Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_008362
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: 704100
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
File 2 of 2
Found at i:645620 original size:6 final size:6
Alignment explanation
Indices: 645609--645750 Score: 284
Period size: 6 Copynumber: 23.7 Consensus size: 6
645599 AAAGATTTGA
645609 CTTATC CTTATC CTTATC CTTATC CTTATC CTTATC CTTATC CTTATC
1 CTTATC CTTATC CTTATC CTTATC CTTATC CTTATC CTTATC CTTATC
645657 CTTATC CTTATC CTTATC CTTATC CTTATC CTTATC CTTATC CTTATC
1 CTTATC CTTATC CTTATC CTTATC CTTATC CTTATC CTTATC CTTATC
645705 CTTATC CTTATC CTTATC CTTATC CTTATC CTTATC CTTATC CTTA
1 CTTATC CTTATC CTTATC CTTATC CTTATC CTTATC CTTATC CTTA
645751 GTAGATGCTA
Statistics
Matches: 136, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 136 1.00
ACGTcount: A:0.17, C:0.33, G:0.00, T:0.50
Consensus pattern (6 bp):
CTTATC
Left flanking sequence: Indices 645109 -- 645608
AGCCAGGGATCGTCAACAAACCTTAGCTATTCGTTGGATCCTTGGAGCAGCTTTCAAACGACGTA
TAAGCTACAGGATAAGCTTAGAGAAATGTTCATTTGCTGAGATACTGGATGCTTACCGAAAGAGG
GGAATTTCACGTAAGAGAAGGGAGAATCTTCATGGACTGGCTTCCACCAATCGGAGTTTCGCGCA
TTTCAGATGGTGGTAAAGTGATACCACATAAGGAGCTCTTCCTCATTCAGTCATACTCAACAAAA
GTCAGAAATGTTTGACCCTGATCCTTTTTTCATCTTCATATAGAAAGAAAATCGGCCTTCCTCAT
ACTCCCCCCTTCATTCATGGAGTTGGAGGAATCCACAAGAGGCCTGCCCGTTCATAATTGCATAA
AAGAACCATTCTTTTTATGAAAACTCTTGTTCCAAACAAGCAAGGGATTGAGCAACTAGCGCTAG
TTGCGGCGCATCCTCTTGCTGGGATGGTTTGAGACAAAGATTTGA
Right flanking sequence: Indices 645751 -- 646250
GTAGATGCTATTCGAACCCTTCCTTTTATTAAGATTAGAATTCTTATTAATATTATTATATAATT
ATTTTATTTTTTCATGTATATGCGTCAGACACAATCTACTAATTGATCTATATTCTGGTACCCTA
CTATATCATAGTCTCTACTACTAGTACTAGTATTTATAATACCTCGGGAGCTCGTGAGACTCTTT
TAGTGAAATTCATAAGTCTCAATTCCCGAGCGATCGCACCTCGAGTTCCTTTTGGATTTCATTTC
CTTCTTGATCAATGACAATCGTCATCATATCGTATTATAATACCGTTGTCACGTTTGAGTTCTTT
ACATGTACGTACAATTACAGCTCGTCTTACTTCTGTCTGATCTTTCTGGAGGCATTTTGGGCACT
GCTTCTTTGATTACAGCAACAATAACGTCACCAATATGAGCATATCAGTGATTACCAGCTCCTAA
GATTCGAATACATATCAATTCGATAGCCCCGCTCCGTTGTTATCC
Found at i:647767 original size:6 final size:6
Alignment explanation
Indices: 647756--647918 Score: 326
Period size: 6 Copynumber: 27.2 Consensus size: 6
647746 CATGATACTT
647756 ATAGAA ATAGAA ATAGAA ATAGAA ATAGAA ATAGAA ATAGAA ATAGAA
1 ATAGAA ATAGAA ATAGAA ATAGAA ATAGAA ATAGAA ATAGAA ATAGAA
647804 ATAGAA ATAGAA ATAGAA ATAGAA ATAGAA ATAGAA ATAGAA ATAGAA
1 ATAGAA ATAGAA ATAGAA ATAGAA ATAGAA ATAGAA ATAGAA ATAGAA
647852 ATAGAA ATAGAA ATAGAA ATAGAA ATAGAA ATAGAA ATAGAA ATAGAA
1 ATAGAA ATAGAA ATAGAA ATAGAA ATAGAA ATAGAA ATAGAA ATAGAA
647900 ATAGAA ATAGAA ATAGAA A
1 ATAGAA ATAGAA ATAGAA A
647919 GTATTCTTTA
Statistics
Matches: 157, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 157 1.00
ACGTcount: A:0.67, C:0.00, G:0.17, T:0.17
Consensus pattern (6 bp):
ATAGAA
Left flanking sequence: Indices 647256 -- 647755
CATAAATGAATGGCTTTTTCCTCTTTCAATTCCTGCTGGGGGAAAATGGTTCCAAAGTGCTATCC
ACTGTGTTCCATTATTAAATGCCTTAGTATAAAAAGACCGTCGAACTGACCTAAATTATGAAAGT
ATACTACAACAGATTTTCTTACGGCTTTGGCATCTTTAATCATCCTATTTATCATATCAGATAGC
ATCTTTGTACTCATTGACTGAAAATCATCGTATACTACTTTGTAGTCATCAGCATAGAACATTAC
AATTTGATTTGAATCAAATCCCTTCTCCGTATCAATCATCATATATCCTCCAGCATACGGAACGT
GTGTATTGTTTTCGTCGTTTTCTCCTAATTTATAGGGAATCGTTTCTAGATCCATGAATTTGGTT
TTGTTCTTTAACACTTGATTATCTTTTGTTATATAACAGTTATAGCGAGCTTTTTTCGCTTGGTT
TTTGGACCAGCTAGCATTTTTCAAATTATTGATTTCATGATACTT
Right flanking sequence: Indices 647919 -- 648418
GTATTCTTTATGGAAATATCTGATTCTTCTTTAGTTGGAAATCGTACTAGATTGCTATCTAAACT
CCCCTCTGAATAAGCCCTGACGCTGACAGCAAGGACCTCACTATCACCGTAGTTTTCAGAGTATA
CCTTAACAGCATTATAGATTTCCTGAAAAATGAACTCCTTAGGAATTAGAGTACCGTCAGCATAT
GTAAGCATAATGGCTTTAGTTAAGGTAATATTAGTTATATCGTCGTCTGTTTTCAATTTGAATTG
AAGGGTGAACTTAGCCCTACCCTGGATTTGTGGATAGACATATCTGTTTAAGAGATCCATAAAGG
CTAAACTATGTGACTCAGTGCTAGCGGGAGTTGGGTATGGCTCCTGAAAATCTTGTACTGCTACG
ATTTGTCCTTCGTGTGGACGGTGAGATCGGGAATCTCCTCTGTAGCATTTTTGCATCTCGTTAAG
AAAACGATCAAAGTTACAGCGCCCAGTTTGAGTCATTTTGACATT
Found at i:653301 original size:5 final size:5
Alignment explanation
Indices: 653291--653402 Score: 224
Period size: 5 Copynumber: 22.4 Consensus size: 5
653281 CCCGTAACTA
653291 TGGAT TGGAT TGGAT TGGAT TGGAT TGGAT TGGAT TGGAT TGGAT TGGAT
1 TGGAT TGGAT TGGAT TGGAT TGGAT TGGAT TGGAT TGGAT TGGAT TGGAT
653341 TGGAT TGGAT TGGAT TGGAT TGGAT TGGAT TGGAT TGGAT TGGAT TGGAT
1 TGGAT TGGAT TGGAT TGGAT TGGAT TGGAT TGGAT TGGAT TGGAT TGGAT
653391 TGGAT TGGAT TG
1 TGGAT TGGAT TG
653403 TCCCTACCTA
Statistics
Matches: 107, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 107 1.00
ACGTcount: A:0.20, C:0.00, G:0.40, T:0.40
Consensus pattern (5 bp):
TGGAT
Left flanking sequence: Indices 652791 -- 653290
ACGAACCCGAGGAAAGGCTGCACAGCTTCCGTAGGGTCGTTAAGACCGGAGCTTTTTGTAGTGCT
AGCAGGAATGCAAGTGAATGAATCCCATCCCCTTTCAAATCGGCGAGGTAATACCTTATTGAAGT
AGGGCACGCTACGGCAACACAGGACTGACGGGGTGGGGGCTTGCTGTCTACTTGGCGAGCCTTCA
CTGCCCCCTTCTGTAACTTCCCTTCTTTCGTCCGTCCACGAGGCAGTCAAAAGAAAGAGAGAAAG
GGGCGGCTATAACGCAGGAGTCGTGGCGGTTGTATGCCACAAGGTCCCTATAGACAAGGGGACAA
GTGAATCATCGCTTTTGGGCGCAGGCAGCCCTCTACCATCCATCCCATTGCATTCCTCTCATAGA
GTACTGTACCGTCTCAGACCAGATACATCTATGGAAAGAAAGGATTTCATAGAAAATATTCATTT
TTCTATTTTTTTGGATCCCCATGCATTCCGTTATTCCCGTAACTA
Right flanking sequence: Indices 653403 -- 653902
TCCCTACCTAACTAAATGGTAGTGGTCTAGGGAGCGCAATTGCTAGAGCACGGGAGAATGAAGAG
TAATGATTTAAGCAAGAGCAGCCGGACGGACTACTATAGTCAGTCTAGTGACTACTATAGTCTTT
TCTTTCTTTGTAGTTAAGTAATAATGTTTGGTATAGCAGCCTTTCCGAGCGAGTCTCTGGGATCT
CCTGTAAACCCCCATGATGTGGTAAAGGGAGGATATTAGGGGAAGCAGTGAGTGGAGATTCCCCT
GCGGAGAGCCGGATGAGGGGAGACCCTCACGTCCGGTTCGGAGGGCGGGGATATCCCGACCCTAC
TATCATTATGCCTTTGCAATGTTACTTGGTTCAACTCCATTTGTGACCTTTTCTCGTATGTGGGA
CTCTCTATCTTCTTGGGTAGATTCTAGATCGTCTTTCATTTTGTTAGTGAGTAGTTTTCTTATTA
ATAAGTCAAGTCAAGAATAATAAGAGAACTGTAGGAGCTTGCCAG
Found at i:654430 original size:5 final size:5
Alignment explanation
Indices: 654420--654513 Score: 188
Period size: 5 Copynumber: 18.8 Consensus size: 5
654410 AGGTATTCAC
654420 GTATA GTATA GTATA GTATA GTATA GTATA GTATA GTATA GTATA GTATA
1 GTATA GTATA GTATA GTATA GTATA GTATA GTATA GTATA GTATA GTATA
654470 GTATA GTATA GTATA GTATA GTATA GTATA GTATA GTATA GTAT
1 GTATA GTATA GTATA GTATA GTATA GTATA GTATA GTATA GTAT
654514 TTGCTTCTAT
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 89 1.00
ACGTcount: A:0.39, C:0.00, G:0.20, T:0.40
Consensus pattern (5 bp):
GTATA
Left flanking sequence: Indices 653920 -- 654419
GCTACCTGTTATGTAGGCGCCAACTCCCAGTTCTTTCTCTTCTTTCTTTTGGCGGCATGGCCAAG
CGGTAAGGCAGGGGACTGCAAATCCTTTATCCCCAGTTCAAATCTGGGTGTCGCCTGACCCACAA
AATACTTTTTATTTCTTATTGTACTGATTGAACTCTACAAATTCTTGCCCTGCATAAGCAAAGGA
AAAGAACTAGGCCTGTCGATACTGGATTTTGCTGAATGCCTGATAGTCTGATGTATAGTTTCAAA
AAGCAAGTCGTTTTTTCAAGACAGTGTTTTTCATGCAAGGGTAGAGTCTCAATAGAAGTAAGGAC
TAGGTGTTTTAGCAGCACTGGTTTATGCATAATAGCTAGGTAAGAAAGCACGGTATTCGAGGGTA
AGTAACTAGAACTAATAGAAGAGATGGGATAGCTGATATTCACCACGGATAGGAATAGCTAATCT
AATAAGCAAGCACCGGTCAAGTAGAAGCAGAAGCAAGGTATTCAC
Right flanking sequence: Indices 654514 -- 655013
TTGCTTCTATGTCAATTATTGGAACATAAGCTCTTGTTTTGCCCTTGTAGGAATCAGCAGATCCT
ATAACAGTTCCTGATGATGATCTAAGGAAACAAAGTGGGACGTCGGATGGGTTTCAGTTTGATCT
GCAAGGTCTCGCCATTTCATGTGTTCACCTCGCTTATCATGTGTAAAACAGATGGGGACTCTTTA
GATAGAGTAAGCACCACGGCTCATCTTCTTCTTCGATTAGATATTCCAGGTAAGAAGAAAAAGTA
CGATCATTAGAATCTCTCCTCACTTACGTAGCAGATAATCTATTCTATGCAAATCGATTTTCATC
TCAAGGGGACTTTCCGGTATTCTCTTGCTGCAAATGATACGAGAGCCTCTGGGCCATCCTGTGCT
TCTAAAACAGAAAGGATTCTTCTCAAGAACAGAGAGGATTCTTCTCAAGTGAGAAACCAGCCAAC
TCAGGCACTTGGTTTGAACCTGCCATCAAAAGTAAAACAAAATAG
Found at i:654935 original size:22 final size:22
Alignment explanation
Indices: 654902--654952 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
654892 CCATCCTGTG
654902 CTTCT-AA-AACAGAAAGGATT
1 CTTCTCAAGAACAGAAAGGATT
*
654922 CTTCTCAAGAACAGAGAGGATT
1 CTTCTCAAGAACAGAAAGGATT
654944 CTTCTCAAG
1 CTTCTCAAG
654953 TGAGAAACCA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 5 0.18
21 2 0.07
22 21 0.75
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (22 bp):
CTTCTCAAGAACAGAAAGGATT
Left flanking sequence: Indices 654402 -- 654901
CAGAAGCAAGGTATTCACGTATAGTATAGTATAGTATAGTATAGTATAGTATAGTATAGTATAGT
ATAGTATAGTATAGTATAGTATAGTATAGTATAGTATAGTATAGTATTTGCTTCTATGTCAATTA
TTGGAACATAAGCTCTTGTTTTGCCCTTGTAGGAATCAGCAGATCCTATAACAGTTCCTGATGAT
GATCTAAGGAAACAAAGTGGGACGTCGGATGGGTTTCAGTTTGATCTGCAAGGTCTCGCCATTTC
ATGTGTTCACCTCGCTTATCATGTGTAAAACAGATGGGGACTCTTTAGATAGAGTAAGCACCACG
GCTCATCTTCTTCTTCGATTAGATATTCCAGGTAAGAAGAAAAAGTACGATCATTAGAATCTCTC
CTCACTTACGTAGCAGATAATCTATTCTATGCAAATCGATTTTCATCTCAAGGGGACTTTCCGGT
ATTCTCTTGCTGCAAATGATACGAGAGCCTCTGGGCCATCCTGTG
Right flanking sequence: Indices 654953 -- 655452
TGAGAAACCAGCCAACTCAGGCACTTGGTTTGAACCTGCCATCAAAAGTAAAACAAAATAGATAG
AACTTTTTCGAACCCGCCATTACCTGCCATTACCAGTTTGATTTCTTACCTATCCCTTTGCCTAG
TCTACTCCGGCAGGCTTTCCCTAGCGCTAGTTCTAGATCTCTATTCTCTTACCACCTGACCTGCC
TTCCCGGCCTCTTTCTCTCTCTCTTTTTGTTCTAGCATGACACATCAAGTGCCAGTGCCGGTCGA
GTTAGAGGAGCCTTTATCCAGATAGGAAGGTATGGGTCTAGTTCTCCACTCCAGGGTTCTATCCT
ATCCATGCAGAAGATGCAGATGAAGATGGCTATAGGTCGTCGGTTTCCAGTGACAAGACAAGATT
GGTATCCGCTTTCCAGACAGAGAAAGTGAGCTTCCCATTCCTCGATAAAGTACTCCTATCTATCC
CTATCCCAAGATTGGCAATCTTTCCGTTGCTTCATAGGTAGTAGG
Found at i:656273 original size:6 final size:6
Alignment explanation
Indices: 656262--656327 Score: 132
Period size: 6 Copynumber: 11.0 Consensus size: 6
656252 TATATGTGGT
656262 GCCCCA GCCCCA GCCCCA GCCCCA GCCCCA GCCCCA GCCCCA GCCCCA
1 GCCCCA GCCCCA GCCCCA GCCCCA GCCCCA GCCCCA GCCCCA GCCCCA
656310 GCCCCA GCCCCA GCCCCA
1 GCCCCA GCCCCA GCCCCA
656328 TAGTATAGTG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 60 1.00
ACGTcount: A:0.17, C:0.67, G:0.17, T:0.00
Consensus pattern (6 bp):
GCCCCA
Left flanking sequence: Indices 655762 -- 656261
TTGATGATGCAAACAGCTTGTTTTCCTGACTCGAGCAAGGACCGACACAACACAATAGTAGTTCT
GCCACGGCGAAAGAATATAGGGCGATCGGATCTATCTATATCTTACTTACTCTCCAGGTGAAAGA
ACCCGCTCCCGTTAGTTGATCGAGGGTAGATAGGGCTCTCTTATTTATGTTCGTAACATTAGTAG
TGTAGAATCTACAGTAGTGGAACATTTCTTACGAATCAAAATCGATGCAGAATCGCTCATTCCAT
CACTTTTTAGGGTATCGGGCCCGCCAATCAATGCGCCAGCTGTTTTTCTTTAGTGAAGTGTGCTT
CCTTTTACTTCCCAATTCCAATCAATGAGTTCCGGCCTCCGCCTAACAAGAACTTTTGACTTCCC
GCTCAAGGTGCCTGGTATGAATCTGTCAACTAGTGCCTGGTATCGTTGACTGAGCTCACTGGCAG
CCTTTGGTAGAATGAGATCGATCTCCCAATGCTTGTATATGTGGT
Right flanking sequence: Indices 656328 -- 656827
TAGTATAGTGATGAATGGAAGAAGCGCTCTATTCCGGATCCGTAGGTCGTTTCTGAATCACTGCC
GAGCAGATGAAAAGACTCGAAATGATTTGCTCATACATAAATGGGAAAAGGTTCCATAGATGGGG
GCTCACTTCGGAGAGTGCATATCGCTCACTTCTAGGAGTGCATATTTAGTTCCCGTTCAGGATAT
CCTGAAAATAAGGTTGGTTAAGTCTTCTGTAGATTGATTGGAAAGTAGCTAACCCAATTTGACCT
CTTTTCGTAACATGCCGTAGTGACTCATTCAGTCTGCCGTGAAATATCTCATCTCTAATCTGTAC
GAGACCCGTTCTCTCCATCTGTATTTCCTATTCCTAGCGGTGGAAGTCCTATCCCAGCGGGAAAC
TAGATTGATGGATTTTGAATAGTGCGTGTGATATAGATGGAAAACTAGCTCATCTGATGGCACCC
TCTAAGGAAAGTAGGCAATCTGATTTGACAAGCACGTGGACTTTG
Found at i:656488 original size:23 final size:23
Alignment explanation
Indices: 656458--656502 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
656448 ATAGATGGGG
656458 GCTCACTTCG-GAGAGTGCATATC
1 GCTCACTTCGAG-GAGTGCATATC
*
656481 GCTCACTTCTAGGAGTGCATAT
1 GCTCACTTCGAGGAGTGCATAT
656503 TTAGTTCCCG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.29
Consensus pattern (23 bp):
GCTCACTTCGAGGAGTGCATATC
Left flanking sequence: Indices 655958 -- 656457
GTAGAATCTACAGTAGTGGAACATTTCTTACGAATCAAAATCGATGCAGAATCGCTCATTCCATC
ACTTTTTAGGGTATCGGGCCCGCCAATCAATGCGCCAGCTGTTTTTCTTTAGTGAAGTGTGCTTC
CTTTTACTTCCCAATTCCAATCAATGAGTTCCGGCCTCCGCCTAACAAGAACTTTTGACTTCCCG
CTCAAGGTGCCTGGTATGAATCTGTCAACTAGTGCCTGGTATCGTTGACTGAGCTCACTGGCAGC
CTTTGGTAGAATGAGATCGATCTCCCAATGCTTGTATATGTGGTGCCCCAGCCCCAGCCCCAGCC
CCAGCCCCAGCCCCAGCCCCAGCCCCAGCCCCAGCCCCAGCCCCATAGTATAGTGATGAATGGAA
GAAGCGCTCTATTCCGGATCCGTAGGTCGTTTCTGAATCACTGCCGAGCAGATGAAAAGACTCGA
AATGATTTGCTCATACATAAATGGGAAAAGGTTCCATAGATGGGG
Right flanking sequence: Indices 656503 -- 657002
TTAGTTCCCGTTCAGGATATCCTGAAAATAAGGTTGGTTAAGTCTTCTGTAGATTGATTGGAAAG
TAGCTAACCCAATTTGACCTCTTTTCGTAACATGCCGTAGTGACTCATTCAGTCTGCCGTGAAAT
ATCTCATCTCTAATCTGTACGAGACCCGTTCTCTCCATCTGTATTTCCTATTCCTAGCGGTGGAA
GTCCTATCCCAGCGGGAAACTAGATTGATGGATTTTGAATAGTGCGTGTGATATAGATGGAAAAC
TAGCTCATCTGATGGCACCCTCTAAGGAAAGTAGGCAATCTGATTTGACAAGCACGTGGACTTTG
CTTTCGGCTGACAGCCCCAGGCCCACTTCGGTGTCCACTGATCGGGATGAGGACGTACCGGCCAT
GCATGCTCCTGATCCAGAGGCTCCTGCTACGGGTACACATGATATTGACCCAGGTATTTCTATAC
ATCCATATGGTACGCGACTCAAGAACAATATTAGGCAGCCTAAAA
Found at i:666071 original size:72 final size:69
Alignment explanation
Indices: 665954--666146 Score: 329
Period size: 72 Copynumber: 2.8 Consensus size: 69
665944 AAGCCAAAGT
665954 ATCTGGTATATACGGCGCGACGGCCGAAAGTAATTCGCTTGTCTCCGTATGCATTGTATCTACCA
1 ATCTGGTATATACGGCGCGACGGCCGAAAGTAATTCGCTTGTCTCCGTATGCATTGTATCTACCA
666019 TATCTGG
66 TA--T-G
666026 ATCTGGTATATACGGCGCGACGGCCGAAAGTAATTCGCTTGTCTCCGTATGCATTGTATCTACCA
1 ATCTGGTATATACGGCGCGACGGCCGAAAGTAATTCGCTTGTCTCCGTATGCATTGTATCTACCA
666091 TATG
66 TATG
*
666095 ---TGGTATATACGGCGCGACGGCCGAAAGTAATTCGCTTGTCCCCGTATGCATT
1 ATCTGGTATATACGGCGCGACGGCCGAAAGTAATTCGCTTGTCTCCGTATGCATT
666147 CCTCTTTTTG
Statistics
Matches: 120, Mismatches: 1, Indels: 6
0.94 0.01 0.05
Matches are distributed among these distances:
66 51 0.43
69 1 0.01
70 1 0.01
72 67 0.56
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.30
Consensus pattern (69 bp):
ATCTGGTATATACGGCGCGACGGCCGAAAGTAATTCGCTTGTCTCCGTATGCATTGTATCTACCA
TATG
Left flanking sequence: Indices 665454 -- 665953
TTATATCCTGTGGTAACGCTTCTATTTTCAAATATTGCACCCAAGTATTTGGAAACCTTTCCAAC
CGTTTTTGCAAAAGTTCCCCATAATAACAACTCTCTGTGCCCTTCCTAACTAAGCTTTTGATTAT
TTTTTCAAGATAACTCCGTTTATACTCGGCCCTTGAAAGGGTGGTGAGAATATCATCAGCACCAG
TCGTATTGAAAAGGAGGGGGCCATTTTCCCCCCCCTGCTAAAAGAGCCAGTTCATTCAGGATTTT
CCTTTTCAATTCTAAAGTTTCATAAGTAAGTGAAACTATTTCCTTTTCGTTGAGCTTACCCGCGT
AAGAATTTTGCAAATTACCGAGAATTTTATTTACAGGAATTTCCAGTGGGTAAGGAAATTTCTCT
ACGGTTGGATTGAAGAGTGTAGATGAACTACTTGGTCCAGCCTCCGCTTGTAGCAGTGGTAGATT
CGTGGTGGTTTCCGTTATCTGTGGTGGGTATTCCAAAGCCAAAGT
Right flanking sequence: Indices 666147 -- 666646
CCTCTTTTTGGGGTAACCAAGAGCCTGGAAGTAGCGAAGGCCCTTCCCTGGAATTGGAAAGATTC
TTTTATTTTTGGGAGTTCCCCAAAAGTATGAAAGGCTGGAGGGCTTTGTACCAACCATTCTAGTG
TGGTTGGATTCTGCTCAACAGCCCAAGGACTTTCCGCACATCTTTTGTTCTTTCCACTGCTTGAA
GTGATTGCGACAACTACGAAGAAACGACGAATCCCAACTACGGATATATAAGAACCGAAACTGCT
CAGAGCATTCCATCCGGCGTAAGCATCTGGATAATCTGGAATGCGACGTGGCATACCCGAAAGCC
CTAAGAAATGCATGGGAAAGAAGGTCAGATTAACCCCGAAAAAAGTGATCCAAAAATGGATTTGG
CCTAAAGTTTCAGGATATGTCCGACCAAAGATTTTACCCACCCAATAGTAAAATCCAGCAAATAA
AGCAAAAACGGCTCCCATAGAAAGTACATAATGGAAATGTGCAAC
Found at i:677865 original size:23 final size:22
Alignment explanation
Indices: 677816--677867 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
677806 GTCACTACTT
*
677816 TAGAATGAGGAACGTATCGTATA
1 TAGAATGAGGAACGTA-CGAATA
677839 TAGAATGAGGAACGTA-GAATTA
1 TAGAATGAGGAACGTACGAA-TA
677861 CTAGAAT
1 -TAGAAT
677868 AGAAAGGCGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 2 0.08
22 2 0.08
23 22 0.85
ACGTcount: A:0.42, C:0.08, G:0.25, T:0.25
Consensus pattern (22 bp):
TAGAATGAGGAACGTACGAATA
Left flanking sequence: Indices 677316 -- 677815
GCTATATTCCTCCAAGAGGGAGGGGAAGAGCCCGAGTCAAAGTTCTTTGTTGACCAATCAAAGAG
AATGAAAGAAATATAGAAAGAATGGATTAGTGTCAACTCCATGAATCGGTACAGGTAGAAGTAGA
GGGGGCATGCCAAAAAGAATTTGAGAAGCCTCGTTTCTGAGCTTTTACAGCATCTTTTGATTCAG
AAGCATCTCCCAGTTCTCGAAATCACATAACATAAGTGATCCTGCGGAACCGGCTTTCCTACACT
CACTGATCCATTCAAAGGATTTGATTTTCTCACGACTGATCCGCACTTCAGCTCCGATATTAATA
AGCACTGCCTTCTAGCCAGTCTAGTCCCGGAGACATTATACTCTGGGTCTGGCATCGCCTCGCAA
GATCATCTAGTCTAGATTTACTCGGGTGTGCCCGATTTCCATGATCCCTATTTCATAGCTTGGCT
TGGGTTGAAGGTGAAGTCTTTATATTCTAGTTAGAGTCACTACTT
Right flanking sequence: Indices 677868 -- 678367
AGAAAGGCGAATAGAAAGACTAGTTACTCGCTCTAAAGTATTATACGTGAACTATTCTCACAGAG
GAATGAAGGGAGCTGGAACCAGGCTGCCCAGGAAGGATTTCAGAGCTCTACTCTAGTATTGACTG
GCTTTCAAGGAATGGAGCTGGGTGGCCGGCCTATATAAATAGAAAAAGCTTTGCCCCGATAGCAA
GCACCCTAGCGAGAATTTCATTTCTTTAAGTAAGCTGCTAGGTCTTATTTGATGAAAAGCAAGAC
AATCCACCATGGATCGGAGGGGGCTATATACGAAACTGAGGAGCTCTTACCTCTATTTATGATAA
TAGAATAGCTTTGGGTGGCTTCACTTATCTGATAGCCAATGAGTCACTATTCCAATCACCGCCCC
TCGCTCGTGCCCATCCATTAACGGAACGGACTTACCGTTACTAAGCTCGTAAAGAGGAGGGCTAT
CTTTCTTTGAGGTTGCGTATGATTCTGAATTTGAAATGAATGAAT
Found at i:683229 original size:5 final size:5
Alignment explanation
Indices: 683219--683254 Score: 63
Period size: 5 Copynumber: 7.2 Consensus size: 5
683209 GGCTGATCGA
*
683219 TACTT TACTT TACTT AACTT TACTT TACTT TACTT T
1 TACTT TACTT TACTT TACTT TACTT TACTT TACTT T
683255 GAGGATCTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.22, C:0.19, G:0.00, T:0.58
Consensus pattern (5 bp):
TACTT
Left flanking sequence: Indices 682719 -- 683218
CTCTCCAAAGAGCAACTCTTCTCAAAATCCCAAAACAAAAGGTGCTGAGTTGGAATCCCATTCTA
AGGATTCTTGTGGTTCCGGGGCGATCCAGTCACCCGGAGAAGATTTCTTTTCTTTGCTGATTCCT
CTCAATGAAATTTGCCATGTTGCACTAAGTTACTTACGGATGTATGCATGCAGTCCGGGAACACT
TTGGGGTGAACACCCATCCGAACAAGTAGGGTCAATAGTTCAGCATTTAGGCCGTAACATTTAGC
AAAAAACTAATCTTAAACCCAACAAGTGCTCTCCGAACCAAGCTAGATAGTCTCCTATCACTAGG
CTCACCAACCAACCTGGACTTTGATTCTTTCTTATTATTCTAACCGAAAACCATAAGGATTGTTT
CCAGCCAAGAGTTCCCATATGACATAAGCGCTCTTGGGTGGGGTGGGCCCTCATTCGCCAGGTCT
TTGAGTGCCCGTCGTACCACGTGGTTGGTACACTAGGCTGATCGA
Right flanking sequence: Indices 683255 -- 683754
GAGGATCTGGCACCTGCGCCCGACTCGGTCTGCCAGTGAATTTTGGCTCTACGTCCGGTCGTGCG
TGGTATGTTCGCGATTCGTACAAATGGAAGGCATCGCGTACGTTAACCTTCCTTTATTGGGCTGG
GCCATTCCATCTTTGAGAAGGGGCCCAATCTCGTATTTGATGGTCGGCGTGGCAATATGCTTAGC
TTCGTAGACAGGTTTCCCAGCCGTTGCAAAGACTTCGCGAGAACGGTCAGGGGCGCGATTCGCCA
AGCTAGGGCAAACAAAGCCGTCCGGCCCTACCAGATTAAGAATGCGAAGGCCTTTCCTTCGAAAG
GAGAAAAAAAAAAGAGCAATGCTATTGACCGACCCTTTCGTACTTACTTCGAATCAATAGGCCTA
TCATTTTTCATGAGGCGGGCCAAATAGAGAATGAAATGCAAAAATAGGGGAAGGGGGGATGGTCG
CGCCTTTTATTTTGTTTAAGGGCTGCTCGCCTTACTAAAGTACCA
Found at i:699794 original size:19 final size:19
Alignment explanation
Indices: 699770--699815 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 19
699760 TTTGTTGGCT
699770 GAAAGACTA-TGGAATTAGA
1 GAAAGAC-AGTGGAATTAGA
699789 GAAAGAAACAGTGGAATTAGA
1 GAAAG--ACAGTGGAATTAGA
699810 GAAAGA
1 GAAAGA
699816 AACAGTCTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
19 6 0.25
20 1 0.04
21 17 0.71
ACGTcount: A:0.52, C:0.04, G:0.28, T:0.15
Consensus pattern (19 bp):
GAAAGACAGTGGAATTAGA
Left flanking sequence: Indices 699270 -- 699769
AGATGAAATTCTTGACTTACCCCAAAAGCGAACACATTTTGAAACGGGGGAGTCATCATCCTCCG
GTCAACCCGGAAGCCCCACAAATCGAGGGGGTCCCGGAAGCCCCTCAACTAGAGGCGGGGACTCC
AGTGGCTTCCCCCGTCCAAGTAGAAGAAGTGAAGCAAGAAGGACACCAGAAATGCAGGGACATAA
TTGGAATTCAAGATGAATCACGGTAAACACTTGTAGATCTTTCAGCTACACCATATGACCTAAAG
TTAGAATAACTATTCGTTCTGGTATCACCCCTCTAAGCACCTCTTAATGATCCTAATTACCTAAA
AAGAGAAAAGACTGGGACCGTCAACCTCAACTGTAGCAGGGGTAATGTGCCCAAGAGCTCCTATC
CTAGGCTTTCCCAGGCACCTAACCTAGCCTTGACATAGCATTCCTGTCTACACCTCTAGGCTACG
AGCAAATAGTATTTCTAATACATAAATTAGAGTGCTTTGTTGGCT
Right flanking sequence: Indices 699816 -- 700315
AACAGTCTCCCACTGGCAATTCTTCACAAGTTCGAAACTTAACACGAACCCTTGATCGCTGTAGC
TGAAGTGGTAAAACAAGAAAAATTGGTTCTTTTAGCCCTAAGCTTTCTTTCCTTCCCTATTTGAC
TTTCCTTATTCTAAATGGGAATCTTTCTTTGAAGAAATAAGAAAGGACTACTTGGAAAGTGACAC
AGACACTGGTACATCAGGAAAACCTTTAGAACTCACCGTTCAACTTGATCTTCGCAGGAAAAAGC
TTCTTCTCTATTAGGACCTAATAGCAATAAATAGACCAGCCAGGCGAGTGAGAAAGGAGGAAACA
TTACTCTCTTTCTGCAAAGTCCGAGTCCCATTTGATGAGCCAAAAGAACCATCTCTATCTCTTCT
GATATTCCAGAGATTACTCGCTCACCTACAATGCTTTGGGCCCAGTCTTCTCTATGCATGGATGG
CTTTGAAAGAAAGATAACTAGAATCAATCTCTTCTCCTAGGAAAA
Found at i:699805 original size:21 final size:21
Alignment explanation
Indices: 699779--699821 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
699769 TGAAAGACTA
699779 TGGAATTAGAGAAAGAAACAG
1 TGGAATTAGAGAAAGAAACAG
699800 TGGAATTAGAGAAAGAAACAG
1 TGGAATTAGAGAAAGAAACAG
699821 T
1 T
699822 CTCCCACTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.51, C:0.05, G:0.28, T:0.16
Consensus pattern (21 bp):
TGGAATTAGAGAAAGAAACAG
Left flanking sequence: Indices 699279 -- 699778
TCTTGACTTACCCCAAAAGCGAACACATTTTGAAACGGGGGAGTCATCATCCTCCGGTCAACCCG
GAAGCCCCACAAATCGAGGGGGTCCCGGAAGCCCCTCAACTAGAGGCGGGGACTCCAGTGGCTTC
CCCCGTCCAAGTAGAAGAAGTGAAGCAAGAAGGACACCAGAAATGCAGGGACATAATTGGAATTC
AAGATGAATCACGGTAAACACTTGTAGATCTTTCAGCTACACCATATGACCTAAAGTTAGAATAA
CTATTCGTTCTGGTATCACCCCTCTAAGCACCTCTTAATGATCCTAATTACCTAAAAAGAGAAAA
GACTGGGACCGTCAACCTCAACTGTAGCAGGGGTAATGTGCCCAAGAGCTCCTATCCTAGGCTTT
CCCAGGCACCTAACCTAGCCTTGACATAGCATTCCTGTCTACACCTCTAGGCTACGAGCAAATAG
TATTTCTAATACATAAATTAGAGTGCTTTGTTGGCTGAAAGACTA
Right flanking sequence: Indices 699822 -- 700321
CTCCCACTGGCAATTCTTCACAAGTTCGAAACTTAACACGAACCCTTGATCGCTGTAGCTGAAGT
GGTAAAACAAGAAAAATTGGTTCTTTTAGCCCTAAGCTTTCTTTCCTTCCCTATTTGACTTTCCT
TATTCTAAATGGGAATCTTTCTTTGAAGAAATAAGAAAGGACTACTTGGAAAGTGACACAGACAC
TGGTACATCAGGAAAACCTTTAGAACTCACCGTTCAACTTGATCTTCGCAGGAAAAAGCTTCTTC
TCTATTAGGACCTAATAGCAATAAATAGACCAGCCAGGCGAGTGAGAAAGGAGGAAACATTACTC
TCTTTCTGCAAAGTCCGAGTCCCATTTGATGAGCCAAAAGAACCATCTCTATCTCTTCTGATATT
CCAGAGATTACTCGCTCACCTACAATGCTTTGGGCCCAGTCTTCTCTATGCATGGATGGCTTTGA
AAGAAAGATAACTAGAATCAATCTCTTCTCCTAGGAAAAGAATCG
Found at i:702099 original size:6 final size:6
Alignment explanation
Indices: 702090--702120 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
702080 TCTTTACTTT
702090 ATTGAA ATTGAA ATTGAA ATTGAA ATTGAA A
1 ATTGAA ATTGAA ATTGAA ATTGAA ATTGAA A
702121 CAATATTATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (6 bp):
ATTGAA
Left flanking sequence: Indices 701590 -- 702089
TAAAAATGGTTGGCCTATCTATATTCCAAGTAGTAACCAGGATGCATTCATTCGGCGTGGTTACT
ATGGATATGGAGGCCATGCTGATACGTACAACCCATATGGAAAATAGAAAAGAGCAATCTGAGTT
TTGAATTTTTACTCACTTCATTTACAAAATTTTATTGTTGGGGCTGGCTTGGTTGACATTGGTAT
ATAGTATATTATATATTATACTGTATAATAACAAGCCTTCTATTATCTATTTTCTTTCTAGTTAA
TACGTGTGCTTGGGAGTCCTTTAGAATAAACCAAGATCTTACTATGACTGCAGAGAGACGCGAAA
GTACAAGCCTGTGGGGTCGCTTCTGCAACTGGATAACTAGCACCGAAAACCGTCTTTACATCGGT
GTTTTGATGATCCCTACCTTATTGACCGCAACTTCTGTATTTATTATCGCTTTCATCGCCTCCAG
TAGGTATTGATGGTATTCTTGAGCCTGTTTCTGGTTCTTTACTTT
Right flanking sequence: Indices 702121 -- 702620
CAATATTATCTCTGGTGCCATTATTCCTACTTCTGCGGCGATCGGATTGCACTTTTACCCAATTT
GGGAAGCTGCATCTGTTGATGAGTGGTTATACAATGGCGGTCCTTATGAGCTAATTGTTCTACAC
TTCTTACTTGGTGTAGCTTGTTATATGGGTCGTGAGTGGGAACTTAGTTTCCGTCTGGGTATGCG
TCCTTGGATTGCTGTTGCATATTCAGCTCCTGTTGCAGCTGCTACTGCTGTTTTCTTGATTTACC
CTATTGGTCAAGGAAGTTTTTCTGATGCTACAGCCTTTAGAAATAATGCACAGCACACCGATTCT
TGCAACAATAAATAGAACTAGCACAATCAAATGCAGGCGAGCAATGCTGCACAGACAGAATAAAC
TGGAGAACAAGAAATTCACCTTGATTTCCTGCCTCACTGCATTGACAAGGAGCTGATTGAACTCC
CATGGGAGGTAACGCATCTGGACGCCCGACACATTGCGCAGGTAA
Done.