Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_054214
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: 144205
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Found at i:12626 original size:16 final size:16
Alignment explanation
Indices: 12605--12653 Score: 98
Period size: 16 Copynumber: 3.1 Consensus size: 16
12595 TTGGGTAGAG
12605 TTTTTACATATATCAT
1 TTTTTACATATATCAT
12621 TTTTTACATATATCAT
1 TTTTTACATATATCAT
12637 TTTTTACATATATCAT
1 TTTTTACATATATCAT
12653 T
1 T
12654 ACGAGCATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.31, C:0.12, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTTTACATATATCAT
Left flanking sequence: Indices 12105 -- 12604
TTTATTGCTCAATCCGGTATAAGGAAACCCCCCGGGAAAAAACAATGTCCACCGTTTACTGTTTC
TTCGCAAATATTTGACTCCTTCACTTGGATATACGAAAATTATATCAGTCTGTGCGTAGTACTTT
TTTTCCCGATTGCCGTTACCATGCTAGACTTCTCGGATATTAACTACTATGTTGCTTTCTCTAAT
CCCCTCCTTTTTCGCATATCATTTTATTCAATTTATCTCCCGGGACCGCGATCCAGCTATAAAAG
AATGGCTTATTGACAATCAACCAATAAATTTCAATAAATACTATCCTATCTATGCCTTTTCAAAG
ATTTTTGGTACAATCCCGCTTTTATGTAAATACTTATTGTAAGCTCACGAGGTTTCAGATACATT
ATCTAAAACCTTGGAGGCAAAAGGGATAAAACCGAGAGAAGAAAGGGAGCACGTCTGCCGTATAA
TGGGAATCATTGATGGCGCTTTGAAAGAGGGATATTTGGGTAGAG
Right flanking sequence: Indices 12654 -- 13153
ACGAGCATATATCATCACGAGTCTCTATTTTGTTCTCCAAATAGCCATAACAATCGAAGGGTCCA
AGGTCTGGCCGCCCATCTGACCTCAGCAAAGAGACGGAAGTAACACCCGCGCAGGAGTGGCCAAT
CCAACCGGTTACTGAAGAGGTCGGTGAAGTCTTCCCCAACGGGCCACAAGATTAGATGAATGGTT
AAATCTTGACGATTTTCATCCATTCATCTAATGTGGTGGCGTTCCCACCCATTTCTCCAATATGG
TGGCCCAGAATTCCTGTAGGATCTATTACTTCGTGAACTCATATGATTAAATATTATTATTTGCT
CCAAATTTCCGGATTTAACTCTTACCTCAATCTCCTGATTTATGGATTCAATCTCTCGACTTATG
GATTCAATCCCTCGATTTATGGATTCGTCGTATATGCATATATAATGATTCTAATTTGCTCCCAC
CCAAATTTCCCGATTTATCTATTATTATTTCTGTATACACGAAAT
Found at i:12662 original size:16 final size:16
Alignment explanation
Indices: 12643--12674 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
12633 TCATTTTTTA
*
12643 CATATATCATTACGAG
1 CATATATCATCACGAG
12659 CATATATCATCACGAG
1 CATATATCATCACGAG
12675 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 12143 -- 12642
AAAACAATGTCCACCGTTTACTGTTTCTTCGCAAATATTTGACTCCTTCACTTGGATATACGAAA
ATTATATCAGTCTGTGCGTAGTACTTTTTTTCCCGATTGCCGTTACCATGCTAGACTTCTCGGAT
ATTAACTACTATGTTGCTTTCTCTAATCCCCTCCTTTTTCGCATATCATTTTATTCAATTTATCT
CCCGGGACCGCGATCCAGCTATAAAAGAATGGCTTATTGACAATCAACCAATAAATTTCAATAAA
TACTATCCTATCTATGCCTTTTCAAAGATTTTTGGTACAATCCCGCTTTTATGTAAATACTTATT
GTAAGCTCACGAGGTTTCAGATACATTATCTAAAACCTTGGAGGCAAAAGGGATAAAACCGAGAG
AAGAAAGGGAGCACGTCTGCCGTATAATGGGAATCATTGATGGCGCTTTGAAAGAGGGATATTTG
GGTAGAGTTTTTACATATATCATTTTTTACATATATCATTTTTTA
Right flanking sequence: Indices 12675 -- 13174
TCTCTATTTTGTTCTCCAAATAGCCATAACAATCGAAGGGTCCAAGGTCTGGCCGCCCATCTGAC
CTCAGCAAAGAGACGGAAGTAACACCCGCGCAGGAGTGGCCAATCCAACCGGTTACTGAAGAGGT
CGGTGAAGTCTTCCCCAACGGGCCACAAGATTAGATGAATGGTTAAATCTTGACGATTTTCATCC
ATTCATCTAATGTGGTGGCGTTCCCACCCATTTCTCCAATATGGTGGCCCAGAATTCCTGTAGGA
TCTATTACTTCGTGAACTCATATGATTAAATATTATTATTTGCTCCAAATTTCCGGATTTAACTC
TTACCTCAATCTCCTGATTTATGGATTCAATCTCTCGACTTATGGATTCAATCCCTCGATTTATG
GATTCGTCGTATATGCATATATAATGATTCTAATTTGCTCCCACCCAAATTTCCCGATTTATCTA
TTATTATTTCTGTATACACGAAATGGAAGCCTTATGTTATCCGTG
Found at i:12663 original size:32 final size:32
Alignment explanation
Indices: 12605--12668 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
12595 TTGGGTAGAG
***
12605 TTTTTACATATATCATTTTTTACATATATCAT
1 TTTTTACATATATCATTTACGACATATATCAT
12637 TTTTTACATATATCA-TTACGAGCATATATCAT
1 TTTTTACATATATCATTTACGA-CATATATCAT
12669 CACGAGTCTC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 3 0.11
32 25 0.89
ACGTcount: A:0.33, C:0.14, G:0.03, T:0.50
Consensus pattern (32 bp):
TTTTTACATATATCATTTACGACATATATCAT
Left flanking sequence: Indices 12105 -- 12604
TTTATTGCTCAATCCGGTATAAGGAAACCCCCCGGGAAAAAACAATGTCCACCGTTTACTGTTTC
TTCGCAAATATTTGACTCCTTCACTTGGATATACGAAAATTATATCAGTCTGTGCGTAGTACTTT
TTTTCCCGATTGCCGTTACCATGCTAGACTTCTCGGATATTAACTACTATGTTGCTTTCTCTAAT
CCCCTCCTTTTTCGCATATCATTTTATTCAATTTATCTCCCGGGACCGCGATCCAGCTATAAAAG
AATGGCTTATTGACAATCAACCAATAAATTTCAATAAATACTATCCTATCTATGCCTTTTCAAAG
ATTTTTGGTACAATCCCGCTTTTATGTAAATACTTATTGTAAGCTCACGAGGTTTCAGATACATT
ATCTAAAACCTTGGAGGCAAAAGGGATAAAACCGAGAGAAGAAAGGGAGCACGTCTGCCGTATAA
TGGGAATCATTGATGGCGCTTTGAAAGAGGGATATTTGGGTAGAG
Right flanking sequence: Indices 12669 -- 13168
CACGAGTCTCTATTTTGTTCTCCAAATAGCCATAACAATCGAAGGGTCCAAGGTCTGGCCGCCCA
TCTGACCTCAGCAAAGAGACGGAAGTAACACCCGCGCAGGAGTGGCCAATCCAACCGGTTACTGA
AGAGGTCGGTGAAGTCTTCCCCAACGGGCCACAAGATTAGATGAATGGTTAAATCTTGACGATTT
TCATCCATTCATCTAATGTGGTGGCGTTCCCACCCATTTCTCCAATATGGTGGCCCAGAATTCCT
GTAGGATCTATTACTTCGTGAACTCATATGATTAAATATTATTATTTGCTCCAAATTTCCGGATT
TAACTCTTACCTCAATCTCCTGATTTATGGATTCAATCTCTCGACTTATGGATTCAATCCCTCGA
TTTATGGATTCGTCGTATATGCATATATAATGATTCTAATTTGCTCCCACCCAAATTTCCCGATT
TATCTATTATTATTTCTGTATACACGAAATGGAAGCCTTATGTTA
Found at i:13031 original size:21 final size:22
Alignment explanation
Indices: 13005--13069 Score: 100
Period size: 21 Copynumber: 3.1 Consensus size: 22
12995 AACTCTTACC
13005 TCAATCTCCT-GATTTATGGAT
1 TCAATCTCCTCGATTTATGGAT
*
13026 TCAATCT-CTCGACTTATGGAT
1 TCAATCTCCTCGATTTATGGAT
13047 TCAATC-CCTCGATTTATGGAT
1 TCAATCTCCTCGATTTATGGAT
13068 TC
1 TC
13070 GTCGTATATG
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
20 2 0.05
21 38 0.95
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.40
Consensus pattern (22 bp):
TCAATCTCCTCGATTTATGGAT
Left flanking sequence: Indices 12505 -- 13004
TTGGAGGCAAAAGGGATAAAACCGAGAGAAGAAAGGGAGCACGTCTGCCGTATAATGGGAATCAT
TGATGGCGCTTTGAAAGAGGGATATTTGGGTAGAGTTTTTACATATATCATTTTTTACATATATC
ATTTTTTACATATATCATTACGAGCATATATCATCACGAGTCTCTATTTTGTTCTCCAAATAGCC
ATAACAATCGAAGGGTCCAAGGTCTGGCCGCCCATCTGACCTCAGCAAAGAGACGGAAGTAACAC
CCGCGCAGGAGTGGCCAATCCAACCGGTTACTGAAGAGGTCGGTGAAGTCTTCCCCAACGGGCCA
CAAGATTAGATGAATGGTTAAATCTTGACGATTTTCATCCATTCATCTAATGTGGTGGCGTTCCC
ACCCATTTCTCCAATATGGTGGCCCAGAATTCCTGTAGGATCTATTACTTCGTGAACTCATATGA
TTAAATATTATTATTTGCTCCAAATTTCCGGATTTAACTCTTACC
Right flanking sequence: Indices 13070 -- 13569
GTCGTATATGCATATATAATGATTCTAATTTGCTCCCACCCAAATTTCCCGATTTATCTATTATT
ATTTCTGTATACACGAAATGGAAGCCTTATGTTATCCGTGCTCCATTACGTTTTCCTCTTCCATC
ATCTCTCTACCCGGCTCGGTCTTCCGTTTCATATTATTTTTTTCCCAAATAGCATCTCATATGCG
TTTGTGCCGACGCTGTTGCGAAAATATTTTATTTGCCATGGATCTGGTTCTTTATTGGACGATTT
CATCGACTCGATATAATTGGCTGCATCCACCTTGTTCTTATCTCAATGGTTTGCCCCTGGTCGAG
TCCTCCATCGAATAATACAACGCTTAAATCCGGTAGACATTCGCGGCTGCTGGATGATCGCTGAT
GTGAGCTGTCGCATAACCCCGATCTACGGAGTGTTCCACAAATTGCTTTGTCATTACCTCGAAGG
AACCGCAAAGGCTATAATTAAGTTTAGAACGTATCAACTGCAAAC
Found at i:16528 original size:4 final size:4
Alignment explanation
Indices: 16508--16555 Score: 69
Period size: 4 Copynumber: 12.0 Consensus size: 4
16498 TGAAGCATAA
* * *
16508 ATAT CTAT ATCT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAG ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
16556 TTTATATTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (4 bp):
ATAT
Left flanking sequence: Indices 16008 -- 16507
CCTTTTAGGCCATAGGGTTCGGGTTAAGGCCTGCAGGGGGGGCTCGGGTAGACCCGAAGGTGCGT
AAGCACTTTTTTTTTCGTCAAAAGGATAAAAAATTTTTTTATTTCGTTCTCCATCCCCCCCCAAC
GAAAATAGCAAGAAAATTTCACCGAGAGCTAGTCTTTGATTGATTGCTAATCGAAAAACAATCGC
TTGATGGTTGATTACTAGCGCGTTATACTGACCGTACGAGACTGGACTGCGGGACTGCGATCAAG
ATGTTGACCGACACAGTACTTGGCGGGAAACTGTAACGGAAAAAAAATATATAGATTTTTCTGCC
CGTAGGGCGTAGCACTCTGAGGTAGGTTTTATTTAAGTGAGATCTAGGGACGTTAAGGGGGGGGG
GTCGAAAAAGGGCAGTTTTCTGGCACGAACGGCTAATAACGCGATACGCTAGTCATGTGGCTATT
TACGATGCTTTATACCGCAGCTTAAGCTAATAGGATGAAGCATAA
Right flanking sequence: Indices 16556 -- 17055
TTTATATTTATCCCGCAGCGATCAAGCGTATACGACACGTAGTGCTTAAGAATAGCCAACTAGTG
CTTGTAGCTCAATTGGATAGAGCACCAAACTACGGATTTGGGGGTTGAGAGTTCGAATCTTTCCA
AGCATGGACCTATCTATCCATCGGATTGGACTAAGAGAATACGTCATATAAGTAGAGGATACGTC
AGATAAGTAGAGAATAACTAGTTCCAAGCAGACGTTCTCTAGCTCTGCCGCTGCGGGAAAGGCTG
CGGGAAATAAGAAATAAAAAATATATATACCTACGTCCCCCGACCAATGGCTTAAGCACACTGTG
CTCTTGTATTGTCCGACTATTATGGACTCGTGGCGCCGAGAGAAAGATGGGGTTCCAAATCGTAA
ATGGTCCCTGGGAGTGGTGTAAACTATCGCCAGTTTGGTAATTTTCCCATACATGTGGTGGACTG
CTCGCCGCAGGTACCACTAGAGCCTGGTGGCTTTACCCCAAAATT
Found at i:16566 original size:6 final size:6
Alignment explanation
Indices: 16508--16555 Score: 69
Period size: 6 Copynumber: 8.0 Consensus size: 6
16498 TGAAGCATAA
* * *
16508 ATATCT ATATCT ATATAT ATATAT ATATAT ATATAT ATATAT AGATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
16556 TTTATATTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (6 bp):
ATATAT
Left flanking sequence: Indices 16008 -- 16507
CCTTTTAGGCCATAGGGTTCGGGTTAAGGCCTGCAGGGGGGGCTCGGGTAGACCCGAAGGTGCGT
AAGCACTTTTTTTTTCGTCAAAAGGATAAAAAATTTTTTTATTTCGTTCTCCATCCCCCCCCAAC
GAAAATAGCAAGAAAATTTCACCGAGAGCTAGTCTTTGATTGATTGCTAATCGAAAAACAATCGC
TTGATGGTTGATTACTAGCGCGTTATACTGACCGTACGAGACTGGACTGCGGGACTGCGATCAAG
ATGTTGACCGACACAGTACTTGGCGGGAAACTGTAACGGAAAAAAAATATATAGATTTTTCTGCC
CGTAGGGCGTAGCACTCTGAGGTAGGTTTTATTTAAGTGAGATCTAGGGACGTTAAGGGGGGGGG
GTCGAAAAAGGGCAGTTTTCTGGCACGAACGGCTAATAACGCGATACGCTAGTCATGTGGCTATT
TACGATGCTTTATACCGCAGCTTAAGCTAATAGGATGAAGCATAA
Right flanking sequence: Indices 16556 -- 17055
TTTATATTTATCCCGCAGCGATCAAGCGTATACGACACGTAGTGCTTAAGAATAGCCAACTAGTG
CTTGTAGCTCAATTGGATAGAGCACCAAACTACGGATTTGGGGGTTGAGAGTTCGAATCTTTCCA
AGCATGGACCTATCTATCCATCGGATTGGACTAAGAGAATACGTCATATAAGTAGAGGATACGTC
AGATAAGTAGAGAATAACTAGTTCCAAGCAGACGTTCTCTAGCTCTGCCGCTGCGGGAAAGGCTG
CGGGAAATAAGAAATAAAAAATATATATACCTACGTCCCCCGACCAATGGCTTAAGCACACTGTG
CTCTTGTATTGTCCGACTATTATGGACTCGTGGCGCCGAGAGAAAGATGGGGTTCCAAATCGTAA
ATGGTCCCTGGGAGTGGTGTAAACTATCGCCAGTTTGGTAATTTTCCCATACATGTGGTGGACTG
CTCGCCGCAGGTACCACTAGAGCCTGGTGGCTTTACCCCAAAATT
Found at i:16747 original size:20 final size:20
Alignment explanation
Indices: 16719--16766 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
16709 GATTGGACTA
*
16719 AGAGAATACGTCATATAAGT
1 AGAGAATACGTCAGATAAGT
*
16739 AGAGGATACGTCAGATAAGT
1 AGAGAATACGTCAGATAAGT
16759 AGAGAATA
1 AGAGAATA
16767 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 16219 -- 16718
AGCGCGTTATACTGACCGTACGAGACTGGACTGCGGGACTGCGATCAAGATGTTGACCGACACAG
TACTTGGCGGGAAACTGTAACGGAAAAAAAATATATAGATTTTTCTGCCCGTAGGGCGTAGCACT
CTGAGGTAGGTTTTATTTAAGTGAGATCTAGGGACGTTAAGGGGGGGGGGTCGAAAAAGGGCAGT
TTTCTGGCACGAACGGCTAATAACGCGATACGCTAGTCATGTGGCTATTTACGATGCTTTATACC
GCAGCTTAAGCTAATAGGATGAAGCATAAATATCTATATCTATATATATATATATATATATATAT
ATATATAGATATTTTATATTTATCCCGCAGCGATCAAGCGTATACGACACGTAGTGCTTAAGAAT
AGCCAACTAGTGCTTGTAGCTCAATTGGATAGAGCACCAAACTACGGATTTGGGGGTTGAGAGTT
CGAATCTTTCCAAGCATGGACCTATCTATCCATCGGATTGGACTA
Right flanking sequence: Indices 16767 -- 17266
ACTAGTTCCAAGCAGACGTTCTCTAGCTCTGCCGCTGCGGGAAAGGCTGCGGGAAATAAGAAATA
AAAAATATATATACCTACGTCCCCCGACCAATGGCTTAAGCACACTGTGCTCTTGTATTGTCCGA
CTATTATGGACTCGTGGCGCCGAGAGAAAGATGGGGTTCCAAATCGTAAATGGTCCCTGGGAGTG
GTGTAAACTATCGCCAGTTTGGTAATTTTCCCATACATGTGGTGGACTGCTCGCCGCAGGTACCA
CTAGAGCCTGGTGGCTTTACCCCAAAATTCGGTATAGGACTAGATATGAGTATTAAATTACTCGG
CCTCCCCCAGTCTCTGGCTCCGGGAGAGGGGGGCCGAGATCCAAGGCCTGACTGGTACGCCGTGA
GGCGGACGGAGGGAAGAGCCATCAGACCCTGTGCCAAGTCATGTATATATATCTCAATTTATGGC
GGAAGTAGCTTAATGGTAGAGTATAGCCTTGCCAAGGCTAAGGTT
Found at i:35724 original size:21 final size:21
Alignment explanation
Indices: 35698--35743 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
35688 AAATGATAAG
35698 AAGTATGAGCTGGATAAGGAA
1 AAGTATGAGCTGGATAAGGAA
35719 AAGTATGAGCTGGATAAGGAA
1 AAGTATGAGCTGGATAAGGAA
35740 AAGT
1 AAGT
35744 TCGAGTACGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.43, C:0.04, G:0.33, T:0.20
Consensus pattern (21 bp):
AAGTATGAGCTGGATAAGGAA
Left flanking sequence: Indices 35198 -- 35697
AAGTGTTTTAGCAGAAATAGTAACTATGTTTATAACAATCTACTATCGATTAAGACGCGATTTTT
TTTTGTTTCGAACCACCAAAAATTAACATAAAATAATAACGTGGGATTTTATATTGAGTCAGCTA
CGGGGTGCTATTCAGCAACAGTCGGCCGGCTACAAGGATAATATTGAAGAGTTTATAGGCCTTTT
TTTGTAAATAAACTATCGAATAAATCCTCCTAAGTCAGTGACCTTCCCGTTTTTTACAAGGCCTT
ATTATGCTCCAGTTGCAAGAGAAGCACCCGGTGATGGTGGATCTGCCGCCGCTGGGGCCGGCGGG
GAATCCGTGGCGGGACAATGAGCAACTGATTGGGTCTATTAAAATTCTGGGGCGTCTATTACTGT
CATTATAGCCGGGGTTTGTCGGTTATAAAATATATGGCAATGAGCGTGGAAACGCTCGAAAAGAC
CAAGCCCTGGAGCAGAAAGATGAAGAGCTCGCCTAAAATGATAAG
Right flanking sequence: Indices 35744 -- 36243
TCGAGTACGATTTGTTTTTCGCCGCTTTAGGCTGTGGGGCCTACCTACTAGCCCTGATAGGAGTA
GTTACTAGCGTTATCAGTTGTTTTTATTATATACGCTTTGTGAAAATAATGTATTTTGATACACC
CGAAACATGGATTTTATATAAACCCATGGATCGTGAAAAATCGTTACTACTAGCAATCACTGTCT
TTCTTATTACTTTTTTTTTCCCATATCCCTCTCCCTTGTTTCTAGTTACTCACCAAATGGCACTT
TGCCTATGTTTATGAGCTTAATGATTTATAGGGGGGGGGGGGGGGGGGGGGGTTTTGTAAAGTAT
CTCATTTTTTAGTTATAATCGTAACCGCGCCCCCTCCGCAACGACGCTTCCTTTCCGGAATTAGG
GATGGGATAAACAAGCGCTCAGCGCCTCGGGTTTACGCATTCGTTGTTAAATCAGGAGAAAAGGG
ATTCGAACCCTTAACCTTTGGTTTTGGAGACCATTGTTCTACCAT
Found at i:37792 original size:2 final size:2
Alignment explanation
Indices: 37787--37846 Score: 79
Period size: 2 Copynumber: 31.0 Consensus size: 2
37777 CCGAGAAAAA
* *
37787 AT AT AT AA AT AT AT AT AT AT AA AT AT AT AT AT AT 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
*
37829 GT -T A- AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
37847 GCTGCGCCCG
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
1 2 0.04
2 49 0.96
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Left flanking sequence: Indices 37287 -- 37786
ACGGTACGCTATGGGGTTTGCTCCCTGTTAAGCCTTTGGATCTCTAGCTATGAGAAGAAGCGAAC
AGTCGTACAAAGCGGCTTGAAAGTCCTCTAGCTTCTCTATCAAGCTATCGGGTACGGCGCAGCAC
AAAACAGTTTTAATTCACTCGGTCCACCTGCCCTGGCTCCCCCTGCGAAACTTCCCAAGGATGCT
CGAACTCTGCAAGGCGATAAGTATAAACTCTGGAATCGCTAAAAAAGCAGAGCAGCCCGACAAAT
ACGAGATCATTCTATGCCCTGCCTCGCGTGGCTCCGGCTGTTCAGCACTACAAAAAATAAAAAAG
GCTCCCCGCTGCGCATCGACGGACAGCGCGGAATGGAATCATGCTTTTGATACGATGAAGAAACG
TATTCCGTTTATTCGGAGATACCACCTGCCGGAGGCCCATAAGGAAGACCTAGAGGAGATCATTG
AGGAAGACCTAGACGAGATCCTTGGTTTTCGAGAACCGAGAAAAA
Right flanking sequence: Indices 37847 -- 38346
GCTGCGCCCGTAGTGAAAAGGGGCCCAAAGTAAGTAGAGTTAGTGAGCCGTGTAATGGGCAACTA
TTTCGCACGGTTCGGAGGGCACTTCAGTAAGCCCTACATGGGCCGAAGTCTTGACCCCTATTCCT
TTTGATGATGCCAGAAGTCGTTTCGATATACGATTTTATCTTGTTCCTATCTTATTCATTATATC
CGATTCGGAAGTCACCTTTTTATTTCCCTGGGCGGTTTCTCTTAACAAGATTGGTTCGTTTGGAT
TCTGGTCTATGATGGTATTTCTACTTATTTCGACGATTGGATTTGTATATGAATGGAAAAAGGGC
GCTTTAGATTGGGAGTAACTCTTCATTCGCGAAAGCGAATGGAGTGGAAAGAAAAAATATAGCCC
CGTAGGGCTGAAGCTCTCATCGCTCTCTTTCTCTTTCTCCCTCTCCGGACACTTTTTTGGTCCAA
AGGACACGATACCTGCCGGGTATCGTGTGCGGGTTCCAGCCAAAA
Found at i:49771 original size:53 final size:53
Alignment explanation
Indices: 49687--49789 Score: 143
Period size: 53 Copynumber: 1.9 Consensus size: 53
49677 TCCCAAGGGT
* * *
49687 GGAAGGCCGGAAATGGCTTGACGATTTCCGCACACGATACTGGGAAGAAGAAC
1 GGAAGGCCGGAAATGGCTGGACGAGTCCCGCACACGATACTGGGAAGAAGAAC
** * *
49740 GGAAGGCCGGAAATGGCTGGTGGAGTCCCGCACACGATATTGGGGAGAAG
1 GGAAGGCCGGAAATGGCTGGACGAGTCCCGCACACGATACTGGGAAGAAG
49790 GACACGAGAC
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
53 43 1.00
ACGTcount: A:0.29, C:0.19, G:0.37, T:0.15
Consensus pattern (53 bp):
GGAAGGCCGGAAATGGCTGGACGAGTCCCGCACACGATACTGGGAAGAAGAAC
Left flanking sequence: Indices 49187 -- 49686
TTCGTCTATCGGCATTGTAGAAAGAATCGAATATGACCCAAATCGTTCGTCCCGGATTGCTTTAG
TACGATGGATCGAAGGGGTTCTACGCCCTGGAAAGCACCCGGCTAGAGCGAATGGTCGAAAAGAA
AAAAATATCTTCTTTTTCGGTCTCTTATTCTCGTTCTCTTCGCTGCCTGGACAAGCTCGGCGAAT
AAAATACGAAGAAACGAGGCCCAGAGGCGGGCAGATACTGGAAAGTTCTTGGGTCTTAAGGCCAC
GGGACCTTGGGGCCAAAAAAGTGGCCTTAAGACCTTTGGGTCTTGGTTTACCCAGCGTAGCGGTA
GCTGGGGCAAAGCCCGCTTTTTTCGCTTTTCGAGGACCTTCCTACCTAACGGGAAGAGAGCGCCT
GTCAGCCCTGAGGGAAGAAAATACGTTCTCTCGAAGCGAAGGCCAAAGATGGAGAACGCATAGCG
GGGCGCCGAGAATAAAAAGCCTAGTACTTCCTTGGTCCCAAGGGT
Right flanking sequence: Indices 49790 -- 50289
GACACGAGACCCAAGGGACAGGCACGTAGTGCTAGACCCTTCTTTCTACAAGCCCGAACATGCTC
TCCGCGCACTCCGTGCCGTCGGGCCTTCGGGTTCGGGTCGAGTGCTACGCACCTCCGAGCCTTTC
ACTTATATATTAGCCAGTGAAAAATTGGAAGCAGGCAAGACGGTGATGAATTTTCATTGGTCTAA
ACTTTCGACCCCGTTGAACTACCATCAATCTTCCCAGAAAGCTAATGACCCTTCGGGCCTTGGGG
TGGAGACCGCGCGAGATAGCCAAGCTTGGCTACACGGAGACTACGCTTCTGGTGAGAATAAATAC
ATACTTGATTCATATTATCAAATGGTCGGAAATTGCATACCATTAGCCAAAATACCTATAGGCAC
GTGGGTACATAATATTGAAAGGAACCCAGGTCAAGGCGCAAAGTTTACTCGAGCCGCGGGAACCT
TTGCTCAAATAATTAAGAAAGTTGGTAATACACCACAATGTATTG
Found at i:52672 original size:27 final size:27
Alignment explanation
Indices: 52628--52689 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
52618 AGTGGCATTC
* * *
52628 CGCACGCTCTCTCTCTGGTCGAGTGCTA
1 CGCAC-CTTTCTCCCTGGTCGAGTCCTA
*
52656 TGCACCTTTCTCCCTGGTCGAGTCCTA
1 CGCACCTTTCTCCCTGGTCGAGTCCTA
52683 CGCACCT
1 CGCACCT
52690 ACAATAAAGA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 25 0.86
28 4 0.14
ACGTcount: A:0.11, C:0.39, G:0.21, T:0.29
Consensus pattern (27 bp):
CGCACCTTTCTCCCTGGTCGAGTCCTA
Left flanking sequence: Indices 52128 -- 52627
AAAACGTACAAAATTTCGTAAATATCGAAAAGGCAGATGTAAAGGTTGCAAAGCGGACGGTACAG
AACTTTGTTTTGGAAAATACGGCATTAAAAGTTGTGAAGCTGGCCGTATTTCGTATCAAGCGATT
GAAGCAGCGCGTCGTGCTATAAGCAGAAAATTTCGAAGAAATTCTAAAATATGGGTAAGAGTTTT
CGCAGATATTCCTATTACCAGTAAACCGGCAGAAGTGCGAATGGGAAAGGGGAAGGGAAATACTA
AAGGTTGGATTGCTCGTGTGTTGAAGGGACAAATCTTATTTGAAATGGATTGCGTCGGTCTGTCA
AATGCTCAACAAGCTGCTACATTGGCCGCGCATAAACTGGGTTTGTCGATAAAGTTTTTTAAGTG
GTCATGAGAAAGGGAAAAAGATATGGCAAAAAGTCAAAATTAGCTTGTAACCTTCGTTACGTTAG
TTAGCTCTATCGGAGAAGTCCGCTCTCAAGACAAAAGTGGCATTC
Right flanking sequence: Indices 52690 -- 53189
ACAATAAAGATTTCTTTTATGTTCCGATCATCCCTATGTATATGCTCAATGGCGCTTCGCGCCTT
TACTTATTTCATTACTTCGTTCCAGTGTTACCACTCTCATGTTGGCTCGTATTCTGTCAGACAGT
CGCGGGCTCTTGTTGGACAGTATCTTGGTTTTGTGGTGTCCGACGAACCAAAGTCCGGCCCCTTT
TTCCCACAGATTAATACGATTCGATATTGCAAGGTTCGACATCGACCCCGATAGTAGGAGTGGAC
CTTGGTATGTATGTATGTTCACGGGGGTCGCTCATATCTCGGGTAAAGCGGTGCCGCCGACCGGG
AAACCCTTGGTAATTGGGGAGGAATCCGCCAAATCGTGGGGGGGCACTGAGCGAGCAAAATTTAT
TGCAGCTAGTAATGAGACGAAAGCAAGAGCTGCCGAGGCCAAAGCTATTCCGGCCATGTATGAAT
ACAAAACAGAATGACTTGATGAAGCGGTTCTTCGCACAACTCGAA
Found at i:58048 original size:27 final size:27
Alignment explanation
Indices: 58018--58073 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
58008 ATGAACACTC
* *
58018 ATGCAAGAAAAGCACGGTATTACTAAT
1 ATGCAAAAAAAACACGGTATTACTAAT
* *
58045 ATGCAAAAAAAACACTGTATTACTTAT
1 ATGCAAAAAAAACACGGTATTACTAAT
58072 AT
1 AT
58074 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 57518 -- 58017
ACAATATCGGAACGAGATTATACATAAAAAACAAGGGAAAAAAAAATAAATCATGTCATATATTT
TGGGGACCAATCTAAATTCCAATAAACAGGTGAAAATTGCCTTAACTCGAATCTTCGGAATTGGG
CCTAAAAAGGCAATTCAAGTTTGTGATCGATTAGGCCTCAGCGATAACATTAAGGTTAATAAGTT
AACCAAGTATCAATTTGACCAAATTCTAGAAATAATAAGTCAAAATTATTTAGTCGATTCGGAAT
TGGAGAGAGTCATTCAGAGAGACATCAAACGATTAATTAGTATTGGTTGTTATCGCGGGTTTCGC
CATAATGCAGGATTGCCCTTACGCGGCCAACGGACTCATACTAATGCTAAGACTTCTCGCAAATT
TAGAGACATTTCGATCAGAAGTTGAGAAAAGTTTTTTTCGTTTTTTCGTGAATGGGAAAAAAACG
GAATCGATAATATTGAGCAACACCAAAAACATTCAATGAACACTC
Right flanking sequence: Indices 58074 -- 58573
TCAATCAACTTTTGGTAATACAATCATTACTTTAACGGATTATGACGGAAATACAAAAACTTGGT
CCTCCTCGGGTTCAGTGGGGTTTAAGGGATCTCGTCGCTCAACCAATTATGCTGCTCAAGCAACT
GCAGAAAATGCCGCGCGAGCTGCCATTCAACTTGGATTTAAGTTTGTTGAAGTGAGAATCAAAGG
ATTGGGTTATGGAAAGGAATCTTCGTTGCGTGGTTTAAAACTAGGAGGTCTTATTATTACCAAAA
TTCGCGATGTAACCCCAACGCCACATAATGGATGCCGACCCCCTAAAAAACGTCGTGTTTAAATA
TCATCATAAAGTGCTGTGTCATCATAGAATGGTGAATAGGGGTTCAAGAGTAGAAAAAAATTTTT
TAGGGTCCGGGGGAGACTTCTTTGGCTTCACGGGGCTTAGCCCTTCCTTCGTAAAGGCGAAGAAG
GAGATCTACAAGCCATGTCTGGCCTTCGGCGGCCCTTCGGACCCA
Found at i:79566 original size:15 final size:15
Alignment explanation
Indices: 79546--79574 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
79536 CTTGTTTCTC
79546 TGATAGCATATGCCG
1 TGATAGCATATGCCG
79561 TGATAGCATATGCC
1 TGATAGCATATGCC
79575 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 79046 -- 79545
TTCTCTGTATATAGACGATTTACGTCGCTACGCGCATTTCATTCCTTGCGCTACGTGCCTGCTGC
GCTACGCGCCTTAGCCGCCGGCCTAAGGCATGTAGCCTTAGGAGGAGGCTGCCCCTGAATGAATG
GTTAAGTTTTACAAGCCCTCCTGCACTTTAATAAAATTTTCAGTAAGCTCGCCAGAAGTTCATAT
TTCCATTTGAAATGGAAGCCGAAAAATAAAGGGAGTTTACTATATGAATTTGTACTTTTTCACCC
GGTTACTCATTCCGGTTATATCGCCCAAGCAAATCCCCCGGCCCATCGCTATTTCATAGCCCGGT
CACGGCAAGCATGGTTTTATATTCAATAGATCGCTGGGTAAACAAACAAACATCGATTCCGCCTT
TTTGTCCCTTCGCAAAACCAGATTCGTCCAATACTATTTGTATTATCATCGCCTTCGGCTGTAGG
AATGGTTACGGCACAACTATTACGGGAGATTTATACTTGTTTCTC
Right flanking sequence: Indices 79575 -- 80074
ATTACGTCTTTATTTGTTGAACCCGGGGAACGAAATGGAGTTATTCATATATATAGCATCAGTTT
ACTATATAAGACTCAGGTATAGAATTATAAGACTCAGGTATAGAATTATAAGACTCAGGTATAGA
ATTATAAGACTCAGGTATAGAATTATAAGACTCAGGTATAAAATTCTGAATGATAATCAACTCCA
ATTTTATAGAGCTTATAAGGATTCTTGGGGCGCAGGCGGTTTGAACGATGCCAACGGCACCCTTT
AAAATCGTTCGGATTTAAATGGCAAGCGGATACCCAAACGTAACATGGGGAGGAACTGTGGGCTA
GCAAACGCAGCGCCCCAACATGCCCCGGAAACATTGCCAGTCGCTACGGGTACGGGCGGACTAGC
CACAGTTGTGGCTGTAGGAGCGTCGGTCGTCGGCATTGCAATCACTAGGACGATCGCGGACTCGA
ACGGATAAATTCAGAAGTCAAAAATGGTGGCGCTGAAGGAAAACA
Found at i:79669 original size:21 final size:21
Alignment explanation
Indices: 79644--79749 Score: 203
Period size: 21 Copynumber: 5.0 Consensus size: 21
79634 CAGTTTACTA
79644 TATAAGACTCAGGTATAGAAT
1 TATAAGACTCAGGTATAGAAT
79665 TATAAGACTCAGGTATAGAAT
1 TATAAGACTCAGGTATAGAAT
79686 TATAAGACTCAGGTATAGAAT
1 TATAAGACTCAGGTATAGAAT
79707 TATAAGACTCAGGTATAGAAT
1 TATAAGACTCAGGTATAGAAT
*
79728 TATAAGACTCAGGTATAAAAT
1 TATAAGACTCAGGTATAGAAT
79749 T
1 T
79750 CTGAATGATA
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
21 84 1.00
ACGTcount: A:0.43, C:0.09, G:0.18, T:0.29
Consensus pattern (21 bp):
TATAAGACTCAGGTATAGAAT
Left flanking sequence: Indices 79144 -- 79643
AGCCTTAGGAGGAGGCTGCCCCTGAATGAATGGTTAAGTTTTACAAGCCCTCCTGCACTTTAATA
AAATTTTCAGTAAGCTCGCCAGAAGTTCATATTTCCATTTGAAATGGAAGCCGAAAAATAAAGGG
AGTTTACTATATGAATTTGTACTTTTTCACCCGGTTACTCATTCCGGTTATATCGCCCAAGCAAA
TCCCCCGGCCCATCGCTATTTCATAGCCCGGTCACGGCAAGCATGGTTTTATATTCAATAGATCG
CTGGGTAAACAAACAAACATCGATTCCGCCTTTTTGTCCCTTCGCAAAACCAGATTCGTCCAATA
CTATTTGTATTATCATCGCCTTCGGCTGTAGGAATGGTTACGGCACAACTATTACGGGAGATTTA
TACTTGTTTCTCTGATAGCATATGCCGTGATAGCATATGCCATTACGTCTTTATTTGTTGAACCC
GGGGAACGAAATGGAGTTATTCATATATATAGCATCAGTTTACTA
Right flanking sequence: Indices 79750 -- 80249
CTGAATGATAATCAACTCCAATTTTATAGAGCTTATAAGGATTCTTGGGGCGCAGGCGGTTTGAA
CGATGCCAACGGCACCCTTTAAAATCGTTCGGATTTAAATGGCAAGCGGATACCCAAACGTAACA
TGGGGAGGAACTGTGGGCTAGCAAACGCAGCGCCCCAACATGCCCCGGAAACATTGCCAGTCGCT
ACGGGTACGGGCGGACTAGCCACAGTTGTGGCTGTAGGAGCGTCGGTCGTCGGCATTGCAATCAC
TAGGACGATCGCGGACTCGAACGGATAAATTCAGAAGTCAAAAATGGTGGCGCTGAAGGAAAACA
GAATTTGGCTAATATGGCGTGGCATTGGAGCTTAGAATGAACCCGCCCGAGCACACGGCGGGGAC
AAGTTATCATAATTTGCTTGAAGACACACGGGCAGAGTTGGATATTGCACGCGCAGCACGTAACG
GAGCTAGGGCAAACTGGCAGAGCTTCATCGTATCGCACTTGCAGA
Found at i:81389 original size:6 final size:6
Alignment explanation
Indices: 81373--81460 Score: 104
Period size: 6 Copynumber: 14.7 Consensus size: 6
81363 ATGAGCTGCA
* * * * * *
81373 ATATAT CTATAG ATATAT CTATAT ATATAT ATAGAT ATATCT ATAGAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* *
81421 ATATAT CTATAT ATATAT ATAGAT ATATAT ATATAT ATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATAT
81461 GATTTATAGG
Statistics
Matches: 66, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 66 1.00
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (6 bp):
ATATAT
Left flanking sequence: Indices 80873 -- 81372
CGAAATCCACCCGCTAACATGAAGGAAGCATTGCTAAATGACTAAATTTCGCTAATATGACTAAA
TCCCGAGGATTTGTAGATAAATATATCTAATAAATACTCCGGAATCCCCATTGCTAATGACACCT
TCGCTAAATAACGCATATTTAGCTAATATAACTGAACGGGGATCCGTACGGAGAGGAATACCCCT
TAATATGGAATTGAGGGGTCGGTAAAGGAATATATAATAGGAATCTATATGGGATATGGAAGAAT
TCCATATAATAGGGAAGAGTTAATCAATTGAATTGGAATAAATAGAATGGATTGGGAAATGAAAT
AAATTCAAATATATATATACATATATATTTGTGCGTAACGGAGAAAATGCATAAATCGAAAAGAT
TCTATTATTTATGGGAGAAACTATTAAATTCATATTTATTCTTTCTCTGCCCATCTTCCAAAAGA
AAATGAGCTACTATTTTTCTTATTCGAGAGAGACGATGAGCTGCA
Right flanking sequence: Indices 81461 -- 81960
GATTTATAGGTCAGGGTAGGAGATAGCCTTGACCTCTAACCTTCGAAGATACTAAGGGCCTGAAT
CTTCCCCGGGTCGGGTTACCACGTTCTTGAGATCTGTTATATAGGCCTCTAGTTTTCCGTTGGGA
AGGTCCAGGGACTTCCATCGTGAAAGTGACATAGGAACTCCGGGCGGGGATCATGGCACTTCTCC
TAGAACCTTAGGGACGCTTTCGCTGAGAGCCCGAACATATTTTTTTGGTCATGCGGTACGTAGGG
CCTGTAGGTCCCGTAACCATCTCGTCCTTATAGAGTTCGTAAACGGTGTCCGCTATATTCCGAAG
ATAAAGAATTATATCTGGTTGTTGGTCGCGGGGCGGGAGACTTGGTTTTGTGCGAGGGACGGCCA
CCACAAAACCGAAAAACTGTCCGACAAAACAAAGGGCACTTACGACCAACTATGCCTCGGAATAC
CCTTCAGTAACCTCTGGCTAATTATATAAATCTCCAAAACCTTTG
Found at i:81398 original size:8 final size:8
Alignment explanation
Indices: 81373--81460 Score: 104
Period size: 8 Copynumber: 11.0 Consensus size: 8
81363 ATGAGCTGCA
*
81373 ATATATCT
1 ATATATAT
*
81381 ATAGATAT
1 ATATATAT
*
81389 ATCTATAT
1 ATATATAT
81397 ATATATAT
1 ATATATAT
*
81405 AGATATAT
1 ATATATAT
* *
81413 CTATAGAT
1 ATATATAT
*
81421 ATATATCT
1 ATATATAT
81429 ATATATAT
1 ATATATAT
*
81437 ATATAGAT
1 ATATATAT
81445 ATATATAT
1 ATATATAT
81453 ATATATAT
1 ATATATAT
81461 GATTTATAGG
Statistics
Matches: 65, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
8 65 1.00
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (8 bp):
ATATATAT
Left flanking sequence: Indices 80873 -- 81372
CGAAATCCACCCGCTAACATGAAGGAAGCATTGCTAAATGACTAAATTTCGCTAATATGACTAAA
TCCCGAGGATTTGTAGATAAATATATCTAATAAATACTCCGGAATCCCCATTGCTAATGACACCT
TCGCTAAATAACGCATATTTAGCTAATATAACTGAACGGGGATCCGTACGGAGAGGAATACCCCT
TAATATGGAATTGAGGGGTCGGTAAAGGAATATATAATAGGAATCTATATGGGATATGGAAGAAT
TCCATATAATAGGGAAGAGTTAATCAATTGAATTGGAATAAATAGAATGGATTGGGAAATGAAAT
AAATTCAAATATATATATACATATATATTTGTGCGTAACGGAGAAAATGCATAAATCGAAAAGAT
TCTATTATTTATGGGAGAAACTATTAAATTCATATTTATTCTTTCTCTGCCCATCTTCCAAAAGA
AAATGAGCTACTATTTTTCTTATTCGAGAGAGACGATGAGCTGCA
Right flanking sequence: Indices 81461 -- 81960
GATTTATAGGTCAGGGTAGGAGATAGCCTTGACCTCTAACCTTCGAAGATACTAAGGGCCTGAAT
CTTCCCCGGGTCGGGTTACCACGTTCTTGAGATCTGTTATATAGGCCTCTAGTTTTCCGTTGGGA
AGGTCCAGGGACTTCCATCGTGAAAGTGACATAGGAACTCCGGGCGGGGATCATGGCACTTCTCC
TAGAACCTTAGGGACGCTTTCGCTGAGAGCCCGAACATATTTTTTTGGTCATGCGGTACGTAGGG
CCTGTAGGTCCCGTAACCATCTCGTCCTTATAGAGTTCGTAAACGGTGTCCGCTATATTCCGAAG
ATAAAGAATTATATCTGGTTGTTGGTCGCGGGGCGGGAGACTTGGTTTTGTGCGAGGGACGGCCA
CCACAAAACCGAAAAACTGTCCGACAAAACAAAGGGCACTTACGACCAACTATGCCTCGGAATAC
CCTTCAGTAACCTCTGGCTAATTATATAAATCTCCAAAACCTTTG
Found at i:81400 original size:22 final size:22
Alignment explanation
Indices: 81373--81456 Score: 105
Period size: 22 Copynumber: 3.8 Consensus size: 22
81363 ATGAGCTGCA
*
81373 ATATATCTATAGATATATCTAT
1 ATATATATATAGATATATCTAT
81395 ATATATATATAGATATATCTAT
1 ATATATATATAGATATATCTAT
* ** *
81417 AGATATATATCTATATATATAT
1 ATATATATATAGATATATCTAT
* *
81439 ATAGATATATATATATAT
1 ATATATATATAGATATAT
81457 ATATGATTTA
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 54 1.00
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (22 bp):
ATATATATATAGATATATCTAT
Left flanking sequence: Indices 80873 -- 81372
CGAAATCCACCCGCTAACATGAAGGAAGCATTGCTAAATGACTAAATTTCGCTAATATGACTAAA
TCCCGAGGATTTGTAGATAAATATATCTAATAAATACTCCGGAATCCCCATTGCTAATGACACCT
TCGCTAAATAACGCATATTTAGCTAATATAACTGAACGGGGATCCGTACGGAGAGGAATACCCCT
TAATATGGAATTGAGGGGTCGGTAAAGGAATATATAATAGGAATCTATATGGGATATGGAAGAAT
TCCATATAATAGGGAAGAGTTAATCAATTGAATTGGAATAAATAGAATGGATTGGGAAATGAAAT
AAATTCAAATATATATATACATATATATTTGTGCGTAACGGAGAAAATGCATAAATCGAAAAGAT
TCTATTATTTATGGGAGAAACTATTAAATTCATATTTATTCTTTCTCTGCCCATCTTCCAAAAGA
AAATGAGCTACTATTTTTCTTATTCGAGAGAGACGATGAGCTGCA
Right flanking sequence: Indices 81457 -- 81956
ATATGATTTATAGGTCAGGGTAGGAGATAGCCTTGACCTCTAACCTTCGAAGATACTAAGGGCCT
GAATCTTCCCCGGGTCGGGTTACCACGTTCTTGAGATCTGTTATATAGGCCTCTAGTTTTCCGTT
GGGAAGGTCCAGGGACTTCCATCGTGAAAGTGACATAGGAACTCCGGGCGGGGATCATGGCACTT
CTCCTAGAACCTTAGGGACGCTTTCGCTGAGAGCCCGAACATATTTTTTTGGTCATGCGGTACGT
AGGGCCTGTAGGTCCCGTAACCATCTCGTCCTTATAGAGTTCGTAAACGGTGTCCGCTATATTCC
GAAGATAAAGAATTATATCTGGTTGTTGGTCGCGGGGCGGGAGACTTGGTTTTGTGCGAGGGACG
GCCACCACAAAACCGAAAAACTGTCCGACAAAACAAAGGGCACTTACGACCAACTATGCCTCGGA
ATACCCTTCAGTAACCTCTGGCTAATTATATAAATCTCCAAAACC
Found at i:89214 original size:12 final size:12
Alignment explanation
Indices: 89197--89230 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
89187 GGCATCGGAG
89197 GGCCCGAAGGGC
1 GGCCCGAAGGGC
89209 GGCCCGAAGGGC
1 GGCCCGAAGGGC
89221 GGCCCGAAGG
1 GGCCCGAAGG
89231 CCCCGAAGGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.18, C:0.32, G:0.50, T:0.00
Consensus pattern (12 bp):
GGCCCGAAGGGC
Left flanking sequence: Indices 88697 -- 89196
CTCGATGGTATTTCTTACCAGTCTATGCGATTCCTCGAAGTATACCTAACAAATTAGGGGGTGTA
GCCGCCATAGGACTAGTTTTTGTGTCATTATTGGCTCTACCTTTCATTAACACTTCATATGTACG
TAGTTCAAGTTTTCGACCAATTCACCAAAAATTGTTTCGGTTGCTTGTAGCAGATCGCTTGCTTT
TAGGTTGGATTGGATGTCAACCTGTGGAAGCACCATATGTTACTATTGGACAAATCGCTTCAGTG
GGTTTTTTCTTCTATTTTGCTATAATGCCCATTCTTGGCAAATGTGAAGCCAGATTAATCAAAAA
TTTTAATGCTTGCTAGGCCCATAGGGCTAGCAAGCTTTCTTTCGGTTATTGTATTATTGCTGCGC
TACGCGCCTCCGGGCCTATGCAAGGCCTCGTAAGAGGAAGAAAAGCGCGCGCCAAAGGCCCGTGT
CTAATCCAACGATAAAAGGCGCCTTTTATCGTAGCGGCATCGGAG
Right flanking sequence: Indices 89231 -- 89730
CCCCGAAGGCGCTTGAGTAGCGGAACCCCTCCGGGCCTACTACATTGGGAAATAGCAATGATGTA
CTTTACTTTGGGCTTTCTACAATTATTGTTAGGCGCTGTGTTATTCATTACCACAGGAGGCGCGT
AGCGGGCGCCGCCTTCGGCGCCTTCTCTCGCGCCGCGCCCTCGGTGCCTCGTCCAGTGAAAGGAG
GAGCCGGCGCCGCTCGAAGGCGCTTAAAAATTGATATATATCAATTTTTGAAAAATATATATATG
AGTGAAAAACAAATATATAAATATCTACCAGTTTTACGAAAAAAGAAAGATACGATTTATGGATA
ACCAATTGTTTTTCAAATCTCTAATAGCTACTCCACCGAAAAGGATACATGAATGTCGAACAGTA
TCTAAAGCACCTGAAAACTGCGCGAAGATGCCCGAGAGCATCCAATTCCGAGCATTCAGTGGAAC
CGGTGAACCATTTGTACGTTTGGATTTACGAATGGGGCAGAGGGC
Found at i:95228 original size:12 final size:12
Alignment explanation
Indices: 95211--95235 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
95201 TAGCCTCCCC
95211 GTAAGGTCGAGA
1 GTAAGGTCGAGA
95223 GTAAGGTCGAGA
1 GTAAGGTCGAGA
95235 G
1 G
95236 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 94711 -- 95210
TGAATAGGCCGAAGAGGCGAAATCGTAGCGGTAGGCCTCGATCGAAGAGGGGCGAAGCAGCGTCT
ATTTGCTTCACCCCTCCCCCCCTTTCAGGGTACCGGGTAGCCGTGTGGATGAAGCGGCTTATGAG
AAAGGGAGAGCATGGGCCGTAGGCCGCGCCGAAGAAAGGCGGTAGCGCGGTTGCCGGGATTGATT
AGAAGCGTGGCGCCTACTCAAGCGCGGCTTTCATCTTGGGTTCTGTACTTGATGTTGAATTTTAT
TTATTAATTATTTATCGGCGCGTTCTAAGGTACGTAGTATGGGAGAGGCACGTAGCGGTCAAAAT
AATGCGCGCTACGCTCCTTTAATAAGGAGCGTAGCCTACCATACAAAGCTGAAATAATGCGCGCT
ACGCGCCTTTCCCACTTTAGACCGACCGCTACGCGGTCCTTAATATCGCTACGCGCCTCCGCTAC
CGCCTTCGGCGCGCCTACGGCCCTTCGGGTTGGTTTAGCCTCCCC
Right flanking sequence: Indices 95236 -- 95735
CGCCTTCGGCGCCTAAGGTAGAGACTCGCTATCGCTACGCACCTATTCTTACCATACCTACGGAA
CTTGCAATAGTTTCATCAAAGAAGGGCCTACGGTATTTACCTTTAGGGCGGGACCCGAGTTTTCG
AAGATAAAAATATAATAGATAGATAAAATATGACATTGTCATCAAATATACAAATGAAACTCGAA
GGAATGCCAAATACAGACGCTTGGTACAAGCGTAGGCGCCAGTAATACCCAGGAGGGATTAAATC
CGCATCCGCCTCGGTCAAGTCCCTAACAGGGCGGGCTCCGCCCTATAAGGACTAAGTCTGTATAG
GGCGGAGCAGATCGGTGCTTAAGCTGCACGAATTGCTGAGACGTCTAAATGCTTTCTTTGATAGC
TGGAAGTTCTTCAAAAGTATGAAATGCAGGAGGGCTTGGGACCATCCATTCAAGTGTCGTTGAAT
TCTGTTCAACAGCCCAAGGGCTTGGAGCACACTTGTTTTCACTAG
Found at i:95770 original size:21 final size:22
Alignment explanation
Indices: 95745--95788 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
95735 GTTAGAGTAG
95745 GAAAAA-CCACTAC-AAAGAAAC
1 GAAAAATCC-CTACTAAAGAAAC
*
95766 GAAAAATCCCTACTACAGAAAC
1 GAAAAATCCCTACTAAAGAAAC
95788 G
1 G
95789 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 95245 -- 95744
CGCCTAAGGTAGAGACTCGCTATCGCTACGCACCTATTCTTACCATACCTACGGAACTTGCAATA
GTTTCATCAAAGAAGGGCCTACGGTATTTACCTTTAGGGCGGGACCCGAGTTTTCGAAGATAAAA
ATATAATAGATAGATAAAATATGACATTGTCATCAAATATACAAATGAAACTCGAAGGAATGCCA
AATACAGACGCTTGGTACAAGCGTAGGCGCCAGTAATACCCAGGAGGGATTAAATCCGCATCCGC
CTCGGTCAAGTCCCTAACAGGGCGGGCTCCGCCCTATAAGGACTAAGTCTGTATAGGGCGGAGCA
GATCGGTGCTTAAGCTGCACGAATTGCTGAGACGTCTAAATGCTTTCTTTGATAGCTGGAAGTTC
TTCAAAAGTATGAAATGCAGGAGGGCTTGGGACCATCCATTCAAGTGTCGTTGAATTCTGTTCAA
CAGCCCAAGGGCTTGGAGCACACTTGTTTTCACTAGTTAGAGTAG
Right flanking sequence: Indices 95789 -- 96288
TATGAGCCAAAACTACTAAAGGCATTCCATCCAGCGTAAGCATCTGGATAATCAGGAATGCGACG
TGGCATACCTGCAAGCGGTTTTTTCCTTATTTATCAAATGTTAATGGATTGTGACTAAATATTTC
TCTTTTGTAAACTTCATCTGGAATTAGTCTTTCAGACGTTTCGGTGTGTTTAAATCCCAATGTTG
AATCAGTTCTTTTCTTGGTATCAAGAACTGGTTCATAAAGATCGAAATAGTACTGTTCCCGAGCC
AAATAATCCTTTTCAGTAATAGTACCTGTTGAACCACATGACTCAATAATAACTAAAATTGTCAT
GACCATATTTCCAAATGTAATTATAAATATATCTGTTATCAGATAATTTAGAAGGGTGATAGTAT
TCAGCAAGTCTATCGCTTAATTTATAACCACTACCTACATATTGTTTCCCATTAACTAAATTATG
CCAAAGATAGATTCCAGTTTCCGTTGGATAATAAGAAACGATTTG
Found at i:95771 original size:22 final size:22
Alignment explanation
Indices: 95746--95788 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
95736 TTAGAGTAGG
95746 AAAAACCACTAC-AAAGAAACGA
1 AAAAACC-CTACTAAAGAAACGA
* *
95768 AAAATCCCTACTACAGAAACG
1 AAAAACCCTACTAAAGAAACG
95789 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 95246 -- 95745
GCCTAAGGTAGAGACTCGCTATCGCTACGCACCTATTCTTACCATACCTACGGAACTTGCAATAG
TTTCATCAAAGAAGGGCCTACGGTATTTACCTTTAGGGCGGGACCCGAGTTTTCGAAGATAAAAA
TATAATAGATAGATAAAATATGACATTGTCATCAAATATACAAATGAAACTCGAAGGAATGCCAA
ATACAGACGCTTGGTACAAGCGTAGGCGCCAGTAATACCCAGGAGGGATTAAATCCGCATCCGCC
TCGGTCAAGTCCCTAACAGGGCGGGCTCCGCCCTATAAGGACTAAGTCTGTATAGGGCGGAGCAG
ATCGGTGCTTAAGCTGCACGAATTGCTGAGACGTCTAAATGCTTTCTTTGATAGCTGGAAGTTCT
TCAAAAGTATGAAATGCAGGAGGGCTTGGGACCATCCATTCAAGTGTCGTTGAATTCTGTTCAAC
AGCCCAAGGGCTTGGAGCACACTTGTTTTCACTAGTTAGAGTAGG
Right flanking sequence: Indices 95789 -- 96288
TATGAGCCAAAACTACTAAAGGCATTCCATCCAGCGTAAGCATCTGGATAATCAGGAATGCGACG
TGGCATACCTGCAAGCGGTTTTTTCCTTATTTATCAAATGTTAATGGATTGTGACTAAATATTTC
TCTTTTGTAAACTTCATCTGGAATTAGTCTTTCAGACGTTTCGGTGTGTTTAAATCCCAATGTTG
AATCAGTTCTTTTCTTGGTATCAAGAACTGGTTCATAAAGATCGAAATAGTACTGTTCCCGAGCC
AAATAATCCTTTTCAGTAATAGTACCTGTTGAACCACATGACTCAATAATAACTAAAATTGTCAT
GACCATATTTCCAAATGTAATTATAAATATATCTGTTATCAGATAATTTAGAAGGGTGATAGTAT
TCAGCAAGTCTATCGCTTAATTTATAACCACTACCTACATATTGTTTCCCATTAACTAAATTATG
CCAAAGATAGATTCCAGTTTCCGTTGGATAATAAGAAACGATTTG
Found at i:108692 original size:24 final size:24
Alignment explanation
Indices: 108655--108710 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
108645 TCATCGCCCT
* *
108655 TTATTTATCTATGATGATTCATCA
1 TTATTTATCTATGATCAATCATCA
108679 TTATTTAT-TAATGATCAATCATCA
1 TTATTTATCT-ATGATCAATCATCA
*
108703 TGATTTAT
1 TTATTTAT
108711 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 108155 -- 108654
ACAGCGAAGAAATAACACACTTGATTTTCGGTGAGCAATTATTATATGATGATACATAAAGGGTG
ATATGGGAAATACCATAGTACGTAATACAAAAAATAATATAAAGCACGCATAACCGAACGAATTG
CGTCAAATAGGTAAAGTGATCGAGTTGAGGCTGAAGATGTAGGACGTTAGTTCTACATAACATTT
ATTTTCTACCTGCAAGAAAAATGGAAAGAATTGGAATATAAGCGACTTCTATAGAATTTTTGAAA
ATATGGGCTAAAGCCCCGCCGGGCGGTAGAGAAAATCAGAAAAGTTATAGCTAGAACCGGACCTC
GTGTTTTGCTTCCTTCTCGCGCATCTTTTTGTTTGTTTTCCCACCCGTTTTTGGCGGGAGTCGGA
TTCGAACCCACAACATTCAGATTATGAGCCTGACGAGTTACCAATTACTCTATCCCGCGAACAGC
CACCGAAAAAAGAGATATATTTTTGTTCTCTTTGTTCATCGCCCT
Right flanking sequence: Indices 108711 -- 109210
GAGAATTTCTTACTAATGAGGATTCATCATTATTTATCTACGATAATTCATCCAGATTTTCTATT
AGTGATTATACTAGATTCAAACCAGATTTGTTCAGGTTCGAAGGGAGGGAAAAAGGGGCGCGCCG
CAGCCCGCGCTAGCCCACTGGGTTAAAGTGACGGATACAATTTTGGTGTTTACCCAACTAAAGCG
ATTGGCTGGAGACGAAACCACGGTGGCTTCCCTCCCCGCGCACAGGCCATGAATTGGGGGTGTTA
TGGAGGAGGCACGTAGATTACCTTAGGCAACAACGGTCCCGCCGCAATCGGTAACATAGTGAAAA
AGTACACAGGCACTACGTGCTTCTGATACTTCTTTCAGTTTTTGGCCGGAGCGATAATTTTATGG
AATACGGAAAGCGAGAAGGATGCAGGAAAGTTTATAGAGGGGGTTGAGCTACGGGTTTTCAACCA
ACCGTAGCTCCTCTTATATTACCTCGTCCGGAGGAGTCTGCGACC
Done.