Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_028096
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: 783442
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Found at i:30821 original size:18 final size:18
Alignment explanation
Indices: 30798--30844 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
30788 CGTGAAAGAT
*
30798 CGGGCTTAGAATCGGGAA
1 CGGGCTTAGAATCAGGAA
30816 CGGGCTTAGAATCAGGAA
1 CGGGCTTAGAATCAGGAA
*
30834 CGGGCATAGAA
1 CGGGCTTAGAA
30845 CGGAAAATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.32, C:0.17, G:0.36, T:0.15
Consensus pattern (18 bp):
CGGGCTTAGAATCAGGAA
Left flanking sequence: Indices 30298 -- 30797
CTACTTAATTAAGCCTTTTTCTTTCCGAGGACAGCACAGGGCTCAGCACTCAAACTGTATAGGTT
TCCGCATTTGGAGGGACAACTACGGCTTATCCATAAGCAAGGGCCTGGCCTGAAACTGACTAAAA
AGATACCGCCCCAGCTGAATAAGTATACTAGTAGAGTAGTCTCCTGTAGAGAGATTAGATAGGCG
AAGGGGAACAAAGCTATTTATTCTCTAGAATCTTAAGATAAATCTATCTATTATCATTAGCTCTT
TCAGGGAAATACCTATAGATTACTGGTAGGGATGGAACATAACTCCCAGAAAGGAAAACTTCCAC
TGCCCCAGCTTTTGACCTTGACCTAACCCTTTAACAACCTAGACCTAGCTATTAACCTGTGCCTG
CCCTAGCCGTCTTTGATCTAGCTGGCTTGAGAAAGAAAATCCCAGATAAAAGCGGGACCACCCAC
AGGCATAGTGACCAAATAGACCCTCTCTTGTAGCTCGTGAAAGAT
Right flanking sequence: Indices 30845 -- 31344
CGGAAAATGAGCCTGTTAACTACTTGCCAGGTTCGCCTACCTTATTAGATTCGGCCTACAGAACT
TATTGGATTTACTTACATTCCTGTTTTTTAGATAACTTCTTCACTGACAACTTCTTTGATTCATC
GCCCATCGATCAAAAGAAAGACTAACGGCCTAAAAGCTTCCTTCGCCTGAGACTGAGCTTACCTT
GCCCACTTGAATGTACTATCTATTTGAGTTCTATTTTCAGTTTCGTGGCTGGATTAGAAGTTCGA
CTGAGCTATAGTCTCCGGACTAGTTGAACACTGACTCTTATTCCACTACTAGAAGTCCTTCTTCT
TATCGATTTGAGTGAGATTGAATCTTGAGCCCCCATCCTTGCTTTGATTTCCATTTATCTTCTCC
ACGGATGAACACCGGAATGGATTGATCTGACTCAATCTCTTTCTTCATGTCTCGCCCTGAAGATC
GAATTCCGTATTTACATTGATTTGACCTACCTTCTGCAATAGTGA
Found at i:64418 original size:18 final size:17
Alignment explanation
Indices: 64391--64427 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
64381 TCCCAGCTCC
*
64391 TGCCTTGCTTGCTTTCTT
1 TGCCTGGCTTGC-TTCTT
64409 TGCCTGGCTTGCTTCTT
1 TGCCTGGCTTGCTTCTT
64426 TG
1 TG
64428 TGTTTCATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.00, C:0.27, G:0.22, T:0.51
Consensus pattern (17 bp):
TGCCTGGCTTGCTTCTT
Left flanking sequence: Indices 63891 -- 64390
CCCAGGGTTGACTCCCTTCACTAGTCAACGAAGTGCATCTACGGATGTAGGCACATTCTTGCTTG
ATCATTTGCTCTCACTAGACCGCCCTAGAGTACGATACTGGTTCGCCATAGGTTCGAAGGGCTGT
CTCTTGTGTGCGATGGTTGGGTATGAATGGAGCTTGCTCGGTAGAAAGGAGAGTAACCTTTGGGT
AATATAATATAATTTACTCATTCCTTCATAATGAAATATTCTACTCTTTTCTTTCTCCGTGGATT
CCTTGAGGATTGATCTGTTGTTGGATCCGTTGATGGATCGACCCTCCCTAACCACCCTATTTTTG
AGCACAGGCAGGTTTGAAGTGAAGGGATAGAATCCTGTACGTAGAAGGCTGAACCCATAACTCGT
GATTCGTAGCTTACAACCTATCCTTTCTCATCTTTGCTTACCGCTTCGCCCCCTTGCTCAAGTAT
GAGTCCTAAAGGTAAGGCAAGAAAGAGATTCTCAATCCCAGCTCC
Right flanking sequence: Indices 64428 -- 64927
TGTTTCATAGTGACTAATCTACCTATTCCTATGCTGGCAGGGGACTCAAGGTTGGCAGGGTTGTC
TCTAGGGTTGGGAATGAGACTATGAAACTCTTTCCTTTCCCGCCGGTAAGCAAGCAAGTCAAAAC
GCTAACACTGATGAGCTTGCTCTAATGAAACTACTAACACTCAGACTAGGGACAGGGGCTCAGAC
CCTGTTGCCTAGAAGAAGGAGATTCTATTTAGTTAGTCGGGTCTTAACAAGGAGCTAATGGATGC
ACTAACATATCGCCCCGTGTCCTAATAGTTATCTTACTACTGGAGTTAGATTGACTCCTTGGGTC
GGGCACCAAGGGAAGGATTAGTTCATATCCTAAACACCTATCGATTGTGTTAGTGAGTAAGTAAT
CACCCCCCGTGTATCCTTATAGAGTTCAGTTTAGTGCTTCTTACTGGTTGGGGTGGAGTCTAGCT
ACTACTACACGAGTCCCACACACCACTCCACAGCTCTAGGCTTTC
Found at i:73320 original size:13 final size:13
Alignment explanation
Indices: 73302--73327 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
73292 TAAGGAAGGC
73302 CTTGCCTTATTAG
1 CTTGCCTTATTAG
73315 CTTGCCTTATTAG
1 CTTGCCTTATTAG
73328 AGAGATATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.23, G:0.15, T:0.46
Consensus pattern (13 bp):
CTTGCCTTATTAG
Left flanking sequence: Indices 72802 -- 73301
CTCAGACTCGCAGAAGACAAGTGAAAAGTATCTCGAGGTTTCTCCGCTTCTTGTTTCAAAATATC
GCAAAAATTCAGCGCTCTAAAAAAAAGGCCGGAAGGCCCCAGGACCCCCACCCCACGGCCCCTAT
GCCAAAGCAGTTGAGTGCAAGGAGGTCAGAGCAGAGGAGCTTCCCGGGTAGCAAGCTAGTTAGGA
GAGAATTCACCTATGGATTATTAAGTAGGTAGGAAAGCACGATAGGAGGCATGTCTCAGGCCTAG
GTGACAGCGGAGAACTTTAGAGGTAGGCTGGAAGGAAAGAGAAAGGCTAGGAGCTAGGCTAAATA
CGGAAGTTAATTCGTCTTTCGTCTGTATTGTGATCCCATGCCAGGACGAAGAAATCAAAGGATTT
ATAGTCATGCTCATGGAAGTCTTGACTGGTTTAACGCTCATACCAATACGGCAGAGCATTTTTTC
TTAACTATTGAAAAAGCTCTTGATTTTTTCGGTTTTAAGGAAGGC
Right flanking sequence: Indices 73328 -- 73827
AGAGATATAGCCACCATAGACTAGCTCGTCTGTAGGGCTATGATCAGGCCATGCGGTCTAGAGAT
CTAGTTGACGCTTGGAAGAAACGGATATCCTTTCGAGAGAGAACGTGGCCATCCCGACCTGGAAG
GACTTTTATACTTCCTGCTTTGAGTGGGCCAGAAAGACAGATCAGTTCGTTTGCAACAGATCTTG
GAAGAAAATCAACAGAAAGAAGGTTGAGTGATAGACGAGGGGTTGTTTTCAGATGACGAAGTATT
CGTCAGCGATAGGGCTTCGCGCCTGAGAACAAAAAAAATTAAGGAAATAAAAAAGGCTTACAGAG
GATTTCCAATAAGAAAAGGAAGAAGACCCCCATAGAACTCAAAGCGGAGGGGCTCTTCCTCAGAA
TGACGATGTGTGAGTTGCTTTTGTGAGGGGATAAAAGAGGTATGAAGAAAGTTGGCCAAGGTCAT
AAGGTAAGGCCAAAGGTATTGGTGCATCTTTTTCTAGAAGTGGTC
Found at i:115116 original size:22 final size:22
Alignment explanation
Indices: 115077--115119 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
115067 CTTCATCCGA
*
115077 ATAAGGAAGAGACAGGTACAAT
1 ATAAGGAAGAAACAGGTACAAT
* *
115099 ATAAGGAATAAACTGGTACAA
1 ATAAGGAAGAAACAGGTACAA
115120 GGAGTCCAGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.51, C:0.09, G:0.23, T:0.16
Consensus pattern (22 bp):
ATAAGGAAGAAACAGGTACAAT
Left flanking sequence: Indices 114577 -- 115076
GTGAAACAAAGGAATGCTCCGTCAATTAAGTATTACCGGGGCCCCTTCTCCCTTATTCGCTCCTA
GGAATTAAGGGGAATAGGGCGCCTCGATTCAGTAGTTACAGGCCCGGGGCCTATATCTAGATTAG
AGGAATTAAATCGAGGAAGAAAAGGGAGCTGCGGATAAGGACAAGTCCGATCAGAACTACTACAC
AACCTTCAATGACTCTAACAAAAAACCTTGATGAATTAGATTAGAAAGGAAAGAAAGAGAAAAGG
AAGAAGAAAAGAAATTATCCTAAGGAAATGAAACTAATAACAAATAGGATAATAGAGAGAAAGAA
CAACTTAAAGCTCATAGCATGCTAGCCGCCCTAGCTACTAGAGCGCTTAGCTAACAGCTCTTGGC
TCAGAAAGAATAGCTCCTAGGGCGAAAATTTTTTTATAAATTACCCGCTCAATCAGATAGGACGA
CCTACTCCTTAGTTGAACCGGACTTTGCCACTCACCTTCATCCGA
Right flanking sequence: Indices 115120 -- 115619
GGAGTCCAGCTGAACCACCCAGATCCGCTTCTTTCATCAAGCAACACAGCCTAGTCTAACCCGAG
CCCGAGTTCGTATTGGTAAATTTCGGGTCAGCAGGCAAAGGAAAGGGAACACCCACGTTCTACTT
TAATTAAGATGTGGTACAGTACTCTTCCCATGTTAAACTGCCCTGCCTTTCTAAAGGCCTGGTAC
ATCTTTTTTTTTTAAACCTATTCTCGACCCTCCTTCCTACCCCACCCACCGCTCTTCCTTTGAGG
CAAAAGTCTCTCTTATTCGACCAGAAGAGCCTTCTTCTTCATTTCACCTATGGACTTTTTCCACG
TAGCAACTTCCATACTGCACGAAGTCTTCTTCGGGAATGGCTTACCGCTCCGTGGGAATTGGATT
TAGTCCCGCGCGCTCCTGAAATGGGGGCTCTTTCCTCGGTGCGAAGGATCAAACCCTACGCCCAC
TGCCCTTGTTCCAAGATCTCACTTCATTCACGTATCCGCATCTGC
Found at i:122197 original size:19 final size:19
Alignment explanation
Indices: 122164--122202 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
122154 GAAGAAAGCG
** *
122164 TAAAAAAGAGCTTCCTCTA
1 TAAAAAAGAAATTCCCCTA
122183 TAAAAAAGAAATTCCCCTA
1 TAAAAAAGAAATTCCCCTA
122202 T
1 T
122203 CACCCGAGGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.21, G:0.08, T:0.26
Consensus pattern (19 bp):
TAAAAAAGAAATTCCCCTA
Left flanking sequence: Indices 121664 -- 122163
TTGTTAAAAAGCTTCCTTTAACAATTAGATTAGGATCGGAGAAGTAAGCCAAGTCAAGTCAAGGA
AGATGCCCACTACTTATATAATATAATAATAAATTTCCAGCCTCTAAACTAAAGGCTTTGAGCAA
GAAAAGGGATTGATATAGAGCATCGTGCTGATCGATGCGCGAAATACCCGGTTTTATAGTCAAAA
GATCTGCTAGCTATGGAGAAAGTATCCCGTCGACCTTCCTTCGATGACATCTCTGGACCAAGGTT
CCGGGCGTAGAATCCGCGTTAGTATCTGAAATGGATCAGTAGTCTCTCACAGAGTCCTCTCTTAC
GCTTAAGGCATCAAAAATAGAAACGAATCTGAGCTGGCTTTCAAGAAGGTATGTATAGCAGTAAG
ACTCGTAGGCGGACTAAGAGCTCTTGTCTTAGGCTGTTCTCAAATCCACACTTTCGGAATAGAAT
GGCTTGTTTTCAAGGTAACTAGAAATTGCATAAGAGAAGAAAGCG
Right flanking sequence: Indices 122203 -- 122702
CACCCGAGGGAACTCACTTAATCCTCATCTCTTGAACTCACTGAAACCAAGCCAATGGAGATTGG
CGGGTAAGATGCTGGAAATAGACTTCGCCGAATCCCTTTTCATTACATCCAACCGTCTGCTACTT
CTGCTACCGCAGCCCTTGCGACTTGATTGGTCCCCTTCCACTTCCCCCATTGTCAACTCGCTTGC
CCCGGCGTGAAGAACTCTCTCACGGAAGTGACTTCGACCAAGCATCTCGATTCAACTACAAGCCT
GCTATTCACTCGCTTTCGACGTTTCAAGTCGGATCTTGCCTTCACTCCTAAAGGAAGAAAACCTC
ACCTCAGAGCTTCACAAGAGCAGTCGAAAGAGCAAACTGATTCAACTTGAGCTATTCTTATTATT
GTGACAAGATCTGGAATTGCCTCTACGCTTTTTTCCTTTGCAACTTGCTACTAATGTCATACCGC
ATTCAGTCTAATTGGCCCAGCTCTCCTCTTTTCTTTGGTCAAGCC
Found at i:182417 original size:5 final size:5
Alignment explanation
Indices: 182407--182431 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
182397 ACAAAGCCCT
182407 TAGGG TAGGG TAGGG TAGGG TAGGG
1 TAGGG TAGGG TAGGG TAGGG TAGGG
182432 GGCCGTCGCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.60, T:0.20
Consensus pattern (5 bp):
TAGGG
Left flanking sequence: Indices 181907 -- 182406
GTGATGATTTCCATGAATGCTGCCCTCGAGGACGTGTACAAGAAGGTCTTTTCCAATTCCTATCA
ACATGGTGCCCCTCTACTGAGAGGGGCGTGAAAACGCCGTGGAGACTTTGACCGAATGAATAGGG
ATCAATTAATAGACATTTTGATCACGGCTGGCCAGCGCTTTTTTCGTTCGCTATGTGCTGACTGG
ATGCGTACTCGCGTGATCGATGGACGGGGGAATTTCGTGAATGACGAGACCGGCCTAACCTAAAG
TAAAGGCTCTTCCCTCTCTTGATGGCGAATCTTGATTGACTGACACTAGGAACCGATTCGGAGAA
AGAAGAAGCATGGCATGAGATACGCGGCGGATAAATTTCCGATAGCGAATTACTTGACTCGATGG
ATAGGGGGAGGGACCTCCAACTCAAGCACGAAATCAATGTTGAGTCAACAATCATCGAGAGCCAA
GCGAGATCGAGACCCGTCGTATAGGTTGGGGAAAAACAAAGCCCT
Right flanking sequence: Indices 182432 -- 182931
GGCCGTCGCGCCTGCGCTTCCTCAAATATCCCAATAAATAAAGGTAGGGGCTTCAAAGCTTGACT
AAGAAGCGCGAAACGTCGACTTCACGAAAGAAGGGGGCGCCCTAGCTGCAATCTTTCTAAAGCGC
CAACGAGCAAGAGCAAGAAAGGGCCCCGTCACTATAGATAGGGCGTTAGTGCTAACGAAAGATTG
CAGGGCACTAGCTTACTAATAATATAGGGCTTTTTCAGCTTGATCGGAATCGATTCTATGATTGA
ATAGCAGAAGTGCTACTTAGTAGTAGAAACTCAGAGAGACAAACAGAGAGGGGACTCTACCTGCT
AACTCCTAGGATGAGAGGGAGGTCCCTTGTTTTTGGCAGGAATAGTTCAAGCCTTTGTTGCCCCT
CGGTAGAGTGAGTCTACTTAGCGAACTGGCAGGACGCGGAGATCATCAATATGAATCTCGAGAGT
GGATGGTTGACCGCCGCCCCCTTGTCCTGGAGGCTCTCCGGCCGG
Found at i:275803 original size:18 final size:18
Alignment explanation
Indices: 275763--275805 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
275753 AGCGCCCTGC
275763 CATAGTCGCGAGTCTGTTT
1 CATAGTCGCGAG-CTGTTT
275782 -ATAGTCGCGA-CTGTTGT
1 CATAGTCGCGAGCTGTT-T
275799 CATAGTC
1 CATAGTC
275806 AACAAGGTCA
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:0.19, C:0.21, G:0.26, T:0.35
Consensus pattern (18 bp):
CATAGTCGCGAGCTGTTT
Left flanking sequence: Indices 275263 -- 275762
ACCCCCGAAAGGGCTGCCGTCCGATGGGTACACGAAAGTGACGAAGTTGCTTTGACTACAGAACC
ATGCCTGTCTGTTGGAGCGAATTGGATGATCGGGCCGAGCCCCCTCTTCCCCGTGCTCTCCTTTC
CCTAATATGAACCTCACGTCATCAATTTCTGACTCGGCCTGGCCCGGTCGCCCTACGCGACTGGC
GCTTCAAAAGGCGAAACTCTCGTCGTAGTTTGGCGACCTGACGGGGCTCCCACTTTTTGTTATCT
AAAGGCGAAGACTCAGAAGTGGGCGTCGACTCGGCCCAGCGGGCGAACATGCCGGGCTCCGGCTC
CGCGCACCTGCCCTTTCGAAGCACTTTCTAGTGTGCGCTTTAGTTTTCGAATGTGTTGTTCAGCG
TCACGAGTCTACAAGCCTTTCGTGTTTCAGTGCTCGCCTTCATAATCTTCAGTAGGGGCCGTCTA
GTCTTTTGATTAGAGTAGGGGTCGCGAGAGAGCAGAGCGCCCTGC
Right flanking sequence: Indices 275806 -- 276305
AACAAGGTCACAACTTCCAGGAAAAAACTTCGAATTGGGAGGGCGATCCTCCCGGTGAACTGACC
GTACCCCAAACCGACACAGGTGAACAAGTAGAGTATACTAGGGCGCTTGAGAGAACCATGTCGAA
GGAACTCGGCAAAATGACCCCGTAACTTCGGGAGAAGGGGTGCTCTCCTATCTTTTGATTAGGAA
AGCGGCACATACCAGGGGGTAGCGACTGTTTATTAAAAACACAGGACTCTGCTAAGTGGTAACAC
GATGTATAGAGTCTGACACCTGCCCGGTGCTGGAAGGTCGGAAGGAGAAGTGTTATAAGCTTTGA
ATGGAAGCCCCGGTAAACGGCGGCAGTAACTCTAACTGTCCTAAGGTAGCGAAATTCCTTGTCGC
ATAAGTAGCGACCTGCACGAATGGTGTAACGACTGCCCCGCTGTCTCCGACATGGACCCGGTGAA
ATTGAATTCTCCGTGAAGATGCGGAGTACCAACGGCTAGACGGTA
Found at i:294945 original size:33 final size:33
Alignment explanation
Indices: 294903--294970 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
294893 ACAGAGGTGA
* * *
294903 CTAATACAGACGAGGAGAAAGAGAAACCGATAC
1 CTAATACAGACGACGAGAAAAAGAAACCGAAAC
294936 CTAATACAGACGACGAGAAAAAGAAACCGAAAC
1 CTAATACAGACGACGAGAAAAAGAAACCGAAAC
294969 CT
1 CT
294971 CCTTGAAAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.50, C:0.21, G:0.21, T:0.09
Consensus pattern (33 bp):
CTAATACAGACGACGAGAAAAAGAAACCGAAAC
Left flanking sequence: Indices 294403 -- 294902
TGCCCAGAGGAGGATGCTAGTGAGTTGTTAAGGAACTTCTTGCATTGCACATAGGGAAGGTGCGG
AGCGGTTCTTTATCTTATCATTGCCCTAAGGTAAGGCTTGGAACTGAACTGCAAGTATATAAGAA
AGGATATTGCTAAGAGTTAGCAGTCGAAGGGAGTTTGAACTGTGAAGGAATTACCGGTGCGCACA
GAGAAGGGGGAGAGAATACAGAAAATACGCCCTTGACTATACGGAGGATAAGAAATTAGGCAGGA
CTGATTTCCCTTCTTATATTATTGTTGAGACAGGAAAGCAGTCAAGCGAATCGACGCATCTATCA
GCAGTAGGAGTAGGACGTAGCGCATAAGAGGGTCTTAGGAATCGATCTAGATGCCCAGAAGAGGA
TGCTATCGAATGCCCTCTTTGACGGGCTTGTGCAAGAAGCCGATTATTCTACCATCTTTTCCAAT
AGTGCCATTTTATTGATGCTATCGAAGAAGAACCAACAGAGGTGA
Right flanking sequence: Indices 294971 -- 295470
CCTTGAAAGAAGGAAAAATGCCACATCAGTAAGAGAAGTGGGCAAAAAAGCTGCTCTCCTATTTG
GACCACCTTCCACCCTGTCTCCCTCTCCATACATACAGAACCGTAGTTTATGGTCTCTTGTGTTT
ACAGCCCATTCTTCACCTTTCCTATAGCCAGCAAATCAAGGAGATACGGCTTAAAAGCCTACGCG
CGTCAGGTTGTTCGGCTTCGGCCCTTCCTACACGTGACTACACGGAATTAACTTTACTTTACGGT
ACGGAACTAGATATGAATTTCATCCTCTGTTGGCGAGATCAGAGGCAACGGTGGCAGCAGCTGTG
GATTCTGTTGATTCTTCATCTCCTCGCTTGACGCTCTCTTCAATTGCAGATCCTGAACCTTCGGT
CAAGTTGCTTTTCTATCCTGAACTTTCGGCTAAAGTGGCTTCCTCCTCTCTTCTCTTGAACTTTC
GTTCAAGTGGCTTCCTGTAGGGGCCTTTGAACGGGCCTTGGTGGG
Found at i:374468 original size:24 final size:24
Alignment explanation
Indices: 374441--374488 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
374431 AACTTGCAAA
*
374441 CATAACCAGGCAGTGAGGGATCTT
1 CATAACCAGGCAGTGAGGAATCTT
* *
374465 CATACCCAGGCGGTGAGGAATCTT
1 CATAACCAGGCAGTGAGGAATCTT
374489 AAGGGGAGGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (24 bp):
CATAACCAGGCAGTGAGGAATCTT
Left flanking sequence: Indices 373941 -- 374440
AAATCAGGTCTTGTAATATACTGCAGGGCTCCAACGATGCTTCTGTACAGAGATGGATTATGAAA
TGGAGTAGAAGAGACTGCAGCAGAGGACTGATTTTAAAGTTAATTGGAGAAGAGCAGGGCTTACA
ATTCAGCATAGCAGCTCTCTGGAGGAGATCCAACGCATATTTTTGCTGTGTTAAAAAAAGTCCAC
GATCATTCTTGTCTTGAGTACCTCAATGCCAAGAAAATAGTTCAAGTTCCCGAGGTTCTTTATAG
CAAACTGAGCACTTAATTCAGTGATTAGAGTGGAGATATAAGAGGTATCACTGCCAGTTATAATA
ATATCATCCACATAAACCGCAAGAATTGTAGTTCGCAAACTGTTAGTTTGAATAAATAACGAGGA
ATCACTACGGCTCATAAGAAAGCCTTTACTGATTAAACAGCTATAAAACTTATCATACCAAGCGC
GTGATGCCTGTTTAAGACCATACAATGCTTTCTGCAACTTGCAAA
Right flanking sequence: Indices 374489 -- 374988
AAGGGGAGGGGTTGGTAGTGAAGGGAAGTCCAGGGCTGTGTCTGATCAGCTTACTGGGAGAATTC
CAGGCGAGGGAGTATTGGTAAGGTTATGGAGGAAAGAGGAAATAGGATTTTGGGCATCTCTCGTT
GCTTCGGATTTTGATGATAAATAAGCTTCTCACAGATATTTACTTTTAGATAGATACCAGCATAG
TATCTTAATTAGCAGTTTCTTGAACTTGGTTGCACTCGTAAAGCAGCTTAAGAGAGCAACGAAAG
ACGGAGCGGTGATATTTCCTGACTAGCAAGTGGAGGATCATTCCAGGCTCTAATTCAGTCTCTGA
TGGCGTAGCTGATGTGTCATGCTAGGAAGCTGAGCTAGGGCATTTCTTCTTTCGGTTTAAGTGTT
CTAAGAAGTGAAAACCCTCCTCTCCGCTTCTGGCAGCATAGAAGGAAGCTTGGGGGAAAGGTCTA
AGTGCAAGCATTGAGTCAAACTGATTCAGGTATAGCAATGTAGTT
Found at i:395976 original size:22 final size:22
Alignment explanation
Indices: 395944--395994 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
395934 CTCTGGCAAT
395944 GCTATGCTGGAGGGAATCTCTG
1 GCTATGCTGGAGGGAATCTCTG
* *
395966 GCTATGGTGGAGGGATTCTCTG
1 GCTATGCTGGAGGGAATCTCTG
395988 GCTATGC
1 GCTATGC
395995 AAATGGTGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.16, C:0.18, G:0.37, T:0.29
Consensus pattern (22 bp):
GCTATGCTGGAGGGAATCTCTG
Left flanking sequence: Indices 395444 -- 395943
GGAAAGAAGTTTGCAGGTAGCTGTTAGACGTCGCTCCTAGAGCAGAAAGAAGTCAACCATCAAGA
GATCCTAGAAGATCAAGAGAAAGAATTTATCACAGGACTCAAAATCTTCCCCTTCCGATTAACAA
TCTCTTCCTTCCATTATGAAGATTCATTTATGAATTCTGAACGTTCATCTCTCTTTTAGTAGTAG
TCGGAGTACTGGGGAATATCTTATCGTCAGAGAAGTCAAAAAGGAAATGCCAACTTTCCTTTCCC
TCCTAAGCTCCTCATTTCACACAATAAACTATTTTCCGACATTTCTTTTCTTTACTTCACTCGCT
TTCGAGTCGACGAAGAAAAGAAGATTAACAACACCTTATGGAGATAGCTTGCCTTCACTCTCACA
GCTTGTGTGCCGTGGAAGGGGAAGGTCTTGCTTCCTCTCGTGCCTTTAAAAAAAGTACCCATACC
ATTATGATCACCTTTAGAGTAAAACTAATGTCGTTCTCTGGCAAT
Right flanking sequence: Indices 395995 -- 396494
AAATGGTGGAGGGATTATGAAGTCTTTGGGTAATGGCACTAAGCTTAATACACTTAGGAAATCCC
TAGATAGAGAATGACCTTAAAAGGAACAAAGCTCTATTAAATCCACGGATAGAGACCTTAAAAGG
AACAAAGCTCTATTAAATGCCGGTCTCCTGCTGTATGTTTTTATTTTTATTCTCTTACATAAAAT
TAAGGACATAGTGTCCGAAAACCTCTCATAGCAGGTGTTAAGTCTAAATCAGACTGAGACTGATG
GTCCAGGGTAGCGACACCTGAAATCGTATTAATAAGCTCAGGGTTTCACTCAGATCTTTGTGTGG
CAGAACGCCAAATAGGGTGGCTTGCCACACCTGAGCTCAGGGTTTTACTCTGATCTTTGTGTGGC
AGAACGCCAAGCCAAGGGGAAGAACGCCAAGACAAGGGTTGCGACAACTGAAATCTTATTAATAA
CCTCAGGGAAAGCCAGGGTTTTACTCGGATTTTAAAGAAAAACAA
Found at i:396410 original size:20 final size:20
Alignment explanation
Indices: 396385--396422 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
396375 TTTGTGTGGC
*
396385 AGAACGCCAAGCCAAGGGGA
1 AGAACGCCAAGACAAGGGGA
396405 AGAACGCCAAGACAAGGG
1 AGAACGCCAAGACAAGGG
396423 TTGCGACAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.24, G:0.34, T:0.00
Consensus pattern (20 bp):
AGAACGCCAAGACAAGGGGA
Left flanking sequence: Indices 395885 -- 396384
AAAGTACCCATACCATTATGATCACCTTTAGAGTAAAACTAATGTCGTTCTCTGGCAATGCTATG
CTGGAGGGAATCTCTGGCTATGGTGGAGGGATTCTCTGGCTATGCAAATGGTGGAGGGATTATGA
AGTCTTTGGGTAATGGCACTAAGCTTAATACACTTAGGAAATCCCTAGATAGAGAATGACCTTAA
AAGGAACAAAGCTCTATTAAATCCACGGATAGAGACCTTAAAAGGAACAAAGCTCTATTAAATGC
CGGTCTCCTGCTGTATGTTTTTATTTTTATTCTCTTACATAAAATTAAGGACATAGTGTCCGAAA
ACCTCTCATAGCAGGTGTTAAGTCTAAATCAGACTGAGACTGATGGTCCAGGGTAGCGACACCTG
AAATCGTATTAATAAGCTCAGGGTTTCACTCAGATCTTTGTGTGGCAGAACGCCAAATAGGGTGG
CTTGCCACACCTGAGCTCAGGGTTTTACTCTGATCTTTGTGTGGC
Right flanking sequence: Indices 396423 -- 396922
TTGCGACAACTGAAATCTTATTAATAACCTCAGGGAAAGCCAGGGTTTTACTCGGATTTTAAAGA
AAAACAAAAAAAAATATGTGCAACAAACAATGGATTACTATGTCATTGATAGATATAGAGAGAAA
GGAGGAAGAAAAAAAGGAACTAATACGATTTTGGAATGCGTTTTACGATCATATATGTATAAATA
CTCAAATTAGTGAAGAAAATGATATATCCAAATCAGTTCAGTATAAGCAAGAAGTCTTCGAAATT
TTAAAAAATGCAAAGGATAGGTTACCATTAAGTGAAGAAGAATTACGTAAGATCCAAATGGATAT
TGAGGATCTGACTATATTCTTCGATGAGGAATCTATGTTTAAGACAGCTCCCAACATCATAAAAA
TCTTAATCCGTAATACTGAGGAAAATGCTAAGGATTCTCTCAGGTCTAGTTTATTCGATAAGGCT
GATTTGGAATTGCTTTCAGAGTTCGGTCAATATACGATTGAAGCA
Found at i:406355 original size:21 final size:21
Alignment explanation
Indices: 406296--406347 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
406286 GCCAATACCC
* * * *
406296 GCAATCAAGTCATACTCAACA
1 GCAATCAAGTTAAAATCACCA
406317 GCAATCAAGTTAAAATCACCA
1 GCAATCAAGTTAAAATCACCA
406338 GCAATCAAGT
1 GCAATCAAGT
406348 AAGCATCAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.44, C:0.25, G:0.12, T:0.19
Consensus pattern (21 bp):
GCAATCAAGTTAAAATCACCA
Left flanking sequence: Indices 405796 -- 406295
AGGGTCCTCTTGGAAATCCTGCTCCTTCTACGGCTGCTAGTATCCTTGTTCTTCTACTCGCAGGC
AGGGCTGCTCTTGCTATTGTTGCTAGGATCCTCTTATCCTATTGGTTGCTAGTCCCGGGCTTCTA
GGACAAAGTGTAAAGAGAAGAGTTAGAGTTCTTCCTCTTTCTCCCCTATCACTTAAAGGGAGATG
GCCTAATTTCTATTCTATCTATGGATCGAGAATAATCGTCAGTTTGAGGCCTGTCTTTGAACATA
AGGCATGAGAATCCTTCTCAGCGGAGTCTCTGTGTGTTGAGATCGAGGGTAGTTTGATTCTGGGA
ACCGAGCCGGCTTCGGCCAACGAATGAAGTTCTTTAGTAGGTTATCCGGGCATAGTTGAGTTAGG
AGCGAGGGAGTTCCATTTACTAGCTATATCCTCTTATTCTCGGGAAAGGGCAGTTCCAGCTAGGG
CTAGAGGACAGTCACATTCCTATTAGTAGGTTGAGGCCAATACCC
Right flanking sequence: Indices 406348 -- 406847
AAGCATCAACTGCTTTACCGTATAACAGTTCCTTGAGCAGATGTGATTGCAAATCTTCTACTACC
AAAGAATCTCTATCCGTCCCCCATATGCCCTTCGTTCTCCTGTCGTATGGATGTCTGTTTTCCCC
CCCCCCCTTCAATGCTGTCGCATTCTTGCCCCTTTTCGGTATGGTCCTTTCATTCAGGCCTTTCC
TTATGCACCGATGGTTTCATGATTCCTTGAAAAAAAAAATGTTTGCGAGCGTCAAAGCACCTAAC
CATACCTACTACACCATGCACTCCGCCGGTAAGCAGCCCGGACATGAAAGAAAGTGCATTTGGAA
GCATATGTGTGCCACTTTGGCACGAGATTTCAGCTCTACTTTGACTTTCATGGTTCCACTGTTCG
TCGAGATCCCTTGAGTGCTACTAAATGTAGAGAAAGACATTCATAGCTTGAACCTTCTGGTCACT
TCATTCCCTTTACATAAAAAAAGGTTTTGCTTGCTTTTCCACCTA
Found at i:461620 original size:17 final size:17
Alignment explanation
Indices: 461598--461642 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
461588 TGGGGAAGAA
*
461598 AGGAAATCTGTCTTTAT
1 AGGAAATCTGTATTTAT
* *
461615 AGGAAATTTATATTTAT
1 AGGAAATCTGTATTTAT
*
461632 AGGGAATCTGT
1 AGGAAATCTGT
461643 GCTTACTAAG
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (17 bp):
AGGAAATCTGTATTTAT
Left flanking sequence: Indices 461098 -- 461597
CTCCCTGTCAGCTCCCTTCAACCATACATATATCTTAAATCTAGCTGGGTGCATGCAGACGTTTG
CGGACATCACCTATGGTGAATTTCCCGAAGCACATCTCGTTGGATGGATGTCGTTGCCGCGAAGT
GAGCTGGGCCACCTTCTGAGCGGAAGTGCCTTTGTAGCCTAGATCGTGCTCAGCTGGATAGGTTC
TTACTCTTACTTACGGATCGAAATAACAAAAGAAAGAACTAGAGCCCTGCTGTTCTAAAGCACAA
GTAAGGGCTTTTTTGTTCTACCAGAGAGAGTCTATTCTCACACTGAATCAATCATTCGAAGGGTC
GGGGAAGGAAGCGATGATCGGTCTATCCCATTAAGCGTAATCCCGTTAGCCAATGAAAGGACTAC
CTTTCTTGGACTGTGAGCGACGACACCAGATCAGAGCTAAGCGAGAAACGAGAAGCTGCGGTGAA
TCAATCAGTATTAGCTAAGGCAAGCATTCTAATTCTGGGGAAGAA
Right flanking sequence: Indices 461643 -- 462142
GCTTACTAAGCCTTTGTTTGAAGGACCGGTCTGAAAGTGCAAGACTAGCTGGACCCGGACTGACT
AATCGCTAAGAGCTCGTCCCGAGAGAACTCTCAGTACGGCATTCAGTAAGAAGTTAGCCAAGTTC
TGTTAGCCGTTACGTTAGGGTGACTCGAGAAAGTTTGAAAGGGAATTCCGATAGCCCTTAAGCTT
CAAGCCGTGAAGGAGGAATCCGAGTTACATCCTCTTAAAATAAGGAAGATCGTTCATCAGCGCTT
TCAGTAACTAAGAGTCAATCAGGTGCGTAATCAAGCTCATCTCATTACTTAGGATCTCACTCTCT
CAATCTCCTATCTGGATTCTTTGCTTAGTCAGAGTTGAATCTTATAATAAGGACAAGAAAGACTG
GCATTCAGGTAAGGCATGATTCGGAAGATAGTGAATCTCTCCTTACTTGACTCTAGAAAGCTCTT
TCTTTGCAAGTGGCAAGCAAGACTATGGTTAGAGGGAAGGAATAA
Found at i:472451 original size:28 final size:28
Alignment explanation
Indices: 472411--472474 Score: 128
Period size: 28 Copynumber: 2.3 Consensus size: 28
472401 GGTACAGAGA
472411 GGGAGAGGTACGTAGTCACTCGACCAAC
1 GGGAGAGGTACGTAGTCACTCGACCAAC
472439 GGGAGAGGTACGTAGTCACTCGACCAAC
1 GGGAGAGGTACGTAGTCACTCGACCAAC
472467 GGGAGAGG
1 GGGAGAGG
472475 GGAAGAATAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.28, C:0.22, G:0.38, T:0.12
Consensus pattern (28 bp):
GGGAGAGGTACGTAGTCACTCGACCAAC
Left flanking sequence: Indices 471911 -- 472410
TAGGAACGGAACGAGTAATCGAAGAAGAAGATTGTCTAGTCATCATACAGTCGGGGGAAGACTAT
CAGTGACCGAGCTTCTAATTGGTATTGGATTTGAACTCCCGAGATTTCCTTTTAGTCGTGAGTGT
CGTCCTCCTAAAATAAAAAACTGGCATCTCATATAGATGCATTTTCTTCTAATTTACTTTTCTTT
CTGAGACGACTAGTCAAATTGAAAAAGTTGCAACTTATATAGCTGAAAAATGTTGTAATTTCATT
TCCTAGGAGAAGTTTTAATCCCTTTGACACCTTATGAAAAGAAAACTAAAATGGTTATTTATGCC
CTCAGTGAAAAAACCTATCATCAACATTCTACTATACTACGTATAGTAGTTGGCAATCTATAGAT
AGTGCCATGCTTTTGACGATTATGGGCCCTGAAATATTAGAAACAGGAGAAGAATACCGAGCGTT
CTTGGAATTGGAAGGCGAGGTGCCGAGGCGTCGATGGTACAGAGA
Right flanking sequence: Indices 472475 -- 472974
GGAAGAATAGAAAGAATAATCCGGCTCACAACCTTTAAGTTAAGAGAGCCACGGCCGATGTGAGG
AAAGGACCCCAAGCCCCAAGAAAGGATAAGGGTCGAGATTAGGGCACATTTGACGGAGAAGCCGC
TAGAGCGCGTTTTCAGGCAGGGGTGCCCCGCTCTAATTGTGACCCTTGAAAGCTTTCGTATCAAT
TCATATTTAGCCGCGTGGGATTTCCGCTTACGAGAAGCCCCTAGCGCAAAAAGATAAGGGGGAAA
CTCAGTAAGATGTCGGAGAAGCGAAATATACGAGATCACAAACGTAGATTGCTCGCGGCTAAATA
TGAATTGATACGAAGAAAAATTTGTAAAGATCCCGATCTTACTAGTGATATGCGGGACAAAGATC
GTTATAAGTTTTCCAAGTTGCCAAGAAAAAGTTCCTTTGCACGAGTAAGAAAGCGATGTCTTTTC
ACGGGTCGCCCCCGTTCCATATATGAGTTCTTTCGAATTTATCTT
Found at i:577333 original size:35 final size:35
Alignment explanation
Indices: 577287--577366 Score: 160
Period size: 35 Copynumber: 2.3 Consensus size: 35
577277 GGCCCTTTTG
577287 CGACTCAAACTGCCGGTACGCTTTCCGGCTCGCAA
1 CGACTCAAACTGCCGGTACGCTTTCCGGCTCGCAA
577322 CGACTCAAACTGCCGGTACGCTTTCCGGCTCGCAA
1 CGACTCAAACTGCCGGTACGCTTTCCGGCTCGCAA
577357 CGACTCAAAC
1 CGACTCAAAC
577367 GGGCGGAGGC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 45 1.00
ACGTcount: A:0.23, C:0.38, G:0.21, T:0.19
Consensus pattern (35 bp):
CGACTCAAACTGCCGGTACGCTTTCCGGCTCGCAA
Left flanking sequence: Indices 576787 -- 577286
ACCTCCGATCAGACAGAAAGATGCGATCGTTAGAGATTCGACGATTCCCGGTTGGACCTATTCAA
GCGATTGAACGAGATACTCGACAACTAGAAAGACGCACTTGAATACTGAATGCTATGAGTCGAGA
GAGAAAGAATTAATATCACCAACCATAAAGACGATAAAAGAAGGCACTCCCGTTCCCCCGAAATC
ATCTTCTGTGCGTGGTTATCCAATCATGATGTGGTAGGCTTAGTAGGGCTCGAACCTACAATCTA
ACCGTTATGAGCGGTACGTTTCAACCAATTAAACTATAAGCCCCTACGGATCTCTACATGCAATT
CGCTCACTTCGGGAAGAGCGGACGGAAGGCGACGGGGAGGCCTTTGCTCTATCTGCTTCTTCCTC
TTCTCAGGAATGAAGAATTAGATAAAAAAAAATGGATTATATTATTATATATATAATATTCTATA
TCTATTATTAGAATTAATAATATAATTAAGCAAGCGGCCCTTTTG
Right flanking sequence: Indices 577367 -- 577866
GGGCGGAGGCTCTCTATTTGCTTGCACTGCCGGCTGTTCGCCTTTAGTTAGAAGTAGAAGTCGCT
CTTTGCCCCACACTTCTAAAAAAGTATGGATTAATTAAGTAAGAAAAAAAAACTTGGTTACGGGA
ACCGAAGGTTAGGCCGACTACTTACTTTCTCCTTACCCTTAACAGGATTGTCTCCTACCGATCGA
GGAAAGGCTTAGAATCCATGCTTTGACCGGTAATGTCCAATCTAAGAACGTCTTGTGCCTTTTCC
TGGGCCCCCTTCATTCTGACTTAGCTAATTTAATTCTTTCTATTTCTAATGGGCTTATACTTTTT
TCTATATCCCCTGAGAAAAGAAAGTCCTGCTATATCTAATGTATTTTTTCCAGGACCGCTTGCTT
CTGATCGCGCTTTAGAGTCTGTGCCGGTTGATGATCCTCAGTCGCAAGGTCAAAGAGGGTCTGAT
TTCTAGCATCTATGAAATCACTAAGTCTGGTAGGCTTCTGCACAT
Found at i:617079 original size:20 final size:20
Alignment explanation
Indices: 617054--617092 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
617044 AGGTAACTCG
617054 AGAGTA-GAAAGAACTAGAAT
1 AGAGTATGAAAGAAC-AGAAT
*
617074 AGAGTATGACAGAACAGAA
1 AGAGTATGAAAGAACAGAA
617093 CCAGTAGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.54, C:0.08, G:0.26, T:0.13
Consensus pattern (20 bp):
AGAGTATGAAAGAACAGAAT
Left flanking sequence: Indices 616554 -- 617053
GATCTTCTTTCTCCGTTGTGAAAGGAGTTGGTTCCGTAGTTTTAGAATTCGGCTGATCCCAAGTA
CTCCATCTCCATCATTGCATATTTTTATATAGAAAGTAAAGAAGAAAAGGCATAACCAGAAGAAT
TGTGTAAAATAAGTAAATTTATCCAGTTGAGGCATGATTGATTTGAGAAAAAAGAAATTCTTACT
TCCAGAAAGAAGGAGCTCCCTTCCTGTACGAGTAAACAATAGATAAGGTTTGCTTGTTGGTTGTT
GACCAACAGAAAGCATGGGATGCCCCACAACAAATAGATGGGAGCAGGAAATCTTTATCATTCGG
CGTAGTGCAGCTTATATAGAAGGGGCAAAGCGCTGTTCGTGGCACAGCTTTCTTATATTACGATA
TTTTCATTGATCGTAGCTAATTAGGTGGCAACAACCGAAGAAGCAGAAGAAGTAGCTGCTACCGC
TTCGTGGGCTTCTTCTTTTTCTGAGTCTGCTCGAAAGGTAACTCG
Right flanking sequence: Indices 617093 -- 617592
CCAGTAGCTTTGAGCTTTCACGTGTTTCAGCTCTTGTTCACAATCCAGCTGCTATTGAATCAGCG
TAAGGAGATGCCGATGAGGGTACAATAGAGAAAAGAATGAGCTTTTGTTCAGAGCTTGAATCAGA
ATATCCTTCAGTAACTCCAGGATTCCCCTGGTAGGGCATACAGGACATACCAGGTGAGAAGTTCG
GGCGGAAAGATAGATCGAGTTTACTTTACCCTCTTGATTGACTTTCACTTTAGGACTGAAAGATA
GCAAAGGAAATGGCAGCAGTGCTTTATATAACTGCTTTTAGGTCTTCGTTGATCACTTCTGCTTA
ATTCTCTTTCGAAACCTAGAAAGCGAGAAAGAGAATAGTGAACGACTCCGATGCTATTTCTATTT
AATATTTAAGAAGATGGAGGAATAAGCGATGCTGCTAAGATCCGCAGTCGATTTAGCTCTTGAGG
GAAGGGAAAGGCGTAATTTGATGGGCTTTTAGGACTGGCCCGGAG
Found at i:688554 original size:19 final size:19
Alignment explanation
Indices: 688519--688557 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
688509 GAGCAAGCCC
*
688519 AAACAGAAGCAACAAGAAA
1 AAACAGAAGCAAAAAGAAA
688538 AAACA-AAGCAAGAAAGAAA
1 AAACAGAAGCAA-AAAGAAA
688557 A
1 A
688558 CAGCTCTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.72, C:0.13, G:0.15, T:0.00
Consensus pattern (19 bp):
AAACAGAAGCAAAAAGAAA
Left flanking sequence: Indices 688019 -- 688518
GATCTTCACTGGTCGGAGGCTAAGAGCTTTCTTTGACTCTGAGTCATATGGGATGGGTCCCTACT
CTCACTATGGCATAGTGGCCCAACGGTTCCTATGAAAGTCATAGCCGGACCTACTCTCCTCTCGC
CGATGGTTTGAGAGTTGCGTTGGCGTGACGCTAATCTACTTTCGAGTGCTTGAGTTTCACTCATG
TAGAGATAACGAAGGGAAAGGGCATTTGAGGGAGAGCCCAACCCAAGGGAAGGGGCAAAGAAAGG
ACCTGAGCACATTGACATCGAAGAAAAGGCCAATGAAAATAGGGAAAGTCCTATTCAAGCCGCTT
TACCGACGAGGTTAAAGAGCGGTAGCCCCTCCTTCGAGCAAGCAAGCGGCACTAAAAGCAGGATG
AAAGCAAGCAAGGAGTGTAAGCCACTTGCCCGATAGGGTAAGGAGCGGAGACCCTTCCTTCATTC
ATTAAGTTTAGGGATTTGAGTCAGGGATAACAGAGGAGCAAGCCC
Right flanking sequence: Indices 688558 -- 689057
CAGCTCTTTGTCTTACTGTGCCCGAGGAAGGGAAGAAAGAAGATGACAGACAAAGCACAACGGAG
GAATGAACTTCAAGCATGGAGGGGGAAAGTAACGGCACTCAAAGCTGTCTTCCATCAACCAAGCA
TGAAACAGAAGCCATGGACTAAGATGACTGGACAGGAGCGATAAGCAGCTATCAGCCACTCGAAC
CAAGTTAGAGGTTTTTTTCATGAGAGTCTTTCTAACATTCTTCACCTGAACCCGGGAACAGCTTT
GACTTAGATACTCTATTGTCAGATAGTTGAATGGCACCGGGAATGGATTAGGGAGCAAAGGAGAT
TAGGGAAAGTCCTCTGAAAGCCCTTTTTCCAACTGAGAGGGGCAGGAGAAGGATAGAAAGGTAGT
TTCCTCCAGCAAGAGGGATGACTTCTTCCTTTCCGCAAATAACAAGCGCTTTTCTTCGCCACATC
GCGTATAACGGGAATCGAACCCCCCTGCTGCTGGCGGGCGGATGG
Found at i:702842 original size:24 final size:24
Alignment explanation
Indices: 702815--702862 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
702805 TCTATTCCAT
702815 TAGCCGAGGAAAGAAGTAGCAAAG
1 TAGCCGAGGAAAGAAGTAGCAAAG
702839 TAGCCGAGGAAAGAAGTAGCAAAG
1 TAGCCGAGGAAAGAAGTAGCAAAG
702863 GAATCTCGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.46, C:0.12, G:0.33, T:0.08
Consensus pattern (24 bp):
TAGCCGAGGAAAGAAGTAGCAAAG
Left flanking sequence: Indices 702315 -- 702814
CCCCTTCAAAGTTTCTCATTCTTTCTTCCCTTTTCGCCCGCTTCGCTGGAATCTTGTTCTCTCCA
TAAGGAGGTTCTATAGTCACCCGATCTCTACACGATGCTGCGGAGCACCTCTTGTAGTCTTTGGC
TGACCTGATTGGTGCTTTCGTAGCGGGGAATGCACTTCGACTCCCCCTATCCCAGACAGAATGAA
GCTTTCACACTCCTTCTCTATAGTTGATCCATAGCTTGAACAAGACAGCTGCACCAGGATAGTCA
GAAAGAAGTAAAGCGCATCCACAACTGCCGCAGAAAGAAGAGGAGCATCTATACTATCTTCCGCA
ACTTCCGAAAGAGCCACATCAAGAACAAGAGCGGGTACCGCATGTGCCGTAAGACAGGCAGGAAT
GGGATATATATTTGAAAGAACAATAGCAAGGAGAGGACCAATTCTTCCAGATGAAAGATGACTAC
CAATGAACCAGGCAGGGACTAATCAAAATAAGGATTCTATTCCAT
Right flanking sequence: Indices 702863 -- 703362
GAATCTCGCTATCGTGGGAGGAAATAAAAAAGTAGGATAGGAAGCTCTATTTGATCTAAGGGATG
GCTAAAAGGCCAAATCCAGCTAAGAACAAAAAGAAGAGATCAAGGAGAGGGATATAGCTCTTTTT
ACGGGAGCTAGACGAGCACTCGCAAGAGAGCGACCGGCAGATCTAAAACTGCTCTAGTAAAGTAG
AACGAAAGTAGTCTAGGCACACGAGAGAAAGCAATTCAGGGCATTTGAATCGACGATAGCGAGAT
ACATAGCCCGTGAAGTCTCCCTTTGGACTAAGAAATCGGCACATAGTAGAATCGAACTGATGTAA
TGGGCGGAACGCTCCCCTACCGATGCCTTAGGCCCAAAAAAGCTTTCTTTTTCCTCAGGGGAGAC
CAGGAGCCATTGATTGAATCCTTCGAGCTAGTCGGCGAAGGGACCAATGGGTATGATAGAATAGA
TAGGAATGCCAGAGCGTCAATGAAATTCATGTTTTCCGGTTCTCC
Done.