Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_056360
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: 286503
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Found at i:14307 original size:20 final size:20
Alignment explanation
Indices: 14282--14323 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
14272 ATTCTCCCTT
*
14282 AACTCTATCTTTCATTTCAG
1 AACTCTATCTTTAATTTCAG
14302 AACTCTATCTTTAATTTCAG
1 AACTCTATCTTTAATTTCAG
14322 AA
1 AA
14324 TGGAATTCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.31, C:0.21, G:0.05, T:0.43
Consensus pattern (20 bp):
AACTCTATCTTTAATTTCAG
Left flanking sequence: Indices 13782 -- 14281
AAATATGGCAATATGAGATTCCGATTCCTTCGTAGGCAAGGCGTTCCGATCCGCCAGCGACATTC
CCAACAACTGAAAAAGCCTTCCCTACTATCCTCCTCTCCCATAGGTCGAGTTACTTCATACCAAA
GAGTCGAGTGACAAAGTACGTAAAGTAGTAAACTGCACTAGCTTTATGCCTTAGAAGAGGCAATT
GAAAATTATTCTCCGCCATAGAAGAAATTCATTCGCTAAAGATAGGCTTTCTTGACCCGTCTTTC
TTCTTTATTATCTCCTAAAAGAAACTCCACATCGGTCTGAACTCGCAACGTATAAAAAACTTCTA
TCTTACCCATCTCCCAGCTAAGCTCAAGCCCTTTCTATGAAATTGCGTATATATAGAAAAAGAAA
AATGATTCGTCTTGCTTCTTCACAGGATAGAAAATGAATTGGCAGGAAAGTCTTTCGACAAAGAA
AGTACGATCGGTTCATTAATAGTAATAGTAGCGGCATTCTCCCTT
Right flanking sequence: Indices 14324 -- 14823
TGGAATTCTCTGCCAGAGCTGCTGAACTAACAACTCTATTAGAAAGTCGAATTAGCAACTTTTAC
ACAAATTTTCAAATGGATGAGATCGGTCGAGTGGTTTCAGTTGGAGATGGGATTGCACGTGTTTA
TGGATTGAACGAGATTCAAGCTGGGGAAATGGTTGAATTTGCCAGCGGTGTGAAAGGAATAGCGT
TGAATCTTGAGAATGAGAATGTAGGGATTATTGTCTTTGGTAGTGATACCGCTATTAAAGAGGGA
GATCTTGTCAAGCGCACTGGATCTATTGTGGATGTTCCTGCGGGAAAGGCTATGCTAGGGCGTGT
GGTCGACGGGTTGGGAGTACCTATTGATGGAAGAGGGGCTCTAAGCGATCACGAGCGAAGACGTG
TCGAAGTGAAAGCCCCTGGGATTATTGAACGTAAATCTGTGCACGAGCCTATGCAAACAGGGTTA
AAAGCGGTAGATAGCTTGGTTCCTATAGGCCGTGGTCAACGAGAA
Found at i:51992 original size:16 final size:15
Alignment explanation
Indices: 51967--52000 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
51957 TTTATACTTT
51967 TATTTATACATAATA
1 TATTTATACATAATA
51982 TATTATATACATAATA
1 TATT-TATACATAATA
51998 TAT
1 TAT
52001 AAGATTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (15 bp):
TATTTATACATAATA
Left flanking sequence: Indices 51467 -- 51966
TCAGTAGTATAAGTGTTATTGTTAGGAGAATAAGTGTCTACTACAAGGTGCCTAAAGCGCATTTC
TCGAGCTCTAGGAGTGATTCTTCTCCGTTTGTAAAAAAGAGTAAGAGCAGTAAAGTTGACCGAAG
AGATTCTTTTTTGAAGTCAAGATGCTCTAATAACTGGCTAGGGATTCGCATTTCCCTCTAGGTAA
AGTCAAGAAAAAAGCTTATAGTATCTGGCATGCCTAAAAGAGATAGCAGGCATATCTTATCTTCA
ACTTGATTCTATTATAGAAGTGAATTCTCAAGCCTTTAGTGAGTTCCAGCGAGCTAGTTTCAGTC
ACAATAGGAGGGGGTTTAGTTATCTAACGTGCCAGGCTCCTTCCTTTACAACCATTGTAAGTTCC
CTTGAAGGCAGCATGAAAGTGTAAGAAAGAAGAGAAGGTTGAAAGTCTTATCTTATTTAAAGAAA
GAAAAGAAGGTTGAAAGAAGTTAAATTCTTTCTTTTTTATACTTT
Right flanking sequence: Indices 52001 -- 52500
AAGATTAAATAAGATGCTTTTTAGAAAGAAAGTATCTTGAGTCTCTTAATACAGCCCCATAAGGT
TGCAATGATTCGCTCCTCTATCAAGTCTTCAAGCTTTGAAACGAACTTGAGTATGATAAATCTAT
CTTGATAGCTGCTCTTTCCCCGGGGAGGCCTTGGGAATTCCTTGGCGTGATCCAATAGGCTCTTA
CTTCACCTCGAAAGGGAGCTAGTAAGTCGCAAACAGTCTTTCAATTCCTCCTGAAAAGAGGGCTC
AAAGGGCATTCATTTCTAGTTTTAAAAGGGGTTTTCGGCTCTATTCTATTCAAAAAAAAAGACTA
AGCGAGATTTCGAGAAGTGGTGTCTGTAGCCTGTTGATCGGCTTTCTCCTATCTGTTCTGAAGAA
AAGTTCTAGAAAAGGGGTGGGCGTGATCGTCTTCTAACTCTTCTCTTATCCTATCCGCTCTTGAA
AGAGAAAAGAGCCATTGGTCAACCAAGCACAGCACAAAAGGAACT
Found at i:98483 original size:13 final size:13
Alignment explanation
Indices: 98465--98490 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
98455 CCCCTGTCAT
98465 CATTATCCAAGCC
1 CATTATCCAAGCC
98478 CATTATCCAAGCC
1 CATTATCCAAGCC
98491 AAGGGCTCCT
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:0.31, C:0.38, G:0.08, T:0.23
Consensus pattern (13 bp):
CATTATCCAAGCC
Left flanking sequence: Indices 97965 -- 98464
ACGCATGAATAAAGCTGTCAAGCATTGAATTCAGGAAGGTTTTCGGGAAGATGTGAAAGTTACTC
TTTGAGAATGCCTTACTTCATCCGCAGCAAGAGAAGTAGCTCTTTTCGCCTTATCTGCTCTTATC
AGACTGACCCCTGTTGATGCGGAATAAGAGATGGAGCTCTTTTGCGGGATAACCGCCGCTAGCTC
ACATTAGCAAGGATGGATGAAGAAAGATTGTTTGCTGCAGAAGAAGACGTTGATCGAGAATCAAA
GAAAGAAACCTGGAAATTGGACTTCCAAGCCCACTTCCTACACTAATAGATAGGCCTCGGCCAAA
GAAGGTGGCTCTGTCACTAAGCAGGCCGGCAGAGAGGGCACTTTATGCCTAAACATGACAAGAAA
AAAGATGTTGCTTTACACTTTCTTTCCGTTCCTCCCCATCCCCCTAGACGCTACGGGAAGTTAAT
GCAAGTCGATAGGTCCACTCTTTGACTTCGCATAGCCCCTGTCAT
Right flanking sequence: Indices 98491 -- 98990
AAGGGCTCCTCTTTCATTAACAAAAAGTCTATAAAGCTTCATTGACTGTCTTTCCTCTTTGATAG
TGAACCGCTAGATACAATCTTTCAAGCTGAGGATTTAGCCTTTCATTCCAGAAGCTTCCCAAGTT
AAAAGGAGTGCAGGTCAAGCGAATGACTCGGCTTACCATAACTAACATAAGGGGTCAGTCAAGTG
AAGATATTTCTCTCTTCCACCCGCTGGCTTTGTAGTGGAAAACCGTGGCCCGAGGGCTTTCTCTG
GAAAAATGCTATCTCACAACTTCAAAATATATGAATGAGTGCTTTCTTCTTCAAGAGGGTTAATT
ACTTAATAAGAGTGAACGAAAGGCGCTTGCTTAACGCCCTAGGTTTTCTTCAATGAGAGCGCCCA
ATGATTGGTGATAAAGAAAGGGGGGAAAAGAAGGGCACAAAATACCCGGTGAATACGGCTTCTTA
CCTTAGCCTTGTATGCTTCCTTCGGGAAATCGATCCATCTGCCCT
Found at i:101482 original size:18 final size:18
Alignment explanation
Indices: 101461--101517 Score: 89
Period size: 18 Copynumber: 3.2 Consensus size: 18
101451 GTCACGGTCG
101461 ATATCGTCACTCA-CATCA
1 ATATCGTCACT-AGCATCA
101479 ATATCGTCACTAGCATCA
1 ATATCGTCACTAGCATCA
*
101497 ATATCGTCACTATCATCA
1 ATATCGTCACTAGCATCA
101515 ATA
1 ATA
101518 AGAAAACCCT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
17 1 0.03
18 36 0.97
ACGTcount: A:0.35, C:0.28, G:0.07, T:0.30
Consensus pattern (18 bp):
ATATCGTCACTAGCATCA
Left flanking sequence: Indices 100961 -- 101460
TACTAATCGATAGGGCCTCATTGGTAAGTGCTACAAGATCTCGTACATTGGAACCCATGGTTATG
GACCCGAATCCATTAGTATGGAACATTTTCTTTTCCAAGTGAAATCCCCTAGTATATGAAAGAGT
GAAAAAGTACTTTCGTTGTTGTGGAATAAGAAGCCTTCGTATCTTAATGCATGTATTTAATTTAT
TCGGAGCTATTAGAGCGGGATCCACTTTTTGGGGAATATGAGTCGAAGCAATAACAAGAATATTT
CTAGTGGAACATCTTTCACAATCCCTGGAGAGATAGTTCACTAATAGACCGAGGGATAAGTAATT
CGACTCATTCACATCCAGATCATGAATGTTTGGAATCCATATTATGCAAGGAGACATTGCTTTTG
CTAATTCGAATTGAAGGGTGATATAAAATCGGTCTATTTCCGGCATCATATCCATAGTTAGCGCA
TTCATCCTAGTTAGAAGCTCCAGCTCCGTATCAAGGTCACGGTCG
Right flanking sequence: Indices 101518 -- 102017
AGAAAACCCTTAGGCTTGTTATCCAGGAACTTGTTCAGAAATACTGTAATGAAAGGAACATAGGA
GTTTGTCGCTAGGTATTTGACCAAATAGGATCGTCCAGTTCCTATAGAACCTATCACTAAAATAC
CCCTAGAGGGGGATAGGGCTAAGCGGCGGAGCGAAAAGGGTTTTCCATGAGATGGGAAATGAAAA
CTATTCGCCCCACACGAGGTTTGTGAATAAGTGATTGTCTGATAATGAGCAAGGAATATCCGTCT
TTCTGCTAAACAGGGTGTATTGAACTCATAATTCATTAGATACTTTTTATGAATGTCAACTAAGT
ATCGTAAGTAAATTGCTCCTGGCTCTTCAATCATTTGATAACCAGAGTCATTCTTTGATAAATGA
TCACTATGAGTCAGACTCAATAGAATTTGATCAATCCTTTTTTCTGTCGTTAAGGTGGAGAACTG
AACCAAGAATTCTCTTTCTTTATCATCAATCGAATCACTGTTCGC
Found at i:103905 original size:21 final size:21
Alignment explanation
Indices: 103879--103968 Score: 90
Period size: 21 Copynumber: 4.1 Consensus size: 21
103869 ACTCACAAAG
* * *
103879 AAAAAAGGAAGTGAGTTAGAC
1 AAAAAAAGAAGTAACTTAGAC
* *
103900 AAAAAAAGAAGAAACTTGGAC
1 AAAAAAAGAAGTAACTTAGAC
*
103921 AAAAAAAGAAGTAACTTGGAC
1 AAAAAAAGAAGTAACTTAGAC
*
103942 AAAAAGAAAGGAAGTGACTTAGAC
1 -AAAA-AAA-GAAGTAACTTAGAC
103966 AAA
1 AAA
103969 TCTTTTTTGT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
21 36 0.62
22 4 0.07
23 6 0.10
24 12 0.21
ACGTcount: A:0.58, C:0.08, G:0.22, T:0.12
Consensus pattern (21 bp):
AAAAAAAGAAGTAACTTAGAC
Left flanking sequence: Indices 103379 -- 103878
ATTGTCCATACGTAAAATCATAATTCTTGATACGGGCCTTTTCCACATAAAAAGGGAATCTTTTG
TTACAATAGAAACAGAAGTGATGTAGATTATTCAAGAATCGAAGTCGATTTGCTTTATAAAAAGA
AGATATCAATGAACTTCTATGAAATGGTTTCAGGGGATTCAGCCAATTGTCTTGATCGTGGGATA
TCATTGAGAAATAGGAATCCGTGTTATCAAAAGATTTCTTATTTCTAGTATGGAATGAGTCAATC
ATCCACTTTAGTATCTTATTATTGAACAAAAATAGTGATATTGTTCCTCCATTGATCAAAAATTT
CGATTTTTGGGAAGTATCATGATCATCCAATAAGAAGGGTTTCAATTTTTTCAAATGAACGATTT
GAAGACCTATTGGTTCTAACAGCTGATTGCAGAGTTGATCATTCGAACCTTTCAATTCATAGATA
TGAATCTCGGACCGATGAATGGGGATATTCCCGAAACTCACAAAG
Right flanking sequence: Indices 103969 -- 104468
TCTTTTTTGTCGATAACCTCAGACCAATCAATCGAATATTGATTAATACGTAATCGATCGAACAC
TACTTGAAAAAGAAAACGGCTCTTCTGCTCAGAAATGAAATGTTCCAAATGTTCCTGGAAATTCT
TGCTCCCATTAGACCATTTGTATCTATATGCATTAGGATCCCAATTCATGGATCTCTCGGTTCGA
GAAAGAAAAAAAAGAGGATCGAACCATTTCTTCTGACTCAGTTTCAAATTCGATAAATGTTGGTT
GATCGTATATTTCATTATAGTTCTATGATTCAGAGTATCATTTCCTATTTGATCCCTTTGAATTC
CATATTCGAAGTTGCGATCGGATCTATTCATTAAAAAGAATTGATTCAATACATTTCTTATGTAC
CCATAGGTGCTATATTGGATTTGAATCAGATTTCGGATCAATCCATATTGATTGACTGCCTCCAT
TATGTTGTTGCTAGCAAATACCACTCTTTTTTGTTTTGGATCTTC
Found at i:106308 original size:9 final size:9
Alignment explanation
Indices: 106294--106330 Score: 74
Period size: 9 Copynumber: 4.1 Consensus size: 9
106284 CTTTCGATTG
106294 TTAATACGA
1 TTAATACGA
106303 TTAATACGA
1 TTAATACGA
106312 TTAATACGA
1 TTAATACGA
106321 TTAATACGA
1 TTAATACGA
106330 T
1 T
106331 ATATAAGGAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.35
Consensus pattern (9 bp):
TTAATACGA
Left flanking sequence: Indices 105794 -- 106293
TTTCGAATAGCTGTCCCGAATTCAAGTTGATTATGTTTCGACCCTTCCTCGGAGAAAGACGATCA
AACAATTCCCAATCAGGGTCCTTGCGGATTGGATCATCCATATAATATACAAAAAGAAACTCCAG
ATATTTGATATCTTTCTCTTTGAATGAGATCTCAATTCCAGCGACAGTTTCATTAGATATCTTAC
AACTAGAATCCCTCTTTTTTCCGATCCAGTTCCTCCACCACCGCGAACCCCAGTTAGATTCAGAC
ATGATACACTTTTTAGTTATTGGGAGAACCCGAGTACTCTCTTTCGGATCCAGGAAACAGCTCTC
AGAGATCTTTTTTCCTTTTGGAAGATACAGGAGCGAAACAATCAACCTATTGATATTGGAAGACC
CAAAGGATTCTTCCAATGTATCATTTCTGGGTCCAATGGAATTCATAGGTATAGGAAGAAGCCCC
GTCAAATAGAGATTTTTTCTTTTTCTTTCGACCAGCTTTCGATTG
Right flanking sequence: Indices 106331 -- 106830
ATATAAGGACCACTACTACAAATAGTACTACTACAAATAGTACTACTACAAATAGTACTACACCC
TTGATCGTGAAATATCGATTGCTTGTTGACCTCTGTGAATTGCGTGAAAGTAGGATACTCCAAAT
TCGGGAATCCAAGAGTTTTATAAAACGTTCTTGATGGAAAAAAATGTGAATGAAAGATCCCACTG
AATTGAATTGAGTCCATGAATCTAAGAAATAGTGAGAATTCTTGATCTCTCTCAATATCTCTCTC
AATTCGAAAATCCAGGATTTGACTTGATGTCCTTTCATTGATTCCTCCGAAATTGGATTGATTTA
TCCTCAAAATTTTATTTCAATTGGAATTTGGTTATTCAGCCATGGACGCAAAGAGACTCAGCGAG
TGAACTAGTGGCTCCACACCTTTTCGAACTTCTCTTTCTTCCGTTAAAGGAGATTCTAGAAAAGA
TAGAATAGGAAGACGTGTTTCCAGAACAAAGAAGATACGGGTTGA
Found at i:106362 original size:15 final size:15
Alignment explanation
Indices: 106342--106391 Score: 100
Period size: 15 Copynumber: 3.3 Consensus size: 15
106332 TATAAGGACC
106342 ACTACTACAAATAGT
1 ACTACTACAAATAGT
106357 ACTACTACAAATAGT
1 ACTACTACAAATAGT
106372 ACTACTACAAATAGT
1 ACTACTACAAATAGT
106387 ACTAC
1 ACTAC
106392 ACCCTTGATC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.46, C:0.22, G:0.06, T:0.26
Consensus pattern (15 bp):
ACTACTACAAATAGT
Left flanking sequence: Indices 105842 -- 106341
TCGGAGAAAGACGATCAAACAATTCCCAATCAGGGTCCTTGCGGATTGGATCATCCATATAATAT
ACAAAAAGAAACTCCAGATATTTGATATCTTTCTCTTTGAATGAGATCTCAATTCCAGCGACAGT
TTCATTAGATATCTTACAACTAGAATCCCTCTTTTTTCCGATCCAGTTCCTCCACCACCGCGAAC
CCCAGTTAGATTCAGACATGATACACTTTTTAGTTATTGGGAGAACCCGAGTACTCTCTTTCGGA
TCCAGGAAACAGCTCTCAGAGATCTTTTTTCCTTTTGGAAGATACAGGAGCGAAACAATCAACCT
ATTGATATTGGAAGACCCAAAGGATTCTTCCAATGTATCATTTCTGGGTCCAATGGAATTCATAG
GTATAGGAAGAAGCCCCGTCAAATAGAGATTTTTTCTTTTTCTTTCGACCAGCTTTCGATTGTTA
ATACGATTAATACGATTAATACGATTAATACGATATATAAGGACC
Right flanking sequence: Indices 106392 -- 106891
ACCCTTGATCGTGAAATATCGATTGCTTGTTGACCTCTGTGAATTGCGTGAAAGTAGGATACTCC
AAATTCGGGAATCCAAGAGTTTTATAAAACGTTCTTGATGGAAAAAAATGTGAATGAAAGATCCC
ACTGAATTGAATTGAGTCCATGAATCTAAGAAATAGTGAGAATTCTTGATCTCTCTCAATATCTC
TCTCAATTCGAAAATCCAGGATTTGACTTGATGTCCTTTCATTGATTCCTCCGAAATTGGATTGA
TTTATCCTCAAAATTTTATTTCAATTGGAATTTGGTTATTCAGCCATGGACGCAAAGAGACTCAG
CGAGTGAACTAGTGGCTCCACACCTTTTCGAACTTCTCTTTCTTCCGTTAAAGGAGATTCTAGAA
AAGATAGAATAGGAAGACGTGTTTCCAGAACAAAGAAGATACGGGTTGAGAAGGAGGAGTTAGCA
AAGTTAGACAAGATTGGAATGGGCATAGGAAGATGTATTGATGTA
Found at i:116426 original size:43 final size:43
Alignment explanation
Indices: 116373--116465 Score: 177
Period size: 43 Copynumber: 2.2 Consensus size: 43
116363 CTTGTTGTTT
*
116373 TTTTTTTTCTTTTTTTGATGAGTTGATCTCATCTCTTTATGTA
1 TTTTCTTTCTTTTTTTGATGAGTTGATCTCATCTCTTTATGTA
116416 TTTTCTTTCTTTTTTTGATGAGTTGATCTCATCTCTTTATGTA
1 TTTTCTTTCTTTTTTTGATGAGTTGATCTCATCTCTTTATGTA
116459 TTTTCTT
1 TTTTCTT
116466 AGTATATACT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.13, C:0.13, G:0.11, T:0.63
Consensus pattern (43 bp):
TTTTCTTTCTTTTTTTGATGAGTTGATCTCATCTCTTTATGTA
Left flanking sequence: Indices 115873 -- 116372
GGAAGCAGTGAGTGGAGATTCCCCTGCGGAGAGCCGGATGAGGGGAGACCTTCACGTCCGGTTCG
GAGGGCGGGGATATCCCGACCCTACTATCATTATGCCTTTGCAATCTTACTTGGTTCAACTCTAT
TTGTGACCTTTTCTCGTATGTGGGACTCTCTATCTTCTTGGGTAGATAATCGATCGTCTTTCATT
TTGATAGTGAGTACTTTTATTAATAATAAGTCAAGTCAAGAATAATAATCGAACTGGAGGAGCGA
AGCTGACTCGACCGGACGGGAGAGGAGCGGAAAGCCAGGATCGCTTGGTAAGCAAGCAGGTTTTT
CTTCCAGTTCTTTCTCTTCTTTCTTTTTGATTGAAGATACTATAGTAGATTGGAAAGTTTTCCAG
GTCAGCTTTCTTTCGTTCGTTCTCGGTGCGCTCGTTCAGGATGGTTTTTTTTACTGTTATGTAAA
TGTTCCTTTTTTCTTTTTTTACTTAGTTGGTTTTCCTTGTTGTTT
Right flanking sequence: Indices 116466 -- 116965
AGTATATACTTTTCCATATGAAAGTAAGAAACCTAATTTTTTGGCCCCGCCGACCTGCTTTCGGT
TATTTCCTGGAGTGCCAAACCTGTAGACCAATAATCCATGTTCCTAGTGGGCCAAGTGGAAGCAA
TCAACAGGCTATTCATTAGTTTGAGTTTTTGGAATTCCAAGGGAACACAGCGCTTACTCTCTTTA
AGCGCAAATTCAACGATCAATAGTAGTTTCCCGGTGGAAAGGTTACTTCAAAGACCTAACTAACT
AATTGGGTTAGAAACCGCAGGAGCAGCTTTCCCATCCCTAGTAGTATCCGCTGTCCCTATACCAT
TTCGAAGAAAGAGTGGGCCCCTACCCTCAAAAAAAAAGTAGCACCTGCTTTTGGATAATAAACCT
CTCTTGCCACGGTTTTAGGAACGGAAAGAAGAACCGTACCGTACAACCCCTTGTATATCGATTGG
AAAGAAGCAGCTGCAAATGCTATCAGTGGTTCTTCCTTCCTATCT
Found at i:148298 original size:15 final size:15
Alignment explanation
Indices: 148275--148319 Score: 65
Period size: 15 Copynumber: 3.0 Consensus size: 15
148265 TGCAAAAACC
148275 AAAACAGAAAAAGAA
1 AAAACAGAAAAAGAA
*
148290 AGAGA-AGAAAAAGAA
1 A-AAACAGAAAAAGAA
148305 AAAACAGAAAAAGAA
1 AAAACAGAAAAAGAA
148320 GGGTCCCGGC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
14 2 0.08
15 22 0.85
16 2 0.08
ACGTcount: A:0.78, C:0.04, G:0.18, T:0.00
Consensus pattern (15 bp):
AAAACAGAAAAAGAA
Left flanking sequence: Indices 147775 -- 148274
GAGGCTTATTTGGAGTACATTTTTCCCTTGCCAGCTCTAGCTAAAGACTTGGTCAATGCTGAATG
GTTTGAGTCACAGTACCAGGATATGTCTCGGACAAAGCAGGTCAAGGTTGAATCGAATTTTCGAA
TTGATTGGCATACCTTAGATATAATGAAAAAAGAATACCTAATAAACCTTGGAATTCAAGTGAAT
ACAAAAAGGGAGGCTGTGTTTGATGAGAACAATATTTGGGTAGACACAAAACCTAAACATGTAAT
AGACTTCGGCGGGCAAGAAAGCTCTATTCTAGAAATTCTAGATAGAGAATTGAAGATTATGAAGC
ATGAAAATGCTCTCATTAAAGAACAGTTAGACAATAAAGATAGAGAATATGCTAGTCTGGAAGAA
GAAGTTGCTAAACTGCGGGAAGAGATTCAATCGAATACTCAGCTTCCTGAAGATACTGAATCACC
AACGCTATTAGAGGTCACAAAACCTACTCTGTACATGCAAAAACC
Right flanking sequence: Indices 148320 -- 148819
GGGTCCCGGCTAAGAAATAGCAGCAGTGGAAATCACAAGATGCCGACGCCTCGAAGCTGGATTTC
TACTTCCCTACGCCAGATCTATTAGTTGGACTAGATGAGGAAAGATAAGTCGTAAGATAAAAGCC
TCAAAGGTCTTCCTTTCAAAAAAGGGTCCATTTCATCATGATCGCGGTAGCCCACGATGACTTTC
GCTAAGAAAACAGCTCCACTAAAAGACAGAACTCTCGCTCAAGAAGGGAAGGCAGCTTAGCGTCT
TTACTAGTGTCTGGGGTATTCCTATGGGAAAGATCTTGACTTTCTTTAAAAAGAAAGGTATCCCA
ATAGCGTAGAAAGTACTACTTCCGACTTTCATGATCGAGTTCTGTGTACTGATTCTCATTGAGAT
TGGGATAGTGTTCCGTGTACTAAGGTACAAGACAAGAATTTCTTTTCGTTAGATAGTCTGTTTGT
CGTTATGTCTGTCCTACGATCTATCTTCCCTAGAGAGAAGTTTAT
Found at i:152661 original size:32 final size:30
Alignment explanation
Indices: 152601--152662 Score: 72
Period size: 32 Copynumber: 2.0 Consensus size: 30
152591 CAATGGCACT
*
152601 CCAACTGGCTAAGAAGTAGGGCTTTCCAAC
1 CCAACTGGCTAAGAAGTAAGGCTTTCCAAC
*
152631 CCAACTGGCTTTAAGAGGTAAGG-TTCTCCAAC
1 CCAACTGGC--TAAGAAGTAAGGCTT-TCCAAC
152663 TGGCATTGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 9 0.33
31 2 0.07
32 16 0.59
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.23
Consensus pattern (30 bp):
CCAACTGGCTAAGAAGTAAGGCTTTCCAAC
Left flanking sequence: Indices 152101 -- 152600
ACTAGCTCGGCTCGCATGGACCAACATCGCAAGGCAGGCATCGAAAAAATTCTCCAACTGGATGT
GCGCACCTTACCACTATATATCAAACCGTCGGTCGAGAAGGAGAAGAGATTAGCAATGGCTGTAA
CAATAAATAACAAAAAAGGATACTTCCATTGCCTGTAAGATAATTTCCAAGAGGAGGAATTTTTC
TGCATCGAAGAAAAAAAAACTCCCAAGAGCTGGACTATCAGGGCTTGCACTGACCGGACTGGATG
AAACTGGGTATATCCCAATGGCTTTTGAAATGGGACTATTGGCAATCTTTTTAGCAACTACTAAA
GGGGAATATCTGGAAATGCCACTACAGGGACGACTACGAAGAAGGCTCTCCCACTAAGACTGGTG
GCTCCCCGGGTGAAGCACTAGAACTAGAGGAGCGCTTCCTTATACTCTCAATAAATGCATGTTCT
TAGCTTACCAATTACACTAGATACCTCTGAATTAGCAATGGCACT
Right flanking sequence: Indices 152663 -- 153162
TGGCATTGGGACGATAGGAGGTGTTACGAAAAGGGCCCTATACCCTATTGGATCGCTTGAAGAAG
GGGAATGGGAAACCTTAATCTTACCCCGGGCAGAGACTGCAACTAGATAGCTTGAAACTGTCCGA
GACCGATAGCAAAGCAAAGAAACTCCATCTGTAAAAAAAAAACTTTAACTCACTTTCCATGGGTA
AGGTTCTAGTTTCACATTCTTTTAATTAAAAGTATTCCCTTAACCCTAACCTTGAGTCTCACACT
CTGTGAAGTGCCTCTCTGGTATTGGGAGAACAAAAAGCCCCTCAGCTCGCTTGGATCGGGGGGAG
CTTACTTCACTTGTTTTCTTTAAGTCACTTGCCAGGAGGGAAAGCGGATTCTCTTCTCGGGTAAG
CGATGGTGTCCTTATAACAGGCACATACGATTCTCACTCTATATGTGGCATGTCCCGATGGTACT
TTCACATGAAACGGAAAGTGTTAAGTTTCGATTCTCGTGGACCAT
Found at i:163165 original size:6 final size:6
Alignment explanation
Indices: 163154--163190 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
163144 GATTTATGTT
163154 TGACTA TGACTA TGACTA TGACTA TGACTA TGACTA T
1 TGACTA TGACTA TGACTA TGACTA TGACTA TGACTA T
163191 AAGGAGAAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (6 bp):
TGACTA
Left flanking sequence: Indices 162654 -- 163153
TAAACTTCATTATTTGTATATTTTTCAAAGACTATGCATACTGTATGGAGTCGATCACCATTCCA
GAAAGCTCTATTAATCAAGATGATTTATTTGCCGATCTTGACAGACAAAACCTTCTTAAAGAGAC
TAAAAGGATGTTAAAGGCGCATGACGATGTAGGCCTTCTTATTCGTGAATTGAGGATAGAAGAAA
GGATGATGAGACCGGGGCAGTTTCAACTTGAAAAAATGAGTGAAATTTTAGAGCAAAAATATTGT
GAAAACAGTCATATGAATATGATTGATATTTATGAAGATATTAAAGAAAAAAGAATAAACAGTTT
CTATTACAAGGATTCAAAAACTATTTTTAACGAAATGAGGGCACAGGGGGAAACAGAAGCTCAAT
TACGCAGGGAATGGCAAGGGCGCAGCTGATATGAATTCATTAATTAAACTATCATTTATTTTTTA
CTTTCCTAGAGGACCCCCCATTTTGAAATGCTATTGATTTATGTT
Right flanking sequence: Indices 163191 -- 163690
AAGGAGAAGTTTCTAGGTTTAAAGAAAAACTGATTTATGCCAAAAAAAAAGACAAACTTTCCTCG
TGTTAGCTCAACTGGAACTGGGGTAAAAAATTTCAATTCAATAGCTCCATGTTATGCTGCTGCAA
GACCCGGTTCCTGTCGAGTATGATACAGCTGGGCATGAAAGCTTTTTTATGAAGGCATGCTAAAT
ATGATGGGTTGGGACTGCATCTTAGTACGATGAGATGAGTTGGATGTGGAATGTACAACACAACG
ATGAGTTCGACTATCACTAGTGTTGTACGAACGAACGAAGTGCTATATCCATGGGTACGGATAGT
AGATATACTGGTAAAAATGTTGATTATTACCATTATGACTTATCCCCCGACTGAGCTATTGATCC
CTAGCCCGTGCCAGATCTGAGCACCTAATTCAGCTATTGATGTCTTCACCATACTGAATAGCTCT
CCGCTCTACTCTACCAGATTAGCGTGGCGGTAGTAGCTCCATAGT
Found at i:169809 original size:15 final size:16
Alignment explanation
Indices: 169774--169810 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
169764 GACTTTCTTC
169774 ATAGATAGAAGAAATG
1 ATAGATAGAAGAAATG
169790 ATAGATAGACA-AAA-G
1 ATAGATAGA-AGAAATG
169805 ATAGAT
1 ATAGAT
169811 GAACGAGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 7 0.35
16 12 0.60
17 1 0.05
ACGTcount: A:0.57, C:0.03, G:0.22, T:0.19
Consensus pattern (16 bp):
ATAGATAGAAGAAATG
Left flanking sequence: Indices 169274 -- 169773
TCTCCGAAAGCTTTTTCCTTCCCCCGCCGCATCTCCCCTCCTTCGTCGAGCCTTTCCTTTAATGG
TTGGGGGAAGCATTCCCTTATCTGAACTTGGCGGGCATTCTTTCCAGGCTTATTCAAATAGGGGA
GTTTGGTTTGAACATAGGCTCAAACATGATTTGAAGGTCCTAGCTACGCCATGCGTTCAATACAA
AATCTGGAAAGCTGCAGGGATGACAAAAAGAGGGCCCTTTCCTGTGTTGCACTGAAAAAAGAAGG
ACCTAAGAGAAAACACTCTTCTCTTTGGTTTCTTCCTCCCGCGCCCGCCGACGCCCGGCCCGCGT
TAGAGGGGAAGATTTGCAAAGCGAGAACAGAGGGAGGGAGAGCAGCATCTTATCGCGAGAACTTC
CAGATCAGAAAAGCATTCGGAACGGGCTCCGCGTTCATTTCGTTGGCAGAAACGATCCAATCCAT
TCGGGGCTTCGGGGAACCCAAAAACAAAGTCGAAAGACTTTCTTC
Right flanking sequence: Indices 169811 -- 170310
GAACGAGATATCTTTTTTTTTTCTCTAAACAAAAAGAGGAATAGAATAGACATCCGTCTATGTAT
CCTTTCTTCCGATTTTTTTTTATATCGTTATATCTGCTCTCTATAAATTGAGAGAAAAAGAGCAG
CTTTATCCAAAACCCTATATCGAACATCAATTCCTATCTATTGATAGGAAGATCTTCGTCAAATA
CCCGACTTTGCCTTTTTTTTTAGGAAAAACTCATATCCAAGGCAGCTTACCACAAGCACCCCACC
CCATACGACTAGTTTGGGGGGCTGTTCGCCTTTTGAATCAAACAAAGTAAGTAGTAGGGGCTTCA
TACTACTTTCATTCATTCTAAAGGAAACCGAAGAACCAACCTTTAGTCAATAGGAGCCCTACTTC
CCTCTTTTCGACCAAAAAACTTCAATTCAAGCGCAAACCAATTTCTTTCTTAGTCACCGGGCTCC
GCGCACCTTTGGTACTTCAGTAGGGCGAGCTGTTTGATAGTGACT
Found at i:172370 original size:15 final size:15
Alignment explanation
Indices: 172350--172378 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
172340 GAATTAGGGG
172350 AAGCTTTGCTTCAAC
1 AAGCTTTGCTTCAAC
172365 AAGCTTTGCTTCAA
1 AAGCTTTGCTTCAA
172379 ACAATGGGCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (15 bp):
AAGCTTTGCTTCAAC
Left flanking sequence: Indices 171850 -- 172349
TCTTTTTCTATCGGGCAAAGTAAGATAAAAAAACTGTCGTGACGCTGACTGAATCCACTTCAACA
TCCATTCCACTCCTTCATCCTTAAACCCGGTCACTCTCGTTCCCGCAACTTGGTAGTTTTGTTAC
TCTTTATGTTGACAAAGTGAACAGGGGCGGAATCAAAGTAGGCGACGCGAATCTTTCAATCGGAT
ACCAATTGCTTGGATGCGTTTGAAAGCCAAGAGATGACTTGAAGAATAAATTCTTTCTAGGTTTG
TCTTGTGTCTCCGAAACAAATGGTCCATTTATTGATGGGCGAACGACGGGGATTGAACCCGCGCG
TGGTGGATTCACAATCCACTGCCTTGATCCACTTGGCTACATCCGCCCCTACCCCCCACCCGCAC
AGGTTTCAGTCTCTATCTACGATCAGATCCTTTCTTTCGGAACCCCCATATGACCGCTATCAAAG
AGAATCCTATACTATAGTTGCATTGTTGTGCTTTGGAATTAGGGG
Right flanking sequence: Indices 172379 -- 172878
ACAATGGGCGATTTGACTTCACTTTACTTAAGATTAAAGATCGGGGTTGGGTTGGTCATCATGTC
TGATTCCCCTCTATCTAATCCCCCCGAACCGTGCTTACCTTGCGTTATAAGCGTCTTAGAGTAGA
GCTAGGTAATGCTAATTGCTAATTAAAGAGCAATAGCCCGTGCCGATCCGCTAGTTCTGTAAGAT
TAGTAGAATTCCTTATTCTTCGGGGCTAAATCCTTCTTCTTCTTGTACCAAAGCATTCCTTTATG
GGTGAATTGGATTGATCTTCTTTACTGTGAGACTAAAGAGTGAAGGCCTCTCAACTTCAATCTAA
GCCCGATCTCGTCTTTTTCCTCTTTTATTCCCTATTTTATAGAGTGTCCGCTTCGCTCTTTGATA
CTAAGCCCCAGTCAAGGCCTTTTTCTTTCCTCTTAATGCGCCCAACGGTCATGGAAGACCTTTGA
GTTCGTCGTTCTCATTCCCTGTCGTCTTATAGTTCTTCAGTCCTC
Found at i:203159 original size:18 final size:18
Alignment explanation
Indices: 203136--203171 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
203126 GGATGAGACT
203136 TTCGTATACTTCTTTTAG
1 TTCGTATACTTCTTTTAG
*
203154 TTCGTATACTTTTTTTAG
1 TTCGTATACTTCTTTTAG
203172 GGTTAGGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.14, G:0.11, T:0.58
Consensus pattern (18 bp):
TTCGTATACTTCTTTTAG
Left flanking sequence: Indices 202636 -- 203135
ATGAATCAGTCTTCGCTTTAGCTATGGGAAATTCTCTTAAGCAATTCAGTCAGCTCTGAACTCAA
TGATTGCAAGTCCAAGATCAGCTGTTCAATGAAACTCTGCCTTGAATTTAAAGAAGGGCATGAAG
GGATCGAACTCTGGCTTTTCGGGCATCCCCGGTTTGGAATTCCTAGCCTTTCTAGTGGCATAGAA
AATCTGTCTTAGACCCCTTATCAATATGTAACACTTTAGGGAAAAAATGGAATCTTTTTCCCGCC
CTACGAAGCACCAGGTATCAGGGTCAATTCACCTTGATATTCTCCTGGGAAATAATACACCAAGG
CCCCGTCTCACCCGAGGATGACTTCTACTTATCAGTATTAATGCTATACTAATTAGTCTTACTAC
AGGGTGAGAATGGTAGGGACAACAGGAACGGTGCTTCAAATCATACCCATCCTTGGGTTTTTAAC
ATAAAATACTATGTATGCATTCGATTCGCACAAAAGGATGAGACT
Right flanking sequence: Indices 203172 -- 203671
GGTTAGGAGGTTTCATAATGGAGAGTATAATGAATGGGTTAATGATCAAATTTCTTTTTTTAATC
GTTCTAAGGATGTTTTCTTACCCGGTGAAGAATTGAATTCCTTTTACGAGTGTCTTGATAAAATT
TATGATAAATTAGTCGAAGATAAAATAATTGACCCTGAGTTATTGCCTGAGTCCGCGCTCCATTT
AATTAAAGAGCGTATTCTATCACCCTCGGGTCACTTCACTCGACTAAGGGTCGTAGCGAAAGAAT
TCCTCCTTCAATTCAAGAGCTAATCAGTCTTGCTTTGGCCAAGAAAGCTCTTCCCTCATCACTCT
TCTATTGACTATTGGGATAAGAAACATCCAATTCCATGCCTCTCGAATAGAGTTGACCTATTATT
AACATTTTCTGAAAGAAGTCCTTATTTAAAAATGAAAAAAGCTAAGAGCAAAAAGCATGCATAGC
ATAGAGATTGCTCGAAGATCCAAGTAAAAACCTGCTGCGCAATAC
Found at i:205889 original size:19 final size:19
Alignment explanation
Indices: 205862--205907 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
205852 CCCAAGAATT
*
205862 TTTTATAAATCCTATCCCG
1 TTTTCTAAATCCTATCCCG
205881 TTTTCTAAATCCTATCCCG
1 TTTTCTAAATCCTATCCCG
205900 TTTTCTAA
1 TTTTCTAA
205908 TGATTTCAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.24, C:0.26, G:0.04, T:0.46
Consensus pattern (19 bp):
TTTTCTAAATCCTATCCCG
Left flanking sequence: Indices 205362 -- 205861
AACAGTACAGCCACTCCTACTTGACTTTCCCGTCGGTTGAGCCACTCCCATTCCTCTCGCTTTCA
GCGGACAGACCGATCAATGAGTACGTGTGACACCAACTTTTTCATCTCTACGCCTCTCCCTTCCA
CCCTCCCTTAGTAGTGGCCCTTTTCAAGCAAAAAACACGGGGTTGGGCGACCTCTTGCCTCTATT
TCCAACTGGCGAAGGGCAGGTTGGGAGCTAGGAAGAATAGGAATAGGAGCAAAGAGACTCTTGCA
GAAATAGTGCTATAATTTCAATAGCTTTAGTATTAGTAGCGGTAGTAGCCTTAATAGCATTGATA
GACTTCCTTTATAGGTATAGAAAGGAGAAAAACCAGTATGGAGCCAGCGTCGGTCAAGTATAGCA
TGTAAACGAGGATTGGTACGAAGGCTATCTCTACATTAGTCATCTGAGTCCCGCTAGGAATTGAG
TTATTGATTTTAAAATCCCGGCAGGAATAAAAAAACCCAAGAATT
Right flanking sequence: Indices 205908 -- 206407
TGATTTCAGCAAGAACACTTTCCGGTCAGGCCTTACTATAACCAACCTCACAGATCCCTTTTACA
CCGATGTATCATACTCCCTCGACCAGGTCATCATAAGAAAATACTGCAAAATCTTTCCGAAGTGA
GAGAAGGAGGGAAGGATAGCTACAACTAACATAATAGCCAACTGAAAAATGCTAGCTAGCTAGGC
TAGCGCGCAATGGCTTTCTCTGAGAGGGGCGTAGCGCTTTTCATTTTGATAGGAGTTTTTGCTTG
CTGCTCGCTTGCTCTCAGCCACTTGTGGCTTAAGTAGTGGTCGGCATTCCTACGTGCTCTTCCTT
GCCGACCACTACTTAAGAATCCAAAAGTCACCTTTTGATGTTGTCGTGACGCTTTGGTTATGAAG
GTTACGGGGGTCTGGGTTTTTGGATGAATTCAGTCAGCGAAAGTCCCTCAAACTCAATCAATATC
AACAACATGTCGTGACCGGTTAGGCTTGGTTGATTTTGTCAGAAA
Found at i:238312 original size:24 final size:24
Alignment explanation
Indices: 238285--238332 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
238275 AACAGAACAC
238285 TTAGAAATAAATGTGAACAAAAAG
1 TTAGAAATAAATGTGAACAAAAAG
238309 TTAGAAATAAATGTGAACAAAAAG
1 TTAGAAATAAATGTGAACAAAAAG
238333 AAGAAAGAGG
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:0.58, C:0.04, G:0.17, T:0.21
Consensus pattern (24 bp):
TTAGAAATAAATGTGAACAAAAAG
Left flanking sequence: Indices 237785 -- 238284
CACATTTCCATTATGTACTTTCTATGGGAGCCGTTTTTGCTTTATTTGCAGGATTTCACTATTGG
GTGGGTAAAATCTTTGGTCGGACATACCCTGAAACTTTAGGTCAAATCCATTTTTGGATCACTTC
TTTCGGGGTTAATCCGACCTTCTTTCCCATGCATTTCTTAGGGCTTTCGGGTATGCCACGTCGCA
TTCCAGATTATCCAGATGCTTACGCTGGATGGAATGCCCTTAGCAGTTTTGGCTCTTATATATCC
GTAATTGGGATTTGTCGTTTCTTCGTGGTCGTAACAATCACTTCAAGCAGTGGAAATAACAAAAG
ATGTGCTCCAAGTCCTTGGGCTGTTGAACAGAATTCAACCACACTGGAATGGATGGTACAAAGTC
CTCCAGCTTTTCATACTTTTGGAGAACTTCCAGCTATCAAGGAGACGAAAAGCTATGTAAAGTAA
AAGAAGAAAAGGTTGCCGACTGCTACTAAGAACCTAACAGAACAC
Right flanking sequence: Indices 238333 -- 238832
AAGAAAGAGGGAACTCCTATTGGTGAGAGTCTTCCTATTGAGGCAAGATCCTTCAATGTAGAGAC
TCCTTCTTTGAATAAAAGGCCTTATAATGTGGGCATATCTGGTTCAAATTTGGATCCAATTTCAT
TTAATATGGAGCAGTCCATATTGAGGTTCGAACCATGGATCTACGGATCTCAACTTCACTCACAA
AGGTGTAGAAAGGGAGCTCGGGTAAGAAGCTTCACCTGGGTGAGGAGATGAATGGTAGGGGCAGA
GGACCTGCTAATAAATACTCTTCAGACCCGGGCCGAGGGCCGACCACTCGCTCCATGACTCAAGC
GGGCGACCGGGGCTCTTCTGAACCTAGATCCTCACTTCAATCTTTGTCTCCATGAAAGTTCTAGC
CTGGCCGAGGCCTTGGGAGGAAAAATGTGAGAGAATTGTTGATAGAGCATATTTACTCTAACAAG
GTGGATATTGCTTTTTTTCCTGGAAAGCTGTGCATACATCTTTCA
Found at i:238337 original size:23 final size:24
Alignment explanation
Indices: 238287--238338 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
238277 CAGAACACTT
*
238287 AGAAATAAATGTGAACAAAAAGTT
1 AGAAATAAATGTGAACAAAAAGTA
238311 AGAAATAAATGTGAACAAAAAG-A
1 AGAAATAAATGTGAACAAAAAGTA
238334 AGAAA
1 AGAAA
238339 GAGGGAACTC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
23 5 0.19
24 22 0.81
ACGTcount: A:0.63, C:0.04, G:0.17, T:0.15
Consensus pattern (24 bp):
AGAAATAAATGTGAACAAAAAGTA
Left flanking sequence: Indices 237787 -- 238286
CATTTCCATTATGTACTTTCTATGGGAGCCGTTTTTGCTTTATTTGCAGGATTTCACTATTGGGT
GGGTAAAATCTTTGGTCGGACATACCCTGAAACTTTAGGTCAAATCCATTTTTGGATCACTTCTT
TCGGGGTTAATCCGACCTTCTTTCCCATGCATTTCTTAGGGCTTTCGGGTATGCCACGTCGCATT
CCAGATTATCCAGATGCTTACGCTGGATGGAATGCCCTTAGCAGTTTTGGCTCTTATATATCCGT
AATTGGGATTTGTCGTTTCTTCGTGGTCGTAACAATCACTTCAAGCAGTGGAAATAACAAAAGAT
GTGCTCCAAGTCCTTGGGCTGTTGAACAGAATTCAACCACACTGGAATGGATGGTACAAAGTCCT
CCAGCTTTTCATACTTTTGGAGAACTTCCAGCTATCAAGGAGACGAAAAGCTATGTAAAGTAAAA
GAAGAAAAGGTTGCCGACTGCTACTAAGAACCTAACAGAACACTT
Right flanking sequence: Indices 238339 -- 238838
GAGGGAACTCCTATTGGTGAGAGTCTTCCTATTGAGGCAAGATCCTTCAATGTAGAGACTCCTTC
TTTGAATAAAAGGCCTTATAATGTGGGCATATCTGGTTCAAATTTGGATCCAATTTCATTTAATA
TGGAGCAGTCCATATTGAGGTTCGAACCATGGATCTACGGATCTCAACTTCACTCACAAAGGTGT
AGAAAGGGAGCTCGGGTAAGAAGCTTCACCTGGGTGAGGAGATGAATGGTAGGGGCAGAGGACCT
GCTAATAAATACTCTTCAGACCCGGGCCGAGGGCCGACCACTCGCTCCATGACTCAAGCGGGCGA
CCGGGGCTCTTCTGAACCTAGATCCTCACTTCAATCTTTGTCTCCATGAAAGTTCTAGCCTGGCC
GAGGCCTTGGGAGGAAAAATGTGAGAGAATTGTTGATAGAGCATATTTACTCTAACAAGGTGGAT
ATTGCTTTTTTTCCTGGAAAGCTGTGCATACATCTTTCAAGCTTA
Found at i:244171 original size:69 final size:70
Alignment explanation
Indices: 244070--244201 Score: 196
Period size: 69 Copynumber: 1.9 Consensus size: 70
244060 AAAAGGCATA
* *
244070 ACTGACTTTTCCCTTCATAATTGGCATTTTCAAATTCATTTATTTCATTTTACCGGGATTTTTCG
1 ACTGACTTTTCCCTTAATAATTGGCATTTTCAAATTCATTTATTTCAATTTACCGGGATTTTTCG
244135 TTGTC
66 TTGTC
* * *
244140 ACTGACTTTTCGC-TAATAAATT-GCATTTTCAAATTCATTTATTTCAATTTCCCGGGTTTTTT
1 ACTGACTTTTCCCTTAAT-AATTGGCATTTTCAAATTCATTTATTTCAATTTACCGGGATTTTT
244202 GGCATAACAG
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
69 40 0.71
70 16 0.29
ACGTcount: A:0.22, C:0.19, G:0.11, T:0.48
Consensus pattern (70 bp):
ACTGACTTTTCCCTTAATAATTGGCATTTTCAAATTCATTTATTTCAATTTACCGGGATTTTTCG
TTGTC
Left flanking sequence: Indices 243570 -- 244069
TTGAAGTCCGTCCTCTAAACGCCGCAGTTCTTGAATCTGAACTAGAATGATACAAGATGAAACCT
TCTAGCACTGATAGCGCTATCAGTCTCAATCTAGGAGGGGAAACAACCAGTAAAGATACATCTAT
AGTAACTCTCACATTAAGATGATCATACATTAACCATTCCGTCCCGACTAAGCCGTTCAGTATCG
ACCCAGCAGTCCCAACCTAGCAGTCCCAGCATTCCAGTCTAGCCCTTCCAGTCTGGGTATGGAAG
TCAGTGCTCTATCGCCCCCGCTCTTTCGACCAAGCCTATAAGCTTGAATCTCATGATAGTTCTGA
TGTAAGTGTGAAAGAACGCATATATAAGCGTATATTGAGATTCGGTATCATAAGCGACTATAGAG
GGATCAATACTAGTTTGGACTATCCACTCAGATATTGGGACTTACATCCCTTAATGCGCTTGAAG
TTCTAGATGGTGACATTAGTGCGTTTTCCCGGGAAAAAAGGCATA
Right flanking sequence: Indices 244202 -- 244701
GGCATAACAGAGATTTCCGCTCTAAAGTGGCATTTTCAAATGACATGATTTCATTTTACCGGGAA
AAATTGCTGACTTTCGATGGAACACTAACCCAATCAGTCTAATTTAAAGCATCAGTCGCCAAAGA
CACCTCTCCTTGAAGTCGAGCGTACGTCCTAACTTCCCTCTCGCTTCGCTCACGCCCGCTAAAGG
CCCTCTCCTGTAAGTCGATCATATGGACATATTTCCAGTCAGTATGGAAGGGGCCCCATAAGATT
CAACCTTAACGCACTGAAAGCTAGTTTCTTATATGCCTTCTTTCACACTATCATATATTCGCTTT
TTCCAATGGATTCTAGATTACTGGAATCCTAACTCTCATGAGCCTCCGTATCTACCTTATTGAAC
TTCAAGCGCCTTAAGGGTCTAGCAAGAAGTTACAATCTAGGAGGAGAGGGGCCCCAATATAGGAG
CATAAACAACTAGTATACGCACCATGTCTGTCCTCCCGCTTCGAT
Found at i:244235 original size:69 final size:69
Alignment explanation
Indices: 244086--244265 Score: 168
Period size: 69 Copynumber: 2.6 Consensus size: 69
244076 TTTTCCCTTC
* * *** * * * *
244086 ATAATTGGCATTTTCAAATTCATTTATTTCATTTTACCGGGATTTTTCGTTGTCACTGACTTTTC
1 ATAAATGGCATTTTCAAATTCATTTATTTCAATTTACCGGGATTTTTCGGCATAACAGAATTTCC
244151 GCTA
66 GCTA
* * *
244155 ATAAATTGCATTTTCAAATTCATTTATTTCAATTTCCCGGG-TTTTTTGGCATAACAGAGATTTC
1 ATAAATGGCATTTTCAAATTCATTTATTTCAATTTACCGGGATTTTTCGGCATAACAGA-ATTTC
244219 CGCT-
65 CGCTA
* * * *
244223 CTAAAGTGGCATTTTCAAATGACA-TGATTTCATTTTACCGGGA
1 ATAAA-TGGCATTTTCAAAT-TCATTTATTTCAATTTACCGGGA
244266 AAAATTGCTG
Statistics
Matches: 89, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
68 15 0.17
69 72 0.81
70 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.43
Consensus pattern (69 bp):
ATAAATGGCATTTTCAAATTCATTTATTTCAATTTACCGGGATTTTTCGGCATAACAGAATTTCC
GCTA
Left flanking sequence: Indices 243586 -- 244085
AAACGCCGCAGTTCTTGAATCTGAACTAGAATGATACAAGATGAAACCTTCTAGCACTGATAGCG
CTATCAGTCTCAATCTAGGAGGGGAAACAACCAGTAAAGATACATCTATAGTAACTCTCACATTA
AGATGATCATACATTAACCATTCCGTCCCGACTAAGCCGTTCAGTATCGACCCAGCAGTCCCAAC
CTAGCAGTCCCAGCATTCCAGTCTAGCCCTTCCAGTCTGGGTATGGAAGTCAGTGCTCTATCGCC
CCCGCTCTTTCGACCAAGCCTATAAGCTTGAATCTCATGATAGTTCTGATGTAAGTGTGAAAGAA
CGCATATATAAGCGTATATTGAGATTCGGTATCATAAGCGACTATAGAGGGATCAATACTAGTTT
GGACTATCCACTCAGATATTGGGACTTACATCCCTTAATGCGCTTGAAGTTCTAGATGGTGACAT
TAGTGCGTTTTCCCGGGAAAAAAGGCATAACTGACTTTTCCCTTC
Right flanking sequence: Indices 244266 -- 244765
AAAATTGCTGACTTTCGATGGAACACTAACCCAATCAGTCTAATTTAAAGCATCAGTCGCCAAAG
ACACCTCTCCTTGAAGTCGAGCGTACGTCCTAACTTCCCTCTCGCTTCGCTCACGCCCGCTAAAG
GCCCTCTCCTGTAAGTCGATCATATGGACATATTTCCAGTCAGTATGGAAGGGGCCCCATAAGAT
TCAACCTTAACGCACTGAAAGCTAGTTTCTTATATGCCTTCTTTCACACTATCATATATTCGCTT
TTTCCAATGGATTCTAGATTACTGGAATCCTAACTCTCATGAGCCTCCGTATCTACCTTATTGAA
CTTCAAGCGCCTTAAGGGTCTAGCAAGAAGTTACAATCTAGGAGGAGAGGGGCCCCAATATAGGA
GCATAAACAACTAGTATACGCACCATGTCTGTCCTCCCGCTTCGATATTCATTCTACTTAAACAT
CAATATCAGTCCCTATCATCCATATTCACCCTTTCAAACCCTCAA
Found at i:249431 original size:18 final size:19
Alignment explanation
Indices: 249410--249452 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
249400 CAACCTTGTT
249410 GACTATGACAACA-A-TCGC
1 GACTATGA-AACAGACTCGC
249428 GACTAT-AAACAGACTCGC
1 GACTATGAAACAGACTCGC
249446 GACTATG
1 GACTATG
249453 GCAGGGCGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 4 0.18
17 2 0.09
18 16 0.73
ACGTcount: A:0.37, C:0.26, G:0.19, T:0.19
Consensus pattern (19 bp):
GACTATGAAACAGACTCGC
Left flanking sequence: Indices 248910 -- 249409
TACCGTCTAGCCGTTGGTACTCCGCATCTTCACGGAGAATTCAATTTCACCGGGTCCATGTCGGA
GACAGCGGGGCAGTCGTTACACCATTCGTGCAGGTCGCTACTTATGCGACAAGGAATTTCGCTAC
CTTAGGACAGTTATAGTTACTGCCGCCGTTTACCGGGGCTTCCATTCAAAGCAACTAACACTTCT
CCTTCCGACCTTCCAGCACCGGGCAGGTGTCAGACTCTATACATCGTGTTACCACTTAGCAGAGT
CCTGTGTTTTTAATAAACAGTCGCTACCCCCTGGTATGTGCCGCTTTCCTAATCAAAAGATAGGA
GAGCACCCCTTCTCCCGAAGTTACGGGGTCATTTTGCCGAGTTCCTTCGACATGGTTCTCTCAAG
CGCCCTAGTATACTCTACTTGTTCACCTGTGTCGGTTTGGGGTACGGTCAGTTCACCGGGAGGAT
CGCCCTCCCAATTCGAAGTTTTTTCCTGGAAGTTTCAACCTTGTT
Right flanking sequence: Indices 249453 -- 249952
GCAGGGCGGTACGCTCTGCTCTCTCGCGACCCCTACTCTAATCAAAAGACTAAAGGCCCCTACTG
AAGATTAAAAAGGCGAGCACTGAAATGAGAAAGGCTTGTAGACTCGTGACACATTCTAAAACTAA
AGCGCACACTAGAAAAGTGCTTCGAAAGGTGTCAGCAGGTGCGCAGAGCCGGAACCCGGCATGTT
CGCCCGCTGGGCCGAGTGTTCGCCCACTGAAGAGTCTTCGCCTTTACTTGACTTTAAAAGTGTCC
GCCCCTTAGGTCGCCAAACTACGACGAGAGTTTCGCCTTTTGAAGCGCCAGTCGCGTAGGGCTTT
AGGGCCAGGCCGAGTCAGAAAGGCTTTGATGACTCAAGGGGCGCAGCGTTAGGGAAAGGAGAGTG
AGGGGAAGAGGGGGCAGTCCTCGGCCCGATCATCCAATTCGCTCCAACAGACAGGCATGGTTCTG
TAGTCAAAGCAACTTCGTCACTTTCGTGTACCCATCGGACGGCAG
Done.