Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 71 of 332
Found at i:21766980 original size:65 final size:65
Alignment explanation
Indices: 21766876--21767071 Score: 356
Period size: 65 Copynumber: 3.0 Consensus size: 65
21766866 CCCCTAGGGT
21766876 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
1 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
*
21766941 TAAGGTTGACCTGAATGCATGTTTGACTATTACTATTTACTGCATGCCATGTTATTATTATCTGA
1 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
* * *
21767006 TAAGGTTGACTTGAATGCATGTTTGACTGTTACTATTTACTGCATGCTATGTTATTATTATTTGA
1 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
21767071 T
1 T
21767072 GCGTGGGACT
Statistics
Matches: 126, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
65 126 1.00
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.43
Consensus pattern (65 bp):
TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
Found at i:21768474 original size:33 final size:36
Alignment explanation
Indices: 21768427--21768493 Score: 95
Period size: 34 Copynumber: 1.9 Consensus size: 36
21768417 ATTCTGTAGT
*
21768427 TAGGGTAATACTG-AAACTGTAGAA-ACTGAGACAG
1 TAGGGTAAAACTGAAAACTGTAGAAGACTGAGACAG
*
21768461 TAGGG-AAAACTGAAAACTTTAGAAGACTGAGAC
1 TAGGGTAAAACTGAAAACTGTAGAAGACTGAGAC
21768494 TATAGCTAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 6 0.21
34 15 0.52
35 8 0.28
ACGTcount: A:0.43, C:0.12, G:0.25, T:0.19
Consensus pattern (36 bp):
TAGGGTAAAACTGAAAACTGTAGAAGACTGAGACAG
Found at i:21769243 original size:42 final size:42
Alignment explanation
Indices: 21769184--21769266 Score: 166
Period size: 42 Copynumber: 2.0 Consensus size: 42
21769174 TAAGGGGAGT
21769184 AGAGTTGTAATGCCCCAATTTTTGGGCTTGGAAGTATTGGGA
1 AGAGTTGTAATGCCCCAATTTTTGGGCTTGGAAGTATTGGGA
21769226 AGAGTTGTAATGCCCCAATTTTTGGGCTTGGAAGTATTGGG
1 AGAGTTGTAATGCCCCAATTTTTGGGCTTGGAAGTATTGGG
21769267 CCTTGAGTCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.23, C:0.12, G:0.31, T:0.34
Consensus pattern (42 bp):
AGAGTTGTAATGCCCCAATTTTTGGGCTTGGAAGTATTGGGA
Found at i:21770526 original size:37 final size:37
Alignment explanation
Indices: 21770485--21770587 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
21770475 AGAATAGTCC
*
21770485 CCACACGTAGTTATCGGGTCTTACCCAGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCAGACAAAATCT
* *
21770522 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCAGACAAAATCT
21770559 CCACACGTAGTCATCGGGTCTTACCCAGA
1 CCACACGTAGTCATCGGGTCTTACCCAGA
21770588 ATATATTTCC
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCAGACAAAATCT
Found at i:21770786 original size:48 final size:48
Alignment explanation
Indices: 21770728--21771015 Score: 508
Period size: 48 Copynumber: 6.0 Consensus size: 48
21770718 ATATACACAC
*
21770728 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
21770776 ATCTCATACATATTTCACATTAGCCATT--GCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
21770822 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
21770870 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
21770918 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
21770966 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
21771014 AT
1 AT
21771016 ATTTATCTTT
Statistics
Matches: 229, Mismatches: 9, Indels: 4
0.95 0.04 0.02
Matches are distributed among these distances:
46 45 0.20
48 184 0.80
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:21775126 original size:30 final size:30
Alignment explanation
Indices: 21775092--21775192 Score: 96
Period size: 30 Copynumber: 3.2 Consensus size: 30
21775082 GACTTGAATG
21775092 CATGTTTGACTATTACTATTTACTGCATGC
1 CATGTTTGACTATTACTATTTACTGCATGC
* * * * *
21775122 CATGTTATTATTATCTGACAAGGTTGACCTGAATG-
1 CATGTT-TGACTAT-T-ACTA--TTTA-CTGCATGC
21775157 CATGTTTGACTATTACTATTTACTGCATGC
1 CATGTTTGACTATTACTATTTACTGCATGC
21775187 CATGTT
1 CATGTT
21775193 ATTAATATCT
Statistics
Matches: 54, Mismatches: 10, Indels: 14
0.69 0.13 0.18
Matches are distributed among these distances:
29 6 0.11
30 15 0.28
31 5 0.09
32 4 0.07
33 4 0.07
34 5 0.09
35 9 0.17
36 6 0.11
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.42
Consensus pattern (30 bp):
CATGTTTGACTATTACTATTTACTGCATGC
Found at i:21775180 original size:65 final size:65
Alignment explanation
Indices: 21775076--21775204 Score: 240
Period size: 65 Copynumber: 2.0 Consensus size: 65
21775066 CCCTAAGGTT
* *
21775076 AAGGTTGACTTGAATGCATGTTTGACTATTACTATTTACTGCATGCCATGTTATTATTATCTGAC
1 AAGGTTGACCTGAATGCATGTTTGACTATTACTATTTACTGCATGCCATGTTATTAATATCTGAC
21775141 AAGGTTGACCTGAATGCATGTTTGACTATTACTATTTACTGCATGCCATGTTATTAATATCTGA
1 AAGGTTGACCTGAATGCATGTTTGACTATTACTATTTACTGCATGCCATGTTATTAATATCTGA
21775205 TGCATGAGAC
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 62 1.00
ACGTcount: A:0.27, C:0.16, G:0.17, T:0.40
Consensus pattern (65 bp):
AAGGTTGACCTGAATGCATGTTTGACTATTACTATTTACTGCATGCCATGTTATTAATATCTGAC
Found at i:21776604 original size:27 final size:26
Alignment explanation
Indices: 21776560--21776620 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 26
21776550 GGGCATAATT
21776560 ATCA-TTTACCCTACAGGGGCATTAC
1 ATCATTTTACCCTACAGGGGCATTAC
*
21776585 GATCATTTTACCCTATAGGGGCATTAC
1 -ATCATTTTACCCTACAGGGGCATTAC
21776612 AGTCATTTT
1 A-TCATTTT
21776621 TCACTACAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
26 5 0.16
27 27 0.84
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.34
Consensus pattern (26 bp):
ATCATTTTACCCTACAGGGGCATTAC
Found at i:21776659 original size:27 final size:26
Alignment explanation
Indices: 21776629--21776706 Score: 102
Period size: 27 Copynumber: 2.9 Consensus size: 26
21776619 TTTCACTACA
21776629 AGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAAT-G
** *
21776656 AGGGTATTTTAGTAATTTTACAAATT
1 AGGGTATTTCGGTAATTTTACAAATG
*
21776682 AGGGGTACTTCGGTAATTTTACAAA
1 A-GGGTATTTCGGTAATTTTACAAA
21776707 CTGGGGTCTT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
26 1 0.02
27 43 0.98
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (26 bp):
AGGGTATTTCGGTAATTTTACAAATG
Found at i:21782230 original size:20 final size:20
Alignment explanation
Indices: 21782187--21782231 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
21782177 TTGAATTGGA
* *
21782187 TGTTGTATTTGTATGGATTG
1 TGTTTTATTTGTATGGAATG
21782207 TGTTTTATTTGTATGTGAAT-
1 TGTTTTATTTGTATG-GAATG
21782227 TGTTT
1 TGTTT
21782232 GGATGTTACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 19 0.86
21 3 0.14
ACGTcount: A:0.16, C:0.00, G:0.24, T:0.60
Consensus pattern (20 bp):
TGTTTTATTTGTATGGAATG
Found at i:21786811 original size:29 final size:29
Alignment explanation
Indices: 21786779--21786836 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
21786769 ATTCATATTC
21786779 TACCATCAAACATCAAAATACATGCATAT
1 TACCATCAAACATCAAAATACATGCATAT
21786808 TACCATCAAACATCAAAATACATGCATAT
1 TACCATCAAACATCAAAATACATGCATAT
21786837 CATTCATGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.48, C:0.24, G:0.03, T:0.24
Consensus pattern (29 bp):
TACCATCAAACATCAAAATACATGCATAT
Found at i:21790885 original size:26 final size:26
Alignment explanation
Indices: 21790849--21790900 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
21790839 CACCACTGAA
* *
21790849 TCGGGGAATCATCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
21790875 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
21790901 CTTTTCATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.21, T:0.15
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:21790977 original size:70 final size:71
Alignment explanation
Indices: 21790861--21791011 Score: 232
Period size: 72 Copynumber: 2.1 Consensus size: 71
21790851 GGGGAATCAT
*
21790861 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTT-CATTTCAAATATACAATGG
1 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTTACATTTCAAAGATACAATGG
21790925 ATATCG
66 ATATCG
* * ***
21790931 CACTTAGCAACCCCTCGGGGGAATCAGCATATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 CACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTTACATTTCAAAGATACAATG
21790996 GATATCG
65 GATATCG
21791003 CACTTAGCA
1 CACTTAGCA
21791012 CCACCAATGA
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
70 16 0.22
71 27 0.37
72 30 0.41
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (71 bp):
CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTTACATTTCAAAGATACAATGG
ATATCG
Found at i:21791054 original size:26 final size:26
Alignment explanation
Indices: 21791024--21791074 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
21791014 ACCAATGAAC
*
21791024 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
21791050 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
21791075 CTTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:21791114 original size:103 final size:104
Alignment explanation
Indices: 21790930--21791140 Score: 354
Period size: 103 Copynumber: 2.0 Consensus size: 104
21790920 AATGGATATC
*
21790930 GCACTTAGCAACCCCTCGGGGGAATCAGCATATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
21790995 GGATATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATATCGCACATAGCACCACCAATAAACCGGGGAATCA
21791034 GCACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
21791098 GGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGAT-ATCGCACATAGCACCACCAATAAACCGGGGAATCA
21791137 GCAC
1 GCAC
21791141 ACAGTAACCC
Statistics
Matches: 101, Mismatches: 5, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
103 83 0.82
104 18 0.18
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.19
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATATCGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:21791513 original size:29 final size:29
Alignment explanation
Indices: 21791481--21791544 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
21791471 TAATTCACCA
21791481 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
21791510 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
21791540 CCCAA
1 CCCAA
21791545 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:21791520 original size:30 final size:30
Alignment explanation
Indices: 21791488--21791544 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
21791478 CCACCCAACT
21791488 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
21791517 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
21791545 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:21793294 original size:90 final size:90
Alignment explanation
Indices: 21793141--21793323 Score: 348
Period size: 90 Copynumber: 2.0 Consensus size: 90
21793131 TTCACCATTT
*
21793141 TCACATTTCAACTCTAGTGTTTTCTGTTTACAATTTACCTTGGCATCATATAATGTCAACCAGTC
1 TCACATTTCAACTCTAGTGTTTTCTATTTACAATTTACCTTGGCATCATATAATGTCAACCAGTC
21793206 CATTCCCAAGATAACATCGAACTCA
66 CATTCCCAAGATAACATCGAACTCA
21793231 TCACATTTCAACTCTAGTGTTTTCTATTTACAATTTACCTTGGCATCATATAATGTCAACCAGTC
1 TCACATTTCAACTCTAGTGTTTTCTATTTACAATTTACCTTGGCATCATATAATGTCAACCAGTC
*
21793296 CATTCCCAAGATAACGTCGAACTCA
66 CATTCCCAAGATAACATCGAACTCA
21793321 TCA
1 TCA
21793324 AATGGTAACA
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
90 91 1.00
ACGTcount: A:0.30, C:0.26, G:0.10, T:0.34
Consensus pattern (90 bp):
TCACATTTCAACTCTAGTGTTTTCTATTTACAATTTACCTTGGCATCATATAATGTCAACCAGTC
CATTCCCAAGATAACATCGAACTCA
Found at i:21805159 original size:20 final size:20
Alignment explanation
Indices: 21805134--21805173 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
21805124 TTGGATGTTG
21805134 TATTTGTATG-GAATGTGGTT
1 TATTTGTATGTGAAT-TGGTT
21805154 TATTTGTATGTGAATTGGTT
1 TATTTGTATGTGAATTGGTT
21805174 GGATGTTACA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.20, C:0.00, G:0.28, T:0.53
Consensus pattern (20 bp):
TATTTGTATGTGAATTGGTT
Found at i:21806271 original size:19 final size:20
Alignment explanation
Indices: 21806239--21806278 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
21806229 AAATGATGAT
*
21806239 GAAAAAAAAGAAAAGAGAAA
1 GAAAAAAAAGAAAAAAGAAA
*
21806259 GAAAAAGAA-AAAAAAGAAA
1 GAAAAAAAAGAAAAAAGAAA
21806278 G
1 G
21806279 GCTCTCATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (20 bp):
GAAAAAAAAGAAAAAAGAAA
Found at i:21807593 original size:40 final size:40
Alignment explanation
Indices: 21807536--21807793 Score: 360
Period size: 40 Copynumber: 6.5 Consensus size: 40
21807526 TGGATGATAA
* * *
21807536 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
21807576 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
21807616 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
21807656 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
21807696 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
21807736 CCGGGCTATGTCCCAAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
21807776 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
21807794 TACTTGGCTT
Statistics
Matches: 200, Mismatches: 16, Indels: 5
0.90 0.07 0.02
Matches are distributed among these distances:
39 15 0.08
40 185 0.93
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:21816979 original size:21 final size:22
Alignment explanation
Indices: 21816953--21817001 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
21816943 CGGCCTGCAG
*
21816953 CACGGGCGTGT-CCTAGGGCCA
1 CACGGGCGTGTCCCTAGGACCA
*
21816974 CACGGGCGTGTCCCTTGGACCA
1 CACGGGCGTGTCCCTAGGACCA
21816996 CACGGG
1 CACGGG
21817002 TGTATGAGCC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 11 0.44
22 14 0.56
ACGTcount: A:0.14, C:0.35, G:0.37, T:0.14
Consensus pattern (22 bp):
CACGGGCGTGTCCCTAGGACCA
Found at i:21818198 original size:40 final size:40
Alignment explanation
Indices: 21818131--21818245 Score: 155
Period size: 40 Copynumber: 2.9 Consensus size: 40
21818121 CGATTATGAT
* *
21818131 TGGCACTAAGTGTCCG-GTTTA-ATATAGCTTTGGCTACAAA
1 TGGCACTAAGTGTGCGAG-TTAGA-ATAGCTTCGGCTACAAA
21818171 TGGCACTAAGTGTGCGAGTTAGAATAGCTTCGGCTACAAA
1 TGGCACTAAGTGTGCGAGTTAGAATAGCTTCGGCTACAAA
* *
21818211 TGGCACTAAGTGTGCGAGTTGGAATAG-TTCAGCTA
1 TGGCACTAAGTGTGCGAGTTAGAATAGCTTCGGCTA
21818246 TGTAAGGCAC
Statistics
Matches: 69, Mismatches: 4, Indels: 5
0.88 0.05 0.06
Matches are distributed among these distances:
39 7 0.10
40 60 0.87
41 2 0.03
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.29
Consensus pattern (40 bp):
TGGCACTAAGTGTGCGAGTTAGAATAGCTTCGGCTACAAA
Found at i:21820408 original size:46 final size:45
Alignment explanation
Indices: 21820355--21820530 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 45
21820345 TATTTGGGCA
21820355 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
21820401 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* * *
21820448 TCCGAGCTCGTTGAGTTCAGTCCGAGTTCACTTATGGATGCAAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*
21820494 -CTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
21820531 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 1 0.01
44 2 0.02
45 2 0.02
46 67 0.62
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:21820510 original size:93 final size:93
Alignment explanation
Indices: 21820351--21820522 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
21820341 AGGATATTTG
* * *
21820351 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTCAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAG
21820416 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
21820444 GGCATCCGAGCTCGTTGAGTTCAGTCCGAGTTCACTTATGGATGCAAACG-CTCGAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTCAGTCCGAGTTCACTTATGGATGCAAACGTC-CGAACTCGTTGA
21820508 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
21820523 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 1 0.01
93 72 0.99
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTCAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:21832417 original size:132 final size:128
Alignment explanation
Indices: 21831953--21832420 Score: 465
Period size: 131 Copynumber: 3.6 Consensus size: 128
21831943 CCTAGCACAG
* * * * * * * *
21831953 TAGGGCACGATTCCTCGAATTTCTAAACATCGAGCATTGCCGT-ATTTT-TAGAATTTTTAAGAA
1 TAGGGCACGATTCC-CGAATTGCCAAACATCGAACATTACCTTCGTTTTAAAGGATTTTTAA-AA
* * * * *
21832016 ACATGAGTGAAATTCTAAAGGGGATGTTCGATTATTTTGAACCACCAGGAAATCGCAACCCAACA
64 ACATGAATGAAATTCCAAA-GGGATATTCGATTATTTTGAA-CA-AAGGAAATCGCAACCCAGCA
21832081 CGA
126 CGA
* * * * *
21832084 TAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTACCTTCCTTTTATAGAATCTTTAAAGA
1 TAGGGCACGATT-CCCGAATTGCCAAACATCGAACATTACCTTCGTTTTAAAGGATTTTTAAAAA
** * * * * * *
21832149 CATGGGTGAAATTCCAAAGGAATATTTGATTGTTTTGAACGAACGGGCAATCGCAGCCCAGCACG
65 CATGAATGAAATTCCAAAGGGATATTCGATTATTTTGAAC-AA-AGGAAATCGCAACCCAGCACG
21832214 A
128 A
**
21832215 TAGGGCACGATTCCCGAATTGCCAAACATCGAGTATTACCTTCGTTTTAAA-GAGTTTTTAGAAA
1 TAGGGCACGATTCCCGAATTGCCAAACATCGAACATTACCTTCGTTTTAAAGGA-TTTTTA-AAA
* * *
21832279 ACATGAATGAAATTCCAAAGGGACATTCGATTATTTTGAGCAAATGAGAAATTGCAACCCAGCAC
64 ACATGAATGAAATTCCAAAGGGATATTCGATTATTTTGAACAAA-G-GAAATCGCAACCCAGCAC
*
21832344 GT
127 GA
* * **
21832346 TAGGGCACGATTCCGCGAATTGCCAAATATCAAACATCGCCTTCGTTTTAAAGGATTTTTAGAAA
1 TAGGGCACGATTCC-CGAATTGCCAAACATCGAACATTACCTTCGTTTTAAAGGATTTTTA-AAA
21832411 ACATGAATGA
64 ACATGAATGA
21832421 TTATAAAACT
Statistics
Matches: 282, Mismatches: 44, Indels: 21
0.81 0.13 0.06
Matches are distributed among these distances:
129 1 0.00
130 44 0.16
131 149 0.53
132 75 0.27
133 13 0.05
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (128 bp):
TAGGGCACGATTCCCGAATTGCCAAACATCGAACATTACCTTCGTTTTAAAGGATTTTTAAAAAC
ATGAATGAAATTCCAAAGGGATATTCGATTATTTTGAACAAAGGAAATCGCAACCCAGCACGA
Found at i:21834766 original size:15 final size:15
Alignment explanation
Indices: 21834746--21834775 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21834736 TTGGTTTGTA
*
21834746 AATGGACATTTAATT
1 AATGGACAGTTAATT
21834761 AATGGACAGTTAATT
1 AATGGACAGTTAATT
21834776 TTTTTGTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.07, G:0.17, T:0.37
Consensus pattern (15 bp):
AATGGACAGTTAATT
Found at i:21838458 original size:16 final size:16
Alignment explanation
Indices: 21838437--21838491 Score: 92
Period size: 16 Copynumber: 3.4 Consensus size: 16
21838427 ATTTGGTTCA
*
21838437 CTGTAATGGAATAGGG
1 CTGTAATGGAATAGAG
*
21838453 CTGTAATTGAATAGAG
1 CTGTAATGGAATAGAG
21838469 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
21838485 CTGTAAT
1 CTGTAAT
21838492 AAGTAATTCT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.35, C:0.07, G:0.29, T:0.29
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:21838560 original size:44 final size:46
Alignment explanation
Indices: 21838473--21838566 Score: 138
Period size: 44 Copynumber: 2.1 Consensus size: 46
21838463 ATAGAGCTGT
* *
21838473 AATGGAATAGAGCTGTAATAAGTAATTCTACTTTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAAGTAATTCTACTGTTTGGTTGAATGG
**
21838519 AATGGAATAGAACTGTAAT-AGT-ATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAAGTAATTCTACTGTTTGGTTGAATGG
21838563 AATG
1 AATG
21838567 ATGTTGTAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 23 0.52
45 3 0.07
46 18 0.41
ACGTcount: A:0.32, C:0.05, G:0.26, T:0.37
Consensus pattern (46 bp):
AATGGAATAGAACTGTAATAAGTAATTCTACTGTTTGGTTGAATGG
Found at i:21838755 original size:58 final size:57
Alignment explanation
Indices: 21838663--21838798 Score: 184
Period size: 58 Copynumber: 2.4 Consensus size: 57
21838653 TATTATTATT
* *
21838663 AAATTTTAACA-AGACTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAATC
1 AAATTTTAACATA-ATTATTATTAAAAATAATTTAAT-AAAATAATAAATAATTTAATA
* * *
21838721 ATATTTTAACATAATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATA
1 AAATTTTAACATAATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAATA
*
21838778 AAATTCTTAATATAATTATTA
1 AAATT-TTAACATAATTATTA
21838799 CTATATGAAT
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
57 23 0.33
58 45 0.65
59 1 0.01
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.42
Consensus pattern (57 bp):
AAATTTTAACATAATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAATA
Found at i:21839983 original size:19 final size:18
Alignment explanation
Indices: 21839961--21840005 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
21839951 GCTATTTAAA
21839961 TTTTTTTAATTATT-TTAGT
1 TTTTTTTAA--ATTCTTAGT
*
21839980 TTTTTTTAAATTCTTGGT
1 TTTTTTTAAATTCTTAGT
21839998 TTTTTTTA
1 TTTTTTTA
21840006 GCTTTTAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 3 0.12
18 12 0.50
19 9 0.38
ACGTcount: A:0.18, C:0.02, G:0.07, T:0.73
Consensus pattern (18 bp):
TTTTTTTAAATTCTTAGT
Found at i:21846007 original size:47 final size:47
Alignment explanation
Indices: 21845939--21846152 Score: 140
Period size: 47 Copynumber: 4.6 Consensus size: 47
21845929 TAAGAGCCAA
** *
21845939 TGTAAGACCATGT-TCAAGACATGGCATCAGCATTGAGAAAATGACTAG
1 TGTAAGACCATGTCT-GGGACATGGCATCAGC-TCGAGAAAATGACTAG
* ** * *
21845987 TGTAAGA-CATGTCTAGGACAT-GCATTGGGCTCGAGACGTAA-G-CCAG
1 TGTAAGACCATGTCTGGGACATGGCA-TCAGCTCGAGA--AAATGACTAG
* ** *
21846033 TGTAAGA-CATGTTTGGGACAT-GCATCAGCTACGAGATGAT-AGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCAGCT-CGAGAAAATGACT-AG
* * * * *
21846079 TATAAGACCATGTCTGGGAAATGGCATCAACTTGAG-ATATGAACTAG
1 TGTAAGACCATGTCTGGGACATGGCATCAGCTCGAGAAAATG-ACTAG
21846126 TGTAAGACCATGTCTGGGACATGGCAT
1 TGTAAGACCATGTCTGGGACATGGCAT
21846153 TGGCACCTTA
Statistics
Matches: 131, Mismatches: 23, Indels: 25
0.73 0.13 0.14
Matches are distributed among these distances:
44 2 0.02
45 4 0.03
46 48 0.37
47 57 0.44
48 20 0.15
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.24
Consensus pattern (47 bp):
TGTAAGACCATGTCTGGGACATGGCATCAGCTCGAGAAAATGACTAG
Found at i:21855780 original size:40 final size:41
Alignment explanation
Indices: 21855691--21855825 Score: 134
Period size: 40 Copynumber: 3.3 Consensus size: 41
21855681 CGATATCTCA
* * * *
21855691 CACACTAAGTGCCTTTTATA-ATCGAAGCTTTCTC-AACCTCG
1 CACACTAAGTGCCATATATAGCT-GAAGCTATCTCGAA-CTCG
* *
21855732 CACACTAAGTGCCATATATAGCTGAATCTAT-TCTAACTCG
1 CACACTAAGTGCCATATATAGCTGAAGCTATCTCGAACTCG
** *
21855772 CACACTAAGTGCTTTATATAGCTGAAGCTATCTCGAA-ACG
1 CACACTAAGTGCCATATATAGCTGAAGCTATCTCGAACTCG
*
21855812 CACACTAAATGCCA
1 CACACTAAGTGCCA
21855826 AACATAGTCG
Statistics
Matches: 78, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
40 47 0.60
41 30 0.38
42 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.28
Consensus pattern (41 bp):
CACACTAAGTGCCATATATAGCTGAAGCTATCTCGAACTCG
Found at i:21862127 original size:37 final size:37
Alignment explanation
Indices: 21862077--21862155 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
21862067 TTATTACGAA
* *
21862077 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTCT-CACACGAAGTCATCGG
*
21862114 GTCTTACCCGGACAAAATTCTCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCTCACACGAAGTCATCGG
21862151 GTCTT
1 GTCTT
21862156 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 35 0.92
38 3 0.08
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCTCACACGAAGTCATCGG
Found at i:21862352 original size:47 final size:47
Alignment explanation
Indices: 21862274--21862427 Score: 236
Period size: 47 Copynumber: 3.3 Consensus size: 47
21862264 CCCTTCGGGA
* * * * * *
21862274 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
21862321 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21862368 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21862415 CTTATCACATATA
1 CTTATCACATATA
21862428 CATCGGCCAT
Statistics
Matches: 97, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 97 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:21862432 original size:28 final size:28
Alignment explanation
Indices: 21862399--21862455 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
21862389 CACATTCATC
21862399 ACATCGGCCATTAGGCCTTATCACATAT
1 ACATCGGCCATTAGGCCTTATCACATAT
21862427 ACATCGGCCATTAGGCCTTATCACATAT
1 ACATCGGCCATTAGGCCTTATCACATAT
21862455 A
1 A
21862456 TACACTTTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (28 bp):
ACATCGGCCATTAGGCCTTATCACATAT
Found at i:21866091 original size:48 final size:48
Alignment explanation
Indices: 21866020--21866453 Score: 715
Period size: 48 Copynumber: 9.0 Consensus size: 48
21866010 CAAGATAAAT
* * *
21866020 ATATATATGTGTGGTAAAGCCGAATGGCTAGTATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
21866068 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* * * *
21866116 ATATGTATATATGGTAAAGCCGAATGGCTAATATGAAATATGTAAGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
21866164 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
21866212 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* * *
21866260 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
21866308 ATATGTATATGTGGTAAAGCCGAATGGCTAGTATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
21866356 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* * * *
21866404 ATATGTATATTTAGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
21866452 AT
1 AT
21866454 GTGTGTATAT
Statistics
Matches: 361, Mismatches: 25, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 361 1.00
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
Found at i:21866644 original size:37 final size:37
Alignment explanation
Indices: 21866594--21866696 Score: 188
Period size: 37 Copynumber: 2.8 Consensus size: 37
21866584 GGAAATATAT
21866594 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
21866631 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
21866668 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
21866697 GGACTATTCG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:21872217 original size:138 final size:138
Alignment explanation
Indices: 21871969--21872248 Score: 461
Period size: 138 Copynumber: 2.0 Consensus size: 138
21871959 AAGAAAAAAG
*
21871969 AATTATATTATTTCCAAAAGAATATTAATTCTCATGTGTTTTATATTTTGACCAAAATTAATTAA
1 AATTATATTATTTCCAAAAGAATATTAATTCTCATGTCTTTTATATTTTGACCAAAATTAATTAA
* * *
21872034 TATAATTGTTTATATTAATAAATTCGGTGAAATATATACAATTAATATTTTGTATGAATCAAATC
66 TATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTATATAAATCAAATC
21872099 CATATATT
131 CATATATT
* * ***
21872107 AATTATATTATTTCCAAAATAATATTAATTTTCATGTCTTTTATATTTTGATTGAAATTAATTAA
1 AATTATATTATTTCCAAAAGAATATTAATTCTCATGTCTTTTATATTTTGACCAAAATTAATTAA
* *
21872172 TATAATTGTTTATATTAATAAATTCTGTAAAATATATACAATTAATATTTTATATAAATCAAATT
66 TATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTATATAAATCAAATC
21872237 CATATATT
131 CATATATT
21872245 AATT
1 AATT
21872249 TTATCTATAT
Statistics
Matches: 131, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
138 131 1.00
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.46
Consensus pattern (138 bp):
AATTATATTATTTCCAAAAGAATATTAATTCTCATGTCTTTTATATTTTGACCAAAATTAATTAA
TATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTATATAAATCAAATC
CATATATT
Found at i:21889211 original size:17 final size:17
Alignment explanation
Indices: 21889185--21889217 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
21889175 TTATTATAAT
*
21889185 TGTGTGTATATATTATG
1 TGTGTATATATATTATG
21889202 TGTGTATATATATTAT
1 TGTGTATATATATTAT
21889218 ATGCATATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.18, T:0.55
Consensus pattern (17 bp):
TGTGTATATATATTATG
Found at i:21893790 original size:28 final size:29
Alignment explanation
Indices: 21893752--21893874 Score: 133
Period size: 29 Copynumber: 4.3 Consensus size: 29
21893742 AAAGCTTGAC
* * *
21893752 TATGAGTGTGA-TTGGGCCTAACGGGTCA
1 TATGAATGTGATTTGGGCCTAATGGGCCA
* * *
21893780 TATAAATGTGATTTGGGCTTAATGGGGCA
1 TATGAATGTGATTTGGGCCTAATGGGCCA
*
21893809 TACGAATGTGATTTGGGCCTAATGGGCCA
1 TATGAATGTGATTTGGGCCTAATGGGCCA
* * *
21893838 TATGATTGAGA-TTGGGCCTAGTGGGCCA
1 TATGAATGTGATTTGGGCCTAATGGGCCA
*
21893866 TATGCATGT
1 TATGAATGT
21893875 ATGTAGATTT
Statistics
Matches: 78, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
28 31 0.40
29 47 0.60
ACGTcount: A:0.24, C:0.13, G:0.33, T:0.31
Consensus pattern (29 bp):
TATGAATGTGATTTGGGCCTAATGGGCCA
Found at i:21903986 original size:44 final size:43
Alignment explanation
Indices: 21903916--21904047 Score: 122
Period size: 44 Copynumber: 3.0 Consensus size: 43
21903906 TTTTCTTCAA
* *
21903916 GTAGCTTTAATATGCT-TCACTACAACTTCTGGAAGATAAGGTTT
1 GTAGCTTTAATCTGCTCT-ACTGCAACTTC-GGAAGATAAGGTTT
* *
21903960 GTAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTT
1 GTAGCTTTAATCTGCTCTACTGCAACTTCGGA-AGATAAGGTTT
* * * * * *
21904004 GCTATCTTCAGTCTGCTCCATTGCAACTTCAGGGAGATAAGGTT
1 G-TAGCTTTAATCTGCTCTACTGCAACTTC-GGAAGATAAGGTT
21904048 CGCGACTTGT
Statistics
Matches: 72, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
43 2 0.03
44 36 0.50
45 33 0.46
46 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (43 bp):
GTAGCTTTAATCTGCTCTACTGCAACTTCGGAAGATAAGGTTT
Found at i:21904031 original size:45 final size:45
Alignment explanation
Indices: 21903949--21904515 Score: 240
Period size: 45 Copynumber: 12.2 Consensus size: 45
21903939 AACTTCTGGA
* * * *
21903949 AGATAAGGTTTG-TAGCTTTAATCTGCTCTACTGCAACTTCAGAG
1 AGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTCAGAG
* * *
21903993 AGATAAGATTTGCTATCTTCAGTCTGCTCCATTGCAACTTCAGGG
1 AGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTCAGAG
* * * * * *
21904038 AGATAAGGTTCGCGACTTGTAGCTTCAATTTG-TGCCATTGCAGCTTTCA-AGG
1 AGATAAGATT--TG-C---TATCTTCAATCTGCT-CCACTGCAAC-TTCAGA-G
* ** * * ** * *
21904090 AGATGAGATTCACTATCTT-TATGTTGCTCCGTTGCAACTTTAGGG
1 AGATAAGATTTGCTATCTTCAAT-CTGCTCCACTGCAACTTCAGAG
*
21904135 AGATAAGACTCGCAACTTG-TAGCTTCAATCTGCTCCACTGCAACTTCAG-G
1 AGATAAGA-T------TTGCTATCTTCAATCTGCTCCACTGCAACTTCAGAG
** * * * *
21904185 AAGATAAGATTCACCATAATTTTTTGCTTTAATCTGTTCCATTGCAACATCA-AGG
1 -AGATAAGATT-TGC-T-A-----T-CTTCAATCTGCTCCACTGCAACTTCAGA-G
* *
21904240 AAATAAGATTTGCTATCTTCGATCTGCTCCACTGCAACTTCA-AGG
1 AGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTCAGA-G
* * * * * * * *
21904285 AGATAAGATCTAC-AACTTCGATCTACTCTACTGCTACTTCAGGG
1 AGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTCAGAG
* * * **
21904329 AGATGAGATTTGCTGTCTTCAGTCTGCTCCACTGTGACTTCATG-G
1 AGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTCA-GAG
* * * * * *
21904374 AGATAAGACTT-ATAACTTCAACCTGCTCTACTGCAACTTTAGAG
1 AGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTCAGAG
* * * * * * *
21904418 AGATAAGGTTT-ATAGCTTTAATCTACTCTACTGCAACTTCAAAG
1 AGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTCAGAG
* * *
21904462 AGATAAGATTTTCTATCTTCAATCTACTCCACTGCAACTTCAGGG
1 AGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTCAGAG
21904507 AGATAAGAT
1 AGATAAGAT
21904516 CCGTGACTTT
Statistics
Matches: 392, Mismatches: 92, Indels: 77
0.70 0.16 0.14
Matches are distributed among these distances:
43 1 0.00
44 115 0.29
45 148 0.38
46 19 0.05
47 3 0.01
48 2 0.01
49 1 0.00
50 4 0.01
51 49 0.12
52 17 0.04
53 1 0.00
54 31 0.08
55 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (45 bp):
AGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTCAGAG
Found at i:21904324 original size:44 final size:44
Alignment explanation
Indices: 21904222--21904516 Score: 189
Period size: 44 Copynumber: 6.6 Consensus size: 44
21904212 TTTAATCTGT
* * * * * * * *
21904222 TCCATTGCAACATCAAGGAAATAAGATTTGCTATCTTCGATCTGC
1 TCCACTGCAACTTCAAGGAGATAAGATCTAC-AACTTCAATCTAC
*
21904267 TCCACTGCAACTTCAAGGAGATAAGATCTACAACTTCGATCTAC
1 TCCACTGCAACTTCAAGGAGATAAGATCTACAACTTCAATCTAC
* * * * * * ** * *
21904311 TCTACTGCTACTTCAGGGAGATGAGATTTGCTGTCTTCAGTCTGC
1 TCCACTGCAACTTCAAGGAGATAAGATCTAC-AACTTCAATCTAC
** * * * *
21904356 TCCACTGTGACTTCATGGAGATAAGA-CTTATAACTTCAACCTGC
1 TCCACTGCAACTTCAAGGAGATAAGATC-TACAACTTCAATCTAC
* * * * * * *
21904400 TCTACTGCAACTT-TAGAGAGATAAGGTTTATAGCTTTAATCTAC
1 TCCACTGCAACTTCAAG-GAGATAAGATCTACAACTTCAATCTAC
* * * * *
21904444 TCTACTGCAACTTCAAAGAGATAAGATTTTCTATCTTCAATCTAC
1 TCCACTGCAACTTCAAGGAGATAAGATCTAC-AACTTCAATCTAC
*
21904489 TCCACTGCAACTTCAGGGAGATAAGATC
1 TCCACTGCAACTTCAAGGAGATAAGATC
21904517 CGTGACTTTA
Statistics
Matches: 192, Mismatches: 52, Indels: 12
0.75 0.20 0.05
Matches are distributed among these distances:
43 1 0.01
44 99 0.52
45 92 0.48
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (44 bp):
TCCACTGCAACTTCAAGGAGATAAGATCTACAACTTCAATCTAC
Found at i:21904526 original size:89 final size:89
Alignment explanation
Indices: 21904261--21904537 Score: 281
Period size: 89 Copynumber: 3.1 Consensus size: 89
21904251 GCTATCTTCG
* * * *
21904261 ATCTGCTCCACTGCAACTTCAAGGAGATAAGATCTAC-AACTTCGATCTACTCTACTGCTACTTC
1 ATCTACTCCACTGCAACTTCAAGGAGATAAGATCTTCTAACTTCAATCTACTCTACTGCAACTTC
* * *
21904325 AGGGAGATGAGATTTGCTGTCTTCA
66 AGGGAGATAAGATTTG-TGACTTTA
* * ** * * * * *
21904350 GTCTGCTCCACTGTGACTTCATGGAGATAAGA-CTTATAACTTCAACCTGCTCTACTGCAACTTT
1 ATCTACTCCACTGCAACTTCAAGGAGATAAGATCTTCTAACTTCAATCTACTCTACTGCAACTTC
* * *
21904414 AGAGAGATAAGGTTTAT-AGCTTTA
66 AGGGAGATAAGATTTGTGA-CTTTA
* * * * *
21904438 ATCTACTCTACTGCAACTTCAAAGAGATAAGATTTTCTATCTTCAATCTACTCCACTGCAACTTC
1 ATCTACTCCACTGCAACTTCAAGGAGATAAGATCTTCTAACTTCAATCTACTCTACTGCAACTTC
**
21904503 AGGGAGATAAGATCCGTGACTTTA
66 AGGGAGATAAGATTTGTGACTTTA
21904527 ATCTACTCCAC
1 ATCTACTCCAC
21904538 GATTTTGTTA
Statistics
Matches: 147, Mismatches: 37, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
88 32 0.22
89 114 0.78
90 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (89 bp):
ATCTACTCCACTGCAACTTCAAGGAGATAAGATCTTCTAACTTCAATCTACTCTACTGCAACTTC
AGGGAGATAAGATTTGTGACTTTA
Found at i:21909379 original size:13 final size:13
Alignment explanation
Indices: 21909361--21909386 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21909351 AATATTGCAT
21909361 GAAAAATTTTATC
1 GAAAAATTTTATC
21909374 GAAAAATTTTATC
1 GAAAAATTTTATC
21909387 AATTATGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (13 bp):
GAAAAATTTTATC
Found at i:21910576 original size:33 final size:33
Alignment explanation
Indices: 21910509--21910579 Score: 99
Period size: 33 Copynumber: 2.2 Consensus size: 33
21910499 TGGAAAGGTT
* *
21910509 AGGTATACTTTGTGTATTCCATATGAAAAAGAA
1 AGGTATACTTTGTGTATACCATATCAAAAAGAA
*
21910542 AGGTATACTTTGTGTATACCACT-TCAAAAGGAA
1 AGGTATACTTTGTGTATACCA-TATCAAAAAGAA
21910575 AGGTA
1 AGGTA
21910580 CACTATATGT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
33 33 0.97
34 1 0.03
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (33 bp):
AGGTATACTTTGTGTATACCATATCAAAAAGAA
Found at i:21910597 original size:32 final size:33
Alignment explanation
Indices: 21910534--21910604 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 33
21910524 ATTCCATATG
* * * *
21910534 AAAAAGAAAGGTATACTTTGTGTATACCACTTC
1 AAAAGGAAAGGTACACTATATGTATACCACTTC
* *
21910567 AAAAGGAAAGGTACACTATATGTGTA-CACTTG
1 AAAAGGAAAGGTACACTATATGTATACCACTTC
21910599 AAAAGG
1 AAAAGG
21910605 TTATGTGCAC
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
32 11 0.34
33 21 0.66
ACGTcount: A:0.42, C:0.13, G:0.20, T:0.25
Consensus pattern (33 bp):
AAAAGGAAAGGTACACTATATGTATACCACTTC
Found at i:21910643 original size:33 final size:32
Alignment explanation
Indices: 21910587--21910703 Score: 130
Period size: 33 Copynumber: 3.6 Consensus size: 32
21910577 GTACACTATA
21910587 TGTGTAC-ACTTGAAAAGGTTATGTGCACCTTG
1 TGTGTACAACTTGAAAAGG-TATGTGCACCTTG
* *
21910619 TGTGTACAAATTGAAAATGGTATGTACA-CTTCG
1 TGTGTACAACTTGAAAA-GGTATGTGCACCTT-G
* * *
21910652 TGTGTACCACTTGAAAAGGGAATGTGCACCTCG
1 TGTGTACAACTTGAAAA-GGTATGTGCACCTTG
*
21910685 GGTGTACAACTTGAAAAGG
1 TGTGTACAACTTGAAAAGG
21910704 AAAGGTCCAT
Statistics
Matches: 71, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
32 12 0.17
33 55 0.77
34 4 0.06
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (32 bp):
TGTGTACAACTTGAAAAGGTATGTGCACCTTG
Found at i:21916874 original size:13 final size:13
Alignment explanation
Indices: 21916856--21916882 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
21916846 ATATTGCATG
21916856 AAAAATTTTATCA
1 AAAAATTTTATCA
21916869 AAAAATTTTATCA
1 AAAAATTTTATCA
21916882 A
1 A
21916883 TTATGTGTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (13 bp):
AAAAATTTTATCA
Found at i:21917177 original size:54 final size:54
Alignment explanation
Indices: 21917110--21917218 Score: 218
Period size: 54 Copynumber: 2.0 Consensus size: 54
21917100 ATAAATAATT
21917110 AAATAGAATTAAAACTCATTTTATATCTTCTTCTTCTTCATAAAATACATGGAA
1 AAATAGAATTAAAACTCATTTTATATCTTCTTCTTCTTCATAAAATACATGGAA
21917164 AAATAGAATTAAAACTCATTTTATATCTTCTTCTTCTTCATAAAATACATGGAA
1 AAATAGAATTAAAACTCATTTTATATCTTCTTCTTCTTCATAAAATACATGGAA
21917218 A
1 A
21917219 CCCTAAGAGA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.41, C:0.15, G:0.06, T:0.39
Consensus pattern (54 bp):
AAATAGAATTAAAACTCATTTTATATCTTCTTCTTCTTCATAAAATACATGGAA
Found at i:21918042 original size:32 final size:32
Alignment explanation
Indices: 21917993--21918204 Score: 133
Period size: 33 Copynumber: 6.5 Consensus size: 32
21917983 TACTCAAATG
* * *
21917993 GTACAACTTGAACAGGTTATGCACACTTTGTGT
1 GTAC-ACTTGAAAAGGTTAGGTACACTTTGTGT
* *
21918026 GTACACTTGAAAAGGTTAGGTATACTTTGTAT
1 GTACACTTGAAAAGGTTAGGTACACTTTGTGT
* ** *
21918058 AG-AC-CATATAAAAAGGAAAGGTATACTTTGTGT
1 -GTACAC-T-TGAAAAGGTTAGGTACACTTTGTGT
* * * ** * *
21918091 ATGCCACTTGAAAGGGAAAGGTACACTATATGT
1 GT-ACACTTGAAAAGGTTAGGTACACTTTGTGT
* * *
21918124 GTACACTTGAAAAGGTTATGTGCACCTTGTGT
1 GTACACTTGAAAAGGTTAGGTACACTTTGTGT
* * *
21918156 GTACAAATTGAAAATGG-TATGTACACTTCGTGT
1 GTAC-ACTTGAAAA-GGTTAGGTACACTTTGTGT
21918189 GTACCACTTGAAAAGG
1 GTA-CACTTGAAAAGG
21918205 GAATATGCAC
Statistics
Matches: 139, Mismatches: 31, Indels: 19
0.74 0.16 0.10
Matches are distributed among these distances:
31 1 0.01
32 53 0.38
33 79 0.57
34 5 0.04
35 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.31
Consensus pattern (32 bp):
GTACACTTGAAAAGGTTAGGTACACTTTGTGT
Found at i:21918167 original size:33 final size:32
Alignment explanation
Indices: 21918121--21918237 Score: 112
Period size: 33 Copynumber: 3.6 Consensus size: 32
21918111 GTACACTATA
21918121 TGTGTAC-ACTTGAAAAGGTTATGTGCACCTTG
1 TGTGTACAACTTGAAAAGG-TATGTGCACCTTG
* *
21918153 TGTGTACAAATTGAAAATGGTATGTACA-CTTCG
1 TGTGTACAACTTGAAAA-GGTATGTGCACCTT-G
* * * *
21918186 TGTGTACCACTTGAAAAGGGAATATGCACCTCG
1 TGTGTACAACTTGAAAA-GGTATGTGCACCTTG
* *
21918219 GGTGTACAACTAGAAAAGG
1 TGTGTACAACTTGAAAAGG
21918238 AAAGGCCCAT
Statistics
Matches: 69, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
32 12 0.17
33 53 0.77
34 4 0.06
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (32 bp):
TGTGTACAACTTGAAAAGGTATGTGCACCTTG
Found at i:21919089 original size:29 final size:30
Alignment explanation
Indices: 21919032--21919089 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
21919022 GCAAGTCAAA
* *
21919032 ATTCCACACGGTCTCGCCACACGGTCATGG
1 ATTCCACACGGGCTCGCCACACGGCCATGG
* *
21919062 ATTCC-CACGGGCTGGCCACATGGCCATG
1 ATTCCACACGGGCTCGCCACACGGCCATG
21919090 TCCAGGGCAC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 19 0.79
30 5 0.21
ACGTcount: A:0.19, C:0.36, G:0.26, T:0.19
Consensus pattern (30 bp):
ATTCCACACGGGCTCGCCACACGGCCATGG
Found at i:21923092 original size:40 final size:40
Alignment explanation
Indices: 21923037--21923178 Score: 198
Period size: 40 Copynumber: 3.6 Consensus size: 40
21923027 TATTCGAATG
*
21923037 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
21923077 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
21923117 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
* *
21923157 ATATCC-GGCTAAATACCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
21923179 TACTTGGGTT
Statistics
Matches: 91, Mismatches: 10, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
39 13 0.14
40 76 0.84
41 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:21931234 original size:40 final size:40
Alignment explanation
Indices: 21931179--21931399 Score: 340
Period size: 40 Copynumber: 5.6 Consensus size: 40
21931169 TATTCGAATG
21931179 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
21931219 ATATCCGGGCTAAGTCCCGAAGGCATTT-TGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
21931258 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* * * *
21931298 ATATCCGGGCTATGTCCTGAAGGCTTTTGTGCTATTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
21931338 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACT
*
21931378 ATATCCGGG-TAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
21931400 TACTTGGGTT
Statistics
Matches: 165, Mismatches: 14, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
39 50 0.30
40 112 0.68
41 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
Found at i:21931320 original size:79 final size:80
Alignment explanation
Indices: 21931179--21931399 Score: 340
Period size: 79 Copynumber: 2.8 Consensus size: 80
21931169 TATTCGAATG
*
21931179 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
*
21931244 TTT-TGCTATTGACT
66 TTTGTGCTATTGACC
* * *
21931258 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTATGTCCTGAAGGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
21931323 TTTGTGCTATTGACC
66 TTTGTGCTATTGACC
* * *
21931338 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCCGGG-TAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTCCCGAAGG
21931400 TACTTGGGTT
Statistics
Matches: 130, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
79 74 0.57
80 54 0.42
81 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.29
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
TTTGTGCTATTGACC
Found at i:21931395 original size:119 final size:119
Alignment explanation
Indices: 21931179--21931399 Score: 347
Period size: 119 Copynumber: 1.9 Consensus size: 119
21931169 TATTCGAATG
* *
21931179 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACCATATCCGGGCTAAGACCCGAAGGCA
* *
21931244 TTTTGCTATTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
66 TTTTGCGATTGACTATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGTGACT
* * *
21931298 ATATCCGGGCTATGTCCTGAAGGCTTTTGTGCTATTGACCATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACCATATCCGGGCTAAGACCCGAAGGCA
21931363 TTTGTGCGAGTTG-CTATATCCGGG-TAAATCCCGAAGG
66 TTT-TGCGA-TTGACTATATCCGGGCTAAATCCCGAAGG
21931400 TACTTGGGTT
Statistics
Matches: 93, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
119 75 0.81
120 15 0.16
121 3 0.03
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.29
Consensus pattern (119 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACCATATCCGGGCTAAGACCCGAAGGCA
TTTTGCGATTGACTATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGTGACT
Found at i:21937436 original size:73 final size:72
Alignment explanation
Indices: 21937293--21937605 Score: 407
Period size: 73 Copynumber: 4.3 Consensus size: 72
21937283 AAAATCATAT
* ** *
21937293 ATAAAAAACTATTGATAAAACTA-ATTTA-GTATAAATAAGTAGAACATAAATTTAATATCCAAA
1 ATAAACAACTATTGATAAAACTAGA-TTACACATAAATAAGTAGAACATAAATTCAATATCCAAA
*
21937356 AATCAAAC
65 AACCAAAC
* ** * * *
21937364 ATAAACAATTATTGATAAAACTAGCCCTA-AGCATAAATAATTAGACCATAAATTCGATATCCAA
1 ATAAACAACTATTGATAAAACTAG-ATTACA-CATAAATAAGTAGAACATAAATTCAATATCCAA
*
21937428 AGACCAAAC
64 AAACCAAAC
* * * *
21937437 ATAAACAACTATTTGATAAAACTATATTACACATAAAAAAGTAGAATATAAATTCAATATCTAAA
1 ATAAACAACTA-TTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAA
21937502 AACCAAAC
65 AACCAAAC
*
21937510 ATAAACAACCATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
1 ATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
21937575 ACCAAAC
66 ACCAAAC
*
21937582 ATAAATAACTATTGATAAAACTAG
1 ATAAACAACTATTGATAAAACTAG
21937606 TTTAGCATTG
Statistics
Matches: 207, Mismatches: 30, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
71 21 0.10
72 81 0.39
73 92 0.44
74 13 0.06
ACGTcount: A:0.54, C:0.15, G:0.06, T:0.25
Consensus pattern (72 bp):
ATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
ACCAAAC
Found at i:21937594 original size:145 final size:144
Alignment explanation
Indices: 21937293--21937609 Score: 415
Period size: 145 Copynumber: 2.2 Consensus size: 144
21937283 AAAATCATAT
** * *
21937293 ATAAAAAACTATTGATAAAACTAATTTAGTATAAATAAGTAGAACATAAATTTAATATCCAAAAA
1 ATAAAAAACTATTGATAAAACTAATTTAACATAAAAAAGTAGAACATAAATTCAATATCCAAAAA
* ** * * * *
21937358 TCAAACATAAACAATTATTGATAAAACTAGCCCTAAGCATAAATAATTAGACCATAAATTCGATA
66 CCAAACATAAACAACCATTGATAAAACTAGCACTAAGCATAAATAAGTAGAACATAAATTCAATA
*
21937423 TCCAAAGACCAAAC
131 TCCAAAAACCAAAC
* * *
21937437 ATAAACAACTATTTGATAAAACT-ATATTACACATAAAAAAGTAGAATATAAATTCAATATCTAA
1 ATAAAAAACTA-TTGATAAAACTAAT-TTA-ACATAAAAAAGTAGAACATAAATTCAATATCCAA
*
21937501 AAACCAAACATAAACAACCATTGATAAAACTAG-ATTACA-CATAAATAAGTAGAACATAAATTC
63 AAACCAAACATAAACAACCATTGATAAAACTAGCACTA-AGCATAAATAAGTAGAACATAAATTC
21937564 AATATCCAAAAACCAAAC
127 AATATCCAAAAACCAAAC
* *
21937582 ATAAATAACTATTGATAAAACTAGTTTA
1 ATAAAAAACTATTGATAAAACTAATTTA
21937610 GCATTGTTGT
Statistics
Matches: 150, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
144 26 0.17
145 65 0.43
146 59 0.39
ACGTcount: A:0.54, C:0.15, G:0.06, T:0.26
Consensus pattern (144 bp):
ATAAAAAACTATTGATAAAACTAATTTAACATAAAAAAGTAGAACATAAATTCAATATCCAAAAA
CCAAACATAAACAACCATTGATAAAACTAGCACTAAGCATAAATAAGTAGAACATAAATTCAATA
TCCAAAAACCAAAC
Found at i:21938057 original size:18 final size:18
Alignment explanation
Indices: 21938034--21938068 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21938024 TCCATCAATG
* *
21938034 TGAACATCATTTGAAATA
1 TGAACACCATTTAAAATA
21938052 TGAACACCATTTAAAAT
1 TGAACACCATTTAAAAT
21938069 GTTAATATCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.14, G:0.09, T:0.31
Consensus pattern (18 bp):
TGAACACCATTTAAAATA
Found at i:21940676 original size:15 final size:15
Alignment explanation
Indices: 21940656--21940688 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
21940646 AGAATGGGGC
21940656 CTAAGTAGGAATAAA
1 CTAAGTAGGAATAAA
21940671 CTAAGTAGGAATAAA
1 CTAAGTAGGAATAAA
21940686 CTA
1 CTA
21940689 GGTTTTCTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.52, C:0.09, G:0.18, T:0.21
Consensus pattern (15 bp):
CTAAGTAGGAATAAA
Found at i:21944104 original size:40 final size:39
Alignment explanation
Indices: 21944060--21944147 Score: 106
Period size: 40 Copynumber: 2.2 Consensus size: 39
21944050 TATTTCAAAC
* *
21944060 TTTTTTTATTTTTTAATTAATGTTTTAAATTAATAAATAT
1 TTTTTTTATTTTCTAATTAATCTTTTAAATTAATAAAT-T
* * *
21944100 TTTTTTCT-TTTTCTAATTCATCTTTTTAATTAATAACTT
1 TTTTTT-TATTTTCTAATTAATCTTTTAAATTAATAAATT
21944139 TTTTTTTAT
1 TTTTTTTAT
21944148 AAAATCAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
38 1 0.02
39 8 0.20
40 31 0.76
41 1 0.02
ACGTcount: A:0.27, C:0.06, G:0.01, T:0.66
Consensus pattern (39 bp):
TTTTTTTATTTTCTAATTAATCTTTTAAATTAATAAATT
Found at i:21950268 original size:80 final size:80
Alignment explanation
Indices: 21950167--21950328 Score: 324
Period size: 80 Copynumber: 2.0 Consensus size: 80
21950157 AAAGACCATA
21950167 ATTGGGTTATGACACTACGAATGTAAGACCATGGCAATGCATGTGTAAGACCATAATTGGACTAT
1 ATTGGGTTATGACACTACGAATGTAAGACCATGGCAATGCATGTGTAAGACCATAATTGGACTAT
21950232 GGATGAAGGAAAACG
66 GGATGAAGGAAAACG
21950247 ATTGGGTTATGACACTACGAATGTAAGACCATGGCAATGCATGTGTAAGACCATAATTGGACTAT
1 ATTGGGTTATGACACTACGAATGTAAGACCATGGCAATGCATGTGTAAGACCATAATTGGACTAT
21950312 GGATGAAGGAAAACG
66 GGATGAAGGAAAACG
21950327 AT
1 AT
21950329 GTACTCATAT
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 82 1.00
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.24
Consensus pattern (80 bp):
ATTGGGTTATGACACTACGAATGTAAGACCATGGCAATGCATGTGTAAGACCATAATTGGACTAT
GGATGAAGGAAAACG
Found at i:21951868 original size:40 final size:40
Alignment explanation
Indices: 21951722--21951944 Score: 251
Period size: 40 Copynumber: 5.7 Consensus size: 40
21951712 TTGAATGATG
* * * *
21951722 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
21951762 TCCGGACTAAGAT-CCGAAGGTA-TTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
21951801 TCC-GGCTAAG-CTCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
21951839 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
21951879 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
21951920 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
21951945 AACGAGGAGC
Statistics
Matches: 156, Mismatches: 20, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
37 7 0.04
38 23 0.15
39 14 0.09
40 109 0.70
41 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:21951962 original size:80 final size:79
Alignment explanation
Indices: 21951813--21951977 Score: 199
Period size: 80 Copynumber: 2.1 Consensus size: 79
21951803 CGGCTAAGCT
* * ** *
21951813 CGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
1 CGAAGGCATTGGTGCGAGCTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAA
*
21951878 ATCCGGGTTAAGTCC
66 ATCC-GGTTAAATCC
* *
21951893 CGAAGGCATTTGTGCGAGCTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCT
1 CGAAGGCATTGGTGCGAGCTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CT
* *
21951956 ATATCCGGTTAAATTC
64 AAATCCGGTTAAATCC
21951972 CGAAGG
1 CGAAGG
21951978 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
79 15 0.21
80 56 0.77
81 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CGAAGGCATTGGTGCGAGCTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGTTAAATCC
Found at i:21954790 original size:22 final size:21
Alignment explanation
Indices: 21954752--21954792 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
21954742 TTTTTTAATG
**
21954752 TTTTTTTTATTAAAATGATAA
1 TTTTTTTTAAAAAAATGATAA
21954773 TTTTTTTTAAAAATAATGAT
1 TTTTTTTTAAAAA-AATGAT
21954793 TAAATTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (21 bp):
TTTTTTTTAAAAAAATGATAA
Found at i:21956705 original size:14 final size:14
Alignment explanation
Indices: 21956678--21956712 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
21956668 ATCCCATTAA
* *
21956678 TAAATTAAATATTG
1 TAAATAAAAAATTG
21956692 TAAATAAAAAATTG
1 TAAATAAAAAATTG
21956706 TAAATAA
1 TAAATAA
21956713 TGAAAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (14 bp):
TAAATAAAAAATTG
Found at i:21959479 original size:104 final size:101
Alignment explanation
Indices: 21959297--21959570 Score: 298
Period size: 104 Copynumber: 2.6 Consensus size: 101
21959287 GAGCAGGGTT
* * * **
21959297 CACACAGGCAAGGACATGGGTGTGTGTCCAGGCCGTGTAACTCATTATTTATAATTTATAACCAC
1 CACAC-GGCAAGGACAT-GG-GTGTGTCCAGGCCGTGTAACTCACTGTTTATGATTTAGGACCAC
* * * *
21959362 ATGGCCAGAGACATGGGCATGTGCCCAAGCT-GTATGAGC
63 AAGGCCAGAGACATAGCCATGTG-CCAAGCTCGTATAAGC
* *
21959401 CACACGGGCAATGACATAGGCGTGTGTCCAGGCCATGTAACTCACTGTTTATGATTTAGGACCAC
1 CACAC-GGCAAGGACAT-GG-GTGTGTCCAGGCCGTGTAACTCACTGTTTATGATTTAGGACCAC
* * * *
21959466 AAGGCCAGGGACATAGCCGTGTGCCTAGGTCGTATAAGC
63 AAGGCCAGAGACATAGCCATGTGCCAAGCTCGTATAAGC
* *
21959505 CATACGGCTAAGGATATGGGTGTGTGCCTAGGCCGTGTAACTCACTGTTTATGATTTAGGACCAC
1 CACACGGC-AAGGACATGGGTGTGT-CC-AGGCCGTGTAACTCACTGTTTATGATTTAGGACCAC
21959570 A
63 A
21959571 CAACTAGGGA
Statistics
Matches: 144, Mismatches: 22, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
102 6 0.04
103 12 0.08
104 126 0.88
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (101 bp):
CACACGGCAAGGACATGGGTGTGTCCAGGCCGTGTAACTCACTGTTTATGATTTAGGACCACAAG
GCCAGAGACATAGCCATGTGCCAAGCTCGTATAAGC
Found at i:21959608 original size:104 final size:103
Alignment explanation
Indices: 21959297--21959659 Score: 274
Period size: 104 Copynumber: 3.5 Consensus size: 103
21959287 GAGCAGGGTT
* * * * * **
21959297 CACACAGGCAAGGACATGGGTGTGTGTCCAGGCCGTGTAACTCATTATTTATAATTTATAACCAC
1 CACACAGGAAAGGACACGGGTGTGTG-CCAGGCCGTGTAACTCACTGTTTATGATTTAGGACCAC
* * * * * * *
21959362 ATGGCCAGAGACATGGGCA-TGTGCCCAAG-CTGTATGAGC
65 AAGACCAGGGACAT-AGCAGTGTGCCTAGGAC-GTATAAGC
* * * * *
21959401 CACACGGGCAATGACATAGGCGTGTGT-CCAGGCCATGTAACTCACTGTTTATGATTTAGGACCA
1 CACACAGGAAAGGACA-CGG-GTGTGTGCCAGGCCGTGTAACTCACTGTTTATGATTTAGGACCA
* * *
21959465 CAAGGCCAGGGACATAGCCGTGTGCCTAGGTCGTATAAGC
64 CAAGACCAGGGACATAGCAGTGTGCCTAGGACGTATAAGC
* * * *
21959505 CATAC-GGCTAAGGATATGGGTGTGTGCCTAGGCCGTGTAACTCACTGTTTATGATTTAGGACCA
1 CACACAGG-AAAGGACACGGGTGTGTGCC-AGGCCGTGTAACTCACTGTTTATGATTTAGGACCA
* *
21959569 CACA-ACTAGGGACAT-G-AGTGTACGCCTA-GACAGTGTAAGC
64 CA-AGACCAGGGACATAGCAGTGT--GCCTAGGAC-GTATAAGC
* * * *
21959609 CACACAGGAAAGGACACGGGTGTATGCCCAAGCCGTGTGACTCGCTGTTTA
1 CACACAGGAAAGGACACGGGTGTGTG-CCAGGCCGTGTAACTCACTGTTTA
21959660 CAATTTAGAA
Statistics
Matches: 211, Mismatches: 35, Indels: 26
0.78 0.13 0.10
Matches are distributed among these distances:
102 10 0.05
103 11 0.05
104 176 0.83
105 8 0.04
106 6 0.03
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.23
Consensus pattern (103 bp):
CACACAGGAAAGGACACGGGTGTGTGCCAGGCCGTGTAACTCACTGTTTATGATTTAGGACCACA
AGACCAGGGACATAGCAGTGTGCCTAGGACGTATAAGC
Found at i:21960836 original size:10 final size:11
Alignment explanation
Indices: 21960818--21960875 Score: 63
Period size: 10 Copynumber: 5.7 Consensus size: 11
21960808 TAAATTCTAA
21960818 AAGATAAATAC
1 AAGATAAATAC
21960829 AA-ATAAAT-C
1 AAGATAAATAC
*
21960838 AAGATAATTA-
1 AAGATAAATAC
21960848 AAGATAAATA-
1 AAGATAAATAC
*
21960858 AGGATAAATA-
1 AAGATAAATAC
21960868 AAGATAAA
1 AAGATAAA
21960876 AGCTAAAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
9 3 0.07
10 36 0.88
11 2 0.05
ACGTcount: A:0.66, C:0.03, G:0.10, T:0.21
Consensus pattern (11 bp):
AAGATAAATAC
Found at i:21960841 original size:20 final size:19
Alignment explanation
Indices: 21960818--21960875 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 19
21960808 TAAATTCTAA
21960818 AAGATAAATACAA-ATAAAT
1 AAGATAAATA-AAGATAAAT
*
21960837 CAAGATAATTAAAGATAAAT
1 -AAGATAAATAAAGATAAAT
21960857 AAGGATAAATAAAGATAAA
1 AA-GATAAATAAAGATAAA
21960876 AGCTAAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.12
20 30 0.88
ACGTcount: A:0.66, C:0.03, G:0.10, T:0.21
Consensus pattern (19 bp):
AAGATAAATAAAGATAAAT
Found at i:21960853 original size:30 final size:30
Alignment explanation
Indices: 21960817--21960874 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
21960807 TTAAATTCTA
*
21960817 AAAGATAAATACA-AATAAATCAAGATAATT
1 AAAGATAAATA-AGAATAAATAAAGATAATT
*
21960847 AAAGATAAATAAGGATAAATAAAGATAA
1 AAAGATAAATAAGAATAAATAAAGATAA
21960875 AAGCTAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.66, C:0.03, G:0.10, T:0.21
Consensus pattern (30 bp):
AAAGATAAATAAGAATAAATAAAGATAATT
Found at i:21961746 original size:99 final size:101
Alignment explanation
Indices: 21961564--21961762 Score: 285
Period size: 99 Copynumber: 2.0 Consensus size: 101
21961554 ATTATTATCA
* *
21961564 TTATTATTATTATTGCTTAAGAATATATTGAACCTTTTGAAGCGAAGAGAGATGACAGCCAAGCA
1 TTATTATTATTATTGCTTAAGAACATATCGAACCTTTTGAAGCGAAGAGAGATGACAGCCAAGCA
* *
21961629 CCCCACCCCAGTTGCTCAGCCCAACATACTCCTAAT
66 CCCCACCCCAGTTACTCAGCCCAACAAACTCCTAAT
* * * * *
21961665 TTATTA-TATT-TTTCTTAAGAACATATCGAACCTTTTGACGTGAAGATAGATGACAGCTAAGCA
1 TTATTATTATTATTGCTTAAGAACATATCGAACCTTTTGAAGCGAAGAGAGATGACAGCCAAGCA
* *
21961728 CCCCACCCCGGTTACTCAGCCCAACAAATTCCTAA
66 CCCCACCCCAGTTACTCAGCCCAACAAACTCCTAA
21961763 AAAAATTTAT
Statistics
Matches: 87, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
99 77 0.89
100 4 0.05
101 6 0.07
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (101 bp):
TTATTATTATTATTGCTTAAGAACATATCGAACCTTTTGAAGCGAAGAGAGATGACAGCCAAGCA
CCCCACCCCAGTTACTCAGCCCAACAAACTCCTAAT
Found at i:21962918 original size:15 final size:14
Alignment explanation
Indices: 21962898--21962928 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
21962888 ATCCAAACAA
21962898 AATAAAATAATAAAT
1 AATAAAATAA-AAAT
21962913 AATAAAATAAAAAT
1 AATAAAATAAAAAT
21962927 AA
1 AA
21962929 AAATTGGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (14 bp):
AATAAAATAAAAAT
Found at i:21964358 original size:33 final size:33
Alignment explanation
Indices: 21964316--21964389 Score: 112
Period size: 33 Copynumber: 2.2 Consensus size: 33
21964306 TTGTTTCCTT
* * *
21964316 TTGGAAATCAAGAGTTTGTCGTAGTATTTGCTG
1 TTGGAAATCAACAGTTTGCCGTAGTATCTGCTG
*
21964349 TTGGAAATCAACAGTTTGCCGTTGTATCTGCTG
1 TTGGAAATCAACAGTTTGCCGTAGTATCTGCTG
21964382 TTGGAAAT
1 TTGGAAAT
21964390 TAAGCACATT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.24, C:0.12, G:0.26, T:0.38
Consensus pattern (33 bp):
TTGGAAATCAACAGTTTGCCGTAGTATCTGCTG
Found at i:21981818 original size:21 final size:21
Alignment explanation
Indices: 21981794--21981833 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
21981784 GAAATTTTAA
21981794 ATAATTATTA-ATATTTTTTGT
1 ATAATTATTAGAT-TTTTTTGT
*
21981815 ATAATTTTTAGATTTTTTT
1 ATAATTATTAGATTTTTTT
21981834 AGTTTTGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (21 bp):
ATAATTATTAGATTTTTTTGT
Found at i:21984558 original size:27 final size:28
Alignment explanation
Indices: 21984514--21984566 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
21984504 ATGTGCGAGG
21984514 CCCCTCATGTGAACCCCTATAGGTGAGC
1 CCCCTCATGTGAACCCCTATAGGTGAGC
21984542 CCCCTCATGTGAA-CCCTATAGGTGA
1 CCCCTCATGTGAACCCCTATAGGTGA
21984567 ACGCCCTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 12 0.48
28 13 0.52
ACGTcount: A:0.23, C:0.34, G:0.21, T:0.23
Consensus pattern (28 bp):
CCCCTCATGTGAACCCCTATAGGTGAGC
Found at i:21984573 original size:27 final size:28
Alignment explanation
Indices: 21984514--21984573 Score: 95
Period size: 27 Copynumber: 2.2 Consensus size: 28
21984504 ATGTGCGAGG
*
21984514 CCCCTCATGTGAACCCCTATAGGTGAGC
1 CCCCTCATGTGAACCCCTATAGGTGAAC
21984542 CCCCTCATGTGAA-CCCTATAGGTGAAC
1 CCCCTCATGTGAACCCCTATAGGTGAAC
*
21984569 GCCCT
1 CCCCT
21984574 ATTACGAACC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 17 0.57
28 13 0.43
ACGTcount: A:0.22, C:0.37, G:0.20, T:0.22
Consensus pattern (28 bp):
CCCCTCATGTGAACCCCTATAGGTGAAC
Found at i:21984575 original size:15 final size:14
Alignment explanation
Indices: 21984522--21984575 Score: 51
Period size: 15 Copynumber: 3.9 Consensus size: 14
21984512 GGCCCCTCAT
21984522 GTGAACCCCTATAG
1 GTGAACCCCTATAG
*
21984536 GTGAGCCCCCTCAT--
1 GTGA-ACCCCT-ATAG
21984550 GTGAA-CCCTATAG
1 GTGAACCCCTATAG
21984563 GTGAACGCCCTAT
1 GTGAAC-CCCTAT
21984576 TACGAACCCA
Statistics
Matches: 32, Mismatches: 2, Indels: 11
0.71 0.04 0.24
Matches are distributed among these distances:
11 2 0.06
12 4 0.12
13 5 0.16
14 8 0.25
15 11 0.34
16 2 0.06
ACGTcount: A:0.24, C:0.31, G:0.22, T:0.22
Consensus pattern (14 bp):
GTGAACCCCTATAG
Found at i:21987067 original size:39 final size:39
Alignment explanation
Indices: 21987013--21987149 Score: 247
Period size: 39 Copynumber: 3.5 Consensus size: 39
21987003 TAATGGAGAA
*
21987013 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGTTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGTTGGTG
*
21987052 TTATATCCGGGCTAAGTCCCGAACGCATTCGTGTTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGTTGGTG
*
21987091 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGTTGGTG
21987130 TTATATCCGGGCTAAGTCCC
1 TTATATCCGGGCTAAGTCCC
21987150 TTATATCCGG
Statistics
Matches: 94, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 94 1.00
ACGTcount: A:0.19, C:0.23, G:0.28, T:0.30
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGTTGGTG
Found at i:21987155 original size:20 final size:20
Alignment explanation
Indices: 21987130--21987169 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
21987120 CGTGCTGGTG
21987130 TTATATCCGGGCTAAGTCCC
1 TTATATCCGGGCTAAGTCCC
21987150 TTATATCCGGGCTAAGTCCC
1 TTATATCCGGGCTAAGTCCC
21987170 GAAGGCATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (20 bp):
TTATATCCGGGCTAAGTCCC
Found at i:21987183 original size:59 final size:59
Alignment explanation
Indices: 21987091--21987208 Score: 236
Period size: 59 Copynumber: 2.0 Consensus size: 59
21987081 CGTGTTGGTG
21987091 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCC
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCC
21987150 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCC
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCC
21987209 GAAGGCATTC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.19, C:0.25, G:0.27, T:0.29
Consensus pattern (59 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCC
Found at i:21987191 original size:137 final size:139
Alignment explanation
Indices: 21987013--21987288 Score: 450
Period size: 137 Copynumber: 2.0 Consensus size: 139
21987003 TAATGGAGAA
*
21987013 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGTTGGTGTTATATCCGGGCTAAGTCCCGAACGC
1 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAACGC
* * *
21987078 ATTCGTGTTGGTGTTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGC
66 ATTCGTGCTGGTGTTATATCCGGGCTAAAGTCCCGAAGGC-TTCGTGCTAGTATTATATCCGGGC
21987142 -T-AAGTCCC
130 TTAAAGTCCC
* *
21987150 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGC
1 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAACGC
* *
21987215 ATTCGTGCTGGTGTTATATCCGGGCTAAAGTCCCGCAGGCTTTGTGCTAGTATTATATCCGGGCT
66 ATTCGTGCTGGTGTTATATCCGGGCTAAAGTCCCGAAGGCTTCGTGCTAGTATTATATCCGGGCT
21987280 TAAAGTCCC
131 TAAAGTCCC
21987289 GCATGCTTTA
Statistics
Matches: 128, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
137 108 0.84
138 13 0.10
139 7 0.05
ACGTcount: A:0.19, C:0.24, G:0.28, T:0.30
Consensus pattern (139 bp):
TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAACGC
ATTCGTGCTGGTGTTATATCCGGGCTAAAGTCCCGAAGGCTTCGTGCTAGTATTATATCCGGGCT
TAAAGTCCC
Found at i:21987204 original size:39 final size:40
Alignment explanation
Indices: 21987150--21987289 Score: 214
Period size: 39 Copynumber: 3.5 Consensus size: 40
21987140 GCTAAGTCCC
21987150 TTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAAGTCCCGAAGGCATTCGTGCTGGTG
21987189 TTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAAGTCCCGAAGGCATTCGTGCTGGTG
* * * *
21987228 TTATATCCGGGCTAAAGTCCCGCAGGC-TTTGTGCTAGTA
1 TTATATCCGGGCTAAAGTCCCGAAGGCATTCGTGCTGGTG
21987267 TTATATCCGGGCTTAAAGTCCCG
1 TTATATCCGGGC-TAAAGTCCCG
21987290 CATGCTTTAT
Statistics
Matches: 95, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
39 73 0.77
40 22 0.23
ACGTcount: A:0.19, C:0.24, G:0.28, T:0.29
Consensus pattern (40 bp):
TTATATCCGGGCTAAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:21987221 original size:98 final size:99
Alignment explanation
Indices: 21987052--21987248 Score: 369
Period size: 98 Copynumber: 2.0 Consensus size: 99
21987042 CGTGTTGGTG
*
21987052 TTATATCCGGGCTAAGTCCCGAACGCATTCGTGTTGGTGTTATATCCGGGCTAAGTCCCGAAGGC
1 TTATATCCGGGCTAAGTCCCGAACGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGC
21987117 ATTCGTGCTGGTGTTATATCCGGGCT-AAGTCCC
66 ATTCGTGCTGGTGTTATATCCGGGCTAAAGTCCC
*
21987150 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGC
1 TTATATCCGGGCTAAGTCCCGAACGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGC
21987215 ATTCGTGCTGGTGTTATATCCGGGCTAAAGTCCC
66 ATTCGTGCTGGTGTTATATCCGGGCTAAAGTCCC
21987249 GCAGGCTTTG
Statistics
Matches: 96, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
98 89 0.93
99 7 0.07
ACGTcount: A:0.19, C:0.24, G:0.28, T:0.29
Consensus pattern (99 bp):
TTATATCCGGGCTAAGTCCCGAACGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGC
ATTCGTGCTGGTGTTATATCCGGGCTAAAGTCCC
Found at i:21990180 original size:42 final size:42
Alignment explanation
Indices: 21990121--21990204 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
21990111 AGAACAATAG
21990121 CATCAGTCATCATGTCAGACCTAAAATTCAAAAATAAAAAAT
1 CATCAGTCATCATGTCAGACCTAAAATTCAAAAATAAAAAAT
21990163 CATCAGTCATCATGTCAGACCTAAAATTCAAAAATAAAAAAT
1 CATCAGTCATCATGTCAGACCTAAAATTCAAAAATAAAAAAT
21990205 TAACTCACAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.50, C:0.19, G:0.07, T:0.24
Consensus pattern (42 bp):
CATCAGTCATCATGTCAGACCTAAAATTCAAAAATAAAAAAT
Found at i:21995935 original size:27 final size:27
Alignment explanation
Indices: 21995899--21995983 Score: 69
Period size: 27 Copynumber: 3.4 Consensus size: 27
21995889 ACTCAACTCA
*
21995899 ACGAGTTCGGATGCCTAGTTACATCTC
1 ACGAGCTCGGATGCCTAGTTACATCTC
*
21995926 ACGAGCTCGGA---CTCA---AC-TC-A
1 ACGAGCTCGGATGCCT-AGTTACATCTC
*
21995946 ACGAGTTCGGATGCCTAGTTACATCTC
1 ACGAGCTCGGATGCCTAGTTACATCTC
*
21995973 ACGAACTCGGA
1 ACGAGCTCGGA
21995984 CTCAACTCAA
Statistics
Matches: 43, Mismatches: 6, Indels: 18
0.64 0.09 0.27
Matches are distributed among these distances:
20 10 0.23
21 2 0.05
22 3 0.07
23 2 0.05
24 2 0.05
25 3 0.07
26 2 0.05
27 19 0.44
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (27 bp):
ACGAGCTCGGATGCCTAGTTACATCTC
Found at i:21995945 original size:47 final size:47
Alignment explanation
Indices: 21995881--21996006 Score: 234
Period size: 47 Copynumber: 2.7 Consensus size: 47
21995871 ATCCATAAGT
*
21995881 GAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
*
21995928 GAGCTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
21995975 GAACTCGGACTCAACTCAACGAGTTCGGATGC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGC
21996007 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 76 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:22010953 original size:23 final size:23
Alignment explanation
Indices: 22010927--22010988 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
22010917 AACCCTAAAC
22010927 ATTGTTACATGCGAACT-TTACAT
1 ATTGTTACATGCGAACTCTT-CAT
* *
22010950 ATTGTTATATGTGAA-TGCTTCAT
1 ATTGTTACATGCGAACT-CTTCAT
*
22010973 GTTGTTACATGCGAAC
1 ATTGTTACATGCGAAC
22010989 CTATGTGTCT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
22 1 0.03
23 28 0.90
24 2 0.06
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (23 bp):
ATTGTTACATGCGAACTCTTCAT
Found at i:22011157 original size:29 final size:29
Alignment explanation
Indices: 22011111--22011177 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
22011101 CTTACATTGT
* *
22011111 GAACCCTACTTGTTTGAAATCCTAGGTGC
1 GAACCCTACTTGTATGAAACCCTAGGTGC
* * *
22011140 GAACCCTGCTTGTATGAACCCCTAGGTGT
1 GAACCCTACTTGTATGAAACCCTAGGTGC
*
22011169 GCACCCTAC
1 GAACCCTAC
22011178 CTGAGCGAAC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (29 bp):
GAACCCTACTTGTATGAAACCCTAGGTGC
Found at i:22018089 original size:40 final size:40
Alignment explanation
Indices: 22018045--22018264 Score: 276
Period size: 40 Copynumber: 5.7 Consensus size: 40
22018035 GCTCCTCGTT
* *
22018045 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
22018085 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
22018125 CAAATGCCTTCGGGACTTAACCCGGAT-TAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
22018164 C-AATGCCTTCGGG-CTTAGCCCGGATATA-T--CTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * * *
22018199 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
22018240 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
22018265 CATCATTCAA
Statistics
Matches: 161, Mismatches: 10, Indels: 18
0.85 0.05 0.10
Matches are distributed among these distances:
35 9 0.06
36 9 0.06
37 25 0.16
38 15 0.09
39 12 0.07
40 80 0.50
41 11 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:22018224 original size:114 final size:117
Alignment explanation
Indices: 22018047--22018264 Score: 293
Period size: 114 Copynumber: 1.9 Consensus size: 117
22018037 TCCTCGTTCA
22018047 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
22018112 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTAGTATCTCGCAC
65 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTAGTATCTCGCAC
* * **
22018165 AATGCCTTCGGG-CTTAGCCCGG-ATA-TATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGAT
1 AATGCCTTCGGGACATAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGAT
* * *
22018226 ATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
65 ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
22018265 CATCATTCAA
Statistics
Matches: 89, Mismatches: 9, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
113 3 0.03
114 54 0.61
115 11 0.12
117 9 0.10
118 12 0.13
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (117 bp):
AATGCCTTCGGGACATAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATA
TAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTAGTATCTCGCAC
Found at i:22021656 original size:23 final size:23
Alignment explanation
Indices: 22021589--22021711 Score: 174
Period size: 23 Copynumber: 5.1 Consensus size: 23
22021579 CTAGCCTGCT
*
22021589 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
22021612 TTTTAATAAAACTGGGGGCATAAGCCC
1 -TTTAAT--AACT-GGGGCATAAGCCC
22021639 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
22021662 TTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
22021685 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
22021709 TTT
1 TTT
22021712 TGCATTCCTC
Statistics
Matches: 93, Mismatches: 2, Indels: 9
0.89 0.02 0.09
Matches are distributed among these distances:
23 38 0.41
24 33 0.35
26 10 0.11
27 12 0.13
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:22021694 original size:47 final size:49
Alignment explanation
Indices: 22021587--22021711 Score: 184
Period size: 47 Copynumber: 2.6 Consensus size: 49
22021577 GCCTAGCCTG
*
22021587 CTTTTAATAACTGGGGCAAAAGCCCTTTTAATAAAACTGGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCCC-TTTAAT-AAACTGGGGGCATAAGCC
*
22021638 C-TTTAATAACTGGGGCATAAGCCCTTTGAT-AACT-GGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTAATAAACTGGGGGCATAAGCC
*
22021684 CTTTTGATAACTGGGGCATAAGCCCTTT
1 CTTTTAATAACTGGGGCATAAGCCCTTT
22021712 TGCATTCCTC
Statistics
Matches: 70, Mismatches: 3, Indels: 6
0.89 0.04 0.08
Matches are distributed among these distances:
46 13 0.19
47 29 0.41
49 5 0.07
50 22 0.31
51 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (49 bp):
CTTTTAATAACTGGGGCATAAGCCCTTTAATAAACTGGGGGCATAAGCC
Found at i:22021713 original size:24 final size:24
Alignment explanation
Indices: 22021587--22021712 Score: 184
Period size: 24 Copynumber: 5.2 Consensus size: 24
22021577 GCCTAGCCTG
*
22021587 CTTTTAATAACTGGGGCAAAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
22021611 CTTTTAATAAAACTGGGGGCATAAGCC
1 CTTTTAAT--AACT-GGGGCATAAGCC
22021638 C-TTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
22021661 C-TTTGATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
22021684 CTTTTGATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
22021708 CTTTT
1 CTTTT
22021713 GCATTCCTCC
Statistics
Matches: 96, Mismatches: 2, Indels: 8
0.91 0.02 0.08
Matches are distributed among these distances:
23 35 0.36
24 39 0.41
26 10 0.10
27 12 0.12
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.29
Consensus pattern (24 bp):
CTTTTAATAACTGGGGCATAAGCC
Found at i:22021783 original size:9 final size:9
Alignment explanation
Indices: 22021769--22021825 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
22021759 ATCTCATGTG
22021769 CATATCATA
1 CATATCATA
*
22021778 CATATCATGTG
1 CATATCA--TA
22021789 CATATCATA
1 CATATCATA
* *
22021798 CATGTCATGTG
1 CATATCA--TA
22021809 CATATCATA
1 CATATCATA
22021818 CATATCAT
1 CATATCAT
22021826 GTTTTATCAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:22021785 original size:20 final size:20
Alignment explanation
Indices: 22021757--22021827 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
22021747 GCATTTATGA
*
22021757 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
22021777 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
22021797 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
22021817 ACATATCATGT
1 ACATATCATGT
22021828 TTTATCAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:22021792 original size:11 final size:11
Alignment explanation
Indices: 22021762--22021816 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
22021752 TATGAACATC
22021762 TCATGTGCATA
1 TCATGTGCATA
*
22021773 TCA--TACATA
1 TCATGTGCATA
22021782 TCATGTGCATA
1 TCATGTGCATA
* *
22021793 TCA--TACATG
1 TCATGTGCATA
22021802 TCATGTGCATA
1 TCATGTGCATA
22021813 TCAT
1 TCAT
22021817 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:22081263 original size:24 final size:24
Alignment explanation
Indices: 22081236--22081365 Score: 208
Period size: 24 Copynumber: 5.4 Consensus size: 24
22081226 GGAGGAAGTG
22081236 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
22081260 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
22081284 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
22081308 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
22081331 TAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
22081355 TAAAAGAGGCT
1 CAAAAG-GGCT
22081366 AGGCCTCGAG
Statistics
Matches: 101, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
23 22 0.22
24 75 0.74
25 4 0.04
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:22081336 original size:47 final size:47
Alignment explanation
Indices: 22081236--22081358 Score: 210
Period size: 47 Copynumber: 2.6 Consensus size: 47
22081226 GGAGGAAGTG
*
22081236 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
22081284 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* *
22081331 TAAAAGGGCTTTTGCCCCAGTTATTAAA
1 CAAAAGGGCTTATGCCCCAGTTATTAAA
22081359 AGAGGCTAGG
Statistics
Matches: 72, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
47 48 0.67
48 24 0.33
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (47 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:22081610 original size:31 final size:31
Alignment explanation
Indices: 22081572--22081635 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
22081562 CGTTTACAGT
22081572 AAAGGCTTCAACCCAGTAATATGAAATATGA
1 AAAGGCTTCAACCCAGTAATATGAAATATGA
** ** *
22081603 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCAACCCAGTAATATGAAATATGA
22081634 AA
1 AA
22081636 TATGAAAAGG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCAACCCAGTAATATGAAATATGA
Found at i:22084393 original size:13 final size:13
Alignment explanation
Indices: 22084372--22084411 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
22084362 GAAGTAATCG
22084372 CACACGGGCGTGT
1 CACACGGGCGTGT
*
22084385 CACATGGGCGTGT
1 CACACGGGCGTGT
*
22084398 CACACGGGTGTGT
1 CACACGGGCGTGT
22084411 C
1 C
22084412 CCTACCGAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.15, C:0.28, G:0.38, T:0.20
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:22085419 original size:37 final size:37
Alignment explanation
Indices: 22085360--22085505 Score: 238
Period size: 37 Copynumber: 3.9 Consensus size: 37
22085350 AGCTCAGACG
* *
22085360 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
22085397 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGGCA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
22085434 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* * *
22085471 TACTCTCCACACGTAGTCATCGGGTCTCACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
22085506 ATATATTTCC
Statistics
Matches: 102, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 102 1.00
ACGTcount: A:0.25, C:0.33, G:0.20, T:0.22
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:22085781 original size:94 final size:94
Alignment explanation
Indices: 22085668--22085900 Score: 376
Period size: 94 Copynumber: 2.5 Consensus size: 94
22085658 TTTCACACTA
* * * *
22085668 GCCATTCGGCTTTACCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGCCTTATCAC
1 GCCATTCGGCCTTATCACATATATACATGTTCATATTCACCACATTGGCCATTCAGCCTTATCAC
22085733 ACATATGCATGCTCACATTCATCACATTG
66 ACATATGCATGCTCACATTCATCACATTG
* *
22085762 GCCATTCAGCCTTATCACATATATACATGTTCATATTCACCACATTGGCCATTCAGTCTTATCAC
1 GCCATTCGGCCTTATCACATATATACATGTTCATATTCACCACATTGGCCATTCAGCCTTATCAC
22085827 ACATATGCATGCTCACATTCATCACATTG
66 ACATATGCATGCTCACATTCATCACATTG
** * *
22085856 GCCATTCGGCCTTATCACATATATACACATTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATACATGTTCATATTCACCACAT
22085901 AAAATCCTAA
Statistics
Matches: 128, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
94 128 1.00
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (94 bp):
GCCATTCGGCCTTATCACATATATACATGTTCATATTCACCACATTGGCCATTCAGCCTTATCAC
ACATATGCATGCTCACATTCATCACATTG
Found at i:22085827 original size:22 final size:22
Alignment explanation
Indices: 22085753--22085827 Score: 53
Period size: 22 Copynumber: 3.3 Consensus size: 22
22085743 GCTCACATTC
*
22085753 ATCACATTGGCCATTCAGCCTT
1 ATCACATTGGCCATTCAGTCTT
*** *
22085775 ATCACATATATACATGTTCA-TATT
1 ATCACAT-TGGCCA--TTCAGTCTT
*
22085799 CACCACATTGGCCATTCAGTCTT
1 -ATCACATTGGCCATTCAGTCTT
22085822 ATCACA
1 ATCACA
22085828 CATATGCATG
Statistics
Matches: 37, Mismatches: 11, Indels: 10
0.64 0.19 0.17
Matches are distributed among these distances:
22 16 0.43
23 6 0.16
24 5 0.14
25 10 0.27
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCAGTCTT
Found at i:22085890 original size:47 final size:47
Alignment explanation
Indices: 22085668--22085900 Score: 313
Period size: 47 Copynumber: 5.0 Consensus size: 47
22085658 TTTCACACTA
* * * *
22085668 GCCATTCGGCTTTACCACATATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
22085715 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * * *
22085762 GCCATTCAGCCTTATCACATATATACATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * * *
22085809 GCCATTCAGTCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* **
22085856 GCCATTCGGCCTTATCACATATATACACATTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
22085901 AAAATCCTAA
Statistics
Matches: 161, Mismatches: 25, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 161 1.00
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
Found at i:22095258 original size:39 final size:39
Alignment explanation
Indices: 22095215--22095292 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
22095205 GAGATTTGAA
22095215 TTGAAATAGTTGCTCAGCTATGTCTTGTTCTTAATAGTT
1 TTGAAATAGTTGCTCAGCTATGTCTTGTTCTTAATAGTT
*
22095254 TTGAAATAGTTGCTCAGCTGTGTCTTGTTCTTAATAGTT
1 TTGAAATAGTTGCTCAGCTATGTCTTGTTCTTAATAGTT
22095293 ATTCTATGTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (39 bp):
TTGAAATAGTTGCTCAGCTATGTCTTGTTCTTAATAGTT
Found at i:22103774 original size:40 final size:40
Alignment explanation
Indices: 22103710--22103927 Score: 296
Period size: 40 Copynumber: 5.5 Consensus size: 40
22103700 CGGATGATAA
*
22103710 CCGGGCTAAGTCCCGAAGGTATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* *
22103750 CCGGGCTAAGTCCTGATGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
*
22103790 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* * **
22103830 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTAATATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* * *
22103870 CCGGGCTAAGTCCCAAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATTT
**
22103910 CC-GGCTAAACCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
22103928 TACTTGGTTG
Statistics
Matches: 158, Mismatches: 19, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
39 15 0.09
40 143 0.91
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
Found at i:22111968 original size:40 final size:40
Alignment explanation
Indices: 22111910--22112117 Score: 312
Period size: 40 Copynumber: 5.2 Consensus size: 40
22111900 CGGATGATAA
*
22111910 CCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* *
22111950 TCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
*
22111990 CCGGGCTAAGTCCCGAAGGTATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* **
22112030 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* *
22112070 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATTT
22112110 CC-GGCTAA
1 CCGGGCTAA
22112118 ACCCCAAAGG
Statistics
Matches: 154, Mismatches: 13, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
39 8 0.05
40 146 0.95
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
Found at i:22113982 original size:40 final size:39
Alignment explanation
Indices: 22113922--22114049 Score: 159
Period size: 40 Copynumber: 3.2 Consensus size: 39
22113912 GCAAAAATTT
*
22113922 TAAAATACAGAGCAATGCGGCGTTTTACAAAAAACGCCGC
1 TAAAA-ACAGAGCAAAGCGGCGTTTTACAAAAAACGCCGC
*
22113962 TAAAAACAGAGCAACAGCGGCGTTTTAGTAAAAAACGCCGC
1 TAAAAACAGAGCAA-AGCGGCGTTTTA-CAAAAAACGCCGC
* * *
22114003 TAAAAACAGAGCATTAGCGGCGCTTTTGC-TAAAACGCCGC
1 TAAAAACAGAGCA-AAGCGGCG-TTTTACAAAAAACGCCGC
22114043 TAAAAAC
1 TAAAAAC
22114050 CAGAAGATTA
Statistics
Matches: 78, Mismatches: 6, Indels: 8
0.85 0.07 0.09
Matches are distributed among these distances:
39 9 0.12
40 33 0.42
41 32 0.41
42 4 0.05
ACGTcount: A:0.40, C:0.23, G:0.20, T:0.17
Consensus pattern (39 bp):
TAAAAACAGAGCAAAGCGGCGTTTTACAAAAAACGCCGC
Found at i:22114006 original size:41 final size:40
Alignment explanation
Indices: 22113922--22114088 Score: 182
Period size: 41 Copynumber: 4.1 Consensus size: 40
22113912 GCAAAAATTT
**
22113922 TAAAATACAGAGCAAT-GCGGCG-TTTTACAAAAAACGCCGC
1 TAAAA-ACAGAGCAATAGCGGCGCTTTTA-GTAAAACGCCGC
*
22113962 TAAAAACAGAGCAACAGCGGCG-TTTTAGTAAAAAACGCCGC
1 TAAAAACAGAGCAATAGCGGCGCTTTTAGT--AAAACGCCGC
*
22114003 TAAAAACAGAGCATTAGCGGCGCTTTT-GCTAAAACGCCGC
1 TAAAAACAGAGCAATAGCGGCGCTTTTAG-TAAAACGCCGC
* *
22114043 TAAAAACCAGAAG-ATTAGCGGCGCTTTTGGTAAAACGCCGC
1 TAAAAA-CAG-AGCAATAGCGGCGCTTTTAGTAAAACGCCGC
22114084 TAAAA
1 TAAAA
22114089 GTCATATAAC
Statistics
Matches: 114, Mismatches: 5, Indels: 15
0.85 0.04 0.11
Matches are distributed among these distances:
39 9 0.08
40 32 0.28
41 65 0.57
42 8 0.07
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (40 bp):
TAAAAACAGAGCAATAGCGGCGCTTTTAGTAAAACGCCGC
Found at i:22114078 original size:81 final size:80
Alignment explanation
Indices: 22113922--22114088 Score: 198
Period size: 81 Copynumber: 2.1 Consensus size: 80
22113912 GCAAAAATTT
22113922 TAAAATACAGAGCAATGCGGCGTTTTACAAAAAACGCCGCTAAAAACAGAGCAACAGCGGCGTTT
1 TAAAATACAGAGCAATGCGGCGTTTTACAAAAAACGCCGCTAAAAACAGAGCAACAGCGGCGTTT
22113987 TAGTAAAAAACGCCGC
66 TAGT-AAAAACGCCGC
* * * **
22114003 TAAAA-ACAGAGCATTAGCGGCGCTTTTGC-TAAAACGCCGCTAAAAACCAGAAG-ATTAGCGGC
1 TAAAATACAGAGCAAT-GCGGCG-TTTTACAAAAAACGCCGCTAAAAA-CAG-AGCAACAGCGGC
*
22114065 GCTTTTGGT-AAAACGCCGC
62 G-TTTTAGTAAAAACGCCGC
22114084 TAAAA
1 TAAAA
22114089 GTCATATAAC
Statistics
Matches: 75, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
80 9 0.12
81 42 0.56
82 16 0.21
83 8 0.11
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (80 bp):
TAAAATACAGAGCAATGCGGCGTTTTACAAAAAACGCCGCTAAAAACAGAGCAACAGCGGCGTTT
TAGTAAAAACGCCGC
Found at i:22114267 original size:14 final size:14
Alignment explanation
Indices: 22114245--22114289 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
22114235 TTAATTATCA
*
22114245 TTATAGTTTAAGGT
1 TTATGGTTTAAGGT
*
22114259 TTATGGTTTAAGAT
1 TTATGGTTTAAGGT
* *
22114273 ATATGGTTTAGGGT
1 TTATGGTTTAAGGT
22114287 TTA
1 TTA
22114290 AGCAGGTTTA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (14 bp):
TTATGGTTTAAGGT
Found at i:22114405 original size:14 final size:15
Alignment explanation
Indices: 22114378--22114406 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
22114368 TTTGTGATGA
22114378 ATTATGATTTTAGGG
1 ATTATGATTTTAGGG
22114393 ATTATGA-TTTAGGG
1 ATTATGATTTTAGGG
22114407 TTTAAGGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.45
Consensus pattern (15 bp):
ATTATGATTTTAGGG
Found at i:22115279 original size:16 final size:16
Alignment explanation
Indices: 22115258--22115301 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
22115248 TTCTTTTTTT
22115258 TATAAATTTAAAAAAA
1 TATAAATTTAAAAAAA
* *
22115274 TATAAATTTAAAATAT
1 TATAAATTTAAAAAAA
*
22115290 TATAAATATAAA
1 TATAAATTTAAA
22115302 TTTAAAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
TATAAATTTAAAAAAA
Found at i:22119571 original size:22 final size:23
Alignment explanation
Indices: 22119529--22119571 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
22119519 TTTCAAAAAT
*
22119529 TAAACATAATATAATATTTAACA
1 TAAAAATAATATAATATTTAACA
*
22119552 TAAAAATAA-ATATTATTTAA
1 TAAAAATAATATAATATTTAA
22119572 TTAAAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (23 bp):
TAAAAATAATATAATATTTAACA
Found at i:22119653 original size:43 final size:43
Alignment explanation
Indices: 22119592--22119790 Score: 211
Period size: 43 Copynumber: 4.6 Consensus size: 43
22119582 ATAATTTTTT
* * * *
22119592 TAAAGTTCATGATTTTTAGCGGCGTTTGCAAGAAAAGCGTCGC
1 TAAAGATCATGATCTTTAGCGGCGTTTGTAAGAAAAGCGCCGC
* * *
22119635 TAAAGGTCATGATCTTTAGCGGCATTTGTAGGAAAAGCGCCGC
1 TAAAGATCATGATCTTTAGCGGCGTTTGTAAGAAAAGCGCCGC
* * * * * **
22119678 TAAAGACCAGGACCTTTAGCGTCGTTTTTTGGAAAAGCGCCGC
1 TAAAGATCATGATCTTTAGCGGCGTTTGTAAGAAAAGCGCCGC
* * * * *
22119721 TAAAGACCAGGACCTTTAGCGGCGTTTGTAAAAAAAGTGCCGC
1 TAAAGATCATGATCTTTAGCGGCGTTTGTAAGAAAAGCGCCGC
22119764 TAAATG-TCATGATCTTTAGCGGCGTTT
1 TAAA-GATCATGATCTTTAGCGGCGTTT
22119791 TTTTTAAAAA
Statistics
Matches: 132, Mismatches: 23, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
43 131 0.99
44 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (43 bp):
TAAAGATCATGATCTTTAGCGGCGTTTGTAAGAAAAGCGCCGC
Found at i:22119988 original size:20 final size:20
Alignment explanation
Indices: 22119965--22120026 Score: 88
Period size: 20 Copynumber: 3.1 Consensus size: 20
22119955 TGTTTATATG
*
22119965 GATGAATTACTGTTGATACA
1 GATGAATTACTGTTAATACA
*
22119985 GATGAATTACTGTTAATACT
1 GATGAATTACTGTTAATACA
* *
22120005 GATGAACTACTGTTTATACA
1 GATGAATTACTGTTAATACA
22120025 GA
1 GA
22120027 CGATCTACTG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.35
Consensus pattern (20 bp):
GATGAATTACTGTTAATACA
Found at i:22120034 original size:20 final size:20
Alignment explanation
Indices: 22119972--22120042 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
22119962 ATGGATGAAT
*
22119972 TACTGTTGATACAGATGAAT-
1 TACTGTTTATACAGATG-ATC
* * *
22119992 TACTGTTAATACTGATGAAC
1 TACTGTTTATACAGATGATC
*
22120012 TACTGTTTATACAGACGATC
1 TACTGTTTATACAGATGATC
*
22120032 TACTGGTTATA
1 TACTGTTTATA
22120043 TAAACGAATT
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
19 1 0.02
20 41 0.98
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (20 bp):
TACTGTTTATACAGATGATC
Done.