Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 184 of 345
Found at i:52345258 original size:40 final size:40
Alignment explanation
Indices: 52345181--52345361 Score: 258
Period size: 40 Copynumber: 4.5 Consensus size: 40
52345171 ACCCAAGTAT
* *
52345181 CTTCGGGACTTAG-CTGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* *
52345220 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
52345260 CTTCGGGATTTAGCCCGGATATAATCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
52345300 CTTCGGGACTTAGCCCGGGTATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
52345340 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
52345362 CATCCGAATA
Statistics
Matches: 126, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 12 0.10
40 113 0.90
41 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:52353214 original size:40 final size:40
Alignment explanation
Indices: 52353137--52353317 Score: 258
Period size: 40 Copynumber: 4.5 Consensus size: 40
52353127 ACCCAAGTAT
* *
52353137 CTTCGGGACTTAG-CTGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* *
52353176 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
52353216 CTTCGGGATTTAGCCCGGATATAATCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
52353256 CTTCGGGACTTAGCCCGGGTATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
52353296 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
52353318 CATCCGAATA
Statistics
Matches: 126, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 12 0.10
40 113 0.90
41 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:52361171 original size:40 final size:40
Alignment explanation
Indices: 52361094--52361274 Score: 258
Period size: 40 Copynumber: 4.5 Consensus size: 40
52361084 ACCCAAGTAT
* *
52361094 CTTCGGGACTTAG-CTGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* *
52361133 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
52361173 CTTCGGGATTTAGCCCGGATATAATCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
52361213 CTTCGGGACTTAGCCCGGGTATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
52361253 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
52361275 CATCCGAATA
Statistics
Matches: 126, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 12 0.10
40 113 0.90
41 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:52364776 original size:40 final size:40
Alignment explanation
Indices: 52364702--52364967 Score: 353
Period size: 40 Copynumber: 6.6 Consensus size: 40
52364692 AACCCAAGTA
* *
52364702 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATG
* *
52364741 CCTTTGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATG
*
52364781 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTA---GCACAAATG
52364824 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATG
52364864 CCTTC-GGACTTAGCCCGG-TATAGCAACTACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTA---GCACAAATG
* * *
52364905 CCTTCGGGACTTAGCCCAGATATAGGAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATG
52364945 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
52364968 CATCCGAATA
Statistics
Matches: 202, Mismatches: 12, Indels: 25
0.85 0.05 0.10
Matches are distributed among these distances:
37 1 0.00
38 9 0.04
39 25 0.12
40 93 0.46
41 15 0.07
42 12 0.06
43 46 0.23
44 1 0.00
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATG
Found at i:52364917 original size:81 final size:82
Alignment explanation
Indices: 52364702--52364963 Score: 408
Period size: 81 Copynumber: 3.2 Consensus size: 82
52364692 AACCCAAGTA
* * *
52364702 CCTTCGGGATTTAG-CCGGATATAGC-A--ACTCGCACAAATGCCTTTGGGTCTTAGCCCGGATA
1 CCTTCGGGACTTAGCCCGG-TATAGCAACTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA
52364763 TAGTCACTAGCACAAATG
65 TAGTCACTAGCACAAATG
52364781 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA
1 CCTTCGGGACTTAGCCC-GGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA
52364846 TAGTCACTAGCACAAATG
65 TAGTCACTAGCACAAATG
*
52364864 CCTTC-GGACTTAGCCCGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTAGCCCAGATAT
1 CCTTCGGGACTTAGCCCGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
** *
52364928 AGGAACTCGCACAAATG
66 AGTCACTAGCACAAATG
52364945 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
52364964 ATATCATCCG
Statistics
Matches: 170, Mismatches: 7, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
79 13 0.08
80 8 0.05
81 69 0.41
82 24 0.14
83 56 0.33
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.23
Consensus pattern (82 bp):
CCTTCGGGACTTAGCCCGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
AGTCACTAGCACAAATG
Found at i:52369013 original size:29 final size:29
Alignment explanation
Indices: 52368979--52369139 Score: 207
Period size: 29 Copynumber: 5.6 Consensus size: 29
52368969 TACTCGATTT
** * *
52368979 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
52369008 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
52369037 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
52369066 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
52369095 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
52369124 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
52369140 ATCTCGTCAC
Statistics
Matches: 116, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
28 2 0.02
29 114 0.98
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:52376260 original size:29 final size:29
Alignment explanation
Indices: 52376226--52376386 Score: 207
Period size: 29 Copynumber: 5.6 Consensus size: 29
52376216 TACTCGATTT
** * *
52376226 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
52376255 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
52376284 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
52376313 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
52376342 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
52376371 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
52376387 ATCTCGTCAC
Statistics
Matches: 116, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
28 2 0.02
29 114 0.98
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:52378460 original size:28 final size:27
Alignment explanation
Indices: 52378398--52378472 Score: 96
Period size: 28 Copynumber: 2.7 Consensus size: 27
52378388 CTTTAGAGTA
*
52378398 TGCCACAAAGGCTTCTTTTTCATAGAT
1 TGCCACAAAGGCTTCCTTTTCATAGAT
* ** *
52378425 CGTTACAAAGGTTTTCCTTTTCATAGAT
1 TGCCACAAAGG-CTTCCTTTTCATAGAT
52378453 TGCCACAAAGGCTTCCTTTT
1 TGCCACAAAGGCTTCCTTTT
52378473 ATGGCTTGTT
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
27 16 0.42
28 22 0.58
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.39
Consensus pattern (27 bp):
TGCCACAAAGGCTTCCTTTTCATAGAT
Found at i:52381395 original size:45 final size:44
Alignment explanation
Indices: 52381318--52381480 Score: 247
Period size: 45 Copynumber: 3.7 Consensus size: 44
52381308 CCGGTATTTC
* *
52381318 GCCTGCTAGGCTC-GAGGCCCGAATAGTGTCTCATCGGCATTATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCA-CGGCATTATA
*
52381362 GCCTGCTAGGCTCAAAGGCCCCAATAGTATCTCACCGGCATTATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCA-CGGCATTATA
*
52381407 GCCTGCTAGGCTCAAAGGCCCGAATAATATCTCACTGGCATTATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCAC-GGCATTATA
*
52381452 GCTTGCTAGGCTCAAAGGCCCGAATAGTA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTA
52381481 CTGTACAATA
Statistics
Matches: 109, Mismatches: 8, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
44 14 0.13
45 95 0.87
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (44 bp):
GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACGGCATTATA
Found at i:52390570 original size:31 final size:31
Alignment explanation
Indices: 52390532--52390595 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
52390522 ATGAAACATA
*
52390532 TTAACTAATTATAGGTATAATGATAAATATG
1 TTAACTAATCATAGGTATAATGATAAATATG
52390563 TTAACTAATCATAGGTATAATGATAAATATG
1 TTAACTAATCATAGGTATAATGATAAATATG
52390594 TT
1 TT
52390596 CTCTTTACTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.44, C:0.05, G:0.12, T:0.39
Consensus pattern (31 bp):
TTAACTAATCATAGGTATAATGATAAATATG
Found at i:52392945 original size:16 final size:17
Alignment explanation
Indices: 52392911--52392949 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
52392901 AATATTTCTT
52392911 AAAAATACTTTCAAGAA
1 AAAAATACTTTCAAGAA
*
52392928 AAAAATACTTTTAA-AA
1 AAAAATACTTTCAAGAA
52392944 AAAAAT
1 AAAAAT
52392950 TAAAATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.64, C:0.08, G:0.03, T:0.26
Consensus pattern (17 bp):
AAAAATACTTTCAAGAA
Found at i:52394817 original size:11 final size:11
Alignment explanation
Indices: 52394784--52394817 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
52394774 TAGGGTTGGG
52394784 TTTTTTCTTTT
1 TTTTTTCTTTT
**
52394795 CCTTTTCTTTT
1 TTTTTTCTTTT
52394806 TTTTTTCTTTT
1 TTTTTTCTTTT
52394817 T
1 T
52394818 GAGGCAGGGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:52398679 original size:40 final size:40
Alignment explanation
Indices: 52398635--52398744 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
52398625 TTCACAATTT
* *
52398635 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
52398675 GCACAATTGCCTTCGGGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
52398715 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
52398745 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:52402121 original size:49 final size:49
Alignment explanation
Indices: 52401957--52402194 Score: 278
Period size: 49 Copynumber: 4.8 Consensus size: 49
52401947 TGAGGTCGAA
* * * * *
52401957 TGTGTAGTACTAAGTACAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA-T-TGGTCACG
* * **
52402008 TGTGTAGTACTAAGGGCAGGCTACTATGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT-GGTCACG
* *
52402058 TGTATAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCACG
* * * *
52402107 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCACG
* * * *
52402156 TGTGTAGTACTATGTGCAAGCTATTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
52402195 GCTTTGGCTA
Statistics
Matches: 161, Mismatches: 25, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
49 86 0.53
50 43 0.27
51 32 0.20
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCACG
Found at i:52405099 original size:38 final size:40
Alignment explanation
Indices: 52404981--52405173 Score: 223
Period size: 40 Copynumber: 4.8 Consensus size: 40
52404971 GGATATAGCT
* *
52404981 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
*
52405021 ACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
*
52405061 ACTCGCAC-AATGCCTTCGGG-CTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * * *
52405099 ACTCGCACAAATGCCTTC-GGATCTTAGTCCAGATATAGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTA
* * * *
52405139 ACTTAGCACAAAAGCCTTCGCGACTTAGCCTGGAT
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGAT
52405174 ATCATTCGAA
Statistics
Matches: 131, Mismatches: 16, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
38 26 0.20
39 21 0.16
40 57 0.44
41 25 0.19
42 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:52405110 original size:78 final size:79
Alignment explanation
Indices: 52404955--52405175 Score: 227
Period size: 78 Copynumber: 2.8 Consensus size: 79
52404945 AAATCACATA
* * *
52404955 CCTTCGGAATTTAACCGGATATAGCTACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTATAGT
1 CCTTCGGAACTTAACCGGATATAGCTACTCGCACAAATGCCTTCGGGACATAGCCCGGATATAGT
52405020 AACTCGCACAAATG
66 AACTCGCACAAATG
* * *
52405034 CCTTCGGGACTTAACCCGGATTTAG-TAACTCGCAC-AATGCCTTCGGG-CTTAGCCCGGA-ATT
1 CCTTCGGAACTTAA-CCGGATATAGCT-ACTCGCACAAATGCCTTCGGGACATAGCCCGGATA-T
52405095 AGTAACTCGCACAAATG
63 AGTAACTCGCACAAATG
* * * * * * * *
52405112 CCTTCGGATCTTAGTCCAGATATAG-TCACTTAGCACAAAAGCCTTCGCGACTTAGCCTGGATAT
1 CCTTCGGAACTTA-ACCGGATATAGCT-AC-TCGCACAAATGCCTTCGGGACATAGCCCGGATAT
52405176 CATTCGAATA
Statistics
Matches: 118, Mismatches: 16, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
77 1 0.01
78 49 0.42
79 30 0.25
80 26 0.22
81 11 0.09
82 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (79 bp):
CCTTCGGAACTTAACCGGATATAGCTACTCGCACAAATGCCTTCGGGACATAGCCCGGATATAGT
AACTCGCACAAATG
Found at i:52406376 original size:58 final size:58
Alignment explanation
Indices: 52406286--52406405 Score: 222
Period size: 58 Copynumber: 2.1 Consensus size: 58
52406276 ATATCGACCT
*
52406286 AAGATGACCGATTGCTTCACTTCTTTCTTCCTCCTCTCAAATCGGCCAAGAAGAACAA
1 AAGATGACCGATTGCTTCACTCCTTTCTTCCTCCTCTCAAATCGGCCAAGAAGAACAA
*
52406344 AAGATGACCGATTGCTTCACTCCTTTCTTCCTCCTCTCAAATCGGCCAAGAAGAACCA
1 AAGATGACCGATTGCTTCACTCCTTTCTTCCTCCTCTCAAATCGGCCAAGAAGAACAA
52406402 AAGA
1 AAGA
52406406 ACACAACTTG
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.26
Consensus pattern (58 bp):
AAGATGACCGATTGCTTCACTCCTTTCTTCCTCCTCTCAAATCGGCCAAGAAGAACAA
Found at i:52408550 original size:15 final size:15
Alignment explanation
Indices: 52408530--52408585 Score: 71
Period size: 15 Copynumber: 3.7 Consensus size: 15
52408520 GTATCTTGGG
52408530 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
52408545 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
52408560 TTT-TTCTA-TCTTGGA
1 TTTCTT-TATTC-TGGA
52408575 TTTCTTTATTC
1 TTTCTTTATTC
52408586 GTTTTCTTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
14 4 0.11
15 27 0.77
16 4 0.11
ACGTcount: A:0.11, C:0.14, G:0.12, T:0.62
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:52410932 original size:98 final size:100
Alignment explanation
Indices: 52410692--52410936 Score: 343
Period size: 98 Copynumber: 2.5 Consensus size: 100
52410682 ATCTATTGTG
* *
52410692 AGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACATGTATA
1 AGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCGGATAACTGTGATCACATGTATA
**
52410757 GTACTAAGGCAGGCTACTACGTGTATCAGATGGTT
66 GTACTAAGGCAGGCTACTACGTGTATCAGATAATT
* * * * * *
52410792 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACGTGTGTA
1 AGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCGGATAACTGTGATCACATGTATA
*
52410855 GTACTAAGTGCAGGCTACTACGTGTATCGGATAATT
66 GTACTAAG-GCAGGCTACTACGTGTATCAGATAATT
* *
52410891 -GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCATACCGGATA
1 AGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCGGATA
52410937 GCTTTGGCTA
Statistics
Matches: 128, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
98 60 0.47
99 25 0.20
100 43 0.34
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (100 bp):
AGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCGGATAACTGTGATCACATGTATA
GTACTAAGGCAGGCTACTACGTGTATCAGATAATT
Found at i:52410936 original size:49 final size:49
Alignment explanation
Indices: 52410693--52410923 Score: 293
Period size: 49 Copynumber: 4.7 Consensus size: 49
52410683 TCTATTGTGA
* * * * *
52410693 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-T
* * * * **
52410744 GATCACATGTATAGTACTAAG-GCAGGCTACTACGTGTATCAGATGGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
52410792 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* *
52410842 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* *
52410891 GGTCGCATGTGTAGTACTATGTGCAGGCTACTA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTA
52410924 TGCATACCGG
Statistics
Matches: 157, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
48 1 0.01
49 97 0.62
50 41 0.26
51 18 0.11
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:52411963 original size:27 final size:27
Alignment explanation
Indices: 52411906--52411968 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
52411896 TTTTGCAGTG
* * *
52411906 ATCTATAAAAAGGAAGCCCTTGTGGCG
1 ATCTATGAAAAGGAAGCCCTTGTGACA
* * *
52411933 ATCTTTGAAAAGGAAGCCTTTGTTACA
1 ATCTATGAAAAGGAAGCCCTTGTGACA
52411960 ATCTATGAA
1 ATCTATGAA
52411969 GGAATGCTTG
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.29
Consensus pattern (27 bp):
ATCTATGAAAAGGAAGCCCTTGTGACA
Found at i:52417277 original size:43 final size:44
Alignment explanation
Indices: 52417230--52417390 Score: 143
Period size: 43 Copynumber: 3.8 Consensus size: 44
52417220 ACATAGGATT
* *
52417230 TCAATATGTG--TTATCGTGTAAGACTATGTCTGGGACGTTGGCA
1 TCAATATGTGATTTA-CGTGTAAGACCATGTCTGGGACATTGGCA
*
52417273 TCAATTTGTGATTTACGTGTAAGACCATGTCTGGGACATTGGCA
1 TCAATATGTGATTTACGTGTAAGACCATGTCTGGGACATTGGCA
* * * * * * *
52417317 TC-TTATTTGATTT-TGTGGAAGACCTTGTCTGGGATAGTGGCA
1 TCAATATGTGATTTACGTGTAAGACCATGTCTGGGACATTGGCA
* * * * *
52417359 CCGATATTTGA-TTACATGTAAGACCACGTCTG
1 TCAATATGTGATTTACGTGTAAGACCATGTCTG
52417391 ATCTATTGGC
Statistics
Matches: 96, Mismatches: 18, Indels: 8
0.79 0.15 0.07
Matches are distributed among these distances:
42 27 0.28
43 37 0.39
44 29 0.30
45 3 0.03
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (44 bp):
TCAATATGTGATTTACGTGTAAGACCATGTCTGGGACATTGGCA
Found at i:52424351 original size:40 final size:40
Alignment explanation
Indices: 52424277--52424454 Score: 191
Period size: 40 Copynumber: 4.5 Consensus size: 40
52424267 GAGTCACGTA
** *
52424277 CCTTCGGGAT-TTAA-CCGGATATAACCACAAGCACAATTG
1 CCTTCGGG-TCTTAACCCGGATATAATAACTAGCACAATTG
* * *
52424316 CCTTCGGGTCTTAACCCGGATTTAGTAACTTGCACAATTG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
* *
52424356 CCTTCGGGTCTTAACCCGGATATAACAACTCGCACGAA-TG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCAC-AATTG
* * * *
52424396 CCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
* *
52424436 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGTCTTAACCCGG
52424455 GTATCATTCA
Statistics
Matches: 119, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 14 0.12
40 102 0.86
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
Found at i:52426619 original size:48 final size:48
Alignment explanation
Indices: 52426456--52426728 Score: 250
Period size: 48 Copynumber: 5.7 Consensus size: 48
52426446 AGTGTAAAAT
* ** * *
52426456 GCCGATGCCATGTCCCGGACATGGTCTTACACTGGCTCTCATGCATCG-G
1 GCCGATGCCATGTCTCAAACATGGTCTTACACTGGCTCGCAT--ATTGAG
* * * * * * *** *
52426505 TGCTGATGGCATGTCCCAGACATGGTCTTACACT-G-ACACATAACAAT
1 -GCCGATGCCATGTCTCAAACATGGTCTTACACTGGCTCGCATATTGAG
* *
52426552 GTCGATTCCATGT-TCCAAACATGGTCTTACACTGGCTCGCATATTGAG
1 GCCGATGCCATGTCT-CAAACATGGTCTTACACTGGCTCGCATATTGAG
* *
52426600 GTCGATGCCATGTCTCAAACATGGTTTTACACTGGCTCGCATATTGAG
1 GCCGATGCCATGTCTCAAACATGGTCTTACACTGGCTCGCATATTGAG
* * *
52426648 GCCGATGCCATGTCTCAAACATGGTCTTACACTGGCTCTCATAATGTG
1 GCCGATGCCATGTCTCAAACATGGTCTTACACTGGCTCGCATATTGAG
* *
52426696 GCCGATGCCATGTC-CTAGACGTGGTCTTACACT
1 GCCGATGCCATGTCTC-AAACATGGTCTTACACT
52426729 AGCACATATA
Statistics
Matches: 188, Mismatches: 29, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
46 28 0.15
47 2 0.01
48 126 0.67
49 2 0.01
50 30 0.16
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.28
Consensus pattern (48 bp):
GCCGATGCCATGTCTCAAACATGGTCTTACACTGGCTCGCATATTGAG
Found at i:52426726 original size:96 final size:95
Alignment explanation
Indices: 52426456--52426794 Score: 324
Period size: 96 Copynumber: 3.5 Consensus size: 95
52426446 AGTGTAAAAT
** * * *
52426456 GCCGATGCCATGTCCCGGACATGGTCTTACACTGGCTCTCATGCATCG-GTGCTGATGGCATGTC
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCAT-AAT-GTG-GCCGATGCCATGTC
* ** *
52426520 CCAGACATGGTCTTACACTG-ACACATAACAAT
63 CTAGACATGGTCTTACACTGCACACATATTAAC
* * * * * * *
52426552 GTCGATTCCATGTTCCAAACATGGTCTTACACTGGCTCGCATATTGAGGTCGATGCCATGT-CTC
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCCATGTCCT-
* * * * * *
52426616 AAACATGGTTTTACACTGGCTCGCATATTGAG
65 AGACATGGTCTTACACT-GCACACATATTAAC
*
52426648 GCCGATGCCATGTCTCAAACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCCATGTCCTA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCCATGTCCTA
* *
52426713 GACGTGGTCTTACACTAGCACATATATTAAC
66 GACATGGTCTTACACT-GCACACATATTAAC
* * * * **
52426744 ACTGATGCCATGTCCCAGACATGGTCCTATGCTGGCTCTCATAATGTGGCC
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGTGGCC
52426795 CGTAACACCC
Statistics
Matches: 194, Mismatches: 44, Indels: 10
0.78 0.18 0.04
Matches are distributed among these distances:
93 1 0.01
94 26 0.13
95 3 0.02
96 162 0.84
97 2 0.01
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (95 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCCATGTCCTA
GACATGGTCTTACACTGCACACATATTAAC
Found at i:52427526 original size:37 final size:36
Alignment explanation
Indices: 52427472--52427545 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 36
52427462 GAACGGGGAG
52427472 TAAACTTCAAAGCTTAGTAACTTCATAAGAAAACAA
1 TAAACTTCAAAGCTTAGTAACTTCATAAGAAAACAA
*
52427508 TAAAGCTTCAAAGCTTAGTAAGTTCATAAGAAAACAA
1 TAAA-CTTCAAAGCTTAGTAACTTCATAAGAAAACAA
52427545 T
1 T
52427546 TAGCAACTCA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 4 0.11
37 32 0.89
ACGTcount: A:0.49, C:0.15, G:0.11, T:0.26
Consensus pattern (36 bp):
TAAACTTCAAAGCTTAGTAACTTCATAAGAAAACAA
Found at i:52428709 original size:43 final size:43
Alignment explanation
Indices: 52428661--52428880 Score: 170
Period size: 43 Copynumber: 5.2 Consensus size: 43
52428651 CTGGCAATAA
52428661 GCCTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTAC
1 GCCTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTAC
* *** * * *
52428704 GCCTGCTAG-GCTCGGAGCCCGATA--ATGTTCACCAGC-TTAAA
1 GCCTGCTAGACCTTTAAGTCCGATATCAT-TTCACCGGCATT-AC
*
52428745 GCTTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTAC
1 GCCTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTAC
* *** * *
52428788 ACCTGCTAGA-CTCGGAG-CCTGATA--ATATTCACCAGC-TTAAA
1 GCCTGCTAGACCTTTAAGTCC-GATATCAT-TTCACCGGCATT-AC
* * * *
52428829 GCTTGCTAGAGCTTTAAGTCTGATATCATTTCAACGGCATTAC
1 GCCTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTAC
52428872 GCCTGCTAG
1 GCCTGCTAG
52428881 GCTCAAAGCC
Statistics
Matches: 131, Mismatches: 32, Indels: 28
0.69 0.17 0.15
Matches are distributed among these distances:
40 8 0.06
41 36 0.27
42 36 0.27
43 43 0.33
44 8 0.06
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (43 bp):
GCCTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTAC
Found at i:52428752 original size:41 final size:40
Alignment explanation
Indices: 52428707--52428838 Score: 122
Period size: 41 Copynumber: 3.2 Consensus size: 40
52428697 GCATTACGCC
*
52428707 TGCTAGGCTCGGAGCCCGATAATGTTCACCAGCTTAAAGCT
1 TGCTAGACTCGGAGCCCGATAAT-TTCACCAGCTTAAAGCT
*** * * * *
52428748 TGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACA-CC
1 TGCTAGA-CTCGGAGCCCGATA--ATTTCACCAGC-TTAAAGCT
*
52428791 TGCTAGACTCGGAGCCTGATAATATTCACCAGCTTAAAGCT
1 TGCTAGACTCGGAGCCCGATAAT-TTCACCAGCTTAAAGCT
52428832 TGCTAGA
1 TGCTAGA
52428839 GCTTTAAGTC
Statistics
Matches: 69, Mismatches: 16, Indels: 12
0.71 0.16 0.12
Matches are distributed among these distances:
40 6 0.09
41 22 0.32
42 19 0.28
43 16 0.23
44 6 0.09
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (40 bp):
TGCTAGACTCGGAGCCCGATAATTTCACCAGCTTAAAGCT
Found at i:52428768 original size:42 final size:40
Alignment explanation
Indices: 52428659--52428853 Score: 117
Period size: 42 Copynumber: 4.7 Consensus size: 40
52428649 CACTGGCAAT
* *
52428659 AAGCCTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATT-
1 AAGCTTGCTAGA-CTTTAAGTCCGATA--ATTTCACCAGC-TTA
* * * *** *
52428702 ACGCCTGCTAGGCTCGGAGCCCGATAATGTTCACCAGCTTA
1 AAGCTTGCTAGACTTTAAGTCCGATAAT-TTCACCAGCTTA
*
52428743 AAGCTTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTA
1 AAGCTTGCTAGA-CTTTAAGTCCGATA--ATTTCACCAGC-TTA
* * ***
52428787 CA-CCTGCTAGACTCGGAG-CCTGATAATATTCACCAGCTTA
1 AAGCTTGCTAGACTTTAAGTCC-GATAAT-TTCACCAGCTTA
*
52428827 AAGCTTGCTAGAGCTTTAAGTCTGATA
1 AAGCTTGCTAGA-CTTTAAGTCCGATA
52428854 TCATTTCAAC
Statistics
Matches: 114, Mismatches: 27, Indels: 23
0.70 0.16 0.14
Matches are distributed among these distances:
40 10 0.09
41 35 0.31
42 36 0.32
43 27 0.24
44 6 0.05
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (40 bp):
AAGCTTGCTAGACTTTAAGTCCGATAATTTCACCAGCTTA
Found at i:52428891 original size:84 final size:84
Alignment explanation
Indices: 52428659--52428893 Score: 380
Period size: 84 Copynumber: 2.8 Consensus size: 84
52428649 CACTGGCAAT
* *
52428659 AAGCCTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCCTGCTAGGCTCGGAGCCC
1 AAGCTTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCCTGCTAGGCTCGGAGCCT
*
52428724 GATAATGTTCACCAGCTTA
66 GATAATATTCACCAGCTTA
* *
52428743 AAGCTTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACACCTGCTAGACTCGGAGCCT
1 AAGCTTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCCTGCTAGGCTCGGAGCCT
52428808 GATAATATTCACCAGCTTA
66 GATAATATTCACCAGCTTA
* * * **
52428827 AAGCTTGCTAGAGCTTTAAGTCTGATATCATTTCAACGGCATTACGCCTGCTAGGCTCAAAGCCT
1 AAGCTTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCCTGCTAGGCTCGGAGCCT
52428892 GA
66 GA
52428894 AATTCATCAC
Statistics
Matches: 139, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
84 139 1.00
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (84 bp):
AAGCTTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCCTGCTAGGCTCGGAGCCT
GATAATATTCACCAGCTTA
Found at i:52428920 original size:84 final size:84
Alignment explanation
Indices: 52428659--52428921 Score: 343
Period size: 84 Copynumber: 3.1 Consensus size: 84
52428649 CACTGGCAAT
*
52428659 AAGCCTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCCTGCTAGGCTCGGAGCCC
1 AAGCCTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCCTGCTAGGCTCGGAGCCT
*
52428724 GATAATGT-TCACCAGCTTA
66 GATAAT-TATCACCAGCATA
* * *
52428743 AAGCTTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACACCTGCTAGACTCGGAGCCT
1 AAGCCTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCCTGCTAGGCTCGGAGCCT
*
52428808 GATAA-TATTCACCAGCTTA
66 GATAATTA-TCACCAGCATA
* * * * **
52428827 AAGCTTGCTAGAGCTTTAAGTCTGATATCATTTCAACGGCATTACGCCTGCTAGGCTCAAAGCCT
1 AAGCCTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCCTGCTAGGCTCGGAGCCT
* *
52428892 GA-AATTCATCACCGGCACA
66 GATAATT-ATCACCAGCATA
*
52428911 AGGCCTGCTAG
1 AAGCCTGCTAG
52428922 GTTTGAAACC
Statistics
Matches: 159, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
82 1 0.01
83 2 0.01
84 155 0.97
85 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (84 bp):
AAGCCTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCCTGCTAGGCTCGGAGCCT
GATAATTATCACCAGCATA
Found at i:52434962 original size:42 final size:42
Alignment explanation
Indices: 52434915--52435046 Score: 117
Period size: 42 Copynumber: 3.1 Consensus size: 42
52434905 ACCTTTAAGT
*
52434915 CCGATATCATTTCACCGGCATTACGCTTGCTAGGCTCGGAGC
1 CCGATATCATTTCACCGGCATTACGCTTGCTAGGCTCGAAGC
* * * ** *
52434957 CCGATA--ATATTCACCAGC-TTAAAGCTTGCTAGACCTTTAAGT
1 CCGATATCAT-TTCACCGGCATT-ACGCTTGCTAG-GCTCGAAGC
* * * *
52434999 CCAATATCATTTCACTGGCATTACCCCTGCTAGGCTCGAAGC
1 CCGATATCATTTCACCGGCATTACGCTTGCTAGGCTCGAAGC
52435041 CCGATA
1 CCGATA
52435047 ATATTCACCA
Statistics
Matches: 66, Mismatches: 18, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
40 4 0.06
41 18 0.27
42 25 0.38
43 15 0.23
44 4 0.06
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (42 bp):
CCGATATCATTTCACCGGCATTACGCTTGCTAGGCTCGAAGC
Found at i:52434971 original size:41 final size:41
Alignment explanation
Indices: 52434925--52435055 Score: 113
Period size: 41 Copynumber: 3.1 Consensus size: 41
52434915 CCGATATCAT
*
52434925 TTCACCGGCATTACGCTTGCTAGGCTCGGAGCCCGATAATA
1 TTCACCGGCATTACGCTTGCTAGGCTCGAAGCCCGATAATA
* * * ** * *
52434966 TTCACCAGC-TTAAAGCTTGCTAGACCTTTAAGTCCAAT-ATCA
1 TTCACCGGCATT-ACGCTTGCTAG-GCTCGAAGCCCGATAAT-A
* * *
52435008 TTTCACTGGCATTACCCCTGCTAGGCTCGAAGCCCGATAATA
1 -TTCACCGGCATTACGCTTGCTAGGCTCGAAGCCCGATAATA
52435050 TTCACC
1 TTCACC
52435056 AGCTTAAAGC
Statistics
Matches: 65, Mismatches: 19, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
40 2 0.03
41 25 0.38
42 19 0.29
43 17 0.26
44 2 0.03
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (41 bp):
TTCACCGGCATTACGCTTGCTAGGCTCGAAGCCCGATAATA
Found at i:52434999 original size:84 final size:84
Alignment explanation
Indices: 52434894--52435126 Score: 358
Period size: 84 Copynumber: 2.8 Consensus size: 84
52434884 CACTGGCAAT
* * *
52434894 AAGCCTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCTTGCTAGGCTCGGAGCCC
1 AAGCTTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCCTGCTAGGCTCGAAGCCC
52434959 GATAATATTCACCAGCTTA
66 GATAATATTCACCAGCTTA
* * *
52434978 AAGCTTGCTAGACCTTTAAGTCCAATATCATTTCACTGGCATTACCCCTGCTAGGCTCGAAGCCC
1 AAGCTTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCCTGCTAGGCTCGAAGCCC
52435043 GATAATATTCACCAGCTTA
66 GATAATATTCACCAGCTTA
* * * * * *
52435062 AAGCTTGGTAGACCTTTAAATCCGATATCATTTCAACGGCATTACGCCTACTAGGATCAAAGCCC
1 AAGCTTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCCTGCTAGGCTCGAAGCCC
52435127 CAAATTCATC
Statistics
Matches: 134, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
84 134 1.00
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.27
Consensus pattern (84 bp):
AAGCTTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCCTGCTAGGCTCGAAGCCC
GATAATATTCACCAGCTTA
Found at i:52437017 original size:14 final size:15
Alignment explanation
Indices: 52436988--52437017 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
52436978 AAAAATTAAG
52436988 ACATGATACTTTCAC
1 ACATGATACTTTCAC
52437003 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
52437017 A
1 A
52437018 TATAATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Found at i:52437177 original size:48 final size:47
Alignment explanation
Indices: 52437120--52437259 Score: 147
Period size: 48 Copynumber: 2.9 Consensus size: 47
52437110 TCACATGGCT
*
52437120 GATGCCATGTCCCAGACTTAATCTTACACTAGCACACATATCAAGACC
1 GATGCCATGTCCCAGACTT-GTCTTACACTAGCACACATATCAAGACC
* * * ** *
52437168 GATGCCATGTCCCAGACATTGTCTTACACTGGCTCTCATAAT-GTGGCC
1 GATGCCATGTCCCAGAC-TTGTCTTACACTAGCACACAT-ATCAAGACC
* * *
52437216 GATGCTATGTCCCAGACATGGTCTTACAGTAGCACACATATCAA
1 GATGCCATGTCCCAGAC-TTGTCTTACACTAGCACACATATCAA
52437260 CCCAATGTCT
Statistics
Matches: 74, Mismatches: 15, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
47 2 0.03
48 68 0.92
49 4 0.05
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (47 bp):
GATGCCATGTCCCAGACTTGTCTTACACTAGCACACATATCAAGACC
Found at i:52444494 original size:44 final size:44
Alignment explanation
Indices: 52444429--52444597 Score: 160
Period size: 46 Copynumber: 3.7 Consensus size: 44
52444419 ATGTAACCAT
52444429 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACATCTCGTA-
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACATCTCG-AG
* * * * * *
52444473 GCCGACGCATGTCCCAAACATGTCTGACAATGGCTAACATCTTGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC--ACATCTCGAG
* * * *
52444519 GCCGATGCATGTCCTAGACATGTCTTACACTAGCACTTGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCAC--ATCTCGAG
* *
52444565 ACCGATGCCATGTCCCAGACATGGACTTACACT
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACT
52444598 GGCTCTCATT
Statistics
Matches: 99, Mismatches: 19, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
44 31 0.31
45 1 0.01
46 45 0.45
47 13 0.13
48 9 0.09
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (44 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCACATCTCGAG
Found at i:52444632 original size:94 final size:90
Alignment explanation
Indices: 52444430--52444643 Score: 234
Period size: 94 Copynumber: 2.3 Consensus size: 90
52444420 TGTAACCATG
*
52444430 CCGATGCATGTCCCAGACATGTCTTACACTAGCACATCTCGTAGCCGACGCATGTCCCAAACATG
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCACATCTCATAGCCGACGCATGTCCCAAACATG
* *
52444495 TCTGACAATGGCTAACATCTTGAGG
66 ACTGACAATGGCTAACATCTTGAGA
* * * *
52444520 CCGATGCATGTCCTAGACATGTCTTACACTAGCACTTGTCTCAATA-CCGATGCCATGTCCCAGA
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCAC--ATCTC-ATAGCCGACG-CATGTCCCAAA
* * ** *
52444584 CATGGACTTACACTGGCTCTCAT-TATGTGA
62 CAT-GACTGACAATGGCTAACATCT-TGAGA
* *
52444614 CTGATGCATGTCCCAGACATGTCTAACACT
1 CCGATGCATGTCCCAGACATGTCTTACACT
52444644 GGCGCACATA
Statistics
Matches: 103, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
90 34 0.33
92 9 0.09
93 16 0.16
94 44 0.43
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (90 bp):
CCGATGCATGTCCCAGACATGTCTTACACTAGCACATCTCATAGCCGACGCATGTCCCAAACATG
ACTGACAATGGCTAACATCTTGAGA
Found at i:52450179 original size:40 final size:40
Alignment explanation
Indices: 52450120--52450271 Score: 162
Period size: 40 Copynumber: 3.8 Consensus size: 40
52450110 CATTGGAATG
* * * *
52450120 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* *
52450160 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTTATT
* * **
52450200 ATATCCGGGCTAAGACCCAAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* * * *
52450240 AAATCCGAGTTAAGACCCGAAGGCAATCGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
52450272 GAATCACTAT
Statistics
Matches: 93, Mismatches: 17, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
39 3 0.03
40 88 0.95
41 2 0.02
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
Found at i:52450254 original size:80 final size:80
Alignment explanation
Indices: 52450120--52450273 Score: 200
Period size: 80 Copynumber: 1.9 Consensus size: 80
52450110 CATTGGAATG
* * * ** * *
52450120 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCAAAGGCAATTATGCAAGTAACCAAATCCGAGCTAAGACCCGAAGGCA
*
52450185 TTCGTGCGAGTTGTT
66 ATCGTGCGAGTTGTT
* * * *
52450200 ATATCCGGGCTAAGACCCAAAGGCATTTGTGCAAGTTACCAAATCCGAGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCAAAGGCAATTATGCAAGTAACCAAATCCGAGCTAAGACCCGAAGGCA
52450265 ATCGTGCGA
66 ATCGTGCGA
52450274 ATCACTATAA
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
80 62 1.00
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCAAAGGCAATTATGCAAGTAACCAAATCCGAGCTAAGACCCGAAGGCA
ATCGTGCGAGTTGTT
Found at i:52456734 original size:26 final size:23
Alignment explanation
Indices: 52456668--52456735 Score: 73
Period size: 24 Copynumber: 2.7 Consensus size: 23
52456658 GTGGGTTTTG
52456668 CACATTATCTGATTCTGGTGTCTGC
1 CACA-TATCTG-TTCTGGTGTCTGC
*
52456693 CACATATCTGTATCTGGTGACTCTGT
1 CACATATCTGT-TCTGGTG--TCTGC
52456719 CACGATATCTGTTCTGG
1 CAC-ATATCTGTTCTGG
52456736 CAGCCATGCT
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
23 1 0.03
24 13 0.34
25 4 0.11
26 12 0.32
27 8 0.21
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.38
Consensus pattern (23 bp):
CACATATCTGTTCTGGTGTCTGC
Found at i:52456867 original size:6 final size:6
Alignment explanation
Indices: 52456852--52456972 Score: 60
Period size: 6 Copynumber: 19.8 Consensus size: 6
52456842 TTGCATTCAC
* *
52456852 ATTCTG -TTCTG ATTCTG -TCACTA ATTCTG ATTCTG ATTCTG A-TCTG
1 ATTCTG ATTCTG ATTCTG AT-TCTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
52456898 -TTACT- ACTAT-TG ATTCTG ATTCTG ATTCTG -TACTAAT ATTTCTG
1 ATT-CTG A-T-TCTG ATTCTG ATTCTG ATTCTG ATTCT--G A-TTCTG
52456942 ATTCTG ATTCTATGG ATT-TG ATTCTG ATTCT
1 ATTCTG ATTC--T-G ATTCTG ATTCTG ATTCT
52456973 CATTTTGGTT
Statistics
Matches: 89, Mismatches: 8, Indels: 36
0.67 0.06 0.27
Matches are distributed among these distances:
5 19 0.21
6 57 0.64
7 4 0.04
8 2 0.02
9 7 0.08
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:52456897 original size:29 final size:29
Alignment explanation
Indices: 52456852--52456952 Score: 118
Period size: 29 Copynumber: 3.4 Consensus size: 29
52456842 TTGCATTCAC
52456852 ATTCTG-TTCTGATTCTGTCACTAATTCTG
1 ATTCTGATTCTGATTCTGT-ACTAATTCTG
*
52456881 ATTCTGATTCTGA-TCTGTTACTACTAT-TG
1 ATTCTGATTCTGATTCTG-TACTAAT-TCTG
52456910 ATTCTGATTCTGATTCTGTACTAATATTTCTG
1 ATTCTGATTCTGATTCTGTACT-A-A-TTCTG
52456942 ATTCTGATTCT
1 ATTCTGATTCT
52456953 ATGGATTTGA
Statistics
Matches: 62, Mismatches: 2, Indels: 13
0.81 0.03 0.17
Matches are distributed among these distances:
29 34 0.55
30 13 0.21
31 1 0.02
32 14 0.23
ACGTcount: A:0.20, C:0.18, G:0.13, T:0.50
Consensus pattern (29 bp):
ATTCTGATTCTGATTCTGTACTAATTCTG
Found at i:52458972 original size:15 final size:16
Alignment explanation
Indices: 52458941--52458973 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
52458931 GTACTCCCGA
52458941 TTTACAGAATTACCGT
1 TTTACAGAATTACCGT
*
52458957 TTTACA-AATTATCGT
1 TTTACAGAATTACCGT
52458972 TT
1 TT
52458974 ACCTCAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.30, C:0.15, G:0.09, T:0.45
Consensus pattern (16 bp):
TTTACAGAATTACCGT
Found at i:52459018 original size:27 final size:27
Alignment explanation
Indices: 52458988--52459400 Score: 537
Period size: 27 Copynumber: 15.6 Consensus size: 27
52458978 CAATTTTTAA
*
52458988 AATTACCGTTTTACCCTCGATTTATAG
1 AATTACCGTTTTACCCTCGATTTACAG
52459015 AATTACCGTTTTACCCTC-AGTTTACAG
1 AATTACCGTTTTACCCTCGA-TTTACAG
*
52459042 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCGTTTTACCCTCGATTTACAG
52459069 AATTACC-TTTTACCCTC-AGTTTACAG
1 AATTACCGTTTTACCCTCGA-TTTACAG
**
52459095 AATTACTATTTTACCCTCGATTTACAG
1 AATTACCGTTTTACCCTCGATTTACAG
** *
52459122 AATTACCGTTTTACCCTC-ATTTGTAA
1 AATTACCGTTTTACCCTCGATTTACAG
*
52459148 AATTACTGTTTTACCCTCGATTTACAG
1 AATTACCGTTTTACCCTCGATTTACAG
52459175 AATTA-CGTTTTACCCTC-AGTTTACAG
1 AATTACCGTTTTACCCTCGA-TTTACAG
52459201 AATTA-C-TTTTACCCTCGATTTACAG
1 AATTACCGTTTTACCCTCGATTTACAG
*
52459226 AATTATCGTTTTACCCTC-AGTTTACAG
1 AATTACCGTTTTACCCTCGA-TTTACAG
*
52459253 AATTACTGTTTTACCCTCGATTTACAG
1 AATTACCGTTTTACCCTCGATTTACAG
** *
52459280 AATTA-C-TTTTACCCTCGATTTGTAA
1 AATTACCGTTTTACCCTCGATTTACAG
52459305 AATTACCGTTTTACCCTCGATTTACAG
1 AATTACCGTTTTACCCTCGATTTACAG
* * *
52459332 AATTACTGGTTTACCCTCG-TTTACAA
1 AATTACCGTTTTACCCTCGATTTACAG
*
52459358 AATTATCGTTTTACCCTCGATTTACAG
1 AATTACCGTTTTACCCTCGATTTACAG
*
52459385 AA-TACTGTTTTACCCT
1 AATTACCGTTTTACCCT
52459401 AATTGTGAAA
Statistics
Matches: 340, Mismatches: 31, Indels: 31
0.85 0.08 0.08
Matches are distributed among these distances:
25 45 0.13
26 108 0.32
27 184 0.54
28 3 0.01
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (27 bp):
AATTACCGTTTTACCCTCGATTTACAG
Found at i:52459106 original size:53 final size:53
Alignment explanation
Indices: 52458988--52459400 Score: 551
Period size: 53 Copynumber: 7.8 Consensus size: 53
52458978 CAATTTTTAA
* *
52458988 AATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCAGTTTACAG
1 AATTACTGTTTTACCCTCGATTTACAGAATTACC-TTTTACCCTCAGTTTACAG
**
52459042 AATTACCATTTTACCCTCGATTTACAGAATTACCTTTTACCCTCAGTTTACAG
1 AATTACTGTTTTACCCTCGATTTACAGAATTACCTTTTACCCTCAGTTTACAG
* *
52459095 AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCATTTGTA-A-
1 AATTACTGTTTTACCCTCGATTTACAGAATTACC-TTTTACCCTCAGTT-TACAG
*
52459148 AATTACTGTTTTACCCTCGATTTACAGAATTACGTTTTACCCTCAGTTTACAG
1 AATTACTGTTTTACCCTCGATTTACAGAATTACCTTTTACCCTCAGTTTACAG
*
52459201 AATTAC--TTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCAGTTTACAG
1 AATTACTGTTTTACCCTCGATTTACAGAATTA-CCTTTTACCCTCAGTTTACAG
*
52459253 AATTACTGTTTTACCCTCGATTTACAGAATTA-CTTTTACCCTCGATTTGTA-A-
1 AATTACTGTTTTACCCTCGATTTACAGAATTACCTTTTACCCTC-AGTT-TACAG
* *
52459305 AATTACCGTTTTACCCTCGATTTACAGAATTA-CTGGTTTACCCTC-GTTTACAA
1 AATTACTGTTTTACCCTCGATTTACAGAATTACCT--TTTACCCTCAGTTTACAG
*
52459358 AATTA-TCGTTTTACCCTCGATTTACAGAA-TACTGTTTTACCCT
1 AATTACT-GTTTTACCCTCGATTTACAGAATTAC-CTTTTACCCT
52459401 AATTGTGAAA
Statistics
Matches: 330, Mismatches: 13, Indels: 34
0.88 0.03 0.09
Matches are distributed among these distances:
51 28 0.08
52 97 0.29
53 121 0.37
54 82 0.25
55 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (53 bp):
AATTACTGTTTTACCCTCGATTTACAGAATTACCTTTTACCCTCAGTTTACAG
Found at i:52459205 original size:79 final size:79
Alignment explanation
Indices: 52458957--52459400 Score: 534
Period size: 79 Copynumber: 5.6 Consensus size: 79
52458947 GAATTACCGT
* ** * *
52458957 TTTACA-AATTATCG-TTTA-CCTCAATTTTTAAAATTACCGTTTTACCCTCGATTTATAGAATT
1 TTTACAGAATTA-CGTTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTACAGAATT
*
52459019 ACCGTTTTACCCTCAG
65 ACTGTTTTACCCTC-G
* * *
52459035 TTTACAGAATTACCATTTTACCCTCGATTTACAGAATTAC-CTTTTACCCTC-AGTTTACAGAAT
1 TTTACAGAATTA-CGTTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGA-TTTACAGAAT
*
52459098 TACTATTTTACCCTCG
64 TACTGTTTTACCCTCG
**
52459114 ATTTACAGAATTACCGTTTTACCCTC-ATTTGTAAAATTACTGTTTTACCCTCGATTTACAGAAT
1 -TTTACAGAATTA-CGTTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTACAGAAT
52459178 TAC-GTTTTACCCTCAG
64 TACTGTTTTACCCTC-G
*
52459194 TTTACAGAATTAC-TTTTACCCTCGATTTACAGAATTA-TCGTTTTACCCTC-AGTTTACAGAAT
1 TTTACAGAATTACGTTTTACCCTCGATTTACAAAATTACT-GTTTTACCCTCGA-TTTACAGAAT
52459256 TACTGTTTTACCCTCG
64 TACTGTTTTACCCTCG
** *
52459272 ATTTACAGAATTAC-TTTTACCCTCGATTTGTAAAATTACCGTTTTACCCTCGATTTACAGAATT
1 -TTTACAGAATTACGTTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTACAGAATT
*
52459336 ACTGGTTTACCCTCG
65 ACTGTTTTACCCTCG
* *
52459351 TTTACAAAATTATCGTTTTACCCTCGATTTACAGAA-TACTGTTTTACCCT
1 TTTACAGAATTA-CGTTTTACCCTCGATTTACAAAATTACTGTTTTACCCT
52459401 AATTGTGAAA
Statistics
Matches: 320, Mismatches: 29, Indels: 33
0.84 0.08 0.09
Matches are distributed among these distances:
77 12 0.04
78 53 0.17
79 136 0.43
80 103 0.32
81 16 0.05
ACGTcount: A:0.27, C:0.23, G:0.09, T:0.41
Consensus pattern (79 bp):
TTTACAGAATTACGTTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTACAGAATTA
CTGTTTTACCCTCG
Found at i:52459489 original size:27 final size:26
Alignment explanation
Indices: 52459409--52459574 Score: 172
Period size: 27 Copynumber: 6.2 Consensus size: 26
52459399 CTAATTGTGA
*
52459409 AATTACTAAAATACCCTGTAGGGTAG
1 AATTACTGAAATACCCTGTAGGGTAG
* *
52459435 AATTACCGAAATACCCTATAGGGTAG
1 AATTACTGAAATACCCTGTAGGGTAG
* *
52459461 AATTACTAAAATACCCTTATAGGGTAG
1 AATTACTGAAATACCC-TGTAGGGTAG
52459488 AATTA-TCGAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCC-TGTAGGGTAG
* *
52459515 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATA-CCCTGTAGGGTAG
* * * * *
52459542 AATTACCGAGATACCTTTGTGGGGTAA
1 AATTACTGAAATACC-CTGTAGGGTAG
52459569 AATTAC
1 AATTAC
52459575 CATTTTGCCC
Statistics
Matches: 121, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
26 40 0.33
27 78 0.64
28 3 0.02
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.27
Consensus pattern (26 bp):
AATTACTGAAATACCCTGTAGGGTAG
Found at i:52459538 original size:54 final size:54
Alignment explanation
Indices: 52459407--52459576 Score: 202
Period size: 54 Copynumber: 3.2 Consensus size: 54
52459397 CCCTAATTGT
* *
52459407 GAAATTACTAAAATA-CCCTGTAGGGTAGAATTACCGAAATACCC-TATAGGGTA
1 GAAA-TACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTA
* * * * *
52459460 GAATTACTAAAATACCCTTATAGGGTAGAATTATCGAAATACCCTTGTAGGGTA
1 GAAATACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTA
* * * *
52459514 GAAATACCGAAATACCCCTGTAGGGTAGAATTACCGAGATACCTTTGTGGGGTA
1 GAAATACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTA
52459568 -AAATTACCA
1 GAAA-TACCA
52459577 TTTTGCCCCT
Statistics
Matches: 99, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
52 10 0.10
53 32 0.32
54 57 0.58
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (54 bp):
GAAATACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTA
Found at i:52459811 original size:27 final size:26
Alignment explanation
Indices: 52459773--52459855 Score: 121
Period size: 27 Copynumber: 3.1 Consensus size: 26
52459763 CGGAGGAAGC
*
52459773 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
52459800 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* *
52459826 GTATCTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
52459853 GTT
1 GTT
52459856 GACCGATCGA
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
26 10 0.19
27 42 0.81
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:52459974 original size:22 final size:22
Alignment explanation
Indices: 52459942--52460000 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
52459932 CCCGTTATTA
*
52459942 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
52459964 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
52459986 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
52460001 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:52460187 original size:27 final size:27
Alignment explanation
Indices: 52460165--52460238 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
52460155 TAGGTGGGTT
*
52460165 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
52460192 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* *
52460219 TGTCACGATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
52460239 CAGCCATGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.12
27 36 0.86
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:52460364 original size:6 final size:6
Alignment explanation
Indices: 52460355--52460486 Score: 123
Period size: 6 Copynumber: 21.8 Consensus size: 6
52460345 TTGCATTCAC
* *
52460355 ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
52460404 -TTACTA ATAT-TG ATTCTG ATTCTG ATTCTG -TTACTA ATAT-TG ATTCTG
1 ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG
52460452 ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
52460487 CATTTTGGTT
Statistics
Matches: 105, Mismatches: 8, Indels: 26
0.76 0.06 0.19
Matches are distributed among these distances:
5 9 0.09
6 87 0.83
7 6 0.06
8 3 0.03
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:52460507 original size:30 final size:30
Alignment explanation
Indices: 52460355--52460486 Score: 205
Period size: 30 Copynumber: 4.4 Consensus size: 30
52460345 TTGCATTCAC
*
52460355 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTA-CTAATTCTG
52460386 ATTCTGATTCTGATTCTGTTACTAATAT-TG
1 ATTCTGATTCTGATTCTGTTACTAAT-TCTG
52460416 ATTCTGATTCTGATTCTGTTACTAATAT-TG
1 ATTCTGATTCTGATTCTGTTACTAAT-TCTG
*
52460446 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
52460476 ATTCTGATTCT
1 ATTCTGATTCT
52460487 CATTTTGGTT
Statistics
Matches: 97, Mismatches: 2, Indels: 5
0.93 0.02 0.05
Matches are distributed among these distances:
29 1 0.01
30 75 0.77
31 21 0.22
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATTCTG
Found at i:52462652 original size:53 final size:53
Alignment explanation
Indices: 52462454--52462923 Score: 651
Period size: 53 Copynumber: 8.9 Consensus size: 53
52462444 GTACTCCCGA
*
52462454 TTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCATT
1 TTTACAGAATTA-CGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCA-G
52462509 TTTA-A-AATTAC-TTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
1 TTTACAGAATTACGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
*
52462559 TTTATAGAATTAC-TTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
1 TTTACAGAATTACGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
* *
52462611 TTTACAGAATTACTTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGAT
1 TTTACAGAATTACGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTC-AG
*
52462665 TTGTA-A-AATTACTTTTTACCCTCGATTTACAGAATTA-CGTTTTACCCTCAG
1 TT-TACAGAATTACGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
*
52462716 TTTACAGAATTACCATTTTACCCTCGATTTACAGAATTA-CGTTTTACCCTCAG
1 TTTACAGAATTA-CGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
* *
52462769 TTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCGAT
1 TTTACAGAATTAC-GTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTC-AG
* * *
52462824 TTTA-A-AATTACCGTTTTA-CC-CGATTTATAGAATTACTGGTTTACCCTC-G
1 TTTACAGAATTA-CGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
* *
52462873 TTTACAAAATTATCGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCT
1 TTTACAGAATTA-CGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCT
52462924 ATTGTGAAAT
Statistics
Matches: 385, Mismatches: 14, Indels: 34
0.89 0.03 0.08
Matches are distributed among these distances:
49 4 0.01
50 7 0.02
51 81 0.21
52 80 0.21
53 184 0.48
54 18 0.05
55 11 0.03
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.41
Consensus pattern (53 bp):
TTTACAGAATTACGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
Found at i:52462809 original size:27 final size:27
Alignment explanation
Indices: 52462451--52462923 Score: 613
Period size: 27 Copynumber: 18.0 Consensus size: 27
52462441 AAAGTACTCC
52462451 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
52462478 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
52462505 C-ATTTTTAAAATTA-C-TTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
52462529 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
52462556 C-AGTTTATAGAATTA-C-TTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
52462581 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
52462608 C-AGTTTACAGAATTA-CTTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
52462634 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
52462661 CGATTTGTAAAATTA-CTTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
52462687 CGATTTACAGAATTA-CGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
52462713 C-AGTTTACAGAATTACCATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
52462740 CGATTTACAGAATTA-CGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
52462766 C-AGTTTACAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
52462793 CGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
52462820 CGATTTTA-A-AATTACCGTTTTA-CC-
1 CGA-TTTACAGAATTACCGTTTTACCCT
* * *
52462844 CGATTTATAGAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
52462871 CG-TTTACAAAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
52462897 CGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
52462924 ATTGTGAAAT
Statistics
Matches: 392, Mismatches: 32, Indels: 44
0.84 0.07 0.09
Matches are distributed among these distances:
23 4 0.01
24 14 0.04
25 47 0.12
26 142 0.36
27 179 0.46
28 6 0.02
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:52462970 original size:27 final size:27
Alignment explanation
Indices: 52462938--52463123 Score: 232
Period size: 27 Copynumber: 7.0 Consensus size: 27
52462928 TGAAATTACT
52462938 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* **
52462965 AAATACCCCTATAGGGTAGAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
52462992 AAATACCCTTATAGGATAGAATTACC-
1 AAATACCCCTGTAGGGTAGAATTACCG
*
52463018 AAATACCCC-GTAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
52463044 AAATACCCTTGTAGGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
52463071 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* ** * *
52463098 AGATACCTTTGTGGGGTAAAATTACC
1 AAATACCCCTGTAGGGTAGAATTACC
52463124 ATTTTGCCCC
Statistics
Matches: 137, Mismatches: 20, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
25 13 0.09
26 16 0.12
27 108 0.79
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACCG
Found at i:52463047 original size:79 final size:80
Alignment explanation
Indices: 52462931--52463123 Score: 235
Period size: 79 Copynumber: 2.4 Consensus size: 80
52462921 CCTATTGTGA
* * *
52462931 AATTACTAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACTAAAAT
1 AATTACCAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAAATACCAAAAT
*
52462996 ACCCTTATAGGATAG
66 ACCCCTATAGGATAG
* * * *
52463011 AATTACCAAATACCCC-GTAGGGTAGAATTATCGAAATACCCTTGTAGGGTAGAAATACCGAAAT
1 AATTACCAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAAATACCAAAAT
* *
52463075 ACCCCTGTAGGGTAG
66 ACCCCTATAGGATAG
* ** * *
52463090 AATTACCGAGATACCTTTGTGGGGTAAAATTACC
1 AATTACC-AAATACCCCTGTAGGGTAGAATTACC
52463124 ATTTTGCCCC
Statistics
Matches: 95, Mismatches: 16, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
79 61 0.64
80 21 0.22
81 13 0.14
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.25
Consensus pattern (80 bp):
AATTACCAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAAATACCAAAAT
ACCCCTATAGGATAG
Found at i:52463382 original size:26 final size:26
Alignment explanation
Indices: 52463322--52463403 Score: 112
Period size: 26 Copynumber: 3.1 Consensus size: 26
52463312 CGGAGGAAGC
*
52463322 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
52463349 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* *
52463375 GTAT-TGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
52463401 GTT
1 GTT
52463404 GACCGATCGA
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
25 1 0.02
26 31 0.61
27 19 0.37
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:52463523 original size:22 final size:22
Alignment explanation
Indices: 52463491--52463549 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
52463481 CCCGTTATTA
*
52463491 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
52463513 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
52463535 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
52463550 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:52463736 original size:27 final size:27
Alignment explanation
Indices: 52463714--52463787 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
52463704 TAGGTGGGTT
*
52463714 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
52463741 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* *
52463768 TGTCACGATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
52463788 CAGCCATGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.12
27 36 0.86
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:52463914 original size:6 final size:6
Alignment explanation
Indices: 52463905--52464036 Score: 123
Period size: 6 Copynumber: 21.8 Consensus size: 6
52463895 TTGCATTCAC
* *
52463905 ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
52463954 -TTACTA ATAT-TG ATTCTG ATTCTG ATTCTG -TTACTA ATAT-TG ATTCTG
1 ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG
52464002 ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
52464037 CATTTTGGTT
Statistics
Matches: 105, Mismatches: 8, Indels: 26
0.76 0.06 0.19
Matches are distributed among these distances:
5 9 0.09
6 87 0.83
7 6 0.06
8 3 0.03
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:52464057 original size:30 final size:30
Alignment explanation
Indices: 52463905--52464036 Score: 205
Period size: 30 Copynumber: 4.4 Consensus size: 30
52463895 TTGCATTCAC
*
52463905 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTA-CTAATTCTG
52463936 ATTCTGATTCTGATTCTGTTACTAATAT-TG
1 ATTCTGATTCTGATTCTGTTACTAAT-TCTG
52463966 ATTCTGATTCTGATTCTGTTACTAATAT-TG
1 ATTCTGATTCTGATTCTGTTACTAAT-TCTG
*
52463996 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
52464026 ATTCTGATTCT
1 ATTCTGATTCT
52464037 CATTTTGGTT
Statistics
Matches: 97, Mismatches: 2, Indels: 5
0.93 0.02 0.05
Matches are distributed among these distances:
29 1 0.01
30 75 0.77
31 21 0.22
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATTCTG
Found at i:52466121 original size:27 final size:27
Alignment explanation
Indices: 52466048--52466478 Score: 467
Period size: 27 Copynumber: 16.0 Consensus size: 27
52466038 CAAAGTACTC
*
52466048 CGATTTACAGAA-TACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* * *
52466074 CGATTTACA-AATTATCATTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* * *
52466100 CAATTTTTAAAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
52466127 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* * *
52466154 C-AGTTTACAGAATTACCATTTTAACCT
1 CGA-TTTATAGAATTACCGTTTTACCCT
*
52466181 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* * * **
52466208 CAATTTGTAAAATTACTATTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
*
52466235 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
*
52466262 C-AGTTTATAGAATTACCATTTTACCCT
1 CGA-TTTATAGAATTACCGTTTTACCCT
* * *
52466289 CGATTTACAGAATTATCGTTTTACGCT
1 CGATTTATAGAATTACCGTTTTACCCT
*
52466316 C-AGTTTATAGAATTACTGTTTTACCCT
1 CGA-TTTATAGAATTACCGTTTTACCCT
* * *
52466343 CGATTTACAAAATTACTGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* * *
52466370 CGATTTGTAAAATTACCGTTTTACCCG
1 CGATTTATAGAATTACCGTTTTACCCT
* *
52466397 CGATTTATAGAATTACTGGTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* * * *
52466424 CGGTTTACAAAATTATCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* **
52466451 CGATTTACAGAATTACTATTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
52466478 C
1 C
52466479 AATTGTGAAA
Statistics
Matches: 338, Mismatches: 59, Indels: 15
0.82 0.14 0.04
Matches are distributed among these distances:
25 2 0.01
26 30 0.09
27 303 0.90
28 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.40
Consensus pattern (27 bp):
CGATTTATAGAATTACCGTTTTACCCT
Found at i:52466168 original size:54 final size:54
Alignment explanation
Indices: 52466051--52466479 Score: 531
Period size: 54 Copynumber: 8.0 Consensus size: 54
52466041 AGTACTCCGA
* * * *
52466051 TTTACAGAA-TACCGTTTTACCCTCGATTTACA-AATTATCATTTTACCCTCAA
1 TTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
* * *
52466103 TTTTTAAAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCAG
1 TTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
* * * *
52466157 TTTACAGAATTACCATTTTAACCTCGATTTACAGAATTACCGTTTTACCCTCAA
1 TTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
* * **
52466211 TTTGTAAAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
1 TTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
* * *
52466265 TTTATAGAATTACCATTTTACCCTCGATTTACAGAATTATCGTTTTACGCTCAG
1 TTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
* * *
52466319 TTTATAGAATTACTGTTTTACCCTCGATTTACAAAATTACTGTTTTACCCTC-G
1 TTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
* * * * * * *
52466372 ATTTGTAAAATTACCGTTTTACCCGCGATTTATAGAATTACTGGTTTACCCTCGG
1 -TTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
* * * **
52466427 TTTACAAAATTATCGTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCA
1 TTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCA
52466480 ATTGTGAAAT
Statistics
Matches: 327, Mismatches: 46, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
52 6 0.02
53 23 0.07
54 297 0.91
55 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.40
Consensus pattern (54 bp):
TTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
Found at i:52466517 original size:27 final size:27
Alignment explanation
Indices: 52466487--52466679 Score: 198
Period size: 27 Copynumber: 7.2 Consensus size: 27
52466477 TCAATTGTGA
*
52466487 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
52466514 AATTACCGAAATACCCCTAG-AGGGTAG
1 AATTACTGAAATACCCCT-GTAGGGTAG
* * *
52466541 AATTACTAAAATACCCTTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
52466568 AATTA-TCGAAATACCCC-GTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
*
52466594 AATTA-TCGAAATACCCTTGTA-GGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* *
52466620 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * ** * *
52466647 AATTACCGAGATACCTTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
52466674 AATTAC
1 AATTAC
52466680 CATTTTGCCC
Statistics
Matches: 141, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
26 47 0.33
27 93 0.66
28 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.25
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:52466642 original size:53 final size:53
Alignment explanation
Indices: 52466495--52466680 Score: 234
Period size: 53 Copynumber: 3.5 Consensus size: 53
52466485 GAAATTACTA
* *
52466495 AAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTAG-AGGGTAGAATTACTA
1 AAATACCCTTGTAGGGTAGAATTACCGAAATACCCCT-GTAGGGTAGAATTAC-G
* *
52466549 AAATACCCTTATAGGGTAGAATTATCGAAATACCCC-GTAGGGTAGAATTATCG
1 AAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTA-CG
*
52466602 AAATACCCTTGTA-GGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTA-CG
* * * *
52466655 AGATACCTTTGTGGGGTAAAATTACC
1 AAATACCCTTGTAGGGTAGAATTACC
52466681 ATTTTGCCCC
Statistics
Matches: 115, Mismatches: 13, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
52 21 0.18
53 50 0.43
54 44 0.38
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (53 bp):
AAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACG
Found at i:52466917 original size:27 final size:26
Alignment explanation
Indices: 52466879--52466961 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
52466869 CGGAGGAAGC
*
52466879 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
52466906 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
52466932 GTATCTAGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
52466959 GTT
1 GTT
52466962 GACCGATCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:52467081 original size:22 final size:22
Alignment explanation
Indices: 52467049--52467107 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
52467039 CCCGTTATTA
*
52467049 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
52467071 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
52467093 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
52467108 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:52467294 original size:27 final size:27
Alignment explanation
Indices: 52467272--52467345 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 27
52467262 TAGGTGGGTT
*
52467272 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
52467299 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* **
52467326 TGTCATGATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
52467346 CAGCCATGCT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
26 5 0.12
27 35 0.85
28 1 0.02
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.38
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:52467472 original size:6 final size:6
Alignment explanation
Indices: 52467463--52467599 Score: 117
Period size: 6 Copynumber: 22.8 Consensus size: 6
52467453 TTGCATTCAC
* *
52467463 ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
52467512 -TTACTA ATAT-TG A-TCTG ATTCTG ATTCTG ATTCTG -TTACTA ATAT-TG
1 ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG
*
52467559 ATTCTG ATTCTG ATTTTG -TTACTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
52467600 CATTTTGGTT
Statistics
Matches: 107, Mismatches: 10, Indels: 28
0.74 0.07 0.19
Matches are distributed among these distances:
4 1 0.01
5 11 0.10
6 86 0.80
7 6 0.06
8 3 0.03
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:52467536 original size:35 final size:35
Alignment explanation
Indices: 52467463--52467573 Score: 160
Period size: 35 Copynumber: 3.3 Consensus size: 35
52467453 TTGCATTCAC
*
52467463 ATTCTGATTCTGATTCTGTCACCT-A-A-T--TCTG
1 ATTCTGATTCTGATTCTGTTA-CTAATATTGATCTG
52467494 ATTCTGATTCTGATTCTGTTACTAATATTGATCTG
1 ATTCTGATTCTGATTCTGTTACTAATATTGATCTG
52467529 ATTCTGATTCTGATTCTGTTACTAATATTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATATTGA-TCTG
52467565 ATTCTGATT
1 ATTCTGATT
52467574 TTGTTACTGA
Statistics
Matches: 73, Mismatches: 1, Indels: 7
0.90 0.01 0.09
Matches are distributed among these distances:
30 2 0.03
31 21 0.29
32 1 0.01
33 1 0.01
35 35 0.48
36 13 0.18
ACGTcount: A:0.22, C:0.16, G:0.14, T:0.49
Consensus pattern (35 bp):
ATTCTGATTCTGATTCTGTTACTAATATTGATCTG
Found at i:52467606 original size:30 final size:31
Alignment explanation
Indices: 52467463--52467599 Score: 181
Period size: 30 Copynumber: 4.4 Consensus size: 31
52467453 TTGCATTCAC
*
52467463 ATTCTGATTCTGATTCTGTCACCTAAT-TCTG
1 ATTCTGATTCTGATTCTGTTA-CTAATATCTG
52467494 ATTCTGATTCTGATTCTGTTACTAATATTGATCTG
1 ATTCTGATTCTGATTCTGTTACT-A-A-T-ATCTG
52467529 ATTCTGATTCTGATTCTGTTACTAATAT-TG
1 ATTCTGATTCTGATTCTGTTACTAATATCTG
* *
52467559 ATTCTGATTCTGATTTTGTTACTGAT-TCTG
1 ATTCTGATTCTGATTCTGTTACTAATATCTG
52467589 ATTCTGATTCT
1 ATTCTGATTCT
52467600 CATTTTGGTT
Statistics
Matches: 97, Mismatches: 3, Indels: 13
0.86 0.03 0.12
Matches are distributed among these distances:
29 1 0.01
30 41 0.42
31 23 0.24
32 2 0.02
33 2 0.02
34 1 0.01
35 27 0.28
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.50
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACTAATATCTG
Found at i:52467617 original size:30 final size:30
Alignment explanation
Indices: 52467463--52467620 Score: 167
Period size: 30 Copynumber: 5.1 Consensus size: 30
52467453 TTGCATTCAC
* *
52467463 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTTTGTTA-CTAATTCTG
*
52467494 ATTCTGATTCTGATTCTGTTACTAATATTGATCTG
1 ATTCTGATTCTGATTTTGTTACT-A-A-T--TCTG
*
52467529 ATTCTGATTCTGATTCTGTTACTAATAT-TG
1 ATTCTGATTCTGATTTTGTTACTAAT-TCTG
*
52467559 ATTCTGATTCTGATTTTGTTACTGATTCTG
1 ATTCTGATTCTGATTTTGTTACTAATTCTG
* *
52467589 ATTCTGATTCTCATTTTGGTT-CCAATTCTG
1 ATTCTGATTCTGATTTT-GTTACTAATTCTG
52467619 AT
1 AT
52467621 AATGTTTCTT
Statistics
Matches: 114, Mismatches: 6, Indels: 15
0.84 0.04 0.11
Matches are distributed among these distances:
29 1 0.01
30 55 0.48
31 26 0.23
32 2 0.02
33 2 0.02
34 1 0.01
35 27 0.24
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.49
Consensus pattern (30 bp):
ATTCTGATTCTGATTTTGTTACTAATTCTG
Found at i:52471797 original size:29 final size:29
Alignment explanation
Indices: 52471764--52471895 Score: 165
Period size: 29 Copynumber: 4.6 Consensus size: 29
52471754 GTGACGAGAT
*
52471764 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
52471793 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* *
52471822 AGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* * **
52471851 TGACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* **
52471880 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
52471896 AGCTCGAAGG
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 91 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:52477062 original size:8 final size:8
Alignment explanation
Indices: 52477051--52477105 Score: 56
Period size: 8 Copynumber: 6.4 Consensus size: 8
52477041 ATTAAAAAAT
52477051 TAATATAA
1 TAATATAA
*
52477059 TAATATAT
1 TAATATAA
52477067 TAATATAATA
1 TAATAT-A-A
52477077 TAATATAATA
1 TAATAT-A-A
52477087 TAATATAA
1 TAATATAA
*
52477095 TAATAAAA
1 TAATATAA
52477103 TAA
1 TAA
52477106 AACATAAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
8 24 0.57
9 2 0.05
10 16 0.38
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
TAATATAA
Found at i:52477075 original size:5 final size:5
Alignment explanation
Indices: 52477051--52477096 Score: 67
Period size: 5 Copynumber: 9.0 Consensus size: 5
52477041 ATTAAAAAAT
52477051 TAATA TAATA -ATATA TTAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TA-ATA -TAATA TAATA TAATA TAATA TAATA TAATA
52477097 ATAAAATAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
4 1 0.03
5 33 0.87
6 3 0.08
7 1 0.03
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TAATA
Found at i:52477076 original size:13 final size:13
Alignment explanation
Indices: 52477058--52477104 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
52477048 AATTAATATA
52477058 ATAATATATTAAT
1 ATAATATATTAAT
52477071 ATAATATAATATAAT
1 ATAATAT-AT-TAAT
*
52477086 ATAATATAATAAT
1 ATAATATATTAAT
*
52477099 AAAATA
1 ATAATA
52477105 AAACATAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 16 0.53
14 3 0.10
15 11 0.37
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
ATAATATATTAAT
Found at i:52477097 original size:23 final size:23
Alignment explanation
Indices: 52477051--52477120 Score: 60
Period size: 23 Copynumber: 3.2 Consensus size: 23
52477041 ATTAAAAAAT
*
52477051 TAATAT-A-ATAATATATTAATA
1 TAATATAATATAATATAATAATA
52477072 TAATATAATATAATATAAT-ATAA
1 TAATATAATATAATATAATAAT-A
* * *
52477095 TAATAAAATAAAACATAA-AATA
1 TAATATAATATAATATAATAATA
52477117 -AATA
1 TAATA
52477121 AAGAAACAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
21 10 0.24
22 4 0.10
23 27 0.66
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.34
Consensus pattern (23 bp):
TAATATAATATAATATAATAATA
Found at i:52477112 original size:18 final size:18
Alignment explanation
Indices: 52477076--52477122 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
52477066 TTAATATAAT
* * *
52477076 ATAATATAATATAATATA
1 ATAATAAAATAAAACATA
52477094 ATAATAAAATAAAACATA
1 ATAATAAAATAAAACATA
52477112 A-AAT-AAATAAA
1 ATAATAAAATAAA
52477123 GAAACAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
16 7 0.27
17 3 0.12
18 16 0.62
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (18 bp):
ATAATAAAATAAAACATA
Found at i:52477112 original size:28 final size:28
Alignment explanation
Indices: 52477057--52477121 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 28
52477047 AAATTAATAT
* * * *
52477057 AATAATATATTAATATAATATAATATAA
1 AATAATATAATAATAAAATAAAACATAA
*
52477085 TATAATATAATAATAAAATAAAACATAA
1 AATAATATAATAATAAAATAAAACATAA
52477113 AATAA-ATAA
1 AATAATATAA
52477122 AGAAACAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
27 4 0.13
28 27 0.87
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (28 bp):
AATAATATAATAATAAAATAAAACATAA
Found at i:52493943 original size:40 final size:39
Alignment explanation
Indices: 52493867--52493961 Score: 111
Period size: 40 Copynumber: 2.4 Consensus size: 39
52493857 ACATCTCTGT
* * *
52493867 CCAACCCAACACACC-ATGTAGGGATAGAATCGACCCAC
1 CCAACCCTACACACCAATATAGGGATAAAATCGACCCAC
* *
52493905 CCAACCCTACACACCAAGTATAGGGATAAAATCTACCCAT
1 CCAACCCTACACACCAA-TATAGGGATAAAATCGACCCAC
* *
52493945 CCAGCCCTACATACCAA
1 CCAACCCTACACACCAA
52493962 ATGGTACCAT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
38 14 0.29
39 1 0.02
40 33 0.69
ACGTcount: A:0.38, C:0.37, G:0.12, T:0.14
Consensus pattern (39 bp):
CCAACCCTACACACCAATATAGGGATAAAATCGACCCAC
Found at i:52500917 original size:17 final size:17
Alignment explanation
Indices: 52500895--52500930 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
52500885 GGCCCAAAAT
*
52500895 CCCACACGCCCGTGTGG
1 CCCACACACCCGTGTGG
*
52500912 CCCACACACCTGTGTGG
1 CCCACACACCCGTGTGG
52500929 CC
1 CC
52500931 TACATGGCCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.14, C:0.47, G:0.25, T:0.14
Consensus pattern (17 bp):
CCCACACACCCGTGTGG
Found at i:52503000 original size:31 final size:29
Alignment explanation
Indices: 52502905--52503036 Score: 147
Period size: 29 Copynumber: 4.6 Consensus size: 29
52502895 AATTTAAGCC
* *** * *
52502905 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
** * *
52502934 CGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
* **
52502963 TGCACTTTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
52502992 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
52503021 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
52503037 ATCTCGTCAC
Statistics
Matches: 85, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 85 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:52510898 original size:31 final size:29
Alignment explanation
Indices: 52510803--52510934 Score: 147
Period size: 29 Copynumber: 4.6 Consensus size: 29
52510793 AATTTAAGCC
* *** * *
52510803 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
** * *
52510832 CGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
* **
52510861 TGCACTTTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
52510890 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
52510919 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
52510935 ATCTCGTCAC
Statistics
Matches: 85, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 85 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:52515522 original size:29 final size:30
Alignment explanation
Indices: 52515466--52515523 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
52515456 ATTTTCGAGC
* * **
52515466 CTAGGGGTAAAATGGTCATTTTGTCAAAGT
1 CTAGGGGCAAAATGGTCACTTTACCAAAGT
52515496 CTAGGGGCAAAA-GGTCACTTTACCAAAG
1 CTAGGGGCAAAATGGTCACTTTACCAAAG
52515524 ATATAAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 13 0.54
30 11 0.46
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.26
Consensus pattern (30 bp):
CTAGGGGCAAAATGGTCACTTTACCAAAGT
Found at i:52515934 original size:47 final size:45
Alignment explanation
Indices: 52515866--52516033 Score: 157
Period size: 47 Copynumber: 3.6 Consensus size: 45
52515856 TGTGTGAACT
*
52515866 AGTGTAAGACATGTCTGGGACATGTATCAGCCACATTATGA-GAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAG-CACATTA-GACGAGCC
*
52515912 AGTGTAAGACCATGTCTGGGACATGGCATC-G-GCATTGAGACGAGTCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCACATT-AGACGAG-CC
* * * *
52515959 TAGTGTAAGACATGTCTGGGACATGCATCAGCTAC--GAGATGTGTC
1 -AGTGTAAGACATGTCTGGGACATGCATCAGC-ACATTAGACGAGCC
52516004 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
52516034 GACACAGATA
Statistics
Matches: 104, Mismatches: 7, Indels: 22
0.78 0.05 0.17
Matches are distributed among these distances:
44 9 0.09
45 21 0.20
46 28 0.27
47 32 0.31
48 13 0.12
49 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCACATTAGACGAGCC
Found at i:52516034 original size:92 final size:93
Alignment explanation
Indices: 52515864--52516034 Score: 265
Period size: 94 Copynumber: 1.8 Consensus size: 93
52515854 CTTGTGTGAA
* *
52515864 CTAGTGTAAGACATGTCTGGGACATGTATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTCT
1 CTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATGAT-AGAGCCAGTGTAAGACCATGTCT
52515929 GGGACATGGCATCGGCATTGAGACGAGTC
65 GGGACATGGCATCGGCATTGAGACGAGTC
* * *
52515958 CTAGTGTAAGACATGTCTGGGACATGCATCAGCTACGA-GAT-GTGTCAGTGTAAGACCATGTCT
1 CTAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATGATAGAGCCAGTGTAAGACCATGTCT
52516021 GGGACATGGCATCG
65 GGGACATGGCATCG
52516035 ACACAGATAT
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
92 34 0.48
94 36 0.51
95 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (93 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATAGAGCCAGTGTAAGACCATGTCTG
GGACATGGCATCGGCATTGAGACGAGTC
Found at i:52516059 original size:94 final size:93
Alignment explanation
Indices: 52515861--52516073 Score: 250
Period size: 94 Copynumber: 2.3 Consensus size: 93
52515851 TCACTTGTGT
* *
52515861 GAACTAGTGTAAGACATGTCTGGGACATGTATCAGCCACATTATGAGAGCCAGTGTAAGACCATG
1 GAACTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATGAT-AGAGCCAGTGTAAGACCATG
* **
52515926 TCTGGGACATGGCATCGGCATTGAGACGA
65 TCTGGGACATGGCATCGACACAGAGACGA
** * * *
52515955 GTCCTAGTGTAAGACATGTCTGGGACATGCATCAGCTACGA-GAT-GTGTCAGTGTAAGACCATG
1 GAACTAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATGATAGAGCCAGTGTAAGACCATG
* *
52516018 TCTGGGACATGGCATCGACACAGATATGCTA
65 TCTGGGACATGGCATCGACACAGAGA--CGA
*
52516049 GAACTTGTGTAAGACCATGTCTGGG
1 GAACTAGTGTAAGA-CATGTCTGGG
52516074 TGTAACACCC
Statistics
Matches: 100, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
92 39 0.39
94 50 0.50
95 11 0.11
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (93 bp):
GAACTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATAGAGCCAGTGTAAGACCATGT
CTGGGACATGGCATCGACACAGAGACGA
Found at i:52517316 original size:47 final size:47
Alignment explanation
Indices: 52517245--52517690 Score: 768
Period size: 47 Copynumber: 9.4 Consensus size: 47
52517235 TATCACAGTT
* * * * *
52517245 ATACACTTCCAC-TTCCATCCCATTGACCATTCGGCCTTATCATATAT
1 ATACACTTTCACATT-CATCACATTGGCCATTCGGCCTTATCACATAC
*
52517292 ATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
*
52517339 ATACACTTTCACATTCATCACATTGGCAATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
52517386 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATAC
*
52517435 ATACACTTTCACATTCATCACAATGGCCATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
52517482 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
52517529 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
52517576 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
52517623 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATAC
52517672 ATACACTTTCACATTCATC
1 ATACACTTTCACATTCATC
52517691 GTAACAAAAT
Statistics
Matches: 383, Mismatches: 11, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
47 312 0.81
48 2 0.01
49 69 0.18
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (47 bp):
ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
Found at i:52517648 original size:237 final size:237
Alignment explanation
Indices: 52517245--52517690 Score: 813
Period size: 237 Copynumber: 1.9 Consensus size: 237
52517235 TATCACAGTT
* * * *
52517245 ATACACTTCCACTTCCATCCCATTGACCATTCGGCCTTATCATATATATATACTTTCACATTCAT
1 ATACACTTCCACTTCCATCACATTGACCATTCGGCCTTATCACATACATACACTTTCACATTCAT
52517310 CACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCATCACATTGGCAATTCGGCC
66 CACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCATCACATTGGCAATTCGGCC
52517375 TTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATACA
131 TTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATACA
52517440 CTTTCACATTCATCACAATGGCCATTCGGCCTTATCACATAC
196 CTTTCACATTCATCACAATGGCCATTCGGCCTTATCACATAC
* *
52517482 ATACACTTTCACATT-CATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCA
1 ATACACTTCCAC-TTCCATCACATTGACCATTCGGCCTTATCACATACATACACTTTCACATTCA
*
52517546 TCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGGC
65 TCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCATCACATTGGCAATTCGGC
52517611 CTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATAC
130 CTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATAC
52517676 ACTTTCACATTCATC
195 ACTTTCACATTCATC
52517691 GTAACAAAAT
Statistics
Matches: 201, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
237 199 0.99
238 2 0.01
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (237 bp):
ATACACTTCCACTTCCATCACATTGACCATTCGGCCTTATCACATACATACACTTTCACATTCAT
CACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCATCACATTGGCAATTCGGCC
TTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATACA
CTTTCACATTCATCACAATGGCCATTCGGCCTTATCACATAC
Found at i:52521812 original size:40 final size:40
Alignment explanation
Indices: 52521743--52521894 Score: 243
Period size: 40 Copynumber: 3.8 Consensus size: 40
52521733 ATTTTGTCCA
* *
52521743 AGCACGAATGC-CTTTGGGGCTTAGCCCGGATACATCACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACC
* *
52521782 AGCATGAATGCTCTTCGGGACTTAGCCCGGATATATCACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACC
*
52521822 AGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACC
*
52521862 AGCACGAATGCTCTTCGAGACTTAGCCCGGATA
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATA
52521895 TAACATACTG
Statistics
Matches: 105, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 10 0.10
40 95 0.90
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.22
Consensus pattern (40 bp):
AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACC
Found at i:52522683 original size:10 final size:9
Alignment explanation
Indices: 52522670--52522698 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
52522660 ATTTTAAACC
52522670 TTTTTTTCT
1 TTTTTTTCT
52522679 TTTTTTTCT
1 TTTTTTTCT
52522688 TTTTTTT-T
1 TTTTTTTCT
52522696 TTT
1 TTT
52522699 GAATAAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 4 0.20
9 16 0.80
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:52523821 original size:47 final size:47
Alignment explanation
Indices: 52523750--52524100 Score: 589
Period size: 47 Copynumber: 7.4 Consensus size: 47
52523740 TATCACAGTT
* * * * *
52523750 ATACACTTCCAC-TTCCATCCCATTGACCATTCGGCCTTATCATATAT
1 ATACACTTTCACATT-CATCACATTGGCCATTCGGCCTTATCACATAC
*
52523797 ATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
52523844 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
52523891 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATAC
52523940 ATACACTTTCA-ATTCATCACATTGGCCATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
52523986 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
52524033 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATAC
52524082 ATACACTTTCACATTCATC
1 ATACACTTTCACATTCATC
52524101 GTAACAAAAT
Statistics
Matches: 291, Mismatches: 7, Indels: 10
0.94 0.02 0.03
Matches are distributed among these distances:
46 15 0.05
47 205 0.70
48 33 0.11
49 38 0.13
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (47 bp):
ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
Found at i:52523993 original size:142 final size:143
Alignment explanation
Indices: 52523750--52524100 Score: 620
Period size: 142 Copynumber: 2.5 Consensus size: 143
52523740 TATCACAGTT
* * * * *
52523750 ATACACTTCCAC-TTCCATCCCATTGACCATTCGGCCTTAT--CATATATATATACTTTCACATT
1 ATACACTTTCACATT-CATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATT
52523812 CATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCG
65 CATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCG
52523877 GCCTTATCACATAC
130 GCCTTATCACATAC
52523891 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCA-ATTC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTC
52523955 ATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGG
66 ATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGG
52524020 CCTTATCACATAC
131 CCTTATCACATAC
52524033 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTC
52524098 ATC
66 ATC
52524101 GTAACAAAAT
Statistics
Matches: 201, Mismatches: 5, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
141 34 0.17
142 144 0.72
143 23 0.11
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (143 bp):
ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTC
ATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGG
CCTTATCACATAC
Found at i:52525204 original size:16 final size:16
Alignment explanation
Indices: 52525183--52525214 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
52525173 TAGCTTCTTA
52525183 TGCCATAAAGAAAATT
1 TGCCATAAAGAAAATT
52525199 TGCCATAAAGAAAATT
1 TGCCATAAAGAAAATT
52525215 AACTCATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.25
Consensus pattern (16 bp):
TGCCATAAAGAAAATT
Found at i:52529232 original size:40 final size:40
Alignment explanation
Indices: 52529165--52529341 Score: 225
Period size: 40 Copynumber: 4.5 Consensus size: 40
52529155 ACCCAAGTAT
*
52529165 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
52529204 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
52529244 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * * *
52529284 CTTTGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
52529324 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
52529342 TTATCATCCG
Statistics
Matches: 118, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 13 0.11
40 102 0.86
41 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:52540449 original size:40 final size:40
Alignment explanation
Indices: 52540375--52540516 Score: 225
Period size: 40 Copynumber: 3.6 Consensus size: 40
52540365 AAACCAAGTA
* *
52540375 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
52540414 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
52540454 CCTTCGAGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
52540494 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
52540517 CATTCGAATA
Statistics
Matches: 95, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
39 12 0.13
40 82 0.86
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:52543454 original size:40 final size:40
Alignment explanation
Indices: 52543410--52543519 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
52543400 TTCACAATTT
* *
52543410 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
52543450 GCACAATTGCCTTCGGGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
52543490 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
52543520 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:52551509 original size:40 final size:40
Alignment explanation
Indices: 52551465--52551574 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
52551455 TTCACAATTT
* *
52551465 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
52551505 GCACAATTGCCTTCGGGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
52551545 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
52551575 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:52559747 original size:40 final size:40
Alignment explanation
Indices: 52559673--52559814 Score: 225
Period size: 40 Copynumber: 3.6 Consensus size: 40
52559663 AACCCAAGTA
* * *
52559673 CCTTCGAGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
52559712 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
52559752 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
52559792 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
52559815 CATTCAAATA
Statistics
Matches: 96, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
39 11 0.11
40 84 0.88
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:52561468 original size:29 final size:28
Alignment explanation
Indices: 52561434--52561536 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
52561424 TACTCAATCA
*
52561434 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
52561463 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
52561492 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
52561521 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
52561537 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:52573716 original size:46 final size:46
Alignment explanation
Indices: 52573578--52573750 Score: 188
Period size: 46 Copynumber: 3.7 Consensus size: 46
52573568 TCACTTGTGT
* * * * * *
52573578 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATTATGA
1 GAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGA-GACGA
* *
52573624 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGACGA
1 GAGCCAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTCGAGACGA
* * * *
52573672 GTGCTAATGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTA
1 GAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGACG-A
52573719 -AGCCAGTGTAAGACATGTCTAGGACATGCATC
1 GAGCCAGTGTAAGACATGTCTAGGACATGCATC
52573751 AGCTACGAGA
Statistics
Matches: 105, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
46 56 0.53
47 27 0.26
48 21 0.20
49 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGACGA
Found at i:52573760 original size:46 final size:46
Alignment explanation
Indices: 52573578--52573797 Score: 182
Period size: 46 Copynumber: 4.7 Consensus size: 46
52573568 TCACTTGTGT
* * * *
52573578 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCTACGA-GACGA
* * *
52573624 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGC-ATTGAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCTA-CGAGACGA
* * * *
52573672 GTGCTAATGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCAG-CTACGAGACG-A
* *
52573719 -AGCCAGTGTAAGACATGTCTAGGACATGCATCAGCTACGAGA--T
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGACGA
* * *
52573762 GTGTCAGTGTAAGACCATGTATGGGACATGGCATCA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCA
52573798 ACTTCTGACC
Statistics
Matches: 142, Mismatches: 21, Indels: 22
0.77 0.11 0.12
Matches are distributed among these distances:
44 11 0.08
45 14 0.10
46 66 0.46
47 29 0.20
48 21 0.15
49 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGACGA
Found at i:52574307 original size:19 final size:20
Alignment explanation
Indices: 52574283--52574325 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
52574273 GCCATGGGAA
52574283 AAAT-AGTAAAATA-TGAAAT
1 AAATAAGTAAAATACTG-AAT
52574302 AAATAGAGTAAAATACTGAAT
1 AAATA-AGTAAAATACTGAAT
52574323 AAA
1 AAA
52574326 AAAAAAGGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
19 4 0.19
21 15 0.71
22 2 0.10
ACGTcount: A:0.63, C:0.02, G:0.12, T:0.23
Consensus pattern (20 bp):
AAATAAGTAAAATACTGAAT
Found at i:52588939 original size:43 final size:42
Alignment explanation
Indices: 52588835--52588939 Score: 113
Period size: 42 Copynumber: 2.5 Consensus size: 42
52588825 GAGATTTATG
* ** * *
52588835 TGTAAGACCATGTCTGGGACATCGGCATCGTATCTGATTTCG
1 TGTAAGACCATATCTGGGACAGAGGCATCGTATCTGATTACA
* *
52588877 TGTAAGGCCCTATCTGGGACAGAGGCATCGGTAT-TGAATTACA
1 TGTAAGACCATATCTGGGACAGAGGCATC-GTATCTG-ATTACA
*
52588920 TGTAAGACCATATCCGGGAC
1 TGTAAGACCATATCTGGGAC
52588940 GTCGGTATTG
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
42 26 0.51
43 25 0.49
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGACAGAGGCATCGTATCTGATTACA
Found at i:52590451 original size:10 final size:10
Alignment explanation
Indices: 52590427--52590478 Score: 59
Period size: 10 Copynumber: 5.1 Consensus size: 10
52590417 AATGAAATTC
52590427 TAAAAGATAAA
1 TAAAA-ATAAA
*
52590438 TAAAAATAAC
1 TAAAAATAAA
*
52590448 TAAAGATAAA
1 TAAAAATAAA
*
52590458 TAAAGATAAA
1 TAAAAATAAA
*
52590468 TGAAAATAAA
1 TAAAAATAAA
52590478 T
1 T
52590479 CCTAAAATTA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
10 31 0.86
11 5 0.14
ACGTcount: A:0.69, C:0.02, G:0.08, T:0.21
Consensus pattern (10 bp):
TAAAAATAAA
Found at i:52590452 original size:20 final size:20
Alignment explanation
Indices: 52590429--52590466 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
52590419 TGAAATTCTA
52590429 AAAGATAAATAAAAATAACT
1 AAAGATAAATAAAAATAACT
*
52590449 AAAGATAAATAAAGATAA
1 AAAGATAAATAAAAATAA
52590467 ATGAAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.71, C:0.03, G:0.08, T:0.18
Consensus pattern (20 bp):
AAAGATAAATAAAAATAACT
Found at i:52590476 original size:20 final size:20
Alignment explanation
Indices: 52590429--52590478 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
52590419 TGAAATTCTA
*
52590429 AAAGATAAATAAAAATAACT
1 AAAGATAAATAAAAATAAAT
*
52590449 AAAGATAAATAAAGATAAAT
1 AAAGATAAATAAAAATAAAT
52590469 GAAA-ATAAAT
1 -AAAGATAAAT
52590479 CCTAAAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 24 0.89
21 3 0.11
ACGTcount: A:0.70, C:0.02, G:0.08, T:0.20
Consensus pattern (20 bp):
AAAGATAAATAAAAATAAAT
Found at i:52604107 original size:31 final size:29
Alignment explanation
Indices: 52604066--52604133 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
52604056 AATATGCTCC
52604066 TAGTCCCTTTACTTTTTATACATTT-GAAATT
1 TAGTCCCTTTA--TTTT-TACATTTAGAAATT
* *
52604097 TAGTCTCTTTATTTTTACTTTTAGAAATT
1 TAGTCCCTTTATTTTTACATTTAGAAATT
52604126 TAGTCCCT
1 TAGTCCCT
52604134 ATACTATTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 6 0.18
29 17 0.52
31 10 0.30
ACGTcount: A:0.24, C:0.16, G:0.07, T:0.53
Consensus pattern (29 bp):
TAGTCCCTTTATTTTTACATTTAGAAATT
Found at i:52608173 original size:17 final size:18
Alignment explanation
Indices: 52608148--52608181 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
52608138 TTAATTGAGT
52608148 TCATCTTAG-TTAATAAC
1 TCATCTTAGATTAATAAC
*
52608165 TCATTTTAGATTAATAA
1 TCATCTTAGATTAATAA
52608182 ATGAGTTATT
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:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (18 bp):
TCATCTTAGATTAATAAC
Found at i:52608180 original size:18 final size:17
Alignment explanation
Indices: 52608127--52608181 Score: 56
Period size: 19 Copynumber: 3.1 Consensus size: 17
52608117 TGAATAAATT
52608127 ACTCATCTTAGTTAATTGA
1 ACTCATCTTAGTTAA-T-A
**
52608146 GTTCATCTTAGTTAATA
1 ACTCATCTTAGTTAATA
*
52608163 ACTCATTTTAGATTAATA
1 ACTCATCTTAG-TTAATA
52608181 A
1 A
52608182 ATGAGTTATT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
17 9 0.30
18 8 0.27
19 13 0.43
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.44
Consensus pattern (17 bp):
ACTCATCTTAGTTAATA
Found at i:52616055 original size:29 final size:29
Alignment explanation
Indices: 52616022--52616152 Score: 122
Period size: 29 Copynumber: 4.5 Consensus size: 29
52616012 GTGACGAGAT
52616022 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
52616051 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
52616080 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
52616109 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
52616138 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
52616153 GAAATCGAGT
Statistics
Matches: 82, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
28 2 0.02
29 79 0.96
30 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:52631355 original size:43 final size:42
Alignment explanation
Indices: 52631250--52631359 Score: 107
Period size: 42 Copynumber: 2.6 Consensus size: 42
52631240 GAATTAAAAT
* * **
52631250 TTACATGTAAGACCATGTCCGGGACATCGACATCGTATCTAA
1 TTACATGTAAGACCACGTCTGGGACAGAGACATCGTATCTAA
* * * *
52631292 TTTCGTATAAGACC-CTGTCTGGGACAGAGGCATCG-ATACTGAA
1 TTACATGTAAGACCAC-GTCTGGGACAGAGACATCGTAT-CT-AA
52631335 TTACATGTAAGACCACGTCTGGGAC
1 TTACATGTAAGACCACGTCTGGGAC
52631360 GTTGGCATTA
Statistics
Matches: 53, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
41 2 0.04
42 28 0.53
43 22 0.42
44 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (42 bp):
TTACATGTAAGACCACGTCTGGGACAGAGACATCGTATCTAA
Found at i:52633155 original size:43 final size:44
Alignment explanation
Indices: 52633029--52633186 Score: 166
Period size: 43 Copynumber: 3.7 Consensus size: 44
52633019 ATGTATTATG
* * *
52633029 GTGTAAGACCAAGTCTGGGA-TGTTGGCATTGAT-TTGTGATTTAC
1 GTGTAAGACCATGTCTGGGACAGTTGGCATCGATATT-TGATTT-C
** *
52633073 GTGTAAGACCATGTCTAAGACA-TTGGCATC-ATATATGATTTC
1 GTGTAAGACCATGTCTGGGACAGTTGGCATCGATATTTGATTTC
* *
52633115 GTGTAAGACCCTGTCTGGGACAG-TGGCATCGATATTTGATTAC
1 GTGTAAGACCATGTCTGGGACAGTTGGCATCGATATTTGATTTC
* *
52633158 ATGTAAGACCACGTCTGGGAC-GTTGGCAT
1 GTGTAAGACCATGTCTGGGACAGTTGGCAT
52633187 TGTATGAGCT
Statistics
Matches: 95, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
42 28 0.29
43 42 0.44
44 25 0.26
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (44 bp):
GTGTAAGACCATGTCTGGGACAGTTGGCATCGATATTTGATTTC
Found at i:52633962 original size:40 final size:38
Alignment explanation
Indices: 52633920--52633994 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
52633910 GCTTACTCTG
52633920 TGTGTTTTTCCTATGTCTATAGAGTTTCAGAGACTTGT
1 TGTGTTTTTCCTATGTCTATAGAGTTTCAGAGACTTGT
52633958 TGTGTTTTTCCTATGTCTATAGAGTTTCAGAGACTTG
1 TGTGTTTTTCCTATGTCTATAGAGTTTCAGAGACTTG
52633995 CTCGGGTTGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.19, C:0.13, G:0.21, T:0.47
Consensus pattern (38 bp):
TGTGTTTTTCCTATGTCTATAGAGTTTCAGAGACTTGT
Found at i:52634401 original size:2 final size:2
Alignment explanation
Indices: 52634394--52634427 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
52634384 ATATGTTTAG
*
52634394 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
52634428 GGCCAAGTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:52640284 original size:46 final size:46
Alignment explanation
Indices: 52640231--52640406 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
52640221 TATTTGGGCA
52640231 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
52640277 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
52640324 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
52640370 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
52640407 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:52640386 original size:93 final size:93
Alignment explanation
Indices: 52640227--52640398 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
52640217 GGGATATTTG
* *
52640227 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
52640292 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
52640320 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
52640385 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
52640399 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:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:52643369 original size:15 final size:15
Alignment explanation
Indices: 52643349--52643417 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
52643339 GTATCTTGGG
52643349 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
52643364 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
52643379 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
52643394 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
52643409 TTTCTTTAT
1 TTTCTTTAT
52643418 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
Done.