Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 149 of 170
Found at i:44538581 original size:20 final size:19
Alignment explanation
Indices: 44538543--44538581 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
44538533 AGCATATGCG
*
44538543 AATTTGTATTTTGATAATT
1 AATTTGTATTTTGAAAATT
*
44538562 AATTTTTATGTTTGAAAATT
1 AATTTGTAT-TTTGAAAATT
44538582 TTATTTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.56
Consensus pattern (19 bp):
AATTTGTATTTTGAAAATT
Found at i:44544653 original size:25 final size:25
Alignment explanation
Indices: 44544623--44544677 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
44544613 AGTGGAAGCA
* *
44544623 GTGGCAGTATATCTGCAAATCAGTG
1 GTGGCAATATATCTACAAATCAGTG
* *
44544648 GTGGCAATATATCTATAATTCAGTG
1 GTGGCAATATATCTACAAATCAGTG
44544673 GTGGC
1 GTGGC
44544678 TTTCCACAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (25 bp):
GTGGCAATATATCTACAAATCAGTG
Found at i:44547158 original size:77 final size:75
Alignment explanation
Indices: 44547067--44547315 Score: 321
Period size: 77 Copynumber: 3.3 Consensus size: 75
44547057 GTATATAAAA
* *
44547067 GGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCG-TGATCCACCATATCTT
1 GGGGTTGCTATGTGCTGATTCCCCG--TTATGGGTGGTGCTAAGTGCGAT-ATCCACCATATCTT
44547131 TGAAATGTGAAAG
63 TGAAATGTGAAAG
*
44547144 GGGGTTGCTATGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTTT
1 GGGGTTGCTATGTGCTGATTCCCC-GTT-ATGGGTGGTGCTAAGTGCGATATCCACCATATCTTT
44547209 GAAATGTGAAAG
64 GAAATGTGAAAG
* *** *
44547221 GGGGTTGCTATGTGCTGATTCCCCCG--A-GGG-GTTGCTAAGTGCGATATCCATTGTATATTTG
1 GGGGTTGCTATGTGCTGATT-CCCCGTTATGGGTGGTGCTAAGTGCGATATCCACCATATCTTTG
*
44547282 AAATG-AAAAG
65 AAATGTGAAAG
44547292 GGGGTTGCTATGTGCTGATTCCCC
1 GGGGTTGCTATGTGCTGATTCCCC
44547316 CGAGGGGTTG
Statistics
Matches: 158, Mismatches: 10, Indels: 15
0.86 0.05 0.08
Matches are distributed among these distances:
70 4 0.03
71 24 0.15
72 31 0.20
73 2 0.01
74 1 0.01
76 2 0.01
77 88 0.56
78 6 0.04
ACGTcount: A:0.20, C:0.18, G:0.30, T:0.33
Consensus pattern (75 bp):
GGGGTTGCTATGTGCTGATTCCCCGTTATGGGTGGTGCTAAGTGCGATATCCACCATATCTTTGA
AATGTGAAAG
Found at i:44551143 original size:84 final size:84
Alignment explanation
Indices: 44550997--44551152 Score: 224
Period size: 84 Copynumber: 1.9 Consensus size: 84
44550987 CTCCAAAACA
* * * * * *
44550997 ATCATCTCAAGTTCCTTCTTGGTTTCGAATGTCGCCACCTCGAAACGTCGCGTCGTCGTCATCAT
1 ATCATCTCAAGTTCCTTCTTGGTTACAAATGCCGCCACCTCCAAACGTCGCGTCATCATCATCAT
*
44551062 CTTCATCGTCGTCGTCGTC
66 CATCATCGTCGTCGTCGTC
*
44551081 ATCATCTCAAGTTCCTTCTTGGTTACAAATGCCTCCACCTCCAAACGTCG-GATCATCATCATCA
1 ATCATCTCAAGTTCCTTCTTGGTTACAAATGCCGCCACCTCCAAACGTCGCG-TCATCATCATCA
44551145 TCATCATC
65 TCATCATC
44551153 TCAAGTTCCT
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
83 1 0.02
84 62 0.98
ACGTcount: A:0.21, C:0.33, G:0.15, T:0.32
Consensus pattern (84 bp):
ATCATCTCAAGTTCCTTCTTGGTTACAAATGCCGCCACCTCCAAACGTCGCGTCATCATCATCAT
CATCATCGTCGTCGTCGTC
Found at i:44551181 original size:66 final size:66
Alignment explanation
Indices: 44551079--44551229 Score: 259
Period size: 66 Copynumber: 2.3 Consensus size: 66
44551069 GTCGTCGTCG
*
44551079 TCATCATCTCAAGTTCCTTCTTGGTTACAAATGCCTCCACCTCCAAACGTCGGATCATCATCATC
1 TCATCATCTCAAGTTCCTTCTTGGTTACAAACGCCTCCACCTCCAAACGTCGGATCATCATCATC
44551144 A
66 A
* *
44551145 TCATCATCTCAAGTTCCTTCTTGTTTACGAACGCCTCCACCTCCAAACGTCGGATCATCATCATC
1 TCATCATCTCAAGTTCCTTCTTGGTTACAAACGCCTCCACCTCCAAACGTCGGATCATCATCATC
44551210 A
66 A
44551211 TCATC-TCCTCAAGTTCCTT
1 TCATCAT-CTCAAGTTCCTT
44551230 TTTCGCAGCC
Statistics
Matches: 81, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
65 1 0.01
66 80 0.99
ACGTcount: A:0.24, C:0.34, G:0.10, T:0.32
Consensus pattern (66 bp):
TCATCATCTCAAGTTCCTTCTTGGTTACAAACGCCTCCACCTCCAAACGTCGGATCATCATCATC
A
Found at i:44554535 original size:15 final size:15
Alignment explanation
Indices: 44554524--44554556 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
44554514 CTACGGCTTT
44554524 CTTCTCCTCGGCTGG
1 CTTCTCCTCGGCTGG
*
44554539 CTTCTTCTCGGCTGG
1 CTTCTCCTCGGCTGG
44554554 CTT
1 CTT
44554557 TTTTTCAGCT
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:0.00, C:0.36, G:0.24, T:0.39
Consensus pattern (15 bp):
CTTCTCCTCGGCTGG
Found at i:44557320 original size:99 final size:92
Alignment explanation
Indices: 44557156--44557348 Score: 296
Period size: 99 Copynumber: 2.0 Consensus size: 92
44557146 GAGTGTTAGC
*
44557156 TTAATGCTACACTTACTTGGGACATGTTAGACTCTATGAGTTATTAGTGTAATAGAGATCTATGT
1 TTAATGCTACACTTACTTGGGACATGTTAGACTCTATGAGTCATTAGTGTAATAGAGATCTATGT
44557221 ATCCGATGTGCTGTATTTTTATACATA
66 ATCCGATGTGCTGTATTTTTATACATA
* *
44557248 TTAATGCTACACTTTTACTTTGGACATGTTAGACTCTATGATATGAGTCATTAGTGTAATAGTGA
1 TTAATGCTACAC--TTACTTGGGACATGTTAGACTC-----TATGAGTCATTAGTGTAATAGAGA
44557313 TCTATGTATCCGATGTGCTGTATTTTTATACATA
59 TCTATGTATCCGATGTGCTGTATTTTTATACATA
44557347 TT
1 TT
44557349 TCATAATCAC
Statistics
Matches: 91, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
92 12 0.13
94 21 0.23
99 58 0.64
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.42
Consensus pattern (92 bp):
TTAATGCTACACTTACTTGGGACATGTTAGACTCTATGAGTCATTAGTGTAATAGAGATCTATGT
ATCCGATGTGCTGTATTTTTATACATA
Found at i:44557339 original size:252 final size:250
Alignment explanation
Indices: 44556849--44557351 Score: 956
Period size: 248 Copynumber: 2.0 Consensus size: 250
44556839 GAGGGATAAG
44556849 AGGATGTAGAGCATGAATCCATTCATTGAGATATGTTGGTGTGTTTAGAGAGTGTTAGCTTAATG
1 AGGATGTAGAGCATGAATCCATTCATTGAGATATGTTGGTGTGTTTAGAGAGTGTTAGCTTAATG
44556914 CTACACTTACTTGGACATGTTACTCTATGAGTTATTAGTGTAATAGAGATCTATGTATCCGATGT
66 CTACACTTACTTGGACATGTTACTCTATGAGTTATTAGTGTAATAGAGATCTATGTATCCGATGT
44556979 GCTGTATTTTTATACATATTAATGCTACACTTTACTTTGGACATGTTAGACTCTATGATATGAGT
131 GCTGTATTTTTATACATATTAATGCTACACTTTACTTTGGACATGTTAGACTCTATGATATGAGT
44557044 CATTAGTGTAATAGTGATCTATGTATCCGATGTGCTGTA-TTTT-TACATATTTC
196 CATTAGTGTAATAGTGATCTATGTATCCGATGTGCTGTATTTTTATACATATTTC
44557097 AGGATGTAGAGCATGAATCCATTCATTGAGATATGTTGGTGTGTTTAGAGAGTGTTAGCTTAATG
1 AGGATGTAGAGCATGAATCCATTCATTGAGATATGTTGGTGTGTTTAGAGAGTGTTAGCTTAATG
44557162 CTACACTTACTTGGGACATGTTAGACTCTATGAGTTATTAGTGTAATAGAGATCTATGTATCCGA
66 CTACACTTACTT-GGACATGTT--ACTCTATGAGTTATTAGTGTAATAGAGATCTATGTATCCGA
44557227 TGTGCTGTATTTTTATACATATTAATGCTACACTTTTACTTTGGACATGTTAGACTCTATGATAT
128 TGTGCTGTATTTTTATACATATTAATGCTACAC-TTTACTTTGGACATGTTAGACTCTATGATAT
44557292 GAGTCATTAGTGTAATAGTGATCTATGTATCCGATGTGCTGTATTTTTATACATATTTC
192 GAGTCATTAGTGTAATAGTGATCTATGTATCCGATGTGCTGTATTTTTATACATATTTC
44557351 A
1 A
44557352 TAATCACAAG
Statistics
Matches: 249, Mismatches: 0, Indels: 6
0.98 0.00 0.02
Matches are distributed among these distances:
248 77 0.31
249 9 0.04
251 74 0.30
252 74 0.30
253 4 0.02
254 11 0.04
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.40
Consensus pattern (250 bp):
AGGATGTAGAGCATGAATCCATTCATTGAGATATGTTGGTGTGTTTAGAGAGTGTTAGCTTAATG
CTACACTTACTTGGACATGTTACTCTATGAGTTATTAGTGTAATAGAGATCTATGTATCCGATGT
GCTGTATTTTTATACATATTAATGCTACACTTTACTTTGGACATGTTAGACTCTATGATATGAGT
CATTAGTGTAATAGTGATCTATGTATCCGATGTGCTGTATTTTTATACATATTTC
Found at i:44561017 original size:57 final size:57
Alignment explanation
Indices: 44560924--44561037 Score: 219
Period size: 57 Copynumber: 2.0 Consensus size: 57
44560914 ATCGGGACAA
*
44560924 TTTCTTGTTCTTCATGAAACCCACCAAAAGAAAGAATATTGGTATCCTCCTTACCAT
1 TTTCGTGTTCTTCATGAAACCCACCAAAAGAAAGAATATTGGTATCCTCCTTACCAT
44560981 TTTCGTGTTCTTCATGAAACCCACCAAAAGAAAGAATATTGGTATCCTCCTTACCAT
1 TTTCGTGTTCTTCATGAAACCCACCAAAAGAAAGAATATTGGTATCCTCCTTACCAT
44561038 AACCGTTCCC
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.32, C:0.25, G:0.11, T:0.32
Consensus pattern (57 bp):
TTTCGTGTTCTTCATGAAACCCACCAAAAGAAAGAATATTGGTATCCTCCTTACCAT
Found at i:44564885 original size:21 final size:21
Alignment explanation
Indices: 44564859--44564914 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
44564849 AACAACGGTG
*
44564859 GCGGTGAGATTAGTTACTGCA
1 GCGGTGAGATTAGATACTGCA
*
44564880 GCGGTGAGATTAGATACTGTA
1 GCGGTGAGATTAGATACTGCA
44564901 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
44564915 AACAATGGTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.27, C:0.11, G:0.36, T:0.27
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGCA
Found at i:44569736 original size:25 final size:25
Alignment explanation
Indices: 44569708--44569759 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
44569698 TTCATTTATA
44569708 TTTCACCAGTCCCGAT-TGTTTAAGT
1 TTTCACCAGTCCCG-TCTGTTTAAGT
*
44569733 TTTCACTAGTCCCGTCTGTTTAAGT
1 TTTCACCAGTCCCGTCTGTTTAAGT
44569758 TT
1 TT
44569760 ACTGATTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 1 0.04
25 24 0.96
ACGTcount: A:0.17, C:0.23, G:0.15, T:0.44
Consensus pattern (25 bp):
TTTCACCAGTCCCGTCTGTTTAAGT
Found at i:44570989 original size:120 final size:120
Alignment explanation
Indices: 44570824--44571405 Score: 975
Period size: 120 Copynumber: 4.8 Consensus size: 120
44570814 GCCAATTGCT
*
44570824 TATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATA
1 TATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATA
* * *
44570889 TTTTTATTAAATTATATTTAATATTAATTATTTTAAATTATATTATATAGTATTA
66 TTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTA
*
44570944 TATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATA
1 TATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATA
44571009 TTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTA
66 TTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTA
* *
44571064 TATATTATGATTTTAGAAAATTCATATAAGAATATATAATATTAAGAATTTTATTAAATTATATA
1 TATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATA
44571129 TTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTA
66 TTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTA
* * *
44571184 TATATTATGATTTTAGAAAATTCATATAAGAATATATAATATTAAGAATTTTATTAAATCATATA
1 TATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATA
* * * * *
44571249 TTTTAATTAAAATATATTTAATATTAATTATTTTAAATTATATTTTATAGTATCA
66 TTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTA
* * * *
44571304 TATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAGTAAATTATATA
1 TATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATA
* *
44571369 TTTTAATTAAAATATATTTAATAATAATTATGTTAAA
66 TTTTTATTAAATTATATTTAATAATAATTATGTTAAA
44571406 ATATGATTAA
Statistics
Matches: 441, Mismatches: 21, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
120 441 1.00
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.50
Consensus pattern (120 bp):
TATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATA
TTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTA
Found at i:44571604 original size:44 final size:45
Alignment explanation
Indices: 44571541--44571638 Score: 137
Period size: 45 Copynumber: 2.2 Consensus size: 45
44571531 CTATTACACC
*
44571541 TCCATTCCATTCAACCAAACACA-AGA-ATACTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACA-ATAGATATACTATTACGCCTCTAT
* * *
44571585 TCCATTACATTCAACCAAACAATTGATTTGCTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACAATAGATATACTATTACGCCTCTAT
44571630 TCCATTACA
1 TCCATTACA
44571639 CCTCTATTCT
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
43 1 0.02
44 22 0.46
45 25 0.52
ACGTcount: A:0.34, C:0.30, G:0.05, T:0.32
Consensus pattern (45 bp):
TCCATTACATTCAACCAAACAATAGATATACTATTACGCCTCTAT
Found at i:44571642 original size:16 final size:16
Alignment explanation
Indices: 44571617--44571647 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44571607 TTGATTTGCT
*
44571617 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
44571633 ATTACACCTCTATTC
1 ATTACACCTCTATTC
44571648 TAATACAGCG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.35, G:0.03, T:0.39
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:44572599 original size:30 final size:30
Alignment explanation
Indices: 44572527--44572883 Score: 575
Period size: 30 Copynumber: 11.9 Consensus size: 30
44572517 GAATATAAAC
44572527 TATAT-TTTTTATTTTTAAAATACACTACA
1 TATATATTTTTATTTTTAAAATACACTACA
*
44572556 TATATATTTTTTATTTTTAAAATATACTACA
1 TATATA-TTTTTATTTTTAAAATACACTACA
44572587 TATATATTTTTATTTTTAAAATACACTACA
1 TATATATTTTTATTTTTAAAATACACTACA
*
44572617 TAT-TTTTTTTATTTTTAAAATACACTACA
1 TATATATTTTTATTTTTAAAATACACTACA
44572646 TATATATTTTTTTATTTTTAAAATACACTACA
1 TATATA--TTTTTATTTTTAAAATACACTACA
44572678 TATA-ATTTTTTATTTTTAAAATACACTACA
1 TATATA-TTTTTATTTTTAAAATACACTACA
*
44572708 TATATTTTTTTATTTTTAAAATACACTACA
1 TATATATTTTTATTTTTAAAATACACTACA
44572738 TATAT-TTTTTATTTTTAAAATACACTACA
1 TATATATTTTTATTTTTAAAATACACTACA
44572767 TAT-T-TTTTTATTTTTAAAATACACTACA
1 TATATATTTTTATTTTTAAAATACACTACA
*
44572795 CATAT-TTTTTAATTTTTAAAATACACTACA
1 TATATATTTTT-ATTTTTAAAATACACTACA
44572825 TATATATTTTTATTTTTAAAATACACTACA
1 TATATATTTTTATTTTTAAAATACACTACA
44572855 TATATATTTTTTATTTTTAAAATACACTA
1 TATATA-TTTTTATTTTTAAAATACACTA
44572884 ATACAGTGCA
Statistics
Matches: 311, Mismatches: 7, Indels: 18
0.93 0.02 0.05
Matches are distributed among these distances:
28 27 0.09
29 66 0.21
30 133 0.43
31 57 0.18
32 28 0.09
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.52
Consensus pattern (30 bp):
TATATATTTTTATTTTTAAAATACACTACA
Found at i:44572706 original size:121 final size:118
Alignment explanation
Indices: 44572525--44572883 Score: 598
Period size: 121 Copynumber: 3.0 Consensus size: 118
44572515 CCGAATATAA
*
44572525 ACTATA-TTTTTTATTTTTAAAATACACTACATATATATTTTTTATTTTTAAAATATACTACATA
1 ACTATATTTTTTTATTTTTAAAATACACTACATATA-ATTTTTTATTTTTAAAATACACTACATA
44572589 TATATTTTTATTTTTAAAATACACTACATATTTTTTTTATTTTTAAAATACACT
65 TATATTTTTATTTTTAAAATACACTACATATTTTTTTTATTTTTAAAATACACT
44572643 ACATATATATTTTTTTATTTTTAAAATACACTACATATAATTTTTTATTTTTAAAATACACTACA
1 AC---TATATTTTTTTATTTTTAAAATACACTACATATAATTTTTTATTTTTAAAATACACTACA
* *
44572708 TATATTTTTTTATTTTTAAAATACACTACATATATTTTTTATTTTTAAAATACACT
63 TATATATTTTTATTTTTAAAATACACTACATATTTTTTTTATTTTTAAAATACACT
*
44572764 AC-ATATTTTTTTATTTTTAAAATACACTACACAT-ATTTTTTAATTTTTAAAATACACTACATA
1 ACTATATTTTTTTATTTTTAAAATACACTACATATAATTTTTT-ATTTTTAAAATACACTACATA
44572827 TATATTTTTATTTTTAAAATACACTACATATATATTTTTTATTTTTAAAATACACT
65 TATATTTTTATTTTTAAAATACACTACATAT-T-TTTTTTATTTTTAAAATACACT
44572883 A
1 A
44572884 ATACAGTGCA
Statistics
Matches: 228, Mismatches: 6, Indels: 13
0.92 0.02 0.05
Matches are distributed among these distances:
116 7 0.03
117 82 0.36
118 2 0.01
119 23 0.10
121 85 0.37
122 29 0.13
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.52
Consensus pattern (118 bp):
ACTATATTTTTTTATTTTTAAAATACACTACATATAATTTTTTATTTTTAAAATACACTACATAT
ATATTTTTATTTTTAAAATACACTACATATTTTTTTTATTTTTAAAATACACT
Found at i:44575390 original size:21 final size:21
Alignment explanation
Indices: 44575366--44575438 Score: 101
Period size: 21 Copynumber: 3.4 Consensus size: 21
44575356 CAAAAAATAG
* *
44575366 GGGAGAAACCAGCAAAAACGA
1 GGGAGAAACCAGCAAGAACAA
* *
44575387 GGGACAAACCAACAAGAACAA
1 GGGAGAAACCAGCAAGAACAA
44575408 GGGAGAAACCAGCAAGAACAA
1 GGGAGAAACCAGCAAGAACAA
44575429 GGGGAGAAAC
1 -GGGAGAAAC
44575439 TGCTGTTTTG
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
21 36 0.80
22 9 0.20
ACGTcount: A:0.52, C:0.19, G:0.29, T:0.00
Consensus pattern (21 bp):
GGGAGAAACCAGCAAGAACAA
Found at i:44579223 original size:34 final size:34
Alignment explanation
Indices: 44579185--44579251 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
44579175 AACATAGTTG
*
44579185 CAACTTAACAAGTAAATGCCTTTAAAAATAATAA
1 CAACTTAACAAGCAAATGCCTTTAAAAATAATAA
*
44579219 CAACTTAGCAAGCAAATGCCTTTAAAAATAATA
1 CAACTTAACAAGCAAATGCCTTTAAAAATAATA
44579252 GTAACAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.51, C:0.16, G:0.07, T:0.25
Consensus pattern (34 bp):
CAACTTAACAAGCAAATGCCTTTAAAAATAATAA
Found at i:44579276 original size:14 final size:14
Alignment explanation
Indices: 44579243--44579269 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
44579233 AATGCCTTTA
44579243 AAAATAATAGTAAC
1 AAAATAATAGTAAC
44579257 AAAATAATAGTAA
1 AAAATAATAGTAA
44579270 TATAATAGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.04, G:0.07, T:0.22
Consensus pattern (14 bp):
AAAATAATAGTAAC
Found at i:44582035 original size:204 final size:204
Alignment explanation
Indices: 44581671--44582207 Score: 727
Period size: 204 Copynumber: 2.6 Consensus size: 204
44581661 CCTCAAAAAA
* * ** * * *
44581671 GGTT-TAATGTGTAAGACCATATCTCGACTATGGA-AACCAATAGAGTCTGCTAAGATATTAAAC
1 GGTTATAAGGTGTAAGACCATAGCTCGACTAT-GACAACCAATAGAGTCCACCAAAACATTAAAC
* * * * *
44581734 ATGGGGTTATAAGGTGTAAGACCATAGCTCAACTATGGCAACTAATGGAGTCTGCCAAGACATTA
65 ATGGGGTTATAAGGTGTAAGACCATAGCTCGACTATGGCAACCAATAGAGTCTGCCAGGACGTTA
*** * *
44581799 AACATGGGGTTACAAGGTGTAAGACCATAGCTCGACTATGACAACCAATAGGGTCCGTCAGGACA
130 AACATAAAGTTACAAGGTGTAAGACCATAGCTCGACTATGACAACCAATAGAGTCCGCCAGGACA
44581864 TTAAACATGG
195 TTAAACATGG
* *
44581874 GGTTATAAGGTGTAAGACCATAGCTCGGCTATAACAACCAATAGAGTCCACCAAAACATTAAACA
1 GGTTATAAGGTGTAAGACCATAGCTCGACTATGACAACCAATAGAGTCCACCAAAACATTAAACA
* * * * * *
44581939 TGGGGTTACAGGGTATAAGACCATAGCTTGTCTATGGCAACCAATAGAGTTTGCCAGGACGTTAA
66 TGGGGTTATAAGGTGTAAGACCATAGCTCGACTATGGCAACCAATAGAGTCTGCCAGGACGTTAA
* * * ** *
44582004 ACATAAAGTTACAAGGTGTAAGACTATAGCTCGTCTATGGCAACCAATAGAGTTTGCCAGGACGT
131 ACATAAAGTTACAAGGTGTAAGACCATAGCTCGACTATGACAACCAATAGAGTCCGCCAGGACAT
44582069 TAAACATGG
196 TAAACATGG
* * *
44582078 AGTTACAAGGTGTAAGACCATAGCTTGACTATGACAACCAATAGAGTCCACCAAAACATTAAACA
1 GGTTATAAGGTGTAAGACCATAGCTCGACTATGACAACCAATAGAGTCCACCAAAACATTAAACA
* *
44582143 TGGGGTTATAAGGTGTAAGACCATAGCTCGGCTATGGCAACCAATAGAGTCTGCTAGGACGTTAA
66 TGGGGTTATAAGGTGTAAGACCATAGCTCGACTATGGCAACCAATAGAGTCTGCCAGGACGTTAA
44582208 GCATGGGCTT
Statistics
Matches: 289, Mismatches: 43, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
203 5 0.02
204 284 0.98
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.23
Consensus pattern (204 bp):
GGTTATAAGGTGTAAGACCATAGCTCGACTATGACAACCAATAGAGTCCACCAAAACATTAAACA
TGGGGTTATAAGGTGTAAGACCATAGCTCGACTATGGCAACCAATAGAGTCTGCCAGGACGTTAA
ACATAAAGTTACAAGGTGTAAGACCATAGCTCGACTATGACAACCAATAGAGTCCGCCAGGACAT
TAAACATGG
Found at i:44582248 original size:68 final size:68
Alignment explanation
Indices: 44581679--44582214 Score: 649
Period size: 68 Copynumber: 7.9 Consensus size: 68
44581669 AAGGTTTAAT
* * * * *
44581679 GTGTAAGACCATATCTCGACTATGGAAACCAATAGAGTCTGCTAAGATATTAAACATGGGGTTAT
1 GTGTAAGACCATAGCTCGACTATGGCAACCAATAGAGTCTGCCAAGACATTAAACATGGGGTTAC
44581744 AAG
66 AAG
* * *
44581747 GTGTAAGACCATAGCTCAACTATGGCAACTAATGGAGTCTGCCAAGACATTAAACATGGGGTTAC
1 GTGTAAGACCATAGCTCGACTATGGCAACCAATAGAGTCTGCCAAGACATTAAACATGGGGTTAC
44581812 AAG
66 AAG
* * * * * *
44581815 GTGTAAGACCATAGCTCGACTATGACAACCAATAGGGTCCGTCAGGACATTAAACATGGGGTTAT
1 GTGTAAGACCATAGCTCGACTATGGCAACCAATAGAGTCTGCCAAGACATTAAACATGGGGTTAC
44581880 AAG
66 AAG
* ** ** *
44581883 GTGTAAGACCATAGCTCGGCTATAACAACCAATAGAGTCCACCAAAACATTAAACATGGGGTTAC
1 GTGTAAGACCATAGCTCGACTATGGCAACCAATAGAGTCTGCCAAGACATTAAACATGGGGTTAC
*
44581948 AGG
66 AAG
* * * * * * ***
44581951 GTATAAGACCATAGCTTGTCTATGGCAACCAATAGAGTTTGCCAGGACGTTAAACATAAAGTTAC
1 GTGTAAGACCATAGCTCGACTATGGCAACCAATAGAGTCTGCCAAGACATTAAACATGGGGTTAC
44582016 AAG
66 AAG
* * * * * *
44582019 GTGTAAGACTATAGCTCGTCTATGGCAACCAATAGAGTTTGCCAGGACGTTAAACATGGAGTTAC
1 GTGTAAGACCATAGCTCGACTATGGCAACCAATAGAGTCTGCCAAGACATTAAACATGGGGTTAC
44582084 AAG
66 AAG
* * ** * *
44582087 GTGTAAGACCATAGCTTGACTATGACAACCAATAGAGTCCACCAAAACATTAAACATGGGGTTAT
1 GTGTAAGACCATAGCTCGACTATGGCAACCAATAGAGTCTGCCAAGACATTAAACATGGGGTTAC
44582152 AAG
66 AAG
* * * * *
44582155 GTGTAAGACCATAGCTCGGCTATGGCAACCAATAGAGTCTGCTAGGACGTTAAGCATGGG
1 GTGTAAGACCATAGCTCGACTATGGCAACCAATAGAGTCTGCCAAGACATTAAACATGGG
44582215 CTTAGACTGT
Statistics
Matches: 400, Mismatches: 68, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
68 400 1.00
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (68 bp):
GTGTAAGACCATAGCTCGACTATGGCAACCAATAGAGTCTGCCAAGACATTAAACATGGGGTTAC
AAG
Found at i:44584529 original size:21 final size:21
Alignment explanation
Indices: 44584461--44584529 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
44584451 CACAAAAGCA
* *
44584461 CATAAGTGCCAAACAGAAACC
1 CATAAGAGCTAAACAGAAACC
* * * *
44584482 CATAAGGGTTGAAC-GAAAGCT
1 CATAAGAGCTAAACAGAAA-CC
*
44584503 CGTAAGAGCTAAACAGAAACC
1 CATAAGAGCTAAACAGAAACC
44584524 CATAAG
1 CATAAG
44584530 GGTTATACTG
Statistics
Matches: 35, Mismatches: 11, Indels: 4
0.70 0.22 0.08
Matches are distributed among these distances:
20 4 0.11
21 27 0.77
22 4 0.11
ACGTcount: A:0.45, C:0.22, G:0.20, T:0.13
Consensus pattern (21 bp):
CATAAGAGCTAAACAGAAACC
Found at i:44584544 original size:42 final size:41
Alignment explanation
Indices: 44584471--44584588 Score: 121
Period size: 42 Copynumber: 2.8 Consensus size: 41
44584461 CATAAGTGCC
**
44584471 AAACAGAAACCCATAAGGGTTGAACGAAAGCTCGTAAGAGCT
1 AAACAGAAACCCATAAGGGTT-AACGAAAGCTCAAAAGAGCT
*
44584513 AAACAGAAACCCATAAGGGTTATACTG-AAGCTTAAAAGAGCT
1 AAACAGAAACCCATAAGGGTTA-AC-GAAAGCTCAAAAGAGCT
* * * * *
44584555 GAATAAAAACCCATTAGGGTTAAACGAAAACTCA
1 AAACAGAAACCCATAAGGGTT-AACGAAAGCTCA
44584589 TATGAGTTAA
Statistics
Matches: 63, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
41 2 0.03
42 59 0.94
43 2 0.03
ACGTcount: A:0.46, C:0.18, G:0.19, T:0.17
Consensus pattern (41 bp):
AAACAGAAACCCATAAGGGTTAACGAAAGCTCAAAAGAGCT
Found at i:44593937 original size:4 final size:4
Alignment explanation
Indices: 44593928--44593958 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
44593918 AGACCAACAA
44593928 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAA
1 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAA
44593959 AATTTATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
TAAT
Found at i:44595037 original size:16 final size:19
Alignment explanation
Indices: 44595018--44595056 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 19
44595008 TTTAAATTTG
44595018 TAATTTG-AA-TTTTAAA-
1 TAATTTGAAACTTTTAAAT
44595034 TAA-TTGAAACTTTTAAAT
1 TAATTTGAAACTTTTAAAT
44595052 TAATT
1 TAATT
44595057 AAGTTTATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 5
0.79 0.00 0.21
Matches are distributed among these distances:
15 3 0.16
16 5 0.26
17 7 0.37
18 3 0.16
19 1 0.05
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.49
Consensus pattern (19 bp):
TAATTTGAAACTTTTAAAT
Found at i:44597539 original size:19 final size:21
Alignment explanation
Indices: 44597515--44597561 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 21
44597505 GAAAGTAGTG
44597515 AATTTTTATTCT-TA-GAATA
1 AATTTTTATTCTCTAGGAATA
*
44597534 AA-TTTTATTTTCTAGGAATA
1 AATTTTTATTCTCTAGGAATA
44597554 ATATTTTT
1 A-ATTTTT
44597562 TTTGGTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 8 0.35
19 4 0.17
20 6 0.26
21 1 0.04
22 4 0.17
ACGTcount: A:0.34, C:0.04, G:0.06, T:0.55
Consensus pattern (21 bp):
AATTTTTATTCTCTAGGAATA
Found at i:44604522 original size:21 final size:20
Alignment explanation
Indices: 44604487--44604568 Score: 67
Period size: 21 Copynumber: 3.9 Consensus size: 20
44604477 ATTCAATTTG
* *
44604487 AATATATAAACTATATTTTA
1 AATATTTAAAATATATTTTA
44604507 AATATTTTAAAATATAATTATTA
1 AATA-TTTAAAATAT-ATT-TTA
*
44604530 TAA-ATTTAAATATATAATTTA
1 -AATATTTAAA-ATATATTTTA
* *
44604551 TATATTTAAAATAAATTT
1 AATATTTAAAATATATTT
44604569 CAATAGAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
20 11 0.22
21 18 0.36
22 11 0.22
23 8 0.16
24 2 0.04
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (20 bp):
AATATTTAAAATATATTTTA
Found at i:44604544 original size:23 final size:21
Alignment explanation
Indices: 44604512--44604568 Score: 73
Period size: 21 Copynumber: 2.7 Consensus size: 21
44604502 TTTTAAATAT
44604512 TTTAAAATATAATTATTATAAA
1 TTTAAAATATAATT-TTATAAA
*
44604534 TTTAAATATATAA-TTTATATA
1 TTTAAA-ATATAATTTTATAAA
44604555 TTTAAAATA-AATTT
1 TTTAAAATATAATTT
44604569 CAATAGAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 2 0.06
20 5 0.16
21 12 0.38
22 7 0.22
23 6 0.19
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TTTAAAATATAATTTTATAAA
Found at i:44608856 original size:15 final size:13
Alignment explanation
Indices: 44608825--44608859 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 13
44608815 ACTATAACAC
44608825 TTATAATAAAAAA
1 TTATAATAAAAAA
44608838 TTATGAATAAAATAA
1 TTAT-AATAAAA-AA
44608853 TTATAAT
1 TTATAAT
44608860 TATTTTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 4 0.20
14 10 0.50
15 6 0.30
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (13 bp):
TTATAATAAAAAA
Found at i:44611455 original size:107 final size:107
Alignment explanation
Indices: 44611264--44611588 Score: 433
Period size: 107 Copynumber: 3.1 Consensus size: 107
44611254 AAAGAATTTT
* * * *
44611264 TTTCTAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGTTGGGTTT
1 TTTCAAAATAGGGCAATATTTTGCGTTTGGAAATTCGAGGAAACGTGCCCTAACGTGATGGGTTT
* *
44611329 CGATTACTCGTTTGGCCAAATAGCCAAATATCATTTTTAAAC
66 CGATTACTCGTTCGACCAAATAGCCAAATATCATTTTTAAAC
* * * * *
44611371 TTTTAAAATAGGGTAATATTTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGCTGGGTTT
1 TTTCAAAATAGGGCAATATTTTGCGTTTGGAAATTCGAGGAAACGTGCCCTAACGTGATGGGTTT
* *
44611436 CGATTCCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAAC
66 CGATTACTCGTTCGACCAAATAGCCAAATATCATTTTTAAAC
* * *
44611478 TTTCAAAA-CGAGGCAATGTTTTGCGTTTGGAAATTCGA-GAGAATGTGCCCTAACGTGATGGGT
1 TTTCAAAATAG-GGCAATATTTTGCGTTTGGAAATTCGAGGA-AACGTGCCCTAACGTGATGGGT
* * *
44611541 TTCGATTTCTCGTTCGACCAAATAGCTAAATAT-ATTCTT-AAC
64 TTCGATTACTCGTTCGACCAAATAGCCAAATATCATTTTTAAAC
44611583 TTTCAA
1 TTTCAA
44611589 TCGATATTAT
Statistics
Matches: 192, Mismatches: 24, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
105 9 0.05
106 7 0.04
107 176 0.92
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (107 bp):
TTTCAAAATAGGGCAATATTTTGCGTTTGGAAATTCGAGGAAACGTGCCCTAACGTGATGGGTTT
CGATTACTCGTTCGACCAAATAGCCAAATATCATTTTTAAAC
Found at i:44622893 original size:24 final size:24
Alignment explanation
Indices: 44622866--44622921 Score: 87
Period size: 24 Copynumber: 2.3 Consensus size: 24
44622856 ATGTCCCAAA
44622866 ATTACAGTGGACTT-AACCTTGAAG
1 ATTACAGTGGA-TTGAACCTTGAAG
*
44622890 ATTACAGTGGATTGAACTTTGAAG
1 ATTACAGTGGATTGAACCTTGAAG
44622914 ATTACAGT
1 ATTACAGT
44622922 AGGGGCAATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 2 0.07
24 28 0.93
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.32
Consensus pattern (24 bp):
ATTACAGTGGATTGAACCTTGAAG
Found at i:44623396 original size:87 final size:87
Alignment explanation
Indices: 44623283--44623965 Score: 532
Period size: 87 Copynumber: 7.8 Consensus size: 87
44623273 ATATGAAAGA
* *
44623283 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAA-ATCTTATCTTCCTAAGCAGTA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGG-AAGATCTTATCTCCCTAAGCAGTA
44623347 GTGAAGCAGATTTAAGCCACCAG
65 GTGAAGCAGATTTAAGCCACCAG
* * *
44623370 TCCTATCTCCCTAAGCAGTAGTGGAGCATG-TCAAAGATGGAAGATCTTATCTCCTTAAGCAGTA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCA-GATCAAAGACGGAAGATCTTATCTCCCTAAGCAGTA
*
44623434 ATGAAGCAGATTTAAGCCACCAG
65 GTGAAGCAGATTTAAGCCACCAG
* * *
44623457 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGAAGATCTTATCTCCCTAAGCAGTAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAGATCTTATCTCCCTAAGCAGTAG
* * ** * **** *
44623522 TGGAGTAGATCGAATACGGTGAA
66 TGAAGCAGATTTAA-GCCACCAG
* * ** * * *** *
44623545 TCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAGGCCACCAG-TCCTATCTCCCTAAGCAGTAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAGATCTTATCTCCCTAAGCAGTAG
* * ** *****
44623609 TGGAGCAGGTCAAAGATGGAAG
66 TGAAGCAGATTTAAGCCACCAG
* * * *
44623631 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGG-CGAATCTTATCTTCCTAAGCAAT
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAG-ATCTTATCTCCCTAAGCAGT
*
44623695 AGTGAAGCAGATTTAAGTCACCAG
64 AGTGAAGCAGATTTAAGCCACCAG
** * * *
44623719 TCTTATCTCCCTAAATAGTAGTAGAGCAGGTCAAAGATGGAAGATCTTATCTCCCTAAGCAGTAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAGATCTTATCTCCCTAAGCAGTAG
* *** ** * *
44623784 TGGAGCAGAGCGAAGACGGCGAA
66 TGAAGCAGATTTAAG-CCACCAG
* * ** * *** *
44623807 TCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAG-TCCTATCTCCCTAAGCAGTAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAGATCTTATCTCCCTAAGCAGTAG
* ** *** **
44623871 TGGAGCATG-TCAAAAATAGAAG
66 TGAAGCA-GATTTAAGCCACCAG
* * * * * * *
44623893 ATATTATCTCTCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAGATCCTATCTCCCTGAGCAGTA
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAGATCTTATCTCCCTAAGCAGTA
44623958 GTGAAGCA
65 GTGAAGCA
44623966 AATAGGATCA
Statistics
Matches: 469, Mismatches: 115, Indels: 23
0.77 0.19 0.04
Matches are distributed among these distances:
86 7 0.01
87 337 0.72
88 125 0.27
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.24
Consensus pattern (87 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAGATCTTATCTCCCTAAGCAGTAG
TGAAGCAGATTTAAGCCACCAG
Found at i:44623508 original size:131 final size:131
Alignment explanation
Indices: 44623242--44623965 Score: 902
Period size: 131 Copynumber: 5.5 Consensus size: 131
44623232 TATCCAGTCC
* * * * * *
44623242 TATCTCCCTAAGCAGTAGTGGAGCAGGTCAAATA-TGAAAGATCTTATCTCCCTAAGCAGTAGTG
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGAGA-ATCTTATCTTCCTAAGCAGTAGTG
* ** ** * * * * * * ** *****
44623306 GAGCAGATCGAAGACGGCAAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAG-
65 AAGCAGATTTAAG-CCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGAAGA
*
44623370 TCC
129 TCT
* * *
44623373 TATCTCCCTAAGCAGTAGTGGAGCATG-TCAAAGATGGA-AGATCTTATC-TCCTTAAGCAGTAA
1 TATCTCCCTAAGCAGTAGTGGAGCA-GATCGAAGACGGAGA-ATCTTATCTTCC-TAAGCAGTAG
44623435 TGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGAAG
63 TGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGAAG
44623500 ATCT
128 ATCT
* * *
44623504 TATCTCCCTAAGCAGTAGTGGAGTAGATCGAATACGGTGAATCTTATCTTCCTAAGCAGTAGTGA
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGAGAATCTTATCTTCCTAAGCAGTAGTGA
*
44623569 AGCAGATTTAGGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGAAGATC
66 AGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGAAGATC
44623634 T
131 T
* *
44623635 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAATAGTGA
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGAGAATCTTATCTTCCTAAGCAGTAGTGA
* * ** *
44623700 AGCAGATTTAAGTCACCAGTCTTATCTCCCTAAATAGTAGTAGAGCAGGTCAAAGATGGAAGATC
66 AGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGAAGATC
44623765 T
131 T
* *
44623766 TATCTCCCTAAGCAGTAGTGGAGCAGAGCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGA
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGAGAATCTTATCTTCCTAAGCAGTAGTGA
* * * *
44623831 AGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCATGTCAAAAATAGAAGATA
66 AGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGAAGATC
44623896 T
131 T
* * * * *
44623897 TATCTCTCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAG-ATCCTATCTCCCTGAGCAGTAGTG
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGG-AGAATCTTATCTTCCTAAGCAGTAGTG
44623961 AAGCA
65 AAGCA
44623966 AATAGGATCA
Statistics
Matches: 527, Mismatches: 58, Indels: 16
0.88 0.10 0.03
Matches are distributed among these distances:
130 38 0.07
131 481 0.91
132 8 0.02
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (131 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGAGAATCTTATCTTCCTAAGCAGTAGTGA
AGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGAAGATC
T
Found at i:44623613 original size:218 final size:218
Alignment explanation
Indices: 44623235--44623792 Score: 762
Period size: 218 Copynumber: 2.6 Consensus size: 218
44623225 GTCATCTTAT
*
44623235 CCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAATATGAAAGATCTTATCTCCCTAAGCA
1 CCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGAAAGATCTTATCTCCCTAAGCA
44623300 GTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCC
66 GTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCC
* *
44623365 ACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCATGTCAAAGATGGAAGATCTTATCTCCTTAAGC
131 ACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGAAGATCTTATCTCCCTAAGC
44623430 AGTAATGAAGCAGATTTAAGCCA
196 AGTAATGAAGCAGATTTAAGCCA
*
44623453 CCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGAAGATCTTATCTCCCTAAGCA
1 CCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGAAAGATCTTATCTCCCTAAGCA
* * ** *
44623518 GTAGTGGAGTAGATCGAATACGGTGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAGGCC
66 GTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCC
44623583 ACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGAAGATCTTATCTCCCTAAGC
131 ACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGAAGATCTTATCTCCCTAAGC
* * ** **
44623648 AGTAGTGGAGCAGATCGAAGACGG
196 AGTAATGAAGCAGATTTAAG-CCA
* * * * * * * ** * * **
44623672 CGAATCTTATCTTCCTAAGCAATAGTGAAGCAGATTTAAG-TCACCAG-TCTTATCTCCCTAAAT
1 CCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGA-AAGATCTTATCTCCCTAAGC
* * * * * *
44623735 AGTAGTAGAGCAGGTCAAAGATGG-AAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
65 AGTAGTGGAGCAGATCGAAGACGGCAA-ATCTTATCTTCCTAAGCAGTAGTGAAGCAGA
44623793 GCGAAGACGG
Statistics
Matches: 299, Mismatches: 38, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
217 1 0.00
218 264 0.88
219 34 0.11
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.24
Consensus pattern (218 bp):
CCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGAAAGATCTTATCTCCCTAAGCA
GTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCC
ACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGAAGATCTTATCTCCCTAAGC
AGTAATGAAGCAGATTTAAGCCA
Found at i:44626102 original size:107 final size:107
Alignment explanation
Indices: 44625911--44626235 Score: 449
Period size: 107 Copynumber: 3.1 Consensus size: 107
44625901 AAAGAAATTT
* * * * * *
44625911 TTTCTAAATAAGGCAATATTTTACGTTTAGAAATTTGAGAAAACGTGCCCTAACGTGTTGGGTTT
1 TTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAAACGTGCCCTAACGTGCTGGGTTT
* * * *
44625976 CGATTACTCGTTTGGCCAAATAGCCAAATATCCTTTTTAAAC
66 CGATTTCTCGTTCGACCAAATAGCCAAATATCATTTTTAAAC
* * *
44626018 TTTTAAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGCTGGGTTT
1 TTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAAACGTGCCCTAACGTGCTGGGTTT
44626083 CGATTTCTCGTTCGACCAAATAGCCAAATATCATTTTTAAAC
66 CGATTTCTCGTTCGACCAAATAGCCAAATATCATTTTTAAAC
** * *
44626125 TTTCAAAACGAGGCAATGTTTTGCGTTTGGAAATTCGA-GAGAATGTGCCCTAACGTGCTGGGTT
1 TTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGA-AACGTGCCCTAACGTGCTGGGTT
* *
44626189 TCGATTTCTCGTTCGACCAAATAGCTAAATATC-TTCTT-AAC
65 TCGATTTCTCGTTCGACCAAATAGCCAAATATCATTTTTAAAC
44626230 TTTCAA
1 TTTCAA
44626236 TCGATATTAT
Statistics
Matches: 195, Mismatches: 22, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
105 9 0.05
106 6 0.03
107 180 0.92
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (107 bp):
TTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAAACGTGCCCTAACGTGCTGGGTTT
CGATTTCTCGTTCGACCAAATAGCCAAATATCATTTTTAAAC
Found at i:44636168 original size:36 final size:36
Alignment explanation
Indices: 44636118--44636190 Score: 114
Period size: 36 Copynumber: 2.0 Consensus size: 36
44636108 CATTCACTTA
44636118 GCTTCTCTATATCTATGGCCTTTACTGAA-GTCAAGG
1 GCTTCTCTATATCTATGGCCTTTACT-AATGTCAAGG
44636154 GCTTCTCT-TCATCTATGGCCTTTACTAATGTCAAGG
1 GCTTCTCTAT-ATCTATGGCCTTTACTAATGTCAAGG
44636190 G
1 G
44636191 ACACTTCACG
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
35 3 0.09
36 32 0.91
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.37
Consensus pattern (36 bp):
GCTTCTCTATATCTATGGCCTTTACTAATGTCAAGG
Found at i:44638498 original size:15 final size:15
Alignment explanation
Indices: 44638474--44638503 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
44638464 ATCATCATCT
44638474 ACTACCACTACCACC
1 ACTACCACTACCACC
*
44638489 ACTACTACTACCACC
1 ACTACCACTACCACC
44638504 GTGGATTCCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.50, G:0.00, T:0.17
Consensus pattern (15 bp):
ACTACCACTACCACC
Found at i:44644716 original size:15 final size:15
Alignment explanation
Indices: 44644696--44644727 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
44644686 TAAGCATTGA
44644696 TTGAACTTAGTTTAG
1 TTGAACTTAGTTTAG
44644711 TTGAACTTAGTTTAG
1 TTGAACTTAGTTTAG
44644726 TT
1 TT
44644728 TTTGTCGATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.25, C:0.06, G:0.19, T:0.50
Consensus pattern (15 bp):
TTGAACTTAGTTTAG
Found at i:44649737 original size:6 final size:6
Alignment explanation
Indices: 44649726--44649763 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
44649716 AAATAACAAT
44649726 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TT
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TT
44649764 AAATCGCTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTATA
Found at i:44652547 original size:17 final size:16
Alignment explanation
Indices: 44652522--44652564 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
44652512 TACTGAACAT
44652522 AATTATTCTCAAACAAC
1 AATTATTCT-AAACAAC
* *
44652539 AATTGTTCTGAACAAC
1 AATTATTCTAAACAAC
*
44652555 AACTATTCTA
1 AATTATTCTA
44652565 TATAAGAGTT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.33
Consensus pattern (16 bp):
AATTATTCTAAACAAC
Found at i:44653867 original size:21 final size:19
Alignment explanation
Indices: 44653824--44653869 Score: 56
Period size: 21 Copynumber: 2.3 Consensus size: 19
44653814 AATATATATT
**
44653824 ATTTTTTATAATATTTTTC
1 ATTTTTTATAATATTTTGA
44653843 ATTTTTTATATATTATTTTGA
1 ATTTTTTATA-A-TATTTTGA
44653864 ATTTTT
1 ATTTTT
44653870 AAAATTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 10 0.43
20 1 0.04
21 12 0.52
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (19 bp):
ATTTTTTATAATATTTTGA
Found at i:44674506 original size:46 final size:47
Alignment explanation
Indices: 44674423--44674529 Score: 126
Period size: 46 Copynumber: 2.3 Consensus size: 47
44674413 TTGCACATAG
*
44674423 TCACATATCACATACCGAGGCCATAGCCCAGCCATGGTCTTATAC-GGA
1 TCACATATCAC--ACCGAGGCCATAGCCCAGACATGGTCTTATACAGGA
* * * * *
44674471 TCACATATCACACTGATGCCATATCCCAGATATGGTCTTATACAGTA
1 TCACATATCACACCGAGGCCATAGCCCAGACATGGTCTTATACAGGA
*
44674518 GCACATATCACA
1 TCACATATCACA
44674530 TTTCTCCGAA
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
46 27 0.53
47 13 0.25
48 11 0.22
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.24
Consensus pattern (47 bp):
TCACATATCACACCGAGGCCATAGCCCAGACATGGTCTTATACAGGA
Found at i:44674557 original size:52 final size:51
Alignment explanation
Indices: 44674437--44674618 Score: 212
Period size: 52 Copynumber: 3.6 Consensus size: 51
44674427 ATATCACATA
* * * *
44674437 CCGAGGCCATAGCCCAGCCATGGTCTTATACGGATCACATATCACA---CT
1 CCGAAGCCATAGCCCAGCTATGGTCTTATACGAAGCACATATCACATTTCT
* * * *
44674485 --GATGCCATATCCCAGATATGGTCTTATACAGTAGCACATATCACATTTCT
1 CCGAAGCCATAGCCCAGCTATGGTCTTATAC-GAAGCACATATCACATTTCT
* *
44674535 CCGAAGCCATAGCCTAGCTATGGTCTTATACGGAAGCACAAATCACATTTCT
1 CCGAAGCCATAGCCCAGCTATGGTCTTATAC-GAAGCACATATCACATTTCT
*
44674587 CCGAAGCTATAGCCCAGCTATGGTCTTATACG
1 CCGAAGCCATAGCCCAGCTATGGTCTTATACG
44674619 GAAATCACAT
Statistics
Matches: 113, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
46 25 0.22
47 13 0.12
50 2 0.02
51 1 0.01
52 72 0.64
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.26
Consensus pattern (51 bp):
CCGAAGCCATAGCCCAGCTATGGTCTTATACGAAGCACATATCACATTTCT
Found at i:44681215 original size:26 final size:27
Alignment explanation
Indices: 44681164--44681216 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
44681154 CCAGAACAAT
*
44681164 AAAGAAACGTGCCAAAAAACGGCAGAC
1 AAAGAAACGTGCCAAAAAACGACAGAC
44681191 AAAGAAACGTGCC-AAAAACGACAGAC
1 AAAGAAACGTGCCAAAAAACGACAGAC
44681217 CTAACAATAC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 12 0.48
27 13 0.52
ACGTcount: A:0.53, C:0.23, G:0.21, T:0.04
Consensus pattern (27 bp):
AAAGAAACGTGCCAAAAAACGACAGAC
Found at i:44681924 original size:11 final size:11
Alignment explanation
Indices: 44681888--44681966 Score: 90
Period size: 11 Copynumber: 7.2 Consensus size: 11
44681878 TAAATCCTTT
*
44681888 CTCTC-AATTT
1 CTCTCAAATTC
44681898 CTCTCCAATATT-
1 CTCT-CAA-ATTC
44681910 CTCTCAAATTC
1 CTCTCAAATTC
44681921 CTCTCAAATTC
1 CTCTCAAATTC
*
44681932 CTCTCAATTTC
1 CTCTCAAATTC
* *
44681943 CTTTCAATTTC
1 CTCTCAAATTC
44681954 CTCTCAAATTC
1 CTCTCAAATTC
44681965 CT
1 CT
44681967 TTTAAAAAAG
Statistics
Matches: 61, Mismatches: 4, Indels: 7
0.85 0.06 0.10
Matches are distributed among these distances:
10 7 0.11
11 46 0.75
12 5 0.08
13 3 0.05
ACGTcount: A:0.23, C:0.34, G:0.00, T:0.43
Consensus pattern (11 bp):
CTCTCAAATTC
Found at i:44681955 original size:33 final size:34
Alignment explanation
Indices: 44681888--44681966 Score: 101
Period size: 33 Copynumber: 2.4 Consensus size: 34
44681878 TAAATCCTTT
*
44681888 CTCTC-AATTTCTCTCCAATATTCTCTCAAATTC
1 CTCTCAAATTCCTCTCCAATATTCTCTCAAATTC
* *
44681921 CTCTCAAATTCCTCT-CAAT-TTCCTTTCAATTTC
1 CTCTCAAATTCCTCTCCAATATT-CTCTCAAATTC
44681954 CTCTCAAATTCCT
1 CTCTCAAATTCCT
44681967 TTTAAAAAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
32 2 0.05
33 31 0.76
34 8 0.20
ACGTcount: A:0.23, C:0.34, G:0.00, T:0.43
Consensus pattern (34 bp):
CTCTCAAATTCCTCTCCAATATTCTCTCAAATTC
Found at i:44683814 original size:18 final size:18
Alignment explanation
Indices: 44683778--44683820 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
44683768 TGCCAGATGC
* * *
44683778 GTATCCTAGCTCTTTTAT
1 GTATCCTAACCCTTATAT
44683796 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
44683814 GTTTCCT
1 GTATCCT
44683821 TTTTTTAGTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.19, C:0.26, G:0.09, T:0.47
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:44687768 original size:126 final size:126
Alignment explanation
Indices: 44687425--44687840 Score: 607
Period size: 126 Copynumber: 3.3 Consensus size: 126
44687415 GGCCAAACAG
* * *
44687425 GAGCTACTGTAGCAAAAGCGCGTCCACGTGGAAGCTTTTTTCAGTAATTTTGCTGACAAAGCATC
1 GAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATC
* * * ** *
44687490 CTACTTAAAGCATTTTTGACACTATTTTCTCAGAAATATCTACTCGAAATTATTTTTTTAA
66 CTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAA
* *
44687551 GAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGTTTTCTTTCGGTACTTTTGCTGACAAAGCAT
1 GAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAG-CTTCTTTCAGTACTTTTGCTGACAAAGCAT
**
44687616 CCTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTGAACTCGAAATTATTTTTTCAA
65 CCTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAA
* * *
44687678 GAGCTACTATAGCAAAAGCACGTCCACGTGGGAGCTTCTTTCAATACTTTTGCTGACAAAGCATC
1 GAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATC
* * * * * * *
44687743 TTGCTTAAAGCGTTTTTAACACTATTTGCTTAGGAACGTTTTCTCGAAATTATTTTTTCAG
66 CTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAA
*
44687804 GAGCTACTGTAGCAAAAGCGCGTTCACGTGGGAGCTT
1 GAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTT
44687841 TTTTAAATTA
Statistics
Matches: 260, Mismatches: 29, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
126 148 0.57
127 112 0.43
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (126 bp):
GAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATC
CTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAA
Found at i:44690634 original size:30 final size:31
Alignment explanation
Indices: 44690568--44690637 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
44690558 CCACCCTTAA
** *
44690568 AATATTTACACTATTGGTCCTTCAAAATTTT
1 AATATTTACACTATTAATCCCTCAAAATTTT
*
44690599 CATATTTACACT-TTAATCCCTC-AAATTTT
1 AATATTTACACTATTAATCCCTCAAAATTTT
44690628 GAATATTTAC
1 -AATATTTAC
44690638 TCTTGGGCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
29 7 0.21
30 15 0.45
31 11 0.33
ACGTcount: A:0.33, C:0.19, G:0.04, T:0.44
Consensus pattern (31 bp):
AATATTTACACTATTAATCCCTCAAAATTTT
Found at i:44695402 original size:59 final size:59
Alignment explanation
Indices: 44695337--44695524 Score: 150
Period size: 59 Copynumber: 3.2 Consensus size: 59
44695327 ATTTTATTAA
44695337 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGT
* * ** * * * ** * * * *
44695396 ATCATATATTATGATTTTAGTA-AATTCATA-TAAGAATATTGATTATTAGAATTTTATTA-A
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCA-AATTA-TATTTTA-TAGT
* * * *
44695456 ATTATATATTTTAATTAAAATATATTTAATAATT-ATTATTTTAATTTATATTTTACAGT
1 ATCATATATTTTAATTAAAATATATTTAAT-ATTAATTATTTCAAATTATATTTTATAGT
44695515 ATCATATATT
1 ATCATATATT
44695525 ATGATTTGAG
Statistics
Matches: 91, Mismatches: 30, Indels: 16
0.66 0.22 0.12
Matches are distributed among these distances:
57 5 0.05
58 10 0.11
59 36 0.40
60 25 0.27
61 10 0.11
62 4 0.04
63 1 0.01
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.52
Consensus pattern (59 bp):
ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGT
Found at i:44695451 original size:119 final size:120
Alignment explanation
Indices: 44695326--44695614 Score: 492
Period size: 119 Copynumber: 2.4 Consensus size: 120
44695316 AATTATTTTA
*
44695326 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTT
* * *
44695391 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATT-AG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
44695445 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATT-ATTATTTTAATTTATATTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAAT-ATTAATTATTTCAAATTATATTT
44695509 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
44695565 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTAT
44695615 GTTTAAATAT
Statistics
Matches: 160, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
119 109 0.68
120 51 0.32
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:44695472 original size:18 final size:18
Alignment explanation
Indices: 44695446--44695501 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 18
44695436 GATTATTAGA
44695446 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
44695463 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
44695479 A-TTTAA-T-AATTAT-T
1 ATTTTAATTAAATTATAT
44695493 ATTTTAATT
1 ATTTTAATT
44695502 TATATTTTAC
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
13 2 0.06
14 3 0.09
15 12 0.35
16 6 0.18
17 5 0.15
18 6 0.18
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:44695582 original size:59 final size:58
Alignment explanation
Indices: 44695400--44695582 Score: 146
Period size: 56 Copynumber: 3.1 Consensus size: 58
44695390 TATAGTATCA
*
44695400 TATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATT-AGAATTTTATTAAAT
1 TATATTATGATTTAAGTAAATTCATATAAGAATATT-ATTATTAAGAATTTTATTAAAT
* * * * * *
44695458 TATA-TAT--TTTAATTAAAATAT-ATTTAATAATTATTATT-TTAATTTATATTTTA-CAGTAT
1 TATATTATGATTTAAGT-AAAT-TCATATAAGAA-TATTATTATTAA--GA-ATTTTATTA-AAT
*
44695517 CATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
1 --TATATTATGATTTAAGTAAATTCATATAAGAATATT-ATTATTAAGAATTTTATTAAAT
44695578 TATAT
1 TATAT
44695583 ATTTTAATTA
Statistics
Matches: 94, Mismatches: 14, Indels: 33
0.67 0.10 0.23
Matches are distributed among these distances:
55 7 0.07
56 15 0.16
57 8 0.09
58 6 0.06
59 13 0.14
61 12 0.13
62 10 0.11
63 14 0.15
64 9 0.10
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (58 bp):
TATATTATGATTTAAGTAAATTCATATAAGAATATTATTATTAAGAATTTTATTAAAT
Found at i:44695594 original size:18 final size:17
Alignment explanation
Indices: 44695566--44695600 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
44695556 ATTATTAAGA
*
44695566 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
44695583 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
44695601 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:44695708 original size:147 final size:149
Alignment explanation
Indices: 44695554--44695828 Score: 500
Period size: 147 Copynumber: 1.9 Consensus size: 149
44695544 ATAAGAATAT
*
44695554 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
44695619 AAATATGAGTAAATTATTTATTATTGAT-ATTAATAATCTTATTAAAATTTAAATAA-AATAATT
66 AAATATGAGTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
44695682 TACCAAAACAAATTTCTGC
131 TACCAAAACAAATTTCTGC
44695701 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
* *
44695766 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGAGTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
44695829 CAATAATCAT
Statistics
Matches: 122, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
147 90 0.74
148 27 0.22
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (149 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGAGTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
TACCAAAACAAATTTCTGC
Found at i:44695741 original size:18 final size:17
Alignment explanation
Indices: 44695713--44695747 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
44695703 ATTATTAAGA
*
44695713 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
44695730 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
44695748 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:44695999 original size:45 final size:44
Alignment explanation
Indices: 44695909--44696003 Score: 118
Period size: 45 Copynumber: 2.1 Consensus size: 44
44695899 TTACACCTCT
* ** *
44695909 ATTACATTCAACCAAACACAGTTTTACTATTAGGCCTCTATTCC
1 ATTACATTCAACCAAACACAGATTTACTATTACACATCTATTCC
** *
44695953 ATTACATTCAACCAAACAGTTGATTTGCTATTACACATCTATTCC
1 ATTACATTCAACCAAACA-CAGATTTACTATTACACATCTATTCC
44695998 ATTACA
1 ATTACA
44696004 CCTCTAATCC
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 18 0.42
45 25 0.58
ACGTcount: A:0.34, C:0.25, G:0.06, T:0.35
Consensus pattern (44 bp):
ATTACATTCAACCAAACACAGATTTACTATTACACATCTATTCC
Found at i:44696003 original size:16 final size:16
Alignment explanation
Indices: 44695984--44696035 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
44695974 GATTTGCTAT
* * *
44695984 TACACATCTATTCCAT
1 TACACCTCTAATCCAA
44696000 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
44696016 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
44696032 TACA
1 TACA
44696036 GCGAACCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.37, C:0.35, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:44698614 original size:21 final size:21
Alignment explanation
Indices: 44698573--44698615 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
44698563 AATAAAGTAG
*
44698573 ATTATATATTATTTTTATAGT
1 ATTATATATTATATTTATAGT
44698594 ATTATATATTATGATTT-TAGT
1 ATTATATATTAT-ATTTATAGT
44698615 A
1 A
44698616 AATTCATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (21 bp):
ATTATATATTATATTTATAGT
Found at i:44698662 original size:37 final size:37
Alignment explanation
Indices: 44698599--44698901 Score: 150
Period size: 37 Copynumber: 7.7 Consensus size: 37
44698589 ATAGTATTAT
* *
44698599 ATATTATG-ATTTTAGTAAATTCATATAATAATATTTA
1 ATATTAAGAATTTTATTAAATT-ATATAATAATATTTA
* ** *
44698636 ATATTAAGAATTTTATTAAATTATATATTTTTATTAAATT
1 ATATTAAGAATTTTATTAAATTATATAATAATATT---TA
* * *
44698676 ATATATAATAATTATTATTTTAAATTATAT-TTTATAGTATTA
1 ATAT-TAAGAATT-TTA--TTAAATTATATAATAATA-T-TTA
* * *
44698718 TATATTATG-ATTTTAGTAAATTCATATAGTAATATTTA
1 -ATATTAAGAATTTTATTAAATT-ATATAATAATATTTA
* ** *
44698756 ATATTAAGAATTTTATTAAATTATATATTTTTATTAAATT
1 ATATTAAGAATTTTATTAAATTATATAATAATATT---TA
* * *
44698796 ATATTTAATAATTATTATTTTTAAATTATATTTATATTA-TTA
1 ATA-TTAAGAATT-TTA---TTAAATTATA-TAATAATATTTA
* * * *
44698838 TATATTATG-AGTTTAGTAAATTCATATAAGAATATTTA
1 -ATATTAAGAATTTTATTAAATT-ATATAATAATATTTA
44698876 ATATTAAGAATTTTA-TAAATTATATA
1 ATATTAAGAATTTTATTAAATTATATA
44698902 TTTTTATTAA
Statistics
Matches: 205, Mismatches: 34, Indels: 55
0.70 0.12 0.19
Matches are distributed among these distances:
36 5 0.02
37 58 0.28
38 44 0.21
39 5 0.02
40 19 0.09
41 20 0.10
42 13 0.06
43 12 0.06
44 12 0.06
45 12 0.06
46 5 0.02
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (37 bp):
ATATTAAGAATTTTATTAAATTATATAATAATATTTA
Found at i:44698667 original size:18 final size:18
Alignment explanation
Indices: 44698646--44698799 Score: 76
Period size: 18 Copynumber: 8.9 Consensus size: 18
44698636 ATATTAAGAA
44698646 TTTTATTAAATTATATAT
1 TTTTATTAAATTATATAT
44698664 TTTTATTAAATTATATA-
1 TTTTATTAAATTATATAT
*
44698681 ---TAAT-AATTAT-TAT
1 TTTTATTAAATTATATAT
* * * *
44698694 TTTAAATTATATTTTATAG
1 TTT-TATTAAATTATATAT
* * *
44698713 TATTA-TATATTAT-GA-
1 TTTTATTAAATTATATAT
* *
44698728 TTTTAGTAAATTCATATAG
1 TTTTATTAAATT-ATATAT
** * *
44698747 TAATATTTAATATTA-AGAA
1 TTTTA-TTAA-ATTATATAT
44698766 TTTTATTAAATTATATAT
1 TTTTATTAAATTATATAT
44698784 TTTTATTAAATTATAT
1 TTTTATTAAATTATAT
44698800 TTAATAATTA
Statistics
Matches: 100, Mismatches: 22, Indels: 28
0.67 0.15 0.19
Matches are distributed among these distances:
12 2 0.02
13 6 0.06
14 3 0.03
15 4 0.04
16 6 0.06
17 15 0.15
18 45 0.45
19 12 0.12
20 4 0.04
21 3 0.03
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (18 bp):
TTTTATTAAATTATATAT
Found at i:44698722 original size:120 final size:120
Alignment explanation
Indices: 44698580--44699058 Score: 840
Period size: 120 Copynumber: 4.0 Consensus size: 120
44698570 TAGATTATAT
*
44698580 ATTAT-TTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAATAATATTTAATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
* *
44698644 AATTTTATTAAATTATATATTTTTATTAAATTATATATAATAATTATTATTTTAA
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
44698699 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATAT-AGTAATATTTAATATTAA
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAG-AATATTTAATATTAA
*
44698763 GAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATTATTATTTTTAA
65 GAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTA-TTTTAA
* *
44698820 ATTATA-TTTATATTATTATATATTATGAGTTTAGTAAATTCATATAAGAATATTTAATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
44698884 AATTTTA-TAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
*
44698938 ATTAAATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
*
44699003 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAA
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
44699058 A
1 A
44699059 ATATGATTAA
Statistics
Matches: 345, Mismatches: 9, Indels: 11
0.95 0.02 0.03
Matches are distributed among these distances:
118 11 0.03
119 109 0.32
120 211 0.61
121 14 0.04
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (120 bp):
ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
Found at i:44698800 original size:16 final size:16
Alignment explanation
Indices: 44698766--44698834 Score: 58
Period size: 14 Copynumber: 4.5 Consensus size: 16
44698756 ATATTAAGAA
44698766 TTTTATTAAATTATATAT
1 TTTTATTAAA-T-TATAT
44698784 TTTTATTAAATTATA-
1 TTTTATTAAATTATAT
*
44698799 -TTTAAT-AATTAT-T
1 TTTTATTAAATTATAT
*
44698812 ATTT-TTAAATTATAT
1 TTTTATTAAATTATAT
*
44698827 TTATATTA
1 TTTTATTA
44698835 TTATATATTA
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
13 7 0.17
14 14 0.33
15 3 0.07
16 7 0.17
17 1 0.02
18 10 0.24
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTTATTAAATTATAT
Found at i:44698837 original size:14 final size:14
Alignment explanation
Indices: 44698775--44698845 Score: 51
Period size: 16 Copynumber: 5.0 Consensus size: 14
44698765 ATTTTATTAA
*
44698775 ATTA-TATATTTTT
1 ATTATTATATTTAT
44698788 ATTAAATTATATTTAAT
1 ATT--ATTATATTT-AT
44698805 AATTATTAT-TTT-T
1 -ATTATTATATTTAT
*
44698818 A-AATTATATTTAT
1 ATTATTATATTTAT
44698831 ATTATTATATATTAT
1 ATTATTATAT-TTAT
44698846 GAGTTTAGTA
Statistics
Matches: 46, Mismatches: 3, Indels: 16
0.71 0.05 0.25
Matches are distributed among these distances:
11 5 0.11
12 4 0.09
13 6 0.13
14 7 0.15
15 8 0.17
16 12 0.26
17 1 0.02
18 3 0.07
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
ATTATTATATTTAT
Found at i:44699013 original size:239 final size:240
Alignment explanation
Indices: 44698580--44699052 Score: 851
Period size: 239 Copynumber: 2.0 Consensus size: 240
44698570 TAGATTATAT
* * *
44698580 ATTATTTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAATAATATTTAATATTAAGA
1 ATTATATTTATAGTATTATATATTATGAGTTTAGTAAATTCATATAAGAATATTTAATATTAAGA
* *
44698645 ATTTTATTAAATTATATATTTTTATTAAATTATATATAATAATTATTATTTTAAATTATATTTTA
66 ATTTTATTAAATTATATATTTTTATTAAATTATATATAATAATAATTATTTTAAATTAAATTTTA
44698710 TAGTATTATATATTATGATTTTAGTAAATTCATATAGTAATATTTAATATTAAGAATTTTATTAA
131 TAGTATTATATATTATGATTTTAGTAAATTCATATAGTAATATTTAATATTAAGAATTTTATTAA
*
44698775 ATTATATATTTTTATTAAATTATATTTAATAATTATTATTTTTAA
196 ATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTTAA
*
44698820 ATTATATTTATATTATTATATATTATGAGTTTAGTAAATTCATATAAGAATATTTAATATTAAGA
1 ATTATATTTATAGTATTATATATTATGAGTTTAGTAAATTCATATAAGAATATTTAATATTAAGA
*
44698885 ATTTTA-TAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTAAATTTTA
66 ATTTTATTAAATTATATATTTTTATTAAATTATATATAATAATAATTATTTTAAATTAAATTTTA
44698949 TAGTATTATATATTATGATTTTAGTAAATTCATATAAG-AATATTTAATATTAAGAATTTTATTA
131 TAGTATTATATATTATGATTTTAGTAAATTCATAT-AGTAATATTTAATATTAAGAATTTTATTA
44699013 AATTATATATTTTTATTAAATTATATTTAATAATAATTAT
195 AATTATATATTTTTATTAAATTATATTTAATAATAATTAT
44699053 GTTAAAATAT
Statistics
Matches: 224, Mismatches: 8, Indels: 3
0.95 0.03 0.01
Matches are distributed among these distances:
239 155 0.69
240 69 0.31
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (240 bp):
ATTATATTTATAGTATTATATATTATGAGTTTAGTAAATTCATATAAGAATATTTAATATTAAGA
ATTTTATTAAATTATATATTTTTATTAAATTATATATAATAATAATTATTTTAAATTAAATTTTA
TAGTATTATATATTATGATTTTAGTAAATTCATATAGTAATATTTAATATTAAGAATTTTATTAA
ATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTTAA
Found at i:44699260 original size:44 final size:45
Alignment explanation
Indices: 44699196--44699292 Score: 126
Period size: 45 Copynumber: 2.2 Consensus size: 45
44699186 CTATTACACC
*
44699196 TCCATTCCATTCAACCAAACACA-AGA-ATACTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACA-ATAGATATACTATTACGCCTCTAT
* * * *
44699240 TCCATTACATTCAACTAAACAATTGATTTGCTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACAATAGATATACTATTACGCCTCTAT
44699285 TCCATTAC
1 TCCATTAC
44699293 GCTTCTATTC
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
43 1 0.02
44 21 0.46
45 24 0.52
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.33
Consensus pattern (45 bp):
TCCATTACATTCAACCAAACAATAGATATACTATTACGCCTCTAT
Found at i:44699293 original size:16 final size:16
Alignment explanation
Indices: 44699272--44699320 Score: 89
Period size: 16 Copynumber: 3.1 Consensus size: 16
44699262 TTGATTTGCT
44699272 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
44699288 ATTACGCTTCTATTCC
1 ATTACGCCTCTATTCC
44699304 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
44699320 A
1 A
44699321 ATACAGCGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.20, C:0.35, G:0.06, T:0.39
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:44717686 original size:45 final size:45
Alignment explanation
Indices: 44717617--44717729 Score: 145
Period size: 45 Copynumber: 2.5 Consensus size: 45
44717607 GGTGTTCAAG
* * * * *
44717617 CTAAAAAATGTTACGACATTATGATGAAAATGAGTAAGATCATAA
1 CTAAAAGATGTTATGGCATCATGATAAAAATGAGTAAGATCATAA
* *
44717662 TTAAAAGATGTTATGGCATCATGATAAAAATGAGTAAGATCATAG
1 CTAAAAGATGTTATGGCATCATGATAAAAATGAGTAAGATCATAA
* *
44717707 CTGAAAGAAGTTATGGCATCATG
1 CTAAAAGATGTTATGGCATCATG
44717730 TGTTGGTTCG
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 58 1.00
ACGTcount: A:0.44, C:0.09, G:0.19, T:0.27
Consensus pattern (45 bp):
CTAAAAGATGTTATGGCATCATGATAAAAATGAGTAAGATCATAA
Found at i:44718489 original size:23 final size:24
Alignment explanation
Indices: 44718456--44718500 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
44718446 AAGACTGGAC
*
44718456 TTTCCATGTTTGTTACCAATGAGA
1 TTTCCATGTTTGTTAACAATGAGA
44718480 TTTCC-TGTTTGTTAACAATGA
1 TTTCCATGTTTGTTAACAATGA
44718501 TTTCCTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (24 bp):
TTTCCATGTTTGTTAACAATGAGA
Found at i:44718504 original size:21 final size:22
Alignment explanation
Indices: 44718456--44718506 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 22
44718446 AAGACTGGAC
*
44718456 TTTCCATGTTTGTTACCAATGAGA
1 TTTCC-TGTTTGTTAACAAT-AGA
44718480 TTTCCTGTTTGTTAACAAT-GA
1 TTTCCTGTTTGTTAACAATAGA
44718501 TTTCCT
1 TTTCCT
44718507 TTTTAATAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 8 0.31
23 13 0.50
24 5 0.19
ACGTcount: A:0.22, C:0.18, G:0.14, T:0.47
Consensus pattern (22 bp):
TTTCCTGTTTGTTAACAATAGA
Found at i:44721065 original size:16 final size:17
Alignment explanation
Indices: 44721033--44721070 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
44721023 TATTTTTATC
44721033 ATTTAAGTTAGTTTCAA
1 ATTTAAGTTAGTTTCAA
*
44721050 ATTTGAGTTA-TTTCAA
1 ATTTAAGTTAGTTTCAA
*
44721066 GTTTA
1 ATTTA
44721071 TATAAATTGG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.32, C:0.05, G:0.13, T:0.50
Consensus pattern (17 bp):
ATTTAAGTTAGTTTCAA
Found at i:44727506 original size:24 final size:24
Alignment explanation
Indices: 44727478--44727525 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
44727468 TAAAGAGAAA
44727478 ACATAAATTTTCTTTATCATTTTG
1 ACATAAATTTTCTTTATCATTTTG
44727502 ACATAAATTTTCTTTATCATTTTG
1 ACATAAATTTTCTTTATCATTTTG
44727526 GCTAAATGCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.12, G:0.04, T:0.54
Consensus pattern (24 bp):
ACATAAATTTTCTTTATCATTTTG
Found at i:44737665 original size:5 final size:5
Alignment explanation
Indices: 44737652--44737685 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
44737642 TATATTTCTT
*
44737652 TTTTA TTTTC TTTTA TTTT- TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
44737686 CCTAAAACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:44738284 original size:3 final size:3
Alignment explanation
Indices: 44738271--44738330 Score: 50
Period size: 3 Copynumber: 19.7 Consensus size: 3
44738261 ATTTTCTCCC
* * *
44738271 ATT ATTT ATT ATT ATT GTT A-T ATT ATTT ATT ATC ATC ATT ATT ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT
* *
44738317 TTT ATT ATT TTT AT
1 ATT ATT ATT ATT AT
44738331 ATTTGTACAT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
2 2 0.04
3 38 0.83
4 6 0.13
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:44738315 original size:24 final size:21
Alignment explanation
Indices: 44738271--44738333 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
44738261 ATTTTCTCCC
*
44738271 ATTATTTATTATTATTGTTAT
1 ATTATTTATTATTATTATTAT
* *
44738292 ATTATTTATTATCATCA-T-T
1 ATTATTTATTATTATTATTAT
*
44738311 ATTATTT-TTATTATTTTTAT
1 ATTATTTATTATTATTATTAT
44738331 ATT
1 ATT
44738334 TGTACATACG
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
18 6 0.18
19 9 0.26
20 5 0.15
21 14 0.41
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.67
Consensus pattern (21 bp):
ATTATTTATTATTATTATTAT
Found at i:44738333 original size:8 final size:9
Alignment explanation
Indices: 44738271--44738334 Score: 58
Period size: 9 Copynumber: 6.8 Consensus size: 9
44738261 ATTTTCTCCC
44738271 ATTATTTATT
1 ATTATTT-TT
44738281 ATTATTGTTAT
1 ATTATT-TT-T
44738292 ATTATTTATT
1 ATTATTT-TT
* **
44738302 ATCATCATT
1 ATTATTTTT
44738311 ATTATTTTT
1 ATTATTTTT
44738320 ATTATTTTT
1 ATTATTTTT
44738329 A-TATTT
1 ATTATTT
44738335 GTACATACGC
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
8 5 0.11
9 18 0.40
10 13 0.29
11 9 0.20
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (9 bp):
ATTATTTTT
Found at i:44741113 original size:25 final size:23
Alignment explanation
Indices: 44741071--44741121 Score: 75
Period size: 25 Copynumber: 2.1 Consensus size: 23
44741061 AAAAATATAA
*
44741071 TTTTATTATTTTAATATTTTATGT
1 TTTTATCATTTTAATATTTTAT-T
44741095 TTTTATCATTTTTAATATTTTATT
1 TTTTATCA-TTTTAATATTTTATT
44741119 TTT
1 TTT
44741122 AAGGATTACT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 11 0.44
25 14 0.56
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.73
Consensus pattern (23 bp):
TTTTATCATTTTAATATTTTATT
Found at i:44744747 original size:22 final size:22
Alignment explanation
Indices: 44744703--44744747 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
44744693 ATTGTAAAAA
* *
44744703 TTATATATTTGTAATTCATATT
1 TTATATATTTATAATTCAAATT
44744725 TTATATATTTTATAATT-AAATT
1 TTATATA-TTTATAATTCAAATT
44744747 T
1 T
44744748 AAATTTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (22 bp):
TTATATATTTATAATTCAAATT
Found at i:44745439 original size:14 final size:14
Alignment explanation
Indices: 44745412--44745455 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
44745402 CTGGAGATTC
*
44745412 AAAGTTTAACATTT
1 AAAGTTTAAAATTT
* *
44745426 AAGGTTTGAAATTT
1 AAAGTTTAAAATTT
44745440 AAAGTTTAAAATTT
1 AAAGTTTAAAATTT
44745454 AA
1 AA
44745456 CATTTGAGAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.45, C:0.02, G:0.11, T:0.41
Consensus pattern (14 bp):
AAAGTTTAAAATTT
Found at i:44746303 original size:3 final size:3
Alignment explanation
Indices: 44746295--44746320 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
44746285 TTCGGAATTT
44746295 GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GA
44746321 TGGGTCGGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:44751397 original size:13 final size:13
Alignment explanation
Indices: 44751381--44751405 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44751371 AAATATATTT
44751381 TAAAAATAAAAAA
1 TAAAAATAAAAAA
44751394 TAAAAATAAAAA
1 TAAAAATAAAAA
44751406 TATTTTTAAA
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
TAAAAATAAAAAA
Found at i:44751435 original size:7 final size:7
Alignment explanation
Indices: 44751423--44751462 Score: 80
Period size: 7 Copynumber: 5.7 Consensus size: 7
44751413 AAAGTATTTT
44751423 AAAATTA
1 AAAATTA
44751430 AAAATTA
1 AAAATTA
44751437 AAAATTA
1 AAAATTA
44751444 AAAATTA
1 AAAATTA
44751451 AAAATTA
1 AAAATTA
44751458 AAAAT
1 AAAAT
44751463 ATATATTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AAAATTA
Found at i:44752123 original size:28 final size:28
Alignment explanation
Indices: 44752059--44752123 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 28
44752049 ACTAACCTAT
*
44752059 AATATATATAACTAAGTCCAAAAAGGAA
1 AATATATATAACTAAATCCAAAAAGGAA
* *
44752087 AATCA-ATATAGAC-AAATTCAAAAAGTAA
1 AAT-ATATATA-ACTAAATCCAAAAAGGAA
44752115 AATATATAT
1 AATATATAT
44752124 TAGCTTTATC
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
27 1 0.03
28 27 0.87
29 3 0.10
ACGTcount: A:0.58, C:0.09, G:0.08, T:0.25
Consensus pattern (28 bp):
AATATATATAACTAAATCCAAAAAGGAA
Found at i:44756423 original size:26 final size:25
Alignment explanation
Indices: 44756393--44756482 Score: 81
Period size: 26 Copynumber: 3.5 Consensus size: 25
44756383 GTTATTAAAT
*
44756393 TTTAATAAGATTATTATTAAATATAA
1 TTTAATAA-AATATTATTAAATATAA
* * * *
44756419 TTTAATAAAAAATAATTTAATCATAT
1 TTTAATAAAATATTATTAAAT-ATAA
* * *
44756445 TTTAACTTAACTATTATTAAATACAA
1 TTTAA-TAAAATATTATTAAATATAA
44756471 TTTAATAAAATA
1 TTTAATAAAATA
44756483 ATATATAATT
Statistics
Matches: 48, Mismatches: 14, Indels: 5
0.72 0.21 0.07
Matches are distributed among these distances:
25 14 0.29
26 23 0.48
27 11 0.23
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.43
Consensus pattern (25 bp):
TTTAATAAAATATTATTAAATATAA
Found at i:44758569 original size:10 final size:10
Alignment explanation
Indices: 44758550--44758601 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
44758540 GAATCTCTCG
44758550 AAAA-TAATC
1 AAAATTAATC
44758559 AAAATTAATC
1 AAAATTAATC
*
44758569 AAAATTAACTAT
1 AAAATTAA-T-C
*
44758581 AAAATTAATT
1 AAAATTAATC
*
44758591 AAAATTCATC
1 AAAATTAATC
44758601 A
1 A
44758602 TGTTCATATT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
9 4 0.11
10 23 0.62
11 2 0.05
12 8 0.22
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.31
Consensus pattern (10 bp):
AAAATTAATC
Found at i:44768305 original size:125 final size:125
Alignment explanation
Indices: 44768091--44768328 Score: 352
Period size: 125 Copynumber: 1.9 Consensus size: 125
44768081 GCCCACGTGT
* * * *
44768091 ACGCGCTTTTGCTACAGTAGGTCCTGGAAAAATAATTTTGAGTTGGCGTTTTTGAGCAAATAGTA
1 ACGCACTTTTGCTACAGTAGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTA
* * *
44768156 TAAAAAACGCTTCAAGCAGGATGCTATATGCGAAGTATTTGTGAAATCGCGTCCTTCTGG
66 TAAAAAACGCTTCAACCAGGATGCTATATGAGAAGAATTTGTGAAATCGCGTCCTTCTGG
* *
44768216 ACGCACTTTTGCTACAGTTGGTCCTTGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGT
1 ACGCACTTTTGCTACAGTAGGTCCTGGAA-AAATAATTTCGAGTTGACGTTTCTGAGCAAATAGT
* * *
44768281 ATAAAATA-GCTTCTACCAGGATGCTTTATGAGAAGAATTTGTGAAATC
65 ATAAAAAACGCTTCAACCAGGATGCTATATGAGAAGAATTTGTGAAATC
44768329 ACGCCCACGT
Statistics
Matches: 100, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
125 61 0.61
126 39 0.39
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (125 bp):
ACGCACTTTTGCTACAGTAGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTA
TAAAAAACGCTTCAACCAGGATGCTATATGAGAAGAATTTGTGAAATCGCGTCCTTCTGG
Found at i:44768350 original size:125 final size:125
Alignment explanation
Indices: 44768082--44768360 Score: 346
Period size: 125 Copynumber: 2.2 Consensus size: 125
44768072 TGCATTCGCG
* * * *
44768082 CCCACGTGTACGCGCTTTTGCTACAGTAGGTCCTGGAAAAATAATTTTGAGTTGGCGTTTTTGAG
1 CCCAC-TGGACGCGCTTTTGCTACAGTAGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAG
* * * *
44768147 CAAATAGTATAAAAAACGCTTCAAGCAGGATGCTATATGCGAAGTATTTGTGAAATCGCGT
65 CAAATAGTATAAAAAACGCTTCAACCAGGATGCTATATGAGAAGAATTTGTGAAATCACGT
** * * *
44768208 CCTTCTGGACGCACTTTTGCTACAGTTGGTCCTTGAAGAAATAATTTCGAGTTGACGTTTCTGAG
1 CCCACTGGACGCGCTTTTGCTACAGTAGGTCCTGGAA-AAATAATTTCGAGTTGACGTTTCTGAG
* * *
44768273 CAAATAGTATAAAATA-GCTTCTACCAGGATGCTTTATGAGAAGAATTTGTGAAATCACG-
65 CAAATAGTATAAAAAACGCTTCAACCAGGATGCTATATGAGAAGAATTTGTGAAATCACGT
***
44768332 CCCACGTGGATTTGCTTTTGCTACAGTAG
1 CCCAC-TGGACGCGCTTTTGCTACAGTAG
44768361 CATGTTTGGG
Statistics
Matches: 128, Mismatches: 23, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
124 3 0.02
125 83 0.65
126 42 0.33
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.32
Consensus pattern (125 bp):
CCCACTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGC
AAATAGTATAAAAAACGCTTCAACCAGGATGCTATATGAGAAGAATTTGTGAAATCACGT
Found at i:44771544 original size:8 final size:7
Alignment explanation
Indices: 44771531--44771706 Score: 51
Period size: 7 Copynumber: 24.3 Consensus size: 7
44771521 GGTTTTAAAG
44771531 TTAAGGCT
1 TTAAGG-T
44771539 TTAAGGT
1 TTAAGGT
44771546 TT-AGTGTTT
1 TTAAG-G--T
44771555 TTAA-GT
1 TTAAGGT
*
44771561 TTATGGT
1 TTAAGGT
*
44771568 TTATGGTT
1 TTAAGG-T
*
44771576 TTTAGG-
1 TTAAGGT
*
44771582 TTAGGGT
1 TTAAGGT
*
44771589 TTATGGTT
1 TTAAGG-T
44771597 TTAA-GT
1 TTAAGGT
*
44771603 TTAGGGT
1 TTAAGGT
44771610 TTAAGGTT
1 TTAAGG-T
*
44771618 TTTAGGT
1 TTAAGGT
*
44771625 TTAGGGT
1 TTAAGGT
**
44771632 TTGAGATTT
1 TT-A-AGGT
44771641 TTAA-G-
1 TTAAGGT
*
44771646 TTAAGGG
1 TTAAGGT
*
44771653 TTAGGGTT
1 TTAAGG-T
*
44771661 TTTAGGT
1 TTAAGGT
*
44771668 TTAGGGT
1 TTAAGGT
44771675 TTAAGGTTTT
1 TTAAGG---T
44771685 TTAA-GT
1 TTAAGGT
*
44771691 TTAAAGT
1 TTAAGGT
44771698 TTAAGGT
1 TTAAGGT
44771705 TT
1 TT
44771707 TTAGGTTTGG
Statistics
Matches: 125, Mismatches: 24, Indels: 39
0.66 0.13 0.21
Matches are distributed among these distances:
5 4 0.03
6 20 0.16
7 60 0.48
8 28 0.22
9 7 0.06
10 6 0.05
ACGTcount: A:0.21, C:0.01, G:0.28, T:0.51
Consensus pattern (7 bp):
TTAAGGT
Found at i:44771563 original size:22 final size:21
Alignment explanation
Indices: 44771538--44772179 Score: 227
Period size: 22 Copynumber: 29.6 Consensus size: 21
44771528 AAGTTAAGGC
44771538 TTTAAGGTTTAGTGTTTTTAAG
1 TTTAAGGTTTAG-GTTTTTAAG
*
44771560 TTTATGGTTTATGGTTTTT-AG
1 TTTAAGGTTTA-GGTTTTTAAG
* *
44771581 GTTAGGGTTTATGG-TTTTAAG
1 TTTAAGGTTTA-GGTTTTTAAG
* *
44771602 TTTAGGGTTTAAGGTTTTTAGG
1 TTTAAGGTTT-AGGTTTTTAAG
* *
44771624 TTTAGGGTTTGAGATTTTTAAG
1 TTTAAGGTTT-AGGTTTTTAAG
* *
44771646 -TTAAGGGTTAGGGTTTTTAGG
1 TTTAAGGTTTA-GGTTTTTAAG
*
44771667 TTTAGGGTTTAAGGTTTTTTAAG
1 TTTAAGGTTT-AGG-TTTTTAAG
* *
44771690 TTTAAAGTTTAAGGTTTTTAGG
1 TTTAAGGTTT-AGGTTTTTAAG
** * *
44771712 TTTGGGGTTTTTAAG--TTTAGGG
1 TTTAAGG--TTTAGGTTTTTA-AG
*
44771734 TTTATGGTTTAGTGTTTTTAAG
1 TTTAAGGTTTAG-GTTTTTAAG
* *
44771756 TTAAAGG-TTAGCATTTTTAA-
1 TTTAAGGTTTAG-GTTTTTAAG
* *
44771776 TTTAAGGGTTAGGGTTTTAAG
1 TTTAAGGTTTAGGTTTTTAAG
* ** *
44771797 -TTAAGGGTTAGG--ACTAGG
1 TTTAAGGTTTAGGTTTTTAAG
* * *
44771815 GTT-AGGATTTTAAAG--TTAAAG
1 TTTAAGG--TTT-AGGTTTTTAAG
*
44771836 TTTTAGA-GTTTAGGGTTTTAAG
1 -TTTA-AGGTTTAGGTTTTTAAG
44771858 TTTAAGGTTTATGGTTTTTAAG
1 TTTAAGGTTTA-GGTTTTTAAG
* *
44771880 -TTAGGGTTTATGATTTAGGGTTTAAAG
1 TTTAAGGTTTA-G-GTT----TTT-AAG
* * *
44771907 TTAAAGGTTTATGGTTTAT-GG
1 TTTAAGGTTTA-GGTTTTTAAG
* * *
44771928 TTTTGAA-TTTTAGGGTTTATAAT
1 -TTT-AAGGTTTA-GGTTTTTAAG
* *
44771951 TTTTAGGTTTAGGGTTTTTAGG
1 TTTAAGGTTTA-GGTTTTTAAG
* * *
44771973 TTTAGGGTTTAAAGTTTTCAAG
1 TTTAAGGTTT-AGGTTTTTAAG
*
44771995 -TTAAGAG-TTAGGGTTTTTAGG
1 TTTAAG-GTTTA-GGTTTTTAAG
*
44772016 TTTAGGGTTTTTAGG-TTTTAAG
1 TTTAAGG--TTTAGGTTTTTAAG
* *
44772038 TTTAGGGTTTAAGGTTTTTAGG
1 TTTAAGGTTT-AGGTTTTTAAG
*
44772060 TTTAATGTTTAGGGGTTTTTAAG
1 TTTAAGGTTTA--GGTTTTTAAG
*
44772083 TTTAGGGTTTAGGGTTTTT-AG
1 TTTAAGGTTTA-GGTTTTTAAG
*
44772104 TTTTAAGGTTTGGGGTTTTTAAG
1 -TTTAAGGTTT-AGGTTTTTAAG
* *
44772127 -TTAAGGATTAGCATTTTTAA-
1 TTTAAGGTTTAG-GTTTTTAAG
*
44772147 TTTAAAGGTTAAGG-TTTTAAG
1 TTT-AAGGTTTAGGTTTTTAAG
*
44772168 -TTAAGGATTAGG
1 TTTAAGGTTTAGG
44772180 GTTAGGGTTG
Statistics
Matches: 474, Mismatches: 90, Indels: 115
0.70 0.13 0.17
Matches are distributed among these distances:
18 6 0.01
19 10 0.02
20 51 0.11
21 128 0.27
22 199 0.42
23 55 0.12
24 7 0.01
26 3 0.01
27 5 0.01
28 10 0.02
ACGTcount: A:0.23, C:0.01, G:0.28, T:0.49
Consensus pattern (21 bp):
TTTAAGGTTTAGGTTTTTAAG
Found at i:44771589 original size:21 final size:21
Alignment explanation
Indices: 44771543--44771713 Score: 148
Period size: 21 Copynumber: 7.9 Consensus size: 21
44771533 AAGGCTTTAA
* *
44771543 GGTTT-AGTGTTTTTAAGTTTAT
1 GGTTTAAG-GTTTTT-AGGTTAG
*
44771565 GGTTTATGGTTTTTAGGTTAG
1 GGTTTAAGGTTTTTAGGTTAG
* * *
44771586 GGTTTATGGTTTTAAGTTTAG
1 GGTTTAAGGTTTTTAGGTTAG
44771607 GGTTTAAGGTTTTTAGGTTTAG
1 GGTTTAAGGTTTTTAGG-TTAG
* * *
44771629 GGTTTGAGATTTTTAAGTTAAG
1 GGTTTAAGGTTTTTAGGTT-AG
*
44771651 GG-TTAGGGTTTTTAGGTTTAG
1 GGTTTAAGGTTTTTAGG-TTAG
* *
44771672 GGTTTAAGGTTTTTTAAGTTTAA
1 GGTTTAAGG-TTTTT-AGGTTAG
*
44771695 AGTTTAAGGTTTTTAGGTT
1 GGTTTAAGGTTTTTAGGTT
44771714 TGGGGTTTTT
Statistics
Matches: 122, Mismatches: 20, Indels: 15
0.78 0.13 0.10
Matches are distributed among these distances:
21 58 0.48
22 45 0.37
23 17 0.14
24 2 0.02
ACGTcount: A:0.20, C:0.00, G:0.29, T:0.51
Consensus pattern (21 bp):
GGTTTAAGGTTTTTAGGTTAG
Found at i:44771673 original size:15 final size:15
Alignment explanation
Indices: 44771653--44771753 Score: 66
Period size: 15 Copynumber: 6.8 Consensus size: 15
44771643 AAGTTAAGGG
44771653 TTAGGGTTTTTAGGT
1 TTAGGGTTTTTAGGT
*
44771668 TTAGGG-TTTAAGGTTTT
1 TTAGGGTTTTTAGG---T
* * *
44771685 TTA-AG-TTTAAAGT
1 TTAGGGTTTTTAGGT
*
44771698 TTAAGGTTTTTAGGT
1 TTAGGGTTTTTAGGT
* *
44771713 TTGGGGTTTTTAAGT
1 TTAGGGTTTTTAGGT
*
44771728 TTAGGGTTTAT-GGT
1 TTAGGGTTTTTAGGT
*
44771742 TTAGTGTTTTTA
1 TTAGGGTTTTTA
44771754 AGTTAAAGGT
Statistics
Matches: 66, Mismatches: 14, Indels: 12
0.72 0.15 0.13
Matches are distributed among these distances:
13 4 0.06
14 18 0.27
15 33 0.50
16 7 0.11
17 4 0.06
ACGTcount: A:0.19, C:0.00, G:0.28, T:0.53
Consensus pattern (15 bp):
TTAGGGTTTTTAGGT
Found at i:44771706 original size:37 final size:36
Alignment explanation
Indices: 44771664--44771750 Score: 86
Period size: 37 Copynumber: 2.4 Consensus size: 36
44771654 TAGGGTTTTT
*
44771664 AGGTTTAGGGTTTAAGGTTTTTTAAGTTTAAAGTTTA
1 AGGTTTAGGGTTT-AGGGTTTTTAAGTTTAAAGTTTA
* **
44771701 AGGTTTTTA-GGTTTGGGGTTTTTAAGTTTAGGGTTTA
1 AGG--TTTAGGGTTTAGGGTTTTTAAGTTTAAAGTTTA
* *
44771738 TGGTTTAGTGTTT
1 AGGTTTAGGGTTT
44771751 TTAAGTTAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
35 4 0.10
36 4 0.10
37 24 0.59
38 5 0.12
39 4 0.10
ACGTcount: A:0.20, C:0.00, G:0.29, T:0.52
Consensus pattern (36 bp):
AGGTTTAGGGTTTAGGGTTTTTAAGTTTAAAGTTTA
Found at i:44771743 original size:29 final size:30
Alignment explanation
Indices: 44771608--44771764 Score: 96
Period size: 29 Copynumber: 5.3 Consensus size: 30
44771598 TAAGTTTAGG
* *
44771608 GTTTAAGGTTTTTAGGTTTAGGG-TTTGAGA
1 GTTTAAGGTTTATAGGTTTAGGGTTTTTA-A
* * *
44771638 TTTTTAA-G-TTA-AGGGTTAGGGTTTTTAG
1 -GTTTAAGGTTTATAGGTTTAGGGTTTTTAA
* * *
44771666 GTTTAGGGTTTA-AGGTTTTTTA-AG-TTTAAA
1 GTTTAAGGTTTATAGG---TTTAGGGTTTTTAA
* *
44771696 GTTTAAGGTTTTTAGGTTTGGGGTTTTTAA
1 GTTTAAGGTTTATAGGTTTAGGGTTTTTAA
* *
44771726 GTTTAGGGTTTAT-GGTTTAGTGTTTTTAA
1 GTTTAAGGTTTATAGGTTTAGGGTTTTTAA
*
44771755 GTTAAAGGTT
1 GTTTAAGGTT
44771765 AGCATTTTTA
Statistics
Matches: 95, Mismatches: 22, Indels: 20
0.69 0.16 0.15
Matches are distributed among these distances:
27 4 0.04
28 13 0.14
29 35 0.37
30 31 0.33
31 9 0.09
32 3 0.03
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (30 bp):
GTTTAAGGTTTATAGGTTTAGGGTTTTTAA
Found at i:44771766 original size:21 final size:20
Alignment explanation
Indices: 44771742--44771808 Score: 80
Period size: 21 Copynumber: 3.2 Consensus size: 20
44771732 GGTTTATGGT
*
44771742 TTAGTGTTTTTAAGTTAAAGG
1 TTAG-GTTTTTAAGTTAAGGG
* *
44771763 TTAGCATTTTTAATTTAAGGG
1 TTAG-GTTTTTAAGTTAAGGG
*
44771784 TTAGGGTTTTAAGTTAAGGG
1 TTAGGTTTTTAAGTTAAGGG
44771804 TTAGG
1 TTAGG
44771809 ACTAGGGTTA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
20 18 0.46
21 21 0.54
ACGTcount: A:0.27, C:0.01, G:0.27, T:0.45
Consensus pattern (20 bp):
TTAGGTTTTTAAGTTAAGGG
Found at i:44771808 original size:20 final size:20
Alignment explanation
Indices: 44771749--44771808 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
44771739 GGTTTAGTGT
* **
44771749 TTTTAAGTTAAAGGTTAGCAT
1 TTTTAAGTTAAGGGTTAG-GG
*
44771770 TTTTAATTTAAGGGTTAGGG
1 TTTTAAGTTAAGGGTTAGGG
44771790 TTTTAAGTTAAGGGTTAGG
1 TTTTAAGTTAAGGGTTAGG
44771809 ACTAGGGTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 18 0.53
21 16 0.47
ACGTcount: A:0.28, C:0.02, G:0.27, T:0.43
Consensus pattern (20 bp):
TTTTAAGTTAAGGGTTAGGG
Found at i:44771859 original size:14 final size:15
Alignment explanation
Indices: 44771830--44771867 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
44771820 GATTTTAAAG
*
44771830 TTAAAGTTTTAGAGT
1 TTAAGGTTTTAGAGT
*
44771845 TTAGGGTTTTA-AGT
1 TTAAGGTTTTAGAGT
44771859 TTAAGGTTT
1 TTAAGGTTT
44771868 ATGGTTTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 11 0.55
15 9 0.45
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (15 bp):
TTAAGGTTTTAGAGT
Found at i:44771953 original size:15 final size:15
Alignment explanation
Indices: 44771864--44771949 Score: 56
Period size: 14 Copynumber: 6.0 Consensus size: 15
44771854 TAAGTTTAAG
* *
44771864 GTTTATGGTTTTTAA
1 GTTTAGGGTTTATAA
*
44771879 G-TTAGGGTTTATGA
1 GTTTAGGGTTTATAA
44771893 -TTTAGGGTTTA-AA
1 GTTTAGGGTTTATAA
* * *
44771906 GTTAAAGGTTTAT-G
1 GTTTAGGGTTTATAA
*
44771920 GTTTATGGTTT-TGAA
1 GTTTAGGGTTTAT-AA
*
44771935 TTTTAGGGTTTATAA
1 GTTTAGGGTTTATAA
44771950 TTTTTAGGTT
Statistics
Matches: 53, Mismatches: 12, Indels: 12
0.69 0.16 0.16
Matches are distributed among these distances:
13 2 0.04
14 38 0.72
15 12 0.23
16 1 0.02
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (15 bp):
GTTTAGGGTTTATAA
Found at i:44771959 original size:15 final size:15
Alignment explanation
Indices: 44771921--44771977 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
44771911 AGGTTTATGG
*
44771921 TTTATGGTTTTGAA-T
1 TTTA-GGTTTAGAATT
*
44771936 TTTAGGGTTTATAATT
1 TTTA-GGTTTAGAATT
**
44771952 TTTAGGTTTAGGGTT
1 TTTAGGTTTAGAATT
44771967 TTTAGGTTTAG
1 TTTAGGTTTAG
44771978 GGTTTAAAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
15 30 0.86
16 5 0.14
ACGTcount: A:0.19, C:0.00, G:0.25, T:0.56
Consensus pattern (15 bp):
TTTAGGTTTAGAATT
Found at i:44771978 original size:15 final size:15
Alignment explanation
Indices: 44771950--44772063 Score: 80
Period size: 15 Copynumber: 7.8 Consensus size: 15
44771940 GGGTTTATAA
44771950 TTTTTAGGTTTAGGG
1 TTTTTAGGTTTAGGG
44771965 TTTTTAGGTTTAGGG
1 TTTTTAGGTTTAGGG
** * *
44771980 TTTAAAGTTTTCA-AG
1 TTTTTAGGTTT-AGGG
*
44771995 --TTAAGAG-TTAGGG
1 TTTTTAG-GTTTAGGG
44772008 TTTTTAGGTTTAGGG
1 TTTTTAGGTTTAGGG
*
44772023 TTTTTAGGTTTTA-AG
1 TTTTTAGG-TTTAGGG
*
44772038 --TTTAGGGTTTAAGG
1 TTTTTA-GGTTTAGGG
44772052 TTTTTAGGTTTA
1 TTTTTAGGTTTA
44772064 ATGTTTAGGG
Statistics
Matches: 78, Mismatches: 10, Indels: 22
0.71 0.09 0.20
Matches are distributed among these distances:
12 1 0.01
13 15 0.19
14 4 0.05
15 49 0.63
16 9 0.12
ACGTcount: A:0.20, C:0.01, G:0.28, T:0.51
Consensus pattern (15 bp):
TTTTTAGGTTTAGGG
Found at i:44772046 original size:29 final size:29
Alignment explanation
Indices: 44772010--44772073 Score: 96
Period size: 29 Copynumber: 2.2 Consensus size: 29
44772000 AGTTAGGGTT
*
44772010 TTTA-GGTTTAGGGTTTTTAGGTTTTAA-G
1 TTTAGGGTTTAAGGTTTTTAGG-TTTAATG
44772038 TTTAGGGTTTAAGGTTTTTAGGTTTAATG
1 TTTAGGGTTTAAGGTTTTTAGGTTTAATG
44772067 TTTAGGG
1 TTTAGGG
44772074 GTTTTTAAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
28 9 0.27
29 24 0.73
ACGTcount: A:0.19, C:0.00, G:0.30, T:0.52
Consensus pattern (29 bp):
TTTAGGGTTTAAGGTTTTTAGGTTTAATG
Found at i:44772076 original size:15 final size:13
Alignment explanation
Indices: 44772025--44772093 Score: 59
Period size: 13 Copynumber: 4.8 Consensus size: 13
44772015 GTTTAGGGTT
*
44772025 TTTAGGTTTTAAG
1 TTTAGGGTTTAAG
44772038 TTTAGGGTTTAAGG
1 TTTAGGGTTTAA-G
44772052 TTTTTA-GGTTTAATG
1 --TTTAGGGTTTAA-G
44772067 TTTAGGGGTTTTTAAG
1 TTTA-GGG--TTTAAG
44772083 TTTAGGGTTTA
1 TTTAGGGTTTA
44772094 GGGTTTTTAG
Statistics
Matches: 47, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
13 19 0.40
14 1 0.02
15 13 0.28
16 9 0.19
17 5 0.11
ACGTcount: A:0.20, C:0.00, G:0.28, T:0.52
Consensus pattern (13 bp):
TTTAGGGTTTAAG
Found at i:44772210 original size:14 final size:13
Alignment explanation
Indices: 44772154--44772229 Score: 55
Period size: 13 Copynumber: 5.5 Consensus size: 13
44772144 TAATTTAAAG
44772154 GTTAAGGTTTTAA
1 GTTAAGGTTTTAA
* *
44772167 GTTAAGG-ATTAGG
1 GTTAAGGTTTTA-A
* *
44772180 GTTAGGGTTGTAAA
1 GTTAAGGTT-TTAA
44772194 GTTAAGGTTTTAGA
1 GTTAAGGTTTTA-A
*
44772208 GTTTAGGATTTTTAA
1 GTTAAGG--TTTTAA
44772223 GTTAAGG
1 GTTAAGG
44772230 GTCTAAGGTT
Statistics
Matches: 47, Mismatches: 10, Indels: 10
0.70 0.15 0.15
Matches are distributed among these distances:
12 3 0.06
13 15 0.32
14 15 0.32
15 9 0.19
16 5 0.11
ACGTcount: A:0.29, C:0.00, G:0.30, T:0.41
Consensus pattern (13 bp):
GTTAAGGTTTTAA
Found at i:44772240 original size:29 final size:27
Alignment explanation
Indices: 44772161--44772243 Score: 76
Period size: 29 Copynumber: 2.9 Consensus size: 27
44772151 AAGGTTAAGG
* * *
44772161 TTTTAAGTTAAGGATTAGGGTTAGGGT
1 TTTTAAGTTAAGGGTTAGGTTTAGGAT
* * *
44772188 TGTAAAGTTAAGGTTTTAGAGTTTAGGAT
1 TTTTAAGTTAAGG-GTTAG-GTTTAGGAT
44772217 TTTTAAGTTAAGGGTCTAAGGTTTAGG
1 TTTTAAGTTAAGGGT-T-AGGTTTAGG
44772244 GTTTAAAGTT
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
27 11 0.25
28 5 0.11
29 26 0.59
30 2 0.05
ACGTcount: A:0.28, C:0.01, G:0.30, T:0.41
Consensus pattern (27 bp):
TTTTAAGTTAAGGGTTAGGTTTAGGAT
Found at i:44772254 original size:14 final size:14
Alignment explanation
Indices: 44772181--44772269 Score: 61
Period size: 15 Copynumber: 6.1 Consensus size: 14
44772171 AGGATTAGGG
44772181 TTAGGGTTGTAAAGT
1 TTAGGGTT-TAAAGT
* * *
44772196 TAAGGTTTTAGAGT
1 TTAGGGTTTAAAGT
* *
44772210 TTAGGATTTTTAAGT
1 TTAGG-GTTTAAAGT
* * *
44772225 TAAGGGTCTAAGGT
1 TTAGGGTTTAAAGT
44772239 TTAGGGTTTAAAGTT
1 TTAGGGTTTAAAG-T
* *
44772254 TTAGGATTTAAGGT
1 TTAGGGTTTAAAGT
44772268 TT
1 TT
44772270 TTAGGTTTAG
Statistics
Matches: 56, Mismatches: 16, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
14 27 0.48
15 29 0.52
ACGTcount: A:0.27, C:0.01, G:0.28, T:0.44
Consensus pattern (14 bp):
TTAGGGTTTAAAGT
Found at i:44772284 original size:15 final size:16
Alignment explanation
Indices: 44772238--44772278 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
44772228 GGGTCTAAGG
* *
44772238 TTTAGGGTTTAAAG-T
1 TTTAGGATTTAAGGTT
44772253 TTTAGGATTTAAGGTT
1 TTTAGGATTTAAGGTT
44772269 TTTAGG-TTTA
1 TTTAGGATTTA
44772279 GTGTTTGTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 16 0.70
16 7 0.30
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.51
Consensus pattern (16 bp):
TTTAGGATTTAAGGTT
Found at i:44772372 original size:43 final size:42
Alignment explanation
Indices: 44771538--44771721 Score: 192
Period size: 43 Copynumber: 4.2 Consensus size: 42
44771528 AAGTTAAGGC
* * * *
44771538 TTTAAGGTTTAGTGTTTTTAAGTTTATGGTTTATGGTTTTTAGG
1 TTTAGGGTTTAG-GTTTTTAAG-TTAAGGGTTAAGGTTTTTAGG
*
44771582 -TTAGGGTTTATGG-TTTTAAGTTTAGGGTTTAAGGTTTTTAGG
1 TTTAGGGTTTA-GGTTTTTAAGTTAAGGG-TTAAGGTTTTTAGG
* *
44771624 TTTAGGGTTTGAGATTTTTAAGTTAAGGGTTAGGGTTTTTAGG
1 TTTAGGGTTT-AGGTTTTTAAGTTAAGGGTTAAGGTTTTTAGG
* *
44771667 TTTAGGGTTTAAGGTTTTTTAAGTTTAAAGTTTAAGGTTTTTAGG
1 TTTAGGGTTT-AGG-TTTTTAAG-TTAAGGGTTAAGGTTTTTAGG
*
44771712 TTTGGGGTTT
1 TTTAGGGTTT
44771722 TTAAGTTTAG
Statistics
Matches: 119, Mismatches: 14, Indels: 13
0.82 0.10 0.09
Matches are distributed among these distances:
41 4 0.03
42 20 0.17
43 45 0.38
44 23 0.19
45 27 0.23
ACGTcount: A:0.20, C:0.00, G:0.29, T:0.52
Consensus pattern (42 bp):
TTTAGGGTTTAGGTTTTTAAGTTAAGGGTTAAGGTTTTTAGG
Found at i:44772400 original size:43 final size:43
Alignment explanation
Indices: 44772236--44772745 Score: 224
Period size: 43 Copynumber: 11.5 Consensus size: 43
44772226 AAGGGTCTAA
* *
44772236 GGTTTAGGGTTTAAAGTTTTAGGATTTAAGGTTTTTAGGTTTAG
1 GGTTTAGGGTTTTAAG-TTTAGGGTTTAAGGTTTTTAGGTTTAG
* * * ** * *
44772280 TGTTT-GTGGTTTTTAAGATTAAGGTTTGGGGTTTTTATGTTTAA
1 GGTTTAG-GG-TTTTAAGTTTAGGGTTTAAGGTTTTTAGGTTTAG
* * *
44772324 GGTTTAGAGTTTTTAAGTTAAGGG-TTAAGGTTTTTAGGTTTGG
1 GGTTTAG-GGTTTTAAGTTTAGGGTTTAAGGTTTTTAGGTTTAG
* * *
44772367 GGTTTATGGTTTTAAGTTTAGGGTTTAATGTTTTTAGATTTAG
1 GGTTTAGGGTTTTAAGTTTAGGGTTTAAGGTTTTTAGGTTTAG
* * * * **
44772410 AGATTGGGGTTTAAAGTTTAGGGTTTGGGGTTTTTAGGTTTAG
1 GGTTTAGGGTTTTAAGTTTAGGGTTTAAGGTTTTTAGGTTTAG
* *
44772453 GGTTTTTAAGTTAAGG-GTTAAGATTAGGG-TT-AGTGTTTTAAAGTTAAGGTTTTAG
1 GG--TTT-AG----GGTTTTAAGTTTAGGGTTTAAG-G-TTT----TT-AGG-TTTAG
* *
44772508 GGTTTATGGTTTTTAAGTTTAGGGCTTATA-GTTTTTAGGTTTAG
1 GGTTTA-GGGTTTTAAGTTTAGGGTTTA-AGGTTTTTAGGTTTAG
* *
44772552 AGTTTTTA-GG-TTT-AGTGTTTGTGGTTTTTAA-G--TTTAGGGTTTAG
1 -G-GTTTAGGGTTTTAAGT-TTAG-GG--TTTAAGGTTTTTA-GGTTTAG
* * ** * *
44772596 GGTTTAGGG-TTTAGGTTTATGGTTTGGGGTTTTTAAGTTAAG
1 GGTTTAGGGTTTTAAGTTTAGGGTTTAAGGTTTTTAGGTTTAG
** * * *
44772638 GG-TTATGATTTTTAGGTTTAGGGTTT-AGGGTTTTATGTTTAG
1 GGTTTA-GGGTTTTAAGTTTAGGGTTTAAGGTTTTTAGGTTTAG
* * * * *
44772680 AGTCTAAGGTTTTTAAGTTTAGGGTTTGAGGTTTTTAAGTTTAG
1 GGT-TTAGGGTTTTAAGTTTAGGGTTTAAGGTTTTTAGGTTTAG
* *
44772724 GG-TTAGTGTTTTTAGGTTTAGG
1 GGTTTAG-GGTTTTAAGTTTAGG
44772746 ATGAGGGTTT
Statistics
Matches: 351, Mismatches: 73, Indels: 85
0.69 0.14 0.17
Matches are distributed among these distances:
40 3 0.01
41 4 0.01
42 47 0.13
43 141 0.40
44 75 0.21
45 16 0.05
46 10 0.03
47 1 0.00
48 3 0.01
49 14 0.04
50 16 0.05
51 3 0.01
52 1 0.00
53 7 0.02
54 3 0.01
55 7 0.02
ACGTcount: A:0.20, C:0.00, G:0.30, T:0.49
Consensus pattern (43 bp):
GGTTTAGGGTTTTAAGTTTAGGGTTTAAGGTTTTTAGGTTTAG
Found at i:44772454 original size:22 final size:22
Alignment explanation
Indices: 44771936--44772759 Score: 313
Period size: 22 Copynumber: 36.6 Consensus size: 22
44771926 GGTTTTGAAT
* *
44771936 TTTAGGGTTTATAATTTTTA-GG
1 TTTAGGGTTTTTAA-GTTTAGGG
*
44771958 TTTAGGGTTTTTAGGTTTAGGG
1 TTTAGGGTTTTTAAGTTTAGGG
** * * *
44771980 TTTAAAGTTTTCAAGTTAAGAG
1 TTTAGGGTTTTTAAGTTTAGGG
*
44772002 -TTAGGGTTTTTAGGTTTAGGG
1 TTTAGGGTTTTTAAGTTTAGGG
44772023 TTTTTA-GG-TTTTAAGTTTAGGG
1 --TTTAGGGTTTTTAAGTTTAGGG
* * **
44772045 TTTAAGGTTTTTAGGTTTAATG
1 TTTAGGGTTTTTAAGTTTAGGG
44772067 TTTAGGGGTTTTTAAGTTTAGGG
1 TTTA-GGGTTTTTAAGTTTAGGG
*
44772090 TTTAGGGTTTTT-AGTTTTAAGG
1 TTTAGGGTTTTTAAG-TTTAGGG
* *
44772112 TTTGGGGTTTTTAAG-TTAAGG
1 TTTAGGGTTTTTAAGTTTAGGG
* ** *
44772133 ATTAGCATTTTTAA-TTTAAAGG
1 TTTAGGGTTTTTAAGTTT-AGGG
* * *
44772155 TTAAGGTTTTAAGTTAAGGATTAGGG
1 TTTAGGGTTT---TTAA-GTTTAGGG
*
44772181 -TTAGGGTTGTAAAGTTAAGGTTTTAGAG
1 TTTAGGGTT-T----TTAA-G-TTTAGGG
* *
44772209 TTTAGGATTTTTAAGTTAAGGG
1 TTTAGGGTTTTTAAGTTTAGGG
* * **
44772231 TCTAAGGTTTAGGGTTTAAAGTTTTAGG
1 T-TTAGGGTT----TTT-AAGTTTAGGG
* * *
44772259 ATTTAAGGTTTTTAGGTTTAGTG
1 -TTTAGGGTTTTTAAGTTTAGGG
* *
44772282 TTT-GTGGTTTTTAAGATTAAGG
1 TTTAG-GGTTTTTAAGTTTAGGG
* * *
44772304 TTTGGGGTTTTTATGTTTAAGG
1 TTTAGGGTTTTTAAGTTTAGGG
* *
44772326 TTTAGAGTTTTTAAGTTAAGGG
1 TTTAGGGTTTTTAAGTTTAGGG
* * *
44772348 -TTAAGGTTTTTAGGTTTGGGG
1 TTTAGGGTTTTTAAGTTTAGGG
*
44772369 TTTATGG-TTTTAAGTTTAGGG
1 TTTAGGGTTTTTAAGTTTAGGG
** *
44772390 TTTAATGTTTTT-AGATTTAGAG
1 TTTAGGGTTTTTAAG-TTTAGGG
* * *
44772412 ATT-GGGGTTTAAAGTTTAGGG
1 TTTAGGGTTTTTAAGTTTAGGG
*
44772433 TTT-GGG--GTT---TTTA-GG
1 TTTAGGGTTTTTAAGTTTAGGG
*
44772448 TTTAGGGTTTTTAAGTTAAGGG
1 TTTAGGGTTTTTAAGTTTAGGG
* *
44772470 TTAAGATTAGGGTTAGTGTTTTAAAGTTAAGGT
1 -T----TTAGGG----T-TTTT-AAGTTTAGGG
* * *
44772503 TTTAGGGTTTAT-GGTTTTTA-AG
1 TTTAGGGTTTTTAAG--TTTAGGG
* *
44772525 TTTAGGGCTTAT-AGTTTTTA-GG
1 TTTAGGGTTTTTAAG--TTTAGGG
* * *
44772547 TTTAGAGTTTTTAGGTTTAGTG
1 TTTAGGGTTTTTAAGTTTAGGG
44772569 TTT-GTGGTTTTTAAGTTTAGGG
1 TTTAG-GGTTTTTAAGTTTAGGG
* *
44772591 TTTAGGGTTTAGGGTTTAGGTTTATGG
1 TTTAGGG-TT----TTTAAGTTTAGGG
* *
44772618 TTTGGGGTTTTTAAGTTAAGGG
1 TTTAGGGTTTTTAAGTTTAGGG
* * *
44772640 -TTATGATTTTTAGGTTTAGGG
1 TTTAGGGTTTTTAAGTTTAGGG
* *
44772661 TTTAGGG-TTTTATGTTTAGAG
1 TTTAGGGTTTTTAAGTTTAGGG
* *
44772682 TCTAAGGTTTTTAAGTTTAGGG
1 TTTAGGGTTTTTAAGTTTAGGG
44772704 TTT-GAGGTTTTTAAGTTTAGGG
1 TTTAG-GGTTTTTAAGTTTAGGG
* *
44772726 -TTAGTGTTTTTAGGTTTA-GG
1 TTTAGGGTTTTTAAGTTTAGGG
* *
44772746 ATGAGGGTTTTTAA
1 TTTAGGGTTTTTAA
44772760 ATTAAGTGTT
Statistics
Matches: 604, Mismatches: 131, Indels: 135
0.69 0.15 0.16
Matches are distributed among these distances:
15 5 0.01
16 7 0.01
18 2 0.00
19 1 0.00
20 6 0.01
21 157 0.26
22 268 0.44
23 47 0.08
24 11 0.02
25 10 0.02
26 6 0.01
27 37 0.06
28 24 0.04
29 8 0.01
31 1 0.00
32 5 0.01
33 9 0.01
ACGTcount: A:0.21, C:0.01, G:0.29, T:0.49
Consensus pattern (22 bp):
TTTAGGGTTTTTAAGTTTAGGG
Found at i:44772455 original size:15 final size:15
Alignment explanation
Indices: 44772426--44772471 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
44772416 GGGTTTAAAG
*
44772426 TTTAGGGTTTGGGGTT
1 TTTA-GGTTTAGGGTT
44772442 TTTAGGTTTAGGGTT
1 TTTAGGTTTAGGGTT
* *
44772457 TTTAAGTTAAGGGTT
1 TTTAGGTTTAGGGTT
44772472 AAGATTAGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 23 0.85
16 4 0.15
ACGTcount: A:0.15, C:0.00, G:0.35, T:0.50
Consensus pattern (15 bp):
TTTAGGTTTAGGGTT
Found at i:44772557 original size:15 final size:15
Alignment explanation
Indices: 44772537--44772571 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
44772527 TAGGGCTTAT
44772537 AGTTTTTAGGTTTAG
1 AGTTTTTAGGTTTAG
44772552 AGTTTTTAGGTTTAG
1 AGTTTTTAGGTTTAG
*
44772567 TGTTT
1 AGTTT
44772572 GTGGTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.17, C:0.00, G:0.26, T:0.57
Consensus pattern (15 bp):
AGTTTTTAGGTTTAG
Found at i:44772612 original size:13 final size:13
Alignment explanation
Indices: 44772578--44772620 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
44772568 GTTTGTGGTT
*
44772578 TTTAAGTTTAGGG
1 TTTAGGTTTAGGG
44772591 TTTAGGGTTTAGGG
1 TTTA-GGTTTAGGG
*
44772605 TTTAGGTTTATGG
1 TTTAGGTTTAGGG
44772618 TTT
1 TTT
44772621 GGGGTTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
13 15 0.56
14 12 0.44
ACGTcount: A:0.16, C:0.00, G:0.33, T:0.51
Consensus pattern (13 bp):
TTTAGGTTTAGGG
Found at i:44772626 original size:7 final size:7
Alignment explanation
Indices: 44772583--44772627 Score: 65
Period size: 7 Copynumber: 6.6 Consensus size: 7
44772573 TGGTTTTTAA
44772583 GTTTAGG
1 GTTTAGG
44772590 GTTTAGG
1 GTTTAGG
44772597 GTTTAGG
1 GTTTAGG
44772604 GTTTA-G
1 GTTTAGG
*
44772610 GTTTATG
1 GTTTAGG
*
44772617 GTTTGGG
1 GTTTAGG
44772624 GTTT
1 GTTT
44772628 TTAAGTTAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
6 6 0.17
7 29 0.83
ACGTcount: A:0.11, C:0.00, G:0.40, T:0.49
Consensus pattern (7 bp):
GTTTAGG
Found at i:44772651 original size:21 final size:21
Alignment explanation
Indices: 44772625--44772745 Score: 95
Period size: 21 Copynumber: 5.7 Consensus size: 21
44772615 TGGTTTGGGG
*
44772625 TTTTTAAGTTAAGGGTTATGA
1 TTTTTAAGTTTAGGGTTATGA
* *
44772646 TTTTTAGGTTTAGGGTT-TAGG
1 TTTTTAAGTTTAGGGTTAT-GA
* * * * *
44772667 GTTTTATGTTTAGAGTCTAAGG
1 TTTTTAAGTTTAGGGT-TATGA
44772689 TTTTTAAGTTTAGGGTT-TGA
1 TTTTTAAGTTTAGGGTTATGA
44772709 GGTTTTTAAGTTTAGGGTTAGTG-
1 --TTTTTAAGTTTAGGGTTA-TGA
*
44772732 TTTTTAGGTTTAGG
1 TTTTTAAGTTTAGG
44772746 ATGAGGGTTT
Statistics
Matches: 80, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
20 2 0.03
21 43 0.54
22 33 0.41
24 2 0.03
ACGTcount: A:0.20, C:0.01, G:0.29, T:0.50
Consensus pattern (21 bp):
TTTTTAAGTTTAGGGTTATGA
Found at i:44772755 original size:21 final size:21
Alignment explanation
Indices: 44772687--44772759 Score: 76
Period size: 21 Copynumber: 3.4 Consensus size: 21
44772677 TAGAGTCTAA
*
44772687 GGTTTTTAAGTTTAGGGTTTGA-
1 GGTTTTTAAGTTTA-GG-ATGAG
* *
44772709 GGTTTTTAAGTTTAGGGTTAG
1 GGTTTTTAAGTTTAGGATGAG
* *
44772730 TGTTTTTAGGTTTAGGATGAG
1 GGTTTTTAAGTTTAGGATGAG
44772751 GGTTTTTAA
1 GGTTTTTAA
44772760 ATTAAGTGTT
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
20 2 0.05
21 26 0.62
22 14 0.33
ACGTcount: A:0.19, C:0.00, G:0.32, T:0.49
Consensus pattern (21 bp):
GGTTTTTAAGTTTAGGATGAG
Found at i:44772826 original size:22 final size:22
Alignment explanation
Indices: 44772801--44772868 Score: 93
Period size: 22 Copynumber: 3.1 Consensus size: 22
44772791 AAGTTAAGGT
44772801 TTTAGGGTTTATGGTTTTTAAG
1 TTTAGGGTTTATGGTTTTTAAG
* *
44772823 TTTAGGGTTTATAGTTTTTATG
1 TTTAGGGTTTATGGTTTTTAAG
*
44772845 TTTAGGGTTT-GGAGTTTTTAAG
1 TTTAGGGTTTATG-GTTTTTAAG
44772867 TT
1 TT
44772869 AACAGTTAGG
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.18, C:0.00, G:0.26, T:0.56
Consensus pattern (22 bp):
TTTAGGGTTTATGGTTTTTAAG
Found at i:44772839 original size:29 final size:29
Alignment explanation
Indices: 44772784--44772839 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 29
44772774 TTAGGGTTAA
* *
44772784 GGTTTTAAAGTTAAGGTTTTAGGGTTTAT
1 GGTTTTAAAGTTAAGGGTTTAGAGTTTAT
* * *
44772813 GGTTTTTAAGTTTAGGGTTTATAGTTT
1 GGTTTTAAAGTTAAGGGTTTAGAGTTT
44772840 TTATGTTTAG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 22 1.00
ACGTcount: A:0.21, C:0.00, G:0.27, T:0.52
Consensus pattern (29 bp):
GGTTTTAAAGTTAAGGGTTTAGAGTTTAT
Found at i:44773384 original size:18 final size:18
Alignment explanation
Indices: 44773361--44773400 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
44773351 TACTCGGAAA
* *
44773361 AGGATACATATAAGGGTT
1 AGGATACATAAAAGGGCT
44773379 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
44773397 AGGA
1 AGGA
44773401 AACGCACCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.07, G:0.30, T:0.20
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:44775317 original size:11 final size:12
Alignment explanation
Indices: 44775301--44775355 Score: 73
Period size: 11 Copynumber: 4.8 Consensus size: 12
44775291 ATTAAATATG
44775301 AATTTGAGA-GA
1 AATTTGAGAGGA
44775312 AATTTG-GAAGGA
1 AATTTGAG-AGGA
44775324 AA-TTGAGAGGA
1 AATTTGAGAGGA
44775335 AA-TTGAGAGGA
1 AATTTGAGAGGA
44775346 AATTTGAGAG
1 AATTTGAGAG
44775356 AGTATTTGTT
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
10 1 0.03
11 27 0.68
12 12 0.30
ACGTcount: A:0.44, C:0.00, G:0.33, T:0.24
Consensus pattern (12 bp):
AATTTGAGAGGA
Found at i:44782088 original size:24 final size:24
Alignment explanation
Indices: 44782054--44782105 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
44782044 ATAAATTTAA
* *
44782054 AAATT-TTAAAAATA-AATAAACT
1 AAATTCTTAAAAATACAAAAAAAT
44782076 AAATTCTTAAAAATACAAAAAAAT
1 AAATTCTTAAAAATACAAAAAAAT
44782100 AAATTC
1 AAATTC
44782106 CTAATTTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 5 0.19
23 9 0.35
24 12 0.46
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (24 bp):
AAATTCTTAAAAATACAAAAAAAT
Found at i:44786262 original size:18 final size:17
Alignment explanation
Indices: 44786220--44786269 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
44786210 TAATATCGAT
44786220 TATTCAAATAA-AAAAG
1 TATTCAAATAACAAAAG
*
44786236 TATTTAAATAACAAAA-
1 TATTCAAATAACAAAAG
*
44786252 TAAATTCAAATTACAAAA
1 T--ATTCAAATAACAAAA
44786270 AGAAGTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
16 11 0.39
17 4 0.14
18 13 0.46
ACGTcount: A:0.62, C:0.08, G:0.02, T:0.28
Consensus pattern (17 bp):
TATTCAAATAACAAAAG
Done.