Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 355 of 433
Found at i:111760640 original size:15 final size:17
Alignment explanation
Indices: 111760615--111760652 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
111760605 TGGTTAATAT
*
111760615 TTTTATATTTTTA-TTG
1 TTTTATATTTTGATTTG
111760631 TTTT-TATTTTGATTTG
1 TTTTATATTTTGATTTG
111760647 TTTTAT
1 TTTTAT
111760653 TAGGCATTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 7 0.37
16 11 0.58
17 1 0.05
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (17 bp):
TTTTATATTTTGATTTG
Found at i:111761581 original size:17 final size:17
Alignment explanation
Indices: 111761559--111761591 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
111761549 TAGTTAATAG
111761559 AATTGCAGCAAACAGCA
1 AATTGCAGCAAACAGCA
111761576 AATTGCAGCAAACAGC
1 AATTGCAGCAAACAGC
111761592 TATTCGCATT
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:0.45, C:0.24, G:0.18, T:0.12
Consensus pattern (17 bp):
AATTGCAGCAAACAGCA
Found at i:111763520 original size:26 final size:26
Alignment explanation
Indices: 111763483--111763618 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
111763473 TGATACAAAT
* *
111763483 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
111763509 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
111763535 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
111763561 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
111763587 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
111763613 TGATAA
1 TGATAA
111763619 GAATATCATG
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:111765688 original size:136 final size:137
Alignment explanation
Indices: 111765405--111765676 Score: 474
Period size: 136 Copynumber: 2.0 Consensus size: 137
111765395 GTAGTCTCCC
111765405 CAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCAATACTG
1 CAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCAATACTG
* * * *
111765470 TTATCTGAATAAGGGGCTAAGGCCCGGTTTATTGTAATCTAAAAAGGGCTTTGGCCCAGTATCAC
66 TTATCTGAATAAGGGGATAAGGCCCAGTTTATTGTAATCTAAAAAGGGCTCTGGCCCAGTACCAC
111765535 TGTTACG
131 TGTTACG
* *
111765542 CAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTG
1 CAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCAATACTG
*
111765606 TTATCTGAATAAGGGGATAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCAC
66 TTATCTGAATAAGGGGATAAGGCCCAGTTTATTGTAATCTAAAAAGGGCTCTGGCCCAGTACCAC
111765671 TGTTAC
131 TGTTAC
111765677 CTGAATGGGC
Statistics
Matches: 128, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
136 110 0.86
137 18 0.14
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (137 bp):
CAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCAATACTG
TTATCTGAATAAGGGGATAAGGCCCAGTTTATTGTAATCTAAAAAGGGCTCTGGCCCAGTACCAC
TGTTACG
Found at i:111772338 original size:20 final size:20
Alignment explanation
Indices: 111772290--111772331 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
111772280 TTACAATATT
*
111772290 TTAATTATTT-GTTAATAAA
1 TTAATTATTTACTTAATAAA
*
111772309 TTAATTATTTACTTAATATA
1 TTAATTATTTACTTAATAAA
111772329 TTA
1 TTA
111772332 TTAATTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (20 bp):
TTAATTATTTACTTAATAAA
Found at i:111774444 original size:14 final size:13
Alignment explanation
Indices: 111774347--111774454 Score: 64
Period size: 12 Copynumber: 8.2 Consensus size: 13
111774337 TTTTATCTTT
*
111774347 TTATTTTAATTTA
1 TTATTTTAATATA
* *
111774360 ATATTATAATATA
1 TTATTTTAATATA
*
111774373 CT-TTTTAATATAGA
1 TTATTTTAATAT--A
111774387 TATAATTTT-ATATA
1 T-T-ATTTTAATATA
* *
111774401 TTATTTTAAATTTT
1 TTATTTT-AATATA
*
111774415 TTATTTATAAAATA
1 TTATTT-TAATATA
111774429 TTA--TTAATATA
1 TTATTTTAATATA
111774440 TTATTTTAA-ATA
1 TTATTTTAATATA
111774452 TTA
1 TTA
111774455 GTTACATTAA
Statistics
Matches: 73, Mismatches: 12, Indels: 21
0.69 0.11 0.20
Matches are distributed among these distances:
11 9 0.12
12 20 0.27
13 16 0.22
14 18 0.25
15 2 0.03
16 4 0.05
17 4 0.05
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (13 bp):
TTATTTTAATATA
Found at i:111777394 original size:11 final size:11
Alignment explanation
Indices: 111777360--111777415 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
111777350 TAGTTTTATG
*
111777360 TTATAATAT-T
1 TTATTATATAT
* *
111777370 TTATTATGTTT
1 TTATTATATAT
111777381 TTATTATATAT
1 TTATTATATAT
111777392 TTATT-TA-A-
1 TTATTATATAT
111777400 TTATTATATAT
1 TTATTATATAT
111777411 TTATT
1 TTATT
111777416 TAATTATTTC
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
8 5 0.13
9 3 0.08
10 10 0.26
11 20 0.53
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (11 bp):
TTATTATATAT
Found at i:111777403 original size:19 final size:19
Alignment explanation
Indices: 111777381--111777423 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
111777371 TATTATGTTT
111777381 TTATTATATATTTATTTAA
1 TTATTATATATTTATTTAA
111777400 TTATTATATATTTATTTAA
1 TTATTATATATTTATTTAA
111777419 TTATT
1 TTATT
111777424 TCTGATCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TTATTATATATTTATTTAA
Found at i:111778552 original size:17 final size:19
Alignment explanation
Indices: 111778455--111778545 Score: 143
Period size: 19 Copynumber: 4.9 Consensus size: 19
111778445 ATAATCTTCA
111778455 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
111778474 ATGATATGCAATTTTAGAT
1 ATGATATGCAATCTTAGAT
111778493 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
111778510 ATGAT-TACAATCTTAGAT
1 ATGATATGCAATCTTAGAT
111778528 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
111778546 AGATATGATT
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
17 15 0.23
18 16 0.24
19 35 0.53
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:111778571 original size:22 final size:22
Alignment explanation
Indices: 111778455--111778568 Score: 78
Period size: 19 Copynumber: 5.8 Consensus size: 22
111778445 ATAATCTTCA
111778455 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
*
111778474 ATGATATGCAAT-TT--TAGAT
1 ATGATATGCAATCTTAGAAGAT
111778493 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
*
111778510 ATGAT-TACAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
111778528 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
111778550 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
111778569 GATTTAATTT
Statistics
Matches: 83, Mismatches: 3, Indels: 14
0.83 0.03 0.14
Matches are distributed among these distances:
17 13 0.16
18 20 0.24
19 30 0.36
22 8 0.10
23 12 0.14
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.39
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:111778858 original size:18 final size:17
Alignment explanation
Indices: 111778835--111778868 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
111778825 TTTCCCTGAT
*
111778835 TTTTTTTATATATTTTAA
1 TTTTTTAATA-ATTTTAA
111778853 TTTTTTAATAATTTTA
1 TTTTTTAATAATTTTA
111778869 GTATCATATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTTAATAATTTTAA
Found at i:111788913 original size:19 final size:20
Alignment explanation
Indices: 111788889--111788926 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
111788879 GGTACCACCA
111788889 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
111788908 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
111788927 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:111789270 original size:93 final size:93
Alignment explanation
Indices: 111789155--111789325 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
111789145 GCCCCTAAGT
* *
111789155 GAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAATGAACTTGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
*
111789219 ACGAGTTCGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGAATGCCTAGTTACATCTCAC
* * *
111789248 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
111789313 CGAGTTCGAATGC
66 CGAGTTCGAATGC
111789326 TCAACCATCC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGAATGCCTAGTTACATCTCAC
Found at i:111789315 original size:46 final size:46
Alignment explanation
Indices: 111789150--111789320 Score: 188
Period size: 46 Copynumber: 3.7 Consensus size: 46
111789140 AACCCGCCCC
* * *
111789150 TAAGTGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTTGCATCCA
* * * *
111789196 TAAATGAACTTGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
111789244 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
111789289 TAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCG
111789321 AATGCTCAAC
Statistics
Matches: 103, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 4 0.04
46 55 0.53
47 28 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:111793426 original size:132 final size:133
Alignment explanation
Indices: 111793272--111793555 Score: 346
Period size: 132 Copynumber: 2.1 Consensus size: 133
111793262 GCGTTTACAA
* * * ** * * * *
111793272 GGAGCAGATCAAAAACATAGCAGATTTGGCTTTCATGTGTTTAC-GCTGAAGCAGATCTAAGATG
1 GGAGCAGATCGAAGACATAGCAGATCTAACCTTCATGTGTTTACATC-AAAGCAGATCCAAGATG
111793336 -ATTTGGCATCTCTGTACTGTTAGA-GA-A-CAAATC-GAAGATAACAGATTTGGCATCTCTGTA
65 AATTTGGCATCTCTGTA---TTAGACGAGAGCAAATCAG-AGATAACAGATTTGGCATCTCTGTA
111793396 TTAGACGG
126 TTAGACGG
111793404 GGAGCAGATCGAAGACATAGCAGATCTAACCTTCATGTGTTTACATCAAAGCAGATCCAAGATGA
1 GGAGCAGATCGAAGACATAGCAGATCTAACCTTCATGTGTTTACATCAAAGCAGATCCAAGATG-
111793469 CATATTTGGCATCTCTGTATTAGACGAGGAGCAAATCAGAGATAACAGATTTGGCATCTCTGTAT
65 -A-ATTTGGCATCTCTGTATTAGACGA-GAGCAAATCAGAGATAACAGATTTGGCATCTCTGTAT
111793534 TAGACGG
127 TAGACGG
* *
111793541 AGAGCAGATTGAAGA
1 GGAGCAGATCGAAGA
111793556 AGTAGATTTG
Statistics
Matches: 131, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
132 53 0.40
133 6 0.05
134 2 0.02
136 17 0.13
137 52 0.40
138 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (133 bp):
GGAGCAGATCGAAGACATAGCAGATCTAACCTTCATGTGTTTACATCAAAGCAGATCCAAGATGA
ATTTGGCATCTCTGTATTAGACGAGAGCAAATCAGAGATAACAGATTTGGCATCTCTGTATTAGA
CGG
Found at i:111793536 original size:45 final size:44
Alignment explanation
Indices: 111793371--111793645 Score: 229
Period size: 44 Copynumber: 6.1 Consensus size: 44
111793361 AACAAATCGA
111793371 AGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAG
1 AGATAACAGATTTGGCATCTCTGTATTAGAC-GGGAGCAGATC--AG
* * * ** * * * **
111793418 ACATAGCAGATCTAACCT-TCATGTGTTTACATC-AAAGCAGATCCA-
1 AGATAACAGATTTGGCATCTC-TGT-ATTAGA-CGGGAGCAGAT-CAG
* * *
111793463 AGATGACATATTTGGCATCTCTGTATTAGACGAGGAGCAAATCAG
1 AGATAACAGATTTGGCATCTCTGTATTAGACG-GGAGCAGATCAG
*
111793508 AGATAACAGATTTGGCATCTCTGTATTAGACGGAGAGCAGAT-TG
1 AGATAACAGATTTGGCATCTCTGTATTAGACGG-GAGCAGATCAG
** *
111793552 AAGA-AGTAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATC-G
1 -AGATAACAGATTTGGCATCTCTGTATTAGAC-GGGAGCAGATCAG
* *
111793596 AGATAACAGATTTGGCGTCTCTGTATTAGACGGGTAGCAGATCAA
1 AGATAACAGATTTGGCATCTCTGTATTAGACGGG-AGCAGATCAG
111793641 AGATA
1 AGATA
111793646 GCGGACATCG
Statistics
Matches: 180, Mismatches: 33, Indels: 32
0.73 0.13 0.13
Matches are distributed among these distances:
43 7 0.04
44 74 0.41
45 66 0.37
46 5 0.03
47 22 0.12
48 5 0.03
49 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (44 bp):
AGATAACAGATTTGGCATCTCTGTATTAGACGGGAGCAGATCAG
Found at i:111793623 original size:88 final size:89
Alignment explanation
Indices: 111793472--111793637 Score: 273
Period size: 88 Copynumber: 1.9 Consensus size: 89
111793462 AAGATGACAT
111793472 ATTTGGCATCTCTGTATTAGACGAGGAGCAAATCAGAGATAACAGATTTGGCATCTCTGTATTAG
1 ATTTGGCATCTCTGTATTAGACGAGGAGCAAATCAGAGATAACAGATTTGGCATCTCTGTATTAG
111793537 ACGGAG-AGCAGATTGAAGAAGTAG
66 ACGG-GTAGCAGATTGAAGAAGTAG
* * * *
111793561 ATTTGGCGTCTCTGTATTAGACGGGGAGCAGATC-GAGATAACAGATTTGGCGTCTCTGTATTAG
1 ATTTGGCATCTCTGTATTAGACGAGGAGCAAATCAGAGATAACAGATTTGGCATCTCTGTATTAG
111793625 ACGGGTAGCAGAT
66 ACGGGTAGCAGAT
111793638 CAAAGATAGC
Statistics
Matches: 72, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
87 1 0.01
88 40 0.56
89 31 0.43
ACGTcount: A:0.30, C:0.14, G:0.29, T:0.27
Consensus pattern (89 bp):
ATTTGGCATCTCTGTATTAGACGAGGAGCAAATCAGAGATAACAGATTTGGCATCTCTGTATTAG
ACGGGTAGCAGATTGAAGAAGTAG
Found at i:111794050 original size:36 final size:37
Alignment explanation
Indices: 111794009--111794109 Score: 170
Period size: 36 Copynumber: 2.8 Consensus size: 37
111793999 CAATGATATG
*
111794009 CAATCTTAGATATGATATGCAATTTTAGATATGA-TA
1 CAATCTTAGATATGATATGCAATCTTAGATATGATTA
*
111794045 CAATCTTAGATATGAT-TGCAATCTTAGATATGATTG
1 CAATCTTAGATATGATATGCAATCTTAGATATGATTA
111794081 CAATCTTAGATATGATATGCAATCTTAGA
1 CAATCTTAGATATGATATGCAATCTTAGA
111794110 AGATATGATT
Statistics
Matches: 61, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
35 16 0.26
36 33 0.54
37 12 0.20
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.38
Consensus pattern (37 bp):
CAATCTTAGATATGATATGCAATCTTAGATATGATTA
Found at i:111794068 original size:18 final size:19
Alignment explanation
Indices: 111794001--111794109 Score: 181
Period size: 19 Copynumber: 5.9 Consensus size: 19
111793991 ATAATCTTCA
111794001 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
111794020 ATGATATGCAATTTTAGAT
1 ATGATATGCAATCTTAGAT
111794039 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
111794056 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
111794074 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
111794092 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
111794110 AGATATGATT
Statistics
Matches: 85, Mismatches: 2, Indels: 6
0.91 0.02 0.06
Matches are distributed among these distances:
17 15 0.18
18 34 0.40
19 36 0.42
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:111794135 original size:22 final size:22
Alignment explanation
Indices: 111794001--111794132 Score: 95
Period size: 18 Copynumber: 6.8 Consensus size: 22
111793991 ATAATCTTCA
111794001 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
*
111794020 ATGATATGCAAT-TT--TAGAT
1 ATGATATGCAATCTTAGAAGAT
111794039 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
111794056 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
111794074 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
111794092 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
111794114 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
111794133 GATTTAATTT
Statistics
Matches: 102, Mismatches: 2, Indels: 14
0.86 0.02 0.12
Matches are distributed among these distances:
17 13 0.13
18 38 0.37
19 31 0.30
22 8 0.08
23 12 0.12
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.39
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:111795653 original size:11 final size:12
Alignment explanation
Indices: 111795626--111795682 Score: 59
Period size: 11 Copynumber: 5.0 Consensus size: 12
111795616 TTTAAATAAA
111795626 AATATATTAT-T
1 AATATATTATAT
111795637 AA-ATATT-TAT
1 AATATATTATAT
111795647 AATATATATATAT
1 AATATAT-TATAT
111795660 AATA-ATTATAT
1 AATATATTATAT
* *
111795671 TATATATAATAT
1 AATATATTATAT
111795683 GTATATATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
9 1 0.03
10 8 0.21
11 14 0.36
12 9 0.23
13 7 0.18
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (12 bp):
AATATATTATAT
Found at i:111795660 original size:13 final size:13
Alignment explanation
Indices: 111795626--111795693 Score: 54
Period size: 13 Copynumber: 5.2 Consensus size: 13
111795616 TTTAAATAAA
111795626 AATATAT-TAT-T
1 AATATATATATAT
*
111795637 AA-ATATTTATA-
1 AATATATATATAT
111795648 ATATATATATATAAT
1 A-ATATATATAT-AT
111795663 AATTATATTATATAT
1 AA-TATA-TATATAT
*
111795678 AATATGTATATAT
1 AATATATATATAT
111795691 AAT
1 AAT
111795694 GGAAAAGAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
10 4 0.09
11 6 0.13
12 1 0.02
13 17 0.36
14 5 0.11
15 9 0.19
16 5 0.11
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (13 bp):
AATATATATATAT
Found at i:111795668 original size:22 final size:22
Alignment explanation
Indices: 111795626--111795678 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
111795616 TTTAAATAAA
*
111795626 AATATAT-TATTAAATATTTAT
1 AATATATATATTAAATAATTAT
111795647 AATATATATA-TATAATAATTAT
1 AATATATATATTA-AATAATTAT
*
111795669 ATTATATATA
1 AATATATATA
111795679 ATATGTATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 9 0.32
22 19 0.68
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
AATATATATATTAAATAATTAT
Found at i:111795676 original size:18 final size:16
Alignment explanation
Indices: 111795645--111795693 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
111795635 TTAAATATTT
111795645 ATAATATATATATATA
1 ATAATATATATATATA
111795661 ATAAT-TATAT-TATA
1 ATAATATATATATATA
*
111795675 TATAATATGTATATATA
1 -ATAATATATATATATA
111795692 AT
1 AT
111795694 GGAAAAGAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
14 4 0.14
15 10 0.34
16 11 0.38
17 4 0.14
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (16 bp):
ATAATATATATATATA
Found at i:111809864 original size:2 final size:2
Alignment explanation
Indices: 111809857--111809891 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
111809847 TGTGCTTGAT
111809857 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
111809892 CCGAATAGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:111812777 original size:37 final size:37
Alignment explanation
Indices: 111812730--111812801 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
111812720 TAAAACTTGG
*
111812730 TTAATTAATTTTGTATTACTGGTTCAAGTTGTAATAA
1 TTAATTAATTTTGTATTACTGGTTCAAATTGTAATAA
111812767 TTAATTAATTTTGTATTACTGGTTCAAATTGTAAT
1 TTAATTAATTTTGTATTACTGGTTCAAATTGTAAT
111812802 TAGTAAATTC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.32, C:0.06, G:0.12, T:0.50
Consensus pattern (37 bp):
TTAATTAATTTTGTATTACTGGTTCAAATTGTAATAA
Found at i:111813807 original size:17 final size:17
Alignment explanation
Indices: 111813785--111813817 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
111813775 TAGAGGGAGA
111813785 GGGTTTCAAATACTTTT
1 GGGTTTCAAATACTTTT
111813802 GGGTTTCAAATACTTT
1 GGGTTTCAAATACTTT
111813818 CTTTCTATAG
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:0.24, C:0.12, G:0.18, T:0.45
Consensus pattern (17 bp):
GGGTTTCAAATACTTTT
Found at i:111814485 original size:26 final size:26
Alignment explanation
Indices: 111814456--111814511 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
111814446 TGGTACAAAT
111814456 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
111814482 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
111814508 TGAT
1 TGAT
111814512 GGGCATTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.30, C:0.07, G:0.25, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:111815981 original size:28 final size:26
Alignment explanation
Indices: 111815950--111816013 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
111815940 AATTACTTGA
* **
111815950 ATACCCCTATGTATGGAAAATTACTGTT
1 ATACCCCTA-G-ATGCAAAATTACCATT
*
111815978 ATACCCCTAGGTGCAAAATTACCATT
1 ATACCCCTAGATGCAAAATTACCATT
111816004 ATACCCCTAG
1 ATACCCCTAG
111816014 GATTACTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 22 0.69
27 1 0.03
28 9 0.28
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (26 bp):
ATACCCCTAGATGCAAAATTACCATT
Found at i:111816160 original size:27 final size:26
Alignment explanation
Indices: 111816118--111816258 Score: 174
Period size: 27 Copynumber: 5.2 Consensus size: 26
111816108 AGGAAGCGTC
*
111816118 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
* *
111816145 CTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
111816172 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
* *
111816199 CTAGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
111816226 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACATTATCTG-AT
111816253 CTGGTG
1 CTGGTG
111816259 ACTTCTGGTG
Statistics
Matches: 98, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
26 10 0.10
27 86 0.88
28 2 0.02
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:111816200 original size:54 final size:53
Alignment explanation
Indices: 111816118--111816258 Score: 219
Period size: 54 Copynumber: 2.6 Consensus size: 53
111816108 AGGAAGCGTC
111816118 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTACCACATATATCTGTT
* *
111816172 CTGGTGGCTATGCCACGATTATCTGATCTAGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTACCACATATATCTGTT
* *
111816226 CTGGTGGCTCTGCCACAATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTG
111816259 ACTTCTGGTG
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 7 0.09
54 73 0.91
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTACCACATATATCTGTT
Found at i:111821510 original size:26 final size:26
Alignment explanation
Indices: 111821481--111821617 Score: 220
Period size: 26 Copynumber: 5.3 Consensus size: 26
111821471 TGGTACAAAT
*
111821481 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
111821507 TGATAATGGATTAGGTAAATATCCCA
1 TGATAATGGGTTAGGTAAATATTCCA
111821533 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
111821559 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
111821585 TGATAATGGATTAGGTAAATATCCCA
1 TGATAATGGGTTAGGTAAATATTCCA
111821611 TGATAAT
1 TGATAAT
111821618 CATTTCATGT
Statistics
Matches: 102, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 102 1.00
ACGTcount: A:0.35, C:0.09, G:0.23, T:0.34
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:111822601 original size:40 final size:40
Alignment explanation
Indices: 111822544--111822685 Score: 216
Period size: 40 Copynumber: 3.6 Consensus size: 40
111822534 TATTCGAATG
*
111822544 ATATCCGGGCTAGGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
111822584 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
111822624 ATATCCGGGCTAAGACCCAAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
111822664 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
111822686 TACTTGGGTT
Statistics
Matches: 94, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
39 13 0.14
40 79 0.84
41 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:111825647 original size:27 final size:26
Alignment explanation
Indices: 111825605--111825745 Score: 156
Period size: 27 Copynumber: 5.2 Consensus size: 26
111825595 AGGAAGCGTC
*
111825605 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
* * *
111825632 CTGGTGGCTCTACCACATATATTTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
111825659 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
* * *
111825686 CTAGTGGCTCTGCCACATATAACTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
111825713 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACATTATCTG-AT
111825740 CTGGTG
1 CTGGTG
111825746 ACTTCTGGTG
Statistics
Matches: 94, Mismatches: 16, Indels: 8
0.80 0.14 0.07
Matches are distributed among these distances:
26 9 0.10
27 83 0.88
28 2 0.02
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:111825687 original size:54 final size:53
Alignment explanation
Indices: 111825605--111825745 Score: 201
Period size: 54 Copynumber: 2.6 Consensus size: 53
111825595 AGGAAGCGTC
**
111825605 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATTTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTACCACATATAACTGTT
* *
111825659 CTGGTGGCTATGCCACGATTATCTGATCTAGTGGCTCTGCCACATATAACTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTACCACATATAACTGTT
* *
111825713 CTGGTGGCTCTGCCACAATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTG
111825746 ACTTCTGGTG
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
53 7 0.09
54 71 0.91
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTACCACATATAACTGTT
Found at i:111826998 original size:21 final size:20
Alignment explanation
Indices: 111826962--111827012 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
111826952 ACATGTATTA
*
111826962 GATATTAAATAGATATTTAT
1 GATATTAAAAAGATATTTAT
111826982 GATATTATAAAAGATATTTAT
1 GATATTA-AAAAGATATTTAT
*
111827003 TA-ATTAAAAA
1 GATATTAAAAA
111827013 ATTATATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 4 0.14
20 11 0.39
21 13 0.46
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (20 bp):
GATATTAAAAAGATATTTAT
Found at i:111827013 original size:20 final size:21
Alignment explanation
Indices: 111826962--111827013 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
111826952 ACATGTATTA
*
111826962 GATATT-AAATAGATATTTAT
1 GATATTAAAAAAGATATTTAT
*
111826982 GATATTATAAAAGATATTTAT
1 GATATTAAAAAAGATATTTAT
*
111827003 TA-ATTAAAAAA
1 GATATTAAAAAA
111827014 TTATATTATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 14 0.52
21 13 0.48
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (21 bp):
GATATTAAAAAAGATATTTAT
Found at i:111827768 original size:17 final size:18
Alignment explanation
Indices: 111827746--111827780 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
111827736 GATATGATAC
*
111827746 TAAAAT-TATTAAAAAAT
1 TAAAATATATAAAAAAAT
111827763 TAAAATATATAAAAAAAT
1 TAAAATATATAAAAAAAT
111827781 CAGGGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATATATAAAAAAAT
Found at i:111828086 original size:21 final size:21
Alignment explanation
Indices: 111828060--111828108 Score: 68
Period size: 18 Copynumber: 2.5 Consensus size: 21
111828050 AAGATTACAA
*
111828060 AATCATATCTTCTAAGATTGT
1 AATCATATCTTCTAAGATTGC
111828081 AATCATA---TCTAAGATTGC
1 AATCATATCTTCTAAGATTGC
111828099 AATCATATCT
1 AATCATATCT
111828109 AAGATTATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
18 17 0.71
21 7 0.29
ACGTcount: A:0.37, C:0.16, G:0.08, T:0.39
Consensus pattern (21 bp):
AATCATATCTTCTAAGATTGC
Found at i:111828093 original size:18 final size:18
Alignment explanation
Indices: 111828070--111828158 Score: 121
Period size: 18 Copynumber: 4.9 Consensus size: 18
111828060 AATCATATCT
*
111828070 TCTAAGATTGTAATCATA
1 TCTAAGATTGCAATCATA
111828088 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
111828106 TCTAAGATT--ATATCATA
1 TCTAAGATTGCA-ATCATA
111828123 TCTAA-ATTGCATATCATA
1 TCTAAGATTGCA-ATCATA
111828141 TCTAAGATTGCATATCAT
1 TCTAAGATTGCA-ATCAT
111828159 TGAAGATTAT
Statistics
Matches: 66, Mismatches: 1, Indels: 7
0.89 0.01 0.09
Matches are distributed among these distances:
16 4 0.06
17 11 0.17
18 39 0.59
19 12 0.18
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (18 bp):
TCTAAGATTGCAATCATA
Found at i:111828126 original size:35 final size:35
Alignment explanation
Indices: 111828063--111828158 Score: 126
Period size: 35 Copynumber: 2.7 Consensus size: 35
111828053 ATTACAAAAT
*
111828063 CATATC-T-TCTAAGATTGTAATCATATCTAAGATTG
1 CATATCATATCTAAGATTAT-ATCATATCTAA-ATTG
111828098 CA-ATCATATCTAAGATTATATCATATCTAAATTG
1 CATATCATATCTAAGATTATATCATATCTAAATTG
111828132 CATATCATATCTAAGATTGCATATCAT
1 CATATCATATCTAAGATT--ATATCAT
111828159 TGAAGATTAT
Statistics
Matches: 55, Mismatches: 1, Indels: 8
0.86 0.02 0.12
Matches are distributed among these distances:
34 9 0.16
35 29 0.53
36 10 0.18
37 7 0.13
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.39
Consensus pattern (35 bp):
CATATCATATCTAAGATTATATCATATCTAAATTG
Found at i:111828624 original size:44 final size:45
Alignment explanation
Indices: 111828502--111828775 Score: 263
Period size: 45 Copynumber: 6.1 Consensus size: 45
111828492 GGAAGGCAAT
* * * *
111828502 ATCTGCTATCTTTGATCTGC-CCTCGATCTAATATAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCG-TCTAATACAGAGACGCCAA
*
111828547 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACACCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* *
111828592 ATCTGCTT-T-TTCAATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTG-TTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * *
111828636 ATCTGTTATCTCCGATTTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * * * * * * *
111828681 ATCTGTCATCTTGGATCTGCT--TCGATGTAA-ACACATGAAGGTCAG
1 ATCTGTTATCTTCGATCTGCTCCCCG-TCTAATACAGA-G-ACGCCAA
* *
111828726 ATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTG-T-TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
111828773 ATC
1 ATC
111828776 ATCTTGGATT
Statistics
Matches: 187, Mismatches: 30, Indels: 22
0.78 0.13 0.09
Matches are distributed among these distances:
43 8 0.04
44 43 0.23
45 99 0.53
46 7 0.04
47 19 0.10
48 5 0.03
49 6 0.03
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.31
Consensus pattern (45 bp):
ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
Found at i:111828858 original size:76 final size:78
Alignment explanation
Indices: 111828715--111828885 Score: 280
Period size: 76 Copynumber: 2.2 Consensus size: 78
111828705 ATGTAAACAC
111828715 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGGTCCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
111828779 TTGGAT-TGCTTCA
66 TTGGATCTGC-TCA
* *
111828792 ATGAAGGTCCA-ATCTGTTATGTCTTTGATCTGCT-CCCGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGGTCCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
111828855 TTGGATCTGCTCA
66 TTGGATCTGCTCA
111828868 ATGAAGGT-CAGATCTGCT
1 ATGAAGGTCCAGATCTGCT
111828886 TCAATGAAGG
Statistics
Matches: 88, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
75 2 0.02
76 52 0.59
77 32 0.36
78 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (78 bp):
ATGAAGGTCCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
TTGGATCTGCTCA
Found at i:111828891 original size:21 final size:21
Alignment explanation
Indices: 111828858--111828906 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
111828848 AATCATCTTG
111828858 GATCTGC-TCAATGAAGGTCA
1 GATCTGCTTCAATGAAGGTCA
*
111828878 GATCTGCTTCAATGAAGGTTA
1 GATCTGCTTCAATGAAGGTCA
111828899 GATCTGCT
1 GATCTGCT
111828907 GTGTCTTCGA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
20 7 0.26
21 20 0.74
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (21 bp):
GATCTGCTTCAATGAAGGTCA
Found at i:111828960 original size:98 final size:98
Alignment explanation
Indices: 111828785--111828984 Score: 287
Period size: 98 Copynumber: 2.0 Consensus size: 98
111828775 CATCTTGGAT
* * * * *
111828785 TGCTTCAATGAAGGTCCAATCTGTTATGTCTTTGATCTGCTCCCGTCTAATACAGAGATGCCAAA
1 TGCTTCAATGAAGGTCCAATCTGCTATGTCTTCGATCTACTCCCGCCTAATACAAAGATGCCAAA
*
111828850 TCATCTTGGATCTGC-TCAATGAAGGTCAGATC
66 TCATCTTGGATCTACTTCAATGAAGGTCAGATC
* * *
111828882 TGCTTCAATGAAGGT-TAGATCTGCTGTGTCTTCGATCTATTCCCCGCCTAATACAAAGATGCCA
1 TGCTTCAATGAAGGTCCA-ATCTGCTATGTCTTCGATCTACT-CCCGCCTAATACAAAGATGCCA
111828946 AATCATCTTGGATCTACTTCAATGAAGGTCAGATC
64 AATCATCTTGGATCTACTTCAATGAAGGTCAGATC
111828981 TGCT
1 TGCT
111828985 ATGTCTTCGA
Statistics
Matches: 91, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
96 1 0.01
97 33 0.36
98 36 0.40
99 21 0.23
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (98 bp):
TGCTTCAATGAAGGTCCAATCTGCTATGTCTTCGATCTACTCCCGCCTAATACAAAGATGCCAAA
TCATCTTGGATCTACTTCAATGAAGGTCAGATC
Found at i:111828980 original size:78 final size:78
Alignment explanation
Indices: 111828878--111829027 Score: 210
Period size: 78 Copynumber: 1.9 Consensus size: 78
111828868 ATGAAGGTCA
* * * * *
111828878 GATCTGCTTCAATGAAGGTTAGATCTGCTGTGTCTTCGATCTATTCCCCGCCTAATACAAAGATG
1 GATCTACTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTACTCCCCGCCGAATACAAAGATG
111828943 CCAAATCATCTTG
66 CCAAATCATCTTG
* * * **
111828956 GATCTACTTCAATGAAGGTCAGATCTGCTATGTCTTCGATTTACTCTCCGTCGAATATGAAGATG
1 GATCTACTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTACTCCCCGCCGAATACAAAGATG
111829021 CCAAATC
66 CCAAATC
111829028 TGTTTCTTCG
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
78 62 1.00
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (78 bp):
GATCTACTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTACTCCCCGCCGAATACAAAGATG
CCAAATCATCTTG
Found at i:111831201 original size:34 final size:34
Alignment explanation
Indices: 111831163--111831233 Score: 124
Period size: 34 Copynumber: 2.1 Consensus size: 34
111831153 CGTGTAGAGG
111831163 TGAAGGTGGTACATGAATCTTATCTCTATAAATC
1 TGAAGGTGGTACATGAATCTTATCTCTATAAATC
* *
111831197 TGAAGGTGGTACATGAATCTTGTCTCTATAAGTC
1 TGAAGGTGGTACATGAATCTTATCTCTATAAATC
111831231 TGA
1 TGA
111831234 CATTTATGAC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (34 bp):
TGAAGGTGGTACATGAATCTTATCTCTATAAATC
Found at i:111840802 original size:17 final size:18
Alignment explanation
Indices: 111840780--111840814 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
111840770 GATATGATAC
*
111840780 TAAAAT-TATTAAAAAAT
1 TAAAATATATAAAAAAAT
111840797 TAAAATATATAAAAAAAT
1 TAAAATATATAAAAAAAT
111840815 CAGGGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATATATAAAAAAAT
Found at i:111841103 original size:22 final size:21
Alignment explanation
Indices: 111841068--111841143 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
111841058 AAAAGGTATC
* *
111841068 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
111841089 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
111841112 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
111841131 TGC-AATCATATCT
1 TACAAATCATATCT
111841144 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:111841202 original size:17 final size:19
Alignment explanation
Indices: 111841104--111841194 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
111841094 AATCATATCT
111841104 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
111841123 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
111841141 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
111841158 TCTAAAATTGCATATCATA
1 TCTAAGATTGCATATCATA
111841177 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
111841195 TGAAGATTAT
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
17 15 0.22
18 16 0.24
19 36 0.54
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:111841488 original size:20 final size:21
Alignment explanation
Indices: 111841456--111841496 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
111841446 GCAGGGGAAG
111841456 GAAAGAGAGAAAAAGAGAAAA
1 GAAAGAGAGAAAAAGAGAAAA
*
111841477 GAAAGA-AGAAAAAGGGAAAA
1 GAAAGAGAGAAAAAGAGAAAA
111841497 TTGAAGGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (21 bp):
GAAAGAGAGAAAAAGAGAAAA
Found at i:111844359 original size:22 final size:22
Alignment explanation
Indices: 111844332--111844409 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
111844322 TTAGTACTAC
111844332 ACACGTGACCTAACCATCTGAT
1 ACACGTGACCTAACCATCTGAT
* * *
111844354 ACACGTAGTAGCCTGCACTTAGTACT-AC
1 ACACGT-G-A-CCT-AAC-CA-T-CTGAT
111844382 ACACGTGACCTAACCATCTGAT
1 ACACGTGACCTAACCATCTGAT
111844404 ACACGT
1 ACACGT
111844410 AGTAGCCTGC
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 14 0.33
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 8 0.19
29 2 0.05
ACGTcount: A:0.31, C:0.31, G:0.15, T:0.23
Consensus pattern (22 bp):
ACACGTGACCTAACCATCTGAT
Found at i:111844368 original size:50 final size:50
Alignment explanation
Indices: 111844260--111844491 Score: 344
Period size: 50 Copynumber: 4.7 Consensus size: 50
111844250 CTGGTACGCA
* ** * *
111844260 TAGTAGCCTGCACTTAGTACTACACATGCT-ACC-AATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACG-TGACCTAACCATCTGATACACG
*
111844309 TAGTAGCCTGCTCTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
111844359 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
* * * *
111844409 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AACAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
111844458 TAGTAGCCTGCACTTAGTACTACACACGTGACCT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT
111844492 CACAATAGCT
Statistics
Matches: 167, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
48 1 0.01
49 74 0.44
50 92 0.55
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
Found at i:111844450 original size:99 final size:100
Alignment explanation
Indices: 111844260--111844491 Score: 344
Period size: 99 Copynumber: 2.3 Consensus size: 100
111844250 CTGGTACGCA
* ** * *
111844260 TAGTAGCCTGCACTTAGTACTACACATGCT-ACC-AATTATCCGGTACACGTAGTAGCCTGCTCT
1 TAGTAGCCTGCACTTAGTACTACACACG-TGACCTAACCATCCGATACACGTAGTAGCCTGCACT
* *
111844323 TAGTACTACACACGTGACCTAACCATCTGATACACG
65 TAGTACTACACACGCGACCTAACAATCTGATACACG
*
111844359 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCCGATACACGTAGTAGCCTGCACTT
* *
111844424 AGTACTACACATGCGACC-AACAATCTGGTACACG
66 AGTACTACACACGCGACCTAACAATCTGATACACG
111844458 TAGTAGCCTGCACTTAGTACTACACACGTGACCT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT
111844492 CACAATAGCT
Statistics
Matches: 121, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
98 1 0.01
99 78 0.64
100 42 0.35
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (100 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCCGATACACGTAGTAGCCTGCACTT
AGTACTACACACGCGACCTAACAATCTGATACACG
Found at i:111845169 original size:30 final size:30
Alignment explanation
Indices: 111845135--111845194 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
111845125 CTTTAATACG
111845135 AACTTTGGAAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGAAAAATTACAC-TTTTGCCCCTA
* * *
111845165 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
111845195 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:111847256 original size:16 final size:15
Alignment explanation
Indices: 111847235--111847273 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
111847225 AACAAAGAAG
111847235 CCAAGAATAAAGAAAT
1 CCAAG-ATAAAGAAAT
*
111847251 CCAAGATCAAGAAAT
1 CCAAGATAAAGAAAT
*
111847266 CCATGATA
1 CCAAGATA
111847274 CGAAAATCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 15 0.75
16 5 0.25
ACGTcount: A:0.54, C:0.18, G:0.13, T:0.15
Consensus pattern (15 bp):
CCAAGATAAAGAAAT
Found at i:111850134 original size:50 final size:50
Alignment explanation
Indices: 111850010--111850206 Score: 261
Period size: 50 Copynumber: 3.9 Consensus size: 50
111850000 TAGCCGAAGC
* * * * *
111850010 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTGCATATGCGACC-AAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
*
111850059 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
* * * * *
111850109 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-T
* *
111850160 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCT
111850207 CACAATAGCT
Statistics
Matches: 127, Mismatches: 19, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
49 41 0.32
50 46 0.36
51 40 0.31
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (50 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
Found at i:111850186 original size:101 final size:99
Alignment explanation
Indices: 111850023--111850206 Score: 287
Period size: 101 Copynumber: 1.8 Consensus size: 99
111850013 CTGGTACGCA
* * * *
111850023 TAGTAGCCTGCACTTAGTACTGCATATGCGACCAATTATCTGGTACACATAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCAGGTACACATAGTAGCCTGCACTTA
111850088 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGTGACCTAACCATCTGATACACG
* * *
111850122 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCAGGTACACATAGTAGCCTGCACT
111850187 TAGTACTACACACGTGACCT
64 TAGTACTACACACGTGACCT
111850207 CACAATAGCT
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
99 27 0.36
100 3 0.04
101 46 0.61
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCAGGTACACATAGTAGCCTGCACTTA
GTACTACACACGTGACCTAACCATCTGATACACG
Found at i:111852212 original size:46 final size:46
Alignment explanation
Indices: 111852162--111852394 Score: 299
Period size: 46 Copynumber: 5.1 Consensus size: 46
111852152 AAATGTGTAG
*
111852162 GACCATGGTTGAAAGATACCATGGCAACATGATAGAAAATGAATAA
1 GACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAATAA
* *
111852208 GACCATGGTTGAAAGATACCATGGCAGCGTGACATG-AAATGAATAA
1 GACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAATAA
**
111852254 GACCATGGTTGAAAGATACCATGGCAACATGAGGGAAAATGAATAA
1 GACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAATAA
* *
111852300 GAACATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAA
1 GACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAATAA
* ** * * * * * *
111852346 AACCAAAGTTGAAAGACACTATGGCATCATGTCA-AAGATAAATAA
1 GACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAATAA
111852391 GACC
1 GACC
111852395 GTGGATGGGA
Statistics
Matches: 162, Mismatches: 23, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
45 12 0.07
46 149 0.92
47 1 0.01
ACGTcount: A:0.44, C:0.15, G:0.23, T:0.18
Consensus pattern (46 bp):
GACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAATAA
Found at i:111852678 original size:16 final size:17
Alignment explanation
Indices: 111852657--111852689 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
111852647 ATGATGGAAC
111852657 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
111852673 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
111852690 TATACTTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:111854841 original size:214 final size:214
Alignment explanation
Indices: 111854496--111855047 Score: 951
Period size: 214 Copynumber: 2.6 Consensus size: 214
111854486 TGAACTGATG
* * *
111854496 TTAGTTTGGTTTGGTTTGTTATTGTTGTTGGATAATTGAGCTTTTGTTGTGTTCTTTTTCTTTTT
1 TTAGTTTGATTTGGTTTGTTATTGTTGTTGGTTAATTGAACTTTTGTTGTGTTCTTTTTC-TTTT
111854561 TTTGGACTAGTGTAGGTTTTTATTGTATTTTGGACTTTTGCTTATGTTTTTTTTATTACAATGTT
65 TTTGGACTAGTGTAGGTTTTTATTGTATTTTGGACTTTTGCTTATGTTTTTTTTATTACAATGTT
111854626 GTTGTATTGTTTTTGTTGTTTATTTGGACTCATGAAGAAACTTAAACTATTCTTTAATGGTTTTT
130 GTTGTATTGTTTTTGTTGTTTATTTGGACTCATGAAGAAACTTAAACTATTCTTTAATGGTTTTT
111854691 GAACTGATGTGTTATTGTTA
195 GAACTGATGTGTTATTGTTA
111854711 TTAGTTTGATTTGGTTTGTTATTGTTGTTGGTTAATTGAACTTTTGTTGTGTTCTTTTTCTTTTT
1 TTAGTTTGATTTGGTTTGTTATTGTTGTTGGTTAATTGAACTTTTGTTGTGTTCTTTTTCTTTTT
111854776 TTGGACTAGTGTAGGTTTTTATTGTATTTTGGACTTTTGCTTATGTTTTTTTTATTACAATGTTG
66 TTGGACTAGTGTAGGTTTTTATTGTATTTTGGACTTTTGCTTATGTTTTTTTTATTACAATGTTG
111854841 TTGTATTGTTTTTGTTGTTTATTTGGACTCATGAAGAAACTTAAACTATTCTTTAATGGTTTTTG
131 TTGTATTGTTTTTGTTGTTTATTTGGACTCATGAAGAAACTTAAACTATTCTTTAATGGTTTTTG
111854906 AACTGATGTGTTATTGTTA
196 AACTGATGTGTTATTGTTA
* *
111854925 TTAGTTTGATTTGGTTTGTTATTGTTGTTGGTTAATTGAACTTTTGTTGTGTTTTTTTTTTTTTT
1 TTAGTTTGATTTGGTTTGTTATTGTTGTTGGTTAATTGAACTTTTGTTGTG----TTCTTTTTCT
* * * * * *
111854990 TTTGTTTGGAGTGGTGCAGGTTTCTATTGTATTTTGAACTTTTGCTCATGTTTTTTTT
62 TTT-TTTGGACTAGTGTAGGTTTTTATTGTATTTTGGACTTTTGCTTATGTTTTTTTT
111855048 TATTTATTTA
Statistics
Matches: 321, Mismatches: 11, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
214 205 0.64
215 57 0.18
218 11 0.03
219 48 0.15
ACGTcount: A:0.16, C:0.06, G:0.20, T:0.58
Consensus pattern (214 bp):
TTAGTTTGATTTGGTTTGTTATTGTTGTTGGTTAATTGAACTTTTGTTGTGTTCTTTTTCTTTTT
TTGGACTAGTGTAGGTTTTTATTGTATTTTGGACTTTTGCTTATGTTTTTTTTATTACAATGTTG
TTGTATTGTTTTTGTTGTTTATTTGGACTCATGAAGAAACTTAAACTATTCTTTAATGGTTTTTG
AACTGATGTGTTATTGTTA
Found at i:111857946 original size:28 final size:29
Alignment explanation
Indices: 111857881--111857937 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
111857871 AACAATAATT
111857881 ATAATTTATTATTTAATATAAGTAAAAAA
1 ATAATTTATTATTTAATATAAGTAAAAAA
111857910 ATAATTTATTATTTAATAT-AGATAAAAA
1 ATAATTTATTATTTAATATAAG-TAAAAA
111857938 TTCTTTTATG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 2 0.07
29 25 0.93
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (29 bp):
ATAATTTATTATTTAATATAAGTAAAAAA
Found at i:111871995 original size:21 final size:22
Alignment explanation
Indices: 111871969--111872027 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
111871959 ATTTTAAGAA
*
111871969 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
111871990 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
111872012 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
111872028 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:111872042 original size:26 final size:24
Alignment explanation
Indices: 111871998--111872047 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
111871988 ATTTGTTTTA
*
111871998 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
111872022 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
111872048 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:111879899 original size:43 final size:43
Alignment explanation
Indices: 111879830--111879911 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
111879820 GTTACATGAA
* **
111879830 TCGCATCTATTATGAACTTGGACCTCTCAACGAGCTCGGGTGC
1 TCGCATCTATAATGAACTCAGACCTCTCAACGAGCTCGGGTGC
* *
111879873 TCGCATCTATAATGAACTCAGTCCTCTTAACGAGCTCGG
1 TCGCATCTATAATGAACTCAGACCTCTCAACGAGCTCGG
111879912 ATGCCATATA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (43 bp):
TCGCATCTATAATGAACTCAGACCTCTCAACGAGCTCGGGTGC
Found at i:111884276 original size:46 final size:46
Alignment explanation
Indices: 111884223--111884398 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
111884213 TATTTGGGCA
111884223 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
111884269 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
111884316 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
111884362 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
111884399 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:111884378 original size:93 final size:93
Alignment explanation
Indices: 111884219--111884390 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
111884209 GGGATATTTG
* *
111884219 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
111884284 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
111884312 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
111884377 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
111884391 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:111888698 original size:779 final size:779
Alignment explanation
Indices: 111887201--111888740 Score: 2954
Period size: 779 Copynumber: 2.0 Consensus size: 779
111887191 AAGGACATTT
*
111887201 CTTACATACTTTATCAACTATCACATGCTTTCCTAACAGGTTAGACACCTTAATTACGAATTATG
1 CTTACATACTTTATCAACTATCACATGCCTTCCTAACAGGTTAGACACCTTAATTACGAATTATG
111887266 TAGACTCGACAGGTATATTCATACTAGATGCCAATTTCATACACACATACAAATGAGTGGAGCCA
66 TAGACTCGACAGGTATATTCATACTAGATGCCAATTTCATACACACATACAAATGAGTGGAGCCA
*
111887331 GGGTCTATCAAAGCAATAACATTAGTATCATAGAGAGAAAATTTACCAGTGATCACATTAGGAGA
131 GGGTCTATCAAAGCAATAACATTAGTATCATAGAGAGAAAATTTACCAGTGATCACATCAGGAGA
*
111887396 AATTGCGTCTTCGCGTGCACGTATGGCATAAGCTCTAGCCGGAGCCCTAGCTTTGAACCTCACTG
196 AATTGCGTCTTCGCGTGCACGTATGGCATAAGCTCTAGCCGGAGCCCTAGCTTCGAACCTCACTG
* *
111887461 CTATGTCTCGCGTCACATTTTACTACTGGACCTATTCCCGACATTTCTCGAGGGTCTTCCCCTAG
261 CTATGTCTAGCGTCACATTTTACTACCGGACCTATTCCCGACATTTCTCGAGGGTCTTCCCCTAG
111887526 AAGTTGCGCCACTCGGTCTTGGATTCTAGAATCTTTCTTTTTCCATCATCTCGGGACAGTCCTTT
326 AAGTTGCGCCACTCGGTCTTGGATTCTAGAATCTTTCTTTTTCCATCATCTCGGGACAGTCCTTT
111887591 ATAAAGTGGTCTAAAGAACCACATTTAAAACATGATCCTTCACTCACTCTATAGTTACCAGAATG
391 ATAAAGTGGTCTAAAGAACCACATTTAAAACATGATCCTTCACTCACTCTATAGTTACCAGAATG
* * *
111887656 ACGTCTACCACATTACGGACATTCAGCCTTGAAAGGTTTAGCGTTACCCACGCTTGCCATAGACA
456 ACGTCTACCACATTACGAACATTCAGCCTTGAAAGGTTTAGCGTTACCCACACTTGCCACAGACA
111887721 TAGCCTGAGATCTAAAACCCGAATTTTTCTTTTTACGATTCCCATATGAATGTCCAATTGACATA
521 TAGCCTGAGATCTAAAACCCGAATTTTTCTTTTTACGATTCCCATATGAATGTCCAATTGACATA
*
111887786 TGTGAAAGAGAATACATCTCTCTAGATTTCTTAGACTGGAACGACAATGACTTACTCATGTACCT
586 TGTGAAAGAGAATACATCTCTCTAGATTTCTTAGACTGGAACAACAATGACTTACTCATGTACCT
*
111887851 CTTTCTTATATCTCTTGCATTAGACTCGGCCTTCTTCCTTTCTTTAACCAAGCTTTCGTCTTTAC
651 CTTTCTTATATCTCTTGCATTAGACTCGGCCTTCTTCCTTTCTTTAACCAAGCCTTCGTCTTTAC
111887916 AAGCCCGTTCTACAAGTACCACAAATTCTTTCAACTCGAGAATACCTTTATCAACTATCACATG
716 AAGCCCGTTCTACAAGTACCACAAATTCTTTCAACTCGAGAATACCTTTATCAACTATCACATG
111887980 CTTACATACTTTATCAACTATCACATGCCTTCCTAACAGGTTAGACACCTTAATTACGAATTATG
1 CTTACATACTTTATCAACTATCACATGCCTTCCTAACAGGTTAGACACCTTAATTACGAATTATG
111888045 TAGACTCGACAGGTATATTCATACTAGATGCCAATTTCATACACACATACAAATGAGTGGAGCCA
66 TAGACTCGACAGGTATATTCATACTAGATGCCAATTTCATACACACATACAAATGAGTGGAGCCA
111888110 GGGTCTATCAAAGCAATAACATTAGTATCATAGAGAGAAAATTTACCAGTGATCACATCAGGAGA
131 GGGTCTATCAAAGCAATAACATTAGTATCATAGAGAGAAAATTTACCAGTGATCACATCAGGAGA
* *
111888175 ACTTGCGTCTTCGCGTGCATGTATGGCATAAGCTCTAGCCGGAGCCCTAGCTTCGAACCTCACTG
196 AATTGCGTCTTCGCGTGCACGTATGGCATAAGCTCTAGCCGGAGCCCTAGCTTCGAACCTCACTG
111888240 CTATGTCTAGCGTCACATTTTACTACCGGACCTATTCCCGACATTTCTCGAGGGTCTTCCCCTAG
261 CTATGTCTAGCGTCACATTTTACTACCGGACCTATTCCCGACATTTCTCGAGGGTCTTCCCCTAG
111888305 AAGTTGCGCCACTCGGTCTTGGATTCTAGAATCTTTCTTTTTCCATCATCTCGGGACAGTCCTTT
326 AAGTTGCGCCACTCGGTCTTGGATTCTAGAATCTTTCTTTTTCCATCATCTCGGGACAGTCCTTT
111888370 ATAAAGTGGTCTAAAGAACCACATTTAAAACATGATCCTTCACTCACTCTATAGTTACCAGAATG
391 ATAAAGTGGTCTAAAGAACCACATTTAAAACATGATCCTTCACTCACTCTATAGTTACCAGAATG
*
111888435 ACGTCTACCACATTACGAACATTCAGCCTTGGAAGGTTTAGCGTTACCCACACTTGCCACAGACA
456 ACGTCTACCACATTACGAACATTCAGCCTTGAAAGGTTTAGCGTTACCCACACTTGCCACAGACA
111888500 TAGCCTGAGATCTAAAACCCGAATTTTTCTTTTTACGATTCCCATATGAATGTCCAATTGACATA
521 TAGCCTGAGATCTAAAACCCGAATTTTTCTTTTTACGATTCCCATATGAATGTCCAATTGACATA
111888565 TGTGAAAGAGAATACATCTCTCTAGATTTCTTAGACTGGAACAACAATGACTTACTCATGTACCT
586 TGTGAAAGAGAATACATCTCTCTAGATTTCTTAGACTGGAACAACAATGACTTACTCATGTACCT
*
111888630 CTTTCTTATATCTCTTGCATTAGACTTGGCCTTCTTCCTTTCTTTAACCAAGCCTTCGTCTTTAC
651 CTTTCTTATATCTCTTGCATTAGACTCGGCCTTCTTCCTTTCTTTAACCAAGCCTTCGTCTTTAC
111888695 AAGCCCGTTCTACAAGTACCACAAATTCTTTCAACTCGAGAATACC
716 AAGCCCGTTCTACAAGTACCACAAATTCTTTCAACTCGAGAATACC
111888741 CATTAATGTC
Statistics
Matches: 747, Mismatches: 14, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
779 747 1.00
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (779 bp):
CTTACATACTTTATCAACTATCACATGCCTTCCTAACAGGTTAGACACCTTAATTACGAATTATG
TAGACTCGACAGGTATATTCATACTAGATGCCAATTTCATACACACATACAAATGAGTGGAGCCA
GGGTCTATCAAAGCAATAACATTAGTATCATAGAGAGAAAATTTACCAGTGATCACATCAGGAGA
AATTGCGTCTTCGCGTGCACGTATGGCATAAGCTCTAGCCGGAGCCCTAGCTTCGAACCTCACTG
CTATGTCTAGCGTCACATTTTACTACCGGACCTATTCCCGACATTTCTCGAGGGTCTTCCCCTAG
AAGTTGCGCCACTCGGTCTTGGATTCTAGAATCTTTCTTTTTCCATCATCTCGGGACAGTCCTTT
ATAAAGTGGTCTAAAGAACCACATTTAAAACATGATCCTTCACTCACTCTATAGTTACCAGAATG
ACGTCTACCACATTACGAACATTCAGCCTTGAAAGGTTTAGCGTTACCCACACTTGCCACAGACA
TAGCCTGAGATCTAAAACCCGAATTTTTCTTTTTACGATTCCCATATGAATGTCCAATTGACATA
TGTGAAAGAGAATACATCTCTCTAGATTTCTTAGACTGGAACAACAATGACTTACTCATGTACCT
CTTTCTTATATCTCTTGCATTAGACTCGGCCTTCTTCCTTTCTTTAACCAAGCCTTCGTCTTTAC
AAGCCCGTTCTACAAGTACCACAAATTCTTTCAACTCGAGAATACCTTTATCAACTATCACATG
Found at i:111893086 original size:36 final size:36
Alignment explanation
Indices: 111893046--111893117 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
111893036 AAATAGAGTA
*
111893046 TATAACTCTTTCTGCTTCGGTCATTGAGTTAGAGCC
1 TATAACTCTTTCTGCTTCGGTCATTGAGGTAGAGCC
*
111893082 TATAACTCTTTTTGCTTCGGTCATTGAGGTAGAGCC
1 TATAACTCTTTCTGCTTCGGTCATTGAGGTAGAGCC
111893118 ACTGAAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.39
Consensus pattern (36 bp):
TATAACTCTTTCTGCTTCGGTCATTGAGGTAGAGCC
Found at i:111894662 original size:14 final size:16
Alignment explanation
Indices: 111894625--111894664 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 16
111894615 AAAACCTTCT
111894625 TTTTAT-TTATAAAAG
1 TTTTATATTATAAAAG
*
111894640 TTATATATTAT-AAA-
1 TTTTATATTATAAAAG
111894654 TTTTATATTAT
1 TTTTATATTAT
111894665 TTTTTATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
14 10 0.45
15 8 0.36
16 4 0.18
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (16 bp):
TTTTATATTATAAAAG
Found at i:111901038 original size:12 final size:12
Alignment explanation
Indices: 111901021--111901057 Score: 74
Period size: 12 Copynumber: 3.1 Consensus size: 12
111901011 CTGGTAGGTG
111901021 TCGAATAAACCA
1 TCGAATAAACCA
111901033 TCGAATAAACCA
1 TCGAATAAACCA
111901045 TCGAATAAACCA
1 TCGAATAAACCA
111901057 T
1 T
111901058 TCATTATGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.49, C:0.24, G:0.08, T:0.19
Consensus pattern (12 bp):
TCGAATAAACCA
Found at i:111902660 original size:60 final size:59
Alignment explanation
Indices: 111902583--111902721 Score: 158
Period size: 60 Copynumber: 2.3 Consensus size: 59
111902573 CAGTGTTAAT
* *
111902583 TGGGCCTTAGCCCATATCAATATTAATTTGGGCCATAGCCCCT-TAC-AGTAAC-AGAGTATAC
1 TGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAG-CCCTATACAAGT--CGAGA-TATAC
* * *
111902644 TGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATACAAGTCGAGATATAT
1 TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATACAAGTCGAGATATAC
*
111902703 TGGGCCTTGCCCATATCAA
1 TGGGCCTAGCCCATATCAA
111902722 CACAGTTGGG
Statistics
Matches: 68, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
59 26 0.38
60 33 0.49
61 9 0.13
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (59 bp):
TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATACAAGTCGAGATATAC
Found at i:111902754 original size:19 final size:20
Alignment explanation
Indices: 111902711--111902756 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
111902701 ATTGGGCCTT
111902711 GCCCATATCAACACAGTTGG
1 GCCCATATCAACACAGTTGG
* *
111902731 GCCCATTTCAATACAGTT-G
1 GCCCATATCAACACAGTTGG
111902750 GCCCATA
1 GCCCATA
111902757 ACAAAATAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.24
Consensus pattern (20 bp):
GCCCATATCAACACAGTTGG
Found at i:111908854 original size:8 final size:8
Alignment explanation
Indices: 111908843--111908884 Score: 75
Period size: 8 Copynumber: 5.2 Consensus size: 8
111908833 CTATATACTC
111908843 CACATACA
1 CACATACA
111908851 CACATACA
1 CACATACA
111908859 CACATACA
1 CACATACA
111908867 CACATACA
1 CACATACA
*
111908875 CACAGACA
1 CACATACA
111908883 CA
1 CA
111908885 TATATACATA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 33 1.00
ACGTcount: A:0.50, C:0.38, G:0.02, T:0.10
Consensus pattern (8 bp):
CACATACA
Found at i:111909546 original size:2 final size:2
Alignment explanation
Indices: 111909539--111909575 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
111909529 GCACTAACTT
111909539 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
111909576 GCTAATTAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:111909635 original size:20 final size:21
Alignment explanation
Indices: 111909591--111909636 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
111909581 TTAAGGACTA
111909591 ATTAATCTAGTTTAATTTAGT
1 ATTAATCTAGTTTAATTTAGT
*
111909612 -TTAATCATGGTTT-ATTTA-T
1 ATTAATC-TAGTTTAATTTAGT
111909631 ATTAAT
1 ATTAAT
111909637 TTAACTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
19 1 0.05
20 16 0.73
21 5 0.23
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.54
Consensus pattern (21 bp):
ATTAATCTAGTTTAATTTAGT
Found at i:111913035 original size:26 final size:25
Alignment explanation
Indices: 111912953--111913058 Score: 194
Period size: 25 Copynumber: 4.2 Consensus size: 25
111912943 TGATACAAAT
111912953 TGATAATGGGTTAGGTAAATGTTCA
1 TGATAATGGGTTAGGTAAATGTTCA
111912978 TGATAATGGGTTAGGTAAATGTTCA
1 TGATAATGGGTTAGGTAAATGTTCA
111913003 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATG-TTCA
111913029 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTT-CA
111913055 TGAT
1 TGAT
111913059 GGAATTTCAT
Statistics
Matches: 79, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
25 48 0.61
26 31 0.39
ACGTcount: A:0.31, C:0.05, G:0.27, T:0.37
Consensus pattern (25 bp):
TGATAATGGGTTAGGTAAATGTTCA
Found at i:111913047 original size:51 final size:51
Alignment explanation
Indices: 111912953--111913058 Score: 196
Period size: 51 Copynumber: 2.1 Consensus size: 51
111912943 TGATACAAAT
111912953 TGATAATGGGTTAGGTAAATGTTCATGATAATGGGTTAGGTAAATGTT-CA
1 TGATAATGGGTTAGGTAAATGTTCATGATAATGGGTTAGGTAAATGTTCCA
111913003 TGATAATGGGTTAGGTAAATGTTTCATGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATG-TTCATGATAATGGGTTAGGTAAATGTTCCA
111913055 TGAT
1 TGAT
111913059 GGAATTTCAT
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
50 21 0.39
51 27 0.50
52 6 0.11
ACGTcount: A:0.31, C:0.05, G:0.27, T:0.37
Consensus pattern (51 bp):
TGATAATGGGTTAGGTAAATGTTCATGATAATGGGTTAGGTAAATGTTCCA
Found at i:111918775 original size:26 final size:26
Alignment explanation
Indices: 111918734--111918839 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
111918724 TGATACAAAT
111918734 TGATAAT-GGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
111918759 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
111918785 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
111918811 TGATAATGGGTTAGGTAAATGTT-CA
1 TGATAATGGGTTAGGTAAATGTTCCA
111918836 TGAT
1 TGAT
111918840 GAATTTCATG
Statistics
Matches: 78, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
25 13 0.17
26 65 0.83
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:111921974 original size:30 final size:30
Alignment explanation
Indices: 111921940--111921997 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
111921930 TACGCACTTC
111921940 CACACGAGTA-ATCCACACACCCGTGTGTGA
1 CACACGAGTAGA-CCACACACCCGTGTGTGA
* **
111921970 CACACGGGTAGACCACACGTCCGTGTGT
1 CACACGAGTAGACCACACACCCGTGTGT
111921998 CATGGCCATG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 23 0.96
31 1 0.04
ACGTcount: A:0.26, C:0.33, G:0.24, T:0.17
Consensus pattern (30 bp):
CACACGAGTAGACCACACACCCGTGTGTGA
Found at i:111923837 original size:46 final size:46
Alignment explanation
Indices: 111923736--111924105 Score: 196
Period size: 50 Copynumber: 7.7 Consensus size: 46
111923726 TAATTTGTGT
* *
111923736 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATG-A
1 GCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCATCGAGACGTA
* *
111923782 GTGCCAGTGTAAGA-CATGTCTGGGACATGTATAGGCATCGAGACGTAA
1 --GCCAGTGTAAGACCATGTCTGGGACATGCATCGGCATCGAGACGT-A
* *
111923830 GCCAGTGTAAGA-CATGTCTGGGACATGCATCTG-TTACGAGACGT-
1 GCCAGTGTAAGACCATGTCTGGGACATGCATCGGCAT-CGAGACGTA
* ** * * *
111923874 GTCAGTGTAAGACCATGTCTGGGACATGGCATCAACATGGATACGCAAGA
1 GCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCATCGAGACG---TA
** * * * ** * *
111923924 GTTAGTGTAATACCATATTTGAAACATGGCATCAGCAT-GTAAGTACGAGA
1 GCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCATCG--AG-ACG-TA
* * * * *
111923974 GCTAGTATAAAACCATGTCTGGGACATGGCATCAGCAT-GTAAGTACGAGA
1 GCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCATCG--AG-ACG-TA
* * *
111924024 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTCGATGAGGATA
1 GCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCATCGA-GACG-TA
* **
111924073 GCTAGTGTAAGACTTTGTCTGGGACATGGCATC
1 GCCAGTGTAAGACCATGTCTGGGACAT-GCATC
111924106 AGCAACTTAA
Statistics
Matches: 269, Mismatches: 38, Indels: 29
0.80 0.11 0.09
Matches are distributed among these distances:
44 11 0.04
45 15 0.06
46 61 0.23
47 15 0.06
48 13 0.05
49 37 0.14
50 112 0.42
51 2 0.01
52 3 0.01
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (46 bp):
GCCAGTGTAAGACCATGTCTGGGACATGCATCGGCATCGAGACGTA
Found at i:111932590 original size:19 final size:19
Alignment explanation
Indices: 111932568--111932610 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
111932558 TATCTTCCTT
*
111932568 TCTTATCTTCGTCTTTCTC
1 TCTTATCTTCATCTTTCTC
*
111932587 TCTTTTCTCTTCATCTTTCTC
1 TC--TTATCTTCATCTTTCTC
111932608 TCT
1 TCT
111932611 CTTCCCCTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
19 3 0.15
21 17 0.85
ACGTcount: A:0.05, C:0.33, G:0.02, T:0.60
Consensus pattern (19 bp):
TCTTATCTTCATCTTTCTC
Found at i:111938222 original size:25 final size:24
Alignment explanation
Indices: 111938188--111938258 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 24
111938178 TGTCCATGCT
111938188 TTTATTAAATTCAAATAAAGCAATA
1 TTTATTAAATTCAAATAAAG-AATA
* * *
111938213 TTTATTAAATTACAATTTAAGTATA
1 TTTATTAAATT-CAAATAAAGAATA
**
111938238 TAAATTCAAATTCAAATAAAG
1 TTTATT-AAATTCAAATAAAG
111938259 TTTAATTGAA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
25 25 0.68
26 12 0.32
ACGTcount: A:0.51, C:0.07, G:0.04, T:0.38
Consensus pattern (24 bp):
TTTATTAAATTCAAATAAAGAATA
Found at i:111938282 original size:6 final size:6
Alignment explanation
Indices: 111938262--111938310 Score: 57
Period size: 6 Copynumber: 8.5 Consensus size: 6
111938252 AATAAAGTTT
* * *
111938262 AATTGA AAGTG- AATTGA AATTAA AATTGA AATTGA AA-TGA AATTCA
1 AATTGA AATTGA AATTGA AATTGA AATTGA AATTGA AATTGA AATTGA
111938308 AAT
1 AAT
111938311 AAAATATCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
5 9 0.25
6 27 0.75
ACGTcount: A:0.53, C:0.02, G:0.14, T:0.31
Consensus pattern (6 bp):
AATTGA
Found at i:111938288 original size:23 final size:23
Alignment explanation
Indices: 111938262--111938310 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
111938252 AATAAAGTTT
*
111938262 AATTGAAAGTGAATTGAAATTAA
1 AATTGAAAGTGAAATGAAATTAA
* *
111938285 AATTGAAATTGAAATGAAATTCA
1 AATTGAAAGTGAAATGAAATTAA
111938308 AAT
1 AAT
111938311 AAAATATCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.53, C:0.02, G:0.14, T:0.31
Consensus pattern (23 bp):
AATTGAAAGTGAAATGAAATTAA
Found at i:111938454 original size:17 final size:16
Alignment explanation
Indices: 111938432--111938470 Score: 60
Period size: 17 Copynumber: 2.4 Consensus size: 16
111938422 AGAGAAAAAG
*
111938432 TGAAATGGAATTCAAA
1 TGAAATGAAATTCAAA
111938448 TTGAAATGAAATTCAAA
1 -TGAAATGAAATTCAAA
111938465 TGAAAT
1 TGAAAT
111938471 TAAAAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.51, C:0.05, G:0.15, T:0.28
Consensus pattern (16 bp):
TGAAATGAAATTCAAA
Found at i:111940468 original size:79 final size:79
Alignment explanation
Indices: 111940375--111940520 Score: 202
Period size: 79 Copynumber: 1.8 Consensus size: 79
111940365 ATGCCTCTGT
*** * * *
111940375 GTTACTCTATTGATGAAGAATATGTGACATCTGATTATGTTAGATTGATTGTTATTGATTCTGAT
1 GTTACTCTATTGATGAAGAATACACGACATCTGAATATGTTAGACTGATTGTTACTGATTCTGAT
111940440 TTATAACCCTCTAC
66 TTATAACCCTCTAC
* * * *
111940454 GTTACTTTGTTGATGAGGAATACACGATATCTGAATATGTTAGACTGATTGTTACTGATTCTGAT
1 GTTACTCTATTGATGAAGAATACACGACATCTGAATATGTTAGACTGATTGTTACTGATTCTGAT
111940519 TT
66 TT
111940521 TTAATTAAGC
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
79 57 1.00
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.42
Consensus pattern (79 bp):
GTTACTCTATTGATGAAGAATACACGACATCTGAATATGTTAGACTGATTGTTACTGATTCTGAT
TTATAACCCTCTAC
Found at i:111941045 original size:19 final size:20
Alignment explanation
Indices: 111941023--111941060 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
111941013 TGTTTTGCTC
*
111941023 TACTTGATT-TGTTATGTTT
1 TACTTCATTCTGTTATGTTT
*
111941042 TACTTCATTCTGTTTTGTT
1 TACTTCATTCTGTTATGTT
111941061 CGGTTTTGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.13, C:0.11, G:0.13, T:0.63
Consensus pattern (20 bp):
TACTTCATTCTGTTATGTTT
Found at i:111942128 original size:13 final size:13
Alignment explanation
Indices: 111942110--111942135 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
111942100 GATGGACATT
111942110 ATCTACGTTGCAA
1 ATCTACGTTGCAA
111942123 ATCTACGTTGCAA
1 ATCTACGTTGCAA
111942136 GGGTATTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
ATCTACGTTGCAA
Found at i:111943750 original size:89 final size:89
Alignment explanation
Indices: 111943656--111943888 Score: 287
Period size: 89 Copynumber: 2.6 Consensus size: 89
111943646 TTAATAGAAC
* *
111943656 AAATATATAATTCAAAAAAATAATAATACGGA-AC-AAATTAAATTTATAGATACAAGAAAATAC
1 AAATATAAAATTCAAAAAAATAATAATAC--ATACTAAATTAAATTTACAGATACAAGAAAATAC
* *
111943719 AAACATTCTAGAATATTAATACACGA
64 AAACATTCTAAAAAATTAATACACGA
* * *
111943745 AAATATAAAATTC-GAACAATAAATAATACATACTAAATTAAATTTACGGATACAAGAAAATACA
1 AAATATAAAATTCAAAAAAAT-AATAATACATACTAAATTAAATTTACAGATACAAGAAAATACA
111943809 AACATTCTAAAAAATTAATACACGA
65 AACATTCTAAAAAATTAATACACGA
* * **
111943834 AAATATAAAATTCGAACAACA-AATAATAC-TGACTAAATTTGATTTACAGATACAA
1 AAATATAAAATTC-AAAAAAATAATAATACAT-ACTAAATTAAATTTACAGATACAA
111943889 AAATAGTACA
Statistics
Matches: 124, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
87 1 0.01
88 8 0.06
89 113 0.91
91 2 0.02
ACGTcount: A:0.56, C:0.12, G:0.06, T:0.26
Consensus pattern (89 bp):
AAATATAAAATTCAAAAAAATAATAATACATACTAAATTAAATTTACAGATACAAGAAAATACAA
ACATTCTAAAAAATTAATACACGA
Found at i:111948301 original size:41 final size:40
Alignment explanation
Indices: 111948206--111948462 Score: 329
Period size: 41 Copynumber: 6.3 Consensus size: 40
111948196 CATTTTTTAC
* *
111948206 TAAAACGCCGCTAAAAAC-AGGGCATTAGCTGCGCTTTAGG
1 TAAAACGCCGCTAAAAACTAGAGCATTAGCGGCGCTTT-GG
111948246 TAAAACGCCGCTAAAAACTAGAGCATTAGCGGCGCTTTCGG
1 TAAAACGCCGCTAAAAACTAGAGCATTAGCGGCGCTTT-GG
* * * * *
111948287 TGAAATGCCACTAAAAACCAGGGCATTAGCGGCGCTTTGG
1 TAAAACGCCGCTAAAAACTAGAGCATTAGCGGCGCTTTGG
* * *
111948327 GAAAACGCCACTAAAAACTAGAGCACTAGCGGCGCTTTGGG
1 TAAAACGCCGCTAAAAACTAGAGCATTAGCGGCGCTTT-GG
* *
111948368 TAAAACGCCGCTAAAAACCAGAGCACTAGCGGCGCTTTTGG
1 TAAAACGCCGCTAAAAACTAGAGCATTAGCGGCGC-TTTGG
*
111948409 TAAAACGCCGCTAAAAACCT-GAGCATTAGCGGCACTTTTGG
1 TAAAACGCCGCTAAAAA-CTAGAGCATTAGCGGCGC-TTTGG
111948450 TAAAACGCCGCTA
1 TAAAACGCCGCTA
111948463 CAAATCCCAT
Statistics
Matches: 193, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
40 52 0.27
41 137 0.71
42 4 0.02
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.19
Consensus pattern (40 bp):
TAAAACGCCGCTAAAAACTAGAGCATTAGCGGCGCTTTGG
Found at i:111948301 original size:81 final size:81
Alignment explanation
Indices: 111948206--111948458 Score: 348
Period size: 81 Copynumber: 3.1 Consensus size: 81
111948196 CATTTTTTAC
* *
111948206 TAAAACGCCGCTAAAAA-CAGGGCATTAGCTGCGCTTTAGGTAAAACGCCGCTAAAAACTAGAGC
1 TAAAACGCCACTAAAAACCAGGGCATTAGCGGCGCTTT-GGTAAAACGCCGCTAAAAACTAGAGC
111948270 ATTAGCGGCGCTTTCGG
65 ATTAGCGGCGCTTTCGG
* * * *
111948287 TGAAATGCCACTAAAAACCAGGGCATTAGCGGCGCTTTGGGAAAACGCCACTAAAAACTAGAGCA
1 TAAAACGCCACTAAAAACCAGGGCATTAGCGGCGCTTTGGTAAAACGCCGCTAAAAACTAGAGCA
* *
111948352 CTAGCGGCGCTTTGGG
66 TTAGCGGCGCTTTCGG
* * *
111948368 TAAAACGCCGCTAAAAACCAGAGCACTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCT-GAG
1 TAAAACGCCACTAAAAACCAGGGCATTAGCGGCGC-TTTGGTAAAACGCCGCTAAAAA-CTAGAG
* *
111948432 CATTAGCGGCACTTTTGG
64 CATTAGCGGCGCTTTCGG
111948450 TAAAACGCC
1 TAAAACGCC
111948459 GCTACAAATC
Statistics
Matches: 151, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
81 83 0.55
82 66 0.44
83 2 0.01
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.19
Consensus pattern (81 bp):
TAAAACGCCACTAAAAACCAGGGCATTAGCGGCGCTTTGGTAAAACGCCGCTAAAAACTAGAGCA
TTAGCGGCGCTTTCGG
Found at i:111948371 original size:122 final size:122
Alignment explanation
Indices: 111948207--111948458 Score: 353
Period size: 122 Copynumber: 2.1 Consensus size: 122
111948197 ATTTTTTACT
* * * * * *
111948207 AAAACGCCGCTAAAAACAGGGCATTAGCTGCGCTTTAGGTAAAACGCCGCTAAAAACTAGAGCAT
1 AAAACGCCACTAAAAACAGAGCACTAGCGGCGCTTTAGGTAAAACGCCGCTAAAAACCAGAGCAC
* * * *
111948272 TAGCGGCGCTTTCGGTGAAATGCCACTAAAAACCAGGGCATTAGCGGCGC-TTTGGG
66 TAGCGGCGCTTTCGGTAAAACGCCACTAAAAACCAGAGCATTAGCGGCACTTTTGGG
*
111948328 AAAACGCCACTAAAAACTAGAGCACTAGCGGCGCTTTGGGTAAAACGCCGCTAAAAACCAGAGCA
1 AAAACGCCACTAAAAAC-AGAGCACTAGCGGCGCTTTAGGTAAAACGCCGCTAAAAACCAGAGCA
* * * *
111948393 CTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCTGAGCATTAGCGGCACTTTTGGT
65 CTAGCGGCGCTTTCGGTAAAACGCCACTAAAAACCAGAGCATTAGCGGCACTTTTGGG
111948451 AAAACGCC
1 AAAACGCC
111948459 GCTACAAATC
Statistics
Matches: 114, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
121 16 0.14
122 85 0.75
123 13 0.11
ACGTcount: A:0.33, C:0.25, G:0.25, T:0.18
Consensus pattern (122 bp):
AAAACGCCACTAAAAACAGAGCACTAGCGGCGCTTTAGGTAAAACGCCGCTAAAAACCAGAGCAC
TAGCGGCGCTTTCGGTAAAACGCCACTAAAAACCAGAGCATTAGCGGCACTTTTGGG
Found at i:111948646 original size:14 final size:14
Alignment explanation
Indices: 111948624--111948663 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
111948614 TTAATTATCA
* *
111948624 TTATAGTTTAAGGT
1 TTATGGTTTAAGAT
111948638 TTATGGTTTAAGAT
1 TTATGGTTTAAGAT
*
111948652 ATATGGTTTAAG
1 TTATGGTTTAAG
111948664 CAGGTTTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (14 bp):
TTATGGTTTAAGAT
Found at i:111949546 original size:15 final size:15
Alignment explanation
Indices: 111949526--111949557 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
111949516 TTTAATTTAA
*
111949526 AAGATAAATGTATAT
1 AAGATAAATATATAT
111949541 AAGATAAATATATAT
1 AAGATAAATATATAT
111949556 AA
1 AA
111949558 ATTATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.31
Consensus pattern (15 bp):
AAGATAAATATATAT
Found at i:111949596 original size:24 final size:23
Alignment explanation
Indices: 111949529--111949596 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 23
111949519 AATTTAAAAG
* *
111949529 ATAAATGTATATAAGATAAATATAT
1 ATAAAT-TATATATGA-AAATACAT
* *
111949554 ATAAATTATTATTTTAAAATACAT
1 ATAAATTA-TATATGAAAATACAT
111949578 ATAAATATATATATGAAAA
1 ATAAAT-TATATATGAAAA
111949597 GTGGTTTAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
24 23 0.66
25 12 0.34
ACGTcount: A:0.56, C:0.01, G:0.04, T:0.38
Consensus pattern (23 bp):
ATAAATTATATATGAAAATACAT
Found at i:111954508 original size:21 final size:21
Alignment explanation
Indices: 111954479--111954518 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
111954469 GTTTTTATAT
*
111954479 TTTGGTTCAACTTAAGTATTA
1 TTTGATTCAACTTAAGTATTA
111954500 TTTGATTCAACTTAAGTAT
1 TTTGATTCAACTTAAGTAT
111954519 GAATTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.47
Consensus pattern (21 bp):
TTTGATTCAACTTAAGTATTA
Found at i:111954977 original size:21 final size:21
Alignment explanation
Indices: 111954948--111954987 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
111954938 GTTTTTATAT
*
111954948 TTTGGTTCAACTTAAGTATTA
1 TTTGATTCAACTTAAGTATTA
111954969 TTTGATTCAACTTAAGTAT
1 TTTGATTCAACTTAAGTAT
111954988 GAATTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.47
Consensus pattern (21 bp):
TTTGATTCAACTTAAGTATTA
Found at i:111955038 original size:469 final size:469
Alignment explanation
Indices: 111954093--111955340 Score: 2473
Period size: 469 Copynumber: 2.7 Consensus size: 469
111954083 TTCTCTCCAA
111954093 CCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATAT
1 CCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATAT
111954158 CGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAA
66 CGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAA
111954223 ATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTT-CA
131 ATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCCA
111954287 ATTTACTTATAAAAATTAAACTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTGTT
196 ATTTACTTATAAAAATTAAACTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTGTT
111954352 ATATTAAACATGTTTGATTTTAATA-TTAATATTTTTAAATGTCTTTAAAAGTTATAACTAATTT
261 ATATTAAACATGTTTGATTTTAATATTTAATATTTTTAAATGTCTTTAAAAGTTATAACTAATTT
111954416 TTATCAAAATAGTATTATTAATTATTATTTGAAGTATGAATAAGTATGAATAAGTTTTTATATTT
326 TTATCAAAATAGTATTATTAATTATTATTTGAAGTATGAATAAGTATGAATAAGTTTTTATATTT
111954481 TGGTTCAACTTAAGTATTATTTGATTCAACTTAAGTATGAATTAATTTTATTACCATATATGTAG
391 TGGTTCAACTTAAGTATTATTTGATTCAACTTAAGTATGAATTAATTTTATTACCATATATGTAG
111954546 CTTGCTTGTCCATT
456 CTTGCTTGTCCATT
111954560 CCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATAT
1 CCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATAT
111954625 CGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAA
66 CGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAA
111954690 ATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCCA
131 ATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCCA
111954755 ATTTACTTATAAAAATTAAACTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTGTT
196 ATTTACTTATAAAAATTAAACTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTGTT
111954820 ATATTAAACATGTTTGATTTTAATATTTAATATTTTTAAATGTCTTTAAAAGTTATAACTAATTT
261 ATATTAAACATGTTTGATTTTAATATTTAATATTTTTAAATGTCTTTAAAAGTTATAACTAATTT
111954885 TTATCAAAATAGTATTATTAATTATTATTTGAAGTATGAATAAGTATGAATAAGTTTTTATATTT
326 TTATCAAAATAGTATTATTAATTATTATTTGAAGTATGAATAAGTATGAATAAGTTTTTATATTT
111954950 TGGTTCAACTTAAGTATTATTTGATTCAACTTAAGTATGAATTAATTTTATTACCATATATGTAG
391 TGGTTCAACTTAAGTATTATTTGATTCAACTTAAGTATGAATTAATTTTATTACCATATATGTAG
111955015 CTTGCTTGTCCATT
456 CTTGCTTGTCCATT
111955029 CCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATAT
1 CCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATAT
111955094 CGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAA
66 CGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAA
111955159 ATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCCA
131 ATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCCA
111955224 ATTTACTTATAAAAATTAAACTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTTGT
196 ATTTACTTATAAAAATTAAACTACGATTCTTTCTTGATATTATTATATTCAAATTACTA-TTTGT
111955289 TATATTAAACATGTTTGATTTTAATATTTAATATTTTTAAATGTCTTTAAAA
260 TATATTAAACATGTTTGATTTTAATATTTAATATTTTTAAATGTCTTTAAAA
111955341 TTTTGTTATA
Statistics
Matches: 778, Mismatches: 0, Indels: 3
1.00 0.00 0.00
Matches are distributed among these distances:
467 192 0.25
468 92 0.12
469 437 0.56
470 57 0.07
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.41
Consensus pattern (469 bp):
CCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATAT
CGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAA
ATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCCA
ATTTACTTATAAAAATTAAACTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTGTT
ATATTAAACATGTTTGATTTTAATATTTAATATTTTTAAATGTCTTTAAAAGTTATAACTAATTT
TTATCAAAATAGTATTATTAATTATTATTTGAAGTATGAATAAGTATGAATAAGTTTTTATATTT
TGGTTCAACTTAAGTATTATTTGATTCAACTTAAGTATGAATTAATTTTATTACCATATATGTAG
CTTGCTTGTCCATT
Found at i:111961590 original size:88 final size:87
Alignment explanation
Indices: 111961496--111961780 Score: 326
Period size: 88 Copynumber: 3.3 Consensus size: 87
111961486 GTCTAGGCCT
111961496 TTTTTTTACAAAAAGCGCCGCTAAAAGTACAGGTTTATAGCGGCGTTTTTTATAAAAGCGCCGCT
1 TTTTTTTA-AAAAAGCGCCGCTAAAAGTACAGGTTTATAGCGGCGTTTTTTATAAAAGCGCCGCT
111961561 AAAGTTCTTGGTCTATAGCGGCG
65 AAAGTTCTTGGTCTATAGCGGCG
* * * * *
111961584 TTTTTTTACAAAAAGCGCCACTAAAAGTACAGGTCTATAGCAGCATTTTTTATAAAAGCGCCTCT
1 TTTTTTTA-AAAAAGCGCCGCTAAAAGTACAGGTTTATAGCGGCGTTTTTTATAAAAGCGCCGCT
111961649 AAAGTTCTTGGTCTATAGCGGCG
65 AAAGTTCTTGGTCTATAGCGGCG
* * * * * * **
111961672 -TTTTTTAAAAAAGCGTCGCTAAAGGTCCTGGTCTT-TACCGGCG-CTTTTATAAAAAATGCCGC
1 TTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGT-TTATAGCGGCGTTTTTTAT-AAAAGCGCCGC
* * * *
111961734 TAAAGGTCCTGGTCTTTAGCGACG
64 TAAAGTTCTTGGTCTATAGCGGCG
* * *
111961758 CTTTTATATAAAA-CGCCGCTAAA
1 TTTTTTTAAAAAAGCGCCGCTAAA
111961781 GATCGTGGCC
Statistics
Matches: 169, Mismatches: 25, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
85 6 0.04
86 62 0.37
87 18 0.11
88 83 0.49
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.32
Consensus pattern (87 bp):
TTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTTTATAGCGGCGTTTTTTATAAAAGCGCCGCTA
AAGTTCTTGGTCTATAGCGGCG
Found at i:111961781 original size:43 final size:44
Alignment explanation
Indices: 111961497--111961795 Score: 259
Period size: 43 Copynumber: 6.9 Consensus size: 44
111961487 TCTAGGCCTT
* * *
111961497 TTTTTTACAAAAAGCGCCGCTAAAAGTACAGGT-TTATAGCGGCG-
1 TTTTTTA-AAAAAGCGCCGCTAAAGGTCCTGGTCTT-TAGCGGCGC
* * * * *
111961541 TTTTTTATAAAAGCGCCGCTAAAGTTCTTGGTCTATAGCGGCGT
1 TTTTTTAAAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGC
* * * * * * *
111961585 TTTTTTACAAAAAGCGCCACTAAAAGTACAGGTCTATAGCAGC-A
1 TTTTTTA-AAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGC
* * * * *
111961629 TTTTTTATAAAAGCGCCTCTAAAGTTCTTGGTCTATAGCGGCG-
1 TTTTTTAAAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGC
* *
111961672 TTTTTTAAAAAAGCGTCGCTAAAGGTCCTGGTCTTTACCGGCGC
1 TTTTTTAAAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGC
* * *
111961716 TTTTATAAAAAA-TGCCGCTAAAGGTCCTGGTCTTTAGCGACGC
1 TTTTTTAAAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGC
* * * * *
111961759 TTTTATATAAAA-CGCCGCTAAAGATCGTGGCCTTTAG
1 TTTTTTAAAAAAGCGCCGCTAAAGGTCCTGGTCTTTAG
111961796 AAGAAAACGC
Statistics
Matches: 209, Mismatches: 41, Indels: 11
0.80 0.16 0.04
Matches are distributed among these distances:
43 149 0.71
44 33 0.16
45 27 0.13
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (44 bp):
TTTTTTAAAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGC
Found at i:111963877 original size:20 final size:19
Alignment explanation
Indices: 111963854--111963912 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 19
111963844 AGAAATTTCA
111963854 ATATTTGTTAAGAGATTTTG
1 ATATTTGTTAA-AGATTTTG
*
111963874 ATATTTATTAAAGATTTTG
1 ATATTTGTTAAAGATTTTG
111963893 ATATTTGGTTACAA-ATTTTG
1 ATATTT-GTTA-AAGATTTTG
111963913 GTACCCATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.40
20 19 0.54
21 2 0.06
ACGTcount: A:0.32, C:0.02, G:0.15, T:0.51
Consensus pattern (19 bp):
ATATTTGTTAAAGATTTTG
Found at i:111963890 original size:19 final size:20
Alignment explanation
Indices: 111963854--111963898 Score: 74
Period size: 19 Copynumber: 2.3 Consensus size: 20
111963844 AGAAATTTCA
*
111963854 ATATTTGTTAAGAGATTTTG
1 ATATTTATTAAGAGATTTTG
111963874 ATATTTATTAA-AGATTTTG
1 ATATTTATTAAGAGATTTTG
111963893 ATATTT
1 ATATTT
111963899 GGTTACAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.53
Consensus pattern (20 bp):
ATATTTATTAAGAGATTTTG
Found at i:111963938 original size:33 final size:33
Alignment explanation
Indices: 111963896--111963962 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
111963886 GATTTTGATA
111963896 TTTGGTTACAAATTTTGGTACCCATTAGAGATT
1 TTTGGTTACAAATTTTGGTACCCATTAGAGATT
*
111963929 TTTGGTTACAAATTTTGGTATCCATTAGAGATT
1 TTTGGTTACAAATTTTGGTACCCATTAGAGATT
111963962 T
1 T
111963963 AGAAATTTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.10, G:0.18, T:0.45
Consensus pattern (33 bp):
TTTGGTTACAAATTTTGGTACCCATTAGAGATT
Found at i:111971584 original size:29 final size:27
Alignment explanation
Indices: 111971542--111971601 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 27
111971532 TTTTTCATTT
111971542 ATTTCACAATTTAACCACCAAATTTACA
1 ATTTCACAATTTAACC-CCAAATTTACA
*
111971570 CATTTCACAATTTAACCCCTAATTTACA
1 -ATTTCACAATTTAACCCCAAATTTACA
111971598 ATTT
1 ATTT
111971602 TAACAAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 4 0.13
28 10 0.33
29 16 0.53
ACGTcount: A:0.38, C:0.25, G:0.00, T:0.37
Consensus pattern (27 bp):
ATTTCACAATTTAACCCCAAATTTACA
Found at i:111971607 original size:28 final size:29
Alignment explanation
Indices: 111971542--111971607 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 29
111971532 TTTTTCATTT
*
111971542 ATTTCACAATTTAACCACCAAATTTACAC
1 ATTTAACAATTTAACCACCAAATTTACAC
* *
111971571 ATTTCACAATTTAACC-CCTAATTTACA-
1 ATTTAACAATTTAACCACCAAATTTACAC
111971598 ATTTTAACAA
1 A-TTTAACAA
111971608 AAATCTCTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
27 1 0.03
28 17 0.50
29 16 0.47
ACGTcount: A:0.41, C:0.24, G:0.00, T:0.35
Consensus pattern (29 bp):
ATTTAACAATTTAACCACCAAATTTACAC
Found at i:111971926 original size:21 final size:20
Alignment explanation
Indices: 111971896--111971935 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
111971886 ATGATACATT
*
111971896 GTTTTTATTATTTTACTTAA
1 GTTTTTATTAATTTACTTAA
111971916 GTTTATTATTAATTTACTTA
1 GTTT-TTATTAATTTACTTA
111971936 TTTAACCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (20 bp):
GTTTTTATTAATTTACTTAA
Found at i:111977730 original size:42 final size:42
Alignment explanation
Indices: 111977612--111977761 Score: 160
Period size: 42 Copynumber: 3.5 Consensus size: 42
111977602 ACACCAATGT
* *
111977612 CATATCCCAGATATGGTCTTACATG-GGATCTCGTATCGATGC
1 CATATCCCAGATATGGTCTTACATGAAG-TCTCATATCGATGC
* * * * *
111977654 CAATAGCCCAGCTAAGGTCTTAAATGAAATCTCATATCGATGC
1 C-ATATCCCAGATATGGTCTTACATGAAGTCTCATATCGATGC
* * *
111977697 CATATCCCAGATATGGTATTGCACGAAGTCTCATAAT-GATGC
1 CATATCCCAGATATGGTCTTACATGAAGTCTCAT-ATCGATGC
*
111977739 CATGTCCCAGATATGGTCTTACA
1 CATATCCCAGATATGGTCTTACA
111977762 CACAATCTCG
Statistics
Matches: 87, Mismatches: 18, Indels: 6
0.78 0.16 0.05
Matches are distributed among these distances:
42 51 0.59
43 36 0.41
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (42 bp):
CATATCCCAGATATGGTCTTACATGAAGTCTCATATCGATGC
Found at i:111980527 original size:28 final size:28
Alignment explanation
Indices: 111980462--111980560 Score: 119
Period size: 27 Copynumber: 3.5 Consensus size: 28
111980452 CTAGTGAGTC
* *
111980462 CGCACACTTAGTGCTATATATTC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
111980489 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
111980517 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
111980547 CGCACACTTAGTGC
1 CGCACACTTAGTGC
111980561 CAATCTTGTC
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 22 0.35
28 22 0.35
30 19 0.30
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:111988327 original size:28 final size:28
Alignment explanation
Indices: 111988262--111988360 Score: 119
Period size: 27 Copynumber: 3.5 Consensus size: 28
111988252 CTAGTGAGTC
* *
111988262 CGCACACTTAGTGCTATATATTC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
111988289 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
111988317 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
111988347 CGCACACTTAGTGC
1 CGCACACTTAGTGC
111988361 CAATCTTGTC
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 22 0.35
28 22 0.35
30 19 0.30
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:111990271 original size:14 final size:14
Alignment explanation
Indices: 111990252--111990302 Score: 75
Period size: 14 Copynumber: 3.4 Consensus size: 14
111990242 AATCTTTAAG
111990252 GATATGCAATCTTA
1 GATATGCAATCTTA
111990266 GATATGATACAATCTTA
1 GATATG---CAATCTTA
111990283 GATATGCAATCTTA
1 GATATGCAATCTTA
111990297 GATATG
1 GATATG
111990303 ATATGCAATC
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
14 20 0.59
17 14 0.41
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (14 bp):
GATATGCAATCTTA
Found at i:111990288 original size:31 final size:33
Alignment explanation
Indices: 111990242--111990323 Score: 114
Period size: 31 Copynumber: 2.4 Consensus size: 33
111990232 ATGGAAATAT
111990242 AATCTTTAAGGATATGCAATCTTAGATATGATA-C
1 AATC-TTAA-GATATGCAATCTTAGATATGATAGC
111990276 AATCTT-AGATATGCAATCTTAGATATGATATGC
1 AATCTTAAGATATGCAATCTTAGATATGATA-GC
111990309 AATCTTGAAGATATG
1 AATCTT-AAGATATG
111990324 ATCTTGAATT
Statistics
Matches: 44, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
31 23 0.52
32 1 0.02
33 9 0.20
34 4 0.09
35 7 0.16
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (33 bp):
AATCTTAAGATATGCAATCTTAGATATGATAGC
Found at i:111990322 original size:21 final size:19
Alignment explanation
Indices: 111990252--111990325 Score: 81
Period size: 19 Copynumber: 4.2 Consensus size: 19
111990242 AATCTTTAAG
111990252 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
111990271 GATA--CAATC-T---TA-
1 GATATGCAATCTTAGATAT
111990283 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
111990302 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
111990323 GAT
1 GAT
111990326 CTTGAATTCT
Statistics
Matches: 46, Mismatches: 0, Indels: 16
0.74 0.00 0.26
Matches are distributed among these distances:
12 4 0.09
13 2 0.04
14 5 0.11
15 1 0.02
16 1 0.02
17 5 0.11
18 2 0.04
19 17 0.37
21 9 0.20
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:111995942 original size:7 final size:7
Alignment explanation
Indices: 111995923--111995993 Score: 74
Period size: 7 Copynumber: 9.7 Consensus size: 7
111995913 CTATTTCAAC
111995923 AAAAAAGG
1 AAAAAA-G
111995931 AAAAAA-
1 AAAAAAG
*
111995937 AGAAAAG
1 AAAAAAG
111995944 AAAAAGAG
1 AAAAA-AG
111995952 AAAAAA-
1 AAAAAAG
111995958 ATAAAAAG
1 A-AAAAAG
111995966 AAAAAAGAG
1 -AAAAA-AG
111995975 AAAAAAG
1 AAAAAAG
111995982 AAAAAAG
1 AAAAAAG
111995989 AAAAA
1 AAAAA
111995994 TGGAGAGGCC
Statistics
Matches: 55, Mismatches: 2, Indels: 13
0.79 0.03 0.19
Matches are distributed among these distances:
6 6 0.11
7 24 0.44
8 22 0.40
9 3 0.05
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.01
Consensus pattern (7 bp):
AAAAAAG
Found at i:111995970 original size:23 final size:22
Alignment explanation
Indices: 111995923--111995993 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 22
111995913 CTATTTCAAC
*
111995923 AAAAAAG-GAAAAAAAGAAAAG
1 AAAAAAGAGAAAAAAAAAAAAG
111995944 -AAAAAGAGAAAAAAATAAAAAG
1 AAAAAAGAGAAAAAAA-AAAAAG
111995966 AAAAAAGAGAAAAAAGAAAAAAG
1 AAAAAAGAGAAAAAA-AAAAAAG
111995989 AAAAA
1 AAAAA
111995994 TGGAGAGGCC
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
20 6 0.13
21 8 0.18
22 5 0.11
23 25 0.56
24 1 0.02
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.01
Consensus pattern (22 bp):
AAAAAAGAGAAAAAAAAAAAAG
Found at i:111997000 original size:43 final size:43
Alignment explanation
Indices: 111996952--111997175 Score: 144
Period size: 43 Copynumber: 5.3 Consensus size: 43
111996942 CGCCTTAATC
111996952 CCCTAAGCAGTAGAGTAACAGGTTAAATTTACAGATCTTATCT
1 CCCTAAGCAGTAGAGTAACAGGTTAAATTTACAGATCTTATCT
* * * * * *
111996995 CCCTAAGCAGTAGTGGAGCAGATCGAAGA-TT-C-G-CCTTAATC-
1 CCCTAAGCAGTAGAGTAACAGGT-TAA-ATTTACAGATCTT-ATCT
* *
111997036 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
1 CCCTAAGCAGTAGAGTAACAGGTTAAATTTACAGATCTTATCT
* * * ** * * *
111997079 CCCTAAGCAGCAGTAG-AGCAGATCGAA--GACCCG-CCTTAATC-
1 CCCTAAGCAGTAG-AGTAACAGGTTAAATTTA-CAGATCTT-ATCT
* * *
111997120 CCCTAAGCGGTAGGGTAACAGGTTAAATTTTCAGATCTTATCT
1 CCCTAAGCAGTAGAGTAACAGGTTAAATTTACAGATCTTATCT
*
111997163 CCCTAAGTAGTAG
1 CCCTAAGCAGTAG
111997176 TGGAGCAGAT
Statistics
Matches: 130, Mismatches: 35, Indels: 32
0.66 0.18 0.16
Matches are distributed among these distances:
39 1 0.01
40 5 0.04
41 44 0.34
42 18 0.14
43 56 0.43
44 5 0.04
45 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (43 bp):
CCCTAAGCAGTAGAGTAACAGGTTAAATTTACAGATCTTATCT
Found at i:111997048 original size:41 final size:41
Alignment explanation
Indices: 111996995--111997216 Score: 141
Period size: 41 Copynumber: 5.3 Consensus size: 41
111996985 GATCTTATCT
111996995 CCCTAAGCAGTAGTGGAGCAGATCGAAGATTCGCCTTAATC
1 CCCTAAGCAGTAGTGGAGCAGATCGAAGATTCGCCTTAATC
* * * *
111997036 CCCTAAGCAGTAG-GGTAACAGGT-TAA-ATTTGCAGATCTT-ATC
1 CCCTAAGCAGTAGTGG-AGCAGATCGAAGA-TT-C-G-CCTTAATC
* * **
111997078 TCCCTAAGCAGCAGTAGAGCAGATCGAAGACCCGCCTTAATC
1 -CCCTAAGCAGTAGTGGAGCAGATCGAAGATTCGCCTTAATC
* * * ** ** *
111997120 CCCTAAGCGGTAG-GGTAACAGGTTAAATTTTCAGATCTT-ATC
1 CCCTAAGCAGTAGTGG-AGCAGATCGAAGATTC-G-CCTTAATC
* * *
111997162 TCCCTAAGTAGTAGTGGAGCAGATCGAAGACTCACCTTAATC
1 -CCCTAAGCAGTAGTGGAGCAGATCGAAGATTCGCCTTAATC
111997204 CCCTAAGCAGTAG
1 CCCTAAGCAGTAG
111997217 GGTAACAGGT
Statistics
Matches: 129, Mismatches: 36, Indels: 32
0.65 0.18 0.16
Matches are distributed among these distances:
39 1 0.01
40 7 0.05
41 56 0.43
42 15 0.12
43 44 0.34
44 5 0.04
45 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (41 bp):
CCCTAAGCAGTAGTGGAGCAGATCGAAGATTCGCCTTAATC
Found at i:111997083 original size:84 final size:84
Alignment explanation
Indices: 111996942--111997396 Score: 643
Period size: 84 Copynumber: 5.4 Consensus size: 84
111996932 CAAAATTCAG
* *
111996942 CGCCTTAATCCCCTAAGCAGTAGAGTAACAGGTTAAATTTACAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
111997007 GTGGAGCAGATCGAAGATT
66 GTGGAGCAGATCGAAGATT
*
111997026 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGCA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
* **
111997091 GTAGAGCAGATCGAAGACC
66 GTGGAGCAGATCGAAGATT
* * *
111997110 CGCCTTAATCCCCTAAGCGGTAGGGTAACAGGTTAAATTTTCAGATCTTATCTCCCTAAGTAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
111997175 GTGGAGCAGATCGAAGACT
66 GTGGAGCAGATCGAAGATT
* *
111997194 CACCTTAATCCCCTAAGCAGTAGGGTAACAGGTT-CA----CAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
**
111997254 ACGGAGCAGATCGACGACGACTT
66 GTGGAGCAGATCGA--A-GA-TT
* * * *
111997277 -GCGTTAATCCACTAAGCAGTAGGGTAACAAGTTAAATTTGCAGATCTTATCTTCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
* *
111997341 GTGGAGTAGATCGAAGATG
66 GTGGAGCAGATCGAAGATT
*
111997360 CGCCTTAACCCCCTAAGCAGTAGGGTAACAGGTTAAA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAA
111997397 GTATAGCAGA
Statistics
Matches: 328, Mismatches: 33, Indels: 20
0.86 0.09 0.05
Matches are distributed among these distances:
79 35 0.11
81 1 0.00
82 31 0.09
83 4 0.01
84 222 0.68
85 1 0.00
87 34 0.10
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.25
Consensus pattern (84 bp):
CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
GTGGAGCAGATCGAAGATT
Found at i:111997683 original size:87 final size:86
Alignment explanation
Indices: 111997515--111997752 Score: 280
Period size: 87 Copynumber: 2.7 Consensus size: 86
111997505 ATTCGACGGA
* ** *
111997515 GAGCAGATCGAAGACATAGTAGATCTGACCTTCGGATATTTTCACATTGAAGCAGATCTAAGATG
1 GAGCAGATCGAAGACATAGTAGATCTGACCTTCGG-T-GTTT-ACGCTGAAGCAGATCCAAGATG
*
111997580 ATTTAGCATCCTTGTGTTTACAAG
63 ATTTAGCATCCCTGTGTTTACAAG
*
111997604 GAGCAAATCGAAGACATAGTAGATCTGACCTTCAGGTGTTTACGCTGAAGCAGATCCAAGATGAT
1 GAGCAGATCGAAGACATAGTAGATCTGACCTTC-GGTGTTTACGCTGAAGCAGATCCAAGATGAT
* *
111997669 TTGGCATCCCTGTGTTTACAGG
65 TTAGCATCCCTGTGTTTACAAG
* * * * * * *
111997691 GAACAGATCGAAGACATAGCAAATCTGACATTCCTGTGCTTACAGC-GAAGCAGATCGAAGAT
1 GAGCAGATCGAAGACATAGTAGATCTGACCTT-CGGTGTTTAC-GCTGAAGCAGATCCAAGAT
111997753 TTCAGCGTGG
Statistics
Matches: 130, Mismatches: 16, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
87 89 0.68
88 6 0.05
89 33 0.25
90 2 0.02
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (86 bp):
GAGCAGATCGAAGACATAGTAGATCTGACCTTCGGTGTTTACGCTGAAGCAGATCCAAGATGATT
TAGCATCCCTGTGTTTACAAG
Found at i:111998348 original size:36 final size:37
Alignment explanation
Indices: 111998307--111998379 Score: 121
Period size: 36 Copynumber: 2.0 Consensus size: 37
111998297 TAAGGATATG
111998307 CAATCTTAGATATGATATGCAATCTT-AGATATGATA
1 CAATCTTAGATATGATATGCAATCTTAAGATATGATA
*
111998343 CAATCTTGGATATGATATGCAATCTTGAAGATATGAT
1 CAATCTTAGATATGATATGCAATCTT-AAGATATGAT
111998380 TTTGCAATCT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 25 0.74
38 9 0.26
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.36
Consensus pattern (37 bp):
CAATCTTAGATATGATATGCAATCTTAAGATATGATA
Done.