Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_065229
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: 443525
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Found at i:40805 original size:22 final size:22
Alignment explanation
Indices: 40777--40830 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
40767 CAACTCGACC
*
40777 GTAGGGA-GAGGGAGAAGCTAGT
1 GTAGGGACGAGGGAG-ACCTAGT
*
40799 GTAGGGACGAGGGTGACCTAGT
1 GTAGGGACGAGGGAGACCTAGT
40821 GTA-GGACGAG
1 GTAGGGACGAG
40831 AGTAACCTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 7 0.24
22 16 0.55
23 6 0.21
ACGTcount: A:0.28, C:0.09, G:0.48, T:0.15
Consensus pattern (22 bp):
GTAGGGACGAGGGAGACCTAGT
Left flanking sequence: Indices 40277 -- 40776
CCCGGCTTTCCGGTAAGGATTTCTCTTCCTTAGCGTTCACATTAAACAATTAAACCTATTCCTAA
AGTGGAAGGCTTCGATCCGTATAGCGCGGGATGATGGATATCTTGAGTTAATAGAGCCAACCAAA
GCTTGCTTACTTAGTGTGTAAAGATTACAGCTCCGGAAGATACCGGGCATCTGTGAAAGCGTCTG
CACTCTCCTCATTCTACTCAGAAGGAGCTCCAATTCCTATTGGTTTTGGCAGAGGCAAGAAAGAA
AGAAGCTAGGCTTCACCCAATCTTCCAATCAAAATCTTACGCCGAGAGGGCAAAAAGCTATAGGG
AAATCGATCGATAGGATTGCATCCCTGGCCATAAACCGTAGAAACGTCCAGAAATGGTCATACAA
TCAATTTAGCTATCTGGACCTAGCTCGATATCAGTAGAAGATAGAGCCGCTAGCTCCACTGGGGA
TGGTTACGTGCTTGTCTGAGAGGAAATGGGCGGGGCAACTCGACC
Right flanking sequence: Indices 40831 -- 41330
AGTAACCTCCCCTTTTCTTCGTAACGAGTGTTCCCCGAGCAGCGGAGCATTTATGAGTGGATGTA
GCTGTGATAGCTTAGAGTTTCACTGATTGGTATGCCAAAAGACTTTTTATAATATCTTATAAAAA
GAGAGTTACTAAGAGTATTGCTAGAAATTATACGTAAGATAATAGAAGTAAAACTCTTTTGCAGC
TCTGGAGAAGGGGTAGCAAGTCGGAGACTCCCATGGATTGATCTATAACAACTACTGTGCCCGAA
GCGCCTGCATTTAGACCGGTCGCAGTTTAAGGTGAAGGTTCAATTGATCTTGCCTTGTAGGTAGG
CAGCGCCTCGAGAAAGACCATAAACATAAAAAAGAGGAACTCAAGCAGAGGCTGAAAGGCCCTTT
CTCTTTCCTTACCGTCTAGCGATACCATTTACATTTGTAGGAATGCATGGGACTACTTTCTATAA
AGCACTTTAGGTGGCTCTACTACTTCCATAGGCGGCCGGAGGAGC
Found at i:40838 original size:21 final size:22
Alignment explanation
Indices: 40794--40838 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
40784 GAGGGAGAAG
* *
40794 CTAGTGTAGGGACGAGGGTGAC
1 CTAGTGTAGGGACGAGAGTAAC
40816 CTAGTGTA-GGACGAGAGTAAC
1 CTAGTGTAGGGACGAGAGTAAC
40837 CT
1 CT
40839 CCCCTTTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.27, C:0.16, G:0.38, T:0.20
Consensus pattern (22 bp):
CTAGTGTAGGGACGAGAGTAAC
Left flanking sequence: Indices 40294 -- 40793
GATTTCTCTTCCTTAGCGTTCACATTAAACAATTAAACCTATTCCTAAAGTGGAAGGCTTCGATC
CGTATAGCGCGGGATGATGGATATCTTGAGTTAATAGAGCCAACCAAAGCTTGCTTACTTAGTGT
GTAAAGATTACAGCTCCGGAAGATACCGGGCATCTGTGAAAGCGTCTGCACTCTCCTCATTCTAC
TCAGAAGGAGCTCCAATTCCTATTGGTTTTGGCAGAGGCAAGAAAGAAAGAAGCTAGGCTTCACC
CAATCTTCCAATCAAAATCTTACGCCGAGAGGGCAAAAAGCTATAGGGAAATCGATCGATAGGAT
TGCATCCCTGGCCATAAACCGTAGAAACGTCCAGAAATGGTCATACAATCAATTTAGCTATCTGG
ACCTAGCTCGATATCAGTAGAAGATAGAGCCGCTAGCTCCACTGGGGATGGTTACGTGCTTGTCT
GAGAGGAAATGGGCGGGGCAACTCGACCGTAGGGAGAGGGAGAAG
Right flanking sequence: Indices 40839 -- 41338
CCCCTTTTCTTCGTAACGAGTGTTCCCCGAGCAGCGGAGCATTTATGAGTGGATGTAGCTGTGAT
AGCTTAGAGTTTCACTGATTGGTATGCCAAAAGACTTTTTATAATATCTTATAAAAAGAGAGTTA
CTAAGAGTATTGCTAGAAATTATACGTAAGATAATAGAAGTAAAACTCTTTTGCAGCTCTGGAGA
AGGGGTAGCAAGTCGGAGACTCCCATGGATTGATCTATAACAACTACTGTGCCCGAAGCGCCTGC
ATTTAGACCGGTCGCAGTTTAAGGTGAAGGTTCAATTGATCTTGCCTTGTAGGTAGGCAGCGCCT
CGAGAAAGACCATAAACATAAAAAAGAGGAACTCAAGCAGAGGCTGAAAGGCCCTTTCTCTTTCC
TTACCGTCTAGCGATACCATTTACATTTGTAGGAATGCATGGGACTACTTTCTATAAAGCACTTT
AGGTGGCTCTACTACTTCCATAGGCGGCCGGAGGAGCTGAATAGG
Found at i:64654 original size:15 final size:15
Alignment explanation
Indices: 64634--64673 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 15
64624 AAGGCTAGGG
64634 AAGGCTAGGGCATAA
1 AAGGCTAGGGCATAA
64649 AAGGCTAGTAGGGCATAA
1 AAGGC---TAGGGCATAA
64667 AAGGCTA
1 AAGGCTA
64674 ACAGCTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 7 0.32
18 15 0.68
ACGTcount: A:0.40, C:0.12, G:0.33, T:0.15
Consensus pattern (15 bp):
AAGGCTAGGGCATAA
Left flanking sequence: Indices 64134 -- 64633
GTGAAGCTTTCGGAGCGTAGTGAGGTGAGCCAGTGCCTGTTGGTGGTCAAGTCCCAGTGGAAGTG
GAAGTTGTTGGGCGTTCAGGTTGCAAAGGAAGTTGGTGGGCTAACGGTGGTCCAGGTAAGGTAGG
TGGGGAAGGCTCGCCACGAGATCGACCGATAGCTTTGACCCAACCCCGGAAGCGGAAGTGCCAGA
GAGACGATCTTTGTGAGGCAGAGTGACATTCCAAGGTCAGGTATAAGGTGCTACGGGAACGATGT
CTCAAAGGTCAGTGCCAAGGGCTCAACGCGGAAGCAATCCGCTGCTCACAGGGACCGTGCGGGCT
GACGCTCTTCTCTCTCAGGCAAAGAAATGTGATTTTAACTTTCGCTGGTTCAAGGTAGGCTGCTT
AAGCAGAGGTTGTTGTTGTTGTTGGCGTGAGTGAAGGCGTTCCTTCCGGTGGGCATGACGAAGCT
AAGCTGGAACTAATTACGAAAGCATAATCGTTTTCAAGGCTAGGG
Right flanking sequence: Indices 64674 -- 65173
ACAGCTTTTCCGAGTCAAAAGCGGCTAAAAACACTCAGCCATAAGTTCCGGTTTCACCACAGTAC
AGGGCTAAATAAAGGGGCTCAAGGTTGGCATGACGAAGCGTCGGGCATCAAAGCTACCGGTTTCA
AAGTTCAGTTCTAACGGGCGTTCGGAAAGGCTTGAAATCGTAACGTACAGGTAGACTTTGCCAAG
GCAAGGAAAGTAGTAAGAAAGATATCGATGGAGCGGGCAGAACCTCGAGTAAGACAACCAACCCT
GGAGGCCATGGCTTGGCTTTATCCCGTAGGTAGTAAGAACAGAGAGAGCCTTCTGTGCTAGCAAT
ACAGAGAGGTGGGGATTGAATGAGGCGAGCGCTGACTGCAGCAAGACCACCAGACCCTAAAAAGA
ATAATAACAACGTTCAGCAAGCCGAAGCCAGCCAGACAGGCACCACCAGATACAGGGCGGGCAGT
TACTCCACCGAATCAGAGGGCAGATACCCGGACCAAAAGGAGTGA
Found at i:64662 original size:18 final size:18
Alignment explanation
Indices: 64639--64673 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
64629 TAGGGAAGGC
64639 TAGGGCATAAAAGGCTAG
1 TAGGGCATAAAAGGCTAG
64657 TAGGGCATAAAAGGCTA
1 TAGGGCATAAAAGGCTA
64674 ACAGCTTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.11, G:0.31, T:0.17
Consensus pattern (18 bp):
TAGGGCATAAAAGGCTAG
Left flanking sequence: Indices 64139 -- 64638
GCTTTCGGAGCGTAGTGAGGTGAGCCAGTGCCTGTTGGTGGTCAAGTCCCAGTGGAAGTGGAAGT
TGTTGGGCGTTCAGGTTGCAAAGGAAGTTGGTGGGCTAACGGTGGTCCAGGTAAGGTAGGTGGGG
AAGGCTCGCCACGAGATCGACCGATAGCTTTGACCCAACCCCGGAAGCGGAAGTGCCAGAGAGAC
GATCTTTGTGAGGCAGAGTGACATTCCAAGGTCAGGTATAAGGTGCTACGGGAACGATGTCTCAA
AGGTCAGTGCCAAGGGCTCAACGCGGAAGCAATCCGCTGCTCACAGGGACCGTGCGGGCTGACGC
TCTTCTCTCTCAGGCAAAGAAATGTGATTTTAACTTTCGCTGGTTCAAGGTAGGCTGCTTAAGCA
GAGGTTGTTGTTGTTGTTGGCGTGAGTGAAGGCGTTCCTTCCGGTGGGCATGACGAAGCTAAGCT
GGAACTAATTACGAAAGCATAATCGTTTTCAAGGCTAGGGAAGGC
Right flanking sequence: Indices 64674 -- 65173
ACAGCTTTTCCGAGTCAAAAGCGGCTAAAAACACTCAGCCATAAGTTCCGGTTTCACCACAGTAC
AGGGCTAAATAAAGGGGCTCAAGGTTGGCATGACGAAGCGTCGGGCATCAAAGCTACCGGTTTCA
AAGTTCAGTTCTAACGGGCGTTCGGAAAGGCTTGAAATCGTAACGTACAGGTAGACTTTGCCAAG
GCAAGGAAAGTAGTAAGAAAGATATCGATGGAGCGGGCAGAACCTCGAGTAAGACAACCAACCCT
GGAGGCCATGGCTTGGCTTTATCCCGTAGGTAGTAAGAACAGAGAGAGCCTTCTGTGCTAGCAAT
ACAGAGAGGTGGGGATTGAATGAGGCGAGCGCTGACTGCAGCAAGACCACCAGACCCTAAAAAGA
ATAATAACAACGTTCAGCAAGCCGAAGCCAGCCAGACAGGCACCACCAGATACAGGGCGGGCAGT
TACTCCACCGAATCAGAGGGCAGATACCCGGACCAAAAGGAGTGA
Found at i:75619 original size:20 final size:20
Alignment explanation
Indices: 75585--75622 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
75575 CTCATAGCTG
75585 CTAGCAACTCCTAGCTACAA
1 CTAGCAACTCCTAGCTACAA
75605 CTAG-AACTCCTTAGCTAC
1 CTAGCAACTCC-TAGCTAC
75623 TAAAACAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.32, C:0.34, G:0.11, T:0.24
Consensus pattern (20 bp):
CTAGCAACTCCTAGCTACAA
Left flanking sequence: Indices 75085 -- 75584
TCCTGGCTACTCCACCCGGATGGGTGCCACAAACACAGCTTGTACTGGCTAAACATCTCCTATCT
TTCCATTTGAAGGAGTCTATCCCACTGCTTAAGTATGACAAATGTCTGACACTACTATATCGGAC
GTAAAGTCTTGCCCGGCCTCACTGAGTGGATCTGGTGCCCACACCGTAGCTAGTCCTCTTAGCTT
TATTGGAGCAGGTGCCCAAGCTTCTTTGGCTAAAGCACATCTCCTGTCTGAACCCTTGACCTATT
TGAAAGACAAATGCACAAACCCAAATTGAAGAAAGAGATGCTCGAGTCTCTTACGCCATCCTAGG
CGGTTCTCCCGTAGCGTCTCCGCCGGCGACTTTCTAAGGTTCAGGGTTGTCTGCCTATCCTAGGT
GACCATCTTCGTCTACTACAACGAGGGGTGTGTGCCATAGAGTGTGGTACAGGTGTCACCAGTCC
CAGACAGATTTGTTTATGATCTCGTCAACTCGGAACTCATAGCTG
Right flanking sequence: Indices 75623 -- 76122
TAAAACAAGAGCTCTTTCACTCGGGCGACTTTTCTTATTGGGCAAGTTGCCACCCGTTGTTCAAT
ACCCTAACTATAGTAAGTAGCTTAATCTGTCGAGAAGAACCATCCCTACCGGATCGGACATGTAA
CCAGTCTTCTCCGCTTGAGAGGGAAAGACGGCTGCTCTGTGAACAAAACAACCCTAGTTGCTGGT
CCTGCTCCTGCTGCTGTCTGAACTGCCACCTCTGCTCCAATACATAAAGCAGCTCCAGCTTGAAG
CTATTGTAGCAGCTCTGTCCCATTCATCACTGCTTTCTGTTAAAAAGAAAAGAGCTGCTCCTCTC
CGATCTAAGTCCTCTCTCTAGTCAGAAATTGCGTAAGTTAATCAGGATGGATCGACAGGCTTTCC
AAACCTACAGGTCTCTTCCTCGGACCTAGCATTGCTGCCTGGCCCATCACTTCTTCTTTTCTTGA
CTTCGATGATTTGCCTGCAGGAGGATCATCGAAGGTTGGAGAAAA
Found at i:97117 original size:8 final size:8
Alignment explanation
Indices: 97094--97127 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
97084 AGAAATGGGG
97094 GAGAAAGAA
1 GAGAAAG-A
*
97103 AAGAAAGA
1 GAGAAAGA
97111 GAGAAAGA
1 GAGAAAGA
97119 GAGAAAGA
1 GAGAAAGA
97127 G
1 G
97128 GTCTTTATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 17 0.74
9 6 0.26
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (8 bp):
GAGAAAGA
Left flanking sequence: Indices 96594 -- 97093
AGCCAGCTCATAACAAAATGTTAGACCAATCTCAGGGCTGACACAACCGAATTGGTTGAGGAAAA
GGAAACCCCAGCGACCAATCACTCCCGCCCCAAAAAGCGGAGACCGAAGAGCCGCCAGGTTGTCG
AGGACACGTCTGAAGAGGAGGCGGGCGCCCTCTAAGTTTACCACCCTACCCGCTAATGGACTACG
GGGGGGCAGGCGAACGGGAACCGACCGAGAACCCGAACCGCTTGACTGACTGACCCCTTCATACT
CGATTCATTAGGGTCGGGGATGGATGGAACCAATCAGAAGTGCAAATCGCGCAAGCGAAGCCGGG
AAACAGACCGCACCGCAACGACCAGGACTCGTGTCGGAGGAGTTTTGAGCGTGAGCTACCACTCA
CGCAGCGGCAAGGACCCGCAACTCTCGAGGGGGCCACCAACCGCCCGAATAACTCCTTTACTCAA
TGGATAGCGCTTATCCTCTTTCAATCAACAAAATGAGAAATGGGG
Right flanking sequence: Indices 97128 -- 97627
GTCTTTATTGAATAGGCTTTGCACCTGAAATAGGACTAATGAAGATCCAGAAGAATGGGTCTGGG
CTTTCGAAAAGATGAAGATGCAAAGGGTAAAGAAAAAAAGTCTTTTGAACAACCAACCTGACATA
AGGATTCTAGCTCGCCCACTTAGAGCAGATGGAGATTCTCGGACGGGGAAAAGCGGCACTCGAAA
TCTATTAAACAACACCAAGAACAAAGCCATACCATGCCCTCGGGAGAAACTAGTGATGATTGCCA
TGAATGCTGCCCTCGAGGATGTGTACAAGAGGGTCTTTGCCGATTCCTATCAACATGGTGCACCT
CTCAAGGGTGAGACTTTGACCGAATGAATAGGGATCAATTGATAGACATTTTTATTGAGGAAGAG
AATCCAGGATGAATGCTTTTTTCGTTCGCTATGTGCTGACTAGATGCGTACTCGCGCGATCGATG
GACGGGGGAATTGCGTGAATGACGAGACCGGCCTAACCTAAAGTA
Found at i:123406 original size:30 final size:30
Alignment explanation
Indices: 123312--123407 Score: 83
Period size: 30 Copynumber: 3.2 Consensus size: 30
123302 AAGTAATCTC
123312 AAGGAATTATTATCGCTTAGCGCTTGTGCT
1 AAGGAATTATTATCGCTTAGCGCTTGTGCT
* * * **
123342 AAGGTAGT-TTACTTGCTTA---CTTGTTAGAGG
1 AAGGAATTATTA-TCGCTTAGCGCTTG-T-G-CT
123372 AAGGAATTATTATCGCTTAGCGCTTGTGCT
1 AAGGAATTATTATCGCTTAGCGCTTGTGCT
123402 AAGGAA
1 AAGGAA
123408 GAGCTTTTAG
Statistics
Matches: 48, Mismatches: 10, Indels: 16
0.65 0.14 0.22
Matches are distributed among these distances:
27 4 0.08
28 1 0.02
29 4 0.08
30 30 0.62
31 4 0.08
32 1 0.02
33 4 0.08
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.35
Consensus pattern (30 bp):
AAGGAATTATTATCGCTTAGCGCTTGTGCT
Left flanking sequence: Indices 122812 -- 123311
CAATTGTAGTACGAATCGCAGTAATTTGAATCCCTTATATATTAAAAAAAAAAGTGAAAGATGGA
GGTAGGTTTTGCCTACCAAAAGAATGGGAAAGGGAAACGAAACATTCTATTTCAAAACGGAGGAA
AAAGATTCTACTACTTTATCTATCCTACTGCGCTTAATCTTCATTCTTTATTAGAAGAGCAAGAA
AGAAGAAACATTTCTATTCTTTGTTACGTTATTTCAATTTCTTGATTTCTATTTCTTTTACGCAA
TCTCGATTTTGATTCTACGTAATCTCTATTCTACGTTATTTGAGAGGTGAAGCAGGTTCTGTTCT
GAGCCAGAAGTAGTCTCTTAGTTTTCGTATGAATAGATTGGGTCATAGCAAGGTGAACCAAATTG
ATCGAAAACATAGCCCGACCCGCGTATGTTAAGCATATAGCTAATCCTTCTTAACGCTTAGCTAC
TGCGTATAAGCTTCACCCAGCTCTTACAAGAAAGTAAGTAATCTC
Right flanking sequence: Indices 123408 -- 123907
GAGCTTTTAGGGAAAGATTATTGGGCTAGGGTGCTTGAGCAATTTGCCATTCTTCCAATTCAACG
ACTAGGCGTATGCTCAGAACGAGCAAACTGGAGGAAAGCTGGGATTGTGAATGAAAACAACCGTC
AGCTGCCCGAGAGAGCTCATTTCATTCAGGGATTGCCTCAAGAGAGGACTTCAAAGGCTTGGCTT
GAGGTTGCGTCTGCTGCTTGAGATGGAAGGTCTTCCGTAGCTTGGTTGCTTAGCCGTCAATCGTC
GTTCGAGAGGTCAGTAAGGTTTGGGACCTTCTGGCAGCTAAAAGCAAATTTCTTATTAAAGAAAG
ATGGCCGTCTAATAGATTTCCTTCTATCTTGCTGTTGTTCACTGTAAGGTAAGAATAGATTATAC
CGGGTATGAATGTATTAGATTGGGCAGTAAGGGTCGGAGAAGGGCAATCACTCATTCTTAAAACC
AGCGTTCTTAAGACCAAAGAGTCGGGCGGAAAAGGGGGTAAACTC
Found at i:137540 original size:18 final size:18
Alignment explanation
Indices: 137519--137561 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
137509 CAACCTTGTT
137519 GACTATGACAACAG-TCGC
1 GACTATGA-AACAGATCGC
137537 GACTAT-AAACAGACTCGC
1 GACTATGAAACAGA-TCGC
137555 GACTATG
1 GACTATG
137562 GCAGGGCGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 5 0.23
17 1 0.05
18 16 0.73
ACGTcount: A:0.35, C:0.26, G:0.21, T:0.19
Consensus pattern (18 bp):
GACTATGAAACAGATCGC
Left flanking sequence: Indices 137019 -- 137518
TACCGTCTAGCCGTTGGTACTCCGCATCTTCACGGAGAATTCAATTTCACCGGGTCCATGTCGGA
GACAGCGGGGCAGTCGTTACACCATTCGTGCAGGTCGCTACTTATGCGACAAGGAATTTCGCTAC
CTTAGGACAGTTAGAGTTACTGCCGCCGTTTACCGGGGCTTCCATTCAAAGCTTATAACACTTCT
CCTTCCGACCTTCCAGCACCGGGCAGGTGTCAGACTCTATACATCGTGTTACCACTTAGCAGAGT
CCTGTGTTTTTAATAAACAGTCGCTACCCCCTGGTATGTGCCGCTTTCCTAATCAAAAGATAGGA
GAGCACCCCTTCTCCCGAAGTTACGGGGTCATTTTGCCGAGTTCCTTCGACATGGTTCTCTCAAG
CGCCCTAGTATACTCTACTTGTTCACCTGTGTCGGTTTGGGGTACGGTCAGTTCACCGGGAGGAT
CGCCCTCCCAATTCGAAGTTTTTTCCTGGAAGTTTCAACCTTGTT
Right flanking sequence: Indices 137562 -- 138061
GCAGGGCGGTACGCTCTGCTCTCTCGCGACCCCTACTCTAATCAAAAGACTAAAGGCCCCTTAGG
TCGCCAAACTACGACGAGAGTTTCGCCTTTTGAAGCGCCAGTCGCATAGGGCGACCGGGCCAGGC
CGAGTCAGAAAGGCTTTGATGACTCAAGGTTCATATTAGGGAAAGGAGAGTGAGGGGAAGAGGGG
GCAGCCCTCGGCCCGATCATCCAATTCGCTCCAACAGATAGGCATGGTTCTGTAGTCAAAGCAAC
TTCGTCACTTTCGTGTACCCATCGGACGGCAGCCCTTTCGGGGGTTCCTTAGGGACCGATTCACT
CTGCGTAGATTGACTGAACGCAGAAAGCCTTCCACTGGCAGGCGATCGTGTTTTTCACAGGATTT
CTCGTTACTCATGTCAGCATTCTCACTTCTGATATCTCCAGGTGTTGTCACCAAAAACCTTCCCC
GATTGACAGAACGTTCCGCTACTGACACTTGAAAAAGAAGCTTTC
Found at i:147062 original size:17 final size:17
Alignment explanation
Indices: 147040--147076 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
147030 GCACAGATTC
147040 CCTATAAAGAAAAATTT
1 CCTATAAAGAAAAATTT
* *
147057 CCTATAAAGACAGATTT
1 CCTATAAAGAAAAATTT
147074 CCT
1 CCT
147077 CTCTTCCCGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.19, G:0.08, T:0.30
Consensus pattern (17 bp):
CCTATAAAGAAAAATTT
Left flanking sequence: Indices 146540 -- 147039
ACTCCTAGTAGGCCACGAACTCCCTTTCAAGCTTTAACCGACCCGAATCAAATCCAGATGCCTCA
CCAGATAGTTCTCCTTTCATCTGTCCGATCAGGCAGCCAATTCTATGCCACTAAAGCTTCATGCC
ATTGAAGACTGGTCCCGAAAGCGATTAGAAAGCGAACTAGGATCTGCAAGATTCTACTTTGATCC
GCCTATGAACCTTGGTTCACGCTCTACGTATCTTATTCTTTCAAGCTTTCTCGAGTCACCCTAAC
GTAACGGCTAAGAGAACTTGGCTAACTTCGATCAATTCCACGACTTTCCATCCTTCTTGTGTTGT
GGGATGTGAGTCATCAGTTCTTTCCTCCGCCTGATAGTTTATTCTCGAGGATCACTGAACTTGGC
TTACTTCTTACTGAATGCCGTACTTAGCACTCGGGGCGAGCTCTTAGCGATTAGTCAGTCCGGGT
CCAGCTAGTCTTGCACTTTCAGACCCAAACAAAGGGCACAGATTC
Right flanking sequence: Indices 147077 -- 147576
CTCTTCCCGAATGCTTTCCTTAGCTAATACTGATTGATTCACCGCATCTTCTCCATTAGGAGATC
TAACCAAGCACTCGAAATGCGACATTGACTAAAGAAGGTAGACAAAAAGGCAAACTAGAGAAAAA
GCCAAGCTGACTGAATTGAATCTTTCAGTGGAATTGGGGCTTACCTTATATCATATCCTCTCTCT
TTCAAGCACAGTTGAATGAAAAAAGCGTACCTTCGAAGGCATGATTGCTGCGATCAAGAGCTGCT
TAACATCATTGAGAACAGGAGCTCAGAAGATTTGGTGGAGGATAAAAAGTGAACCAACACTGGGA
TCCGATCATAGCCGCAGTGAAGTGTTGGGATGCAAAGACGATGGTTTTTAGATTCGGCAAACATG
AGATGTGTCCCACACTTGAAGAAGTACATCGAATTTTGGAGATATCCCGTAAATTCCTTTTTGTA
CCTAGAGAAGGACGACCGAGAAAAAAAGGCTTCGCGTTCTCCAAG
Found at i:209289 original size:17 final size:17
Alignment explanation
Indices: 209267--209301 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
209257 ATCATCTCTT
209267 TCAAGAAGCCAACTCAA
1 TCAAGAAGCCAACTCAA
209284 TCAAGAAGCCAACTCAA
1 TCAAGAAGCCAACTCAA
209301 T
1 T
209302 AGCTTCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.29, G:0.11, T:0.14
Consensus pattern (17 bp):
TCAAGAAGCCAACTCAA
Left flanking sequence: Indices 208767 -- 209266
TGCGCTCTCACTAGACTTTTTATTTTATGTCTACGCCGCCTCGATTCACTCAGATTTAATGGTTT
GGTAACCTGCAACATCTTTGGTTCGGCTAGCTTTCATTTTTTTGATCGAAGTCGGTTGTCTTATT
AATCGATTGGAACTCGTAGCTCCAACTATGTATTCCCACTGCCCTGACATGGACAACTTCGCTTT
TACCTAGGTTTATTCACGAAGCATAGGGCATACTTTCTATATAATTTATGCTTTCGTCCAGCCGG
AATCTTAACTGGACGTCTATTGAAAAGGACGGTAAATTGAGAAAAAAAGCATTTCATTAAAAAAA
AGAGTGGATTCTTGAGGTTACATTCCGCTATAGTAGCTTGACCAACGTGAAAGTGGAACAAGTGC
ATGCCCCATACACGAAATTGAATATTAGAGTATAAATCTCATATCGGTATGAGGCTTCCAGTCGA
ATATCTGACTCCGCCTATCACTTTATTCTGCTTCCATCATCTCTT
Right flanking sequence: Indices 209302 -- 209801
AGCTTCTTTTAGAACCGCTATGCCCTCTGCTGCAACTGAGCTAGTTATTGGGAACAGATGGGGAC
TACAAGCGAAGCTTCGCTTGCTTATACCACGTAATTCAACCTCAACAGGAAGGCAAATGGTAAGA
TCCGGGTAAGAGGTTTCGCAGATCTGCTTATTACTGTACCAAACAACAAGACGAAAGCGTCAAAG
GCGAAGCCATGGCGTCACACAATTATCATACAAAATTCTCATTAAGCCACTGTGAGAGAAGGTTG
CTGATCGACGATAATAGGTAGCTTGCAACTATAACATAAAGTGGACGAGCTGACTCAGTGGAGCC
TAAAAATAGCACAAGGTAGTACTAGAAATGATATACAGATGAGATCAAAGGATGGATACACGCAC
GGAGGGAACCAGAACCGGGATAAGCCGCCCTTATTGGGCGCGGTAGAAGCTTACTCTGTAGTTGG
TCTGAAGGAGGTGTTCCACTTCTCACCATCGATTATGATTCGTAT
Found at i:270015 original size:14 final size:14
Alignment explanation
Indices: 269990--270023 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
269980 AATCGCTCAT
269990 CCGTCC-ACGAATA
1 CCGTCCTACGAATA
270003 CCGTCCTACGAATA
1 CCGTCCTACGAATA
*
270017 CTGTCCT
1 CCGTCCT
270024 CTAGCTTCTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.24, C:0.38, G:0.15, T:0.24
Consensus pattern (14 bp):
CCGTCCTACGAATA
Left flanking sequence: Indices 269490 -- 269989
GGATTAAAGCAAGGAAGCAAGAAAAGAGATAAGCGTTAGAGGGAGGTGGGAGGATTCACTCTTGC
TATGCCGCACTCTCATACTTTTGAGTAAGGAATTCCCTGCAAGGCAGTTAACGGCTGTCGGATAG
GGCATCGGGAAGAACATATGGAAAAGAGAACCTGCGAGTACTATTCAGTTAGGATGTGCCCCCCT
GAAATTGTTAGATATTTGCCTTTATGACTCGTCTTCTTTTATAGGGTCTATCCGGGGATACTAAG
CCTGGAATAAGTTTCGATCTATGGCAATTTCTTTGTAGTGGCCAGTTAAAGCTATCAGATATAGG
AGAGACTACCTACTTCAAGTTCAAGGCAGGCTAGCTCAGTACACGATTCCCTTCCTTTAATGTGC
AATTCCCGTCCTTTAAATAGAGCGACTTCCCGCTCTTCTGCCTGTCATCTGTCAACTGGTAACGG
TCGCATCTGTCCAGTAACTGTCCTATAGGCGGTCCAATCGCTCAT
Right flanking sequence: Indices 270024 -- 270523
CTAGCTTCTGTTATGAGTGAATTTCTATGGCCTATTTTATCTAAAAAGAAGCCCTGTGAAAGCGT
CTGTAATGGGGAGCGGTCCATTAACGTTGCTTAATTGGCCTTAGCGTTTCGCACTAAGTAAGCAA
GCTACCTTATTTATGTGCTCTAGTCGAACAAGCAAGCCAGCCTAGCAGAGTAAGCCTTCCCTCTT
CTCTTCACTGGCTCTGATCTCATCAGACTCGTATCCAGCCTCTCTTTCCTCGGTCTCGGTGCTCG
GTCCAGGAGAAGAGAAAGACTCGGATCCAGGGAGGGAAAAATACCGGTATCCCAGCTCCATTTCA
AGCCTAAGCTCTCCCTCCGCTTCTCGATCCCCAGCTTCCGCTGCTAAGCAACCATCTTCTCTCTC
TTCGTCTCCCACTCCTTCTCCCATCACTGGGTATTGGACACCAAGAGGCGGGTACTGAACCCCGA
GAGTGAAGGCGATTCGCCGAAACCACAAGTGTTATCACGTATCTA
Found at i:287240 original size:39 final size:39
Alignment explanation
Indices: 287186--287264 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
287176 CGATTTTCTA
* *
287186 TTCACTCATGATCTGGCCTGGTCGACCCGATCATGATAT
1 TTCACTCATGATCTGGCCCGGTCGACCCAATCATGATAT
287225 TTCACTCATGATCTGGCCCGGTCGACCCAATCATGATAT
1 TTCACTCATGATCTGGCCCGGTCGACCCAATCATGATAT
287264 T
1 T
287265 GAAGGATGGG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.30
Consensus pattern (39 bp):
TTCACTCATGATCTGGCCCGGTCGACCCAATCATGATAT
Left flanking sequence: Indices 286686 -- 287185
GCCCACACCTGTGTAGAGTAGATCGTTCAACACCTGCGGCACAAACCCATTTTTGACCTATTGGT
CCTAGTATCATAGGCGACCGAACGGCCGCCCCCTAATTACTAGACCAACCTGCTATAATAATTCC
ATAAACACCTAGCGAAGATATGGCAAACAAATAAAGTAGCCCTATGTTCGAATCTGACAATACCA
TACCATAATCAAAAGGTACAACGGCCCGAGCAACCAGACTTAACATAAATGTAGTCACTGGAGCC
ATTCTAAAAAGGGAGAAATTAGCACTACTTGGTGAAATAGGTTCTTTTAGAATCAATTTCAAACC
ATCTGCTAGAGGTTGTAACAATCCGAACGATCCCACTACATCAGGACCCTTTCGACGTTGCACAA
AAGCCATTACTTTACGTTCAGCTAGCACTAAAAAGGCTACTCCTAGTAGAAGTGGTAGAATTATT
CCAAGTATTTCGGCTGGAACTGCTATGTACGTTTTCGATTTTCTA
Right flanking sequence: Indices 287265 -- 287764
GAAGGATGGGACCTTTTCTCGAAAAACTCCGGATCCAGAGAAGAGTTGAAGATGGTGCAACATCG
AATCCTGTCACCTTACTTCGAATGGAATCTTAGCCCGCCTCACTTGCTTTCTGTACTGCATAAGG
GCCATAAGGGCATAAGCGAAGTCAAGGGATTTCCTTCTAACTAGTGGCTGAGAGTAAGCAAGCTA
CCTTCATTCAACAGATTTGTGGTTGAGTCAATAACATGCTCTGGGTCGGGAATCTTTGCTCTTCT
CTTTTGCATTTCCGCTGCCTGCGTTCTTCTTCGTGTCCGTCCGTATCGCAAAGCTGGTCGACGCC
AGCTGTAATGGTTGAAAATAGGGGGCCAACCAAGACCCTACCCTAATAAAGCTTTGTTCGATAAA
GCAAACGATTCGTTCCGACAACTTCGGACCAGATTAACCCTTTTGAATTAGCCGATCTTACAAAA
TGGATCGGGCGGGCTGGTTGGGAAGGGGTGATTTGCGGAGAAAAG
Found at i:323599 original size:13 final size:13
Alignment explanation
Indices: 323581--323606 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
323571 CCCCGCCCTA
323581 TAGAATGAATAAG
1 TAGAATGAATAAG
323594 TAGAATGAATAAG
1 TAGAATGAATAAG
323607 GAGAGGCCTG
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:0.54, C:0.00, G:0.23, T:0.23
Consensus pattern (13 bp):
TAGAATGAATAAG
Left flanking sequence: Indices 323081 -- 323580
TGTCCAGCGGTGTTGTCCACCAGAACATCGATGTGCGGAAGAGAAAAAGAATCTTTTCGGCTTGC
CTTGTTTAGGGTCTTTTGACTCACGGAACCTGCTTTATGAGGGAAAAACCGTTCTCGAAAAGCGT
GACCATCCCGTTGAATCTCGTTACCCTCCCGTGTGGTTATGGGGGCGCGCCCGCTTTCCACTATT
ATGGAGCCGGGCCGCAAGCAAGTGAATGCGATCCCGCCCTCCATCAGCCGGTGTGTGTGAGCTTC
GCTCCTTATAGCTCTACACCGCCGCCGGCCACTTTAGCTCCTCTACCATATGATTCATTCTTTGG
AAGTTAGGCACGTGACTCGATAGCGCAGGCACAAGACCTTTGAATGCAAACAAAGAATGGCGAGA
CCGCATATAGTTTGGAACCCAAGCTTACCTTATTATTATTCAAAGGGGAAGGTTTGATAAAGGAG
CTTTTAAGCCCTTTTGCTGAATTGTTGGTCCGCAGCCCCGCCCTA
Right flanking sequence: Indices 323607 -- 324106
GAGAGGCCTGTTGATGACCGAGCCACTCTTATACTACTCCTTACCTCACCCCCCCCCTTGTCACT
TAAAGGGCGAAGTCGCTGAAGCGAGTCTAAAGGCCAAAGAGTGATCTTTGAACGCTACTACGCAT
CCTTACTAATAGTATAGTGTAAGGTAGGTTTGGGTATAGCAGGACTTGAACCTGCGACCATTAGG
TTAAAAGCCCAATGCTCTACCAACTGAGCTATACACCCCCAAAATATATAGTTAAAAATAAGGAT
TGGTGCGGAAAAAAAAGGGGGCAGCCGCGGTCGAACTCTAATTCTGGAAAAAAGTCGGGGCCCCT
TTTCCAAGTCTACCAGATAGAAGATGATAGAGGGCCATATCGTTGCGTTGGACAAGACGGCGCCG
TCTCACTTCGAGTTCCTTCCTTCGTAGTAAAATCAGATGATACGCTTCGGCGATGTTACCTACCA
AATTTAAGGCCTGCTAGGTGATCGAAATTGCTCAGGTCAGTGAGG
Found at i:350283 original size:21 final size:20
Alignment explanation
Indices: 350249--350290 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
350239 ATGAGGTTAC
*
350249 GAAGTAAACGAAGTGAGGTG
1 GAAGTAAACGAAGTGAAGTG
*
350269 GAAGTGAAGCGAAGTGAAGTG
1 GAAGT-AAACGAAGTGAAGTG
350290 G
1 G
350291 GCAATCTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.38, C:0.05, G:0.43, T:0.14
Consensus pattern (20 bp):
GAAGTAAACGAAGTGAAGTG
Left flanking sequence: Indices 349749 -- 350248
CATCTGAATGGACGCTTTCTGGTAATAGAAACCCCATTTCGGCCCCTTCTCCCGTTGGGCACTAC
CTCCGATGGGAAAAGATACCCGTAGGACCATTCCGGCAGTTTTTCAAGCCTCCCCTCACGCCTTT
GGCGCCTCTGATGCATCTGATCGAGACAGAGCTCGAAACGTCTGGGCTTCGGATTGATCTTAATC
ACATTGGGATGGTACGGGGGAACAAGATGGACTCGGTTAGGTCACCCCCGAGTCCTTTTGCTGGA
AGTTCGAATGGCTTCTAGTATGGATGTGTCTCGGCTTCGCCTGACGCTCAAGATCGTCTCAATCC
CCTCTCCCTAATGGTATGGTCGAGCAATCTCCCGCTGGTTGAGTGCGAAACCCTCCGCTTGCGGA
GATCGAAGGCAGGATTATGAACTGTTTTCCAAGCTTTGGGTTAGGATTGTTCTCTCGAGACCATA
GTGGGAATTCCTTAACAACAACATTTTGTGTAAACATGAGGTTAC
Right flanking sequence: Indices 350291 -- 350790
GCAATCTTTGCCACTGTTGACTTGAACCAGCGTCCAGATATGGAGGGTTGGCTTAGCGGCAAACC
CTGTTTGGAAAACAAAAGCCAAACAGGGGCATCCTACCTTTCGTCGCCCTTACGGACCCTACATC
TGTGAAATGACGGAATGATACGAGGGATCCCCGGACGAGTCAGGGAGACGGGGACTGGTAAGAGG
GATGGTTTGTAATCATCCCCTCCCACGGCAAGCATGACGAGGAGCACCACTTTCAATACAAAGCA
GTGGCCGAGGCGCCACTCTTTCGTTTCAGTCGCGTTGACAACAAAGGGGTGTGCGGCCGTGTTCC
GTCAAGCCATCGAGATGAGTGTGCCTCTTTGACAGAGTCCCCTTATCTTGCGTAGTAATTCCGGA
ATCTCCTGCCACCGAAGTGAGTCAGAGGAAGGTTCCGCTCCTTCATTCTTTTTTTTTTATTGATT
GCACAAGATCTGCTTCGCAGCCTAACGGTTGTATTCACGAGGCTG
Found at i:387075 original size:18 final size:18
Alignment explanation
Indices: 387054--387094 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
387044 TTCGGCTTCT
387054 AGCTCAAGT-TCAGTCTCA
1 AGCT-AAGTCTCAGTCTCA
*
387072 AGCTAAGTCTCAGTCTCC
1 AGCTAAGTCTCAGTCTCA
387090 AGCTA
1 AGCTA
387095 GCACGACTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (18 bp):
AGCTAAGTCTCAGTCTCA
Left flanking sequence: Indices 386554 -- 387053
TTTGTGGACTCGCACGCATAGGTACACCAGAAAAGAAAGAAGGGTTTGAAGTGCAAGAAGGCCTA
GCTGTAAGTACTTCCCTGGTATCCAACAAAAAGTGAACTTTGGTTTCATTCCTTTTGCTCTAAGT
ATACACCTTGACAGCCAGTGATTACGGACAAAGAAGTAGATGCTCAAGCCCGCAATAGAAAGAGT
TTTGGGAGCCCCTGACGGAACGGAATGAAACTTAAGTGGAACCCTCCTTCTTTAGTGCCAACCCG
GGGATCCAATAGAGATGCCCCTGTCAAGTGACTCCAATCGTATCTGAATCTGTTTTAATGACAGA
AGGGTAACCCAAAAGACAAGTAGTTTGCTGTGTTGAACGTAACTATAGGTTCTCCACCTTGAACT
GAATGTCCGATCCCTGCTTCTCGGTCCCCTTCCCTCTCCCTAAACCTCTTCCTTTCCTCTTGCGG
TTAGAAAGCGGGAAAAAAGAACTGTTGGTAAGCGGTTCGGCTTCT
Right flanking sequence: Indices 387095 -- 387594
GCACGACTCCTGGCATCGCTTTTCCAGTAAGAATAAGTCCTAGGCTGAAAGATTGGAATTGAGCT
ACCCAACTTACTGAATACAACTATGGACCTGAAACGCTGTCTTTCAACTACTGGTGGTAAGGCAA
TCTAACCTTATTTTACTATTAGTCCGGTCGATACAGGAGATCCATAAGATCCACACACAAAAGGG
ACTTGGAGTGGATTCCTCTCTTCTTCCTTCCGTACTTGTACTATACTTGACTTATTTTATACTAG
TAAACTATCATCACAAGCCAAACTAGCAACAACTAGATAGGGTACACGCTCAGTCACTATATCTT
GAAATCCTATTTCGGTGAACTCTGTCATTGTGGGATATTCGGATTCCCAACCTGCCAGTGAACCA
CCAGAAAAGTCATTAAGTCCCGAAACCCGCCATTACTCAACTCTCCTTCTTGGAAATACCCTTCA
ATTTGACCGGGAAGCCGGCCTCTTGCAATAGTTGGTCCAGTCTCC
Found at i:388579 original size:13 final size:13
Alignment explanation
Indices: 388561--388586 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
388551 AACAATCAAT
388561 CTCAGAAACATGA
1 CTCAGAAACATGA
388574 CTCAGAAACATGA
1 CTCAGAAACATGA
388587 GTCCTCGTCC
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:0.46, C:0.23, G:0.15, T:0.15
Consensus pattern (13 bp):
CTCAGAAACATGA
Left flanking sequence: Indices 388061 -- 388560
ATCAGTGTTGCGATATCTGTCTTAAATAGTTAGATTCCCTGTTATCAGTGTCTTGATGTCAAACA
GCTAGTGGAAGCGCTTGAAACACCAACTGGTGTCAGTATGGATTCGTAAGGCTGCGATCCTAAAT
CAGTGGATGTTCCTCTCTTTCCTGGGAGTATAAGAATCAAATGGGTCTAAACCCGGTCAAGGAAA
CCGGTGTGCTTGTTATTTTCTTAACACATGGATTTCGAATGCCCTTAGGGTTTTAGGGTTAGGGG
TGGAAAATGAGAGCAGGCAGACAGCGCCCTTGCTACTGGCATTCAAAAGACGGAGGATTCTCGTG
CAAACTATTGTATGCAAAGAGTGAGATTCATGGTTCTTGTTCTTACTGATTTATATAGATGAGGC
AGCTGCACCTGCTTATTCTAGATCTACTAAAGCAGGTTATTATAGTAAGAAAGAGGAACTGCCAG
CTCAGAAGCAGCAGGAGAAGCTACTTTCGATACCTAACAATCAAT
Right flanking sequence: Indices 388587 -- 389086
GTCCTCGTCCTAAAGAAACGGAGAATTTGCTTAAACGAAGAATGCTCAGAAATCCTCGTACTGAT
TCACATACAGAAGAGAATGGTATAGAATCTCTGGGCATTTGAAGTTATTATAGTAGAAGAGGGCT
AGTGTCTAGAATTATAGGTGTGGTTGGTCTAGGTGGCAAAACAAGGTAGCTGTAGTGACTCCTAG
AGAATTACAAAGAAATTCTCTTCTCCTTTCGTTCTCTTCTTTCTTTTTTTGGTTGGCAGGGTCAG
GACCTTTCTCGCTGGGCGAGCGCATCCGATTCAAAAGTCCTTCCCGTTCAGTTTCTGCAAGGATA
GAGATAAGCTTTCATAATGAGATTTACTTCCACGAATATGTATGCCAGAAAGATGCTATTTACTG
CTATTCCATCTATTTGTGCATTAAGTTCGAAGAATATTTCAATCTATAATGAAGAAATGATAGTA
GCTCTTTGTTTTATAGGCTTTATCATATTGATTTGTTTTATATTC
Found at i:396732 original size:15 final size:16
Alignment explanation
Indices: 396712--396754 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
396702 CGGATGGACA
396712 GATCGACTGT-CGCAT
1 GATCGACTGTGCGCAT
*
396727 GATCGAGTGTGAGCGCAT
1 GATCGACTGT--GCGCAT
396745 GATCGACTGT
1 GATCGACTGT
396755 TAAGGTAGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 9 0.39
18 14 0.61
ACGTcount: A:0.21, C:0.21, G:0.33, T:0.26
Consensus pattern (16 bp):
GATCGACTGTGCGCAT
Left flanking sequence: Indices 396212 -- 396711
ATATTATTACCTGTATTCGATACGGGGTCATTCATAACAAACCTATACCTTCCCTATTTACTTTA
CTCGACGAATTAAGGGGTTTGGTTATTCGTCAGCACGGGTTTAGCTTCCTCTTCCTCTTGGATTG
CGTCAACCGCTCAAGTGAAGCCAAAAGGGGAGGATTTCCGAAAGGCTCCGATCCAGTGAAAATCC
GTTTAAGCTAAAAGCACCGGTTTTCTCCCGGCCAGTCAACAGCCAGTCCACAAGAGAACCCCGAA
ACGGTAGAAAACCCCCCTTCTACCTTTCTTTCTTTTAGAACCTTTCTCGCCTGCCGTTAAATGAA
AGTTTATTTGAGTTCCCAATGGCTGGTGAAAGTTAAATAGGAGACCTCAAGTTGCCATACTTAAC
TAGAACCGAAGGAAGATCTCTCACACCGGCAATGGAAACTAGATGTCAACGAGCGGCACATAATT
GAAATTGGACAACCTCACCCCCCAGTGAATGTAGTCGGATGGACA
Right flanking sequence: Indices 396755 -- 397254
TAAGGTAGGACCTTCAACAAAGAGAGTTGATCAACAAATTCAGACTATTTTCTGTCAATTCGGCT
GTCCTCTCATTTCTATTATAAAATAAAATGTCTTGAATCATTCGATATAAGGGCTTCACTTCGAA
GAGGCATAGGAGCAATATCCCGAAACTGAAGATGGGACTGAAAGCTGCCATACGAGATTAGAGAA
TAGAAAGTAAGGAACTGTCTGAAAGTTTGTACCTTCAAAGCCAACTTCGTCTCTGAACTCAAGCC
TTCCCTTTGACCCGTGTATCCTATCTGTAACCGAACCCGCGGGAAAGCCTACTGAAGAAGGAAAA
GCAACCATATCTCCTTGGCAAACAAGACGGAACCGAAGCTATGTGCATAGTCTTACCCCTGCCCA
ATCTACTCAAAGGATTAGAGATCATGAACGAGAAAATATCAATGAAAGCCCGGAACTTACCCACG
GGCTGACCTACGATCACCTATTCTTTTTTGAGTTTTTTCATGCAA
Found at i:426539 original size:39 final size:39
Alignment explanation
Indices: 426485--426584 Score: 191
Period size: 39 Copynumber: 2.6 Consensus size: 39
426475 AATTCAGTTC
426485 ATAATATACCTATGAATGATCCCCCTTTCAACCCAAATG
1 ATAATATACCTATGAATGATCCCCCTTTCAACCCAAATG
426524 ATAATATACCTATGAATGATCCCCCTTTCAACCCAAATG
1 ATAATATACCTATGAATGATCCCCCTTTCAACCCAAATG
*
426563 ATAATATACCTATGAATAATCC
1 ATAATATACCTATGAATGATCC
426585 AATACCTCTC
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 60 1.00
ACGTcount: A:0.38, C:0.26, G:0.07, T:0.29
Consensus pattern (39 bp):
ATAATATACCTATGAATGATCCCCCTTTCAACCCAAATG
Left flanking sequence: Indices 425985 -- 426484
ATATCAAGACGGAGAAGGAGACGCAAGCGGAAAGATTTAGATTTACATAGACAGCTTTATTTAAT
AAAGAATTGGTAAGAACCCCATATCTTAAGTAAGTAGTTTTATGCCTCATAATAGAAAGGTTGCC
ACAGTCAAATAGAATGCTGTAGGTATAGGTGGATGAAAAAAATAATGAAATCAAAATAGCGTATG
AAATACGCCCAAAACTCCCATGTTTTTCTGGAAAAACCAGATTTCCGACAAGTCTTTCTGTTATA
GCAAGAAGCGGAACTACAAGTGAATCTTTTCCGAAATGTATACTATCAAATATTTAACGTTTTAT
ATGATCATCTTCTTCTTAGGTAGACCACTCGTTAGGCTTGGGTTCGCTTACTTTTATTTGATTTT
GTGGAATTTGTTTTTGGTAAAGGGCACTTTTGCTGACATCGATCTTATGCATTTTTTTTCGGACT
CTTTGTCCGTGAACTCTGGCTCAATCGCAGATTCCAATTCAGTTC
Right flanking sequence: Indices 426585 -- 427084
AATACCTCTCGACGTTGTCGATCAATTTCGTATACTGAACCAAGAGACGGAATTGGAACTCTTCG
CTCGGATACGACTTCTAGAGAACCGTTTGATTGACGGCTTGCCACCGCAAATGAACTTTGGCGAG
TACGAAGCCTTAGTCAGAGGGTTTCTCGATGACACCCTGACCATTGGACACTACCGTAATGTCCT
GAGCAATGAGCTCTTCGATCTTCGCCTGTTAGAGTTTAAGGCGAATCTCTTAGAGCAACTCGTTA
ATTTGTTAATGAGCGAAACAACTGAGCGGCTCGCTCAAATATTGGCAGACTCGCCCTTTCGCGAG
GGTGCCATAAGGACCGAAGGTCTTTCATTTATAACCGACTTTATGAGTCGTTTAAATCTGACTGA
CCCCCAGTCCCCTTTTGATAAAGGATTGGTGGAAGCTATGCTGCGGTACTGGATCCAAGATACCC
AGCAAAACGGGAATCTCTCCGCCGTGTATAGAGAATTCCTCCGGT
Found at i:432606 original size:8 final size:8
Alignment explanation
Indices: 432593--432632 Score: 53
Period size: 8 Copynumber: 4.6 Consensus size: 8
432583 TAGTTTATAG
432593 ATATAATT
1 ATATAATT
432601 ATATAATT
1 ATATAATT
432609 ATATATCTATT
1 ATATA---ATT
432620 ATATAATT
1 ATATAATT
432628 ATATA
1 ATATA
432633 TCTATTATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
8 21 0.72
11 8 0.28
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (8 bp):
ATATAATT
Left flanking sequence: Indices 432093 -- 432592
CGGCCCAAGCGAAGATCTTCGATCCGAATCTTCGCATCTACTCTCTCTTAGAGGATGAACTACGC
CTTCGCTATCGCAAGAATATAGCGATCGAAGAGAGCTATCGCTCAGCTGCTTCGCGTATTACTCA
CGAAAGCCGTATTGCCCGAAGGGGGCATGCCGCAAGAGCGTAGGAGGCGTGCCCGAAGGGCAGCG
GAAGCTGTGCGGTTCCAGGTGCCGTCGCTAGATTGAGATCTGCAGGGTGGCGAGGACTTCGACTG
CCTTGTATCGGGTGCAGAGAAGGGGGTGGTAGGCTTAGTAGGGCTCGAACCTACAATATAACCGT
TATGAGCGGTACGTTTCAACCAATTAAACTATAAGCCCCTGCGGATCTCTACATGCAATTCGCCC
ACTTCGGGAAGAGCGGACGGAAGGAAAGAGGAGGCCTTTGCTCTATCTGCTTCTTCCTCTTCCCG
GGAATGAACAATTGGATAAAAAAAACGGATTTTCTTAGTTTATAG
Right flanking sequence: Indices 432633 -- 433132
TCTATTATTTTATATAAAATAAATTTTTTAAGCAAGCGGCCCCTTCGCGACTCAAACGGGCGGGG
GCGCTTTGTTTGCTTGCAATGCCTGCAGTTCGCCTTTAGTTAGAAGTATAAGTAGAGGGCACCCT
TTGCCCCACACTTCAGAAAAGGTAAAAAAGTATGGATTAAGTAAGAAAAAGTACATAACATAAGG
AGTGAGAAAGAAAAACTTGGTTACGGTAACCGAAGGTTAGGCCGACTACTTACTTTAGTATAGCT
ACACCTAAAAAAGTTTATTCCTACCCCCTTTTCTTCCCCTTTCTGTCAATGTTGCCAATTCTCAG
AATACTTATAATGTACCCTCGCGCATACAATTGCCCAACAACTTTCTTCCTCCGACTTCTTTAGC
CACTTCCGCATCTGTCGTCTTCGGGATCGGGAGAGCTTGCTTCGTGGCGGAGCATTTAGCAATTC
CAGCAGCCTGGTGAGGGCTGGCTGTCTGGGGACAGGTTAAGGCTG
Found at i:432622 original size:19 final size:19
Alignment explanation
Indices: 432598--432640 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
432588 TATAGATATA
432598 ATTATATAATTATATATCT
1 ATTATATAATTATATATCT
432617 ATTATATAATTATATATCT
1 ATTATATAATTATATATCT
432636 ATTAT
1 ATTAT
432641 TTTATATAAA
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:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTATATAATTATATATCT
Left flanking sequence: Indices 432098 -- 432597
CAAGCGAAGATCTTCGATCCGAATCTTCGCATCTACTCTCTCTTAGAGGATGAACTACGCCTTCG
CTATCGCAAGAATATAGCGATCGAAGAGAGCTATCGCTCAGCTGCTTCGCGTATTACTCACGAAA
GCCGTATTGCCCGAAGGGGGCATGCCGCAAGAGCGTAGGAGGCGTGCCCGAAGGGCAGCGGAAGC
TGTGCGGTTCCAGGTGCCGTCGCTAGATTGAGATCTGCAGGGTGGCGAGGACTTCGACTGCCTTG
TATCGGGTGCAGAGAAGGGGGTGGTAGGCTTAGTAGGGCTCGAACCTACAATATAACCGTTATGA
GCGGTACGTTTCAACCAATTAAACTATAAGCCCCTGCGGATCTCTACATGCAATTCGCCCACTTC
GGGAAGAGCGGACGGAAGGAAAGAGGAGGCCTTTGCTCTATCTGCTTCTTCCTCTTCCCGGGAAT
GAACAATTGGATAAAAAAAACGGATTTTCTTAGTTTATAGATATA
Right flanking sequence: Indices 432641 -- 433140
TTTATATAAAATAAATTTTTTAAGCAAGCGGCCCCTTCGCGACTCAAACGGGCGGGGGCGCTTTG
TTTGCTTGCAATGCCTGCAGTTCGCCTTTAGTTAGAAGTATAAGTAGAGGGCACCCTTTGCCCCA
CACTTCAGAAAAGGTAAAAAAGTATGGATTAAGTAAGAAAAAGTACATAACATAAGGAGTGAGAA
AGAAAAACTTGGTTACGGTAACCGAAGGTTAGGCCGACTACTTACTTTAGTATAGCTACACCTAA
AAAAGTTTATTCCTACCCCCTTTTCTTCCCCTTTCTGTCAATGTTGCCAATTCTCAGAATACTTA
TAATGTACCCTCGCGCATACAATTGCCCAACAACTTTCTTCCTCCGACTTCTTTAGCCACTTCCG
CATCTGTCGTCTTCGGGATCGGGAGAGCTTGCTTCGTGGCGGAGCATTTAGCAATTCCAGCAGCC
TGGTGAGGGCTGGCTGTCTGGGGACAGGTTAAGGCTGGGCCTGCT
Done.