Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_065219
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: 285543
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Found at i:3512 original size:16 final size:16
Alignment explanation
Indices: 3491--3521 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
3481 ACGATCTCCT
3491 CTTTCTTATAGTTATG
1 CTTTCTTATAGTTATG
3507 CTTTCTTATAGTTAT
1 CTTTCTTATAGTTAT
3522 AGATAGACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.13, G:0.10, T:0.58
Consensus pattern (16 bp):
CTTTCTTATAGTTATG
Left flanking sequence: Indices 2991 -- 3490
ATTCGTTGTTCAAACAACTATTGAGAGTTCCTAAAGCCCCCTGTAAGGCTTGTTGAAAAACCCGT
TGTCGAACTTGATTAATTGCTCTTTGTTGTTCAAAATGAATGGTTTCATTTTTGTAATTTTCTAA
CTGTTCCAAAGTCTTAGAAGTTGCATTAATCAAATTTAATTTTTCTCGCTCTATTTCAGAGTATC
CAGTCATTCGAAACTGATTCGCTTCTATTTCTACTTTCCGTAAGCGGGCCCGGGCTTTTTCTAAC
TGGTTTAGGGCCCCCTCGCGTAATTCTTCTGAATTTTGAATAGTCTTCAAGATCCTCTGTTTTCG
ATTATCTAATAAATCACTTAACACCCCCCTTCCAAAAAAAATCAACACACCAAGCACTACGCTTA
GATTTATTAGATTGGTTGCAAAAATATCAGTATTAAACCCGAAACTTCCGGCGGATGGCCAATAA
CCCAAGGAAAGGAAAGAATCGGTTACATTTTTCATACGATCTCCT
Right flanking sequence: Indices 3522 -- 4021
AGATAGACTATTTATATTCTTTTATTATGAATTTCCCTATTTCTAAATAGAAAATACTAAATTGA
GTCAAAAAATATATTGATTTAGAAATGGTTTTTAATGGATTTTTTTCAATTGGAAATTTCCAATA
AGCCTGATACTTATTCGATTCGAATTAGGTACCAGGTCTTATACGGGTCAGTTGCGAAATACCTC
GTTTGTTACAATACAATTGCAATAATTCCTAAAAAAAGTTCGTCCATTGGACTAAGAAGGTAAAG
GAAAAAATGAGTTGTATCCTCATCCTCAAACCGGCGATTTCCGTGGGTTGTTGTTCCTAAGTAAT
TTAATTGTAGAAGTTAAATATTAAAAGAATTTGAAAAAAACAAGAGCAGCAAATCCACGGAAATA
AACAAAAATATGTGTTTTTAGGATTAAACAAAAGGATTCGCAAATAAAAGAGCTAATGCTACAAC
CAGCCCATAAATTGTTAAAGCTTCCATGAAAGCTAGACTAAGCAA
Found at i:11842 original size:10 final size:10
Alignment explanation
Indices: 11827--11861 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
11817 AACTCCCACG
11827 CTTTCCTTGT
1 CTTTCCTTGT
11837 CTTTCCTTGT
1 CTTTCCTTGT
*
11847 -ATTCCTTGT
1 CTTTCCTTGT
11856 CTTTCC
1 CTTTCC
11862 ATGTTATCCG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.03, C:0.31, G:0.09, T:0.57
Consensus pattern (10 bp):
CTTTCCTTGT
Left flanking sequence: Indices 11327 -- 11826
GTGCGCTTGACAAGATCTCCTTCTTTAATAGCGGTATCACTACCAAAGACAACAATCCCTACATT
CTCATTCTCAAGATTCAACGCTATTCCTTTCACACCGCTGGCAAATTCAACCATTTCCCCAGCTT
GAATCTCATTCAATCCATAAACACGTGCAATCCCATCTCCAACTGAGACCACTCGACCGATCTCA
TCCACTTGAAAATTCGTGTAAAAGTTGGTAATTCTACTTTCTAATAGAGTCGTTAGTTCCGCAGC
TCTTGTAGAGAATTCCATAATTTTTTTAAAGATCGAGTCAAGGGAGAATTCCATTTATATTATAG
CTTTGAGGAATTCCACGGGGAGCTATTCGTTCGAGTGGCTTCTCTTGTGGGGTGATCGAGAGATG
GGAACTATCGAACAAAGTCGACTTTCCGAATAGGAATGGAATTCCTCGGCAACAAGGAGAGGTAG
AAGGTTACTCGACCGGAGAGGGAGGTTACCCCGGCAACTCCCACG
Right flanking sequence: Indices 11862 -- 12361
ATGTTATCCGTTCTCCTTGGCAACAGGCCCCGTCCTCCGGTTTCCCGTTCTCCGGTTTCCCGTTC
ACCCATTCCTTCATATGCTTACAGTAGTATAAGGAGGTAAGTAAGGATGCGAAGAAGACTAGGGG
AATAAAGACTCAGAGTGGTTCTCTACAATATCGTATAAGTTTCGATTCAGCTTCTTCAATGTCAC
CTTTCAAGTGGTACAACCGCCTAGGTAAGTCATATGATTCTTTTCTTTCAGAAGCAGGGGAAGAA
ATGCTATGACGTGATATTAATCACCTGGATGAGACGCAATACCAAAGGTTACGAAGTAAACAAAG
TGAGGAAGTGAATAAGAAGTGAAGTGGCATGCTTTTTGGAAAAAAGTCTAAAACCCCGCGTCTTT
TCACTCGTTTTTCTTTTGACACGAAATCCATCTAGCCCTAGCTACAAAACCTAGAAAAGCCGTTT
TACTTAGTGAGAGCGTTCCTTTTTTGATCAATTTGACCCATGCAA
Found at i:11914 original size:15 final size:15
Alignment explanation
Indices: 11890--11926 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
11880 GGCAACAGGC
*
11890 CCCGTCCTCCGGTTT
1 CCCGTTCTCCGGTTT
11905 CCCGTTCTCCGGTTT
1 CCCGTTCTCCGGTTT
11920 CCCGTTC
1 CCCGTTC
11927 ACCCATTCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.00, C:0.46, G:0.19, T:0.35
Consensus pattern (15 bp):
CCCGTTCTCCGGTTT
Left flanking sequence: Indices 11390 -- 11889
TTCTCATTCTCAAGATTCAACGCTATTCCTTTCACACCGCTGGCAAATTCAACCATTTCCCCAGC
TTGAATCTCATTCAATCCATAAACACGTGCAATCCCATCTCCAACTGAGACCACTCGACCGATCT
CATCCACTTGAAAATTCGTGTAAAAGTTGGTAATTCTACTTTCTAATAGAGTCGTTAGTTCCGCA
GCTCTTGTAGAGAATTCCATAATTTTTTTAAAGATCGAGTCAAGGGAGAATTCCATTTATATTAT
AGCTTTGAGGAATTCCACGGGGAGCTATTCGTTCGAGTGGCTTCTCTTGTGGGGTGATCGAGAGA
TGGGAACTATCGAACAAAGTCGACTTTCCGAATAGGAATGGAATTCCTCGGCAACAAGGAGAGGT
AGAAGGTTACTCGACCGGAGAGGGAGGTTACCCCGGCAACTCCCACGCTTTCCTTGTCTTTCCTT
GTATTCCTTGTCTTTCCATGTTATCCGTTCTCCTTGGCAACAGGC
Right flanking sequence: Indices 11927 -- 12426
ACCCATTCCTTCATATGCTTACAGTAGTATAAGGAGGTAAGTAAGGATGCGAAGAAGACTAGGGG
AATAAAGACTCAGAGTGGTTCTCTACAATATCGTATAAGTTTCGATTCAGCTTCTTCAATGTCAC
CTTTCAAGTGGTACAACCGCCTAGGTAAGTCATATGATTCTTTTCTTTCAGAAGCAGGGGAAGAA
ATGCTATGACGTGATATTAATCACCTGGATGAGACGCAATACCAAAGGTTACGAAGTAAACAAAG
TGAGGAAGTGAATAAGAAGTGAAGTGGCATGCTTTTTGGAAAAAAGTCTAAAACCCCGCGTCTTT
TCACTCGTTTTTCTTTTGACACGAAATCCATCTAGCCCTAGCTACAAAACCTAGAAAAGCCGTTT
TACTTAGTGAGAGCGTTCCTTTTTTGATCAATTTGACCCATGCAAAACCACGTGTTTTTTACGTT
GTTATTGGTTTTAAATAACATCCTTCCGGTGTTACCTTTAAGTGA
Found at i:18427 original size:18 final size:18
Alignment explanation
Indices: 18404--18446 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
18394 AAACCTTGTT
18404 GACTATGACAACAG-TCGC
1 GACTATGA-AACAGATCGC
18422 GACTAT-AAACAGACTCGC
1 GACTATGAAACAGA-TCGC
18440 GACTATG
1 GACTATG
18447 GCAGGGCGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 5 0.23
17 1 0.05
18 16 0.73
ACGTcount: A:0.35, C:0.26, G:0.21, T:0.19
Consensus pattern (18 bp):
GACTATGAAACAGATCGC
Left flanking sequence: Indices 17904 -- 18403
TACCGTCTAGCCGTTGGTACTCCGCATCTTCACGGAGAATTCAATTTCACCGGGTCCATGTCGGA
GACAGCGGGGCAGTCGTTACACCATTCGTGCAGGTCGCTACTTATGCGACAAGGAATTTCGCTAC
CTTAGGACAGTTAGAGTTACTGCCGCCGTTTACCGGGGCTTCCATTCAAAGCTTATAACACTTCT
CCTTCCGACCTTCCAGCACCGGGCAGGTGTCAGACTCTATACATCGTGTTACCACTTAGCAGAGT
CCTGTGTTTTTAATAAACAGTCGCTACCCCCTGGTATGTGCCGCTTTCCTAATCAAAAGATAGGA
GAGCACCCCTTCTCCCGAAGTTACGGGGTCATTTTGCCGAGTTCCTTCGACATGGTTCTCTCAAG
CGCCCTAGTATACTCTACTTGTTCACCTGTGTCGGTTTGGGGTACGGTCAGTTCACCGGGAGGAT
CGCCCTCCCAATTCGAAGTTTTTTCCTGGAAGTTTAAACCTTGTT
Right flanking sequence: Indices 18447 -- 18946
GCAGGGCGGTACGCTCTGCTCTCTCGCGACCCCTACTCTAATCAAAAGAGTAAAGGCCCCTTAGG
TCGCCAAACTACGACGAGAGTTTCGTCTTTTGAAGCGCCAGTCGCGTAGGGCGACCGGGCCAGGC
CGAGTCAGAAAGGCTTTGATGACTCAAGGTTCATATTAGGGAAAGGAGAGTGAGGGGAAGAGGGG
GCTGCCCTCGGCCCGATCATTCAATTCGCTCCAACAGACAGGCATGGTTCTGTAGTCAAAGCAAC
TTCGTCACTTTCGTGTACCCATCGGACGGCAGCCCTTTCGGGGGTTCCTTAGGGACCGATTCACT
CTGCGTAGATTGACTGAACGCAGAAAGCCTTCCACTGGCAGGCGATCGTGTTTTTCACAGGATTT
TTCGTTACTCATGTCAGCATTCTCACTTCTGATATCTCCAGGTGTTGTCACCAAAAACCTTCCCC
GATTGACAGAACGTTCCGCTACTGACACTTGAAAAAAAAGCTTTC
Found at i:30188 original size:18 final size:18
Alignment explanation
Indices: 30165--30201 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
30155 GGTTTTCTTG
30165 TTGATGATAGTGACGATA
1 TTGATGATAGTGACGATA
30183 TTGATGATAGTGACGATA
1 TTGATGATAGTGACGATA
30201 T
1 T
30202 CGGCCGTGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.27, T:0.35
Consensus pattern (18 bp):
TTGATGATAGTGACGATA
Left flanking sequence: Indices 29665 -- 30164
CTCGAACAGTGATTCGATTGGTGATAAAGAAAGAGAATTCTTGGTTCAGTTCTCCACCTTAACGA
CAGAAAAAAGGATTGATCAAATTCTATTGAGTCTGACTCATAGTGATCATTTATCAAAGAATGAC
TCTGGTTATCAAATGATTGAACAACCGGGAGCAATTTACTTACGATACTTAGTTGACATTCATAA
AAAGTATCTAATGAATTATGAGTTCAATACATCCTGTTTAGCAGAAAGGCGGATATTCCTTGCTC
ATTATCAGACAATCACTTATTCACAAACCTCCTGTGGGGCTAATAGTTTTCATTTCCCATCTCAT
GGAAAACCCTTTTCGCTCCGTTTAGCCCTATCCCTCTCTAGGGGTATTTTAGTGATAGGTTCTAT
AGGAACTGGACGATCCTATTTGGTCAAATACCTAGCGACAAACTCCTATGTTCCTTTCATTACAG
TATTTCTGAACAAGTTCCTGGATAACAAGCCCAAGGGTTTTCTTG
Right flanking sequence: Indices 30202 -- 30701
CGGCCGTGACCTTGATACGGAGCTGGAGCTTCTAACTATGATGAATGCGCTAACTATGGATATGA
TGCCGGAAATAGACCTATTTTATATCACCCTTCAATTCGAATTAGCAAAAGCAATGTCTCCTTGC
ATAATATGGATTCCAAACATTCATGATCTGGATGTGAATGAGTCGAATTACTTATCCCTCGGTTT
ATTAGTGAACTATCTCTCCAGGGATTGTGAAAGATGTTCCACTAGAAATATTCTTGTTATTGCTT
CGACTCATATTCCCCAAAAAGTGGATCCCGCTCTAATAGCTCCGAATAAATTAAATACATGCATT
AAGATACGAAGGCTTCTTATTCCACAACAACGAAAGCACTTTTTCACTCTTTCATATACTAGGGG
ATTTCACTTGGAAAAGAAAATGTTCTATACTAATGGATTCGGGTCCATAACCATGGGTTCCAATG
TACGAGATCTTGTAGCACTTACCGATGAGGCCCTATCGATTAGTA
Found at i:81624 original size:11 final size:11
Alignment explanation
Indices: 81608--81632 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
81598 TCACAGCGAA
81608 AAATAAAATCG
1 AAATAAAATCG
81619 AAATAAAATCG
1 AAATAAAATCG
81630 AAA
1 AAA
81633 GCATACAACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.08, G:0.08, T:0.16
Consensus pattern (11 bp):
AAATAAAATCG
Left flanking sequence: Indices 81108 -- 81607
TTTTGATCCGCCCTACCTTGAACTATCTTTATCCTCTCCACCTTTCCGAACTACCGGGCACTAAA
ACTGACTTAAATACACTAACTTTCACTAAGGCACCAGCCCACTTTACGATCCTGAACCTCAAAGC
CCTATATTTAACTCCTTGGCTACCTTTCACTAAAAAGCTATCAATCAAATATATAAGAAGAATTG
ATTGGGCACATCTACATAGAGTGACCTCAATAAGAGCCAGCCGCAGCAGCTCCATCTTTATTCAC
ACTAGAATGCGCCTCACAGCCTTCCTTCCCGGGTGGCTATCCTTGAATTCCTCTCCCTCATTCTA
TCGAATTCCCCTAAGTACCTTATCAACAGAGTAAAAACCTGCATCACAACCTCGTGACTTTAGCA
ACTTCGGGACCTTGAAGCCTGCTCTTGACTTAGCAGTCTTCTCATCACTATCGGCCAATCGCAGC
GGGAGACCAAACTCAACTTACTCCTAAGGCTCTCTTCACAGCGAA
Right flanking sequence: Indices 81633 -- 82132
GCATACAACCACGATCCTCTGCCTATCTATCGCTCTGGGTCGACTTAGGAAACAAAGAGAGAAGC
CCTCGGAAAGTGAACTCTTCTTGAATAGCAAACAACGGAGAGTGAGATGAAGTGGAAAGCTTCAG
ATGCCTACCAGCTGGAGGAGTGTGGAAGAAGAGAACATTCTTTTCGCCCAGATAATTTTGAAAGA
AGCGAGGCGGAGTACCCTAATCTATTTAAGGCTTTACTAGAGGGCTAAAGAGAATGCCCTAGGAA
AGCAGGACTTAGGCGATGGCATCACAGTAGCACCAGTGACCTCAACAAAGTATATGGGCCTCTCC
AACATTCCATTCTCAGTGACAAGAGTCTAAGGCCTAAGGAATACGCCTAAGCCTTTCCGGATTAG
GTGGTATGGGTAGGATTTTTTGACTTGGCCAACTGGTCAAATGGCTGGCATCTTCACCACGAGGG
ATAATTTTGCGTATCAATGAGAGAGCACCCTAGAAAAGAGCAGAT
Found at i:184051 original size:11 final size:12
Alignment explanation
Indices: 184025--184054 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
184015 GTAACCGGTG
184025 AAATAAAAAATA
1 AAATAAAAAATA
184037 AAATAAAAAAT-
1 AAATAAAAAATA
184048 AAATAAA
1 AAATAAA
184055 TTTCAGTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (12 bp):
AAATAAAAAATA
Left flanking sequence: Indices 183525 -- 184024
ATCTGAGGGCTCCTCATAAATGATGTTAGGATCGGCCGGCTCGTTCTCGGAATCCTAAAATAAAA
CAGAGACAGAACGGATTGTTTCAGTGACATATCTAATCAGACTGAATAGGATTTGAAGAGCTGTC
ACGATCATTCACATCAATTTCAGCAGGCAGGAAGGGCGCGGAAGCTACCGTTTCTAGAATGCAAG
CAAGGTAGCTTGCTTACTCTCCTAGTAGCGTACGTTGGCGGCAAGGAAGGAGGCATTGGAAAGAC
TAGACCATACTAAAGTAAAGAGGCATTCGGGAAGCTACTAGTCGCTTCTGGCGAAGCGGCCGACC
GCTACATAGAGAGATCCATATACTATACCAGTCATGAGCGATAGCGAAGCCTAGAGAGGCGGAAG
CAGTAGCTTCTAGGACGAAGCCGAGCGGGCGAAGGAAGCGAGACCAAGCCGAGCCACTAGTGGAG
TGGCGAAGGAGGCCTACTATACGTATACTGGATTAGTAACCGGTG
Right flanking sequence: Indices 184055 -- 184554
TTTCAGTGAACTATTGAACAGTGTGATTGATCAGACAAGTACTAAGGGCTTTCGGTAGACTTCTT
TCATTTCCGAATTAGCTTGCGAAAAGTTCTTGCATTAGTATGAGTTCGTTGACCGCGTAAGGGCA
ATCCATCTTGATGACGAATTCCACGATAACAAGAAATAGAAATTAATCGTTCGATGTCTGCTCGT
TCTCCCCTCTTCAATTCCCAATGAACAACATGATCTTGACCTATCATTTGTTCAATTTGGTCGAT
CTGATACTTAGTTAACTCTTTTATCTTTATGTTCCCACTGATACCTAATCGATAACGAACCTGAA
TGGCTTTTTTAGGTCCAATTCCATCAATTTTTGTTGAGGCAATTCTTACTTGTTCATCGGCAACT
GATCTAGCTCCTGAAATATATGACATTCTTGATCCTTCCTTTTACTAGTCTTCTCGGCTGGAATA
AAAAATGGGGTGTCTCCTCTCTGATGATCTTTTCTATAGGTAGAA
Found at i:202238 original size:22 final size:22
Alignment explanation
Indices: 202212--202255 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
202202 TCATGCCATA
202212 AAAAAATTTAATATGTATAAAG
1 AAAAAATTTAATATGTATAAAG
202234 AAAAAATTTAATATGTATAAAG
1 AAAAAATTTAATATGTATAAAG
202256 GGATCCCCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.32
Consensus pattern (22 bp):
AAAAAATTTAATATGTATAAAG
Left flanking sequence: Indices 201712 -- 202211
CGGCCGCAACGAACTCTAGAAGCTAGGGCTTTGGACACGAATACTATTCCGTTCTCCGCGGCCTT
AGAAGATTGAACGTCGACTTATCTTATTGCCGTTCAATCTAAGACAGCGCCGATAGCTTGTAGTG
AACAGCCCCCTTATGAAACCAACCGAAAGCAGCCTTTGCTACTTAAGTACTTAAGGTTTGGACCC
CTTGCAACTATGATAGAAAGCCGTTTGCGTGTCCTTTGGACCCTTCGCCCTTAGTTTTGAATCAA
AGTAGGTCGCGACTGTTGTATTTCAGTCGGTCGGGTGGCTTATACGACAGCTCCGCTTCCTCGTC
TTGCTTCTGGCAAAGCTTCTACTTTGCTTGCTTCTCTCGCGCTTGCTTGCGCGAAGGCTTAAAGT
CCTTTTCGCTAGGTCCAAAAGCTTCCGTCAAAGCGAAAGATCTGATCCAACAGAAATCCCGCATA
TTGAGCGCAGCTGATATGCGGCTACAGCTAGGCGATCATGCCATA
Right flanking sequence: Indices 202256 -- 202755
GGATCCCCTAGATATACAGACAGAATAGATATTCATGGATAGACAGACATTCCATTAATTCTTAG
TTTTGGGGCTCGTCGATCCAAATGAATCATTCTTCTGGTCTCTATTCGCCCCCCGCCCCGAAACT
GACCCGCAGCACAGCGCCCATTCGCTTCGCGCGCGGGAAGGCAACGAAGTTCAGTTCATGAGACC
GCGGCGGAGTGGAGCAGCCGCGATACGAAGTTCCTTACCTTAGCTGGATCTCGCTGGTGCCACCT
AAAGGGTAGGTAGGCGACGGATGTGTGACGTTTGGAGTTGTCGTTCGTGCACCTGTCCCCAATGG
AAGAATGAGTGATCCGTTCCCCTGCGGATCATGGCTTTCCCACTTGGTCCCCGATGGCCAGCGGG
GGATTCGGTATAGCAACTCACGTTCGTTTGCGCTGCGCGTTCCCGCTGGACTGGACACGTGTTAG
CTGTAGGAAGTATGGTTCCGAAAGTGACTTCGGTTTGCCAGTTCA
Found at i:222379 original size:31 final size:29
Alignment explanation
Indices: 222326--222401 Score: 73
Period size: 31 Copynumber: 2.5 Consensus size: 29
222316 GTTGGAAAAA
* *
222326 AAGTAAAACTCCCTCTCCCTAAC-AGTCGAGT
1 AAGT-AAACTCCCT-TCCCTAACAAGT-AAGC
*
222357 AAGTGAAACTCCCTTACTCTAACAAGTAAGC
1 AAGT-AAACTCCCTT-CCCTAACAAGTAAGC
222388 AAGTAAACTCCCTT
1 AAGTAAACTCCCTT
222402 TGAATCTTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
30 11 0.28
31 25 0.64
32 3 0.08
ACGTcount: A:0.36, C:0.29, G:0.12, T:0.24
Consensus pattern (29 bp):
AAGTAAACTCCCTTCCCTAACAAGTAAGC
Left flanking sequence: Indices 221826 -- 222325
ACTTTAGGAGAGTCATATTTTCTGGTACGTCCATCTACTTATAAGCGGCCGGCTATGTTCTCTAA
ACTCATCTATTTCCTCTCGGCTCTCAGCGCAACGAGAAAGGATTCCCCAATAGCTGAGATTGGTA
CTAGAATTCGCGAATCTAGAGAGCACCAACGATGTTGACCGGGAGGGAAAGGAGCAATTAAAGCC
TTTCATCTCAATCAAATGACCGAAATGGAGACTCTATTCTTGTTGGCAAATGCAAATACGAATCC
ACTGATTTCCATCCCCATGTTCTCTGAGCAATGACCTTTGTTTCCAACAGTAATGGAGATTTGTT
GCAAACTGTCTCCGAATCCCGTGCTTTTCAAGTAAGCACCAACTCCTGTGATGTGTATTCCCCTC
CAGAGTCTGTCCTCAAACATGGCTTTCTTTGCCTTGACTTTATAAGTTTCATTCTCCACTAAGCT
TCTGAACTCTATTAATTTTTGAAAGATTTCGGACCGTTGGAAAAA
Right flanking sequence: Indices 222402 -- 222901
TGAATCTTATCCATTGAAGAAGACAGACTTCAAGACTGAAACCCGCCCTTTATTATTATATTATT
AGTAAGATAGGTTTGGAACTCGGGCTATAGTTATACTATATGCCCGGGCTTTTCTCGCTTGTTGC
TTTCTTTCTTCGCATGCTTTCGCGCATTTTTTAAAAATTTTTCTTCTGGCCCTATCTTGATCGAA
GTCCTGAAAGGCGGTAGTCCCTCGGTCTATAAGATGTAGGCTTATCAAGCTGAGGGAATTGCATA
GTCAAGAGGAACTAAGTGCTGGTGATCGGAGCGTGGGGAACTCAGGCCGCTGGTAGTAGAGGCAA
TGCAATTGAACCAATTTCCTTACACTCGGAGAGACTTTACCTTTACTTAGAGAGGGGCAGCAATA
CTACTATGCTCTTCGGTGCTCGTAGGTTGACTTCCCTTATGCACCCAGCCGCTTCACTAATGTGA
ATAGGTTATACAGAAGGGTGGGTTGGTTATATACTCTTATGCGCG
Found at i:224923 original size:39 final size:39
Alignment explanation
Indices: 224880--224955 Score: 116
Period size: 39 Copynumber: 1.9 Consensus size: 39
224870 TTTTCTATTC
* * *
224880 ACTCATGATCTGGCCTGGTCGACTCGATCATGATATTTT
1 ACTCATGATCTGGCCCGGTCGACCCAATCATGATATTTT
*
224919 ACTCATGATCTGGCCCGGTCGGCCCAATCATGATATT
1 ACTCATGATCTGGCCCGGTCGACCCAATCATGATATT
224956 GAAGAATGGG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (39 bp):
ACTCATGATCTGGCCCGGTCGACCCAATCATGATATTTT
Left flanking sequence: Indices 224380 -- 224879
CACACCTGTGTAGAGTAGATCGTTCAACACCTGCGGCACAAACCTATTTTTGACCTATTGGTCCT
AGTATCATAGGCGACCGAACGGCCGCCCCCTAATTACTAGACCAACCTGCTATAATAATTCCATA
AACACCTAGCGAAGATATGGCAAACAAATAAAGTAGCCCTATGTTCGAATCTGACAATACCATAC
CATAATCAAAAGGTACAACGGCCCGAGCAACCAGACTTAACATAAATGTAGTCACTGGAGCCATT
CTAAAAAGGGAGAAATTAGCACTACTTGGTGAAATAGGTTCTTTTAGAATCAATTTCAAACCATC
CGCTAGAGGTTGTAACAATCCGAACGCTCCCACTACATCAGGACCCTTTCGACGTTGCACAAAAG
CCATTACTTTACGTTCAGCTAGCACTAAAAAGGCTACTCCTAGTAGAAGTGGTAGAATTATTCCA
AGTATTTCGGCTGGAACAGCTATGTACGTTTTCGATTTTCTATTC
Right flanking sequence: Indices 224956 -- 225455
GAAGAATGGGACCTTTTCTCGAAAAACTCCGGATCAAGTTGAAGGTGGTGCAACATCGAATCTTG
TTACCTTACTTCGAATGGAATCTTAGCCCGCCTCACTTGCTTTCTGTACTGCATAAGGTTCTGAA
AGAAAGTAAAGGGATTTCCTTCTAACTAGTGGCTGAGAGTAAGCAAGCTACCTTCATTCAACAGA
TTTGTGGTTGAGTCAATAAGGGTCGGGAATCTTTGCTCTTCTCTTTTGCATTTCCGCTGCCTGCG
TTCTTCTTCGTGTCCGTACGTATCGCAAAGCTGGTCGACGCCAGCTGTAATGGTTCATTTCGGGA
GTTTGAACACCATCCCAAAAATACAACCCTGTCAAAGGTATTTAACCTTCCTTCCTTCTGAGTGG
AAATCCAATCCCGTTTTGTCTTTTTTGCATAAAAACCAAACTAATAATATATATATATATTTCTT
TTAAACCCGTTCTTCCGACCCCTCCAAAAATGACCTTCTCCAGTG
Done.