Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_054215
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: 144129
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Found at i:12611 original size:16 final size:16
Alignment explanation
Indices: 12590--12621 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
12580 AGAGTTTTTA
*
12590 CATATATCATTACGAG
1 CATATATCATCACGAG
12606 CATATATCATCACGAG
1 CATATATCATCACGAG
12622 TCTCTATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.22, G:0.12, T:0.28
Consensus pattern (16 bp):
CATATATCATCACGAG
Left flanking sequence: Indices 12090 -- 12589
GCTCAATCTGGTATAAGGAAACCCCCCGGGAAAAAATAATGTCCACCATTTACTGTTTTTTCGCA
AATATTTGACTCCTTTACTTGGATATACGAAAATTATACCAGTCTGTGCGTAGTACTTTTTTTCC
CGATTGCCGTTACCATGCTAGACTTCTCGGATATTAACTACTATGTTGCTTTCTCTAATCCCCTC
CTTTTTCGTATATCATTTTATTCAATTCATCTCCCGGGACCGCGATCCAGCTATAAAAGAATGGC
TTATTGACAATCAACCAATAAATTTAAATTAATACTATCCTATCTATGCCTTTTCAAAGATTTTT
GGTACGATCCCGCTTTTATGTAAATACTTATTGTAAGCTTACGAGGTTTCAGATACATTATCTAA
AACCTTGGAGGCAAAAGGGATAAAACCGCAAGAAGAAAGGGAGCACGTCTGCCGTATAATGGGAA
TCATTGATGGCGCTTTGAAAGAGGGATATTTGGGTAGAGTTTTTA
Right flanking sequence: Indices 12622 -- 13121
TCTCTATTTTGTTTTCCAAATAGCCATAACAATCGAAGGGTCCAAGGTCTGGCCGCCGCCCATCT
GACCTCAGCAAAGAGACGGAAGTAACACCCGCGCAGGAGTGGCCAATCCAACCGGTTACTGAAGA
GGTCGGTGAAATCTTCCCCAACGGGCCACAAGATTATATGAATGGTTAAATCTTGACGATTTTCA
TCCATTCATCTAATGTGGTGGCGTTCCCACCCATTTATCCAATATGGTGGCCCAGAATTCCTGTA
GGATCTATTACTTCGTGAACTCATATGATTAAATATTATTATTTGCTCCAAATTTACGGATTTAA
CTCTTACCTCAATCTCCTTATTTATGGATTCAATCTCTCGACTTATGGATTCAATCCCTCGATTT
ATGGATTCGTCGTATATGCATATATAATGATTCTAATTTGCTCCCACCCAAATTTCCCGATTTAT
CTATTATTATTTCTGTATACACGAAATGGAAGCCTTATGTTATCC
Found at i:12981 original size:21 final size:22
Alignment explanation
Indices: 12955--13019 Score: 91
Period size: 21 Copynumber: 3.1 Consensus size: 22
12945 AACTCTTACC
*
12955 TCAATCTCCT-TATTTATGGAT
1 TCAATCTCCTCGATTTATGGAT
*
12976 TCAATCT-CTCGACTTATGGAT
1 TCAATCTCCTCGATTTATGGAT
12997 TCAATC-CCTCGATTTATGGAT
1 TCAATCTCCTCGATTTATGGAT
13018 TC
1 TC
13020 GTCGTATATG
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
20 2 0.05
21 37 0.95
ACGTcount: A:0.23, C:0.23, G:0.12, T:0.42
Consensus pattern (22 bp):
TCAATCTCCTCGATTTATGGAT
Left flanking sequence: Indices 12455 -- 12954
ACGAGGTTTCAGATACATTATCTAAAACCTTGGAGGCAAAAGGGATAAAACCGCAAGAAGAAAGG
GAGCACGTCTGCCGTATAATGGGAATCATTGATGGCGCTTTGAAAGAGGGATATTTGGGTAGAGT
TTTTACATATATCATTACGAGCATATATCATCACGAGTCTCTATTTTGTTTTCCAAATAGCCATA
ACAATCGAAGGGTCCAAGGTCTGGCCGCCGCCCATCTGACCTCAGCAAAGAGACGGAAGTAACAC
CCGCGCAGGAGTGGCCAATCCAACCGGTTACTGAAGAGGTCGGTGAAATCTTCCCCAACGGGCCA
CAAGATTATATGAATGGTTAAATCTTGACGATTTTCATCCATTCATCTAATGTGGTGGCGTTCCC
ACCCATTTATCCAATATGGTGGCCCAGAATTCCTGTAGGATCTATTACTTCGTGAACTCATATGA
TTAAATATTATTATTTGCTCCAAATTTACGGATTTAACTCTTACC
Right flanking sequence: Indices 13020 -- 13519
GTCGTATATGCATATATAATGATTCTAATTTGCTCCCACCCAAATTTCCCGATTTATCTATTATT
ATTTCTGTATACACGAAATGGAAGCCTTATGTTATCCGTGCTCCATTACGTTTTCCTCTTCCATC
ATCTCTCTACCCGGCTCGGTCTTCCGTTTCATATTATTTTTTTCCCAAATAACATCTCATATGCG
TTTGTGCCGACGCTGTTGCGAAAATATTTTATTTGCCACGGATCTGGTTCTTTATTGGACGATTT
CATCGACTCGATATAATTGGCTGCATCCACCTTGTTCTTATCTCAATGGTTTGCCCCTGGTCGAG
GGTCGAGTCCTCCATCGAATAATACAACGCTTAAATCCGGTAGACATTCGCGGCTGCTGGATGAT
CGCTGATGTGAGCTGTCCCATAACCCCGATCTACGGAGTGTTCCACAAATGGCTTTGTCATTACC
TCGAAGGAACCGCAAAGGCTATAATTAAGTTTAGAACGTATCAAC
Found at i:16452 original size:10 final size:10
Alignment explanation
Indices: 16432--16489 Score: 80
Period size: 10 Copynumber: 5.8 Consensus size: 10
16422 TGAAGCATAA
*
16432 ATATCTATAT
1 ATATATATAT
*
16442 CTATATATAT
1 ATATATATAT
*
16452 CTATATATAT
1 ATATATATAT
16462 ATATATATAT
1 ATATATATAT
16472 ATATATATAT
1 ATATATATAT
*
16482 ATAGATAT
1 ATATATAT
16490 TTTATATTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 44 1.00
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (10 bp):
ATATATATAT
Left flanking sequence: Indices 15932 -- 16431
GCGAGTGCCTTTTAGGCCATAGGGTTCGGGTTAAGGCCTGCAGGGAGGGCTCGGGTAAACCCGAA
GGTGCGTAAGCACTTTTTTTTTCGTCAAAAGGATAAAAAATTTTTTTATTTCGTTCTCCATCCCC
CTCCAACGAAAATAGCAATAAAATTTCACCGAGAGCTAGTCTTTGATTGATTGCTAATCGAAAAA
CAATCGCTTGATGGTTGATTACTAGCGCGTTATACTGACCGTACGAGGCTAGACTGCGGGACTGC
GATCAAGATGTTGACCGACTTGGCGGGAAACTGTAACGGAAAAAAAATATATAGATTTTTCTGCC
CGTAGGGCGTAGCACTCTGAGGTAGGTTTTATTTAAGTGAGATCTAGGGACGTTAAGGGGGGGGG
GTCAAAAAAGGGCAGTTTTCTGGCACGAACGGCTAATAACGCAATACGCTAGTCATGCGGCTATT
TACGATGCTTTATACCGCAGCTTAAGCTAATAGGATGAAGCATAA
Right flanking sequence: Indices 16490 -- 16989
TTTATATTTATCCCGCAGCGATCAAGCGTATACGACACGTAGTGCTTAAGAATAGCCAACTAGTG
CTTGTAGCTCAATTGGATAGAGCACCAAACTACGGATTTGGGGGTTGAGAGTTCGAATCTTTCCA
AGCATGGACCTATCCATCGGATTGGACTAAGAGAATACGTCATATAAGTAGAGGATACGTCAGAT
AAGTAGAGAATAACTAGTTCCAAGCAGACGTTCTCTAGCTCTGCCGCTGCGGGAAAGGCTGCGAG
AAATGGGAAATAAAAAATATATATACCTACGTCCCCCGACTAATGGCTTAAGCACACTGTGCTCT
CGTATTGTCCGACTATTATGGACTCGTGGCGCCGAGAGAAAGATGGGGTTCCAAACCGTAAATGG
TCCCTGGGAGTGGTGTGAACTATCGCCAGTTTGGTAATTTTCCCATACATGTGGTGGACTGCTCG
CCGCAGGTACCACTAGAGCCTGGTGGCTTTACCCCAAAATTCGGT
Found at i:16484 original size:16 final size:16
Alignment explanation
Indices: 16432--16489 Score: 80
Period size: 16 Copynumber: 3.6 Consensus size: 16
16422 TGAAGCATAA
* *
16432 ATATCTATATCTATAT
1 ATATATATATATATAT
*
16448 ATATCTATATATATAT
1 ATATATATATATATAT
16464 ATATATATATATATAT
1 ATATATATATATATAT
*
16480 ATATAGATAT
1 ATATATATAT
16490 TTTATATTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (16 bp):
ATATATATATATATAT
Left flanking sequence: Indices 15932 -- 16431
GCGAGTGCCTTTTAGGCCATAGGGTTCGGGTTAAGGCCTGCAGGGAGGGCTCGGGTAAACCCGAA
GGTGCGTAAGCACTTTTTTTTTCGTCAAAAGGATAAAAAATTTTTTTATTTCGTTCTCCATCCCC
CTCCAACGAAAATAGCAATAAAATTTCACCGAGAGCTAGTCTTTGATTGATTGCTAATCGAAAAA
CAATCGCTTGATGGTTGATTACTAGCGCGTTATACTGACCGTACGAGGCTAGACTGCGGGACTGC
GATCAAGATGTTGACCGACTTGGCGGGAAACTGTAACGGAAAAAAAATATATAGATTTTTCTGCC
CGTAGGGCGTAGCACTCTGAGGTAGGTTTTATTTAAGTGAGATCTAGGGACGTTAAGGGGGGGGG
GTCAAAAAAGGGCAGTTTTCTGGCACGAACGGCTAATAACGCAATACGCTAGTCATGCGGCTATT
TACGATGCTTTATACCGCAGCTTAAGCTAATAGGATGAAGCATAA
Right flanking sequence: Indices 16490 -- 16989
TTTATATTTATCCCGCAGCGATCAAGCGTATACGACACGTAGTGCTTAAGAATAGCCAACTAGTG
CTTGTAGCTCAATTGGATAGAGCACCAAACTACGGATTTGGGGGTTGAGAGTTCGAATCTTTCCA
AGCATGGACCTATCCATCGGATTGGACTAAGAGAATACGTCATATAAGTAGAGGATACGTCAGAT
AAGTAGAGAATAACTAGTTCCAAGCAGACGTTCTCTAGCTCTGCCGCTGCGGGAAAGGCTGCGAG
AAATGGGAAATAAAAAATATATATACCTACGTCCCCCGACTAATGGCTTAAGCACACTGTGCTCT
CGTATTGTCCGACTATTATGGACTCGTGGCGCCGAGAGAAAGATGGGGTTCCAAACCGTAAATGG
TCCCTGGGAGTGGTGTGAACTATCGCCAGTTTGGTAATTTTCCCATACATGTGGTGGACTGCTCG
CCGCAGGTACCACTAGAGCCTGGTGGCTTTACCCCAAAATTCGGT
Found at i:16500 original size:6 final size:6
Alignment explanation
Indices: 16432--16489 Score: 80
Period size: 6 Copynumber: 9.7 Consensus size: 6
16422 TGAAGCATAA
* * *
16432 ATATCT ATATCT ATATAT ATCTAT ATATAT ATATAT ATATAT ATATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
*
16480 ATATAG ATAT
1 ATATAT ATAT
16490 TTTATATTTA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 48 1.00
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (6 bp):
ATATAT
Left flanking sequence: Indices 15932 -- 16431
GCGAGTGCCTTTTAGGCCATAGGGTTCGGGTTAAGGCCTGCAGGGAGGGCTCGGGTAAACCCGAA
GGTGCGTAAGCACTTTTTTTTTCGTCAAAAGGATAAAAAATTTTTTTATTTCGTTCTCCATCCCC
CTCCAACGAAAATAGCAATAAAATTTCACCGAGAGCTAGTCTTTGATTGATTGCTAATCGAAAAA
CAATCGCTTGATGGTTGATTACTAGCGCGTTATACTGACCGTACGAGGCTAGACTGCGGGACTGC
GATCAAGATGTTGACCGACTTGGCGGGAAACTGTAACGGAAAAAAAATATATAGATTTTTCTGCC
CGTAGGGCGTAGCACTCTGAGGTAGGTTTTATTTAAGTGAGATCTAGGGACGTTAAGGGGGGGGG
GTCAAAAAAGGGCAGTTTTCTGGCACGAACGGCTAATAACGCAATACGCTAGTCATGCGGCTATT
TACGATGCTTTATACCGCAGCTTAAGCTAATAGGATGAAGCATAA
Right flanking sequence: Indices 16490 -- 16989
TTTATATTTATCCCGCAGCGATCAAGCGTATACGACACGTAGTGCTTAAGAATAGCCAACTAGTG
CTTGTAGCTCAATTGGATAGAGCACCAAACTACGGATTTGGGGGTTGAGAGTTCGAATCTTTCCA
AGCATGGACCTATCCATCGGATTGGACTAAGAGAATACGTCATATAAGTAGAGGATACGTCAGAT
AAGTAGAGAATAACTAGTTCCAAGCAGACGTTCTCTAGCTCTGCCGCTGCGGGAAAGGCTGCGAG
AAATGGGAAATAAAAAATATATATACCTACGTCCCCCGACTAATGGCTTAAGCACACTGTGCTCT
CGTATTGTCCGACTATTATGGACTCGTGGCGCCGAGAGAAAGATGGGGTTCCAAACCGTAAATGG
TCCCTGGGAGTGGTGTGAACTATCGCCAGTTTGGTAATTTTCCCATACATGTGGTGGACTGCTCG
CCGCAGGTACCACTAGAGCCTGGTGGCTTTACCCCAAAATTCGGT
Found at i:16677 original size:20 final size:20
Alignment explanation
Indices: 16649--16696 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
16639 GATTGGACTA
*
16649 AGAGAATACGTCATATAAGT
1 AGAGAATACGTCAGATAAGT
*
16669 AGAGGATACGTCAGATAAGT
1 AGAGAATACGTCAGATAAGT
16689 AGAGAATA
1 AGAGAATA
16697 ACTAGTTCCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.46, C:0.08, G:0.25, T:0.21
Consensus pattern (20 bp):
AGAGAATACGTCAGATAAGT
Left flanking sequence: Indices 16149 -- 16648
TAGCGCGTTATACTGACCGTACGAGGCTAGACTGCGGGACTGCGATCAAGATGTTGACCGACTTG
GCGGGAAACTGTAACGGAAAAAAAATATATAGATTTTTCTGCCCGTAGGGCGTAGCACTCTGAGG
TAGGTTTTATTTAAGTGAGATCTAGGGACGTTAAGGGGGGGGGGTCAAAAAAGGGCAGTTTTCTG
GCACGAACGGCTAATAACGCAATACGCTAGTCATGCGGCTATTTACGATGCTTTATACCGCAGCT
TAAGCTAATAGGATGAAGCATAAATATCTATATCTATATATATCTATATATATATATATATATAT
ATATATATATAGATATTTTATATTTATCCCGCAGCGATCAAGCGTATACGACACGTAGTGCTTAA
GAATAGCCAACTAGTGCTTGTAGCTCAATTGGATAGAGCACCAAACTACGGATTTGGGGGTTGAG
AGTTCGAATCTTTCCAAGCATGGACCTATCCATCGGATTGGACTA
Right flanking sequence: Indices 16697 -- 17196
ACTAGTTCCAAGCAGACGTTCTCTAGCTCTGCCGCTGCGGGAAAGGCTGCGAGAAATGGGAAATA
AAAAATATATATACCTACGTCCCCCGACTAATGGCTTAAGCACACTGTGCTCTCGTATTGTCCGA
CTATTATGGACTCGTGGCGCCGAGAGAAAGATGGGGTTCCAAACCGTAAATGGTCCCTGGGAGTG
GTGTGAACTATCGCCAGTTTGGTAATTTTCCCATACATGTGGTGGACTGCTCGCCGCAGGTACCA
CTAGAGCCTGGTGGCTTTACCCCAAAATTCGGTATAGGACTAGATATGAGTATTAAATTACTTGG
CCTCCCCCAGTCTCTGGCTCCGGGAGAGGGGGGCAGAGATCCAAGGCCTGACTGGTACGCCGTGA
GGCGGACGGAGGGAGGAGCCATCAGGCCCTGTGCCAAGTCATGTATATATATCTCAATTTATGGC
GGAAGTAGCTTAATGGTAGAGTATAGCCTTGCCAAGGCTAAGGTT
Found at i:38231 original size:18 final size:20
Alignment explanation
Indices: 38210--38251 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
38200 CCGAGAAGAA
38210 ATATA-GAA-ATATATATAT
1 ATATATGAACATATATATAT
*
38228 ATATATTAACATATATATAT
1 ATATATGAACATATATATAT
38248 ATAT
1 ATAT
38252 GCTGCGCCCG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.24
19 2 0.10
20 14 0.67
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (20 bp):
ATATATGAACATATATATAT
Left flanking sequence: Indices 37710 -- 38209
ATTGGATGTGACCGATACGGTACGCTATGGGGTTTGCTCCCTGTTAAGCCTTTGGATCTCTAGCT
ATGAGAAAAAGCGAACAGTCGTACAAAGCGGCTTGAAAGTCCTCTAGCTTCTCTATCAAGCTATC
GGGTACGGCGCAGCACAAAACAGTTTTAATTCACTCGGTCCACCTGCCCTGGCTCCCCCTGCGAA
ACTTCCCAAGGATGCTCGAACTCTGCAAGGCGATAAGTATAAACTCTGGAATCGCTAAAAAAGCA
GAGCAGCCCGACAAATACGAGATCATTCTATGCCCTGCCTCGCGTGGCTCCGGCTGTTCGGCACT
ACAAAAAATAAAAAAGGCTCCCCGTTGCGCATCGACGGACAGCGCGGAATGGAATCATGCTTTTG
ATACGATGAAGAAACGTATTCCGTTTATTCGGAGATACCACCTGCCGGAGGCCCATAAGGAAGAC
CTAGAGGAGATCATTGAGGAAGACCTAGACGAGAACCGAGAAGAA
Right flanking sequence: Indices 38252 -- 38751
GCTGCGCCCGTAGTAAGGAAGGGGCCAAAGTAAGTAGAGTTAGTGAGCCGTGTAATGGGCAACTA
TTTCGCACGGTTCGGAGGGCACTTCAGTAAGCCCTACATGGGCCGAAGTCTTGACCCCTATTCCT
TTTGATGATGCCAGAAGTCGGTTCGATATACGATTTTATCTTGTTTCTATCTTATTTATTATATC
CGATTCGGAAGTCACCTTTTTATTTCCCTGGGCAGTTTCTCTTAACAAGATTGGTTCGTTTGGAT
TCTGGTCTATGATGGTATTTCTACTTATTTCGACGATTGGATTTGTATATGAATGGAAAAAGGGC
GCTTTAGATTGGGAGTAATTCTTCATTCGCTTTCGCGAATGGAGTGGAAAGAAAAAATATAGCCC
CGTAGGGCTGAAGCTCTCATCGCTCTCTTTCTCTTTCTCCCTCTCCGGACACTTTTCCGGTCCAA
AGGACACGATACCTGCCGGGTATCGTGTGCGGGTTCCAGCCAAAA
Found at i:39230 original size:18 final size:18
Alignment explanation
Indices: 39207--39249 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
39197 TACGGCAGAG
39207 GGGATAAACGGCCCATAA
1 GGGATAAACGGCCCATAA
39225 GGGATAAACGGCCCATAA
1 GGGATAAACGGCCCATAA
39243 GGGATAA
1 GGGATAA
39250 TGAAAGAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.40, C:0.19, G:0.30, T:0.12
Consensus pattern (18 bp):
GGGATAAACGGCCCATAA
Left flanking sequence: Indices 38707 -- 39206
AGGACACGATACCTGCCGGGTATCGTGTGCGGGTTCCAGCCAAAAAGAATTTTGGCTTTTCCGTG
CCCCCGGCCCGCTCGGCGGTTTAATTAATCCTCCGGATTGTAAGTATATAAAACGCTTCGCGGGA
CTCTATGGCCCGCACAGTGAATGCTCTCCGCCGTAGTACTATGTACCTAAAATAATAGATCTTTC
TCTCTATGGGAAAGCTACGAACACGATCGCAAAAACAAACCACTCGTTGTGTCTGCTCAACAGTT
GATTGTTGGACACATCGGGGTAATTAGCTCAGTTGGTAGAGTGCCTCGTTTACACCGAGAGAGTC
AGCGGTTCAAGTCCGTTATTACCCAAGGGTTTTCTATTATATGTAATTATGAATTGAATCTAGCG
TCTGAATACATGTACTGATTCGATTGATGTTGGTTGCGAGGATATGAGAAAGGGGGGAGAAAGTG
AATTCTATGGTATCGGTAACCTGAGCTATAGAGATTACGGCAGAG
Right flanking sequence: Indices 39250 -- 39749
TGAAAGAATCCTATTACTAAAATTTGAGTAACGCGAACGATGAAGGATCCCATTAATAGACAGAT
TACGTGAGGGGTAGAGGAGGGGTCGGGATAGCCGGGAAAAGGATCGAATGAGAGGATTACAAGCA
AGATGGAACCCCCGTAAATGTGATCTAATTGTGAAAATCAATCCGCCGCGAATGTTACGATGTGA
CAGATAGATTGATATATAGAAAAATAGAATGAGCGGCTGGGAAGGCGGCTAGTTCCCGGGCGGAG
ACCGAAATGCGCAATGGTGACGAATTCTCGCGAATGCGACGGAGATATTGGGAAATAGTAATAAT
AACAATTGTTTCATATTATTACTATTATTATCACCACCAATAATGGATAAGCCTTATCGATACAA
TATGGCCCTTATTGGAACTAATAATAGGGCCCGGCGGCGGCTTCCTAAACGGCACGGCGCCGTCT
ATCAAAATATCTCGGCGGGACCACAAGCCGTCCCCCCCCCCCCCC
Found at i:50119 original size:53 final size:53
Alignment explanation
Indices: 50034--50137 Score: 145
Period size: 53 Copynumber: 2.0 Consensus size: 53
50024 GTCCCAAGGG
* * *
50034 CGGAAGGCCGGAAATGGCTTGACGATTTCCGCACACGATACTGGGAAGAAGAA
1 CGGAAGGCCGGAAATGGCTGGACGAGTCCCGCACACGATACTGGGAAGAAGAA
** * *
50087 CGGAAGGCCGGAAATGGCTGGTGGAGTCCCGCACACGATATTGGGGAGAAG
1 CGGAAGGCCGGAAATGGCTGGACGAGTCCCGCACACGATACTGGGAAGAAG
50138 GACACAAGAC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
53 44 1.00
ACGTcount: A:0.29, C:0.20, G:0.37, T:0.14
Consensus pattern (53 bp):
CGGAAGGCCGGAAATGGCTGGACGAGTCCCGCACACGATACTGGGAAGAAGAA
Left flanking sequence: Indices 49534 -- 50033
CTTCGTCTATCGGCATTGTAGAAAGAATCGAATATGACCCAAATCGTTCGTCCCGGATTGCTTTA
GTACGATGGATCGAAGGGGTTCTACGCCCTGGAAAGCACCCGGCTAGAGCGAATAGTCGAAAAGA
AAAAAATATCTTCTTTTTCGGCCTTTTATTCTCGTTCTCTTCGCTGCCTGGACGAGCTCGGCGAA
TAAAATACGAAAAAACGAGGCCTAGAGGCGGGCAGATACTGGAAAGTTCTTGGGTCTTAAGGCCA
CGGGGCCTTGGGGCCAAAAAAGTGGCCTTAAGACCTTTGGGTCTTGGTTTACCCAGCGTAGCGGT
AGCTGGGGCAAAGCCCGCTTTTTTCGCTTTTCGAGGACCTTCCTACCTAACGGGAAGAGAGCGCC
TGTCAGCCCTGAGGGAAGAAAATACGTTCTCTCGAAGCGAAGGCCAAAGATGGAGAACGCATAGC
GGGGCGGCGAGAATAAAAAGCCTAGTACTTCCTTGGTCCCAAGGG
Right flanking sequence: Indices 50138 -- 50637
GACACAAGACCCAAGGGACAGGCACGTAGTGCTAGACCCTTCTTTCTACAAGCCCGAACATGCTC
TCCGCGCACTCCGTGCCGTCGGGCCTTCGGGTTCGGGTCGAGTGCTACGCACCTCCGAGCCTTTC
ACTTATATATTAGCCAGTGAAAAATTGGAAGCAGGCAAGACGGTGATGAATTTTCATTGGTCTAA
ACTTTCGACCCCGTTGAACTACCATCAATCTTCCCAGAAAGCTAATGACCCTTCGGGCCTTGGGG
TGGAGACCGCGCGAGATAGCCAAGCTTGGCTACACGGAGACTACGCTTCTGGTGAGAATAAATAC
ATACTTGATTCATATTATCAAATGGTCGGAAATTGCATACCATTAGCCAAAATACCTATAGGCAC
GTGGGTACATAATATTGAAAGGAACCCAGGTCAAGGCGCAAAGTTTACTCGAGCCGCGGGAACCT
TTGCTCAAATAATTGAGAAAGTTGGTAATACACCACAATGTATTG
Found at i:58427 original size:27 final size:27
Alignment explanation
Indices: 58397--58452 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
58387 ATGAACACTC
* *
58397 ATGCAAGAAAAGCACGGTATTACTAAT
1 ATGCAAAAAAAACACGGTATTACTAAT
* *
58424 ATGCAAAAAAAACACTGTATTACTTAT
1 ATGCAAAAAAAACACGGTATTACTAAT
58451 AT
1 AT
58453 TCAATCAACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.46, C:0.14, G:0.12, T:0.27
Consensus pattern (27 bp):
ATGCAAAAAAAACACGGTATTACTAAT
Left flanking sequence: Indices 57897 -- 58396
ACAATATCGGAACGAGATTATACGTAAAAAACAAGGGAAAAAAAAATAAATCATGTCATATATTT
TGGGGACCAATCTGAATTCCAATAAACAGGTGAAAATTGCCTTAACTCGAATCTTCGGAATTGGG
CCTAAAAAGGCAATTCAAGTTTGTGATCGATTAGGCCTCAGCGATAACATTAAGGTTAATAAGTT
AACCAAGTATCAATTTGACCAAATTCTAGAAATAATAAGTCAAAATTATTTAGTCGATTCGGAAT
TGGAGAGAGTCATTCAGAGAGACATCAAACGATTAATTAGTATTGGTTGTTATCGCGGGTTTCGC
CATAATGCAGGATTGCCCTTACGCGGCCAACGGACTCATACTAATGCTAAGACTTCTCGCAAATT
TAGAGACATTTCGATCAGAAGTTGAGAAAAGTTTTTTTCGTTTTTTCGTGAAACGGATGGGAAAG
AAATCGATAGTATTGAGCAACACCAAAAACATTCAATGAACACTC
Right flanking sequence: Indices 58453 -- 58952
TCAATCAACTTTTGGTAATACAATCATTACTTTAACGGATTATGACGGAAATACAAAAACTTGGT
CCTCCTCGGGTTCAGTGGGGTTTAAGGGATCTCGTCGCTCAACCAATTATGCTGCTCAAGCAACT
GCAGAAAATGCCGCGCGAGCTGCCATTCAACTTGGATTTAAGTTTGTTGAAGTGAGAATCAAAGG
ATTGGGTTATGGAAAGGAATCTTCGTTGCGTGGTTTAAAACTAGGAGGTCTTATTATTACCAAAA
TTCGCGATGTAACCCCAACGCCACATAATGGATGCCGACCCCCTAAAAAACGTCGTGTTTAGATA
TCATCATAAAGTGCTGTGTCATCATAGAATGGTAAATAGGGGTTCAGGAGTAGAAAAAAAATTTT
TAGGGTCCGGGGGAGACTTCTTTGGCTTCACGGGGCTTAGCCCTTCCTTCGTAAAGGCGAAGAAG
GAGATCTACAAGCCATGTCTGGCCTTCGGCGGCCCTTCGGACCCA
Found at i:61844 original size:20 final size:20
Alignment explanation
Indices: 61819--61869 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
61809 CAAAACTACG
61819 GAGGATTTATTTCACCAGGT
1 GAGGATTTATTTCACCAGGT
61839 GAGGATTTATTTCACCAGGT
1 GAGGATTTATTTCACCAGGT
**
61859 TCGGATTTATT
1 GAGGATTTATT
61870 GACCGATGCC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.24, C:0.14, G:0.24, T:0.39
Consensus pattern (20 bp):
GAGGATTTATTTCACCAGGT
Left flanking sequence: Indices 61319 -- 61818
GTTTGGTTCATATTACTCCCCATTTCGTCTTATATTCAGTATTGGTAAAAACCAATACTGAATGG
CCGCCCTGTATCCCACTAAGAAAACGACTGGTACCGCGGGAAAAAGTAGGCGCGTAGCAGAGCAA
TGAGTGTGTAGGGCAGAATGGTCTCACGAGTGAACTAAGTGGGTCCAGCAGTTGGAGAGCTCTAG
ATTTAGCGTACCCGACTTCTATTCGCTTTTCCCCTATCCCCGGGTTTTTCATCTGAGTCTTAAAA
GATCAAGTGGATTTTTGGTATATTCCGTGTGTATTTCGCTACACATAATTTTTATCTTTTCCCTC
TACAGTTACAGGAAAAGTCTTTTTACTACGGATCGCACACTCTGGCTCTAAGATTTTCCAAGACC
TGTGATTTCGATGTATTTCCATGGATCAATTATTCAAGGAGTACGTTTTGATGGCCTTAATTATA
GGATTTAACTTGGGACAGCCGTTTGGTTCAGCTTTCAAAACTACG
Right flanking sequence: Indices 61870 -- 62369
GACCGATGCCCTGGAGGGCGAAGGCCTTCCACCCACATGAGGAGTATTCTTCTTCTCGTGCTCGA
AGGCTACCTCCGGGCATTTGCTCTGCAAGAGCAAATAGCTGTTGAGCTACCGCCAAGACCTAACC
ATTATCCTAACAAATCAGATGTGCTGTTTGGTCACTTTCGTAGGACCAGCCGCCAATCCCATATC
CCCACGCAAATAAACCTGATGTATGGGGTTATATACCCGCGGGGCACTACATTTAATAATAGCAT
CGAAAGGGCGGCCCGAGCGATTCGGGTATCGATGGCTGACCGCATCAAGTCTCGACCTATAGAAG
CCATAAAGACCGTGATGGGGACGATAGCCACGGCCGTGGGGAACTACTTCAAAGTCGAGTTGAAT
AAATCGAAGGCTGGGGCGGCTCATACCACTAATGGCTTGGAGTAGCAGAAGCTTTAAATAAGCAT
TTGGAGCCAACGACGCGATTATCTTAATAATAATGTAACACACGC
Found at i:79920 original size:15 final size:15
Alignment explanation
Indices: 79900--79928 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
79890 CTTGTTTCTC
79900 TGATAGCATATGCCG
1 TGATAGCATATGCCG
79915 TGATAGCATATGCC
1 TGATAGCATATGCC
79929 ATTACGTCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.28
Consensus pattern (15 bp):
TGATAGCATATGCCG
Left flanking sequence: Indices 79400 -- 79899
TCGGCTGGGTTCTCTGTATATAGACGATTTACGCCGCTACGCGCATTTCATTCCTTGCGCTACGT
GCCTGCTGCGCTACGCGCCTTAGCCGGCCTAAGGCATGTAGCCTTAGGAGGAGGCTGCCCCTGAA
TGAATGGTTAAGTTTTACAAGCCCTCCAGCACTTTCATAAAAATTTCAGTAAGCTCGCCAGAAGT
TTATATTTCCATTTGAAATGGAAGCCGAAAAATAAAGGGAGTTCACTATATGAATTTGTACTTTT
TCACCCGGTTACTCATTCCGGTTATATCGCCCAAGCAAATCCCCCGGCCCATCGCTATTTCATAG
CCCGGTCACGGCAAGCATGGTTTTATATTCAATAGATCGCTGGGTACAAACATCGATTCCGCCTT
TTTGTCCCTTCGCAAAACCAGATTCGTCCAATACTATTTGTATTATCATCGCCTTCGGCTGTAGG
AATGGTTACGGCACAACTATTACGGGAGATTTATACTTGTTTCTC
Right flanking sequence: Indices 79929 -- 80428
ATTACGTCTTTATTTGTTGAACCCGGGGAACGAAATGGAGTTATTCATATATATAGCATCAGTTT
ACTATATAGGACTCAGGTATAGAATTATGAGACTCAGGTATAGAATTATGAGACTCAGGTATAAA
ATTATGAATGATAAGCAACTCCAATTTTATAGAGCTTATAAGGATTCTTGGGGCGCAGGCGGTTT
GAACGATGCCAACGGCACCCTTTAAAATCGTTCGGATTTAAATGGCAAGCGGATACCCAAACGTA
ACATGGAGAGGAACTGTGGGCTAGCAAACGCAGCGCCCCAACATGCCCCGGAAACATTGCCAGTC
GCTACGGGTACGGGCAGACTAGCCACAGTTGTGGCTGTAGGAGCGTCGGTCGTCGGCATTGCAAT
TACTAGGACGATCGCGGACTCGAACGGATAAATTCAGAAGTCAAAAATGGTGGCGCTGAAGGAAA
ACAGAATTTGGCTAATATGGCGTGGCATTGGAGCTTGGAATGAAC
Found at i:80027 original size:21 final size:21
Alignment explanation
Indices: 80003--80065 Score: 117
Period size: 21 Copynumber: 3.0 Consensus size: 21
79993 TACTATATAG
80003 GACTCAGGTATAGAATTATGA
1 GACTCAGGTATAGAATTATGA
80024 GACTCAGGTATAGAATTATGA
1 GACTCAGGTATAGAATTATGA
*
80045 GACTCAGGTATAAAATTATGA
1 GACTCAGGTATAGAATTATGA
80066 ATGATAAGCA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.29
Consensus pattern (21 bp):
GACTCAGGTATAGAATTATGA
Left flanking sequence: Indices 79503 -- 80002
TAGCCTTAGGAGGAGGCTGCCCCTGAATGAATGGTTAAGTTTTACAAGCCCTCCAGCACTTTCAT
AAAAATTTCAGTAAGCTCGCCAGAAGTTTATATTTCCATTTGAAATGGAAGCCGAAAAATAAAGG
GAGTTCACTATATGAATTTGTACTTTTTCACCCGGTTACTCATTCCGGTTATATCGCCCAAGCAA
ATCCCCCGGCCCATCGCTATTTCATAGCCCGGTCACGGCAAGCATGGTTTTATATTCAATAGATC
GCTGGGTACAAACATCGATTCCGCCTTTTTGTCCCTTCGCAAAACCAGATTCGTCCAATACTATT
TGTATTATCATCGCCTTCGGCTGTAGGAATGGTTACGGCACAACTATTACGGGAGATTTATACTT
GTTTCTCTGATAGCATATGCCGTGATAGCATATGCCATTACGTCTTTATTTGTTGAACCCGGGGA
ACGAAATGGAGTTATTCATATATATAGCATCAGTTTACTATATAG
Right flanking sequence: Indices 80066 -- 80565
ATGATAAGCAACTCCAATTTTATAGAGCTTATAAGGATTCTTGGGGCGCAGGCGGTTTGAACGAT
GCCAACGGCACCCTTTAAAATCGTTCGGATTTAAATGGCAAGCGGATACCCAAACGTAACATGGA
GAGGAACTGTGGGCTAGCAAACGCAGCGCCCCAACATGCCCCGGAAACATTGCCAGTCGCTACGG
GTACGGGCAGACTAGCCACAGTTGTGGCTGTAGGAGCGTCGGTCGTCGGCATTGCAATTACTAGG
ACGATCGCGGACTCGAACGGATAAATTCAGAAGTCAAAAATGGTGGCGCTGAAGGAAAACAGAAT
TTGGCTAATATGGCGTGGCATTGGAGCTTGGAATGAACCCGCCCGAGCACACGGCGGGGACAAGT
TATCATAATTTGCTTGGAGACACACGGGCAGAGTTGGATATTGCACGCGCAGCACGTAACGGAGC
TAGGGCAAACTGGCAGAGCTTCATCGTATCGCACTTGCAGACACC
Found at i:81521 original size:2 final size:2
Alignment explanation
Indices: 81509--81600 Score: 130
Period size: 2 Copynumber: 46.0 Consensus size: 2
81499 ATGAGCTGCA
* * *
81509 AT AT CT AT AT AT AT AT AT CT AT AT AT AT AT AT AG AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
81551 AT AG AT AT AT AT AT AT AT AG AT AT AT AT AT AT AT AG AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
81593 AT AT AT AT
1 AT AT AT AT
81601 GATTTATAGG
Statistics
Matches: 78, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 78 1.00
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (2 bp):
AT
Left flanking sequence: Indices 81009 -- 81508
GCCCGAAATCCACCCGCTAACATGAAGGAAGCATTGCTAAATGACTAAATTTCGCTAATATGATT
AAATCCCGAGGATTTGTAGATAAATATATCTAATGAATACTCCGGAATCCCCATTGCTAATGACA
CCTTCGCTAAATAACGCATATTTAGCTAATATAACTAAACGGGGATCCGTACGGAGACCCCCCCT
TAATATGGAATTGAGGGGTCGGTAAAGGAATATATAATAGGAATCTATATGGGATATGGAAGAAT
TCCATATAATAGGGAAGAGTTAATCAATTGAATTGGAATAAATAGAATGGATTGGGAAATGAAAT
AAATTCAAATATATATATACATATATATTTGTGTGTAACGGAGAAAATGCATAAATCGAAAAGAT
TCTATTATTTATAGGAGAAACTATTAAATTCATATTTATTCTTTCTCCGCCCATCTCCCAAAAGA
AAATGAGCTACTATTTTTCTTATTCGAGAGAGACGATGAGCTGCA
Right flanking sequence: Indices 81601 -- 82100
GATTTATAGGTCGGGGTAGGAGATAGCCTTGACCTCTAACCTTCAAAGATACTAAGGGCCTGAAT
CTTCCCCGGGTCGGGTTACCACGTTCTTGAGATCCGTTATATAGGCCTCTAGTTCTCCGTTGGGA
AGGTCCAGGGACTTCCATCGTGAAAGTGACATAGGAACTCCGGGCGGGGATCATGGCACTTCTCC
TAGAATCTTAGGGACGCTTTCGCTAGGAGCCCGAACATATTTTTTTGGTCATGCGGTACGTAGGG
CCTGTAGGTCCCGTAACCATCTCGTCCTTATAGAGTTCGTAAACGGTGTCCGCTATATTCCGAAG
ATAAAGAATTCTATCTGGTTGTTGGTCGCGGGGCGGGAGACTTGGTTTTGTGCGAGGGACGGCCA
CCACAAAACCGAAAAACTATCCGACAAAACAAAGGGCACTTACGACCAACTATGCCTCGGAATAC
CCTTCAGTAACCTCTGGCTAATTATATAAATCTCCAAAACCTTTG
Found at i:95315 original size:12 final size:12
Alignment explanation
Indices: 95298--95322 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
95288 TAGCCTCCCC
95298 GTAAGGTCGAGA
1 GTAAGGTCGAGA
95310 GTAAGGTCGAGA
1 GTAAGGTCGAGA
95322 G
1 G
95323 CGCCTTCGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.44, T:0.16
Consensus pattern (12 bp):
GTAAGGTCGAGA
Left flanking sequence: Indices 94798 -- 95297
AGAGGAGGGCCCCGCGAATGAATAGGCCGAAGAGGCGAAATCGTAGCGGTAGGCCTCGATCGAAG
AGGGGCGAAGCAGCGTCTATTTGCTTCACCCCTCCCCCCCCTCTCAGGGTACCGGGTAGCCGTGT
GGCTGAAGCGGCTTATGAGAAAGGGAGAGCATGGGCCGTAGGCCGCGCCGAAGAAAGGCGGTAGC
GCGGTTGCCGGGATTGATTAGAAGCGTGGCGCCTACTCAAGCGCGGCTTTCATCTTGGGTTCTGT
ACTTGATGTTGAATTTGATTTATTAATTATTTATCGGCGCGTTCTAAGGTACGTAGTATGGGAGG
GGCACGTAGCGGTCAAAATAATGCTAAAGGAGCGTAGCCCATACAAAGCTGAAATAATGCGCGCT
ACGCGCCTTTCCCACTTTAGACCGACCGCTACGCGGTCCTTAATATCGCTACGCGCCTCCGCTAC
CGCCTTCGGCGCGCCTACGGCCCTTCGGGTTGGTTTAGCCTCCCC
Right flanking sequence: Indices 95323 -- 95822
CGCCTTCGGCGCCTAAGGTAGAGACTCGCTATCGCTACGCACCTATTCTTACCATACCCACGGAA
CTTGCAATAGTTTCATCAAAGAAGGGCCTACGCCTTTAGGGCGGGACCCGAGTTTTCGGAGATAA
AAATGTAATAGATAGATAAAATATGACATTGTCATCAAATATACAAATGAAACTCGAAGGAATGC
CCAGGAGGGATTAAATCCGCATCCGCCTCGGTCAAGTCCCTAACAGGGCGGGCTCCGCCCTATAA
GGACTAAGTCTGTATAGGGCGGAGCAGATCGGTGCTTAAGCTGCACGAATTGCTGAGACGTCTAA
ATGCTTTCTTTGATAGCTGGAAGTTCTTCAAAAGTATGAAATGCTGGAGGGCTTGGGACCATCCA
TTCAAGTGTCGTTGAATTCTGTTCAACAGCCCAAGGGCTTGGAGCACACTTGTTTTCACTAGTTA
GAGTAAGAAAAACCACTACAAAGAAACGAAAAATCCCTACTACAG
Found at i:95809 original size:21 final size:22
Alignment explanation
Indices: 95784--95827 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
95774 GTTAGAGTAA
95784 GAAAAA-CCACTAC-AAAGAAAC
1 GAAAAATCC-CTACTAAAGAAAC
*
95805 GAAAAATCCCTACTACAGAAAC
1 GAAAAATCCCTACTAAAGAAAC
95827 G
1 G
95828 TATGAGCCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.55, C:0.25, G:0.11, T:0.09
Consensus pattern (22 bp):
GAAAAATCCCTACTAAAGAAAC
Left flanking sequence: Indices 95284 -- 95783
GGTTTAGCCTCCCCGTAAGGTCGAGAGTAAGGTCGAGAGCGCCTTCGGCGCCTAAGGTAGAGACT
CGCTATCGCTACGCACCTATTCTTACCATACCCACGGAACTTGCAATAGTTTCATCAAAGAAGGG
CCTACGCCTTTAGGGCGGGACCCGAGTTTTCGGAGATAAAAATGTAATAGATAGATAAAATATGA
CATTGTCATCAAATATACAAATGAAACTCGAAGGAATGCCCAGGAGGGATTAAATCCGCATCCGC
CTCGGTCAAGTCCCTAACAGGGCGGGCTCCGCCCTATAAGGACTAAGTCTGTATAGGGCGGAGCA
GATCGGTGCTTAAGCTGCACGAATTGCTGAGACGTCTAAATGCTTTCTTTGATAGCTGGAAGTTC
TTCAAAAGTATGAAATGCTGGAGGGCTTGGGACCATCCATTCAAGTGTCGTTGAATTCTGTTCAA
CAGCCCAAGGGCTTGGAGCACACTTGTTTTCACTAGTTAGAGTAA
Right flanking sequence: Indices 95828 -- 96327
TATGAGCCAAAACTACTAAAGGCATTCCATCCAGCGTAAGCATCTGGATAATCAGGAATGCGACG
TGGCATACCTGCAAGCGGTTTTTTCCTTATTTATCAAATGTTAATGGATTGTGACTAAATATTTC
TCTTTTGTAAACTTCATCTGGAATTAGTCTTTCAGACGTTTCGGTGTGTTTAAATCCCAATGTTG
AATCAGTTCTTTTCTTGGTATCAAGAACTGGTTCATAAAGATCGAAATAGTACTGTTCCCGAGCC
AAATAATCCTTTTCAGTAATAGTACCTGTTGAACCACATGACTCAATAATAACTAAAATTGTCAT
GACCATATTTCCAAATGGAATTATAAATATATCTGTTATCAGATAATTTAGAAGGGTGATAGTAT
TCAGCAAGTCTATCGCTTAATTTATAACCACTACCTACATATTGTTTCCCATTAACTAAATTATG
CCAAAGATAGATTCCAGTTTCCGTTGGATAATAAGAAACGATTTG
Found at i:95810 original size:22 final size:22
Alignment explanation
Indices: 95785--95827 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
95775 TTAGAGTAAG
95785 AAAAACCACTAC-AAAGAAACGA
1 AAAAACC-CTACTAAAGAAACGA
* *
95807 AAAATCCCTACTACAGAAACG
1 AAAAACCCTACTAAAGAAACG
95828 TATGAGCCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.56, C:0.26, G:0.09, T:0.09
Consensus pattern (22 bp):
AAAAACCCTACTAAAGAAACGA
Left flanking sequence: Indices 95285 -- 95784
GTTTAGCCTCCCCGTAAGGTCGAGAGTAAGGTCGAGAGCGCCTTCGGCGCCTAAGGTAGAGACTC
GCTATCGCTACGCACCTATTCTTACCATACCCACGGAACTTGCAATAGTTTCATCAAAGAAGGGC
CTACGCCTTTAGGGCGGGACCCGAGTTTTCGGAGATAAAAATGTAATAGATAGATAAAATATGAC
ATTGTCATCAAATATACAAATGAAACTCGAAGGAATGCCCAGGAGGGATTAAATCCGCATCCGCC
TCGGTCAAGTCCCTAACAGGGCGGGCTCCGCCCTATAAGGACTAAGTCTGTATAGGGCGGAGCAG
ATCGGTGCTTAAGCTGCACGAATTGCTGAGACGTCTAAATGCTTTCTTTGATAGCTGGAAGTTCT
TCAAAAGTATGAAATGCTGGAGGGCTTGGGACCATCCATTCAAGTGTCGTTGAATTCTGTTCAAC
AGCCCAAGGGCTTGGAGCACACTTGTTTTCACTAGTTAGAGTAAG
Right flanking sequence: Indices 95828 -- 96327
TATGAGCCAAAACTACTAAAGGCATTCCATCCAGCGTAAGCATCTGGATAATCAGGAATGCGACG
TGGCATACCTGCAAGCGGTTTTTTCCTTATTTATCAAATGTTAATGGATTGTGACTAAATATTTC
TCTTTTGTAAACTTCATCTGGAATTAGTCTTTCAGACGTTTCGGTGTGTTTAAATCCCAATGTTG
AATCAGTTCTTTTCTTGGTATCAAGAACTGGTTCATAAAGATCGAAATAGTACTGTTCCCGAGCC
AAATAATCCTTTTCAGTAATAGTACCTGTTGAACCACATGACTCAATAATAACTAAAATTGTCAT
GACCATATTTCCAAATGGAATTATAAATATATCTGTTATCAGATAATTTAGAAGGGTGATAGTAT
TCAGCAAGTCTATCGCTTAATTTATAACCACTACCTACATATTGTTTCCCATTAACTAAATTATG
CCAAAGATAGATTCCAGTTTCCGTTGGATAATAAGAAACGATTTG
Found at i:108711 original size:24 final size:24
Alignment explanation
Indices: 108674--108729 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
108664 TCACCGCTCT
* *
108674 TTATTTATCTATGATGATTCATCA
1 TTATTTATCTATGATCAATCATCA
108698 TTATTTAT-TAATGATCAATCATCA
1 TTATTTATCT-ATGATCAATCATCA
*
108722 TGATTTAT
1 TTATTTAT
108730 GAGAATTTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 1 0.04
24 27 0.96
ACGTcount: A:0.32, C:0.11, G:0.07, T:0.50
Consensus pattern (24 bp):
TTATTTATCTATGATCAATCATCA
Left flanking sequence: Indices 108174 -- 108673
TATGCGAAGAAATAACACACTTGATTTTCGGTGAGCAATTATAATATGATGATACATAAAGGGTG
ATATAGGAAATACCATAGTACGTGATACAAAAAATAATATAAAGCACGCATAACCGAACGAATTG
CGTCAAATAGGTAAAGTGATCGAGTTGGGGCTGAAGATGTAGGACGTTAGTTCTACATAACATTT
ATTTTCTACCTGCGAGAAAAATGGAAAGAATTGGAATATAAGCGACTTCTATAGAATTTTTGAAA
ATATGGGCTAAAGCCCCGCCGGGCGGTAGAGAAAATCAGAAAAGTTATAGCTAGAACCGGACCTC
GTGTTTTGCTTCCTTCTCGCGCATCTTTTTGTTTGCTTCCCCACCCGTTTTTGGCGGGAGTCGGA
TTCGAACCCACAACATTCAGATTATGAGCCTGACGAGTTACCAATTACTCTATCCCGCGAACAGC
CACCGAAAAAAGAGATATATTTTTGTTCTTTTCGTTCACCGCTCT
Right flanking sequence: Indices 108730 -- 109229
GAGAATTTCTTACTAATGAGGATTCATCATTATTTATCTACGATAATTCATCCAGATTTTCTATT
AGTGATTATACTAGATTCAAACCAGATTTGTTCAGGTTCGAAGGGAGGGAAAAAGGGGCGCGCCG
CAGCCCGCGCTAGCTCACTGGGTTAAAGTGACGGATACAATTTTGGTGTTTACCCAACTAAAGCG
ATTGGCTGGAGACGAAACCACGGTGGCTTCCCTCCCCGCGCACAGGCCATGAATTGGGGGTGTTA
TGGAGGAGGCACGTAGATTACCTTAGGCAACAACGGTCCCGCCGCAATCGGTAACATAGTTAAAA
AGTACACAGGCACTACGTGCTTCTGATACTTCTTTTAGTTTTTGGCCGGAGCGATAATTTTATGG
AATACGGGAAGCGAGAAGGATGCAGGAAAGTTTATAGAGGGGGTTGAGCTACGGGTTTTCAACCA
ACCGGAGCTCCTCTTATATTACCTCGTGAGTCTGCGACCCCTAAA
Found at i:119832 original size:11 final size:11
Alignment explanation
Indices: 119816--119843 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
119806 AAGTTTACTA
119816 TTCGAACATAT
1 TTCGAACATAT
119827 TTCGAACATAT
1 TTCGAACATAT
119838 TTCGAA
1 TTCGAA
119844 TCGAGAACCC
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:0.36, C:0.18, G:0.11, T:0.36
Consensus pattern (11 bp):
TTCGAACATAT
Left flanking sequence: Indices 119316 -- 119815
TGTTAAGTTTGTATGGGAGTGCTTATCCCCCCTTCAAACCCCTCAATATTAACTACCCTCCGTAC
GACCTCCCATTGTAACGAATGAATCTAGACACGAATTTACTCCTTTCTTTATCTCATAAAAGTCT
CGAAATGGGTGCATTTTATTTTGGCTAGAATGGAATAAGGTATTAGATAAATGTGGTATATTGGA
CAGTCTGCTGTCCCAGGAAGTGGAACTCCCGTCAGACTTTTTGAAATACTTGAAAGACGACCTGT
TAGAAAAGTAGAATTAATCCGATCACCTTCAATCGAAATTATATTATTTGAATTTACTCCCGGAT
CAATGCTCACTATCAATAGTTAGTTGGTAAGACAATCTTATTACCGGACATGGAATTAAAACTTC
GGTTCCTATCTTTGGCCCTCTTTCTATCTTCAGCATTCAATCCTTTGACACATTATTCTCCCTGA
GTGTGCAAAGAAACCTACGAAATACTTAACTTGAAAAGTTTACTA
Right flanking sequence: Indices 119844 -- 120343
TCGAGAACCCCAAAAACTTCTAATATATTTTTCAGCGGTCTATCGTTGCACCTATCGGCTTCGTT
ATCCTTCCAAGTTACTTTACTGTAATTTGTTGGCTTATCCATCACAAGCCTGATCAAATTTACTA
TTGAAATATTTAACCCTATTAATACTATAACAATATGCGTTGGTTACAATCTCCTTAACTAAATT
TTTAGAAATTAAGGTTTTTTTTTGTTTGAATACGTGAATTTGGGGTGCGAAACCGGAGTATAATC
CGAAAGATTTGATTCATAGATATATTTCTCAAAACCGGTTCAACCCCAGCAGCCTGCATATGAAT
ACTGAATTTTCTTTGCAAGTGTACACAGATGATTTCTCCATGTGAGCCATGCGGTATCCCGTTCG
CAGTTCCAGTGAGCCCTTGGCTGTGAGCTGCGAGCATACAGCAGCCGCGAGCGCATAACCATCCC
CCTCGCGGGAAGCAAGAGCCCCAATGATAAACATAGGCTATAGGA
Found at i:130733 original size:22 final size:22
Alignment explanation
Indices: 130707--130759 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
130697 GGGGTTAATT
130707 ATGATGATCTCCGATCGTCATA
1 ATGATGATCTCCGATCGTCATA
*
130729 ATGATGATCTCGGATCGTCATA
1 ATGATGATCTCCGATCGTCATA
130751 ATGATGATC
1 ATGATGATC
130760 AAGGATATTG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (22 bp):
ATGATGATCTCCGATCGTCATA
Left flanking sequence: Indices 130207 -- 130706
GAAGGATATGACGGAATAAGCCCTGCCGTGATGGTTTAGACGGGGGATAGGGGGGTTGCCCCCCT
ATCCCCCGGCTGAAGCTAGAAACAGTGTACCCGAAAGGTAAATGGGGAATAGGAAAAGGAAGATT
TAGTATTATTATTTATCCGAACATAACGGATAAGGAGCGGGGAATAGATACATAGAAGTAGGTCT
TTCTCACGGATGGCGCGTTGGACGGCAGCCGGGGAGGGGGGGGGGAACTGAGAACAATGAGATAC
AACCCTCTCTTTGTGAATTTCTCATTTAAATCCGGTGATTTGGATAGAAATGGGGAATTGCAACG
GAAAATATGTATATGATTTGATCATATACATATATGAATGATCCGAATTAAGTAAGAATCGAGTC
GATGGATAGACATCAACATTATTATTATTACTATCCAGTAGAATCCATAATCCAACAAATAAGGT
CATTATCTGGGTGATAGAGAAATCAACACGAGGACGGGGTTAATT
Right flanking sequence: Indices 130760 -- 131259
AAGGATATTGAAAAGATATATCTGCTGTGCCGTATACATATATATGAATTTGAATCCTCGTCTTG
ATAATCATAATCCCGATGATCATAATTAAATTATGATCATCGGGATCATTCTTCTCCAATTTCTA
TGATCATTACTATTTCCAATGATAGATACATCATTGGGAATAATAATGATATGGGCGTTATTATC
CTTTTCTTTATCATTCCGATGCTCATTACTAAACCCAATTGTAGATGCATAATTTCCGGTAATTA
TGATAAAAACCTGACCCTTTTTCCTCTCCCTCTCACGATTTTTGTGATGAGAAAAGGTTCAAAAA
TTATGTAAATTTCTGCTGGTATATTCGGTTCCCATAGGTGGTGGGGGAGAGGGATCAGCAGGAAA
ATGGGTTCACCTCTTGCGACACTAAGGTACACGAGAAATGGTACATTTTTGCGGTAAATCGTTTA
CCCGTCGTTGGCTTCTCTCTCTGCCATTTATTATTGCAAAAATAT
Found at i:130765 original size:22 final size:22
Alignment explanation
Indices: 130719--130765 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
130709 GATGATCTCC
**
130719 GATCGTCATAATGATGATCTCG
1 GATCGTCATAATGATGATCAAG
130741 GATCGTCATAATGATGATCAAG
1 GATCGTCATAATGATGATCAAG
130763 GAT
1 GAT
130766 ATTGAAAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (22 bp):
GATCGTCATAATGATGATCAAG
Left flanking sequence: Indices 130219 -- 130718
GGAATAAGCCCTGCCGTGATGGTTTAGACGGGGGATAGGGGGGTTGCCCCCCTATCCCCCGGCTG
AAGCTAGAAACAGTGTACCCGAAAGGTAAATGGGGAATAGGAAAAGGAAGATTTAGTATTATTAT
TTATCCGAACATAACGGATAAGGAGCGGGGAATAGATACATAGAAGTAGGTCTTTCTCACGGATG
GCGCGTTGGACGGCAGCCGGGGAGGGGGGGGGGAACTGAGAACAATGAGATACAACCCTCTCTTT
GTGAATTTCTCATTTAAATCCGGTGATTTGGATAGAAATGGGGAATTGCAACGGAAAATATGTAT
ATGATTTGATCATATACATATATGAATGATCCGAATTAAGTAAGAATCGAGTCGATGGATAGACA
TCAACATTATTATTATTACTATCCAGTAGAATCCATAATCCAACAAATAAGGTCATTATCTGGGT
GATAGAGAAATCAACACGAGGACGGGGTTAATTATGATGATCTCC
Right flanking sequence: Indices 130766 -- 131265
ATTGAAAAGATATATCTGCTGTGCCGTATACATATATATGAATTTGAATCCTCGTCTTGATAATC
ATAATCCCGATGATCATAATTAAATTATGATCATCGGGATCATTCTTCTCCAATTTCTATGATCA
TTACTATTTCCAATGATAGATACATCATTGGGAATAATAATGATATGGGCGTTATTATCCTTTTC
TTTATCATTCCGATGCTCATTACTAAACCCAATTGTAGATGCATAATTTCCGGTAATTATGATAA
AAACCTGACCCTTTTTCCTCTCCCTCTCACGATTTTTGTGATGAGAAAAGGTTCAAAAATTATGT
AAATTTCTGCTGGTATATTCGGTTCCCATAGGTGGTGGGGGAGAGGGATCAGCAGGAAAATGGGT
TCACCTCTTGCGACACTAAGGTACACGAGAAATGGTACATTTTTGCGGTAAATCGTTTACCCGTC
GTTGGCTTCTCTCTCTGCCATTTATTATTGCAAAAATATACCATT
Done.