Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 232 of 318
Found at i:72927687 original size:3 final size:3
Alignment explanation
Indices: 72927661--72927711 Score: 75
Period size: 3 Copynumber: 16.0 Consensus size: 3
72927651 TTATTACAGT
72927661 TTA TATA TTA GTTA TTA GTTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA T-TA TTA -TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
72927709 TTA
1 TTA
72927712 AATAAATTAA
Statistics
Matches: 45, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
3 36 0.80
4 9 0.20
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:72928009 original size:31 final size:32
Alignment explanation
Indices: 72927960--72928023 Score: 87
Period size: 31 Copynumber: 2.0 Consensus size: 32
72927950 ATATTAAATA
*
72927960 AGATATTTATTAATTAAATA-ATTATATTATG
1 AGATATTTATTAATTAAATATATTAAATTATG
*
72927991 AGATTTTTATGTAA-TAAATATATTAAATTATG
1 AGATATTTAT-TAATTAAATATATTAAATTATG
72928023 A
1 A
72928024 CAAATGTATG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 15 0.52
32 14 0.48
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (32 bp):
AGATATTTATTAATTAAATATATTAAATTATG
Found at i:72928073 original size:142 final size:140
Alignment explanation
Indices: 72927820--72928113 Score: 328
Period size: 142 Copynumber: 2.1 Consensus size: 140
72927810 TAGAACAAAA
* * *
72927820 ATATTTATTAATTAAATAATTAAATAATGAGATTTTTGTTTGATAAATAAATTAAATAATGACAA
1 ATATTTATTAATTAAATAATTAAATAATGAGATTTTTATGTAATAAATAAATTAAATAATGACAA
* * * * * * * * *
72927885 TTGTAATAAATTTATTGGTACAAATGTGAAAATATAAGTGTGTACAATTGTAATATTAGTATTTG
66 ATGTAATAAATTTAGTGGTAC-AATGTGAAAATAAAAATGTATACAAATGTAAAATAAATA-TTG
72927950 A-TATTAAATAAG
129 ATTATTAAAT-AG
* * * *
72927962 ATATTTATTAATTAAATAATTATATTATGAGATTTTTATGTAATAAATATATTAAATTATGACAA
1 ATATTTATTAATTAAATAATTAAATAATGAGATTTTTATGTAATAAATAAATTAAATAATGACAA
*
72928027 ATGTATGGTAAAATTT-GT-G-AC-ATGTGTAATAATAAAAATGTATACAAATGTAAAATAAATA
66 ATGTA--AT-AAATTTAGTGGTACAATGTG-AA-AATAAAAATGTATACAAATGTAAAATAAATA
72928088 TTGATTATTAAATAG
126 TTGATTATTAAATAG
72928103 ATATTTATTAA
1 ATATTTATTAA
72928114 CTTATTATAT
Statistics
Matches: 129, Mismatches: 17, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
140 5 0.04
141 19 0.15
142 96 0.74
143 1 0.01
144 2 0.02
145 6 0.05
ACGTcount: A:0.46, C:0.02, G:0.11, T:0.41
Consensus pattern (140 bp):
ATATTTATTAATTAAATAATTAAATAATGAGATTTTTATGTAATAAATAAATTAAATAATGACAA
ATGTAATAAATTTAGTGGTACAATGTGAAAATAAAAATGTATACAAATGTAAAATAAATATTGAT
TATTAAATAG
Found at i:72928951 original size:15 final size:15
Alignment explanation
Indices: 72928931--72928987 Score: 98
Period size: 15 Copynumber: 3.9 Consensus size: 15
72928921 CGATGAATTT
72928931 ATTGAATTTATATTG
1 ATTGAATTTATATTG
*
72928946 ATTGAATTTATTTTG
1 ATTGAATTTATATTG
72928961 ATTGAATTTATATTG
1 ATTGAATTTATATTG
72928976 ATTGAA-TTATAT
1 ATTGAATTTATAT
72928988 AATATATATG
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
14 6 0.15
15 34 0.85
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.54
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:72932790 original size:30 final size:29
Alignment explanation
Indices: 72932754--72932832 Score: 79
Period size: 30 Copynumber: 2.6 Consensus size: 29
72932744 TAATTAAGAT
72932754 AATAAAATAAGAAAATATG-AAATGTAATAA
1 AATAAAATAAGAAAATATGAAAATGT-A-AA
* *
72932784 AATAAAATAAAAACAGATTTGAAAATGTAAA
1 AATAAAATAAGAA-A-ATATGAAAATGTAAA
*
72932815 AATAAATTTAAGAAAATA
1 AATAAA-ATAAGAAAATA
72932833 AAAAAAATTG
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
30 14 0.35
31 10 0.25
32 10 0.25
33 6 0.15
ACGTcount: A:0.66, C:0.01, G:0.09, T:0.24
Consensus pattern (29 bp):
AATAAAATAAGAAAATATGAAAATGTAAA
Found at i:72933623 original size:23 final size:23
Alignment explanation
Indices: 72933597--72933643 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
72933587 ATTTATTAAA
72933597 TGCCAAAGACAAAGTGTTAGAAT
1 TGCCAAAGACAAAGTGTTAGAAT
72933620 TGCCAAAGACAAAGTGTTAGAAT
1 TGCCAAAGACAAAGTGTTAGAAT
72933643 T
1 T
72933644 AAGTGACCCG
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:0.43, C:0.13, G:0.21, T:0.23
Consensus pattern (23 bp):
TGCCAAAGACAAAGTGTTAGAAT
Found at i:72933955 original size:6 final size:6
Alignment explanation
Indices: 72933944--72933975 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
72933934 AAATTTGTGT
72933944 TTTTTA TTTTTA TTTTTA -TTTTA -TTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
72933976 CACAAATTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 10 0.40
6 15 0.60
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTA
Found at i:72935646 original size:28 final size:28
Alignment explanation
Indices: 72935614--72935712 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
72935604 GCAATAAGCC
*
72935614 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
72935642 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
72935670 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
72935699 CGCACACTTAGTGC
1 CGCACACTTAGTGC
72935713 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:72943326 original size:28 final size:28
Alignment explanation
Indices: 72943294--72943392 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
72943284 GCAATAAGCC
*
72943294 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
72943322 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
72943350 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
72943379 CGCACACTTAGTGC
1 CGCACACTTAGTGC
72943393 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:72948968 original size:12 final size:12
Alignment explanation
Indices: 72948953--72948978 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
72948943 GTGTTTTTTA
72948953 TTTTATTTTATT
1 TTTTATTTTATT
72948965 TTTTATTTTATT
1 TTTTATTTTATT
72948977 TT
1 TT
72948979 CACACAAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTATTTTATT
Found at i:72948968 original size:17 final size:17
Alignment explanation
Indices: 72948946--72948978 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
72948936 AAAATCTGTG
72948946 TTTTTTATTTTATTTTA
1 TTTTTTATTTTATTTTA
72948963 TTTTTTATTTTATTTT
1 TTTTTTATTTTATTTT
72948979 CACACAAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTTTATTTTATTTTA
Found at i:72949079 original size:13 final size:13
Alignment explanation
Indices: 72949061--72949102 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
72949051 AGATTTTTAT
72949061 TAAATATTATCAC
1 TAAATATTATCAC
72949074 TAAATA--ATC-C
1 TAAATATTATCAC
72949084 TAAATATTATCAC
1 TAAATATTATCAC
72949097 TAAATA
1 TAAATA
72949103 ATTCAAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 7 0.27
11 3 0.12
12 3 0.12
13 13 0.50
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (13 bp):
TAAATATTATCAC
Found at i:72949091 original size:23 final size:23
Alignment explanation
Indices: 72949061--72949104 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
72949051 AGATTTTTAT
72949061 TAAATATTATCACTAAATAATCC
1 TAAATATTATCACTAAATAATCC
72949084 TAAATATTATCACTAAATAAT
1 TAAATATTATCACTAAATAAT
72949105 TCAAAATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (23 bp):
TAAATATTATCACTAAATAATCC
Found at i:72949111 original size:23 final size:23
Alignment explanation
Indices: 72949062--72949111 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
72949052 GATTTTTATT
*
72949062 AAATATTATCACTAAATAATCCT
1 AAATATTATCACTAAATAATCCA
*
72949085 AAATATTATCACTAAATAATTCA
1 AAATATTATCACTAAATAATCCA
72949108 AAAT
1 AAAT
72949112 TTAAAATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (23 bp):
AAATATTATCACTAAATAATCCA
Found at i:72950822 original size:30 final size:30
Alignment explanation
Indices: 72950779--72950835 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
72950769 TTTTTAGATA
*
72950779 AATTTGATCATCAA-TATTTTAAAAAGAGTC
1 AATTTGATCATCAACT-TTTCAAAAAGAGTC
72950809 AATTTGAAT-ATCAACTTTTCAAAAAGA
1 AATTTG-ATCATCAACTTTTCAAAAAGA
72950836 AATATTGTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 21 0.88
31 3 0.12
ACGTcount: A:0.46, C:0.11, G:0.09, T:0.35
Consensus pattern (30 bp):
AATTTGATCATCAACTTTTCAAAAAGAGTC
Found at i:72957667 original size:12 final size:13
Alignment explanation
Indices: 72957643--72957672 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
72957633 ATTATGTCTG
72957643 AATATATATAAAA
1 AATATATATAAAA
72957656 AATATA-ATAAAA
1 AATATATATAAAA
72957668 AATAT
1 AATAT
72957673 TGTTAGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
AATATATATAAAA
Found at i:72958226 original size:22 final size:21
Alignment explanation
Indices: 72958201--72958248 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
72958191 CATTGAGAAC
72958201 GAATTGATT-TTTTATTATTTTT
1 GAATTGATTCTTTT-TT-TTTTT
72958223 GAATTGATTCTTTTTTTTTTT
1 GAATTGATTCTTTTTTTTTTT
*
72958244 TAATT
1 GAATT
72958249 TTATGGTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 9 0.38
22 11 0.46
23 4 0.17
ACGTcount: A:0.21, C:0.02, G:0.08, T:0.69
Consensus pattern (21 bp):
GAATTGATTCTTTTTTTTTTT
Found at i:72969694 original size:42 final size:43
Alignment explanation
Indices: 72969628--72969717 Score: 103
Period size: 42 Copynumber: 2.1 Consensus size: 43
72969618 ATTTATGTAC
* ** *
72969628 AAGACCATGTCTGGGACATCGGCA-TCATATCT-AATTTCATGT
1 AAGACCATGTCTCGGACAGAGGCATTCATAT-TGAATTACATGT
* *
72969670 AAGACCCTGTCTCGGACAGAGGCATTGATATTGAATTACATGT
1 AAGACCATGTCTCGGACAGAGGCATTCATATTGAATTACATGT
72969713 AAGAC
1 AAGAC
72969718 TACGTCCGAG
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
42 21 0.52
43 19 0.47
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (43 bp):
AAGACCATGTCTCGGACAGAGGCATTCATATTGAATTACATGT
Found at i:72974330 original size:18 final size:18
Alignment explanation
Indices: 72974303--72974339 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
72974293 CGTACATGAG
*
72974303 AGAAACAAAAACAAAGAA
1 AGAAACAAAAAAAAAGAA
*
72974321 AGAAAGAAAAAAAAAGAA
1 AGAAACAAAAAAAAAGAA
72974339 A
1 A
72974340 AGTGTTCATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.81, C:0.05, G:0.14, T:0.00
Consensus pattern (18 bp):
AGAAACAAAAAAAAAGAA
Found at i:72975491 original size:30 final size:30
Alignment explanation
Indices: 72975455--72975555 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
72975445 GACAAGATTG
* * *
72975455 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
72975485 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
72975513 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
72975542 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
72975556 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:72975567 original size:29 final size:28
Alignment explanation
Indices: 72975484--72975559 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
72975474 AAAATTGTAC
* *
72975484 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
72975512 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
72975541 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
72975560 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:72980179 original size:12 final size:12
Alignment explanation
Indices: 72980162--72980186 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
72980152 ATGTAAGTGA
72980162 TCTTGATGATTT
1 TCTTGATGATTT
72980174 TCTTGATGATTT
1 TCTTGATGATTT
72980186 T
1 T
72980187 TACATTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:72981117 original size:47 final size:44
Alignment explanation
Indices: 72981018--72981240 Score: 155
Period size: 47 Copynumber: 4.8 Consensus size: 44
72981008 TATTATGAGA
* * *
72981018 GCCAGTGTAAGACCATGTCTAGGACATGGCATCAGC-ACAGAGATGAGT
1 GCCAGTGTAAGA-CATGTTTGGGACAT-GCATCGGCTA-AGAGAT-A-T
* *
72981066 GCCAGAGTAAGACATGTTTGGGACATGTATCGGCCTCAACAGAGATA-
1 GCCAGTGTAAGACATGTTTGGGACATGCATCGG-CT--A-AGAGATAT
* * *
72981113 GCCAGTGTAAGACGTGTTTGGGACACGCATCGGCTAAGAGTTAT
1 GCCAGTGTAAGACATGTTTGGGACATGCATCGGCTAAGAGATAT
* * * * *
72981157 GCTAGTGTAAGACATGTCTGGGACATGCATCAGC-ACGCATATAT
1 GCCAGTGTAAGACATGTTTGGGACATGCATCGGCTAAG-AGATAT
*
72981201 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 ----GCCAGTGTAAGA-CATGTTTGGGACAT-GCATCGGC
72981241 AATATATACC
Statistics
Matches: 143, Mismatches: 20, Indels: 22
0.77 0.11 0.12
Matches are distributed among these distances:
43 8 0.06
44 34 0.24
46 7 0.05
47 42 0.29
48 22 0.15
49 15 0.10
50 15 0.10
ACGTcount: A:0.29, C:0.20, G:0.30, T:0.22
Consensus pattern (44 bp):
GCCAGTGTAAGACATGTTTGGGACATGCATCGGCTAAGAGATAT
Found at i:72995723 original size:2 final size:2
Alignment explanation
Indices: 72995716--72995747 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
72995706 GATGAGAAAG
72995716 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
72995748 AACACTTGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:72997355 original size:40 final size:40
Alignment explanation
Indices: 72997311--72997443 Score: 162
Period size: 40 Copynumber: 3.3 Consensus size: 40
72997301 GCTACTCGTT
* *
72997311 CAAATACCTTCGGGACATAACCCAG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACATAACCCAGATT-TAGTAACTCGCA
* *
72997351 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCAGATTTAGTAACTCGCA
* ** *
72997391 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CATAACCCAGATTTAGTAACTCGCA
72997431 CAAATGCCTTCGG
1 CAAATGCCTTCGG
72997444 ATCTTAGTTC
Statistics
Matches: 84, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
39 3 0.04
40 78 0.93
41 3 0.04
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCAGATTTAGTAACTCGCA
Found at i:72997444 original size:40 final size:40
Alignment explanation
Indices: 72997339--72997496 Score: 196
Period size: 40 Copynumber: 4.0 Consensus size: 40
72997329 AACCCAGTTA
* **
72997339 TAGTAGCTCGCACAAATGCCTTCGGGACTTAACCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAGTCCGGATT
72997379 TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGTCCGGATT
* *
72997419 TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTTCGGATA
1 TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGTCCGGATT
* * *
72997459 TAGTCACTTAGCACAAA-GCCTTCGGGACTTAGGCCGGA
1 TAGTAAC-TCGCACAAATGCCTTCGGGACTTAGTCCGGA
72997497 CATCATTTGA
Statistics
Matches: 106, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
39 3 0.03
40 92 0.87
41 11 0.10
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGGACTTAGTCCGGATT
Found at i:73002542 original size:48 final size:48
Alignment explanation
Indices: 73002473--73003192 Score: 1152
Period size: 48 Copynumber: 15.0 Consensus size: 48
73002463 AGATAAATAT
* *
73002473 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * * *
73002521 ATACATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * *
73002569 ATATGTATGAGATATGCATATGTGGTAAAGCCGAATGGCTAATCTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
73002617 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTAAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
73002665 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
73002713 ATATATATGAGATGTGTATATGTGATAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
73002761 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
73002809 ATATATATGAGAAATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
73002857 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
73002905 ATATATCTGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTAAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
73002953 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
73003001 ATATATATGAGATGTGTATATGTGATAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
73003049 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* ** *
73003097 ATATATGTTTGATATGTATATGTGGTAAAACCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
73003145 ATATATATGAGATATGAATATGTGGTAAAGCTGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
73003193 TGTTGTAACA
Statistics
Matches: 618, Mismatches: 54, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 618 1.00
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.32
Consensus pattern (48 bp):
ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
Found at i:73003288 original size:37 final size:37
Alignment explanation
Indices: 73003237--73003381 Score: 209
Period size: 37 Copynumber: 3.9 Consensus size: 37
73003227 GGAAATATAT
* *
73003237 TCCGGGTGAGACCCGATGACAACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
73003274 CCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
73003311 TCCGGGTAAGACCCGATGACTACATGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * * *
73003348 TCCGGGTAAGACCTGATAACTTCATGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
73003382 TCGTCTGAGC
Statistics
Matches: 98, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 98 1.00
ACGTcount: A:0.26, C:0.19, G:0.32, T:0.23
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:73004800 original size:40 final size:40
Alignment explanation
Indices: 73004601--73004790 Score: 281
Period size: 40 Copynumber: 4.8 Consensus size: 40
73004591 GAGAATTGAG
* * * *
73004601 AGTGATATATCCGGGCTAAATCCCAAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
**
73004641 AGTGATGTATCCGGACTAAGTTTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
* *
73004681 AGTGATGTATCCAGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
*
73004721 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCATGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
* *
73004761 AGTGATGTATCCGGGCTAGGTCCCGAAGAG
1 AGTGATGTATCCGGACTAAGTCCCGAAGAG
73004791 TAATCATGCT
Statistics
Matches: 137, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 137 1.00
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
Found at i:73008354 original size:48 final size:48
Alignment explanation
Indices: 73008285--73008604 Score: 514
Period size: 48 Copynumber: 6.6 Consensus size: 48
73008275 AGATAAATAT
73008285 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
73008333 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * * *
73008381 ATATGTATGAGATATGTATATGTGGTAAAGCCGAAGGGCTAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * *
73008429 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTAAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
73008477 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * * *
73008525 ATATATATGAGATGTGTATATGTGATAAAGCCGAATGGCTAATGTGAAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA
73008574 TATATATGTGTGATATGTATATGTGGTAAAG
1 -ATATATGTGTGATATGTATATGTGGTAAAG
73008605 TCTGTAACAC
Statistics
Matches: 250, Mismatches: 20, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
48 222 0.89
49 2 0.01
50 26 0.10
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.33
Consensus pattern (48 bp):
ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
Found at i:73010015 original size:40 final size:40
Alignment explanation
Indices: 73009970--73010137 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
73009960 CGGAATATAA
73009970 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
73010010 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
73010050 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
73010090 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
73010130 CCGGATAT
1 CCGGATAT
73010138 CATTCAATTT
Statistics
Matches: 102, Mismatches: 25, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 101 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:73010120 original size:80 final size:80
Alignment explanation
Indices: 73009986--73010135 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
73009976 ATAACCACGT
* *
73009986 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
73010051 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * * *
73010066 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGGCTTAG
73010129 CCCGGAT
64 CCCGGAT
73010136 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 3 0.05
80 58 0.95
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:73017981 original size:40 final size:40
Alignment explanation
Indices: 73017936--73018103 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
73017926 CGGAATATAA
73017936 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
73017976 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
73018016 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
73018056 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
73018096 CCGGATAT
1 CCGGATAT
73018104 CATTCAATTT
Statistics
Matches: 104, Mismatches: 23, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 103 0.99
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:73018086 original size:80 final size:80
Alignment explanation
Indices: 73017936--73018103 Score: 216
Period size: 80 Copynumber: 2.1 Consensus size: 80
73017926 CGGAATATAA
*
73017936 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATG
*
73018001 CCTTCGGGTCTTAGC
66 CCTTCGGGGCTTAGC
* * * * *
73018016 CCGGATATAGCCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA
*
73018078 TTGTCTTCGGGGCTTAGC
64 -TGCCTTCGGGGCTTAGC
73018096 CCGGATAT
1 CCGGATAT
73018104 CATTCAATTT
Statistics
Matches: 77, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
79 4 0.05
80 73 0.95
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (80 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATG
CCTTCGGGGCTTAGC
Found at i:73019855 original size:48 final size:48
Alignment explanation
Indices: 73019771--73020272 Score: 781
Period size: 48 Copynumber: 10.5 Consensus size: 48
73019761 GGGCTGTCAC
* * *
73019771 AAAGTCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGT
1 AAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGT
* * *
73019819 AAAGCTGAATGGCTGATGTGAAATATATATGAGATATGTATATATGGT
1 AAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGT
* * *
73019867 AAAGCCGAATGGCGAATGTGAAATATATGTGTGATATGTATATGTGGT
1 AAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGT
73019915 AAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGT
1 AAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGT
* * *
73019963 AAAGCCGAATGGCTAATGTAAAATATATGTGTGATATGTATATGTGGT
1 AAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGT
* * *
73020011 AAAGCCGAATGGCTAATGTGAAATATATATGAGATGTGTATATGCGAT
1 AAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGT
*
73020059 AAAGCCGAATGGCTAATGTGAAATTTATATGAGATATGTATATGTGGT
1 AAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGT
* *
73020107 AAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGT
1 AAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGT
* *
73020155 AAAACCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTCGT
1 AAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGT
* * *
73020203 AAAGCTGAATGG-TGAATGTGAAATATGTATGAGATATGAATATGTGGT
1 AAAGCCGAATGGCT-AATGTGAAATATATATGAGATATGTATATGTGGT
73020251 AAAGCCGAATGGCTAATGTGAA
1 AAAGCCGAATGGCTAATGTGAA
73020273 TGTTGTAACA
Statistics
Matches: 411, Mismatches: 41, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
47 1 0.00
48 409 1.00
49 1 0.00
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.32
Consensus pattern (48 bp):
AAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGT
Found at i:73020428 original size:36 final size:37
Alignment explanation
Indices: 73020317--73020460 Score: 236
Period size: 37 Copynumber: 3.9 Consensus size: 37
73020307 GGACATATAT
*
73020317 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
73020354 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
73020391 TCCGGGTAAGACCCGATGACTACATG-GGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
73020427 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
73020461 TCGTCTGAGC
Statistics
Matches: 99, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
36 32 0.32
37 67 0.68
ACGTcount: A:0.24, C:0.19, G:0.33, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:73020439 original size:73 final size:74
Alignment explanation
Indices: 73020317--73020460 Score: 236
Period size: 73 Copynumber: 2.0 Consensus size: 74
73020307 GGACATATAT
* * * *
73020317 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTATGTCCGGGTAAGACCCGATGACTACGTGTG
1 TCCGGGTAAGACCCGATGACTACATGTGGAGAGTATGTCCGGGTAAGACCCGATAACTACGTGTG
73020382 GAGATTATG
66 GAGATTATG
*
73020391 TCCGGGTAAGACCCGATGACTACATG-GGAGAGTATGTCCGGGTAAGACCCGATAACTTCGTGTG
1 TCCGGGTAAGACCCGATGACTACATGTGGAGAGTATGTCCGGGTAAGACCCGATAACTACGTGTG
73020455 GAGATT
66 GAGATT
73020461 TCGTCTGAGC
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
73 41 0.63
74 24 0.37
ACGTcount: A:0.24, C:0.19, G:0.33, T:0.24
Consensus pattern (74 bp):
TCCGGGTAAGACCCGATGACTACATGTGGAGAGTATGTCCGGGTAAGACCCGATAACTACGTGTG
GAGATTATG
Found at i:73023030 original size:39 final size:39
Alignment explanation
Indices: 73022972--73023061 Score: 146
Period size: 39 Copynumber: 2.3 Consensus size: 39
73022962 GCATGATACT
73022972 TGGAAACATATCCGAACTTGAGGTCCGCAGGCTACGTGC
1 TGGAAACATATCCGAACTTGAGGTCCGCAGGCTACGTGC
*
73023011 TGGAAACATATCC-AGACTTGAGGTCCGCAGGCTATGTGC
1 TGGAAACATATCCGA-ACTTGAGGTCCGCAGGCTACGTGC
*
73023050 TGGAAATATATC
1 TGGAAACATATC
73023062 TGGGCTTAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
38 1 0.02
39 47 0.98
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (39 bp):
TGGAAACATATCCGAACTTGAGGTCCGCAGGCTACGTGC
Found at i:73024391 original size:59 final size:57
Alignment explanation
Indices: 73024295--73024406 Score: 138
Period size: 59 Copynumber: 1.9 Consensus size: 57
73024285 GAAAAAAGAA
73024295 AAAAGAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCG-AATGTACTAAGGAAAG
1 AAAAGAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAAT-TACTAAGGAAAG
* ***
73024352 AAAAGAAAAAAATTTTGTTCATCCTT-TCTCATCTTCTTGGCCGAAATTACTAAGG
1 AAAAGAAAAAAA--ATGTTCATCCTTCTC-CATAGGCTTGGCCGAAATTACTAAGG
73024407 GAAAAGGGGG
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
57 12 0.26
58 2 0.04
59 30 0.64
60 3 0.06
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.29
Consensus pattern (57 bp):
AAAAGAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAATTACTAAGGAAAG
Found at i:73025668 original size:40 final size:40
Alignment explanation
Indices: 73025602--73025768 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
73025592 AAATTGAATG
* * *
73025602 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
73025641 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
73025681 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGGGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTGGTAATT
* * ** *
73025721 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
73025761 ATATCCGG
1 ATATCCGG
73025769 TTATATTCCG
Statistics
Matches: 105, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:73025735 original size:80 final size:79
Alignment explanation
Indices: 73025602--73025752 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 79
73025592 AAATTGAATG
* *
73025602 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAA
1 ATATCCGGGCTAAGCCCGAAGACAATTATGCGGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
73025667 TTGTGCTAGTGGCT
66 TTGTGCTAGTGGCT
* * ** *
73025681 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGGGTTATTCTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAG-CCCGAAGACAATT-ATGCGGGAAATTATATCCGGGCTAAGACCCGAAGGC
*
73025745 ATTTGTGC
64 AATTGTGC
73025753 ACGTGATTAT
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
ATATCCGGGCTAAGCCCGAAGACAATTATGCGGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCTAGTGGCT
Found at i:73029620 original size:22 final size:22
Alignment explanation
Indices: 73029595--73029649 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
73029585 TAGTGCCTTA
73029595 CAGGCTTAGTGTCAGTGTTATT
1 CAGGCTTAGTGTCAGTGTTATT
*
73029617 CAGGTTTAGTGTCAGTGTTATT
1 CAGGCTTAGTGTCAGTGTTATT
73029639 CAGGCTTAGTG
1 CAGGCTTAGTG
73029650 CCTAGCAGAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.18, C:0.13, G:0.29, T:0.40
Consensus pattern (22 bp):
CAGGCTTAGTGTCAGTGTTATT
Found at i:73029738 original size:38 final size:38
Alignment explanation
Indices: 73029617--73029760 Score: 164
Period size: 38 Copynumber: 3.8 Consensus size: 38
73029607 CAGTGTTATT
*
73029617 CAGGTTTAGTGTCAGTGTTATTCAGGCTTAGTGCCTAG
1 CAGGCTTAGTGTCAGTGTTATTCAGGCTTAGTGCCTAG
* * * * *
73029655 CAGACTTTGTGTCAGTATTATTCAAGCTTTGTGCCTAG
1 CAGGCTTAGTGTCAGTGTTATTCAGGCTTAGTGCCTAG
* *
73029693 CAAGCTTAGTGTCAGTGTTATTTAGGCTTAGTGCCTAG
1 CAGGCTTAGTGTCAGTGTTATTCAGGCTTAGTGCCTAG
* * * *
73029731 TAGGCTTA-TTTCTTGTGTTATTTAGGCTTA
1 CAGGCTTAGTGTC-AGTGTTATTCAGGCTTA
73029761 TAGACGGTGT
Statistics
Matches: 88, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
37 3 0.03
38 85 0.97
ACGTcount: A:0.19, C:0.15, G:0.24, T:0.41
Consensus pattern (38 bp):
CAGGCTTAGTGTCAGTGTTATTCAGGCTTAGTGCCTAG
Found at i:73037102 original size:39 final size:39
Alignment explanation
Indices: 73037041--73037121 Score: 99
Period size: 39 Copynumber: 2.1 Consensus size: 39
73037031 ATTTCAATAT
** * *
73037041 ACCGGCACGTAGCCTACTAGGCACAAAGCCCGAATAATC
1 ACCGGCACACAGCCTACCAGGCACAAAGCACGAATAATC
* * *
73037080 ACCGGCACACAGCCTGCCAGGCACATATCACGAATAATC
1 ACCGGCACACAGCCTACCAGGCACAAAGCACGAATAATC
73037119 ACC
1 ACC
73037122 ATGTTTCTAT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.33, C:0.36, G:0.19, T:0.12
Consensus pattern (39 bp):
ACCGGCACACAGCCTACCAGGCACAAAGCACGAATAATC
Found at i:73038889 original size:17 final size:18
Alignment explanation
Indices: 73038847--73038895 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
73038837 AAGTTGAAAG
73038847 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
73038866 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
73038883 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
73038896 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:73039781 original size:40 final size:40
Alignment explanation
Indices: 73039715--73039865 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
73039705 AAATTGAATG
* * *
73039715 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
73039754 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
73039794 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
73039834 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
73039866 ACTTGATTAT
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:73039879 original size:40 final size:40
Alignment explanation
Indices: 73039751--73039881 Score: 149
Period size: 40 Copynumber: 3.3 Consensus size: 40
73039741 TATGCTGGAA
* * * *
73039751 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTG
** * *
73039791 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTT-
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-TTG
*
73039831 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACTTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-TTG
73039871 ATTATATCCGG
1 ATTATATCCGG
73039882 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
39 3 0.04
40 70 0.95
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTG
Found at i:73046854 original size:17 final size:18
Alignment explanation
Indices: 73046812--73046860 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
73046802 AGTTGAAAAG
73046812 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
73046831 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
73046848 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
73046861 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:73047740 original size:40 final size:40
Alignment explanation
Indices: 73047674--73047824 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
73047664 AAATTGAATG
* * *
73047674 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
73047713 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
73047753 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
73047793 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
73047825 ACTTGATTAT
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:73047838 original size:40 final size:40
Alignment explanation
Indices: 73047710--73047840 Score: 149
Period size: 40 Copynumber: 3.3 Consensus size: 40
73047700 TATGCTGGAA
* * * *
73047710 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTG
** * *
73047750 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTT-
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-TTG
*
73047790 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACTTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-TTG
73047830 ATTATATCCGG
1 ATTATATCCGG
73047841 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
39 3 0.04
40 70 0.95
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTG
Found at i:73050892 original size:46 final size:44
Alignment explanation
Indices: 73050774--73050939 Score: 181
Period size: 46 Copynumber: 3.6 Consensus size: 44
73050764 TCACGATGTG
* * * *
73050774 GCTGATGCATGTCCCAGACATGTCTTACACTAGGACACATATCTCGAG
1 GCTGATGCATGTCCCAGACATGTCTTATACT-GG-C-C-TTTCTCAAA
*
73050822 GCCGATGCATGTCCCAGACATGTCTTATACTGGCTCTTGTCTCAAA
1 GCTGATGCATGTCCCAGACATGTCTTATACTGGC-CTT-TCTCAAA
*
73050868 GCTGATGCATGTCCCAGACATGTCTTATACTGG-CTTTCGCAATA
1 GCTGATGCATGTCCCAGACATGTCTTATACTGGCCTTTCTCAA-A
*
73050912 TGGCGGATGCATGTCCCAGACATGTCTT
1 --GCTGATGCATGTCCCAGACATGTCTT
73050940 CCACTGGCGC
Statistics
Matches: 105, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
43 5 0.05
44 4 0.04
45 1 0.01
46 64 0.61
47 2 0.02
48 29 0.28
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.29
Consensus pattern (44 bp):
GCTGATGCATGTCCCAGACATGTCTTATACTGGCCTTTCTCAAA
Found at i:73059746 original size:48 final size:48
Alignment explanation
Indices: 73059680--73059822 Score: 223
Period size: 48 Copynumber: 3.0 Consensus size: 48
73059670 CATTAGGGAA
* * *
73059680 TACATTGATTTGGCTTCGGGCCATGATATTGACACATCGGGTGCGAGT
1 TACATTGATTTGGCTTCGGGCCATGATATTGGCACTTAGGGTGCGAGT
* * * *
73059728 TACATTGACTTGGATTCGGTCCATGATATCGGCACTTAGGGTGCGAGT
1 TACATTGATTTGGCTTCGGGCCATGATATTGGCACTTAGGGTGCGAGT
73059776 TACATTGATTTGGCTTCGGGCCATGATATTGGCACTTAGGGTGCGAG
1 TACATTGATTTGGCTTCGGGCCATGATATTGGCACTTAGGGTGCGAG
73059823 ACTCCCGACT
Statistics
Matches: 84, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 84 1.00
ACGTcount: A:0.20, C:0.18, G:0.30, T:0.31
Consensus pattern (48 bp):
TACATTGATTTGGCTTCGGGCCATGATATTGGCACTTAGGGTGCGAGT
Found at i:73063459 original size:30 final size:30
Alignment explanation
Indices: 73063425--73063485 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
73063415 TCCTTAACTC
73063425 AAACTTTGGCAAAATTACAATTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
* * * *
73063455 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
73063485 A
1 A
73063486 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCCT
Found at i:73067211 original size:25 final size:25
Alignment explanation
Indices: 73067174--73067243 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 25
73067164 CTCTTTTAAT
* *
73067174 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTAGGGCAAAGCCCTTTTCGATA
* *
73067199 AAGTAGGGCAAAGCCCTTTTCGGTA
1 AACTAGGGCAAAGCCCTTTTCGATA
* *
73067224 AACTGGGGCATAGCCCTTTT
1 AACTAGGGCAAAGCCCTTTT
73067244 AGCACTTCCT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTAGGGCAAAGCCCTTTTCGATA
Found at i:73068069 original size:26 final size:27
Alignment explanation
Indices: 73068036--73068131 Score: 87
Period size: 27 Copynumber: 3.6 Consensus size: 27
73068026 TCATACAGAA
*
73068036 CATA-AGGGCATATT-CG-TCATTTTAC
1 CATACAGGGC-TATTACGATCACTTTAC
73068061 CATACAGGGCTATTACGATCACTTTAC
1 CATACAGGGCTATTACGATCACTTTAC
*
73068088 CCTACAGGGGCT-TTAC-AGTCACTTTAC
1 CATACA-GGGCTATTACGA-TCACTTTAC
*
73068115 CCTACAGGGGCT-TTACG
1 CATACA-GGGCTATTACG
73068132 GTCTTTTTAC
Statistics
Matches: 63, Mismatches: 2, Indels: 9
0.85 0.03 0.12
Matches are distributed among these distances:
25 8 0.13
26 8 0.13
27 42 0.67
28 5 0.08
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (27 bp):
CATACAGGGCTATTACGATCACTTTAC
Found at i:73068142 original size:27 final size:27
Alignment explanation
Indices: 73068051--73068134 Score: 116
Period size: 27 Copynumber: 3.1 Consensus size: 27
73068041 GGGCATATTC
* *
73068051 GTCATTTTACCATACA-GGGCTATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
* *
73068078 ATCACTTTACCCTACAGGGGCTTTACA
1 GTCACTTTACCCTACAGGGGCTTTACG
73068105 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
73068132 GTC
1 GTC
73068135 TTTTTACCTA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
27 45 0.90
28 5 0.10
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:73068226 original size:27 final size:27
Alignment explanation
Indices: 73068196--73068496 Score: 189
Period size: 27 Copynumber: 11.1 Consensus size: 27
73068186 GTAAATCTAC
* *
73068196 AAACTAAGGGTATTTCAGTAATTTTGT
1 AAACTAAGGGTATTTTAGTAATTTTAT
* * *
73068223 AAACCAATGGTATTTCTA-TAATTTTTAA
1 AAACTAAGGGTATTT-TAGTAA-TTTTAT
* * * *
73068251 AAAGTCAAGGGTATTTTTGTAACTTTGT
1 AAACT-AAGGGTATTTTAGTAATTTTAT
*
73068279 AAA-TCAAGGGTATTTTGGTAATTTTAT
1 AAACT-AAGGGTATTTTAGTAATTTTAT
* * * * * *
73068306 AAATTGAGGGCATTTCAGTAATTTCAC
1 AAACTAAGGGTATTTTAGTAATTTTAT
* * *
73068333 AAAC-CAGTGGTATTTTGGTAATTTTAC
1 AAACTAAG-GGTATTTTAGTAATTTTAT
* * * *
73068360 AAACTAGGGGTATTCTGGTAATTTTAC
1 AAACTAAGGGTATTTTAGTAATTTTAT
* * * *
73068387 AAACCAGGGGTATTTTAGCAATTTTAC
1 AAACTAAGGGTATTTTAGTAATTTTAT
* * *
73068414 AGAC-AATGGTATTTTGGTAATTTTACT
1 AAACTAAGGGTATTTTAGTAATTTTA-T
* * * * *
73068441 GATC-GAGGGTATTTTGGTAATTTTGT
1 AAACTAAGGGTATTTTAGTAATTTTAT
*
73068467 AAACTAAGGGTATTTTAGTAATTTTGT
1 AAACTAAGGGTATTTTAGTAATTTTAT
73068494 AAA
1 AAA
73068497 TCGAAGGTAA
Statistics
Matches: 215, Mismatches: 50, Indels: 18
0.76 0.18 0.06
Matches are distributed among these distances:
26 22 0.10
27 164 0.76
28 17 0.08
29 12 0.06
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.41
Consensus pattern (27 bp):
AAACTAAGGGTATTTTAGTAATTTTAT
Found at i:73068301 original size:56 final size:57
Alignment explanation
Indices: 73068201--73068308 Score: 139
Period size: 56 Copynumber: 1.9 Consensus size: 57
73068191 TCTACAAACT
* *
73068201 AAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCTATAATTTT-TAAAAAGTC
1 AAGGGTATTTCAGTAACTTTGTAAACCAAGGGTATTTCTATAATTTTATAAAAAGTC
** * *
73068257 AAGGGTATTTTTGTAACTTTGTAAATCAAGGGTATTT-TGGTAATTTTATAAA
1 AAGGGTATTTCAGTAACTTTGTAAACCAAGGGTATTTCT-ATAATTTTATAAA
73068309 TTGAGGGCAT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
55 1 0.02
56 39 0.89
57 4 0.09
ACGTcount: A:0.34, C:0.06, G:0.17, T:0.43
Consensus pattern (57 bp):
AAGGGTATTTCAGTAACTTTGTAAACCAAGGGTATTTCTATAATTTTATAAAAAGTC
Found at i:73068451 original size:80 final size:80
Alignment explanation
Indices: 73068286--73068491 Score: 207
Period size: 80 Copynumber: 2.6 Consensus size: 80
73068276 TGTAAATCAA
* * *** * * * * * *
73068286 GGGTATTTTGGTAATTTTATAAATTGAGGGCATTTCAGTAATTTCACAAACCAGTGGTATTTTGG
1 GGGTATTCTGGTAATTTTACAAACCAAGGGTATTTTAGCAATTTTACAGA-CAATGGTATTTTGG
*
73068351 TAATTTTACAAACTAG
65 TAATTTTACAAACGAG
*
73068367 GGGTATTCTGGTAATTTTACAAACCAGGGGTATTTTAGCAATTTTACAGACAATGGTATTTTGGT
1 GGGTATTCTGGTAATTTTACAAACCAAGGGTATTTTAGCAATTTTACAGACAATGGTATTTTGGT
* *
73068432 AATTTTACTGATCGA-
66 AATTTTAC-AAACGAG
* ** * *
73068447 GGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTAGTAATTTT
1 GGGTATTCTGGTAATTTTACAAACCAAGGGTATTTTAGCAATTTT
73068492 GTAAATCGAA
Statistics
Matches: 103, Mismatches: 21, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
80 61 0.59
81 42 0.41
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (80 bp):
GGGTATTCTGGTAATTTTACAAACCAAGGGTATTTTAGCAATTTTACAGACAATGGTATTTTGGT
AATTTTACAAACGAG
Found at i:73068500 original size:54 final size:54
Alignment explanation
Indices: 73068173--73068503 Score: 238
Period size: 54 Copynumber: 6.1 Consensus size: 54
73068163 TTTCATCCTA
* * * * * *
73068173 CAAGGGTGTTTTGGTAAATCTACAAACTAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAACTAAGGGTATTTTAGTAATTTTGTAAAT
* * * * * *
73068227 CAATGGTATTTCT-ATAATTTTTAAAAAGTCAAGGGTATTTTTGTAACTTTGTAAAT
1 CAAGGGTATTT-TGGTAA-TTTTATAAACT-AAGGGTATTTTAGTAATTTTGTAAAT
* * * * ***
73068283 CAAGGGTATTTTGGTAATTTTATAAATTGAGGGCATTTCAGTAATTTCACAAA-
1 CAAGGGTATTTTGGTAATTTTATAAACTAAGGGTATTTTAGTAATTTTGTAAAT
* * * * * ** *
73068336 CCAGTGGTATTTTGGTAATTTTACAAACTAGGGGTATTCTGGTAATTTTACAAAC
1 CAAG-GGTATTTTGGTAATTTTATAAACTAAGGGTATTTTAGTAATTTTGTAAAT
* * * * * * * * *
73068391 CAGGGGTATTTTAGCAATTTTACAGAC-AATGGTATTTTGGTAATTTTACT-GAT
1 CAAGGGTATTTTGGTAATTTTATAAACTAAGGGTATTTTAGTAATTTT-GTAAAT
* *
73068444 CGAGGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTATAAACTAAGGGTATTTTAGTAATTTTGTAAAT
73068498 CGAAGG
1 C-AAGG
73068504 TAAAACAGTA
Statistics
Matches: 210, Mismatches: 57, Indels: 19
0.73 0.20 0.07
Matches are distributed among these distances:
53 42 0.20
54 110 0.52
55 23 0.11
56 35 0.17
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (54 bp):
CAAGGGTATTTTGGTAATTTTATAAACTAAGGGTATTTTAGTAATTTTGTAAAT
Found at i:73068505 original size:27 final size:27
Alignment explanation
Indices: 73068442--73068505 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
73068432 AATTTTACTG
* *
73068442 ATCGAGGGTATTTTGGTAATTTTGTAA
1 ATCGAAGGTATTTTAGTAATTTTGTAA
*
73068469 A-CTAAGGGTATTTTAGTAATTTTGTAA
1 ATCGAA-GGTATTTTAGTAATTTTGTAA
73068496 ATCGAAGGTA
1 ATCGAAGGTA
73068506 AAACAGTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
26 2 0.06
27 26 0.84
28 3 0.10
ACGTcount: A:0.31, C:0.05, G:0.23, T:0.41
Consensus pattern (27 bp):
ATCGAAGGTATTTTAGTAATTTTGTAA
Found at i:73068513 original size:27 final size:27
Alignment explanation
Indices: 73068484--73068721 Score: 323
Period size: 27 Copynumber: 8.8 Consensus size: 27
73068474 GGGTATTTTA
* * *
73068484 GTAATTTTGTAAATCGAAGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
73068511 GTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* **
73068538 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
73068565 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * * *
73068592 GTAATTCTATAAGTCGAGGGCAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
73068619 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
73068646 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
73068673 GTAATTCTGTAAGTCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
73068700 GTAATTCTATAAATCGAGGGTA
1 GTAATTCTGTAAATCGAGGGTA
73068722 CTTTGGTAAT
Statistics
Matches: 192, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 192 1.00
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:73068732 original size:81 final size:81
Alignment explanation
Indices: 73068482--73068721 Score: 372
Period size: 81 Copynumber: 3.0 Consensus size: 81
73068472 AAGGGTATTT
* * * * * **
73068482 TAGTAATTTTGTAAATCGAAGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTA
1 TAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAATGGTAATTCTA
73068547 TAAATCGAGGGTAAAA
66 TAAATCGAGGGTAAAA
* * *
73068563 TAGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAGTCGAGGGCAAAATGGTAATTCTA
1 TAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAATGGTAATTCTA
73068628 TAAATCGAGGGTAAAA
66 TAAATCGAGGGTAAAA
**
73068644 CGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAATGGTAATTCTA
1 TAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAATGGTAATTCTA
73068709 TAAATCGAGGGTA
66 TAAATCGAGGGTA
73068722 CTTTGGTAAT
Statistics
Matches: 144, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 144 1.00
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (81 bp):
TAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAATGGTAATTCTA
TAAATCGAGGGTAAAA
Found at i:73074475 original size:17 final size:18
Alignment explanation
Indices: 73074433--73074481 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
73074423 AGTTGAAAAG
73074433 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
73074452 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
73074469 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
73074482 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:73075394 original size:39 final size:39
Alignment explanation
Indices: 73075303--73075451 Score: 162
Period size: 39 Copynumber: 3.8 Consensus size: 39
73075293 AAATTGAATG
* * *
73075303 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGAAAT-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCT--AGTGTT
* *
73075342 ATATCC-GGTTAAGACCCGAAGGCAATTGTGCTAGTGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGTT
*
73075380 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGTT
* *
73075420 AAATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
73075452 AAATCGTGAT
Statistics
Matches: 94, Mismatches: 10, Indels: 11
0.82 0.09 0.10
Matches are distributed among these distances:
37 2 0.02
38 16 0.17
39 44 0.47
40 30 0.32
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGTT
Found at i:73075466 original size:40 final size:39
Alignment explanation
Indices: 73075301--73075468 Score: 157
Period size: 40 Copynumber: 4.3 Consensus size: 39
73075291 AGAAATTGAA
*
73075301 TGATATCCGGGCTAAG-CCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
73075340 TTATATCC-GGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
* *
73075378 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
73075418 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
73075458 TGATATCCGGG
1 TGATATCCGGG
73075469 TAAAGTCCCG
Statistics
Matches: 105, Mismatches: 16, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
36 2 0.02
37 4 0.04
38 14 0.13
39 41 0.39
40 44 0.42
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:73082412 original size:17 final size:18
Alignment explanation
Indices: 73082370--73082418 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
73082360 AAGTTGAAAA
73082370 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
73082389 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
73082406 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
73082419 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:73083276 original size:40 final size:40
Alignment explanation
Indices: 73083228--73083329 Score: 125
Period size: 40 Copynumber: 2.5 Consensus size: 40
73083218 AAATTGAATG
* **
73083228 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATTT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAG-AAGCT
* * * *
73083268 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAGCT
73083308 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
73083330 CATTCGTGCA
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
40 52 0.98
41 1 0.02
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAGCT
Found at i:73083371 original size:38 final size:38
Alignment explanation
Indices: 73083270--73083377 Score: 130
Period size: 38 Copynumber: 2.8 Consensus size: 38
73083260 TGAAATTTAT
* * *
73083270 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTAT
1 ATCCGGG-CAAGACCCGAAGGC-ATTGTGCAAGTAGCTAA
*
73083310 ATCCGGGCTAAGACCCGAA-GCATTCGTGCAAGT-GTTAA
1 ATCCGGGC-AAGACCCGAAGGCATT-GTGCAAGTAGCTAA
73083348 ATCCGGGCAAGACCCGAAGGCATTGTGCAA
1 ATCCGGGCAAGACCCGAAGGCATTGTGCAA
73083378 ATCGTGATAT
Statistics
Matches: 61, Mismatches: 4, Indels: 9
0.82 0.05 0.12
Matches are distributed among these distances:
37 16 0.26
38 19 0.31
39 9 0.15
40 17 0.28
ACGTcount: A:0.29, C:0.23, G:0.28, T:0.20
Consensus pattern (38 bp):
ATCCGGGCAAGACCCGAAGGCATTGTGCAAGTAGCTAA
Found at i:73083390 original size:38 final size:36
Alignment explanation
Indices: 73083267--73083392 Score: 128
Period size: 38 Copynumber: 3.3 Consensus size: 36
73083257 TGCTGAAATT
* *
73083267 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TATATCCGGG-CAAGACCCGAAGGC-ATTGTGCAAGT-G
73083306 CTATATCCGGGCTAAGACCCGAA-GCATTCGTGCAAGTG
1 -TATATCCGGGC-AAGACCCGAAGGCATT-GTGCAAGTG
* *
73083344 TTAAATCCGGGCAAGACCCGAAGGCATTGTGCAAATCG
1 -TATATCCGGGCAAGACCCGAAGGCATTGTGCAAGT-G
73083382 TGATATCCGGG
1 T-ATATCCGGG
73083393 TAAAGTCCCG
Statistics
Matches: 75, Mismatches: 6, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
37 18 0.24
38 28 0.37
39 9 0.12
40 20 0.27
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (36 bp):
TATATCCGGGCAAGACCCGAAGGCATTGTGCAAGTG
Found at i:73087453 original size:29 final size:29
Alignment explanation
Indices: 73087420--73087502 Score: 157
Period size: 29 Copynumber: 2.9 Consensus size: 29
73087410 GTGACGAGAT
73087420 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
73087449 TGGCACTAAGTGTGTATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
73087478 TGGCACTAAGTGTGCATGCTGGAAA
1 TGGCACTAAGTGTGCATGCTGGAAA
73087503 AAAAATACGG
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.30, C:0.13, G:0.29, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:73093514 original size:29 final size:29
Alignment explanation
Indices: 73093481--73093560 Score: 142
Period size: 29 Copynumber: 2.8 Consensus size: 29
73093471 ACGAGATTGG
73093481 CACTAAGTGTGCATGCTGGAAATATATGA
1 CACTAAGTGTGCATGCTGGAAATATATGA
* *
73093510 CACTAAGTGTGTATGCTGGAAATATATGG
1 CACTAAGTGTGCATGCTGGAAATATATGA
73093539 CACTAAGTGTGCATGCTGGAAA
1 CACTAAGTGTGCATGCTGGAAA
73093561 AAAAATACGG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 48 1.00
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (29 bp):
CACTAAGTGTGCATGCTGGAAATATATGA
Found at i:73095394 original size:24 final size:24
Alignment explanation
Indices: 73095367--73095429 Score: 99
Period size: 24 Copynumber: 2.6 Consensus size: 24
73095357 TTTCTTTTTC
*
73095367 TTTAATTTTTATTTTCGGTTGTAT
1 TTTAATTTTAATTTTCGGTTGTAT
**
73095391 TTTAATTTTAATTTTTTGTTGTAT
1 TTTAATTTTAATTTTCGGTTGTAT
73095415 TTTAATTTTAATTTT
1 TTTAATTTTAATTTT
73095430 AATTTTTAGT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.21, C:0.02, G:0.08, T:0.70
Consensus pattern (24 bp):
TTTAATTTTAATTTTCGGTTGTAT
Found at i:73095398 original size:6 final size:6
Alignment explanation
Indices: 73095389--73095435 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
73095379 TTTCGGTTGT
*
73095389 ATTTTA ATTTTA ATTTT- -TTGTTGT ATTTTA ATTTTA ATTTTA ATTTT
1 ATTTTA ATTTTA ATTTTA ATT-TT-A ATTTTA ATTTTA ATTTTA ATTTT
73095436 TAGTTGTGAG
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
4 2 0.06
5 2 0.06
6 28 0.78
7 2 0.06
8 2 0.06
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (6 bp):
ATTTTA
Found at i:73101297 original size:35 final size:35
Alignment explanation
Indices: 73101250--73101321 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
73101240 CTTTGTTAAG
*
73101250 ATACTTATTTGAAAATGAACTGAGTTGGCAATGTA
1 ATACTTAGTTGAAAATGAACTGAGTTGGCAATGTA
*
73101285 ATACTTAGTTGAAAATGAACTGAGTTGGTAATGTA
1 ATACTTAGTTGAAAATGAACTGAGTTGGCAATGTA
73101320 AT
1 AT
73101322 GATGTGTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.35
Consensus pattern (35 bp):
ATACTTAGTTGAAAATGAACTGAGTTGGCAATGTA
Found at i:73113207 original size:13 final size:14
Alignment explanation
Indices: 73113189--73113221 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
73113179 AAAAATGTCG
73113189 TGAAAAAA-AATTT
1 TGAAAAAATAATTT
*
73113202 TTAAAAAATAATTT
1 TGAAAAAATAATTT
73113216 TGAAAA
1 TGAAAA
73113222 TTTTGATAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (14 bp):
TGAAAAAATAATTT
Found at i:73120761 original size:15 final size:15
Alignment explanation
Indices: 73120743--73120799 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
73120733 CACCATTTAA
73120743 AAATAATAAAAATAT
1 AAATAATAAAAATAT
**
73120758 AAATTTTAAAAATAT
1 AAATAATAAAAATAT
73120773 AATATAAAATAAAATTATAT
1 AA-AT--AATAAAA--ATAT
73120793 AAATAAT
1 AAATAAT
73120800 TTAATATTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
15 15 0.45
16 2 0.06
17 3 0.09
18 5 0.15
19 2 0.06
20 6 0.18
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AAATAATAAAAATAT
Found at i:73120787 original size:26 final size:29
Alignment explanation
Indices: 73120741--73120806 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 29
73120731 AACACCATTT
73120741 AAAA-ATAATA-AAAATATAAATT-T-TA
1 AAAATATAATATAAAATATAAATTATATA
73120766 AAAATATAATATAAAATA-AAATTATATA
1 AAAATATAATATAAAATATAAATTATATA
*
73120794 AATAATTTAATAT
1 AA-AATATAATAT
73120807 TTGCAAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
25 4 0.11
26 11 0.31
27 7 0.20
28 4 0.11
29 9 0.26
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (29 bp):
AAAATATAATATAAAATATAAATTATATA
Found at i:73121387 original size:14 final size:14
Alignment explanation
Indices: 73121352--73121389 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
73121342 TGTTTCACTA
*
73121352 AAAATGACTTCTGG
1 AAAATGATTTCTGG
73121366 AAAATGATTTCTGG
1 AAAATGATTTCTGG
73121380 AAAATGATTT
1 AAAATGATTT
73121390 ACTTTTCTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.39, C:0.08, G:0.18, T:0.34
Consensus pattern (14 bp):
AAAATGATTTCTGG
Found at i:73121963 original size:15 final size:15
Alignment explanation
Indices: 73121935--73121976 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
73121925 TATGTGAATA
73121935 ATATTATTTAAAATT
1 ATATTATTTAAAATT
* *
73121950 ATATTGTTTTAAATT
1 ATATTATTTAAAATT
73121965 -TATTA-TTAAAAT
1 ATATTATTTAAAAT
73121977 AAAATTAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
13 6 0.26
14 4 0.17
15 13 0.57
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (15 bp):
ATATTATTTAAAATT
Found at i:73122024 original size:22 final size:22
Alignment explanation
Indices: 73121980--73122039 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
73121970 TTAAAATAAA
*
73121980 ATTAAAATATTAAA-TA-ATTT
1 ATTAAAATAATAAATTATATTT
73122000 ATTAAAATAATAAATTATATTT
1 ATTAAAATAATAAATTATATTT
* * *
73122022 ATTATATTAATAATTTAT
1 ATTAAAATAATAAATTAT
73122040 TATATAACTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.38
21 2 0.06
22 19 0.56
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATTAAAATAATAAATTATATTT
Found at i:73124547 original size:42 final size:43
Alignment explanation
Indices: 73124501--73124616 Score: 144
Period size: 43 Copynumber: 2.7 Consensus size: 43
73124491 ATATGTGAGA
*
73124501 TCGTGTAAGACCATGTCTGGGACATTGGCATC-CTATCTGATT
1 TCGTGTAAGACCATGTCTGGGACATTGGCATCGATATCTGATT
* * * *
73124543 TCGTGTAAGACCTTGTCTGGGACAGTGGCATCGATGTTTGATT
1 TCGTGTAAGACCATGTCTGGGACATTGGCATCGATATCTGATT
* * * *
73124586 ACATGTAAGACCACGTCTGGGACGTTGGCAT
1 TCGTGTAAGACCATGTCTGGGACATTGGCAT
73124617 TGTATATGCT
Statistics
Matches: 62, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
42 30 0.48
43 32 0.52
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.31
Consensus pattern (43 bp):
TCGTGTAAGACCATGTCTGGGACATTGGCATCGATATCTGATT
Found at i:73128056 original size:15 final size:15
Alignment explanation
Indices: 73128036--73128088 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
73128026 GTATATTAGG
73128036 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
73128051 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
* *
73128066 TTTGTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
73128081 TTTCTTTA
1 TTTCTTTA
73128089 CTCGATTTTC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
14 2 0.06
15 29 0.94
ACGTcount: A:0.11, C:0.13, G:0.15, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:73128612 original size:17 final size:17
Alignment explanation
Indices: 73128586--73128618 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
73128576 CAATTTAGTA
73128586 AAAAAGAC-AAAGTTGT
1 AAAAAGACAAAAGTTGT
73128602 AAAAAGTACAAAAGTTG
1 AAAAAG-ACAAAAGTTG
73128619 AGTTTTTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 2 0.13
18 7 0.47
ACGTcount: A:0.58, C:0.06, G:0.18, T:0.18
Consensus pattern (17 bp):
AAAAAGACAAAAGTTGT
Found at i:73129875 original size:38 final size:40
Alignment explanation
Indices: 73129824--73130197 Score: 224
Period size: 38 Copynumber: 8.8 Consensus size: 40
73129814 GAATGAAAAA
*
73129824 AACGTGGTGCTAAGTGGATATACCACAGTTATA-TG-TGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATATTGATGT
*
73129862 AACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTT----ATATTG----ATGT
* * *
73129910 AACGTGGTACTAAGTGGATATGCCACGGTTACATATATTGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACGG-T---TATATTGA-T--GT
* **
73129957 AACGTGGTGCTAAGTGGATATAGCACGGTTA-A-ACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATATTGATGT
* * *
73129995 AACGTGGTGCTAAGTGGATATGCCACGATTACATATATTGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACG-GT---TATATTGA-T--GT
** * **
73130042 AATATGGTGCTAAGTGGATATACCATGGTTA-A-ACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATATTGATGT
* * *
73130080 AACGTGGTGCTAAGTGCATATGCCACGGTTACATATATTGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACGG-T---TATATTGA-T--GT
* **
73130127 AACGTGGTGCTAAGTGGATATTCCACGGTTA-A-ACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATATTGATGT
*
73130165 AACGTGGTGCTAAGTGGATATGCCACGGTTATA
1 AACGTGGTGCTAAGTGGATATACCACGGTTATA
73130198 CATGTTAATT
Statistics
Matches: 260, Mismatches: 40, Indels: 71
0.70 0.11 0.19
Matches are distributed among these distances:
38 109 0.42
39 3 0.01
40 3 0.01
41 3 0.01
42 10 0.04
43 10 0.04
44 3 0.01
45 3 0.01
46 3 0.01
47 77 0.30
48 34 0.13
49 1 0.00
52 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (40 bp):
AACGTGGTGCTAAGTGGATATACCACGGTTATATTGATGT
Found at i:73129984 original size:47 final size:46
Alignment explanation
Indices: 73129861--73130157 Score: 270
Period size: 47 Copynumber: 6.7 Consensus size: 46
73129851 GTTATATGTG
* * * *
73129861 TAACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACAT
1 TAACGTGGTGCTAAGTGGATAT-GCACGGTTACATATATTGATTCAT
*
73129908 GTAACGTGGTACTAAGTGGATATGCCACGGTTACATATATTGATTCAT
1 -TAACGTGGTGCTAAGTGGATATG-CACGGTTACATATATTGATTCAT
*
73129956 TAACGTGGTGCTAAGTGGATATAGCACGGTTA-A-ACA-TG------
1 TAACGTGGTGCTAAGTGGATAT-GCACGGTTACATATATTGATTCAT
*
73129994 TAACGTGGTGCTAAGTGGATATGCCACGATTACATATATTGATTCAT
1 TAACGTGGTGCTAAGTGGATATG-CACGGTTACATATATTGATTCAT
** * * *
73130041 TAATATGGTGCTAAGTGGATATACCATGGTTA-A-ACA-TG------
1 TAACGTGGTGCTAAGTGGATAT-GCACGGTTACATATATTGATTCAT
*
73130079 TAACGTGGTGCTAAGTGCATATGCCACGGTTACATATATTGATTCAT
1 TAACGTGGTGCTAAGTGGATATG-CACGGTTACATATATTGATTCAT
*
73130126 TAACGTGGTGCTAAGTGGATATTCCACGGTTA
1 TAACGTGGTGCTAAGTGGATA-TGCACGGTTA
73130158 AACATGTAAC
Statistics
Matches: 202, Mismatches: 23, Indels: 49
0.74 0.08 0.18
Matches are distributed among these distances:
37 1 0.00
38 55 0.27
39 2 0.01
40 4 0.02
41 4 0.02
44 4 0.02
45 4 0.02
46 2 0.01
47 83 0.41
48 43 0.21
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (46 bp):
TAACGTGGTGCTAAGTGGATATGCACGGTTACATATATTGATTCAT
Found at i:73130008 original size:85 final size:85
Alignment explanation
Indices: 73129904--73130195 Score: 512
Period size: 85 Copynumber: 3.4 Consensus size: 85
73129894 ACATATTGAT
*
73129904 ACATGTAACGTGGTACTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
*
73129969 AGTGGATATAGCACGGTTAA
66 AGTGGATATACCACGGTTAA
* **
73129989 ACATGTAACGTGGTGCTAAGTGGATATGCCACGATTACATATATTGATTCATTAATATGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
*
73130054 AGTGGATATACCATGGTTAA
66 AGTGGATATACCACGGTTAA
*
73130074 ACATGTAACGTGGTGCTAAGTGCATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
*
73130139 AGTGGATATTCCACGGTTAA
66 AGTGGATATACCACGGTTAA
73130159 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
73130196 TACATGTTAA
Statistics
Matches: 194, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
85 194 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (85 bp):
ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
AGTGGATATACCACGGTTAA
Found at i:73133604 original size:80 final size:80
Alignment explanation
Indices: 73133520--73133668 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
73133510 TATGGTAACC
* * * *
73133520 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
73133584 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
73133600 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
73133665 CCGG
66 CCGG
73133669 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:73133610 original size:40 final size:38
Alignment explanation
Indices: 73133561--73133668 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
73133551 ATCACGATTT
*
73133561 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
73133601 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
73133641 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
73133669 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:73139497 original size:27 final size:26
Alignment explanation
Indices: 73139453--73139504 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
73139443 CTCGCTGCAA
*
73139453 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
73139480 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
73139505 GCAGCCTCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:73139593 original size:27 final size:26
Alignment explanation
Indices: 73139555--73139614 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
73139545 ATATATATAT
* *
73139555 ATATATGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
73139581 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
73139608 ATATCTG
1 ATATCTG
73139615 GCAGCCTCTG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:73146660 original size:27 final size:26
Alignment explanation
Indices: 73146616--73146667 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
73146606 CCTCCTGCAA
*
73146616 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
73146643 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
73146668 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:73146707 original size:2 final size:2
Alignment explanation
Indices: 73146700--73146731 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
73146690 GCTTCACCAC
73146700 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
73146732 CTGTTTTGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:73154497 original size:14 final size:15
Alignment explanation
Indices: 73154473--73154502 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
73154463 AAATATAAAA
73154473 ACAAGAATTAAGAAC
1 ACAAGAATTAAGAAC
73154488 ACAA-AATTAAGAAC
1 ACAAGAATTAAGAAC
73154502 A
1 A
73154503 AGTCAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.63, C:0.13, G:0.10, T:0.13
Consensus pattern (15 bp):
ACAAGAATTAAGAAC
Found at i:73162194 original size:40 final size:40
Alignment explanation
Indices: 73162142--73162251 Score: 118
Period size: 40 Copynumber: 2.7 Consensus size: 40
73162132 ACAATAACTC
* * *
73162142 GCACGAATGCCTTCAGGACTCAACCCGGATTTAGT-AGCTT-
1 GCACGAAAGCCTTC-GGACTTAGCCCGGATTTAGTCA-CTTA
* *
73162182 GCTCGAAAGCCTTCGGATCTTAGTCCGGATTTAGTCACTTA
1 GCACGAAAGCCTTCGGA-CTTAGCCCGGATTTAGTCACTTA
73162223 GCAC-AAAGCCTTCGGGACTTAGCCCGGAT
1 GCACGAAAGCCTTC-GGACTTAGCCCGGAT
73162252 ATCATTCGAA
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
39 3 0.05
40 49 0.83
41 7 0.12
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
GCACGAAAGCCTTCGGACTTAGCCCGGATTTAGTCACTTA
Found at i:73164763 original size:27 final size:27
Alignment explanation
Indices: 73164744--73165008 Score: 377
Period size: 27 Copynumber: 9.8 Consensus size: 27
73164734 ATTACCAAAG
* *
73164744 TACCCTCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
73164771 TACCCTCAATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
73164798 TACCCCCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
73164825 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
73164852 TACCCTCGATTTATAAAATTATCATTT
1 TACCCTCGATTTACAGAATTACCATTT
73164879 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
73164906 TACCCTTGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
73164933 TACCCTCGACTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
73164960 TACCCTCAATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
73164987 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
73165009 TGAAATACCC
Statistics
Matches: 216, Mismatches: 22, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 216 1.00
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.38
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:73165017 original size:27 final size:27
Alignment explanation
Indices: 73164699--73165207 Score: 144
Period size: 27 Copynumber: 18.9 Consensus size: 27
73164689 AATACTTTAG
* * *
73164699 TTTACCAAATTACTGAAATGCCCTCGA
1 TTTACAAAATTACCGAAATACCCTCGA
* **
73164726 ATTGTAAAATTACC-AAAGTACCCTCGA
1 TTTACAAAATTACCGAAA-TACCCTCGA
* * *** *
73164753 TTTACAGAATTATCGTTTTACCCTCAA
1 TTTACAAAATTACCGAAATACCCTCGA
* *** *
73164780 TTTACAGAATTACCGTTTTACCCCCGA
1 TTTACAAAATTACCGAAATACCCTCGA
* **
73164807 TTTACAGAATTACC-ATTTTACCCTCGA
1 TTTACAAAATTACCGA-AATACCCTCGA
* * **
73164834 TTTATAGAATTACC-ATTTTACCCTCGA
1 TTTACAAAATTACCGA-AATACCCTCGA
* * **
73164861 TTTATAAAATTATC-ATTTTACCCTCGA
1 TTTACAAAATTACCGA-AATACCCTCGA
* ** *
73164888 TTTACAGAATTACC-ATTTTACCCTTGA
1 TTTACAAAATTACCGA-AATACCCTCGA
* * **
73164915 TTTATAGAATTACC-ATTTTACCCTCGA
1 TTTACAAAATTACCGA-AATACCCTCGA
* * * *** *
73164942 CTTATAGAATTACCGTTTTACCCTCAA
1 TTTACAAAATTACCGAAATACCCTCGA
* ***
73164969 TTTACAGAATTACCGTTTTACCCTCGA
1 TTTACAAAATTACCGAAATACCCTCGA
* * *
73164996 TTTACAAAATTACTGAAATACCCTTGG
1 TTTACAAAATTACCGAAATACCCTCGA
* *
73165023 TTTACAAAATTACCAAAATACCTTCGA
1 TTTACAAAATTACCGAAATACCCTCGA
* * * *
73165050 -TCAGTAAAATTACCTAAATACCC-CTA
1 TTTA-CAAAATTACCGAAATACCCTCGA
** ** *
73165076 CTTTGTAAAATTACTAAAATACCC-CTGG
1 -TTTACAAAATTACCGAAATACCCTC-GA
** * * *
73165104 TTTGTAAAATTACCAAAATACCCCTGGC
1 TTTACAAAATTACCGAAATA-CCCTCGA
*
73165132 TTGT--AAAATTACCAAAATACCC-CTGA
1 TT-TACAAAATTACCGAAATACCCTC-GA
*** * *
73165158 TTTGTGAAATTATCGAAATACTCTCGA
1 TTTACAAAATTACCGAAATACCCTCGA
** *
73165185 TTTGTAAAA-TATCGAAATACCCT
1 TTTACAAAATTACCGAAATACCCT
73165208 TACACCAAGA
Statistics
Matches: 398, Mismatches: 69, Indels: 31
0.80 0.14 0.06
Matches are distributed among these distances:
25 1 0.00
26 26 0.07
27 362 0.91
28 8 0.02
29 1 0.00
ACGTcount: A:0.34, C:0.23, G:0.09, T:0.35
Consensus pattern (27 bp):
TTTACAAAATTACCGAAATACCCTCGA
Found at i:73165162 original size:54 final size:54
Alignment explanation
Indices: 73165001--73165178 Score: 189
Period size: 54 Copynumber: 3.3 Consensus size: 54
73164991 CTCGATTTAC
* * * ** * **
73165001 AAAATTACTGAAATACCCTTGGTTTACAAAATTACCAAAATA-CCTTCGATCAGT
1 AAAATTACCGAAATACCCCTGGCTTGTAAAATTACCAAAATACCCCT-GATTTGT
* * * *
73165055 AAAATTACCTAAATACCCCT-ACTTTGTAAAATTACTAAAATACCCCTGGTTTGT
1 AAAATTACCGAAATACCCCTGGC-TTGTAAAATTACCAAAATACCCCTGATTTGT
*
73165109 AAAATTACCAAAATACCCCTGGCTTGTAAAATTACCAAAATACCCCTGATTTGT
1 AAAATTACCGAAATACCCCTGGCTTGTAAAATTACCAAAATACCCCTGATTTGT
* *
73165163 GAAATTATCGAAATAC
1 AAAATTACCGAAATAC
73165179 TCTCGATTTG
Statistics
Matches: 102, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
54 98 0.96
55 4 0.04
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (54 bp):
AAAATTACCGAAATACCCCTGGCTTGTAAAATTACCAAAATACCCCTGATTTGT
Found at i:73165177 original size:81 final size:81
Alignment explanation
Indices: 73165001--73165178 Score: 218
Period size: 81 Copynumber: 2.2 Consensus size: 81
73164991 CTCGATTTAC
* * *
73165001 AAAATTACTGAAATACCCTTGGTTTACAAAATTACCAAAATACCTTCGATCAGTAAAATTACCTA
1 AAAATTACTGAAATACCCCTGGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
73165066 AATACCCCTACTTTGT
66 AATACCCCTACTTTGT
* ** * * *
73165082 AAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGCT-TGTAAAATTACCA
1 AAAATTACTGAAATACCCCTGGTTTACAAAATTACCAAAATA-CCCTCGATCAGTAAAATTACCA
73165146 AAATACCCCTGA-TTTGT
65 AAATACCCCT-ACTTTGT
*
73165163 GAAATTA-TCGAAATAC
1 AAAATTACT-GAAATAC
73165179 TCTCGATTTG
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
80 1 0.01
81 76 0.92
82 6 0.07
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (81 bp):
AAAATTACTGAAATACCCCTGGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
AATACCCCTACTTTGT
Found at i:73173960 original size:40 final size:40
Alignment explanation
Indices: 73173914--73174080 Score: 271
Period size: 40 Copynumber: 4.2 Consensus size: 40
73173904 GGGATTTAGA
* * * * *
73173914 CGGATATAACCACACGCTCAATTACCTTCGGGTCTTAGCC
1 CGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCC
73173954 CGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCC
1 CGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCC
*
73173994 CGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAACC
1 CGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCC
*
73174034 CGGATATAACAACTCGCACAAATGCCTTCGGGGCTTAGCC
1 CGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCC
73174074 CGGATAT
1 CGGATAT
73174081 CATTCAAATG
Statistics
Matches: 119, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 119 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.23
Consensus pattern (40 bp):
CGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCC
Found at i:73194324 original size:7 final size:8
Alignment explanation
Indices: 73194293--73194321 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
73194283 TTGATAAAAT
73194293 ATTTTTAA
1 ATTTTTAA
73194301 ATTTTTAA
1 ATTTTTAA
73194309 ATTTTTAA
1 ATTTTTAA
73194317 ATTTT
1 ATTTT
73194322 AAAAGCAGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (8 bp):
ATTTTTAA
Found at i:73194977 original size:38 final size:38
Alignment explanation
Indices: 73194897--73194985 Score: 101
Period size: 38 Copynumber: 2.4 Consensus size: 38
73194887 AAAAATTATA
* * * *
73194897 TTTAATACAATAAAACATTTATTACATTTATTTGTGTT
1 TTTAATATAATAAAACATATATTACATTTATTAGTGTG
*
73194935 TTTAATATAATAAAACATATATTATATTTA-TAGTAGTG
1 TTTAATATAATAAAACATATATTACATTTATTAGT-GTG
*
73194973 TTTAAAAT-ATAAA
1 TTTAATATAATAAA
73194986 TACTTTTTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
37 8 0.18
38 36 0.82
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (38 bp):
TTTAATATAATAAAACATATATTACATTTATTAGTGTG
Found at i:73195337 original size:17 final size:17
Alignment explanation
Indices: 73195301--73195334 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
73195291 GATTGCATTT
73195301 ATTTATTTTTTCTTTTA
1 ATTTATTTTTTCTTTTA
*
73195318 ATTTCTTTTTT-TTTTA
1 ATTTATTTTTTCTTTTA
73195334 A
1 A
73195335 ATTAATATCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (17 bp):
ATTTATTTTTTCTTTTA
Found at i:73198286 original size:37 final size:37
Alignment explanation
Indices: 73198236--73198311 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
73198226 ATACAGTGTG
73198236 TACCAAAGAAAGGTGGGCTACTAGTGGTTGAAAATGA
1 TACCAAAGAAAGGTGGGCTACTAGTGGTTGAAAATGA
73198273 TACCAAAGAAAGGTGGGCTACTAGTGGTTGAAAATGA
1 TACCAAAGAAAGGTGGGCTACTAGTGGTTGAAAATGA
73198310 TA
1 TA
73198312 AGAATGAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.38, C:0.11, G:0.29, T:0.22
Consensus pattern (37 bp):
TACCAAAGAAAGGTGGGCTACTAGTGGTTGAAAATGA
Found at i:73198854 original size:145 final size:147
Alignment explanation
Indices: 73198591--73198889 Score: 478
Period size: 145 Copynumber: 2.0 Consensus size: 147
73198581 AATGCCCCGA
*
73198591 CAACCTCTATGAGATGTATGACGACTATTTTTACTGACATGCTAGAAGAAGGCTTGGATGTATTT
1 CAACCTTTATGAGATGTATGACGACTATTTTTACTGACATGCTAGAAGAAGGCTTGGATGTATTT
*
73198656 ATGGATGATTTCTCAGTATAAGGAGATTCATTTCAAGAATTTTGGAAAATCTT-AAAAAGTCTTG
66 ATGGATGATTTCTCAGTATAAGGAGATTCATTTCAAGAATTTAGGAAAATCTTAAAAAAGTCTTG
*
73198720 CAGAGATGCG-AGAAAC
131 CAGAGATGAGAAGAAAC
* * *
73198736 CAACCTTTATGAGATGTATGACGGCTATTTTTGCTGACATGTTAGAAGAAGGCTTGGATGTATTT
1 CAACCTTTATGAGATGTATGACGACTATTTTTACTGACATGCTAGAAGAAGGCTTGGATGTATTT
* * *
73198801 ATGGATGATTTCTCAGTAT-ATGAGGTTCATTTCAAGAATGTTAGGACAATCTTAAAAAAGTCTT
66 ATGGATGATTTCTCAGTATAAGGAGATTCATTTCAAGAAT-TTAGGAAAATCTTAAAAAAGTCTT
*
73198865 GTAGAGATGAGAAGAAAC
130 GCAGAGATGAGAAGAAAC
73198883 CAACCTT
1 CAACCTT
73198890 GTATTAAACT
Statistics
Matches: 141, Mismatches: 10, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
144 18 0.13
145 91 0.65
146 19 0.13
147 13 0.09
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.32
Consensus pattern (147 bp):
CAACCTTTATGAGATGTATGACGACTATTTTTACTGACATGCTAGAAGAAGGCTTGGATGTATTT
ATGGATGATTTCTCAGTATAAGGAGATTCATTTCAAGAATTTAGGAAAATCTTAAAAAAGTCTTG
CAGAGATGAGAAGAAAC
Found at i:73204713 original size:38 final size:38
Alignment explanation
Indices: 73204656--73204763 Score: 153
Period size: 38 Copynumber: 2.8 Consensus size: 38
73204646 AACGTAATGT
* *
73204656 TATTCGGGCTCTGTCCCTAGTAGGCTTTGTGCTGGTGA
1 TATTCCGGCTCTGTGCCTAGTAGGCTTTGTGCTGGTGA
* * *
73204694 TATTCCTGCTTTGTGCCTAGCAGGCTTTGTGCTGGTGA
1 TATTCCGGCTCTGTGCCTAGTAGGCTTTGTGCTGGTGA
* *
73204732 TATTCGGGCTCTGTGCCTAGTAGGCTTCGTGC
1 TATTCCGGCTCTGTGCCTAGTAGGCTTTGTGC
73204764 CAGTGTATTA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 60 1.00
ACGTcount: A:0.10, C:0.22, G:0.31, T:0.37
Consensus pattern (38 bp):
TATTCCGGCTCTGTGCCTAGTAGGCTTTGTGCTGGTGA
Found at i:73205249 original size:21 final size:21
Alignment explanation
Indices: 73205223--73205263 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
73205213 ATATGTGAGA
73205223 AATTTA-CTTAAGTTATGGATG
1 AATTTATC-TAAGTTATGGATG
*
73205244 AATTTATCTAGGTTATGGAT
1 AATTTATCTAAGTTATGGAT
73205264 AAATACCCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.32, C:0.05, G:0.20, T:0.44
Consensus pattern (21 bp):
AATTTATCTAAGTTATGGATG
Found at i:73208516 original size:2 final size:2
Alignment explanation
Indices: 73208509--73208546 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
73208499 GGTTATATGA
73208509 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
73208547 GAAACAATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:73212345 original size:20 final size:20
Alignment explanation
Indices: 73212322--73212360 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
73212312 TTTTTTGTCC
*
73212322 ATTTTTTATATTTATATTTA
1 ATTTTTAATATTTATATTTA
*
73212342 ATTTTTAATTTTTATATTT
1 ATTTTTAATATTTATATTT
73212361 TAGCTTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (20 bp):
ATTTTTAATATTTATATTTA
Found at i:73217999 original size:21 final size:21
Alignment explanation
Indices: 73217960--73217999 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
73217950 AGACTAAACT
* *
73217960 AAAAACTTTGGAAAGTTTTAG
1 AAAAACTTAGAAAAGTTTTAG
*
73217981 AAAAACTTAGAAAATTTTT
1 AAAAACTTAGAAAAGTTTT
73218000 CCATGAAACA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.35
Consensus pattern (21 bp):
AAAAACTTAGAAAAGTTTTAG
Found at i:73219921 original size:25 final size:25
Alignment explanation
Indices: 73219893--73219941 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
73219883 CTAGAGGACC
*
73219893 AATCACATAACTCATGATAATGATT
1 AATCACATAACTCATCATAATGATT
* * *
73219918 AATCACGTAATTCTTCATAATGAT
1 AATCACATAACTCATCATAATGAT
73219942 AATAATAAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.41, C:0.16, G:0.08, T:0.35
Consensus pattern (25 bp):
AATCACATAACTCATCATAATGATT
Found at i:73231066 original size:19 final size:19
Alignment explanation
Indices: 73231022--73231068 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
73231012 AATTTTCATG
* *
73231022 AAATTGTGATTTAAGGATT
1 AAATTGTAATTTAAGGACT
73231041 AAATTGTAATTTAAGGACT
1 AAATTGTAATTTAAGGACT
*
73231060 AATTTGTAA
1 AAATTGTAA
73231069 ATATGTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.40, C:0.02, G:0.17, T:0.40
Consensus pattern (19 bp):
AAATTGTAATTTAAGGACT
Found at i:73244260 original size:40 final size:40
Alignment explanation
Indices: 73244216--73244348 Score: 207
Period size: 40 Copynumber: 3.4 Consensus size: 40
73244206 ATTCGGATGA
*
73244216 CTAAGTCCCGAAGGCATTTGTGCGAGTTACTATCTCCGGG
1 CTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGG
*
73244256 CTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGG
1 CTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGG
*
73244296 CTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC-GG
1 CTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGG
*
73244335 CTAAATCCCGAAGG
1 CTAAGTCCCGAAGG
73244349 TACTTGGTTT
Statistics
Matches: 87, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
39 17 0.20
40 70 0.80
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
CTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGG
Found at i:73247617 original size:40 final size:40
Alignment explanation
Indices: 73247566--73247651 Score: 172
Period size: 40 Copynumber: 2.1 Consensus size: 40
73247556 TCATTCTTTT
73247566 ATTCATAAACATATCACACAAAACAATAATTACCAAATTC
1 ATTCATAAACATATCACACAAAACAATAATTACCAAATTC
73247606 ATTCATAAACATATCACACAAAACAATAATTACCAAATTC
1 ATTCATAAACATATCACACAAAACAATAATTACCAAATTC
73247646 ATTCAT
1 ATTCAT
73247652 TCTTTGTATA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.51, C:0.22, G:0.00, T:0.27
Consensus pattern (40 bp):
ATTCATAAACATATCACACAAAACAATAATTACCAAATTC
Found at i:73250244 original size:37 final size:37
Alignment explanation
Indices: 73250185--73250256 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
73250175 AGCTCAGATG
* *
73250185 AAATCTCCACATGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGGACA
*
73250222 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGGA
73250257 ATATATTTCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGAAGTCATCGGGTCTTACCCGGACA
Found at i:73250518 original size:98 final size:97
Alignment explanation
Indices: 73250402--73250591 Score: 303
Period size: 98 Copynumber: 1.9 Consensus size: 97
73250392 GCACATCGCC
* *
73250402 TACATATTTCACACTAGCCATTCGGCTTTACCATATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC--ATACATATTTCACATT
73250467 -GACCATTCGGCTTTACCAC-ATATGCATATCTCA
64 AG-CCATTCGGCTTTACCACGATATGCATATCTCA
*
73250500 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
73250565 CCATTCGGCTTTACCACGTATATGCAT
66 CCATTCGGCTTTACCACG-ATATGCAT
73250592 GTTCATATTC
Statistics
Matches: 86, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
96 32 0.37
97 1 0.01
98 53 0.62
ACGTcount: A:0.30, C:0.26, G:0.08, T:0.36
Consensus pattern (97 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
CCATTCGGCTTTACCACGATATGCATATCTCA
Found at i:73250526 original size:48 final size:48
Alignment explanation
Indices: 73250402--73250586 Score: 291
Period size: 48 Copynumber: 3.8 Consensus size: 48
73250392 GCACATCGCC
* *
73250402 TACATATTTCACACTAGCCATTCGGCTTTACCATATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
73250452 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
73250500 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
73250548 TACATATTTCACATTAGCCATTCGGCTTTACCACGTATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
73250587 TGCATGTTCA
Statistics
Matches: 126, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
48 83 0.66
49 2 0.02
50 41 0.33
ACGTcount: A:0.30, C:0.26, G:0.08, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:73250635 original size:47 final size:47
Alignment explanation
Indices: 73250556--73250749 Score: 280
Period size: 47 Copynumber: 4.1 Consensus size: 47
73250546 CATACATATT
* * * * *
73250556 TCACATTAGCCATTCGGCTTTACCACGTATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
73250603 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
73250650 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
73250697 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
73250744 TCACAT
1 TCACAT
73250750 AAAATCCTAA
Statistics
Matches: 132, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 132 1.00
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:73250667 original size:94 final size:94
Alignment explanation
Indices: 73250509--73250749 Score: 281
Period size: 94 Copynumber: 2.6 Consensus size: 94
73250499 ATACATATTT
* * * *
73250509 CACATTAGCCATTCGGCTTTA-C-CACATATACATATCTCATACATAT-TTCACATTAGCCATTC
1 CACATTGGCCATTCGGCCTTATCACACATATACACA-CTC--ACAT-TCATCACATTAGCCATTC
* * *
73250571 GGCTTTACCACGTATATGCATGTTCATATTCAC
62 GGCCTTACCACATATATGCATGTTCACATTCAC
* ** *
73250604 CACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCC
1 CACATTGGCCATTCGGCCTTATCACACATATACACACTCACATTCATCACATTAGCCATTCGGCC
* *
73250669 TTATCACATATATGCATGTTCACATTCAT
66 TTACCACATATATGCATGTTCACATTCAC
* * *
73250698 CACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCACAT
1 CACATTGGCCATTCGGCCTTATCACACATATACACACTCACATTCATCACAT
73250750 AAAATCCTAA
Statistics
Matches: 126, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
93 1 0.01
94 92 0.73
95 19 0.15
96 4 0.03
97 10 0.08
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.33
Consensus pattern (94 bp):
CACATTGGCCATTCGGCCTTATCACACATATACACACTCACATTCATCACATTAGCCATTCGGCC
TTACCACATATATGCATGTTCACATTCAC
Found at i:73250676 original size:22 final size:22
Alignment explanation
Indices: 73250649--73250720 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
73250639 GCTCACATTC
73250649 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
73250671 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
73250695 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
73250718 ATC
1 ATC
73250721 TCATATATAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Done.