Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 182 of 333
Found at i:59727414 original size:65 final size:65
Alignment explanation
Indices: 59727306--59727431 Score: 216
Period size: 65 Copynumber: 1.9 Consensus size: 65
59727296 CATATAATAA
*
59727306 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAACATCCTAATTATTTGACATAAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAACATCCTAATTATTTGACATAAAGCAT
* * *
59727371 CACATTTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGGCATAAA
1 CACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAACATCCTAATTATTTGACATAAA
59727432 CATAGATACA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
65 57 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (65 bp):
CACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAACATCCTAATTATTTGACATAAAGCAT
Found at i:59727717 original size:68 final size:68
Alignment explanation
Indices: 59727634--59728139 Score: 832
Period size: 68 Copynumber: 7.4 Consensus size: 68
59727624 CTGAATTACA
* * *
59727634 AATCTCTTCTTCCTGAAATGGCGTTGGAGCGACTAAAAGCCACAGTAGATCTCATTGAAGTTTCA
1 AATCTCTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCA
59727699 GTG
66 GTG
* *
59727702 AATCTCTTCTTCCTGAAATGGCGTTGGAACGGCTAAAAGCCACAGCAGATCTTCTTGAAGTTTCA
1 AATCTCTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCA
59727767 GTG
66 GTG
*
59727770 AATCTCTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCATAGCAGATCTCCTTGAAGTTTCA
1 AATCTCTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCA
59727835 GTG
66 GTG
* * * *
59727838 AATCTCTTCTTCTTGAAATGTCATTGGAGCGGCTAAAAGCCACAGCAGATCTTCTTGAAGTTTCA
1 AATCTCTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCA
59727903 GTG
66 GTG
*
59727906 AATCTCTTCTTCTTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCA
1 AATCTCTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCA
59727971 GTG
66 GTG
* *
59727974 AATCTTTTCTTCCTGAAATGGCGTTGGAACGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCA
1 AATCTCTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCA
59728039 GTG
66 GTG
* * * ** *
59728042 AATCTCTTCTTCTTGAAATGGGGTTAGAGTAGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTTA
1 AATCTCTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCA
59728107 GTG
66 GTG
*
59728110 AATCTCTTCTTCATGAAATGGCGTTGGAGC
1 AATCTCTTCTTCCTGAAATGGCGTTGGAGC
59728140 TCAGTTTCAG
Statistics
Matches: 407, Mismatches: 31, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
68 407 1.00
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.30
Consensus pattern (68 bp):
AATCTCTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCA
GTG
Found at i:59728159 original size:42 final size:42
Alignment explanation
Indices: 59728100--59728180 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
59728090 ATCTCCTTGA
*
59728100 AGTTTTAGTGAATCTCTTCTTCATGAAATGGCGTTGGAGCTC
1 AGTTTCAGTGAATCTCTTCTTCATGAAATGGCGTTGGAGCTC
*
59728142 AGTTTCAGTGAATCTCTTCTTCCTGAAATGGCGTTGGAG
1 AGTTTCAGTGAATCTCTTCTTCATGAAATGGCGTTGGAG
59728181 TGGCTAAAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.37
Consensus pattern (42 bp):
AGTTTCAGTGAATCTCTTCTTCATGAAATGGCGTTGGAGCTC
Found at i:59728225 original size:110 final size:110
Alignment explanation
Indices: 59728032--59728249 Score: 364
Period size: 110 Copynumber: 2.0 Consensus size: 110
59728022 ATCTCCTTGA
* * *
59728032 AGTTTCAGTGAATCTCTTCTTCTTGAAATGGGGTTAGAGTAGCTAAAAGCCACAGCAGATCTCCT
1 AGTTTCAGTGAATCTCTTCTTCCTGAAATGGCGTTAGAGTAGCTAAAAGCCACAGCACATCTCCT
*
59728097 TGAAGTTTTAGTGAATCTCTTCTTCATGAAATGGCGTTGGAGCTC
66 TGAAGTTTCAGTGAATCTCTTCTTCATGAAATGGCGTTGGAGCTC
* * *
59728142 AGTTTCAGTGAATCTCTTCTTCCTGAAATGGCGTTGGAGTGGCTAAAAGCCACAGTACATCTCCT
1 AGTTTCAGTGAATCTCTTCTTCCTGAAATGGCGTTAGAGTAGCTAAAAGCCACAGCACATCTCCT
*
59728207 TGAAGTTTCAGTGAATCTCTTCTTCCTGAAATGGCGTTGGAGC
66 TGAAGTTTCAGTGAATCTCTTCTTCATGAAATGGCGTTGGAGC
59728250 AGCTAAAAGC
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
110 100 1.00
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (110 bp):
AGTTTCAGTGAATCTCTTCTTCCTGAAATGGCGTTAGAGTAGCTAAAAGCCACAGCACATCTCCT
TGAAGTTTCAGTGAATCTCTTCTTCATGAAATGGCGTTGGAGCTC
Found at i:59728263 original size:178 final size:179
Alignment explanation
Indices: 59727964--59728318 Score: 586
Period size: 178 Copynumber: 2.0 Consensus size: 179
59727954 ATCTCCTTGA
* *
59727964 AGTTTCAGTGAATCTTTTCTTCCTGAAATGGCGTTGGAACGGCTAAAAGCCACAGCAGATCTCCT
1 AGTTTCAGTGAATCTCTTCTTCCTGAAATGGCGTTGGAACGGCTAAAAGCCACAGCACATCTCCT
* * *
59728029 TGAAGTTTCAGTGAATCTCTTCTTCTTGAAATGGGGTTAGAGTAGCTAAAAGCCACAGCAGATCT
66 TGAAGTTTCAGTGAATCTCTTCTTCCTGAAATGGCGTTAGAGCAGCTAAAAGCCACAGCAGATCT
* *
59728094 CCTTGAAGTTTTAGTGAATCTCTTCTT-CATGAAATGGCGTTGGAGCTC
131 CCTTGAAGTTTCAGTGAATCTCTTCTTCCATGAAATGGCATTGGAGCTC
** *
59728142 AGTTTCAGTGAATCTCTTCTTCCTGAAATGGCGTTGGAGTGGCTAAAAGCCACAGTACATCTCCT
1 AGTTTCAGTGAATCTCTTCTTCCTGAAATGGCGTTGGAACGGCTAAAAGCCACAGCACATCTCCT
*
59728207 TGAAGTTTCAGTGAATCTCTTCTTCCTGAAATGGCGTTGGAGCAGCTAAAAGCCACAGCAGATCT
66 TGAAGTTTCAGTGAATCTCTTCTTCCTGAAATGGCGTTAGAGCAGCTAAAAGCCACAGCAGATCT
* *
59728272 CCTTGAAGTTTCAGTGGATCTCTTCTTCCTTGAAATGGCATTGGAGC
131 CCTTGAAGTTTCAGTGAATCTCTTCTTCCATGAAATGGCATTGGAGC
59728319 GGCTAAAAGC
Statistics
Matches: 163, Mismatches: 13, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
178 146 0.90
179 17 0.10
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.32
Consensus pattern (179 bp):
AGTTTCAGTGAATCTCTTCTTCCTGAAATGGCGTTGGAACGGCTAAAAGCCACAGCACATCTCCT
TGAAGTTTCAGTGAATCTCTTCTTCCTGAAATGGCGTTAGAGCAGCTAAAAGCCACAGCAGATCT
CCTTGAAGTTTCAGTGAATCTCTTCTTCCATGAAATGGCATTGGAGCTC
Found at i:59728340 original size:69 final size:68
Alignment explanation
Indices: 59728142--59728354 Score: 345
Period size: 68 Copynumber: 3.1 Consensus size: 68
59728132 GTTGGAGCTC
* *
59728142 AGTTTCAGTGAATCTCTTCTTCCTGAAATGGCGTTGGAGTGGCTAAAAGCCACAGTACATCTCCT
1 AGTTTCAGTGAATCTCTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGTAGATCTCCT
59728207 TGA
66 TGA
* *
59728210 AGTTTCAGTGAATCTCTTCTTCCTGAAATGGCGTTGGAGCAGCTAAAAGCCACAGCAGATCTCCT
1 AGTTTCAGTGAATCTCTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGTAGATCTCCT
59728275 TGA
66 TGA
* * *
59728278 AGTTTCAGTGGATCTCTTCTTCCTTGAAATGGCATTGGAGCGGCTAAAAGCCATAGTAGATCTCC
1 AGTTTCAGTGAATCTCTTCTTCC-TGAAATGGCGTTGGAGCGGCTAAAAGCCACAGTAGATCTCC
*
59728343 TTAA
65 TTGA
59728347 AGTTTCAG
1 AGTTTCAG
59728355 CGGAGTAGAT
Statistics
Matches: 134, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
68 86 0.64
69 48 0.36
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.31
Consensus pattern (68 bp):
AGTTTCAGTGAATCTCTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGTAGATCTCCT
TGA
Found at i:59729840 original size:15 final size:15
Alignment explanation
Indices: 59729822--59729871 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
59729812 AATTATTTTC
59729822 CTATTATTTATTATA
1 CTATTATTTATTATA
*
59729837 CTA-T-TTT-TTACA
1 CTATTATTTATTATA
59729849 CTATTATTTATTATA
1 CTATTATTTATTATA
59729864 CTTATTAT
1 C-TATTAT
59729872 ATCATTTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
12 7 0.24
13 4 0.14
14 4 0.14
15 8 0.28
16 6 0.21
ACGTcount: A:0.30, C:0.10, G:0.00, T:0.60
Consensus pattern (15 bp):
CTATTATTTATTATA
Found at i:59733546 original size:22 final size:22
Alignment explanation
Indices: 59733516--59733558 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
59733506 TAATTTTAAG
*
59733516 GAATGGAAAAGGCACTTACTTA
1 GAATAGAAAAGGCACTTACTTA
59733538 GAATAGAAAAGGCACTTACTT
1 GAATAGAAAAGGCACTTACTT
59733559 TTAGTGCTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.14, G:0.21, T:0.23
Consensus pattern (22 bp):
GAATAGAAAAGGCACTTACTTA
Found at i:59735886 original size:18 final size:18
Alignment explanation
Indices: 59735828--59735942 Score: 115
Period size: 18 Copynumber: 6.3 Consensus size: 18
59735818 AGCAATTAAT
*
59735828 CAATCAGTAATATTCATTAA
1 CAATCAGT--TATTCAGTAA
* *
59735848 CAATCAGTCAATCAG-AA
1 CAATCAGTTATTCAGTAA
* *
59735865 CAATTATTTATTCAGTAA
1 CAATCAGTTATTCAGTAA
*
59735883 CAATCAGTTATTCAGTAT
1 CAATCAGTTATTCAGTAA
* *
59735901 CAATCAATTATTCAATAA
1 CAATCAGTTATTCAGTAA
* *
59735919 TAATCAGTTATTCAGTAT
1 CAATCAGTTATTCAGTAA
59735937 CAATCA
1 CAATCA
59735943 ACTGATCGGT
Statistics
Matches: 76, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
17 13 0.17
18 55 0.72
20 8 0.11
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.35
Consensus pattern (18 bp):
CAATCAGTTATTCAGTAA
Found at i:59735924 original size:36 final size:36
Alignment explanation
Indices: 59735838--59735943 Score: 133
Period size: 36 Copynumber: 3.0 Consensus size: 36
59735828 CAATCAGTAA
* * * * * *
59735838 TATTCATTAACAATCAGTCAATCAG-AACAATTATT
1 TATTCAATAACAATCAGTTATTCAGTATCAATCAAT
*
59735873 TATTCAGTAACAATCAGTTATTCAGTATCAATCAAT
1 TATTCAATAACAATCAGTTATTCAGTATCAATCAAT
*
59735909 TATTCAATAATAATCAGTTATTCAGTATCAATCAA
1 TATTCAATAACAATCAGTTATTCAGTATCAATCAA
59735944 CTGATCGGTT
Statistics
Matches: 62, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
35 22 0.35
36 40 0.65
ACGTcount: A:0.42, C:0.16, G:0.07, T:0.36
Consensus pattern (36 bp):
TATTCAATAACAATCAGTTATTCAGTATCAATCAAT
Found at i:59736017 original size:19 final size:19
Alignment explanation
Indices: 59735968--59736017 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
59735958 AATAACAGTC
59735968 AATTATTCAGTAAAAATCA
1 AATTATTCAGTAAAAATCA
* * * *
59735987 GA-TATACAGTAACAATTA
1 AATTATTCAGTAAAAATCA
59736005 AATTATTCAGTAA
1 AATTATTCAGTAA
59736018 TAGTCGATCT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.50, C:0.10, G:0.08, T:0.32
Consensus pattern (19 bp):
AATTATTCAGTAAAAATCA
Found at i:59736254 original size:53 final size:53
Alignment explanation
Indices: 59736140--59736255 Score: 160
Period size: 53 Copynumber: 2.2 Consensus size: 53
59736130 GCCGAACAGT
* **
59736140 AACAGTAACAGTAGCAGTACAGTACACAGAGTACCTCATCAGAACAAATCCGA
1 AACAGTAACATTAATAGTACAGTACACAGAGTACCTCATCAGAACAAATCCGA
* * * *
59736193 AACGGTAACATTAATAGTACGGTACACAGAGTACCTCATCGGAACAAATCTGA
1 AACAGTAACATTAATAGTACAGTACACAGAGTACCTCATCAGAACAAATCCGA
*
59736246 AATAGTAACA
1 AACAGTAACA
59736256 GTAACAATAT
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.43, C:0.22, G:0.17, T:0.18
Consensus pattern (53 bp):
AACAGTAACATTAATAGTACAGTACACAGAGTACCTCATCAGAACAAATCCGA
Found at i:59738027 original size:12 final size:12
Alignment explanation
Indices: 59738010--59738034 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
59738000 GCCGACTACT
59738010 GTTACTGTTACC
1 GTTACTGTTACC
59738022 GTTACTGTTACC
1 GTTACTGTTACC
59738034 G
1 G
59738035 ATTCGACACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:59738141 original size:53 final size:53
Alignment explanation
Indices: 59738069--59738196 Score: 186
Period size: 53 Copynumber: 2.4 Consensus size: 53
59738059 TTATTATCAT
*
59738069 TACCGTTACTGTTACTGTTACTATT-TCGGGTTTGTTCTGATGAGGTACTCTATG
1 TACCG-TACTGTTACTGTTACTATTCT-GGATTTGTTCTGATGAGGTACTCTATG
* * *
59738123 TACCGTATTGTTACTGTTACCATTCTGGATTTGTTCTGATGAGGTACTCTGTG
1 TACCGTACTGTTACTGTTACTATTCTGGATTTGTTCTGATGAGGTACTCTATG
*
59738176 TACCGTACTGCTACTGTTACT
1 TACCGTACTGTTACTGTTACT
59738197 GTTATTGTTC
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
53 60 0.91
54 6 0.09
ACGTcount: A:0.17, C:0.19, G:0.21, T:0.43
Consensus pattern (53 bp):
TACCGTACTGTTACTGTTACTATTCTGGATTTGTTCTGATGAGGTACTCTATG
Found at i:59738374 original size:18 final size:18
Alignment explanation
Indices: 59738323--59738502 Score: 83
Period size: 18 Copynumber: 9.6 Consensus size: 18
59738313 AGATCGACTA
*
59738323 TTACTGAATAATTTAATTG
1 TTACTGAATAA-TTGATTG
* * *
59738342 TTACTGTATATTTGATTT
1 TTACTGAATAATTGATTG
*
59738360 TTACTGAATAATTGACTG
1 TTACTGAATAATTGATTG
*
59738378 TTATTGGATAACCAATCAATTGATTG
1 TTACT-G------AAT-AATTGATTG
* * **
59738404 ATACTGAATAACTGATCA
1 TTACTGAATAATTGATTG
*
59738422 TTATTGAATAATTGATTG
1 TTACTGAATAATTGATTG
* * * *
59738440 TTACCGAGTAACTGACTG
1 TTACTGAATAATTGATTG
* *
59738458 TTACTGAATAAATAATTG
1 TTACTGAATAATTGATTG
* * *
59738476 TT-CTGATTGACTGATTG
1 TTACTGAATAATTGATTG
*
59738493 TTAATGAATA
1 TTACTGAATA
59738503 TTACTGATTG
Statistics
Matches: 115, Mismatches: 37, Indels: 19
0.67 0.22 0.11
Matches are distributed among these distances:
17 13 0.11
18 74 0.64
19 13 0.11
25 4 0.03
26 11 0.10
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.42
Consensus pattern (18 bp):
TTACTGAATAATTGATTG
Found at i:59749627 original size:31 final size:31
Alignment explanation
Indices: 59749592--59749674 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 31
59749582 CTTCCTGCAT
*
59749592 TAAAATCCAACCAAATACAACAAATATAGTA
1 TAAAATCCAACCAAAAACAACAAATATAGTA
* * * * *
59749623 TAAAATGCAGCTAAAAACAGCAAATTTAGTA
1 TAAAATCCAACCAAAAACAACAAATATAGTA
*
59749654 TAAAAAATACAACCAAAAACA
1 T--AAAATCCAACCAAAAACA
59749675 TTAATTCTAA
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
31 26 0.63
33 15 0.37
ACGTcount: A:0.59, C:0.17, G:0.06, T:0.18
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAGTA
Found at i:59749970 original size:21 final size:21
Alignment explanation
Indices: 59749912--59749979 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
59749902 GCCACAGCTA
*
59749912 CTGCCTCTGCCTCCCTCGCTG
1 CTGCCGCTGCCTCCCTCGCTG
* *
59749933 CTACCGCTGCCTTCCTCGCTG
1 CTGCCGCTGCCTCCCTCGCTG
* * * *
59749954 CTGCTGTTTCCTCCCTCTCTG
1 CTGCCGCTGCCTCCCTCGCTG
59749975 CTGCC
1 CTGCC
59749980 TCCTCTCTAA
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.01, C:0.49, G:0.18, T:0.32
Consensus pattern (21 bp):
CTGCCGCTGCCTCCCTCGCTG
Found at i:59750421 original size:13 final size:14
Alignment explanation
Indices: 59750396--59750424 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
59750386 TGATGAATTG
59750396 AATTAAACAATTAT
1 AATTAAACAATTAT
59750410 AATTAAAC-ATTAT
1 AATTAAACAATTAT
59750423 AA
1 AA
59750425 ATATTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACAATTAT
Found at i:59751722 original size:29 final size:29
Alignment explanation
Indices: 59751690--59751757 Score: 120
Period size: 29 Copynumber: 2.4 Consensus size: 29
59751680 CGTAAAATCT
59751690 TACTACATCATTATTCGTAAATATCTTCA
1 TACTACATCATTATTCGTAAATATCTTCA
59751719 TACTACATCATTATTCGTAAATATCTTCA
1 TACTACATCATTATTCGTAAATATCTTCA
*
59751748 T-CCACATCAT
1 TACTACATCAT
59751758 GTCGAACCCA
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
28 8 0.21
29 30 0.79
ACGTcount: A:0.34, C:0.24, G:0.03, T:0.40
Consensus pattern (29 bp):
TACTACATCATTATTCGTAAATATCTTCA
Found at i:59755600 original size:56 final size:56
Alignment explanation
Indices: 59755540--59755683 Score: 243
Period size: 56 Copynumber: 2.6 Consensus size: 56
59755530 GGTTATGTAA
*
59755540 ATTATGTAAGTTATTTATCTTATGTAAATTATGTAAGATATGATACGTCATTATGT
1 ATTATGTAAGTTATTTATCTTATGTAAATTATGTAAGATATGATACATCATTATGT
59755596 ATTATGTAAGTTATTTATCTTATGTAAATTATGTAAGATATGATACATCATTATGT
1 ATTATGTAAGTTATTTATCTTATGTAAATTATGTAAGATATGATACATCATTATGT
* ** *
59755652 ATTATGTAAGTTATGTAAATTATGTAAGTTAT
1 ATTATGTAAGTTATTTATCTTATGTAAATTAT
59755684 TTATCTTATG
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 83 1.00
ACGTcount: A:0.35, C:0.04, G:0.14, T:0.47
Consensus pattern (56 bp):
ATTATGTAAGTTATTTATCTTATGTAAATTATGTAAGATATGATACATCATTATGT
Found at i:59755601 original size:74 final size:74
Alignment explanation
Indices: 59755480--59755627 Score: 217
Period size: 74 Copynumber: 2.0 Consensus size: 74
59755470 ATAAAAGGGA
* *
59755480 TTATCTTATGTAAATTATGTAAGATATGATATATATTTATGTATTATGTAGGTTATGTAAATTAT
1 TTATCTTATGTAAATTATGTAAGATATGATACATATTTATGTATTATGTAAGTTATGTAAATTAT
*
59755545 GTAAGTTAT
66 GTAAATTAT
* * **
59755554 TTATCTTATGTAAATTATGTAAGATATGATACGTCA-TTATGTATTATGTAAGTTATTTATCTTA
1 TTATCTTATGTAAATTATGTAAGATATGATACAT-ATTTATGTATTATGTAAGTTATGTAAATTA
59755618 TGTAAATTAT
65 TGTAAATTAT
59755628 GTAAGATATG
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
74 65 0.98
75 1 0.02
ACGTcount: A:0.34, C:0.03, G:0.14, T:0.49
Consensus pattern (74 bp):
TTATCTTATGTAAATTATGTAAGATATGATACATATTTATGTATTATGTAAGTTATGTAAATTAT
GTAAATTAT
Found at i:59755603 original size:29 final size:28
Alignment explanation
Indices: 59755567--59755666 Score: 116
Period size: 29 Copynumber: 3.5 Consensus size: 28
59755557 TCTTATGTAA
59755567 ATTATGTAAGATATGATACGTCATTATGT
1 ATTATGTAAGATATGATAC-TCATTATGT
* *
59755596 ATTATGTAAGTTAT-TTA-TC-TTATGT
1 ATTATGTAAGATATGATACTCATTATGT
59755621 AAATTATGTAAGATATGATACATCATTATGT
1 --ATTATGTAAGATATGATAC-TCATTATGT
*
59755652 ATTATGTAAGTTATG
1 ATTATGTAAGATATG
59755667 TAAATTATGT
Statistics
Matches: 60, Mismatches: 5, Indels: 12
0.78 0.06 0.16
Matches are distributed among these distances:
25 6 0.10
26 2 0.03
27 13 0.22
28 4 0.07
29 27 0.45
30 2 0.03
31 6 0.10
ACGTcount: A:0.35, C:0.05, G:0.15, T:0.45
Consensus pattern (28 bp):
ATTATGTAAGATATGATACTCATTATGT
Found at i:59755674 original size:74 final size:74
Alignment explanation
Indices: 59755596--59755802 Score: 371
Period size: 74 Copynumber: 2.8 Consensus size: 74
59755586 GTCATTATGT
*
59755596 ATTATGTAAGTTATTTATCTTATGTAAATTATGTAAGATATGATACATCA-TTATGTATTATGTA
1 ATTATGTAAGTTATTTATCTTATGTAAATTATGTAAGATATGATATAT-ATTTATGTATTATGTA
59755660 AGTTATGTAA
65 AGTTATGTAA
*
59755670 ATTATGTAAGTTATTTATCTTATGTAAATTATGTAAGATATGTTATATATTTATGTATTATGTAA
1 ATTATGTAAGTTATTTATCTTATGTAAATTATGTAAGATATGATATATATTTATGTATTATGTAA
59755735 GTTATGTAA
66 GTTATGTAA
*
59755744 ATCATGTAAGTTATTTATCTTATGTAAATTATGTAAGATATGATATATATTTATGTATT
1 ATTATGTAAGTTATTTATCTTATGTAAATTATGTAAGATATGATATATATTTATGTATT
59755803 GTGATTGTGT
Statistics
Matches: 128, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
73 1 0.01
74 127 0.99
ACGTcount: A:0.36, C:0.03, G:0.13, T:0.48
Consensus pattern (74 bp):
ATTATGTAAGTTATTTATCTTATGTAAATTATGTAAGATATGATATATATTTATGTATTATGTAA
GTTATGTAA
Found at i:59755724 original size:130 final size:130
Alignment explanation
Indices: 59755480--59755739 Score: 443
Period size: 130 Copynumber: 2.0 Consensus size: 130
59755470 ATAAAAGGGA
* *
59755480 TTATCTTATGTAAATTATGTAAGATATGATATATATTTATGTATTATGTAGGTTATGTAAATTAT
1 TTATCTTATGTAAATTATGTAAGATATGATACATATTTATGTATTATGTAAGTTATGTAAATTAT
*
59755545 GTAAGTTATTTATCTTATGTAAATTATGTAAGATATGATACGTCATTATGTATTATGTAAGTTAT
66 GTAAGTTATTTATCTTATGTAAATTATGTAAGATATGATACATCATTATGTATTATGTAAGTTAT
59755610 TTATCTTATGTAAATTATGTAAGATATGATACATCA-TTATGTATTATGTAAGTTATGTAAATTA
1 TTATCTTATGTAAATTATGTAAGATATGATACAT-ATTTATGTATTATGTAAGTTATGTAAATTA
* *
59755674 TGTAAGTTATTTATCTTATGTAAATTATGTAAGATATGTTATAT-ATTTATGTATTATGTAAGTT
65 TGTAAGTTATTTATCTTATGTAAATTATGTAAGATATGATACATCA-TTATGTATTATGTAAGTT
59755738 AT
129 AT
59755740 GTAAATCATG
Statistics
Matches: 123, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
129 1 0.01
130 121 0.98
131 1 0.01
ACGTcount: A:0.35, C:0.03, G:0.14, T:0.48
Consensus pattern (130 bp):
TTATCTTATGTAAATTATGTAAGATATGATACATATTTATGTATTATGTAAGTTATGTAAATTAT
GTAAGTTATTTATCTTATGTAAATTATGTAAGATATGATACATCATTATGTATTATGTAAGTTAT
Found at i:59755732 original size:29 final size:31
Alignment explanation
Indices: 59755679--59755741 Score: 85
Period size: 29 Copynumber: 2.1 Consensus size: 31
59755669 AATTATGTAA
*
59755679 GTTATTTATCTTATGTAAATTATGTAAGATAT
1 GTTATATATCTTATGT-AATTATGTAAGATAT
*
59755711 GTTATATAT-TTATGT-ATTATGTAAGTTAT
1 GTTATATATCTTATGTAATTATGTAAGATAT
59755740 GT
1 GT
59755742 AAATCATGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 15 0.52
31 6 0.21
32 8 0.28
ACGTcount: A:0.32, C:0.02, G:0.14, T:0.52
Consensus pattern (31 bp):
GTTATATATCTTATGTAATTATGTAAGATAT
Found at i:59756020 original size:12 final size:13
Alignment explanation
Indices: 59755977--59756018 Score: 54
Period size: 14 Copynumber: 3.4 Consensus size: 13
59755967 ATTTTCCTGA
59755977 TTAAAATAAAA--
1 TTAAAATAAAATT
59755988 -TAAAATAAAATAT
1 TTAAAATAAAAT-T
59756001 TTAAAATAAAATT
1 TTAAAATAAAATT
59756014 TTAAA
1 TTAAA
59756019 TACAATTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 10 0.37
13 6 0.22
14 11 0.41
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
TTAAAATAAAATT
Found at i:59756025 original size:12 final size:12
Alignment explanation
Indices: 59755977--59756028 Score: 54
Period size: 12 Copynumber: 4.3 Consensus size: 12
59755967 ATTTTCCTGA
59755977 TTAAAATAAAA-
1 TTAAAATAAAAT
59755988 -TAAAATAAAATAT
1 TTAAAAT-AAA-AT
59756001 TTAAAATAAAAT
1 TTAAAATAAAAT
* *
59756013 TTTAAATACAAT
1 TTAAAATAAAAT
59756025 TTAA
1 TTAA
59756029 TTTAATTAGG
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
10 6 0.18
11 3 0.09
12 16 0.47
13 3 0.09
14 6 0.18
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (12 bp):
TTAAAATAAAAT
Found at i:59756100 original size:105 final size:105
Alignment explanation
Indices: 59755923--59756141 Score: 341
Period size: 105 Copynumber: 2.1 Consensus size: 105
59755913 AATAATGATT
59755923 ATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAAAAATTTTCCTGATTAAAATAAAA
1 ATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAAAAATTTTCCTGATTAAAATAAAA
* *
59755988 TAAAATAAAATATTTAAAATAAAATTTTAAATACAATTTA
66 TAAAATAAAATATTCAAAATAAAACTTTAAATACAATTTA
* * * *
59756028 ATTTAATTAGGTAATTTAAAATTAAAATAAAAGTAGAC-AAAATATTTATCGTGATTAAATTAAA
1 ATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAAAAATTT-TCCTGATTAAAATAAA
* * *
59756092 ATAAAATAATATCTTCAAAATAAAACTTTAATTACAATTTA
65 ATAAAATAAAATATTCAAAATAAAACTTTAAATACAATTTA
59756133 ATTTAATTA
1 ATTTAATTA
59756142 ATAAGGTTAA
Statistics
Matches: 104, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
104 8 0.08
105 96 0.92
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.36
Consensus pattern (105 bp):
ATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAAAAATTTTCCTGATTAAAATAAAA
TAAAATAAAATATTCAAAATAAAACTTTAAATACAATTTA
Found at i:59760574 original size:47 final size:47
Alignment explanation
Indices: 59760514--59760860 Score: 579
Period size: 47 Copynumber: 7.4 Consensus size: 47
59760504 CAGCCAAGAC
*
59760514 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
59760561 AATGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
59760608 AGTGTATATATGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
59760654 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
59760701 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
59760748 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
59760795 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
59760842 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
59760861 TCCCGAAGGG
Statistics
Matches: 283, Mismatches: 16, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
46 46 0.16
47 237 0.84
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:59760766 original size:140 final size:141
Alignment explanation
Indices: 59760514--59760860 Score: 579
Period size: 140 Copynumber: 2.5 Consensus size: 141
59760504 CAGCCAAGAC
* *
59760514 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAATGTATATATGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
59760579 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT-GCCGATGTG
66 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
59760643 ATGAATGTGAA
131 ATGAATGTGAA
*
59760654 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
59760719 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
66 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
59760784 ATGAATGTGAA
131 ATGAATGTGAA
* * * * * * * * *
59760795 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
59760860 G
66 G
59760861 TCCCGAAGGG
Statistics
Matches: 193, Mismatches: 13, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
140 117 0.61
141 76 0.39
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (141 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
ATGAATGTGAA
Found at i:59761035 original size:37 final size:36
Alignment explanation
Indices: 59760979--59761056 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 36
59760969 CCGAGCTCTA
* *
59760979 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATG-CCGGGT
*
59761016 AAGACCCGATAACTTCGTGTGGAGATTATGCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGCCGGGT
59761052 AAGAC
1 AAGAC
59761057 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
36 11 0.30
37 25 0.68
38 1 0.03
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (36 bp):
AAGACCCGATAACTACGTGTGGAGATTATGCCGGGT
Found at i:59765348 original size:22 final size:23
Alignment explanation
Indices: 59765323--59765372 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
59765313 AAACTTTAAA
*
59765323 CCTTAAACCCTAAAC-CATATAC
1 CCTTAAACCCTAAACTCATAGAC
* *
59765345 CCTT-AACCCTTAACTCCTAGAC
1 CCTTAAACCCTAAACTCATAGAC
59765367 CCTTAA
1 CCTTAA
59765373 CCTTTAAACC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 9 0.39
22 13 0.57
23 1 0.04
ACGTcount: A:0.34, C:0.38, G:0.02, T:0.26
Consensus pattern (23 bp):
CCTTAAACCCTAAACTCATAGAC
Found at i:59765385 original size:22 final size:22
Alignment explanation
Indices: 59765333--59765385 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
59765323 CCTTAAACCC
* *
59765333 TAAACCATATACCCTTAACCCT
1 TAAACCCTAGACCCTTAACCCT
*
59765355 T-AACTCCTAGACCCTTAACCTT
1 TAAAC-CCTAGACCCTTAACCCT
59765377 TAAACCCTA
1 TAAACCCTA
59765386 AATAATAAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 3 0.12
22 20 0.77
23 3 0.12
ACGTcount: A:0.34, C:0.36, G:0.02, T:0.28
Consensus pattern (22 bp):
TAAACCCTAGACCCTTAACCCT
Found at i:59765387 original size:7 final size:7
Alignment explanation
Indices: 59765319--59765411 Score: 51
Period size: 7 Copynumber: 12.9 Consensus size: 7
59765309 CCATAAACTT
*
59765319 TAAACCT
1 TAAACCC
59765326 TAAACCC
1 TAAACCC
*
59765333 TAAACCA
1 TAAACCC
*
59765340 TATACCC
1 TAAACCC
*
59765347 TTAACCC
1 TAAACCC
*
59765354 TTAACTCC
1 TAAAC-CC
*
59765362 TAGACCC
1 TAAACCC
* *
59765369 TTAACCTT
1 TAAACC-C
59765377 TAAACCC
1 TAAACCC
***
59765384 TAAATAA
1 TAAACCC
59765391 TAAACCC
1 TAAACCC
*
59765398 TAAATCTC
1 TAAA-CCC
59765406 TAAACC
1 TAAACC
59765412 TCAACCCTTG
Statistics
Matches: 62, Mismatches: 21, Indels: 6
0.70 0.24 0.07
Matches are distributed among these distances:
7 46 0.74
8 16 0.26
ACGTcount: A:0.40, C:0.33, G:0.01, T:0.26
Consensus pattern (7 bp):
TAAACCC
Found at i:59765452 original size:15 final size:14
Alignment explanation
Indices: 59765432--59765465 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
59765422 AACCATAAAT
*
59765432 CATAATCCCTAAGTC
1 CATAATCCATAA-TC
59765447 CATAATCCATAATC
1 CATAATCCATAATC
59765461 CATAA
1 CATAA
59765466 ACCTTGAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.41, C:0.29, G:0.03, T:0.26
Consensus pattern (14 bp):
CATAATCCATAATC
Found at i:59765455 original size:7 final size:7
Alignment explanation
Indices: 59765432--59765465 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
59765422 AACCATAAAT
59765432 CATAATC
1 CATAATC
*
59765439 CCTAAGTC
1 CATAA-TC
59765447 CATAATC
1 CATAATC
59765454 CATAATC
1 CATAATC
59765461 CATAA
1 CATAA
59765466 ACCTTGAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 18 0.75
8 6 0.25
ACGTcount: A:0.41, C:0.29, G:0.03, T:0.26
Consensus pattern (7 bp):
CATAATC
Found at i:59765505 original size:15 final size:14
Alignment explanation
Indices: 59765485--59765524 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
59765475 TATTAACTCA
59765485 TAAACCATAAACCCC
1 TAAACCATAAA-CCC
*
59765500 TAAACCTTAAACCC
1 TAAACCATAAACCC
59765514 TAAACCCATAA
1 TAAA-CCATAA
59765525 TTCATAAACC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 7 0.32
15 15 0.68
ACGTcount: A:0.47, C:0.35, G:0.00, T:0.17
Consensus pattern (14 bp):
TAAACCATAAACCC
Found at i:59765532 original size:22 final size:22
Alignment explanation
Indices: 59765482--59765539 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
59765472 AGATATTAAC
*
59765482 TCATAAACCATAAACCCCTAAA
1 TCATAAACCATAAACCCATAAA
* * * *
59765504 CCTTAAACCCTAAACCCATAAT
1 TCATAAACCATAAACCCATAAA
*
59765526 TCATAAACCTTAAA
1 TCATAAACCATAAA
59765540 ATATTAACTC
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (22 bp):
TCATAAACCATAAACCCATAAA
Found at i:59765581 original size:14 final size:14
Alignment explanation
Indices: 59765560--59765605 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
59765550 ATCATAAATC
59765560 ATAAACCCTAAACT
1 ATAAACCCTAAACT
* *
59765574 ATATACCCTAAACC
1 ATAAACCCTAAACT
*
59765588 ATAAACCTTAAACT
1 ATAAACCCTAAACT
59765602 ATAA
1 ATAA
59765606 TGATAAGTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (14 bp):
ATAAACCCTAAACT
Found at i:59765969 original size:41 final size:41
Alignment explanation
Indices: 59765880--59766213 Score: 388
Period size: 41 Copynumber: 8.2 Consensus size: 41
59765870 ATGTTTTTGT
* * * * *
59765880 GGCGCTTTTTGAAAAAACGCCGCTATAAAT-AGAGCAATAGC
1 GGCG-TTTTTCAAAAAGCGCCGCTATAGATCTGAGCATTAGC
*
59765921 GGTGTTTTTCAAAAAGCGCCGCTATAGATCTGAGCATTAGC
1 GGCGTTTTTCAAAAAGCGCCGCTATAGATCTGAGCATTAGC
* * *
59765962 GGCGTTTTTCAAAAAACACCGATATAGATCTGAGCATTAGC
1 GGCGTTTTTCAAAAAGCGCCGCTATAGATCTGAGCATTAGC
* *
59766003 GGCGTTTTTCAATAAGCGCCGCTATATATCTGAGCATTAGC
1 GGCGTTTTTCAAAAAGCGCCGCTATAGATCTGAGCATTAGC
* *
59766044 GGCGTTTTTCAAAAAGCGCC-CTATAGATTTGAGCATTAAC
1 GGCGTTTTTCAAAAAGCGCCGCTATAGATCTGAGCATTAGC
* ** * *
59766084 -G-GTTTTGCTTAAAGAGCCGCTATATATCTGAGCATTAGC
1 GGCGTTTTTCAAAAAGCGCCGCTATAGATCTGAGCATTAGC
* ** * *
59766123 GGTGTTTTTCGTAAAGCGCCGCTATAGATGTGAGCACTAGC
1 GGCGTTTTTCAAAAAGCGCCGCTATAGATCTGAGCATTAGC
* * *
59766164 GGCATTTTTCATAAAGCGCCGCTATAGATTTGAGCATTAGC
1 GGCGTTTTTCAAAAAGCGCCGCTATAGATCTGAGCATTAGC
*
59766205 GGCGCTTTT
1 GGCGTTTTT
59766214 GGCAAAACGT
Statistics
Matches: 250, Mismatches: 39, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
38 13 0.05
39 18 0.07
40 40 0.16
41 179 0.72
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.30
Consensus pattern (41 bp):
GGCGTTTTTCAAAAAGCGCCGCTATAGATCTGAGCATTAGC
Found at i:59768002 original size:23 final size:21
Alignment explanation
Indices: 59767963--59768004 Score: 66
Period size: 23 Copynumber: 1.9 Consensus size: 21
59767953 GTACTTAAGT
59767963 ACATTTTGTTGCATTTTTAGG
1 ACATTTTGTTGCATTTTTAGG
59767984 ACATTTTAGTTAGCATTTTTA
1 ACATTTT-GTT-GCATTTTTA
59768005 AAATTGCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 7 0.37
22 3 0.16
23 9 0.47
ACGTcount: A:0.24, C:0.10, G:0.14, T:0.52
Consensus pattern (21 bp):
ACATTTTGTTGCATTTTTAGG
Found at i:59794795 original size:22 final size:23
Alignment explanation
Indices: 59794757--59794804 Score: 55
Period size: 22 Copynumber: 2.1 Consensus size: 23
59794747 CTATCCCACA
*
59794757 TGGAGTGGAGGGCTGG-TATGGG
1 TGGAGTGGAGGGCTGGTTATAGG
*
59794779 TGGAGTGTAGCGG-TGGTTATAGG
1 TGGAGTGGAG-GGCTGGTTATAGG
59794802 TGG
1 TGG
59794805 GTTGGGCTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.15, C:0.04, G:0.54, T:0.27
Consensus pattern (23 bp):
TGGAGTGGAGGGCTGGTTATAGG
Found at i:59796556 original size:17 final size:16
Alignment explanation
Indices: 59796533--59796573 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 16
59796523 ATGACTAAAT
59796533 AAATAATAAGA-AAACA
1 AAATAATAAGAGAAA-A
59796549 ATAATAATAAGAGAAAA
1 A-AATAATAAGAGAAAA
59796566 AAATAATA
1 AAATAATA
59796574 GACTAAGAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 8 0.35
17 12 0.52
18 3 0.13
ACGTcount: A:0.73, C:0.02, G:0.07, T:0.17
Consensus pattern (16 bp):
AAATAATAAGAGAAAA
Found at i:59796582 original size:21 final size:19
Alignment explanation
Indices: 59796529--59796573 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
59796519 AATAATGACT
59796529 AAATAAATAAT-A-AGAAAA
1 AAAT-AATAATAAGAGAAAA
*
59796547 CAATAATAATAAGAGAAAA
1 AAATAATAATAAGAGAAAA
59796566 AAATAATA
1 AAATAATA
59796574 GACTAAGAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 6 0.26
18 4 0.17
19 13 0.57
ACGTcount: A:0.73, C:0.02, G:0.07, T:0.18
Consensus pattern (19 bp):
AAATAATAATAAGAGAAAA
Found at i:59801514 original size:189 final size:189
Alignment explanation
Indices: 59801194--59801573 Score: 715
Period size: 189 Copynumber: 2.0 Consensus size: 189
59801184 AAAACAATAT
*
59801194 TACAAAAATAACACAATCTAGCTTTATTTAACCGGCATATAACCAATTTTAATATCTTATAACAT
1 TACAAAAATAACACAATCTAGCTTTATTTAACCGGCATATAACCAATTTTAATATCTTATAACAG
*
59801259 AATTGCTAATCACACAATAAGTTTTCAATATAGAAATTGAATATTTGAAACATACTATTTAAATA
66 AATTGCTAATCACACAATAAGTTTTCAATATAGAAAATGAATATTTGAAACATACTATTTAAATA
*
59801324 TGCTACACTATGTAACAATGTTGTCTTTCTTTAATACTATACACGCATAAAACTTTTCA
131 TGCTACACTATGTAACAATGTTGTCTTTCTTTAATACTATACACACATAAAACTTTTCA
*
59801383 TACAAAAATAACACAATCTAGCTTTATTTAACTGGCATATAACCAATTTTAATATCTTATAACAG
1 TACAAAAATAACACAATCTAGCTTTATTTAACCGGCATATAACCAATTTTAATATCTTATAACAG
59801448 AATTGCTAATCACACAATAAGTTTTCAATATAGAAAATGAATATTTGAAACATACTATTTAAATA
66 AATTGCTAATCACACAATAAGTTTTCAATATAGAAAATGAATATTTGAAACATACTATTTAAATA
*
59801513 TGCTACACTCTGTAACAATGTTGTCTTTCTTTAATACTATACACACATAAAACTTTTCA
131 TGCTACACTATGTAACAATGTTGTCTTTCTTTAATACTATACACACATAAAACTTTTCA
59801572 TA
1 TA
59801574 GTATCTAATC
Statistics
Matches: 186, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
189 186 1.00
ACGTcount: A:0.41, C:0.16, G:0.07, T:0.36
Consensus pattern (189 bp):
TACAAAAATAACACAATCTAGCTTTATTTAACCGGCATATAACCAATTTTAATATCTTATAACAG
AATTGCTAATCACACAATAAGTTTTCAATATAGAAAATGAATATTTGAAACATACTATTTAAATA
TGCTACACTATGTAACAATGTTGTCTTTCTTTAATACTATACACACATAAAACTTTTCA
Found at i:59806327 original size:40 final size:40
Alignment explanation
Indices: 59806290--59806485 Score: 245
Period size: 40 Copynumber: 4.9 Consensus size: 40
59806280 GGATATAGCT
* *
59806290 ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* * *
59806330 ACTCGCACCAATTCCTTCGGGACTTAGCCCGGATT-TGGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTATAGTA
*
59806370 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-AATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTA
* **
59806410 ACTCACACAAATGCCTTCGGGACTTAGCCC-GAAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTA
* *
59806450 ACTCGCACAAATGCCTTCGAGACTTAGCCCGATTAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
59806486 CATCCGAATA
Statistics
Matches: 136, Mismatches: 15, Indels: 10
0.84 0.09 0.06
Matches are distributed among these distances:
39 1 0.01
40 132 0.97
41 3 0.02
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:59806411 original size:80 final size:80
Alignment explanation
Indices: 59806290--59806480 Score: 276
Period size: 80 Copynumber: 2.4 Consensus size: 80
59806280 GGATATAGCT
* * * * * *
59806290 ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACCAATTCCTTCGGGACTT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTT
* * *
59806355 AGCCCGGATTTGGTA
66 AGCCCGAAATTAGTA
59806370 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-ATTAGTAACTCACACAAATGCCTTCGGGACT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCACACAAATGCCTTCGGGACT
59806434 TAGCCCGAAATTAGTA
65 TAGCCCGAAATTAGTA
*
59806450 ACTCGCACAAATGCCTTCGAGACTTAGCCCG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCG
59806481 ATTATCATCC
Statistics
Matches: 100, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
79 1 0.01
80 99 0.99
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (80 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTT
AGCCCGAAATTAGTA
Found at i:59816257 original size:46 final size:46
Alignment explanation
Indices: 59816198--59816368 Score: 211
Period size: 46 Copynumber: 3.7 Consensus size: 46
59816188 ACATTTTGTA
59816198 GCCGATGCATGTCCCAGACATGTCTTACACTGGCT-TACATCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATCTCGAG
* * *
59816244 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAG
* * * * * *
59816290 GCCAATGCCATGTTCCAGACATGGTCTTACAATGGCTGTCATAAT-GTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CTCGAG
59816338 GCCGATGCATGTCCCAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
59816369 AGCACACAAA
Statistics
Matches: 106, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
46 56 0.53
47 27 0.25
48 22 0.21
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAG
Found at i:59822509 original size:40 final size:39
Alignment explanation
Indices: 59822465--59822569 Score: 122
Period size: 39 Copynumber: 2.6 Consensus size: 39
59822455 AGTGACCATA
*
59822465 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGACTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
* *
59822505 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
59822543 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGACTAAG-CCCGAAGGCATTTG
59822570 AACGAGTAGC
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
38 2 0.03
39 32 0.55
40 24 0.41
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:59822526 original size:39 final size:40
Alignment explanation
Indices: 59822429--59822569 Score: 148
Period size: 40 Copynumber: 3.5 Consensus size: 40
59822419 ATGATGTCTA
* * *
59822429 GGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATAACCG
* *
59822469 GACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATTCCG
1 GGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA-ACCG
*
59822509 GGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAACCG
*
59822548 GGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
59822570 AACGAGTAGC
Statistics
Matches: 87, Mismatches: 7, Indels: 14
0.81 0.06 0.13
Matches are distributed among these distances:
39 34 0.39
40 42 0.48
41 10 0.11
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAACCG
Found at i:59822588 original size:79 final size:80
Alignment explanation
Indices: 59822429--59822575 Score: 183
Period size: 79 Copynumber: 1.9 Consensus size: 80
59822419 ATGATGTCTA
* **
59822429 GGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGTGC
1 GGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTTGAAC
59822494 GAGATACTAATTCCG
66 GAGATACTAATTCCG
* * * * *
59822509 GGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCATTTGA
1 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCATTTGA
59822571 ACGAG
64 ACGAG
59822576 TAGCTATATC
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
78 1 0.02
79 42 0.74
80 14 0.25
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
GGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTTGAAC
GAGATACTAATTCCG
Found at i:59822863 original size:47 final size:47
Alignment explanation
Indices: 59822794--59822961 Score: 255
Period size: 47 Copynumber: 3.6 Consensus size: 47
59822784 AAAGGTTGGT
59822794 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
59822841 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * * *
59822888 AATGTGAAAGTGTATATATGTAACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
59822935 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
59822962 TCCCGAAGGG
Statistics
Matches: 109, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 109 1.00
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:59824994 original size:40 final size:40
Alignment explanation
Indices: 59824939--59825117 Score: 295
Period size: 40 Copynumber: 4.5 Consensus size: 40
59824929 GAGAATTGAG
*
59824939 AGTGATATATCCGGGCTAAGCCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
59824979 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
59825019 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * * *
59825059 AGTGATGTATCCAGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* *
59825099 AGTAATATATCCGTGCTAA
1 AGTGATATATCCGGGCTAA
59825118 ACCTCGAAGA
Statistics
Matches: 130, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 130 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
Found at i:59833757 original size:30 final size:30
Alignment explanation
Indices: 59833723--59833784 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
59833713 TTCCCGAGCC
59833723 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
59833753 TAGGGGCAAAATTGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
59833783 TA
1 TA
59833785 AGTTAAGGAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:59834481 original size:66 final size:66
Alignment explanation
Indices: 59834350--59834504 Score: 161
Period size: 66 Copynumber: 2.3 Consensus size: 66
59834340 TACTATGTGT
* * * * * * *
59834350 ACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGTGTGGTTCCAGGTGAA
1 ACACCATATAGACAAGAGAGCTACGAGATAAATG-AGCTAGGTCACATGGGTGGTGCCAAGTGAA
59834415 GG
65 GG
* *
59834417 ACACCATATAGATAAGAGAGCTACGAGATAAACTG-GCTAGGTCACATGGGTGGTGCTAAGTGAA
1 ACACCATATAGACAAGAGAGCTACGAGATAAA-TGAGCTAGGTCACATGGGTGGTGCCAAGTGAA
59834481 GG
65 GG
* * *
59834483 CCACTATGT-GTACAAGAGAGCT
1 ACACCATATAG-ACAAGAGAGCT
59834505 TCGATTTTAA
Statistics
Matches: 73, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
65 1 0.01
66 42 0.58
67 28 0.38
68 2 0.03
ACGTcount: A:0.32, C:0.17, G:0.30, T:0.21
Consensus pattern (66 bp):
ACACCATATAGACAAGAGAGCTACGAGATAAATGAGCTAGGTCACATGGGTGGTGCCAAGTGAAG
G
Found at i:59841750 original size:50 final size:52
Alignment explanation
Indices: 59841643--59841772 Score: 183
Period size: 50 Copynumber: 2.5 Consensus size: 52
59841633 GATTTTTGTA
* * * *
59841643 TAAGACCATAGCTGGACTATGGCATCGGTGTGATGTGATTATGTGCTTCTATG
1 TAAGACCATAGCTGGGCTATGGCATC-GTGTGATGTGATTATATGATTCCATG
* *
59841696 TAAGACCATAGCTGGGCTATGACATCG-GT-ATGTGATTATATGATTCCGTG
1 TAAGACCATAGCTGGGCTATGGCATCGTGTGATGTGATTATATGATTCCATG
59841746 TAAGACCATAGCTGGGCTATGGCATCG
1 TAAGACCATAGCTGGGCTATGGCATCG
59841773 AGGAAACGAA
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
50 43 0.61
51 2 0.03
52 1 0.01
53 24 0.34
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.31
Consensus pattern (52 bp):
TAAGACCATAGCTGGGCTATGGCATCGTGTGATGTGATTATATGATTCCATG
Found at i:59852625 original size:13 final size:13
Alignment explanation
Indices: 59852607--59852631 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59852597 CTGGCATACG
59852607 CCCGTGTCCCTAT
1 CCCGTGTCCCTAT
59852620 CCCGTGTCCCTA
1 CCCGTGTCCCTA
59852632 ACACAGCCAT
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:0.08, C:0.48, G:0.16, T:0.28
Consensus pattern (13 bp):
CCCGTGTCCCTAT
Found at i:59853759 original size:46 final size:45
Alignment explanation
Indices: 59853612--59853835 Score: 179
Period size: 46 Copynumber: 4.8 Consensus size: 45
59853602 ATGGGGTAGG
* * * *
59853612 ATGCCGATGCCATGTCCCGGACATGGTCTTACAGTAGCTCAAC-TCTT
1 ATGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTC-TCGTCTA
* * * * * **
59853659 A-GTCGATGCATGTCCTAGACATGTCTTACGCTGGCT-TACATCCCG
1 ATGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT-CGT-CTA
* *
59853704 AGGCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCA
1 ATGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCT-A
*
59853750 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTCGCTCTCG--TA
1 ATGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTA
*
59853795 ATGTGGCCGATGCATGTCCCAAACATGTCTTACACTAGCTC
1 A--T-GCCGATGCATGTCCCAGACATGTCTTACACTAGCTC
59853836 ACAATAACCC
Statistics
Matches: 144, Mismatches: 22, Indels: 23
0.76 0.12 0.12
Matches are distributed among these distances:
43 1 0.01
44 12 0.08
45 17 0.12
46 60 0.42
47 30 0.21
48 24 0.17
ACGTcount: A:0.21, C:0.30, G:0.21, T:0.28
Consensus pattern (45 bp):
ATGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTA
Found at i:59858672 original size:42 final size:42
Alignment explanation
Indices: 59858617--59858723 Score: 144
Period size: 42 Copynumber: 2.5 Consensus size: 42
59858607 CTCGATTGCG
* *
59858617 CCTTCCCCGCACATGGGTATGCACCATTCTGTTGGGCCT-GCT
1 CCTTCTCCACACATGGGTATGCACCATTCTGTTGGG-CTAGCT
* * **
59858659 CCTTCTCCACACATAGGTCTATACCATTCTGTTGGGCTAGCT
1 CCTTCTCCACACATGGGTATGCACCATTCTGTTGGGCTAGCT
59858701 CCTTCTCCACACATGGGTATGCA
1 CCTTCTCCACACATGGGTATGCA
59858724 TAATTTTGCT
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
41 2 0.04
42 52 0.96
ACGTcount: A:0.17, C:0.34, G:0.20, T:0.30
Consensus pattern (42 bp):
CCTTCTCCACACATGGGTATGCACCATTCTGTTGGGCTAGCT
Found at i:59858737 original size:42 final size:41
Alignment explanation
Indices: 59858617--59858737 Score: 120
Period size: 42 Copynumber: 2.9 Consensus size: 41
59858607 CTCGATTGCG
* * **
59858617 CCTTCCCCGCACATGGGTATGCACCATTCTGTTGGGCCTGCT
1 CCTTCTCCACACATGGGTATGCATAATTCTGTTGGG-CTGCT
* *
59858659 CCTTCTCCACACATAGGTCT--ATACCATTCTGTTGGGCTAGCT
1 CCTTCTCCACACATGGGTATGCATA--ATTCTGTTGGGCT-GCT
* *
59858701 CCTTCTCCACACATGGGTATGCATAATTTTGCTGGGC
1 CCTTCTCCACACATGGGTATGCATAATTCTGTTGGGC
59858738 CGTGTATGCC
Statistics
Matches: 64, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
40 1 0.02
41 2 0.03
42 58 0.91
44 3 0.05
ACGTcount: A:0.17, C:0.31, G:0.21, T:0.31
Consensus pattern (41 bp):
CCTTCTCCACACATGGGTATGCATAATTCTGTTGGGCTGCT
Found at i:59865269 original size:39 final size:40
Alignment explanation
Indices: 59865155--59865339 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
59865145 GCTACTCGTT
*
59865155 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
59865195 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
59865235 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
59865274 CAAATGCCTTC-GGATCTTAGTCCAGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
59865315 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
59865340 CATCATTCGA
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.26
40 77 0.62
41 13 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:59865323 original size:79 final size:81
Alignment explanation
Indices: 59865155--59865339 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
59865145 GCTACTCGTT
* * *
59865155 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCA
* *
59865219 GATTTAGTAACTCGCAC
65 GATATAGTAACTAGCAC
* **
59865236 CAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCA
1 CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCA
* *
59865298 GATATGGTCACTTAGCA-
65 GATATAGTAAC-TAGCAC
59865315 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
59865340 CATCATTCGA
Statistics
Matches: 89, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 25 0.28
81 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAG
ATATAGTAACTAGCAC
Found at i:59866534 original size:56 final size:56
Alignment explanation
Indices: 59866467--59866642 Score: 334
Period size: 56 Copynumber: 3.1 Consensus size: 56
59866457 TATTAGTTTA
59866467 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
59866523 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
* *
59866579 TTGCGCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
59866635 TTGCCCAT
1 TTGCCCAT
59866643 CATCCCTTGT
Statistics
Matches: 117, Mismatches: 3, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
56 117 1.00
ACGTcount: A:0.23, C:0.23, G:0.10, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:59868687 original size:94 final size:94
Alignment explanation
Indices: 59868570--59868748 Score: 234
Period size: 94 Copynumber: 1.9 Consensus size: 94
59868560 ATCACAAGAT
* ** *
59868570 GACGCCATGTCCTAGACAGGTCTTACACTAGCTTGTATATCGCAAGGCGAATGCATGCCCTAGAC
1 GACGCCATGTCCCAGACAGGTCTTACACTAGCTTAAATATCGCAAGGCCAATGCATGCCC-AGAC
59868635 ATGTCTTACACTAGCTCTCATCTCAATACC
65 ATGTCTTACACTAGCTCTCATCTCAATACC
* * *** * *
59868665 GACG-CATGTCCCAGACATGTCTTACACTGGCTTAAATATCTTGAGGCCACTGCATGTCCAGACA
1 GACGCCATGTCCCAGACAGGTCTTACACTAGCTTAAATATCGCAAGGCCAATGCATGCCCAGACA
*
59868729 TGTCTTACACTGGCTCTCAT
66 TGTCTTACACTAGCTCTCAT
59868749 ACTGTGGCTG
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
93 24 0.33
94 44 0.61
95 4 0.06
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.27
Consensus pattern (94 bp):
GACGCCATGTCCCAGACAGGTCTTACACTAGCTTAAATATCGCAAGGCCAATGCATGCCCAGACA
TGTCTTACACTAGCTCTCATCTCAATACC
Found at i:59868776 original size:93 final size:93
Alignment explanation
Indices: 59868570--59868788 Score: 235
Period size: 93 Copynumber: 2.3 Consensus size: 93
59868560 ATCACAAGAT
* ** *
59868570 GACGCCATGTCCTAGACAGGTCTTACACTAGCTTGTATATCGCAAGGCGAATGCATGCCCTAGAC
1 GACG-CATGTCCTAGACATGTCTTACACTAGCTTAAATATCGCAAGGCCAATGCATGCCCTAGAC
59868635 ATGTCTTACACTAGCTCTCATCTCAATACC
65 ATGTCTTACACTAGCTCTCATCT-AATACC
* * *** * *
59868665 GACGCATGTCCCAGACATGTCTTACACTGGCTTAAATATCTTGAGGCCACTGCATGTCC-AGACA
1 GACGCATGTCCTAGACATGTCTTACACTAGCTTAAATATCGCAAGGCCAATGCATGCCCTAGACA
* * * *
59868729 TGTCTTACACTGGCTCTCATACT-GTGGCT
66 TGTCTTACACTAGCTCTCAT-CTAAT-ACC
* *
59868758 GATGCATGTCCTAAACATGTCTTACACTAGC
1 GACGCATGTCCTAGACATGTCTTACACTAGC
59868789 ACACATATCA
Statistics
Matches: 103, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
92 1 0.01
93 52 0.50
94 46 0.45
95 4 0.04
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (93 bp):
GACGCATGTCCTAGACATGTCTTACACTAGCTTAAATATCGCAAGGCCAATGCATGCCCTAGACA
TGTCTTACACTAGCTCTCATCTAATACC
Found at i:59872305 original size:15 final size:15
Alignment explanation
Indices: 59872287--59872317 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
59872277 AGTCCAGGTC
*
59872287 AAAGAAATCTAAGAT
1 AAAGAAATATAAGAT
59872302 AAAGAAATATAAGAT
1 AAAGAAATATAAGAT
59872317 A
1 A
59872318 CAATATCATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.03, G:0.13, T:0.19
Consensus pattern (15 bp):
AAAGAAATATAAGAT
Found at i:59874085 original size:27 final size:28
Alignment explanation
Indices: 59874001--59874098 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
59873991 CATGAGATTG
* * * *
59874001 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
59874030 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
59874058 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
59874085 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
59874099 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:59874109 original size:27 final size:27
Alignment explanation
Indices: 59874029--59874111 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
59874019 TAAATTGTAC
* *
59874029 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
59874057 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
59874084 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
59874111 A
1 A
59874112 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:59874112 original size:29 final size:27
Alignment explanation
Indices: 59874001--59874112 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
59873991 CATGAGATTG
** * *
59874001 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
59874030 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
59874058 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
59874085 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
59874113 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:59877639 original size:22 final size:22
Alignment explanation
Indices: 59877611--59877655 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
59877601 CTTCATTAAC
59877611 ATCATTAACTTACTCGAAATTT
1 ATCATTAACTTACTCGAAATTT
*
59877633 ATCATTAACTTACTCTAAATTT
1 ATCATTAACTTACTCGAAATTT
59877655 A
1 A
59877656 CACTTTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.38, C:0.18, G:0.02, T:0.42
Consensus pattern (22 bp):
ATCATTAACTTACTCGAAATTT
Found at i:59896644 original size:45 final size:47
Alignment explanation
Indices: 59896581--59896697 Score: 134
Period size: 50 Copynumber: 2.5 Consensus size: 47
59896571 GCTGAGAGCT
59896581 AGTGTAAGA-CATGTCTGGGACAAG-CATCGGCTAC-AACATGT-GTC
1 AGTGTAAGACCATGTCTGGGACAAGACATCGGC-ACGAACATGTAGTC
* * * *
59896625 AGTGTAAGACCATGTCTGGGACATGACATCTGCACGGATATGTGAGAGTC
1 AGTGTAAGACCATGTCTGGGACAAGACATCGGCACGAACATGT---AGTC
59896675 AGTGTAAGACCATGTCTGGGACA
1 AGTGTAAGACCATGTCTGGGACA
59896698 TGGCATCGAC
Statistics
Matches: 62, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
44 9 0.15
45 16 0.26
46 11 0.18
50 26 0.42
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACAAGACATCGGCACGAACATGTAGTC
Found at i:59896684 original size:50 final size:47
Alignment explanation
Indices: 59896622--59896746 Score: 155
Period size: 50 Copynumber: 2.6 Consensus size: 47
59896612 TACAACATGT
59896622 GTCAGTGTAAGACCATGTCTGGGACATGACATCTGCACGGAT-ATGTGA-GA
1 GTCAGTGTAAGACCATGTCTGGGACATGACATC-G-AC--ATGATG-GATGA
* *
59896672 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGGATGA
1 GTCAGTGTAAGACCATGTCTGGGACATGACATCGACATGATGGATGA
* *
59896719 GCCTGTGTAAGACCATGTCTGGGACATG
1 GTCAGTGTAAGACCATGTCTGGGACATG
59896747 GCATTGGCAT
Statistics
Matches: 69, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
46 3 0.04
47 31 0.45
48 2 0.03
49 1 0.01
50 32 0.46
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (47 bp):
GTCAGTGTAAGACCATGTCTGGGACATGACATCGACATGATGGATGA
Found at i:59896745 original size:47 final size:49
Alignment explanation
Indices: 59896624--59896750 Score: 163
Period size: 47 Copynumber: 2.6 Consensus size: 49
59896614 CAACATGTGT
* *
59896624 CAGTGTAAGACCATGTCTGGGACATGACATCTGCACGGATATGTGAGAGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCTGCACGGA-ATGTGAGAGC
*
59896674 CAGTGTAAGACCATGTCTGGGACATGGCATC-G-ACTTG-ATG-GATGAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCTGCAC-GGAATGTGA-GAGC
*
59896721 CTGTGTAAGACCATGTCTGGGACATGGCAT
1 CAGTGTAAGACCATGTCTGGGACATGGCAT
59896751 TGGCATTATA
Statistics
Matches: 71, Mismatches: 4, Indels: 7
0.87 0.05 0.09
Matches are distributed among these distances:
46 2 0.03
47 35 0.49
48 2 0.03
49 2 0.03
50 30 0.42
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (49 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCTGCACGGAATGTGAGAGC
Found at i:59897378 original size:13 final size:13
Alignment explanation
Indices: 59897360--59897385 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
59897350 TGTGTAAATG
59897360 CCTTAGTTATGAT
1 CCTTAGTTATGAT
59897373 CCTTAGTTATGAT
1 CCTTAGTTATGAT
59897386 TGTTGGATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.46
Consensus pattern (13 bp):
CCTTAGTTATGAT
Found at i:59897962 original size:22 final size:21
Alignment explanation
Indices: 59897937--59897977 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
59897927 TCGAATTGGT
59897937 CACACG-GACGTGTTGCCCCTTC
1 CACACGAG-CGTG-TGCCCCTTC
59897959 CACACGAGCGTGTGCCCCT
1 CACACGAGCGTGTGCCCCT
59897978 GTGTCTTGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.39
22 10 0.56
23 1 0.06
ACGTcount: A:0.15, C:0.41, G:0.24, T:0.20
Consensus pattern (21 bp):
CACACGAGCGTGTGCCCCTTC
Found at i:59897976 original size:21 final size:22
Alignment explanation
Indices: 59897937--59897977 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
59897927 TCGAATTGGT
59897937 CACACGGACGTGTTGCCCCTTC
1 CACACGGACGTGTTGCCCCTTC
59897959 CACAC-GAGCGTG-TGCCCCT
1 CACACGGA-CGTGTTGCCCCT
59897978 GTGTCTTGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.15, C:0.41, G:0.24, T:0.20
Consensus pattern (22 bp):
CACACGGACGTGTTGCCCCTTC
Found at i:59902545 original size:5 final size:5
Alignment explanation
Indices: 59902535--59902559 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
59902525 AAAACTTTGG
59902535 ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT
59902560 TGTAAATGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:59912135 original size:39 final size:39
Alignment explanation
Indices: 59912066--59912225 Score: 257
Period size: 39 Copynumber: 4.1 Consensus size: 39
59912056 AATTATATTA
* *
59912066 CCAGCACAAACCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* *
59912105 CCTGCACGAAGCCTACGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
59912144 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* **
59912183 CCAGCACGAAGCCTGCGGGACTTTATCCCTCATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
59912222 CCAG
1 CCAG
59912226 TATCTTGCAT
Statistics
Matches: 112, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 112 1.00
ACGTcount: A:0.24, C:0.33, G:0.22, T:0.22
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:59918235 original size:49 final size:49
Alignment explanation
Indices: 59918182--59918455 Score: 297
Period size: 49 Copynumber: 5.6 Consensus size: 49
59918172 ATATCAAAGT
* *
59918182 CGATGCCATGTCCCAAACAGGTCTTACATTGACTTTCATATATTGAGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATTGAGGC
* * *
59918231 CGATGTCGTGTCCCAGACAGGTCTTACACTGACTTTCATATATTGAGAC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATTGAGGC
* * *
59918280 CGATGTCGTGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATTGAGGC
* * * * * *
59918329 TGATGCCATGTCCAAGATAGGTCTTACACT-AGCTCTCATTTATTG-GTGT
1 CGATGCCATGTCCCAGACAGGTCTTACACTGA-CTTTCATATATTGAG-GC
* * * *
59918378 CGATTCCATATCCCAGACAGGTCTTACACT-AGCTTGT-ATATCTCGAGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGA-CTT-TCATATATTGAGGC
* *
59918427 TGATG-CATGTCCCAGACATGTCTTACACT
1 CGATGCCATGTCCCAGACAGGTCTTACACT
59918456 AGCTCTCGTC
Statistics
Matches: 191, Mismatches: 30, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
48 24 0.13
49 165 0.86
50 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATTGAGGC
Found at i:59918492 original size:46 final size:45
Alignment explanation
Indices: 59918428--59918593 Score: 203
Period size: 46 Copynumber: 3.7 Consensus size: 45
59918418 TCTCGAGGCT
59918428 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAAAGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCT-AAAGCC
59918474 GATGCATGTCCCAGACATGTCTT---CTAGCTCTCGTCTTAAAGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTC-TAAAGCC
* * * * *** *
59918517 GATGCATGTCCCAGACATGTCTTACACTGGTTCTCATAATGTGGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCGT-CTAAAGCC
*
59918563 GATGCATGTCCTAGACATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
59918594 ACACATATCA
Statistics
Matches: 104, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
43 41 0.39
44 1 0.01
46 62 0.60
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTAAAGCC
Found at i:59918515 original size:43 final size:44
Alignment explanation
Indices: 59918428--59918541 Score: 194
Period size: 43 Copynumber: 2.6 Consensus size: 44
59918418 TCTCGAGGCT
59918428 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAAAGCC
1 GATGCATGTCCCAGACATGTCTT--ACTAGCTCTCGTCTCAAAGCC
*
59918474 GATGCATGTCCCAGACATGTCTT-CTAGCTCTCGTCTTAAAGCC
1 GATGCATGTCCCAGACATGTCTTACTAGCTCTCGTCTCAAAGCC
59918517 GATGCATGTCCCAGACATGTCTTAC
1 GATGCATGTCCCAGACATGTCTTAC
59918542 ACTGGTTCTC
Statistics
Matches: 66, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
43 42 0.64
44 1 0.02
46 23 0.35
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (44 bp):
GATGCATGTCCCAGACATGTCTTACTAGCTCTCGTCTCAAAGCC
Found at i:59921177 original size:23 final size:23
Alignment explanation
Indices: 59921151--59921199 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
59921141 CACACTCCCA
59921151 TGTGGAAGTAAAGCACAAACTCG
1 TGTGGAAGTAAAGCACAAACTCG
* **
59921174 TGTGGAGGTAAAGCACACGCTCG
1 TGTGGAAGTAAAGCACAAACTCG
59921197 TGT
1 TGT
59921200 CCCTCACCCG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.31, C:0.18, G:0.31, T:0.20
Consensus pattern (23 bp):
TGTGGAAGTAAAGCACAAACTCG
Found at i:59923278 original size:30 final size:30
Alignment explanation
Indices: 59923242--59923311 Score: 131
Period size: 30 Copynumber: 2.3 Consensus size: 30
59923232 CTCATACTAG
59923242 CCCACATTTTCCTCCATTTCACATTTCTAC
1 CCCACATTTTCCTCCATTTCACATTTCTAC
*
59923272 CCCACATTTTCCTCTATTTCACATTTCTAC
1 CCCACATTTTCCTCCATTTCACATTTCTAC
59923302 CCCACATTTT
1 CCCACATTTT
59923312 ATACCTTTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.20, C:0.39, G:0.00, T:0.41
Consensus pattern (30 bp):
CCCACATTTTCCTCCATTTCACATTTCTAC
Found at i:59924975 original size:22 final size:22
Alignment explanation
Indices: 59924949--59924991 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
59924939 ATTTCCATCT
59924949 CAATTC-ATCAAAAAAATCATAA
1 CAATTCTA-CAAAAAAATCATAA
*
59924971 CAATTCTACAATAAAATCATA
1 CAATTCTACAAAAAAATCATA
59924992 TCATAAGCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.26
Consensus pattern (22 bp):
CAATTCTACAAAAAAATCATAA
Found at i:59926442 original size:11 final size:11
Alignment explanation
Indices: 59926426--59926457 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
59926416 CTAATGTTCT
59926426 TTTTATTTTTC
1 TTTTATTTTTC
59926437 TTTTATTTTTC
1 TTTTATTTTTC
*
59926448 TTGTATTTTT
1 TTTTATTTTT
59926458 GGCACAAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.09, C:0.06, G:0.03, T:0.81
Consensus pattern (11 bp):
TTTTATTTTTC
Found at i:59934185 original size:40 final size:40
Alignment explanation
Indices: 59934111--59934292 Score: 255
Period size: 40 Copynumber: 4.6 Consensus size: 40
59934101 AACCCAAGTA
* * *
59934111 CCTTCGGGAT-TTAG-CCAGATATAG-CAACTCGCACAAATA
1 CCTTCGGG-TCTTAGCCCGGATATAGTC-ACTAGCACAAATG
59934150 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
59934190 CCTTCGGGAT-TTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATG
* *
59934230 CCTTCGGGACTTAGCCCAGATATAGTCACTAGCACAAATG
1 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
*
59934270 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGTCTTAGCCCGGATAT
59934293 CATTCGAATA
Statistics
Matches: 132, Mismatches: 6, Indels: 9
0.90 0.04 0.06
Matches are distributed among these distances:
38 1 0.01
39 12 0.09
40 117 0.89
41 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:59934243 original size:80 final size:80
Alignment explanation
Indices: 59934111--59934292 Score: 287
Period size: 80 Copynumber: 2.3 Consensus size: 80
59934101 AACCCAAGTA
* * * *
59934111 CCTTCGGGATTTAG-CCAGATATAGCAACTCGCACAAATACCTTCGGGTCTTAGCCCGGATATAG
1 CCTTCGGGATTTAGCCCGGATATAGCAACTAGCACAAATACCTTCGGGACTTAGCCCAGATATAG
59934175 TCACTAGCACAAATG
66 TCACTAGCACAAATG
*
59934190 CCTTCGGGATTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCAGATATA
1 CCTTCGGGATTTAGCCCGGATATAG-CAACTAGCACAAATACCTTCGGGACTTAGCCCAGATATA
59934254 GTCACTAGCACAAATG
65 GTCACTAGCACAAATG
*
59934270 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGATTTAGCCCGGATAT
59934293 CATTCGAATA
Statistics
Matches: 95, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
79 14 0.15
80 80 0.84
81 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
CCTTCGGGATTTAGCCCGGATATAGCAACTAGCACAAATACCTTCGGGACTTAGCCCAGATATAG
TCACTAGCACAAATG
Found at i:59942213 original size:40 final size:40
Alignment explanation
Indices: 59942139--59942318 Score: 260
Period size: 39 Copynumber: 4.6 Consensus size: 40
59942129 AACCCAAGTA
* * * *
59942139 CCTTTGGGATTTAG-CCGGATATAG-CAACTCGCACAAATA
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
59942178 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
59942218 CCTTCGGGA-TTAGCCCAGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
59942257 CCTTCGGGACTTAGCCCAGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
59942297 CCTTC-GGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
59942319 CATTCGAATA
Statistics
Matches: 130, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
39 65 0.50
40 64 0.49
41 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:59942279 original size:79 final size:80
Alignment explanation
Indices: 59942139--59942318 Score: 260
Period size: 79 Copynumber: 2.3 Consensus size: 80
59942129 AACCCAAGTA
* * * * *
59942139 CCTTTGGGATTTAG-CCGGATATAGCAACTCGCACAAATACCTTCGGGTCTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATACCTTCGGGACTTAGCCCAGATATAG
59942203 TCACTAGCACAAATG
66 TCACTAGCACAAATG
* *
59942218 CCTTCGGGA-TTAGCCCAGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCAGATATA
1 CCTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATACCTTCGGGACTTAGCCCAGATATA
59942281 GTCACTAGCACAAATG
65 GTCACTAGCACAAATG
59942297 CCTTC-GGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
59942319 CATTCGAATA
Statistics
Matches: 91, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
78 7 0.08
79 83 0.91
80 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATACCTTCGGGACTTAGCCCAGATATAG
TCACTAGCACAAATG
Found at i:59956386 original size:22 final size:22
Alignment explanation
Indices: 59956360--59956402 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
59956350 ATTTCCATCT
59956360 CAATTC-ATCAAAAAAATCATAA
1 CAATTCTA-CAAAAAAATCATAA
*
59956382 CAATTCTACAATAAAATCATA
1 CAATTCTACAAAAAAATCATA
59956403 TCATAAGCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.26
Consensus pattern (22 bp):
CAATTCTACAAAAAAATCATAA
Found at i:59957647 original size:17 final size:17
Alignment explanation
Indices: 59957614--59957647 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
59957604 ACAAAGAAAC
59957614 AATTACAAAAACGTAAA
1 AATTACAAAAACGTAAA
59957631 AATTATCAAAAAC-TAAA
1 AATTA-CAAAAACGTAAA
59957648 GCAAAAACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.65, C:0.12, G:0.03, T:0.21
Consensus pattern (17 bp):
AATTACAAAAACGTAAA
Found at i:59960171 original size:40 final size:40
Alignment explanation
Indices: 59960109--59960326 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
59960099 AAGCCAAGTA
* * * *
59960109 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
59960148 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
59960188 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
59960228 CCTTCGGGACTTAGCCCGGATATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
59960268 CCTTCGGGACTTTGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
59960308 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
59960327 TTATCATCCA
Statistics
Matches: 162, Mismatches: 14, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
39 13 0.08
40 149 0.92
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:59968519 original size:9 final size:8
Alignment explanation
Indices: 59968493--59968517 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
59968483 CTAGAAGAAA
59968493 TATTTTTT
1 TATTTTTT
59968501 TATTTTTT
1 TATTTTTT
59968509 TATTTTTT
1 TATTTTTT
59968517 T
1 T
59968518 TAACATTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TATTTTTT
Found at i:59977922 original size:47 final size:47
Alignment explanation
Indices: 59977870--59978324 Score: 703
Period size: 47 Copynumber: 9.6 Consensus size: 47
59977860 GATAATTGTG
* *
59977870 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
59977917 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
59977964 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
59978013 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
59978060 ATGTGAAAGTGTATATATGTGATAAAGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
59978107 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
59978156 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATATGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
59978205 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
59978252 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
59978299 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
59978325 TCCCGAAGGG
Statistics
Matches: 378, Mismatches: 26, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
47 240 0.63
49 138 0.37
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:59977977 original size:96 final size:96
Alignment explanation
Indices: 59977870--59978324 Score: 715
Period size: 96 Copynumber: 4.8 Consensus size: 96
59977860 GATAATTGTG
59977870 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
59977933 ATGTGATAAGGCCGAATGGCCGATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
59977964 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
59978029 ATGTGATAAGGCCTAATAGCCGATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
59978060 ATGTGAAAGTG--TATATATGTGATAAAGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
59978123 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
59978156 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATATGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
59978221 ATGTGATGAGGCCTAATGGCCGATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * * *
59978252 ATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
59978315 ATGTGATAAG
66 ATGTGATAAG
59978325 TCCCGAAGGG
Statistics
Matches: 334, Mismatches: 21, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
94 101 0.30
95 2 0.01
96 188 0.56
98 43 0.13
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (96 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:59978019 original size:143 final size:143
Alignment explanation
Indices: 59977870--59978324 Score: 725
Period size: 143 Copynumber: 3.2 Consensus size: 143
59977860 GATAATTGTG
*
59977870 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
59977935 GTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
66 GTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
59978000 GCCGATGTGATGA
131 GCCGATGTGATGA
* *
59978013 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* *
59978078 GTGATAAAGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
66 GTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
59978143 GCCGATGTGATGA
131 GCCGATGTGATGA
*
59978156 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATATGATGAATGTGAAAGTGTATAT
1 ATGTGAAA--GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * * * * *
59978221 ATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCCGAG
64 ATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
* * *
59978284 TGGCCAACGTGATGG
129 TGGCCGATGTGATGA
* *
59978299 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTATATATATGTGATAAG
59978325 TCCCGAAGGG
Statistics
Matches: 289, Mismatches: 21, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
141 16 0.06
143 183 0.63
145 90 0.31
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (143 bp):
ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
GCCGATGTGATGA
Found at i:59982632 original size:39 final size:40
Alignment explanation
Indices: 59982428--59982650 Score: 254
Period size: 40 Copynumber: 5.6 Consensus size: 40
59982418 TTGAATGCTG
* * * * * *
59982428 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
59982468 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
59982508 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
*
59982548 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
*
59982588 TCCGGGTTAAGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
59982627 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
59982651 TGAACGAGGA
Statistics
Matches: 163, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
39 35 0.21
40 120 0.74
41 8 0.05
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:59982670 original size:79 final size:80
Alignment explanation
Indices: 59982502--59982685 Score: 230
Period size: 79 Copynumber: 2.3 Consensus size: 80
59982492 TGTGCGAGAT
* * *
59982502 ACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAG
1 ACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAG
** *
59982567 GCATTCGTGCGAGTT
66 GCATTCGAACGAGTG
* * *
59982582 ATTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAG
1 ACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAG
*
59982646 GCATTTGAACGAG-G
66 GCATTCGAACGAGTG
* *
59982660 AGCTATATCC-GGTTAAATCCCGAAGG
1 A-CTAAATCCGGGTTAAGTCCCGAAGG
59982686 TACGTGATTT
Statistics
Matches: 90, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
78 16 0.18
79 45 0.50
80 29 0.32
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (80 bp):
ACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAG
GCATTCGAACGAGTG
Found at i:59982670 original size:119 final size:120
Alignment explanation
Indices: 59982428--59982685 Score: 265
Period size: 119 Copynumber: 2.2 Consensus size: 120
59982418 TTGAATGCTG
* * * *
59982428 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCCTTT
1 TCCGGGTTAAGTCCCGAAGGCTTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCCATT
* * ** * *
59982493 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
66 GTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAA
* * * **
59982548 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGG-CA
1 TCCGGGTTAAGTCCCGAAGGC-TTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCCA
* * * * *
59982610 TTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
64 TTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAA
*
59982667 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
59982686 TACGTGATTT
Statistics
Matches: 114, Mismatches: 21, Indels: 8
0.80 0.15 0.06
Matches are distributed among these distances:
118 16 0.14
119 49 0.43
120 43 0.38
121 6 0.05
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (120 bp):
TCCGGGTTAAGTCCCGAAGGCTTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCCATT
GTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAA
Found at i:59989805 original size:28 final size:29
Alignment explanation
Indices: 59989761--59989848 Score: 124
Period size: 29 Copynumber: 3.1 Consensus size: 29
59989751 CATAACTGTA
*
59989761 AATGTGTTTTGGGCCTAAT-GGTCATATG
1 AATGTGATTTGGGCCTAATGGGTCATATG
* *
59989789 AATGTGATTTGGACCTAATGGGTCATATA
1 AATGTGATTTGGGCCTAATGGGTCATATG
* *
59989818 AATGTGATTTGGGCCTCATGGGCCATATG
1 AATGTGATTTGGGCCTAATGGGTCATATG
59989847 AA
1 AA
59989849 AGAGATTAAG
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
28 17 0.33
29 35 0.67
ACGTcount: A:0.26, C:0.12, G:0.27, T:0.34
Consensus pattern (29 bp):
AATGTGATTTGGGCCTAATGGGTCATATG
Found at i:59989874 original size:57 final size:57
Alignment explanation
Indices: 59989759--59989867 Score: 130
Period size: 57 Copynumber: 1.9 Consensus size: 57
59989749 AGCATAACTG
* * * * **
59989759 TAAATGTGTTTTGGGCCTAATGGTCATATGAATGTGATTTGGACCTAATGGGTCATA
1 TAAATGTGATTTGGGCCTAATGGCCATATGAAAGAGATTAAGACCTAATGGGTCATA
* *
59989816 TAAATGTGATTTGGGCCTCATGGGCCATATGAAAGAGATTAAG-CCTAGTGGG
1 TAAATGTGATTTGGGCCTAAT-GGCCATATGAAAGAGATTAAGACCTAATGGG
59989868 CTATATACAG
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
57 27 0.63
58 16 0.37
ACGTcount: A:0.28, C:0.12, G:0.28, T:0.32
Consensus pattern (57 bp):
TAAATGTGATTTGGGCCTAATGGCCATATGAAAGAGATTAAGACCTAATGGGTCATA
Found at i:59995601 original size:13 final size:13
Alignment explanation
Indices: 59995579--59995611 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
59995569 AAGGGTTTGT
59995579 TTAT-TAAACTAA
1 TTATCTAAACTAA
59995591 TTATCTAAACTAA
1 TTATCTAAACTAA
*
59995604 TTAACTAA
1 TTATCTAA
59995612 TTTAATCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:59997790 original size:40 final size:40
Alignment explanation
Indices: 59997700--59997879 Score: 215
Period size: 40 Copynumber: 4.5 Consensus size: 40
59997690 ACCTAAGTAT
** * *
59997700 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
59997738 CTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
59997778 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * *
59997818 CTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
59997858 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
59997880 CATTCGAATA
Statistics
Matches: 122, Mismatches: 15, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
37 1 0.01
38 11 0.09
39 17 0.14
40 92 0.75
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:59997836 original size:80 final size:79
Alignment explanation
Indices: 59997700--59997879 Score: 247
Period size: 80 Copynumber: 2.3 Consensus size: 79
59997690 ACCTAAGTAT
* *
59997700 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCACAAGGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGG-TCTTAGCCCGGATATAACAACTCGCACAAGGCCTTCGGATCTTAGCCCGGATATAGT
* *
59997763 CGCTAGCACAAATGC
65 CACTAGCACAAAAGC
* * *
59997778 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATATAGT
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCAC-AAGGCCTTCGGATCTTAGCCCGGATATAGT
*
59997843 CACTAGCATAAAAGC
65 CACTAGCACAAAAGC
*
59997858 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
59997880 CATTCGAATA
Statistics
Matches: 90, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
77 1 0.01
78 11 0.12
79 18 0.20
80 60 0.67
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (79 bp):
CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAGGCCTTCGGATCTTAGCCCGGATATAGTC
ACTAGCACAAAAGC
Found at i:60022891 original size:28 final size:29
Alignment explanation
Indices: 60022840--60022898 Score: 102
Period size: 28 Copynumber: 2.0 Consensus size: 29
60022830 TATTCATGAT
60022840 TGAATGTACATATATATATATAACAAAGTA
1 TGAATGTACA-ATATATATATAACAAAGTA
60022870 TGAATGTAC-ATATATATATAACAAAGTA
1 TGAATGTACAATATATATATAACAAAGTA
60022898 T
1 T
60022899 CTTTCAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 20 0.69
30 9 0.31
ACGTcount: A:0.49, C:0.07, G:0.10, T:0.34
Consensus pattern (29 bp):
TGAATGTACAATATATATATAACAAAGTA
Found at i:60024546 original size:14 final size:15
Alignment explanation
Indices: 60024529--60024557 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
60024519 TCACGAAAAT
60024529 TTCACACAT-ATAAA
1 TTCACACATAATAAA
60024543 TTCACACATAATAAA
1 TTCACACATAATAAA
60024558 CATAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:60025616 original size:77 final size:77
Alignment explanation
Indices: 60025489--60025641 Score: 270
Period size: 77 Copynumber: 2.0 Consensus size: 77
60025479 TTAGCATAAC
* *
60025489 TTAGGGATTTTCATAGATTAAGATACCAAGTGAATAAATTGTTTAAATCAGATTCATAATAATAA
1 TTAGGGATTTTCATAGATCAAGATACCAAGTGAATAAATTGTTTAAATCAGATTCATAATAACAA
60025554 ATGAAGTCTAGT
66 ATGAAGTCTAGT
* *
60025566 TTAGGGATTTTCATGGATCAAGATACCAAGTGAATAAATTGTTTAAATCAGATTCATAATAACAT
1 TTAGGGATTTTCATAGATCAAGATACCAAGTGAATAAATTGTTTAAATCAGATTCATAATAACAA
60025631 ATGAAGTCTAG
66 ATGAAGTCTAG
60025642 GTGGATTCTT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
77 72 1.00
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34
Consensus pattern (77 bp):
TTAGGGATTTTCATAGATCAAGATACCAAGTGAATAAATTGTTTAAATCAGATTCATAATAACAA
ATGAAGTCTAGT
Found at i:60030849 original size:45 final size:45
Alignment explanation
Indices: 60030753--60030903 Score: 144
Period size: 45 Copynumber: 3.4 Consensus size: 45
60030743 ATAAACTTGA
* * ** * *
60030753 ACCAATTCAACAAGCTCAGATGC-TCGCATCCATGATGAACTCAG
1 ACCAACTCAACAAGCTCAGATGCTTCACATATATCATGAACTCGG
* * *
60030797 ACCAACTCAACGAGCTCGGATGCTTCACATATATCATGAACTTGG
1 ACCAACTCAACAAGCTCAGATGCTTCACATATATCATGAACTCGG
* * * * *
60030842 ACCAACTCAACAAGTTCAGAT-TTCTCACACATATTACGAACTCGG
1 ACCAACTCAACAAGCTCAGATGCT-TCACATATATCATGAACTCGG
*
60030887 ACCAACTCAACGAGCTC
1 ACCAACTCAACAAGCTC
60030904 GGATATCTAA
Statistics
Matches: 86, Mismatches: 19, Indels: 3
0.80 0.18 0.03
Matches are distributed among these distances:
44 21 0.24
45 65 0.76
ACGTcount: A:0.34, C:0.30, G:0.15, T:0.22
Consensus pattern (45 bp):
ACCAACTCAACAAGCTCAGATGCTTCACATATATCATGAACTCGG
Found at i:60033875 original size:135 final size:134
Alignment explanation
Indices: 60033634--60033906 Score: 451
Period size: 135 Copynumber: 2.0 Consensus size: 134
60033624 ATATGCCAAC
* * *
60033634 ACCATAAAGAAACAAAAGTCCTAGTGATTATCTTAAGTGATAGAGAAGATGAAAGTGAGTAGTAG
1 ACCATAAAGAAACAAAAGTCATAGTGATTATATTAAATGATAGAGAAGATGAAAGTGAGTAGTAG
60033699 ACTCAGATGAAGAATTAAGCAATTATATGGCTTTCATAGTGTTTGTTCAACCATTTGTTTAGACA
66 ACTCAGATGAAGAATTAAGCAATTATATGGCTTTCATAGTGTTTGTTCAACCATTTGTTTAGACA
*
60033764 GATA
131 GACA
* *
60033768 ACCATAAAGAAACAAAAGTCTATAGTGGTTATATTAAATGAT-GAAGAAGATGAAAGTGAGTACT
1 ACCATAAAGAAACAAAAGTC-ATAGTGATTATATTAAATGATAG-AGAAGATGAAAGTGAGTA-G
60033832 TAGACTCAGAT-AAGAATTAAGCAATTATATGGCTTTCATAGTGTTTGTTCAACCATTTGTTTAG
63 TAGACTCAGATGAAGAATTAAGCAATTATATGGCTTTCATAGTGTTTGTTCAACCATTTGTTTAG
60033896 ACAGACA
128 ACAGACA
60033903 ACCA
1 ACCA
60033907 AAAAATCTGT
Statistics
Matches: 130, Mismatches: 6, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
134 21 0.16
135 98 0.75
136 11 0.08
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.30
Consensus pattern (134 bp):
ACCATAAAGAAACAAAAGTCATAGTGATTATATTAAATGATAGAGAAGATGAAAGTGAGTAGTAG
ACTCAGATGAAGAATTAAGCAATTATATGGCTTTCATAGTGTTTGTTCAACCATTTGTTTAGACA
GACA
Found at i:60049885 original size:27 final size:27
Alignment explanation
Indices: 60049854--60050031 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
60049844 TAAATTGTAC
60049854 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
60049881 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
60049907 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
60049935 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
60049963 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
60049990 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
60050017 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
60050032 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:60049968 original size:82 final size:81
Alignment explanation
Indices: 60049855--60050010 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
60049845 AAATTGTACA
* *
60049855 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
60049919 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
60049936 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
60050001 TGCGAGTTGA
65 TGCGAATTGA
60050011 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:60050022 original size:82 final size:81
Alignment explanation
Indices: 60049851--60050031 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
60049841 GATTAAATTG
* *
60049851 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
60049916 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
60049932 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
60049996 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
60050014 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
60050032 GGCTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:60050042 original size:27 final size:27
Alignment explanation
Indices: 60049936--60050042 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
60049926 TGACCATGCG
* * * *
60049936 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
60049964 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
60049991 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
60050018 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
60050043 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:60058508 original size:28 final size:28
Alignment explanation
Indices: 60058445--60058650 Score: 281
Period size: 28 Copynumber: 7.4 Consensus size: 28
60058435 ATAATAAGTC
* *
60058445 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
60058472 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
60058500 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
*
60058528 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
60058556 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
60058584 CGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAATCAAACT
* * * *
60058611 CGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAA-TCAAACT
60058640 CGCACACTTAG
1 CGCACACTTAG
60058651 CGCCAATCTC
Statistics
Matches: 164, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
27 43 0.26
28 108 0.66
29 13 0.08
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:60069106 original size:16 final size:16
Alignment explanation
Indices: 60069085--60069129 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
60069075 ATGTATCGGC
*
60069085 AAAAGCCGAAATGCCA
1 AAAAGCCGAAAAGCCA
60069101 AAAAGCCGAAAAGCCA
1 AAAAGCCGAAAAGCCA
*
60069117 AAATGCCGAAAAG
1 AAAAGCCGAAAAG
60069130 TCGAAAGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.53, C:0.22, G:0.20, T:0.04
Consensus pattern (16 bp):
AAAAGCCGAAAAGCCA
Found at i:60069114 original size:8 final size:8
Alignment explanation
Indices: 60069085--60069135 Score: 59
Period size: 8 Copynumber: 6.4 Consensus size: 8
60069075 ATGTATCGGC
60069085 AAAAGCCG
1 AAAAGCCG
* *
60069093 AAATGCCA
1 AAAAGCCG
60069101 AAAAGCCG
1 AAAAGCCG
60069109 AAAAGCC-
1 AAAAGCCG
60069116 AAAATGCCG
1 AAAA-GCCG
*
60069125 AAAAGTCG
1 AAAAGCCG
60069133 AAA
1 AAA
60069136 GTTTGGCTAC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
7 4 0.11
8 28 0.78
9 4 0.11
ACGTcount: A:0.53, C:0.22, G:0.20, T:0.06
Consensus pattern (8 bp):
AAAAGCCG
Found at i:60069120 original size:24 final size:24
Alignment explanation
Indices: 60069085--60069135 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
60069075 ATGTATCGGC
*
60069085 AAAAGCCGAAATGCCAAAAAGCCG
1 AAAAGCCAAAATGCCAAAAAGCCG
* *
60069109 AAAAGCCAAAATGCCGAAAAGTCG
1 AAAAGCCAAAATGCCAAAAAGCCG
60069133 AAA
1 AAA
60069136 GTTTGGCTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.53, C:0.22, G:0.20, T:0.06
Consensus pattern (24 bp):
AAAAGCCAAAATGCCAAAAAGCCG
Found at i:60078711 original size:58 final size:57
Alignment explanation
Indices: 60078639--60078747 Score: 155
Period size: 58 Copynumber: 1.9 Consensus size: 57
60078629 TGAATGTGAC
* *
60078639 TGGGCCTAACGGGCCATATAAATGTGATTTGGGCCTAATGGGCCATATACAGAGGATT
1 TGGGCCTAACGGGCCATATAAATATGA-TTGGGCCTAATGGGCCAGATACAGAGGATT
* * * *
60078697 TGGGCCTAATGGGCCATATGAATATGATTGGGCTTAATGGGCTAGATACAG
1 TGGGCCTAACGGGCCATATAAATATGATTGGGCCTAATGGGCCAGATACAG
60078748 GTATGTGAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
57 21 0.47
58 24 0.53
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.27
Consensus pattern (57 bp):
TGGGCCTAACGGGCCATATAAATATGATTGGGCCTAATGGGCCAGATACAGAGGATT
Found at i:60078736 original size:28 final size:29
Alignment explanation
Indices: 60078626--60078738 Score: 124
Period size: 29 Copynumber: 4.0 Consensus size: 29
60078616 GTGAGCATGA
* * *
60078626 ATATGAATGTGA-CTGGGCCTAACGGGCC
1 ATATGAATATGATTTGGGCCTAATGGGCC
* *
60078654 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATATGATTTGGGCCTAATGGGCC
* *
60078683 ATAT-ACAGAGGATTTGGGCCTAATGGGCC
1 ATATGA-ATATGATTTGGGCCTAATGGGCC
*
60078712 ATATGAATATGA-TTGGGCTTAATGGGC
1 ATATGAATATGATTTGGGCCTAATGGGC
60078739 TAGATACAGG
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
28 26 0.36
29 46 0.63
30 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.27
Consensus pattern (29 bp):
ATATGAATATGATTTGGGCCTAATGGGCC
Found at i:60089769 original size:21 final size:21
Alignment explanation
Indices: 60089744--60089783 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
60089734 TGGAGAATCC
* *
60089744 ACCACATATTTGCCAATAATG
1 ACCACATAATTGCAAATAATG
60089765 ACCACATAATTGCAAATAA
1 ACCACATAATTGCAAATAA
60089784 ACTGTCACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.23, G:0.07, T:0.25
Consensus pattern (21 bp):
ACCACATAATTGCAAATAATG
Done.