Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 184 of 770
Found at i:55110862 original size:30 final size:30
Alignment explanation
Indices: 55110828--55110888 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
55110818 TCCTTAACTC
55110828 AAACTTTAGAAAAATTACAATTTTGCCCCT
1 AAACTTTAGAAAAATTACAATTTTGCCCCT
* * * * *
55110858 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTAGAAAAATTACAATTTTGCCCCT
55110888 A
1 A
55110889 GGCTCAGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.38
Consensus pattern (30 bp):
AAACTTTAGAAAAATTACAATTTTGCCCCT
Found at i:55111937 original size:26 final size:26
Alignment explanation
Indices: 55111906--55111965 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
55111896 TCCCCATTTT
55111906 AGATAGTCCTCACAGACTTCCACAAA
1 AGATAGTCCTCACAGACTTCCACAAA
* * * *
55111932 AGATAGCCCTCATAGACTTCCCCCAA
1 AGATAGTCCTCACAGACTTCCACAAA
55111958 AGATAGTC
1 AGATAGTC
55111966 TTTATAGACT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.35, C:0.32, G:0.13, T:0.20
Consensus pattern (26 bp):
AGATAGTCCTCACAGACTTCCACAAA
Found at i:55112028 original size:27 final size:27
Alignment explanation
Indices: 55111954--55112030 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 27
55111944 TAGACTTCCC
*
55111954 CCAAAGATAG-TCTTTATAGACTTTCTA
1 CCAAAGATAGTTC-TAATAGACTTTCTA
* * * *
55111981 -CAGAAGATAATACTGACAGACTTTCTA
1 CCA-AAGATAGTTCTAATAGACTTTCTA
55112008 CCAAAGATAGTTCTAATAGACTT
1 CCAAAGATAGTTCTAATAGACTT
55112031 ATACAAAAGA
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
26 2 0.05
27 34 0.87
28 3 0.08
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.31
Consensus pattern (27 bp):
CCAAAGATAGTTCTAATAGACTTTCTA
Found at i:55113362 original size:2 final size:2
Alignment explanation
Indices: 55113355--55113379 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
55113345 ACATTCGGCC
55113355 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
55113380 AATGTATGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:55113985 original size:29 final size:28
Alignment explanation
Indices: 55113940--55114010 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 28
55113930 AATGAGATTG
* *
55113940 GCACTAAGTGTGTGAGTTTAAATT-GTATA
1 GCACTAAGTGTGCGAGTTT-AATTATTA-A
*
55113969 GCACTAAGTGTGCGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
55113997 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
55114011 GACTTACTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
28 18 0.47
29 20 0.53
ACGTcount: A:0.28, C:0.11, G:0.27, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:55114008 original size:28 final size:29
Alignment explanation
Indices: 55113940--55114010 Score: 92
Period size: 28 Copynumber: 2.5 Consensus size: 29
55113930 AATGAGATTG
*
55113940 GCACTAAGTGTGTGAGTTTAAATTGTATA
1 GCACTAAGTGTGCGAGTTTAAATTGTATA
* *
55113969 GCACTAAGTGTGCGAGTTT-GATTAT-TAA
1 GCACTAAGTGTGCGAGTTTAAATTGTAT-A
55113997 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
55114011 GACTTACTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
27 1 0.03
28 19 0.50
29 18 0.47
ACGTcount: A:0.28, C:0.11, G:0.27, T:0.34
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTTAAATTGTATA
Found at i:55117090 original size:162 final size:162
Alignment explanation
Indices: 55116803--55117119 Score: 408
Period size: 162 Copynumber: 2.0 Consensus size: 162
55116793 TGATGACAAA
* * *
55116803 CCCATGTGAAAGATGTTAAGAAGTTTAGGCGTTACACTTCAAGGACCCCAATCAAGCCCATAGCT
1 CCCATGTGAAAGAAGTTAAGAAGCTTAGGCGTTACACTTCAAGGACCCCAATCAAGCCCACAGCT
* * *
55116868 TAGTAATGTTATATTCAGTAGACTTGCAATGCATATCTAGAATGGATTAAAGCATTTTTTGGATA
66 TAGCAATGTTATATTCAGTAGACTTGCAATGCATATCTAGAATGGATCAAAGCATTTTTTGGACA
*
55116933 ATATGTCTTCATATCGATTGAAGATTTGTTTG
131 ATATGTCTGCATATCGATTGAAGATTTGTTTG
* *
55116965 CCCATGTGAAAGAAGTTAATAAGCTTAGGTGTTACACTTCAAGGACCCCAATCAAGCCACACA-C
1 CCCATGTGAAAGAAGTTAAGAAGCTTAGGCGTTACACTTCAAGGACCCCAATCAAGCC-CACAGC
* * *** * * * *
55117029 TTAGCCATG-TATATTTAGTCA-ACTTGTGGTTCATTTGTGGAATGGATCCAAA-CATTTTTTTG
65 TTAGCAATGTTATATTCAGT-AGACTTGCAATGCATATCTAGAATGGAT-CAAAGCA-TTTTTTG
55117091 GACAATATGTCTGCATATCGATTGAAGAT
127 GACAATATGTCTGCATATCGATTGAAGAT
55117120 CTATTTTTTA
Statistics
Matches: 133, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
161 30 0.23
162 100 0.75
163 3 0.02
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (162 bp):
CCCATGTGAAAGAAGTTAAGAAGCTTAGGCGTTACACTTCAAGGACCCCAATCAAGCCCACAGCT
TAGCAATGTTATATTCAGTAGACTTGCAATGCATATCTAGAATGGATCAAAGCATTTTTTGGACA
ATATGTCTGCATATCGATTGAAGATTTGTTTG
Found at i:55117488 original size:288 final size:287
Alignment explanation
Indices: 55116964--55117506 Score: 802
Period size: 288 Copynumber: 1.9 Consensus size: 287
55116954 AGATTTGTTT
*
55116964 GCCCATGTGAAAGAAGTTAATAAGCTTAGGTGTTACACTTCAAGGACCCCAATCAAGCCACACAC
1 GCCCATGTGAAAGAAGTTAATAAGCTTAGGCGTTACACTTCAAGGACCCCAATCAAGCCACACAC
* * * * *
55117029 TTAGCCATGTATATTTAGTCAACTTGTGGTTCATTTGTGGAATGGATCCAAACATTTTTTTGGAC
66 TTAGCCATGTATATTCAATCAACTTGCGGTGCATTTGTGGAATGGATCCAAACATTTTTTGGGAC
** * *
55117094 AATATGTCTGCATATCGATTGAAGATCTATTTTTTACCTTCTCAATGCACCCTGAACCACTCGAT
131 AATATGTCTGCATATCGATTGAAGATCTATTTCATACCTTCGCAATGCACCCTAAACCACTCGAT
* *
55117159 TTCGAGTTTGGGATCTCAAGTTATGACCATTTTAGTGAAGACTGA-ATGAGTAGAATTTTTTGTG
196 TTCGAGTTCGGGATCTCAAGTTATGACAATTTTAGTGAAGACT-ACATGAGTAGAATTTTTTGTG
55117223 GACTTAAAATATCAATCCATAACAACAA
260 GACTTAAAATATCAATCCATAACAACAA
* * *
55117251 GCCCATGTGGAAGATGTTAATAAGCTTAGGCGTTACACTTCAAGGACCCCAATCAAGCCCACACG
1 GCCCATGTGAAAGAAGTTAATAAGCTTAGGCGTTACACTTCAAGGACCCCAATCAAG-CCACACA
* *** * *
55117316 CTTAGTCATGTTATATTCAATTGGCTTGCGGTGCATTTGTGGCATGGATCCAAGCA-TTTTTGGG
65 CTTAGCCATG-TATATTCAATCAACTTGCGGTGCATTTGTGGAATGGATCCAAACATTTTTTGGG
* * **
55117380 ACAATATGTCTGCATATCGATTGAAGATTTGTTTCATACCTTCGCAATGCACTTTAAACCACTCG
129 ACAATATGTCTGCATATCGATTGAAGATCTATTTCATACCTTCGCAATGCACCCTAAACCACTCG
* *
55117445 ATTTTGAGTTCGGGATCTCAAGTTATGACAATTTTATTGAAGACTACATGAGTAGAATTTTT
194 ATTTCGAGTTCGGGATCTCAAGTTATGACAATTTTAGTGAAGACTACATGAGTAGAATTTTT
55117507 GGACGAGATT
Statistics
Matches: 226, Mismatches: 27, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
287 55 0.24
288 135 0.60
289 36 0.16
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (287 bp):
GCCCATGTGAAAGAAGTTAATAAGCTTAGGCGTTACACTTCAAGGACCCCAATCAAGCCACACAC
TTAGCCATGTATATTCAATCAACTTGCGGTGCATTTGTGGAATGGATCCAAACATTTTTTGGGAC
AATATGTCTGCATATCGATTGAAGATCTATTTCATACCTTCGCAATGCACCCTAAACCACTCGAT
TTCGAGTTCGGGATCTCAAGTTATGACAATTTTAGTGAAGACTACATGAGTAGAATTTTTTGTGG
ACTTAAAATATCAATCCATAACAACAA
Found at i:55119143 original size:47 final size:46
Alignment explanation
Indices: 55119073--55119248 Score: 164
Period size: 47 Copynumber: 3.8 Consensus size: 46
55119063 TTATTTGTGT
* * *
55119073 GCCAGTGTAAGATATGTCTGGGACAT-ACATCGGCCACCTTATGAGA
1 GCCAGAGTAAGACATGTCTGGGACATGGCATCGGCCA-CTTATGAGA
*
55119119 GCCAGAGTAAGACCATGTCTGGGACATGGCATCGG-CA-TTGAGACGAGA
1 GCCAGAGTAAGA-CATGTCTGGGACATGGCATCGGCCACTT---ATGAGA
* * *
55119167 GCTA-ATGTCAGACATGTTTGGGACAT-GCATCGGCCACATTATGAGA
1 GCCAGA-GTAAGACATGTCTGGGACATGGCATCGGCCAC-TTATGAGA
* *
55119213 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGC
1 GCCAGAGTAAGA-CATGTCTGGGACATGGCATCGGC
55119249 TACGAGATGT
Statistics
Matches: 107, Mismatches: 11, Indels: 22
0.76 0.08 0.16
Matches are distributed among these distances:
45 2 0.02
46 31 0.29
47 45 0.42
48 27 0.25
49 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (46 bp):
GCCAGAGTAAGACATGTCTGGGACATGGCATCGGCCACTTATGAGA
Found at i:55124441 original size:19 final size:20
Alignment explanation
Indices: 55124419--55124458 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
55124409 AATTTGAAAT
*
55124419 AAAATA-GAAAATTTTGGAA
1 AAAATACGAAAATTTGGGAA
55124438 AAAATACGAAAATTTGGGAA
1 AAAATACGAAAATTTGGGAA
55124458 A
1 A
55124459 CAGGGATCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.57, C:0.03, G:0.17, T:0.23
Consensus pattern (20 bp):
AAAATACGAAAATTTGGGAA
Found at i:55125489 original size:12 final size:13
Alignment explanation
Indices: 55125457--55125494 Score: 60
Period size: 12 Copynumber: 3.0 Consensus size: 13
55125447 GTTTAATTGG
55125457 TTCCATTTTCACA
1 TTCCATTTTCACA
*
55125470 TGCCATTTTCA-A
1 TTCCATTTTCACA
55125482 TTCCATTTTCACA
1 TTCCATTTTCACA
55125495 CAACATATAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.24, C:0.29, G:0.03, T:0.45
Consensus pattern (13 bp):
TTCCATTTTCACA
Found at i:55125859 original size:48 final size:47
Alignment explanation
Indices: 55125741--55125917 Score: 248
Period size: 48 Copynumber: 3.7 Consensus size: 47
55125731 AATCGATAAG
*** *
55125741 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATC-CTGGAG
1 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTT-TCTCCAAAA
* *
55125788 TACCTATACCATTGCCGGTAGCCAAATCAAGGTAACTCTTCTCCAAAA
1 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACT-TTCTCCAAAA
55125836 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTTTCTCCAAAA
1 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAAC-TTTCTCCAAAA
* *
55125884 TACCAATACCATGGCCCGTAGACAAATCAAGGTA
1 TACCTATACCATGGCCCGTAGCCAAATCAAGGTA
55125918 TAACTCACAC
Statistics
Matches: 117, Mismatches: 10, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
47 37 0.32
48 79 0.68
49 1 0.01
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.23
Consensus pattern (47 bp):
TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTTCTCCAAAA
Found at i:55126055 original size:21 final size:21
Alignment explanation
Indices: 55126029--55126070 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
55126019 TTTCCAATAC
55126029 CAAATCA-TAGTCGAATCATTT
1 CAAATCACT-GTCGAATCATTT
*
55126050 CAAATCACTGTTGAATCATTT
1 CAAATCACTGTCGAATCATTT
55126071 TTGAATCATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.36
Consensus pattern (21 bp):
CAAATCACTGTCGAATCATTT
Found at i:55132292 original size:40 final size:40
Alignment explanation
Indices: 55132247--55132431 Score: 180
Period size: 40 Copynumber: 4.6 Consensus size: 40
55132237 TACACATTCA
* *
55132247 AATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACG
1 AATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACG
* * *
55132287 AATGCCTTCGGGACTTAACCCGGATTTAGTAGCTCGCTCG
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACG
* *
55132327 AAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACG
1 AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACG
* * ** * *
55132367 TATGCCGTC-GGATCTTATTCCGGATTTAGTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCACG
*
55132407 AAAGCCTTCGGGACTTAGCCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAT
55132432 ATCATTCGAA
Statistics
Matches: 120, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
39 3 0.03
40 107 0.89
41 10 0.08
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACG
Found at i:55132411 original size:80 final size:80
Alignment explanation
Indices: 55132250--55132431 Score: 203
Period size: 80 Copynumber: 2.3 Consensus size: 80
55132240 ACATTCAAAT
* * *
55132250 GCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTT
1 GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCGTCGGGACTTAACCCGGATTT
* *
55132314 AGTAGCTCGCTCGAAA
65 AGTAGCTAGCACGAAA
* * **
55132330 GCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGTATGCCGTC-GGATCTTATTCCGGATT
1 GCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGA-CTTAACCCGGATT
55132393 TAGTCA-CTTAGCAC-AAA
64 TAGT-AGC-TAGCACGAAA
55132410 GCCTTCGGGACTTAGCCCGGAT
1 GCCTTCGGGACTTAGCCCGGAT
55132432 ATCATTCGAA
Statistics
Matches: 86, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
79 6 0.07
80 70 0.81
81 10 0.12
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
GCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGACTTAACCCGGATTTA
GTAGCTAGCACGAAA
Found at i:55140268 original size:40 final size:40
Alignment explanation
Indices: 55140223--55140407 Score: 180
Period size: 40 Copynumber: 4.6 Consensus size: 40
55140213 TACACATTCA
* *
55140223 AATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACG
1 AATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACG
* * *
55140263 AATGCCTTCGGGACTTAACCCGGATTTAGTAGCTCGCTCG
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACG
* *
55140303 AAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACG
1 AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACG
* * ** * *
55140343 TATGCCGTC-GGATCTTATTCCGGATTTAGTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCACG
*
55140383 AAAGCCTTCGGGACTTAGCCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAT
55140408 ATCATTCGAA
Statistics
Matches: 120, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
39 3 0.03
40 107 0.89
41 10 0.08
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACG
Found at i:55140387 original size:80 final size:80
Alignment explanation
Indices: 55140226--55140407 Score: 203
Period size: 80 Copynumber: 2.3 Consensus size: 80
55140216 ACATTCAAAT
* * *
55140226 GCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTT
1 GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCGTCGGGACTTAACCCGGATTT
* *
55140290 AGTAGCTCGCTCGAAA
65 AGTAGCTAGCACGAAA
* * **
55140306 GCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGTATGCCGTC-GGATCTTATTCCGGATT
1 GCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGA-CTTAACCCGGATT
55140369 TAGTCA-CTTAGCAC-AAA
64 TAGT-AGC-TAGCACGAAA
55140386 GCCTTCGGGACTTAGCCCGGAT
1 GCCTTCGGGACTTAGCCCGGAT
55140408 ATCATTCGAA
Statistics
Matches: 86, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
79 6 0.07
80 70 0.81
81 10 0.12
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
GCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGACTTAACCCGGATTTA
GTAGCTAGCACGAAA
Found at i:55147203 original size:27 final size:26
Alignment explanation
Indices: 55147137--55147223 Score: 77
Period size: 27 Copynumber: 3.3 Consensus size: 26
55147127 AGCTGCTAGA
*
55147137 AACAATAAATGTGGCAAAGCCACCAGT
1 AACAAT-AATGTGGCATAGCCACCAGT
** * *
55147164 ATTAGTAATTGTGGCATACCCACCAGT
1 AACAATAA-TGTGGCATAGCCACCAGT
* *
55147191 AACAATGAATGTGACATAGTCACCAGT
1 AACAAT-AATGTGGCATAGCCACCAGT
55147218 -ACAATA
1 AACAATA
55147224 CTTCCTCCAT
Statistics
Matches: 47, Mismatches: 11, Indels: 6
0.73 0.17 0.09
Matches are distributed among these distances:
25 1 0.02
26 7 0.15
27 37 0.79
28 2 0.04
ACGTcount: A:0.40, C:0.21, G:0.17, T:0.22
Consensus pattern (26 bp):
AACAATAATGTGGCATAGCCACCAGT
Found at i:55147434 original size:27 final size:27
Alignment explanation
Indices: 55147404--55147480 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 27
55147394 ATCTTATAAA
*
55147404 GGTATTTCGATAATTTTACAAATC-GTG
1 GGTATTTCGATAATTTCACAAATCAG-G
55147431 GGTATTTC-AGTAATTTCACAAATCAGG
1 GGTATTTCGA-TAATTTCACAAATCAGG
* *
55147458 GGTATTTTGGTAATTTCACAAAT
1 GGTATTTCGATAATTTCACAAAT
55147481 TGAGGTCTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
26 1 0.02
27 42 0.95
28 1 0.02
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.39
Consensus pattern (27 bp):
GGTATTTCGATAATTTCACAAATCAGG
Found at i:55147725 original size:18 final size:17
Alignment explanation
Indices: 55147695--55147728 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
55147685 TATCAGTGTG
*
55147695 GGGCCCACGAGCCCATT
1 GGGCCCACCAGCCCATT
55147712 GGGCCCACACAGCCCAT
1 GGGCCCAC-CAGCCCAT
55147729 CGAGGCCCAA
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:0.21, C:0.44, G:0.26, T:0.09
Consensus pattern (17 bp):
GGGCCCACCAGCCCATT
Found at i:55155909 original size:17 final size:17
Alignment explanation
Indices: 55155887--55155921 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
55155877 CAAGATGAAA
55155887 TATCTTGTAGTTAAACC
1 TATCTTGTAGTTAAACC
55155904 TATCTTGTAGTTAAACC
1 TATCTTGTAGTTAAACC
55155921 T
1 T
55155922 GACTCTCAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.17, G:0.11, T:0.43
Consensus pattern (17 bp):
TATCTTGTAGTTAAACC
Found at i:55159455 original size:6 final size:6
Alignment explanation
Indices: 55159444--55159481 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
55159434 AAAATCTGTG
*
55159444 TTTTT- TTTTTT TTTTTA TTTTTA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
55159482 ATTTTCACAC
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
5 5 0.16
6 26 0.84
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (6 bp):
TTTTTA
Found at i:55159476 original size:22 final size:22
Alignment explanation
Indices: 55159445--55159486 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
55159435 AAATCTGTGT
* *
55159445 TTTTTTTTTTTTTTTATTTTTA
1 TTTTTATTTTTATTTATTTTTA
55159467 TTTTTATTTTTATTTATTTT
1 TTTTTATTTTTATTTATTTT
55159487 CACACTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (22 bp):
TTTTTATTTTTATTTATTTTTA
Found at i:55162502 original size:45 final size:45
Alignment explanation
Indices: 55162441--55162591 Score: 207
Period size: 45 Copynumber: 3.4 Consensus size: 45
55162431 TTTTGGTATA
* * * *
55162441 TGTTTTCGTGTAAGACCACATCTAGGATGTTGGCATCGATATATG
1 TGTTTTCATGTAAGACCACGTCTGGGACGTTGGCATCGATATATG
*
55162486 TGTTTTCATGTCAGACCACGTCTGGGACGTTGGCATCGATATATG
1 TGTTTTCATGTAAGACCACGTCTGGGACGTTGGCATCGATATATG
* *
55162531 TATTTTCATGTAAGACCACGTCTGGGACGTTGGCATCAATATATG
1 TGTTTTCATGTAAGACCACGTCTGGGACGTTGGCATCGATATATG
* *
55162576 -GTTATGA-GTAAGACCA
1 TGTTTTCATGTAAGACCA
55162592 TCGTATTTGA
Statistics
Matches: 95, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
43 9 0.09
44 4 0.04
45 82 0.86
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (45 bp):
TGTTTTCATGTAAGACCACGTCTGGGACGTTGGCATCGATATATG
Found at i:55167983 original size:15 final size:15
Alignment explanation
Indices: 55167963--55167995 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
55167953 AAACATAGTT
55167963 TAATTTATGTTATTA
1 TAATTTATGTTATTA
55167978 TAATTTATGTTATTA
1 TAATTTATGTTATTA
55167993 TAA
1 TAA
55167996 CATATATATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (15 bp):
TAATTTATGTTATTA
Found at i:55172320 original size:29 final size:29
Alignment explanation
Indices: 55172292--55172422 Score: 172
Period size: 29 Copynumber: 4.5 Consensus size: 29
55172282 CCTCCGAGCT
** * * *
55172292 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* * * *
55172321 TGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
55172350 CGCACACTTAGTGCCTTATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
55172379 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
55172408 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
55172423 GATCTCGTCA
Statistics
Matches: 90, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 90 1.00
ACGTcount: A:0.24, C:0.32, G:0.15, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:55172354 original size:58 final size:58
Alignment explanation
Indices: 55172234--55172423 Score: 188
Period size: 58 Copynumber: 3.3 Consensus size: 58
55172224 TACTCGATTT
* * * *** *
55172234 CGCACACTTAGTGCCACGTA-ATTT-AAGCCCGCACACACAGTGCCATA-CCCTCCGAGCT
1 CGCACACTTAGTG-C-CGTATATTTCCAGCACGCACACATAGTGCCATATATTTCC-AGCA
** * ** * *
55172292 CGCACACCCAGTGCCGTATTTTTCCAGCTTGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
* *
55172350 CGCACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
55172408 CGCACACTTAGTGCCG
1 CGCACACTTAGTGCCG
55172424 ATCTCGTCAC
Statistics
Matches: 107, Mismatches: 22, Indels: 6
0.79 0.16 0.04
Matches are distributed among these distances:
56 4 0.04
57 4 0.04
58 96 0.90
59 3 0.03
ACGTcount: A:0.24, C:0.34, G:0.16, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
Found at i:55180053 original size:17 final size:18
Alignment explanation
Indices: 55180011--55180059 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
55180001 AGTTGAAAAG
55180011 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
55180030 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
55180047 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
55180060 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:55180944 original size:40 final size:40
Alignment explanation
Indices: 55180878--55181028 Score: 173
Period size: 40 Copynumber: 3.8 Consensus size: 40
55180868 AAATTGAATG
* * *
55180878 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
55180917 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
55180957 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
55180997 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
55181029 ACTGATTATA
Statistics
Matches: 95, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
39 16 0.17
40 77 0.81
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:55192481 original size:40 final size:39
Alignment explanation
Indices: 55192316--55192499 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
55192306 GAAATTGATG
* * *
55192316 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
55192356 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
55192396 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
55192436 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
55192475 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
55192500 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:55192524 original size:80 final size:81
Alignment explanation
Indices: 55192356--55192544 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
55192346 GCTGGAAATT
* * * *
55192356 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
55192421 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
55192437 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
55192500 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
55192516 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
55192545 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:55198149 original size:43 final size:43
Alignment explanation
Indices: 55198102--55198257 Score: 267
Period size: 43 Copynumber: 3.6 Consensus size: 43
55198092 CCGGCATTAT
*
55198102 AGCCTGCTAGGCACGAAGGCCCAAATACACATCACCGGCACGA
1 AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGA
* *
55198145 AGCCTGCTAGGCACGAAGGCCCGAATACACATCAACAGCACGA
1 AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGA
*
55198188 AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTA
1 AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGA
*
55198231 AGCCTGCTAGGCACAAAGGCCCGAATA
1 AGCCTGCTAGGCACGAAGGCCCGAATA
55198258 TAATACCAGC
Statistics
Matches: 106, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 106 1.00
ACGTcount: A:0.33, C:0.33, G:0.24, T:0.10
Consensus pattern (43 bp):
AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGA
Found at i:55198323 original size:38 final size:38
Alignment explanation
Indices: 55198250--55198333 Score: 96
Period size: 38 Copynumber: 2.2 Consensus size: 38
55198240 GGCACAAAGG
* * * *
55198250 CCCGAATATAATACCAGCACTAGGCTTGCGGGATTTAT
1 CCCGAATATAATACCAGCACGAAGCCTGCGAGATTTAT
* * *
55198288 CCCGGATATAATACCAGTACGAAGCCTGCGAGATTTAA
1 CCCGAATATAATACCAGCACGAAGCCTGCGAGATTTAT
*
55198326 CCCAAATA
1 CCCGAATA
55198334 CACATCAAAT
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (38 bp):
CCCGAATATAATACCAGCACGAAGCCTGCGAGATTTAT
Found at i:55201005 original size:16 final size:16
Alignment explanation
Indices: 55200984--55201014 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
55200974 GTCTTCCCCC
*
55200984 TTTTCTTTCCTCAATA
1 TTTTCTTTCCCCAATA
55201000 TTTTCTTTCCCCAAT
1 TTTTCTTTCCCCAAT
55201015 TTCGGCAATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.29, G:0.00, T:0.55
Consensus pattern (16 bp):
TTTTCTTTCCCCAATA
Found at i:55202344 original size:40 final size:40
Alignment explanation
Indices: 55202101--55202332 Score: 374
Period size: 40 Copynumber: 5.8 Consensus size: 40
55202091 GAGAATTGAG
55202101 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
55202141 AGTGATGTACCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
55202181 AGTGATGTACCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
55202221 AGTGATGTATCCGGGCTAAGTCCCAAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
55202261 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * ** *
55202301 GGTGTTATATCATGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCA
55202333 ATCATGCTGG
Statistics
Matches: 180, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 180 1.00
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.25
Consensus pattern (40 bp):
AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:55205891 original size:51 final size:50
Alignment explanation
Indices: 55205834--55206247 Score: 603
Period size: 51 Copynumber: 8.4 Consensus size: 50
55205824 TTTAGGCTTT
*
55205834 AATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACC-GTATATATATGTGTGATAAGGCCGAATGGCC
***
55205885 AATGTGATGAATGTGAA-C--ATGCGTATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACCGTATATATATGTGTGATAAGGCCGAATGGCC
***
55205932 AATGTGATGAATGTGAA-C--ATGCGTATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACCGTATATATATGTGTGATAAGGCCGAATGGCC
*
55205979 AATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACC-GTATATATATGTGTGATAAGGCCGAATGGCC
55206030 AATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAA-CCGTATATATATGTGTGATAAGGCCGAATGGCC
***
55206081 AATGTGATGAATGTGAA-C--ATGCGTATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACCGTATATATATGTGTGATAAGGCCGAATGGCC
* *
55206128 AATGTGATGAATGTGAACCTGTATATATATGCGTCATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACC-GTATATATATGTGTGATAAGGCCGAATGGCC
55206179 AATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAA-CCGTATATATATGTGTGATAAGGCCGAATGGCC
55206230 AATGTGATGAATGTGAAC
1 AATGTGATGAATGTGAAC
55206248 ATGCGTATGT
Statistics
Matches: 334, Mismatches: 19, Indels: 21
0.89 0.05 0.06
Matches are distributed among these distances:
47 132 0.40
48 2 0.01
49 1 0.00
50 2 0.01
51 193 0.58
52 4 0.01
ACGTcount: A:0.31, C:0.13, G:0.29, T:0.27
Consensus pattern (50 bp):
AATGTGATGAATGTGAACCGTATATATATGTGTGATAAGGCCGAATGGCC
Found at i:55205913 original size:23 final size:23
Alignment explanation
Indices: 55205886--55205960 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
55205876 CGAATGGCCA
55205886 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
* * **
55205909 ATGTG-TGATAAG-G-CCGAATGGCCA
1 ATGTGATGA-ATGTGAAC--AT-GCGT
55205933 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
55205956 ATGTG
1 ATGTG
55205961 TGATAAGGCC
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
21 1 0.03
22 4 0.11
23 16 0.43
24 11 0.30
25 4 0.11
26 1 0.03
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.28
Consensus pattern (23 bp):
ATGTGATGAATGTGAACATGCGT
Found at i:55205936 original size:98 final size:100
Alignment explanation
Indices: 55205834--55206247 Score: 610
Period size: 98 Copynumber: 4.2 Consensus size: 100
55205824 TTTAGGCTTT
55205834 AATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGT
1 AATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGT
* *
55205899 GAA-C-ATGCGTATGTGTGATAAGGCCGAATGGCC
66 GAACCTATACATATGTGTGATAAGGCCGAATGGCC
*** *
55205932 AATGTGATGAATGTGAA-C---ATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGT
1 AATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGT
* *
55205993 GAACCTGTATATATATGCGTGATAAGGCCGAATGGCC
66 GAACC--TATACATATGTGTGATAAGGCCGAATGGCC
* *
55206030 AATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGT
1 AATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGT
* *
55206095 GAA-C-ATGCGTATGTGTGATAAGGCCGAATGGCC
66 GAACCTATACATATGTGTGATAAGGCCGAATGGCC
*
55206128 AATGTGATGAATGTGAACCTGTATATATATGCGTCATAAGGCCGAATGGCCAATGTGATGAATGT
1 AATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGT
*
55206193 GAACCCGTATATATATGTGTGATAAGGCCGAATGGCC
66 GAA-CC-TATACATATGTGTGATAAGGCCGAATGGCC
55206230 AATGTGATGAATGTGAAC
1 AATGTGATGAATGTGAAC
55206248 ATGCGTATGT
Statistics
Matches: 283, Mismatches: 21, Indels: 20
0.87 0.06 0.06
Matches are distributed among these distances:
94 42 0.15
95 1 0.00
97 1 0.00
98 149 0.53
99 1 0.00
100 1 0.00
101 1 0.00
102 87 0.31
ACGTcount: A:0.31, C:0.13, G:0.29, T:0.27
Consensus pattern (100 bp):
AATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGT
GAACCTATACATATGTGTGATAAGGCCGAATGGCC
Found at i:55205937 original size:38 final size:39
Alignment explanation
Indices: 55205894--55205985 Score: 105
Period size: 47 Copynumber: 2.2 Consensus size: 39
55205884 CAATGTGATG
55205894 AATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGA
1 AATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCC------A
55205939 TGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCC-
1 --AATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
55205979 AATGTGA
1 AATGTGA
55205986 TGAATGTGAA
Statistics
Matches: 45, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
38 7 0.16
47 38 0.84
ACGTcount: A:0.30, C:0.13, G:0.32, T:0.25
Consensus pattern (39 bp):
AATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
Found at i:55206086 original size:24 final size:24
Alignment explanation
Indices: 55206058--55206133 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
55206048 CCGTATATAT
55206058 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
* * **
55206082 ATGTGATGA-ATGTG--AACAT-GCGT
1 ATGTG-TGATAAG-GCCGA-ATGGCCA
55206105 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
55206129 ATGTG
1 ATGTG
55206134 ATGAATGTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
22 4 0.11
23 12 0.32
24 17 0.46
25 4 0.11
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.25
Consensus pattern (24 bp):
ATGTGTGATAAGGCCGAATGGCCA
Found at i:55206120 original size:149 final size:149
Alignment explanation
Indices: 55205834--55206259 Score: 788
Period size: 149 Copynumber: 2.9 Consensus size: 149
55205824 TTTAGGCTTT
55205834 AATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGT
1 AATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGT
***
55205899 GAA--C--ATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGT
66 GAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGT
55205960 GTGATAAGGCCGAATGGCC
131 GTGATAAGGCCGAATGGCC
55205979 AATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGT
1 AATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGT
55206044 GAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGT
66 GAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGT
55206109 GTGATAAGGCCGAATGGCC
131 GTGATAAGGCCGAATGGCC
*
55206128 AATGTGATGAATGTGAACCTGTATATATATGCGTCATAAGGCCGAATGGCCAATGTGATGAATGT
1 AATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGT
55206193 GAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGT
66 GAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGT
55206258 GT
131 GT
55206260 AACAGCCCTA
Statistics
Matches: 273, Mismatches: 4, Indels: 4
0.97 0.01 0.01
Matches are distributed among these distances:
145 68 0.25
147 1 0.00
149 204 0.75
ACGTcount: A:0.31, C:0.13, G:0.29, T:0.27
Consensus pattern (149 bp):
AATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGT
GAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGT
GTGATAAGGCCGAATGGCC
Found at i:55207951 original size:23 final size:24
Alignment explanation
Indices: 55207885--55207970 Score: 147
Period size: 24 Copynumber: 3.6 Consensus size: 24
55207875 AATCTCAAAT
55207885 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
55207909 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
55207933 GCACTATGTGT-CGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
55207956 GCGCTATGTGTGCGA
1 GCACTATGTGTGCGA
55207971 ACATAATAAG
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
23 21 0.36
24 37 0.64
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:55207983 original size:47 final size:48
Alignment explanation
Indices: 55207885--55207992 Score: 157
Period size: 47 Copynumber: 2.3 Consensus size: 48
55207875 AATCTCAAAT
** *
55207885 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGACATAATATA
*
55207933 GCACTATGTGT-CGATTTACTATGGCGCTATGTGTGCGAACATAATA-A
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCG-ACATAATATA
55207980 GCACTATGTGTGC
1 GCACTATGTGTGC
55207993 AACGTTTGGT
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
47 37 0.69
48 17 0.31
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (48 bp):
GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGACATAATATA
Found at i:55209402 original size:47 final size:47
Alignment explanation
Indices: 55209333--55209424 Score: 148
Period size: 47 Copynumber: 2.0 Consensus size: 47
55209323 CAGTATGTGT
55209333 GATAAGGCAGAATGGCCAATGTGATAAATGTGAACATGCATATATGA
1 GATAAGGCAGAATGGCCAATGTGATAAATGTGAACATGCATATATGA
* * * *
55209380 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACGTGTATATAT
1 GATAAGGCAGAATGGCCAATGTGATAAATGTGAACATGCATATAT
55209425 ATATTGTGGC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.37, C:0.11, G:0.27, T:0.25
Consensus pattern (47 bp):
GATAAGGCAGAATGGCCAATGTGATAAATGTGAACATGCATATATGA
Found at i:55209604 original size:37 final size:37
Alignment explanation
Indices: 55209553--55209685 Score: 212
Period size: 37 Copynumber: 3.6 Consensus size: 37
55209543 AACTTGGAAA
*
55209553 TATATTCCGAGTAAGACCCGATGACTACGTGTGGAGAT
1 TATA-TCCGGGTAAGACCCGATGACTACGTGTGGAGAT
55209591 TATATCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATATCCGGGTAAGACCCGATGACTACGTGTGGAGAT
* *
55209628 TATGTCCGGGTAAGACCCGAAGACTACGTGTGGAGAT
1 TATATCCGGGTAAGACCCGATGACTACGTGTGGAGAT
* *
55209665 TTTGTCCGGGTAAGACCCGAT
1 TATATCCGGGTAAGACCCGAT
55209686 AACTTTGCGT
Statistics
Matches: 90, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
37 86 0.96
38 4 0.04
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (37 bp):
TATATCCGGGTAAGACCCGATGACTACGTGTGGAGAT
Found at i:55209698 original size:74 final size:74
Alignment explanation
Indices: 55209558--55209702 Score: 218
Period size: 74 Copynumber: 2.0 Consensus size: 74
55209548 GGAAATATAT
* * *
55209558 TCCGAGTAAGACCCGATGACTACGTGTGGAGATTATATCCGGGTAAGACCCGATGACTACGTGTG
1 TCCGAGTAAGACCCGAAGACTACGTGTGGAGATTATATCCGGGTAAGACCCGATAACTACGCGTG
55209623 GAGATTATG
66 GAGATTATG
* * * **
55209632 TCCGGGTAAGACCCGAAGACTACGTGTGGAGATTTTGTCCGGGTAAGACCCGATAACTTTGCGTG
1 TCCGAGTAAGACCCGAAGACTACGTGTGGAGATTATATCCGGGTAAGACCCGATAACTACGCGTG
55209697 GAGATT
66 GAGATT
55209703 TCGTCTGAGC
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
74 63 1.00
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (74 bp):
TCCGAGTAAGACCCGAAGACTACGTGTGGAGATTATATCCGGGTAAGACCCGATAACTACGCGTG
GAGATTATG
Found at i:55212412 original size:98 final size:98
Alignment explanation
Indices: 55212341--55212664 Score: 440
Period size: 98 Copynumber: 3.3 Consensus size: 98
55212331 TTTAGGATTT
55212341 AATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGT
1 AATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGT
***
55212406 GAACATGCGTATGTGTGATAAGGCCGAATGGCC
66 GAACATGAAAATGTGTGATAAGGCCGAATGGCC
55212439 AATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGT
1 AATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGT
**
55212504 GAACCCGTATATATATGTGTGATAAGGCCGAATGGCC
66 GAACATG-A-A-A-ATGTGTGATAAGGCCGAATGGCC
*** * * *
55212541 AATGTGATGAATGTGAA-C---ATGCGTATGTGTGGTAAGGCCGAATAGCCAATGTGATGAATGT
1 AATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGT
* * * *
55212602 GAACATGCATATATGAGATAAGGCCGAATGGCC
66 GAACATGAAAATGTGTGATAAGGCCGAATGGCC
*
55212635 AATGTGATGAATGTGAACGTGTATATATAT
1 AATGTGATGAATGTGAACCTGTATATATAT
55212665 ATTGTGGCCA
Statistics
Matches: 197, Mismatches: 21, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
94 38 0.19
96 1 0.01
98 117 0.59
101 1 0.01
102 40 0.20
ACGTcount: A:0.32, C:0.12, G:0.28, T:0.27
Consensus pattern (98 bp):
AATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGT
GAACATGAAAATGTGTGATAAGGCCGAATGGCC
Found at i:55212661 original size:47 final size:47
Alignment explanation
Indices: 55212341--55212662 Score: 392
Period size: 47 Copynumber: 6.6 Consensus size: 47
55212331 TTTAGGATTT
*
55212341 AATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAA-C-GTGTATATAT--GTGATAAGGCCGAATGGCC
* ** *
55212392 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACGTGTATATATGTGATAAGGCCGAATGGCC
*
55212439 AATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAA-C-GTGTATATAT--GTGATAAGGCCGAATGGCC
*
55212490 AATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAA--CGTGTATATA--TGTGATAAGGCCGAATGGCC
* ** * * *
55212541 AATGTGATGAATGTGAACATGCGTATGTGTGGTAAGGCCGAATAGCC
1 AATGTGATGAATGTGAACGTGTATATATGTGATAAGGCCGAATGGCC
* * *
55212588 AATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACGTGTATATATGTGATAAGGCCGAATGGCC
55212635 AATGTGATGAATGTGAACGTGTATATAT
1 AATGTGATGAATGTGAACGTGTATATAT
55212663 ATATTGTGGC
Statistics
Matches: 240, Mismatches: 24, Indels: 18
0.85 0.09 0.06
Matches are distributed among these distances:
47 122 0.51
48 1 0.00
49 15 0.06
50 1 0.00
51 98 0.41
52 2 0.01
53 1 0.00
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (47 bp):
AATGTGATGAATGTGAACGTGTATATATGTGATAAGGCCGAATGGCC
Found at i:55212666 original size:149 final size:147
Alignment explanation
Indices: 55212341--55212664 Score: 544
Period size: 149 Copynumber: 2.2 Consensus size: 147
55212331 TTTAGGATTT
*
55212341 AATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGT
1 AATGTGATGAATGTGAACCTGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGT
* * *
55212406 GAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCTGTATATATATGC
66 GAACATGCGTATGTGTGATAAGGCCGAATAGCCAATGTGATGAATGTGAACATG-ACATATAT-C
*
55212471 GTGATAAGGCCGAATGGCC
129 GAGATAAGGCCGAATGGCC
*
55212490 AATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGT
1 AATGTGATGAATGTGAACCTGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGT
*
55212555 GAACATGCGTATGTGTGGTAAGGCCGAATAGCCAATGTGATGAATGTGAACATG-CATATAT-GA
66 GAACATGCGTATGTGTGATAAGGCCGAATAGCCAATGTGATGAATGTGAACATGACATATATCGA
55212618 GATAAGGCCGAATGGCC
131 GATAAGGCCGAATGGCC
*
55212635 AATGTGATGAATGTGAACGTGTATATATAT
1 AATGTGATGAATGTGAACCTGTATATATAT
55212665 ATTGTGGCCA
Statistics
Matches: 166, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
145 46 0.28
147 6 0.04
149 114 0.69
ACGTcount: A:0.32, C:0.12, G:0.28, T:0.27
Consensus pattern (147 bp):
AATGTGATGAATGTGAACCTGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGT
GAACATGCGTATGTGTGATAAGGCCGAATAGCCAATGTGATGAATGTGAACATGACATATATCGA
GATAAGGCCGAATGGCC
Found at i:55212942 original size:37 final size:37
Alignment explanation
Indices: 55212797--55212941 Score: 202
Period size: 37 Copynumber: 3.9 Consensus size: 37
55212787 GGAAATATAT
* * *
55212797 TCCGGGTAAGACCCAATGACTACGTGTGGAGATTATA
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTATG
*
55212834 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTATG
* *
55212871 TCTGGGTAAGACCCGA-AGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATA-ACTACGTGTGGAGATTATG
* *
55212908 TCCGGGTAAGACCCGATAACTTCGCGTGGAGATT
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATT
55212942 TCGTCTGAGC
Statistics
Matches: 98, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
37 97 0.99
38 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATAACTACGTGTGGAGATTATG
Found at i:55212948 original size:74 final size:74
Alignment explanation
Indices: 55212800--55212941 Score: 223
Period size: 74 Copynumber: 1.9 Consensus size: 74
55212790 AATATATTCC
* *
55212800 GGGTAAGACCCAATGACTACGTGTGGAGATTATATCCGGGTAAGACCCGATGACTACGTGTGGAG
1 GGGTAAGACCCAATGACTACGTGTGGAGATTATATCCGGGTAAGACCCGATAACTACGCGTGGAG
55212865 ATTATGTCT
66 ATTATGTCT
* * *
55212874 GGGTAAGACCCGAA-GACTACGTGTGGAGATTTTGTCCGGGTAAGACCCGATAACTTCGCGTGGA
1 GGGTAAGACCC-AATGACTACGTGTGGAGATTATATCCGGGTAAGACCCGATAACTACGCGTGGA
55212938 GATT
65 GATT
55212942 TCGTCTGAGC
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
74 60 0.97
75 2 0.03
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (74 bp):
GGGTAAGACCCAATGACTACGTGTGGAGATTATATCCGGGTAAGACCCGATAACTACGCGTGGAG
ATTATGTCT
Found at i:55214248 original size:40 final size:40
Alignment explanation
Indices: 55214204--55214435 Score: 347
Period size: 40 Copynumber: 5.8 Consensus size: 40
55214194 GAGAATTGAG
55214204 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
55214244 AGTGATGTACCCGGGCTAAGTCCCGAAGAGAATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
55214284 AGTGATATATCCGGGCTAAGTACCGAAGAGCATTCATGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
55214324 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
55214364 AGTGATGTATCCGGGCTAAGTTCTGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * ** *
55214404 GGTGTTATATCATGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCA
55214436 ATCATGCTGG
Statistics
Matches: 172, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 172 1.00
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:55214421 original size:120 final size:120
Alignment explanation
Indices: 55214204--55214448 Score: 382
Period size: 120 Copynumber: 2.0 Consensus size: 120
55214194 GAGAATTGAG
55214204 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTACCCGGGCTAAGTCCCG
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTACCCGGGCTAAGTCCCG
* *
55214269 AAGAGAATTCGTGCTAGTGATATATCCGGGCTAAGTACCGAAGAGCATTCATGCT
66 AAGAGAATTCGTGCTAGTGATATATCAGGGCTAAGTACCGAAGAGCAATCATGCT
* * *
55214324 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCTG
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTACCCGGGCTAAGTCCCG
* * * * * *
55214389 AAGAGCATTCGTGCTGGTGTTATATCATGGCTAGGTCCCGAAGAGCAATCATGCT
66 AAGAGAATTCGTGCTAGTGATATATCAGGGCTAAGTACCGAAGAGCAATCATGCT
*
55214444 GGTGA
1 AGTGA
55214449 CGTGTATTCG
Statistics
Matches: 113, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
120 113 1.00
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.26
Consensus pattern (120 bp):
AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTACCCGGGCTAAGTCCCG
AAGAGAATTCGTGCTAGTGATATATCAGGGCTAAGTACCGAAGAGCAATCATGCT
Found at i:55217991 original size:51 final size:51
Alignment explanation
Indices: 55217934--55218457 Score: 684
Period size: 51 Copynumber: 10.6 Consensus size: 51
55217924 TTTAGGATTT
* *
55217934 AATGTGATGAATGTGAACTTGTATATATATGCGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACCTGTATATATATGTGTGATAAGGCCGAATGGCC
**
55217985 AATGTGATGAATGTGAACCCATATATATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACCTGTATATATATGTGTGATAAGGCCGAATGGCC
*** *
55218036 AATGTGATGAATGTGAA-C---ATGCGTATGTGTGATAAGGCCAAATGGCC
1 AATGTGATGAATGTGAACCTGTATATATATGTGTGATAAGGCCGAATGGCC
* *
55218083 AATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCTGAATGGCC
1 AATGTGATGAATGTGAACCTGTATATATATGTGTGATAAGGCCGAATGGCC
* * *
55218134 AAGGTGATGAATATGAACCCGTATATATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACCTGTATATATATGTGTGATAAGGCCGAATGGCC
*** *
55218185 AATGTGATGAATGTGAA-C---ATGCGTATGTGTGATATGGCCGAATGGCC
1 AATGTGATGAATGTGAACCTGTATATATATGTGTGATAAGGCCGAATGGCC
*
55218232 AATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACCTGTATATATATGTGTGATAAGGCCGAATGGCC
*
55218283 AATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACCTGTATATATATGTGTGATAAGGCCGAATGGCC
* *** *
55218334 AATGTGATGAATATGAA-C---ATGCGTATGTGTGGTAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACCTGTATATATATGTGTGATAAGGCCGAATGGCC
* * *
55218381 AATGTGATGAATGTGAACATG--CATATA--TGAGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACCTGTATATATATGTGTGATAAGGCCGAATGGCC
*
55218428 AATGTGATGAATGTGAACGTGTATATATAT
1 AATGTGATGAATGTGAACCTGTATATATAT
55218458 ATTGTGGCCA
Statistics
Matches: 412, Mismatches: 47, Indels: 29
0.84 0.10 0.06
Matches are distributed among these distances:
47 163 0.40
48 2 0.00
49 7 0.02
50 3 0.01
51 237 0.58
ACGTcount: A:0.32, C:0.12, G:0.28, T:0.27
Consensus pattern (51 bp):
AATGTGATGAATGTGAACCTGTATATATATGTGTGATAAGGCCGAATGGCC
Found at i:55218082 original size:98 final size:99
Alignment explanation
Indices: 55217934--55218445 Score: 639
Period size: 98 Copynumber: 5.2 Consensus size: 99
55217924 TTTAGGATTT
* *
55217934 AATGTGATGAATGTGAACTTGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGT
1 AATGTGATGAATGTGAAC---TATACATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGT
55217999 GAACCCATATATATATGTGTGATAAGGCCGAATGGCC
63 GAACCCATATATATATGTGTGATAAGGCCGAATGGCC
* * *
55218036 AATGTGATGAATGTGAAC-ATGCGTATGTGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAA
1 AATGTGATGAATGTGAACTATACATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
** * *
55218100 CCTGTATATATATGCGTGATAAGGCTGAATGGCC
66 CCCATATATATATGTGTGATAAGGCCGAATGGCC
* * *
55218134 AAGGTGATGAATATGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGT
1 AATGTGATGAATGTGAA--C-TATACATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGT
*** *
55218199 GAA--C--ATGCGTATGTGTGATATGGCCGAATGGCC
63 GAACCCATATATATATGTGTGATAAGGCCGAATGGCC
* *
55218232 AATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGT
1 AATGTGATGAATGTGAA-C--TATACATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGT
*
55218297 GAACCCGTATATATATGTGTGATAAGGCCGAATGGCC
63 GAACCCATATATATATGTGTGATAAGGCCGAATGGCC
* * * *
55218334 AATGTGATGAATATGAAC-ATGCGTATGTGTGGTAAGGCCGAATGGCCAATGTGATGAATGTGAA
1 AATGTGATGAATGTGAACTATACATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
** *
55218398 --CATGCATATA--TGAGATAAGGCCGAATGGCC
66 CCCATATATATATGTGTGATAAGGCCGAATGGCC
55218428 AATGTGATGAATGTGAAC
1 AATGTGATGAATGTGAAC
55218446 GTGTATATAT
Statistics
Matches: 361, Mismatches: 40, Indels: 26
0.85 0.09 0.06
Matches are distributed among these distances:
94 36 0.10
96 7 0.02
97 2 0.01
98 212 0.59
100 2 0.01
101 1 0.00
102 101 0.28
ACGTcount: A:0.32, C:0.13, G:0.28, T:0.27
Consensus pattern (99 bp):
AATGTGATGAATGTGAACTATACATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
CCCATATATATATGTGTGATAAGGCCGAATGGCC
Found at i:55218087 original size:149 final size:149
Alignment explanation
Indices: 55217934--55218457 Score: 894
Period size: 149 Copynumber: 3.5 Consensus size: 149
55217924 TTTAGGATTT
*
55217934 AATGTGATGAATGTGAACTTGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGT
1 AATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGT
*
55217999 GAACCCATATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGT
66 GAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGT
*
55218064 GTGATAAGGCCAAATGGCC
131 GTGATAAGGCCGAATGGCC
* * *
55218083 AATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCTGAATGGCCAAGGTGATGAATAT
1 AATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGT
55218148 GAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGT
66 GAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGT
*
55218213 GTGATATGGCCGAATGGCC
131 GTGATAAGGCCGAATGGCC
55218232 AATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGT
1 AATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGT
*
55218297 GAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGCGTATGT
66 GAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGT
*
55218362 GTGGTAAGGCCGAATGGCC
131 GTGATAAGGCCGAATGGCC
* * *
55218381 AATGTGATGAATGTGAACATG--CATATAT--GAGATAAGGCCGAATGGCCAATGTGATGAATGT
1 AATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGT
**
55218442 GAACGTGTATATATAT
66 GAACCCGTATATATAT
55218458 ATTGTGGCCA
Statistics
Matches: 357, Mismatches: 18, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
145 46 0.13
147 6 0.02
149 305 0.85
ACGTcount: A:0.32, C:0.12, G:0.28, T:0.27
Consensus pattern (149 bp):
AATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGT
GAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGT
GTGATAAGGCCGAATGGCC
Found at i:55218339 original size:24 final size:24
Alignment explanation
Indices: 55218311--55218386 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
55218301 CCGTATATAT
55218311 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
* ** **
55218335 ATGTGATGAATATGAAC--AT-GCGT
1 ATGTG-TG-ATAAGGCCGAATGGCCA
*
55218358 ATGTGTGGTAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
55218382 ATGTG
1 ATGTG
55218387 ATGAATGTGA
Statistics
Matches: 36, Mismatches: 11, Indels: 10
0.63 0.19 0.18
Matches are distributed among these distances:
21 4 0.11
22 2 0.06
23 9 0.25
24 14 0.39
25 2 0.06
26 5 0.14
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.25
Consensus pattern (24 bp):
ATGTGTGATAAGGCCGAATGGCCA
Found at i:55218629 original size:37 final size:37
Alignment explanation
Indices: 55218578--55218727 Score: 201
Period size: 37 Copynumber: 4.0 Consensus size: 37
55218568 TTCATGAAAA
*
55218578 TATATTCCGGGTAAGACCCGATGACTACGTGCGGAGAT
1 TATA-TCCGGGTAAGACCCGATGACTACGTGTGGAGAT
55218616 TATATCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATATCCGGGTAAGACCCGATGACTACGTGTGGAGAT
* ** *
55218653 TATGTTTGGGTAAGACCCGAAGACTACGTGTGGAGAT
1 TATATCCGGGTAAGACCCGATGACTACGTGTGGAGAT
* * * * *
55218690 TTTGTCCGGGTAAGACCCGATAACTTCGCGTGGAGAT
1 TATATCCGGGTAAGACCCGATGACTACGTGTGGAGAT
55218727 T
1 T
55218728 TCGTCTGAGC
Statistics
Matches: 100, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
37 96 0.96
38 4 0.04
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (37 bp):
TATATCCGGGTAAGACCCGATGACTACGTGTGGAGAT
Found at i:55225718 original size:23 final size:24
Alignment explanation
Indices: 55225691--55225745 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
55225681 TATAAATAGT
55225691 AATAGTGTTAGAA-ATATAC-TAA
1 AATAGTGTTAGAAGATATACATAA
*
55225713 ATATAGTGTTTGAAGTATATACATAA
1 A-ATAGTGTTAGAAG-ATATACATAA
55225739 AATAGTG
1 AATAGTG
55225746 AAAATATAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 1 0.04
23 11 0.39
25 12 0.43
26 4 0.14
ACGTcount: A:0.45, C:0.04, G:0.16, T:0.35
Consensus pattern (24 bp):
AATAGTGTTAGAAGATATACATAA
Found at i:55225867 original size:22 final size:22
Alignment explanation
Indices: 55225835--55225876 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
55225825 TATAGTGTAA
*
55225835 AAAATACATACATAATATAATT
1 AAAATACATACATAAGATAATT
* *
55225857 AAAATATATACGTAAGATAA
1 AAAATACATACATAAGATAA
55225877 CATGTAGAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.60, C:0.07, G:0.05, T:0.29
Consensus pattern (22 bp):
AAAATACATACATAAGATAATT
Found at i:55225919 original size:25 final size:25
Alignment explanation
Indices: 55225891--55226027 Score: 74
Period size: 25 Copynumber: 5.6 Consensus size: 25
55225881 TAGAAAAAAA
55225891 ATATATAAATAATATAGTATTAAAG
1 ATATATAAATAATATAGTATTAAAG
* * *
55225916 ATATATACATAAAATAGTA-TAATAT
1 ATATATAAATAATATAGTATTAA-AG
* *
55225941 ATATATATATACGTAATATAGAATT-TAG
1 ATATATA-A-A--TAATATAGTATTAAAG
** *
55225969 A-ATATACCTAATATA-T-TAAAAG
1 ATATATAAATAATATAGTATTAAAG
* *
55225991 AATATATATATAATATAATATTAAA-
1 -ATATATAAATAATATAGTATTAAAG
55226016 A-ATAT-AATAATA
1 ATATATAAATAATA
55226028 ACAAAAAAAA
Statistics
Matches: 84, Mismatches: 17, Indels: 25
0.67 0.13 0.20
Matches are distributed among these distances:
21 1 0.01
22 8 0.10
23 12 0.14
24 16 0.19
25 26 0.31
26 4 0.05
27 6 0.07
28 2 0.02
29 8 0.10
30 1 0.01
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.36
Consensus pattern (25 bp):
ATATATAAATAATATAGTATTAAAG
Found at i:55226339 original size:16 final size:16
Alignment explanation
Indices: 55226301--55226339 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
55226291 CTCCAAAAAA
*
55226301 AAAAACTAGCCTCTCC
1 AAAAACTAGCCTCTAC
*
55226317 AAAAACTAGCCTTTAC
1 AAAAACTAGCCTCTAC
*
55226333 AATAACT
1 AAAAACT
55226340 CTTCTCCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAAACTAGCCTCTAC
Found at i:55226534 original size:30 final size:30
Alignment explanation
Indices: 55226498--55226625 Score: 220
Period size: 30 Copynumber: 4.3 Consensus size: 30
55226488 AGGTACAAGT
*
55226498 GGTGGTGGAGCAAGTGTGGCTAATGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
55226528 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
* *
55226558 GGTGGTAGAGCAAGTGTGGCTAGTGGAGTT
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
*
55226588 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTT
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
55226618 GGTGGTGG
1 GGTGGTGG
55226626 CAAAGGCTAG
Statistics
Matches: 94, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 94 1.00
ACGTcount: A:0.19, C:0.06, G:0.50, T:0.25
Consensus pattern (30 bp):
GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
Found at i:55227607 original size:92 final size:90
Alignment explanation
Indices: 55227424--55227813 Score: 420
Period size: 91 Copynumber: 4.3 Consensus size: 90
55227414 CCTCGGTATG
* *
55227424 TCACCTCTCGTAATATGAGTTGA--TTTTTG-CAAAGCATAAATTGAAAAAAAAATAATTGAAAA
1 TCACCTCTCGCAATATGAGTTGATTTTTTTGACAAA-CATAAATTGAAAAAAAGA-AATTGAAAA
*
55227486 TACCTCAGCGTGTGATCTGAGGCTCAAC
64 TACCTCAGCGTGTG-CCTGAGGCTCAAC
55227514 TCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACATAAATTGAAAAAAAAAAGAAATTGAAA
1 TCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACATAAATTG---AAAAAAAGAAATTGAAA
* * *
55227579 ATATCTTAGCGTGT-CCTGAGGCTGAAC
63 ATACCTCAGCGTGTGCCTGAGGCTCAAC
* * * * *
55227606 TCACCTCTCGCGATATGAGTTGATTTTTTGGAAAAACA-AAATTTGAAAAACAGAATTTGAAAAT
1 TCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACATAAA-TTGAAAAAAAGAAATTGAAAAT
** *
55227670 ACCTCAGCGTGTGAGTCAAGGCTCAAC
65 ACCTCAGCGTGTGCCT-GAGGCTCAAC
* * * * * * *
55227697 TCACCACTCGCAATATGAGCTGATTTTTTTGA-AACACAGAAATTGAAGAACAGAAATGGAAAAC
1 TCACCTCTCGCAATATGAGTTGATTTTTTTGACAA-ACATAAATTGAAAAAAAGAAATTGAAAAT
* *
55227761 ACCTCAGC--GT-CTTGAGGTTCAAC
65 ACCTCAGCGTGTGCCTGAGGCTCAAC
*
55227784 TCACCTCTCGCAATATGAGCTGATTTTTTT
1 TCACCTCTCGCAATATGAGTTGATTTTTTT
55227814 TTAAAGATAG
Statistics
Matches: 259, Mismatches: 30, Indels: 25
0.82 0.10 0.08
Matches are distributed among these distances:
87 37 0.14
88 1 0.00
89 29 0.11
90 25 0.10
91 68 0.26
92 67 0.26
93 4 0.02
94 20 0.08
95 8 0.03
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (90 bp):
TCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACATAAATTGAAAAAAAGAAATTGAAAATA
CCTCAGCGTGTGCCTGAGGCTCAAC
Found at i:55227668 original size:13 final size:14
Alignment explanation
Indices: 55227636--55227668 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
55227626 TGATTTTTTG
55227636 GAAAAACAAAATTT
1 GAAAAACAAAATTT
*
55227650 GAAAAACAGAATTT
1 GAAAAACAAAATTT
55227664 GAAAA
1 GAAAA
55227669 TACCTCAGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.64, C:0.06, G:0.12, T:0.18
Consensus pattern (14 bp):
GAAAAACAAAATTT
Found at i:55227742 original size:183 final size:177
Alignment explanation
Indices: 55227424--55227812 Score: 473
Period size: 183 Copynumber: 2.2 Consensus size: 177
55227414 CCTCGGTATG
* * *
55227424 TCACCTCTCGTAATATGAGTTGA-TTTTTGCAAAGCATAAATTGAAAAAAAAATAATTGAAAATA
1 TCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACATAAATTGAAAAAAAAAT-ATTGAAAATA
* * * *
55227488 CCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACAT
65 CCTCAGCGTGTGATCTAAGGCTCAACTCACCACTCGCAATATGAGCTGATTTTTTTGACAAACAG
* * * * *
55227553 AAATTGAAAAAAAAAAGAAATTGAAAATATCTTAGCGTGTCCTGAGGCTGAAC
130 AAATTG---AAAAAAAGAAATGGAAAACACCTCAGC--GTCCTGAGGCTCAAC
* *
55227606 TCACCTCTCGCGATATGAGTTGATTTTTTGGAAAAACA-AAATTTGAAAAACAGAAT-TTGAAAA
1 TCACCTCTCGCAATATGAGTTGATTTTTT-GAAAAACATAAA-TTGAAAAA-AAAATATTGAAAA
55227669 TACCTCAGCGTGTGAGTC-AAGGCTCAACTCACCACTCGCAATATGAGCTGATTTTTTTGA-AAC
63 TACCTCAGCGTGTGA-TCTAAGGCTCAACTCACCACTCGCAATATGAGCTGATTTTTTTGACAA-
* * * *
55227732 ACAGAAATTGAAGAACAGAAATGGAAAACACCTCAGCGTCTTGAGGTTCAAC
126 ACAGAAATTGAAAAAAAGAAATGGAAAACACCTCAGCGTCCTGAGGCTCAAC
*
55227784 TCACCTCTCGCAATATGAGCTGATTTTTT
1 TCACCTCTCGCAATATGAGTTGATTTTTT
55227813 TTTAAAGATA
Statistics
Matches: 181, Mismatches: 20, Indels: 16
0.83 0.09 0.07
Matches are distributed among these distances:
178 39 0.22
180 21 0.12
182 23 0.13
183 78 0.43
184 16 0.09
185 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (177 bp):
TCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACATAAATTGAAAAAAAAATATTGAAAATAC
CTCAGCGTGTGATCTAAGGCTCAACTCACCACTCGCAATATGAGCTGATTTTTTTGACAAACAGA
AATTGAAAAAAAGAAATGGAAAACACCTCAGCGTCCTGAGGCTCAAC
Found at i:55227968 original size:73 final size:75
Alignment explanation
Indices: 55227739--55228348 Score: 688
Period size: 73 Copynumber: 8.3 Consensus size: 75
55227729 AACACAGAAA
* * * * *
55227739 TTGAAGAACAGAAATGGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAAAAATTGAAAATACCTCAACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
55227802 GCTGATTTTTT
66 GTTGA-TTTTT
* * * * * * *
55227813 TTTAAAGATAGAAATTGAAAATACCTCAACGTGTCTTAAGGCTCAACTCACCTCTCACAATATGA
1 TTGAAAAACAAAAATTGAAAATACCTCAACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
55227878 GTTGA--TTT
66 GTTGATTTTT
* * * * * *
55227886 TTGACAAACAAAAATTGAAATTACCT-TA-GCGTCTTGAGGTTCAACTTACCTATCGCAATATGA
1 TTGAAAAACAAAAATTGAAAATACCTCAACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
55227949 GTTGATTTTT
66 GTTGATTTTT
* * *
55227959 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAAAAATTGAAAATACCTCAACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
55228024 GATGATTTTT
66 GTTGATTTTT
* * *
55228034 TT-AAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAAAAATTGAAAATACCTCAACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
55228098 GTTGA--TTT
66 GTTGATTTTT
* * * * * * * *
55228106 TTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGGTCAACTCACCTATCACAATATGA
1 TTGAAAAACAAAAATTGAAAATACCTCAACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
55228171 GTTGATTTTT
66 GTTGATTTTT
* *
55228181 TTGAAAAA-AAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATG
1 TTGAAAAACAA-AAATTGAAAATACCTCAACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATG
*
55228245 AGTTGA--GTT
65 AGTTGATTTTT
* * * * * * *
55228254 TTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCACAATATGA
1 TTGAAAAACAAAAATTGAAAATACCTCAACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
55228319 GTTGATTTTT
66 GTTGATTTTT
* * *
55228329 TT-AGAAACATAAATTAAAAA
1 TTGAAAAACAAAAATTGAAAA
55228349 AATGAAAATT
Statistics
Matches: 458, Mismatches: 65, Indels: 26
0.83 0.12 0.05
Matches are distributed among these distances:
71 34 0.07
72 6 0.01
73 169 0.37
74 104 0.23
75 110 0.24
76 35 0.08
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.31
Consensus pattern (75 bp):
TTGAAAAACAAAAATTGAAAATACCTCAACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTT
Found at i:55228177 original size:222 final size:220
Alignment explanation
Indices: 55227739--55228328 Score: 891
Period size: 222 Copynumber: 2.7 Consensus size: 220
55227729 AACACAGAAA
* * * *
55227739 TTGAAGAACAGAAATGGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
* * *
55227802 GCTGATTTTTTTTTAAAGATAGAAATTGAAAATACCTCAACGTGTCTTAAGGCTCAACTCACCTC
66 GATGA--TTTTTTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTC
* * *
55227867 TCACAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTTAGCGTCTTGAGGTTCAACT
129 TCACAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTCCTGAGGGTCAACT
* *
55227932 TACCTATCGCAATATGAGTTGATTTTT
194 CACCTATCACAATATGAGTTGATTTTT
55227959 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
55228024 GATGATTTTTTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTC
66 GATGATTTTTTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTC
*
55228089 GCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGGTCAACT
131 ACAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGC--GTCCTGAGGGTCAACT
55228154 CACCTATCACAATATGAGTTGATTTTT
194 CACCTATCACAATATGAGTTGATTTTT
* * *
55228181 TTGAAAAAAAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
* * * * * * * *
55228246 GTTGA-GTTTTGACAA-ACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCT
66 GATGATTTTTTTA-AAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
55228309 CACAATATGAGTTGATTTTT
130 CACAATATGAGTTGATTTTT
55228329 TTAGAAACAT
Statistics
Matches: 340, Mismatches: 25, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
220 127 0.37
221 68 0.20
222 145 0.43
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (220 bp):
TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
GATGATTTTTTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTC
ACAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTCCTGAGGGTCAACTCA
CCTATCACAATATGAGTTGATTTTT
Found at i:55228242 original size:148 final size:148
Alignment explanation
Indices: 55227739--55228415 Score: 776
Period size: 148 Copynumber: 4.5 Consensus size: 148
55227729 AACACAGAAA
* * * * * *
55227739 TTGAAGAACAGAAATGGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAAAAAAAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
* *** * * *
55227802 GCTGATTTTTTTTTAAAGATAGAAATTGAAAATACCTCAACGTGTCTTAAGGCTCAACTCACCTC
66 GTTGA-TTTTTGACAAACA-A-AAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTC
55227867 TCACAATATGAGTTGA--TTT
128 TCACAATATGAGTTGATTTTT
* * * * * * *
55227886 TTGACAAACAA-AAATTGAAATTACCT-TA-GCGTCTTGAGGTTCAACTTACCTATCGCAATATG
1 TTGA-AAAAAAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
* * * *
55227948 AGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTC
65 AGTTGA--TTTTTGACAAACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTC
* *
55228013 TCGCAATATGAGATGATTTTT
128 TCACAATATGAGTTGATTTTT
* *
55228034 TT-AAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAAAAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
* * * *
55228098 GTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGGTCAACTCACCTATCA
66 GTTGATTTTTGACAAACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCA
55228163 CAATATGAGTTGATTTTT
131 CAATATGAGTTGATTTTT
*
55228181 TTGAAAAAAAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGA
1 TTGAAAAAAAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
* * * *
55228246 GTTGAGTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCA
66 GTTGATTTTTGACAAACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCA
55228311 CAATATGAGTTGATTTTT
131 CAATATGAGTTGATTTTT
*
55228329 TTAGAAACATAAATTAAAAAAATGAAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCAC
1 TT-G-----------AAAAAAA-G-AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCAC
55228394 CTCTCGCAATATGAGTTGATTT
52 CTCTCGCAATATGAGTTGATTT
55228416 GAAAAGCAGA
Statistics
Matches: 461, Mismatches: 46, Indels: 31
0.86 0.09 0.06
Matches are distributed among these distances:
146 58 0.13
147 140 0.30
148 159 0.34
149 37 0.08
160 7 0.02
161 1 0.00
162 59 0.13
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (148 bp):
TTGAAAAAAAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTGACAAACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCA
CAATATGAGTTGATTTTT
Found at i:55228563 original size:13 final size:13
Alignment explanation
Indices: 55228518--55228564 Score: 67
Period size: 13 Copynumber: 3.5 Consensus size: 13
55228508 TTGATTTTTG
55228518 AAAAATAGAAATT
1 AAAAATAGAAATT
**
55228531 AAAAGCAGAAATT
1 AAAAATAGAAATT
55228544 GAAAAATAGAAATT
1 -AAAAATAGAAATT
55228558 AAAAATA
1 AAAAATA
55228565 CCTCGGCGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
13 18 0.62
14 11 0.38
ACGTcount: A:0.68, C:0.02, G:0.11, T:0.19
Consensus pattern (13 bp):
AAAAATAGAAATT
Found at i:55228596 original size:100 final size:100
Alignment explanation
Indices: 55228346--55228636 Score: 374
Period size: 100 Copynumber: 2.9 Consensus size: 100
55228336 CATAAATTAA
* * *
55228346 AAAAAT-GAAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAATAG-AAATTAAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
** * * *
55228410 TGA--TTTGAAAAGCAGAATTTGTAAGGCAAAAATTG
65 TGATTTTTGAAAAATAGAAATT-AAAAGCAAAAATTG
*
55228445 AAAAACAGAAATTGAAAAAT-CCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAATAGAAATT-AAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
55228509 TGATTTTTGAAAAATAGAAATTAAAAGCAGAAATTG
65 TGATTTTTGAAAAATAGAAATTAAAAGCAAAAATTG
* * *
55228545 AAAAATAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCGCAATATGAGTT
1 AAAAATAGAAATTAAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* *
55228610 GATTTTTTTGAAAGATAGAAATAAAAA
66 GA--TTTTTGAAAAATAGAAATTAAAA
55228637 CATCAAAATA
Statistics
Matches: 169, Mismatches: 16, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
99 61 0.36
100 73 0.43
101 14 0.08
102 21 0.12
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.25
Consensus pattern (100 bp):
AAAAATAGAAATTAAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTGAAAAATAGAAATTAAAAGCAAAAATTG
Found at i:55231752 original size:46 final size:46
Alignment explanation
Indices: 55231702--55231877 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
55231692 TGGTTGAGCA
*
55231702 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACG
* * *
55231748 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-AGA--A--CG
* *
55231795 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACG
* *
55231841 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55231878 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
43 5 0.05
44 1 0.01
45 3 0.03
46 66 0.59
47 28 0.25
48 3 0.03
50 5 0.05
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACG
Found at i:55231858 original size:93 final size:93
Alignment explanation
Indices: 55231699--55231869 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
55231689 GGATGGTTGA
* *
55231699 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACGCCCGAACTCGTTGAGT
55231764 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
55231792 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACGCCCGAACTCGTTGAGT
55231857 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
55231870 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:55239318 original size:46 final size:46
Alignment explanation
Indices: 55239268--55239443 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
55239258 TGGTTGAGCA
55239268 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
55239314 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
55239359 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
55239407 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55239444 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:55239424 original size:93 final size:93
Alignment explanation
Indices: 55239265--55239436 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
55239255 GGATGGTTGA
* *
55239265 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
55239330 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
55239358 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
55239423 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
55239437 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:55250982 original size:25 final size:23
Alignment explanation
Indices: 55250930--55250984 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
55250920 TATAAATAGT
55250930 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
55250953 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
55250978 AATAGTG
1 AATAGTG
55250985 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:55251063 original size:25 final size:25
Alignment explanation
Indices: 55251035--55251088 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
55251025 ATATGTATGA
*
55251035 AATAGA-TATAAAAAAATATGTACAT
1 AATAGAGTAT-AAAAAATACGTACAT
* *
55251060 AATATAGTGTAAAAAATACGTACAT
1 AATAGAGTATAAAAAATACGTACAT
55251085 AATA
1 AATA
55251089 TAACTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 23 0.92
26 2 0.08
ACGTcount: A:0.57, C:0.06, G:0.09, T:0.28
Consensus pattern (25 bp):
AATAGAGTATAAAAAATACGTACAT
Found at i:55251105 original size:22 final size:22
Alignment explanation
Indices: 55251047--55251114 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
55251037 TAGATATAAA
* **
55251047 AAAATATGTACATAATATAGTGT
1 AAAATATATACATAATATA-ACT
*
55251070 AAAAAATACGTACATAATATAACT
1 AAAATATA--TACATAATATAACT
*
55251094 AAAATATATACATAAGATAAC
1 AAAATATATACATAATATAAC
55251115 ATGTAGAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
22 12 0.32
23 6 0.16
24 8 0.22
25 11 0.30
ACGTcount: A:0.56, C:0.09, G:0.07, T:0.28
Consensus pattern (22 bp):
AAAATATATACATAATATAACT
Found at i:55251177 original size:23 final size:25
Alignment explanation
Indices: 55251128--55251242 Score: 89
Period size: 23 Copynumber: 4.8 Consensus size: 25
55251118 TAGAAAAAAA
*
55251128 ATATAAATAATATAGTATTAAAGAT
1 ATATACATAATATAGTATTAAAGAT
* *
55251153 ATATACATAAAATAGTA-T-AATAT
1 ATATACATAATATAGTATTAAAGAT
* * *
55251176 ATATACGTAATATAGAATT-TAGA-
1 ATATACATAATATAGTATTAAAGAT
* *
55251199 ATATACCTAATATA-T-TAAAAGAAT
1 ATATACATAATATAGTATTAAAG-AT
* *
55251223 ATATATATAATATAATATTA
1 ATATACATAATATAGTATTA
55251243 TAATAATAAC
Statistics
Matches: 69, Mismatches: 15, Indels: 11
0.73 0.16 0.12
Matches are distributed among these distances:
21 1 0.01
22 2 0.03
23 32 0.46
24 16 0.23
25 16 0.23
26 2 0.03
ACGTcount: A:0.54, C:0.03, G:0.06, T:0.37
Consensus pattern (25 bp):
ATATACATAATATAGTATTAAAGAT
Found at i:55251530 original size:16 final size:16
Alignment explanation
Indices: 55251492--55251530 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
55251482 CTCAAAAAAA
*
55251492 AAAAACTAGCCTCTCC
1 AAAAACTAGCCTCTAC
*
55251508 AAAAACTAGCCTTTAC
1 AAAAACTAGCCTCTAC
*
55251524 AATAACT
1 AAAAACT
55251531 CTTCTCCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAAACTAGCCTCTAC
Found at i:55251725 original size:30 final size:30
Alignment explanation
Indices: 55251689--55251813 Score: 187
Period size: 30 Copynumber: 4.2 Consensus size: 30
55251679 AGGTACAAGT
*
55251689 GGTGGTGGAGCAAGTGTGGCTAATGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
55251719 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
* * *
55251749 GGTGGTAGAGCAAGTATGGCTAGTGGAGTT
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
* * *
55251779 GGTGGTGCAGCAAGTGTGGCTAGTAGAGTT
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
55251809 GGTGG
1 GGTGG
55251814 CGGCAAAGGC
Statistics
Matches: 87, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 87 1.00
ACGTcount: A:0.21, C:0.07, G:0.47, T:0.25
Consensus pattern (30 bp):
GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
Found at i:55255586 original size:23 final size:23
Alignment explanation
Indices: 55255560--55255606 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
55255550 GCAATGCTTG
55255560 GGTTTTAATAAGAGGCGAAGTAA
1 GGTTTTAATAAGAGGCGAAGTAA
55255583 GGTTTTAATAAGAGGCGAAGTAA
1 GGTTTTAATAAGAGGCGAAGTAA
55255606 G
1 G
55255607 AAGAATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.32, T:0.26
Consensus pattern (23 bp):
GGTTTTAATAAGAGGCGAAGTAA
Found at i:55255709 original size:29 final size:31
Alignment explanation
Indices: 55255655--55255719 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 31
55255645 TATAGTTTAT
* *
55255655 ATTTTTATAATTTTTAAAGGATTAAATTA-A
1 ATTTTTATAATTTTTAAAGGACTAAAGTATA
* *
55255685 ATTTTTATAA-TTTTAGAGGGCTAAAGTATA
1 ATTTTTATAATTTTTAAAGGACTAAAGTATA
55255715 ATTTT
1 ATTTT
55255720 AACTTTACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 14 0.47
30 16 0.53
ACGTcount: A:0.38, C:0.02, G:0.11, T:0.49
Consensus pattern (31 bp):
ATTTTTATAATTTTTAAAGGACTAAAGTATA
Found at i:55255720 original size:29 final size:30
Alignment explanation
Indices: 55255652--55255720 Score: 70
Period size: 29 Copynumber: 2.3 Consensus size: 30
55255642 TTTTATAGTT
* * *
55255652 TATATTTTTATAATTTTTAAAGGATTAAAT
1 TATAATTTTATAATTTTTAAAGGACTAAAG
* *
55255682 TA-AATTTTTATAA-TTTTAGAGGGCTAAAG
1 TATAA-TTTTATAATTTTTAAAGGACTAAAG
55255711 TATAATTTTA
1 TATAATTTTA
55255721 ACTTTACTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
29 20 0.62
30 12 0.38
ACGTcount: A:0.39, C:0.01, G:0.10, T:0.49
Consensus pattern (30 bp):
TATAATTTTATAATTTTTAAAGGACTAAAG
Found at i:55264168 original size:49 final size:49
Alignment explanation
Indices: 55264102--55264339 Score: 287
Period size: 49 Copynumber: 4.8 Consensus size: 49
55264092 TAGCCAAAGC
* * * * *
55264102 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* *
55264151 TATCTGGTACACGTAGTAGCCTGCAGTTAGTACTACACACGTGACTAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* * *
55264200 TATCCGGTACACGTAGTAGCCTGCAGTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* * * *
55264250 CATTTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
* * * *
55264301 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
55264340 TGCGACCTCA
Statistics
Matches: 162, Mismatches: 24, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
49 86 0.53
50 41 0.25
51 34 0.21
52 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:55264286 original size:99 final size:100
Alignment explanation
Indices: 55264102--55264346 Score: 307
Period size: 99 Copynumber: 2.5 Consensus size: 100
55264092 TAGCCAAAGC
* * * * ** *
55264102 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCTGGTACACGTAG
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATCTGATACACGTAG
*
55264167 TAGCCTGCAGTTAGTACTACACACGTGA-CTA-A-T
66 TAGCCTGCACTTAGTACTACACACGTGATC-ACAGT
* * * *
55264200 TATCCGGTACACGTAGTAGCCTGCAGTTAGTACTACACACGTGACCTAACCATTTGATACACGTA
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AACCATCTGATACACGTA
55264265 GTAGCCTGCACTTAGTACTACACACGTGATCACAGT
65 GTAGCCTGCACTTAGTACTACACACGTGATCACAGT
* * * *
55264301 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
55264347 TCACAATAGA
Statistics
Matches: 124, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
98 39 0.31
99 43 0.35
100 2 0.02
101 40 0.32
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (100 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATCTGATACACGTAG
TAGCCTGCACTTAGTACTACACACGTGATCACAGT
Found at i:55270363 original size:22 final size:20
Alignment explanation
Indices: 55270324--55270363 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
55270314 CATCAATTTC
*
55270324 TCAACAATGACAACTTGAAT
1 TCAACAATGACAAATTGAAT
55270344 TCAACAATTGGACAAATTGA
1 TCAACAA-T-GACAAATTGA
55270364 TACATGGGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 1 0.06
22 9 0.53
ACGTcount: A:0.45, C:0.17, G:0.12, T:0.25
Consensus pattern (20 bp):
TCAACAATGACAAATTGAAT
Found at i:55280291 original size:93 final size:93
Alignment explanation
Indices: 55280132--55280304 Score: 229
Period size: 93 Copynumber: 1.9 Consensus size: 93
55280122 AGGATATTTG
* * * *** *
55280132 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGTGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACGTATGGATGCGAACACCCGAACTCATTGAG
55280197 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * * *
55280225 GGCATCTGAGCTCGTTGAGTTGAGTCCGAGTTCACGTGTGGATGCGAACACCCGAGCTTATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACGTATGGATGCGAACACCCGAACTCATTGAG
*
55280290 TTGAGTCTGAGTTCG
66 TTGAGTCCGAGTTCG
55280305 CTTATGGGCG
Statistics
Matches: 67, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
93 67 1.00
ACGTcount: A:0.21, C:0.18, G:0.31, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACGTATGGATGCGAACACCCGAACTCATTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:55294180 original size:13 final size:13
Alignment explanation
Indices: 55294162--55294195 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
55294152 CTGGACTTCC
55294162 TCACACGGGCGTG
1 TCACACGGGCGTG
55294175 TCACACGGGCGTG
1 TCACACGGGCGTG
55294188 TCACACGG
1 TCACACGG
55294196 CCGCATCCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.18, C:0.32, G:0.35, T:0.15
Consensus pattern (13 bp):
TCACACGGGCGTG
Found at i:55296144 original size:44 final size:44
Alignment explanation
Indices: 55296088--55296175 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 44
55296078 ATATATATGA
*
55296088 GGCATCCGAGCTCGTTGAGTTGGTCCAAGTTCACT-ATGGATGCG
1 GGCATCCGAGCTCGTTAAGTTGGTCCAAGTTCA-TAATGGATGCG
55296132 GGCATCCGAGCTCGTTAAGTTGGTCCAAGTTCATAATGGATGCG
1 GGCATCCGAGCTCGTTAAGTTGGTCCAAGTTCATAATGGATGCG
55296176 ATACAAGTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
43 1 0.02
44 41 0.98
ACGTcount: A:0.20, C:0.22, G:0.31, T:0.27
Consensus pattern (44 bp):
GGCATCCGAGCTCGTTAAGTTGGTCCAAGTTCATAATGGATGCG
Found at i:55301102 original size:30 final size:30
Alignment explanation
Indices: 55301068--55301128 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
55301058 TCCTTAACTC
55301068 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
55301098 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
55301128 A
1 A
55301129 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:55309862 original size:15 final size:15
Alignment explanation
Indices: 55309842--55309888 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
55309832 CTTCAATCTG
55309842 TCCTCTTCCTTCCCC
1 TCCTCTTCCTTCCCC
*
55309857 TCCTCTTCC-T--CT
1 TCCTCTTCCTTCCCC
*
55309869 TCCTCTTCCTCCCCC
1 TCCTCTTCCTTCCCC
55309884 TCCTC
1 TCCTC
55309889 CTTCTCCTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
12 10 0.38
14 1 0.04
15 15 0.58
ACGTcount: A:0.00, C:0.60, G:0.00, T:0.40
Consensus pattern (15 bp):
TCCTCTTCCTTCCCC
Found at i:55313933 original size:29 final size:29
Alignment explanation
Indices: 55313900--55314001 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
55313890 TGACGAGATC
55313900 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
55313929 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
** * *
55313958 GGCACTAAGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
**
55313987 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
55314002 AGCTCGGAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAATATAT
Found at i:55321793 original size:29 final size:29
Alignment explanation
Indices: 55321760--55321860 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
55321750 TGACGAGATC
55321760 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
55321789 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
** * *
55321818 GGCACTAAGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
*
55321847 GGCACT-GGTGTGCG
1 GGCACTAAGTGTGCG
55321861 AGCTCGGAGG
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
28 6 0.09
29 60 0.91
ACGTcount: A:0.28, C:0.16, G:0.33, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAATATAT
Found at i:55325286 original size:19 final size:19
Alignment explanation
Indices: 55325259--55325317 Score: 100
Period size: 19 Copynumber: 3.1 Consensus size: 19
55325249 TTTTTGGCTT
* *
55325259 TATACAAAGTCAAAAATTC
1 TATATAAAGCCAAAAATTC
55325278 TATATAAAGCCAAAAATTC
1 TATATAAAGCCAAAAATTC
55325297 TATATAAAGCCAAAAATTC
1 TATATAAAGCCAAAAATTC
55325316 TA
1 TA
55325318 ATGAGTCCTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 38 1.00
ACGTcount: A:0.53, C:0.15, G:0.05, T:0.27
Consensus pattern (19 bp):
TATATAAAGCCAAAAATTC
Found at i:55330038 original size:19 final size:19
Alignment explanation
Indices: 55330011--55330049 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
55330001 TGTCACACAC
*
55330011 GGCCTAGCCACATGCCCGT
1 GGCCAAGCCACATGCCCGT
55330030 GGCCAAGCCACATGCCCGT
1 GGCCAAGCCACATGCCCGT
55330049 G
1 G
55330050 TGTCTAACTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.18, C:0.41, G:0.28, T:0.13
Consensus pattern (19 bp):
GGCCAAGCCACATGCCCGT
Found at i:55333646 original size:15 final size:16
Alignment explanation
Indices: 55333621--55333653 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
55333611 AATCAAAACA
55333621 AAATCAAAAATAAAAT
1 AAATCAAAAATAAAAT
55333637 AAAT-AAAAATAAAAT
1 AAATCAAAAATAAAAT
55333652 AA
1 AA
55333654 GATTTTCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (16 bp):
AAATCAAAAATAAAAT
Found at i:55336100 original size:94 final size:94
Alignment explanation
Indices: 55335925--55336277 Score: 359
Period size: 94 Copynumber: 3.8 Consensus size: 94
55335915 TATTCGTGCC
* * * * *
55335925 AAGACAT-T-TGGTGACATGCTTCGGCCACATTATGGGAGCCAGTGTAAGACCATTTCTGGGACA
1 AAGACATGTCTGG-GACATGCATCAGCCATATTATGAGAGCCAGTGTAAGACCATGTCTGGGACA
* *
55335988 TGGCATCGGTATC-CAGATGAGGGCTAATGT
65 TGGCATCGGTA-CAGAGATGAGTGCTAATGT
55336018 AAGACATGTCTGGGACATGCATCAGCCATATTATGAGAGCCAGTGTAAGACCATGTCTGGGACAT
1 AAGACATGTCTGGGACATGCATCAGCCATATTATGAGAGCCAGTGTAAGACCATGTCTGGGACAT
55336083 GGCATCGGTACAGAGATGAGTGCTAGA-GT
66 GGCATCGGTACAGAGATGAGTGCTA-ATGT
* * * ** * * * *
55336112 AAGACATGTTTAGGACATGCATCGGCC-TCGACAAAGATAGCCAATGTAAGA-CGTGTCTGGGAC
1 AAGACATGTCTGGGACATGCATCAGCCAT--ATTATGAGAGCCAGTGTAAGACCATGTCTGGGAC
* * * *
55336175 A-CGCTTCGGCTA-AGAG-T-TGTGCTAGTGT
64 ATGGCATCGG-TACAGAGATGAGTGCTAATGT
*
55336203 AAGACATGTCTGGGACATACATCAGCACGCATA-TATGAGAGCCAGTGTAAGACCATGTCTGGGA
1 AAGACATGTCTGGGACATGCATCAG--C-CATATTATGAGAGCCAGTGTAAGACCATGTCTGGGA
55336267 CATGGCATCGG
63 CATGGCATCGG
55336278 CAATTTATCC
Statistics
Matches: 215, Mismatches: 31, Indels: 27
0.79 0.11 0.10
Matches are distributed among these distances:
91 29 0.13
92 16 0.07
93 33 0.15
94 116 0.54
95 21 0.10
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (94 bp):
AAGACATGTCTGGGACATGCATCAGCCATATTATGAGAGCCAGTGTAAGACCATGTCTGGGACAT
GGCATCGGTACAGAGATGAGTGCTAATGT
Found at i:55336114 original size:48 final size:46
Alignment explanation
Indices: 55335968--55336277 Score: 152
Period size: 47 Copynumber: 6.6 Consensus size: 46
55335958 GGGAGCCAGT
* *
55335968 GTAAGACCATTTCTGGGACATGGCATCGGTATC-CAGATGAGGGCTA-A
1 GTAAGA-CATGTCTGGGACAT-GCATCGGTA-CACAGATGAGAGCTAGA
* * * * * *
55336015 TGTAAGACATGTCTGGGACATGCATCAG-CCATATTATGAGAGCCAGT
1 -GTAAGACATGTCTGGGACATGCATCGGTACACA-GATGAGAGCTAGA
* *
55336062 GTAAGACCATGTCTGGGACATGGCATCGGTACAGAGATGAGTGCTAGA
1 GTAAGA-CATGTCTGGGACAT-GCATCGGTACACAGATGAGAGCTAGA
* * * * *
55336110 GTAAGACATGTTTAGGACATGCATCGGCCT-CGACA-AAGATAGCCA-A
1 GTAAGACATGTCTGGGACATGCATCGG--TAC-ACAGATGAGAGCTAGA
* * * * * * *
55336156 TGTAAGACGTGTCTGGGACACGCTTCGGCTA-AGAG-T-TGTGCTAGT
1 -GTAAGACATGTCTGGGACATGCATCGG-TACACAGATGAGAGCTAGA
* * * * * * *
55336201 GTAAGACATGTCTGGGACATACATCAGCACGCATATATGAGAGCCAGT
1 GTAAGACATGTCTGGGACATGCATCGGTA--CACAGATGAGAGCTAGA
55336249 GTAAGACCATGTCTGGGACATGGCATCGG
1 GTAAGA-CATGTCTGGGACAT-GCATCGG
55336278 CAATTTATCC
Statistics
Matches: 195, Mismatches: 47, Indels: 38
0.70 0.17 0.14
Matches are distributed among these distances:
43 1 0.01
44 26 0.13
45 3 0.02
46 32 0.16
47 69 0.35
48 42 0.22
49 17 0.09
50 5 0.03
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (46 bp):
GTAAGACATGTCTGGGACATGCATCGGTACACAGATGAGAGCTAGA
Found at i:55343193 original size:30 final size:30
Alignment explanation
Indices: 55343159--55343239 Score: 144
Period size: 30 Copynumber: 2.7 Consensus size: 30
55343149 TTATCGAGCA
*
55343159 TAGGGGTAAAATGGTCATTTTGTCGAGGCC
1 TAGGGGCAAAATGGTCATTTTGTCGAGGCC
55343189 TAGGGGCAAAATGGTCATTTTGTCGAGGCC
1 TAGGGGCAAAATGGTCATTTTGTCGAGGCC
*
55343219 TAGGGGCAAAATGGCCATTTT
1 TAGGGGCAAAATGGTCATTTT
55343240 ACCAAAGTTC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.25, C:0.15, G:0.32, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTGTCGAGGCC
Found at i:55343772 original size:84 final size:84
Alignment explanation
Indices: 55343624--55343778 Score: 231
Period size: 84 Copynumber: 1.8 Consensus size: 84
55343614 CAGCCACATA
* * *
55343624 ATGAGAGCCAGTATAAGACCATGTCTGGGACATGGCATCGGTATCCAGACGAGGGCTAGTGTAAG
1 ATGAGAGCCAGTATAAGACCATGTCTGGGACATGGCATCGGCATCCAGACGAGGGCCAGAGTAAG
55343689 ACATGTTTGGGGCCATATT
66 ACATGTTTGGGGCCATATT
* * * *
55343708 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-CAGAGATGAGTGCCAGAGTAA
1 ATGAGAGCCAGTATAAGACCATGTCTGGGACATGGCATCGGCATC-CAGACGAGGGCCAGAGTAA
55343772 GACATGT
65 GACATGT
55343779 CTAGGACATG
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
83 1 0.02
84 62 0.98
ACGTcount: A:0.29, C:0.18, G:0.32, T:0.21
Consensus pattern (84 bp):
ATGAGAGCCAGTATAAGACCATGTCTGGGACATGGCATCGGCATCCAGACGAGGGCCAGAGTAAG
ACATGTTTGGGGCCATATT
Found at i:55343881 original size:91 final size:95
Alignment explanation
Indices: 55343713--55343932 Score: 249
Period size: 91 Copynumber: 2.3 Consensus size: 95
55343703 ATATTATGAG
*
55343713 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAGATGAGTGCCAGAGTAAGACATG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCACAGAGATGAGTGCCAGAGTAAGACATG
55343778 TCTAGGACATGCATCGACCTCGACAAAGAT
66 TCTAGGACATGCATCGACCTCGACAAAGAT
* * * * *
55343808 AGCCAGTGTAAGA-CGTGTCTGGGACAT-GCTTCAGCTA-AGAG-T-TGTGCTAGTGTAAGACAT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGC-ACAGAGATGAGTGCCAGAGTAAGACAT
* * * *
55343868 GTTTGGGACATGCATC-AGCAT-G-CATATATGAG
65 GTCTAGGACATGCATCGA-CCTCGACA-A-A-GAT
55343900 AGCCAGTGTAAGACCATGTCTGGGACATGGCAT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCAT
55343933 TGGCAATTTA
Statistics
Matches: 106, Mismatches: 12, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
89 2 0.02
90 3 0.03
91 32 0.30
92 16 0.15
93 23 0.22
94 17 0.16
95 13 0.12
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (95 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCACAGAGATGAGTGCCAGAGTAAGACATG
TCTAGGACATGCATCGACCTCGACAAAGAT
Found at i:55346088 original size:22 final size:22
Alignment explanation
Indices: 55346063--55346132 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 22
55346053 CTGTTATGTC
55346063 TTTTGTATTTCTATCTCTCATA
1 TTTTGTATTTCTATCTCTCATA
* * * *
55346085 TTTTATATTTC-A-CTGTTATGTC
1 TTTTGTATTTCTATCTCTCA--TA
55346107 TTTTGTATTTCTATCTCTCATA
1 TTTTGTATTTCTATCTCTCATA
55346129 TTTT
1 TTTT
55346133 ATATGCATAG
Statistics
Matches: 36, Mismatches: 8, Indels: 8
0.69 0.15 0.15
Matches are distributed among these distances:
20 4 0.11
21 1 0.03
22 26 0.72
23 1 0.03
24 4 0.11
ACGTcount: A:0.17, C:0.16, G:0.06, T:0.61
Consensus pattern (22 bp):
TTTTGTATTTCTATCTCTCATA
Found at i:55346108 original size:44 final size:44
Alignment explanation
Indices: 55346040--55346136 Score: 185
Period size: 44 Copynumber: 2.2 Consensus size: 44
55346030 GAATAAATAA
*
55346040 ATTTCATATTTCACTGTTATGTCTTTTGTATTTCTATCTCTCAT
1 ATTTTATATTTCACTGTTATGTCTTTTGTATTTCTATCTCTCAT
55346084 ATTTTATATTTCACTGTTATGTCTTTTGTATTTCTATCTCTCAT
1 ATTTTATATTTCACTGTTATGTCTTTTGTATTTCTATCTCTCAT
55346128 ATTTTATAT
1 ATTTTATAT
55346137 GCATAGCAAA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 52 1.00
ACGTcount: A:0.20, C:0.15, G:0.06, T:0.59
Consensus pattern (44 bp):
ATTTTATATTTCACTGTTATGTCTTTTGTATTTCTATCTCTCAT
Found at i:55347717 original size:20 final size:21
Alignment explanation
Indices: 55347692--55347730 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
55347682 ATTCTAAAAA
*
55347692 TAATATT-ATTTTAATTTATT
1 TAATATTAAATTTAATTTATT
55347712 TAATATTAAATTTAATTTA
1 TAATATTAAATTTAATTTA
55347731 ACGTTTGTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATATTAAATTTAATTTATT
Found at i:55350946 original size:57 final size:57
Alignment explanation
Indices: 55350838--55350973 Score: 148
Period size: 57 Copynumber: 2.4 Consensus size: 57
55350828 TTTACAGCAG
* * * * * * *
55350838 GATTACCAGTCTAGGCTAAATCCTATCCATAGCATATGCTTTAAAGAGCTTAATTTC
1 GATTACCCGTCTGGGCTAAATCCAATCCATAACATAAGCTTTAAAGAGCTTAAATTA
* * *
55350895 GATTACCCGTCTGGGTTAAATCCAATCTATAACATAAGC-TTAAGAGGGCTTAAATTA
1 GATTACCCGTCTGGGCTAAATCCAATCCATAACATAAGCTTTAA-AGAGCTTAAATTA
*
55350952 GAATTACCCGTCCGGGCTAAAT
1 G-ATTACCCGTCTGGGCTAAAT
55350974 TCTATTTGCA
Statistics
Matches: 65, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
56 4 0.06
57 43 0.66
58 18 0.28
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (57 bp):
GATTACCCGTCTGGGCTAAATCCAATCCATAACATAAGCTTTAAAGAGCTTAAATTA
Found at i:55358069 original size:31 final size:31
Alignment explanation
Indices: 55358018--55358078 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
55358008 CACCCAAATA
*
55358018 CCCTCTGTAAACGCAACATGTCTAAGGAAAC
1 CCCTCTGCAAACGCAACATGTCTAAGGAAAC
* *
55358049 CCCTCTGCAAATGCATCATGTCTAAGGAAA
1 CCCTCTGCAAACGCAACATGTCTAAGGAAA
55358079 ATAACATCCC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.21
Consensus pattern (31 bp):
CCCTCTGCAAACGCAACATGTCTAAGGAAAC
Found at i:55365383 original size:40 final size:40
Alignment explanation
Indices: 55365287--55365477 Score: 247
Period size: 40 Copynumber: 4.8 Consensus size: 40
55365277 CGAATGGTGT
* * * * * *
55365287 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACCAAAA
* *
55365328 CCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
55365368 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * *
55365408 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * *
55365448 CCGGGCTAATTCCCGAAGGCAATTGTGCGA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGA
55365478 ATCACTATAA
Statistics
Matches: 133, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
40 109 0.82
41 24 0.18
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
Found at i:55365438 original size:80 final size:80
Alignment explanation
Indices: 55365287--55365519 Score: 261
Period size: 80 Copynumber: 2.9 Consensus size: 80
55365277 CGAATGGTGT
* * * * * *
55365287 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACCAAAACCGGGTCAAGTCCCGAAGGCATTC
55365352 GTGCGAGTTACCAAAA
65 GTGCGAGTTACCAAAA
* * *
55365368 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAAACCGGGTCAAGTCCCGAAGGCATTCG
* *
55365433 TGCGAGTTACTAAAT
66 TGCGAGTTACCAAAA
* * * * * * * *
55365448 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGG-CAATGTCCCGAAGACAATC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAAACCGGGTCAA-GTCCCGAAGGCATTC
*
55365512 GAGCGAGT
65 GTGCGAGT
55365520 CGCTATATGC
Statistics
Matches: 129, Mismatches: 22, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
79 2 0.02
80 101 0.78
81 26 0.20
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAAACCGGGTCAAGTCCCGAAGGCATTCG
TGCGAGTTACCAAAA
Found at i:55365492 original size:40 final size:39
Alignment explanation
Indices: 55365287--55365519 Score: 211
Period size: 40 Copynumber: 5.8 Consensus size: 39
55365277 CGAATGGTGT
** * *
55365287 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAA
1 CCGGGCTAAGTCCCGAAGGCAATTGTGC-GAGTTACTAAA
* * *
55365327 TCCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 -CCGGGCT-AAGTCCCGAAGGCAATTGTGCGAGTTA-CTAAA
* * *
55365368 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA-CTAAA
*
55365408 CCGGGTTAAGTCCCGAAGGC-ATTCGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCAATT-GTGCGAGTTACTAAA
* * *
55365447 TCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 -CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTA-AA
* * *
55365488 CCGGGC-AATGTCCCGAAGACAATCGAGCGAGT
1 CCGGGCTAA-GTCCCGAAGGCAATTGTGCGAGT
55365520 CGCTATATGC
Statistics
Matches: 167, Mismatches: 17, Indels: 17
0.83 0.08 0.08
Matches are distributed among these distances:
39 8 0.05
40 125 0.75
41 34 0.20
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTAAA
Found at i:55365501 original size:120 final size:121
Alignment explanation
Indices: 55365287--55365505 Score: 300
Period size: 120 Copynumber: 1.8 Consensus size: 121
55365277 CGAATGGTGT
* * *
55365287 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
* * *
55365352 GTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
66 GTGCGAATCACCAAAACCGGGTCAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * *
55365408 CCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGTC-AATTCCCGAAGGCAAT
* *
55365471 TGTGCGAATCACTATAACCGGG-CAATGTCCCGAAG
65 TGTGCGAATCACCAAAACCGGGTCAA-GTCCCGAAG
55365506 ACAATCGAGC
Statistics
Matches: 85, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
119 3 0.04
120 57 0.67
121 25 0.29
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.23
Consensus pattern (121 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
GTGCGAATCACCAAAACCGGGTCAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
Found at i:55373518 original size:40 final size:40
Alignment explanation
Indices: 55373382--55373571 Score: 238
Period size: 40 Copynumber: 4.8 Consensus size: 40
55373372 CGAATGGTGT
* * * * * *
55373382 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACCAAAA
* *
55373423 CCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
55373463 -CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * *
55373502 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * *
55373542 CCGGGCTAATTCCCGAAGGCAATTGTGCGA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGA
55373572 ATCACTATAA
Statistics
Matches: 131, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
39 37 0.28
40 70 0.53
41 24 0.18
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
Found at i:55373559 original size:80 final size:80
Alignment explanation
Indices: 55373381--55373613 Score: 254
Period size: 80 Copynumber: 2.9 Consensus size: 80
55373371 TCGAATGGTG
* * * * *
55373381 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACCAAAACCGGGTCAAGTCCCGAAGGCATT
*
55373446 TGTGCGAGTTACCAAA
65 CGTGCGAGTTACCAAA
* * * *
55373462 -ACGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAAACCGGGTCAAGTCCCGAAGGCATTC
*
55373526 GTGCGAGTTACTAAA
66 GTGCGAGTTACCAAA
* * * * * * * *
55373541 TCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGG-CAATGTCCCGAAGACAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAAACCGGGTCAA-GTCCCGAAGGCATT
*
55373605 CGAGCGAGT
65 CGTGCGAGT
55373614 CGCTATATCC
Statistics
Matches: 127, Mismatches: 23, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
79 45 0.35
80 82 0.65
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAAACCGGGTCAAGTCCCGAAGGCATTC
GTGCGAGTTACCAAA
Found at i:55373586 original size:40 final size:39
Alignment explanation
Indices: 55373382--55373613 Score: 209
Period size: 40 Copynumber: 5.8 Consensus size: 39
55373372 CGAATGGTGT
** * *
55373382 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAA
1 CCGGGCTAAGTCCCGAAGGCAATTGTGC-GAGTTACTAAA
* * *
55373422 TCCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAA
1 -CCGGGCT-AAGTCCCGAAGGCAATTGTGCGAGTTACTAAA
* * * *
55373462 ACGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA-CTAAA
*
55373502 CCGGGTTAAGTCCCGAAGGC-ATTCGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCAATT-GTGCGAGTTACTAAA
* * *
55373541 TCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 -CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTA-AA
* * *
55373582 CCGGGC-AATGTCCCGAAGACAATCGAGCGAGT
1 CCGGGCTAA-GTCCCGAAGGCAATTGTGCGAGT
55373614 CGCTATATCC
Statistics
Matches: 163, Mismatches: 20, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
39 38 0.23
40 96 0.59
41 29 0.18
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTAAA
Found at i:55373613 original size:120 final size:120
Alignment explanation
Indices: 55373382--55373613 Score: 281
Period size: 120 Copynumber: 1.9 Consensus size: 120
55373372 CGAATGGTGT
* * *
55373382 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
* * * * * * *
55373447 GTGCGAGTTACCAAAACGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
66 GTGCGAATCACCAAAACGGGTCAAGTCCCGAAGACAATCGAGCGAGTTACCAAAA
* * *
55373502 CCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGTC-AATTCCCGAAGGCAAT
* *
55373565 TGTGCGAATCACTATAACCGGG-CAATGTCCCGAAGACAATCGAGCGAGT
65 TGTGCGAATCACCA-AAACGGGTCAA-GTCCCGAAGACAATCGAGCGAGT
55373614 CGCTATATCC
Statistics
Matches: 94, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
118 1 0.01
119 43 0.46
120 50 0.53
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (120 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
GTGCGAATCACCAAAACGGGTCAAGTCCCGAAGACAATCGAGCGAGTTACCAAAA
Found at i:55377128 original size:40 final size:40
Alignment explanation
Indices: 55377083--55377249 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
55377073 CGGAATATAA
55377083 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
55377123 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
55377163 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
55377203 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
55377242 CCGGATAT
1 CCGGATAT
55377250 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:55377233 original size:80 final size:79
Alignment explanation
Indices: 55377099--55377249 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
55377089 ATAATCACGT
*
55377099 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
55377164 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
55377179 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
55377242 CCGGATAT
64 CCGGATAT
55377250 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:55385122 original size:40 final size:40
Alignment explanation
Indices: 55385077--55385243 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
55385067 CGGAATATAA
55385077 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
55385117 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
55385157 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
55385197 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
55385236 CCGGATAT
1 CCGGATAT
55385244 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:55385227 original size:80 final size:79
Alignment explanation
Indices: 55385093--55385243 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
55385083 ATAATCACGT
*
55385093 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
55385158 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
55385173 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
55385236 CCGGATAT
64 CCGGATAT
55385244 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:55388932 original size:37 final size:37
Alignment explanation
Indices: 55388873--55388980 Score: 182
Period size: 36 Copynumber: 2.9 Consensus size: 37
55388863 AGCTCAGACG
* *
55388873 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
55388910 AAATCTCCACACGTAGTCATCGGGTCTTACCC-GACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
55388946 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
55388981 ATATATTTCC
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
36 35 0.52
37 32 0.48
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Done.