Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_008285
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 221853
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.27
Found at i:14073 original size:29 final size:29
Alignment explanation
Indices: 14039--14128 Score: 180
Period size: 29 Copynumber: 3.1 Consensus size: 29
14029 CTCGAACAGC
14039 AAAGGAGAGGTGCTTTAGCAACTCGACTG
1 AAAGGAGAGGTGCTTTAGCAACTCGACTG
14068 AAAGGAGAGGTGCTTTAGCAACTCGACTG
1 AAAGGAGAGGTGCTTTAGCAACTCGACTG
14097 AAAGGAGAGGTGCTTTAGCAACTCGACTG
1 AAAGGAGAGGTGCTTTAGCAACTCGACTG
14126 AAA
1 AAA
14129 AGGCGTTCCT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 61 1.00
ACGTcount: A:0.33, C:0.17, G:0.30, T:0.20
Consensus pattern (29 bp):
AAAGGAGAGGTGCTTTAGCAACTCGACTG
Left flanking sequence: Indices 13539 -- 14038
CGAGCTACGCCCGGAACTGGCCGAATCTTCCAGCATGTCGGAAGTATACGTAAACCACTGAGAAG
AGGCCTCGGTTTGGTGATTCACTACCTCCCCAGACGAACCCGTCACAGCATACCATAGAAAGGGC
CCCAACAGGGGCAAAGCCGGACTCACTAGGTGGATGACTTCGATCCGTATCAAAGATCCCACGAA
CCCAGCGGAAAAGACCAAGAAGAGATTGAGAATCTCCCTCAGTGGTCCTTTCAAACGAAAGTAAT
AAATTCGAAATAAAAATAGGAAGCCCACCAGTGCGAAGAATGAAACGCACGTAGTGGTCAGAATA
GCGCTTCCTTCTGATCCTAGAAAACGTTTGAATGCTACGGAACTACCGAGCAGGAGTAACAATAG
TCGAACATAATTTTTCATAAATTTGAGATTTTTTCGTTTTTTTCTTTATCAGAGAGGGGCCCCGT
TAGGGGTATTTAGTAACTCGAGCATTTCTTGTTTACTCGAACAGC
Right flanking sequence: Indices 14129 -- 14628
AGGCGTTCCTCGGAGTGACTCGAGCACTTGTCTAGAGAGGTGCTTTAGCAACTCGACTGAAAGGA
GAGGCCAGGGACGGGGTCGAACCGTCATTCCAGGATTTGCAGTCCGATACATTGCCATTATGTTA
CCTAGCCAAACCCGCCACCTCATGTGCCAAAGTCAAACGGTTGTTCTTTCTTCCCTCTTTTTTAT
ATATATGCTGTGGCGGGCGGAGCGGCATAGCGAAAAAAAAGACATCAAGGTGACAGGATTCGAAC
CTATGGCCCTCTGTACCCAAAACAGATGCGCTGACCAGACTGCGCTACACCTCGTCTCACTCCCC
GAAGCATATAGATCCACCCGATCAATGAACACTAACTGAAAGCGGCCGAGAATGAGTAGATATCC
CCTACGGGGATCGAACCCGTGTCTTCGACATGAAAAGACGATGTCCGAACCACTAGACGAAAGGG
ACAAAAAAAAAAAAAAGCCATTCTTCATATGCCTCAGCTCCGAGA
Found at i:14150 original size:58 final size:62
Alignment explanation
Indices: 14039--14197 Score: 159
Period size: 58 Copynumber: 2.6 Consensus size: 62
14029 CTCGAACAGC
* * **
14039 AAAGGAGAGGTGCTTTAGCAACTCGACTGAAAGGAGAGGTGCTTTAGCAACTC-G-AC-TG-
1 AAAGGAGAGGTGCTTTAGCAACTCGACTGAAAAGAGAGGTCCTGGAGCAACTCAGCACTTGT
* * **
14097 AAAGGAGAGGTGCTTTAGCAACTCGACTGAAAAG-GCGTTCCTCGGAGTGACTCGAGCACTTGT
1 AAAGGAGAGGTGCTTTAGCAACTCGACTGAAAAGAGAGGTCCT-GGAGCAACTC-AGCACTTGT
** *
14160 CTA-GAGAGGTGCTTTAGCAACTCGACTGAAAGGAGAGG
1 AAAGGAGAGGTGCTTTAGCAACTCGACTGAAAAGAGAGG
14198 CCAGGGACGG
Statistics
Matches: 81, Mismatches: 13, Indels: 9
0.79 0.13 0.09
Matches are distributed among these distances:
57 5 0.06
58 39 0.48
60 1 0.01
61 2 0.02
62 31 0.38
63 3 0.04
ACGTcount: A:0.30, C:0.18, G:0.31, T:0.21
Consensus pattern (62 bp):
AAAGGAGAGGTGCTTTAGCAACTCGACTGAAAAGAGAGGTCCTGGAGCAACTCAGCACTTGT
Left flanking sequence: Indices 13539 -- 14038
CGAGCTACGCCCGGAACTGGCCGAATCTTCCAGCATGTCGGAAGTATACGTAAACCACTGAGAAG
AGGCCTCGGTTTGGTGATTCACTACCTCCCCAGACGAACCCGTCACAGCATACCATAGAAAGGGC
CCCAACAGGGGCAAAGCCGGACTCACTAGGTGGATGACTTCGATCCGTATCAAAGATCCCACGAA
CCCAGCGGAAAAGACCAAGAAGAGATTGAGAATCTCCCTCAGTGGTCCTTTCAAACGAAAGTAAT
AAATTCGAAATAAAAATAGGAAGCCCACCAGTGCGAAGAATGAAACGCACGTAGTGGTCAGAATA
GCGCTTCCTTCTGATCCTAGAAAACGTTTGAATGCTACGGAACTACCGAGCAGGAGTAACAATAG
TCGAACATAATTTTTCATAAATTTGAGATTTTTTCGTTTTTTTCTTTATCAGAGAGGGGCCCCGT
TAGGGGTATTTAGTAACTCGAGCATTTCTTGTTTACTCGAACAGC
Right flanking sequence: Indices 14198 -- 14697
CCAGGGACGGGGTCGAACCGTCATTCCAGGATTTGCAGTCCGATACATTGCCATTATGTTACCTA
GCCAAACCCGCCACCTCATGTGCCAAAGTCAAACGGTTGTTCTTTCTTCCCTCTTTTTTATATAT
ATGCTGTGGCGGGCGGAGCGGCATAGCGAAAAAAAAGACATCAAGGTGACAGGATTCGAACCTAT
GGCCCTCTGTACCCAAAACAGATGCGCTGACCAGACTGCGCTACACCTCGTCTCACTCCCCGAAG
CATATAGATCCACCCGATCAATGAACACTAACTGAAAGCGGCCGAGAATGAGTAGATATCCCCTA
CGGGGATCGAACCCGTGTCTTCGACATGAAAAGACGATGTCCGAACCACTAGACGAAAGGGACAA
AAAAAAAAAAAAGCCATTCTTCATATGCCTCAGCTCCGAGAATAGAAGTGAATCTTTTCTTTCTA
TACGAAATTCAAGATTCTGTTTGTGTTCCGTGAACTCAATAACCA
Found at i:35068 original size:27 final size:28
Alignment explanation
Indices: 35009--35082 Score: 132
Period size: 27 Copynumber: 2.7 Consensus size: 28
34999 AAAGAGCCTA
*
35009 GCTTTCTTGGTTTGATGAGCTTATACTC
1 GCTTTCTTGGTTTGATGAGCTTATACAC
35037 GCTTTCTTGGTTTGATGAGC-TATACAC
1 GCTTTCTTGGTTTGATGAGCTTATACAC
35064 GCTTTCTTGGTTTGATGAG
1 GCTTTCTTGGTTTGATGAG
35083 TGAGTAACAA
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
27 25 0.56
28 20 0.44
ACGTcount: A:0.15, C:0.16, G:0.24, T:0.45
Consensus pattern (28 bp):
GCTTTCTTGGTTTGATGAGCTTATACAC
Left flanking sequence: Indices 34509 -- 35008
TACCCTTTCTTTCTATGAGAGTCGCGAGCTTGTTGTAGTCGGTCCTAAAGAACCTTGCTGCTTAC
TTGCTATATTCCCGCGTTCTTGCATGGCTCGCGCGCAACCCCGCCCTGCTTCTCCCTTCCCCCTT
ACCGTCCAAAACTCAGAGGCCGTATGGAGTATAGCCAAGTGGTAAGGCACCGGTTTTTGGTACCG
GCATGCAAAGGTTCGAATCCTTTTACTCCAGATTATGAACACCCGATCGGATCTGTCAAGAACGA
GCTGACGACTACAGGGGAAGCTCTCATTAATTAGTTGATGAGGGGAAGCGGCTGACAGCAGTCCC
TGAGCTAAGCCTTGGAAATCTTAATGCCATAATGCCTTTCAAATCCTCCTAGCCATTATCCTACT
GCAATAATTCTTGCTAAGAAGAACGCCCACCCCTCTCTGTTTGATAACAGTTTCCTCCTAGTTTG
CTTGAAACAGATAAGCTTGCCCAACTGCAACAAAGAAAGAGCCTA
Right flanking sequence: Indices 35083 -- 35582
TGAGTAACAACTTCTGAGTTGACTTGGAAGAAACCATTGTGGATTGTTGTAGTTCCGTGCTAATT
AACAGGTTCTTTGCCTTTATTTAAAACAGGTTTGGCGTTGCATTCATCTAGGCTGTAGCCTCTCA
TACGACAAGAAGGATTTAGATCGGGGGATTTTCGTAAATGATTCGTTGCCAGCGCCCAAACTTTC
CCATCCCCAGCCAAATACGATTGGGCATATCCTTCAAGAGATCAACCAATACGCATACTGCGCAA
CACTAGGGTGGTCGTAGATCAGCTAACTGGGGCGTCCATTGGTGGAACTCAGCCGGAACCTCAAT
ACTGTGTAGTGCCCGAAGAATTACTACGTAATTTTGTCTAGTTTAGTGATAGCAGTAGGTCGGTT
CGCTGTGGCTCTAATGCCGGCGATGAAGCAAACAAATAGGGTGTGATAACATTCAGACCTATTTG
AGACTAAGAGGGGCTGGTTACCGGAGGTATTCCTGTCAGCCTTGT
Found at i:47219 original size:18 final size:18
Alignment explanation
Indices: 47191--47234 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
47181 CACCCCAAGT
* *
47191 GAGCGGAATCCTCCTGTTA
1 GAGC-GAATCCACCCGTTA
47210 GAGCGAATCCACCCGTTA
1 GAGCGAATCCACCCGTTA
47228 GAGCGAA
1 GAGCGAA
47235 GGAAGGAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.18
Consensus pattern (18 bp):
GAGCGAATCCACCCGTTA
Left flanking sequence: Indices 46691 -- 47190
CTGATTAGCAGCACAAAGATAGCACGGTGGAGTAAACAACGCCAAGCCTACGCACAACAAGAAGG
AACAGTGAAGCTGCCAAGCATCAGCATTACCATAAATGTGAGTTAATTACTGCAAGGAAAGAGAA
GGAATAAAAGACAGGTCTTCAAAGGAACAATGATCGGACGAAGGTCTCGAAATGGCACAGTAACA
AAGGAACAACTGTGCTGGACTCAGCACCTACCATAGGTCAACGTCTTTCGAGAAGAAGTCCTGGG
GAAGATGTCTAGGCATAAGCAGCACCCGGTCATAAGTAAACAAATGTTGCTTAAGGAGCCAATAC
AACACAATCAGAGGACTACTTTACGCTTGAGAGGGCCGATCAGCTCATACCAACAAAACAAAGAA
GATGGCAATGCTGTGGAGTAAACCGGCAGTAAGTAAATACCTGGGAAAGGCTCGGTAGCACACCG
GAGGCAACAAAGAAAGAGAGGTGCATACGCTACTCCACCCCAAGT
Right flanking sequence: Indices 47235 -- 47734
GGAAGGAAGATAGAATAACGGCTTAATCCTCACACTATTGGTGCTTGGTACAACACAGTAATGTC
CTCAATGTCTATAAATGGCACAATAAACACGATACCTCGGATGAAGGACAGTCTCGAAATGGCAC
AGTAAACTCGGACGAATAAAAGAATTGTAATTGAAAAGGCTACACTTCCTCGAATAAAAAGGACT
TTATCGACACAGTAAACTCAACAAAACACTAGGAGACAATGGGCACAAGGAACCAAGACAAGACA
CTGGTAACAGGAACAAGGCACTGATCGGTGCCACTCCTTAAACAACAGCTTCTTCTCAGCAGTGA
ATGGTAGTAGTCCGAAGTAGCAACAGTCGACTGTAAGGAAGAAGAAGCATACCAGATACCGGTCA
ATCAACAGCCGATAAGTCGTCAATTTTCGAGACAAACAAACCAAGCTTCGAAGCTGAGGAAGCAG
TGCACAGGGCAGGAATGCCGATAAGCAAGGGAATCTTCAATGGAT
Found at i:54712 original size:15 final size:15
Alignment explanation
Indices: 54692--54723 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
54682 TTGGCATTTC
54692 TCTTTTCTTGCTCTT
1 TCTTTTCTTGCTCTT
*
54707 TCTTTTCTTTCTCTT
1 TCTTTTCTTGCTCTT
54722 TC
1 TC
54724 GGTAGTGGAC
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:0.00, C:0.28, G:0.03, T:0.69
Consensus pattern (15 bp):
TCTTTTCTTGCTCTT
Left flanking sequence: Indices 54192 -- 54691
CATGCCAGCCTTGACCAATAGATCAGTAATGTTTTGAGAAAGATAGAAGCAGAAGTTCTACTCAC
TTTTTGACCAAGATTGAGCCAGATACTTTATAGAAAAGATGGCATTTTTGATGCATACTATGTCA
TCAATATTCAGAGGATTGGACCATGTGATTCTAAGATCATCAACATATACTAGAATGTACAGAGC
ATGACCACCGCTCATAAAGAGAGAGAGATAAAGTTGACTGAAAACCAAGCTCAGAGAGTTCTTTC
AAAGCAGCAAGAGTAGTCATGAATCATTCTTCCTTCGATTGGATAATTCCCATTGGATTGTCAGC
TATTGCATCAAATGTTCCAGCTCCGCCCAATTCTCGAAGTCATGTTAGGAGAGGTATTTCTTACT
TGACTAAAAAGGTACGGAGTGACTTGACCCTTGGGAGAGGTATTTCTTACTCGGAGAGGGAGGCC
ACTATCAGCTACTCTGCAACTTCTCATCCCACGGGTTGGCATTTC
Right flanking sequence: Indices 54724 -- 55223
GGTAGTGGACGGGCTAAAGGGATTTGCTTACGCGCTAGCGCTTTCGTTCACTTTTCTCACATTTC
TAGTACCAACTAATACTAATGAATTCGGGCGAGAGTCTTCAAGTATAAGGAGATGGTAAATAAAC
AAGTGCTCCAGTTCCACCGGTTCCTAATTAATGGGGGAGTTGCTGCGCTCTCTTCTATGTAAAGA
GAGATTTTCCACGGTAAAACAAGTGCTTGGCTTTGTTACTACATCCCGATAAATAGGTTAGGTTA
CTTTCTTGCTACGCCCGTTGACTAACTAGAAGAAAGAGAATGAATAGACAGGATAACTAGTTCCC
GTTGGTTGACAACAGCTCCCTTTTCCTTTAGCTTACCAGTTATACCTAATGTGGCGCGGTCGACA
TATTACTATAGGGCGAGCTATGTTAGCCAACCCTTTCCTCAGCTGCAAGGTCTCTGCCATAAGTT
TCAACCCAAACTCAGGCAACTTAAGCACCGGCTCTAACTTGATAG
Found at i:75960 original size:21 final size:21
Alignment explanation
Indices: 75936--75992 Score: 114
Period size: 21 Copynumber: 2.7 Consensus size: 21
75926 TATATTCCTA
75936 CTGTTGTTATCTGTTAATATG
1 CTGTTGTTATCTGTTAATATG
75957 CTGTTGTTATCTGTTAATATG
1 CTGTTGTTATCTGTTAATATG
75978 CTGTTGTTATCTGTT
1 CTGTTGTTATCTGTT
75993 CTCTGTCCTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.16, C:0.11, G:0.19, T:0.54
Consensus pattern (21 bp):
CTGTTGTTATCTGTTAATATG
Left flanking sequence: Indices 75436 -- 75935
TGGGAATGCGTCCTTTGTCCGCTTCCCTTTCCTTGGTTGTGTCTGTATTACGGGCTGCTTTCTCG
ATACTTCTATTGTTGCGTGGAAGTGCTGCTTTCTTCCTGATAGTTGTATCCCCGAATCCAACTAT
GATTTGCTGAGCTGTTGCAGCTCCTTTCCTTTCTTCTTTGTGGGCGGACTGAGAAGGGCCCGTAT
ACCGTACGTATCCCTCCGGTGATTGTCGTTCTGTCTTCCCTTTCCTTCCGGGTTGTCCGGGACTG
GCTTCAATGTTCGGGTAGCATTACCTTTGTTCTGCTCTCCTCTCTTTGAAGTGTACTTTCCGGCC
GAGAAGTAGCTTTCTTTCTAATATAGGTTTTTCTCTGACGACTAACCTATATTAGTTCCTGCTGC
TACTGTATGTTGTGTACCGAGTGCTGGCTGTTATAGTATGGTTATAGCGTTGATGGATTGTTTGT
TATCTCCTTACTGCTATTAGCTGTTGTTATAGGGCTATATTCCTA
Right flanking sequence: Indices 75993 -- 76492
CTCTGTCCTTACTGTTGTTAGGTGGGAATAGGTTGTTAGCGTAGCTTCTGTTCCTATGCTTGAAT
GTGTAGTGAAGGAATGGAGGGAAGCTCTTATTAACGGCCGGAGCTAAACTCCGCTTAGCCCGGAC
AGGGACAACCAAAGCAGGAACTTAGAGACTCCTAGTAATACATCATACCTACTAAATCAGTCTAT
TGGGGCTATAGGTGTTCCCCCCGGGAAAATAACCAATGGAGTTGATTACGTTGTGAGTAAACGAG
GAAAGGCGTAACATTCCATAGTTAAGGGTCGTTCATTAGCCCTACTAGTCAAGCACGGGAAGCTA
ACTTTCTATCAACAAAGCTAGCGGGGTTTCCGGGCCTTGTTTTGGTCCAATGTGAAAAGCTACAT
CCGAGGAATTGTATGATTCAGATACCTGACGAAATAAAGAGAGAAAAGATCGGGCGGGATAGCTG
GGATGACCTATTTCAAGATCAGATGATCCACCAGCTTGTCTGCTT
Found at i:89177 original size:12 final size:12
Alignment explanation
Indices: 89160--89186 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
89150 GAGGTTCCCT
89160 CTCGAGGAACGC
1 CTCGAGGAACGC
89172 CTCGAGGAACGC
1 CTCGAGGAACGC
89184 CTC
1 CTC
89187 TTCTCATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.37, G:0.30, T:0.11
Consensus pattern (12 bp):
CTCGAGGAACGC
Left flanking sequence: Indices 88660 -- 89159
CCATGCCCCACTATACTTTCTTCTAAGCCAGCTTTTCACTCTTTGTTTTCGTATCATCTCATTGG
ACTTATTTCAAACAAACTCGTTACACTCGCACCTGATACACGGGAACGAAGAAAACTACATGGGG
AGCACGCTTACACCTGCAAGAACTAAGGGTCCAGACCAAGCACAGACAGATAGAACCAGACATAA
AAAATCTTCCTTTGCACAATGCCTATCAGATATGGAAGGAGGATCTTTCAAGAGAAACTTCCATT
TGATTTTCTAGCTCCGAGAGCTACTTTAATGGCTTGTGCCCATAACAAGTAGTTATGACCATTCA
ACTTTACAGAGGTAATCTGCATACTGACCTGATCAGATGAAGTGTTGGAGGCGGATTTATTTGAG
TTAGAATCAGCCATGACGAATAACGTTGAGAAAGACCACCCAAGAAAGAATAAAGAAGCAACCCC
CACAACCATGGAGAATATGGGAGCAAGCCTAAGAAGAGGTTCCCT
Right flanking sequence: Indices 89187 -- 89686
TTCTCATTATATGATTTGTGTGAACACAGTAAAGTCCCACCATAAGCATTCTCTGCATCTCCACT
GCATTAAATGAAACTAAACGTCCCTTTCAACTTTGGATCAACTGCCTCAATCAGTTTCCCTTTCT
CCCAGTAGCTCCATACCAATCAACAAGCACCGTACCAGCATCATCCGACAGGCCTTTTCCCTGTA
GCTACCTCTAGCACCACTAGACCGAAGCTGTAAACATTTCTGTGATGGAACACCATAATAAACAT
ATTAAGGAGCAAGATCTCCCATTTTCCCAGCTGGTATTGTAGCTTCCCTGGTTATAGAACTATGT
TCATAGACTTCTGCCTAAATCTCCTAGCTTGGCATTGAATTCTGCATCAAGCATTATATTTCAAG
TCTTAACTAACGTCCCTATGAATTCTTTCTCTCTCACATTCTGAATGCAGATATGATAGAGCAGA
CGCAACTCCGAGAACTAGATTCAACCTTTGCTTTCTTTTCCTCTG
Found at i:113498 original size:51 final size:51
Alignment explanation
Indices: 113400--113498 Score: 144
Period size: 51 Copynumber: 1.9 Consensus size: 51
113390 GCAGGGGAGT
* * *
113400 CCCAGACGGAAGAGAGTGAACCCTCGGTAAATCGACGTAGTCTCGAGGCAC
1 CCCAAACGGAAGAGAGTGAACCCTCGGTAAATCGACGGAGTCCCGAGGCAC
* * *
113451 CCCAAACGGAAGAGGGTGAACCCTCGGTAAATCGGCGGGGTCCCGAGG
1 CCCAAACGGAAGAGAGTGAACCCTCGGTAAATCGACGGAGTCCCGAGG
113499 AAGCTGGGCC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.27, C:0.27, G:0.33, T:0.12
Consensus pattern (51 bp):
CCCAAACGGAAGAGAGTGAACCCTCGGTAAATCGACGGAGTCCCGAGGCAC
Left flanking sequence: Indices 112900 -- 113399
GAAATCTATCACTCAATCGCTGGCCGCTCTGTCATTGTCTGATTTTAGGTTTCTGATCACACTCG
AAATTATGTATCTACTTATCGTATTTTTACCCCTGCTCGGTAGTTCCGTAGCAGGTTTTTTCGGA
CGTTTTCTAGGATCAGAAGGAAGCGTTATTCTGACCACTACGTGCGTTTCATTCTTCGCACTGGT
GGGCTTCCTATTTTTATTTCGAATTTATTACTTTCGTTTGAAAGGACCACTGAGGGAGATTCTCA
ATCTCTTCTTGGTCTTTTTCATCGCCGTGGTAATATCTTTGATACGGATCAAAGTCATCCACCTA
CTGGGTGGTCAGGCTTTGCCCCTGTTGGAGCCCATTATATGGGCTGCAGTAGGAGGGGGAGCACT
TCCTTCTACGGGCCCTAACGGGGCGGAGAGCTCATCCACGTGGAAGGAGGATCCGTTTGAACTTC
GAGTTCTCGAGGAATCATTCTCGGACTCCCCCCCGGCAGGGGAGT
Right flanking sequence: Indices 113499 -- 113998
AAGCTGGGCCTGCGCTTCCAGCTAATCCAGTCCCTTCCGGGGGGGACGAAGCTGGGCCATCTGTC
CCCTATCCCTACAGAAGGGATGAAATGATTGGGGGGGATAGCGTGGAGGCGATAGAACGCCGCCT
TCTGGCTCAATTTGCTTATCCCTCATACGAGGACATCCAATTAGCCCACATTCAAGCCGAAGACC
TCTTCGAGGTCAAGGTAGAGATTGTGAAGGTAATGGCTGGCCTTGATCCAACGGGGGATTGGATG
GGGCGGGGAGCTCGGGCCCTCGACAATCCCCGTACCGCCACGGGAGAGCACTCCTTGGAGCAGTT
ATACCGCCTGTTAAGTGCTCTAAATGAGCGCGGTAAAGAGGCCCCAGAATTTAAGGAACTCAAAA
ATAGAGTGTTCCTCAAGAAAGGCGGCCCTGGGGGGGACTCTATCGCATAAGTAAGCAAGCTACCT
TTCGGGATGGGCTTTTGCTTCTTTCTTTATTTTTCGATATGCCGC
Found at i:116749 original size:14 final size:14
Alignment explanation
Indices: 116730--116759 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
116720 TAACAAGCGA
116730 CGGAGGCGGGTAAG
1 CGGAGGCGGGTAAG
116744 CGGAGGCGGGTAAG
1 CGGAGGCGGGTAAG
116758 CG
1 CG
116760 ACGTATTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.17, G:0.57, T:0.07
Consensus pattern (14 bp):
CGGAGGCGGGTAAG
Left flanking sequence: Indices 116230 -- 116729
CTCTTTCTCTATCTCGGTCTCGGTTTAGCGATAGGTTGCTCTCAAACGATAGCCAAGTTTGATTT
GCTGTTTTAGCCTGGGTACGTACACATACGCGTACTATAGAATCTAGATGTCTGATTGGTCTCCA
TAGCTTGATTTGCTTTCCTCCTAGCTGGATGGGTTTCTTGCTTTCTGCCTTGATTGAGAACCTCG
AATCGTTGTTATCGTTTTTAGTAGAATTGGGTTCTTAATAATAGGCATGCTGTCTCCTCTTTTGA
TTATTCCTACACGCACGAGAGGAGCAGACGGTTTTTCGTTGATGGGCAGGTGATAAGATCTGTAT
TGGATAAGTTTCTTTCACCTGTACCATGATATGCCTGATTGGCTGTTTATAGAATTGGTCCAGGA
ATGCTGTCACTCAATTACTAGGTCTTCTTCCCACGTGTACGTAAATATAAGAGAGTGAAGGCTTT
CACTAGCGCCTAACGTTTTAGCTAAGGGAAGCAGATAACAAGCGA
Right flanking sequence: Indices 116760 -- 117259
ACGTATTAATAGTTAAGCGACGGAGGTAAGCGGAGGAAGCGTAGGAATCGGTTACTCAACTGCCC
TTAGACTAGTGTAGCCCGATAGGACTCCTTTAAATGAGTCCGACGGCTAACAGCTAATACCTGCT
ATCTCGGCAACTCCTACCGATCAAGCAAGGAAGAAAGCAACTCTCGCTGGAGGGACAACTCCAGC
TCAGGCAGAGCTAACCATTGAAGAACTAACTGATAGAACTACAAGAAACCAAAGGAAGAAGGTAG
ATACTTAAGTTAACAGTCAAACAAAAGAAAGCAAATGAAGGCACAAAGAAGGAACAAAGGAACAG
ACCTTAGAGAAGAAGGAGAACAGTCACAGATAGATTCAAAGCTAAGGAGGAAACGAGTAAAGAAA
ACAGATGGCATCTTATATAGAGTATAGAGAAAGATTCTCACAATAAAAACAAGAAGGAGAATTTG
ACTCTTCAACCGGAACCCGCGCCTGTGCGCCTACCGAGCTAGCAA
Found at i:119272 original size:19 final size:19
Alignment explanation
Indices: 119248--119286 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
119238 GCCAAAGGAC
119248 AGATTTTACAAATGGTCTG
1 AGATTTTACAAATGGTCTG
119267 AGATTTTACAAATGGTCTG
1 AGATTTTACAAATGGTCTG
119286 A
1 A
119287 TTGACCTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (19 bp):
AGATTTTACAAATGGTCTG
Left flanking sequence: Indices 118748 -- 119247
GTTGGAGTTGGTACTTCAACCGGTTCTTTTACAGTCCCACCTTCATAAGGAAGAACTGCCTTGAA
GGGTAAGGCAGGTCAAAAGAGTGGGCATCTTTCTTACCTATGGCTAACTCAAAAAAATCTGAGAG
GGGAGGTTGCTCTGCTCTGGATGCACCGGTCAGAACGGGGAAAGCTGCTCTTAGAGCTATCTCTT
TCCGATCTAGGCAGATGGTTGAATCTAATGCGAGTAGCACTAGGCCTAGAGCGGAATATTAGGTA
GTACGAGTTGCTATATTTTTCCATCCCCCTTCGGGAAGAAACTCTCTTTGACTTTTGAGAAGATA
GACCCAAGTAGCCCTTGAATGATCATCCATTATGGTTCAAAAATATCGAAAACCTTCTGTTCTGT
GGTTTCAACTGAAAAAGGGCCCAAAATGTCAATGTGAATCAGATCAAAAGGTTCATCACAAATGT
TATTATGAGATTGAAAAGGTAAGTGTTTTTGTTTAGCCAAAGGAC
Right flanking sequence: Indices 119287 -- 119786
TTGACCTTTTTATTCTTATGAGTAGGGAGTCAATCTGAAAGGATAGCAGTTTTAGAAGAAGGATG
GAGCAGAAAGATAGAAAGATCAGTTGCTGGAAATCAAATATGTAAATAGTCGAGTTATTGCATTC
CTCTCACAAACTATCAATTTCATAAGAGAAGAAAGATCGTTTTTTTAAATTATCAATTTCATAAG
AGAAGAAAGATCGTTTTTAGAAAAGAAAGAACGTTTTGATTCGAGGCGGATCCCTTTTTTCTTTG
CCTTTACGAGTAAGAAAGTGGTTACGCTCCGCTGGGGAGCCGGAACTGTAAATTCCTACTGTGGT
TCGAGTCCACAAACCACTGAGAGCTCTGGCATCGGTTCAGGCTAAATCCTGAAGAAAGCTAGAAA
GCGCTGTTTGATGAGCCTTTACGAGTTGAGTAAACAAATCAATCAAAAAGCTTTCTCCTTAAGGT
TCTCACACTCTAATGACAAAGCGGCCGTTCACGTCAAGAATAGAC
Found at i:158738 original size:15 final size:15
Alignment explanation
Indices: 158718--158747 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
158708 AGGACCTTTG
158718 GATGCCAGTTTTCTA
1 GATGCCAGTTTTCTA
158733 GATGCCAGTTTTCTA
1 GATGCCAGTTTTCTA
158748 TAAGAAGGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (15 bp):
GATGCCAGTTTTCTA
Left flanking sequence: Indices 158218 -- 158717
CAGGGATTCCTTAACCAACTACCAATTAAAAGAGTAAAACACTTCCTTGGGATAAACTGATTCAA
ACAGATAGGCAGATTGAAATGGAACTTTCTACAAACAAAAACTCCTTACCTTACTTGGCTTACCT
CTCCCATTCCTCTAATCCCTAACCAAAACAAACCTAATCTCATCACCTCATTGCTAATATTGCTG
GGATTCCCTCCTAACCAACTAATCTCCTTACCTCCTATTCCTGGGATTACTGGGATTACTGGTTC
TCCCATTCCTAACATTCCTAGGAATTCGCAAGACACCATAGGCAACATGGGAATCCTTGATCTAC
TTGTTTCTCAGATTCCCTTTGAGGTTAAAAGAGTGAGTCGATTCGACGAGGCTAGCTTGTAGGTT
AGCCTTTAGTTTCCGTCAAAGAATTGGATTTTCATACTTCCTTCCCCTTTGGTCGATTCAAGTGG
ACTTTATCCTAGATTTGTCGATTTCTCCCTGGTTGAGGACCTTTG
Right flanking sequence: Indices 158748 -- 159247
TAAGAAGGGTCAGCCTTAAAGGAAAAAAACCAATCCCAAGGTAAGGTCTAAACTGATCTAATCGG
TAAAGCCGGAAAAAGAGCTGAGTTTAACGGCGAAAAGCTCCTTTCAAAGGAAGGAGTGACAGAAA
AGGTCGGGACAGTGGCTGCTACCGCATTGACTTCGGAAGATTTGGATGTGTTAAGGCTAACCTCC
CAAAACTCACTAAATTTACGTTGCTTCACAAGGTAATTCCTATTTGCTTACTTGTTAGAGTAAGG
AAAGGAGAAGAGCTTCAAGGTAGAACCTATGAACGTAGATCGCATATAATGTGTCGATCTTATCA
CCTTACCAACCAGGGCCTATGTATACGAAACTAGTGCACCATCTGCAATCGCTATATATACCTGA
CCTAGCTTCTCGTGTATCACCCTTTCTTTCTTCCTTTCCTAACTATCACTGACCGCGGGGGAAAT
GCTGACAGAATGCCAATACTTGTTCGATCGAAATTCTAACAGTTG
Found at i:161299 original size:18 final size:18
Alignment explanation
Indices: 161276--161317 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
161266 TTTGCCAGAC
*
161276 GATGGATAGG-ACCTTCTT
1 GATGGA-AGGTACCGTCTT
161294 GATGGAAGGTACCGTCTT
1 GATGGAAGGTACCGTCTT
161312 G-TGGAA
1 GATGGAA
161318 TACGCCTCAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.24, C:0.14, G:0.33, T:0.29
Consensus pattern (18 bp):
GATGGAAGGTACCGTCTT
Left flanking sequence: Indices 160776 -- 161275
TGGGGATAAGTCCTTCGACATTATCTTAACCCAGAACCGCTTGGCGAACTCAAGACAACCCGTCT
CAGATACAATAGACTTGGCATCAGATATATCTACTTGCAAAGCATCAAGTAGAGAACGGTACTCC
TTAGCCACACTACGATCGGCAATGACGATGTCATCACCTAACAAAGCGTAGTCGAGAAATGGTCT
CGTCTGATGAGGATATGCTCGTAATGCTGCCAACCACACAATAGCATGGTGGGACAACGCGAATA
GAGCCCAGGAGCCGTAATAACCCAAAGGTTGACCTGCAACAAACACAACTTCGTCATGCCGTCCA
GTAACGGACTTCAAAGAGCATGAGTTGAGTGCTAAGGCACCATTGACAATGCACGATGCCATCGT
TTGACCGAAAAGGCACGCCATAAGCTCATATATGACTGGAACGGGCCACCGATCGGTGGCAGCGC
TCAAGTCAAAACTTGCTATAAATCTTGGGCGTCTCTTTGCCAGAC
Right flanking sequence: Indices 161318 -- 161817
TACGCCTCAGAACAGACATACCCCACACATGCACGGGGTATAACAGACGTTGTTTAAACCAGTTA
CCGATTACAAACAAACGCCGCTTTCCGGCACCCTCTAAGGACTGAGCCAAACGTCCGGAATAAAG
AGGTTGAGAAGAACGGTCGAAGCCCATGGCGAGGGAATCAAACACCAAGCCAGGCCAAGCCTCAT
AAAACCTCAACCCTTCATTAGCTGCCCAGGTACTAAATTTCGTATCAAACGGGTACAAAGTATAC
CCAGGTTGAAAGAGAATACCTGGACTGAAAATACCATCCGGTTCTGAATGAATGATTCGCAGCTG
GCGGGCAAAAGCCGCGGTTTCCAAGAACATCGCAGAGAAGAAACAAGTCTCCTTCCGTTCTTTAG
GAGCAGGCTGCTCATCACTACCTGTAACCTTTTTTTTTTAGACCACATGTGCAACTGAACCTTCG
GAACAGCCTTTCTTCTGGCTGATCAAACAATGCTTTCTGTCTTTC
Found at i:162109 original size:18 final size:18
Alignment explanation
Indices: 162077--162111 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
162067 GGTTCTCGTT
**
162077 CTAGTTGCTTTTTCTCTG
1 CTAGTTGCTCCTTCTCTG
162095 CTAGTTGCTCCTTCTCT
1 CTAGTTGCTCCTTCTCT
162112 TCGTTCGTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.06, C:0.29, G:0.14, T:0.51
Consensus pattern (18 bp):
CTAGTTGCTCCTTCTCTG
Left flanking sequence: Indices 161577 -- 162076
CCCAGGTTGAAAGAGAATACCTGGACTGAAAATACCATCCGGTTCTGAATGAATGATTCGCAGCT
GGCGGGCAAAAGCCGCGGTTTCCAAGAACATCGCAGAGAAGAAACAAGTCTCCTTCCGTTCTTTA
GGAGCAGGCTGCTCATCACTACCTGTAACCTTTTTTTTTTAGACCACATGTGCAACTGAACCTTC
GGAACAGCCTTTCTTCTGGCTGATCAAACAATGCTTTCTGTCTTTCTCGAATATATCTTCTCGTT
CATTTGATCTATTCCTTGGAATTCCGGAATGTGGAGTATATGTCTCAAAGTATCCCGTTGTATCC
CGTTGGTCTCTTTGAGTTCGTTACTCTGGTTACCGGTGTAGTTTCAGTGAGCGTAGTGAACGGCT
CGTATTGCTGCTAGTCCGTCTGTCATTTCTAGAATATGTCTTAGTATGTGCCGTAACATGGAAGT
ATTTGCCTAGATGTCTGCTGCATCGAATGCCCTGTGGTTCTCGTT
Right flanking sequence: Indices 162112 -- 162611
TCGTTCGTAATAGGCATGATAGTTCTGCCAGTTTATGAGCTCACTAAGCCTACAGCCAACGCTAT
ATCTCTTGCTATGGCTCTTAGCTCAGGGTGGGATCCAGTGTGGTTTGAATTCATTGCCTTTTACG
GGATCCCCTGTGGACTAATGGTAGGGTATGGAAAAAGTTAGATAGAGTGTTGGTGAACGAGATGT
GGTCTCATAGATATCCAGCGACGCATGTTACACATTTCATTTAGCAAGGGGTCGATCAGATCATA
GGCCACTCCTTGTTAAGTGTAATTTCGGGAGTGGTTGGCGGCAAAGCCCCTATCCTTTCAATTGA
TAGATTCCCTTTTATTATCACTGTTGGAATATTTTTGAAGACGACTTGGTCAGGGCGGTTAACAA
TTTATTTGCTTTGCTTATTCCAATACTGGGATTGGGTTGGCTTGGCCATTTTTTTTATCAAAACC
ATTTTTTTAGCGAAGGCTTTCACTCAACTTTTTCCTTCACTAGGT
Found at i:167570 original size:17 final size:17
Alignment explanation
Indices: 167548--167586 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
167538 GCCTCCCTAT
167548 TATATTATGAGAATGGA
1 TATATTATGAGAATGGA
167565 TATATTATGAGAATGGA
1 TATATTATGAGAATGGA
*
167582 GATAT
1 TATAT
167587 GAAAGAAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.23, T:0.36
Consensus pattern (17 bp):
TATATTATGAGAATGGA
Left flanking sequence: Indices 167048 -- 167547
TCGATTTTAGGAATGTTGTAAGATATTGTTTTTGATTGACGAGGTCAAAACAGCCTGAAAAAGTG
CTAATATCCCGGGATTTTTGGATGCATTTTGATGAATCAGTGGAGCTTCGAAAGATTTAAGCTTA
TGCTTAACACATGCAAGTTGAAACTGTTCAATAATAGGAAAAGATGACTACGATAAGGACAGCTC
AGCATGGCTATTAGTAGGACTCCCCTTGGGTACCTAAGACAGGCAGAGGCAGTAAGCCCAATAAG
AAGTCCTCGTTGCTGACGTTTACTTGCCCCACACATATTACTGGAATAAAGGGTGATCAGAGCTG
TCTTTTTCTTTAAGCGTACGTTAGGTCTACTGACTCAATCAACCTCTTGGCCAAGGCTCTATACC
CATAGCCCTTACCACTCTTAACATTATCTTAAAGATAAGGACCAACGGCAAACAGATTCAAGTCA
GTCGGTCATTTAACTCTTACAATTGTAAGGTCAGCGCCTCCCTAT
Right flanking sequence: Indices 167587 -- 168086
GAAAGAAATGCAAAGGTCAGTCCAGCACACTCCCTTTTCTCGTTTAGGCTAATCTCTTAGGTAAC
ACATCGATAGTAGTTCGTTTACTCTTCCACAGCACAGCGGTGTGCTTGTGCTGAATAGATAATCC
AAGCAATATAAGTGCTGCTCTTCCTAGCGAAGCAACCACAAAGGCTATAGTAGCACCAGAGGAGC
TATCTGCCTCGTCGAGTGGCAAAGTGATTCATTTATTCTGTAAGTGGAAACTGAGGACTGGGCTA
AGTCTTTTCCTCTAAGGTAAGGAATGGCTCCCTCTAGATCAAGGATTGTGCTCTTTCAGCATAGA
TGCGATGCCCTAGTAGCTCTTCCAAGGGCGGGTTCCTTCCGAGAAGGGTATGGCGCTCTGGCTCT
CTTCTTTCTTCTGGTTGACGTCGATTCAAAAGCTCCACAGTAGCACGTGGCCACAGATAGAATGC
TTTACAAGGGACAAAGGAACTGTGAGATCGGAAGAAAAGCGTTAT
Found at i:186984 original size:12 final size:12
Alignment explanation
Indices: 186967--186991 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
186957 AGTGAATGAT
186967 TGAACTGATAGC
1 TGAACTGATAGC
186979 TGAACTGATAGC
1 TGAACTGATAGC
186991 T
1 T
186992 TCAAAAGGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (12 bp):
TGAACTGATAGC
Left flanking sequence: Indices 186467 -- 186966
GGGGCGAAGCCCACACCACACAGTTGTTCAATTTGAATGTCATTCTCGACTTTATCCCTTCTCTA
ATCTAATATCTAATAGGGCTGGGTGTTTGATTTCAGGCCCTTTCGAGGAGGGTATCTGATTGGTT
AATGTCAGCCCGGCTCGCATGGACTTCCGGTGTTTCTTAGTTGACAACTGCATTGAAATTAGAAG
TTCTCCAGTTACTCCTGCACAAGCAACAGCAGTTATGGATCTGATTGAGGAGCGCTAGGAAGAAT
GGATCGAACGAGAAGGATTAGAGCAAGTTCCGTTCTGGGTGAATCAAGAAAGGAAGTTCCGGGAG
TTCTGTGTCCCGAAGAGAGAAAGCTCACTAAGAACTAGCTTGGCCGTAGTTCCTCGTAGGAGATA
GACGGACCAAAGGCGTTCCTCGAGAAAGGCTGACCAATTGCAGATTCCGAAAAGAAATAATTTCA
CTGTCCTAGTTATGCGAGACGCCCTCTTCCTAGCGAGTGAATGAT
Right flanking sequence: Indices 186992 -- 187491
TCAAAAGGTGACTCTTCTCTTTCCTTTTGGTTAGCTTGCAATACAATGCGGATCAGCGAGACTTG
CTTGAATGCTTGCTAGACTTCCTTATTCTTCTTTTGAAAGCAGCTTTTACTCAGATAGCTACTTC
TGCAAGCTAGTAGGTTCAGTAGTCACAACTGATTACCCTCTTGTTTGGAACCTTGAGACGAAGGC
TAGCTCTTTCCCTCTCCTTTTAGTTTCTTAGTCAAAATGGGTGATGGTATTCTGCCTAAATAGTA
GACACAGGTAATAAATAAGAGAATACTAAAGATTCGAGCCATAGAATTTCTCAATTCTGACACAA
GGAACTTATACTTATTAGATCTAATAAGTACATTAGACCTAATAGAATTATTTTGCTGTATCCAG
ACTAATACCAATCCAACCCATTTCATGAATAAAATGTGACCAATTAACCAACCAACAAAACTACT
TGTTACAAATAACATCTTGTTGTTGCATCGAAACATATAAATGTT
Found at i:190646 original size:31 final size:31
Alignment explanation
Indices: 190608--190750 Score: 277
Period size: 31 Copynumber: 4.6 Consensus size: 31
190598 CGCCCTTGTC
190608 CCTCTCCTTTCAGTCGAGTTTGTGTTCACAA
1 CCTCTCCTTTCAGTCGAGTTTGTGTTCACAA
190639 CCTCTCCTTTCAGTCGAGTTTGTGTTCACAA
1 CCTCTCCTTTCAGTCGAGTTTGTGTTCACAA
190670 CCTCTCCTTTCAGTCGAGTTTGTGTTCACAA
1 CCTCTCCTTTCAGTCGAGTTTGTGTTCACAA
190701 CCTCTCCTTTCAGTCGAGTTTGTGTTCACAA
1 CCTCTCCTTTCAGTCGAGTTTGTGTTCACAA
*
190732 CCTCTCCTTTTAGTCGAGT
1 CCTCTCCTTTCAGTCGAGT
190751 AAGAAATACC
Statistics
Matches: 111, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
31 111 1.00
ACGTcount: A:0.15, C:0.29, G:0.16, T:0.39
Consensus pattern (31 bp):
CCTCTCCTTTCAGTCGAGTTTGTGTTCACAA
Left flanking sequence: Indices 190108 -- 190607
TCATCACTACCTCGTAAGGGCATTGAGACCATAGCATGTTACACGAGGAAAAAAAACCTTGTAGT
GTTGTCATACAGCTGCCCGCCTAGAAGAGCCACTCGCTCTGTAGTGTTGTCACACAAGATAAGCA
CGCCGCCCGCCTGCTGGCCGGGCGAATCGAAGTTCTCTTCCGGTCAACTGTCCACCCAGTCAAGT
GCAAAAAACACAGTAGAATCACGCAACGCACGCTGCTGGTGTGCTTCCTGCCCGCGAGGAAAGAA
AGAAGAGCGACAAGGTTGAGTTCTGATTTGACTGTTTGCAGCATGGGAGCAGATTACCCAAAAAA
TCCCTGGGAACAATGAAAAAAAAAAGATATCTCGGTAACAAAAACCATAGGGGGCTGTATTGGCG
AGATCCAACGGTGAACAGCTGCCCAAAATCAAAACCGCCTGGAAGTCCGAGGACCTTTAGTACCG
TACCCCCAACCAGCAGCCTTCGCGCCAAGCAAGACCGCCCTTGTC
Right flanking sequence: Indices 190751 -- 191250
AAGAAATACCTCGGGAAGTAGGGCTCCTATTGACTAAAGATTGGTTCTTCGCTTTCCTTTAGAAT
GAAAGTAGCTATGAAGCCCCTACCTACAACTTACTTTGTTTGATTCAAAAGGCGAACAGCCCCCC
CAACTAGTCGTATGGGGTGGGGTTCTTGTGGTAAGCTGCCTTGGATATGATAAATTCCTAAAAAA
AGGCAAAGTCCGCTATTAGACGAAGATCTTCCTATCAATAGATAGGAATTAGTGTTCGATATAGG
GGATAGGATCTATCTGCTCTCTCTTAAAAAAAATTGAGAGAGCAGATATAACGATATAAAATCGG
AAGGATAGATAGACATCTAAAGAAAGGGATGTCTATTCTATTCCTCTTTTTTTTATAGAAAGAAA
AGATATCTCGTTCATCTATCTTTTGTTTATTTATCATTGATTCTATCTATGAATCAAGTCGAATT
CGTTTTTGGCCGAAGCCCCGAATGGATTGGATCGTTTCCGCCAAC
Found at i:194279 original size:22 final size:22
Alignment explanation
Indices: 194251--194299 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
194241 CTCGCTACGC
194251 TCGAGATCTTTGAACCTTTCAG
1 TCGAGATCTTTGAACCTTTCAG
*
194273 TCGAGATCTTTGAACCTTTTAG
1 TCGAGATCTTTGAACCTTTCAG
194295 TCGAG
1 TCGAG
194300 TGCCTTCGGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.37
Consensus pattern (22 bp):
TCGAGATCTTTGAACCTTTCAG
Left flanking sequence: Indices 193751 -- 194250
AGCTAACCCCTGTCCAGTGCCTGGCAGAGCTAAGGGGCTTCAATCCTTATTCCTTATCCCCATCT
TCGCCCAGGCTAACGGGGCCTTACTTATTCAGGGGGGAGCCCCGAGAAGCACTGTTGAGAAGAAG
ATCCTAGGCCCCTCTTCATTCTCTACAGGGTTTCTTTCTTCAATATATATATAGGTGACAACGAG
CGAGGCAGAGATGGAAGAGATCAAAGACGAGAATAAGAAGCCAGTAAACTTCTTCCTTTTTGATC
ATTTTGTTTGATAGAGGGGGATAGAAAAAATGGACAAAACTGACTCGCATTTCTCATCGAACAAA
TACGAAAAAAGAATCATATTGAAAACTGAAACCTCACCTCTCCTCTCGTTTCACTCTCGAGGAAC
GCCTTACAGTCGAGCTCCTTTGTCACTCCGTGCCTCTCTAGACAAGTGCTCGAGTCATGACTCCG
AGGAACGCCTTTTCAGTCGAGTTGCTAAAGCACCTCTCGCTACGC
Right flanking sequence: Indices 194300 -- 194799
TGCCTTCGGCCCTCTCCCACCAAGGATAAGGTCTCATTAATTAGTTGATGAGGGGTCGAGTTACT
GCGTTCCTAACCCAACTCCCTCCTTCTCCGAGCTTTGTATTATAAGTGATCCGAACCTGCCCGGA
GTGAGCCTCCCATAGAGGCAAGTTGGTGAGCCGTATGATGGGCAACTATCTCCTGCGGTTTGGAG
AGGACTCAGCTGTTAGTTAGTATCCCCTTGGTTTCGGGGTGGACCCTTTCACTCTATTTTATTAT
ATACGCTTAGTGAAAAGAATGTTTTTTGATACACCTAGGACATGGATTCTATATGAACCAATGGA
TCGTAATAAGTCGTTACTACTAGCAATGACTTCCTTTTTCATTACTTCATCCTTGCTATACCCCT
CTCCTTTGTTCTCAGTTACTCATCAAATGGCACTCAGTTCATATCTTTAAGTTCGATCATTGACA
AGGTTCAAAGAAAGGGTGGGCCGTCGGTTTGAATCCAATATTATG
Found at i:196718 original size:36 final size:36
Alignment explanation
Indices: 196671--196757 Score: 149
Period size: 36 Copynumber: 2.4 Consensus size: 36
196661 AAAGCCTGAA
196671 AGAAGAAGGTTGACTCGGCAATCTCAATTTCGTATG
1 AGAAGAAGGTTGACTCGGCAATCTCAATTTCGTATG
196707 AGAAGAAGGTTGACTCGGCAATCTCAATTTCGTATG
1 AGAAGAAGGTTGACTCGGCAATCTCAATTTCGTATG
* *
196743 AG-TGATGGTTGACTC
1 AGAAGAAGGTTGACTC
196758 ATGAAAGTGC
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
35 11 0.22
36 38 0.78
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (36 bp):
AGAAGAAGGTTGACTCGGCAATCTCAATTTCGTATG
Left flanking sequence: Indices 196171 -- 196670
TCTTAGGAGTAGATGCCGGGGGGAGAAGGAATTCTACGACTGATTGAGCCAACAAATCCTAGCTA
GAATCTAATCTGGAAAGAACTTGGAACTCTCAACCATAGCTTTGATTTGCTTTTCTTATTGGCAG
AAGTCAAGGCGATTTTAATCTCAAAGAGGCCGATAGGACCAGTATCGGACGAGATATTGACAAAA
GGAAAATCATTCCATTCTTGTCCCTTCTTGGATTTGAAAACGAAAAGTACGTTCGGGCAGAAGTC
TTGTATGAGTTAGCCACTGCTTCAAGCAGAAAATGGAATTTTCCTTGTTGAAAACAAGAGATTCC
AAGAGGAGTTAGATAGGGAAACGGAGACTTTACCTGTAAGTCAGTATATTGACAGTGCCCCAAGA
CAATCTGAAGCACTGACTGGAATCAATCAGCAGCTGAATGCAAGGATTACTTCAATAAACAATTG
AAACCAACAAGACCTTTTCCATCAGGAGACCATTCAAAGCCTGAA
Right flanking sequence: Indices 196758 -- 197257
ATGAAAGTGCAATGGAAGGGTGAAAGCCGATGAACGCCTTTCAGTCGAGTTTGTGTTCACAACCT
CTCCTTTTCAGTCGAGTAACTGGGGTTCCTCTCGCAACGAGTGCTCGAGTATGTTAGTGTTCAGT
ATATCATGTTAGTGTTCAGTATAGCCGGGATTGTAGTTCAATCGGTCAGAGCACCGCCCTGTCAA
GGCGGAAGCTGCGGGTTCGAGCCCCGTCATTCCCGACCTAGGATCTGATGTATCGATCAATTAAT
CTCTCATCAGTTACGAAATATATAGCTATAAAAAAAAGCTAGAAATAGAATTCAACTTAGTTTCT
CAGTCTCTAGGAATTCCTAAGCGTTAGCGAAGAAAGAAGCCTACTTGAAGAAGGCTGCCAAGAGG
AGAGCAAGCGCCCTACCCGAGTCTCCAGCGAGAAGCGTTTTATATATAATATAAATTATTATCGA
TCGAAACCTAAAGCCAAGTGCATCGATCGGTTTCCTTGCGTTGGG
Found at i:196898 original size:20 final size:20
Alignment explanation
Indices: 196873--196910 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
196863 GTGCTCGAGT
196873 ATGTTAGTGTTCAGTATATC
1 ATGTTAGTGTTCAGTATATC
196893 ATGTTAGTGTTCAGTATA
1 ATGTTAGTGTTCAGTATA
196911 GCCGGGATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.08, G:0.21, T:0.45
Consensus pattern (20 bp):
ATGTTAGTGTTCAGTATATC
Left flanking sequence: Indices 196373 -- 196872
CATTCCATTCTTGTCCCTTCTTGGATTTGAAAACGAAAAGTACGTTCGGGCAGAAGTCTTGTATG
AGTTAGCCACTGCTTCAAGCAGAAAATGGAATTTTCCTTGTTGAAAACAAGAGATTCCAAGAGGA
GTTAGATAGGGAAACGGAGACTTTACCTGTAAGTCAGTATATTGACAGTGCCCCAAGACAATCTG
AAGCACTGACTGGAATCAATCAGCAGCTGAATGCAAGGATTACTTCAATAAACAATTGAAACCAA
CAAGACCTTTTCCATCAGGAGACCATTCAAAGCCTGAAAGAAGAAGGTTGACTCGGCAATCTCAA
TTTCGTATGAGAAGAAGGTTGACTCGGCAATCTCAATTTCGTATGAGTGATGGTTGACTCATGAA
AGTGCAATGGAAGGGTGAAAGCCGATGAACGCCTTTCAGTCGAGTTTGTGTTCACAACCTCTCCT
TTTCAGTCGAGTAACTGGGGTTCCTCTCGCAACGAGTGCTCGAGT
Right flanking sequence: Indices 196911 -- 197410
GCCGGGATTGTAGTTCAATCGGTCAGAGCACCGCCCTGTCAAGGCGGAAGCTGCGGGTTCGAGCC
CCGTCATTCCCGACCTAGGATCTGATGTATCGATCAATTAATCTCTCATCAGTTACGAAATATAT
AGCTATAAAAAAAAGCTAGAAATAGAATTCAACTTAGTTTCTCAGTCTCTAGGAATTCCTAAGCG
TTAGCGAAGAAAGAAGCCTACTTGAAGAAGGCTGCCAAGAGGAGAGCAAGCGCCCTACCCGAGTC
TCCAGCGAGAAGCGTTTTATATATAATATAAATTATTATCGATCGAAACCTAAAGCCAAGTGCAT
CGATCGGTTTCCTTGCGTTGGGAGGGAGATTGAATGAACGCTTGAAAGCTAGCGGGGACTCAGAG
AGAAGAGAGCCAGGGATATCCAACCCAGGAATCGCACGCAGGCTTCTCGCCCCCTTTCTCTGACG
AGGGCGAAGCAGAGATCGAATGCTTCCAAAGCAGGGAAAAGAAGA
Found at i:211968 original size:3 final size:3
Alignment explanation
Indices: 211960--211984 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
211950 CGTGCGCCCG
211960 CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT C
211985 AAGAAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Left flanking sequence: Indices 211460 -- 211959
CTAACCTTGAACTGACCCTTCAACTGACTAGGCGCTTGGGAATTCTGAAACCTCCCCCTTTTTCT
TTTGAGACCTACTTCCTCCTTGCTTGAACCTTTGCGACGACTATGGCACCTTTTGGCTTGTACTC
CTCGAGGAACGCCTTATGCCTTAGGAAAGAGAGATGCTAGCTCTTCCTGTCTTCCAGTGGGGTAA
GCAGAAGTGATCAACGAAGACCAAAAAGCTATTATGTTATATAAAGCACAGCTGCCATTTCATTT
CCTTTGCTACCGGCTTCTTTCTTTCTTTTTGTTCAAATCAATCAAGGATCGAAGAGATCTATCTT
TCCGGCTTAGCCGAACTTCTCACCTGGTATGTCCTAGTTCTTTGTTCATGCTGCTAACTCTGAGT
TTTGTCCTACTTCTGATTTTGGTTTTCGTATCATGGATCTTGGTTCGCGCTTTATGGAATTTTCC
CCCTCTCCGTCATCCACATGATGCTAAATCTTTCTCGTGCGCCCG
Right flanking sequence: Indices 211985 -- 212484
AAGAAATAAAAGAAAGGATAAAAGAAAGGCGAAGGAGGATTTCTTGAGAAATCTTGTAGTTGAGG
AAGTGGAAAAGTATCTAGACAAATATAAAAAAAATTTCATGTCCGAGTTCCCTCCGAAGTCACCC
TTATATAGAAACGACAAGTTTCTTGAGCAAGGTGAGCGCTCAACTTCTACAGGATGCCGTATTGC
CAAATACGGCAGACCCGGCAGCTATGCAATTACTTCATTCAGTCCACAATAATTTGGTGTCCGAT
TTTCGGCTAGTGGACAGCTATACCAATAATCCTCTATACAGTTGTATAAGATTTTTTCTAAAGGA
TTATCGGTGAGCAAGAATTCAAATGTAGTTTTTAGTTTCGTTAGTTAACCTACCTTTTTCTTTTG
GTGGTGAGTTTCCTTTTTTATTTTTTTCGCTATGCGCCGCTACGCCAGCAAGGAGTGCCACGCAC
AAGCAGAGCGAAAACAAACAAAGCAGGGTATTCGTTGGGGGAAAT
Done.