Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_065226
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: 396940
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.27
Found at i:1830 original size:18 final size:18
Alignment explanation
Indices: 1790--1832 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
1780 ACCGCCCTGC
1790 CATAGTCGCGAGTCTGTTT
1 CATAGTCGCGAG-CTGTTT
1809 -ATAGTCGCGA-CTGTTGT
1 CATAGTCGCGAGCTGTT-T
1826 CATAGTC
1 CATAGTC
1833 AACAAGGTTG
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 1290 -- 1789
GAAAGCTTCTTTTTCAAGTGTCAGTAGCGGAACGTTCTGTCAATCGGGGAAGGTTTTTGGTGACA
ACACCTGGAGATATCAGAAGTGAGAATGCTGACATGAGTAACGAGAAATCCTGTGAAAAACACGA
TCGCCTGCCAGTGGAAGGCTTTCTGCGTTCAGTCAATCTACGCAGAGTGAATCGGTCCCTAAGGA
ACCCCCGAAAGGGCTGCCGTCCGATGGGTACACGAAAGTGACGAAGTTGCTTTGACTACAGAACC
ATGCCTATCTGTTGGAGCGAATTGGATGATCGGGCCGAGGGCTGCCCCCTCTTCCCCTCACTCTC
CTTTCCCTAATATGAACCTTGAGTCATCAAAGCCTTTCTGACTCGGCCTGGCCCGGTCGCCCTAT
GCGACTGGCGCTTCAAAAGGCGAAACTCTCGTCGTAGTTTGGCGACCTAAGGGGCCTTTAGTCTT
TTGATTAGAGTAGGGGTCGCGAGAGAGCAGAGCGTACCGCCCTGC
Right flanking sequence: Indices 1833 -- 2332
AACAAGGTTGAAACTTCCAGGAAAAAACTTCGAATTGGGAGGGCGATCCTCCCGGTGAACTGACC
GTACCCCAAACCGACACAGGTGAACAAGTAGAGTATACTAGGGCGCTTGAGAGAACCATGTCGAA
GGAACTCGGCAAAATGACCCCGTAACTTCGGGAGAAGGGGTGCTCTCCTATCTTTTGATTAGGAA
AGCGGCACATACCAGGGGGTAGCGACTGTTTATTAAAAACACAGGACTCTGCTAAGTGGTAACAC
GATGTATAGAGTCTGACACCTGCCCGGTGCTGGAAGGTCGGAAGGAGAAGTGTTATAAGCTTTGA
ATGGAAGCCCCGGTAAACGGCGGCAGTAACTCTAACTGTCCTAAGGTAGCGAAATTCCTTGTCGC
ATAAGTAGCGACCTGCACGAATGGTGTAACGACTGCCCCGCTGTCTCCGACATGGACCCGGTGAA
ATTGAATTCTCCGTGAAGATGCGGAGTACCAACGGCTAGACGGTA
Found at i:49478 original size:22 final size:22
Alignment explanation
Indices: 49450--49503 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
49440 CAACTCGACC
*
49450 GTAGGGA-GAGGGAGAAGCTAGT
1 GTAGGGACGAGGGAG-ACCTAGT
*
49472 GTAGGGACGAGGGTGACCTAGT
1 GTAGGGACGAGGGAGACCTAGT
49494 GTA-GGACGAG
1 GTAGGGACGAG
49504 AGTAACCTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 7 0.24
22 16 0.55
23 6 0.21
ACGTcount: A:0.28, C:0.09, G:0.48, T:0.15
Consensus pattern (22 bp):
GTAGGGACGAGGGAGACCTAGT
Left flanking sequence: Indices 48950 -- 49449
CCCGGCTTTCCGGTAAGGATTTCTCTTCCTTAGCGTTCACATTAAACAATTAAACCTATTCCTAA
AGTGGAAGGCTTCGATCCGTATAGCGCGGGATGATGGATATCTTGAGTTAATAGAGCCAACCAAA
GCTTGCTTACTTAGTGTGTAAAGATTACAGCTCCGGAAGATACCGGGCATCTGTGAAAGCGTCTG
CACTCTCCTCATTCTACTCAGAAGGAGCTCCAATTCCTATTGGTTTTGGCAGAGGCAAGAAAGAA
AGAAGCTAGGCTTCACCCAATCTTCCAATCAAAATCTTACGCCGAGAGGGCAAAAAGCTATAGGG
AAATCGATCGATAGGATTGCATCCCTGGCCATAAACCGTAGAAACGTCCAGAAATGGTCATACAA
TCAATTTAGCTATCTGGACCTAGCTCGATATCAGTAGAAGATAGAGCCGCTAGCTCGACTGGGGA
TGGTTACGTGCTTGTCTGAGAGGAAATGGGCGGGGCAACTCGACC
Right flanking sequence: Indices 49504 -- 50003
AGTAACCTCCCCTTTTCTTCGTAACGAGTGTTCCCCGAGCAGCGGAGCATTTATGAGTGGATGTA
GCTGTGATAGCTTAGAGTTTCACTGATTGGTATGCCAAAAGACTTTTTATAATATCTTATAAAAA
GAGAGTTACTAAGAGTATTGCTAGAAATTATACGTAAGATAATAGAAGTCAAACTCTTTTGCAGC
TCTGGAGAAGGGGTAGCAAGTCGGAGACTCCCATGGATTGATCTATAACAACTACTGTGCCCGAA
GCGCCTGCATTTAGACCGGTCGCAGTTTAAGGTGAAGGTTCAATTGATCTTGCCTTGTAGGTAGG
CAGCGCCTCGAGAAAGACCATAAACATAAAAAAGAGGAACTCAAGCAGAGGCTGAAAGGCCCTTT
CTCTTTCCTTACCGTCTAGCGATACCATTTACATTTGTAGGAATGCATGGGACTACTTTCTATAA
AGCACTTTAGGTGGCTCTACTACTTCCATAGGCGGCCGGAGGAGC
Found at i:49511 original size:21 final size:22
Alignment explanation
Indices: 49467--49511 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
49457 GAGGGAGAAG
* *
49467 CTAGTGTAGGGACGAGGGTGAC
1 CTAGTGTAGGGACGAGAGTAAC
49489 CTAGTGTA-GGACGAGAGTAAC
1 CTAGTGTAGGGACGAGAGTAAC
49510 CT
1 CT
49512 CCCCTTTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.27, C:0.16, G:0.38, T:0.20
Consensus pattern (22 bp):
CTAGTGTAGGGACGAGAGTAAC
Left flanking sequence: Indices 48967 -- 49466
GATTTCTCTTCCTTAGCGTTCACATTAAACAATTAAACCTATTCCTAAAGTGGAAGGCTTCGATC
CGTATAGCGCGGGATGATGGATATCTTGAGTTAATAGAGCCAACCAAAGCTTGCTTACTTAGTGT
GTAAAGATTACAGCTCCGGAAGATACCGGGCATCTGTGAAAGCGTCTGCACTCTCCTCATTCTAC
TCAGAAGGAGCTCCAATTCCTATTGGTTTTGGCAGAGGCAAGAAAGAAAGAAGCTAGGCTTCACC
CAATCTTCCAATCAAAATCTTACGCCGAGAGGGCAAAAAGCTATAGGGAAATCGATCGATAGGAT
TGCATCCCTGGCCATAAACCGTAGAAACGTCCAGAAATGGTCATACAATCAATTTAGCTATCTGG
ACCTAGCTCGATATCAGTAGAAGATAGAGCCGCTAGCTCGACTGGGGATGGTTACGTGCTTGTCT
GAGAGGAAATGGGCGGGGCAACTCGACCGTAGGGAGAGGGAGAAG
Right flanking sequence: Indices 49512 -- 50011
CCCCTTTTCTTCGTAACGAGTGTTCCCCGAGCAGCGGAGCATTTATGAGTGGATGTAGCTGTGAT
AGCTTAGAGTTTCACTGATTGGTATGCCAAAAGACTTTTTATAATATCTTATAAAAAGAGAGTTA
CTAAGAGTATTGCTAGAAATTATACGTAAGATAATAGAAGTCAAACTCTTTTGCAGCTCTGGAGA
AGGGGTAGCAAGTCGGAGACTCCCATGGATTGATCTATAACAACTACTGTGCCCGAAGCGCCTGC
ATTTAGACCGGTCGCAGTTTAAGGTGAAGGTTCAATTGATCTTGCCTTGTAGGTAGGCAGCGCCT
CGAGAAAGACCATAAACATAAAAAAGAGGAACTCAAGCAGAGGCTGAAAGGCCCTTTCTCTTTCC
TTACCGTCTAGCGATACCATTTACATTTGTAGGAATGCATGGGACTACTTTCTATAAAGCACTTT
AGGTGGCTCTACTACTTCCATAGGCGGCCGGAGGAGCTGAATAGG
Found at i:73328 original size:15 final size:15
Alignment explanation
Indices: 73308--73346 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 15
73298 AAGGCTAGGG
73308 AAGGCTAGGGCATAA
1 AAGGCTAGGGCATAA
73323 AAGGCTAGTAGGGCATAA
1 AAGGC---TAGGGCATAA
73341 AAGGCT
1 AAGGCT
73347 TACAGCTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
15 6 0.29
18 15 0.71
ACGTcount: A:0.38, C:0.13, G:0.33, T:0.15
Consensus pattern (15 bp):
AAGGCTAGGGCATAA
Left flanking sequence: Indices 72808 -- 73307
GTGAAGCTTTCGGAGCGTAGTGAGGTGAGCCAGTGCCTGTTGGTGGTCAAGTCCCAGTGGAAGTG
GAAGTTGTTGGGCGTTCAGGTTGCAAAGGAAGTTGGTGGGCTAACGGTGGTCCAGGTAAGGTAGG
TGGGGAAGGCTCGCCACGAGATCGACCGATAGCTTTGACCCAACCCCGGAAGCGGAAGTGCCAGA
GAGACGATCTTTGTGAGGCAGAGTGACATTCCAAGGTCAGGTATAAGGTGCTACGGGAACGATGT
CTCAAAGGTCAGTGCCAAGGGCTCAACGCGGAAGCAATCCGCTGCTCACAGGGACCGTGCGGGCT
GACGCTCTTCTCTCTCAGGCAAAGAAATGTGATTTTAACTTTCGCTGGTTCAAGGTAGGCTGCTT
AAGCAGAGGTTGTTGTTGTTGTTGGCGTGAGTGAAGGCGTTCCTTCCGGTGGGCATGACGAAGCT
AAGCTGGAACTAATTACGAAAGCATAATCGTTTTCAAGGCTAGGG
Right flanking sequence: Indices 73347 -- 73846
TACAGCTTTTCCGAGTCAAAAGCGGCTAAAAACACTCAGCCATAAGTTCCGGTTTCACCACAGTA
CAGGGCTAAATAAAGGGGCTCAAGGTTGGCATGACGAAGCGTCGGGCATCAAAGCTACCGGTTTC
AAAGTTCAGTTCTAACGGGCGTTCGGAAAGGCTTGAAATCGTAACGTACAGGTAGACTTTGCCAA
GGCAAGGAAAGTAGTAAGAAAGATATCGATGGAGCGGGCAGAACCTCGAGTAAGACAACCAACCC
TGGAGGCCATGGCTTGGCTTTATCCCGTAGGTAGTAAGAACAGAGAGAGCCTTCTGTGCTAGCAA
TACAGAGAGGTGGGGATTGAATGAGGCGAGCGCTGACTGCAGCAAGACCACCAGACCCTAAAAAG
AATAATAACAACGTTCAGCAAGCCGAAGCCAGCCAGACAGGCACCACCAGATACAGGGCGGGCAG
TTACTCCACCGAATCAGAGGGCAGATACCCGGACCAAAAGGAGTG
Found at i:84299 original size:20 final size:20
Alignment explanation
Indices: 84265--84302 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
84255 CTCATAGCTG
84265 CTAGCAACTCCTAGCTACAA
1 CTAGCAACTCCTAGCTACAA
84285 CTAG-AACTCCTTAGCTAC
1 CTAGCAACTCC-TAGCTAC
84303 TAAAACAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.32, C:0.34, G:0.11, T:0.24
Consensus pattern (20 bp):
CTAGCAACTCCTAGCTACAA
Left flanking sequence: Indices 83765 -- 84264
TCCTGGCTACTCCACCCGGATGGGTGCCACAAACACAGCTTGTACTGGCTAAACATCTCCTATCT
TTCCATTTGAAGGAGTCTATCCCACTGCTTAAGTATGACAAATGTCTGACACTACTATATCGGAC
GTAAAGTCTTGCCCGGCCTCACTGAGTGGATCTGGTGCCCACACCGTAGCTAGTCCTCTTAGCTT
TATTGGAGCAGGTGCCCAAGCTTCTTTGGCTAAAGCACATCTCCTGTCTGAACCCTTGACCTATT
TGAAAGACAAATGCACAAACCCAAATTGAAGAAAGAGATGCTCGAGTCTCTTACGCCATCCTAGG
CGGTTCTCCCGTAGCGTCTCCGCCGGCGACTTTCTAAGGTTCAGGGTTGTCTGCCTATCCTAGGT
GACCATCTTCGTCTACTACAACGAGGGGTGTGTGCCATAGAGTGTGGTACAGGTGTCACCAGTCC
CAGACAGATTTGTTTATGATCTCGTCAACTCGGAACTCATAGCTG
Right flanking sequence: Indices 84303 -- 84802
TAAAACAAGAGCTCTTTCACTCGGGCGACTTTTCTTATTGGGCAAGTTGCCACCCGTTGTTCAAT
ACCCTAACTATAGTAAGTAGCTTAATCTGTCGAGAAGAACCATCCCTACCGGATCGGACATGTAA
CCAGTCTTCTCCGCTTGAGAGGGAAAGACGGCTGCTCTGTGAACAAAACAACCCTAGTTGCTGGT
CCTGCTCCTGCTGCTGTCTGAACTGCCACCTCTGCTCCAATACATAAAGCAGCTCCAGCTTGAAG
CTATTGTAGCAGCTCTGTCCCATTCATCACTGCTTTCTGTTAAAAAGAAAAGAGCTGCTCCTCTC
CGATCTAAGTCCTCTCTCTAGTCAGAAATTGCGTAAGTTAATCAGGATGGATCGACAGGCTTTCC
AAACCTACAGGTCTCTTCCTCGGACCTAGCATTGCTGCCTGGCCCATCACTTCTTCTTTTCTTGA
CTTCGATGATTTGCCTGCAGGAGGATCATCGAAGGTTGGAGAAAA
Found at i:135438 original size:17 final size:17
Alignment explanation
Indices: 135416--135460 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
135406 TCGGGAAGAG
135416 AGGAAATCTGTCTTTAT
1 AGGAAATCTGTCTTTAT
* *
135433 AGGAAATTTATCTTTAT
1 AGGAAATCTGTCTTTAT
*
135450 AGGGAATCTGT
1 AGGAAATCTGT
135461 GCCCTTTGTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (17 bp):
AGGAAATCTGTCTTTAT
Left flanking sequence: Indices 134916 -- 135415
CTTGGAGAACGCGAAGCCTTTTTTTCTCGGTCGTCCTTCTCTAGGTACAAAAAGGAATTTACGGG
ATATCTCCAAAATTCGATGTACTTCTTCAAGTGTGGGACACATCTCATGTTTGCCGAATCTAAAA
ACCATCGTCTTTGCATCCCAACACTTCACTGCGGCTATGATCGGATCCCAGTGTTGGTTCACTTT
TTATCCTCCACCAAATCTTCTGAGCTCCTGTTCTCAATGATGTTAAGCAGCTCTTGATCGCAGCA
ATCATGCCTTCGAAGGTACGCTTTTTTCATTCAACTGTGCTTGAAAGAGAGAGGATATGATATAA
GGTAAGCCCCAATTCCACTGAAAGATTCAATTCAGTCAGCTTGGCTTTTTCTCTAGTTTGCCTTT
TTGTCTACCTTCTTTAGTCAATGTCGCATTTCGAGTGCTTGGTTAGATCTCCTAATGGAGAAGAT
GCGGTGAATCAATCAGTATTAGCTAAGGAAAGCATTCGGGAAGAG
Right flanking sequence: Indices 135461 -- 135960
GCCCTTTGTTTGGGTCTGAAAGTGCAAGACTAGCTGGACCCGGACTGACTAATCGCTAAGAGCTC
GCCCCGAGTGCTAAGTACGGCATTCAGTAAGAAGTAAGCCAAGTTCAGTGATCCTCGAGAATAAA
CTATCAGGCGGAGGAAAGAACTGATGACTCACATCCCACAACACAAGAAGGATGGAAAGTCGTGG
AATTGATCGAAGTTAGCCAAGTTCTCTTAGCCGTTACGTTAGGGTGACTCGAGAAAGCTTGAAAG
AATAAGATACGTAGAGCGTGAACCAAGGTTCATAGGCGGATCAAAGTCGAATCTTGCAGATCCTA
GTTCGCTTTCTAATCGCTTTCGGGACCAGTCTTCAATGGCATGAAGCTTTAGTGGCATAGAATTG
GCTGCCTGATCGGACAGATGAAAGGAGAACTATCTGGTGAGGCATCTGGATTTGATTCGGGTCGG
TTAAAGCTTGAAAGGGAGTTCGTGGCCTACTAGGAGTTCTGTTTT
Found at i:144971 original size:18 final size:18
Alignment explanation
Indices: 144931--144973 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
144921 ACCGCCCTGC
144931 CATAGTCGCGAGTCTGTTT
1 CATAGTCGCGAG-CTGTTT
144950 -ATAGTCGCGA-CTGTTGT
1 CATAGTCGCGAGCTGTT-T
144967 CATAGTC
1 CATAGTC
144974 AACAAGGTTG
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 144431 -- 144930
GAAAGCTTCTTTTTCAAGTGTCAGTAGCGGAACGTTCTGTCAATCGGGGAAGGTTTTTGGTGACA
ACACCTGGAGATATCAGAAGTGAGAATGCTGACATGAGTAACGAGAAATCCTGTGAAAAACACGA
TCGCCTGCCAGTGGAAGGCTTTCTGCGTTCAGTCAATCTACGCAGAGTGAATCGGTCCCTAAGGA
ACCCCCGAAAGGGCTGCCGTCCGATGGGTACACGAAAGTGACGAAGTTGCTTTGACTACAGAACC
ATGCCTATCTGTTGGAGCGAATTGGATGATCGGGCCGAGGGCTGCCCCCTCTTCCCCTCACTCTC
CTTTCCCTAATATGAACCTTGAGTCATCAAAGCCTTTCTGACTCGGCCTGGCCCGGTCGCCCTAT
GCGACTGGCGCTTCAAAAGGCGAAACTCTCGTCGTAGTTTGGCGACCTAAGGGGCCTTTAGTCTT
TTGATTAGAGTAGGGGTCGCGAGAGAGCAGAGCGTACCGCCCTGC
Right flanking sequence: Indices 144974 -- 145473
AACAAGGTTGAAACTTCCAGGAAAAAACTTCGAATTGGGAGGGCGATCCTCCCGGTGAACTGACC
GTACCCCAAACCGACACAGGTGAACAAGTAGAGTATACTAGGGCGCTTGAGAGAACCATGTCGAA
GGAACTCGGCAAAATGACCCCGTAACTTCGGGAGAAGGGGTGCTCTCCTATCTTTTGATTAGGAA
AGCGGCACATACCAGGGGGTAGCGACTGTTTATTAAAAACACAGGACTCTGCTAAGTGGTAACAC
GATGTATAGAGTCTGACACCTGCCCGGTGCTGGAAGGTCGGAAGGAGAAGTGTTATAAGCTTTGA
ATGGAAGCCCCGGTAAACGGCGGCAGTAACTCTAACTGTCCTAAGGTAGCGAAATTCCTTGTCGC
ATAAGTAGCGACCTGCACGAATGGTGTAACGACTGCCCCGCTGTCTCCGACATGGACCCGGTGAA
ATTGAATTCTCCGTGAAGATGCGGAGTACCAACGGCTAGACGGTA
Found at i:170806 original size:13 final size:14
Alignment explanation
Indices: 170773--170806 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
170763 CAGAAGCTAG
*
170773 AGGACAGTATTCGT
1 AGGACGGTATTCGT
170787 AGGACGGTATTCGT
1 AGGACGGTATTCGT
170801 -GGACGG
1 AGGACGG
170807 ATGAGCGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.24, C:0.15, G:0.38, T:0.24
Consensus pattern (14 bp):
AGGACGGTATTCGT
Left flanking sequence: Indices 170273 -- 170772
TAGATACGTGATAACACTTGTGGTTTCGGCGAATCGCCTTCACTCTCGGGGTTCAGTACCCGCCT
CTTGGTGTCCAATACCCAGTGATGGGAGAAGGAGTGGGAGACGAAGAGAGAGAAGATGGTTGCTT
AGCAGCGGAAGCTGGGGATCGAGAAGCGGAGGGAGAGCTTAGGCTTGAAATGGAGCTGGGATACC
GGTATTTTTCCCTCCCTGGATCCGAGTCTTTCTCTTCTCCTGGACCGAGCACCGAGACCGAGGAA
AGAGAGGCTGGATACGAGTCTGATGAGATCAGAGCCAGTGAAGAGAAGAGGGAAGGCTTACTCTG
CTAGGCTGGCTTGCTTGTTCGACTAGAGCACATAAATAAGGTAGCTTGCTTACTTAGTGCGAAAC
GCTAAGGCCAATTAAGCAACGTTAATGGACCGCTCCCCATTACTGACGCTTTCACAGGGCTTCTT
TTTAGATAAAATAGGCCATAGAAATTCACTCATAACAGAAGCTAG
Right flanking sequence: Indices 170807 -- 171306
ATGAGCGATTGGACCGCCTATAGGACAGTTACTGGACAGATGCGACCGTTACCAGTTGACAGATG
ACAGGCAGAAGAGCGGGAAGTCGCTCTATTTAAAGGACGGGAATTGCACATTAAAGGAAGGGAAT
CGTGTACTGAGCTAGCCTGCCTTGAACTTGAAGTAGGTAGTCTCTCCTATATCTGATAGCTTTAA
CTGGCCACTACAAAGAAATTGCCATAGATCGAAACTTATTCCAGGCTTAGTATCCCCGGATAGAC
CCTATAAAAGAAGACGAGTCATAAAGGCAAATATCTAACAATTTCAGGGGGGCACATCCTAACTG
AATAGTACTCGCAGGTTCTCTTTTCCATATGTTCTTCCCGATGCCCTATCCGACAGCCGTTAACT
GCCTTGCAGGGAATTCCTTACTCAAAAGTATGAGAGTGCGGCATAGCAAGAGTGAATCCTCCCAC
CTCCCTCTAACGCTTATCTCTTTTCTTGCTTCCTTGCTTTAATCC
Found at i:273324 original size:15 final size:16
Alignment explanation
Indices: 273282--273324 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
273272 TCCTACCTTA
273282 ACAGTCGATCATGCGCTC
1 ACAGTCGATCATGCG--C
*
273300 ACACTCGATCATGCG-
1 ACAGTCGATCATGCGC
273315 ACAGTCGATC
1 ACAGTCGATC
273325 TGTCCATCCG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 9 0.39
18 14 0.61
ACGTcount: A:0.26, C:0.33, G:0.21, T:0.21
Consensus pattern (16 bp):
ACAGTCGATCATGCGC
Left flanking sequence: Indices 272782 -- 273281
TTGCATGAAAAAACTCAAAAAAGAATAGGTGATCGTAGGTCAGCCCGTGGGTAAGTTCCGGGCTT
TCATTGATATTTTCTCGTTCATGATCTCTAATCCTTTGAGTAGATTGGGCAGGGGTAAGACTATG
CACATAGCTTCGGTTCCGTCTTGTTTGCCAAGGAGATATGGTTGCTTTTCCTTCTTCAGTAGGCT
TTCCCGCGGGTTCGGTTACAGATAGGATACACGGGTCAAAGGGAAGGCTTGAGTTCAGAGACGAA
GTTGGCTTTGAAGGTACAAACTTTCAGACAGTTCCTTACTTTCTATTCTCTAATCTCGTATGGCA
GCTTTCAGTCCCATCTTCAGTTTCGGGATATTGCTCCTATGCCTCTTCGAAGTGAAGCCCTTATA
TCGAATGATTCAAGACATTTGATTTTATAATAGAAATGAGAGGACAGCCGAATTGACAGAAAATA
GTCTGAATTTGTTGATCAACTCTCTTTGTTGAAGGTCCTACCTTA
Right flanking sequence: Indices 273325 -- 273824
TGTCCATCCGACTACATTCACTGGGGGGTGAGGTTGTCCAATTTCAATTATGTGCCGCTCGTTGA
CATCTAGTTTCCATTGCCGGTGTGAGAGATCTTCCTTCGGTTCTAGTTAAGTATGGCAGCTTGAG
GTCTCCTATTTAACTTTCACCAGCCATTGGGAACTCAAATAAACTTTCATTTAACGGCAGGCGAG
AAAGGTTCTAAAAGAAAGAAAGGTAGAAGGGGGGTTTTCTCCCGTTTCGGGGTTCTCTTGTGGAC
TGGCTGTTGACTGGCCGGGAGAAAACCGGTGCTTTTAGCTTAAACGGATTTTCACTGGATCGGAG
CCTTTCGGAAATCCTCCCCTTTTGGCTTCACTTGAGCGGTTGACGCAATCCAAGAGGAAGAGGAA
GCTAAACCCGTGCTGACGAATAACCAAACCCCTTAATTCGTCGAGTAAAGTAAATAGGGAAGGTA
TAGGTTTGTTATGAATGACCCCGTATCGAATACAGGTAATAATAT
Found at i:277479 original size:13 final size:13
Alignment explanation
Indices: 277461--277486 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
277451 CAGGCCTCTC
277461 CTTATTCATTCTA
1 CTTATTCATTCTA
277474 CTTATTCATTCTA
1 CTTATTCATTCTA
277487 TAGGGCGGGG
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:0.23, C:0.23, G:0.00, T:0.54
Consensus pattern (13 bp):
CTTATTCATTCTA
Left flanking sequence: Indices 276961 -- 277460
CCTCACTGACCTGAGCAATTTCGATCACCTAGCAGGCCTTAAATTTGGTAGGTAACATCGCCGAA
GCGTATCATCTGATTTTACTACGAAGGAAGGAACTCGAAGTGAGACGGCGCCGTCTTGTCCAACG
CAACGATATGGCCCTCTATCATCTTCTATCTGGTAGACTTGGAAAAGGGGCCCCGACTTTTTTCC
AGAATTAGAGTTCGACCGCGGCTGCCCCCTTTTTTTTCCGCACCAATCCTTATTTTTTACTATAT
ATTTTGGGGGTGTATAGCTCAGTTGGTAGAGCATTGGGCTTTTAACCTAATGGTCGCAGGTTCAA
GTCCTGCTATACCCAAACCTACCTTACACTATACTATTAGTAAGGATGCGTAGTAGCGTTCAAAG
ATCACTCTTTGGCCTTTAGACTCGCTTCAGCGACTTCGCCCTTTAAGTGACAAGGGGGGGGTTGA
GGTAAGGAGTAGTATAAGAGTGGCTCGGTCATCAACAGGCCTCTC
Right flanking sequence: Indices 277487 -- 277986
TAGGGCGGGGCTGCGGACCAACAATTCAGCAAAAGGGCTTAAAAGCTCCTTTATCAAACCTTCCC
CTTTGAATAATAATAAGGTAAGCTTGGGTTCCAAACTATATGCGGTCTCGCCATTCTTTGTTTGC
ATTCAAAGGTCTTGTGCCTGCGCTATCGAGTCACGTGCCTAACTTCCAAAGAATGAATCATATGG
TAGAGGAGCTAAAGTGGCCGGCGGCGGTGTAGAGCTATAAGGAGCGAAGCTCACACACACCGGCT
GATGGAGGGCGGGATCGCATTCACTTGCTTGCGGCCCGGCTCCATAATAGTGGAAAGCGGGCGCG
CCCCCATAACCACACGGGAGGGTAACGAGATTCAACGGGATGGTCACGCTTTTCGAGAACGGTTT
TTCCCTCATAAAGCAGGTTCCGTGAGTCAAAAGACCCTAAACAAGGCAAGCCGAAAAGATTCTTT
TTCTCTTCCGCACATCGATGTTCTGGTGGACAACACCGCTGGACA
Found at i:313846 original size:39 final size:39
Alignment explanation
Indices: 313791--313869 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
313781 CCCATCCTTC
* *
313791 AATATCATGATTGGGTCGACCGGGCCAGATCATGAGTGA
1 AATATCATGATCGGGTCGACCAGGCCAGATCATGAGTGA
313830 AATATCATGATCGGGTCGACCAGGCCAGATCATGAGTGA
1 AATATCATGATCGGGTCGACCAGGCCAGATCATGAGTGA
313869 A
1 A
313870 TAGAAAATCG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.22
Consensus pattern (39 bp):
AATATCATGATCGGGTCGACCAGGCCAGATCATGAGTGA
Left flanking sequence: Indices 313291 -- 313790
CTTTTCTCCGCAAATCACCCCTTCCCAACCAGCCCGCCCGATCCATTTTGTAAGATCGGCTAATT
CAAAAGGGTTAATCTGGTCCGAAGTTGTCGGAACGAATCGTTTGCTTTATCGAACAAAGCTTTAT
TAGGGTAGGGTCTTGGTTGGCCCCCTATTTTCAACCATTACAGCTGGCGTCGACCAGCTTTGCGA
TACGGACGGACACGAAGAAGAACGCAGGCAGCGGAAATGCAAAAGAGAAGAGCAAAGATTCCCGA
CCCAGAGCATGTTATTGACTCAACCACAAATCTGTTGAATGAAGGTAGCTTGCTTACTCTCAGCC
ACTAGTTAGAAGGAAATCCCTTGACTTCGCTTATGCCCTTATGGCCCTTATGCAGTACAGAAAGC
AAGTGAGGCGGGCTAAGATTCCATTCGAAGTAAGGTGACAGGATTCGATGTTGCACCATCTTCAA
CTCTTCTCTGGATCCGGAGTTTTTCGAGAAAAGGTCCCATCCTTC
Right flanking sequence: Indices 313870 -- 314369
TAGAAAATCGAAAACGTACATAGCAGTTCCAGCCGAAATACTTGGAATAATTCTACCACTTCTAC
TAGGAGTAGCCTTTTTAGTGCTAGCTGAACGTAAAGTAATGGCTTTTGTGCAACGTCGAAAGGGT
CCTGATGTAGTGGGATCGTTCGGATTGTTACAACCTCTAGCAGATGGTTTGAAATTGATTCTAAA
AGAACCTATTTCACCAAGTAGTGCTAATTTCTCCCTTTTTAGAATGGCTCCAGTGACTACATTTA
TGTTAAGTCTGGTTGCTCGGGCCGTTGTACCTTTTGATTATGGTATGGTATTGTCAGATTCGAAC
ATAGGGCTACTTTATTTGTTTGCCATATCTTCGCTAGGTGTTTATGGAATTATTATAGCAGGTTG
GTCTAGTAATTAGGGGGCGGCCGTTCGGTCGCCTATGATACTAGGACCAATAGGTCAAAAATGGG
TTTGTGCCGCAGGTGTTGAACGATCTACTCTACACAGGTGTGGGC
Found at i:340819 original size:15 final size:17
Alignment explanation
Indices: 340784--340820 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
340774 ACCGGTATCG
340784 TATAATATATATATATA
1 TATAATATATATATATA
340801 TATAATATATAT-TAT-
1 TATAATATATATATATA
340816 TATAA
1 TATAA
340821 AAGTCGCGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 5 0.25
16 3 0.15
17 12 0.60
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TATAATATATATATATA
Left flanking sequence: Indices 340284 -- 340783
TGCCTCTATCATCTACGTCAATTTCTTCTTCAATAGATTCCCTCACTTCTGGCCCGAGAGAAAGT
AGGCCAAAAACGTGGGATGTAAAAAAAGGTGTATTCTAGGGCCAGGTGATGTCAGGTATACAGGA
TGAGTCTCACAGTCCCCACAGCCTCCACGCGAGAACGCATCCCCTTTTCCGTGATGATGCTTTGT
TAATCCTTTACTGGAAGTCTGCTTTTAAGAAAACCCTGCATAGAATAGGTCACATAAAGTGAAGG
CTGGTACCCGAATCAATCCACCATGCATAAGTAGAAAAGTAAAAAAAAAGCAACTTTTCAGAAAC
AAGGGCATAGTGATTGCCTTCCTTCACTCCTTAAAAAACCGAAGCTTTGAACTAAATATCGTACA
ATCCTTTTTTATAGTTGCAAAGCATAGCGAGAGAAAAAGAACAAGAAAGTTGACCGTGACGGTCG
TAGCTCTATCAAGTAGGTACGCTAAACACTCATAGACCGGTATCG
Right flanking sequence: Indices 340821 -- 341320
AAGTCGCGGTGGAATCCATTGCGATCTTGGGCATCGCCAAAGAAGGGTGTTCTCAGCGCCTATGC
TTAACACGGCTCCCATGATAGTAGCAGAAAACGAGTTGTGCTGGTGATGTGATCGGACCATTTCC
CCCCGGGAAATACGGTCACAAGTTCATACTTTCTTTTTTACTAGTCATTTTTTACTAGAGTAAGT
CAAGATCAGAGCAGGCACAACGACGCAATTCTCAGGGGCGTGTCTGGTGCTATCGTATATAAGAG
AAAGGTTGGGTTGCATTTAGGAAGGATCTTTCTCTTTAACTAGAAATATCTTAAGATAAGAAAGC
GTAAAAAAGAAAGGTTTTGATTCGACCTGATTAAACAAAGAAAAAAAAGCTTTCTCCGCGTCAGG
CTGTTGATGTAGTTGCTTGTACTTTTCATTTTATGTCGAGATTTAGTTGGTGTTCAGTGTACCTG
TTGAAGACCTTAACGTAAGGAACTTAGTGCAAAAGTAAGTGGCGG
Found at i:347710 original size:8 final size:8
Alignment explanation
Indices: 347697--347736 Score: 53
Period size: 8 Copynumber: 4.6 Consensus size: 8
347687 TAGTTTATAG
347697 ATATAATT
1 ATATAATT
347705 ATATAATT
1 ATATAATT
347713 ATATATCTATT
1 ATATA---ATT
347724 ATATAATT
1 ATATAATT
347732 ATATA
1 ATATA
347737 TCTATTATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
8 21 0.72
11 8 0.28
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (8 bp):
ATATAATT
Left flanking sequence: Indices 347197 -- 347696
CGGCCCAAGCGAAGATCTTCGATCCGAATCTTCGCATCTACTCTCTCTTAGAGGATGAACTACGC
CTTCGCTATCGCAAGAATATAGCGATCGAAGAGAGCTATCGCTCAGCTGCTTCGCGTATTACTCA
CGAAAGCCGTATTGCCCGAAGGGGGCATGCCGCAAGAGCGTAGGAGGCGTGCCCGAAGGGCAGCG
GAAGCTGTGCGGTTCCAGGTGCCGTCGCTAGATTGAGATCTGCAGGGTGGCGAGGACTTCGACTG
CCTTGTATCGGGTGCAGAGAAGGGGGTGGTAGGCTTAGTAGGGCTCGAACCTACAATATAACCGT
TATGAGCGGTACGTTTCAACCAATTAAACTATAAGCCCCTGCGGATCTCTACATGCAATTCGCCC
ACTTCGGGAAGAGCGGACGGAAGGAAAGAGGAGGCCTTTGCTCTATCTGCTTCTTCCTCTTCCCG
GGAATGAACAATTGGATAAAAAAAACGGATTTTCTTAGTTTATAG
Right flanking sequence: Indices 347737 -- 348236
TCTATTATTTTATATAAAATAAATTTTTTAAGCAAGCGGCCCCTTCGCGACTCAAACGGGCGGGG
GCGCTTTGTTTGCTTGCAATGCCTGCAGTTCGCCTTTAGTTAGAAGTATAAGTAGAGGGCACCCT
TTGCCCCACACTTCAGAAAAGGTAAAAAAGTATGGATTAAGTAAGAAAAAGTACATAACATAAGG
AGTGAGAAAGAAAAACTTGGTTACGGGAACCGAAGGTTAGGCCGACTACTTACTTTAGTATAGCT
ACACCTAAAAAAGTTTATTCCTACCCCCTTTTCTTCCCCTTTCTGTCAATGTTGCCAATTCTCAG
AATACTTATAATGTACCCTCGCGCATACAATTGCCCAACAACTTTCTTCCTCCGACTTCTTTAGC
CACTTCCGCATCTGTCGTCTTCGGGATCGGGAGAGCTTGCTTCGTGGCGGAGCATTTAGCAATTC
CAGCAGCCTGGTGAGGGCTGGCTGTCTGGGGACAGGTTAAGGCTG
Found at i:347726 original size:19 final size:19
Alignment explanation
Indices: 347702--347744 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
347692 TATAGATATA
347702 ATTATATAATTATATATCT
1 ATTATATAATTATATATCT
347721 ATTATATAATTATATATCT
1 ATTATATAATTATATATCT
347740 ATTAT
1 ATTAT
347745 TTTATATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTATATAATTATATATCT
Left flanking sequence: Indices 347202 -- 347701
CAAGCGAAGATCTTCGATCCGAATCTTCGCATCTACTCTCTCTTAGAGGATGAACTACGCCTTCG
CTATCGCAAGAATATAGCGATCGAAGAGAGCTATCGCTCAGCTGCTTCGCGTATTACTCACGAAA
GCCGTATTGCCCGAAGGGGGCATGCCGCAAGAGCGTAGGAGGCGTGCCCGAAGGGCAGCGGAAGC
TGTGCGGTTCCAGGTGCCGTCGCTAGATTGAGATCTGCAGGGTGGCGAGGACTTCGACTGCCTTG
TATCGGGTGCAGAGAAGGGGGTGGTAGGCTTAGTAGGGCTCGAACCTACAATATAACCGTTATGA
GCGGTACGTTTCAACCAATTAAACTATAAGCCCCTGCGGATCTCTACATGCAATTCGCCCACTTC
GGGAAGAGCGGACGGAAGGAAAGAGGAGGCCTTTGCTCTATCTGCTTCTTCCTCTTCCCGGGAAT
GAACAATTGGATAAAAAAAACGGATTTTCTTAGTTTATAGATATA
Right flanking sequence: Indices 347745 -- 348244
TTTATATAAAATAAATTTTTTAAGCAAGCGGCCCCTTCGCGACTCAAACGGGCGGGGGCGCTTTG
TTTGCTTGCAATGCCTGCAGTTCGCCTTTAGTTAGAAGTATAAGTAGAGGGCACCCTTTGCCCCA
CACTTCAGAAAAGGTAAAAAAGTATGGATTAAGTAAGAAAAAGTACATAACATAAGGAGTGAGAA
AGAAAAACTTGGTTACGGGAACCGAAGGTTAGGCCGACTACTTACTTTAGTATAGCTACACCTAA
AAAAGTTTATTCCTACCCCCTTTTCTTCCCCTTTCTGTCAATGTTGCCAATTCTCAGAATACTTA
TAATGTACCCTCGCGCATACAATTGCCCAACAACTTTCTTCCTCCGACTTCTTTAGCCACTTCCG
CATCTGTCGTCTTCGGGATCGGGAGAGCTTGCTTCGTGGCGGAGCATTTAGCAATTCCAGCAGCC
TGGTGAGGGCTGGCTGTCTGGGGACAGGTTAAGGCTGGGCCTGCT
Found at i:359988 original size:18 final size:18
Alignment explanation
Indices: 359944--359999 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
359934 TTAATAGCTT
359944 TTCCTTTTCTACTTGTAA
1 TTCCTTTTCTACTTGTAA
*
359962 TT-CTATTTCTACTTTTAA
1 TTCCT-TTTCTACTTGTAA
* *
359980 TTCCTTTTCGAGTTGTAA
1 TTCCTTTTCTACTTGTAA
359998 TT
1 TT
360000 TTAATAGCTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
17 2 0.06
18 28 0.88
19 2 0.06
ACGTcount: A:0.18, C:0.18, G:0.07, T:0.57
Consensus pattern (18 bp):
TTCCTTTTCTACTTGTAA
Left flanking sequence: Indices 359444 -- 359943
TTTTTTATAGTGGAAATGCCATAAAGCGCGAACCAAGATCCGTGATACGAAAACCAAAATCAGAA
TGAGGAAGAAAAAGATATCGTGATGTAAGTCCATTATTCCTTGCATCATAGGTGTTGCTGCGTCT
TGAAATCCTAATTGCCATGGTTCCGCTGCATCACAAGGAACAATTGTGAGGAATAGCCATTCTAG
AACAATCATTTGGGTTGGTTCATTCTTTAACTGCTCCGCCCCCCCCCAAAAAAAGAAGAGGGACT
TGTTCTTGCTCTCCCAATTCAGGAAGACGGAAGTCGCCGGTTGGGCTTTTCCAACCAAGAAAAAC
ATGGGACTTTTGGGCATTTTCTTCTCTTACGCTACGCAATTTCTATTTATTATTTTTGAATAGAA
ATCTAACTTTATATTAGATATTTGGAAGGGATATTTCTATTCGAGATGCTACTTACTTACATATG
ATGTTTTCTTTCACAAGGCAGCGACTCAAGCGATTTTAATAGCTT
Right flanking sequence: Indices 360000 -- 360499
TTAATAGCTTTTCCTTTTCTAGTTGCTTTTCCTTTTCTAGTTGCTTTTCCTTTTCGAGTTGTAAT
TCTATTTCTACTTGTAATAGCAAAATCTGTTCCTGGGTCATAAAATTGGGATTTACGTCATTTTG
ATTCCCTCCAGAAAAGCAAGTTTTTCTTACCTTCCTGTACGAGTAGTGAAGAATTATAGTGAGTT
GTGGTTGGTTGTTGACCAACGGAAAGCATGGGAGTCTTTGGGCATAGGAGGTTCTCTCTCTCTCT
TACGATATAAATAAGTCCGGGAATGAGCTATCATATGCCTTCTGTTTGAAAGGCTAATTTCCTTT
TACTCAATGAAGAAAGCTAAAACTAAAAGAGTAGGACATAGATTGTATTATAAAAGTTTAATGAG
AGATGCGAATCATAGCGTATCCAAAGTAGTACTTCTGTTTTGTTTTCAAGGCAATTAAATTCTTA
CTGTCCGGTAAGGCAAGGAAAGGCTTTTTCCCCTAAGGGCGAACT
Found at i:360029 original size:18 final size:18
Alignment explanation
Indices: 360006--360060 Score: 101
Period size: 18 Copynumber: 3.1 Consensus size: 18
359996 AATTTTAATA
360006 GCTTTTCCTTTTCTAGTT
1 GCTTTTCCTTTTCTAGTT
360024 GCTTTTCCTTTTCTAGTT
1 GCTTTTCCTTTTCTAGTT
*
360042 GCTTTTCCTTTTCGAGTT
1 GCTTTTCCTTTTCTAGTT
360060 G
1 G
360061 TAATTCTATT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.05, C:0.22, G:0.15, T:0.58
Consensus pattern (18 bp):
GCTTTTCCTTTTCTAGTT
Left flanking sequence: Indices 359506 -- 360005
GAATGAGGAAGAAAAAGATATCGTGATGTAAGTCCATTATTCCTTGCATCATAGGTGTTGCTGCG
TCTTGAAATCCTAATTGCCATGGTTCCGCTGCATCACAAGGAACAATTGTGAGGAATAGCCATTC
TAGAACAATCATTTGGGTTGGTTCATTCTTTAACTGCTCCGCCCCCCCCCAAAAAAAGAAGAGGG
ACTTGTTCTTGCTCTCCCAATTCAGGAAGACGGAAGTCGCCGGTTGGGCTTTTCCAACCAAGAAA
AACATGGGACTTTTGGGCATTTTCTTCTCTTACGCTACGCAATTTCTATTTATTATTTTTGAATA
GAAATCTAACTTTATATTAGATATTTGGAAGGGATATTTCTATTCGAGATGCTACTTACTTACAT
ATGATGTTTTCTTTCACAAGGCAGCGACTCAAGCGATTTTAATAGCTTTTCCTTTTCTACTTGTA
ATTCTATTTCTACTTTTAATTCCTTTTCGAGTTGTAATTTTAATA
Right flanking sequence: Indices 360061 -- 360560
TAATTCTATTTCTACTTGTAATAGCAAAATCTGTTCCTGGGTCATAAAATTGGGATTTACGTCAT
TTTGATTCCCTCCAGAAAAGCAAGTTTTTCTTACCTTCCTGTACGAGTAGTGAAGAATTATAGTG
AGTTGTGGTTGGTTGTTGACCAACGGAAAGCATGGGAGTCTTTGGGCATAGGAGGTTCTCTCTCT
CTCTTACGATATAAATAAGTCCGGGAATGAGCTATCATATGCCTTCTGTTTGAAAGGCTAATTTC
CTTTTACTCAATGAAGAAAGCTAAAACTAAAAGAGTAGGACATAGATTGTATTATAAAAGTTTAA
TGAGAGATGCGAATCATAGCGTATCCAAAGTAGTACTTCTGTTTTGTTTTCAAGGCAATTAAATT
CTTACTGTCCGGTAAGGCAAGGAAAGGCTTTTTCCCCTAAGGGCGAACTTAACCGGGCATGGAAG
GCAACTCTATCAAGTAAAGCTAGTCGTCAGTCAGGGTTGAGACAG
Found at i:360073 original size:36 final size:35
Alignment explanation
Indices: 359931--360074 Score: 99
Period size: 36 Copynumber: 4.2 Consensus size: 35
359921 GACTCAAGCG
* * *
359931 ATTT-TAATAGCTTTTCCTTTTCTACTTGTAATTCT
1 ATTTCTAATTGCTTTTCCTTTTCGAGTTGT-ATTCT
*
359966 ATTTCTACTT--TTAATTCCTTTTCGAGTTGTA----
1 ATTTCTAATTGCTT--TTCCTTTTCGAGTTGTATTCT
* * *
359997 ATTT-TAATAGCTTTTCCTTTTCTAGTTGCTTTTCCT
1 ATTTCTAATTGCTTTTCCTTTTCGAGTTG-TATT-CT
*
360033 -TTTCTAGTTGCTTTTCCTTTTCGAGTTGTAATTCT
1 ATTTCTAATTGCTTTTCCTTTTCGAGTTGT-ATTCT
360068 ATTTCTA
1 ATTTCTA
360075 CTTGTAATAG
Statistics
Matches: 83, Mismatches: 12, Indels: 27
0.68 0.10 0.22
Matches are distributed among these distances:
30 17 0.20
31 5 0.06
32 2 0.02
34 2 0.02
35 11 0.13
36 46 0.55
ACGTcount: A:0.17, C:0.17, G:0.09, T:0.57
Consensus pattern (35 bp):
ATTTCTAATTGCTTTTCCTTTTCGAGTTGTATTCT
Left flanking sequence: Indices 359431 -- 359930
GCGGGATTGGATTTTTTTTATAGTGGAAATGCCATAAAGCGCGAACCAAGATCCGTGATACGAAA
ACCAAAATCAGAATGAGGAAGAAAAAGATATCGTGATGTAAGTCCATTATTCCTTGCATCATAGG
TGTTGCTGCGTCTTGAAATCCTAATTGCCATGGTTCCGCTGCATCACAAGGAACAATTGTGAGGA
ATAGCCATTCTAGAACAATCATTTGGGTTGGTTCATTCTTTAACTGCTCCGCCCCCCCCCAAAAA
AAGAAGAGGGACTTGTTCTTGCTCTCCCAATTCAGGAAGACGGAAGTCGCCGGTTGGGCTTTTCC
AACCAAGAAAAACATGGGACTTTTGGGCATTTTCTTCTCTTACGCTACGCAATTTCTATTTATTA
TTTTTGAATAGAAATCTAACTTTATATTAGATATTTGGAAGGGATATTTCTATTCGAGATGCTAC
TTACTTACATATGATGTTTTCTTTCACAAGGCAGCGACTCAAGCG
Right flanking sequence: Indices 360075 -- 360574
CTTGTAATAGCAAAATCTGTTCCTGGGTCATAAAATTGGGATTTACGTCATTTTGATTCCCTCCA
GAAAAGCAAGTTTTTCTTACCTTCCTGTACGAGTAGTGAAGAATTATAGTGAGTTGTGGTTGGTT
GTTGACCAACGGAAAGCATGGGAGTCTTTGGGCATAGGAGGTTCTCTCTCTCTCTTACGATATAA
ATAAGTCCGGGAATGAGCTATCATATGCCTTCTGTTTGAAAGGCTAATTTCCTTTTACTCAATGA
AGAAAGCTAAAACTAAAAGAGTAGGACATAGATTGTATTATAAAAGTTTAATGAGAGATGCGAAT
CATAGCGTATCCAAAGTAGTACTTCTGTTTTGTTTTCAAGGCAATTAAATTCTTACTGTCCGGTA
AGGCAAGGAAAGGCTTTTTCCCCTAAGGGCGAACTTAACCGGGCATGGAAGGCAACTCTATCAAG
TAAAGCTAGTCGTCAGTCAGGGTTGAGACAGTAAGGTCGTTCAGG
Found at i:377380 original size:17 final size:17
Alignment explanation
Indices: 377358--377392 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
377348 ATCATCTCTT
377358 TCAAGAAGCCAACTCAA
1 TCAAGAAGCCAACTCAA
377375 TCAAGAAGCCAACTCAA
1 TCAAGAAGCCAACTCAA
377392 T
1 T
377393 AGCTTCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.29, G:0.11, T:0.14
Consensus pattern (17 bp):
TCAAGAAGCCAACTCAA
Left flanking sequence: Indices 376858 -- 377357
TGCGCTCTCACTAGACTTTTGATTTAATGTCTACGCCGCCTCGATTCACTCAGATTTAATGGTTT
GGTAACCTGCAACATCTTTGGTTCGGCTAGCTTTCATTTTTTTGATCGAAGTCGGTTGTCTTATT
AATCGATTGGAACTCGTAGCTCCAACTATGTATTCCCACTGCCCTGACATGGACAACTTCGCTTT
TACCTAGGTTTATTCACGAAGCATAGGGCATACTTTCTATATAATTTATGCTTTCGTCCAGCCGG
AATCTTAACTGGACGTCTATTGAAAAGGACGGTAAATTGAGAAAAAAAGCATTTCATTAAAAAAA
AGAGTGGATTCTTGAGGTTACATTCCGCTATAGTAGCTTGACCAACGTGAAAGTGGAACAAGTGC
ATGCCCCATACACGAAATTGAATATTAGAGTATAAATCTCATATCGGTATGAGGCTTCCAGTCGA
ATATCTGACTCCGCCTATCACTTTATTCTGCTTCCATCATCTCTT
Right flanking sequence: Indices 377393 -- 377892
AGCTTCTTTTAGAACCGCTATGCCCTCTGCTGCAACTGAGCTAGTTATTGGGAACAGATGGGGAC
TACAAGCGAAGCTTCGCTTGCTTATACCACGTAATTCAACCTCAACAGGAAGGCAAATGGTAAGA
TCCGGGTAAGAGGTTTCGCAGATCTGCTTATTACTGTACCAAACAACAAGACGAAAGCGTCAAAG
GCGAAGCCATGGCGTCACACAATTATCATACAAAATTCTCATTAAGCCACTGTGAGAGAAGGTTG
CTGATCGACGATAATAGGTAGCTTGCAACTATAACATAAAGTGGACGAGCTGACTCAGTGGAGCC
TAAAAATAGCACAAGGTAGTACTAGAAATGATATACAGATGAGATCAAAGGATGGATACACGCAC
GGAGGGAACCAGAACCGGGATAAGCCGCCCTTATTGGGCGCGGTAGAAGCTTACTCTGTAGTTGG
TCTGAAGGAGGTGTTCCACTTCTCACCATCGATTATGATTCGTAT
Done.