Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 74 of 253
Found at i:22050347 original size:79 final size:80
Alignment explanation
Indices: 22050235--22050414 Score: 199
Period size: 79 Copynumber: 2.3 Consensus size: 80
22050225 CTCATTCAAT
* * *
22050235 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAAGGCCTTC-GGATCTTAACCCGGATAT
* *
22050298 TGT-A-TCTCGCACAAA
65 AGTCACT-TAGCACAAA
* * **
22050313 GGCCTTCGGGACTTAACCCGGA-ATTAGTATCTCGCACAAAGGCCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTA-AAACTCGCACAAAGGCCTTCGGATCTTAACCCGGATA
22050377 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
22050394 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
22050415 CAGCATTCAA
Statistics
Matches: 86, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
78 6 0.07
79 46 0.53
80 24 0.28
81 9 0.10
82 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAAGGCCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:22052913 original size:17 final size:17
Alignment explanation
Indices: 22052887--22052928 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
22052877 ATTCTTGCAG
*
22052887 ACTTTATCAACCAAGAC
1 ACTTTTTCAACCAAGAC
22052904 ACTTTTTCAACCAAGAC
1 ACTTTTTCAACCAAGAC
22052921 ACTTTTTC
1 ACTTTTTC
22052929 CTAAGAGGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.33
Consensus pattern (17 bp):
ACTTTTTCAACCAAGAC
Found at i:22057695 original size:21 final size:21
Alignment explanation
Indices: 22057664--22057724 Score: 97
Period size: 21 Copynumber: 3.0 Consensus size: 21
22057654 CCCTTGAAAC
*
22057664 AGGGC-ACACGCCCATGTGGA
1 AGGGCAACACGCCCGTGTGGA
*
22057684 AGGGCAACACGCCTGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
22057705 AGGGCAACACGCCCGTGTGG
1 AGGGCAACACGCCCGTGTGG
22057725 CCACTATGAC
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
20 5 0.14
21 32 0.86
ACGTcount: A:0.23, C:0.28, G:0.38, T:0.11
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:22059079 original size:46 final size:46
Alignment explanation
Indices: 22058923--22059189 Score: 211
Period size: 46 Copynumber: 5.7 Consensus size: 46
22058913 TCCGTCTAGT
* * **
22058923 CGATGCCATGTCCTAGACATGGTCTTACACT-GACTATCGAAATTGAGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAG-CTCTC-ATCTTGAGGC
* * * * *
22058972 TGACGTCATCTCCCAGACATGGTCTTACACT-G-ACACATCTTGTA-GC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTTG-AGGC
* *
22059018 CAATGCATGTCCCAGACATGTCTTACACTAGCT-TACATTTTGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCT-CATCTTGAGGC
* * * ** *
22059064 CGATACATGTCCCAGATATGTCTTACACTAGCTCTCGTCTCCATGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTTGAGGC
* * ** *
22059110 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTATAATGTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTTGAGGC
22059158 CGATGCATGTCCCAGACATGTCTTACACTAGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC
22059190 ACACAAATAA
Statistics
Matches: 173, Mismatches: 37, Indels: 19
0.76 0.16 0.08
Matches are distributed among these distances:
44 10 0.06
45 15 0.09
46 68 0.39
47 30 0.17
48 23 0.13
49 27 0.16
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTTGAGGC
Found at i:22062424 original size:90 final size:90
Alignment explanation
Indices: 22062267--22062441 Score: 212
Period size: 90 Copynumber: 1.9 Consensus size: 90
22062257 CCAAATAGAA
* * ** * * *
22062267 TGCCAAAGCCATGTCCCCGACATGGTCTTACATGGGTCTACATATCGATGCCATATCCTAGATAT
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACAAGGACCTACATAGCGATGCCATATCCTAAACAT
*
22062332 GGTCTTATAC-AAAGTCTCATGTCGG
66 GGTCTTACACGAAA-TCTCATGTCGG
* *
22062357 TGCCAATGCCATGTCCCAGACATGGTCTTACACAGGACCT-CATAGCGATGCCATGT-CTCAAAC
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACA-AGGACCTACATAGCGATGCCATATCCT-AAAC
22062420 ATGGTCTTACACGAAATCTCAT
64 ATGGTCTTACACGAAATCTCAT
22062442 ATCAACGCCA
Statistics
Matches: 72, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
89 2 0.03
90 63 0.88
91 7 0.10
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (90 bp):
TGCCAAAGCCATGTCCCAGACATGGTCTTACAAGGACCTACATAGCGATGCCATATCCTAAACAT
GGTCTTACACGAAATCTCATGTCGG
Found at i:22062441 original size:42 final size:42
Alignment explanation
Indices: 22062362--22062579 Score: 159
Period size: 42 Copynumber: 4.9 Consensus size: 42
22062352 GTCGGTGCCA
* * *
22062362 ATGCCATGTCCCAGACATGGTCTTACAC-AGGACCTCATAGCG
1 ATGCCATGTCCCAGACATGGTCTTACACGA-AATCTCATACCG
* * * *
22062404 ATGCCATGTCTCAAACATGGTCTTACACGAAATCTCATATCA
1 ATGCCATGTCCCAGACATGGTCTTACACGAAATCTCATACCG
* * * *
22062446 ACGCCATATCCCAGACATGGTCTTACATGAAATCACATACCG
1 ATGCCATGTCCCAGACATGGTCTTACACGAAATCTCATACCG
* * * **
22062488 ATGCCGATGCCATATCCCAGATATGGTCTTATACTGGCACACATATCAATGTCG
1 ATGCC-ATG-----TCCCAGACATGGTCTTACAC--G-A-A-ATCTC-ATACCG
*
22062542 ATGCCATGTCCCAGACATGGTCTTACACGAGATCTCAT
1 ATGCCATGTCCCAGACATGGTCTTACACGAAATCTCAT
22062580 TAATTGTGGT
Statistics
Matches: 136, Mismatches: 27, Indels: 26
0.72 0.14 0.14
Matches are distributed among these distances:
42 74 0.54
43 7 0.05
45 1 0.01
46 1 0.01
48 35 0.26
50 1 0.01
51 1 0.01
52 1 0.01
53 6 0.04
54 9 0.07
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.25
Consensus pattern (42 bp):
ATGCCATGTCCCAGACATGGTCTTACACGAAATCTCATACCG
Found at i:22062504 original size:48 final size:48
Alignment explanation
Indices: 22062448--22062569 Score: 156
Period size: 48 Copynumber: 2.5 Consensus size: 48
22062438 TCATATCAAC
*
22062448 GCCATATCCCAGACATGGTCTTACA-TGAAATCACATACCGATGCCGAT
1 GCCATATCCCAGACATGGTCTTACACTGAAA-CACATACCAATGCCGAT
* * ** * *
22062496 GCCATATCCCAGATATGGTCTTATACTGGCACACATATCAATGTCGAT
1 GCCATATCCCAGACATGGTCTTACACTGAAACACATACCAATGCCGAT
*
22062544 GCCATGTCCCAGACATGGTCTTACAC
1 GCCATATCCCAGACATGGTCTTACAC
22062570 GAGATCTCAT
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
48 60 0.95
49 3 0.05
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (48 bp):
GCCATATCCCAGACATGGTCTTACACTGAAACACATACCAATGCCGAT
Found at i:22066045 original size:27 final size:27
Alignment explanation
Indices: 22066015--22066089 Score: 91
Period size: 25 Copynumber: 2.9 Consensus size: 27
22066005 AAAGCGTTCA
**
22066015 TTTCATATTTTTCCACAAAGGTTTTTC
1 TTTCATATTACTCCACAAAGGTTTTTC
* *
22066042 TTTCATATTACTCGACAAA-GTCTTTC
1 TTTCATATTACTCCACAAAGGTTTTTC
*
22066068 -TTCATATTACGCCACAAAGGTT
1 TTTCATATTACTCCACAAAGGTT
22066090 ATCATTGTAG
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
25 16 0.40
26 8 0.20
27 16 0.40
ACGTcount: A:0.27, C:0.21, G:0.09, T:0.43
Consensus pattern (27 bp):
TTTCATATTACTCCACAAAGGTTTTTC
Found at i:22072864 original size:40 final size:40
Alignment explanation
Indices: 22072802--22073057 Score: 360
Period size: 40 Copynumber: 6.5 Consensus size: 40
22072792 AAACCAAGTA
* * *
22072802 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
**
22072841 CCTTCGGGACTTAGCCCGGATATAGTAGTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
22072881 CCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
22072921 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
22072961 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* *
22073001 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
22073041 CCTTC-GGACTTAGCCCG
1 CCTTCGGGACTTAGCCCG
22073058 TTATCATCCG
Statistics
Matches: 203, Mismatches: 11, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
39 26 0.13
40 177 0.87
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:22080970 original size:40 final size:40
Alignment explanation
Indices: 22080888--22081143 Score: 276
Period size: 40 Copynumber: 6.4 Consensus size: 40
22080878 AAACCAAGTA
* * * * *
22080888 CCTTCGGGATTTA-ACCGGATATAGCTA-CTCGCTCAAACG
1 CCTTCGGGACTTAGCCCGGATATAG-TAGCTCACACAAATG
* *
22080927 CCTTCGGGACTTAGCCCAGATATAGTAGTTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAGCTCACACAAATG
* *
22080967 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAGCTCACACAAATG
* *
22081007 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAGCTCACACAAATG
22081047 CCTTCGGGACTTAGCCCGGA-ATTAGTCA-CT-AGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGT-AGCTCA-CACAAATG
* *
22081087 CCTTCGGGACTTTGCCCGGA-ATTAGTCA-CT-AGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGT-AGCTCA-CACAAATG
22081127 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
22081144 CGTTATCATC
Statistics
Matches: 197, Mismatches: 15, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
39 15 0.08
40 181 0.92
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAGCTCACACAAATG
Found at i:22081043 original size:80 final size:79
Alignment explanation
Indices: 22080888--22081143 Score: 329
Period size: 80 Copynumber: 3.2 Consensus size: 79
22080878 AAACCAAGTA
* * * * *
22080888 CCTTCGGGATTTA-ACCGGATATAGCTACTCGCTCAAACGCCTTCGGGACTTAGCCCAGATATAG
1 CCTTCGGGACTTAGCCCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
** *
22080952 TAGTTCACACAAATG
65 TAACTCGCACAAATG
22080967 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
22081032 TAACTCGCACAAATG
65 TAACTCGCACAAATG
* *
22081047 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTTGCCCGGA-ATT
1 CCTTCGGGACTTAGCCCGGATA-TAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-T
* * *
22081110 AGTCACTAGCTCAAATG
63 AGTAACTCGCACAAATG
22081127 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
22081144 CGTTATCATC
Statistics
Matches: 159, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
79 15 0.09
80 144 0.91
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
AACTCGCACAAATG
Found at i:22081125 original size:120 final size:120
Alignment explanation
Indices: 22080888--22081143 Score: 335
Period size: 120 Copynumber: 2.1 Consensus size: 120
22080878 AAACCAAGTA
* * *
22080888 CCTTCGGGATTTA-ACCGGATATAGCTACTCGCTCAAACGCCTTCGGGACTTAGCCCAGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAACGCCTTCGGGACTTAGCCCAGATATAG
* *
22080952 TAGTTCACACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
66 TAGCTCACACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* *
22081007 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-ATT
1 CCTTCGGGACTTAGCCCGGATATAGCT-ACTCGCACAAACGCCTTCGGGACTTAGCCCAGATA-T
* * *
22081070 AGTCA-CT-AGCACAAATGCCTTCGGGACTTTGCCCGGA-ATTAGTCACTAGCTCAAATG
64 AGT-AGCTCA-CACAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTAGCACAAATG
22081127 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
22081144 CGTTATCATC
Statistics
Matches: 121, Mismatches: 10, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
119 16 0.13
120 104 0.86
121 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (120 bp):
CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAACGCCTTCGGGACTTAGCCCAGATATAG
TAGCTCACACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:22090523 original size:7 final size:7
Alignment explanation
Indices: 22090511--22090541 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
22090501 GCACTCGGAT
22090511 TCACATA
1 TCACATA
22090518 TCACATA
1 TCACATA
22090525 TCACATA
1 TCACATA
22090532 TACACATA
1 T-CACATA
22090540 TC
1 TC
22090542 CATGAGCTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 16 0.70
8 7 0.30
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (7 bp):
TCACATA
Found at i:22094648 original size:93 final size:93
Alignment explanation
Indices: 22094489--22094660 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
22094479 GGATGGTTGA
* *
22094489 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
22094554 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * *
22094582 GCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGTCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
22094647 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
22094661 CTTATGAGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:22094665 original size:46 final size:46
Alignment explanation
Indices: 22094492--22094666 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 46
22094482 TGGTTGAGCA
* *
22094492 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * * * * *
22094538 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATGCGA-ACG
* *
22094585 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
22094631 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG
22094667 AGCGGGTTAC
Statistics
Matches: 105, Mismatches: 19, Indels: 10
0.78 0.14 0.07
Matches are distributed among these distances:
45 1 0.01
46 70 0.67
47 33 0.31
48 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:22102116 original size:46 final size:46
Alignment explanation
Indices: 22102049--22102213 Score: 183
Period size: 46 Copynumber: 3.6 Consensus size: 46
22102039 GTTGAGCATT
22102049 CGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATACGAATGTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATACGAATGTC
* ** * * *
22102095 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTA-AC-TAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCAT-TTATGGATACGAATG--TC
* * * *
22102142 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATACGAATGTC
*
22102188 CGAGCTCGTT-AGTTGAGTCCGAGTTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTC
22102214 GCTTATGGGC
Statistics
Matches: 98, Mismatches: 16, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
45 18 0.18
46 45 0.46
47 33 0.34
48 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATACGAATGTC
Found at i:22102286 original size:43 final size:42
Alignment explanation
Indices: 22102215--22102308 Score: 170
Period size: 43 Copynumber: 2.2 Consensus size: 42
22102205 TCCGAGTTCG
*
22102215 CTTATGGGCGGGTTACATGATTGCTTGATTTCATATATGGCA
1 CTTATGTGCGGGTTACATGATTGCTTGATTTCATATATGGCA
22102257 CTTATGTGCGGGTTATCATGATTGCTTGATTTCATATATGGCA
1 CTTATGTGCGGGTTA-CATGATTGCTTGATTTCATATATGGCA
22102300 CTTATGTGC
1 CTTATGTGC
22102309 AAGTTATCCA
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
42 14 0.28
43 36 0.72
ACGTcount: A:0.20, C:0.15, G:0.24, T:0.40
Consensus pattern (42 bp):
CTTATGTGCGGGTTACATGATTGCTTGATTTCATATATGGCA
Found at i:22108885 original size:37 final size:37
Alignment explanation
Indices: 22108835--22108913 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
22108825 TTATTACGAA
* *
22108835 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
22108872 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
22108909 GTCTT
1 GTCTT
22108914 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:22109108 original size:47 final size:47
Alignment explanation
Indices: 22109030--22109564 Score: 914
Period size: 47 Copynumber: 11.4 Consensus size: 47
22109020 CCCTTCGGGA
* * * * * * *
22109030 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
22109077 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
22109124 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
22109171 CTTATCACATATATACACTTTCACATTCATCACATCGG-TATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
22109217 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
22109264 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
22109311 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
22109360 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
22109407 CTTATCACATATATACACTTTCACATTCATCACATCGG-CATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
22109453 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
22109500 CTTATCACATATATACACTTTCACATTCATCACATCGG-CATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
22109546 CTTATCACATATATACACT
1 CTTATCACATATATACACT
22109565 GTCTTGGCTG
Statistics
Matches: 467, Mismatches: 17, Indels: 9
0.95 0.03 0.02
Matches are distributed among these distances:
46 116 0.25
47 304 0.65
49 47 0.10
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:22109250 original size:93 final size:94
Alignment explanation
Indices: 22109030--22109564 Score: 923
Period size: 93 Copynumber: 5.7 Consensus size: 94
22109020 CCCTTCGGGA
* * * * * * * * *
22109030 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
22109095 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCTATTAGGC
22109124 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
22109189 TTTCACATTCATCACATCGG-TATTAGGC
66 TTTCACATTCATCACATCGGCTATTAGGC
*
22109217 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
22109282 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCTATTAGGC
22109311 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
22109376 ACTTTCACATTCATCACATCGGCTATTAGGC
64 ACTTTCACATTCATCACATCGGCTATTAGGC
22109407 CTTATCACATATATACACTTTCACATTCATCACATCGG-CATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
22109471 TTTCACATTCATCACATCGGCTATTAGGC
66 TTTCACATTCATCACATCGGCTATTAGGC
22109500 CTTATCACATATATACACTTTCACATTCATCACATCGG-CATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
22109564 T
66 T
22109565 GTCTTGGCTG
Statistics
Matches: 424, Mismatches: 14, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
93 211 0.50
94 121 0.29
96 92 0.22
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCTATTAGGC
Found at i:22109441 original size:236 final size:236
Alignment explanation
Indices: 22109030--22109560 Score: 942
Period size: 236 Copynumber: 2.3 Consensus size: 236
22109020 CCCTTCGGGA
* * * * * * * * *
22109030 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
22109093 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
22109158 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGTATTAGGCCTTATC
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCATTAGGCCTTATC
22109223 ACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
196 ACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
22109264 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
22109329 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
22109394 TCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCATTAGGCCTTATC
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCATTAGGCCTTATC
22109459 ACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
196 ACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
22109500 CTTATCACATATATACACTTTCACATTCATCACATCGG-CATTAGGCCTTATCACATATATA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
22109561 CACTGTCTTG
Statistics
Matches: 284, Mismatches: 11, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
234 46 0.16
235 23 0.08
236 215 0.76
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (236 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCATTAGGCCTTATC
ACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
Found at i:22120130 original size:15 final size:14
Alignment explanation
Indices: 22120096--22120136 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 14
22120086 CTGGATTAAG
22120096 CAAAAAAAAAA-AA
1 CAAAAAAAAAAGAA
22120109 -AAAAAAAAAAGAA
1 CAAAAAAAAAAGAA
*
22120122 CAAAGAAAAAGAGAA
1 CAAA-AAAAAAAGAA
22120137 AAGTCTTGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
12 10 0.42
13 2 0.08
14 3 0.12
15 9 0.38
ACGTcount: A:0.85, C:0.05, G:0.10, T:0.00
Consensus pattern (14 bp):
CAAAAAAAAAAGAA
Found at i:22128665 original size:22 final size:22
Alignment explanation
Indices: 22128640--22128685 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
22128630 AAAACATACA
22128640 ATATAGATACTAAAATATATTT
1 ATATAGATACTAAAATATATTT
22128662 ATATAGATACTAAAATATATTT
1 ATATAGATACTAAAATATATTT
22128684 AT
1 AT
22128686 GCTACGTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.41
Consensus pattern (22 bp):
ATATAGATACTAAAATATATTT
Found at i:22146410 original size:46 final size:46
Alignment explanation
Indices: 22146343--22146512 Score: 161
Period size: 46 Copynumber: 3.7 Consensus size: 46
22146333 AACCCGCCCC
* * *
22146343 TAAGTGAACTCAGACTTAACTCAACGAGCTCAGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGGCGTTCGCATCCA
* * *
22146389 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC--A-GGC--GTTCGCATCCA
* * *
22146437 TCA-CGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGG-CGTTCGCATCCA
*
22146482 TAAGTGAACTCGGGCTCAACTCAACGAGTTC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC
22146513 CGATGCTCAA
Statistics
Matches: 99, Mismatches: 15, Indels: 20
0.74 0.11 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 53 0.54
47 26 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCAGGCGTTCGCATCCA
Found at i:22146476 original size:93 final size:93
Alignment explanation
Indices: 22146348--22146518 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
22146338 GCCCCTAAGT
* *
22146348 GAACTCAGACTTAACTCAACGAGCTCAGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
22146413 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCCGATGCCTAGTTACATTTCAC
* * *
22146441 GAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCATAAGTGAACTCGGGCTCAACTCA
1 GAACTCAGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
22146505 ACGAGTTCCGATGC
65 ACGAGTTCCGATGC
22146519 TCAACGATCC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCCGATGCCTAGTTACATTTCAC
Found at i:22152086 original size:40 final size:40
Alignment explanation
Indices: 22152002--22152178 Score: 214
Period size: 40 Copynumber: 4.4 Consensus size: 40
22151992 GGACTAAGAT
* * * * *
22152002 CCGAAGGCATTTGTGCTAGTCACTATATCCGGACTAAGAT-
1 CCGAAGGCATTCGTGCTAGTTATTATAACCGGGCTAAG-TC
* *
22152042 CCGAAGGCAATT-GTGCTAGCTATTATAACCGGGTTAAGTC
1 CCGAAGGC-ATTCGTGCTAGTTATTATAACCGGGCTAAGTC
** *
22152082 CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTC
1 CCGAAGGCATTCGTGCTAGTTATTATAACCGGGCTAAGTC
**
22152122 CCGAAGGCATTCGTGCGGGTTATTATAACCGGGCTAAGTC
1 CCGAAGGCATTCGTGCTAGTTATTATAACCGGGCTAAGTC
22152162 CCGAAGGCATTCGTGCT
1 CCGAAGGCATTCGTGCT
22152179 GGTTGTTACA
Statistics
Matches: 123, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
39 4 0.03
40 116 0.94
41 3 0.02
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCTAGTTATTATAACCGGGCTAAGTC
Found at i:22152206 original size:40 final size:40
Alignment explanation
Indices: 22152077--22152206 Score: 143
Period size: 40 Copynumber: 3.2 Consensus size: 40
22152067 TAACCGGGTT
* ****
22152077 AAGTCCCGAAGGCATTCGTGCGGGTTATTATAACCGGGTT
1 AAGTCCCGAAGGCATTCGTGCGGGTTATTACAACCGAACC
* ** *
22152117 AAGTCCCGAAGGCATTCGTGCGGGTTATTATAACCGGGCT
1 AAGTCCCGAAGGCATTCGTGCGGGTTATTACAACCGAACC
* * *
22152157 AAGTCCCGAAGGCATTCGTGCTGGTTGTTACATCCGAACC
1 AAGTCCCGAAGGCATTCGTGCGGGTTATTACAACCGAACC
*
22152197 AAGTTCCGAA
1 AAGTCCCGAA
22152207 AGTAGTCATG
Statistics
Matches: 81, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 81 1.00
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
AAGTCCCGAAGGCATTCGTGCGGGTTATTACAACCGAACC
Found at i:22157518 original size:46 final size:46
Alignment explanation
Indices: 22157451--22157620 Score: 161
Period size: 46 Copynumber: 3.7 Consensus size: 46
22157441 AACCCGCCCC
* * * *
22157451 TAAGTGAACTCAGACTTAACTCAACAAGCTCAGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGGCGTTCGCATCCA
* * *
22157497 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC--A-GGC--GTTCGCATCCA
* * *
22157545 TCA-CGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGG-CGTTCGCATCCA
22157590 TAAGTGAACTCGGACTCAACTCAACGAGTTC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC
22157621 CGATGCTCAA
Statistics
Matches: 99, Mismatches: 15, Indels: 20
0.74 0.11 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 53 0.54
47 26 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCAGGCGTTCGCATCCA
Found at i:22157586 original size:93 final size:93
Alignment explanation
Indices: 22157456--22157626 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
22157446 GCCCCTAAGT
* *
22157456 GAACTCAGACTTAACTCAACAAGCTCAGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACAAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
22157521 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCCGATGCCTAGTTACATTTCAC
* * *
22157549 GAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCAGACTCAACTCAACAAGCTCAGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
22157613 ACGAGTTCCGATGC
65 ACGAGTTCCGATGC
22157627 TCAACGATCC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACAAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCCGATGCCTAGTTACATTTCAC
Found at i:22157642 original size:46 final size:46
Alignment explanation
Indices: 22157491--22157642 Score: 134
Period size: 46 Copynumber: 3.3 Consensus size: 46
22157481 CAGGCGTTCG
22157491 CATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA
1 CATCC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---A
* * * *** *
22157541 CAT-TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTC-G
1 CATCCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAA
*
22157584 CATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCCGATGCTCAA
1 CATCC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAA
22157631 CGATCCT-AGTGA
1 C-ATCCTAAGTGA
22157643 CATGTCACTT
Statistics
Matches: 81, Mismatches: 15, Indels: 16
0.72 0.13 0.14
Matches are distributed among these distances:
43 3 0.04
45 2 0.02
46 35 0.43
47 31 0.38
48 7 0.09
50 3 0.04
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (46 bp):
CATCCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAA
Found at i:22166135 original size:46 final size:48
Alignment explanation
Indices: 22166026--22166141 Score: 137
Period size: 50 Copynumber: 2.4 Consensus size: 48
22166016 TGTCTTCGAC
** * *
22166026 ATGGACTTACATGAATTATTCCTGTATCCAATGCCATATATTTATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTATCCAAAGCCA-ATA-TTATCTAAT
* * *
22166076 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATA-TATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTATCCAAAGCCAATATTATCTAAT
22166122 ATGGACTTACATGGCTCATT
1 ATGGACTTACATGGCTCATT
22166142 TTTGTCCTGT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 26 0.45
48 3 0.05
50 29 0.50
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.36
Consensus pattern (48 bp):
ATGGACTTACATGGCTCATTCCTGTATCCAAAGCCAATATTATCTAAT
Found at i:22180417 original size:40 final size:40
Alignment explanation
Indices: 22180333--22180476 Score: 134
Period size: 40 Copynumber: 3.6 Consensus size: 40
22180323 TTGAATGCTG
* *
22180333 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACT-AT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* * *
22180372 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
** *
22180413 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
**
22180453 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGACTAAGTCCCGAAGGCATT
22180477 GAATGAGTTA
Statistics
Matches: 87, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
39 1 0.01
40 74 0.85
41 12 0.14
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:22188225 original size:40 final size:40
Alignment explanation
Indices: 22188157--22188246 Score: 137
Period size: 40 Copynumber: 2.3 Consensus size: 40
22188147 GGACTAAGAT
* * *
22188157 CCGAAGG-ATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
1 CCGAAGGCATTTGGGCGAGATACTAATTCCGGGTTAAGTC
*
22188196 CCGAAGGCCTTTGGGCGAGATACTAATTCCGGGTTAAGTC
1 CCGAAGGCATTTGGGCGAGATACTAATTCCGGGTTAAGTC
22188236 CCGAAGGCATT
1 CCGAAGGCATT
22188247 GAATGAGTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
39 7 0.16
40 38 0.84
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGGGCGAGATACTAATTCCGGGTTAAGTC
Found at i:22196903 original size:1 final size:1
Alignment explanation
Indices: 22196897--22196935 Score: 60
Period size: 1 Copynumber: 39.0 Consensus size: 1
22196887 ATTTAAAATG
**
22196897 AAAAAAAAAAATTAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
22196936 TGGCAAAATG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:0.95, C:0.00, G:0.00, T:0.05
Consensus pattern (1 bp):
A
Found at i:22196907 original size:13 final size:12
Alignment explanation
Indices: 22196891--22196935 Score: 58
Period size: 11 Copynumber: 3.8 Consensus size: 12
22196881 ATTTTAATTT
22196891 AAAATGAAAAAAA
1 AAAAT-AAAAAAA
22196904 AAAATTAAAAAAA
1 AAAA-TAAAAAAA
22196917 AAAA-AAAAAAA
1 AAAATAAAAAAA
22196928 AAAA-AAAA
1 AAAATAAAA
22196936 TGGCAAAATG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
11 15 0.48
13 15 0.48
14 1 0.03
ACGTcount: A:0.91, C:0.00, G:0.02, T:0.07
Consensus pattern (12 bp):
AAAATAAAAAAA
Found at i:22198496 original size:37 final size:38
Alignment explanation
Indices: 22198448--22198519 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 38
22198438 CTCATTCAAT
* *
22198448 GCCTTCGGGACTTAA-CCGGAATTAGTATCTCGCAAAG
1 GCCTTCGGGACTTAACCCGGAATTAATAACTCGCAAAG
22198485 GCCTTCGGGACTTAACCCGGAATTAATAACTCGCA
1 GCCTTCGGGACTTAACCCGGAATTAATAACTCGCA
22198520 CAAATCCTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
37 15 0.47
38 17 0.53
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (38 bp):
GCCTTCGGGACTTAACCCGGAATTAATAACTCGCAAAG
Found at i:22200162 original size:47 final size:46
Alignment explanation
Indices: 22200001--22200330 Score: 419
Period size: 47 Copynumber: 7.1 Consensus size: 46
22199991 GAGTGTATAA
22200001 TGATAAGGCCTAAT-CCGATGTGATGAATGTGAAAGTGTATGTATATATG
1 TGATAAGGCCTAATGCCGATGTGATGAATGTGAAA--G--TGTATATATG
*
22200050 TGATAAGGCCTAATGCCGATGTGATGAATGTGAAAGTATATGTTATATG
1 TGATAAGGCCTAATGCCGATGTGATGAATGTGAAAGTGTA---TATATG
* *
22200099 TAATAAGGCCTAATAGCCGATGTGATGAAT-TGAAAGTGTAATATGTG
1 TGATAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGT-ATATATG
22200146 TGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATATG
22200193 TGATAAGG-CTAATGCCGATGTGAATGAATGTGAAAGTGTATGATATG
1 TGATAAGGCCTAATGCCGATGTG-ATGAATGTGAAAGTGTAT-ATATG
*
22200240 TGA-AAGG--TAATGGCCGATGCGATGAATGTGAAAGTGTATATA-G
1 TGATAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATATG
22200283 TGATAAGGCCTAATGGCCGATTGTGA-GAA-GTGAAAGTGTATAT-TG
1 TGATAAGGCCTAAT-GCCGA-TGTGATGAATGTGAAAGTGTATATATG
22200328 TGA
1 TGA
22200331 CAGGTGCCGA
Statistics
Matches: 258, Mismatches: 8, Indels: 34
0.86 0.03 0.11
Matches are distributed among these distances:
43 4 0.02
44 7 0.03
45 49 0.19
46 51 0.20
47 60 0.23
48 10 0.04
49 41 0.16
50 36 0.14
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (46 bp):
TGATAAGGCCTAATGCCGATGTGATGAATGTGAAAGTGTATATATG
Found at i:22200281 original size:91 final size:92
Alignment explanation
Indices: 22200001--22200330 Score: 403
Period size: 91 Copynumber: 3.5 Consensus size: 92
22199991 GAGTGTATAA
22200001 TGATAAGGCCTAAT--CCGATGTGATGAATGTGAAAGTGTATGTATATATGTGATAAGGCCTAAT
1 TGATAAGGCCTAATAGCCGATGTGATGAATGTGAAA--G--TGTATATATGTGATAAGG-CTAAT
*
22200064 GCCGATGTGATGAATGTGAAAGTATATGTTATATG
61 GCCGATGTGATGAATGTGAAAGTGTA---TATATG
* *
22200099 TAATAAGGCCTAATAGCCGATGTGATGAAT-TGAAAGTGTAATATGTGTGATAAGGCCTAATAGC
1 TGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGT-ATATATGTGATAAGG-CTAAT-GC
22200163 CGATGTGATGAATGTGAAAGTGTATATATG
63 CGATGTGATGAATGTGAAAGTGTATATATG
22200193 TGATAAGG-CTAAT-GCCGATGTGAATGAATGTGAAAGTGTATGATATGTGA-AAGG-TAATGGC
1 TGATAAGGCCTAATAGCCGATGTG-ATGAATGTGAAAGTGTAT-ATATGTGATAAGGCTAAT-GC
*
22200254 CGATGCGATGAATGTGAAAGTGTATATA-G
63 CGATGTGATGAATGTGAAAGTGTATATATG
*
22200283 TGATAAGGCCTAATGGCCGATTGTGA-GAA-GTGAAAGTGTATAT-TGTGA
1 TGATAAGGCCTAATAGCCGA-TGTGATGAATGTGAAAGTGTATATATGTGA
22200331 CAGGTGCCGA
Statistics
Matches: 215, Mismatches: 7, Indels: 30
0.85 0.03 0.12
Matches are distributed among these distances:
88 5 0.02
89 2 0.01
90 21 0.10
91 41 0.19
92 15 0.07
93 21 0.10
94 29 0.13
95 3 0.01
96 20 0.09
97 26 0.12
98 13 0.06
99 5 0.02
100 14 0.07
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (92 bp):
TGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCTAATGCCGA
TGTGATGAATGTGAAAGTGTATATATG
Found at i:22200346 original size:46 final size:46
Alignment explanation
Indices: 22199992--22200346 Score: 223
Period size: 46 Copynumber: 7.6 Consensus size: 46
22199982 CAGCCAAGAG
* * *
22199992 AGTGTATA-A-TGATAAGGCCTAAT--CCGATGTGATGAATGTGAA
1 AGTGTATATAGTGACAAGGCCGAATGGCCGATGCGATGAATGTGAA
* * *
22200034 AGTGTATGTATATATGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAA
1 A--G--TGTATATA-GTGACAAGGCCGAATGGCCGATGCGATGAATGTGAA
* * * * * *
22200084 AGTATATGTTATATGTAATAAGGCCTAATAGCCGATGTGATGAAT-TGAA
1 AGTGTA---TATA-GTGACAAGGCCGAATGGCCGATGCGATGAATGTGAA
* * * * *
22200133 AGTGTAATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGT-ATAT-AGTGACAAGGCCGAATGGCCGATGCGATGAATGTGAA
* * *
22200181 AGTGTATATATGTGATAAGG-CTAAT-GCCGATGTGAATGAATGTGAA
1 AGTGTATATA-GTGACAAGGCCGAATGGCCGATGCG-ATGAATGTGAA
*
22200227 AGTGTATGATATGTGA-AAGG--TAATGGCCGATGCGATGAATGTGAA
1 AGTGTAT-ATA-GTGACAAGGCCGAATGGCCGATGCGATGAATGTGAA
* * *
22200272 AGTGTATATAGTGATAAGGCCTAATGGCCGATTGTGA-GAA-GTGAA
1 AGTGTATATAGTGACAAGGCCGAATGGCCGA-TGCGATGAATGTGAA
* * *
22200317 AGTGTATATTGTGACAGGTGCCGAGTGGCC
1 AGTGTATATAGTGACAAG-GCCGAATGGCC
22200347 AACGTAATGG
Statistics
Matches: 276, Mismatches: 13, Indels: 44
0.83 0.04 0.13
Matches are distributed among these distances:
42 1 0.00
43 4 0.01
44 8 0.03
45 51 0.18
46 66 0.24
47 59 0.21
48 10 0.04
49 41 0.15
50 36 0.13
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (46 bp):
AGTGTATATAGTGACAAGGCCGAATGGCCGATGCGATGAATGTGAA
Found at i:22202443 original size:29 final size:29
Alignment explanation
Indices: 22202408--22202481 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
22202398 GTTGTGAGAT
* *
22202408 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
* *
22202437 TGGCACTAAGTGTGTGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
22202466 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
22202482 TGGTTGATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 5 0.13
29 34 0.87
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:22202921 original size:40 final size:40
Alignment explanation
Indices: 22202864--22203056 Score: 241
Period size: 40 Copynumber: 4.9 Consensus size: 40
22202854 GAGTTACTAA
*
22202864 ATCCGGGCTAAGT-CCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
*
22202903 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
* * *
22202943 ATCCGGGCTAAGTTCTGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
* * * *
22202983 ATCCGTGCTAA-ACCC-AAGAGCATTCGTGCT-GTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
* * * *
22203020 GTCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
22203057 CGTGTATTCG
Statistics
Matches: 134, Mismatches: 16, Indels: 7
0.85 0.10 0.04
Matches are distributed among these distances:
37 14 0.10
38 18 0.13
39 27 0.20
40 75 0.56
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
Found at i:22202978 original size:80 final size:77
Alignment explanation
Indices: 22202864--22203056 Score: 235
Period size: 77 Copynumber: 2.5 Consensus size: 77
22202854 GAGTTACTAA
* *
22202864 ATCCGGGCTAAG-TCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAA-ACCC-AAGAGCAT
*
22202928 TCATGCTAGTGATGT
64 TCATGCT-GTGATAT
* * *
22202943 ATCCGGGCTAAGTTCTGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAAACCCAAGAGCATTC
1 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAAACCCAAGAGCATTC
* *
22203008 GTGCTGTGTTAT
66 ATGCTGTGATAT
* * * * *
22203020 GTCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGA
22203057 CGTGTATTCG
Statistics
Matches: 98, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
77 35 0.36
78 14 0.14
79 15 0.15
80 34 0.35
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (77 bp):
ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAAACCCAAGAGCATTC
ATGCTGTGATAT
Found at i:22206404 original size:47 final size:47
Alignment explanation
Indices: 22206231--22206727 Score: 670
Period size: 47 Copynumber: 10.4 Consensus size: 47
22206221 CAACCAAGAG
*
22206231 AGTGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
22206278 AGTGTATGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 A--G--TGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
22206329 AGTATATGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AG----TGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* * *
22206380 AGTGTATATGTGTGATAAGGCCTAATAGTCGACGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
22206427 AGTGTATATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* * *
22206474 AGTGTATATGTGTGATAAGGCCTAATCGCCGACGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
22206521 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* * *
22206568 GGTGTATATATGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
22206615 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* * * * * * * * *
22206662 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTAATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
22206709 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
22206728 TCCCGAAAGG
Statistics
Matches: 413, Mismatches: 31, Indels: 12
0.91 0.07 0.03
Matches are distributed among these distances:
47 320 0.77
49 2 0.00
51 91 0.22
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
Found at i:22206899 original size:37 final size:37
Alignment explanation
Indices: 22206843--22206921 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
22206833 CCGAGCTCTA
* * *
22206843 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
22206880 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
22206917 AAGAC
1 AAGAC
22206922 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:22212654 original size:40 final size:40
Alignment explanation
Indices: 22212556--22212818 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
22212546 TCCTCGTTCA
* * * * *
22212556 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
22212595 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
22212635 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
22212675 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
22212715 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
22212755 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
22212795 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
22212819 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 37 0.19
40 153 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:22214592 original size:76 final size:76
Alignment explanation
Indices: 22214501--22214653 Score: 306
Period size: 76 Copynumber: 2.0 Consensus size: 76
22214491 ACACTTACCG
22214501 AATCGTCATTGAATATATCCGTAGTGTCGTATTCTTTATTTATGCAGTATTAAAGCATTTAAAAA
1 AATCGTCATTGAATATATCCGTAGTGTCGTATTCTTTATTTATGCAGTATTAAAGCATTTAAAAA
22214566 ACAATATATTA
66 ACAATATATTA
22214577 AATCGTCATTGAATATATCCGTAGTGTCGTATTCTTTATTTATGCAGTATTAAAGCATTTAAAAA
1 AATCGTCATTGAATATATCCGTAGTGTCGTATTCTTTATTTATGCAGTATTAAAGCATTTAAAAA
22214642 ACAATATATTA
66 ACAATATATTA
22214653 A
1 A
22214654 TGTTTAATAC
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 77 1.00
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (76 bp):
AATCGTCATTGAATATATCCGTAGTGTCGTATTCTTTATTTATGCAGTATTAAAGCATTTAAAAA
ACAATATATTA
Found at i:22216168 original size:19 final size:19
Alignment explanation
Indices: 22216144--22216183 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
22216134 TTCCATGGAG
22216144 ATACTTCCAAGAATACTCT
1 ATACTTCCAAGAATACTCT
*
22216163 ATACTTTCAAGAATACTCT
1 ATACTTCCAAGAATACTCT
22216182 AT
1 AT
22216184 CATTGATCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.35
Consensus pattern (19 bp):
ATACTTCCAAGAATACTCT
Found at i:22222142 original size:93 final size:93
Alignment explanation
Indices: 22222035--22222205 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
22222025 GCCCCTAAGT
* * *
22222035 GAACTCGAACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
22222100 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* * *
22222128 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
22222193 CGAGTTCGGATGC
66 CGAGTTCGGATGC
22222206 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:22222202 original size:46 final size:46
Alignment explanation
Indices: 22222030--22222202 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
22222020 AACCCGCCCC
* * * * *
22222030 TAAGTGAACTCGAACTCAACTCAATGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* * *
22222076 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
22222124 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
22222169 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
22222203 TGCTCAACCA
Statistics
Matches: 103, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 58 0.56
47 28 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:22229712 original size:93 final size:93
Alignment explanation
Indices: 22229584--22229754 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
22229574 GCCCCTAAGT
* * * *
22229584 GAACTCGGAGTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
22229649 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* * *
22229677 GAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
22229742 CGAGTTCGGATGC
66 CGAGTTCGGATGC
22229755 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:22229740 original size:46 final size:46
Alignment explanation
Indices: 22229579--22229751 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
22229569 AACCTGCCCC
* * * * *
22229579 TAAGTGAACTCGGAGTCAACTCAATGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* * *
22229625 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* * *
22229673 TCA-CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
22229718 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
22229752 TGCTCAACCA
Statistics
Matches: 101, Mismatches: 17, Indels: 18
0.74 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 57 0.56
47 27 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:22230206 original size:30 final size:30
Alignment explanation
Indices: 22230172--22230230 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
22230162 ATTTAATACG
22230172 AACTTTGGA-AAAATTACACTTTTGCCCCTA
1 AACTTT-GACAAAATTACACTTTTGCCCCTA
* *
22230202 AACTTTTACATAATTACACTTTTGCCCCT
1 AACTTTGACAAAATTACACTTTTGCCCCT
22230231 CGGCTCGAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.37
Consensus pattern (30 bp):
AACTTTGACAAAATTACACTTTTGCCCCTA
Found at i:22234540 original size:24 final size:24
Alignment explanation
Indices: 22234512--22234559 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
22234502 GACTAATGCC
22234512 ATGAACTCACTAATGCCATGCCTT
1 ATGAACTCACTAATGCCATGCCTT
22234536 ATGAACTCACTAATGCCATGCCTT
1 ATGAACTCACTAATGCCATGCCTT
22234560 GGCATAGTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.29
Consensus pattern (24 bp):
ATGAACTCACTAATGCCATGCCTT
Found at i:22234628 original size:55 final size:53
Alignment explanation
Indices: 22234530--22234794 Score: 241
Period size: 55 Copynumber: 4.9 Consensus size: 53
22234520 ACTAATGCCA
* * *
22234530 TGCCTTATGAACTCA-CTAATGCCATGCCTTGGCATAGTCTTACATGGGACCTT
1 TGCCTTATGAACTCATC-AATGCCATGCCTTGACATGGTCTTACATGGAACCTT
* * *
22234583 TGCCTTATAGTAACTCATCAATGCCATGTCTTGACATGGTTTTACATGGTATCC-T
1 TGCCTTAT-G-AACTCATCAATGCCATGCCTTGACATGGTCTTACATGG-AACCTT
* * * * *
22234638 TGCCTTATGAACTCACCAATTCCATGCCTTGGCATGGTCTTATATCGAACCTT
1 TGCCTTATGAACTCATCAATGCCATGCCTTGACATGGTCTTACATGGAACCTT
* *
22234691 TGCACCTTATAGTAACTCATCAATGCCATGTCTTGACATGGTCTTACAT-GATTTCC-T
1 TG--CCTTAT-G-AACTCATCAATGCCATGCCTTGACATGGTCTTACATGGA--ACCTT
* ** * *
22234748 TACCTTACAAAACTTATCAATGCCATGCCTTGGCATGGTCTTACATG
1 TGCCTTA-TGAACTCATCAATGCCATGCCTTGACATGGTCTTACATG
22234795 ATATTCTTAT
Statistics
Matches: 173, Mismatches: 26, Indels: 24
0.78 0.12 0.11
Matches are distributed among these distances:
52 3 0.02
53 42 0.24
54 35 0.20
55 52 0.30
56 6 0.03
57 33 0.19
58 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (53 bp):
TGCCTTATGAACTCATCAATGCCATGCCTTGACATGGTCTTACATGGAACCTT
Found at i:22234739 original size:110 final size:108
Alignment explanation
Indices: 22234530--22234793 Score: 375
Period size: 110 Copynumber: 2.4 Consensus size: 108
22234520 ACTAATGCCA
* * * *
22234530 TGCCTTATGAACTCACTAATGCCATGCCTTGGCATAGTCTTACATGGGACCTTTGCCTTATAGTA
1 TGCCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTACATCGAACCTTTGCCTTATAGTA
* *
22234595 ACTCATCAATGCCATGTCTTGACATGGTTTTACATGGTATCCT
66 ACTCATCAATGCCATGTCTTGACATGGTCTTACATGATATCCT
* *
22234638 TGCCTTATGAACTCACCAATTCCATGCCTTGGCATGGTCTTATATCGAACCTTTGCACCTTATAG
1 TGCCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTACATCGAACCTTTG--CCTTATAG
*
22234703 TAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCT
64 TAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATATCCT
* ** * *
22234748 TACCTTACAAAACTTATCAATGCCATGCCTTGGCATGGTCTTACAT
1 TGCCTTA-TGAACTCACCAATGCCATGCCTTGGCATGGTCTTACAT
22234794 GATATTCTTA
Statistics
Matches: 137, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
108 49 0.36
110 56 0.41
111 32 0.23
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (108 bp):
TGCCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTACATCGAACCTTTGCCTTATAGTA
ACTCATCAATGCCATGTCTTGACATGGTCTTACATGATATCCT
Found at i:22242677 original size:34 final size:32
Alignment explanation
Indices: 22242635--22242699 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 32
22242625 GTTTCAGTAG
*
22242635 CAGTTCAGTCTCAGT-TAGGGCCTTAGCCCATTA
1 CAGTTCAGTATCAGTGT--GGCCTTAGCCCATTA
22242668 CAGTATCAGTATCAGTGTGGCCTTAGCCCATT
1 CAGT-TCAGTATCAGTGTGGCCTTAGCCCATT
22242700 TTAGGAATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 18 0.62
34 10 0.34
35 1 0.03
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.31
Consensus pattern (32 bp):
CAGTTCAGTATCAGTGTGGCCTTAGCCCATTA
Found at i:22265223 original size:53 final size:55
Alignment explanation
Indices: 22265111--22265223 Score: 133
Period size: 53 Copynumber: 2.1 Consensus size: 55
22265101 AAGACCATAT
* *
22265111 CATGGCATTGATAAGTTACTATAAGGCAAAGGTTCCATGTAAGACCATGCCAAGG
1 CATGGCATTGATAAGTTACTATAAGGCAAAGGTACCATGTAAGACCATGCCAAGA
* * * * *
22265166 CATGGCATTGGTGAGTT-C-ATAAGGC-AAGGATACCATGTACGACCATGTCGAGA
1 CATGGCATTGATAAGTTACTATAAGGCAAAGG-TACCATGTAAGACCATGCCAAGA
22265219 CATGG
1 CATGG
22265224 AAATGGTAAG
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
52 4 0.08
53 30 0.60
54 1 0.02
55 15 0.30
ACGTcount: A:0.32, C:0.19, G:0.27, T:0.23
Consensus pattern (55 bp):
CATGGCATTGATAAGTTACTATAAGGCAAAGGTACCATGTAAGACCATGCCAAGA
Found at i:22268272 original size:119 final size:120
Alignment explanation
Indices: 22268090--22268305 Score: 278
Period size: 119 Copynumber: 1.8 Consensus size: 120
22268080 TCCTCGTTCA
* *
22268090 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATACCTTCGGGACTTAACCCGGAT
* *
22268155 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCAGATTTAGTAACTCGCACC
* * * **
22268210 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACGAATACCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATACCTTCGGGA-CTTAACCCGG
* *
22268272 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTA
22268306 GCCCGGACAT
Statistics
Matches: 82, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
118 4 0.05
119 58 0.71
120 20 0.24
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATACCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCACC
Found at i:22268312 original size:40 final size:40
Alignment explanation
Indices: 22268088--22268312 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
22268078 GCTCCTCGTT
* *
22268088 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
22268128 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
22268168 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
22268208 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * * * *
22268247 CGAATACCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
22268288 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
22268313 CATCATTCAA
Statistics
Matches: 159, Mismatches: 20, Indels: 12
0.83 0.10 0.06
Matches are distributed among these distances:
38 2 0.01
39 29 0.18
40 117 0.74
41 11 0.07
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:22276518 original size:28 final size:29
Alignment explanation
Indices: 22276464--22276522 Score: 77
Period size: 28 Copynumber: 2.0 Consensus size: 29
22276454 CCCCAAGGGA
*
22276464 CACACGACTGTGTAACATAGCCGCGTGTCT
1 CACACGACTGAG-AACATAGCCGCGTGTCT
22276494 CACACGACTGAG-ACATAGGCC-CGTGTCT
1 CACACGACTGAGAACATA-GCCGCGTGTCT
22276522 C
1 C
22276523 TACCTGTGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
28 13 0.48
29 3 0.11
30 11 0.41
ACGTcount: A:0.24, C:0.32, G:0.24, T:0.20
Consensus pattern (29 bp):
CACACGACTGAGAACATAGCCGCGTGTCT
Found at i:22279146 original size:46 final size:46
Alignment explanation
Indices: 22279088--22279265 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
22279078 GATGGTTGAG
*
22279088 CGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAA
1 CGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAA
* * *
22279134 TGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTA
1 CGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAA--A
* * *
22279179 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGTGAA
1 --CGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAA
* * **
22279227 CGCCCGAGCTCGTTGAGTTGAGTCCGAGTTTGCTTATGG
1 CGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
22279266 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 6 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 6 0.05
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
CGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAA
Found at i:22282165 original size:40 final size:41
Alignment explanation
Indices: 22282106--22282198 Score: 118
Period size: 40 Copynumber: 2.3 Consensus size: 41
22282096 ATAAATTTAG
* *
22282106 TAGGTATGGCT-TAAGAGCACATACGTTTAAGTAGATTCAA
1 TAGGTATGGCTCGAAGAGCACATACATTTAAGTAGATTCAA
* * *
22282146 TAGGTATGGCTCGAA-AGCACATACATTTTAGTAGATTTAG
1 TAGGTATGGCTCGAAGAGCACATACATTTAAGTAGATTCAA
*
22282186 TAGGTATGACTCG
1 TAGGTATGGCTCG
22282199 TTTGAGCACC
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 44 0.96
41 2 0.04
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.31
Consensus pattern (41 bp):
TAGGTATGGCTCGAAGAGCACATACATTTAAGTAGATTCAA
Found at i:22283355 original size:20 final size:21
Alignment explanation
Indices: 22283332--22283374 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
22283322 ATAAGCATGT
*
22283332 ATTTTG-ATGTTTGATGATAG
1 ATTTTGAATGCTTGATGATAG
*
22283352 ATTTTGAATGCTTGTTGATAG
1 ATTTTGAATGCTTGATGATAG
22283373 AT
1 AT
22283375 ATACAAGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.26, C:0.02, G:0.23, T:0.49
Consensus pattern (21 bp):
ATTTTGAATGCTTGATGATAG
Found at i:22289208 original size:28 final size:27
Alignment explanation
Indices: 22289175--22289271 Score: 99
Period size: 28 Copynumber: 3.5 Consensus size: 27
22289165 GAATATATGT
22289175 ACTATGTGTGCGAAATTATTAACCGAGC
1 ACTATGTGTGCGAAATTATTAA-CGAGC
* ** *
22289203 ACTATGTGTGCGAGATCGGGTGTAA-G-CC
1 ACTATGTGTGCGAAAT--TAT-TAACGAGC
22289231 ACTATGTGTGCGAAATTATTAATCGAGC
1 ACTATGTGTGCGAAATTATTAA-CGAGC
22289259 ACTATGTGTGCGA
1 ACTATGTGTGCGA
22289272 GATCGGGTGT
Statistics
Matches: 55, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
25 3 0.05
26 1 0.02
27 1 0.02
28 45 0.82
29 1 0.02
30 1 0.02
31 3 0.05
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (27 bp):
ACTATGTGTGCGAAATTATTAACGAGC
Found at i:22289237 original size:56 final size:56
Alignment explanation
Indices: 22289175--22289308 Score: 223
Period size: 56 Copynumber: 2.4 Consensus size: 56
22289165 GAATATATGT
22289175 ACTATGTGTGCGAAATTATTAACCGAGCACTATGTGTGCGAGATCGGGTGTAAGCC
1 ACTATGTGTGCGAAATTATTAACCGAGCACTATGTGTGCGAGATCGGGTGTAAGCC
* *
22289231 ACTATGTGTGCGAAATTATTAATCGAGCACTATGTGTGCGAGATCGGGTGTAAGGC
1 ACTATGTGTGCGAAATTATTAACCGAGCACTATGTGTGCGAGATCGGGTGTAAGCC
*
22289287 ACTGTGTGTGTGCGAAATTATT
1 AC--TATGTGTGCGAAATTATT
22289309 TAGGGAATAT
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
56 56 0.77
58 17 0.23
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (56 bp):
ACTATGTGTGCGAAATTATTAACCGAGCACTATGTGTGCGAGATCGGGTGTAAGCC
Found at i:22289288 original size:28 final size:28
Alignment explanation
Indices: 22289201--22289296 Score: 99
Period size: 28 Copynumber: 3.4 Consensus size: 28
22289191 TATTAACCGA
22289201 GCACTATGTGTGCGAGATCGGGTGTAAG
1 GCACTATGTGTGCGAGATCGGGTGTAAG
* * **
22289229 CCACTATGTGTGCGAAAT--TAT-TAATCG
1 GCACTATGTGTGCGAGATCGGGTGTAA--G
22289256 AGCACTATGTGTGCGAGATCGGGTGTAAG
1 -GCACTATGTGTGCGAGATCGGGTGTAAG
*
22289285 GCACTGTGTGTG
1 GCACTATGTGTG
22289297 TGCGAAATTA
Statistics
Matches: 53, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
25 3 0.06
26 1 0.02
27 1 0.02
28 43 0.81
29 1 0.02
30 1 0.02
31 3 0.06
ACGTcount: A:0.23, C:0.16, G:0.33, T:0.28
Consensus pattern (28 bp):
GCACTATGTGTGCGAGATCGGGTGTAAG
Found at i:22290385 original size:51 final size:51
Alignment explanation
Indices: 22290310--22290416 Score: 196
Period size: 51 Copynumber: 2.1 Consensus size: 51
22290300 AGTTGTGTTA
* *
22290310 TGTTAGGAAATGCCTCGTAACCCCATTCTGGTGACGGATACGGGTTAGGGG
1 TGTTAAGAAATGCCTCGTAACCCCATTCTGGAGACGGATACGGGTTAGGGG
22290361 TGTTAAGAAATGCCTCGTAACCCCATTCTGGAGACGGATACGGGTTAGGGG
1 TGTTAAGAAATGCCTCGTAACCCCATTCTGGAGACGGATACGGGTTAGGGG
22290412 TGTTA
1 TGTTA
22290417 CATTTGATTG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.26
Consensus pattern (51 bp):
TGTTAAGAAATGCCTCGTAACCCCATTCTGGAGACGGATACGGGTTAGGGG
Found at i:22294316 original size:93 final size:93
Alignment explanation
Indices: 22294203--22294560 Score: 689
Period size: 93 Copynumber: 3.8 Consensus size: 93
22294193 CGCCCATAAG
* * *
22294203 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
22294268 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
22294296 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
22294361 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
22294389 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
22294454 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
22294482 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
22294547 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
22294561 TCAACCATCC
Statistics
Matches: 262, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 262 1.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:22294318 original size:47 final size:49
Alignment explanation
Indices: 22294196--22294560 Score: 391
Period size: 46 Copynumber: 7.8 Consensus size: 49
22294186 TGTAACCCGC
* * *
22294196 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG--G-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
*
22294242 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTCACAT
* *
22294292 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
*
22294335 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTCACAT
* *
22294385 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
*
22294428 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTCACAT
* *
22294478 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
*
22294521 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
22294561 TCAACCATCC
Statistics
Matches: 268, Mismatches: 21, Indels: 57
0.77 0.06 0.16
Matches are distributed among these distances:
42 6 0.02
43 12 0.04
44 6 0.02
45 6 0.02
46 121 0.45
47 87 0.32
48 7 0.03
49 6 0.02
50 11 0.04
51 6 0.02
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (49 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
Found at i:22297400 original size:46 final size:46
Alignment explanation
Indices: 22297350--22297525 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
22297340 TGGTTGAGCA
22297350 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
22297396 TCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
22297441 CATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
22297489 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
22297526 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 13, Indels: 20
0.76 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 59 0.55
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:22297506 original size:93 final size:93
Alignment explanation
Indices: 22297347--22297518 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
22297337 GGATGGTTGA
* *
22297347 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
*
22297412 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
22297440 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
22297504 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
22297519 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:22308385 original size:30 final size:30
Alignment explanation
Indices: 22308345--22308401 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
22308335 AAAATCATAT
22308345 TTTGTAAAAATTATAAT-TTTGCCCCTAAAC
1 TTTGTAAAAATTA-AATATTTGCCCCTAAAC
* *
22308375 TTTGTCAAAATTACATATTTGCCCCTA
1 TTTGTAAAAATTAAATATTTGCCCCTA
22308402 GACTCTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 22 0.92
ACGTcount: A:0.33, C:0.19, G:0.07, T:0.40
Consensus pattern (30 bp):
TTTGTAAAAATTAAATATTTGCCCCTAAAC
Found at i:22316173 original size:37 final size:37
Alignment explanation
Indices: 22316123--22316201 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
22316113 TTATTACGAA
* *
22316123 GTCTTACCCGGACATAATCTCC-ACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATC-CCGACACGAAGTCATCGG
*
22316160 GTCTTACCCGGACAAAATCCCGACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCGACACGAAGTCATCGG
22316197 GTCTT
1 GTCTT
22316202 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
36 2 0.05
37 36 0.95
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCGACACGAAGTCATCGG
Found at i:22316375 original size:22 final size:22
Alignment explanation
Indices: 22316348--22316422 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
22316338 TTCCACATCC
22316348 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
22316370 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
22316394 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
22316417 ATCACA
1 ATCACA
22316423 CATACACATG
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 17 0.45
23 5 0.13
24 5 0.13
25 11 0.29
ACGTcount: A:0.27, C:0.31, G:0.11, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:22316383 original size:47 final size:47
Alignment explanation
Indices: 22316320--22317158 Score: 1143
Period size: 47 Copynumber: 17.7 Consensus size: 47
22316310 CCCTTCGGGA
* * * *
22316320 CTTACCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
22316367 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
22316414 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCAGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* * *
22316461 GTTATCACACATACACA-TATTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
22316508 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* * *
22316555 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGAC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
22316602 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
22316649 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
22316696 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
22316743 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
22316790 CTTATCACATATATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
22316837 CTTATCACATATATATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
22316886 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
22316933 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
22316982 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
22317029 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
22317078 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
22317125 CTTATCACATATATATACACTTTCACATTTATCA
1 CTTATCAC--ATATATACACTTTCACATTCATCA
22317159 TGTACCACAT
Statistics
Matches: 744, Mismatches: 38, Indels: 18
0.93 0.05 0.02
Matches are distributed among these distances:
46 1 0.00
47 578 0.78
48 1 0.00
49 164 0.22
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:22316446 original size:25 final size:24
Alignment explanation
Indices: 22316417--22316494 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 24
22316407 ATTCGGCCTT
22316417 ATCACACATACACATGTTCACATTC
1 ATCACACATACACAT-TTCACATTC
* * *
22316442 ATCACA-TTGGC-CA-TTCAGCGTT-
1 ATCACACAT-ACACATTTCA-CATTC
22316464 ATCACACATACACATATTCACATTC
1 ATCACACATACACAT-TTCACATTC
22316489 ATCACA
1 ATCACA
22316495 TTGGCCATTC
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 11 0.28
23 6 0.15
24 6 0.15
25 17 0.43
ACGTcount: A:0.35, C:0.31, G:0.06, T:0.28
Consensus pattern (24 bp):
ATCACACATACACATTTCACATTC
Found at i:22320466 original size:40 final size:40
Alignment explanation
Indices: 22320434--22320815 Score: 337
Period size: 40 Copynumber: 9.6 Consensus size: 40
22320424 CCAGCATGAT
* * * * *
22320434 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCATGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
*
22320474 TGCTCTTCGGAACTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
* *
22320514 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
* * *
22320554 TGCTCTTTGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
* * *
22320594 TGCTCTTCAGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
* * * * * *
22320634 TGCTCTTCGGGACCTAGCCCGGTTATAGTAACTCGCACAAA
1 TGCTCTTCGGAACTTAGCCCGGATATA-TCACTAGCACGAA
* * * * * * *
22320675 TGC-CTTCGGGACTTAACCTGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGAACTTAGCCCGGATATA-TCACTAGCACGAA
* * * *
22320715 TGC-CTTCGG-GCTTAGCCCGGA-ATTAGTAACTCGCACAAA
1 TGCTCTTCGGAACTTAGCCCGGATA-TA-TCACTAGCACGAA
* * *
22320754 TGC-CTTCGGATCTTAGTCCGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGAACTTAGCCCGGATAT-ATCAC-TAGCACGAA
* *
22320794 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGAACTTAGCCCGGA
22320816 CATCATTCGA
Statistics
Matches: 287, Mismatches: 49, Indels: 12
0.82 0.14 0.03
Matches are distributed among these distances:
39 33 0.11
40 236 0.82
41 18 0.06
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
Found at i:22320799 original size:79 final size:80
Alignment explanation
Indices: 22320638--22320815 Score: 213
Period size: 79 Copynumber: 2.2 Consensus size: 80
22320628 CATGAATGCT
* * *
22320638 CTTCGGGACCTAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCTGGATTTAG
1 CTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCTGGATATAG
* *
22320702 TAACTCGCACCAATGC
65 TAACTAGCACCAAAGC
* *
22320718 CTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCC-GGATATG
1 CTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTA-ACCTGGATATA
*
22320780 GTCACTTAGCA-CAAAGC
64 GTAAC-TAGCACCAAAGC
22320797 CTTCGGGACTTAGCCCGGA
1 CTTCGGGACTTAGCCCGGA
22320816 CATCATTCGA
Statistics
Matches: 85, Mismatches: 8, Indels: 10
0.83 0.08 0.10
Matches are distributed among these distances:
78 3 0.04
79 57 0.67
80 25 0.29
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCTGGATATAGT
AACTAGCACCAAAGC
Found at i:22322723 original size:37 final size:37
Alignment explanation
Indices: 22322673--22322751 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
22322663 TTATTACGAA
* * *
22322673 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
22322710 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
22322747 GTCTT
1 GTCTT
22322752 TAGAGCTCAG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:22322933 original size:47 final size:47
Alignment explanation
Indices: 22322870--22323870 Score: 1312
Period size: 47 Copynumber: 21.3 Consensus size: 47
22322860 CCCTTCGGGA
* * * *
22322870 CTTACCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
22322917 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
22322964 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCAGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
22323011 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
22323058 CTTATCACACATACACA-TATTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* * *
22323105 CTTATCTCATATATGCA-TGTTCACATTCATCTCATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
22323152 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
22323199 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* * *
22323246 CTTATCTCACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* * *
22323293 CTTATCTCATATACACA-TGTTCACATTCATCACATTGGCCATCCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
22323340 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
*
22323387 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
** * *
22323434 CTTATCACATATATAGGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
22323481 CTTATCACATATATATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
22323530 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
22323577 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
22323626 CTTAACACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
22323673 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
22323722 CTTATCACATATATACACTTTTACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
22323769 CTTATCACATATATACACTTTTACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
22323816 CTTATCACATATATACACTTT-ACATTCATCACA-----CATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
22323857 CTTATCACATATAT
1 CTTATCACATATAT
22323871 GTACAGACTT
Statistics
Matches: 905, Mismatches: 41, Indels: 22
0.93 0.04 0.02
Matches are distributed among these distances:
41 22 0.02
46 13 0.01
47 730 0.81
48 1 0.00
49 139 0.15
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:22328853 original size:27 final size:26
Alignment explanation
Indices: 22328781--22328891 Score: 125
Period size: 27 Copynumber: 4.1 Consensus size: 26
22328771 TGAAGGAAGC
* *
22328781 GTTCTGGTGGCTATGCCACAAACATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
22328808 GTTTCTGGTGGCTAC-GCCACAAATATCT
1 G-TTCTGGTGGCT-CTGCCAC-AATATCT
*
22328836 GTTCTGGTGCCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* *
22328862 GTATCTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
22328889 GTT
1 GTT
22328892 TTGGCAGCCA
Statistics
Matches: 75, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
26 11 0.15
27 40 0.53
28 24 0.32
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.34
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:22331376 original size:14 final size:14
Alignment explanation
Indices: 22331342--22331389 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
22331332 GTACGAATGG
* *
22331342 AATGGTCGGAACGA
1 AATGGTAGGAACAA
*
22331356 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
22331370 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
22331384 ATTGGT
1 AATGGT
22331390 CGGTTTAGGT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.42, C:0.08, G:0.31, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:22337915 original size:11 final size:11
Alignment explanation
Indices: 22337901--22337927 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
22337891 TTTTTTTCGA
22337901 TTTTTTTAATT
1 TTTTTTTAATT
22337912 TTTTTTTAATT
1 TTTTTTTAATT
22337923 TTTTT
1 TTTTT
22337928 ATTTTTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTTTAATT
Found at i:22337916 original size:20 final size:19
Alignment explanation
Indices: 22337891--22337936 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 19
22337881 CATAAATCAC
*
22337891 TTTTTTTCGATTTTTTTAAT
1 TTTTTTTCAATTTTTTT-AT
*
22337911 TTTTTTTTAATTTTTTTAT
1 TTTTTTTCAATTTTTTTAT
22337930 TTTTTTT
1 TTTTTTT
22337937 AACTTGTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.13, C:0.02, G:0.02, T:0.83
Consensus pattern (19 bp):
TTTTTTTCAATTTTTTTAT
Found at i:22337935 original size:8 final size:9
Alignment explanation
Indices: 22337900--22337938 Score: 51
Period size: 9 Copynumber: 4.1 Consensus size: 9
22337890 CTTTTTTTCG
22337900 ATTTTTTTA
1 ATTTTTTTA
22337909 ATTTTTTTTTA
1 A--TTTTTTTA
22337920 ATTTTTTTA
1 ATTTTTTTA
*
22337929 TTTTTTTTA
1 ATTTTTTTA
22337938 A
1 A
22337939 CTTGTATAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
9 17 0.65
11 9 0.35
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
ATTTTTTTA
Found at i:22338340 original size:14 final size:14
Alignment explanation
Indices: 22338306--22338353 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
22338296 GTACGAATGG
* *
22338306 AATGGTCGGAACGA
1 AATGGTAGGAACAA
*
22338320 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
22338334 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
22338348 ATTGGT
1 AATGGT
22338354 CGGTTTAGGT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.42, C:0.08, G:0.31, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:22344024 original size:27 final size:27
Alignment explanation
Indices: 22343928--22344043 Score: 112
Period size: 27 Copynumber: 4.3 Consensus size: 27
22343918 ATAGTGGAAG
* * * *
22343928 TGTTCTAGTGGATATGCCACAAACATC
1 TGTTCTGGTGGCTCTGCCACAAATATC
*
22343955 TGTTTCTGGTGGCTAC-GCCACAAATATT
1 TG-TTCTGGTGGCT-CTGCCACAAATATC
22343983 TGTTCTGGTGGCTCTGCCAC-AATATC
1 TGTTCTGGTGGCTCTGCCACAAATATC
* **
22344009 TGTATCTGGTGACTCTATCAC-AATATC
1 TGT-TCTGGTGGCTCTGCCACAAATATC
22344036 TGTTCTGG
1 TGTTCTGG
22344044 CAACCATGCT
Statistics
Matches: 76, Mismatches: 9, Indels: 9
0.81 0.10 0.10
Matches are distributed among these distances:
26 14 0.18
27 41 0.54
28 21 0.28
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (27 bp):
TGTTCTGGTGGCTCTGCCACAAATATC
Found at i:22346033 original size:27 final size:27
Alignment explanation
Indices: 22346003--22346059 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
22345993 AAATCTTACC
* * *
22346003 TTCAACACATAGGGGTATTTTAGTCAT
1 TTCAACACATAGGGGCATTTCAGTAAT
* *
22346030 TTCAACCCTTAGGGGCATTTCAGTAAT
1 TTCAACACATAGGGGCATTTCAGTAAT
22346057 TTC
1 TTC
22346060 TCTTGTTATG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (27 bp):
TTCAACACATAGGGGCATTTCAGTAAT
Found at i:22348000 original size:40 final size:38
Alignment explanation
Indices: 22347916--22348254 Score: 246
Period size: 40 Copynumber: 8.6 Consensus size: 38
22347906 TTGAATGATG
* * * *
22347916 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAG-TGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTGTGC-GAGTTTACTA-A
* *
22347956 TCCGGACTAAGATCCGAAGGCATGTGCGCGAGTTTA-TAA
1 TCCGGGCTAAG-TCCGAAGGCAT-TGTGCGAGTTTACTAA
*
22347995 TTCCGGGCTAAGCCCGAAGGCATTGTGCGAG-TTACTAAA
1 -TCCGGGCTAAGTCCGAAGGCATTGTGCGAGTTTACT-AA
*
22348034 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAG-TTACTATA
1 TCCGGGCTAAGT-CCGAAGGCA-TTGTGCGAGTTTACTA-A
* * * **
22348074 ACCGGACTAAGATCCGAAGCCATTTGTTTGAG-TTACTAA
1 TCCGGGCTAAG-TCCGAAGGCA-TTGTGCGAGTTTACTAA
*
22348113 TTCCGGGCTAAGCCCGAAGGCATTGGTGCGAG-TTACTAAA
1 -TCCGGGCTAAGTCCGAAGGCATT-GTGCGAGTTTACT-AA
*
22348153 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAG-TTACTATA
1 TCCGGGCTAAGT-CCGAAGGCA-TTGTGCGAGTTTACTA-A
* * *
22348193 ACCGGACTAAGATCCGAAGGAATTGTGCGAG-TTACTATA
1 TCCGGGCTAAG-TCCGAAGGCATTGTGCGAGTTTACTA-A
* *
22348232 ACCGGGCT-ATTACCGAAGGCATT
1 TCCGGGCTAAGT-CCGAAGGCATT
22348255 TGAACGAGTA
Statistics
Matches: 249, Mismatches: 32, Indels: 38
0.78 0.10 0.12
Matches are distributed among these distances:
37 4 0.02
38 31 0.12
39 77 0.31
40 126 0.51
41 11 0.04
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (38 bp):
TCCGGGCTAAGTCCGAAGGCATTGTGCGAGTTTACTAA
Found at i:22348124 original size:118 final size:119
Alignment explanation
Indices: 22347916--22348211 Score: 463
Period size: 118 Copynumber: 2.5 Consensus size: 119
22347906 TTGAATGATG
* * * * * *
22347916 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGACTAAGATCCGAAGCCATG
22347980 TGCGCGAGTTTATAATTCCGGGCTAAGCCCGAAGGCATT-GTGCGAGTTACTAAA
65 TGCGCGAGTTTATAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
*
22348034 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGACTAAGATCCGAAGCCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGACTAAGATCCGAAGCCATGT
***
22348099 GTTTGAG-TTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GCGCGAGTTTA-TAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
22348153 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGACTAAGATCCGAAG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGACTAAGATCCGAAG
22348212 GAATTGTGCG
Statistics
Matches: 165, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
117 3 0.02
118 81 0.49
119 81 0.49
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGACTAAGATCCGAAGCCATGT
GCGCGAGTTTATAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
Found at i:22348237 original size:79 final size:78
Alignment explanation
Indices: 22347916--22348256 Score: 315
Period size: 79 Copynumber: 4.3 Consensus size: 78
22347906 TTGAATGATG
* * * * *
22347916 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AACCGGACTAAG-TCCGAAGGAAT-
*
22347980 TGCGCGAGTT--TATAA
62 TGTGCGAGTTACTATAA
** *
22347995 TTCCGGGCTAAG-CCCGAAGGCA-TTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA-CCGGACTAAGT-CCGAAGG-AAT
22348058 TGTGCGAGTTACTATAA
62 TGTGCGAGTTACTATAA
* * ** * * * *
22348075 -CCGGACTAAGAT-CCGAAGCCATTTGTTTGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTG
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-ACCGGACTAAGTCCGAAGGAATT-
22348138 GTGCGAGTTACTA-AA
63 GTGCGAGTTACTATAA
*
22348153 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGACTAAGATCCGAAGGAATTG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AACCGGACTAAG-TCCGAAGGAATTG
22348218 TGCGAGTTACTATAA
64 TGCGAGTTACTATAA
* *
22348233 -CCGGGCT-ATTACCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
22348257 AACGAGTAGC
Statistics
Matches: 215, Mismatches: 30, Indels: 34
0.77 0.11 0.12
Matches are distributed among these distances:
77 2 0.01
78 59 0.27
79 102 0.47
80 52 0.24
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (78 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAACCGGACTAAGTCCGAAGGAATTGTG
CGAGTTACTATAA
Found at i:22348248 original size:118 final size:117
Alignment explanation
Indices: 22347916--22348254 Score: 452
Period size: 118 Copynumber: 2.9 Consensus size: 117
22347906 TTGAATGATG
* * * * * *
22347916 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGACTAAGATCCGAAGGAAT-
*
22347980 TGCGCGAGTT--TATAATTCCGGGCTAAGCCCGAAGGCATTGTGCGAGTTACTAAA
64 TGTGCGAGTTACTATAA--CCGGGCTAAGCCCGAAGGCATTGTGCGAGTTACTAAA
* *
22348034 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGACTAAGATCCGAAGCCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGACTAAGATCCGAAG-GAATT
** *
22348099 GTTTGAGTTACTA-ATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
65 GTGCGAGTTACTATA-ACCGGGCTAAGCCCGAAGGCATT-GTGCGAGTTACTAAA
22348153 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGACTAAGATCCGAAGGAATTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGACTAAGATCCGAAGGAATTG
***
22348218 TGCGAGTTACTATAACCGGGCTATTACCGAAGGCATT
66 TGCGAGTTACTATAACCGGGCTAAGCCCGAAGGCATT
22348255 TGAACGAGTA
Statistics
Matches: 194, Mismatches: 20, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
118 108 0.56
119 84 0.43
120 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (117 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGACTAAGATCCGAAGGAATTG
TGCGAGTTACTATAACCGGGCTAAGCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:22356323 original size:40 final size:39
Alignment explanation
Indices: 22356266--22356625 Score: 372
Period size: 40 Copynumber: 9.1 Consensus size: 39
22356256 TTGAATGATG
* * *
22356266 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTATA
*
22356306 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTA-A
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTATA
* * * *
22356345 TTCCGGGCTAAGCCCAAAGGCATTGGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATA
*
22356385 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATA
* *
22356425 ACCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTA-A
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTATA
* * *
22356464 TTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATA
* *
22356504 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATA
* *
22356544 ACCGGACTAAGATCCGAAGGCA-TTGTGCGAGTTACTATA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTATA
* * * * **
22356583 ACCGGGAT-TGACCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTA-CTATA
22356621 TCCGG
1 TCCGG
22356626 TTAAATTCTG
Statistics
Matches: 272, Mismatches: 36, Indels: 26
0.81 0.11 0.08
Matches are distributed among these distances:
37 11 0.04
38 17 0.06
39 91 0.33
40 143 0.53
41 10 0.04
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:22356403 original size:79 final size:80
Alignment explanation
Indices: 22356266--22356580 Score: 358
Period size: 79 Copynumber: 4.0 Consensus size: 80
22356256 TTGAATGATG
* * * * * *
22356266 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGACCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCAT
22356329 TTGTGCGAGTTACTAAT
64 TTGTGCGAGTTACTAAT
* * *
22356346 TCCGGGCTAAG-CCCAAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
22356410 GTGCGAGTTACT-AT
66 GTGCGAGTTACTAAT
* * * *
22356424 AACCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAG-CCCGAAGGCATT
1 -TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATT
* *
22356488 GGTGCGAGTTACTAAA
65 TGTGCGAGTTACTAAT
* * * *
22356504 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAA-CCGGACTAAGAT-CCGAAGGCA-
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAG-TCCCGAAGGCAT
22356566 TTGTGCGAGTTACTA
64 TTGTGCGAGTTACTA
22356581 TAACCGGGAT
Statistics
Matches: 201, Mismatches: 26, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
78 3 0.01
79 136 0.68
80 62 0.31
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGTTACTAAT
Found at i:22356477 original size:119 final size:119
Alignment explanation
Indices: 22356266--22356580 Score: 544
Period size: 119 Copynumber: 2.7 Consensus size: 119
22356256 TTGAATGATG
* * * * *
22356266 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGACTAAGATCCGAAGGCATT
22356330 TGTGCGAGTTACTAATTCCGGGCTAAGCCCAAAGGCATTGGTGCGAGTTACTAAA
65 TGTGCGAGTTACTAATTCCGGGCTAAGCCCAAAGGCATTGGTGCGAGTTACTAAA
22356385 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGACTAAGATCCGAAGGCATTT
*
22356450 GTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGTTACTAATTCCGGGCTAAGCCCAAAGGCATTGGTGCGAGTTACTAAA
*
22356504 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAACCGGACTAAGATCCGAAGGCA-TT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGACTAAGATCCGAAGGCATTT
22356568 GTGCGAGTTACTA
66 GTGCGAGTTACTA
22356581 TAACCGGGAT
Statistics
Matches: 188, Mismatches: 7, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
118 15 0.08
119 166 0.88
120 7 0.04
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTAATTCCGGGCTAAGCCCAAAGGCATTGGTGCGAGTTACTAAA
Found at i:22358305 original size:28 final size:29
Alignment explanation
Indices: 22358268--22358334 Score: 100
Period size: 28 Copynumber: 2.3 Consensus size: 29
22358258 AAGTCTACAT
*
22358268 ACATACATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
* *
22358296 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
22358325 ACATTCATAT
1 ACATTCATAT
22358335 TCATGCTTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 21 0.62
29 13 0.38
ACGTcount: A:0.31, C:0.31, G:0.12, T:0.25
Consensus pattern (29 bp):
ACATTCATATGGCCCACTAGGCCCAAATC
Found at i:22375662 original size:26 final size:25
Alignment explanation
Indices: 22375623--22375674 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 25
22375613 AAAGTGTTCG
*
22375623 AGTAATGATATATAGTCTACCATTC
1 AGTAATGATATATAATCTACCATTC
22375648 AGTAATGCATATATAATCTACCATTC
1 AGTAATG-ATATATAATCTACCATTC
22375674 A
1 A
22375675 CTCAGGATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 7 0.28
26 18 0.72
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (25 bp):
AGTAATGATATATAATCTACCATTC
Found at i:22376601 original size:68 final size:67
Alignment explanation
Indices: 22376491--22376738 Score: 248
Period size: 68 Copynumber: 3.6 Consensus size: 67
22376481 CACCTGGTGC
* *
22376491 CATAGTCGAGCTACGGTCTTACACATTGTAACCGCATATTTAAAGTCCTAG-AGGACTCTTTATG
1 CATAGTTGAGCTACGGTCTTACACATTGTAACC-CATGTTTAAAGTCCTAGCA-GACTCTTTATG
22376555 ATGT
64 ATGT
* * * *
22376559 CATAGTTGAGTTACAGTCTTACACATTGTAACCCTATGTTTAATGTCCTGGCAGACTCTTTATGA
1 CATAGTTGAGCTACGGTCTTACACATTGTAACCC-ATGTTTAAAGTCCTAGCAGACTCTTTATGA
22376624 TGT
65 TGT
* * * * * *
22376627 CATAGCTGAGCTATGGTCTTACACATTGAAACCCCATGTTTAATA-TCCTTGACAAACTCTTTAC
1 CATAGTTGAGCTACGGTCTTACACATTGTAA-CCCATGTTTAA-AGTCCTAG-CAGACTCTTTAT
* *
22376691 GAAGC
63 GATGT
** * * *
22376696 CATAGTCAAGCTATGGTCTCACACTTTGTAACCCCATGTTTAA
1 CATAGTTGAGCTACGGTCTTACACATTGTAA-CCCATGTTTAA
22376739 TGTATTGGTA
Statistics
Matches: 152, Mismatches: 23, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
67 1 0.01
68 97 0.64
69 54 0.36
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (67 bp):
CATAGTTGAGCTACGGTCTTACACATTGTAACCCATGTTTAAAGTCCTAGCAGACTCTTTATGAT
GT
Found at i:22377477 original size:21 final size:21
Alignment explanation
Indices: 22377427--22377478 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
22377417 AAGCTACTAC
* **
22377427 AGAAAAAGAAGTTGTTGCTGA
1 AGAAAAAGAAGTTATTGAAGA
*
22377448 AGAAGAAGAAGTTATTGAAGA
1 AGAAAAAGAAGTTATTGAAGA
*
22377469 TGAAAAAGAA
1 AGAAAAAGAA
22377479 AACAAAGAGG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.52, C:0.02, G:0.27, T:0.19
Consensus pattern (21 bp):
AGAAAAAGAAGTTATTGAAGA
Found at i:22380497 original size:27 final size:26
Alignment explanation
Indices: 22380467--22380524 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
22380457 ATTTTTAGTA
*
22380467 AAATTATCAATTAG-GGATTAAATTGTG
1 AAATTATAAATT-GTGG-TTAAATTGTG
*
22380494 AAATTTGTAAATTGTGGTTAAATTGTG
1 AAA-TTATAAATTGTGGTTAAATTGTG
22380521 AAAT
1 AAAT
22380525 AAATGAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
26 1 0.04
27 17 0.63
28 9 0.33
ACGTcount: A:0.40, C:0.02, G:0.19, T:0.40
Consensus pattern (26 bp):
AAATTATAAATTGTGGTTAAATTGTG
Found at i:22381813 original size:14 final size:16
Alignment explanation
Indices: 22381794--22381827 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
22381784 AATGCTTGTG
22381794 GTGAA-TGGT-TGTTT
1 GTGAATTGGTATGTTT
22381808 GTGAATTGGTATGTTT
1 GTGAATTGGTATGTTT
22381824 GTGA
1 GTGA
22381828 TTTAGGTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.28
15 4 0.22
16 9 0.50
ACGTcount: A:0.18, C:0.00, G:0.35, T:0.47
Consensus pattern (16 bp):
GTGAATTGGTATGTTT
Found at i:22383191 original size:43 final size:43
Alignment explanation
Indices: 22383143--22383250 Score: 171
Period size: 43 Copynumber: 2.5 Consensus size: 43
22383133 GATTAACAAG
* *
22383143 ATGTGATTATGTGTAAGACCATGTCTGGGACATTGGCATCTTT
1 ATGTGATTATGTGTAAGACCATGTCTAGGACATTGGCATCGTT
*
22383186 ATGTGATTACGTGTAAGACCATGTCTAGGACATTGGCATCGTT
1 ATGTGATTATGTGTAAGACCATGTCTAGGACATTGGCATCGTT
* *
22383229 ATTTGATTTTGTGTAAGACCAT
1 ATGTGATTATGTGTAAGACCAT
22383251 AGTTGGGCTA
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.37
Consensus pattern (43 bp):
ATGTGATTATGTGTAAGACCATGTCTAGGACATTGGCATCGTT
Found at i:22383267 original size:43 final size:42
Alignment explanation
Indices: 22383143--22383277 Score: 164
Period size: 43 Copynumber: 3.1 Consensus size: 42
22383133 GATTAACAAG
*
22383143 ATGTGATTATGTGTAAGACCATGTCTGGGACATTGGCATCTTT
1 ATGTGATTATGTGTAAGACCATGTCTGGG-CATTGGCATCGTT
* *
22383186 ATGTGATTACGTGTAAGACCATGTCTAGGACATTGGCATCGTT
1 ATGTGATTATGTGTAAGACCATGTCT-GGGCATTGGCATCGTT
* * * *
22383229 ATTTGATTTTGTGTAAGACCATAGT-TGGGCTATCGGCATCGAT
1 ATGTGATTATGTGTAAGACCAT-GTCTGGGC-ATTGGCATCGTT
22383272 ATGTGA
1 ATGTGA
22383278 AAACATGTGA
Statistics
Matches: 79, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
42 3 0.04
43 72 0.91
44 4 0.05
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.36
Consensus pattern (42 bp):
ATGTGATTATGTGTAAGACCATGTCTGGGCATTGGCATCGTT
Found at i:22384199 original size:12 final size:12
Alignment explanation
Indices: 22384182--22384212 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
22384172 CAGTATGCTC
22384182 CACACGGTTTCA
1 CACACGGTTTCA
22384194 CACACGGTTTCA
1 CACACGGTTTCA
22384206 CACACGG
1 CACACGG
22384213 GCGTGTGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.35, G:0.19, T:0.19
Consensus pattern (12 bp):
CACACGGTTTCA
Found at i:22384535 original size:18 final size:18
Alignment explanation
Indices: 22384514--22384552 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
22384504 ACAATATGAT
*
22384514 TATACTGAATG-ATATATG
1 TATA-TGAATGTATAAATG
22384532 TATATGAATGTATAAATG
1 TATATGAATGTATAAATG
22384550 TAT
1 TAT
22384553 GAGATTTGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.41, C:0.03, G:0.15, T:0.41
Consensus pattern (18 bp):
TATATGAATGTATAAATG
Found at i:22388786 original size:40 final size:40
Alignment explanation
Indices: 22388742--22389005 Score: 354
Period size: 40 Copynumber: 6.6 Consensus size: 40
22388732 GCCACTAGCT
* *
22388742 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
22388782 CAAATGCCTTCGGGACTTAGCCCGGTA-TAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
22388821 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
22388861 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * *
22388901 CAAATGCCTTCAGGACTTAGCCCGTAATTAGTAGCTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* ** * *
22388941 CAAATGCCTTCGGGTCTTAGCCCGGAATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
22388981 CAAATG-CTCTCGGGACTTAGCCCGG
1 CAAATGCCT-TCGGGACTTAGCCCGG
22389006 TTATCATCCG
Statistics
Matches: 203, Mismatches: 18, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
39 38 0.19
40 165 0.81
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:22399457 original size:5 final size:5
Alignment explanation
Indices: 22399447--22399541 Score: 67
Period size: 5 Copynumber: 18.8 Consensus size: 5
22399437 TATGTCTTTC
* *
22399447 AAAAT AAAAT --AAT AAAATT GAAAT GAAAAT AAAAAT CAAAAG AAAA-
1 AAAAT AAAAT AAAAT AAAA-T AAAAT -AAAAT -AAAAT -AAAAT AAAAT
22399493 ATAAA- AAAAT -AAAT -AAAT AAAAT AAAAT AAAAT AAAAAT AAGAAT
1 A-AAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AA-AAT
22399538 AAAA
1 AAAA
22399542 AATAGGAGGA
Statistics
Matches: 76, Mismatches: 5, Indels: 18
0.77 0.05 0.18
Matches are distributed among these distances:
3 3 0.04
4 12 0.16
5 34 0.45
6 27 0.36
ACGTcount: A:0.77, C:0.01, G:0.04, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:22399482 original size:12 final size:11
Alignment explanation
Indices: 22399447--22399542 Score: 71
Period size: 12 Copynumber: 8.9 Consensus size: 11
22399437 TATGTCTTTC
22399447 AAAATAAAATAAT
1 AAAAT-AAA-AAT
**
22399460 AAAATTGAAAT
1 AAAATAAAAAT
22399471 GAAAATAAAAAT
1 -AAAATAAAAAT
*
22399483 CAAAAGAAAAAT
1 -AAAATAAAAAT
22399495 --AA-AAAAAT
1 AAAATAAAAAT
22399503 -AAAT--AAAT
1 AAAATAAAAAT
22399511 AAAAT-AAAAT
1 AAAATAAAAAT
22399521 AAAATAAAAAT
1 AAAATAAAAAT
22399532 AAGAATAAAAA
1 AA-AATAAAAA
22399543 ATAGGAGGAT
Statistics
Matches: 70, Mismatches: 6, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
8 10 0.14
9 8 0.11
10 9 0.13
11 10 0.14
12 28 0.40
13 5 0.07
ACGTcount: A:0.77, C:0.01, G:0.04, T:0.18
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:22399494 original size:43 final size:39
Alignment explanation
Indices: 22399447--22399544 Score: 112
Period size: 37 Copynumber: 2.5 Consensus size: 39
22399437 TATGTCTTTC
22399447 AAAATAAAATAATAAAATTGAAATGAAAATAAAAATCAAAAGA
1 AAAATAAAATAATAAAATT-AAAT-AAAAT-AAAAT-AAAAGA
* *
22399490 AAAATAAAAAAAT-AAA-TAAATAAAATAAAATAAAATA
1 AAAATAAAATAATAAAATTAAATAAAATAAAATAAAAGA
22399527 AAAATAAGAATAA-AAAAT
1 AAAATAA-AATAATAAAAT
22399545 AGGAGGATTC
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
37 12 0.24
38 12 0.24
39 5 0.10
40 4 0.08
41 1 0.02
42 3 0.06
43 12 0.24
ACGTcount: A:0.77, C:0.01, G:0.04, T:0.18
Consensus pattern (39 bp):
AAAATAAAATAATAAAATTAAATAAAATAAAATAAAAGA
Found at i:22399514 original size:21 final size:20
Alignment explanation
Indices: 22399477--22399543 Score: 66
Period size: 21 Copynumber: 3.1 Consensus size: 20
22399467 AAATGAAAAT
22399477 AAAAATCAAAAGA-AAAAT-AA
1 AAAAAT-AAAA-ATAAAATAAA
22399497 AAAAATAAATAAATAAAATAAA
1 AAAAAT-AA-AAATAAAATAAA
22399519 ATAAAATAAAAATAAGAATAAA
1 A-AAAATAAAAATAA-AATAAA
22399541 AAA
1 AAA
22399544 TAGGAGGATT
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
20 9 0.22
21 15 0.37
22 12 0.29
23 5 0.12
ACGTcount: A:0.81, C:0.01, G:0.03, T:0.15
Consensus pattern (20 bp):
AAAAATAAAAATAAAATAAA
Found at i:22399532 original size:6 final size:6
Alignment explanation
Indices: 22399467--22399542 Score: 66
Period size: 6 Copynumber: 12.5 Consensus size: 6
22399457 AATAAAATTG
* * * *
22399467 AAATGA AAATAA AAATCA AAAGAA AAATAA AAA-AA TAAATAA ATAAAATA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA -AAATAA A-AATA-A
*
22399517 AAAT-A AAATAA AAATAA GAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAA
22399543 ATAGGAGGAT
Statistics
Matches: 56, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
5 7 0.12
6 40 0.71
7 7 0.12
8 2 0.04
ACGTcount: A:0.79, C:0.01, G:0.04, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:22404862 original size:13 final size:13
Alignment explanation
Indices: 22404840--22404872 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
22404830 AAGGATTTGT
22404840 TTAT-TAAACTAA
1 TTATCTAAACTAA
22404852 TTATCTAAACTAA
1 TTATCTAAACTAA
*
22404865 TTAACTAA
1 TTATCTAA
22404873 TTTAATTATA
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:22406111 original size:37 final size:37
Alignment explanation
Indices: 22406047--22406155 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
22406037 AGCTCAGACG
* * * *
22406047 AAATCTCCACATGAAGTTATCGAGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
22406084 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
22406121 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
22406156 ATATATTTCC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:22406431 original size:47 final size:47
Alignment explanation
Indices: 22406369--22406710 Score: 432
Period size: 47 Copynumber: 7.1 Consensus size: 47
22406359 ACACGTTTCG
* * *
22406369 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
22406416 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * *
22406463 CATTGGCCATTCAGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
22406510 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C----ATATATGCATGTTCACATTCATCA
* * *
22406563 CATTGGCCATTCGGACTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* **
22406610 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTAT--CAC--ATATATGCATGTTCACATTCATCA
* * *
22406661 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
22406708 CAT
1 CAT
22406711 AAAATCCTAA
Statistics
Matches: 255, Mismatches: 30, Indels: 20
0.84 0.10 0.07
Matches are distributed among these distances:
47 167 0.65
49 7 0.03
51 40 0.16
53 41 0.16
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.32
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:22406555 original size:147 final size:148
Alignment explanation
Indices: 22406369--22406688 Score: 465
Period size: 147 Copynumber: 2.2 Consensus size: 148
22406359 ACACGTTTCG
* *
22406369 CATTAGCCATTCGGCCTTA-C-CAC--ATATAT-T-CATGTTCACATTCATCACATTGGCCATTC
1 CATTGGCCATTCGGCCTTATCACACATATATATATACAGGTTCACATTCATCACATTGGCCATTC
* * * * *
22406428 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCAGCCTTATCACACATACG
66 GGACTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCAGCCTTATCACACATACA
22406493 CAT-GTTCACATTCATCA
131 CATGGTTCACATTCATCA
*
22406510 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCACATTGGCCATTC
1 CATTGGCCATTCGGCCTTATCACACATATATATATACAGGTTCACATTCATCACATTGGCCATTC
* *
22406575 GGACTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATA
66 GGACTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCAGCCTTATCACACATACA
*
22406640 TATACGGGTTCACATTCATCA
131 CAT---GGTTCACATTCATCA
22406661 CATTGGCCATTCGGCCTTATCACACATA
1 CATTGGCCATTCGGCCTTATCACACATA
22406689 CGCATGTTCA
Statistics
Matches: 157, Mismatches: 12, Indels: 10
0.88 0.07 0.06
Matches are distributed among these distances:
141 18 0.11
142 1 0.01
143 2 0.01
145 6 0.04
146 1 0.01
147 88 0.56
151 41 0.26
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.32
Consensus pattern (148 bp):
CATTGGCCATTCGGCCTTATCACACATATATATATACAGGTTCACATTCATCACATTGGCCATTC
GGACTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCAGCCTTATCACACATACA
CATGGTTCACATTCATCA
Found at i:22406583 original size:100 final size:98
Alignment explanation
Indices: 22406369--22406710 Score: 521
Period size: 100 Copynumber: 3.5 Consensus size: 98
22406359 ACACGTTTCG
* * * **
22406369 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
* * *
22406434 AT--C-T-CATATATGCATGTTCACATTCATCA
66 ATCACATATATATATACAGGTTCACATTCATCA
*
22406463 CATTGGCCATTCAGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
22406528 ATCACGCATATATATATACAGGTTCACATTCATCA
66 ATCA--CATATATATATACAGGTTCACATTCATCA
*
22406563 CATTGGCCATTCGGACTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
* *
22406628 ATCACACATATATATACGGGTTCACATTCATCA
66 ATCACATATATATATACAGGTTCACATTCATCA
*
22406661 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCACAT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACAT
22406711 AAAATCCTAA
Statistics
Matches: 227, Mismatches: 15, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
94 61 0.27
98 76 0.33
99 1 0.00
100 89 0.39
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.32
Consensus pattern (98 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
ATCACATATATATATACAGGTTCACATTCATCA
Found at i:22409021 original size:85 final size:85
Alignment explanation
Indices: 22408892--22409070 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
22408882 TATTTTATTG
*
22408892 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
22408957 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
22408977 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
22409042 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
22409062 CCCATGCTC
1 CCCATGCTC
22409071 ATGGCCGGCC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.26, C:0.28, G:0.08, T:0.37
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:22410596 original size:57 final size:58
Alignment explanation
Indices: 22410520--22410628 Score: 157
Period size: 57 Copynumber: 1.9 Consensus size: 58
22410510 GCCCACTGAT
* * *
22410520 CGATCTCGTACACATAGTGCTTGGTT-GAAGAACTCGCACACACAGTGCCTCAATTAC
1 CGATCTCGCACACATAGTGCTCGGTTAAAAGAACTCGCACACACAGTGCCTCAATTAC
* * *
22410577 CGATTTCGCACACATAGTGCTCGGTTAAAAGAATTTGCACACACAGTGCCTC
1 CGATCTCGCACACATAGTGCTCGGTTAAAAGAACTCGCACACACAGTGCCTC
22410629 TAATCATTCG
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
57 23 0.51
58 22 0.49
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (58 bp):
CGATCTCGCACACATAGTGCTCGGTTAAAAGAACTCGCACACACAGTGCCTCAATTAC
Found at i:22410884 original size:40 final size:40
Alignment explanation
Indices: 22410852--22411229 Score: 661
Period size: 40 Copynumber: 9.5 Consensus size: 40
22410842 TCTTCGGGGT
* * * *
22410852 TTAGCACGAATATATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
*
22410892 TTAGCCCGGATACATCACTAGCACGAATGCTCCTC-GGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
22410931 TTAGCCCGGATATATCACTAGCACGAATGCTCCTC-GGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
22410970 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
22411010 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
22411050 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
22411090 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
22411130 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGCGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCG-GGAC
* * *
22411171 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
22411211 TTAGCCCGGATATATCACT
1 TTAGCCCGGATATATCACT
22411230 CTCAATTCTC
Statistics
Matches: 326, Mismatches: 10, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
39 76 0.23
40 212 0.65
41 38 0.12
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
Found at i:22412543 original size:37 final size:37
Alignment explanation
Indices: 22412479--22412587 Score: 164
Period size: 37 Copynumber: 2.9 Consensus size: 37
22412469 AGCTCAGACG
* * * *
22412479 AAATCTCCACATGAAGTTATCGAGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
22412516 AAATCTCCACACGTAGTCATCGGGTCTTACCCGAACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
22412553 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
22412588 ATATATTTCC
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Done.