Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: MZ328722
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: 263017
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Found at i:13211 original size:12 final size:12
Alignment explanation
Indices: 13196--13221 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
13186 TTTGAAACTT
13196 TTTCTTCCCCTC
1 TTTCTTCCCCTC
13208 TTTCTTCCCCTC
1 TTTCTTCCCCTC
13220 TT
1 TT
13222 CGGACTTGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (12 bp):
TTTCTTCCCCTC
Left flanking sequence: Indices 12696 -- 13195
AAGAAATCTAGTGTTTCCGTGAGCAGTAAGCAGCAGATCTCCCCCTCTTTTTGGAAAGCTGGTGG
CCGCGTGTGAATTCTTTCAAGGCAAGGGGCGGCCTGATTCGACATTGTTGTTTACTCTGATCCGG
TCGAGGTGGTTTTCGTTTACCCTTTTTTTCTTTTTTGGCATAATTTCATTCTTTCCACCTCATCC
ACTAATCGACGAAAGAAAGGGCACCCTTCCCTTTCTCTCCCTAGGGCCTTCCCGGCAGCTAACCA
ATCATAAGGGCCCTTTCCCTCTAGGAGCTTTTCCAATGCGGCCTCCCATTGCCCCTTGCTTACCT
TGATGGGGGAGCGTAACTCCTTGCTACAAAGGAGCTTTAAGATCTTCTTCTTCCAAAAATTTAGA
AGAAAAAGATCTGCTGAGTCAAGTTCCGGCTGGCCCGGCCGAAAACGCCTGCCCTTCGACGGCAG
GTTGATAATCTTATTCAAGTCCGAAAGAAAGGGGCTTTGAAACTT
Right flanking sequence: Indices 13222 -- 13721
CGGACTTGATCCTGTCGAGCCATGTCTCTATATCCTCATCCTCCTCGGATACTGCATCCGCTTCT
GGGCCAGCAGGTGCTGCATCCGCTTCCCCAAGCAATTCTCCCTGAGAGATTTCGGGAGAAGGAAT
TACTAGCATTTCCCCCTCTTGGGGTTGGTTCCCCGCGCCCGCAGCCACGAGCAGGTCTGAGGATC
CCGCAGGATCGTGGCCCGGATTGGGGGGGGTACTATTACTTCCCCCCGCATCCCCCAAAAACTGG
CTAACTGCTTTCCACAGTTCACCCCCTCCTCCTGTCATAAAGACTAGGTACAACATGAAGTAGAA
AAGAAAAGCAACAAAGAAGAGCAGTGCAGCTCTGATCAGAGCGCATCTATTAATATAGAGGCGCC
CTGGTAATTTTATAATTGTTTTCCCATAGACACCTGCTACTGAAAAATGAATATTGATCCAGACC
CGGATTCCTAGAGAATACAAAAACAGAGATTTAAAATTAGTGGAC
Found at i:32872 original size:16 final size:16
Alignment explanation
Indices: 32851--32883 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
32841 TAGAAGCAAA
32851 ATAGAATTTAAAAAAT
1 ATAGAATTTAAAAAAT
32867 ATAGAATTTAAAAAAT
1 ATAGAATTTAAAAAAT
32883 A
1 A
32884 AAAGGCTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (16 bp):
ATAGAATTTAAAAAAT
Left flanking sequence: Indices 32351 -- 32850
ATCTATTTTTTTATTTACGAAATTCTAAGTGAGGTCATAATAGTCCTTCAACAACCATTGATGAA
ACCATGTGCTATGGCTCGAATCCGCCGTAGTCAAATCCTATTTCCGATAGGGACAGTTGACAACT
GAATCCGCCTTTTACCAAAATTAGGGAAGGCCAGGCCGGCCAATGAGTCTTGTTTCGCGAACAAT
TTCTTCATCTTCCCAGATCGGAGCATATAAAGCGTGCCAAGCATGCGTGCCGACTTTCTGTCCTA
GTGATAGCTGTTCTTCCTGTCTTAGTTAGAGGATAATAAGTAAGGAAGTCTGCAAAGACTGACAG
AGATAGATTAACTGGATGAAGTTTGAAAGAGCAGTCTTTACTCCCACCAATAGTTCAGTCGGGAG
ATAGCGGCCTAAGGTGTGGCTCGGGATTGACCTAAAATGCACTATTGGGCTAACACTCTTCGTGA
AGCTTTAAAATGATAGCATAAAGTTAAAGACATCATAGAAGCAAA
Right flanking sequence: Indices 32884 -- 33383
AAAGGCTAGTCCCTGAGAGATTATGACAATGCGGATAGTGCCCGCTCTGAGTAAGACTATGAAAT
ACCATTCTTCGCTTCCTTGGCACCGGCCGGAACATAATGATCTTCCAATATAACATAGACTTATT
CGCCTGCTTTGTTTCAAAAGAAAGAACCGCTACCTTACTACTTTTTTTGCTTGGTTCATTAAATA
GAGGTGAACCTGGTTCTACCCTTTCGTTTAGGACAAGATCATCTTCTTACAAGACAAGAAGCCAT
CTATCTTTCCTGAACAGGCTACCTACTTCCATACACATAGTAGGAGTGGATGAAGCCATCGCTAT
TAACTGCCCATTTGACCTCCCCTCCTTGCGGTTAAAGTAACGACTTCGGGGATGGCGGAAAGCTG
CTAGGACTGCTTTGTCTTAGAGCATTCAAGTTGAGAGAGAGAAGTTTCGATCAAGGGCAAGGTGG
ATGGGACTAAGCCCTCGACGATTGAGAGATCTGTCCGGATTTTAC
Found at i:85435 original size:19 final size:19
Alignment explanation
Indices: 85411--85449 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
85401 CAAACAGCTG
85411 TTTTCTTTCTTGCTT-TGTT
1 TTTTC-TTCTTGCTTCTGTT
*
85430 TTTTCTTGTTGCTTCTGTT
1 TTTTCTTCTTGCTTCTGTT
85449 T
1 T
85450 GGGCTTGCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.00, C:0.15, G:0.13, T:0.72
Consensus pattern (19 bp):
TTTTCTTCTTGCTTCTGTT
Left flanking sequence: Indices 84911 -- 85410
TTGCTTTAGGGGTCTTAACATCGAATCACACATAGCGAGCGGCTACTACTTTCTTTGCTGCTTCG
CTTTAGGAACAAGAAGGTTGCTGTAGAACCACTTGCCCCTCACTATGCCGGGCCAGACTAGACTT
GTAGGAGTGGGATAAGAGCACCTATTGGTAGCGCCAGCAGAGCGGATTCTGTGGTTTACGTGATT
CTTGACCCTCGATCTGTCTAGTTCCTTGGAACGTTACACTCGCCTTCCCTACCAACGGTCGGGAA
GTGTTAGCCAGCTATATTGAATACTAGGATTGCCCCAACCCCTACGGAGAGACAAAAGCACTCTT
GACTTTAGAGAAAGAATAGGGGCGAAGCGGTTGAATTGGCTTTCTTGTAAATGGAATACAGCTTA
GAGTGCCGTTACTTTCCCCTTCCATGCTTGAAGTTCATTCCTCCGTTGTGCTTTGTCTGGCAGCT
CATCCTCTTTCTTCCCTTCCTCGGGGACAGTAAGACAAACAGCTG
Right flanking sequence: Indices 85450 -- 85949
GGGCTTGCTCCTCTGTTGTCCCTGACTCAAATCCCTAAACTTAATGAATGAAGGGCCGGTCCCCG
CTCCTTTCCCTATCGGGAAAGTCGCTTACGCTCCTTGCTTGCTCGAAGCTGGAAGACGAGGTTTT
CTCCTCGTCGGTAAGGCGGATTGAATAGGACTTGACCGATGTTCATTGGCCTTTCTTTCGATGTC
AATGTGCTCAGGTCCTTTCTTTTGACTTGAGCTGTAGTTGGCCGGTCCTTTCATAAAGAAAGAGT
TGCTCTGCTCTGAAGAAAGCTCGGTGTATCTTAGTATGAGAGAACTAGATGGGTGGCCTTTTCCG
GGTAAGAGAAAGAGTAGTGACAGGAAAGCACAGCTTTCGCTTTCCCGCCTTGGCTTACTGGATTG
ACTTCTTGACTTCTTTACCGGATTACCTGATTGCTAGCACAGTAAAGAGGGAGAGAAGGAGTGTA
ATCCATTTCCATCCCCAATTCTCCTCGTACCAAGGCGAGACTAAA
Found at i:90302 original size:38 final size:38
Alignment explanation
Indices: 90251--90331 Score: 162
Period size: 38 Copynumber: 2.1 Consensus size: 38
90241 ACAAGCGGAT
90251 GAGTTTGATAGTGGGTTATGTTGAGATATAGCTTTCTA
1 GAGTTTGATAGTGGGTTATGTTGAGATATAGCTTTCTA
90289 GAGTTTGATAGTGGGTTATGTTGAGATATAGCTTTCTA
1 GAGTTTGATAGTGGGTTATGTTGAGATATAGCTTTCTA
90327 GAGTT
1 GAGTT
90332 AGAGAGGTGG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.23, C:0.05, G:0.30, T:0.42
Consensus pattern (38 bp):
GAGTTTGATAGTGGGTTATGTTGAGATATAGCTTTCTA
Left flanking sequence: Indices 89751 -- 90250
TGGGGCATCCCGACAATTATATACCTGCTAATCCGATGCCCACCCCGCCTCATATTGTGCCGGAA
TGGTATTTCCTACCGATCCATGCCATTCTTCGTAGTATACCTGACAAAGCGGGAGGTGTAGCCGC
AATAGCACCAGTTTTTATATGTCTGTTGGCTTTACCCTTTTTAAATCAAAGTATGTATGTACGTA
GTGCAAAATTTCGCCCGATTTACCATATAATATATTTGTTGTTTTTGGCGGATCGCTTACTACTA
GGTTGGATCGGATGTCAACCTGTGGAGGCACCATTTGTGACTATTGGACAAATTTCTCCTTTTGT
CTTCTTCTTGTTCTTTGCCATAATGCCCATTCCGGGACGAGTTCAAAGAGAAAATCCTAATTATT
TCAAAGAGAACTAATTATTCCAAGGATTAGACCGATCACACCTGAAAATAGAAAAATTATGACAC
CAATAATTTACGAGTGAGTATGACACCAAGAATGTACAAGCGGAT
Right flanking sequence: Indices 90332 -- 90831
AGAGAGGTGGAAATGCTGATTGGGCGGCTGAACATGTACACAAAAGGCTCTGCAAGACCTATTCT
CAAGCAGGCGAACAAGCTTGACGCGAAGAAGTAGAAGCTCAGTCTATAGCTCCTAAACGAACAGA
CGAATCAGCTCTCTACTAGGGCACATGACTATCAATCTTCTCGTCGAGAAGAAGAGTGCCAATCT
CTCGGCAAGGTTAAGTGCTAGCATTACGCTAGTTTACCGCGTATATGATGTTGTCTACGGGTCAT
CTAGGTCTTTGATCCGCTTAAAAGGTGTAGTAGAATCAGTCTTATCTTCTCTTCTAGAATCATTT
GTATCCTGCTCTCGTGCACTTCTATTCAACAGGAGAAACTTTTACTTTGAATAGAAGGATCAGTG
CCCGTAGCAGTCCTGGAGTTAGGTTATGATGGTCGTGAGGCGCATTCTCTTTTCAAGAATCTCTT
CCCTGCTCTTGTTCCGGGCTAAGGATGTTACCGAAGGTGAGGGCC
Found at i:126699 original size:33 final size:32
Alignment explanation
Indices: 126662--126780 Score: 157
Period size: 33 Copynumber: 3.6 Consensus size: 32
126652 TTATGATACT
126662 TTTTATTAGCAGAAATAAACAGCTTTTTAGACC
1 TTTTATTAGCAGAAATAAA-AGCTTTTTAGACC
* *
126695 TTTTATTAGCACAAATAAAAAGCTTTTTAGGCC
1 TTTTATTAGCAGAAAT-AAAAGCTTTTTAGACC
* *
126728 TTTTATTAGCAGAAATAAAAGGATTTTTATACC
1 TTTTATTAGCAGAAATAAAA-GCTTTTTAGACC
* *
126761 TTTTATTAGCAAAAACAAAA
1 TTTTATTAGCAGAAATAAAA
126781 AGCCTTCGTC
Statistics
Matches: 76, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
32 4 0.05
33 69 0.91
34 3 0.04
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (32 bp):
TTTTATTAGCAGAAATAAAAGCTTTTTAGACC
Left flanking sequence: Indices 126162 -- 126661
CAGGTGCTTTTCTCGCTTGGCATGCTCCTCATGGACGAGCTTTGGCCAGCTGTTAAGCAATTCCT
ACCAGGCGCGGACGAAAGTAGTCAACCCGTAGATGGCGGATTCAATCCAGCCCATAGGTTCCCCT
ACGGCTAACTTTGTTACGACCCACTCCGGAAACTCGAGACCCATGCGATAAACCCCCTTGTTTCA
GTAACCAGAAGTTTGGCCTTACCGACGAAGGCGCCTAGATAGTTAACCGCAGAAACAAAACCCGC
CAGAGAATCTGTTATAATAGATAGAATAGGTTTTTCCACCCTTGTGAACTTTTCCGGCAGCCCTG
GATTTCTCCAGTCAGTAAGCCAATCAAAAATATCCCCAAGGGTCTGTTGTTGTATCATTTCTGGC
GTGATCTGCGCCCCGCCCTTGTAGTGGAAGAAATAGATAAAAAGTAAAAAACTAAATGTTAGTTT
GATTATGTGGTATGTCGGTATCATAAAAAGGCCCTTTATGATACT
Right flanking sequence: Indices 126781 -- 127280
AGCCTTCGTCCCGGCCGGAGGGAGGTAGAAAGACTAACGGCTTTTTGCAGCCCTCGTCCTTTTTC
TTTATAGAGGCTACGCTTGTTATAAACCGCCTCTTTTTTCTTTTGCTTTGCATCGCAATATGCTC
TAATTTTTTATTATCTAATTCGCCGGAACACGAAATAATATCAAATTCATCAGAACATAGGGCGC
GCGCCCACCCTCCAATTCCCTTTTTCGACGAGGAATCTAATAAAGTGAAATTCGATATTTCTGAA
AACATCCCCATACTTCTCTTTTTGTATGTATTTTTAGAGGCGTCTTTCGTATGAAGACCAATTAA
ATAGTCAAAGCTATTTTGGTCTTCCTTTTTACCCCTTTTCTCTGCAATCACGACACTTCGACATT
GAAATTTTGCTCTGGCAGAATATATTATCTCTTCTGATAGAAGTGCTTTGCGACTACCTTCTATC
TTTATTACAATGTATTCCCTCGTAATGGCGCTCTTTGCTGGTTCT
Found at i:127675 original size:21 final size:21
Alignment explanation
Indices: 127649--127709 Score: 88
Period size: 21 Copynumber: 2.9 Consensus size: 21
127639 GTGTCTCCAG
*
127649 ACAGGTCCAAGACAAGACAAC
1 ACAGGTACAAGACAAGACAAC
127670 ACAGGTACAAGAC-AGAACAAC
1 ACAGGTACAAGACAAG-ACAAC
*
127691 ACAGGTACAAGACAGGACA
1 ACAGGTACAAGACAAGACA
127710 GGCGCAAGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.06
21 33 0.92
22 1 0.03
ACGTcount: A:0.49, C:0.25, G:0.21, T:0.05
Consensus pattern (21 bp):
ACAGGTACAAGACAAGACAAC
Left flanking sequence: Indices 127149 -- 127648
GCAATCACGACACTTCGACATTGAAATTTTGCTCTGGCAGAATATATTATCTCTTCTGATAGAAG
TGCTTTGCGACTACCTTCTATCTTTATTACAATGTATTCCCTCGTAATGGCGCTCTTTGCTGGTT
CTTTCCTTTCTATACGAGCAGTAGCAGTCATGGTTAAACCCTTTTTGAAAAATTTCAAACACCTC
TTCCTTTTTTTTAATCAAACGCATCTTTTACGGCGGGTGGCCCTTTTGGATGGGCTTTCTTCCAT
TTTCTTCGAGCAGAGTCCTTTAATGATGAGCCCATTTTCCGAAGAGAAGACGAAGTTCTTATCTA
TATCTATATTAAGAATATAGATAAGAGGCTTCTGGCGGCGAACAGGATTGCGCCCCTTCTTTAGT
TTAGTAATTGGACAGTTTTGGAAATATATAAATTCTTTAAGAAATCTATGCTCTTTGCCGCCCCC
CGCCCAGTACTGACCAAGAACTTAAAAGAACTGCTGTGTCTCCAG
Right flanking sequence: Indices 127710 -- 128209
GGCGCAAGAAAAGATAAAAATGGAAACAGAGAGGGCCCTTTGATAGAATTTTAGAGAGGGATGGG
GGTTCTCTATATGAAAGCCTTTTAAAAATTTTCTTTCTTTAACTTACGATATTCTATTTTTAAGC
TTGTTTCATTTCAAAGGAAAGAACTTAATAAGTTAAGAGGCCGGGAGCCGCAGGTATGTAGTCGC
TTATGCGAAGCTTAAGGAAAGCAAGAGGAACAGCTATTCTTTTACTATTTTTTTAAGCGCGCTCC
TACTTCTTTATGCGCAGCAGCAATCAACTCATCCGTTGCTTAGTTCCATTTCAAGGTCTCCAGAT
TATGTACTTAGAATCTATTTTCTTTACAGATTGAGGATATCTAGTATGAACTGAATGGTTACAAG
ATCATGATCATGTACAACACACAGTCAAAAGAATTCTATCTTATCTCTGTTTTCTACCAGAGAAC
AATAAAGGCAGAATGTCATGTAGTCTACGACGGTGAACATGTACA
Found at i:127679 original size:11 final size:11
Alignment explanation
Indices: 127665--127706 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
127655 CCAAGACAAG
127665 ACAACACAGGT
1 ACAACACAGGT
* *
127676 ACAAGACA-GA
1 ACAACACAGGT
127686 ACAACACAGGT
1 ACAACACAGGT
*
127697 ACAAGACAGG
1 ACAACACAGG
127707 ACAGGCGCAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
10 8 0.32
11 17 0.68
ACGTcount: A:0.50, C:0.24, G:0.21, T:0.05
Consensus pattern (11 bp):
ACAACACAGGT
Left flanking sequence: Indices 127165 -- 127664
GACATTGAAATTTTGCTCTGGCAGAATATATTATCTCTTCTGATAGAAGTGCTTTGCGACTACCT
TCTATCTTTATTACAATGTATTCCCTCGTAATGGCGCTCTTTGCTGGTTCTTTCCTTTCTATACG
AGCAGTAGCAGTCATGGTTAAACCCTTTTTGAAAAATTTCAAACACCTCTTCCTTTTTTTTAATC
AAACGCATCTTTTACGGCGGGTGGCCCTTTTGGATGGGCTTTCTTCCATTTTCTTCGAGCAGAGT
CCTTTAATGATGAGCCCATTTTCCGAAGAGAAGACGAAGTTCTTATCTATATCTATATTAAGAAT
ATAGATAAGAGGCTTCTGGCGGCGAACAGGATTGCGCCCCTTCTTTAGTTTAGTAATTGGACAGT
TTTGGAAATATATAAATTCTTTAAGAAATCTATGCTCTTTGCCGCCCCCCGCCCAGTACTGACCA
AGAACTTAAAAGAACTGCTGTGTCTCCAGACAGGTCCAAGACAAG
Right flanking sequence: Indices 127707 -- 128206
ACAGGCGCAAGAAAAGATAAAAATGGAAACAGAGAGGGCCCTTTGATAGAATTTTAGAGAGGGAT
GGGGGTTCTCTATATGAAAGCCTTTTAAAAATTTTCTTTCTTTAACTTACGATATTCTATTTTTA
AGCTTGTTTCATTTCAAAGGAAAGAACTTAATAAGTTAAGAGGCCGGGAGCCGCAGGTATGTAGT
CGCTTATGCGAAGCTTAAGGAAAGCAAGAGGAACAGCTATTCTTTTACTATTTTTTTAAGCGCGC
TCCTACTTCTTTATGCGCAGCAGCAATCAACTCATCCGTTGCTTAGTTCCATTTCAAGGTCTCCA
GATTATGTACTTAGAATCTATTTTCTTTACAGATTGAGGATATCTAGTATGAACTGAATGGTTAC
AAGATCATGATCATGTACAACACACAGTCAAAAGAATTCTATCTTATCTCTGTTTTCTACCAGAG
AACAATAAAGGCAGAATGTCATGTAGTCTACGACGGTGAACATGT
Found at i:133104 original size:25 final size:25
Alignment explanation
Indices: 133075--133137 Score: 117
Period size: 25 Copynumber: 2.5 Consensus size: 25
133065 TACGTAGTAT
*
133075 CTCGACTGTAAGGTTCTGAAAGAGA
1 CTCGACTGGAAGGTTCTGAAAGAGA
133100 CTCGACTGGAAGGTTCTGAAAGAGA
1 CTCGACTGGAAGGTTCTGAAAGAGA
133125 CTCGACTGGAAGG
1 CTCGACTGGAAGG
133138 AGAGGAGAGG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.30, C:0.17, G:0.32, T:0.21
Consensus pattern (25 bp):
CTCGACTGGAAGGTTCTGAAAGAGA
Left flanking sequence: Indices 132575 -- 133074
TTTTTCCTGGATGGGTTTCCTTACATTAATAATAGGTGGTGACTAATGCCTACGATCGAGAGTCT
GATTATCGTGATAGAAAGGAAGAGCCAGATGGAGATATAGTGCCTAGCGTAGAACCTGCTGCCCC
ATGATCACCAATAGCAAGTTCCATGGCTAATAGTTCGTAAGCTAGCAACAGGAGCAGAAGAGCCT
AAAGCTGTTAATCCTGTTCCAGTACGTAGACTTTATTCTTACTATGATTATGCTGTTAATGAAGC
AGGACGAGCAGCAGTTAAAGACACGGGAGCAGCTCCAGGTCCAGTAGTAGATCCAGCAGTTGTTG
ACCCAATAGATTATGCTTCATTACCCGAATGTTGTAGTGGATTCCGTGCAATTCGAGATATGAGC
GCATTGCACGGAACCCACTACCTATCTACAGTCAATCTTTCTTCTGGGTGACATTCTCTATAGAC
TCAAGTCTTCTATCGTTCGTATACCGTATATAGGTTACGTAGTAT
Right flanking sequence: Indices 133138 -- 133637
AGAGGAGAGGAGAGGTCTACTCACTCGCTTTCAGGAATAGCACTTCTTCGCCCAATACTACTTCT
GAGAACCATTCTTCAACTAGCTCCGGCAATGATAGCTCTAACCATTCTTCCTCCAGCCGAGCCAC
TACTTGCGTGTGTGTAATTAATGGCAGTTTTTTTATTACGGAGCTATTCTCTTTCTTGGATTTTA
TTATAGTAGAGAGCGGTAAGTTAGTGTTGCTCTAAGGAAGTGGTAGCTGTTCCAGTACACAAACA
AGGTGGGTTGGGGTTTAGGAGGTATTTTGAGCGCATGCTTGTTGCTTTAATAGAGAAAGGGCTTG
GCATTTCACTCTTTGTTGTGGGGTTGTCACGGATTGGCCGGCCATACGGATAGGGAAGTCCAAGG
AGCTTTTTATTTGTGGAGGTTTCACATCACACTAATCATTCCATTCCTTCCGGATAACCTAAAAG
GTGCAGGCCTACTTAAGAGAGGGCCCTTTCTTAAATCTTAAAAAT
Found at i:174078 original size:23 final size:21
Alignment explanation
Indices: 174032--174099 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
174022 ATTTCGTTTC
174032 TTTTTGTCCAAGTCACTTCTT
1 TTTTTGTCCAAGTCACTTCTT
**
174053 TTTTTGTCCAAGTTGCTT-TT
1 TTTTTGTCCAAGTCACTTCTT
* * *
174073 CTTTTTGTCTAACTCACTTCCT
1 -TTTTTGTCCAAGTCACTTCTT
174095 TTTTT
1 TTTTT
174100 CTTTGTGAGT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
20 2 0.05
21 35 0.92
22 1 0.03
ACGTcount: A:0.12, C:0.22, G:0.09, T:0.57
Consensus pattern (21 bp):
TTTTTGTCCAAGTCACTTCTT
Left flanking sequence: Indices 173532 -- 174031
AAAAAATGGTATTTGCTAGCAACAACCTAATGGAGGCAGTCAATCAATATAGATTGATCCGAAAT
CTGATTCAAATACAATATAGCACCTATAGGTACATAAGAAATGTATTGAATCGATTCTTTTTAAT
GAATAGATCCGATCGCAACTTCGAATATGGAATTCAAAGGGATCAAATAGGAAAGGATACTCTGA
ATCATAGAACTAGAATGAAATATATGATCAACCAACATTTATCGACTTTGAAAAAGAGTCAGAAG
AGATGGTTCGATCCTCTTATTTTGATTTCTCGAACCGAGAGATCCATGAATCGGGATCCTGATGC
ATATAGATACAAATGGTCCAATGGGAGCAATAATTTCCAGGAACATTTGGACCATTTCGTTTCTG
AGCAGAAGAGCCGTTTTCGAGTAGTGTTCGATCGATTACGTATTAATCAATATTCGATTGATTGG
TCTGAGGTTATCGACAAAAAGGGTTTGTCTAAGCCATTTCGTTTC
Right flanking sequence: Indices 174100 -- 174599
CTTTGTGAGTTTCGGGAATATCCCCATTCATAGGTCCGAGATCTACATCTATGAATTGAAAGGTC
CGAATGATCAACTCTGCAATCAGTTGTTAGAATCAATAGGTCTTCAAATCGTTCATTTGAAAAAA
TTGAAACCCTTCTTATTGGATGATCATGATACTTCCCAAAAATCGAAATTCTTGATCAATGGAGG
AACAATATCACCGTTTTTGTTCAATAAGATACCAAAGTGGATGATTGACTCATTCCATACTAGAA
ATAATCGTAGGAAATCCTTTGCTAACACGGATTCCTATTTCTCAACGATATTTCACGATCAAGAC
TATTGGCTGAATCCCGTGAAACCATTTCATAGAAGTTCATTGATATCTTATTTTTATAAAGCAAA
TCGACTTCGATTCTTGAATAATCCACATCACTTCTGCTTCTATTGTAATAAAAGATTCCCTTTTT
ATGTGGAAAAGGCCCGTATCAATAATTATGATTTTACGTATGGAC
Found at i:175226 original size:15 final size:15
Alignment explanation
Indices: 175206--175264 Score: 100
Period size: 15 Copynumber: 3.9 Consensus size: 15
175196 CTTTTTCAGG
*
175206 CCTATTACCGATACA
1 CCTATTGCCGATACA
175221 CCTATTGCCGATACA
1 CCTATTGCCGATACA
175236 CCTATTGCCGATACA
1 CCTATTGCCGATACA
*
175251 CCGATTGCCGATAC
1 CCTATTGCCGATAC
175265 TAAGTAGCAG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 42 1.00
ACGTcount: A:0.27, C:0.34, G:0.14, T:0.25
Consensus pattern (15 bp):
CCTATTGCCGATACA
Left flanking sequence: Indices 174706 -- 175205
GTATCTAACATATTCATACCTAACGATTTTCCACAAGGTGGTGGGGACGAAACGTATAACTTGTA
CAAATCTTCCCATTTTCCAAGTCGATCCGATCCATTCGTTCGTAGAGCTATTTACTCGATCGCAG
ACATTTCTGGAACACCTCTAACAGAGGGACAGATAGGCAATTTTGAAAGAACTTATTGTCAACCT
CTTTCAGATCTGAATCTATTTGATTCAGAAGGGAAGAACTCGCATCAGTATCTCAATTTCAATTC
AAACATGGGTTTGATTCACACTCCATGTTCTGAGAAATATTTACCATCCGAAAAGAGGAAAAACC
GGAGTCTTTTTCTAAAGAAATACGTTGAGAAAGGGCAGATGTATAGAACCTTTCAACGAGATAGT
GCTTTTTCAACTCTCTCAAAATGGAATCTATTCCAAACATATATACCATGGGTCCTTACTTCGAC
AGGGCACAAATATCTAAATTGGATATTTTTAGATACTTTTTCAGG
Right flanking sequence: Indices 175265 -- 175764
TAAGTAGCAGTCAAAAATTTGTATCCATTTTTCATGATATTATGCATGTATTAGATATATCCTGT
CGAATTCTTCAGAAAAAATTGGGTCTTCCACAACGGAATCCGATACGTAAGATTTCGAGTAAGTG
TTTACATAATCTTCTTCTGTCCGAAGAAATGATTCATCGAAATAATGAGTCGCCATTGATATCGA
CACACCGGAGATCGCCAAATGTTCGGGAGTTCCTCTATTCAATCCTTTTCCTTCTTCTTGTTGCT
GGATATCTCGTTCGTACACATCTTATCTTTGTTTCCCGGGCCTCTAGTGAGTTACAGACAGAGTT
TGAAAAGGTCAAATCTTTGATGATTCCATCATCTATGATTGAGTTGCGAAAACTTCTGGATAGGT
ATCCTACATCTGAACCGAATTCTTTCTGGTTACAGAATATCTTTCTAGTTGCTCTGGAACAATTA
GGAGATTCTCTAGAAGAAATACGGGGTTCTGCTTCTGGCGGCAAC
Found at i:176504 original size:18 final size:18
Alignment explanation
Indices: 176481--176564 Score: 159
Period size: 18 Copynumber: 4.7 Consensus size: 18
176471 TGGATAATCT
176481 TAGTGAGGATATTGATGC
1 TAGTGAGGATATTGATGC
176499 TAGTGAGGATATTGATGC
1 TAGTGAGGATATTGATGC
176517 TAGTGAGGATATTGATGC
1 TAGTGAGGATATTGATGC
176535 TAGTGAGGATATTGATGC
1 TAGTGAGGATATTGATGC
*
176553 TAGTGACGATAT
1 TAGTGAGGATAT
176565 CGATCGTGAC
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
18 65 1.00
ACGTcount: A:0.29, C:0.06, G:0.32, T:0.33
Consensus pattern (18 bp):
TAGTGAGGATATTGATGC
Left flanking sequence: Indices 175981 -- 176480
AAAATAGAATCCTGGGTCGCAAACAGTGATTCGATTGATGATGAAGAAAGAGAATTCTTGGTTCA
GTTCTCCACCTTAACGACAGAAAAAAGGATTGATCAAATTCTATTGAGTCTGACTCATAGTGATC
ATTTATCAAAGAATGACTCTGGCTATCAAATGATTGAACAACCGGGAGCAATTTACTTACGATAC
TTAGTTGACATTCATAAAAAGTATCTAATGAATTATGAGTTCAATACATCCTGTTTAGCAGAAAG
ACGGATATTCCTTGCTCATTATCAGACAATCACTTATTCACAAACCTCGTGTGGGGCTAATAGTT
TTCATTTCCCATCTCATGGAAAACCCTTTTCGCTCCGCTTAGCCTTATCCCCCTCTAGGGGTATT
TTAGTGATAGGTTCTATAGGAACTGGACGATCCTATTTGGTCAAATACCTAGCGACAAACTCCCA
TGTTCCTTTCATTACGGTATTTCTGAACAAGTTCCTGGATAATCT
Right flanking sequence: Indices 176565 -- 177064
CGATCGTGACCTTCATACGGAGCTGGAACTGCTAACTATGGATATGATGTCGGAAAAAGACCGAT
TTTATATCACCCTTCAATTCGAATTAGCAAAAACAATGTCTCCTTGCATAATATGGATTCCAAAC
ATTCATGATCTGGATGTGAATGAGTCGAATTACTTCTCCCTCGGTCTATTAGTGAACCATCTCTC
CAGGGATTGTGAAAGGTGTTCCACTAGAAATATTCTTGTTATTGCTTCGACTCATATTCCCCAAA
AAGTGGATCCCGCTCTAATAGCTCCGAATAAATTAAATACGTGCATTAAGATACGAAGGCTTCTT
ATTCCACAACAACGAAAGCACTTTTTCACCCTTTCATATACTAGGGGATTTCGCTTGGAAAATAA
AATGTTCCATACTAATGGATTCGGGTCCATAACCATGGGTTCCAATGCACGAGATCTTGTAGCAC
TTACCAATGAGGCCTTGTCGATTAGTATTACACAGAAGAAATCAA
Found at i:178801 original size:20 final size:20
Alignment explanation
Indices: 178776--178816 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
178766 ATCTACCCTT
178776 GTGTGATTCCTGTTACTCAG
1 GTGTGATTCCTGTTACTCAG
178796 GTGTGATTCCTGTTACTCAG
1 GTGTGATTCCTGTTACTCAG
178816 G
1 G
178817 GGGGGTCGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.15, C:0.20, G:0.27, T:0.39
Consensus pattern (20 bp):
GTGTGATTCCTGTTACTCAG
Left flanking sequence: Indices 178276 -- 178775
TTCATGGAACAGGAGAAAGATTTCCCATTCCTTAGCCGGAAAGTTATGTGGCCATGAAAGAGGGG
GATTAAGTGGAACATAATTTACTGGGTGGTAGAGTCGCGGAAACGCTTGTTTCTTCCATATTTTG
GACCTTAGCTCCCTGGAACAATAGGCTACTGCTGAAACACGGAAGAATTGAAATATTAGATCAAA
ACACTATGTATGGATGGTATGAACTGCCTAAACAAGAATTATTGAACAGCGAACAACCAGTTCAT
ATATTCACGACCAAGAAAAGAAGTACTGGATTCGGATAGGCCCTGAAAGCGAAGGAAGGCTGGAA
TGCCAACAGGCGTCTATTATTGAATTCACCCGACCCGGCAGTACCCATTTTGGGAACGTCCAATG
CCAAAAGTCACTGAATGGGTAAATCGCCAATCCCTAAAACGGACTATGTAATGTACTTTATCTGC
TGGGTTACGGGCGGGCATTTTACCAGAGGTTTCTAATCTACCCTT
Right flanking sequence: Indices 178817 -- 179316
GGGGGTCGCATCCGGCTAGAAACCGAACTACCTACATATCCTCTTATTTCGAAGAATCAGACCCT
TGTAGTTCTATCAAGTAATAAAATAATGTGATTAAAAACCGAAGCTTTTTTGGCCGTGTGGAACA
TGGATTAGCGTTATGTCATTCCTACAAGTGATCCCCCATCCAGGATTGGAAGAAGTGCTATATGA
GGACTTCGAGATCAAATAGAATATGTTTCTTTCCATTCCTCGTGAGCCACTTATTTCTCCGAAAC
AAGAGAGAATCTTCTTAAAGAGCAGCCTGCTTTTTCCAATTTTTTTTTCCACTAAGTAGGCGAAG
TTACACCATTGGGATACTTCGAATAAACTGGAGTACATATAGGATACCCCGGTGCTAAAACCTTT
TCTCAAGATATCTTCCAAACTATTGGGGTCCTTGCTCCGGATGTTGTTCTCCTGGTGTGAAACCA
GTTGGTTCCGCAGTTTTAGAATTCTGCTGATCCCAAGTAGTCCAT
Found at i:185004 original size:12 final size:12
Alignment explanation
Indices: 184987--185012 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
184977 ATCAAGTCCG
184987 AAGAGGGGAAGA
1 AAGAGGGGAAGA
184999 AAGAGGGGAAGA
1 AAGAGGGGAAGA
185011 AA
1 AA
185013 AAGTTTCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (12 bp):
AAGAGGGGAAGA
Left flanking sequence: Indices 184487 -- 184986
GTCCACTAATTTTAAATCTCTGTTTTTGTATTCTCTAGGAATCCGGGTCTGGATCAATATTCATT
TTTCAGTAGCAGGTGTCTATGGGAAAACAATTATAAAATTACCAGGGCGCCTCTATATTAATAGA
TGCGCTCTGATCAGAGCTGCACTGCTCTTCTTTGTTGCTTTTCTTTTCTACTTCATGTTGTACCT
AGTCTTTATGACAGGAGGAGGGGGTGAACTGTGGAAAGCAGTTAGCCAGTTTTTGGGGGATGCGG
GGGGAAGTAATAGTACCCCCCCCAATCCGGGCCACGATCCTGCGGGATCCTCAGACCTGCTCGTG
GCTGCGGGCGCGGGGAACCAACCCCAAGAGGGGGAAATGCTAGTAATTCCTTCTCCCGAAATCTC
TCAGGGAGAATTGCTTGGGGAAGCGGATGCAGCACCTGCTGGCCCAGAAGCGGATGCAGTATCCG
AGGAGGATGAGGATATAGAGACATGGCTCGACAGGATCAAGTCCG
Right flanking sequence: Indices 185013 -- 185512
AAGTTTCAAAGCCCCTTTCTTTCGGACTTGAATAAGATTATCAACCTGCCGTCGAAGGGCAGGCG
TTTTCGGCCGGGCCAGCCGGAACTTGACTCAGCAGATCTTTTTCTTCTAAATTTTTGGAAGAAGA
AGATCTTAAAGCTCCTTTGTAGCAAGGAGTTACGCTCCCCCATCAAGGTAAGCAAGGGGCAATGG
GAGGCCGCATTGGAAAAGCTCCTAGAGGGAAAGGGCCCTTATGATTGGTTAGCTGCCGGGAAGGC
CCTAGGGAGAGAAAGGGAAGGGTGCCCTTTCTTTCGTCGATTAGTGGATGAGGTGGAAAGAATGA
AATTATGCCAAAAAAGAAAAAAAGGGTAAACGAAAACCACCTCGACCGGATCAGAGTAAACAACA
ATGTCGAATCAGGCCGCCCCTTGCCTTGAAAGAATTCACACGCGGCCACCAGCTTTCCAAAAAGA
GGGGGAGATCTGCTGCTTACTGCTCACGGAAACACTAGATTTCTT
Found at i:199873 original size:23 final size:23
Alignment explanation
Indices: 199843--199889 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
199833 CCTCTTCCTC
199843 TTCCTTACAGTCGAGATACTACG
1 TTCCTTACAGTCGAGATACTACG
199866 TTCCTTACAGTCGAGATACTACG
1 TTCCTTACAGTCGAGATACTACG
199889 T
1 T
199890 AACCTCACAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.32
Consensus pattern (23 bp):
TTCCTTACAGTCGAGATACTACG
Left flanking sequence: Indices 199343 -- 199842
GAGATGACTGGTTTATCGATACACTCGAGTAGACAACAAGCCCAACTTATTTAGCCTCTATCGCG
CAAAAGGGACTCCTTTTCTTTATAGGTGTTATCGTTACATTCAAGCCTAAACCTAGGGTACAAGA
TCAAAAAGAATGCATTGGAACAGATCTGCAAATATCTCTTGACCTGTGGACCTGTCTCACGTGCA
AAGAAACCGGAATTCATGAATAAGTCAAAAAGCACCTCGTATGTGAAATATCTCTTTTGTGTTCC
TGGAGTACATATCATTCATCTGCAAAGAAACCAGATCCAGCCGTATGATGCGAAAGAGCTAGAAT
TCGAACTCTTCCAACGGGTATACTATGTATGGCAGATCAAAGATCGTAGGCTTCCTATTCTTGCT
TTTATCGTTCGTATACCATTTCTTACGTGGTTACTCACTTGCCATAGAACAGGACTCTAAACTAG
CCATTACCCTGAGCTCTAGTTCTCAGTCGGCGAAGCCTCTTCCTC
Right flanking sequence: Indices 199890 -- 200389
AACCTCACAGCTTATATACTCTTTCTATAAGACCGTAGGTGCATAAGAAATCTCTTAGATAAGAA
ACCACGCTTTTTGCTTGAAATGCGATAAGTAACTGTTTTCGTCTTGGGTTGGTGTTCAAACAAAG
ACAAAGACAGTGGACTCTGAAACAAATGATTTCGCCGCATCTAAGAATTGGGGTGAAGTCGTAAC
AAGGTAGCTGTAGGGAGAACCTATGGGCTGGATTGAATCCTTCTTTTTTTCCGGTATGCCGCTCC
GCGAGCAAGGAGCGATAGAACCAAGCGGGCTGTGGTGATGTCAGAATTTGCACCTATTTGTATCT
ATTTAGTGATCAGTCCGCTAGTTTCTTTGATCCCACTTGGTGTTCCTTTTCTATTTGCTTCCAAT
AGTTCGACCTATCCAGACAAATTGTCGGCCTACGAATGTGGTTTCGATCCTTTCGGTGATGCCAG
AAGTCGTTTTGATATACGATTTTATCTTGTTTCAATTTTATTTAT
Found at i:246959 original size:33 final size:33
Alignment explanation
Indices: 246922--247001 Score: 151
Period size: 33 Copynumber: 2.4 Consensus size: 33
246912 CACCCCCGAG
*
246922 GTGGATTGTACGCTGCGTCTGGGTCAACCAGAA
1 GTGGATTGTGCGCTGCGTCTGGGTCAACCAGAA
246955 GTGGATTGTGCGCTGCGTCTGGGTCAACCAGAA
1 GTGGATTGTGCGCTGCGTCTGGGTCAACCAGAA
246988 GTGGATTGTGCGCT
1 GTGGATTGTGCGCT
247002 TCACAGGGTC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.17, C:0.20, G:0.36, T:0.26
Consensus pattern (33 bp):
GTGGATTGTGCGCTGCGTCTGGGTCAACCAGAA
Left flanking sequence: Indices 246422 -- 246921
AAGCAAGGCAGCCGATAAGTCATCGAAAGGTTTGTGTGAATAATGGAATGGTAAGCATTACTCAT
TTTAAAGTGTCCCGCGGTGATATAATATCTTTTCTTGAAAATGACGCGAGAGCCCGCGGTGAAGA
AATAAGGAGATCCTTCTATATCGAAATCTCAGTTGAAAAAATAATAGGCAAATTCCGGGATCACC
CGGTAAGAATGTGGAGAAGAACCAAAACAGAATGGTTCCGCCTACTCAAAACTAAGAGGGGATGC
CGCCTACTACTAAAAGACCGGTTTTTGCAACATACGGATAAAATTGCTTCTTACCCTTATTATTA
TGCGGTTGGGGTTTTGCTTCAACGATGGCTTTTTAAATTGCTTATGGTGTATTTGATTCTCAACT
CCTTAGGAATGGTAATAATTAGTCTAGCGAATTTGTTTCCATCTATTGCTATTGTCCCGCATATT
TCAGGGCTTGTCGCGCCCCTGTACATGGTTCCTGGCACCCCCGAG
Right flanking sequence: Indices 247002 -- 247501
TCACAGGGTCGAACAAGCGCCCTCTTTTAATTTTAAGGAACTTGGGGGCGGTGAAGGACCCTCTT
CCTCCGAAGGAGCGGCAGTGCATGGAGAGGTGGGTCGGCCTCCCTTCCACCTGGAGCTTGCTCCT
CTTATTGAAACTAAACTACGCCAATACTGTTTGCGCCGGAAAACTGTTGAGTTATTTCCAAGTTC
CAATCTTAGCAACCTGGATTATAAGAAGCTATCACTTGACTTTGTTGAAAGATACAAGGGCAAGA
TGATCTCGGAAAACCAGTTAGACGAAAGAAGGACACTCTATAGTTCCCTGTACAGCTGTGATAGC
GTCTTGTTTACTTTTCTAAAGGAGAAGTTCTAAAGATGGCCCAATTTCTCTTCTTTCTTTTTAAC
CTCGTTAGCTCAGCGGTAGATTTGTTGAATAATAGCAGCCGGTTGAGATATTTCGTTTTCGAATT
TCCTGCTATTGCGTTCCTTTCATCGAAAGCCTGAGAGAAGCGGGA
Done.