Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_072104
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: 165273
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Found at i:37 original size:12 final size:11
Alignment explanation
Indices: 1--53 Score: 52
Period size: 12 Copynumber: 4.5 Consensus size: 11
1 TAGTATTATTTA
1 TAGTATTA-TTA
* *
13 AAGTATTAATA
1 TAGTATTATTA
24 TAGTATTCATTA
1 TAGTATT-ATTA
*
36 TAGTAGTTATAA
1 TAGTA-TTATTA
48 TAGTAT
1 TAGTAT
54 ATACTTATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
11 9 0.26
12 23 0.68
13 2 0.06
ACGTcount: A:0.40, C:0.02, G:0.11, T:0.47
Consensus pattern (11 bp):
TAGTATTATTA
Left flanking sequence: None
Right flanking sequence: Indices 54 -- 553
ATACTTATAATAGTTCTTTAAAGAGTTATTATATAATATACTATATTCATTAATGTATTAATTAT
ATACTATATGAATTAACTACTTTAAAGAAACTATTCATCTATCTTAATCAAACACGAAAGTCAAG
ACAAAAAAATCTGTCTATCCCTTTGAAGGTGGAGCTTCGCGGGGATCGTACGTCAGCCAAGGCGT
TAGACCGGAGCGCGTCCCTGCAGGTGAATCTCTCAGCTTCTGTTCTTTCTGTCCCTCCTCGGTGC
CTCTTCCTGGCTACTCCACTCCAAGGGTGCCACAAACACAGCTTGTACTGGCTAAACATCTCCTA
TCTTTCCATTTGAAGGAGTCTATCCCACTGCTTGAGTCTGACAAATGTCTGACACTACTATATCG
GACGTAAAGTCTTGCCCAGCCTCACTGAATTGAATGTTCTTGCCATAGTTAATGTATGGTCTCTT
GTCTCGATGAGGGCTGGTGCTCTAATACTAGCAGCTCTCAGGTGG
Found at i:40 original size:23 final size:24
Alignment explanation
Indices: 1--53 Score: 58
Period size: 23 Copynumber: 2.2 Consensus size: 24
1 TAGTATTATTTAAAGTA-TTA-ATA
1 TAGTATTATTTAAAGTAGTTATA-A
*
24 TAGTATTCA-TTATAGTAGTTATAA
1 TAGTATT-ATTTAAAGTAGTTATAA
48 TAGTAT
1 TAGTAT
54 ATACTTATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 14 0.54
24 11 0.42
25 1 0.04
ACGTcount: A:0.40, C:0.02, G:0.11, T:0.47
Consensus pattern (24 bp):
TAGTATTATTTAAAGTAGTTATAA
Left flanking sequence: None
Right flanking sequence: Indices 54 -- 553
ATACTTATAATAGTTCTTTAAAGAGTTATTATATAATATACTATATTCATTAATGTATTAATTAT
ATACTATATGAATTAACTACTTTAAAGAAACTATTCATCTATCTTAATCAAACACGAAAGTCAAG
ACAAAAAAATCTGTCTATCCCTTTGAAGGTGGAGCTTCGCGGGGATCGTACGTCAGCCAAGGCGT
TAGACCGGAGCGCGTCCCTGCAGGTGAATCTCTCAGCTTCTGTTCTTTCTGTCCCTCCTCGGTGC
CTCTTCCTGGCTACTCCACTCCAAGGGTGCCACAAACACAGCTTGTACTGGCTAAACATCTCCTA
TCTTTCCATTTGAAGGAGTCTATCCCACTGCTTGAGTCTGACAAATGTCTGACACTACTATATCG
GACGTAAAGTCTTGCCCAGCCTCACTGAATTGAATGTTCTTGCCATAGTTAATGTATGGTCTCTT
GTCTCGATGAGGGCTGGTGCTCTAATACTAGCAGCTCTCAGGTGG
Found at i:133 original size:28 final size:29
Alignment explanation
Indices: 80--134 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
70 TTTAAAGAGT
**
80 TATTATATAATATACTATATTCATTAATG
1 TATTATATAATATACTATATGAATTAATG
*
109 TATTA-ATTATATACTATATGAATTAA
1 TATTATATAATATACTATATGAATTAA
135 CTACTTTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 18 0.78
29 5 0.22
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.47
Consensus pattern (29 bp):
TATTATATAATATACTATATGAATTAATG
Left flanking sequence: Indices 1 -- 79
TAGTATTATTTAAAGTATTAATATAGTATTCATTATAGTAGTTATAATAGTATATACTTATAATA
GTTCTTTAAAGAGT
Right flanking sequence: Indices 135 -- 634
CTACTTTAAAGAAACTATTCATCTATCTTAATCAAACACGAAAGTCAAGACAAAAAAATCTGTCT
ATCCCTTTGAAGGTGGAGCTTCGCGGGGATCGTACGTCAGCCAAGGCGTTAGACCGGAGCGCGTC
CCTGCAGGTGAATCTCTCAGCTTCTGTTCTTTCTGTCCCTCCTCGGTGCCTCTTCCTGGCTACTC
CACTCCAAGGGTGCCACAAACACAGCTTGTACTGGCTAAACATCTCCTATCTTTCCATTTGAAGG
AGTCTATCCCACTGCTTGAGTCTGACAAATGTCTGACACTACTATATCGGACGTAAAGTCTTGCC
CAGCCTCACTGAATTGAATGTTCTTGCCATAGTTAATGTATGGTCTCTTGTCTCGATGAGGGCTG
GTGCTCTAATACTAGCAGCTCTCAGGTGGGTCTACTATCCCTTCTACTCCAGCCTTAAAGGCCTG
GTTTCGTCTGGTAAGCTCTCTATACTATATATAGATACAGCCCTC
Found at i:2225 original size:26 final size:21
Alignment explanation
Indices: 2163--2223 Score: 122
Period size: 21 Copynumber: 2.9 Consensus size: 21
2153 GCCATAAGCC
2163 CGAGGGGAGGGAGAGTGGAAG
1 CGAGGGGAGGGAGAGTGGAAG
2184 CGAGGGGAGGGAGAGTGGAAG
1 CGAGGGGAGGGAGAGTGGAAG
2205 CGAGGGGAGGGAGAGTGGA
1 CGAGGGGAGGGAGAGTGGA
2224 GTTACCAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.28, C:0.05, G:0.62, T:0.05
Consensus pattern (21 bp):
CGAGGGGAGGGAGAGTGGAAG
Left flanking sequence: Indices 1663 -- 2162
CTCGGGGAGTTGGAAAAAATATGTAAATCTTGAATCCCCCCAACCCGAACCATCCACAGCCCAAA
GTCGGCCGCAGCAAGAAGGCGCTCCAGTTGTTATCCCCCGAGAGGCCCAGCCTCTTCTCTCGGAG
GAGACCCGAACGTCTCTCCTGTATAACCGCTATCTCCTCCTGAATTTCGGGGAGAATGGTGGGGA
CCCACGACGGATGGTTTCCATTATCGACGCCCAAGTCATAGTGGAACGAGAGATCGAGGCGGCAT
TGGTGGATGATGGGTTTACTCCTCATTCCATTCTTGCTAGATATAGCGAGATTCGGGGGCTTCTC
CATTCTCCGCAAGGGGAGCTTTTGAGTCTGCGTACATATCAATCGTACGTAACTCAGATAAGGGA
ACATGGCACCCGAGAAAGCGTTCCCTATCGCCGGATTATGAGAGCCATCCAGAACTATGATCTCT
TTTTAGAACGATGATCTGATCATAGTGGGGTATTGGCCATAAGCC
Right flanking sequence: Indices 2224 -- 2723
GTTACCAAAATACGAAGTCCCGTTCCAAAACGCCAAATAAATAGATTTCAAATAGCAACGAACAA
TAGATAATAACTACAAGTGGACAGCGCATCTTTCTCAAAGGCACGGCATAACGACGAAACATAAA
GATCAATCCCAAAATCAGTATTCCAAAAAGCACGAGATTTCTATCTGTGGTGAGTCAGTCCACTC
TTAGAGATGAAAGCTGGATGCCAAACAAAGAAGCCGATGGAGGCGGGGGAATAGGTTTAGCATTA
ACGTCTTTCACCTCCAAACCTTGATTAGGAGGTTACAGCCTTGATTATGAATAGTCAGGATCCGT
GAATACGAATAAGCAGAGACAGAAAACCTGGGCAGCTAAGTAAAAAGAAAAAAACTCAAAACAAA
GGAAGTTTGTAAGTAAAATATTGATAGGGAGGTGGAAACAATGCCTATTATCACCTGCTGGCAGA
GAGGTACTTATTAAGGCAGCAGCCTTTGCCATACCTGCTTATCCT
Found at i:16502 original size:25 final size:25
Alignment explanation
Indices: 16450--16504 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 25
16440 TCTTTAAGTA
*
16450 TTAATATAACTCTATATAGTATTCT
1 TTAATATAACTCTATATAGTATTAT
16475 TTAA-ATAACTCT-TATAAGTATATAT
1 TTAATATAACTCTATAT-AGTAT-TAT
16500 TTAAT
1 TTAAT
16505 GTATTAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 3 0.12
24 13 0.50
25 10 0.38
ACGTcount: A:0.40, C:0.09, G:0.04, T:0.47
Consensus pattern (25 bp):
TTAATATAACTCTATATAGTATTAT
Left flanking sequence: Indices 15950 -- 16449
TTGTTCTTTGCCATAACGCCCATTCCGGGACAAGTTGGCAGAACACTTCCGTCGGCCTACACTAA
AGATTATGTGCAGAAGTTGTTCATCTGGGGGTCCAGGTGTTTTTTCTGGGGCCTTGTGGCTAGGG
GTTTGCTCTTGGTGGGATTGATTGTTCTTTATCCAAAGAAATTTCGAGTGCATAGTAGGCGACCT
GCTGAAAAAGAAGATAAAATCCCCACTTTGCCAGCCCCACATCTAATGAGTAGAACAGTAAGACA
ACCAAAGGAACGTAGTCCAAATCAAAGATATAGATGAAGATAGATAATAAAGAAATTATATAACA
TAGTAATCCAAAATGGATTCCCTTTAGATAGATAGTACATATTATGCTACATATAAAGCATAGAA
GAATCAGGTGCCTCTTCCTGACATCACTTCTTTTAGATTTTAAATAAAAGAAAAAGCAGGATAGT
TGGGCAACAACCAACCGGCTATTTAAAACAAGTCTTCTTTAAGTA
Right flanking sequence: Indices 16505 -- 17004
GTATTAATATATTCATATTATTCTAGTAGTACTGAACTGCAATTTTATGAAAAAAAAAGCCCCTT
TGAACCGATGACTTACGCCTTACCACGGCGTTACTCTACCACTGAGTTAAAGGGGCCCCTCTTCC
CTTCAATTTCTGAATGAGTTAATACAACCATTAGATAGGAACAAATTTGATAAAATCCCGTCACA
AGTTCTTTCCTGAAAAATGTTCTACAAAATGAAGATAGAAAGCTGAGCGATGTCCGTTTTGTTGC
AGATCTTGTAGCCAGTACTGAAGAGTATGTTCCAATACCGCTTTCTCAAACTGTGTTCCGGGGTC
AGAGAGATTTAATATAGTTAATTGATCAGTAATGAATTCCACCTTATGGCACGCTCTGGAAAGGG
GGATTCAGTCAATATCTGATTGAGGCGATCCGGCGTTTCGCTTATCAACAAATTAAAGAGTTGCT
CTAACAAATCTGCTTTCATCTCCAAGATACTAATATCAAAAAGCT
Found at i:23114 original size:28 final size:28
Alignment explanation
Indices: 23082--23135 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
23072 AGGTACTGGT
*
23082 ACTAAACTCCCGATTCAGTAGGCTAATG
1 ACTAAACTCCCGATCCAGTAGGCTAATG
* *
23110 ACTAAACTCTCTATCCAGTAGGCTAA
1 ACTAAACTCCCGATCCAGTAGGCTAA
23136 CCACACTACC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (28 bp):
ACTAAACTCCCGATCCAGTAGGCTAATG
Left flanking sequence: Indices 22582 -- 23081
CTTAGAGACTGAATTCGAGTAGCGGATAGGTAGGCCTTTTGCTTATTACCTGGCGCAATGCTTAT
TACATAATGTGCTTGTCGGATCGGGGAAAACATTGCATTAGTAGATCCACCCGGTCAGTCAGTGC
TCGAGTCAGTTACGTTGTTTTCTCGGTATCATTCATTCACGCTTCGCTCACACCCTCGGAAAATG
GCTAGTCAACATTCCTCTGAAGCTTGTCTCGGAACTGGAAAAATGGCTTCAGCATAATATGAAAT
GGGAGGCTTCCCGATTCTAATTAGCTTGTCAATTCGTACTGCCGGGACTGCACGCCCAACCCATT
AGAAGTGAGGTCAGATAGCCTCTAGAGACTAGTTGGTAAGGCTGGTCCAGTAGTTCAGGTAGCAC
CGGTAAGGGTAGGTATCTATCTAGCTATAGTTCGGGCATCCTAATAAAGCTAGCTAGTGTTAGGG
ACAACGGCAAAGGAAAGGTACCAACGGAAACTTTTAGGTACTGGT
Right flanking sequence: Indices 23136 -- 23635
CCACACTACCATAATGATAGCGCTTTTAGGCACTGACTACAATTGACGTTACCTTCGATAAAGTC
GTAAGCCCCTTTAGAGTAGAGATAGGGGCGGAGCGCTAAGAAAGAGAAAGCGTTATCACTATACG
AAATGAAGCAGCGGCTAGCACGCTAAGATCAACCAATATTCAAACGCTATTCCTTTCTTTCTCGG
TCGTCTGTCTTAATAAGTTAAGTGGATTCCGATTCATGCGGTCATTCTCTGCTGCATTGGTGTTT
TCACTTCCCACTCTCCACCATAACAAAATGTTTCCACTATATCTCAGGAGTAGTCAAAGAAAGTA
CGGCGGGTCCAAGTAGGATAAAATGCACTAAAAAAAGATTAGAACTTTCGGACTCTTTGGCAACT
AACATTTCTTTAGAGTCTTTTATTAATTTCGATAATACTAATACAGAAACTACTATGAATGCAAT
CCAGAAGTATACATCTTTGCCCAAGAAGAATTGACTTCCTTCTGG
Found at i:33431 original size:23 final size:24
Alignment explanation
Indices: 33411--33493 Score: 81
Period size: 24 Copynumber: 3.7 Consensus size: 24
33401 ACCTCTTTAT
33411 TAACTC-TATATAGTATTCTTTAAA
1 TAACTCTTATA-AGTATTCTTTAAA
*
33435 TAACTCTTATAAGTATATATTTAAA
1 TAACTCTTATAAGTAT-TCTTTAAA
*
33460 T-A-TATTAT-A-TA--CTTTAAA
1 TAACTCTTATAAGTATTCTTTAAA
33478 TAACTCTTATAAGTAT
1 TAACTCTTATAAGTAT
33494 ATATTTAATG
Statistics
Matches: 48, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
18 7 0.15
19 1 0.02
20 5 0.10
21 3 0.06
22 3 0.06
23 5 0.10
24 12 0.25
25 12 0.25
ACGTcount: A:0.41, C:0.10, G:0.04, T:0.46
Consensus pattern (24 bp):
TAACTCTTATAAGTATTCTTTAAA
Left flanking sequence: Indices 32911 -- 33410
GAGAGAACAAGCAGAAGTGATCTTCTTTCTCTTTTATATGATAGGACTGCTGCCACTTCCTTATT
ACCATTTAGACAATCTCCGATCTACGAATACCCTGGGTCAGGAGATTCTTATTAGTGGAAAATAG
CCCTAGCTAGATTCACTCCCGGTTAAATAGTGGCTACGCCCCTTGGTTTCAGCTTTCTTGTGAGT
TCAAATCTTTTCTGTGGTGAGGTTGACTATGTCCCCAACTTCTCTTTATTAAGAAACTCGGTTGT
GTACTATAATTATAATAAATAGATTGTACCCTAAGCGCTGATCCCAAAGAAAGCAGTTGGCTCTT
CCTGCATCCATGCATAAAGAATTAGTAAGTAGGGTCCTCGAAGCCCGCCCGCCAACCAAAGGGCT
AAGTCGAGTGATTCCTCTTGTAGGGGATCGTAGCTAGCTATAGTATCACACGATTCTTTCATCTT
CTTTTCACATTCATTCTCGGCCGTCTAGCTATAGGACCTCTTTAT
Right flanking sequence: Indices 33494 -- 33993
ATATTTAATGTATTAATAAAGAATACATTAATGAATATATACTATATATAGTTAATAAAGTACTT
ATAAGAGTTATTTAAAGAATACTATATAGAGTTAATAAAATATAGTATATTATATAATGAATATA
TACTTTATTAATACTTTATAGAATATATTAAATAACTCTTTAGTCTTAGTCATTCATTCGGGCAG
AACCGGGTAACCAAATCACGGTTCTTAGGGGGAAGCTTCAGGATGATAATCCTGAAACGCGGGTT
CGAATCCTGCCACCTTTCTTGTGGATCATCCTGTGGTTACCGGATGATGGGAATAACAAAGCAGA
AATTTTTAAATGAGCACGAAATGTTAATATATGAATTGTTTCATTATTCGTTATTTCCGGGTCTT
TTCGTTGTATTCATTTACAACAAGAAACAACCACCAGCGTTTGGTGCAGCACCTGCATTTTGGTG
CATTCTTCTTTCTTTTCTTGGTCTTTCGTTCCGTCATATTCCTAA
Found at i:33438 original size:24 final size:25
Alignment explanation
Indices: 33411--33501 Score: 85
Period size: 25 Copynumber: 4.0 Consensus size: 25
33401 ACCTCTTTAT
*
33411 TAACTC-TATATAGTAT-TCTTTAAA
1 TAACTCTTATA-AGTATATATTTAAA
33435 TAACTCTTATAAGTATATATTTAAA
1 TAACTCTTATAAGTATATATTTAAA
33460 T-A----TAT---TATATACTTTAAA
1 TAACTCTTATAAGTATATA-TTTAAA
33478 TAACTCTTATAAGTATATATTTAA
1 TAACTCTTATAAGTATATATTTAA
33502 TGTATTAATA
Statistics
Matches: 55, Mismatches: 1, Indels: 21
0.71 0.01 0.27
Matches are distributed among these distances:
17 6 0.11
18 7 0.13
19 1 0.02
20 3 0.05
23 3 0.05
24 12 0.22
25 17 0.31
26 6 0.11
ACGTcount: A:0.42, C:0.09, G:0.03, T:0.46
Consensus pattern (25 bp):
TAACTCTTATAAGTATATATTTAAA
Left flanking sequence: Indices 32911 -- 33410
GAGAGAACAAGCAGAAGTGATCTTCTTTCTCTTTTATATGATAGGACTGCTGCCACTTCCTTATT
ACCATTTAGACAATCTCCGATCTACGAATACCCTGGGTCAGGAGATTCTTATTAGTGGAAAATAG
CCCTAGCTAGATTCACTCCCGGTTAAATAGTGGCTACGCCCCTTGGTTTCAGCTTTCTTGTGAGT
TCAAATCTTTTCTGTGGTGAGGTTGACTATGTCCCCAACTTCTCTTTATTAAGAAACTCGGTTGT
GTACTATAATTATAATAAATAGATTGTACCCTAAGCGCTGATCCCAAAGAAAGCAGTTGGCTCTT
CCTGCATCCATGCATAAAGAATTAGTAAGTAGGGTCCTCGAAGCCCGCCCGCCAACCAAAGGGCT
AAGTCGAGTGATTCCTCTTGTAGGGGATCGTAGCTAGCTATAGTATCACACGATTCTTTCATCTT
CTTTTCACATTCATTCTCGGCCGTCTAGCTATAGGACCTCTTTAT
Right flanking sequence: Indices 33502 -- 34001
TGTATTAATAAAGAATACATTAATGAATATATACTATATATAGTTAATAAAGTACTTATAAGAGT
TATTTAAAGAATACTATATAGAGTTAATAAAATATAGTATATTATATAATGAATATATACTTTAT
TAATACTTTATAGAATATATTAAATAACTCTTTAGTCTTAGTCATTCATTCGGGCAGAACCGGGT
AACCAAATCACGGTTCTTAGGGGGAAGCTTCAGGATGATAATCCTGAAACGCGGGTTCGAATCCT
GCCACCTTTCTTGTGGATCATCCTGTGGTTACCGGATGATGGGAATAACAAAGCAGAAATTTTTA
AATGAGCACGAAATGTTAATATATGAATTGTTTCATTATTCGTTATTTCCGGGTCTTTTCGTTGT
ATTCATTTACAACAAGAAACAACCACCAGCGTTTGGTGCAGCACCTGCATTTTGGTGCATTCTTC
TTTCTTTTCTTGGTCTTTCGTTCCGTCATATTCCTAATAACTTAT
Found at i:33589 original size:24 final size:22
Alignment explanation
Indices: 33532--33597 Score: 73
Period size: 24 Copynumber: 3.0 Consensus size: 22
33522 TAATGAATAT
*
33532 ATACTATATATAGTTAATAAAG
1 ATACTATATAGAGTTAATAAAG
*
33554 -TACT-TATAAGAGTTATTTAAAG
1 ATACTATAT-AGAGTTA-ATAAAG
33576 AATACTATATAGAGTTAATAAA
1 -ATACTATATAGAGTTAATAAA
33598 ATATAGTATA
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
20 3 0.08
21 10 0.28
22 5 0.14
23 4 0.11
24 11 0.31
25 3 0.08
ACGTcount: A:0.48, C:0.05, G:0.11, T:0.36
Consensus pattern (22 bp):
ATACTATATAGAGTTAATAAAG
Left flanking sequence: Indices 33032 -- 33531
GGAAAATAGCCCTAGCTAGATTCACTCCCGGTTAAATAGTGGCTACGCCCCTTGGTTTCAGCTTT
CTTGTGAGTTCAAATCTTTTCTGTGGTGAGGTTGACTATGTCCCCAACTTCTCTTTATTAAGAAA
CTCGGTTGTGTACTATAATTATAATAAATAGATTGTACCCTAAGCGCTGATCCCAAAGAAAGCAG
TTGGCTCTTCCTGCATCCATGCATAAAGAATTAGTAAGTAGGGTCCTCGAAGCCCGCCCGCCAAC
CAAAGGGCTAAGTCGAGTGATTCCTCTTGTAGGGGATCGTAGCTAGCTATAGTATCACACGATTC
TTTCATCTTCTTTTCACATTCATTCTCGGCCGTCTAGCTATAGGACCTCTTTATTAACTCTATAT
AGTATTCTTTAAATAACTCTTATAAGTATATATTTAAATATATTATATACTTTAAATAACTCTTA
TAAGTATATATTTAATGTATTAATAAAGAATACATTAATGAATAT
Right flanking sequence: Indices 33598 -- 34097
ATATAGTATATTATATAATGAATATATACTTTATTAATACTTTATAGAATATATTAAATAACTCT
TTAGTCTTAGTCATTCATTCGGGCAGAACCGGGTAACCAAATCACGGTTCTTAGGGGGAAGCTTC
AGGATGATAATCCTGAAACGCGGGTTCGAATCCTGCCACCTTTCTTGTGGATCATCCTGTGGTTA
CCGGATGATGGGAATAACAAAGCAGAAATTTTTAAATGAGCACGAAATGTTAATATATGAATTGT
TTCATTATTCGTTATTTCCGGGTCTTTTCGTTGTATTCATTTACAACAAGAAACAACCACCAGCG
TTTGGTGCAGCACCTGCATTTTGGTGCATTCTTCTTTCTTTTCTTGGTCTTTCGTTCCGTCATAT
TCCTAATAACTTATCCAATTACAACGTATTAACCGCTAATGCACCTTTCTTTTATAAAATCTCAG
GGACATGGTCTAATCATGAGGGTAGTATTTTATCATGGTGTCGGA
Found at i:66919 original size:16 final size:17
Alignment explanation
Indices: 66888--66923 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
66878 TCCTCCTAAA
*
66888 AGTATAGTAGTTATAAT
1 AGTATAGTACTTATAAT
66905 AGTATA-TACTTATAAT
1 AGTATAGTACTTATAAT
66921 AGT
1 AGT
66924 TCTTTAAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.42, C:0.03, G:0.14, T:0.42
Consensus pattern (17 bp):
AGTATAGTACTTATAAT
Left flanking sequence: Indices 66388 -- 66887
TTTAAGAATCCTTAAATCCTATAAAATAATTGTTCTGATATATCTTCTGAGAATCGTTTAAAATA
GAAGAATCCAAAAATCTTCTGTGGTAGAACAAAATATCTCCCATTTCCCCCCACATTTCATCAAG
TGGTCCTGCTAGAGACATAAACAGTCATATATAATCTGAGATGAGATTTATCCGAATGGGATAAG
GTTTATTATTGTAATATTTTATTTTCGTTCTCTTAATTTTATTAATTGAAGAAATAATTGGAAAA
TAAAACAGCAAGTACAAAAATCAGTAATAACCCCCAGGTACGATTCAATTCAACATTTTGTTCGT
TCGGGTTTGATTGTGGCGTAGCTCTATAATTCAGATTAGTTTCATCGTTGGATGAACTGCATTGC
TGATATGGAACCTAAAAAAAAAACGGTAGGTACGGCTAGTCCGTGAACAGCCAACCATCGTACAG
TAAAAATTGGATAGGTTCGATCTATGGTCATTGGATCCTCCTAAA
Right flanking sequence: Indices 66924 -- 67423
TCTTTAAAGAGTTATTATATAATATACTATATTCATTATAGTAGTTAAATATATTATATACTTTA
TTTACTTAACTTAAAAAGAAAACTACTGCGCTCATCTTCATATCTTAATGGGAACATTCGGTCAT
AGGCCATTTCCCCTTTCCATCCCATCGCCTTACAGTGTTTATGCCTGCGATCTATTACAAAAGTA
GGTACCGCACTCGGATCCCATTTCCAAGCCAAGGGAATTGGAGGTATCAGAGAAATGGATACTGG
TATTGTAGTAGTTAAAAGACCTATAAATTACATTCCAAAAGAGCGAAAGGAGTCAACGGTCTCAG
TCCTGGTATTCCGGGCAAGCCAGTCGGTGGTAGTCATTCCGGTGCTTCTAGTGACTTTCTTGCCT
GTCTTCTGTCTGTTTACAAATCGGATGTGGGAATTTAATATGATAGAGATCGTTTCAAGCCCTAT
GGCAAGTTGAGAGGGAAGATTTTCTATCCTTAACAATAGTATAGT
Found at i:90511 original size:23 final size:23
Alignment explanation
Indices: 90473--90519 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 23
90463 AATTAACTCT
90473 ATATAGTATTATTTAAAGT-ATTA
1 ATATAGTATTATTT-AAGTAATTA
90496 ATATAGTATTCA-TTAAGTAATTA
1 ATATAGTATT-ATTTAAGTAATTA
90519 A
1 A
90520 ATAACTCTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 4 0.18
23 17 0.77
24 1 0.05
ACGTcount: A:0.45, C:0.02, G:0.09, T:0.45
Consensus pattern (23 bp):
ATATAGTATTATTTAAGTAATTA
Left flanking sequence: Indices 89973 -- 90472
ACCCCTGGGGCACACGCTTTGACTTCTGCAGGAAGGGATTCGGGGCATGGGTTGACCGAACAGAA
CCTCATTTTATGGTATGGTTAGAAACGAAGTAAGAAGGCAAACACGAGGAAGATTGATAGTCATC
TTGCTTACCAGCAGCTATTGTTCCGATCTTGCTCCTATTTTGGTAATTACTGAATGAATACGAGC
TCCTTTTTCGGTGTCAGTGTGGTCAGCAGCAGCTGCACGAATGACCTTCTTCCAATCCCCTAGAG
TGGTTACTTCTATCCGCTGCTTCCCCGTCTTTCCTTGTTTAGCTGCTAATAGTAGATTAAGCACT
AAAGTCCTTACTCTACTATTATTCTTTAACTACTTAATTAATTACTGAAGCTAAGACTTAAGAGT
TCAATCTTCTATTATTAATACTATAATTAATACTATATAATATACTATATTCATTATATAATAGT
ATAATAGTATATATTCATTAATGTATTCTTTATTTAATTAACTCT
Right flanking sequence: Indices 90520 -- 91019
ATAACTCTATATAGAAATACAAGTACTTCACTGTAAGTAGGAGTACTTTTTTTACTTGATTTGCG
AAGCTTACAGCTTACTACACTCTTCTTTATTGATCGAGGTCTTCTTTCTTCTTTATTTTCAGCTT
CTTCCTTAGACGAATAGGCTTGATATCGTTATCACAAAAGAAAGAAAGAGATATATGAACCCTAA
GGTGAGCGAAAAGACCCCTTCGGGATAGTGTTCTTAGTCTTGGGCAATGAACTCAATCTATAGGA
TTTAGTTACAGCAATGAATATGAAAGATTAATTCATCCTATAGCTTGGGGCCGTAGCTGGTTGAA
TGACTTGATATTCTTCGCTCACAGCGATGAAAAAGCTGTAATCAATTCTATTCAAAGCTTAGGCT
TAGTCTAGGGCCGGGCAAAGTCCTTACTTCTTTCTTACTTAATAGGGCCTACGGGCTTAATTCAG
AATATTCCTTAGCTCGAGTCCTCTCCTCTCACTTCGTTCGAGCAA
Found at i:94595 original size:25 final size:25
Alignment explanation
Indices: 94537--94598 Score: 106
Period size: 25 Copynumber: 2.5 Consensus size: 25
94527 TCAGCTAAGG
**
94537 CCCTTTTGAAGCTTGCTTCTCAGCC
1 CCCTTTTCTAGCTTGCTTCTCAGCC
94562 CCCTTTTCTAGCTTGCTTCTCAGCC
1 CCCTTTTCTAGCTTGCTTCTCAGCC
94587 CCCTTTTCTAGC
1 CCCTTTTCTAGC
94599 CAGATAGCGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.10, C:0.39, G:0.13, T:0.39
Consensus pattern (25 bp):
CCCTTTTCTAGCTTGCTTCTCAGCC
Left flanking sequence: Indices 94037 -- 94536
TAGCCTCACTATAGTAGTCCGTCCGGCTGCTCTTGCAGAAATCATTACTCTTCATTCTCCCGTGC
TCTAGCAATTGCGCTCCCTAGACCACTACCATGTAGTTAGGTAGGGACAATCAATCCGTAGTGAC
GGGAATCTAGGAATGAATGGGGATCCGATTCACTAGCCCTGTCTCTATCCTTGGGGATCCCTATC
AATAAAAAAATAAAATAAAATTAGTTACACTGTCTTTCTCTCACTCAATAGATGTATCTGGTCTG
ATACGGTACAGTACAATATGAGACGCTGGAATGCAATGGGATGGATGGTAGAGGGCTGCCTGCGC
CCAAAAGCGATGATGAACCTGTCCCCTTGTCCATAGGGACCTCGTGGCATACAACCGAAACGACT
CCCGCTAGATAGCCGCCCCTTTTTCTCTTTTTACAGCCTCGTGGACGGACGAAAGAAGGGAAGTT
ACAGAACGGGGCAGTGAAGGAACGACCAACGGGAGTCAGCTAAGG
Right flanking sequence: Indices 94599 -- 95098
CAGATAGCGAGAAAGCAACAAGCAACGGATTGAGCTGCTGCTCGTAAACCACCGTTGCTCGTTAG
CTGCTAATAACATAGAAAGTAAAGGGGACTCTATCACGATCTTACGAATCTAAAGATCTCAAAAT
TGAAGAACGAGCTCGCCCCTATCTCTAAAGGGGCTAACGCACTTCACTCGCTAGGGGATGGGATT
CATTCACTTGCATTCCTGCTAGCACTACAAAAAGCTCCGGTCTTAACGCCCCTTCTTCTATCTTA
TGCTGTGCAGCCTTTCCTCGGGTTCGTAGAGTCGGGTTTCCCGTTTACCCACAACGGAGGAGCCG
CCCCCACCAGGCAGGCGGCCACGGGTCATAACGCACTCTTCGCACAACAAATCCACTTTGAAGTT
GACTTATTTGCTCGGCCAATCGTCGGAATGTGTACGAGATACCATAAGGGCCCAATATCTCAATA
GCACCTTTGTCTAAAGCTTCAAATGATACTTCATATCCGAAACGC
Found at i:98632 original size:16 final size:17
Alignment explanation
Indices: 98613--98649 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
98603 CAGGAAGAGG
98613 ACCAAAAAG-AAAGACC
1 ACCAAAAAGTAAAGACC
*
98629 ACC-AAAAGTAACGACC
1 ACCAAAAAGTAAAGACC
98645 ACCAA
1 ACCAA
98650 GATACGCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 5 0.28
16 12 0.67
17 1 0.06
ACGTcount: A:0.57, C:0.30, G:0.11, T:0.03
Consensus pattern (17 bp):
ACCAAAAAGTAAAGACC
Left flanking sequence: Indices 98113 -- 98612
GGGTTTTTTGTGCACGAAAGCCATTTTTCTCTTTTTTGGTGTTTTACTCTCGAGGGCCGAAGGAA
CTGAAGACACATGGATAGTTTAATGTGCTCATCAGCGCCTGACCCTGAGATGTGGATCATCCAAG
GCACATTAGCATGGCGTACTCCTCCTCGGAGTTTGAAACCAAACTTCTATCAGGAGGATAGATGG
GGCGATTCAGGTGAGATCCAATCCAACAATGTAGATCCAACTTTCTATTCACTATTCACGCGTGG
GATCCGGGCGGTCCGGGGGGGAAATAGGGAAGAGGAGATTAAGGATAGTCACTCCACTCCATAGA
TAGTGAACTTGTTTCATTTTCAATTCCTTTCGGGTCGAAAACGGCGGGGCACAATCCGGGGTCTT
TTTGAAATTAATCAATCAATTTTATAACTGAGTGGAGTTTTACAATTAGAATCGAATTCTAAACC
GGCGTGGCGATGCTGGATGCTTCTGATCAATAGAACAGGAAGAGG
Right flanking sequence: Indices 98650 -- 99149
GATACGCATAGTGATTCGATCTTTTGATCACCCATTTTTTGAAAACCTTTTTTGGGGGCTTCCGC
CTTACACACGGAAGATTGGATTGCCTGAATCACGAGTCTTATATACTGTGTTACGATCGCCTCAT
ATTGATAAAAAGTCCAGAGAACAATTTGAAATGGAAATAAAGAAAGAATTTCTGGTCATAAAAAC
AGAAAGGCATGAATTGCGCAAGAAGTTCTTTTGGTTAAAACGCCGTGCGACTCGGAGGACATAAG
ACTTCTTGGTCAAGCCAAAAAGATTGCCGACTGGATGCTCCTACCCCACCATGCCTGGCCCTTTA
CCTTACCTTAAGAAGAAAGAGGGGGGGTATGAAGCGTGGGAAACAATGCAAGAAGTGTATGATAC
AACAGGTAACCTTAAGTTAAGGAGTGGCGGCAAAACTCTTGATTGATCAACGCGAGTGAACTGTG
CTTAGACGCTTCGTAAAACCGCACCGATCTACGAGAGGAGTTGTT
Found at i:104820 original size:26 final size:26
Alignment explanation
Indices: 104784--104833 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
104774 GAGGAGCCGT
* * *
104784 ATGAGGCGGACTCACTTGAATGTGCA
1 ATGAGGAGGACTCAATGGAATGTGCA
104810 ATGAGGAGGACTCAATGGAATGTG
1 ATGAGGAGGACTCAATGGAATGTG
104834 AGAGCGGATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.30, C:0.14, G:0.34, T:0.22
Consensus pattern (26 bp):
ATGAGGAGGACTCAATGGAATGTGCA
Left flanking sequence: Indices 104284 -- 104783
TCCTGCTAATCCAGTCGCTCCCCCGGGGGAGGAAGCTGATCCATCTAATCGGACTCCACCTTTCA
GGCCCTTTCCGTATCAAGATGATGAAGTGATAGGAGGGACTTCGGTTCAGTCTATCCAGCAGGGA
CTCCTAGCCAAATACTCCTTTCCTTCTGCCGAGGTCATACGACAGGCCGAAATAGAAGCCCAAGA
CCTATTCGAGGTCAAGGTCGAGATTATCAGGGTCATGGCGGGCCTTGATCCAACGGGGGATTGGA
TGGGACGGGGAGCTCGAGCCCTCGAGAATCCCCGTACCGCCACTGGGGAAGAGTCCCTAGGGAAA
CTGTATCAGAAATTGGAGGACCTGAGCAGGGGCGGAATCAGATCCGAGACCTTTTGGGAATTAAA
AGGTAAGATTTTCCTTAGGGAAATGGATCCTCCTCAAAACTCTTCTACATAGCCTGTACAACAAC
CTTAACCGCACAAGCTGGGCCTATCTCCATCCCTAGAGGAGCCGT
Right flanking sequence: Indices 104834 -- 105333
AGAGCGGATTGGGGCGGCGCGCTTTGATTCTCCCGTTATACGCGATGTGGCGAAAAAGGCTGATT
CAATCGATCTACGTTGCCTGCATTAAGATTTAAAACCTGTCGTCTACTTCTAGGAAATGTTCGGA
ACAGAGAACTTACAATAATACAACGCCGCATTCTCCGAAGATTGAGGAACAAGAAGAGATCTATT
AAGAGAAAGATTTATCCGAGAAAAAATCTTAACAGTTACATCCAATCACAAACTACACGAAAGTT
GCCCCTTTTTCATGGGAATTTACCCATCACAGAGATGCACAGAGGAACAGAACGAACTTCATATA
TCCCCTTTCCACTCAATCCAGAAACAAGATCGGACGTTATTCTGGTTCGTCTCCATTTTCGTGAA
ACTATTCCTCAAGCAAGGCAGCCGATAAGTCATCGAAGGGTTTGTGTGAATAATGGAATGGTAAG
TATTACTCATTTTAAAGTGTCCCACGGTGATATAATATCTTTTCA
Found at i:117740 original size:15 final size:16
Alignment explanation
Indices: 117712--117748 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
117702 AAGAATTCCT
117712 CTAGTAGCTTCCTATC
1 CTAGTAGCTTCCTATC
117728 CTAGTAG-TTCCTATC
1 CTAGTAGCTTCCTATC
*
117743 CCAGTA
1 CTAGTA
117749 AGTGGCTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.22, C:0.30, G:0.14, T:0.35
Consensus pattern (16 bp):
CTAGTAGCTTCCTATC
Left flanking sequence: Indices 117212 -- 117711
TTTTCTATGTGGGTGGTAATCTTATTCAATAACCAGGCGGAAAGGCTATGTTTTCGATTCCGCTA
AATATTAAGTCCTTATAATCTCAGATGCGCGTAATCGTCTTAAGTAGATGTGGATAAGAGTGTGT
TTGAAAGGGGGTGTCATGCCAGAGGCTTCCCGAAAGCCAGTAAAAGTAAGGAGGTAGCTTGAGTC
AGTTGGAACGCTACGCCCTCGTAAGGCCGACACAGTCGTTACGCCGACATTGAAGAAGCTAAAAG
CTAACAGCTGCTCTTTCCACACCTCCGAAAGACTCCATCACTTGACACTTTTTTATTCACACCGA
AGAGCTAGTGCACAACTAGTGCCCAATGAAGACCCAAGCAATGCATCATAAGGGGAAGTGGAATT
TCGTGAGGAGGGGTGAGTTAGAAAAGCGCAAAGCCAGATAAGAATGTTTTAGATTTAGCACTGGT
AGTAGCTAGGCGTAGGATGTAGCTTTAGGATGTTTAAGAATTCCT
Right flanking sequence: Indices 117749 -- 118248
AGTGGCTAGGTTGTTAGAGAGCAGCAGACAATGTTGTTATAAAGAATTGTCCAAAAGTTTGACTT
GAACCTACTTTGCTAATAGAAGAGATAGAAGGGAAAGAGCTCTAATATGCCTTCCGTTTGCAGGT
TTGACATTCTCTTTAGCAAAGAAGAAAGCACTACTTCTTCAATGCCAGTGGTGTGAGGAAGTGAG
CTCGGGAAGTTAACTCCTTCACTCGTTCTCTTTGCCGCGAATTCCTTTTTGCAAGGTTCGAATTT
AAAAAATGAGCATACTCCTTGTTTCCTTTTGAAAGTGAGAAGTGATTGGAGTACCAAAACAGAAA
GCTTTTTCTAATTGAATGCATGGGTTCTCCGGTGGAATTAAGTTAGTGGTCAGTTAGTGCAAAGG
GGTTCCGGGCGGCAGAGGCAGACCGCCACATAAAAAAAAATCATATAAGAAAGCTCACAAGAGAT
CAAAGCGGCAGAAGAGAAAGGACCCCATTAAGAGGTTTGTTTCGA
Found at i:119758 original size:22 final size:21
Alignment explanation
Indices: 119702--119758 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
119692 ATATAGAATA
119702 TATT-ACTATATATAATACTT
1 TATTAACTATATATAATACTT
* *
119722 TAAATAACTCT-TATAAGTACTT
1 T-ATTAACTATATATAA-TACTT
119744 TATTAACTATATATA
1 TATTAACTATATATA
119759 GTATATATTC
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
20 1 0.03
21 14 0.48
22 14 0.48
ACGTcount: A:0.42, C:0.11, G:0.02, T:0.46
Consensus pattern (21 bp):
TATTAACTATATATAATACTT
Left flanking sequence: Indices 119202 -- 119701
CCGATCACCTTATATCATTTTGCTTCTAGAAGACTGCGAGCCTCAATTGCTTAGCAGGTTTAGCC
CCCTTCCAACTACATTGGAAACTCTTGCTTGCATACACTATATCTTAATAGTAAATGGCCACATC
CATCCCCTGTGAACGCACAGCTTTGTCCCATGTCCCAGGTCAAACCTCCCTCAATGGGAAGCTCT
CCCACTGGATCAGGATCAGTATGGGGATCCATCTTTGTTGTCGCACCACTTCTGTCTTATTCAAG
GCAGTAGTGTCTGGTCGTAGTAGCATAGCCGTGGGTGGGCAGTGCGATAGTCAGGGAGTTCAGGG
TAAGCTCATCTTCGGAAAGCGGTGTGTGAGACATAGGCGGTGAAAGCTATAGCTATATATATATA
AGAAAGCTTTTTTTACTGAAAACCCGCATACTTTAGGGTATGATGGTATGGTGGTTACTAATGAC
TTGCTTGTTATTTTAGTGAGGTAACAAGTAACTCTATATAGAATA
Right flanking sequence: Indices 119759 -- 120258
GTATATATTCATTAATGTATTCTTTATTTAATTAACTCTATATAGTATTATCGACAATTCTTGCA
TTTTTAGAGCAAGAAGCAAAACTAAAAGAAAGCTTTCTTTATCTTTAAAGTATGTATAAGCAAAG
GAACCAACGATTTTATCTTCTTAAACTTTTGAATGATTTGAACTTAGATGATTTAAATAAAAAAA
GAAGAGAAGAAGTTGCATTGAAAAGGAGAGAGGCTTTTGCTAAAAGAAAACGCTGGCGACCGCAT
AAAACTAATAAGGAACAAGATGCTGCAATCCGGGAATTGATTGCGTCCATGCATGCGACCTGTCA
AGATCTGAAAAGGGGAAAACGAGCAGACATCAAACGTTCTTGTTCTCGTAGAATTCGTCATCAAT
CGGATCTAGCAGAAAAAGGGGAAAGATCGGCCGAGAGCCCCCTTGAGCAATTTGAGATTTATCCA
TTGATTGATATGAAGATAGGTTACTTGTATTTCTCATTCACAAAT
Found at i:125996 original size:12 final size:12
Alignment explanation
Indices: 125954--126031 Score: 65
Period size: 12 Copynumber: 6.8 Consensus size: 12
125944 TTTATTTAAC
125954 TAATACTATAAT
1 TAATACTATAAT
* *
125966 TCATA-TAT-AC
1 TAATACTATAAT
*
125976 TATTA-TATAAT
1 TAATACTATAAT
*
125987 GAATACTATAAT
1 TAATACTATAAT
*
125999 TCATACTAT-AT
1 TAATACTATAAT
* *
126010 TAATACTTTAAA
1 TAATACTATAAT
126022 TAATACTATA
1 TAATACTATA
126032 TAGAGTTAAT
Statistics
Matches: 50, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
10 7 0.14
11 16 0.32
12 27 0.54
ACGTcount: A:0.46, C:0.10, G:0.01, T:0.42
Consensus pattern (12 bp):
TAATACTATAAT
Left flanking sequence: Indices 125454 -- 125953
CCTCTTCCGTCTCCTTTCCCTTTCCATCCTGAACCCGGAATGAATCGGAAGTCAGTTGAATCTTA
TTCATCCTATAACAAGAGATAGGCTGCGCATACAAGAGCTAGTTTCCCACTGGACTGTGATGAAG
GATTTTCCCCACCTAGGATTTGGCGTAAACGGGCATTGATGTCCATTGTATCCTAAGGTTATACC
CACAATAAGATTTGAGTTACTATTAGGTATTTTGATATCCAGAAATGGTTTCTCATCAGTATAGG
CGGTTGACAGTGCTGATATAGTATTAGCTTGATTTTCCATCAATGTCATCTTTTGAAAACCGGGG
TGAATATAAACATCAGGATTGTAAAAGAATTGTTCATAATTCTCTATTGGTGAGAACAAGCATGT
TTGTAAGGCATCAAAAGGAACCCCGGGAGTAAAACCATACCATACGGTACAACCAACGCCTAAGC
TGACCAGAACCAACCACATACATTTCTGACAAGTATTTATTTAAC
Right flanking sequence: Indices 126032 -- 126531
TAGAGTTAATTAAATAATACAAGTGGACAGCGCATCTTTCTCAAAGGCACGGCATAACGACGAAA
CATAAAGATCAATCCCAAAATCAGTATTCCAAAAAGCACGAGATTTCTATCTGTGGTCATTATAG
CGGTTCCTTCGGATCCTAGAAAACGTCCGAAAAAACTGGAAGCAAATAAAGTCATCAAGGGGAAA
AGTCGACGAAGGATAGCCATGGTATTCGTTTGGATTGGGGATATTTTCGGTACGACCAGCACTAC
GATTGTTCTATTTCATTTTCTTTTTCTTAGAAAGCACTAAGTTACTTACGGAATATTAAATCCTT
TCCCCTTGTCAATGATTGAACGGAAAAGAAGAATACACCAAAATGCAGGTGCTGCACCAAACGCG
GGTGATTGTACGAGCGCATACACCGAGAACACGGCATAGCCAGCCGCAGCACCCCTTATAAATAA
CAAGGCCATTGCGCTTGGCTGCTTTCTTAAGTGAATTGTGGTCAA
Found at i:138317 original size:20 final size:21
Alignment explanation
Indices: 138287--138325 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
138277 TACAAGAGTT
138287 ATTATATAATATACTATATGA
1 ATTATATAATATACTATATGA
138308 ATTA-ATAATATACTATAT
1 ATTATATAATATACTATAT
138326 TCATTAATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.44
Consensus pattern (21 bp):
ATTATATAATATACTATATGA
Left flanking sequence: Indices 137787 -- 138286
AAGTTAATTCTTTATGGAAATAAAGAATGCATTTTCCCCCCTTCGTCGGCCCTTGCCGCCTTCCT
TACCTACATCCAACTCAATCTGTTAAGAATATAGTTTCATTTGAATGCTAACTGAAAGTTGGATC
AATTATATCCCACTGAGCTCAAGAGATGAGGCTCCAGGGCAATGATTTATTTAGGAAGGACCCGA
AAGTGCCATATGCATATGAAAGGATTGAATTGACTAATTCATCCCATGTAGCCTATGCCTCAGTA
TGCCCATTCAGTCAAGCCAGTCGCAAAGCGGTCTTCTTTCTAAGTTCCCTTAAGTTCGTCTGCCC
AGTCAGTCGTTCTTTCCTATCTATTATTAATACTCTTACTATAATGAATACATTAAAGAATACAT
TAATTCATATAGTATATTATATAATAACTCTTTAAAGAACTATTATAAGTATATACTATTATAAC
TACTATAATGAATACTATATTAATACTTTAAATAATACAAGAGTT
Right flanking sequence: Indices 138326 -- 138825
TCATTAATGTATTAATAATAGTATTTGTTAAAGAGAAGTATTAAGTAGTTAAAGAAAGAAATCAA
TAAATCAATAGCATTCATAGGGTAGGGCACCAGCTCTTCGTCTTCATCTAATAAGGCATTAGACA
TGGGCAAGAGCCCTTCTAGCAGCAATCCTTGATCGAAGTGAAGGAAGCAGGTGAATCGTGTAAGA
GTGAAGCAGTAAAACAGGAAAGTAAGAAAGCTCGCCGCAAGGTCTAAGCGTGTATTCACTCCTCC
CTTCTAGTCTAATCTAGTTCTATTCTAGAATCCAGTTGAGAGAAGCATGTAAGGAAGGAACGAGT
GTAACGAGAATCAGAACGAGCGAGCAGAATACTTTCCACGATAGGTAAAAGTGGTTTGGTTAGGC
GGTCAGTCAATCGGCTTGATAGTTAGGAGTAGGTTTGTAAGTACTAGATCTCTTTCCTTCTAGCC
TTTCCGCACATCTTAGATCCTCTTCTGCCATCCAGTCTATCGAGC
Found at i:147867 original size:17 final size:17
Alignment explanation
Indices: 147822--147867 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
147812 ATAGAGTTAA
* * *
147822 TTAAATAAAGAATTTAT
1 TTAAATATATAATATAT
147839 TTAAAGTATATAATATAT
1 TTAAA-TATATAATATAT
147857 TTAAATATATA
1 TTAAATATATA
147868 CTTATAAGAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.43
Consensus pattern (17 bp):
TTAAATATATAATATAT
Left flanking sequence: Indices 147322 -- 147821
CCAATAAATCCCTGGGAACAATGAAAAAAAAAGATATCTCGGTAACGAAAACTATAGGGGGCTGT
ATTGGCGAGATCCAACGGTGAACTGCTGCCCAAAAGAAAAACCGCCTGGAAGTCCGAGGACCTTT
AGTACTGTACCCTACCCCCGAACCAGCAGCCTTCGCGCCAAGCTTCACCGCCCTTGTCCCTTTCC
TTTCTCCATTCCGCCTCCTTTCACCCTCTTTCTTTACAGCTTCGAGAAGAACGGGCACTCAAACC
TATCTTTCATCAACCAAGAAAGCAAGCCGGGAAGGCATAGAGTCGACGCAGTCAAGCAGGAAATC
CGTAATCGAGGGCAAAAAGGCATAATCAAAAGTACAGGCAAGAAGGCCAAGAGAATAGTATTAAT
TAACTCTTATAAGAATACTATATTAATACATTAATGAATATAGTATATTATATAATGAATACTAT
AATTCATACTATATTAATACTTTAAATAATACTATATAGAGTTAA
Right flanking sequence: Indices 147868 -- 148367
CTTATAAGAGTTAATTAAGTAAATAAAGTATAATATTAATAGTACTATAAAGAGAAGTATTACTC
TTGTACATACGAAGCTTCTTCAAAGCCCGTCCCACCTTTCTCTTATGTGCGATGCCTTCTATCCT
GCGAGAAGGGTGACCTGGAAGCACTCTTTTTATCCCTCATATGATATGAGATATATGATTTTAGG
CCCAGGCCCGAATATGATCGATAAAATGCACTCTTCCTCTAATGCCAGGGCTTGAAACAACTCAG
AAAGAGAGGAATCGCAGCAAAAGAACAACCTGCAGACGTGGCCGAGCACTCTCTGGGATCCTCGA
TCCCGCGTACCGACACCTAGGTCAATTAAGGATAAAATGTTGGAACCTCAAAATCTTTCAATATG
GCGCCGCTTTCCTCACCCACTTAAAGGGCGAAGTCGCCGAAGCGAGTCTAACAAAGAGTTCTCTT
TGAACGCTACTGCGCATCCCTACTCATAGTAGAGTGTAAGGTAGG
Found at i:152480 original size:23 final size:23
Alignment explanation
Indices: 152446--152491 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
152436 ATGCACTTAA
152446 CATAACAGTGCAGCCTATCTAGG
1 CATAACAGTGCAGCCTATCTAGG
*
152469 CATAACATTGCAGCCTATCTAGG
1 CATAACAGTGCAGCCTATCTAGG
152492 TGAGTTCGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (23 bp):
CATAACAGTGCAGCCTATCTAGG
Left flanking sequence: Indices 151946 -- 152445
AATATGGTTCGCGGAGCATCTGGCTTACCGGTAATCTCCCATTCCCGTCGTCGAGAGACTTTAAT
AACTATAGCATGCCAGAAACGGAGAGCTGAGGTGGTTAGACCTATACTCCGAAATGTTCCCAGCA
TAGGAGCCTATGGTTCCATTCTTGTTGTTGCTGGAGGGGGTGCTCTTCTCGGTGTGGAGCGATAT
ACGAGAAATAGGTGCTCAGCCTGCAATGTCCGATAACGGCGCTGAAGTAGTTCATCTATCGGTAC
CATAGCAGTGGCATACAACTTTGGGCCTAACGGCCGGCCCAGTAACCTTTCGGAATGGGGGATCC
CCGTTGGCAACAACCACGGTAGTAGTTGCGGAACTACTGGGCCGGGGGGGGGGGGACACCCTGTT
GTTCCTGCTCCTCTTTCTTCGCTTCGGGGACGGAGGTCCTACGGTAGGTAACAGCAGGCACAAGC
AACTTGACCGAAGGGGACCAGCGTCTTGGGGAAAAATGCACTTAA
Right flanking sequence: Indices 152492 -- 152991
TGAGTTCGTGTTTCGTATGCATGATCCCATTTCTCTCTTATTGAGGATTTGAATGGATCATGGCA
TTCTCGGGAACTCGGTATTTTTTAAAGCGGCATTCATTCTCCCTTTCATCGATCTTAAATTTAAA
TATGGAATTATCTCCCAGAGCTGCGGAACTCACGACTTTATTAGAGAGTAGAATTAGCTACTTTT
ATACTCATTTGAAAGTGGATGAGATCGGTCAAGTGGTCTCAGTTGGAGATGGGATTGCACGTGTT
TATGGATTGAACGAGATTCAAGCTGGGGAAATGGTTGAATTTGCCAGCGGTGTGAAAGGAATAGC
GTTGAATCTTGAGAATGAGAATGTAGGGATTGTTGTCTTTGGTAGTGATACCGCTATTAAAGAAG
GAGATCTTGTCAAGCGCACTGGATCTATTGTGGATGTTCCTGCGGGAAAGGCTATGCTAGGGCGT
GTGGTCGACGCGTTGGGAGTCCCTATTGATGGAAGAGGGGCTCTA
Done.