Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_048502
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: 294911
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Found at i:17968 original size:19 final size:19
Alignment explanation
Indices: 17944--17982 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
17934 ATCATTCTTT
17944 ATTATTAATTAATAAAGTA
1 ATTATTAATTAATAAAGTA
17963 ATTATTAATTAATAAAGTA
1 ATTATTAATTAATAAAGTA
17982 A
1 A
17983 CGGGGATTCA
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:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (19 bp):
ATTATTAATTAATAAAGTA
Left flanking sequence: Indices 17444 -- 17943
TTTGAGCTGTTAAACAATAGATACATGGGGGTTTTAATAACGCCGGATCGGCTTATCAATAGTGA
AAATAGAGTACAGCTGCCGTCCGCTTGACTCTTTTTGAGTAAGATCAGTAGGCGAGAAGCTCACA
TCCGGCTCCATAGAAGACATAAGTATTTACGATGCTTTGAATAGCAATCTTTCGTACCCCAGCAA
GTCTATTGATGGGAAAGCTTAATAGAGTGACCAAGCTAAGACCTTAGACGAAGAGAGTGTCCAAC
CAATCACGCCAAGCAGCCCTGCACTAAGCAAGTCGTAGTCCCAGCTTTTTTTTTCTCCGGAAGAG
TCCGCCTTTTTAACGTGTGATTTCCCCTCCAGGGTAGGAATAGGGATGTTTTTAGTACAGATCTT
TTAAGCGAACCACTATTAAGAGTATTTGATTCAGGATCATCTGATTTGGATGAGCCAAATCCTTT
CCATTGCCATTCAACAAGCCCATGCTGTTGTGGTAATCATTCTTT
Right flanking sequence: Indices 17983 -- 18482
CGGGGATTCAAAAAAGAATAAACCATAGCTCCGTTGACTCTTTCAAAAAATATCCTCGTAAAGAA
GAGGGAACGTAACGATAGGACTTCTTATTCATAACACAGGAAACGGACTCTTCTTGGAATTTGTA
CTTCCTTTGTTTAGTTAGTAAGAATAGGCCGGGTCTCCCAGTGTAGGACTGCTCCCATTCATTTG
GAAAGTTAGAGCATCTCCTGATTCGATGATCTATTGAACTACGGCCGCTCCTACTTTCTTCTTAG
TGGTTTGGTACTCCCCTTTTTTAATAAGTAATTTTAATAAGTAATAAGGGCTCTTTATCGCTAAT
GGAAAGCCAGTGCATGAAGATCTATTCCCCTCGTCCTACGACCTTCCCGCCTAAGGGGAAGGGGG
TGGATTGAGGCCTTTAGTTCGTGTTCCCTGGCCAAAATGGGGAAATCACACACGGAAATCAAGTC
TAGCTCCACCCGGGCTTCCACGAAAGAACAATAAAATTAATTAAG
Found at i:18279 original size:13 final size:13
Alignment explanation
Indices: 18261--18287 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
18251 TACTCCCCTT
18261 TTTTAATAAGTAA
1 TTTTAATAAGTAA
18274 TTTTAATAAGTAA
1 TTTTAATAAGTAA
18287 T
1 T
18288 AAGGGCTCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (13 bp):
TTTTAATAAGTAA
Left flanking sequence: Indices 17761 -- 18260
CGGAAGAGTCCGCCTTTTTAACGTGTGATTTCCCCTCCAGGGTAGGAATAGGGATGTTTTTAGTA
CAGATCTTTTAAGCGAACCACTATTAAGAGTATTTGATTCAGGATCATCTGATTTGGATGAGCCA
AATCCTTTCCATTGCCATTCAACAAGCCCATGCTGTTGTGGTAATCATTCTTTATTATTAATTAA
TAAAGTAATTATTAATTAATAAAGTAACGGGGATTCAAAAAAGAATAAACCATAGCTCCGTTGAC
TCTTTCAAAAAATATCCTCGTAAAGAAGAGGGAACGTAACGATAGGACTTCTTATTCATAACACA
GGAAACGGACTCTTCTTGGAATTTGTACTTCCTTTGTTTAGTTAGTAAGAATAGGCCGGGTCTCC
CAGTGTAGGACTGCTCCCATTCATTTGGAAAGTTAGAGCATCTCCTGATTCGATGATCTATTGAA
CTACGGCCGCTCCTACTTTCTTCTTAGTGGTTTGGTACTCCCCTT
Right flanking sequence: Indices 18288 -- 18787
AAGGGCTCTTTATCGCTAATGGAAAGCCAGTGCATGAAGATCTATTCCCCTCGTCCTACGACCTT
CCCGCCTAAGGGGAAGGGGGTGGATTGAGGCCTTTAGTTCGTGTTCCCTGGCCAAAATGGGGAAA
TCACACACGGAAATCAAGTCTAGCTCCACCCGGGCTTCCACGAAAGAACAATAAAATTAATTAAG
TAAAAAAGGAACGAAGTCACTCGCCCTATAATAGAATAGTGAAAGCTGGAGAGGAACGAAGGGAT
GGGGTATTCGTGATCCCAGGCAAGAAAGAGAAAAAGTCCCATCTAGCACTATAAGTTCCTCGGAT
GTGAATTGTCGTTCCGGGATGCTAGACTAAAGTATGCGGGCACAAGCACCTGAGCAACAGGAGCC
TTCTATTGTGACTGACTCTGGACCTGAGTCACCAAAATCAGCTACACGAAGCCCTCAAAGTCCGA
AAGGTGTCAGAGAAAGCCCAAGGCCCACGACCCAGAGAGTGCCTT
Found at i:45566 original size:13 final size:13
Alignment explanation
Indices: 45548--45572 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45538 ATTGCTTGAG
45548 GAAATAAATTACT
1 GAAATAAATTACT
45561 GAAATAAATTAC
1 GAAATAAATTAC
45573 CAATATGTGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.08, G:0.08, T:0.28
Consensus pattern (13 bp):
GAAATAAATTACT
Left flanking sequence: Indices 45048 -- 45547
TCGTACCCTGACTACTCCTCTTTCACTGGCTTCTACTTGTCTTTTACTGGCTTATTTGTACCCAG
CTTCATGATTGAACTCCCCTCGGCCAATCGTCACTCGACAGCAGTCCTAGCGTAGGCTAAAGAAG
TAAAGCCTCTGCCTCTATCGCTTGATTGAAAGGATCAGACACTTTCCCCTACTTTTGACAGCAGA
ACGAATTATATTATTAATATAAGTAAGGTAAACTTGCTTTTGCCGATTGCACTCGGATAGCGGCC
TGGGCCGTCCTGGAATGGGAAAAAAATAAATTAGATGGACTGGACTTGGGCTTTGTTTGGAAAGC
CAGGAAAAGGTGGCATTTCCGGGCCAGGAAAATGGATCTGAATGCTAACATTGGGCTAACCTTCA
CTCCAATAGAATGGGGAAACGAGCAGAAGCATATTTTGTCTGCCATCCCTCAGGGCAAATCCGTG
TTCATCACAGGCTCTGCTGGGACTGGTAAAACCCTATTGCTTGAG
Right flanking sequence: Indices 45573 -- 46072
CAATATGTGGTTTTGTCATACAAAAAGATCCAATTTGTTTGGACTCGTTAGGTTTGGCCCATTAC
CTTGAGTGAGGCCGAACGTGTACACCTTTTGTTATGAAGATGTGATCTTATCCACCGATGGGTCT
TGTTCTAAGCCCAACCCTCTCGTCTTAGGGTAGGATATCCAGAAACCTTAAATCACGGGAACTTC
CCCTTTTTGGTAGACAGCCTATGTTGGGCTGACTAAGCCCACTATCCTACCTAATAGGGTCCCAT
CTTGTGTCGGGTTAAGGGCGCTTAGTGGAACCCAATTTCTTCACTTGTAGTCTAGGGCTTTGCTT
GGCATTGGGCTTCGATATAGCTTGCTTTCCTGGTTTTGGATTAAACCTCTGCTCTCCTAATTCAG
TCTATAGGCTTAGAATTTAGCCCAGAAAGAAACCTTTCTTAGCATCCAATTGCTCGACTCGATGG
GTACTTCTAGTGGTTTGCCTGCCGGAGAAGCTCTTGTATTTCTTT
Found at i:65064 original size:20 final size:20
Alignment explanation
Indices: 65039--65078 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
65029 ACTGGAGATT
65039 GAGGAACCTGCTTTGATTAA
1 GAGGAACCTGCTTTGATTAA
65059 GAGGAACCTGCTTTGATTAA
1 GAGGAACCTGCTTTGATTAA
65079 AAAGGAATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (20 bp):
GAGGAACCTGCTTTGATTAA
Left flanking sequence: Indices 64539 -- 65038
TCCCCTACTGATCTGACTCCAGCAGATTCTCGAGAAGCCAATTCTCTCTCTCGATCTACTTTACC
CTCTGAATGAATGAGCAATGAGTTTTATTCTAACTATTCAAAGCAGAGGAAATAGAATATTATAT
AGCCTATAGCTATAGGGCTAGGCTCCGCTCCTCGCTCGAGCTACCAGCTTTCTTATATATCATTC
CTGTTGACTAATCCGAGTCCTTGAGAGCTTAGACGTCAGCGGGGAAGAACTCCGAAATAATTTCA
TCGGCTCCTCCTCTCTTGCCCTCTTTATGGTATCCAGTTGAAATGGTTGCTGCCCCTAGTTCAAG
CTCTAAGTAAAGCATTCACGCACCAAAGACCCCTTACTACGCTCCTGAGCCTAGGAAAGATAAAT
CCCGAGTAAACAGGCTTGAAGCTGGTGATCAAAACACTAGCTATTTTCACAGAGTTGTCAAAGCG
CTGCTAAGAGCAGAATTCTATCTATCACCTCTGCTACTGGAGATT
Right flanking sequence: Indices 65079 -- 65578
AAAGGAATTCTTGCTGCATTTCAAGAATTTCCTTGGAACTGCAGATAGCAATGGTTGAGGTGGTG
ACACTGAAGAGATCAGATCATTGCTAAGCCATTTTCTCACTGATGAGCAAGGATCTGCACAGGTG
GCTCTTATGACGGCTGATGATGTTAAGAAGACAATCTTTCTAAAGGGCTGCAAACAAACAAATAA
GGCACAAGGACCTGACGGTTTTACTGCTGAATTCTTTCAATCCAGCTGGAGCATTGTGGGGAAAA
TAGTTACCAAAGCTATCCTTGAATTCTTCTCTTCCTTCAAGCCCACAGCCAGCCGATTATCTTCA
ATGTGAATGTGCCATTTTCTCGGTTAAATTTGAAGCAATCACTTTTCCCTCTTTAGTGACAGTTC
AATCCTGCCAGTTGAGCGTTTTCTCGGTCTTTTTGAAAGTTAATTTTAGCCCTACCTAAACTGGC
ATAAAAATGTGACAGTTGATCATTTTCCCCGTCTTTTTGGCATAA
Found at i:74553 original size:20 final size:20
Alignment explanation
Indices: 74528--74567 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
74518 TTGATACCTA
*
74528 TTCATTCGGTCAAAGTCTCC
1 TTCATTCGGCCAAAGTCTCC
74548 TTCATTCGGCCAAAGTCTCC
1 TTCATTCGGCCAAAGTCTCC
74568 ACGGCGTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.20, C:0.33, G:0.15, T:0.33
Consensus pattern (20 bp):
TTCATTCGGCCAAAGTCTCC
Left flanking sequence: Indices 74028 -- 74527
GGGACGAACTTTATCAAAGTAAACTTTATCGCTTGTTAGTCAAGCTTTGAAGCCCCTACTTTCTT
GTTGGGATATTAAAAGAAGCGCTGGTTTGGAACGGAACCCTATACAAGGGGCTTTTCCCCAACCT
ATATATACAAGGTGCTGGTCTCGATCTCGCTTGGCGGTGCCCCTCTCGATGATTGTTGACTCAAC
ATGGATTTCGTGCTTGAGTTGGAGGGCCCTCCATCCATCGAGTCAAGTAATTCGCTATCGGAAAT
TTAGCCGCCGCGTATCTCATGCCATGCTTCTTGTTTCTCCGAATCGGTTCCGTCTGTCAGTCAAT
CAAGATTCGCCATCAAGAGAGGGAAGAGCCTTGACTTTCGGTTAGGCCGGTCTCGTCATTCATGC
AATTCCCCCGTCCATCGATCACGCGAGCATCCAGTCAGCACATAGCGAACGAAAAAAGCGTTCAT
CCTGGATTATCTTCCTCAATCAAAATGTCTATCAATTGATACCTA
Right flanking sequence: Indices 74568 -- 75067
ACGGCGTTTTCACGCCCCTCTACTTAGAGGTGCACCATGTTGATAGGAATCGGCAAAGACCTTCT
TGTACACGTCCTCGAGGGCTGCATTCATGGCAATCATCACTAGTTTATCCCGAGGGCATGGTATG
GCTTTGTTCTTGGTGTTGTTTAATAGAATAGATGTCGAGTGCCGCTTTTCCCCGTCCGAGAATCT
CCATCTGCTCTAACTGGGCGAGCTATAATCCTTATGTCAGGTTGGTTGTTCAAAAGATATTTTCT
CTTTACCCTTCATCTTTTCGAAAGCCTAGACCCATTCTTCTGGATCTTTATTAGTCCTAGGTGCA
AAGCCTCTTCAAGAAAGACCTCTTTCTTTCTCCTCCATTTATCATTTTTTTGATTGAAAGAGGAT
AAGCGCTATCCATTGAGTAAAGGGAGGCTTTCCTACACTACAGTGATTCGGGCGGTTGGTGGCCC
CTTCGAGAGTTGCGGGTCCTTGCCGCTGCATGAGTGGTAGCTCAC
Found at i:96506 original size:19 final size:19
Alignment explanation
Indices: 96482--96520 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
96472 ATCATTCTTT
96482 ATTATTAATTAATAAAGTA
1 ATTATTAATTAATAAAGTA
96501 ATTATTAATTAATAAAGTA
1 ATTATTAATTAATAAAGTA
96520 A
1 A
96521 CGGGGATTCA
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:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (19 bp):
ATTATTAATTAATAAAGTA
Left flanking sequence: Indices 95982 -- 96481
TTTGAGCTGTTAAACAATAGATACATGGGGGTTTTAATAACGCCGGATCGGCTTATCAATAGTGA
AAATAGAGTACAGCTGCCGTCCGCTTGACTCTTTTTGAGTAAGATCAGTAGGCGAGAAGCTCACA
TCCGGCTCCATAGAAGACATAAGTATTTACGATGCTTTGAATAGCAATCTTTCGTACCCCAGCAA
GTCTATTGATGGGAAAGCTTAATAGAGTGACCAAGCTAAGACCTTAGACGAAGAGAGTGTCCAAC
CAATCACGCCAAGCAGCCCTGCACTAAGCAAGTCGTAGTCCCAGCTTTTTTTTTCTCCGGAAGAG
TCCGCCTTTTTAACGTGTGATTTCCCCTCCAGGGTAGGAATAGGGATGTTTTTAGTACAGATCTT
TTAAGCGAACCACTATTAAGAGTATTTGATTCAGGATCATCTGATTTGGATGAGCCAAATCCTTT
CCATTGCCATTCAACAAGCCCATGCTGTTGTGGTAATCATTCTTT
Right flanking sequence: Indices 96521 -- 97020
CGGGGATTCAAAAAAGAATAAACCATAGCTCCGTTGACTCTTTCAAAAAATATCCTCGTAAAGAA
GAGGGAACGTAACGATAGGACTTCTTATTCATAACACAGGAAACGGACTCTTCTTGGAATTTGTA
CTTCCTTTGTTTAGTTAGTAAGAATAGGCCGGGTCTCCCAGTGTAGGACTGCTCCCATTCATTTG
GAAAGTTAGAGCATCTCCTGATTCGATGATCTATTGAACTACGGCCGCTCCTACTTTCTTCTTAG
TGGTTTGGTACTCCCCTTTTTTAATAAGTAATTTTAATAAGTAATAAGGGCTCTTTATCGCTAAT
GGAAAGCCAGTGCATGAAGATCTATTCCCCTCGTCCTACGACCTTCCCGCCTAAGGGGAAGGGGG
TGGATTGAGGCCTTTAGTTCGTGTTCCCTGGCCAAAATGGGGAAATCACACACGGAAATCAAGTC
TAGCTCCACCCGGGCTTCCACGAAAGAACAATAAAATTAATTAAG
Found at i:96817 original size:13 final size:13
Alignment explanation
Indices: 96799--96825 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
96789 TACTCCCCTT
96799 TTTTAATAAGTAA
1 TTTTAATAAGTAA
96812 TTTTAATAAGTAA
1 TTTTAATAAGTAA
96825 T
1 T
96826 AAGGGCTCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (13 bp):
TTTTAATAAGTAA
Left flanking sequence: Indices 96299 -- 96798
CGGAAGAGTCCGCCTTTTTAACGTGTGATTTCCCCTCCAGGGTAGGAATAGGGATGTTTTTAGTA
CAGATCTTTTAAGCGAACCACTATTAAGAGTATTTGATTCAGGATCATCTGATTTGGATGAGCCA
AATCCTTTCCATTGCCATTCAACAAGCCCATGCTGTTGTGGTAATCATTCTTTATTATTAATTAA
TAAAGTAATTATTAATTAATAAAGTAACGGGGATTCAAAAAAGAATAAACCATAGCTCCGTTGAC
TCTTTCAAAAAATATCCTCGTAAAGAAGAGGGAACGTAACGATAGGACTTCTTATTCATAACACA
GGAAACGGACTCTTCTTGGAATTTGTACTTCCTTTGTTTAGTTAGTAAGAATAGGCCGGGTCTCC
CAGTGTAGGACTGCTCCCATTCATTTGGAAAGTTAGAGCATCTCCTGATTCGATGATCTATTGAA
CTACGGCCGCTCCTACTTTCTTCTTAGTGGTTTGGTACTCCCCTT
Right flanking sequence: Indices 96826 -- 97325
AAGGGCTCTTTATCGCTAATGGAAAGCCAGTGCATGAAGATCTATTCCCCTCGTCCTACGACCTT
CCCGCCTAAGGGGAAGGGGGTGGATTGAGGCCTTTAGTTCGTGTTCCCTGGCCAAAATGGGGAAA
TCACACACGGAAATCAAGTCTAGCTCCACCCGGGCTTCCACGAAAGAACAATAAAATTAATTAAG
TAAAAAAGGAACGAAGTCACTCGCCCTATAATAGAATAGTGAAAGCTGGAGAGGAACGAAGGGAT
GGGGTATTCGTGATCCCAGGCAAGAAAGAGAAAAAGTCCCATCTAGCACTATAAGTTCCTCGGAT
GTGAATTGTCGTTCCGGGATGCTAGACTAAAGTATGCGGGCACAAGCACCTGAGCAACAGGAGCC
TTCTATTGTGACTGACTCTGGACCTGAGTCACCAAAATCAGCTACACGAAGCCCTCAAAGTCCGA
AAGGTGTCAGAGAAAGCCCAAGGCCCACGACCCAGAGAGTGCCTT
Found at i:122085 original size:21 final size:24
Alignment explanation
Indices: 122041--122089 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
122031 GAAGCTCCAT
122041 TCTTTAGAGGTAAATATGATGATG
1 TCTTTAGAGGTAAATATGATGATG
122065 TCTTTAGAGGTAAATATGATGATG
1 TCTTTAGAGGTAAATATGATGATG
122089 T
1 T
122090 TGAAATAGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.04, G:0.24, T:0.39
Consensus pattern (24 bp):
TCTTTAGAGGTAAATATGATGATG
Left flanking sequence: Indices 121541 -- 122040
ATAGGTAATCCATACCAGTGTGTCTGATGTATGTGAGAAGGATCTTGACAAAATTTCCAGTAAGT
ATGTGGAGTCCAGATGAGATCTGGCTGATCCCGTGTCAAAAGGCCTTGGCAAGGAAAAAACCAGA
GCATAGTTAGTTGTCTTGTACTTTACGGTAACCCAACCTGTTCTCCTAGGAAAAATTATAAATAT
AAGCACATGAATTAATTTTCATTCTTCCATACCTATGGTCTATGTGCTTATTCCTGCATTTAAGT
TCTATTAATGAATCCCGGAGGAGGAGAAAGAAACCTGATAGATTCACCGATCTGAGTGTGGTATT
TCAATTCCTATAGGATTTGGACTTTAATCCTTAGAGCACTCAGGGGATCCTAGGCACATGGCCGT
AAGGTGCCGAGCTTATCTGTAAATACTTTAGTGGGTGTGTGTGTCATTTCTGCTTTGTCAACATG
CTTCTTAGAAAAAGACCTTGTTCACCTAGTCTTAGGAAGCTCCAT
Right flanking sequence: Indices 122090 -- 122589
TGAAATAGCAGATTATATAAGCATTACTTCAGCCTGGCAAAACTGGCTTGTTTGTGTAATAGCTT
TTCCTGCCCTACGACTAGTAGGTAACTCACTACCTTTATGGAGTAAGAATCATTCCTGCTTCCAG
ACTTAACCTTCGCCTGCACAGAAATTATAGGAACTTAACTGAGACCTGGTTAAGGGAAGAAGGTT
TATCATCCTGTTGTTGCCATATCTGTTGCCGCTGTTCTCTTTGCAATTTTATTTTATGTGGGAAT
AACTGAAATAACCGTTGTTCAAATAGCCGTAAGCGGTGGTGGTGAAGTCAGTTAATCAGACTCGG
TTGTGCTAGAATCTGCTGTGGGACTTGAGCTTGTGGCATATCGATAATATGAGTATGCATCGAGA
AATATAACTTTCGATTTCATGTCCAGATGAAATGCAATTTCCAACTAATGGCACTACTTCCTCAA
TAGGAAATTTACTTCTAAGCTGGCTAAGGAAGGTAAGATAATCCT
Found at i:124962 original size:17 final size:17
Alignment explanation
Indices: 124936--124970 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
124926 TTCTACCCTG
124936 TGTGGGATTGTATAGGA
1 TGTGGGATTGTATAGGA
* *
124953 TGTGGTATTGTATTGGA
1 TGTGGGATTGTATAGGA
124970 T
1 T
124971 CCGAACGCGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.37, T:0.43
Consensus pattern (17 bp):
TGTGGGATTGTATAGGA
Left flanking sequence: Indices 124436 -- 124935
AGATCAACAAATTCACTAGCAGCCTGTGGTGGCTGTTCCCTACTTTTAATATTTGATTAGTGCAC
CCTAGAATGAGCAGGGTTAGGAGTCGAACCTCTTTCCTATATCTGGACACACTTCGATCTATAAC
TTCATATCATGTATAATGTACAGGTGCACCAGCAAAGGATAACGCCTGCATCGGTGCTATTTATC
AGATTTTTGTTGAAATAACCAGGCAGCAACAAAGTAAGTTTGAAGTAAAATGGACCCCCCGGTTA
GATCGCTTTACCTATCATTTATTAGAAGAGGGAACTTTTATCACCGAAGGAGGGTCAATCTTTCA
CTATTCAGGAGTAAGGTAAATCAAATGCTATCTAAGCTAGACGCCCTGGAATTCCATTCTGTAGG
GAAGGTGGACCTATTGAATAAGTCTCCAATCAATCGTATGCGGGTGAGCTAATTTCTTTCTTTTA
TCACTTTAGCCGATCTGACTCAATTCAATAGAAACTTCTACCCTG
Right flanking sequence: Indices 124971 -- 125470
CCGAACGCGTTCATCAGGCGCTCATCTCACCCTGAATCAACTGCTGGTGGAAGATTTGCGAGATA
GGGATGAGGTATTGGAGCAGGTAGGGCTTCCTTTCCTAACAGGTCTCTGTCTTCGAGATGTGACT
GTCAAGAAAGCTGCTAGTTCTTTTATACAAGCAGCTTTCCTAGTCTCATGGGGTTAGAAAGCCCG
TTTCAGTACCCATTCGAGTGCACCAGAGCTAGGATAGGTCAATGATGCCTTGGAAGATGCTTTTC
TTACGGATTACCCACGGCAAGGAATCAATGACTGGACAAATTAGTCAGTGTAGGTCAATTGGTAG
GCTAACAACTATATACATAGTCTATCGTTCCCTCTGAGTGAGACGAAGTGCTTACCAGCCCGCCT
TTCATTCCTGAATTCACTCTGAAACTAAAGAAAGGGACTGACTCGTTGTTCCTGTCAATCCTACT
TAACTAGCCAGGCCTTATCTTATGGCCTACCGTTTACTCCTGTTT
Found at i:226973 original size:30 final size:29
Alignment explanation
Indices: 226933--226996 Score: 110
Period size: 30 Copynumber: 2.2 Consensus size: 29
226923 AGAACGGCTA
*
226933 GCCCCGGAGGTTTTGGAGGTGCCCCCCGCT
1 GCCCCAGAGGTTTTGGAGGTG-CCCCCGCT
226963 GCCCCAGAGGTTTTGGAGGTGCCCCCGCT
1 GCCCCAGAGGTTTTGGAGGTGCCCCCGCT
226992 GCCCC
1 GCCCC
226997 GGAGATTCCG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 13 0.39
30 20 0.61
ACGTcount: A:0.08, C:0.39, G:0.34, T:0.19
Consensus pattern (29 bp):
GCCCCAGAGGTTTTGGAGGTGCCCCCGCT
Left flanking sequence: Indices 226433 -- 226932
GGATGAAATCCCAGTTCTTCGCTGAAATCATGACCCGTTGTGGTTGTTTACATATTGGTTCGTAC
TTTCATTCTGATCCCTTTCTCCCTTCTACTTTTGGGTAGACCACAGGCTCATCAAGAGCCGGAAC
TAGAAGTCAGCATTCTATTCTAATCGTAGGCCTTCATGCCAGGGCTGATACCTCCACCACTTAGA
CTTATGTGGATAATATCTCCCCGAGTGGCCCTTCTGGAACTTGCCCAGGCTGCGCAGCCTCTGGT
TGAGGTGCGGGCTCTCCTCCGGGCTGTTCCAAGTCCCTAAAGATAGACTCCCCGCTTATGCCCGG
GGAATTTATTTCGAGCGCACCAGGAAGCCGCTGCCCGACTCCCTGAGAAGGCTGCAAATTGATTT
CCCCCCCCGTAGGGAAGAGGCGGCTTCGTCACCCTCTTCCCCCCCTGGGCCTTGAGCAAGCCATT
TCTCCACCGCACTCAAGGACAAGGTTTATTCGGGGAGAACGGCTA
Right flanking sequence: Indices 226997 -- 227496
GGAGATTCCGGTTTTAGCGCAGCAAATAATACCGGACCTCCAAAGAGAGGAGGAACTTTACGGTC
GCTTCTTGGTCAATACGTTAGGGGAAAATCCAACCCTACGTAGAATTACCGAGACTATCTCGGTA
CAAAGCCAGATAGAAAGGCTAATTGAATCCGCTTTAGTTCATAGCGGATTCAATCCGACTCGGAT
CTTGCATAACCGCCATCGGATAAGAGGGATAGTTTTTTATCCTCGAGGTAGGGCACTATCCTTGC
GGCAGTACCGCTCCCATCTACTAAGTATATACCGGTTGGGTACCCGAGACACACGGGCCTTCCAA
CGTCTTATGACGGCGGTAATAAACTATGATCTATGGCTATAGGAAGAGATCAGAGTAGAGGTGGG
TAGCGGCACTGGGTGGACGGTCTATCTGCCCTTAAGTGGTAGAGTGCAGCCTGCCTGTTTAATAT
CGTAACGTTTGTGACTCAGTGCTCCATACGGGGAAAATGAAAACT
Found at i:257216 original size:15 final size:15
Alignment explanation
Indices: 257191--257331 Score: 183
Period size: 15 Copynumber: 9.4 Consensus size: 15
257181 GGACAAAGCA
*
257191 AGCTAAGAATGAGCC
1 AGCTAACAATGAGCC
*
257206 TGCTAACAATGAGCC
1 AGCTAACAATGAGCC
* *
257221 AGCTAAGAATGACCC
1 AGCTAACAATGAGCC
*
257236 TGCTAACAATGAGCC
1 AGCTAACAATGAGCC
* *
257251 AGCTAAGAATGACCC
1 AGCTAACAATGAGCC
*
257266 TGCTAACAATGAGCC
1 AGCTAACAATGAGCC
*
257281 AGCTAAGAATGAGCC
1 AGCTAACAATGAGCC
*
257296 CGCTAACAATGAGCC
1 AGCTAACAATGAGCC
257311 AGCTAACAATGAGCC
1 AGCTAACAATGAGCC
*
257326 CGCTAA
1 AGCTAA
257332 TAATAAGGCT
Statistics
Matches: 106, Mismatches: 20, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 106 1.00
ACGTcount: A:0.37, C:0.26, G:0.21, T:0.16
Consensus pattern (15 bp):
AGCTAACAATGAGCC
Left flanking sequence: Indices 256691 -- 257190
TATTTTAATGATATACTAAGATCATTACCCTCAAACACTAAAACATCTAAATATCACCATTATGT
ATTTGAGACATTAAAGAATTAAAGAAAGAAATTCAAAATTAAAAATAATGATAAAAAATCTTTAG
AAAGTCTTCAAATAAGTATAGAGAATAATACTATGTATTATGAAAATATAAATGAAAAAAGCGAT
ATGTATAAAAAATATCCTAATTTAATGAAACTCTTTATTGATGATAAACTCCAATCTGCTAAGGA
ATATGTTAAAAACAATGGTAATCTATCTAGCGATGAATTATTATTTATTAATAAGTTTGATCAGT
ATACTTTAGAGGGAATTATTATATATGTACTAGCCACTCTTTACCACCGTGTTGATTCTGAAGTT
CCTGCGGTTCGCGCTGCTACTCTAATAGATCAGATTGATACGTATGTTAAATTCCATGGTGATAT
TCTTATTAAAGAATCTAAGATTAAAAATGATAAGAGGACAAAGCA
Right flanking sequence: Indices 257332 -- 257831
TAATAAGGCTACTAAAGGACTTTCGAGGTATCAAATGCGTGTGATGAAAAGGAATGCTAAGTTAA
ATAACACAGCAAAGAATGAGTCTGCTAAGAATGATTCTGCTAAGAATGAGCCAGCTAAGAATGAC
TCTGCTAAGAATGAGTGTGATAAGAATGAGCCATCTAACAACCCTGTTAATTCTACTGGTGTAAA
TAGAGTTCTTAGTAAGAAAGAGCAGGAAGCATTACGTAAAGATGAAAAAGCTAAAGAAAGGTTTC
GTAAGAAAGTAGGTAAATGGACCTACGGTGTGTTATTGCTTCAATTTTTAGCTGATAGAAATTTA
ATAACAATACAACAAGAATTGTCACCCAAACGATCAATTACATCAAAGAAAGGTAATAATTGGTA
TATAGAGATGAATCATTTCGTATATTGTAATTTTGACATCAATTACCTTCCTATAAAACTTAATC
TACCGATGGTATGTAAGCCTAAGGATTGGGTTAAAATCAAAGATA
Found at i:257226 original size:30 final size:30
Alignment explanation
Indices: 257191--257331 Score: 237
Period size: 30 Copynumber: 4.7 Consensus size: 30
257181 GGACAAAGCA
257191 AGCTAAGAATGAGCCTGCTAACAATGAGCC
1 AGCTAAGAATGAGCCTGCTAACAATGAGCC
*
257221 AGCTAAGAATGACCCTGCTAACAATGAGCC
1 AGCTAAGAATGAGCCTGCTAACAATGAGCC
*
257251 AGCTAAGAATGACCCTGCTAACAATGAGCC
1 AGCTAAGAATGAGCCTGCTAACAATGAGCC
*
257281 AGCTAAGAATGAGCCCGCTAACAATGAGCC
1 AGCTAAGAATGAGCCTGCTAACAATGAGCC
* *
257311 AGCTAACAATGAGCCCGCTAA
1 AGCTAAGAATGAGCCTGCTAA
257332 TAATAAGGCT
Statistics
Matches: 107, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 107 1.00
ACGTcount: A:0.37, C:0.26, G:0.21, T:0.16
Consensus pattern (30 bp):
AGCTAAGAATGAGCCTGCTAACAATGAGCC
Left flanking sequence: Indices 256691 -- 257190
TATTTTAATGATATACTAAGATCATTACCCTCAAACACTAAAACATCTAAATATCACCATTATGT
ATTTGAGACATTAAAGAATTAAAGAAAGAAATTCAAAATTAAAAATAATGATAAAAAATCTTTAG
AAAGTCTTCAAATAAGTATAGAGAATAATACTATGTATTATGAAAATATAAATGAAAAAAGCGAT
ATGTATAAAAAATATCCTAATTTAATGAAACTCTTTATTGATGATAAACTCCAATCTGCTAAGGA
ATATGTTAAAAACAATGGTAATCTATCTAGCGATGAATTATTATTTATTAATAAGTTTGATCAGT
ATACTTTAGAGGGAATTATTATATATGTACTAGCCACTCTTTACCACCGTGTTGATTCTGAAGTT
CCTGCGGTTCGCGCTGCTACTCTAATAGATCAGATTGATACGTATGTTAAATTCCATGGTGATAT
TCTTATTAAAGAATCTAAGATTAAAAATGATAAGAGGACAAAGCA
Right flanking sequence: Indices 257332 -- 257831
TAATAAGGCTACTAAAGGACTTTCGAGGTATCAAATGCGTGTGATGAAAAGGAATGCTAAGTTAA
ATAACACAGCAAAGAATGAGTCTGCTAAGAATGATTCTGCTAAGAATGAGCCAGCTAAGAATGAC
TCTGCTAAGAATGAGTGTGATAAGAATGAGCCATCTAACAACCCTGTTAATTCTACTGGTGTAAA
TAGAGTTCTTAGTAAGAAAGAGCAGGAAGCATTACGTAAAGATGAAAAAGCTAAAGAAAGGTTTC
GTAAGAAAGTAGGTAAATGGACCTACGGTGTGTTATTGCTTCAATTTTTAGCTGATAGAAATTTA
ATAACAATACAACAAGAATTGTCACCCAAACGATCAATTACATCAAAGAAAGGTAATAATTGGTA
TATAGAGATGAATCATTTCGTATATTGTAATTTTGACATCAATTACCTTCCTATAAAACTTAATC
TACCGATGGTATGTAAGCCTAAGGATTGGGTTAAAATCAAAGATA
Found at i:257428 original size:15 final size:15
Alignment explanation
Indices: 257408--257491 Score: 114
Period size: 15 Copynumber: 5.6 Consensus size: 15
257398 TAACACAGCA
257408 AAGAATGAGTCTGCT
1 AAGAATGAGTCTGCT
*
257423 AAGAATGATTCTGCT
1 AAGAATGAGTCTGCT
* *
257438 AAGAATGAGCCAGCT
1 AAGAATGAGTCTGCT
*
257453 AAGAATGACTCTGCT
1 AAGAATGAGTCTGCT
* *
257468 AAGAATGAGTGTGAT
1 AAGAATGAGTCTGCT
257483 AAGAATGAG
1 AAGAATGAG
257492 CCATCTAACA
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 59 1.00
ACGTcount: A:0.38, C:0.12, G:0.26, T:0.24
Consensus pattern (15 bp):
AAGAATGAGTCTGCT
Left flanking sequence: Indices 256908 -- 257407
TAATGAAACTCTTTATTGATGATAAACTCCAATCTGCTAAGGAATATGTTAAAAACAATGGTAAT
CTATCTAGCGATGAATTATTATTTATTAATAAGTTTGATCAGTATACTTTAGAGGGAATTATTAT
ATATGTACTAGCCACTCTTTACCACCGTGTTGATTCTGAAGTTCCTGCGGTTCGCGCTGCTACTC
TAATAGATCAGATTGATACGTATGTTAAATTCCATGGTGATATTCTTATTAAAGAATCTAAGATT
AAAAATGATAAGAGGACAAAGCAAGCTAAGAATGAGCCTGCTAACAATGAGCCAGCTAAGAATGA
CCCTGCTAACAATGAGCCAGCTAAGAATGACCCTGCTAACAATGAGCCAGCTAAGAATGAGCCCG
CTAACAATGAGCCAGCTAACAATGAGCCCGCTAATAATAAGGCTACTAAAGGACTTTCGAGGTAT
CAAATGCGTGTGATGAAAAGGAATGCTAAGTTAAATAACACAGCA
Right flanking sequence: Indices 257492 -- 257991
CCATCTAACAACCCTGTTAATTCTACTGGTGTAAATAGAGTTCTTAGTAAGAAAGAGCAGGAAGC
ATTACGTAAAGATGAAAAAGCTAAAGAAAGGTTTCGTAAGAAAGTAGGTAAATGGACCTACGGTG
TGTTATTGCTTCAATTTTTAGCTGATAGAAATTTAATAACAATACAACAAGAATTGTCACCCAAA
CGATCAATTACATCAAAGAAAGGTAATAATTGGTATATAGAGATGAATCATTTCGTATATTGTAA
TTTTGACATCAATTACCTTCCTATAAAACTTAATCTACCGATGGTATGTAAGCCTAAGGATTGGG
TTAAAATCAAAGATAATCCTAAATCTATTTCTGATCTTCGTGGTGGTTATTTAGATATGCCTACT
GGCGATTTTTATTCACATAATCGATTCAAACTCTTATCTTCGCGCGATATCCCTAATTTTCATAT
AGAATTAATTGATGTGGATGGTCTGTGTAAGACTATGAATATATT
Found at i:257459 original size:45 final size:45
Alignment explanation
Indices: 257403--257499 Score: 140
Period size: 45 Copynumber: 2.2 Consensus size: 45
257393 TTAAATAACA
* * * *
257403 CAGCAAAGAATGAGTCTGCTAAGAATGATTCTGCTAAGAATGAGC
1 CAGCTAAGAATGACTCTGCTAAGAATGAGTCTGATAAGAATGAGC
*
257448 CAGCTAAGAATGACTCTGCTAAGAATGAGTGTGATAAGAATGAGC
1 CAGCTAAGAATGACTCTGCTAAGAATGAGTCTGATAAGAATGAGC
*
257493 CATCTAA
1 CAGCTAA
257500 CAACCCTGTT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (45 bp):
CAGCTAAGAATGACTCTGCTAAGAATGAGTCTGATAAGAATGAGC
Left flanking sequence: Indices 256903 -- 257402
TAATTTAATGAAACTCTTTATTGATGATAAACTCCAATCTGCTAAGGAATATGTTAAAAACAATG
GTAATCTATCTAGCGATGAATTATTATTTATTAATAAGTTTGATCAGTATACTTTAGAGGGAATT
ATTATATATGTACTAGCCACTCTTTACCACCGTGTTGATTCTGAAGTTCCTGCGGTTCGCGCTGC
TACTCTAATAGATCAGATTGATACGTATGTTAAATTCCATGGTGATATTCTTATTAAAGAATCTA
AGATTAAAAATGATAAGAGGACAAAGCAAGCTAAGAATGAGCCTGCTAACAATGAGCCAGCTAAG
AATGACCCTGCTAACAATGAGCCAGCTAAGAATGACCCTGCTAACAATGAGCCAGCTAAGAATGA
GCCCGCTAACAATGAGCCAGCTAACAATGAGCCCGCTAATAATAAGGCTACTAAAGGACTTTCGA
GGTATCAAATGCGTGTGATGAAAAGGAATGCTAAGTTAAATAACA
Right flanking sequence: Indices 257500 -- 257999
CAACCCTGTTAATTCTACTGGTGTAAATAGAGTTCTTAGTAAGAAAGAGCAGGAAGCATTACGTA
AAGATGAAAAAGCTAAAGAAAGGTTTCGTAAGAAAGTAGGTAAATGGACCTACGGTGTGTTATTG
CTTCAATTTTTAGCTGATAGAAATTTAATAACAATACAACAAGAATTGTCACCCAAACGATCAAT
TACATCAAAGAAAGGTAATAATTGGTATATAGAGATGAATCATTTCGTATATTGTAATTTTGACA
TCAATTACCTTCCTATAAAACTTAATCTACCGATGGTATGTAAGCCTAAGGATTGGGTTAAAATC
AAAGATAATCCTAAATCTATTTCTGATCTTCGTGGTGGTTATTTAGATATGCCTACTGGCGATTT
TTATTCACATAATCGATTCAAACTCTTATCTTCGCGCGATATCCCTAATTTTCATATAGAATTAA
TTGATGTGGATGGTCTGTGTAAGACTATGAATATATTACAGTCCC
Found at i:259725 original size:24 final size:23
Alignment explanation
Indices: 259698--259768 Score: 94
Period size: 24 Copynumber: 3.1 Consensus size: 23
259688 TGTTTACACC
259698 TATGATGAAAAATATGAATAATAA
1 TATGATG-AAAATATGAATAATAA
259722 TATG--GAAAATATGAATAATAA
1 TATGATGAAAATATGAATAATAA
259743 TAAT-ATGGAAAATATGAATAATAA
1 T-ATGAT-GAAAATATGAATAATAA
259767 TA
1 TA
259769 ATATGCAAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
21 17 0.40
22 3 0.07
23 1 0.02
24 22 0.51
ACGTcount: A:0.58, C:0.00, G:0.13, T:0.30
Consensus pattern (23 bp):
TATGATGAAAATATGAATAATAA
Left flanking sequence: Indices 259198 -- 259697
AAGGGATAGAAGGAAGAGTGAAATATCAACCTTTGTTAACTTTATTCATCAGAAAGATGCTTACA
TGGCTATGTGTATGATACAAAAAATGAATACTAAAAAACTACCTGTGTACACTGTTCACGATAAC
TTTATAACTACAGTTAATAGTTCTAACAATCTACCAGTTCTATATATATCATATTTTAAGGAAAA
TAATCCTCTATCAGTTATTAACGATTTTCTTTATAATAATCTTAATCTTAAAGCTGGTTTTTATT
CAAATTCTACTTTTGTGGATGCTATTACAGGTAAAAGTTTTGAAACCTTATTTGACTTAATACCT
GAGTCTTTATCTAGCAGTGATAAGGGTGTTTGGAGTGATAAGATTAAACAAATACACAATGCTTA
TGCATACTTTATAGAAAATTCATATATTAAAAATGGATTAACCCCTGATATTGTGTTGGAGGAGT
ATAACCAGAATTATATAAAAAGAGCAGGAAAATATTGTTTACACC
Right flanking sequence: Indices 259769 -- 260268
ATATGCAAATTCAAAAGTATGAGTATGAGCTATTAGGTGAATATTTAATGGCTAATATCGAAACT
GAAAAATGCAATGATAAGTATTCAGGTTTGAGAGTTGCTAGTATTTCTTTCATAAACCCTATACA
GATCATTAATTGTGATTTTTTACTATTTACGGCAATGTATCTACTATGTAAATACGCATACACAA
CAAAGTGTAAATATGGTAAGTTTACATTGGGATATGTAACTAAACAAGAAGGCGTTGAAATACCA
TTTAACTTAGGTTCAGCTATAACTTTTAGAGAAAATTGGAATGATATACCAGTCTTAGATTTACT
TAATTTAAAAATCATAGAAAAGAGTGAATCATATGATTAACTTATAATCTGTGGTATGTTTATTC
GAATCTATCTTTCTGATAGGAATCCTAATGAAGAAGAAGGCGTATCATTAACATTTAGTGATGTA
CTTACTAAAGTATGGGATAGCTACAGCTGCCATGAAGTAGTTGAA
Found at i:259732 original size:21 final size:21
Alignment explanation
Indices: 259706--259768 Score: 99
Period size: 24 Copynumber: 2.9 Consensus size: 21
259696 CCTATGATGA
259706 AAAATATGAATAATAATATGG
1 AAAATATGAATAATAATATGG
259727 AAAATATGAATAATAATAATATGG
1 AAAATATG---AATAATAATATGG
259751 AAAATATGAATAATAATA
1 AAAATATGAATAATAATA
259769 ATATGCAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
21 18 0.46
24 21 0.54
ACGTcount: A:0.60, C:0.00, G:0.11, T:0.29
Consensus pattern (21 bp):
AAAATATGAATAATAATATGG
Left flanking sequence: Indices 259206 -- 259705
GAAGGAAGAGTGAAATATCAACCTTTGTTAACTTTATTCATCAGAAAGATGCTTACATGGCTATG
TGTATGATACAAAAAATGAATACTAAAAAACTACCTGTGTACACTGTTCACGATAACTTTATAAC
TACAGTTAATAGTTCTAACAATCTACCAGTTCTATATATATCATATTTTAAGGAAAATAATCCTC
TATCAGTTATTAACGATTTTCTTTATAATAATCTTAATCTTAAAGCTGGTTTTTATTCAAATTCT
ACTTTTGTGGATGCTATTACAGGTAAAAGTTTTGAAACCTTATTTGACTTAATACCTGAGTCTTT
ATCTAGCAGTGATAAGGGTGTTTGGAGTGATAAGATTAAACAAATACACAATGCTTATGCATACT
TTATAGAAAATTCATATATTAAAAATGGATTAACCCCTGATATTGTGTTGGAGGAGTATAACCAG
AATTATATAAAAAGAGCAGGAAAATATTGTTTACACCTATGATGA
Right flanking sequence: Indices 259769 -- 260268
ATATGCAAATTCAAAAGTATGAGTATGAGCTATTAGGTGAATATTTAATGGCTAATATCGAAACT
GAAAAATGCAATGATAAGTATTCAGGTTTGAGAGTTGCTAGTATTTCTTTCATAAACCCTATACA
GATCATTAATTGTGATTTTTTACTATTTACGGCAATGTATCTACTATGTAAATACGCATACACAA
CAAAGTGTAAATATGGTAAGTTTACATTGGGATATGTAACTAAACAAGAAGGCGTTGAAATACCA
TTTAACTTAGGTTCAGCTATAACTTTTAGAGAAAATTGGAATGATATACCAGTCTTAGATTTACT
TAATTTAAAAATCATAGAAAAGAGTGAATCATATGATTAACTTATAATCTGTGGTATGTTTATTC
GAATCTATCTTTCTGATAGGAATCCTAATGAAGAAGAAGGCGTATCATTAACATTTAGTGATGTA
CTTACTAAAGTATGGGATAGCTACAGCTGCCATGAAGTAGTTGAA
Found at i:259769 original size:24 final size:24
Alignment explanation
Indices: 259714--259773 Score: 120
Period size: 24 Copynumber: 2.5 Consensus size: 24
259704 GAAAAATATG
259714 AATAATAATATGGAAAATATGAAT
1 AATAATAATATGGAAAATATGAAT
259738 AATAATAATATGGAAAATATGAAT
1 AATAATAATATGGAAAATATGAAT
259762 AATAATAATATG
1 AATAATAATATG
259774 CAAATTCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.58, C:0.00, G:0.12, T:0.30
Consensus pattern (24 bp):
AATAATAATATGGAAAATATGAAT
Left flanking sequence: Indices 259214 -- 259713
AGTGAAATATCAACCTTTGTTAACTTTATTCATCAGAAAGATGCTTACATGGCTATGTGTATGAT
ACAAAAAATGAATACTAAAAAACTACCTGTGTACACTGTTCACGATAACTTTATAACTACAGTTA
ATAGTTCTAACAATCTACCAGTTCTATATATATCATATTTTAAGGAAAATAATCCTCTATCAGTT
ATTAACGATTTTCTTTATAATAATCTTAATCTTAAAGCTGGTTTTTATTCAAATTCTACTTTTGT
GGATGCTATTACAGGTAAAAGTTTTGAAACCTTATTTGACTTAATACCTGAGTCTTTATCTAGCA
GTGATAAGGGTGTTTGGAGTGATAAGATTAAACAAATACACAATGCTTATGCATACTTTATAGAA
AATTCATATATTAAAAATGGATTAACCCCTGATATTGTGTTGGAGGAGTATAACCAGAATTATAT
AAAAAGAGCAGGAAAATATTGTTTACACCTATGATGAAAAATATG
Right flanking sequence: Indices 259774 -- 260273
CAAATTCAAAAGTATGAGTATGAGCTATTAGGTGAATATTTAATGGCTAATATCGAAACTGAAAA
ATGCAATGATAAGTATTCAGGTTTGAGAGTTGCTAGTATTTCTTTCATAAACCCTATACAGATCA
TTAATTGTGATTTTTTACTATTTACGGCAATGTATCTACTATGTAAATACGCATACACAACAAAG
TGTAAATATGGTAAGTTTACATTGGGATATGTAACTAAACAAGAAGGCGTTGAAATACCATTTAA
CTTAGGTTCAGCTATAACTTTTAGAGAAAATTGGAATGATATACCAGTCTTAGATTTACTTAATT
TAAAAATCATAGAAAAGAGTGAATCATATGATTAACTTATAATCTGTGGTATGTTTATTCGAATC
TATCTTTCTGATAGGAATCCTAATGAAGAAGAAGGCGTATCATTAACATTTAGTGATGTACTTAC
TAAAGTATGGGATAGCTACAGCTGCCATGAAGTAGTTGAACATAA
Found at i:262293 original size:21 final size:21
Alignment explanation
Indices: 262264--262312 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
262254 AATAGATCTG
262264 AAAAGATACTTAATTTTAAAA-T
1 AAAA-ATACTTAA-TTTAAAATT
262286 AAAAATACTTAATTTAAAATT
1 AAAAATACTTAATTTAAAATT
262307 AAAAAT
1 AAAAAT
262313 TCAAGAAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.27
21 15 0.58
22 4 0.15
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (21 bp):
AAAAATACTTAATTTAAAATT
Left flanking sequence: Indices 261764 -- 262263
ATTATCAGCAGCTATAACAGCCTATGCTCGTATTTATATGTATCCTTACATCTCAAGAGATGATT
GTTACTATACTGATACTGACTCAGTTATATTAGGAACTCCTCTACCTGAGGAAGATATCTCTTCA
ACTGAATTAGGTAAATTCAAGTTGGAATATGAGGATATAGGTGGAACTTTCTTAGCTCCAAAGAG
CTATAATATTAAAAAAAATAAAGATGTAAATATCACAAAACATAAGGGTCCAGCTAAAGATCTAA
TCACCGATGATTGGCATGATTCACAGTATAATGATTTAGATAAAATATCGCAGGAAACAGTGTAT
TCTAACTTCAGAATTGAATGGAAAACACTAAATATAAAAAAACAATTAATAAATGTTAACTTAGG
AGTCAAAGTTGGTACAAAGAGGAAGCCTATATATATATATGAAAAAAATGATAAAAAAAGATGGG
TTAAGACTATACCGTATGAAATTAATGATTTAAAAAATAGATCTG
Right flanking sequence: Indices 262313 -- 262812
TCAAGAAGAAACAATCAAAAATCTTAATCACGATATTACTACTTTGCAAGCCGATAAGGAGGCTC
TTTTGAAGTGTATAAATGAGGAAGCTCTCCTCGATAACTATATTGAAATTGAAGATAAGCTTGAT
AAAGAGAACGCCGAACATCAAGATGATAAGAGACCTATTTCCAATAAAAGACGTGATGTGATAAT
TAAAGATATTACTAAGACGAAGAAGAAGAAGGTTAAGCCTGGTTAGGCTTCTAAATCAATAAATA
TTTGCTCAGCAAGAGTGCTGGGTAGTGTAACTAACTTTACCGTTAAGGTTAGTGAGGTCCCAGCT
ATTGTGAATGATCATTCACTATAGTTGGGTGAAGACAAGTGGGAGCTAGCTGAGCTAGCCCTAGC
GGTGGGTTGTCTTCCTTCTCTGTACGTATCAATAGTATTATGCTATGGTTGCTCTCTTACTTAGC
AATCCATTCACACCGCCCACCTCACTACTCATCAAGCAATGGATG
Found at i:277091 original size:19 final size:19
Alignment explanation
Indices: 277067--277106 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
277057 GGTATGCCCT
277067 TTCCAGTTCTGTTATAATA
1 TTCCAGTTCTGTTATAATA
277086 TTCCAGTTCTGTTATAATA
1 TTCCAGTTCTGTTATAATA
277105 TT
1 TT
277107 GACTTCGGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.10, T:0.50
Consensus pattern (19 bp):
TTCCAGTTCTGTTATAATA
Left flanking sequence: Indices 276567 -- 277066
TATCATCCAGTTGTGGCTTTTTCCCCCCTTCATTCTCAAGTGCTATAGCTTGTTCGCTTGAATAC
AGTAGGTAGGGAAGGACAGGATATTACTCGTCGGTTCTATTCGGCGGTGGTGGCTTTGCTTTGAA
TTTATTTCCACTCATTTTGGCTTTTTCCTTTTATTATTCATGCTTGCTCCACTAGCCTCAAACTC
CATTCCCATTTCGAATCGACCCGTTAGATTAGAGAAGGCTTTTCTGCTTAGCAGAACCCGATTCT
CCGCTCAAAACATCTGATCTTCCGACTTAAACAACCGATTCCATTTCTATCCTTTTTTTCTATGA
TCAATTCAATAAAGACTTCCTTCTCAACTGACAACCCCTGGGCCTGTTCATAAGCGATATTCTTT
GTAGGGCTTTCGGCTCGGCTGCCTTCCTTTATTTTTGGGCTAAGGCTAGCTTTCCTAAGTCAGTT
CCAGAGTGCATGAGTGAATCTTGATCTGTATTCAAGGTATGCCCT
Right flanking sequence: Indices 277107 -- 277606
GACTTCGGTTAAGCTGAGGTTAGCGAAGTCAATCCTTTGCTTGGGTCCTTGGAGGTCGGAGATCA
GAGCGCTGTGTTTAAGTCGTCTGGCCGTAAGAAAGACTTTATCTGCGCCAGTAAGAGTAAGAGCT
TGAAAAGAAGGGAAAGAGGAAGAAGTATTCAAATAATTCACTCCTTTCCCTTTAGGAAAGCTTTA
CTTTATTCTTTCTTTATATACTTACCTTACTATATAAGACAATACTCTAAAAGACTTGGACGAGA
AAAGTAAGATTGAGAACTATGAATAGTAGGAATAGTCTAAAGCAGTGGTTAGCTAGAAGAAGAGT
CAAAGACTTTTTCCTATCCGCTGCTGGTGGTGAAGTCAGTGAATCAGTCCCCAAGCTTTCTTCCT
TCAAAGAATAAATTTTGTCATTACGAACTAAGACCGAAGGCAGGTGCAGTTAATAGAGCAATGTG
CGGGTTGGGCTTTTTCAAGGATTGCAAGCTCCAAGCATAGCTAGA
Found at i:281975 original size:18 final size:19
Alignment explanation
Indices: 281952--281987 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
281942 AAGAAACAAC
281952 CACCTGC-GTTTGGTGCAG
1 CACCTGCAGTTTGGTGCAG
*
281970 CACCTGCATTTTGGTGCA
1 CACCTGCAGTTTGGTGCA
281988 TTCTTCTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.14, C:0.28, G:0.28, T:0.31
Consensus pattern (19 bp):
CACCTGCAGTTTGGTGCAG
Left flanking sequence: Indices 281452 -- 281951
ACTACCCTAAGCCTACAAGTAGGCAGGACTTTCAGTTACAATGTCTAGGTTGGGCAAGCTTGGAT
GCCCCTACTCCCAACAAGTTGCTGGTCGGGATCGTGAAACTATCGCTGTTTGGTCATAAGGATAA
TCGTTCTTATCTTATTAGGTCAGGGGCGGCCGGCCCGGGGGTTACCCGCGATTGGTAATGGCATA
ACCAGAAGAGGAGTAGGGGAGACAAACAAGGTTACGCGCTGGGTAGCGCAGCGCATCTGTTTCGG
GTACAGGGGCGACGAGGGGTGCTAACCCGGCCACCCAACCCAGCAGGTCAGGGGCGGGCCGGCCA
TAGGTTCGAATCCTGCCACCTTTCTTGTGGATCATCCTGTGGTTACCGGATGATGGGAATAACAA
AGCAGAAATTTTTAAATGAGCAGAGCACGAAATGTACATAATATATGAATTCTTTCATTTATCAT
TATTTCCGGGTCTTTTCGTTGCATTCACTTACAACAAGAAACAAC
Right flanking sequence: Indices 281988 -- 282487
TTCTTCTTTCTTTCCTCGGTCTTTCGTTCCGTCATATTCCTAATAACTTATCCAATTACAACGTA
TTAACCGCTAATGCACCTTTCTTTTATCAAATCTCAGGGACATGGTCTAATCATGAGGGTAGTAT
TTTATCATGGTGTCGGATCCCACGTTTTTATGGATTCCTTCTTTGTTACCGGGGTCGACCCCAAA
GCCATAATGTCTCAAAACGAGGAGGCCATAGAGAAGTTTTGTATGACTTTGTCTCGAACTTCGTG
AAGAACTCCATTCTATCTCTCCCGGAACCGAACGTTTGACGGGCCAGCCCTTTTTTATGCGCCGC
TTTACCCTGAAAGGATAATTAGCTTTGCTCCTCTGGGTGCTAGGCGCTCCCGTGGTTCGCGAGAA
GGAAAAAGAAGGACTCATCCTTTGTTGCATCTGGCACGATATGATAAAGAGAGAGCTTCGTCTAT
CGATGAACAGCGGATTGACGGAGCTCTTGGCATTGCTTTGTTTTT
Done.