Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_029816
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: 515022
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Warning! 25 characters in sequence are not A, C, G, or T
Found at i:197 original size:19 final size:19
Alignment explanation
Indices: 169--216 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
159 CGGTAACTAG
*
169 AGATTGAATAATAGAAGCC
1 AGATTCAATAATAGAAGCC
*
188 TGATTCAATAATAGAAGCC
1 AGATTCAATAATAGAAGCC
207 AGATTCAATA
1 AGATTCAATA
217 TCATAAGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.46, C:0.12, G:0.17, T:0.25
Consensus pattern (19 bp):
AGATTCAATAATAGAAGCC
Left flanking sequence: Indices 1 -- 168
AATTTCATTTCAATTATTTGCGAAAGGATATCAATTGCTAGAACCTTCGATAAAAGAAAGGGATG
CTGTGTATGAATCACTCACCTATTCTTCCGAATTATACGTATCCGCGCGATTAATCTTGTCGGAC
TAAGAGCTCTTATCTCTTTCTTTTCCCACGGTAACTAG
Right flanking sequence: Indices 217 -- 716
TCATAAGAAAATAGAGATTGTAGCGTAGAGTCAGGCTATCCCATGTTTGCAATAACAGCTTTGGG
ATCTTTCCTGTTAATGATGAATAGCTTGCCTCAACAGAGAATCAGAATTCTTTTTATTCGGTATA
ACAACCTTAAAAAGGAATCGATCTAGATGCCCCGCTCTTGCCATCTTTGATGGAATTGAATCATC
AACTGACTTACTTGAGGAATAAAAAAATCTGCTGCTTTCGATTCTTGTCTATCGGATTCTATTGA
GAAGAAGGGACAACCATCCATCCTCCCCGAAACTAGTTTAGTGCCTGAACGAGATTGGTGGCACT
TATGACGAGAAAACAAACTCTTTCTTCTGTTCAAAAGCTAGTAGTGCCGTAGTGCCAATCTACTC
CGAAGAACAAGCTTCTTTGCAAAACTACTTTCTTCTACGGAGCTACCTCCGTCTCACTCTTGTAC
CGAATGCTACCTGGCATAACATCCTTACTTAAATATCTTCCGCTC
Found at i:27361 original size:11 final size:11
Alignment explanation
Indices: 27345--27372 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
27335 GTCGTCATGG
27345 GAAAGAAATAA
1 GAAAGAAATAA
27356 GAAAGAAATAA
1 GAAAGAAATAA
27367 GAAAGA
1 GAAAGA
27373 GATTATTCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.21, T:0.07
Consensus pattern (11 bp):
GAAAGAAATAA
Left flanking sequence: Indices 26845 -- 27344
TGAATTACAGGAAATTAAGTGGTTGACTTGGACAGCAGGCGGGTTACACGTTCCACTGTGCCGAG
ATGTGAGGTGCAGGTGGTGATGATCACCCCGGGGTATGCGCTAGCGCCCTTGACGGGCACTCCAG
GATCCGCCTACGCTCGTGAAAACCCAGGTTGGTCCTCCGACCAGATGTGTGGATAACGAGGCCAC
CTTCACAACCTTCTCCCTTCTATCTTTATCCAAAGTCAGGTAGGGCGGTTCGCTTGAGTCGCTCA
ACCGTCCCTTTGCCCGGTGCTCATGACGCGCTACGGAACCTCCACCGTGCTAGCGGCATAGGAGC
CTACTCAGCGTCAGCGGCTTCGTGCCGCACTGGAGTGATCCAATATGTGGTTCCGCACGTTCCAC
CACTTCTCCGTTCATTTCCAATACTGATCGTGAAACACCATGAGCAGCAGGATGTTGAGGTCCGG
AATTCGAAGTGAAATTCTTGATTTGCCCGTTCCTAGTCGTCATGG
Right flanking sequence: Indices 27373 -- 27872
GATTATTCCCCTAGAGCTTGTCCAGTACCACCAGTACTCAAAATGCATCTCCGCGCGTCTACCTG
GCGCTTTTATTAGCCGCCTTGCATGCAAGCGAAGCGCTATTGGCGGCAATTAATAGCTCACTGAG
CGATGATTGATGCAGTCAGTCAGTGCCCTCGATTATTCCTGATAGAAGGATCATGGCGCCCCGGA
ACGGAAGCATTCCATCCAGCAGCAGCATCTCCTTCAACCACGCGAGGACAAAACTGATGTTAGCT
ACATTCGAGCGTTCACCGCACAGAGGCGATCTCGAACACTACCTATGATAATAAATCCAAAGGAA
AGGAACAAGCAACGGATTGAGCGCACTAGCGCGAAAGAACAAGCTGCTTCTTGTTTAGGGTCTTG
ACTCTTGAGTCTGAGAGGGAGAAGGCTTCCCGCGTGGGCGGATTAGCAATCCCTAGTCTTCCATA
ACGCGTATTGGACTTATGTTTCCTCCTCCTCGAAGATGATGGATC
Found at i:39565 original size:22 final size:23
Alignment explanation
Indices: 39540--39584 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
39530 CCCACCTGAG
39540 CATTCTACTT-CCCCCTATTGGA
1 CATTCTACTTCCCCCCTATTGGA
*
39562 CATTCTCCTTCCCCCCTATTGGA
1 CATTCTACTTCCCCCCTATTGGA
39585 TTACTAGTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.16, C:0.40, G:0.09, T:0.36
Consensus pattern (23 bp):
CATTCTACTTCCCCCCTATTGGA
Left flanking sequence: Indices 39040 -- 39539
AGAATTTATTTTTGCACTATGTTGAGATTCTTTTCTTGCCGGTGTGGTAGATAAGAATGCGCCGA
ATAAGTGTCAGGATTCCCATCCATCACAGAAATCGATCATTCCTTGGATTCCTCACTTTAGGTAC
CTATTATACTCGCGCTTCTTTCTCTTTCTATCTTGCCGGCTTTGGTTTCAGTCAGAGGATGGGTG
AGTCGTAAGGGGATTGGAATGGGAAACTTTGGGAGTCCTAACTCTTTCCTAGGAGTCAAAGTTAC
CTACCGAAGGAGCCATAGTAATGAGAAGTGGGGACTGGGCCTGCCTTGTTGGAACTCTATTTTCC
CTTTCTCTGGAGCTTCCACATAAGATAAGATTCAAGAGCTATAAGCTCACCTTGGGGTTCCTTAT
AAGCACTTGTCTTCTTTCTAACATCACCAGGTGTCAACCCAACCGGTTCTCTTCGTCTATCCTTC
AGTACGAGTTATCCGGTGCTTTGGCTTGGATTCCTCCCACCTGAG
Right flanking sequence: Indices 39585 -- 40084
TTACTAGTCTCGCCCTCTAGTTACATACTATCTTCTTACAGTGGATCACCATCTTGACAGCAACC
TTTCCTACGTTCATGCGGGAGCCTTGATTTAGTACTCGGGCAATGCCTATTGCTCTGTTGCCTAG
AAGTCTCATACATATGTATAGGATCTCATCCATATTATCTTATAGGAAGAGTAGTAACTACCTGC
ATTCGTATATTCCAAAAAAGAAGAAAGAATTCAACCTAGTAGAGTATAACTTTGCTTGCCTAGCC
TTTCAAAGCTATTGTTTGATTCTAGAAGGACCTTAGAGTATTGTCACTGTTCCACTGGAATAAAA
ATATTTGTCAGTGGTCAGTTTAGTTCGAACAACAAAGTGAGTGGCTGGACTTCTAGTTTTGAACT
CTGGCTAGAGTAACCAACCATCGAACCATCTCCAGGTCACAGTCACCCACCAGGAAGGCATAGAG
GCAAGACAGAAAGTCAAGACAGCAGGAATCGAACCTAGTCATAGT
Found at i:99641 original size:17 final size:17
Alignment explanation
Indices: 99616--99653 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
99606 GACAAGAACA
*
99616 AAACTACAATACAAACC
1 AAACAACAATACAAACC
99633 AAACAACAATACAAACC
1 AAACAACAATACAAACC
99650 AAAC
1 AAAC
99654 TACTTGAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.63, C:0.29, G:0.00, T:0.08
Consensus pattern (17 bp):
AAACAACAATACAAACC
Left flanking sequence: Indices 99116 -- 99615
AGTTCTTCGATTCATTCCGTGGCGCGAAATCCTTCATTGGCTAAACAATTATTTGGTTATGCCAT
TTTGGGCTTTGCTCTCACCGAAGCTATTGCATTGTTTGCCCCAATGATGGCCTTTCTGATTTCAT
TCGTTTTCTGATCACATATTTCTTGGTGTAGATATCTCTCTTTGCAAATAGAGATACCGAGGCCC
CCCAACCTACTAGTTGTTGGTGGGGGAAAGAAGAGTGGGAACGTGGGCTTCTTTCACAGTGCGTA
CTGATATCGCAGCACACCTTCATTTAAATAGAACATATCTATCACTCTCTAGCACATAAATTAAC
TTATGCAAGACTCCTTTCGTAACTACTTTCCGGTAGAAATACGGACTTCTTCCTATCAAACTGCT
TTTGCCCAGCAATAATAGGCAGCAGATTTAGTAATGTGCTAGGAAAAATTGGTACAAGACTATAC
GAAAGTTGTTTAAACATGCTAACCACACTACTAGAGACAAGAACA
Right flanking sequence: Indices 99654 -- 100153
TACTTGAGTAATAATCTATTCTTTTTCTTATTCGTAAGCGCATGAAAAAACTTATTTCACTCTAG
CAATTAGCAGTTGACAACATAGTTGTATTAATTCTTTTTTTCCTCTTCCTACTACATACACGGTT
ATAATCGTTATATATTCTCTTCTTTTCTTTAGACTCTTCTTTTTGCATCTCTTTTCTTTCCATTG
TGAGTAAAAGGGGACAACAGTGGGTCAAGTATGTTGATTGGTATCATACTGTGGCAGTAGATCCT
GGTGTCTTTCTCTCAGCTTTCAGAAGCACCTTTCGTGNTCTCGTAGCTGTAAGGAAGGCAAGGAG
AAGATCCGCATATTGTCTTTATGGGTCCTCTTTATGATGAGGTTGCTAATAAGGGTGGGTAAAGT
AGTCCCAATGCTTTTTCCCTCGGTAAGGAAGACTTATGGCATCTAAGGTAGGTAATTTCTTGTGT
TCGTGTTTAGCTCCTTGAACAACTTTGTATCATTCGATACCACTA
Found at i:115113 original size:16 final size:16
Alignment explanation
Indices: 115088--115120 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
115078 ACTGATGGAC
115088 TGACTGAAGTGGCTAT
1 TGACTGAAGTGGCTAT
*
115104 TGACTTAAGTGGCTAT
1 TGACTGAAGTGGCTAT
115120 T
1 T
115121 TCCTGATTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.12, G:0.27, T:0.36
Consensus pattern (16 bp):
TGACTGAAGTGGCTAT
Left flanking sequence: Indices 114588 -- 115087
GTGGAGTACCTTGCTACTTTCAATATTCAAGTTATTTTCATAGTTTGTTTTTAGTTTTGTTGTGG
AGAAAGAGGGCTACTTAGAAGCAAGGTAACTCTATCACCTTCCGTCCGTCTTTTCTTGAACATTT
GACTTCGTGAATCCTAGCTTTTAAGCCATGTTCAGTTGTTACCGCTCTACCATGGGGACCGCTAT
TTTAAGGGACCCCATGGTTTCCCATACTTCCCAAATATTAGGAAAGCTAATTAGGGATATTCTAT
AGTTGAAGGACCTGTTCTGAATAGTGAACACACCAAGAAAAGCCAACAAAACATTTTAGCCCACA
CTTGAAGGCATCTATTCAACACAAAAGTGCAGAGTGGAACTTGAGACTTTTTCCAGTATCTTTAT
CCAGCAGTAGGACTTTCACTACTTTCCCAAGTAAAGCTAGTGTTAAGAGACTGGATTATAGAAGT
GTTGACTGACTTGACTGGAAATATAATATGGAAAGACTGATGGAC
Right flanking sequence: Indices 115121 -- 115620
TCCTGATTCCGATATGGCGTCCTGAATCCGATATTGCTTGATTGTCTGTTGATGCCCAGCCGAAG
AAGTGACTTGCTTAACGCAGCAATTTCTGTTTTCTTGTGCTCTCCACCTCCGCTTGACACTCTCG
TAGTAGATCATAAGAGAAGTATTCTTTCAAGAAATTCGTATAGAAAGATGGACTAGCTCGAGAAC
AAGCAACGGATTGAGCGCACTAGCGCGAAAGCGTTAGCACGCGCATCCGTTTTCTTGCTCCTTGG
CTTCAAACAATCGATTGAATCTGGATTCCTTTGCTTATCCTTCCTGGCTATAGTCTCTCTTGTGC
CTTCGGCAGTTCAGTTAAAGATTTCTGTATCAGCAGTTTGTTTCCCCATTTGCTCAAAGAACGCA
TAAAACCTGTTCCCTCACCGTATCAAAAGATCAAGCGGAAGAGTCCTCTTCTTCAAGAAGAGTTT
TTCATTTCACTCTTCCGCAGCAATGCCCGGGCAAGAAAACAATAT
Found at i:137934 original size:22 final size:18
Alignment explanation
Indices: 137893--137929 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
137883 GTACCCATTA
137893 TATATGAATGAAACATAT
1 TATATGAATGAAACATAT
137911 TATATGAATGAAACATAT
1 TATATGAATGAAACATAT
137929 T
1 T
137930 CATTAACTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.05, G:0.11, T:0.35
Consensus pattern (18 bp):
TATATGAATGAAACATAT
Left flanking sequence: Indices 137393 -- 137892
AAAGTCAAAAGGAAATGAATTAGTTAATTCAATAAGAGAGAAAAGGGGACCAGCACTTGATTTCG
TTGCCCAAACGAATCCCATTCAATCGTTTACTCATGGAATGAGTCCGTCGGAAAGTTCAATCAAT
CTTTTTTTCATATACATTTTGCCTTTTGTGAACGATTTGTGCCTACTCTACTTTCTTATCTAGGA
CTTCGATATACAAAATATATACTACTGTGAAGCATAGATTGCTGTCAACAGAGAATTTTCTTAGT
ATTTAGGTATTTCCACTCAAAATAAGAAAGGGGGTCTATTAAGAACTTAATTAAGGATTAGAGGT
TGATTTGGGGTTGCGCTATATCTATCAAAGAGTATACAATAAAGATGGATTTGGTGAATCAAATC
CATGGTTTAATAACTAAGCATGTTAACTTACCATAACAACAACTCAATTCTTATCGAATTCCTAT
AGTAGAATTCCTATAGCATAGAATGTACACAGGGTGTACCCATTA
Right flanking sequence: Indices 137930 -- 138429
CATTAACTTAAGCATGCCCCCCATTTTCTTTAATGAGTTGATATTAATTGAATATCTTTTTTTTA
AGATTTTTGCAAAGGTTTCATTTACGCCTAATCCATATCGAGTAGACCCTGTCGTTGTGAGAATT
CTTAATTCATGAGTTGTAGGGAGGGACGTATGTCACCACAAACAGAAACTAAAGCAAGTGTTGGA
TTTCAAGCTGGTGTTAAGGATTATAAATTGACTTACTACACCCCGGAGTACGAAACCAAGGACAC
TGATATCTTGGCAGCATTCCGAGTAACTCCTCAGCCGGGGGTTCCGCCCGAAGAAGCAGGGGCTG
CAGTAGCTGCCGAATCTTCTACTGGTACATGGACAACTGTTTGGACTGATGGACTTACCAGTCTT
GATCGTTACAAAGGCCGATGCTATCACATCGAGCCCGTTGTTGGGGAGGAAAATCAATATATCGC
TTATGTAGCTTATCCATTAGACCTATTTGAAGAGGGTTCTGTTAC
Found at i:169098 original size:19 final size:19
Alignment explanation
Indices: 169070--169117 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
169060 CGGTAACTAG
*
169070 AGATTGAATAATAGAAGCC
1 AGATTCAATAATAGAAGCC
*
169089 TGATTCAATAATAGAAGCC
1 AGATTCAATAATAGAAGCC
169108 AGATTCAATA
1 AGATTCAATA
169118 TCATAAGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.46, C:0.12, G:0.17, T:0.25
Consensus pattern (19 bp):
AGATTCAATAATAGAAGCC
Left flanking sequence: Indices 168570 -- 169069
GAAATTGTCTCTATTCATATGTATGAAATACATATATGAAATACGTATGTGGAGTTCCCGAGAAT
TTCATGTGATTTAGTAAACAGAATATAGATTCCATAATTGCTAGATCGATCTGTAGGGATTGATG
AAGAGTGAGCTGATAATGGAATTTTTCTTCGATAAACGGGAAACTTAAGATTAAGATGCTCCGGA
ATGGAAATGAGGGAATGTCCACAATACCCGGATTTAGTCAGATCCAATTCGAGGGATTTTGTAGG
TTCATTAATCAAGGCTTGGCAGAAGAACTTGAGAAGTTTCCAACAATTAAAGATCCAGATCACGG
AATGGATACGAAATCTAGAGGCGGCAGGTAAACTAGGGAAACAGAAACTATTGTTTTTGGTGAAT
TATCAGTGTGCAGATGAATTTCATCCACTGCTATTGAAGAAGCTTTTAGAGGGATATCTTGTCTT
GTCGGACTAAGAGCTCTTATCTCTTTCTTTTCCCACGGTAACTAG
Right flanking sequence: Indices 169118 -- 169617
TCATAAGAAAATAGAGATTGTAGCGTAGAGTCAGGCTATCCCATGTTTGCAATAACAGCTTTGGG
ATCTTTCCTGTTAATGATGAATAGCTTGCCTCAACAGAGAATCAGAATTCTTTTTATTCGGTATA
ACAACCTTAAAAAGGAATCGATCTAGATGCCCCGCTCTTGCCATCTTTGATGGAATTGAATCATC
AACTGACTTACTTGAGGAATAAAAAAATCTGCTGCTTTCGATTCTTGTCTATCGGATTCTATTGA
GAAGAAGGGACAACCATCCATCCTCCCCGAAACTAGTTTAGTGCCTGAACGAGATTGGTGGCACT
TATGACGAGAAAACAAACTCTTTCTTCTGTTCAAAAGCTAGTAGTGCCGTAGTGCCAATCTACTC
CGAAGAACAAGCTTCTTTGCAAAACTACTTTCTTCTACGGAGCTACCTCCGTCTCACTCTTGTAC
CGAATGCTACCTGGCATAACATCCTTACTTAAATATCTTCCGCTC
Found at i:187924 original size:23 final size:24
Alignment explanation
Indices: 187893--187937 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
187883 GCTGTACTCC
*
187893 CCTTGCCCAATAAGGT-GAACCTA
1 CCTTACCCAATAAGGTAGAACCTA
187916 CCTTACCCAATAAGGTAGAACC
1 CCTTACCCAATAAGGTAGAACC
187938 CCCTTTTCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.33, C:0.31, G:0.16, T:0.20
Consensus pattern (24 bp):
CCTTACCCAATAAGGTAGAACCTA
Left flanking sequence: Indices 187393 -- 187892
TAGCCGTTCAAGAAATGTAGAGGTTGCTCGAGCAAACCCTGCACTAGGAAAACTATGGTTTGTCA
AACAAGGAAGTAGGAAATCAAGCAGAGGGCATGAAAGCAACTCGACCGAAGGGGGAGGAAGTGTT
GTAGCAAGAGACCCGCTCTTGCATCATCCCTCTTTAGCGGAAGGTACACTACTTCTCTTCTTTCG
CCTACTTGTTTTCCTGCTTGCTAAGCGGCTTGTCTTGTTCGCCTCGGCCCAGCTTCCTTTCCGTA
GTGACAGAAGTGATTACACTCGACCATCTTCGAGGCTGCTTTCTGCTAGCCATATTCCTAATCTG
GGTATCCTTCCTTGTTTCTAACTCACTCGCTAGTGACGGGAGGAGCGGACTACTCTTATTGCAGG
GATTTCCTTGCCCACTTTTTCCCTTATTGAATTGATCTTGTTAGCTTTACCTGCTAATCCACTAT
CAGGTTTGGCCCTGCCCTTGCTACGGATATCATGCGCTGTACTCC
Right flanking sequence: Indices 187938 -- 188437
CCCTTTTCCTTTATCTCCTAGCTACCAGACTAGAAAGAGCTTCCTTCTTTTCCAGACAAGAGTAG
ACACAATAAGGCTCTCGAAATTGCTTTTTCCTTTTCTTATTCTTCCTTTCCTTTCGACCATCTTA
CTTGGAATCCGGGCTCGCCTTCACTCTGTTCCGGGCAGAATGAAAGGGAATAGAGCTTTGACTGG
CGCGCACGCCCATGCGAGTCGATTTCAAGGAGGGGGTTACATTCCCTGATGATGGATTCCTTGGT
TTTATCCCAACAATACTACCCTATCCTACCTATACCGGTTCATAGCTTTTGAGAATTCTCTTACC
GAGGAAGGCACAAACCTTTTGAAGTAGTGGAATTGCCAACCCTATCCTACTTTTGTTTTGGGAAT
GCTGATTCATTTTCCCCTTCTCTATACTACTCATTCCATTCTCTTTGTCTTTCTCCAACAGGTTA
ATCCTAGCATCTGATCCCTTACCAATTAGGGAATTCTGTATTCGG
Found at i:187942 original size:23 final size:22
Alignment explanation
Indices: 187891--187942 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 22
187881 GCGCTGTACT
*
187891 CCCCTTGCCCAATAAGGTGAAC
1 CCCCTTACCCAATAAGGTGAAC
*
187913 CTACCTTACCCAATAAGGTAGAAC
1 C-CCCTTACCCAATAAGGT-GAAC
187937 CCCCTT
1 CCCCTT
187943 TTCCTTTATC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 1 0.04
23 19 0.76
24 5 0.20
ACGTcount: A:0.29, C:0.37, G:0.13, T:0.21
Consensus pattern (22 bp):
CCCCTTACCCAATAAGGTGAAC
Left flanking sequence: Indices 187391 -- 187890
AGTAGCCGTTCAAGAAATGTAGAGGTTGCTCGAGCAAACCCTGCACTAGGAAAACTATGGTTTGT
CAAACAAGGAAGTAGGAAATCAAGCAGAGGGCATGAAAGCAACTCGACCGAAGGGGGAGGAAGTG
TTGTAGCAAGAGACCCGCTCTTGCATCATCCCTCTTTAGCGGAAGGTACACTACTTCTCTTCTTT
CGCCTACTTGTTTTCCTGCTTGCTAAGCGGCTTGTCTTGTTCGCCTCGGCCCAGCTTCCTTTCCG
TAGTGACAGAAGTGATTACACTCGACCATCTTCGAGGCTGCTTTCTGCTAGCCATATTCCTAATC
TGGGTATCCTTCCTTGTTTCTAACTCACTCGCTAGTGACGGGAGGAGCGGACTACTCTTATTGCA
GGGATTTCCTTGCCCACTTTTTCCCTTATTGAATTGATCTTGTTAGCTTTACCTGCTAATCCACT
ATCAGGTTTGGCCCTGCCCTTGCTACGGATATCATGCGCTGTACT
Right flanking sequence: Indices 187943 -- 188442
TTCCTTTATCTCCTAGCTACCAGACTAGAAAGAGCTTCCTTCTTTTCCAGACAAGAGTAGACACA
ATAAGGCTCTCGAAATTGCTTTTTCCTTTTCTTATTCTTCCTTTCCTTTCGACCATCTTACTTGG
AATCCGGGCTCGCCTTCACTCTGTTCCGGGCAGAATGAAAGGGAATAGAGCTTTGACTGGCGCGC
ACGCCCATGCGAGTCGATTTCAAGGAGGGGGTTACATTCCCTGATGATGGATTCCTTGGTTTTAT
CCCAACAATACTACCCTATCCTACCTATACCGGTTCATAGCTTTTGAGAATTCTCTTACCGAGGA
AGGCACAAACCTTTTGAAGTAGTGGAATTGCCAACCCTATCCTACTTTTGTTTTGGGAATGCTGA
TTCATTTTCCCCTTCTCTATACTACTCATTCCATTCTCTTTGTCTTTCTCCAACAGGTTAATCCT
AGCATCTGATCCCTTACCAATTAGGGAATTCTGTATTCGGGTTTG
Found at i:196311 original size:11 final size:11
Alignment explanation
Indices: 196295--196322 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
196285 GTCGTCATGG
196295 GAAAGAAATAA
1 GAAAGAAATAA
196306 GAAAGAAATAA
1 GAAAGAAATAA
196317 GAAAGA
1 GAAAGA
196323 GATTATTCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.21, T:0.07
Consensus pattern (11 bp):
GAAAGAAATAA
Left flanking sequence: Indices 195795 -- 196294
TGAATTACAGGAAATTAAGTGGTTGACTTGGACAGCAGGCGGGTTACACGTTCCACTGTGCCGAG
ATGTGAGGTGCAGGTGGTGATGATCACCCCGGGGTATGCGCTAGCGCCCTTGACGGGCACTCCAG
GATCCGCCTACGCTCGTGAAAACCCAGGTTGGTCCTCCGACCAGATGTGTGGATAACGAGGCCAC
CTTCACAACCTTCTCCCTTCTATCTTTATCCAAAGTCAGGTAGGGCGGTTCGCTTGAGTCGCTCA
ACCGTCCCTTTGCCCGGTGCTCATGACGCGCTACGGAACCTCCACCGTGCTAGCGGCATAGGAGC
CTACTCAGCGTCAGCGGCTTCGTGCCGCACTGGAGTGATCCAATATGTGGTTCCGCACGTTCCAC
CACTTCTCCGTTCATTTCCAATACTGATCGTGAAACACCATGAGCAGCAGGATGTTGAGGTCCGG
AATTCGAAGTGAAATTCTTGATTTGCCCGTTCCTAGTCGTCATGG
Right flanking sequence: Indices 196323 -- 196822
GATTATTCCCCTAGAGCTTGTCCAGTACCACCAGTACTCAAAATGCATCTCCGCGCGTCTACCTG
GCGCTTTTATTAGCCGCCTTGCATGCAAGCGAAGCGCTATTGGCGGCAATTAATAGCTCACTGAG
CGATGATTGATGCAGTCAGTCAGTGCCCTCGATTATTCCTGATAGAAGGATCATGGCGCCCCGGA
ACGGAAGCATTCCATCCAGCAGCAGCATCTCCTTCAACCACGCGAGGACAAAACTGATGTTAGCT
ACATTCGAGCGTTCACCGCACAGAGGCGATCTCGAACACTACCTATGATAATAAATCCAAAGGAA
AGGAACAAGCAACGGATTGAGCGCACTAGCGCGAAAGAACAAGCTGCTTCTTGTTTAGGGTCTTG
ACTCTTGAGTCTGAGAGGGAGAAGGCTTCCCGCGTGGGCGGATTAGCAATCCCTAGTCTTCCATA
ACGCGTATTGGACTTATGTTTCCTCCTCCTCGAAGATGATGGATC
Found at i:208515 original size:22 final size:23
Alignment explanation
Indices: 208490--208534 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
208480 CCCACCTGAG
208490 CATTCTACTT-CCCCCTATTGGA
1 CATTCTACTTCCCCCCTATTGGA
*
208512 CATTCTCCTTCCCCCCTATTGGA
1 CATTCTACTTCCCCCCTATTGGA
208535 TTACTAGTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.16, C:0.40, G:0.09, T:0.36
Consensus pattern (23 bp):
CATTCTACTTCCCCCCTATTGGA
Left flanking sequence: Indices 207990 -- 208489
AGAATTTATTTTTGCACTATGTTGAGATTCTTTTCTTGCCGGTGTGGTAGATAAGAATGCGCCGA
ATAAGTGTCAGGATTCCCATCCATCACAGAAATCGATCATTCCTTGGATTCCTCACTTTAGGTAC
CTATTATACTCGCGCTTCTTTCTCTTTCTATCTTGCCGGCTTTGGTTTCAGTCAGAGGATGGGTG
AGTCGTAAGGGGATTGGAATGGGAAACTTTGGGAGTCCTAACTCTTTCCTAGGAGTCAAAGTTAC
CTACCGAAGGAGCCATAGTAATGAGAAGTGGGGACTGGGCCTGCCTTGTTGGAACTCTATTTTCC
CTTTCTCTGGAGCTTCCACATAAGATAAGATTCAAGAGCTATAAGCTCACCTTGGGGTTCCTTAT
AAGCACTTGTCTTCTTTCTAACATCACCAGGTGTCAACCCAACCGGTTCTCTTCGTCTATCCTTC
AGTACGAGTTATCCGGTGCTTTGGCTTGGATTCCTCCCACCTGAG
Right flanking sequence: Indices 208535 -- 209034
TTACTAGTCTCGCCCTCTAGTTACATACTATCTTCTTACAGTGGATCACCATCTTGACAGCAACC
TTTCCTACGTTCATGCGGGAGCCTTGATTTAGTACTCGGGCAATGCCTATTGCTCTGTTGCCTAG
AAGTCTCATACATATGTATAGGATCTCATCCATATTATCTTATAGGAAGAGTAGTAACTACCTGC
ATTCGTATATTCCAAAAAAGAAGAAAGAATTCAACCTAGTAGAGTATAACTTTGCTTGCCTAGCC
TTTCAAAGCTATTGTTTGATTCTAGAAGGACCTTAGAGTATTGTCACTGTTCCACTGGAATAAAA
ATATTTGTCAGTGGTCAGTTTAGTTCGAACAACAAAGTGAGTGGCTGGACTTCTAGTTTTGAACT
CTGGCTAGAGTAACCAACCATCGAACCATCTCCAGGTCACAGTCACCCACCAGGAAGGCATAGAG
GCAAGACAGAAAGTCAAGACAGCAGGAATCGAACCTAGTCATAGT
Found at i:256239 original size:15 final size:15
Alignment explanation
Indices: 256219--256251 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
256209 CTCCATACCT
256219 AGTTTACCTATTATA
1 AGTTTACCTATTATA
256234 AGTTTACCTATTATA
1 AGTTTACCTATTATA
256249 AGT
1 AGT
256252 CCTTGTGGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.33, C:0.12, G:0.09, T:0.45
Consensus pattern (15 bp):
AGTTTACCTATTATA
Left flanking sequence: Indices 255719 -- 256218
AGAGCAATCATCCACACCAGGCTCAGGGACGAGGATGGGAAGTACTTACTTTACTGGTGAAGGAA
AGGAAAGGGCATGATGGGCATCTATCTCGATCCGGCAGAGGCGGAGGCCGAGGAGGGAAAGAAGG
AAGGTAGAGCCCGATTGGTGTCGAAAAAGGTTATCATCCCACTTTTGGCTACTATTACTTCTATA
AATAAAGAACGTCGGTCGGGGCTTTCTGGTGATTTCTATATAAGAAAACACTTTGAGAACTTGGC
ATAGAGTCGGTGATCCTGCTTTCATTGAACGCATATAGAGAGCGGTCTAACAAATGAACCAAACT
AGTGCATCAGCAGTGCATCATGCTTAGGTGCAACACCATCAAACTATGACACCACACTTGAAACA
ATATCTTGACAAAAAAGACTTGTGGATGTGGGCAACTTACTGGATTTGCACAGTACCAGGAGTTA
AAAACGGAAAACTTACACCGTTAAAAAAAAACATACTCCATACCT
Right flanking sequence: Indices 256252 -- 256751
CCTTGTGGGAATATGGTCAAATTCCACTCATACCTGTAATATGACTCCTCAATCCTTATGCATGC
GTAGGCTTCACTTATTATTTTATTTGTGTTAGAAAGCCTGCAAGATACATTACCGAATGTTTGTC
TTTTTCACCATAGCTGTTCCCAGTCCCACTAGTGCTAGTATCAATAGTAACATCTTTATTGCTTA
GGATATTTCATCCCTTTAGTGTCCAATAAAGAAGTTCATATTTGCAGGCAATGCACCCACTTCAC
TTCAATCCAAGGGAATTCTTTCGTTCAATGAAAGCGAACTAGCGGGCAGAATTCCTCTGAGTGCA
ATTCCCAAGCAAGGTCACCCACTTAAGTATGGTACCGCGCTTCCCTGTACATATAGAATCCTTCC
TTTGCCTGAAACAATTCCACCAACCAAATCAAGCCAGCCGGGTATCATAGGAGACAGGGGAAAAA
GCACTTTACAAATCACTCGCTGGGTCGGGGGATGCTTATAAGAAA
Found at i:271783 original size:13 final size:13
Alignment explanation
Indices: 271765--271790 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
271755 CTTATTCTTT
271765 TATTAATAAGAAA
1 TATTAATAAGAAA
271778 TATTAATAAGAAA
1 TATTAATAAGAAA
271791 ATTCTATTCG
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:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (13 bp):
TATTAATAAGAAA
Left flanking sequence: Indices 271265 -- 271764
AAGTTTTCTAGTGTTAGCAATGTGTGTTTTAAGATAGAATCCTTCGAGGAGAATAATCGAAACTG
GATCCAAAAGGAAAGCCGGGAGAAACCATACTCTGGCGCATAGTTAGTGGTAGAATGCTTATTGA
AAAAAAAAAAGAGAGGGTTTAGTAATCTCCTGCTACGAGAAAGAATTAGTATAGTAAATGGATGA
ATAAGATTTCTCTCGATTTAGAATCGGATTTTTTGGCGGCATGGCCAAGCGGTAAGGCAGGGGAC
TGCAAATCCTTTATCCCCAGTTCAAATCTGGGTGCCGCCTGATCAATAAAATACTTAGGCTTATA
GTACTGATCCAAATCGACAAATTTGCACCCCGCATAAGTTGGGGCAAGAGAATAACAAGGCTCGG
CGATACTGGATTTTGAGAACCCACCGTTCTTTCCTCAAACTGGGGTTTGTTTTAGCAGTAGTGGC
CCAAACCGCTACCAATAGGGATGAGATAGCGTTTCCTTATTCTTT
Right flanking sequence: Indices 271791 -- 272290
ATTCTATTCGAGAATTTAAAACTAGGAGGCTAAGATGTCAGAAATCTTGGTGGGCACCTGAGCAC
AAGACTTTTTAGAAAAGGCCTGCCCGGGATGTACCGAAAGATAGAGATGCTGCATCGAAACAGTC
AGACTACCGAGGAACCGCTACTCCATACCACGCTGACCAACACACGGCCGCGAGAGAAGAGGCAA
ACCACGCGATCAGCACCACGACTTCAGCTACCTGATCAAACTATGAAAGCAGGAATCGCGTCGTC
TGTATCCCTGCTAAATATCTTGTTTTGGCCACATGGATTGGATATAAACAAAAAAGCCTACACAA
GACTTTGGGTTCACTTTGGCCCTCGTGGAAAGGACCTATGTGAACGAGGCGAATGGACTCATTTG
GAGGACTTAACCAAACTTCATCTTTTGGTCAAAACTTTGCGCATTGAGTTGCCTATAATCCATAG
GCGCCACGAACCTTCTTTCTTCTTGTAAAGAAGAGCCGGTGAGGC
Found at i:302643 original size:70 final size:70
Alignment explanation
Indices: 302563--302704 Score: 284
Period size: 70 Copynumber: 2.0 Consensus size: 70
302553 AAAGTAAGAT
302563 AAGATAAGCAAGAATAAAAAAATATTTGTCGGAATAGCAGAATACAAAATTAAGAAATGCAAAAA
1 AAGATAAGCAAGAATAAAAAAATATTTGTCGGAATAGCAGAATACAAAATTAAGAAATGCAAAAA
302628 TGAAG
66 TGAAG
302633 AAGATAAGCAAGAATAAAAAAATATTTGTCGGAATAGCAGAATACAAAATTAAGAAATGCAAAAA
1 AAGATAAGCAAGAATAAAAAAATATTTGTCGGAATAGCAGAATACAAAATTAAGAAATGCAAAAA
302698 TGAAG
66 TGAAG
302703 AA
1 AA
302705 AAAGAAGTGC
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 72 1.00
ACGTcount: A:0.58, C:0.07, G:0.17, T:0.18
Consensus pattern (70 bp):
AAGATAAGCAAGAATAAAAAAATATTTGTCGGAATAGCAGAATACAAAATTAAGAAATGCAAAAA
TGAAG
Left flanking sequence: Indices 302063 -- 302562
CTTTGCCCAAAAGGATAATCCTAGAATCCCATCTGTCTTCTGGATTTGGAGAAGTTCCGATTTTC
AAGAACGCGAATCTTTTGATATGGTGGGAATCTCTTATGATAATCATCCACGCCTTAAACGTATC
CTAATGCCTGAAAGTTGGATAGGCTGGCCCTTACGTAAGGACTATATAACCCCCAATTTCTATGA
AATACAAGATGCTCATTGAATGATAAGAAATTCATGCTCACTTATACAACACAACTCCAGATTTT
ATGCAAGTCAAGGAATATTTTTACGCTCTGTTCCTAGATGAAACAGAATACCTATTACATTCTAA
TTAATTCCAATTATACAAAAGGTTCAGATAGACTAAGCAAAAAAGGGCTTCATTTCGTTGGAAAA
TCACATATTCATTTCCTTCGTATGAACAGAAAAATATGATGACTCAAAGAAGTTCCCTACCACGA
ACTTTGTACCGCGTGCATTACTTAGAACAACTAGGAAAGTAAGAT
Right flanking sequence: Indices 302705 -- 303204
AAAGAAGTGCCTCTATTTAGAGCTTTATCTACTTAGATGAAAAAATCATACTCTATCTATATTAT
TAACGAATATGTATCCCAACCCATCTCGAGGTATTTGTATCAATACCTATTCGGAAGATCCCTTT
TTTCTGTGCCAGGAACCAGATTTGAACTGGTGACACGAGGATTTTCAGTCCTCTGCTCTACCAAC
TGAGCTATCCTGACCTTTTCTTGTGCATCATCCTAGTAGAGTATTTGTATCGATGTCAATTAAAG
GGGCTAAAAAATCAATAAAGTATTCCAAATCCAAAATTTTGAAATGGGGGGATATATGGATTGTG
AATTACTTACTTAATAATAGGGATTACTTGCCTATACTATAATATGTTCATTTGTATGAATGGGA
TAAAATCCAAAGAAGTCAGTTCGGATCCGTTTGTGAAAGAGTAGAAAAAGAAAGATAGTGAATCT
TGTTTGAACCTATTAATGAAAAATACAGAGATAAATACTAGAGTT
Found at i:312483 original size:25 final size:25
Alignment explanation
Indices: 312455--312504 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
312445 CCTTTTACCA
312455 CACCTACCCCTTGTTGGGCACGTTT
1 CACCTACCCCTTGTTGGGCACGTTT
312480 CACCTACCCCTTGTTGGGCACGTTT
1 CACCTACCCCTTGTTGGGCACGTTT
312505 ATGCATCTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.12, C:0.36, G:0.20, T:0.32
Consensus pattern (25 bp):
CACCTACCCCTTGTTGGGCACGTTT
Left flanking sequence: Indices 311955 -- 312454
TGCATATCTGTTTCGCCTAACTTGTCTTAGACATTCCCACATTGAATCGAAACTCTCAATGCCCA
TTGACTCATCATATCTCGACTGAGCGGAACCAATCCAATAGGATAATCAATATGTTCTACTACTC
CCTATATACCTCAGCTTGTTCGATTGAGCCGATACTGAGCCCTTATCTTTTCAGAAGATGTGCAA
CCACCATTGCTTTTGGGTTGATTTGCAATACCCTTTGCTTTTATTTCACTTCGAGGGAAGACCTT
ACTTTCGTTCCAGCATTCGCTTAAGGATAGGAATAGTCATATCTCGCTCGTAGTCATATCAGCCT
CTATCGTAGGAGTGGTATTGAAGGAAAACCGTACCAGGCCAAATAGATTGGTTTTTAAAATAGGG
GTTCAAATCATTCCGCAAATCCAGAAACTGAAATGGGGTATTGCTGCCAATAAGGATACCACTCT
TACTAGCAAGGTGAAGGACACATCAGCCCGCATACCCTTTTACCA
Right flanking sequence: Indices 312505 -- 313004
ATGCATCTCTTGACCCATCCACACGACCCGCTTTGAACAGGGGTTAGCATTATCAAAAACCATTG
CTCATAAAAGGGATCTCGTTCCTAAAAGGCATATCTCGTACGCTAGGGAATGTGCTTCGGCTTCA
GCCTTCTCCCGCCCTAGAGATTTTTTTTGGATATGTATTGGCGTACGAAGGAGTAATGACGAAAG
CAGATGTCAGTGAAACGAAACGGGTCATAATACACCCTCGACTACTGGGTGAGTTAGAAAAGACA
ACTTCCTCCTCCGGTTACACTCCCTGTGGTGCTTTCAGCGGGGGATTCGTTATGGAAAGCGGGAA
ACTCACAAGTAAGTACTGGTTTTTCGATAGGTAATACTACTTGGGATGACCACCTGGAACCTAAA
CTAACTCTATAACTTGTTTAAAACAAGCGAGAACAGCATCAATTGAATGAAAGGTATAAACAGAC
TGATATGAAATACATAGGGCCTTATGCCACGCTATGCACTCTACC
Found at i:334761 original size:25 final size:25
Alignment explanation
Indices: 334733--334782 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
334723 GCAAAAAAAA
334733 CATGAATAGATTTTTTGAAAAAGAT
1 CATGAATAGATTTTTTGAAAAAGAT
334758 CATGAATAGATTTTTTGAAAAAGAT
1 CATGAATAGATTTTTTGAAAAAGAT
334783 TGGAAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (25 bp):
CATGAATAGATTTTTTGAAAAAGAT
Left flanking sequence: Indices 334233 -- 334732
ATTAAGGGCTTTCCAATATCTAAATGTTCATGCAAAGCAACAAACGAAATGCAAGAACTGTCACG
CAGAAGTCACACAGTATGCTGATCGTTCTGAAATGAGAAAAAGTATGGGATTGAATAAGAGATTC
ATACATAGAGATCTAAACTCATGGAAGGGCCCGGCCAGCAAACGAGATCTCTTACATCCAAACAA
GCAACGGATTGAGCGCACTAGCGCGAAAGCGTTAGCGAGAAGAATAGGACTCTTGCTCGTTGACG
ATCGAGGAAAAAGGGATACAATACCCATTTTAGAACCGTTCACTACTAACAAATAGAAAATATCA
AAATAACAAATAATATAGTTAATGGTTCCAATTTGTCCTAAATTTTGCAGTCTGTGACTGGAAAC
CCTTTCTCTTTTCNNNAATAGAAAGAGAAGGTAAAGGTGGGCTTATTGGTTTTTATAGAATAGAA
AGAGAAGGTAAAGGTGGGCTTTATTAGTATTGGATGCAAAAAAAA
Right flanking sequence: Indices 334783 -- 335282
TGGAAAAAAAGTAAGTAGAATTAGATTTAAGATAAAAGAAAGTTAGTTTTAGTAAGAAACGTGGA
TGAATACTTGCTCTTTTCTCGATTTTAGATCGTATTTTTTGGCGGCATGGCCAAGCGGTAAGGCA
GGGGACTGCAAATCCTTTATCCCCAGTTCAAATCTGGGTGCCGCCTGATCAATAAAATACTTAGG
CTTATAGTACTGATCCAAATCGACAAATTTGCACCCCGCATAAGTTGGGGCAAGAGAATAACAAG
GCTCGGCGATACTGGATTTTGAGAACCCACCGTTCTTTCCTCAAACTGGGGTTTGTTTTAGCAGT
AGTGGCCCAAACCGCTACCAATAGGGATGAGATAGCGTTTCCTTATTCTTTTATTAATAAGAAAT
ATTAATTAGTTGATTCGATTCGAGANATTTAAAACTAGGAGGCTAAGATGTCAGAAATCTTGGTG
GGCACCTGAGCACAAGACTTTTTAGAAAAGGCCTGCCCGGGATGT
Found at i:387221 original size:15 final size:15
Alignment explanation
Indices: 387201--387233 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
387191 TCCCACAAGG
387201 ACTTATAATAGGTAA
1 ACTTATAATAGGTAA
387216 ACTTATAATAGGTAA
1 ACTTATAATAGGTAA
387231 ACT
1 ACT
387234 AGGTATGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.45, C:0.09, G:0.12, T:0.33
Consensus pattern (15 bp):
ACTTATAATAGGTAA
Left flanking sequence: Indices 386701 -- 387200
TTTCTTATAAGCATCCCCCGACCCAGCGAGTGATTTGTAAAGTGCTTTTTCCCCTGTCTCCTATG
ATACCCGGCTGGCTTGATTTGGTTGGTGGAATTGTTTCAGGCAAAGGAAGGATTCTATATGTACA
GGGAAGCGCGGTACCATACTTAAGTGGGTGACCTTGCTTGGGAATTGCACTCAGAGGAATTCTGC
CCGCTAGTTCGCTTTCATTGAACGAAAGAATTCCCTTGGATTGAAGTGAAGTGGGTGCATTGCCT
GCAAATATGAACTTCTTTATTGGACACTAAAGGGATGAAATATCCTAAGCAATAAAGATGTTACT
ATTGATACTAGCACTAGTGGGACTGGGAACAGCTATGGTGAAAAAGACAAACATTCGGTAATGTA
TCTTGCAGGCTTTCTAACACAAATAAAATAATAAGTGAAGCCTACGCATGCATAAGGATTGAGGA
GTCATATTACAGGTATGAGTGGAATTTGACCATATTCCCACAAGG
Right flanking sequence: Indices 387234 -- 387733
AGGTATGGAGTATGTTTTTTTTTAACGGTGTAAGTTTTCCGTTTTTAACTCCTGGTACTGTGCAA
ATCCAGTAAGTTGCCCACATCCACAAGTCTTTTTTGTCAAGATATTGTTTCAAGTGTGGTGTCAT
AGTTTGATGGTGTTGCACCTAAGCATGATGCACTGCTGATGCACTAGTTTGGTTCATTTGTTAGA
CCGCTCTCTATATGCGTTCAATGAAAGCAGGATCACCGACTCTATGCCAAGTTCTCAAAGTGTTT
TCTTATATAGAAATCACCAGAAAGCCCCGACCGACGTTCTTTATTTATAGAAGTAATAGTAGCCA
AAAGTGGGATGATAACCTTTTTCGACACCAATCGGGCTCTACCTTCCTTCTTTCCCTCCTCGGCC
TCCGCCTCTGCCGGATCGAGATAGATGCCCATCATGCCCTTTCCTTTCCTTCACCAGTAAAGTAA
GTACTTCCCATCCTCGTCCCTGAGCCTGGTGTGGATGATTGCTCT
Found at i:412195 original size:15 final size:15
Alignment explanation
Indices: 412175--412207 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
412165 TAGAAAATTT
412175 AATTAATATATATTA
1 AATTAATATATATTA
412190 AATTAATATATATTA
1 AATTAATATATATTA
412205 AAT
1 AAT
412208 ATATTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AATTAATATATATTA
Left flanking sequence: Indices 411675 -- 412174
CTCGATTTCGCTATACGACGAAGATTGCTTATGACATCAATCAGCTAAGTCCGTCTGTCGAAGAA
TTTCTCATTGCATTTGATGTTTAGAGTAATAGTATAGAGTGTTTGGTCTCGCTTTCAAGTTGTAT
CGGCTGGCAATATGCCATAGTGGCTGGTTCAGAATATCCCCCTCGTGAACCTCCACACGAAGATC
TCTGGGGAAACCGCTAAAAAAAGATTGAACATGTGGTTCCGAGTTTCGATAACTTCTTCAGCTTT
CATTTCCTCCGTCTTCAAATGAACCTATCTATGAACTTTCTTCTAATTTCCTTTCCTTTCCTTTA
GGGTGATGCCGAACGAACGACGTTAGTTTACTTGCACGCGATCTCCTTCCAGAGCCAAGACATTA
ACAGTCTAGAATCTTTTTTCATTTTTTACGTTCTGTTAGGTTCTTATCTTAGATTCCGTCATGAC
GGAGCCTAGACCTTTTCTTCTTTTACTTCACACAATAGAAAATTT
Right flanking sequence: Indices 412208 -- 412707
ATATTATTTTTTATGGGCAATAGTTAGGAGAGGTGCGCCTAGCTTTTTGTCTCTTTGATAGCTGG
AAGTTCTCCAAAAGTATGAAAGGCTGGAGGGCTTTGTACCAACCATTCTAGTGTGGTTGGATTCT
GTTCAACAGCCCAAGGACTTTCCGCACATCTTTTGTTCTTTCCACTGCTTGAAGTGATTGCGACA
ACTACGAAGAAACGACGAATCCCAACTACGGATATATAAGAACCGAAACTGCTCAGAGCATTCCA
TCCGGCGTAAGCATCTGGATAATCTGGAATGCGACGTGGCATGCCCGAAAGCCCTAAGAAATGCA
TGGGAAAGAAGGTCAGATTAACCCCGAAAAAAGTAATCCAAAAATGGATTTGGCCTAAAGTTTCA
GGATATGTCCGACCAAAGATTTTACCCACCCAATAGTAAAATCCAGCAAATAAAGCAAAAACGGC
TCCCATAGAAAGTACATAATGGAAATGTGCAACCACATAATAAGT
Found at i:415996 original size:28 final size:31
Alignment explanation
Indices: 415961--416025 Score: 91
Period size: 32 Copynumber: 2.2 Consensus size: 31
415951 GATGATTAAG
*
415961 ACTTTTCATAA-T-AG-CGGGTGAAGCTAAT
1 ACTTTTCATAAGTAAGACGAGTGAAGCTAAT
415989 ACTTTTCATAAGTAAGAACGAGTGAAGCTAAT
1 ACTTTTCATAAGTAAG-ACGAGTGAAGCTAAT
416021 ACTTT
1 ACTTT
416026 CTTTGCTGTG
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 11 0.34
29 1 0.03
30 2 0.06
32 18 0.56
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.32
Consensus pattern (31 bp):
ACTTTTCATAAGTAAGACGAGTGAAGCTAAT
Left flanking sequence: Indices 415461 -- 415960
GTCACTAAGTAGTGCTATTCTGTCCGACGGCGGACTCCATCAATCTGAGGTTCTTTCTCTCACGT
AATTTCGCCCGCCCGTTCTACTTCCGTGCCGGAGGAAATGGGATTCGAACCCATGATACAATCTT
CTTGTATGTCGATTTAGCAAACCAATGCCTTAAGCCACTCAGCCATACCTCCAAGTTGTTGATCG
GAATTGGATGTGCCGGGTTGGTTGCCCGAAGATCCACTGCGTAAGCCGTAGCGCGCGTACTCTTC
TTTACTGAGCGAGAAAGACTCTATCCAGATCTATGGATCTCCCCTGCGTCCAAGCGAGACCCCAT
CCACATAACCCCTTATTTTCTCTCCAATGGTAGATTCGAACCCCAAATCATAGAAACTACACTAT
ATATGAGTTTCTGTCCCGCGTTTCAATGGGACTCCCTGGCAGTACGGTGCTGAATTCTCTGGCTT
TTCTAGCACGCACGGCCTTTTTCATATAGCACCAGGATGATTAAG
Right flanking sequence: Indices 416026 -- 416525
CTTTGCTGTGCTATCTCAAGAGTTTAGCTTTGAGAGTTGGAAAGGAAATAGGGCGGTGGGTAAGG
CCTATTTCAGAATTTTGTTGGTGGGTGGTACTATACGGGTGACTGAGGTCCATCAAAACTGTAGG
TGCATTCGTCTAAAGGGCAGACCCTTGAATTCACTCTGCCTGCTTTCGGCAACTGCATTCAACTT
TACCTGTCTGTGGGGCTTTGACTATGGTGGCTCCTCCTTTGACTCTAACCTCTGCCTACCTATAG
TTTCACTCCAGTCGCTTCTTCCTTTTTACTTATTTGAAAGTGGGCGGCGAAAGGAGTAAGTATCC
TATTTTTGGAATGGAATTTCAGTAAAGTCTTTTTTTCTGCTTTATCCTTCTCTCAATCAAAGAAA
GGGAATGCAGATGTTCTGTCGCCCTCTCTTCGTATGCCACCAGCCTTCCTATCAAAAAAAGATTC
ATTCCTTGAACATAGGCCTCTCTCTTGCGGCTAGCGAGATTGGCT
Found at i:458215 original size:21 final size:21
Alignment explanation
Indices: 458189--458229 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
458179 ACTCAGGCCC
*
458189 ATTGTCGAATCCTACTCAGCA
1 ATTGTCGAATCATACTCAGCA
*
458210 ATTGTCGAATTATACTCAGC
1 ATTGTCGAATCATACTCAGC
458230 CGAAAAAGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (21 bp):
ATTGTCGAATCATACTCAGCA
Left flanking sequence: Indices 457689 -- 458188
TCGTTTCGTTGGTCTTTTATATACCCATTTTCATTCCATTTGGACCCCTGGCAAATTCGAACTTT
CGTTGAAATTGTCTCTATTCATATGTATGAAATACATATATGAAATACGTATGTGGAGTTCCCGA
GAATTTCATGTGATTTAGTAAACAGAATATAGATTCCATAATTGCTAGATCGATCTGTAGGGATT
GATGAAGAGTGAGCTGATAATGGAATTTTTCTTCGATAAACGGGAAACTTAAGATTAAGATGCTC
CGGAATGGAAATGAGGGAATGTCCACAATACCCGGATTTAGTCAGATCCAATTCGAGGGATTTTG
TAGGTTCATTAATCAAGGCATACACTATCTATATCTAAACAAGGAAGTTAGATTCGGGGATGCCC
CTTTCGAGGGGCATTCCGATTTCGCTAGTATCATAATTTTTGCCGCACGAATCCAGATTGAGATT
GAGGAAAGGAAGTTAACTAAGTTTTCGAATCACTGACTCAGGCCC
Right flanking sequence: Indices 458230 -- 458729
CGAAAAAGGGGGTACTTATTTATGGCGGAACGGGCCAATCTGGTCTTTCATAATAAAGAGATAGA
TGGAACTGCTATGAAACGACTTATTAGCAGATTAATAGATCATTTCGGAATGGGATATACATCCC
ATATACTGGATCAAATAAAAACGCTGGGCTTCCATCAAGCCACTACTACATCGATTTCATTAGGA
ATCGAGGATCTTTTAACAATACCCTCTAAGGGATGGTTAGTCCAAGATGCGGAACAACAGAGTTT
TCTTTTGGAAAAACACTATTATTATGGGGCTGTACACGCGGTAGAAAAATTACGCCAATCCGTTG
AAATCTGGTATGCTACAAGTGAATATTTGAAACACGAAATGAATTCGAATTTTCGGATAACAGAT
CCTTCTAATCCAGTCTATCTAATGTCTTTTTCAGGAGCTAGAGGAAATGCATCTCAGGTACACCA
ATTAGTAGGTATGCGAGGATTAATGGCGGATCCTCAAGGACAAAT
Found at i:484117 original size:22 final size:18
Alignment explanation
Indices: 484076--484112 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
484066 GTACCCATTA
484076 TATATGAATGAAACATAT
1 TATATGAATGAAACATAT
484094 TATATGAATGAAACATAT
1 TATATGAATGAAACATAT
484112 T
1 T
484113 CATTAACTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.05, G:0.11, T:0.35
Consensus pattern (18 bp):
TATATGAATGAAACATAT
Left flanking sequence: Indices 483576 -- 484075
AAGTCAAAAGGAAATGAATTAGTTAATTCAATAAGAGAGAAAAGGGGACCAGCACTTGATTTCGT
TGCCCAAACGAATCCCATTCAATCGTTTACTCATGGAATGAGTCCGTCGGAAAGTTCAATCAATC
TTTTTTTCATATACATTTYGCCTTTTGTGAAGGATCTGTGCCTACTCTACTTTCTTATCTAGGAC
TTCGATATACAAAATATATACTACTGTGAAGCATAGATTGCTGTCAACAGATAATTTTTATAGTA
TTTAGGTATTTCCACTCAAAATAAGAAAGGGGTCTATTAAGAACTTGTAAAATAAGGATTAGGGA
TTGATTTGGGTTGCGCTATATCTATCAAAGAGTATACAATAAAGATGGGTTTGGTGAATTAAATC
CATGGTTTAATAACTAAGCATGTTAACTTACCATAACAACAACTCAATTCTTATCGAATTCCTAT
AGTAGAATTCCTATAGCATAGAATGTACACAGGGTGTACCCATTA
Right flanking sequence: Indices 484113 -- 484612
CATTAACTTAAGCATGCCCCCCATTTTCTTTAATGAGTTGATATTAATTGAATATCTTTTTTTTA
AGATTTTTGCAAAGGTTTCATTTACGCCTAATCCATATCGAGTAGACCCTGTCGTTGTGAGAATT
CTTAATTCATGAGTTGTAGGGAGGGACGTATGTCACCACAAACAGAAACTAAAGCAAGTGTTGGA
TTTCAAGCTGGTGTTAAGGATTATAAATTGACTTACTACACCCCGGAGTACGAAACCAAGGACAC
TGATATCTTGGCAGCATTCCGAGTAACTCCTCAGCCGGGGGTTCCGCCCGAAGAAGCAGGGGCTG
CAGTAGCTGCCGAATCTTCTACTGGTACATGGACAACTGTTTGGACTGATGGACTTACCAGTCTT
GATCGTTACAAAGGCCGATGCTATCACATCGAGCCCGTTGTTGGGGAGGAAAATCAATATATCGC
TTATGTAGCTTATCCATTAGACCTATTTGAAGAGGGTTCTGTTAC
Found at i:496141 original size:52 final size:52
Alignment explanation
Indices: 496080--496179 Score: 182
Period size: 52 Copynumber: 1.9 Consensus size: 52
496070 TCTTCAAGGG
* *
496080 TCCACCAGGGCTTCCAAAGCTAGACTATCCTCGGCAAAGAACCTAAGGGCGC
1 TCCACCAGGGCTTCCAAAGCGAAACTATCCTCGGCAAAGAACCTAAGGGCGC
496132 TCCACCAGGGCTTCCAAAGCGAAACTATCCTCGGCAAAGAACCTAAGG
1 TCCACCAGGGCTTCCAAAGCGAAACTATCCTCGGCAAAGAACCTAAGG
496180 AATTCCTCGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.31, C:0.32, G:0.22, T:0.15
Consensus pattern (52 bp):
TCCACCAGGGCTTCCAAAGCGAAACTATCCTCGGCAAAGAACCTAAGGGCGC
Left flanking sequence: Indices 495580 -- 496079
TCTGCTGTTGGAGATAGCGTGGGCGGCCCCTCACTTTTATTCAGAACTTTGATGGTACGAAGTGC
CCAGTAAGCCTGGCTGGAAGAAAGGAATATTAATTACAACCACTTGTATGCAGCTTAGTCGGACT
CAAAGGATATAAGGGAATTGGCGCTCGCTCGGATTCATTTTCCAGGTCCTACATGTTCTAGGACT
ATAGATGATCCAACATGCCTATAGTTTTCATTATTGTTTTATGCTTTAGCCTCCTTTTATAAGCA
CGCCCATGCGAGTCGATTTCAAGGAGGGGGTTACATTCCCTGATGATGGATTCCTTGGTTTTATC
CCAACAATACTACCTCTATCTTAATAATAAGGAAATCAAAATCTATATCTATATACGCAACATAA
GCTCCTTCGTACCCAACAACTTAATATAGGAGAAATCCAAAGTCCTAGTTTGAAACATAAAGAAT
ATGCATTTTCTTGACCCACCGAATCCTAATCCTCATCTTCAAGGG
Right flanking sequence: Indices 496180 -- 496679
AATTCCTCGAATCGATAGACTTTCGTACAACGGCAAACAGAGAGAGGGTTTTACGCTACTTCACA
GTCAGAAGCAAGGGTGGAAGGTATAACTCTAGCCGGCAGGCGAAGGGCTAAAGTGGTAGTCATAA
AGCTCACTCTAGCACTTGTACCAGTCGCCTACCAGATCACGGCTTTGCTCAAATTTTTGCAGTCT
CTCCAATTATGCAATCCTCTCCAAAATTGGGGCTTTTCTTCACTTCAGCACTTCCCCTCGCAGTG
GATTCCACTAGGTTCTTAACCTCTTCCCAATTCTTAAACTAAAACCTGCGATGTCTAATCCAACT
CGGCACCTAACCAGCTTGTCAGCATCGTAAGTTTGCCTCAACATTCCCCCTAGAAATAGAATAAG
AATGTAAATCTACTTTCATTTATTTATTAGGGATGAGACTTTCTTATATATTTTTATAATAAGTA
TGCTCTGGAGTAAAAGGATTCGAACCTTTGCATGCCGGTACCAAA
Done.