final size:49
Alignment explanation
Indices: 24675184--24675428 Score: 339
Period size: 49 Copynumber: 4.9 Consensus size: 49
24675174 TCTATTGTGA
24675184 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACC-GAATAATT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG-ATAATT
* * * * *
24675233 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA--TT
* * **
24675284 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
24675333 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
24675383 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACTAGATA
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
24675429 GCCTTGTCTA
Statistics
Matches: 172, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
49 86 0.50
50 46 0.27
51 40 0.23
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:24675418 original size:26 final size:26
Alignment explanation
Indices: 24675341--24675421 Score: 71
Period size: 26 Copynumber: 3.2 Consensus size: 26
24675331 TTAGGTCACG
24675341 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
* ** * * *
24675367 CGTGTACCAGATAATTG--GTC-AC-A
1 TGTGTAGTA-CTAAGTGCAGGCTACTA
24675390 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
24675416 TGTGTA
1 TGTGTA
24675422 CTAGATAGCC
Statistics
Matches: 38, Mismatches: 12, Indels: 10
0.63 0.20 0.17
Matches are distributed among these distances:
22 5 0.13
23 7 0.18
24 4 0.11
25 4 0.11
26 13 0.34
27 5 0.13
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (26 bp):
TGTGTAGTACTAAGTGCAGGCTACTA
Found at i:24678487 original size:15 final size:15
Alignment explanation
Indices: 24678469--24678501 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
24678459 TGGATTCTCG
24678469 TATCATGGATTTCTT
1 TATCATGGATTTCTT
*
24678484 TATCTTGGATTTCTT
1 TATCATGGATTTCTT
24678499 TAT
1 TAT
24678502 TCTGGGCTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.12, G:0.12, T:0.58
Consensus pattern (15 bp):
TATCATGGATTTCTT
Found at i:24681318 original size:49 final size:49
Alignment explanation
Indices: 24681246--24681470 Score: 238
Period size: 49 Copynumber: 4.5 Consensus size: 49
24681236 TGAGGCCACG
* *
24681246 TGTGTAGTACTAAGTGCCGGCTACTACGTGTAGCGGATAATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CGGATAATTAGGTCACA
* * * * * *
24681295 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-GGATAA-TTAGGTCACA
* * ** **
24681346 TGTGTAGTAATAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CGGATAATTAGGTCACA
* **
24681396 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATT-GGTCGTA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CGGATAATTAGGTCACA
24681445 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
24681471 TGCATACTAG
Statistics
Matches: 148, Mismatches: 24, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
48 1 0.01
49 65 0.44
50 45 0.30
51 36 0.24
52 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACGGATAATTAGGTCACA
Found at i:24684910 original size:39 final size:40
Alignment explanation
Indices: 24684833--24684979 Score: 120
Period size: 40 Copynumber: 3.7 Consensus size: 40
24684823 TAGCTCCTCG
* * *
24684833 TTCAAGTGCCTTCGGGACATAGCCCGG-TTATAGTAACTCA
1 TTCAA-TGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
* *
24684873 TTCAATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCG
1 TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** * * * *
24684912 CACGAATGCCTTCGGGACTTAACCCGGAAT-TAGTATCTCG
1 TTC-AATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** *
24684952 CACAAAGGCCTTCGGGACTTAACCCGGA
1 TTC-AATGCCTTCGGGACTTAACCCGGA
24684980 ATTAATAACT
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
39 27 0.29
40 65 0.71
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
Found at i:24684990 original size:80 final size:80
Alignment explanation
Indices: 24684879--24685059 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 80
24684869 CTCATTCAAT
* * *
24684879 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
24684942 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
24684958 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
24685022 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
24685039 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
24685060 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 7 0.08
80 71 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:24685019 original size:40 final size:40
Alignment explanation
Indices: 24684876--24685059 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
24684866 TAACTCATTC
* *
24684876 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
24684916 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
24684956 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
24684996 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
24685037 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
24685060 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:24692749 original size:39 final size:40
Alignment explanation
Indices: 24692672--24692818 Score: 120
Period size: 40 Copynumber: 3.7 Consensus size: 40
24692662 TAGCTCCTCG
* * *
24692672 TTCAAGTGCCTTCGGGACATAGCCCGG-TTATAGTAACTCA
1 TTCAA-TGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
* *
24692712 TTCAATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCG
1 TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** * * * *
24692751 CACGAATGCCTTCGGGACTTAACCCGGAAT-TAGTATCTCG
1 TTC-AATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** *
24692791 CACAAAGGCCTTCGGGACTTAACCCGGA
1 TTC-AATGCCTTCGGGACTTAACCCGGA
24692819 ATTAATAACT
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
39 27 0.29
40 65 0.71
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
Found at i:24692829 original size:80 final size:80
Alignment explanation
Indices: 24692718--24692898 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 80
24692708 CTCATTCAAT
* * *
24692718 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
24692781 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
24692797 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
24692861 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
24692878 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
24692899 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 7 0.08
80 71 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:24692858 original size:40 final size:40
Alignment explanation
Indices: 24692715--24692898 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
24692705 TAACTCATTC
* *
24692715 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
24692755 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
24692795 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
24692835 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
24692876 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
24692899 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Done.