Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 167 of 333
Found at i:54905969 original size:30 final size:30
Alignment explanation
Indices: 54905935--54905991 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
54905925 CTAACTCAAA
54905935 CTTTGAAAAATTACAATTTTGCCCCTAAAC
1 CTTTGAAAAATTACAATTTTGCCCCTAAAC
* **
54905965 CTTTGCAAAATTATGATTTTGCCCCTA
1 CTTTGAAAAATTACAATTTTGCCCCTA
54905992 GGCTCGGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.32, C:0.23, G:0.09, T:0.37
Consensus pattern (30 bp):
CTTTGAAAAATTACAATTTTGCCCCTAAAC
Found at i:54913410 original size:48 final size:46
Alignment explanation
Indices: 54913290--54913416 Score: 155
Period size: 46 Copynumber: 2.7 Consensus size: 46
54913280 GTGGTATGTG
* *
54913290 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACGAG
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACGAA
* * * *
54913336 AGATAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGGGACATACA
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGAC-GA-A
* *
54913384 AGCTAGTGTAAAACCTGTCTGGGACATGGCATC
1 AGCTAGTGTAAGACATGTCTGGGACAT-GCATC
54913417 AGCTTGTTGT
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
46 39 0.57
47 1 0.01
48 24 0.35
49 5 0.07
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (46 bp):
AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACGAA
Found at i:54914980 original size:28 final size:28
Alignment explanation
Indices: 54914949--54915036 Score: 65
Period size: 28 Copynumber: 3.1 Consensus size: 28
54914939 GATCAAGTCT
54914949 TGGTGACTCGAAAATGATTATATTCATG
1 TGGTGACTCGAAAATGATTATATTCATG
* * ** * * *
54914977 TGGTTAAGTTTTAAAGTTGATCA-AGTC-T-
1 TGG-TGA-CTCGAAA-ATGATTATATTCATG
54915005 TGGTGACTCGAAAATGATTATATTCATG
1 TGGTGACTCGAAAATGATTATATTCATG
54915033 TGGT
1 TGGT
54915037 TAAGTATGGT
Statistics
Matches: 40, Mismatches: 14, Indels: 12
0.61 0.21 0.18
Matches are distributed among these distances:
25 5 0.12
26 7 0.17
27 3 0.08
28 10 0.25
29 3 0.08
30 7 0.17
31 5 0.12
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.39
Consensus pattern (28 bp):
TGGTGACTCGAAAATGATTATATTCATG
Found at i:54915012 original size:56 final size:56
Alignment explanation
Indices: 54914926--54915041 Score: 223
Period size: 56 Copynumber: 2.1 Consensus size: 56
54914916 AAGGTCAGAA
*
54914926 AAGTTTTAATGTTGATCAAGTCTTGGTGACTCGAAAATGATTATATTCATGTGGTT
1 AAGTTTTAAAGTTGATCAAGTCTTGGTGACTCGAAAATGATTATATTCATGTGGTT
54914982 AAGTTTTAAAGTTGATCAAGTCTTGGTGACTCGAAAATGATTATATTCATGTGGTT
1 AAGTTTTAAAGTTGATCAAGTCTTGGTGACTCGAAAATGATTATATTCATGTGGTT
54915038 AAGT
1 AAGT
54915042 ATGGTAATGC
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 59 1.00
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.40
Consensus pattern (56 bp):
AAGTTTTAAAGTTGATCAAGTCTTGGTGACTCGAAAATGATTATATTCATGTGGTT
Found at i:54915231 original size:42 final size:42
Alignment explanation
Indices: 54915172--54915269 Score: 178
Period size: 42 Copynumber: 2.3 Consensus size: 42
54915162 ACAGCCAAAT
*
54915172 CACATGCCCTTGTGCCAGACCGTGTGTCACACATGGTCAAGA
1 CACATGCCCTTGTGCCAGACCATGTGTCACACATGGTCAAGA
54915214 CACATGCCCTTGTGCCAGACCATGTGTCACACATGGTCAAGA
1 CACATGCCCTTGTGCCAGACCATGTGTCACACATGGTCAAGA
*
54915256 CACATGCCCATGTG
1 CACATGCCCTTGTG
54915270 TCTATCCGTG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.24, C:0.32, G:0.22, T:0.21
Consensus pattern (42 bp):
CACATGCCCTTGTGCCAGACCATGTGTCACACATGGTCAAGA
Found at i:54916889 original size:3 final size:3
Alignment explanation
Indices: 54916881--54916912 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
54916871 TCACATATTT
54916881 TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TC
1 TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TC
54916913 TCCATTCCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.66, G:0.00, T:0.34
Consensus pattern (3 bp):
TCC
Found at i:54918036 original size:11 final size:11
Alignment explanation
Indices: 54918020--54918044 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
54918010 TTCAGCTGAT
54918020 GAAAATGAAGA
1 GAAAATGAAGA
54918031 GAAAATGAAGA
1 GAAAATGAAGA
54918042 GAA
1 GAA
54918045 TTTTAGATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.28, T:0.08
Consensus pattern (11 bp):
GAAAATGAAGA
Found at i:54920719 original size:18 final size:19
Alignment explanation
Indices: 54920681--54920719 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
54920671 TGGTTCAAGT
*
54920681 TTTCAATCTCATATCTCAA
1 TTTCAATCTCACATCTCAA
*
54920700 TTTCAAT-TCACATTTCAA
1 TTTCAATCTCACATCTCAA
54920718 TT
1 TT
54920720 CATAATTCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCACATCTCAA
Found at i:54920941 original size:20 final size:21
Alignment explanation
Indices: 54920894--54920979 Score: 77
Period size: 20 Copynumber: 4.1 Consensus size: 21
54920884 CTTGATCAGT
*
54920894 ATACGACACAT-AAGTGCCTG
1 ATACGACACATGAGGTGCCTG
* *
54920914 AAATGACACATGAGGTGCC-G
1 ATACGACACATGAGGTGCCTG
*
54920934 ATACGACACACGAGGTGCCTG
1 ATACGACACATGAGGTGCCTG
* * *
54920955 TAATACGACACTTAAAGTGCCTG
1 --ATACGACACATGAGGTGCCTG
54920978 AT
1 AT
54920980 CGGCAAAGCC
Statistics
Matches: 52, Mismatches: 10, Indels: 7
0.75 0.14 0.10
Matches are distributed among these distances:
20 26 0.50
21 9 0.17
23 17 0.33
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (21 bp):
ATACGACACATGAGGTGCCTG
Found at i:54925348 original size:11 final size:11
Alignment explanation
Indices: 54925332--54925356 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
54925322 TTCAGCTGAT
54925332 GAAAATGAAGA
1 GAAAATGAAGA
54925343 GAAAATGAAGA
1 GAAAATGAAGA
54925354 GAA
1 GAA
54925357 TTCTAGATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.28, T:0.08
Consensus pattern (11 bp):
GAAAATGAAGA
Found at i:54929215 original size:62 final size:62
Alignment explanation
Indices: 54929125--54929250 Score: 252
Period size: 62 Copynumber: 2.0 Consensus size: 62
54929115 TAAGACATAT
54929125 ATTGTTGTCCTTAATGGTGTTTTTTATTTTCATATATTGCTTTTAAATCCAAAACACATAAA
1 ATTGTTGTCCTTAATGGTGTTTTTTATTTTCATATATTGCTTTTAAATCCAAAACACATAAA
54929187 ATTGTTGTCCTTAATGGTGTTTTTTATTTTCATATATTGCTTTTAAATCCAAAACACATAAA
1 ATTGTTGTCCTTAATGGTGTTTTTTATTTTCATATATTGCTTTTAAATCCAAAACACATAAA
54929249 AT
1 AT
54929251 CTATAACTAT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 64 1.00
ACGTcount: A:0.31, C:0.13, G:0.10, T:0.47
Consensus pattern (62 bp):
ATTGTTGTCCTTAATGGTGTTTTTTATTTTCATATATTGCTTTTAAATCCAAAACACATAAA
Found at i:54931561 original size:4 final size:4
Alignment explanation
Indices: 54931552--54931594 Score: 86
Period size: 4 Copynumber: 10.8 Consensus size: 4
54931542 TAATAATGTA
54931552 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
54931595 AAAATCATGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:54944271 original size:43 final size:43
Alignment explanation
Indices: 54944114--54944272 Score: 143
Period size: 43 Copynumber: 3.7 Consensus size: 43
54944104 TATGTGTTCT
* * *
54944114 CGTGTAAGACCACGTCTGGGACGTTAGTATC-A-ACTTATGATTTA
1 CGTGTAAGACCACGTCTGGAACGTTGGCATCGATA-TT-TGA-TTA
* *
54944158 CGTGTAAGACCACGTCTAGG-ACGTTGGCATCG-TATATGATTT
1 CGTGTAAGACCACGTCT-GGAACGTTGGCATCGATATTTGATTA
*
54944200 CGTGTAAGACC-CTGTTTGAGATA-G-TGGCATCGATATTTGATTA
1 CGTGTAAGACCAC-GTCTG-GA-ACGTTGGCATCGATATTTGATTA
*
54944243 CATGTAAGACCACGTCTGGAACGTTGGCAT
1 CGTGTAAGACCACGTCTGGAACGTTGGCAT
54944273 TGTATAAGCT
Statistics
Matches: 95, Mismatches: 9, Indels: 23
0.75 0.07 0.18
Matches are distributed among these distances:
41 3 0.03
42 28 0.29
43 32 0.34
44 29 0.31
45 3 0.03
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGAACGTTGGCATCGATATTTGATTA
Found at i:54944297 original size:28 final size:28
Alignment explanation
Indices: 54944265--54944320 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
54944255 CGTCTGGAAC
54944265 GTTGGCATTGTATAAGCTTTCCGAGCTA
1 GTTGGCATTGTATAAGCTTTCCGAGCTA
*
54944293 GTTGGCATTGTATGAGCTTTCCGAGCTA
1 GTTGGCATTGTATAAGCTTTCCGAGCTA
54944321 TCTGCGTATC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.36
Consensus pattern (28 bp):
GTTGGCATTGTATAAGCTTTCCGAGCTA
Found at i:54945943 original size:37 final size:37
Alignment explanation
Indices: 54945893--54945971 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
54945883 TTATTACGAA
* *
54945893 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
54945930 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
54945967 GTCTT
1 GTCTT
54945972 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:54946168 original size:47 final size:47
Alignment explanation
Indices: 54946090--54946393 Score: 482
Period size: 47 Copynumber: 6.5 Consensus size: 47
54946080 CCCTTCGGGA
* * * * * * *
54946090 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
54946137 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCACTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54946184 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
54946231 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
54946278 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
54946325 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54946372 CTTATCACATATATACACTTTC
1 CTTATCACATATATACACTTTC
54946394 TTGGCTGAAT
Statistics
Matches: 240, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 240 1.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:54955670 original size:48 final size:48
Alignment explanation
Indices: 54955611--54955889 Score: 262
Period size: 48 Copynumber: 5.9 Consensus size: 48
54955601 AGGTTGATGA
* * * *
54955611 GATCCCGTGTAAGACCACATCTGGGATATGGCATCGACATCGATATGT
1 GATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGATATGT
* * *
54955659 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGTTATGT
1 GATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGATATGT
* * * * *
54955707 GATCCCATGTAAAACCATGTTTGGGACATGGCATTGGCATCGATATGA
1 GATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGATATGT
* * * * * * *
54955755 GAACATCGTGTAAGACCATAGT-TGGGCTATCG-ACTTCG-AT--ATGTGT
1 GATC-CCATGTAAGACCATA-TCTGGGATATGGCA-TTGGCATCGATATGT
* * *
54955801 GGTCCCATGTAAGACCATGTCTGGGATATGGCATTGGCATCGATAAGT
1 GATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGATATGT
* * **
54955849 GGTCCCATATAAGACCATATCCAGGATATGGCATTGGCATC
1 GATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATC
54955890 CTACTATGTG
Statistics
Matches: 187, Mismatches: 36, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
44 1 0.01
45 23 0.12
46 9 0.05
48 132 0.71
49 21 0.11
50 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (48 bp):
GATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGATATGT
Found at i:54963478 original size:39 final size:40
Alignment explanation
Indices: 54963321--54963490 Score: 263
Period size: 40 Copynumber: 4.3 Consensus size: 40
54963311 GCTCCTCGTT
* * *
54963321 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
54963361 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
54963401 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
54963441 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
54963480 CAAATGCCTTC
1 CAAATGCCTTC
54963491 AGATCTTAGT
Statistics
Matches: 123, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 33 0.27
40 88 0.72
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:54963505 original size:79 final size:81
Alignment explanation
Indices: 54963321--54963540 Score: 256
Period size: 79 Copynumber: 2.8 Consensus size: 81
54963311 GCTCCTCGTT
* * * * * *
54963321 CAAATGCCTTCGGGACATAGCCCGGTTA-TAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGAGACTTAACCCGGATATTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
*
54963385 GATTTAGTAACTCGCA
66 GAATTAGTAACTCGCA
*
54963401 CAAATGCCTTCGGGACTTAACCCGGAT-TTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCG
1 CAAATGCCTTCGAGACTTAACCCGGATATTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
*
54963464 GAATTAGTATCTCGCA
66 GAATTAGTAACTCGCA
** * *
54963480 CAAATGCCTTC-AGATCTTAGTCCGGATATT-GTCACTTAGCAC-AA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGAGA-CTTAACCCGGATATTAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCC
54963541 TGGACAGCAT
Statistics
Matches: 123, Mismatches: 12, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
78 11 0.09
79 56 0.46
80 56 0.46
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGAGACTTAACCCGGATATTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
GAATTAGTAACTCGCA
Found at i:54964640 original size:13 final size:13
Alignment explanation
Indices: 54964622--54964646 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
54964612 AGGATGAGCA
54964622 TTTTTTTTCTTTG
1 TTTTTTTTCTTTG
54964635 TTTTTTTTCTTT
1 TTTTTTTTCTTT
54964647 CTAGTTTCGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.08, G:0.04, T:0.88
Consensus pattern (13 bp):
TTTTTTTTCTTTG
Found at i:54971326 original size:40 final size:40
Alignment explanation
Indices: 54971282--54971501 Score: 244
Period size: 40 Copynumber: 5.7 Consensus size: 40
54971272 GCTCCTCGTT
* *
54971282 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAATTCGCA
* * *
54971322 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAATTCGCA
*
54971362 CAAATGCCTTCGGG-CTTA-CCCGGAT-TAGT-ACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAATTCGCA
54971398 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAAT-TCGCA
* * * *
54971437 CAAATGCCTTC-GGATCTTAGTCCGGATATTGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGT-AATTCGCA
54971478 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
54971502 CATCATTCAA
Statistics
Matches: 159, Mismatches: 11, Indels: 21
0.83 0.06 0.11
Matches are distributed among these distances:
36 25 0.16
37 10 0.06
38 14 0.09
39 36 0.23
40 67 0.42
41 6 0.04
42 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAATTCGCA
Found at i:54993230 original size:12 final size:12
Alignment explanation
Indices: 54993213--54993239 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
54993203 CAATTTCACA
54993213 GAATGATTTCCT
1 GAATGATTTCCT
54993225 GAATGATTTCCT
1 GAATGATTTCCT
54993237 GAA
1 GAA
54993240 AATTTCGTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.37
Consensus pattern (12 bp):
GAATGATTTCCT
Found at i:54994389 original size:50 final size:50
Alignment explanation
Indices: 54994330--54994571 Score: 258
Period size: 50 Copynumber: 4.9 Consensus size: 50
54994320 CATTTGGGTA
*
54994330 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* *
54994380 AAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* ** * * * *
54994430 GAGAGGTCCCCCGTAAGACCATGTTTGGGACATGGCATGGGCACCAATAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* ** * * * *
54994480 GAGAACTCCCATGTAAGACCATATCTGGAATATGGCATTGGCCATAC-AGGA-
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGG-CA-CCGA-GAT
* *
54994531 AACA--TCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
54994572 TGTTATTATC
Statistics
Matches: 164, Mismatches: 25, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
48 2 0.01
49 31 0.19
50 124 0.76
51 5 0.03
52 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.21
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
Found at i:54997094 original size:84 final size:84
Alignment explanation
Indices: 54996950--54997130 Score: 290
Period size: 84 Copynumber: 2.2 Consensus size: 84
54996940 CGAATAGTTT
* * *
54996950 ATTTTCATTTCCAGGCTTCAAATTAGTCCAAAAACATAAACTTATTCTTCCAATCTGTTTTAAGT
1 ATTTTCATTTCCAAGCTTCAAAATAGTCCAAAAACATAAACTTATTCTTCCAATCAGTTTTAAGT
*
54997015 AATCTATATAAGATTGCAA
66 AATCCATATAAGATTGCAA
* * *
54997034 ATTTTCATTTTCAAGCTTCAAAATAGTCCAAAAATATAAACTTATTCTTCCCATCAGTTTTAAGT
1 ATTTTCATTTCCAAGCTTCAAAATAGTCCAAAAACATAAACTTATTCTTCCAATCAGTTTTAAGT
*
54997099 AATCCATATAGGATTGCAA
66 AATCCATATAAGATTGCAA
54997118 ATTTTCATTTCCA
1 ATTTTCATTTCCA
54997131 TTTCTATTTT
Statistics
Matches: 88, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
84 88 1.00
ACGTcount: A:0.35, C:0.18, G:0.08, T:0.39
Consensus pattern (84 bp):
ATTTTCATTTCCAAGCTTCAAAATAGTCCAAAAACATAAACTTATTCTTCCAATCAGTTTTAAGT
AATCCATATAAGATTGCAA
Found at i:55003271 original size:24 final size:25
Alignment explanation
Indices: 55003230--55003277 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
55003220 TCATAATTTG
55003230 TTCTTCAAAATCTCCTTGATCCTTA
1 TTCTTCAAAATCTCCTTGATCCTTA
*
55003255 TTCTTC-AAATCTTCTTGATCCTT
1 TTCTTCAAAATCTCCTTGATCCTT
55003278 TTTTGGATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 16 0.73
25 6 0.27
ACGTcount: A:0.21, C:0.27, G:0.04, T:0.48
Consensus pattern (25 bp):
TTCTTCAAAATCTCCTTGATCCTTA
Found at i:55008361 original size:40 final size:37
Alignment explanation
Indices: 55008317--55008483 Score: 210
Period size: 40 Copynumber: 4.3 Consensus size: 37
55008307 GCTCCTCGTT
* *
55008317 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGTT-TAGT-ACTCGCA
*
55008357 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGG-TTTAGT-ACTCGCA
*
55008397 CAAATGCCTTCGGGCTTA-CCCGGATTAGTACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGTTTAGTACTCGCA
*
55008433 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGG-TTTAGTA-CTCGCA
55008472 CAAATGCCTTCG
1 CAAATGCCTTCG
55008484 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 4, Indels: 9
0.90 0.03 0.07
Matches are distributed among these distances:
36 25 0.21
37 10 0.08
38 12 0.10
39 22 0.18
40 48 0.40
41 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (37 bp):
CAAATGCCTTCGGGCTTAGCCCGGTTTAGTACTCGCA
Found at i:55008472 original size:75 final size:80
Alignment explanation
Indices: 55008317--55008483 Score: 245
Period size: 75 Copynumber: 2.1 Consensus size: 80
55008307 GCTCCTCGTT
* *
55008317 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
*
55008382 ATTTAGTAACTCGCA
66 AATTAGTAACTCGCA
* *
55008397 CAAATGCCTTCGGG-CTTA-CCCGGAT-TAGT-ACTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
*
55008457 AATTAGTATCTCGCA
66 AATTAGTAACTCGCA
55008472 CAAATGCCTTCG
1 CAAATGCCTTCG
55008484 ATCTTAGTCC
Statistics
Matches: 81, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
75 34 0.42
76 20 0.25
77 4 0.05
78 6 0.07
79 3 0.04
80 14 0.17
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
AATTAGTAACTCGCA
Found at i:55009629 original size:13 final size:13
Alignment explanation
Indices: 55009611--55009635 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55009601 GGATGAGCAT
55009611 TTTTTTTTCTTTG
1 TTTTTTTTCTTTG
55009624 TTTTTTTTCTTT
1 TTTTTTTTCTTT
55009636 CTAGTTTCGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.08, G:0.04, T:0.88
Consensus pattern (13 bp):
TTTTTTTTCTTTG
Found at i:55016396 original size:39 final size:40
Alignment explanation
Indices: 55016279--55016458 Score: 187
Period size: 40 Copynumber: 4.5 Consensus size: 40
55016269 GCTCCTCGTT
*
55016279 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGT-ATCTCGCA
* *
55016319 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
*
55016359 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
* * *
55016398 CAAATGCCTTC-AGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGT-ATC-TCGCA
55016439 C-AA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGACTTAGCC
55016459 TGGACAGCAT
Statistics
Matches: 120, Mismatches: 12, Indels: 17
0.81 0.08 0.11
Matches are distributed among these distances:
38 1 0.01
39 46 0.38
40 63 0.52
41 10 0.08
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
Found at i:55016423 original size:79 final size:81
Alignment explanation
Indices: 55016279--55016458 Score: 205
Period size: 79 Copynumber: 2.3 Consensus size: 81
55016269 GCTCCTCGTT
* * *
55016279 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAATTCGCACAAATGCCTTCGAGACTTAACCCGG
*
55016344 AT-TTAGTAAC-TCGCA
66 ATATT-GTAACTTAGCA
**
55016359 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGT-ATCTCGCACAAATGCCTTC-AGATCTTAGTC
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAAT-TCGCACAAATGCCTTCGAGA-CTTAACC
*
55016420 CGGATATTGTCACTTAGCA
63 CGGATATTGTAACTTAGCA
55016439 C-AA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGACTTAGCC
55016459 TGGACAGCAT
Statistics
Matches: 87, Mismatches: 7, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
78 14 0.16
79 52 0.60
80 21 0.24
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAATTCGCACAAATGCCTTCGAGACTTAACCCGG
ATATTGTAACTTAGCA
Found at i:55017558 original size:14 final size:14
Alignment explanation
Indices: 55017539--55017565 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
55017529 AGGATGAGCA
55017539 TTTTTTTTTCTTTG
1 TTTTTTTTTCTTTG
55017553 TTTTTTTTTCTTT
1 TTTTTTTTTCTTT
55017566 CTAGTTTCGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.07, G:0.04, T:0.89
Consensus pattern (14 bp):
TTTTTTTTTCTTTG
Found at i:55024824 original size:27 final size:28
Alignment explanation
Indices: 55024794--55024850 Score: 64
Period size: 29 Copynumber: 2.0 Consensus size: 28
55024784 ATTTTTGATG
55024794 AAATAAGCTATTTG-GG-CTAATTTGTGA
1 AAATAAGCT-TTTGAGGACTAATTTGTGA
* *
55024821 AAATGAGGTTTTGAAGGACTAATTTGTGA
1 AAATAAGCTTTTG-AGGACTAATTTGTGA
55024850 A
1 A
55024851 TTTAACATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
26 4 0.16
27 7 0.28
28 2 0.08
29 12 0.48
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.35
Consensus pattern (28 bp):
AAATAAGCTTTTGAGGACTAATTTGTGA
Found at i:55025891 original size:12 final size:13
Alignment explanation
Indices: 55025874--55025905 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
55025864 GCAAATGTTA
55025874 AGTTTTG-TGCAT
1 AGTTTTGATGCAT
55025886 AGTTTTGATGCAT
1 AGTTTTGATGCAT
55025899 -GTTTTGA
1 AGTTTTGA
55025906 AATGTGCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.19, C:0.06, G:0.25, T:0.50
Consensus pattern (13 bp):
AGTTTTGATGCAT
Found at i:55030585 original size:20 final size:20
Alignment explanation
Indices: 55030560--55030671 Score: 208
Period size: 20 Copynumber: 5.6 Consensus size: 20
55030550 GAGACAATGC
55030560 ACACGCCCGTGTGCTTTAGG
1 ACACGCCCGTGTGCTTTAGG
55030580 ACACGCCCGTGTGCTTTAGG
1 ACACGCCCGTGTGCTTTAGG
55030600 ACACGCCCGTGTGCTTTAGG
1 ACACGCCCGTGTGCTTTAGG
55030620 ACACGCCCGTGTGCTTTAGG
1 ACACGCCCGTGTGCTTTAGG
55030640 ACACGCCCGTGTGCTTT-GTG
1 ACACGCCCGTGTGCTTTAG-G
55030660 ACACGCCCGTGT
1 ACACGCCCGTGT
55030672 CCCCTACCCG
Statistics
Matches: 91, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
19 1 0.01
20 90 0.99
ACGTcount: A:0.14, C:0.31, G:0.29, T:0.25
Consensus pattern (20 bp):
ACACGCCCGTGTGCTTTAGG
Found at i:55034281 original size:20 final size:20
Alignment explanation
Indices: 55034258--55034306 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
55034248 AATCAAGTGC
55034258 AAATGATTTTAACCAAGTCA
1 AAATGATTTTAACCAAGTCA
55034278 AAATGATTTTAACCAAGTCA
1 AAATGATTTTAACCAAGTCA
55034298 AAATGATTT
1 AAATGATTT
55034307 CAGTCAAGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (20 bp):
AAATGATTTTAACCAAGTCA
Found at i:55053770 original size:24 final size:24
Alignment explanation
Indices: 55053743--55053796 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
55053733 ATATATCACA
*
55053743 ATTATAAA-ATTACATAATATAAAT
1 ATTATAAACATT-CATAAAATAAAT
*
55053767 ATTATAAACATTTATAAAATAAAT
1 ATTATAAACATTCATAAAATAAAT
55053791 A-TATAA
1 ATTATAA
55053797 TGAGATAGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 5 0.19
24 19 0.70
25 3 0.11
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (24 bp):
ATTATAAACATTCATAAAATAAAT
Found at i:55060004 original size:3 final size:3
Alignment explanation
Indices: 55059996--55060037 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
55059986 CAAAAGTCAA
55059996 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
55060038 GGAAGAGCGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:55061708 original size:6 final size:6
Alignment explanation
Indices: 55061684--55061745 Score: 51
Period size: 6 Copynumber: 10.3 Consensus size: 6
55061674 CTACAAGATA
*
55061684 AATATT AA-ATTT AAT-TT AATATT AAGA-T AATCACTTT AATATT AA-ATT
1 AATATT AATA-TT AATATT AATATT AATATT AAT-A--TT AATATT AATATT
55061732 AATATT AATATT AA
1 AATATT AATATT AA
55061746 ATCTATTAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 16
0.72 0.03 0.25
Matches are distributed among these distances:
5 14 0.30
6 27 0.59
8 1 0.02
9 4 0.09
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (6 bp):
AATATT
Found at i:55061708 original size:11 final size:12
Alignment explanation
Indices: 55061684--55061745 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 12
55061674 CTACAAGATA
55061684 AATATTAA-ATTT
1 AATATTAATA-TT
55061696 AAT-TTAATATT
1 AATATTAATATT
*
55061707 AAGA-TAATCACTTT
1 AATATTAAT-A--TT
55061721 AATATTAA-ATT
1 AATATTAATATT
55061732 AATATTAATATT
1 AATATTAATATT
55061744 AA
1 AA
55061746 ATCTATTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 14
0.72 0.04 0.25
Matches are distributed among these distances:
11 22 0.54
12 10 0.24
13 1 0.02
14 5 0.12
15 3 0.07
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (12 bp):
AATATTAATATT
Found at i:55061734 original size:20 final size:18
Alignment explanation
Indices: 55061684--55061747 Score: 71
Period size: 17 Copynumber: 3.6 Consensus size: 18
55061674 CTACAAGATA
*
55061684 AATATTAAATTTA-ATTT
1 AATATTAAATTAATATTT
55061701 AATATTAAGA-TAATCACTTT
1 AATATTAA-ATTAAT-A-TTT
55061721 AATATTAAATTAATA-TT
1 AATATTAAATTAATATTT
55061738 AATATTAAAT
1 AATATTAAAT
55061748 CTATTAAAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
17 22 0.54
18 1 0.02
19 3 0.07
20 15 0.37
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:55067069 original size:16 final size:18
Alignment explanation
Indices: 55067042--55067074 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
55067032 TAGAATCGAG
55067042 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
55067059 TTGAG-AAATTAATTTA
1 TTGAGAAAATTAATTTA
55067075 TTTATTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:55067455 original size:20 final size:20
Alignment explanation
Indices: 55067427--55067466 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
55067417 TGAGATTTAA
*
55067427 TTTCTGAGTATAAATTATAT
1 TTTCCGAGTATAAATTATAT
55067447 TTTCCGAGTATAAATTATAT
1 TTTCCGAGTATAAATTATAT
55067467 ATTCTGAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.35, C:0.07, G:0.10, T:0.47
Consensus pattern (20 bp):
TTTCCGAGTATAAATTATAT
Found at i:55069565 original size:48 final size:48
Alignment explanation
Indices: 55069541--55069715 Score: 269
Period size: 48 Copynumber: 3.6 Consensus size: 48
55069531 TATGTCAATG
* *
55069541 CCGATGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCAACA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAACA
* *
55069589 CCGATGCCATGTTCCAGACATGGTCTTACACTAGCTCACATATCAACG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAACA
* * *
55069637 CCGATGCCATGTCCCAGACATGGTCTTACATTGGCTTACATATCAACA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAACA
* *
55069685 TCGATGCCATGTCCCAAACATGGTCTTACAC
1 CCGATGCCATGTCCCAGACATGGTCTTACAC
55069716 GCGATCTCAT
Statistics
Matches: 115, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 115 1.00
ACGTcount: A:0.29, C:0.31, G:0.15, T:0.25
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAACA
Found at i:55069640 original size:96 final size:96
Alignment explanation
Indices: 55069494--55069715 Score: 284
Period size: 96 Copynumber: 2.3 Consensus size: 96
55069484 ATCCACATAT
* * * ** * *
55069494 CGATGCCATATTCCAGATATGGTCTTATACAAAGTCTTATGTCAATGCCGATGCCATGTCCCAAA
1 CGATGCCATGTTCCAGACATGGTCTTACACAAAGTCACATATCAACGCCGATGCCATGTCCCAAA
55069559 CATGGTCTTACACTAGCACACATATCAACAC
66 CATGGTCTTACACTAGCACACATATCAACAC
* *
55069590 CGATGCCATGTTCCAGACATGGTCTTACAC-TAGCTCACATATCAACGCCGATGCCATGTCCCAG
1 CGATGCCATGTTCCAGACATGGTCTTACACAAAG-TCACATATCAACGCCGATGCCATGTCCCAA
* * ** *
55069654 ACATGGTCTTACATTGGCTTACATATCAACAT
65 ACATGGTCTTACACTAGCACACATATCAACAC
* *
55069686 CGATGCCATGTCCCAAACATGGTCTTACAC
1 CGATGCCATGTTCCAGACATGGTCTTACAC
55069716 GCGATCTCAT
Statistics
Matches: 109, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
95 2 0.02
96 107 0.98
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.27
Consensus pattern (96 bp):
CGATGCCATGTTCCAGACATGGTCTTACACAAAGTCACATATCAACGCCGATGCCATGTCCCAAA
CATGGTCTTACACTAGCACACATATCAACAC
Found at i:55071415 original size:15 final size:15
Alignment explanation
Indices: 55071395--55071427 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
55071385 TTTAAAACAT
*
55071395 AAATTGACTTGGCCC
1 AAATTGACTTGACCC
55071410 AAATTGACTTGACCC
1 AAATTGACTTGACCC
55071425 AAA
1 AAA
55071428 ACCAACCCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.24
Consensus pattern (15 bp):
AAATTGACTTGACCC
Found at i:55095269 original size:58 final size:57
Alignment explanation
Indices: 55095187--55095320 Score: 137
Period size: 57 Copynumber: 2.3 Consensus size: 57
55095177 CTCATTATAG
* ** * * *
55095187 AAAGGATTTAGCCCGGACGGGTAATTCTGATGTAATCCC-TCTCGAGCATATGTTACA-
1 AAAGGATTTAGCCTGGACTAGTAATCCTAAT-TAAGCCCTTCT-GAGCATATGTTACAT
* * * *
55095244 ATTAGGGTTTAGCCTGGACTAGTAATCCTAATTGAGCTCTTCTGAGCATATGTTACAT
1 A-AAGGATTTAGCCTGGACTAGTAATCCTAATTAAGCCCTTCTGAGCATATGTTACAT
55095302 AAAGGATTTAGCCTGGACT
1 AAAGGATTTAGCCTGGACT
55095321 GTTAATCTTG
Statistics
Matches: 62, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
57 35 0.56
58 27 0.44
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (57 bp):
AAAGGATTTAGCCTGGACTAGTAATCCTAATTAAGCCCTTCTGAGCATATGTTACAT
Found at i:55099160 original size:40 final size:40
Alignment explanation
Indices: 55099076--55099259 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
55099066 TTGAATGCTG
* * * *
55099076 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
**
55099115 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
55099156 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
55099196 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
55099236 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
55099260 GTATGAGTTA
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 2 0.02
40 113 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:55099213 original size:80 final size:81
Alignment explanation
Indices: 55099076--55099256 Score: 230
Period size: 80 Copynumber: 2.3 Consensus size: 81
55099066 TTGAATGCTG
* *
55099076 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
55099140 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
55099156 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
55099217 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
55099236 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
55099257 ATTGTATGAG
Statistics
Matches: 90, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
79 4 0.04
80 77 0.86
81 9 0.10
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:55107017 original size:40 final size:40
Alignment explanation
Indices: 55106933--55107116 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
55106923 TTGAATGCTG
* * * *
55106933 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
**
55106972 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
55107013 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
55107053 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
55107093 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
55107117 GTATGAGTTA
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 2 0.02
40 113 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:55107070 original size:80 final size:81
Alignment explanation
Indices: 55106933--55107113 Score: 230
Period size: 80 Copynumber: 2.3 Consensus size: 81
55106923 TTGAATGCTG
* *
55106933 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
55106997 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
55107013 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
55107074 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
55107093 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
55107114 ATTGTATGAG
Statistics
Matches: 90, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
79 4 0.04
80 77 0.86
81 9 0.10
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:55111413 original size:3 final size:3
Alignment explanation
Indices: 55111407--55111442 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
55111397 CTTTGTTGTT
55111407 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
55111443 ATTGCACTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:55112703 original size:16 final size:18
Alignment explanation
Indices: 55112678--55112714 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
55112668 TTAACTATTC
55112678 TTTTAGTTTTTA-GTTTT
1 TTTTAGTTTTTACGTTTT
55112695 TTTTA-TTTTTACGTTTT
1 TTTTAGTTTTTACGTTTT
55112712 TTT
1 TTT
55112715 ATTAAATCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.11, C:0.03, G:0.08, T:0.78
Consensus pattern (18 bp):
TTTTAGTTTTTACGTTTT
Found at i:55112865 original size:9 final size:9
Alignment explanation
Indices: 55112828--55112865 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
55112818 TTAATTTTTT
*
55112828 AAAATTTTA
1 AAAATTTAA
55112837 AAAATTTAA
1 AAAATTTAA
55112846 AAAATTTAA
1 AAAATTTAA
*
55112855 AAAATTCAA
1 AAAATTTAA
55112864 AA
1 AA
55112866 TCATTAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (9 bp):
AAAATTTAA
Found at i:55114009 original size:21 final size:21
Alignment explanation
Indices: 55113983--55114034 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
55113973 AATAGCGGTG
*
55113983 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGGTACTGTA
* *
55114004 GCGGTGAGATTGGGTATTGTA
1 GCGGTGAGATTAGGTACTGTA
*
55114025 GCAGTGAGAT
1 GCGGTGAGAT
55114035 AAGAAACAGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.23, C:0.08, G:0.38, T:0.31
Consensus pattern (21 bp):
GCGGTGAGATTAGGTACTGTA
Found at i:55114173 original size:19 final size:18
Alignment explanation
Indices: 55114149--55114204 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 18
55114139 TAGAAATTTT
55114149 TAAAATTATTTAACAATTA
1 TAAAATTA-TTAACAATTA
*
55114168 TAAAATTAATAA-ATGATTA
1 TAAAATTATTAACA--ATTA
55114187 -AAAATTATT-ACAATTA
1 TAAAATTATTAACAATTA
55114203 TA
1 TA
55114205 TTTATTTTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
16 4 0.13
17 3 0.10
18 12 0.39
19 12 0.39
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (18 bp):
TAAAATTATTAACAATTA
Found at i:55119017 original size:15 final size:15
Alignment explanation
Indices: 55118997--55119027 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
55118987 TCGTCTTTAC
55118997 ATGATTTTGATATAA
1 ATGATTTTGATATAA
55119012 ATGATTTTGATATAA
1 ATGATTTTGATATAA
55119027 A
1 A
55119028 AAATCGATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (15 bp):
ATGATTTTGATATAA
Found at i:55120291 original size:131 final size:132
Alignment explanation
Indices: 55120151--55120398 Score: 313
Period size: 131 Copynumber: 1.9 Consensus size: 132
55120141 TTTTAAGAAG
* * * * * *
55120151 CATGAGTGAAATTCTAAGGGGGATATTCAATTATTTTGAATC-AAC-AGGAAATCGCAACCCAGC
1 CATGAGTGAAATTCCAA-AGGAACATTCAATTATTTT-AAGCAAACGAGAAAATCGCAACCCAGC
* * *
55120214 ACGATAGGGCATGA-TTCCCGAATTGCCAAATATCGAACATTACCTTCGTTTTATAGAATCTTTA
64 ACGATAGGGCACGATTTCCCGAATTACCAAATATCGAACATCACCTTCGTTTTATAGAATCTTTA
55120278 AAGA
129 AAGA
* ** *
55120282 CATGGGTGAAATTCCAAAGGAACATTTGATTATTTTAAGCAAACGAGAAAATGGCAACCCAGCAC
1 CATGAGTGAAATTCCAAAGGAACATTCAATTATTTTAAGCAAACGAGAAAATCGCAACCCAGCAC
* * *
55120347 GTTAGGGCACGATTTCGCGAATTACCAAATATCGAACATCGCCTTCGTTTTA
66 GATAGGGCACGATTTCCCGAATTACCAAATATCGAACATCACCTTCGTTTTA
55120399 AAGGATTTTT
Statistics
Matches: 98, Mismatches: 16, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
129 3 0.03
130 17 0.17
131 43 0.44
132 35 0.36
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (132 bp):
CATGAGTGAAATTCCAAAGGAACATTCAATTATTTTAAGCAAACGAGAAAATCGCAACCCAGCAC
GATAGGGCACGATTTCCCGAATTACCAAATATCGAACATCACCTTCGTTTTATAGAATCTTTAAA
GA
Found at i:55132271 original size:46 final size:45
Alignment explanation
Indices: 55132206--55132372 Score: 158
Period size: 45 Copynumber: 3.6 Consensus size: 45
55132196 TTACCGATGT
* * *
55132206 CATGTCCCAGACATGGTCTTACACTAGCTCTC-GTCTCAATGTCGAGGC
1 CATGT-CCA-ACATGGTCTTACACTGGCTCTCAG--TCAACGCCGAGGC
* * *
55132254 CATGTCCAATATGGTCTTACACTGGCTCACAGTCAACGCCGATGC
1 CATGTCCAACATGGTCTTACACTGGCTCTCAGTCAACGCCGAGGC
* * * *
55132299 CATGTCTAACATGGTCTTACACTGGCTCTCA-TAATATAGCCGATGC
1 CATGTCCAACATGGTCTTACACTGGCTCTCAGTCA-A-CGCCGAGGC
55132345 CATGTTCCAAACATGGTCTTACACTGGC
1 CATG-TCC-AACATGGTCTTACACTGGC
55132373 ATACGAAATG
Statistics
Matches: 102, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
44 2 0.02
45 39 0.38
46 31 0.30
47 6 0.06
48 24 0.24
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (45 bp):
CATGTCCAACATGGTCTTACACTGGCTCTCAGTCAACGCCGAGGC
Found at i:55132392 original size:48 final size:48
Alignment explanation
Indices: 55132252--55132422 Score: 133
Period size: 48 Copynumber: 3.7 Consensus size: 48
55132242 CAATGTCGAG
* * * * *
55132252 GCCATG-TCC-AATATGGTCTTACACTGGCTCACAGTCA-A-CGCCGAT
1 GCCATGTTCCAAACATGGTCTTACACTGGCTCTCA-TAATATAGCAGAT
* *
55132297 GCCATG-T-CTAACATGGTCTTACACTGGCTCTCATAATATAGCCGAT
1 GCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAATATAGCAGAT
* * *
55132343 GCCATGTTCCAAACATGGTCTTACACTGGCATAC-GA-AATGTGGCAGAT
1 GCCATGTTCCAAACATGGTCTTACACTGGC-T-CTCATAATATAGCAGAT
* * * *
55132391 GCCATGTCCCAGACATGGTCTTATACTAGCTC
1 GCCATGTTCCAAACATGGTCTTACACTGGCTC
55132423 AAATGTTACC
Statistics
Matches: 106, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
44 3 0.03
45 30 0.28
46 13 0.12
47 2 0.02
48 55 0.52
49 2 0.02
50 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (48 bp):
GCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAATATAGCAGAT
Found at i:55137913 original size:49 final size:50
Alignment explanation
Indices: 55137831--55138063 Score: 272
Period size: 49 Copynumber: 4.7 Consensus size: 50
55137821 ATCTATTGTG
*
55137831 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* ** * * * *
55137881 -GGTCGCATGTGTAGTACTAAGTATAGGTTACTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT
* * * * * * * **
55137931 CGATAACGTGTGTAGTACTAAATGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
*
55137981 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
*
55138031 -GGTCACATGTGTAGTACTAAGTGCAGGTTACTA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
55138064 TGCGTACTAG
Statistics
Matches: 149, Mismatches: 32, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
49 70 0.47
50 46 0.31
51 33 0.22
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.30
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:55141600 original size:18 final size:20
Alignment explanation
Indices: 55141577--55141619 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
55141567 GTGGGCAGGT
55141577 CGTGTGG-TCA-CACACGCC
1 CGTGTGGCTCAGCACACGCC
*
55141595 CGTGTGGCTCAGGACACGCC
1 CGTGTGGCTCAGCACACGCC
55141615 CGTGT
1 CGTGT
55141620 TCTCCACCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.32
19 3 0.14
20 12 0.55
ACGTcount: A:0.14, C:0.35, G:0.33, T:0.19
Consensus pattern (20 bp):
CGTGTGGCTCAGCACACGCC
Found at i:55143764 original size:48 final size:48
Alignment explanation
Indices: 55143529--55143751 Score: 338
Period size: 48 Copynumber: 4.6 Consensus size: 48
55143519 ACAATACATC
* *
55143529 ATGCCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCATATAACG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACG
* *
55143577 ATGCCGATGCCATATCCCAGACATGGTCTTACACTAGCTCACATAACG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACG
* * * *
55143625 ATGCCGATGCCATATCCCAAACATGATCTTACACTGGCTCACATAACA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACG
*
55143673 ATGCCGATGCCATGTCCCAGACATGGTCTTATACTGGCTCACATAACG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACG
* * *
55143721 ATGCCAATGCCATGCCCCAAACATGGTCTTA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTA
55143752 TACAGGATCA
Statistics
Matches: 159, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 159 1.00
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (48 bp):
ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACG
Found at i:55156683 original size:27 final size:27
Alignment explanation
Indices: 55156651--55156742 Score: 105
Period size: 27 Copynumber: 3.4 Consensus size: 27
55156641 CGAAAAAATA
* *
55156651 GTCATTTTACCCTA-TAGGGCTATGTCG
1 GTCATTTTACACTACAAGGG-TATGTCG
*
55156678 GTCATTTTACACTACAAGGGTATTTCG
1 GTCATTTTACACTACAAGGGTATGTCG
* *
55156705 GTAATTTTACACTACAAGGGTATTTCG
1 GTCATTTTACACTACAAGGGTATGTCG
* *
55156732 ATAATTTTACA
1 GTCATTTTACA
55156743 AATTGAGGGT
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 55 0.93
28 4 0.07
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.38
Consensus pattern (27 bp):
GTCATTTTACACTACAAGGGTATGTCG
Found at i:55156751 original size:27 final size:27
Alignment explanation
Indices: 55156694--55156846 Score: 120
Period size: 27 Copynumber: 5.7 Consensus size: 27
55156684 TTACACTACA
* * **
55156694 AGGGTATTTCGGTAATTTTAC-ACTACA
1 AGGGTATTTCGATAATTTTACAAAT-TG
55156721 AGGGTATTTCGATAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATTG
*
55156748 AGGGTATTTC-AGTAATTTTATAAATTG
1 AGGGTATTTCGA-TAATTTTACAAATTG
* **
55156775 AGGGTATTTTTG-TAATTTTACAAGCT-
1 AGGGTA-TTTCGATAATTTTACAAATTG
*
55156801 AGGGGTACTTCGATAATTTTAC-AATTCG
1 A-GGGTATTTCGATAATTTTACAAATT-G
*
55156829 -GAGGTATTTCGGTAATTT
1 AG-GGTATTTCGATAATTT
55156847 CACTTTATTA
Statistics
Matches: 102, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
26 8 0.08
27 89 0.87
28 5 0.05
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.41
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTACAAATTG
Found at i:55156790 original size:81 final size:81
Alignment explanation
Indices: 55156694--55156846 Score: 197
Period size: 81 Copynumber: 1.9 Consensus size: 81
55156684 TTACACTACA
*
55156694 AGGGTATTTCGGTAATTTTAC-A-CTACAAGGGTATTTCGATAATTTTACAAATT--GAGGGTAT
1 AGGGTATTTCGGTAATTTTACAAGCT--AAGGGTACTTCGATAATTTTAC-AATTCGGA-GGTAT
55156755 TTCAGTAATTTTATAAATTG
62 TTCAGTAATTTTATAAATTG
** * *
55156775 AGGGTATTTTTGTAATTTTACAAGCTAGGGGTACTTCGATAATTTTACAATTCGGAGGTATTTCG
1 AGGGTATTTCGGTAATTTTACAAGCTAAGGGTACTTCGATAATTTTACAATTCGGAGGTATTTCA
55156840 GTAATTT
66 GTAATTT
55156847 CACTTTATTA
Statistics
Matches: 63, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
80 4 0.06
81 54 0.86
82 3 0.05
83 2 0.03
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.41
Consensus pattern (81 bp):
AGGGTATTTCGGTAATTTTACAAGCTAAGGGTACTTCGATAATTTTACAATTCGGAGGTATTTCA
GTAATTTTATAAATTG
Found at i:55162389 original size:37 final size:37
Alignment explanation
Indices: 55162339--55162417 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
55162329 TTATTACGAA
* * *
55162339 GTCTTACCCGGACATAATCTCCACACGAAGTTATCAG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCAG
* *
55162376 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCAG
55162413 GTCTT
1 GTCTT
55162418 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCAG
Found at i:55162877 original size:192 final size:192
Alignment explanation
Indices: 55162538--55163017 Score: 820
Period size: 192 Copynumber: 2.5 Consensus size: 192
55162528 CTTCGGGACT
* * * * * * *
55162538 TATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCTCATATATACAC
55162601 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
*
55162666 GGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
131 GGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
55162728 TATCTCATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCTCATATATACAC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCTCATATATACAC
*
55162793 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
* *
55162858 GGCCATTAGGCCTTATCACATATATATACACTTTCGCATTCATCACATCGGCCATTAGGCCC
131 GGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
55162920 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATATACAC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCTCATATATACAC
*
55162985 TTTCACATTCATCACATCGGCCATGAGGCCTTA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTA
55163018 ATATCATTTC
Statistics
Matches: 273, Mismatches: 15, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
190 7 0.03
191 1 0.00
192 265 0.97
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.32
Consensus pattern (192 bp):
TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCTCATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
Found at i:55163015 original size:47 final size:47
Alignment explanation
Indices: 55162536--55163017 Score: 739
Period size: 47 Copynumber: 10.1 Consensus size: 47
55162526 CCCTTCGGGA
* * * * * *
55162536 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
55162583 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
55162630 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
55162677 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
55162726 CTTATCTCATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTA--TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
55162775 CCTATCTCATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
55162822 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
55162869 CTTATCACATATATATACACTTTCGCATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
55162918 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
55162967 CTTATCTCATATATACACTTTCACATTCATCACATCGGCCATGAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
55163014 CTTA
1 CTTA
55163018 ATATCATTTC
Statistics
Matches: 403, Mismatches: 26, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
47 226 0.56
49 174 0.43
51 3 0.01
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:55174898 original size:31 final size:31
Alignment explanation
Indices: 55174861--55174932 Score: 92
Period size: 31 Copynumber: 2.3 Consensus size: 31
55174851 ATCGAAATGT
* *
55174861 GAATCAGAATCAGA-ATCAGGTGACAAAATTA
1 GAATCAGAATCA-ATATCAGGTAACAAAATCA
*
55174892 GAATCAGAATCAATATCAGGTAACAGAATCA
1 GAATCAGAATCAATATCAGGTAACAAAATCA
*
55174923 AAATCAGAAT
1 GAATCAGAAT
55174933 GTGAATGCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
30 1 0.03
31 35 0.97
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.19
Consensus pattern (31 bp):
GAATCAGAATCAATATCAGGTAACAAAATCA
Found at i:55175449 original size:27 final size:27
Alignment explanation
Indices: 55175419--55175934 Score: 613
Period size: 27 Copynumber: 19.2 Consensus size: 27
55175409 AATACCCTAG
* *
55175419 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
* *
55175446 GGGTAAAACGATAATTCTGTAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
*
55175473 GGGTAAAACAGTAATTCTATAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
* *
55175500 GGGTAAAACGATAATTCTGTAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
** *
55175527 GGGTAAAATAGTAATT-TGTAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
**** *
55175553 GGGTAAAGTAATAATTCTGTAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
* *
55175580 GGGAAAAACGGTAATTCTGTAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
* *
55175607 GGGTAAAACAGTAATTCTTTAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
*
55175634 GGGTAAAATGGTAATTCTATAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
* *
55175661 GGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
** *
55175688 GGGTAAAATAGTAATTCTAT-AATTGA
1 GGGTAAAACGGTAATTCTATAAATCGA
* * *
55175714 GAGTAAAACAGTAATTTTATAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
*
55175741 GGGTAAAACGGTAATTTTATAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
*
55175768 GGGTAAAATGGTAATTCTATAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
* * * *
55175795 GGGTAAAACAGTAATTTTGTAAATAGA
1 GGGTAAAACGGTAATTCTATAAATCGA
* *
55175822 GTGTAAAACGGTAATTCTATAAATAGA
1 GGGTAAAACGGTAATTCTATAAATCGA
* *
55175849 GGGTAAAATGGTAATTCTATAAATCTA
1 GGGTAAAACGGTAATTCTATAAATCGA
** **
55175876 GGGTAAAATAGTAATTCCGTAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
* * *
55175903 GGGTAAAATGGTAATTTTGTAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
55175930 GGGTA
1 GGGTA
55175935 CTTTGGTAAT
Statistics
Matches: 427, Mismatches: 60, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
26 46 0.11
27 381 0.89
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
GGGTAAAACGGTAATTCTATAAATCGA
Found at i:55175693 original size:161 final size:159
Alignment explanation
Indices: 55175419--55175934 Score: 701
Period size: 161 Copynumber: 3.2 Consensus size: 159
55175409 AATACCCTAG
* *
55175419 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACAG
1 GGGTAAAACGGTAATTTTATAAATCGAGGGTAAAACG-TAATTCTATAAATCGAGGGTAAAACAG
*
55175484 TAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATAGTAATTTGTAAA
65 TAATTCTATAAATCGAGGGTAAAACG-TAATTCTGTAAATCGAGGGTAAAATAGTAATTTATAAA
* *
55175549 TCGAGGGTAAAGTAATAATTCTGTAAATCGA
129 TCGAGGGTAAAATAGTAATTCTGTAAATCGA
* * * * **
55175580 GGGAAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTTTAAATCGAGGGTAAAATGG
1 GGGTAAAACGGTAATTTTATAAATCGAGGGTAAAAC-GTAATTCTATAAATCGAGGGTAAAACAG
55175645 TAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTAT-A
65 TAATTCTATAAATCGAGGGTAAAAC-GTAATTCTGTAAATCGAGGGTAAAATAGTAATT-TATAA
* * * * *
55175709 ATTGAGAGTAAAACAGTAATTTTATAAATCGA
128 ATCGAGGGTAAAATAGTAATTCTGTAAATCGA
*
55175741 GGGTAAAACGGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAG
1 GGGTAAAACGGTAATTTTATAAATCGAGGGTAAAA-CGTAATTCTATAAATCGAGGGTAAAACAG
* * * * * * *
55175806 TAATTTTGTAAATAGAGTGTAAAACGGTAATTCTATAAATAGAGGGTAAAATGGTAATTCTATAA
65 TAATTCTATAAATCGAGGGTAAAAC-GTAATTCTGTAAATCGAGGGTAAAATAGTAATT-TATAA
* *
55175871 ATCTAGGGTAAAATAGTAATTCCGTAAATCGA
128 ATCGAGGGTAAAATAGTAATTCTGTAAATCGA
* *
55175903 GGGTAAAATGGTAATTTTGTAAATCGAGGGTA
1 GGGTAAAACGGTAATTTTATAAATCGAGGGTA
55175935 CTTTGGTAAT
Statistics
Matches: 311, Mismatches: 39, Indels: 9
0.87 0.11 0.03
Matches are distributed among these distances:
161 251 0.81
162 60 0.19
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (159 bp):
GGGTAAAACGGTAATTTTATAAATCGAGGGTAAAACGTAATTCTATAAATCGAGGGTAAAACAGT
AATTCTATAAATCGAGGGTAAAACGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTATAAATC
GAGGGTAAAATAGTAATTCTGTAAATCGA
Found at i:55175970 original size:27 final size:26
Alignment explanation
Indices: 55175924--55175999 Score: 100
Period size: 26 Copynumber: 2.9 Consensus size: 26
55175914 TAATTTTGTA
55175924 AATCGAGGGTACTTT-GGTAATTTTAC
1 AATCGAGGGTA-TTTCGGTAATTTTAC
*
55175950 AAGTCGAGGGTATTTCAGTAATTTTAC
1 AA-TCGAGGGTATTTCGGTAATTTTAC
**
55175977 AATCGACAGTATTTCGGTAATTT
1 AATCGAGGGTATTTCGGTAATTT
55176000 GATATTTGGG
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
26 23 0.52
27 21 0.48
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (26 bp):
AATCGAGGGTATTTCGGTAATTTTAC
Found at i:55176066 original size:26 final size:27
Alignment explanation
Indices: 55176010--55176068 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 27
55176000 GATATTTGGG
**
55176010 TAATTTTATAAACTGGGGGTACTTTGG
1 TAATTTTATAAACTGGGGGTACTTTAA
*
55176037 TAATTTTA-CAACTGGGGGTA-TTTCAA
1 TAATTTTATAAACTGGGGGTACTTT-AA
55176063 TAATTT
1 TAATTT
55176069 GGTAAACTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 3 0.11
26 17 0.61
27 8 0.29
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.42
Consensus pattern (27 bp):
TAATTTTATAAACTGGGGGTACTTTAA
Found at i:55176281 original size:28 final size:28
Alignment explanation
Indices: 55176242--55176303 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
55176232 TATCCAATTG
*
55176242 GGCCCA-TAGGCCCACATGGCCCCTTTT
1 GGCCCATTAGGCCCACATGGCCCCTTTC
*
55176269 GGCCCATTGGGCCCACATGGCCCCTTTC
1 GGCCCATTAGGCCCACATGGCCCCTTTC
55176297 GGCCCAT
1 GGCCCAT
55176304 CGCGGCCCGA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 6 0.19
28 26 0.81
ACGTcount: A:0.13, C:0.42, G:0.24, T:0.21
Consensus pattern (28 bp):
GGCCCATTAGGCCCACATGGCCCCTTTC
Found at i:55178651 original size:46 final size:46
Alignment explanation
Indices: 55178584--55178758 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
55178574 TGTAACCCGC
*
55178584 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAACTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* *
55178630 CCATAACTGAACTCGGACTCAACTCAACGAACTCGGATGCCTAGTT-ACAT
1 CCATAACTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * ** *
55178680 -C-TCAC-GAACTCAGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAACTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* *
55178723 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAACTGAACTCGGACTCAACTCAACGAGCTCGG
55178759 ATGCTCAACC
Statistics
Matches: 105, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 60 0.57
47 24 0.23
48 4 0.04
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAACTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:55178703 original size:93 final size:93
Alignment explanation
Indices: 55178592--55178762 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
55178582 GCCCATAAGT
* ** *
55178592 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAACTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAACTGAACTCGGACTCAACTCAA
55178657 CGAACTCGGATGCCTAGTTACATCTCAC
66 CGAACTCGGATGCCTAGTTACATCTCAC
* *
55178685 GAACTCAGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAACTGAACTCGGACTCAACTCAA
**
55178750 CGAGTTCGGATGC
66 CGAACTCGGATGC
55178763 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.20
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAACTGAACTCGGACTCAACTCAA
CGAACTCGGATGCCTAGTTACATCTCAC
Found at i:55181871 original size:42 final size:43
Alignment explanation
Indices: 55181766--55181883 Score: 132
Period size: 43 Copynumber: 2.8 Consensus size: 43
55181756 GTAACAATGT
* *
55181766 CATATCCCAGATATGGTCTTACATGTAATCTCGTATCGATGAC
1 CATATCCCAGATATGGTCTTACACGTAATCTCATATCGATGAC
* * * *
55181809 AATAGCCCAGCTATGGTCTTACACG-AAGTCTCATATTGATG-C
1 CATATCCCAGATATGGTCTTACACGTAA-TCTCATATCGATGAC
* * *
55181851 CATATCCCAGATACGGTCTTAAAGGTAATCTCA
1 CATATCCCAGATATGGTCTTACACGTAATCTCA
55181884 GTAACCCTAA
Statistics
Matches: 61, Mismatches: 12, Indels: 5
0.78 0.15 0.06
Matches are distributed among these distances:
42 27 0.44
43 34 0.56
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.30
Consensus pattern (43 bp):
CATATCCCAGATATGGTCTTACACGTAATCTCATATCGATGAC
Found at i:55183227 original size:55 final size:55
Alignment explanation
Indices: 55183162--55183273 Score: 206
Period size: 55 Copynumber: 2.0 Consensus size: 55
55183152 AAAGGAGATT
*
55183162 ATGGTAACGTTCTCATAATTTTCTCTACCTCATCAAAGAGTCCTTTTCGAGGGCA
1 ATGGTAACGTTCTCATAATTTTCTCTACCTCATCAAAGAGTCCTCTTCGAGGGCA
*
55183217 ATGGTAACGTTCTCGTAATTTTCTCTACCTCATCAAAGAGTCCTCTTCGAGGGCA
1 ATGGTAACGTTCTCATAATTTTCTCTACCTCATCAAAGAGTCCTCTTCGAGGGCA
55183272 AT
1 AT
55183274 ACTTTCAAAA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (55 bp):
ATGGTAACGTTCTCATAATTTTCTCTACCTCATCAAAGAGTCCTCTTCGAGGGCA
Found at i:55185427 original size:19 final size:20
Alignment explanation
Indices: 55185403--55185440 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
55185393 GGTACCACCA
55185403 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
55185422 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
55185441 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:55185778 original size:93 final size:93
Alignment explanation
Indices: 55185671--55185840 Score: 304
Period size: 93 Copynumber: 1.8 Consensus size: 93
55185661 CCCCTAAGTG
* * *
55185671 AACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGGACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
55185736 GAGTTCGGATGCCTAGTTACATTTCACA
66 GAGTTCGGATGCCTAGTTACATTTCACA
*
55185764 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
55185829 GAGTTCGGATGC
66 GAGTTCGGATGC
55185841 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATTTCACA
Found at i:55185837 original size:46 final size:46
Alignment explanation
Indices: 55185665--55185837 Score: 194
Period size: 46 Copynumber: 3.7 Consensus size: 46
55185655 AATCCGCCCC
* * *
55185665 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* * *
55185711 TAAGTGGACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACATTTCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCA-TCCA
*
55185762 -CA---AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
55185804 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
55185838 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 11, Indels: 22
0.76 0.08 0.16
Matches are distributed among these distances:
42 5 0.05
43 4 0.04
44 1 0.01
46 59 0.56
47 27 0.26
49 1 0.01
50 3 0.03
51 5 0.05
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:55186297 original size:30 final size:30
Alignment explanation
Indices: 55186263--55186322 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
55186253 ACTTAATACG
55186263 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
55186293 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
55186323 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:55188104 original size:18 final size:18
Alignment explanation
Indices: 55188057--55188165 Score: 105
Period size: 18 Copynumber: 6.1 Consensus size: 18
55188047 AGTCACTCTT
55188057 TAACAGTCAGTTATTCAG
1 TAACAGTCAGTTATTCAG
* * *
55188075 TAA-TGATAAATTATTCAG
1 TAACAG-TCAGTTATTCAG
*
55188093 TAACAGTCAATTATTCAG
1 TAACAGTCAGTTATTCAG
* * *
55188111 TAGCAATCAGTTATCCAG
1 TAACAGTCAGTTATTCAG
*
55188129 TAACAATCAGTTATTCAG
1 TAACAGTCAGTTATTCAG
* *
55188147 TAGCAGTC-GGTATTCAG
1 TAACAGTCAGTTATTCAG
55188164 TA
1 TA
55188166 CCTTTATTTA
Statistics
Matches: 75, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
17 11 0.15
18 63 0.84
19 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.33
Consensus pattern (18 bp):
TAACAGTCAGTTATTCAG
Found at i:55188149 original size:36 final size:36
Alignment explanation
Indices: 55188057--55188151 Score: 118
Period size: 36 Copynumber: 2.6 Consensus size: 36
55188047 AGTCACTCTT
*** *
55188057 TAACAGTCAGTTATTCAGTAATGATAAATTATTCAG
1 TAACAGTCAGTTATTCAGTAGCAATAAATTATCCAG
* * *
55188093 TAACAGTCAATTATTCAGTAGCAATCAGTTATCCAG
1 TAACAGTCAGTTATTCAGTAGCAATAAATTATCCAG
*
55188129 TAACAATCAGTTATTCAGTAGCA
1 TAACAGTCAGTTATTCAGTAGCA
55188152 GTCGGTATTC
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.33
Consensus pattern (36 bp):
TAACAGTCAGTTATTCAGTAGCAATAAATTATCCAG
Found at i:55189145 original size:12 final size:11
Alignment explanation
Indices: 55189105--55189145 Score: 55
Period size: 12 Copynumber: 3.5 Consensus size: 11
55189095 TTATTATTTA
55189105 AATTTCTTATTC
1 AATTTC-TATTC
55189117 AATTTCTATTC
1 AATTTCTATTC
*
55189128 AATTTCTACTTT
1 AATTTCTA-TTC
55189140 AATTTC
1 AATTTC
55189146 AATTTTGATC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 13 0.48
12 14 0.52
ACGTcount: A:0.27, C:0.17, G:0.00, T:0.56
Consensus pattern (11 bp):
AATTTCTATTC
Found at i:55189566 original size:21 final size:22
Alignment explanation
Indices: 55189532--55189572 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
55189522 AAATCCCTAT
55189532 TTTTCCCTTTTCTTTCTTTCCC
1 TTTTCCCTTTTCTTTCTTTCCC
55189554 TTTTCCC-TTTCTTTCTTTC
1 TTTTCCCTTTTCTTTCTTTC
55189573 TCCCCTGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (22 bp):
TTTTCCCTTTTCTTTCTTTCCC
Found at i:55193891 original size:47 final size:47
Alignment explanation
Indices: 55193820--55194130 Score: 514
Period size: 47 Copynumber: 6.6 Consensus size: 47
55193810 CTCTTCGGGA
* * * * * *
55193820 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
55193867 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
55193914 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
55193961 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
55194008 CTTTTCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
55194057 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
55194104 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
55194131 TATTCAAATA
Statistics
Matches: 252, Mismatches: 10, Indels: 4
0.95 0.04 0.02
Matches are distributed among these distances:
47 206 0.82
49 46 0.18
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:55193898 original size:25 final size:25
Alignment explanation
Indices: 55193870--55193948 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
55193860 ACTCGGCCCT
55193870 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
55193895 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
55193917 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
55193942 ATCACAT
1 ATCACAT
55193949 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:55194076 original size:143 final size:141
Alignment explanation
Indices: 55193820--55194130 Score: 514
Period size: 143 Copynumber: 2.2 Consensus size: 141
55193810 CTCTTCGGGA
* * * * *
55193820 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATACAC
* *
55193885 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
55193950 GGCCATTAGGC
131 GGCCATTAGGC
* * *
55193961 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTTTCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCAC--ATATATAC
55194026 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
55194091 TCGGCCATTAGGC
129 TCGGCCATTAGGC
55194104 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
55194131 TATTCAAATA
Statistics
Matches: 158, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
141 47 0.30
143 111 0.70
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:55200015 original size:20 final size:19
Alignment explanation
Indices: 55199992--55200038 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
55199982 TATTTCTTAA
55199992 AATTAAAACTCAATTCTACC
1 AATTAAAACTCAATTC-ACC
* *
55200012 AATTCAAAACTCCATTCAGC
1 AATT-AAAACTCAATTCACC
55200032 AATTAAA
1 AATTAAA
55200039 CATGAATTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 3 0.12
20 10 0.42
21 11 0.46
ACGTcount: A:0.47, C:0.23, G:0.02, T:0.28
Consensus pattern (19 bp):
AATTAAAACTCAATTCACC
Found at i:55201591 original size:29 final size:28
Alignment explanation
Indices: 55201526--55201609 Score: 105
Period size: 28 Copynumber: 3.0 Consensus size: 28
55201516 CCTGTAACTA
* * *
55201526 GCCCATTAAGCCCATTCATATTCATATG
1 GCCCATTAGGCCCAATCACATTCATATG
*
55201554 GCCCATTAGGCCCAAATCACATTTATATG
1 GCCCATTAGGCCC-AATCACATTCATATG
* *
55201583 GCCCGTTAGGCCCAGTCACATTCATAT
1 GCCCATTAGGCCCAATCACATTCATAT
55201610 TCATGCTCAC
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
28 24 0.50
29 24 0.50
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.29
Consensus pattern (28 bp):
GCCCATTAGGCCCAATCACATTCATATG
Found at i:55208713 original size:40 final size:39
Alignment explanation
Indices: 55208682--55208891 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
55208672 GGACTAAGAT
* *
55208682 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
55208722 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
55208762 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
55208802 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
55208842 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
55208881 CCGAAGGCATT
1 CCGAAGGCATT
55208892 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:55208845 original size:120 final size:120
Alignment explanation
Indices: 55208629--55208891 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
55208619 TTGAATGCTG
* *
55208629 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
55208693 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
55208749 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
55208812 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
55208868 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
55208892 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:55208911 original size:79 final size:80
Alignment explanation
Indices: 55208630--55208926 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
55208620 TGAATGCTGT
* ** * * * **
55208630 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
55208693 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
55208710 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
55208774 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
55208790 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
55208854 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
55208869 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
55208927 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:55216089 original size:40 final size:39
Alignment explanation
Indices: 55216058--55216267 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
55216048 GGACTAAGAT
* *
55216058 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
55216098 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
55216138 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
55216178 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
55216218 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
55216257 CCGAAGGCATT
1 CCGAAGGCATT
55216268 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:55216221 original size:120 final size:120
Alignment explanation
Indices: 55216005--55216267 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
55215995 TTGAATGCTG
* *
55216005 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
55216069 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
55216125 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
55216188 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
55216244 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
55216268 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:55216287 original size:79 final size:80
Alignment explanation
Indices: 55216006--55216302 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
55215996 TGAATGCTGT
* ** * * * **
55216006 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
55216069 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
55216086 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
55216150 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
55216166 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
55216230 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
55216245 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
55216303 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:55242975 original size:21 final size:21
Alignment explanation
Indices: 55242949--55242989 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
55242939 TATGTGGCAG
55242949 TTTATCTG-CAATTATGTGGTC
1 TTTATC-GACAATTATGTGGTC
*
55242970 TTTATCGATAATTATGTGGT
1 TTTATCGACAATTATGTGGT
55242990 GGCTTATCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.22, C:0.10, G:0.20, T:0.49
Consensus pattern (21 bp):
TTTATCGACAATTATGTGGTC
Found at i:55243002 original size:22 final size:21
Alignment explanation
Indices: 55242958--55243002 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
55242948 GTTTATCTGC
*
55242958 AATTATGTGGTCTTTATCGAT
1 AATTATGTGGTCTTTATCCAT
55242979 AATTATGTGGTGGC-TTATCCAT
1 AATTATGTGGT--CTTTATCCAT
55243001 AA
1 AA
55243003 ATGGTGTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 11 0.52
22 9 0.43
23 1 0.05
ACGTcount: A:0.27, C:0.11, G:0.20, T:0.42
Consensus pattern (21 bp):
AATTATGTGGTCTTTATCCAT
Found at i:55248344 original size:20 final size:21
Alignment explanation
Indices: 55248310--55248349 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
55248300 CCTACCCTCA
55248310 TTTTCATGATATTCTTTCATT
1 TTTTCATGATATTCTTTCATT
*
55248331 TTTTCATTAT-TTCTTTCAT
1 TTTTCATGATATTCTTTCAT
55248350 CTTCTTTCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.17, C:0.15, G:0.03, T:0.65
Consensus pattern (21 bp):
TTTTCATGATATTCTTTCATT
Found at i:55250344 original size:28 final size:27
Alignment explanation
Indices: 55250281--55250432 Score: 243
Period size: 27 Copynumber: 5.6 Consensus size: 27
55250271 ATATTAAGTC
* *
55250281 CGCACA-TTCAGTGCTATATAATCAACT
1 CGCACACTT-AGTGCTACATAGTCAACT
*
55250308 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
55250336 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
55250363 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
55250391 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
55250418 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
55250433 GCACAATTTA
Statistics
Matches: 120, Mismatches: 2, Indels: 6
0.94 0.02 0.05
Matches are distributed among these distances:
27 65 0.54
28 55 0.46
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:55250365 original size:55 final size:55
Alignment explanation
Indices: 55250281--55250432 Score: 261
Period size: 55 Copynumber: 2.8 Consensus size: 55
55250271 ATATTAAGTC
* *
55250281 CGCACA-TTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTT-AGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
55250336 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
55250391 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
55250433 GCACAATTTA
Statistics
Matches: 93, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
55 91 0.98
56 2 0.02
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:55258514 original size:28 final size:28
Alignment explanation
Indices: 55258450--55258628 Score: 288
Period size: 28 Copynumber: 6.4 Consensus size: 28
55258440 TATATTAAGT
*
55258450 TCGCACACTCAGTGCTATATAATC-AAC
1 TCGCACACTTAGTGCTATATAATCAAAC
55258477 TCGCACACTTAGTGCTATATAATCAAAC
1 TCGCACACTTAGTGCTATATAATCAAAC
*
55258505 TCGCACACTTAGTGCTACATAATCAAAC
1 TCGCACACTTAGTGCTATATAATCAAAC
*
55258533 TCGCGCACTTAGTGCTATATAATCAAAC
1 TCGCACACTTAGTGCTATATAATCAAAC
55258561 TCGCACACTTAGTGCTATATAATCAAAC
1 TCGCACACTTAGTGCTATATAATCAAAC
* * *
55258589 TCGCACACTTAGTGCTGTACAATTAAAC
1 TCGCACACTTAGTGCTATATAATCAAAC
*
55258617 CCGCACACTTAG
1 TCGCACACTTAG
55258629 CGCCAATCTC
Statistics
Matches: 142, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
27 23 0.16
28 119 0.84
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.27
Consensus pattern (28 bp):
TCGCACACTTAGTGCTATATAATCAAAC
Found at i:55263263 original size:68 final size:68
Alignment explanation
Indices: 55263060--55263271 Score: 158
Period size: 68 Copynumber: 3.1 Consensus size: 68
55263050 ATTTAATTCG
* * * *
55263060 GCTCTCTTGTAC-ACATGGTG-A-ATACTTAGTACCACTCATGCGACCTAGC--CGAT-T-TGTC
1 GCTCTCTTGT-CTACATGGTGTACATACTTAGAATCACACATGCGACCTAGCTAC-ATATATATC
55263118 TCGTA
64 TCGTA
* * * * * *
55263123 GCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTATCTCT
1 GCTCTCTTGTCTACATGGTGTACAT-ACTTAGAATCACACATGCGACCTAGCTACATATATATCT
55263188 CACGTA
65 --CGTA
* *
55263194 GCTCTCTTGTCTACATGG-GATACAT-C-TAGTATCACACATGTGACCTAGCTACTATATAGTAT
1 GCTCTCTTGTCTACATGGTG-TACATACTTAGAATCACACATGCGACCTAGCTAC-ATATA-TAT
55263256 CTCGTA
63 CTCGTA
55263262 GC-CTTCTTGT
1 GCTC-TCTTGT
55263272 ACACATGATG
Statistics
Matches: 120, Mismatches: 15, Indels: 23
0.76 0.09 0.15
Matches are distributed among these distances:
62 1 0.01
63 18 0.15
65 1 0.01
66 22 0.18
67 3 0.03
68 36 0.30
69 9 0.08
70 5 0.04
71 25 0.21
ACGTcount: A:0.22, C:0.27, G:0.17, T:0.34
Consensus pattern (68 bp):
GCTCTCTTGTCTACATGGTGTACATACTTAGAATCACACATGCGACCTAGCTACATATATATCTC
GTA
Found at i:55271624 original size:40 final size:40
Alignment explanation
Indices: 55271442--55271664 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
55271432 TCCTCGTTCA
* * * * *
55271442 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
55271481 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
55271521 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
55271561 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
55271601 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
55271641 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
55271665 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:55271673 original size:41 final size:41
Alignment explanation
Indices: 55271596--55271673 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
55271586 TTAGTATCTC
* * *
55271596 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
55271637 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
55271674 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:55276170 original size:24 final size:24
Alignment explanation
Indices: 55276117--55276177 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
55276107 GAAATCCAAT
* * *
55276117 GCACTATGTGTGCGGTTTACTATG
1 GCACTATGTGTGCGGTGTAATATA
*
55276141 GTACTATGTGTGCGAGTGTAAT-TA
1 GCACTATGTGTGCG-GTGTAATATA
55276165 GCACTATGTGTGC
1 GCACTATGTGTGC
55276178 AAATACGGTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
24 26 0.84
25 5 0.16
ACGTcount: A:0.20, C:0.15, G:0.30, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGGTGTAATATA
Found at i:55286630 original size:28 final size:28
Alignment explanation
Indices: 55286598--55286681 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
55286588 AACTGTGATC
55286598 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
55286626 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
55286648 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
55286676 ACGTGT
1 ACGTGT
55286682 ACCGGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:55286721 original size:49 final size:49
Alignment explanation
Indices: 55286550--55286774 Score: 297
Period size: 49 Copynumber: 4.5 Consensus size: 49
55286540 TGAGGTCGCA
* * * * *
55286550 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACG
* * **
55286601 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCACG
55286651 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
* * *
55286700 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
* *
55286749 TGTGTAGTACTATGTGTAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
55286775 TGCGTACCAG
Statistics
Matches: 157, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
49 79 0.50
50 45 0.29
51 33 0.21
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
Found at i:55286731 original size:99 final size:100
Alignment explanation
Indices: 55286543--55286782 Score: 313
Period size: 99 Copynumber: 2.4 Consensus size: 100
55286533 TCTATTGTGA
* *
55286543 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAG
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTGTGTAG
* **
55286608 TACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
66 TACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * *
55286643 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACGTGTGTA
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTGTGTA
* *
55286706 GTACTAAGTGTAGGCTACTACGTGTACCGGATAATT
65 GTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
55286742 GGTCGCATGTGTAGTACTATGTGTAGGCTACTATGCGTACC
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACC
55286783 AGATAGCTTT
Statistics
Matches: 121, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
98 35 0.29
99 44 0.36
100 1 0.01
101 41 0.34
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.29
Consensus pattern (100 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTGTGTAG
TACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:55289788 original size:30 final size:30
Alignment explanation
Indices: 55289754--55289813 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
55289744 TATCGTATCT
*
55289754 TGGGTTTCTTTACTCTAGGA-TTCTTTATTC
1 TGGGTTTCTCTA-TCTAGGATTTCTTTATTC
*
55289784 TGGGTTTCTCTATCTTGGATTTCTTTATTC
1 TGGGTTTCTCTATCTAGGATTTCTTTATTC
55289814 GATTTTCTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 6 0.22
30 21 0.78
ACGTcount: A:0.12, C:0.17, G:0.17, T:0.55
Consensus pattern (30 bp):
TGGGTTTCTCTATCTAGGATTTCTTTATTC
Found at i:55289792 original size:15 final size:15
Alignment explanation
Indices: 55289754--55289813 Score: 59
Period size: 15 Copynumber: 4.0 Consensus size: 15
55289744 TATCGTATCT
*
55289754 TGGGTTTCTTTACTC
1 TGGGTTTCTTTATTC
* *
55289769 TAGGATTCTTTATTC
1 TGGGTTTCTTTATTC
*
55289784 TGGGTTTCTCTA-TC
1 TGGGTTTCTTTATTC
*
55289798 TTGGATTTCTTTATTC
1 -TGGGTTTCTTTATTC
55289814 GATTTTCTTG
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
14 2 0.06
15 31 0.89
16 2 0.06
ACGTcount: A:0.12, C:0.17, G:0.17, T:0.55
Consensus pattern (15 bp):
TGGGTTTCTTTATTC
Found at i:55291657 original size:49 final size:49
Alignment explanation
Indices: 55291491--55291715 Score: 306
Period size: 49 Copynumber: 4.5 Consensus size: 49
55291481 TGAGGTCGCA
* * * * * *
55291491 TGTGTAGTACTAAGTACAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACG
* * **
55291542 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCACG
55291592 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
* *
55291641 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
*
55291690 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
55291716 TGCGTACCAG
Statistics
Matches: 157, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
49 80 0.51
50 45 0.29
51 32 0.20
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
Found at i:55291670 original size:99 final size:100
Alignment explanation
Indices: 55291484--55291723 Score: 322
Period size: 99 Copynumber: 2.4 Consensus size: 100
55291474 ATCTATGTGA
* * *
55291484 GGTCGCATGTGTAGTACTAAGTACAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAG
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTGTGTAG
* **
55291549 TACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
66 TACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * *
55291584 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACGTGTGTA
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTGTGTA
*
55291647 GTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
65 GTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
55291683 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACC
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACC
55291724 AGATAGCTTT
Statistics
Matches: 122, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
98 36 0.30
99 45 0.37
100 1 0.01
101 40 0.33
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (100 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTGTGTAG
TACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:55293843 original size:41 final size:42
Alignment explanation
Indices: 55293772--55293855 Score: 109
Period size: 41 Copynumber: 2.0 Consensus size: 42
55293762 GAGTTTAGGG
* *
55293772 ATTACTTCGACTTCAAGTCGATGAGACACTGGGTGTCAATTT
1 ATTACTTCGACTTCAAGTCGATAAGACACTGGGTGCCAATTT
* *
55293814 ATTACTTCGGA-TT-AATTCGATAAGGCACTGGGTGCCAATTT
1 ATTACTTC-GACTTCAAGTCGATAAGACACTGGGTGCCAATTT
55293855 A
1 A
55293856 CTTCGGTTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
41 25 0.68
42 10 0.27
43 2 0.05
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.33
Consensus pattern (42 bp):
ATTACTTCGACTTCAAGTCGATAAGACACTGGGTGCCAATTT
Found at i:55293899 original size:40 final size:39
Alignment explanation
Indices: 55293790--55293914 Score: 128
Period size: 37 Copynumber: 3.2 Consensus size: 39
55293780 GACTTCAAGT
* *
55293790 CGATGAGACACTGGGTGTCAATTTATTACTTCGGATTAATT
1 CGATGAGACACTGGGTGTCAATTT-TTACTTCGG-TTTATC
* * * *
55293831 CGATAAGGCACTGGGTGCCAA--TTTACTTCGGTTTAGC
1 CGATGAGACACTGGGTGTCAATTTTTACTTCGGTTTATC
* **
55293868 CGATGAGATACTGGGTGTCAACTTTTTACTTCGAATTATC
1 CGATGAGACACTGGGTGTCAA-TTTTTACTTCGGTTTATC
55293908 CGATGAG
1 CGATGAG
55293915 GTAATGGGTA
Statistics
Matches: 68, Mismatches: 13, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
37 20 0.29
38 9 0.13
39 1 0.01
40 20 0.29
41 18 0.26
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.34
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAATTTTTACTTCGGTTTATC
Found at i:55293923 original size:40 final size:39
Alignment explanation
Indices: 55293790--55293923 Score: 128
Period size: 40 Copynumber: 3.4 Consensus size: 39
55293780 GACTTCAAGT
** *
55293790 CGATGAGACACTGGGTGTCAATTTATTACTTCGGATTAATT
1 CGATGAGGTACTGGGTGTCAATTT-TTACTTCGGATT-ATC
* * * * *
55293831 CGATAAGGCACTGGGTGCCAA--TTTACTTCGGTTTAGC
1 CGATGAGGTACTGGGTGTCAATTTTTACTTCGGATTATC
* *
55293868 CGATGAGATACTGGGTGTCAACTTTTTACTTCGAATTATC
1 CGATGAGGTACTGGGTGTCAA-TTTTTACTTCGGATTATC
*
55293908 CGATGAGGTAATGGGT
1 CGATGAGGTACTGGGT
55293924 ACCAAACTGG
Statistics
Matches: 75, Mismatches: 15, Indels: 7
0.77 0.15 0.07
Matches are distributed among these distances:
37 18 0.24
38 11 0.15
39 1 0.01
40 27 0.36
41 18 0.24
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (39 bp):
CGATGAGGTACTGGGTGTCAATTTTTACTTCGGATTATC
Found at i:55299466 original size:79 final size:82
Alignment explanation
Indices: 55299355--55299539 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
55299345 GCTACTCGTT
* * *
55299355 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
55299418 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
55299435 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
55299498 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
55299515 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
55299540 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:55299539 original size:40 final size:40
Alignment explanation
Indices: 55299336--55299539 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
55299326 CGGAATTTAA
** *
55299336 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
55299376 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
55299416 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
55299455 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
55299495 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
55299535 CCGGA
1 CCGGA
55299540 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:55307382 original size:79 final size:82
Alignment explanation
Indices: 55307271--55307455 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
55307261 GCTACTCGTT
* * *
55307271 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
55307334 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
55307351 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
55307414 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
55307431 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
55307456 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Done.