Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 187 of 328
Found at i:55695990 original size:13 final size:13
Alignment explanation
Indices: 55695972--55696003 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
55695962 GGGAAAGCTT
55695972 AATTTGCCACATC
1 AATTTGCCACATC
55695985 AATTTGCCACATC
1 AATTTGCCACATC
55695998 AATTTG
1 AATTTG
55696004 TGGCAGATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.31, C:0.25, G:0.09, T:0.34
Consensus pattern (13 bp):
AATTTGCCACATC
Found at i:55707550 original size:14 final size:14
Alignment explanation
Indices: 55707531--55707559 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
55707521 TGCATCGATT
55707531 ATCGCCAGTTGAAC
1 ATCGCCAGTTGAAC
55707545 ATCGCCAGTTGAAC
1 ATCGCCAGTTGAAC
55707559 A
1 A
55707560 AACTGACGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.31, C:0.28, G:0.21, T:0.21
Consensus pattern (14 bp):
ATCGCCAGTTGAAC
Found at i:55712168 original size:40 final size:40
Alignment explanation
Indices: 55712113--55712282 Score: 225
Period size: 40 Copynumber: 4.2 Consensus size: 40
55712103 AACATTGGAA
55712113 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
55712153 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
55712193 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
55712232 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
55712273 CTATATCCGG
1 ATATATCCGG
55712283 TTAAATCCCG
Statistics
Matches: 111, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
39 2 0.02
40 109 0.98
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:55720263 original size:40 final size:40
Alignment explanation
Indices: 55720208--55720377 Score: 225
Period size: 40 Copynumber: 4.2 Consensus size: 40
55720198 AACATTGGAA
55720208 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
55720248 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
55720288 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
55720327 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
55720368 CTATATCCGG
1 ATATATCCGG
55720378 TTAAATCCCG
Statistics
Matches: 111, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
39 2 0.02
40 109 0.98
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:55723818 original size:39 final size:39
Alignment explanation
Indices: 55723764--55723957 Score: 235
Period size: 40 Copynumber: 4.9 Consensus size: 39
55723754 TGTGTAAGAA
*
55723764 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
*
55723803 TGTGCGAGTTGTGATATCCGGGCTAAGCCTGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * * *
55723842 TGTGCGAGCTATGATATCCGGGATAAACTCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGC-CCGAAGGCAAT
* *
55723882 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
* * * * * *
55723922 TGTGTGGGTTATCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGG
55723958 TGTTTGAACA
Statistics
Matches: 134, Mismatches: 19, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
39 61 0.46
40 72 0.54
41 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:55723888 original size:40 final size:39
Alignment explanation
Indices: 55723764--55723925 Score: 216
Period size: 39 Copynumber: 4.1 Consensus size: 39
55723754 TGTGTAAGAA
* *
55723764 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAACCCGAAGGCAAT
* *
55723803 TGTGCGAGTTGTGATATCCGGGCTAAGCCTGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAACCCGAAGGCAAT
* * *
55723842 TGTGCGAGCTATGATATCCGGGATAAACTCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAAC-CCGAAGGCAAT
* * *
55723882 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAA-ACCCGAAGGCAAT
55723922 TGTG
1 TGTG
55723926 TGGGTTATCA
Statistics
Matches: 109, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 61 0.56
40 47 0.43
41 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAACCCGAAGGCAAT
Found at i:55723890 original size:79 final size:79
Alignment explanation
Indices: 55723775--55723925 Score: 241
Period size: 79 Copynumber: 1.9 Consensus size: 79
55723765 GTGCGAATTG
* * *
55723775 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAAG-CCTGAAGGC
1 TGATATCCGGGATAAACCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAAGTCCCGAAGGC
55723839 AATTGTGCGAGCTA
66 AATTGTGCGAGCTA
*
55723853 TGATATCCGGGATAAACTCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGG
1 TGATATCCGGGATAAAC-CCGAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAAGTCCCGAAGG
*
55723918 CATTTGTG
65 CAATTGTG
55723926 TGGGTTATCA
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
78 15 0.23
79 37 0.56
80 14 0.21
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (79 bp):
TGATATCCGGGATAAACCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGCTA
Found at i:55725462 original size:15 final size:15
Alignment explanation
Indices: 55725442--55725471 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
55725432 CAACACTTGT
55725442 GCCGAAACCACAAAA
1 GCCGAAACCACAAAA
*
55725457 GCCGAAACCTCAAAA
1 GCCGAAACCACAAAA
55725472 AATACATTAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.33, G:0.13, T:0.03
Consensus pattern (15 bp):
GCCGAAACCACAAAA
Found at i:55729843 original size:46 final size:47
Alignment explanation
Indices: 55729790--55729912 Score: 153
Period size: 46 Copynumber: 2.6 Consensus size: 47
55729780 CATCTCGTAG
55729790 CTGATGCATGTCCCAGACATGTCTTACACTGGC-TCTCATCTAA-AT-A
1 CTGATGCATGTCCCAGACATGTCTTACACTGGCATCTCA--TAATATGA
* * * * *
55729836 CTGATGCATGTCCCAGACATTTCTTACATTGGCATTTCATAATGTGG
1 CTGATGCATGTCCCAGACATGTCTTACACTGGCATCTCATAATATGA
*
55729883 CCGATGCATGTCCCAGACATGTCTTACACT
1 CTGATGCATGTCCCAGACATGTCTTACACT
55729913 AGCACACACA
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
45 3 0.05
46 32 0.48
47 31 0.47
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (47 bp):
CTGATGCATGTCCCAGACATGTCTTACACTGGCATCTCATAATATGA
Found at i:55731491 original size:41 final size:40
Alignment explanation
Indices: 55731434--55731513 Score: 115
Period size: 41 Copynumber: 2.0 Consensus size: 40
55731424 TGTGCTCATA
*
55731434 TTTGTACTTCGGTACCCTTAAATTGCACATACGTGTCCCTG
1 TTTGTACTTCGATACCCTTAAATTGCACATACGTG-CCCTG
* * *
55731475 TTTGTACTTTGATACCCTTGAATTGCACATATGTGCCCT
1 TTTGTACTTCGATACCCTTAAATTGCACATACGTGCCCT
55731514 TATTTACAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
40 4 0.11
41 31 0.89
ACGTcount: A:0.20, C:0.25, G:0.16, T:0.39
Consensus pattern (40 bp):
TTTGTACTTCGATACCCTTAAATTGCACATACGTGCCCTG
Found at i:55745397 original size:48 final size:47
Alignment explanation
Indices: 55745326--55745418 Score: 132
Period size: 48 Copynumber: 2.0 Consensus size: 47
55745316 ATTGGGGTTA
* *
55745326 CATTGAGTTGGCTTCAGACCATGATATTGGCACTTCGGGTGCAAGATT
1 CATTGAGTTGGCTTCAGACCATGATA-TGCCACTTAGGGTGCAAGATT
** *
55745374 CATTGAGTTGGCTTTGGGCCATGATATGCCACTTAGGGTGCAAGA
1 CATTGAGTTGGCTTCAGACCATGATATGCCACTTAGGGTGCAAGA
55745419 CTCTCGAGTA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
47 17 0.43
48 23 0.57
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (47 bp):
CATTGAGTTGGCTTCAGACCATGATATGCCACTTAGGGTGCAAGATT
Found at i:55747219 original size:40 final size:40
Alignment explanation
Indices: 55747160--55747258 Score: 117
Period size: 40 Copynumber: 2.5 Consensus size: 40
55747150 CAATTGAATG
* * * *
55747160 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGCAACT
* * * *
55747200 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGCAACT
*
55747240 ACATCCGGGCTAAGACCCG
1 ATATCCGGGCTAAGACCCG
55747259 GGCTAAAGCT
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGCAACT
Found at i:55747321 original size:40 final size:40
Alignment explanation
Indices: 55747266--55747425 Score: 275
Period size: 40 Copynumber: 4.0 Consensus size: 40
55747256 CCGGGCTAAA
*
55747266 GCTAATACCCGAAGGCATTTGTGCAAGTCGTTCTATCCGG
1 GCTAAGACCCGAAGGCATTTGTGCAAGTCGTTCTATCCGG
55747306 GCTAAGACCCGAAGGCATTTGTGCAAGTCGTTCTATCCGG
1 GCTAAGACCCGAAGGCATTTGTGCAAGTCGTTCTATCCGG
55747346 GCTAAGACCCGAAGGCATTTGTGCAAGTCGTTCTATCCGG
1 GCTAAGACCCGAAGGCATTTGTGCAAGTCGTTCTATCCGG
* * * *
55747386 GCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 GCTAAGACCCGAAGGCATTTGTGCAAGTCGTTCTATCCGG
55747426 TTGTATTCCG
Statistics
Matches: 115, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 115 1.00
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.26
Consensus pattern (40 bp):
GCTAAGACCCGAAGGCATTTGTGCAAGTCGTTCTATCCGG
Found at i:55756656 original size:38 final size:38
Alignment explanation
Indices: 55756596--55756686 Score: 150
Period size: 38 Copynumber: 2.4 Consensus size: 38
55756586 TTATTACGAA
*
55756596 GTCTTACCCGG-ACATAATCTCCACACGTAGTCATCGG
1 GTCTCACCCGGAACATAATCTCCACACGTAGTCATCGG
*
55756633 GTCTCACCCGGAACATTATCTCCACACGTAGTCATCGG
1 GTCTCACCCGGAACATAATCTCCACACGTAGTCATCGG
55756671 GTCTCACCCGG-ACATA
1 GTCTCACCCGGAACATA
55756687 TTTCCAAGTT
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
37 14 0.28
38 36 0.72
ACGTcount: A:0.24, C:0.34, G:0.19, T:0.23
Consensus pattern (38 bp):
GTCTCACCCGGAACATAATCTCCACACGTAGTCATCGG
Found at i:55756832 original size:49 final size:49
Alignment explanation
Indices: 55756750--55757007 Score: 462
Period size: 49 Copynumber: 5.3 Consensus size: 49
55756740 CGGCTTTACC
* * * *
55756750 ACACACTTTCACATTCATCACGTCAGTCGTTAGGCCTTATCACATATAT
1 ACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
55756799 ACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
1 ACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
55756848 ACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
1 ACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
*
55756897 ACACACTTTCACATTCATCACATCGGCCATTAGGACTTATCACATATAT
1 ACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
55756946 ACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
1 ACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
*
55756995 ATACACTTTCACA
1 ACACACTTTCACA
55757008 AATTTTAATA
Statistics
Matches: 202, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 202 1.00
ACGTcount: A:0.31, C:0.30, G:0.08, T:0.31
Consensus pattern (49 bp):
ACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
Found at i:55760685 original size:40 final size:40
Alignment explanation
Indices: 55760640--55760769 Score: 172
Period size: 40 Copynumber: 3.2 Consensus size: 40
55760630 CGGAATATAA
55760640 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
55760680 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
55760720 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
55760760 CCGGATATAA
1 CCGGATATAA
55760770 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
39 1 0.01
40 75 0.99
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:55770858 original size:40 final size:39
Alignment explanation
Indices: 55770795--55770915 Score: 136
Period size: 40 Copynumber: 3.0 Consensus size: 39
55770785 GAATATAACC
*
55770795 GATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGCCCG
1 GATAGAACCAC-TAGCAC-AATGCCTTCGGGTCTTAGCCCG
** *
55770835 GATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCCCG
1 GATAGAACCACTAGCAC-AATGCCTTCGGGTCTTAGCCCG
* * *
55770875 GATATAGCCACTAGCACAATTGCCTTCGGGTCTTAACCCG
1 GATAGAACCACTAGCACAA-TGCCTTCGGGTCTTAGCCCG
55770915 G
1 G
55770916 TTATAATTTC
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
39 3 0.04
40 66 0.96
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.23
Consensus pattern (39 bp):
GATAGAACCACTAGCACAATGCCTTCGGGTCTTAGCCCG
Found at i:55774153 original size:40 final size:40
Alignment explanation
Indices: 55774091--55774551 Score: 574
Period size: 40 Copynumber: 11.6 Consensus size: 40
55774081 CCAGCATGAT
* *
55774091 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
* * *
55774131 TGCTTTTCGGAACATAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
* *
55774171 TGCTCTTCGGAATTTAGCCCGAATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
55774211 TGCTCTTCGGAATTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
55774251 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
55774291 TGCTCTTTGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
55774331 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
55774371 TGCTCTTCGGAATTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
* * * *
55774411 TGCTCTTTGGAACTTAG-CCGGATATAACCACAAGCAC-AA
1 TGCTCTTCGGAACTTAGCCCGGATA-CATCACTAGCACGAA
** * * * * *
55774450 TTGC-CTTCGGGTCTTAACCCGGGTATAACAACTCA-CACAAA
1 -TGCTCTTCGGAACTTAGCCCGGATACATC-ACT-AGCACGAA
** * **
55774491 TGC-CTTCGGGTCTTAGCCCGGATATATTCACTAGCATAAA
1 TGCTCTTCGGAACTTAGCCCGGATACA-TCACTAGCACGAA
*
55774531 TGC-CTTCGGGACTTAGCCCGG
1 TGCTCTTCGGAACTTAGCCCGG
55774552 GTATCATTCA
Statistics
Matches: 377, Mismatches: 36, Indels: 16
0.88 0.08 0.04
Matches are distributed among these distances:
39 21 0.06
40 352 0.93
41 4 0.01
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
Found at i:55791349 original size:80 final size:80
Alignment explanation
Indices: 55791215--55791366 Score: 202
Period size: 80 Copynumber: 1.9 Consensus size: 80
55791205 AAATTGAATG
* * *
55791215 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGAAATTTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTGAAATTTAAATCCGGGCTAAGACCCGAAGGCA
55791280 ATTGTGCTAGTAGCT
66 ATTGTGCTAGTAGCT
* *
55791295 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAGTTGTTAAATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTG-AA-AT-TTAAATCCGGGCTAAGACCCGAAG
*
55791357 GCATTTGTGC
63 GCAATTGTGC
55791367 AAATCGTGAT
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
77 2 0.03
78 4 0.06
79 4 0.06
80 53 0.84
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTGAAATTTAAATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTAGCT
Found at i:55791357 original size:40 final size:40
Alignment explanation
Indices: 55791257--55791368 Score: 170
Period size: 40 Copynumber: 2.8 Consensus size: 40
55791247 TGAAATTTAT
* * * *
55791257 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGCTAA
* *
55791297 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGCTAA
55791337 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAA
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAA
55791369 ATCGTGATAT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 66 1.00
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGCTAA
Found at i:55791379 original size:80 final size:81
Alignment explanation
Indices: 55791213--55791383 Score: 199
Period size: 80 Copynumber: 2.1 Consensus size: 81
55791203 AGAAATTGAA
* * *
55791213 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTGAAATTTATATCCGGGTTAAGACCCGAAGG
1 TGATATCCGGGCTAAGACCCGAAGACAATTATGCTGAAATTTAAATCCGGGCTAAGACCCGAAGG
* *
55791278 CAATTGTGCTAGTAGC
66 CAATTGTGCAAATAGC
* *
55791294 T-ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAGTTGTTAAATCCGGGCTAAGACCCGA
1 TGATATCCGGGCTAAGACCCGAAGACAATTATGCTG-AA-AT-TTAAATCCGGGCTAAGACCCGA
* *
55791355 AGGCATTTGTGCAAATCG-
63 AGGCAATTGTGCAAATAGC
55791373 TGATATCCGGG
1 TGATATCCGGG
55791384 TAAAGTCCCG
Statistics
Matches: 77, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
77 2 0.03
78 4 0.05
79 5 0.06
80 65 0.84
81 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (81 bp):
TGATATCCGGGCTAAGACCCGAAGACAATTATGCTGAAATTTAAATCCGGGCTAAGACCCGAAGG
CAATTGTGCAAATAGC
Found at i:55791381 original size:40 final size:39
Alignment explanation
Indices: 55791213--55791383 Score: 168
Period size: 40 Copynumber: 4.3 Consensus size: 39
55791203 AGAAATTGAA
* *
55791213 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
55791253 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
*
55791293 CT-ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
55791333 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
55791373 TGATATCCGGG
1 TGATATCCGGG
55791384 TAAAGTCCCG
Statistics
Matches: 109, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 97 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:55794125 original size:79 final size:80
Alignment explanation
Indices: 55793982--55794189 Score: 190
Period size: 79 Copynumber: 2.6 Consensus size: 80
55793972 ACCTTCGGAG
* * ** * * * *
55793982 CTTAA-CCGGATATAGCTACTCGTTCAAACGCCTTCGGGACATAGCCCGGATATGGTAACCCGCA
1 CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACCCGCA
55794046 CCAAGGCCTACGGGA
66 CCAAGGCCTACGGGA
* * * *
55794061 CTTAACCCGGATATCA-CGA-TTGCACAAATGCCTTCGGGTCTTAGCCCGGATA-GAATGACTCG
1 CTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATG-ATAACCCG
* * * *
55794123 CACGAATGCCTTCGGGT
64 CACCAAGGCCTACGGGA
* * * *
55794140 CTTAGCCCGGATATAGCCACTAGCACCATTGCCTTCGGGTCTTAACCCGG
1 CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGG
55794190 TTATAATTTC
Statistics
Matches: 104, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
78 2 0.02
79 65 0.62
80 36 0.35
81 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (80 bp):
CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACCCGCA
CCAAGGCCTACGGGA
Found at i:55794134 original size:40 final size:40
Alignment explanation
Indices: 55794082--55794189 Score: 135
Period size: 40 Copynumber: 2.7 Consensus size: 40
55794072 TATCACGATT
** *
55794082 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
55794122 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
55794162 GCACCATTGCCTTCGGGTCTTAACCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
55794190 TTATAATTTC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.21, C:0.31, G:0.25, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
Found at i:55802098 original size:79 final size:80
Alignment explanation
Indices: 55801955--55802162 Score: 190
Period size: 79 Copynumber: 2.6 Consensus size: 80
55801945 ACCTTCGGAG
* * ** * * * *
55801955 CTTAA-CCGGATATAGCTACTCGTTCAAACGCCTTCGGGACATAGCCCGGATATGGTAACCCGCA
1 CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACCCGCA
55802019 CCAAGGCCTACGGGA
66 CCAAGGCCTACGGGA
* * * *
55802034 CTTAACCCGGATATCA-CGA-TTGCACAAATGCCTTCGGGTCTTAGCCCGGATA-GAATGACTCG
1 CTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATG-ATAACCCG
* * * *
55802096 CACGAATGCCTTCGGGT
64 CACCAAGGCCTACGGGA
* * * *
55802113 CTTAGCCCGGATATAGCCACTAGCACCATTGCCTTCGGGTCTTAACCCGG
1 CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGG
55802163 TTATAATTTC
Statistics
Matches: 104, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
78 2 0.02
79 65 0.62
80 36 0.35
81 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (80 bp):
CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACCCGCA
CCAAGGCCTACGGGA
Found at i:55802107 original size:40 final size:40
Alignment explanation
Indices: 55802055--55802162 Score: 135
Period size: 40 Copynumber: 2.7 Consensus size: 40
55802045 TATCACGATT
** *
55802055 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
55802095 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
55802135 GCACCATTGCCTTCGGGTCTTAACCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
55802163 TTATAATTTC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.21, C:0.31, G:0.25, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
Found at i:55810395 original size:27 final size:28
Alignment explanation
Indices: 55810339--55810408 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
55810329 AAATTTGTAC
55810339 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
55810367 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
55810394 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
55810409 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:55810419 original size:27 final size:27
Alignment explanation
Indices: 55810339--55810420 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
55810329 AAATTTGTAC
* *
55810339 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
55810367 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
55810394 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
55810421 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:55813607 original size:43 final size:42
Alignment explanation
Indices: 55813560--55813654 Score: 120
Period size: 42 Copynumber: 2.2 Consensus size: 42
55813550 AGACGTGGTT
*
55813560 TTACATGTAATCAAATATCGATGCC-ACTATCCCAGACAGGGTC
1 TTACATGTAATCAAATAT-GATGCCAAC-ATCCCAAACAGGGTC
* * *
55813603 TTACATGAAATCAAATATGATGCCAACGTCCCAAACATGGTC
1 TTACATGTAATCAAATATGATGCCAACATCCCAAACAGGGTC
*
55813645 TTACACGTAA
1 TTACATGTAA
55813655 ATCATAAGTC
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
42 26 0.58
43 19 0.42
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.25
Consensus pattern (42 bp):
TTACATGTAATCAAATATGATGCCAACATCCCAAACAGGGTC
Found at i:55813657 original size:43 final size:44
Alignment explanation
Indices: 55813537--55813693 Score: 135
Period size: 43 Copynumber: 3.6 Consensus size: 44
55813527 AGCTCGTACA
* * * *
55813537 ATGCCAACGACCTAGACGTGGTTTTACATGT-AATCAAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACATGTAAATCAAATATCG
* *
55813580 ATGCC-ACTATCCCAGACAGGGTCTTACATG-AAATCAAATAT-G
1 ATGCCAAC-GTCCCAGACATGGTCTTACATGTAAATCAAATATCG
* * * *
55813622 ATGCCAACGTCCCAAACATGGTCTTACACGTAAATCATAA-GTCA
1 ATGCCAACGTCCCAGACATGGTCTTACATGTAAATCA-AATATCG
* * * *
55813666 ATGCCAACATCTCAGTCATTGTCTTACA
1 ATGCCAACGTCCCAGACATGGTCTTACA
55813694 CAAAAACACA
Statistics
Matches: 91, Mismatches: 17, Indels: 11
0.76 0.14 0.09
Matches are distributed among these distances:
42 26 0.29
43 40 0.44
44 25 0.27
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (44 bp):
ATGCCAACGTCCCAGACATGGTCTTACATGTAAATCAAATATCG
Found at i:55818541 original size:40 final size:38
Alignment explanation
Indices: 55818441--55818583 Score: 137
Period size: 40 Copynumber: 3.6 Consensus size: 38
55818431 ATTGAATGAT
* * * *
55818441 ATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT-TAC
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCT---AGTCTAC
*
55818481 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTAC
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGT--CTAC
* *
55818521 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 ATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTC-TAC
55818560 TATCCGGGCTAAGACCCGAAGGCA
1 -ATCCGGGCTAAGACCCGAAGGCA
55818584 TTTGAGCACA
Statistics
Matches: 88, Mismatches: 8, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
37 2 0.02
38 1 0.01
39 5 0.06
40 80 0.91
ACGTcount: A:0.27, C:0.26, G:0.27, T:0.20
Consensus pattern (38 bp):
ATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTCTAC
Found at i:55818604 original size:40 final size:40
Alignment explanation
Indices: 55818481--55818606 Score: 137
Period size: 40 Copynumber: 3.1 Consensus size: 40
55818471 TGGAAATTAC
* * * * *
55818481 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTTAT
* ** *
55818521 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTCT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTTAT
* *
55818561 ATCCGGGCTAAGACCCGAAGGCATTTGAGC-ACATGGTTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGGTTAT
55818601 ATCCGG
1 ATCCGG
55818607 TTATATTCCG
Statistics
Matches: 70, Mismatches: 15, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
39 1 0.01
40 69 0.99
ACGTcount: A:0.25, C:0.25, G:0.29, T:0.22
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTTAT
Found at i:55820403 original size:25 final size:25
Alignment explanation
Indices: 55820374--55820421 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
55820364 TTATAATATG
* * *
55820374 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
55820399 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
55820422 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:55820490 original size:20 final size:20
Alignment explanation
Indices: 55820465--55820543 Score: 149
Period size: 20 Copynumber: 4.0 Consensus size: 20
55820455 TAAATATGGT
55820465 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
55820485 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
55820505 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
55820525 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
55820544 GGTAATCATA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 58 1.00
ACGTcount: A:0.38, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:55820525 original size:11 final size:11
Alignment explanation
Indices: 55820469--55820543 Score: 63
Period size: 11 Copynumber: 7.4 Consensus size: 11
55820459 TATGGTATGT
55820469 ATGATATGCAC
1 ATGATATGCAC
* *
55820480 ATGAAATG--T
1 ATGATATGCAC
55820489 ATGATATGCAC
1 ATGATATGCAC
* *
55820500 ATGAAATG--T
1 ATGATATGCAC
55820509 ATGATATGCAC
1 ATGATATGCAC
*
55820520 ATGATATG--T
1 ATGATATGCAC
55820529 ATGATATGCAC
1 ATGATATGCAC
55820540 ATGA
1 ATGA
55820544 GGTAATCATA
Statistics
Matches: 48, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
9 22 0.46
11 26 0.54
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:55820653 original size:23 final size:24
Alignment explanation
Indices: 55820594--55820735 Score: 193
Period size: 24 Copynumber: 6.0 Consensus size: 24
55820584 GAGGAAGTGA
55820594 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
55820618 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
55820642 AAAA-GGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
55820664 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* *
55820688 GAAAGGGCTT-TGGCCCCAGTTATT
1 AAAAGGGCTTAT-GCCCCAGTTATC
*
55820712 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
55820736 ATGATAAAGC
Statistics
Matches: 109, Mismatches: 3, Indels: 11
0.89 0.02 0.09
Matches are distributed among these distances:
22 4 0.04
23 37 0.34
24 57 0.52
25 11 0.10
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:55820966 original size:31 final size:31
Alignment explanation
Indices: 55820928--55820991 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
55820918 CGTTTACAAT
*
55820928 AAAGGCTTTGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
55820959 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
55820990 AA
1 AA
55820992 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:55827491 original size:44 final size:42
Alignment explanation
Indices: 55827406--55827512 Score: 115
Period size: 44 Copynumber: 2.5 Consensus size: 42
55827396 ATGCCAACGT
* *
55827406 CCAAGACAGGGTCTTACACGAAATCAAATACGATGACAATGTC
1 CCAA-ACATGGTCTTACACGAAATCAAATACGATGACAATGTA
* ** * *
55827449 CCAAACGTGGTCTTACACGTAAATCCTATGTCGATGCCAATGTA
1 CCAAACATGGTCTTACACG-AAATCAAAT-ACGATGACAATGTA
*
55827493 CCAGACATGGTCTTACACGA
1 CCAAACATGGTCTTACACGA
55827513 CAACACATAT
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
42 13 0.25
43 12 0.23
44 28 0.53
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (42 bp):
CCAAACATGGTCTTACACGAAATCAAATACGATGACAATGTA
Found at i:55832811 original size:40 final size:40
Alignment explanation
Indices: 55832741--55832955 Score: 303
Period size: 40 Copynumber: 5.4 Consensus size: 40
55832731 AAGCCAAGTA
* * * * *
55832741 CCTTCGGGATTTA-ACCAGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
55832780 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
55832820 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
55832860 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
55832900 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAG-AGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA-CAAATG
55832940 CCTTCGGGACTTAGCC
1 CCTTCGGGACTTAGCC
55832956 TGGTTATCAT
Statistics
Matches: 163, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
39 14 0.09
40 149 0.91
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:55834993 original size:79 final size:80
Alignment explanation
Indices: 55834892--55835076 Score: 189
Period size: 79 Copynumber: 2.3 Consensus size: 80
55834882 ACGACTCGCT
* ** * *
55834892 CAAATGCCTTCGAGACGAAGCCCGG-TTATAGTGACCCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCG-GGCTTAGCCCGGATT-TAGTAACCCGCACGAATGCCTTC-GGATCCTAACCC
* *
55834955 GGGTTTAGTAACTT-GCA
63 GGATATAGTAACTTAGCA
* * * **
55834972 CAAATGCCTTCGGGCTTAGCCCGGATTTATTAACTCGTACGAATGCCTTCGGATCCTAGTCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGATTTAGTAACCCGCACGAATGCCTTCGGATCCTAACCCGGA
*
55835037 TATAGTCACTTAGCA
66 TATAGTAACTTAGCA
55835052 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
55835077 CATCATTTGA
Statistics
Matches: 88, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
78 3 0.03
79 53 0.60
80 32 0.36
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGGCTTAGCCCGGATTTAGTAACCCGCACGAATGCCTTCGGATCCTAACCCGGA
TATAGTAACTTAGCA
Found at i:55835006 original size:39 final size:40
Alignment explanation
Indices: 55834892--55835076 Score: 162
Period size: 40 Copynumber: 4.7 Consensus size: 40
55834882 ACGACTCGCT
* ** * **
55834892 CAAATGCCTTCGAGACGAAGCCCGG-TTATAGTGACCCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTTGCA
* * *
55834932 CGAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCA
* * *
55834972 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCA
* * * * *
55835011 CGAATGCCTTC-GGATCCTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTT-GCA
55835052 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
55835077 CATCATTTGA
Statistics
Matches: 115, Mismatches: 25, Indels: 10
0.77 0.17 0.07
Matches are distributed among these distances:
38 2 0.02
39 30 0.26
40 73 0.63
41 10 0.09
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCA
Found at i:55837499 original size:11 final size:10
Alignment explanation
Indices: 55837469--55837510 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
55837459 ACATGAGAGC
55837469 CTTTCTTTTT
1 CTTTCTTTTT
*
55837479 TTTTCTTTTT
1 CTTTCTTTTT
55837489 CTTTCTCTTTT
1 CTTTCT-TTTT
*
55837500 CTTTTTTTTT
1 CTTTCTTTTT
55837510 C
1 C
55837511 ATCATTTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
10 19 0.68
11 9 0.32
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (10 bp):
CTTTCTTTTT
Found at i:55844103 original size:40 final size:40
Alignment explanation
Indices: 55844041--55844258 Score: 325
Period size: 40 Copynumber: 5.5 Consensus size: 40
55844031 AAGCCAAGTA
* * * *
55844041 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
55844080 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
55844120 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
55844160 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
55844200 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
55844240 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
55844259 TTATCATCCA
Statistics
Matches: 167, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 13 0.08
40 154 0.92
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:55845531 original size:10 final size:10
Alignment explanation
Indices: 55845516--55845550 Score: 52
Period size: 10 Copynumber: 3.3 Consensus size: 10
55845506 CATGAGAGCC
55845516 TTTCTTTTTT
1 TTTCTTTTTT
55845526 TTTCTTTTTCT
1 TTTCTTTTT-T
55845537 TTCTCTTTTTT
1 TT-TCTTTTTT
55845548 TTT
1 TTT
55845551 TTTCATCATC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 10 0.43
11 6 0.26
12 7 0.30
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTCTTTTTT
Found at i:55845540 original size:20 final size:19
Alignment explanation
Indices: 55845515--55845554 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
55845505 ACATGAGAGC
*
55845515 CTTTCTTTTTTTTTCTTTTT
1 CTTTCTCTTTTTTT-TTTTT
55845535 CTTTCTCTTTTTTTTTTTT
1 CTTTCTCTTTTTTTTTTTT
55845554 C
1 C
55845555 ATCATCATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.82
Consensus pattern (19 bp):
CTTTCTCTTTTTTTTTTTT
Found at i:55849063 original size:24 final size:26
Alignment explanation
Indices: 55849000--55849071 Score: 94
Period size: 24 Copynumber: 2.8 Consensus size: 26
55848990 AGACTCACCA
*
55849000 CAACTCGTATGAGCTTACCGATATAT
1 CAACTCGTATGAGCTTACTGATATAT
* * *
55849026 CATCTCGTAAGAGCTTACTG-T-TCT
1 CAACTCGTATGAGCTTACTGATATAT
55849050 CAACTCGTATGAGCTTACTGAT
1 CAACTCGTATGAGCTTACTGAT
55849072 TTAGCTCATC
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
24 20 0.51
25 2 0.05
26 17 0.44
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (26 bp):
CAACTCGTATGAGCTTACTGATATAT
Found at i:55849090 original size:23 final size:23
Alignment explanation
Indices: 55849035--55849114 Score: 85
Period size: 23 Copynumber: 3.4 Consensus size: 23
55849025 TCATCTCGTA
* *
55849035 AGAGCTTACTGTTCTCAACTC-GT
1 AGAGCTTACTGTT-TCAGCTCAAT
55849058 ATGAGCTTACTGATTT-AGCTC-AT
1 A-GAGCTTACTG-TTTCAGCTCAAT
55849081 CAGAGCTTACTGTTTCAGCTCAAT
1 -AGAGCTTACTGTTTCAGCTCAAT
55849105 AGAGCTTACT
1 AGAGCTTACT
55849115 ATCCATCAGC
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
22 3 0.06
23 31 0.62
24 14 0.28
25 2 0.04
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (23 bp):
AGAGCTTACTGTTTCAGCTCAAT
Found at i:55852381 original size:42 final size:42
Alignment explanation
Indices: 55852269--55852423 Score: 177
Period size: 42 Copynumber: 3.7 Consensus size: 42
55852259 TATCGTACCA
* * * *
55852269 ATGCCATATCCCAGATATAGTCTTACATGTAA-TCTCGTATGG
1 ATGCCATATCCCAGATATGGTCTTACACG-AAGTCTCATATAG
* * *
55852311 ATGCAAATAGCCCAGCTATGGTCTTACACGAAGTCTCATATAG
1 ATGC-CATATCCCAGATATGGTCTTACACGAAGTCTCATATAG
* * *
55852354 ATGCCATATCCCATATATGGTCTTACACAAAGTCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATAG
* *
55852396 ATTCCATATCCCAAATATGGTCTTACAC
1 ATGCCATATCCCAGATATGGTCTTACAC
55852424 ATTATCTCAA
Statistics
Matches: 96, Mismatches: 15, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
42 64 0.67
43 32 0.33
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATAG
Found at i:55852889 original size:19 final size:19
Alignment explanation
Indices: 55852865--55852903 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
55852855 TTGATTTGAA
55852865 GGAAAATATGGGCTATTAT
1 GGAAAATATGGGCTATTAT
*
55852884 GGAAAATGTGGGCTATTAT
1 GGAAAATATGGGCTATTAT
55852903 G
1 G
55852904 AGCATATGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.05, G:0.31, T:0.31
Consensus pattern (19 bp):
GGAAAATATGGGCTATTAT
Found at i:55857270 original size:7 final size:6
Alignment explanation
Indices: 55857220--55857262 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
55857210 TTAATTTTAA
* * *
55857220 ATTTTCT ATTTCT ATTTTT AGTTTT ATTTTT ATTTTT CTTTTT
1 ATTTT-T ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
55857263 TATCTTTTCC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
6 27 0.87
7 4 0.13
ACGTcount: A:0.14, C:0.07, G:0.02, T:0.77
Consensus pattern (6 bp):
ATTTTT
Found at i:55860348 original size:38 final size:38
Alignment explanation
Indices: 55860273--55860348 Score: 91
Period size: 38 Copynumber: 2.0 Consensus size: 38
55860263 AACAAAAGGT
** *
55860273 TTTGGAATAGTCGAAAGCCAAACCTGAGACATTAGTTA
1 TTTGGAATAGTCGAAAGCCAAACCCAAGACATCAGTTA
* *
55860311 TTTGGAATAGTC-AGAATCCAAACCCAAGAGATCAGTTA
1 TTTGGAATAGTCGA-AAGCCAAACCCAAGACATCAGTTA
55860349 GGTAAGTTCA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
37 1 0.03
38 31 0.97
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (38 bp):
TTTGGAATAGTCGAAAGCCAAACCCAAGACATCAGTTA
Found at i:55864006 original size:25 final size:25
Alignment explanation
Indices: 55863960--55864007 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
55863950 ATTTCTTATC
**
55863960 TTTAGTTTTTATTTCTTTTTAGATG
1 TTTAGTTTTTATTTCTAGTTAGATG
55863985 TTTA-TTTTTATTTCCTAGTTAGA
1 TTTAGTTTTTATTT-CTAGTTAGA
55864008 ATTTTTGCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.19, C:0.06, G:0.10, T:0.65
Consensus pattern (25 bp):
TTTAGTTTTTATTTCTAGTTAGATG
Found at i:55865999 original size:56 final size:53
Alignment explanation
Indices: 55865906--55866014 Score: 132
Period size: 56 Copynumber: 2.0 Consensus size: 53
55865896 ATGAAAAAAA
55865906 AAAGAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCG-AATGTACTAAGG
1 AAAGAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAAT-TACTAAGG
***
55865959 AAAGAAAAGAAAAATTTGTTCATCCTT-TCTCATCTTCTTGGCCGAAATTACTAAGG
1 AAAGAAAA-AAAAA--TGTTCATCCTTCTC-CATAGGCTTGGCCGAAATTACTAAGG
55866015 GAAAAGGGGA
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
53 8 0.17
54 5 0.10
55 2 0.04
56 30 0.62
57 3 0.06
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (53 bp):
AAAGAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAATTACTAAGG
Found at i:55867274 original size:40 final size:40
Alignment explanation
Indices: 55867208--55867374 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
55867198 AAATTGAATG
* * *
55867208 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
55867247 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
55867287 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
55867327 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
55867367 ATATCCGG
1 ATATCCGG
55867375 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:55875315 original size:39 final size:40
Alignment explanation
Indices: 55875192--55875357 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
55875182 AAATTGAATG
* * *
55875192 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTAATT
* * ***
55875231 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTAATT
*
55875271 ATATCCGGGCTAAG-CCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTAATT
* * *
55875310 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTAATT
55875350 ATATCCGG
1 ATATCCGG
55875358 TTATATTCCG
Statistics
Matches: 104, Mismatches: 17, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
38 3 0.03
39 44 0.42
40 55 0.53
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTAATT
Found at i:55875324 original size:79 final size:79
Alignment explanation
Indices: 55875192--55875341 Score: 205
Period size: 79 Copynumber: 1.9 Consensus size: 79
55875182 AAATTGAATG
*
55875192 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAA
1 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
55875257 TTGTGCTAGTGGCT
66 TTGTGCTAGTGGCT
* * ** *
55875271 ATATCCGGGCTAAGCCCGAAGGC-ATTCGTGC-GAGTTATTCTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGCCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGC
*
55875334 ATTTGTGC
64 AATTGTGC
55875342 ACGTGATTAT
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
78 4 0.06
79 58 0.94
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (79 bp):
ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCTAGTGGCT
Found at i:55884335 original size:40 final size:40
Alignment explanation
Indices: 55884290--55884456 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
55884280 CGGAATATAA
55884290 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
55884330 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
55884370 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
55884410 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
55884449 CCGGATAT
1 CCGGATAT
55884457 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:55884440 original size:80 final size:79
Alignment explanation
Indices: 55884306--55884456 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
55884296 ATAATCACGT
*
55884306 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
55884371 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
55884386 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
55884449 CCGGATAT
64 CCGGATAT
55884457 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:55890020 original size:43 final size:43
Alignment explanation
Indices: 55889951--55890056 Score: 149
Period size: 43 Copynumber: 2.5 Consensus size: 43
55889941 TCCCGGATAT
* * *
55889951 GGTCTTACATGTTATCACATATCGATGCCACTGTCCCAGACAG
1 GGTCTTACATGTAATCACATAACGATGCCAATGTCCCAGACAG
* * * *
55889994 GGTCTTACATGAAATCATATAACGATGCCAATTTCCCAGACAT
1 GGTCTTACATGTAATCACATAACGATGCCAATGTCCCAGACAG
55890037 GGTCTTACATGTAATCACAT
1 GGTCTTACATGTAATCACAT
55890057 CTGGGTAATC
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (43 bp):
GGTCTTACATGTAATCACATAACGATGCCAATGTCCCAGACAG
Found at i:55893590 original size:18 final size:18
Alignment explanation
Indices: 55893567--55893660 Score: 131
Period size: 18 Copynumber: 5.4 Consensus size: 18
55893557 CAAGGTCACG
55893567 ATCAATAGCGTCACTATC
1 ATCAATAGCGTCACTATC
*
55893585 ATCAATAGCGTCACTAGC
1 ATCAATAGCGTCACTATC
* *
55893603 ATCAATATCGTCACTAGC
1 ATCAATAGCGTCACTATC
*
55893621 ATCAATATCGTCACTATC
1 ATCAATAGCGTCACTATC
55893639 ATCAATAGCGT---TATC
1 ATCAATAGCGTCACTATC
55893654 ATCAATA
1 ATCAATA
55893661 AGAAAACCTT
Statistics
Matches: 72, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
15 11 0.15
18 61 0.85
ACGTcount: A:0.35, C:0.26, G:0.11, T:0.29
Consensus pattern (18 bp):
ATCAATAGCGTCACTATC
Found at i:55893602 original size:27 final size:27
Alignment explanation
Indices: 55893568--55893649 Score: 101
Period size: 27 Copynumber: 3.0 Consensus size: 27
55893558 AAGGTCACGA
55893568 TCAATAGCGTCACTATCATCAATAGCG
1 TCAATAGCGTCACTATCATCAATAGCG
* * * * * *
55893595 TCACTAGCATCAATATCGTCACTAGCA
1 TCAATAGCGTCACTATCATCAATAGCG
*
55893622 TCAATATCGTCACTATCATCAATAGCG
1 TCAATAGCGTCACTATCATCAATAGCG
55893649 T
1 T
55893650 TATCATCAAT
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.28
Consensus pattern (27 bp):
TCAATAGCGTCACTATCATCAATAGCG
Found at i:55899964 original size:14 final size:15
Alignment explanation
Indices: 55899947--55899984 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
55899937 TTATTATCTC
55899947 TTATTATTATTTTT-
1 TTATTATTATTTTTA
*
55899961 TTATTATAATTTTTA
1 TTATTATTATTTTTA
*
55899976 TAATTATTA
1 TTATTATTA
55899985 AGTATTTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TTATTATTATTTTTA
Found at i:55900747 original size:21 final size:20
Alignment explanation
Indices: 55900721--55900776 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 20
55900711 AAGAAATCAC
55900721 AAAAAATAA-AGAATAGAAAAT
1 AAAAAATAATA-AATA-AAAAT
55900742 AAAAAATAATTAAATAAAAAT
1 AAAAAATAA-TAAATAAAAAT
*
55900763 AAAAAAAAATAAAT
1 AAAAAATAATAAAT
55900777 CGAATTGAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
20 5 0.16
21 22 0.69
22 4 0.12
23 1 0.03
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.18
Consensus pattern (20 bp):
AAAAAATAATAAATAAAAAT
Found at i:55900770 original size:10 final size:10
Alignment explanation
Indices: 55900737--55900775 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
55900727 TAAAGAATAG
55900737 AAAATAAAAA
1 AAAATAAAAA
* *
55900747 ATAATTAAATA
1 A-AAATAAAAA
55900758 AAAATAAAAA
1 AAAATAAAAA
55900768 AAAATAAA
1 AAAATAAA
55900776 TCGAATTGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
10 16 0.67
11 8 0.33
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (10 bp):
AAAATAAAAA
Found at i:55904851 original size:18 final size:18
Alignment explanation
Indices: 55904802--55904851 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
55904792 TAATATTTTT
* *
55904802 AGGTTTAGGGTTTAAATA
1 AGGTTTAAGGTTTTAATA
55904820 A--TATTAAGGTTTTTAATA
1 AGGT-TTAAGG-TTTTAATA
55904838 AGGTTTAAGGTTTT
1 AGGTTTAAGGTTTT
55904852 TCAAAAAGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
16 1 0.04
17 5 0.19
18 13 0.50
19 6 0.23
20 1 0.04
ACGTcount: A:0.32, C:0.00, G:0.22, T:0.46
Consensus pattern (18 bp):
AGGTTTAAGGTTTTAATA
Found at i:55904860 original size:20 final size:20
Alignment explanation
Indices: 55904823--55904875 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
55904813 TTAAATAATA
* *
55904823 TTAAGGTTTTT-AATAAGGT
1 TTAAGGTTTTTCAAAAAGGG
55904842 TTAAGGTTTTTCAAAAAGGG
1 TTAAGGTTTTTCAAAAAGGG
* *
55904862 TTCAGGGTTTTCAA
1 TTAAGGTTTTTCAA
55904876 CTGAAATCGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 11 0.38
20 18 0.62
ACGTcount: A:0.30, C:0.06, G:0.23, T:0.42
Consensus pattern (20 bp):
TTAAGGTTTTTCAAAAAGGG
Found at i:55917038 original size:40 final size:40
Alignment explanation
Indices: 55916979--55917146 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
55916969 AAATTGAATG
* * * *
55916979 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* ***
55917019 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
55917059 ATATCCGGGCTAAGACCCAAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
55917099 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
55917139 ATATCCGG
1 ATATCCGG
55917147 TTATATTCCG
Statistics
Matches: 105, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 3 0.03
40 100 0.95
41 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:55921812 original size:30 final size:30
Alignment explanation
Indices: 55921778--55921839 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
55921768 AATTTTCCAT
55921778 TTTAGTTGATGCATTATGTACATTTATTCA
1 TTTAGTTGATGCATTATGTACATTTATTCA
55921808 TTTAGTTGATGCATTATGTACATTTATTCA
1 TTTAGTTGATGCATTATGTACATTTATTCA
55921838 TT
1 TT
55921840 CTTGTGCTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.26, C:0.10, G:0.13, T:0.52
Consensus pattern (30 bp):
TTTAGTTGATGCATTATGTACATTTATTCA
Found at i:55923745 original size:18 final size:18
Alignment explanation
Indices: 55923722--55923762 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
55923712 ATGATCTTAT
55923722 ATCTATATTTTTCAGTAA
1 ATCTATATTTTTCAGTAA
55923740 ATCTATATTTTTCAGTAA
1 ATCTATATTTTTCAGTAA
55923758 ATCTA
1 ATCTA
55923763 ACTTTGTACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.34, C:0.12, G:0.05, T:0.49
Consensus pattern (18 bp):
ATCTATATTTTTCAGTAA
Found at i:55927805 original size:46 final size:46
Alignment explanation
Indices: 55927752--55927927 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
55927742 GGATTTGGCA
55927752 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
55927798 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
55927843 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
55927891 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55927928 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:55927857 original size:93 final size:93
Alignment explanation
Indices: 55927748--55927919 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
55927738 ACTAGGATTT
* *
55927748 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
55927813 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
55927841 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
55927906 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
55927920 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:55930894 original size:15 final size:15
Alignment explanation
Indices: 55930874--55930942 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
55930864 GTATCTTGGG
55930874 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
55930889 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
55930904 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
55930919 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
55930934 TTTCTTTAT
1 TTTCTTTAT
55930943 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:55930943 original size:30 final size:30
Alignment explanation
Indices: 55930865--55930952 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
55930855 CATAGTATCG
* * * *
55930865 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
55930895 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
55930925 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
55930953 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:55933386 original size:46 final size:46
Alignment explanation
Indices: 55933335--55933510 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
55933325 ATGGTTGGCA
55933335 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
55933381 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
55933426 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
55933474 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55933511 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:55933490 original size:93 final size:93
Alignment explanation
Indices: 55933331--55933502 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
55933321 CTGGATGGTT
* *
55933331 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
55933396 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
55933424 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
55933489 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
55933503 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:55935538 original size:38 final size:39
Alignment explanation
Indices: 55935382--55935528 Score: 217
Period size: 39 Copynumber: 3.8 Consensus size: 39
55935372 GAATGAATGG
55935382 GCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGT
1 GCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGT
55935421 GCGAATTGTGATATCCGGGCTAAG-CCGAAGGCAATTGT
1 GCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGT
* ** *
55935459 ACGAGCTATGATATCCGGGCTAAGCCCGAAGGCAATTGT
1 GCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGT
* *
55935498 GCGAGTTGTGAT-TCCGGGTTAAGTCCCGAAG
1 GCGAATTGTGATATCCGGGCTAAG-CCCGAAG
55935529 CGTTTGTGCG
Statistics
Matches: 98, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
38 44 0.45
39 54 0.55
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.23
Consensus pattern (39 bp):
GCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGT
Found at i:55935564 original size:77 final size:77
Alignment explanation
Indices: 55935396--55935567 Score: 206
Period size: 77 Copynumber: 2.2 Consensus size: 77
55935386 ATTGTGATAT
55935396 CCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCCGAAGGCAATTGTAC
1 CCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCCGAAGGCAATTGTAC
** *
55935461 GAGCTATGATAT
66 GAGCTACCATAA
* * **
55935473 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGAT-TCCGGGTTAAGTCCCGAA-GCGTTTGT
1 CCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAG--CCGAAGGCAATTGT
* *
55935536 GCG-GTTACCATAA
64 ACGAGCTACCATAA
*
55935549 CCGGGCTATGTCCCGAAGG
1 CCGGGCTAAG-CCCGAAGG
55935568 TGTTTTGAAC
Statistics
Matches: 82, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
76 25 0.30
77 52 0.63
78 5 0.06
ACGTcount: A:0.23, C:0.23, G:0.31, T:0.23
Consensus pattern (77 bp):
CCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCCGAAGGCAATTGTAC
GAGCTACCATAA
Found at i:55943445 original size:39 final size:39
Alignment explanation
Indices: 55943391--55943553 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
55943381 TGTGAATGAA
55943391 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
55943430 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
55943469 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
55943508 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
55943548 TGTGCG
1 TGTGCG
55943554 GGTTACCATA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:55943569 original size:40 final size:39
Alignment explanation
Indices: 55943391--55943583 Score: 251
Period size: 39 Copynumber: 4.9 Consensus size: 39
55943381 TGTGAATGAA
* *
55943391 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
55943430 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
55943469 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
55943508 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
55943548 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGG
55943584 TGTTTGAACG
Statistics
Matches: 139, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 99 0.71
40 40 0.29
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:55947588 original size:40 final size:40
Alignment explanation
Indices: 55947533--55947742 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
55947523 AACATTGGAA
55947533 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
55947573 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
55947613 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
55947653 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
55947692 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
55947733 CTATATCCGG
1 ATATATCCGG
55947743 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:55955722 original size:40 final size:40
Alignment explanation
Indices: 55955667--55955876 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
55955657 AACATTGGAA
55955667 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
55955707 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
55955747 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
55955787 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
55955826 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
55955867 CTATATCCGG
1 ATATATCCGG
55955877 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:55959684 original size:28 final size:28
Alignment explanation
Indices: 55959615--55959715 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
55959605 GACAAGATTG
* * * *
55959615 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
55959645 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
55959673 GCACTAAGTGTGCGAG-CTGAATATATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
55959702 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
55959716 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:55959709 original size:29 final size:28
Alignment explanation
Indices: 55959644--55959715 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
55959634 AAAATTGTAC
*
55959644 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
55959672 AGCACTAAGTGTGCGAG-CTGAATATATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
55959701 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
55959716 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:55962041 original size:22 final size:21
Alignment explanation
Indices: 55961988--55962041 Score: 56
Period size: 22 Copynumber: 2.6 Consensus size: 21
55961978 CAAAATTCAT
*
55961988 ATTTTAATTA-TAAAATTTGT
1 ATTTTAATTATTAAAATTTGA
* * *
55962008 ACTTAAATTATTAACATATTGA
1 ATTTTAATTATTAAAAT-TTGA
55962030 ATTTTAATTATT
1 ATTTTAATTATT
55962042 TTTATAATAA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
20 8 0.31
21 5 0.19
22 13 0.50
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.52
Consensus pattern (21 bp):
ATTTTAATTATTAAAATTTGA
Found at i:55970836 original size:40 final size:40
Alignment explanation
Indices: 55970726--55970854 Score: 140
Period size: 40 Copynumber: 3.3 Consensus size: 40
55970716 GGACTAGGAT
* * * **
55970726 CCGAAGGCATTCGTGCGAGTTAATAAATCCGGACTAA-TC
1 CCGAAGGCATTCGTGCAAGTTACTAAACCCGGGTTAAGTC
*
55970765 CCGAAGGC-TTTGTGCAAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCAAGTTACTAAACCCGGGTTAAGTC
* *
55970804 CCGAAGGCATTCGTGCAAGTCACTATAA-CCGGGCTT-CGTC
1 CCGAAGGCATTCGTGCAAGTTACTA-AACCCGGG-TTAAGTC
55970844 CCGAAGGCATT
1 CCGAAGGCATT
55970855 TGAGCGAGTC
Statistics
Matches: 77, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
38 22 0.29
39 18 0.23
40 33 0.43
41 4 0.05
ACGTcount: A:0.26, C:0.26, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCAAGTTACTAAACCCGGGTTAAGTC
Found at i:55978825 original size:39 final size:39
Alignment explanation
Indices: 55978771--55978959 Score: 301
Period size: 39 Copynumber: 4.9 Consensus size: 39
55978761 AATGTTCGAG
55978771 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
*
55978810 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
55978849 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* * *
55978888 TGATA-CCGGGCTAAGCCCGAA-GCAATTGTGTGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
55978925 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
55978960 GGTTACCATA
Statistics
Matches: 139, Mismatches: 8, Indels: 5
0.91 0.05 0.03
Matches are distributed among these distances:
37 18 0.13
38 25 0.18
39 87 0.63
40 9 0.06
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.22
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:55983469 original size:28 final size:29
Alignment explanation
Indices: 55983402--55983502 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
55983392 ATAGTGAATC
*
55983402 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
55983431 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
55983459 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
55983489 CGCACACTTAGTGC
1 CGCACACTTAGTGC
55983503 CGAGACCAAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:55990995 original size:28 final size:29
Alignment explanation
Indices: 55990928--55991028 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
55990918 ATAGTGAATC
*
55990928 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
55990957 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
55990985 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
55991015 CGCACACTTAGTGC
1 CGCACACTTAGTGC
55991029 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:55994268 original size:22 final size:22
Alignment explanation
Indices: 55994243--55994294 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
55994233 ATTTAGGCTT
55994243 TTTGAAATCCATTTTTCAAACA
1 TTTGAAATCCATTTTTCAAACA
55994265 TTTGAAATCCATTTTTCAAACA
1 TTTGAAATCCATTTTTCAAACA
55994287 TTTGAAAT
1 TTTGAAAT
55994295 AAACAAGTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.37, C:0.15, G:0.06, T:0.42
Consensus pattern (22 bp):
TTTGAAATCCATTTTTCAAACA
Found at i:55995537 original size:26 final size:26
Alignment explanation
Indices: 55995508--55995557 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
55995498 TCCAACATGC
55995508 ATTTAGGTCAATTTA-CTCCTAGGGGT
1 ATTTAGGT-AATTTATCTCCTAGGGGT
* *
55995534 ATTTCGGTACTTTATCTCCTAGGG
1 ATTTAGGTAATTTATCTCCTAGGG
55995558 AAAAACTGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (26 bp):
ATTTAGGTAATTTATCTCCTAGGGGT
Found at i:55996839 original size:24 final size:23
Alignment explanation
Indices: 55996812--55996912 Score: 114
Period size: 24 Copynumber: 4.2 Consensus size: 23
55996802 CCAACTCCTG
*
55996812 CTCCTTGATCAGCTTCTAAATCTT
1 CTCCTT-ATCAGCTCCTAAATCTT
* *
55996836 CTCCTTTATTAGCTCCTAAAACCATT
1 CTCC-TTATCAGCTCCT-AAATC-TT
*
55996862 C-CCTTATCAGCTCCTAAATCCT
1 CTCCTTATCAGCTCCTAAATCTT
55996884 CTCCCTTATCAGCTCCTAAATCTT
1 CT-CCTTATCAGCTCCTAAATCTT
55996908 CTCCT
1 CTCCT
55996913 GTCAGCCTTT
Statistics
Matches: 65, Mismatches: 7, Indels: 11
0.78 0.08 0.13
Matches are distributed among these distances:
22 2 0.03
23 7 0.11
24 45 0.69
25 8 0.12
26 3 0.05
ACGTcount: A:0.22, C:0.36, G:0.05, T:0.38
Consensus pattern (23 bp):
CTCCTTATCAGCTCCTAAATCTT
Found at i:55998977 original size:40 final size:39
Alignment explanation
Indices: 55998854--55999047 Score: 226
Period size: 40 Copynumber: 4.9 Consensus size: 39
55998844 TGTGTATGAA
*
55998854 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
55998893 TGTGCGATTTGTGATATCCGGGCTAAGCCCAAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * * *
55998932 TGTGCGAGCTATGATATCCGGGATAAACTCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGC-CCGAAGGCAAT
* *
55998972 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
* * * * * *
55999012 TGTACGGGTTATCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGG
55999048 TGTTTGAACA
Statistics
Matches: 133, Mismatches: 20, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
39 60 0.45
40 72 0.54
41 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:55998978 original size:79 final size:79
Alignment explanation
Indices: 55998865--55999014 Score: 230
Period size: 79 Copynumber: 1.9 Consensus size: 79
55998855 GTGCGAATTG
* * *
55998865 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGATTTGTGATATCCGGGCTAAG-CCCAAAGGC
1 TGATATCCGGGATAAACCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAAGTCCCAAAGGC
55998929 AATTGTGCGAGCTA
66 AATTGTGCGAGCTA
* *
55998943 TGATATCCGGGATAAACTCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGG
1 TGATATCCGGGATAAAC-CCGAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAAGTCCCAAAGG
*
55999008 CATTTGT
65 CAATTGT
55999015 ACGGGTTATC
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
78 15 0.23
79 36 0.56
80 13 0.20
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.25
Consensus pattern (79 bp):
TGATATCCGGGATAAACCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAAGTCCCAAAGGC
AATTGTGCGAGCTA
Found at i:56007012 original size:29 final size:29
Alignment explanation
Indices: 56006980--56007111 Score: 246
Period size: 29 Copynumber: 4.5 Consensus size: 29
56006970 ATAGTGAATC
56006980 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
56007009 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
56007039 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
56007068 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
56007097 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
56007112 GTACAATTTT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 72 0.71
30 29 0.29
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:56007121 original size:59 final size:59
Alignment explanation
Indices: 56006980--56007111 Score: 248
Period size: 59 Copynumber: 2.3 Consensus size: 59
56006970 ATAGTGAATC
56006980 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
*
56007039 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATAT-ATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
56007097 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
56007112 GTACAATTTT
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
58 24 0.33
59 48 0.67
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (59 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:56011947 original size:40 final size:39
Alignment explanation
Indices: 56011902--56012108 Score: 200
Period size: 40 Copynumber: 5.2 Consensus size: 39
56011892 CGGAATACAA
*
56011902 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
56011942 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
56011982 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
56012022 CCGGATTTAGTCACTAGCATAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
* * * * *
56012062 CCGGATTTAACTACTAGCATAAATGTC-TCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
56012101 CCGGATAT
1 CCGGATAT
56012109 CATTTAATTG
Statistics
Matches: 141, Mismatches: 25, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 18 0.13
40 123 0.87
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:56012049 original size:80 final size:81
Alignment explanation
Indices: 56011902--56012106 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 81
56011892 CGGAATACAA
* * * *
56011902 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
56011966 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
56011982 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAG-TC-ACTAGCATAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGA-TTAGAACGACTAGCACAAA
*
56012045 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
* * ** * *
56012062 CCGGATTTAACTACTAGCATAAATGTC-TCGGGACTTAGCCCGGAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
56012107 ATCATTTAAT
Statistics
Matches: 108, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
79 16 0.15
80 87 0.81
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (81 bp):
CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:56014709 original size:39 final size:39
Alignment explanation
Indices: 56014655--56014837 Score: 240
Period size: 40 Copynumber: 4.6 Consensus size: 39
56014645 TGTGTATGAA
*
56014655 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
*
56014694 TGTGCGAGTTGTGATATCCGAGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * * *
56014733 TGTGCGAGCTATGATATCCGGGATAAACTCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGC-CCGAAGGCAAT
* *
56014773 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
* * * *
56014813 TGTGCGGGTTATCATAACCGGGCTA
1 TGTGCGAGTTGTGATATCCGGGCTA
56014838 TGTCCCAAAG
Statistics
Matches: 125, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
39 60 0.48
40 64 0.51
41 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.25
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:56014781 original size:79 final size:79
Alignment explanation
Indices: 56014666--56014818 Score: 245
Period size: 79 Copynumber: 1.9 Consensus size: 79
56014656 GTGCGAATTG
* *
56014666 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGAGCTAAG-CCCGAAGGC
1 TGATATCCGGGATAAACCCGAAGGCAATTGTGCGAGTTGTGATATCCGAGCTAAGTCCCGAAGGC
56014730 AATTGTGCGAGCTA
66 AATTGTGCGAGCTA
* *
56014744 TGATATCCGGGATAAACTCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGG
1 TGATATCCGGGATAAAC-CCGAAGGCAATTGTGCGAGTTGTGATATCCGAGCTAAGTCCCGAAGG
*
56014809 CATTTGTGCG
65 CAATTGTGCG
56014819 GGTTATCATA
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
78 15 0.22
79 36 0.53
80 17 0.25
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.24
Consensus pattern (79 bp):
TGATATCCGGGATAAACCCGAAGGCAATTGTGCGAGTTGTGATATCCGAGCTAAGTCCCGAAGGC
AATTGTGCGAGCTA
Found at i:56017500 original size:32 final size:32
Alignment explanation
Indices: 56017457--56017520 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
56017447 ACACTCAATT
* *
56017457 GAATTTTCGTACATACTTGTACCATCTCGTAC
1 GAATTTCCGTACATACATGTACCATCTCGTAC
56017489 GAATTTCCGTACATACATGTACCATCTCGTAC
1 GAATTTCCGTACATACATGTACCATCTCGTAC
56017521 CAATCTCATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.34
Consensus pattern (32 bp):
GAATTTCCGTACATACATGTACCATCTCGTAC
Found at i:56017665 original size:42 final size:42
Alignment explanation
Indices: 56017599--56017758 Score: 198
Period size: 42 Copynumber: 3.8 Consensus size: 42
56017589 AATCTCGTAA
* * * *
56017599 ACTAAGTGCCAATACGTAGCTGAAGCTAACTCAATCACACAC
1 ACTAAGTGCCAATGCATAGCTGAAGCTATCTCAATCTCACAC
* *
56017641 ACTAAGTGCCAATGCATAGTTGAAGCTATCTTAATCTCGA-AC
1 ACTAAGTGCCAATGCATAGCTGAAGCTATCTCAATCTC-ACAC
* * *
56017683 ACTAAGTGCCAATGCATAG-TCGAAGCTATCTCGATCTCGCAT
1 ACTAAGTGCCAATGCATAGCT-GAAGCTATCTCAATCTCACAC
*
56017725 ACTAAGTGCTAATGCATAGCTGAAGCTATCTCAA
1 ACTAAGTGCCAATGCATAGCTGAAGCTATCTCAA
56017759 ATATTTCCAT
Statistics
Matches: 102, Mismatches: 12, Indels: 8
0.84 0.10 0.07
Matches are distributed among these distances:
41 1 0.01
42 99 0.97
43 2 0.02
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (42 bp):
ACTAAGTGCCAATGCATAGCTGAAGCTATCTCAATCTCACAC
Found at i:56017730 original size:84 final size:84
Alignment explanation
Indices: 56017589--56017755 Score: 221
Period size: 84 Copynumber: 2.0 Consensus size: 84
56017579 GTTACTCGGG
*
56017589 AATCTCGTAAACTAAGTGCCAATACGTAGCTGAAGCTAACTCAATCACACACACTAAGTGCCAAT
1 AATCTCGTAAACTAAGTGCCAATACATAGCTGAAGCTAACTCAATCACACACACTAAGTGCCAAT
*
56017654 GCATAGTTGAAGCTATCTT
66 GCATAGCTGAAGCTATCTT
* * * * * * *
56017673 AATCTCG-AACACTAAGTGCCAATGCATAG-TCGAAGCTATCTCGATCTCGCATACTAAGTGCTA
1 AATCTCGTAA-ACTAAGTGCCAATACATAGCT-GAAGCTAACTCAATCACACACACTAAGTGCCA
56017736 ATGCATAGCTGAAGCTATCT
64 ATGCATAGCTGAAGCTATCT
56017756 CAAATATTTC
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
83 3 0.04
84 69 0.96
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.26
Consensus pattern (84 bp):
AATCTCGTAAACTAAGTGCCAATACATAGCTGAAGCTAACTCAATCACACACACTAAGTGCCAAT
GCATAGCTGAAGCTATCTT
Found at i:56022962 original size:17 final size:18
Alignment explanation
Indices: 56022930--56022963 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
56022920 ACGTGCCAGA
56022930 ATGGGCTAGATGGGCCCG
1 ATGGGCTAGATGGGCCCG
*
56022948 ATGGGCT-GTTGGGCCC
1 ATGGGCTAGATGGGCCC
56022964 ATAATAGGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.12, C:0.24, G:0.44, T:0.21
Consensus pattern (18 bp):
ATGGGCTAGATGGGCCCG
Found at i:56023077 original size:29 final size:28
Alignment explanation
Indices: 56023022--56023142 Score: 134
Period size: 29 Copynumber: 4.2 Consensus size: 28
56023012 GTTAGCATGA
* * *
56023022 ATATGAATGTGACTGGGCCTAACGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
56023050 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* * * *
56023079 ATATACAGGTGGTTTGGGCCTAATAGGCC
1 ATATAAATGT-GATTGGGCCTAATGGGCC
* *
56023108 ATATAAATATGATTGGGCTTAATGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
*
56023136 AGATAAA
1 ATATAAA
56023143 GTATGTGGAT
Statistics
Matches: 77, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
28 32 0.42
29 44 0.57
30 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCCTAATGGGCC
Found at i:56027595 original size:29 final size:29
Alignment explanation
Indices: 56027536--56027625 Score: 101
Period size: 29 Copynumber: 3.1 Consensus size: 29
56027526 GTGAGCATGA
* * *
56027536 ATATGAATGTGA-CTGGGCCTAACAGGCC
1 ATATAAATGTGATTTGGGCCTAATAGGCC
* *
56027564 ATATAAATGTGATTTGGGCCTAATGGGTC
1 ATATAAATGTGATTTGGGCCTAATAGGCC
* * *
56027593 ATATACAGGTGGTTTGGGCCTAATAGGCC
1 ATATAAATGTGATTTGGGCCTAATAGGCC
56027622 ATAT
1 ATAT
56027626 GAGTATGGTT
Statistics
Matches: 51, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
28 11 0.22
29 40 0.78
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.29
Consensus pattern (29 bp):
ATATAAATGTGATTTGGGCCTAATAGGCC
Found at i:56027634 original size:29 final size:29
Alignment explanation
Indices: 56027549--56027650 Score: 100
Period size: 29 Copynumber: 3.6 Consensus size: 29
56027539 TGAATGTGAC
* * *
56027549 TGGGCCTAACAGGCCATATAAATGTGATT
1 TGGGCCTAATAGGCCATATAAGTGTGGTT
* *
56027578 TGGGCCTAATGGGTCATATACAG-GTGGTT
1 TGGGCCTAATAGGCCATATA-AGTGTGGTT
* *
56027607 TGGGCCTAATAGGCCATATGAGTATGG-T
1 TGGGCCTAATAGGCCATATAAGTGTGGTT
* *
56027635 TGGGCTTAATGGGCCA
1 TGGGCCTAATAGGCCA
56027651 GATAGAGGTA
Statistics
Matches: 60, Mismatches: 11, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
28 17 0.28
29 42 0.70
30 1 0.02
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.28
Consensus pattern (29 bp):
TGGGCCTAATAGGCCATATAAGTGTGGTT
Found at i:56028489 original size:20 final size:20
Alignment explanation
Indices: 56028464--56028501 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
56028454 GTTTATTCGC
*
56028464 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
56028484 GATTTTGAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
56028502 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.13, T:0.50
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:56030148 original size:28 final size:28
Alignment explanation
Indices: 56030116--56030184 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
56030106 GCGTAGATCA
56030116 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
56030144 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
56030172 CGATA-TACCCCTA
1 CGAAATTACCCCTA
56030185 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:56038002 original size:40 final size:39
Alignment explanation
Indices: 56037842--56038004 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
56037832 TGTGTATGAA
*
56037842 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
56037881 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
56037920 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
56037959 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
56037999 TGTGCG
1 TGTGCG
56038005 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:56038020 original size:40 final size:39
Alignment explanation
Indices: 56037842--56038035 Score: 253
Period size: 39 Copynumber: 4.9 Consensus size: 39
56037832 TGTGTATGAA
* *
56037842 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
56037881 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
56037920 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
56037959 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
56037999 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
56038036 GTTTGAACGA
Statistics
Matches: 138, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 97 0.70
40 41 0.30
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:56039558 original size:20 final size:20
Alignment explanation
Indices: 56039533--56039570 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
56039523 GTTTATTCGT
*
56039533 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
56039553 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
56039571 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:56041215 original size:28 final size:28
Alignment explanation
Indices: 56041183--56041251 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
56041173 GCGTAGATCA
56041183 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
56041211 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
56041239 CGATA-TACCCCTA
1 CGAAATTACCCCTA
56041252 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:56045420 original size:40 final size:40
Alignment explanation
Indices: 56045354--56045520 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
56045344 AAATTGAATG
* * *
56045354 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
56045393 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
56045433 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
56045473 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
56045513 ATATCCGG
1 ATATCCGG
56045521 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:56053142 original size:40 final size:40
Alignment explanation
Indices: 56053098--56053226 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
56053088 TGCTGGAAAT
* *
56053098 TATATCCGGG-TCAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCT-AAGACCCGAAGGCAATTGTGCGAGTGAC
* * *
56053138 TATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGAC
* * *
56053178 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ATGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGAC
56053218 TATATCCGG
1 TATATCCGG
56053227 TTATATTCCG
Statistics
Matches: 75, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
39 4 0.05
40 68 0.91
41 3 0.04
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGAC
Found at i:56059135 original size:54 final size:53
Alignment explanation
Indices: 56058968--56059135 Score: 149
Period size: 54 Copynumber: 3.1 Consensus size: 53
56058958 GGACGATAGG
* * *
56058968 CATGGGATAATCCATTGTGACAATAAATGTGGGTTAGTCTACCAAGACGATAAA
1 CATGGGATAATCCACTG-GACAATAAACGTGGGTTAGTCTACCAAGACAATAAA
* * * * * * * * * *
56059022 CACGGGATAGTCCGTCAT-GAAAATAAACGTGGGTTAGTCTGCTAGGGCAGTAGA
1 CATGGGATAATCC-AC-TGGACAATAAACGTGGGTTAGTCTACCAAGACAATAAA
* *
56059076 CATGGGATAATCCACTGGGACAATAAACGTGGGATAGTCTACCAACACAATAAA
1 CATGGGATAATCCACT-GGACAATAAACGTGGGTTAGTCTACCAAGACAATAAA
*
56059130 AATGGG
1 CATGGG
56059136 GTAGTCTACT
Statistics
Matches: 84, Mismatches: 26, Indels: 8
0.71 0.22 0.07
Matches are distributed among these distances:
52 1 0.01
53 1 0.01
54 81 0.96
56 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.22
Consensus pattern (53 bp):
CATGGGATAATCCACTGGACAATAAACGTGGGTTAGTCTACCAAGACAATAAA
Found at i:56066550 original size:13 final size:13
Alignment explanation
Indices: 56066532--56066561 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
56066522 GACACGGCCG
56066532 TGTGGCTTACCCA
1 TGTGGCTTACCCA
*
56066545 TGTGGCTTACCCG
1 TGTGGCTTACCCA
56066558 TGTG
1 TGTG
56066562 AGGAAGTCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.10, C:0.27, G:0.30, T:0.33
Consensus pattern (13 bp):
TGTGGCTTACCCA
Found at i:56067402 original size:8 final size:9
Alignment explanation
Indices: 56067377--56067401 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
56067367 TATGTAAGTG
56067377 TTTTTTTTA
1 TTTTTTTTA
56067386 TTTTTTTTA
1 TTTTTTTTA
56067395 TTTTTTT
1 TTTTTTT
56067402 AAGAACAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:56069004 original size:13 final size:13
Alignment explanation
Indices: 56068986--56069018 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
56068976 TTATGTTGAG
56068986 GAGCCAAAGTGCC
1 GAGCCAAAGTGCC
56068999 GAGCCAAAGTGCC
1 GAGCCAAAGTGCC
56069012 GAGCCAA
1 GAGCCAA
56069019 TCGAGTCACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.33, C:0.30, G:0.30, T:0.06
Consensus pattern (13 bp):
GAGCCAAAGTGCC
Found at i:56076194 original size:12 final size:12
Alignment explanation
Indices: 56076177--56076201 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
56076167 AGTGCGACAG
56076177 AAGAGAGAAAGA
1 AAGAGAGAAAGA
56076189 AAGAGAGAAAGA
1 AAGAGAGAAAGA
56076201 A
1 A
56076202 TAACCACGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (12 bp):
AAGAGAGAAAGA
Found at i:56082809 original size:27 final size:27
Alignment explanation
Indices: 56082750--56082864 Score: 130
Period size: 27 Copynumber: 4.3 Consensus size: 27
56082740 GACCTCTATT
* *
56082750 TGTAAAATTA-CCAAATATCCTTG-AA
1 TGTAAAATTATCGAAATACCCTTGTAA
56082775 TTGTAAAATTATCGAAATACCCTTGTAA
1 -TGTAAAATTATCGAAATACCCTTGTAA
* *
56082803 TGAAAAATT-TCTGAAATACCCTTGTAG
1 TGTAAAATTATC-GAAATACCCTTGTAA
56082830 TGTAAAATTATCGAAATACTCC-TGTAA
1 TGTAAAATTATCGAAATAC-CCTTGTAA
*
56082857 GGTAAAAT
1 TGTAAAAT
56082865 GATTGTTTTG
Statistics
Matches: 77, Mismatches: 7, Indels: 9
0.83 0.08 0.10
Matches are distributed among these distances:
26 12 0.16
27 59 0.77
28 6 0.08
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (27 bp):
TGTAAAATTATCGAAATACCCTTGTAA
Done.