Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_065228
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: 510346
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Found at i:49778 original size:30 final size:30
Alignment explanation
Indices: 49742--49846 Score: 210
Period size: 30 Copynumber: 3.5 Consensus size: 30
49732 ATCTTCCGTC
49742 TCGTTACCCTCTCCTTTCAGTCGAGCTACT
1 TCGTTACCCTCTCCTTTCAGTCGAGCTACT
49772 TCGTTACCCTCTCCTTTCAGTCGAGCTACT
1 TCGTTACCCTCTCCTTTCAGTCGAGCTACT
49802 TCGTTACCCTCTCCTTTCAGTCGAGCTACT
1 TCGTTACCCTCTCCTTTCAGTCGAGCTACT
49832 TCGTTACCCTCTCCT
1 TCGTTACCCTCTCCT
49847 CTGAGATACG
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 75 1.00
ACGTcount: A:0.12, C:0.38, G:0.12, T:0.37
Consensus pattern (30 bp):
TCGTTACCCTCTCCTTTCAGTCGAGCTACT
Left flanking sequence: Indices 49242 -- 49741
CTATTTTCTGGTTAAATACATTACGAGATGTTTTTCCATACTTTCCGCATTCAGTTCTAGTTATT
TCTGCGCCCCTCCACTTACTCGTAACAGGCTTTCCTCGCTAAACAAGAAGAAGCTGCTAAGGTTG
CCCAATTCGTTCTATCATGGGACAGGCAGGGTTTCGCACTAAGCAAGTAAACTACCTTTATCTAA
CTGAGTTATCTGTCCTGTGAGACATAGAAGGATTATCTCATTAACTCATTCAATCAGGAAGAAGT
TTAGTCATAACGATCAGGCTATTTCAGTAGTTTTAACCCTACCCTAAGAGCGTGTCTGTCCCTAT
ATTATTTCCTCTAAAGTGGAGTCATGTCTATAGACGATAGGATCTTACGCTCATGGGAGACCGGC
TCTATGCAAGCCGCAGCTCTGAACGCATATAGCTCTACTGGGCGTGAGTTTCTCGTTCCATGTGG
GATAGCTTGCTCTAGTTGACACCCCGAACTATCACATCTTCCGTC
Right flanking sequence: Indices 49847 -- 50346
CTGAGATACGAGCTTGACAACCACATAGTAATATCCTTTCAAGTACTCCTACAGGGATAGGATTT
TCCTTCTTTTTTCGACAACCAGTATAGAAAGTATCTCGCCCCTCTGTAATTCTTATCCGTCCCCA
GATGCTGAATGAGCTAATCCTGATCTTTCTCTCATAGGGTGAGAACAAGCTCGACCACTCTTAAG
CTAGCCCGAAGCTTGATCCCGCGGCCCCGATGCTACACATCAGTTCAGAACTCTACACATAAGTT
CCTTGGCTCTGCTCGCGAATCCATTGCAATTGGGGCGAAATAAATAAAATCCCTTTTTTCTCTGT
CTGTGCGCTTAGCATCGCTTTAGCCGCATTGCTATTGCTATCTGGGAATCGGGGATCATTCCTTA
GCGCTTCACACTAAGTAAGCAAGCTACCTCTCCCTATGTCGAGCAAGTAAACTACCTCTTACTCT
GCCTCAACAGGATCTGGGCTCCGCTTGTCTTGGTCCTTAAGTGGA
Found at i:64913 original size:22 final size:23
Alignment explanation
Indices: 64874--64919 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
64864 CTTTGAGACT
**
64874 TTCTTCTCTTTGCTAGAAT-CGC
1 TTCTTCTCTTTGAAAGAATGCGC
64896 TTCTTCTCTTTGAAAGAATGCGC
1 TTCTTCTCTTTGAAAGAATGCGC
64919 T
1 T
64920 GTGATCTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.17, C:0.24, G:0.15, T:0.43
Consensus pattern (23 bp):
TTCTTCTCTTTGAAAGAATGCGC
Left flanking sequence: Indices 64374 -- 64873
CGGAAAGGAATGGAATTTCTTTAAGCTTCACTCCGCTATCAGACTAGTTGCGAAGCGTTGGGATA
ACTAAAGTGGAATATGCCTCAACTAGTTGCCCAGGATGAGGCCATTGCAGCCACTAGCACGGCCA
AGTCACCAACCTATGGCTCCGGGGAAGCCGGCAGGGAGGAAGGATGATAATCCAACCAAAGGAAT
TAGCCACTCGTTCTATCAATAGGCGCCGTGGGCCTATGAGCTTCTGGGCCTGTACGATTTCCTGT
CCTCAACAGTTCAAAACGCTTGACACTGAGAGCTTTGGTGAATATTTTGCCTTTTGGTTATGGAG
TCTTTCCTTCCTTCCAAGCCGCTTTCAAAGCAGTAGGCAGTCTCTTCTTTCTTCTTATACGGTAG
CCAGTCTTTTTTAGAATGGTTGAATAGAGCCTCCCTTCTGTCTCCCAGTCTGTCTTATAAGAAGA
TAGTAGTAAGTCAGTTGTAGGTTTACGAATGGCTTCTTTGAGACT
Right flanking sequence: Indices 64920 -- 65419
GTGATCTTTTCAAGTTCATCCTAGCTATCATCTCAATCATTCTTCATTCACTTCGAGCCCTCGGG
TAGTTTTCTCATCCAGGAGAGTAGTCTTAGAGGCGGTCTCCTCCCTGTCCTTCTTAGATGGTATC
CTCTCTGTCCTTCCCCTTTCCCGGACTCGAGAACCCCTGAAGCGCACTGGAAGCATCTCAAGGAA
AAGAGAGAAGTCAAATATCGTAGGCTTTAGATAAGATTCCCTAGTAGATAGCTAAGCTAAGAGAG
TGCTCCGGAAGAGCTAATATTAAAAATTCTTTCCCTTTCTTTCACCGAGGAGGCTAACTAGATAG
ATGGTGGGTCTAAGGAAGAGAAGAATATGAGCTATATTTTCATCCCCTTTCAGTCCCTTTCCTTA
TCCTTAGAACAGTAGGGTTTGAAGCTGGCAAAGTCAATCAATCCAGCAGTCAAAGGGGCAAGTGC
AGTCACTCAACCAACGCCTTTCAAGCAATATCTTAAGTAGGGGTA
Found at i:73882 original size:25 final size:25
Alignment explanation
Indices: 73844--73893 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
73834 TTCCCTACTT
** *
73844 CTGTACTTGGTTGCCTGTCTCTAAG
1 CTGTACTTCCTTGCCTGTATCTAAG
73869 CTGTACTTCCTTGCCTGTATCTAAG
1 CTGTACTTCCTTGCCTGTATCTAAG
73894 TAGGTACGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.14, C:0.26, G:0.20, T:0.40
Consensus pattern (25 bp):
CTGTACTTCCTTGCCTGTATCTAAG
Left flanking sequence: Indices 73344 -- 73843
GCCCGTTGATTCAGTACGTTCCTATCCCCTTGGGAAGTTTGATCAATCTTCCTCTCCCTCTCCCT
CTCCTATGGTCGAGTGAGTCCCTACCTTTGGTCGAGCAAGTAACCTCCCTTCTCCCCAAAGGTCG
AGTGAGTCCCTACCTTCGATGCCCATTTGTTGATTAATCTGGGGCGGTATTCATCCCCGGCTTTG
GTGCCTTTCCTCGCCCTCTTTCATTTGGTAATACCCTTTGATTGACTGCATTTGCTTATCCTGGT
ATATAGGTAGTGAACTTCTGTCCTGTCGTATTGTCCTTATTGAGTTATCCTAGCAAGAATCCCCC
ATCGACTAAGAAAGCTATGTATTGATTACTATAAGAAGGAAGCCCCGCTATCTATCTCTGCTTTC
CTGTCTTCCTATCTTTCTGCCTATCTGTCTTTCCTCTTTCTGCTTTGTCTTTCTCGCTGTCGGTA
GAGATTAGTATTTCCTAAGTTGTCTGAGGCTGAGCTTCCCTACTT
Right flanking sequence: Indices 73894 -- 74393
TAGGTACGTCTCGCTTCGCTCCTCATTTCCTTGCCGTCTTTCAATTCTGACTATTGAGAAATATC
CATGAGTCTGTCCCCCCGCGAGTAAATAAGCTAACCTTGGCTTCCCCTTCGACTGAGGCGGACTT
GAGCCTAGTTATTGACTTCCTGAACCTTAAACAAGTTATCAAAGAAGTGGATTTGCTCACAGCTT
CTCCTTCGTTCCTAGACCAACAGCTTAGCTTACCTTAGCCCAGCCGTACGTCCTACTGCTTACCT
TAGCCCAACCATAGGTCCTACAGCTTCGATGGCAGAATGATTGACCGGGCCGCTTGGCCCACTTG
AACTAGCAGCCCTACCTGCTGCCGTACCTGTCTGTGAATGAACTTCTGGATATTCACCTACCAAC
ACAACCCGGGCCACGCCGGGACTTTCTTTATCCATTCAATCAAACTAGGGAAGTGGTTAGAGAAG
CAGTAGCTGCTATGCGAGTTAGATCGGTCAAGTTTTGATGTAGAT
Found at i:74152 original size:30 final size:30
Alignment explanation
Indices: 74115--74179 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
74105 CCAACAGCTT
* *
74115 AGCTTACCTTAGCCCAGCCGTACGTCCTAC
1 AGCTTACCTTAGCCCAACCATACGTCCTAC
* *
74145 TGCTTACCTTAGCCCAACCATAGGTCCTAC
1 AGCTTACCTTAGCCCAACCATACGTCCTAC
74175 AGCTT
1 AGCTT
74180 CGATGGCAGA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.22, C:0.37, G:0.15, T:0.26
Consensus pattern (30 bp):
AGCTTACCTTAGCCCAACCATACGTCCTAC
Left flanking sequence: Indices 73615 -- 74114
GAACTTCTGTCCTGTCGTATTGTCCTTATTGAGTTATCCTAGCAAGAATCCCCCATCGACTAAGA
AAGCTATGTATTGATTACTATAAGAAGGAAGCCCCGCTATCTATCTCTGCTTTCCTGTCTTCCTA
TCTTTCTGCCTATCTGTCTTTCCTCTTTCTGCTTTGTCTTTCTCGCTGTCGGTAGAGATTAGTAT
TTCCTAAGTTGTCTGAGGCTGAGCTTCCCTACTTCTGTACTTGGTTGCCTGTCTCTAAGCTGTAC
TTCCTTGCCTGTATCTAAGTAGGTACGTCTCGCTTCGCTCCTCATTTCCTTGCCGTCTTTCAATT
CTGACTATTGAGAAATATCCATGAGTCTGTCCCCCCGCGAGTAAATAAGCTAACCTTGGCTTCCC
CTTCGACTGAGGCGGACTTGAGCCTAGTTATTGACTTCCTGAACCTTAAACAAGTTATCAAAGAA
GTGGATTTGCTCACAGCTTCTCCTTCGTTCCTAGACCAACAGCTT
Right flanking sequence: Indices 74180 -- 74679
CGATGGCAGAATGATTGACCGGGCCGCTTGGCCCACTTGAACTAGCAGCCCTACCTGCTGCCGTA
CCTGTCTGTGAATGAACTTCTGGATATTCACCTACCAACACAACCCGGGCCACGCCGGGACTTTC
TTTATCCATTCAATCAAACTAGGGAAGTGGTTAGAGAAGCAGTAGCTGCTATGCGAGTTAGATCG
GTCAAGTTTTGATGTAGATATAGTCGCCCTCTTCTCTATGTCATAAAGTCGCTTATAATTAATGG
TTGTTCACTTCAGATGTGATACGTTGTTCACTTCGGATGTGGTGGATGAACCCTGATCGATGCGG
TTCAGGCCGTTTGATTGAACTACGCTAAGCTGAGACTTTCTCTTGTGCTTCGGGCGATCATAGTG
GATTTGATAATAGAAATAGCGAGCGGTCCGCCTTCCTTCTTCGCCTTTTCAATTTCAAGTAATGA
TAGGACTCATGGGCCAAAAGGATATTGTCTTGAATTTGTCTTTCA
Found at i:97451 original size:27 final size:21
Alignment explanation
Indices: 97399--97440 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
97389 GAGGGGTAAT
97399 AAATATAGTTTTGAGTTTGAG
1 AAATATAGTTTTGAGTTTGAG
97420 AAATATAGTTTTGAGTTTGAG
1 AAATATAGTTTTGAGTTTGAG
97441 GTGGCACAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.24, T:0.43
Consensus pattern (21 bp):
AAATATAGTTTTGAGTTTGAG
Left flanking sequence: Indices 96899 -- 97398
GGCGGAGTGAAGGCTCCTTCTTTAATCAAAGAAAGGATAGGGATCAAGATCAATATCGAGCTTTA
GTGGTAATGGGGTAACCCGAAAGCAGAGAATCTGGGTTTTGGTAGAGGGGGTATATGACTGAGTG
AAACTCTTTGGATTCTTTACCAGTGAAGCCCTTAGGAAGAAAAGAACTAAACCTTGCTCTACTAA
GCAGCCACTGAACTCGAGGTGGGTCTTTCCTCACAGGAGAGGAGGGACGAAGCTCTTAGTTTTTC
TAGGTTCAAAGATTCCTCGCCAAGGTGCCATCTAAGCAAAAGAGAAAGAAGCTGGACCTTGGAGC
CGGAGCCTCTTCACTGCCTTTCCCTTCCGCTGGGTTGAGAACCAATACCAAGGTATATCCTAACT
AGTTCCTTTCTTTAGCGAGAGGGGGTGAGAACAGAGATTCCGCCGATCTACAGGATTCCTCTTCT
CCAGCAACTGATCCTCCGGTACCGTAGAAAGAGGGGAGGGGTAAT
Right flanking sequence: Indices 97441 -- 97940
GTGGCACAATACCTTACCTTTAGGTAGAGGAAAGACGTAGCTGGCACAAGCACAATCAGTAGCCC
TTGGCCTTGGAGGGCGGATCAAGCAAGAGCTTTTGCCTTGTGTGTGGTACTTACTCGACTACCCT
GGGAGGAGGTAGAAGGACAGGAGGTGTATGTAGGCTTGACTTCGAAATAGTAAAGTAGACAAAAA
GATGAAATAGCGGCAGGAAACTCATCCCCCGAAACCGGAACATAGGCTTCAAAATAAGCTGCAGG
AGGATTACCCCGAAAGAGAAACTGAATCAGGAAAGGAAGTGGCTTTATACTAGCTATATTGATAG
AAGAGGTAGTGAATCTTACCTGTAGTTAAAAATACCCCTTACTAATATAAGGGTATTTTCTTTCT
TGATTCTAGCTGCTAGAATTGGATGCTTTCCTGGTCTGAGTCAATGCCCCGAAAGTTCAAAATTC
ACCAGATGAAAGAGACAAAATGCAATAGCAAGACCTCTACTCATA
Found at i:101237 original size:14 final size:14
Alignment explanation
Indices: 101218--101247 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
101208 CTGACCCATG
*
101218 AGACCTATTAAGGA
1 AGACCTATTAAAGA
101232 AGACCTATTAAAGA
1 AGACCTATTAAAGA
101246 AG
1 AG
101248 GGGAACTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.20
Consensus pattern (14 bp):
AGACCTATTAAAGA
Left flanking sequence: Indices 100718 -- 101217
TACTCTTCCCCAATAGCTCGCTGGCCGCTATCACTTCATTCGTTCGTTTCGTACACTCCACTTGC
TTTAGTGCTCGCTCCGGTACACTCTTGGGTTGGATATACAGATGGAAAACAAGGTTTTCAGACAG
CATGAAAGATTCCCTTGAGAAGACCGATCTTAAAGCGGAAATTAATAACTCTCGCCTCATTTCTG
GCCGGGTCATAAACCCTCGTTTTTATGGTAGAAAGATGCCCTGTATCCAAATCTTCATCCGTAGC
AAAAGGAGAATCCGCAGTTTAAGACGCAACCGGAGAATCAGCTGAAACAAGAGACGCATTGGCAT
CCAAAGAAGCAAGGGATGAAGGGGAGGAGTTTCATACTGAAATCGATTCACTAAGCTAGCTTAAC
TCTTTAACTACTTGAACTAGAGGAGCGGTACGAGCTACTAATAGGCTTACTACAAAAGAAAGAAA
GGCTATTTGAGATCCTTTTTCAAGGCTCAAGTACTCTGACCCATG
Right flanking sequence: Indices 101248 -- 101747
GGGAACTAATTCCAGATATCGATTAACTGCTTGCCAACCTATCCCTAGACCGACGGATTGACCTG
CTGACCCCGCGACTTCATTGACTTCACGGACCTTGCTTTGATTTCCAATCACTGACTTAACAAAA
TAAAAGACCAGATATAAGTGGTGAACGGGACGACCGTCCCTATTCGAAGCGGAAAACGTTGATTG
ACCGTTCCCATCGTGACCCAGTTCCTTTGTTTGCTTGTGCGCGTGTTGCCTATTCAAAATACGAG
GTGAAAGAGAGACGAGTACGAGCTTCAGAACTTCTAGACAAGGGGATTCTTATAGGCCAATACGC
CTATTCCGATTATGACGATTGCGATTGAAGCTCCCGCTGGTGTGTTTGGTCAAGCTCAAAAGAAA
AGTTCCTCTTTTCGGAAGAGTCACTGTGCCCGGAACTTCAAATACCGAGTTCGGTTGCTGATGCG
ATTTAGGTTTAGGTTGCTGTCCCTGCGCTAGCTGCGGGAAGTGTG
Found at i:104194 original size:20 final size:20
Alignment explanation
Indices: 104160--104197 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
104150 CTCATAGCTG
104160 CTAGCAACTCCTAGCTACAA
1 CTAGCAACTCCTAGCTACAA
104180 CTAG-AACTCCTTAGCTAC
1 CTAGCAACTCC-TAGCTAC
104198 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 103660 -- 104159
CTGGCTACTCCACCCCAAGTCGGGATGGGTGCCACAAACACAGCTTGTACTGGCTTCTCCTATCT
TTCCATTTGAAGGAGTCTATCCCACTGCTTAAGTATGACAAATGTCTGACACTACTATATCGGAC
GTAAAGTCTTGCCCGGCCTCACTGAGTGGATCTGGTGCCCACACCGTAGCTAGTCCTCTTAGCTT
TATTGGAGCAGGTGCCCAAGCTTCTTTGGCTAAAGCACATCTCCTGTCTGAACCCTTGACCTATT
TGAAAGACAAATGCACAAACCCAAATTGAAGAAAGAGATGCTCGAGTCTCTTACGCCATCCTAGG
CGGTTCTCCCGTAGCGTCTCCGCCGGCTACTTTCTAAGGTTCAGGGTTGTCTGCCTATCCTAGGT
GACCATCTTCGTCTACTACAACGAGGGGTGTGTGCCATAGAGTGTGGTACAGGTGTCACCAGTCC
CAGACAGATTTGTTTATGATCTCGTCAACTCGGAACTCATAGCTG
Right flanking sequence: Indices 104198 -- 104697
TAAAACAAGAGCTCTTTCACTCGGGCTACTTTTATTTCTTATTGGGCAAGTTGCCACCCATTGTT
CGATACCCTAACTATAGTAAGTAGCTTAATCTGTCGAGAAGAACCATCCCTACCGGAAAGGGGCA
AGAGCACCTTTTGAACGGATTCAGGTCGGTCTGCTAATGTAGCTTGTTGCTTCTTTGAAGCGTAT
GGGGCAGCTTGTACCCTTGTTCTGGTTGCAGCTCGAAGCGTAGATCTGCTTTCAGTTGGTCTCGT
TGAACCAGTGGATTCAGAATCTGTCAGATAGATGGGAAGTGACTAAGTATGGTTCAGTTCACGAA
AAAACAGAATAAGCTTATAGAGGGCGGCTCGCCCGACGAATGTCAAACAACTAAAATATGTGGCT
CAGTCTTTACTACACAGTTATAATAGCCAGACTCAAAAGTAGGCGAACGCTCATGCTTATACTCA
GAAGGGACTATGGCTATAGTACTAACTGCCTCCTTAGCCCCGGTA
Found at i:131090 original size:22 final size:21
Alignment explanation
Indices: 131046--131092 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
131036 CACTCCAGCG
*
131046 TTCTTTTTTCAGTCTTTTTCT
1 TTCTTTTTTCAGTCTCTTTCT
131067 TTCTTTTGTTCCA-TCTCTTTCT
1 TTCTTTT-TT-CAGTCTCTTTCT
131089 TTCT
1 TTCT
131093 CATTGAGGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 7 0.30
22 14 0.61
23 2 0.09
ACGTcount: A:0.04, C:0.23, G:0.04, T:0.68
Consensus pattern (21 bp):
TTCTTTTTTCAGTCTCTTTCT
Left flanking sequence: Indices 130546 -- 131045
TAAGGTAGCTTAAGTACTCCTCTTAATAGAGCAACTGGTGGTACCTATTTAATATTAAATAGAAG
AAAGGAAGAAGCTCCTCCCAGGCGCAACTTCCCCACCTTTGTTGCCTACGCCCGCATTCTGTCCC
CCGCCTCTGTTGCCTGTGTGTTGCGCCTCCTACTTCTCACCTTTCGTTTTTCCATTAAGGCGGTG
GTTTACCTTTTGGTTTATTTTCCAAACCCTTTCGGTTTCTTTCCTTTCCATGGTTTGCCTTTATT
CTTTTTCTTGGAAGGTTTGTGGTCATATAGTTTAGGTTGTTTAGCTTTGACTTCATCTTTTATGG
CTTGTAGTTGTTCTTTGGTCAATTCATTTTTGTTCTTTAGTGCAGTGGTGGTATCGTGTACACCA
TTATCTCTTAGTGTTTCATCCCTGACAGTAAGATCGTATTTTCCTTCTTCTTTCCATTGATCTGT
CCCACCTTCATGTTCTTTATATTCTTTATAAAGTTCACTCCAGCG
Right flanking sequence: Indices 131093 -- 131592
CATTGAGGTATAGTTTGTATAGTATTGTCTGTGCCTCATCTATCCGGCTCGTGATTAGTTCGTTA
AGTTGTCCTTGCATCCTCTCTTTGTCTGCTAGTAGCTCATCTAACATCTGTTCTTTCACAGTTTT
AGGGAGACCGTCATTCATATGCTTCTCTTCGGACTGGACTTCAGTAGTCTCTTTCATTGTTTTGT
CTATTTCTTCTTTCCCCGTAGTTGTTTCAGCATCTCTTCTCTTTCTTTGACGCAGATCCCTTTCG
GGAATTGAATTTATGCAATCTTCCCGCTTATTCGCTTATTCTTTCATTGGACTCTCCTTAAAAAA
AGAAAAAATCTCGTATGTAAGCAAGCATCTCTGTTAACAGCTGATATGCGATAGCAGGAAGCAGG
ATGGGCTGTTACGTAATGGACAGCTACTCAGTCTTCTAGTGTTTATAGTGCATAAACGGCCTACC
GGTCTGCGACCCTTTATTCATCAATACTATCTTGATTCATTCATA
Found at i:136343 original size:19 final size:19
Alignment explanation
Indices: 136319--136356 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
136309 GGAGTTTCCA
*
136319 GCAGTAACCCCAAAGGGTT
1 GCAGTAACACCAAAGGGTT
136338 GCAGTAACACCAAAGGGTT
1 GCAGTAACACCAAAGGGTT
136357 TCAGATTCCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.24, G:0.26, T:0.16
Consensus pattern (19 bp):
GCAGTAACACCAAAGGGTT
Left flanking sequence: Indices 135819 -- 136318
CTCGTTCCTAGGAACTCAGTAACGTGGCCAGTAAGTCAGCGAGCATTGAGGCAGGCAGACAGATA
TTATTAACTGCTTTAAGTCGGTAAGGCAAGGAGGGCGGATTTCACCGATCATTCCTACTTGACGC
TTTGGACGAGTATTTTCAAAACCTTAGTTCACTATCATTAAGGGAACTTCTTGGATCGCCGCTTT
GAGTCTTGTCTTAAGGCGACGGAAGGCAGAAGAGGGAAAGTCGCTCCTTAAATACGAGGAGTTTC
AAGAACCCGGCTGATCAGTGTTCTGTTACTAATATGTTGATGACTTCGGCCAGTTCCTCGGTTAA
GTTGCTTAGCATAATTGGTAACTACATGGTGTTGCTGCTATGGCCCTGGAGAGAGATTCCTACTT
ATACCGGGCAGCTCTACCAGCACTAAATTCCCTTCTTTCCGACCAGGACGTATGTTTCTTTAGCT
TGTATATCCTCTTACCATGCAGAGTTATATGTTCAGGAGTTTCCA
Right flanking sequence: Indices 136357 -- 136856
TCAGATTCCGGACTGATCTCGTAGTCGGCTAGCTCATTCGAGCGTATCTCGTTTGGCCTCTTTTT
CTCACCCTTACCTTTCCATTTCAAGCTTCATATCCTACTAATAGCCCCCCTTGTCGTTGAATCTC
TTGTAGAAACCACCATTGAATAAAATCAAAGGGTTAGTCTTCTTTGATAGAGGAAAGGTTGAATG
CTGCCCCCTTCCTCTGACCCCGAATCATTCTTTCAACCTTCGGCCAGGCGCCTAACTAACCTAAA
AATTCGGAAGCTCCTGAAGATCTGACCGAAATCGGATTTACTTTTCGCGCCAGATTTGTTGAATG
GCCTAGGAGTGAAGTTCAAGGGCTTGGCTTTTTGGCTCAGATTCCGTATCGGCTGTTTGTTCATC
AAGCCTATTCTCGAGCCTATATCTACTCTCTTTTCTTTTAGAGGCGTACCTCTCCACGAGATCGA
ACACTTTACCAAGGATTGAATCCAAAAGCAAGAACTCGGTTGACA
Found at i:140087 original size:14 final size:14
Alignment explanation
Indices: 140068--140094 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
140058 CAGCTTATCG
140068 TTAGAACGCTTTCA
1 TTAGAACGCTTTCA
140082 TTAGAACGCTTTC
1 TTAGAACGCTTTC
140095 TCGGGATAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (14 bp):
TTAGAACGCTTTCA
Left flanking sequence: Indices 139568 -- 140067
GCGGGGACAGAGAAGGATAACCTCTTTGAAAAGGACAGAGCCGCTTGGCCGCTACTTACACATCT
GGAGTTCCGGACTGAACTACGGAACGGAATTCAAGGGCTGGGCTTAGAAGCCCCTTAGATAGCAC
TTCCTCTATGAATAGAAGAGATTTTCTTTCTAGTAGAGCTCATCACGACCATCATAACCTAACTC
CAGGACTGCTACGGGCACTGATCCTTCTATTTTCTATTCAAAGTTTCGTTTCTCCTGTTGAATGT
AGTTTCTCCGGAAGCGAGCTACTGACTAGCGGCAATCGGGACGGAGAGAAGACTAGAAAACTCCG
GAAGGCGCTAACAAACCGACTCTGCTTACCTACTGAGCCCTTGAACACTGAATCCTATACTATAG
AAATGGCATTTGACCCACTTCCTTCAGCTTGCCTAAACCGTCGGTAGCGAAGGGGAAGGGTCGGT
CTGTCATTCTGTCCTGAGAGTTTAGTAAGGACTTTCAGCTTATCG
Right flanking sequence: Indices 140095 -- 140594
TCGGGATAGCTGTCCAGGGCTTTCGTCTCGGGGTAGCAACCGAATCTTAGAAAAGCGCAGACGGG
ATTAGTGGGAAGGGCTTGGTCGATAGAGATTGCTTTTTCTTTAGAATCCCTATGGAATTGGGCGA
GGAACCCTCTTCTACTCATTCATGGGCTAGGCTACTCAAGGGTTGCTGACTCTGATATTGATTCT
CAAAGTGGGCATCCTCCAGCTGGGTCTCTAGTCTTTCTCATGTATTCACTTTCACTTTCAGCAAA
GAGGTTTCAAGCAATCGAAGGAGCAATCCGTGGCAGCTCAGCTCGCTTCTCACCCTAGTTACACA
GTCCTCTTTTTTAGGAAGAATAAGAAAAATCTTACCTCCGTTTTCAAGTTTCAGTCTTTCCAGTG
GGCAAGCGAGTTTCCCTCTTACTTAAGTAAGAGTAAGCTCCCATCGAAGGTAATTTATTATTCTC
AGGCGAAGGGGAAGAACAAGCAGCGAAACGGTAATAGGAAATGGG
Found at i:141336 original size:18 final size:17
Alignment explanation
Indices: 141292--141349 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 17
141282 TAGTCTTACA
*
141292 TTTAAGTGGTTTGACTTTC
1 TTTAAG-GGTTTGAC-CTC
*
141311 TTTCAGGGTTTGACCTC
1 TTTAAGGGTTTGACCTC
*
141328 GTTTAAGGGTTTAACCTC
1 -TTTAAGGGTTTGACCTC
141346 TTTA
1 TTTA
141350 TGTAATTGGT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
17 6 0.18
18 23 0.68
19 5 0.15
ACGTcount: A:0.17, C:0.16, G:0.21, T:0.47
Consensus pattern (17 bp):
TTTAAGGGTTTGACCTC
Left flanking sequence: Indices 140792 -- 141291
TAAAGATTCAATCTCAAAGCGATACTAAAAATTAGGCAAAAGCAGAACTAGAACTCGAATTCTTC
GCCCCTCCCCTTGTACCAAGAAGCAAGTTCAAAACAGAAGGATAATGGGCTCGTCTATTATAAGT
TATTAGTTGACGGGGCTATCTCAGATATCTCGAGTAAGGAAACGGGCTTGATGGGGAAACATAAT
CGATTTCATAGGAAGACGTGCGCCAATCCACTTCTTTTCGAACGGTGAAGAAGGAGAATCGAATA
AGTCAAGGCGGTTCGCTTCCTCTGCTCTGGCAGCTCCTTCAGCTAGCAAGCTATGTTGGTTGGGA
CATTTCCAATCTCCACCGGCTATTAGTAATCGCCGTTTGTTCTCTCTTCTCGTTTGGGATCAAAA
AGAAATGAGTCCTTTGCCCTTCTCTGGGCCTCGTCCGCCATGGGCGAGTAGCTACATCTTCTTTA
CAAGTTAGCTCGCAAAGCGGGCTGGATTGAATCCATAGTCTTACA
Right flanking sequence: Indices 141350 -- 141849
TGTAATTGGTTAATTGAAAGGAAGGGGATGTAATGAGGTAAAATACAGTTGGTTAACCTTGTTCC
TCATTCCCTGGCTGCTCTGCTATTGTCTGATTTCTGGTCTTCTATTCTAATAACAAGTTCCATCC
ATGATTACTCTATTTCGAAAGTTGTGCTTACAGTCCGATCCTCGAAATCATCCCATTTTCGTAGG
TCCGTCCTATTCCGACTCGATCGCTCCGCCTTTCGAGGGTCGAGTTCGTGTTCACGGCTCCGACT
CGGTCTATCCTGTGACCAGTCGTATGCCGCTTCCGTTCCATACACGTACCCGTGGTTGGCGTGCT
CAAGCACCCCTTTGGTTTCGTGTGAACAAGAATCCCATTTCTTCTGCTCTTCCGGGTAGTCAAAT
TTATATCCAGGATCCGGATACAGGTGACAAAGCTGTGCTGACTTATGGCTTCTCTCGTTGGATAC
CTTACGCGATCAGGAGGTCCCAGCTTCCGTTCGTGCTTTCTTTTT
Found at i:158278 original size:30 final size:30
Alignment explanation
Indices: 158242--158303 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
158232 CCTTAACTAA
158242 TACTTAGTTAAGCCCTAAAGCCCTCCTTCT
1 TACTTAGTTAAGCCCTAAAGCCCTCCTTCT
158272 TACTTAGTTAAGCCCTAAAGCCCTCCTTCT
1 TACTTAGTTAAGCCCTAAAGCCCTCCTTCT
158302 TA
1 TA
158304 TAAGAAGAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.24, C:0.32, G:0.10, T:0.34
Consensus pattern (30 bp):
TACTTAGTTAAGCCCTAAAGCCCTCCTTCT
Left flanking sequence: Indices 157742 -- 158241
CGCTCCAATGCAGCATTCGAGGGAAGGGGGCACCCTTTAAGAAAGAGCTTCCGAGAATTCATTAC
TCGTTGCAGCTACAGCCGTAGCCTATTCGTTAACTGGATCTCCTACCTCCACTTTTAGGGAAGGT
TGTATTGAGGGCACCACACTTAAGAAAAGAGCATATGACTTCCTTAGCGTTTCACACTAAGCTCT
TCGATCCTTAGCGCAAGCAAGCACTAAGCAAGTAAACTACCTTTGAGGAGAAGCCTCTTTTGTTT
TTAGACTACCCATTCAGCCTTAACGCACCAATGGCTAAGAAGGGTACGTACCATAAGGTCTACTT
CTTTTTGGGAAAGAAGGACTAAAAGCCAACCCTTATGCTACACATAAGCCTTATCCACGCCAACC
CTGATGCAAGCCGTCTCTACTACCTTTACTTAGATAAGTCAAGCCCTTTCCGCTACCGATAGCAG
CTCCCGCTGACCTTCACTTACTAGAAGTTCCGAGCCCTTAACTAA
Right flanking sequence: Indices 158304 -- 158803
TAAGAAGAAGCCCGTAACACCCTCTTTCAGTACTCCCACCGGGATAGGAGGAGATGATGTTTAAG
CTATCCCACCGTCCGAGTAAACTATCTCTTATAATCAGCCTGGAACTAGAGCATCCGCCTTCTGC
TACTGCTATCACATCTTCCTTCTAGTTCTGATCGTAGACAACCCTGGAAAAAACCTTATCTTCTA
ATCAGCCTTCTAGTTGACAACCCTGGAACTCTCACTGAAGCCTTCAACCCGGTCAGTCTTAACGG
GAAGATTGAAGTTCTCTATTAGCTAGGCTGGGGGAGGACCCCCAAACCCCCCCTGATGGTACCCT
CGAGTCTCACTACTGATATTACCTTCTTGCTTATCCTCTCCTCTTCTTCTGCTAGACATCATTGA
GCACTCCCGGATGTAACACATATGCCTTCTCGTAGAGCACTCCCAGAAGCTACCCTGAAGCCCGA
TCGTTCTGATCTACGACCAACCCTTCTCCGCAAATAAGACTTTTG
Found at i:158315 original size:30 final size:30
Alignment explanation
Indices: 158251--158316 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
158241 ATACTTAGTT
* **
158251 AAGCCCTAAAGCCCTCCTTCTTACTTAGTT
1 AAGCCCTAAAGCCCTCCTTCTTACTAAGAG
158281 AAGCCCTAAAGCCCTCCTTCTTA-TAAGAAG
1 AAGCCCTAAAGCCCTCCTTCTTACTAAG-AG
158311 AAGCCC
1 AAGCCC
158317 GTAACACCCT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
29 3 0.09
30 29 0.91
ACGTcount: A:0.29, C:0.33, G:0.12, T:0.26
Consensus pattern (30 bp):
AAGCCCTAAAGCCCTCCTTCTTACTAAGAG
Left flanking sequence: Indices 157751 -- 158250
GCAGCATTCGAGGGAAGGGGGCACCCTTTAAGAAAGAGCTTCCGAGAATTCATTACTCGTTGCAG
CTACAGCCGTAGCCTATTCGTTAACTGGATCTCCTACCTCCACTTTTAGGGAAGGTTGTATTGAG
GGCACCACACTTAAGAAAAGAGCATATGACTTCCTTAGCGTTTCACACTAAGCTCTTCGATCCTT
AGCGCAAGCAAGCACTAAGCAAGTAAACTACCTTTGAGGAGAAGCCTCTTTTGTTTTTAGACTAC
CCATTCAGCCTTAACGCACCAATGGCTAAGAAGGGTACGTACCATAAGGTCTACTTCTTTTTGGG
AAAGAAGGACTAAAAGCCAACCCTTATGCTACACATAAGCCTTATCCACGCCAACCCTGATGCAA
GCCGTCTCTACTACCTTTACTTAGATAAGTCAAGCCCTTTCCGCTACCGATAGCAGCTCCCGCTG
ACCTTCACTTACTAGAAGTTCCGAGCCCTTAACTAATACTTAGTT
Right flanking sequence: Indices 158317 -- 158816
GTAACACCCTCTTTCAGTACTCCCACCGGGATAGGAGGAGATGATGTTTAAGCTATCCCACCGTC
CGAGTAAACTATCTCTTATAATCAGCCTGGAACTAGAGCATCCGCCTTCTGCTACTGCTATCACA
TCTTCCTTCTAGTTCTGATCGTAGACAACCCTGGAAAAAACCTTATCTTCTAATCAGCCTTCTAG
TTGACAACCCTGGAACTCTCACTGAAGCCTTCAACCCGGTCAGTCTTAACGGGAAGATTGAAGTT
CTCTATTAGCTAGGCTGGGGGAGGACCCCCAAACCCCCCCTGATGGTACCCTCGAGTCTCACTAC
TGATATTACCTTCTTGCTTATCCTCTCCTCTTCTTCTGCTAGACATCATTGAGCACTCCCGGATG
TAACACATATGCCTTCTCGTAGAGCACTCCCAGAAGCTACCCTGAAGCCCGATCGTTCTGATCTA
CGACCAACCCTTCTCCGCAAATAAGACTTTTGAGTACCGGGGCGG
Found at i:188443 original size:19 final size:19
Alignment explanation
Indices: 188407--188461 Score: 62
Period size: 17 Copynumber: 3.0 Consensus size: 19
188397 ACTAAAGGGG
*
188407 TTATGAGTTAGAAG-AGTTA
1 TTATGAGTTA-TAGCAGTTA
188426 TTATGAGTTATAGCAG-T-
1 TTATGAGTTATAGCAGTTA
*
188443 TTAAGAGTTATAGCAGTTA
1 TTATGAGTTATAGCAGTTA
188462 GGGAGTTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
17 15 0.48
18 4 0.13
19 12 0.39
ACGTcount: A:0.35, C:0.04, G:0.24, T:0.38
Consensus pattern (19 bp):
TTATGAGTTATAGCAGTTA
Left flanking sequence: Indices 187907 -- 188406
CACTGATTTAAAGTTAGGGGAGCAGTGTAACTGCCATCAACTCCTATAACTCTTTTCCTTAAGTT
TAGGTTAGTTCCCTCTTAATTAGGTATTATGCAGAGTTCCTACCTAGAACTCCCTTATAAACTAG
AAAGCTAACTCGAACTCGTAACTCAATTAATTTAAGTTACAGGTATGATAAATATAAGTTACTGT
TATTAGGCGCATCCTTCTTTCTTGTCCTTGTTGGGGAATCCTATATCTTTTAAGAAAAAATAAGT
TTGAAGTCCTCTCCTTTGCAGTCGAGTTACTTTATTCCTCATAGCTTCACTCTTTTCTTTTAGTT
CCCTACGGGGTTAAGTTAAAGTCTTATTATTATTGATATTCCCCCTACGGGGAGGTTACCGTTAT
TATTATTAATAGAATTCTAATTAGTTACCAGTAAAGTATTATTAGGTATTAAAAGTCTTTTTAGT
TAGGGGTGTAACTGGGGGCACTCCCCCGGAACTAAACTAAAGGGG
Right flanking sequence: Indices 188462 -- 188961
GGGAGTTATGAGTTGCTAATTGTCATTCTCTTTAGTTCCCTACGGGGTAGTTACAGGTATGATAA
ATATAAATCTTAGTTACCGGTATTAGAAATATAAGTAATATAAATATATTGGTAGTTACAGATAT
TCTTAATTTGGTGGAACTGGGGGGTCTGGCGCAGTGTAACTGCCCCCGGAACTGGTTTAAAGAAG
AGTTAATTGTCTTAATCTTTAGAAACTAATAGCTAGAAAAACAGGCTATTCCATCTAAGGCATAA
CATGAACCGAGGAATCCAACCAAATAGGAATGAATAGGCATGTGGGAACAGCATTGCTTGCATTG
ATTCAATTGATTTGAAGCGGCGGTTATACTATACATACAGACATAGTTTTCACTAGGGGTTTTTA
CCGAGTTGGTCACAAGCCCGTCAGAAGCAACCTCAGCAGAAAGCCACTCTTCCAGAGTCTCGTCC
ATCGTCTGCTTAGGCGACTATTTAATAGCCTTTAGATCTGCCTGT
Found at i:207499 original size:39 final size:39
Alignment explanation
Indices: 207456--207534 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
207446 CGATTTTCTA
* *
207456 TTCACTCATGATCTGGCCTGGTCGACTCGATCATGATAT
1 TTCACTCATGATCTGGCCTGGTCGACCCAATCATGATAT
207495 TTCACTCATGATCTGGCCTGGTCGACCCAATCATGATAT
1 TTCACTCATGATCTGGCCTGGTCGACCCAATCATGATAT
207534 T
1 T
207535 GAAGGATGGG
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:0.22, C:0.27, G:0.19, T:0.33
Consensus pattern (39 bp):
TTCACTCATGATCTGGCCTGGTCGACCCAATCATGATAT
Left flanking sequence: Indices 206956 -- 207455
GCCCACACCTGTGTAGAGTGGATCGTTCAACACCTGCGGCACAAACCCATTTTTGACCTATTGGT
CCTAGTATCATAGGCGACCGAACGGCCGCCCCCTAATTACTAGACCAACCTGCTATAATAATTCC
ATAAACACCTAGCGAAGATATGGCAAACAAATAAAGTAGCCCTATGTTCGAATCTGACAATACCA
TACCATAATCAAAAGGTACAACGGCCCGAGCAACCAGACTTAACATAAATGTAGTCACTGGAGCC
ATTCTAAAAAGGGAGAAATTAGCACTACTTGGTGAAATAGGTTCTTTTAGAATCAATTTCAAACC
ATCTGCTAGAGGTTGTAACAATCCGAACGATCCCACTACATCAGGACCCTTTCGACGTTGCACAA
AAGCCATTACTTTACGTTCAGCTAGCACTAAAAAGGCTACTCCTAGTAGAAGTGGTAGAATTATT
CCAAGTATTTCGGCTGGAACAGCTATGTACGTTTTCGATTTTCTA
Right flanking sequence: Indices 207535 -- 208034
GAAGGATGGGACCTTTTCTCGAAAAACTCCGGATCCAGAGAAGAGTTGAAGATGGTGCAACATCG
TTCCCCTCTACGTTCTGTTAAAATGAAAAAACTTGCTAGAGCGAAAGCACTAACGCCAGAGCTTG
GGCAAAGTGGGGACTCTGCGTGCCCTGATTGACCAGATCTAAATAGATCTGGTTCAGACATTGAA
AGCTCTCGTCGCGAAAAAAAAGATGTTCGGATAACTCTTGGAGATTTACTTCTGCGGGTAGGTTC
ACGTTCCCATCCGGAGTAGTATCTCTATAGACTCTAAAAATTATTGAGAGTTGTTCCACTATTTT
TTCTTTAATAACATTCATGGTTACATCAGTAACCTTTGTTTCTATATTCATACTATCCATTAGAT
GGAGCATTTGGCCAGCTCTAACGGCTACAAGAATAGCTACAGGCAAAGCCAAACCCATCCTAGAT
ATAAAATCCGTAATCAGGTGATCCATATCCGCTATTATATCGTAG
Found at i:222525 original size:25 final size:25
Alignment explanation
Indices: 222497--222658 Score: 324
Period size: 25 Copynumber: 6.5 Consensus size: 25
222487 AAAGAATCTT
222497 TCGAAGAGGGGCTTGCTAAAGAGGC
1 TCGAAGAGGGGCTTGCTAAAGAGGC
222522 TCGAAGAGGGGCTTGCTAAAGAGGC
1 TCGAAGAGGGGCTTGCTAAAGAGGC
222547 TCGAAGAGGGGCTTGCTAAAGAGGC
1 TCGAAGAGGGGCTTGCTAAAGAGGC
222572 TCGAAGAGGGGCTTGCTAAAGAGGC
1 TCGAAGAGGGGCTTGCTAAAGAGGC
222597 TCGAAGAGGGGCTTGCTAAAGAGGC
1 TCGAAGAGGGGCTTGCTAAAGAGGC
222622 TCGAAGAGGGGCTTGCTAAAGAGGC
1 TCGAAGAGGGGCTTGCTAAAGAGGC
222647 TCGAAGAGGGGC
1 TCGAAGAGGGGC
222659 GGCGAAGGAA
Statistics
Matches: 137, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 137 1.00
ACGTcount: A:0.28, C:0.16, G:0.41, T:0.15
Consensus pattern (25 bp):
TCGAAGAGGGGCTTGCTAAAGAGGC
Left flanking sequence: Indices 221997 -- 222496
TTTTATTCATTTTGCATATAGGTGGAACGAACCTTTTTTCATTGTTCGGCCCGATAAGAAGTTTA
TGTCGAATCTAGCCGCGGGGGTCTCCGCTTTCCGGCTAAGCAAGTGATAAAGGAGTAGCGGATCC
CTTTGTCTGTCGCATGATACCGGGGAGGCCTTCTTTTAGCACCGGTAGCTATGAGTCAGTCGGGG
TAGTCACTCCCAAGAGAAGGTAAAGATGGGATCGTTTGTATGCGCCATACCTATAAGAGGGGAGA
GAAGGTCGAACGCTAATTCCTGACTGAAGGGCTGAGAATGAACACAAGACTTTGAAGACCAGACT
CAGGAAAGCGGACGGGAACAACAACGACGTAGTGACGTTGACTAAATACGAGATTTCGCTTAAAG
TACATAAGCGGGCCAACGGACGGCAATGAATAGTCAGACTAGCCAACCGGGGCTTCCTTCACAGG
CCAACAAGCAATACCGGGCCAAAGAGAGAAAGCCGAAAGAATCTT
Right flanking sequence: Indices 222659 -- 223158
GGCGAAGGAATACACTAAGGCAGGTTTCAGAGCTCGATAAAGCAGACTAATACTTCTAGGTAACT
AAGCGCCTGTTATCCCGGAAAGTATAATCGCAAGCCAACGGGCGGCAACAGTAAGTATGGCAAGC
TAACTGCTGGGAGAACTGTTAGTATACCAACAACTGAGGGAGGCAGTCCAGGTGGCATAAAAGAT
AGGTAATCTAATGAATGCTCGGATGCTATGCCGCTTGATTAAGGTTAGTAAGTTAAACGACTATT
GTATGAGGATTCGATCACAGTCCCTGTGTAAACGCAATCTCATTCTCAACTTCCGGGGCTTAACC
CTTCTCATAACTACAGTATTTACCCAATCTTTAAAGCGAAACCATCAAAGTTCCATCTGCTCACG
ATACATAGAGCCGACCGCCGGCTCGCTTCCAATCGGGTTAGGAGGTTAGAAGTCAGAAGTCAACA
AAAAAAAAAGAAAAAGAAAAAAAACTCGATCTCAGGGTCCACCCG
Found at i:231882 original size:22 final size:22
Alignment explanation
Indices: 231842--231885 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
231832 TATAAATCAA
*
231842 ATATAGATGAGTAATTCAAAGT
1 ATATAGATGAGTAAATCAAAGT
231864 ATATAGATGA-TGAAATCAAAGT
1 ATATAGATGAGT-AAATCAAAGT
231886 CAGTCGTCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 1 0.05
22 19 0.95
ACGTcount: A:0.48, C:0.05, G:0.18, T:0.30
Consensus pattern (22 bp):
ATATAGATGAGTAAATCAAAGT
Left flanking sequence: Indices 231342 -- 231841
ATTTCATCAAGGTGGCTTTAGCAACCATAGATAGACTGAAGAGCCAAGCACCTAAATTCCTCTCT
GGAGTGACCGGCGGGCTTATTTAGTTGTGGGGGTTCCATCCTTTGAGTTCCCTGTGGTCTTTTTA
TTCAATCTTTCCCACTTGAGCCTATTACTTAGGCTCATGGATCACCTTCCAAGTACCTGCTTTAT
TTATGTATTGCTCCAGGTTCCCCAGACGGGATATAAGGGACTTTCCCGAGCGAAGTGAACCACCC
GAACCACGCGGACTGAATCTAAGTAATCTGCTCTGATTGGAATGGTTATTTCTGCTTATTGGCCT
TTAAAGTAGTCTTTGTACCAGGTACACTGAACAAAAAAAAAGATTTCGAGAAAGAGGCTATAAAC
CATTGAATTGTGTCGATTCGAGCTAGCTTCAGGTCTTCTTCAATCAGAAAGTCATGCCTTTTCAC
TATAGTAAGGGATTCGATCCATATCACAAAACATATATAAATCAA
Right flanking sequence: Indices 231886 -- 232385
CAGTCGTCTATCAGTTATGGAGTTGAGAGTCACCTTTGTTGCTTCTTTTGTCTCCTACGGTTATG
CTAAGATATATTAAAATGTGCATTCAACCTATATTTCCCCTTTTCTATTGTACAGATGCCTATTC
ATTTCTGCGTAAAGCTCCCCCTTTCCTTTCTTCAAATATCTCATTTCTCAGTCTTGACTACTTCG
GGCACGGCGCGCAACGGAACAGAAAATGAAAGCAAAGAAATCTAGCCTCGTATTCCAAATAATCG
ACCAAGGAATGAAGGGATCCGTTTTGATAGATCCCGTTTTGGCTTTCATATGGCAGATGGTCCGG
TGCCTTTTCATATATGTAATGATGGCGCCCTAGGATTACACACCACGCAAGGCGGGCAAAGCCAT
TCAAATTTCACTACCTAACGGAGGAGCGTGATAACCTCTTTGTAATAAAGGAATTCATTCACCCT
TTCCATCGGCTAGGAACAGTTGTTTGGATTGGACATACGTCACAG
Found at i:233480 original size:14 final size:14
Alignment explanation
Indices: 233461--233488 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
233451 CCATCCCTTC
233461 TTCTCGAATATGTA
1 TTCTCGAATATGTA
233475 TTCTCGAATATGTA
1 TTCTCGAATATGTA
233489 CTCTTATTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (14 bp):
TTCTCGAATATGTA
Left flanking sequence: Indices 232961 -- 233460
AACCTTTTATTTGCTGTGATCTCGATCCTGTTCCGATTCGGATTTCCTTTTGTAGTGGATAGCAT
CCCCTTATTGTCTTCACTAGCGTTTTCTTTTTATGTCCCGGAGCAGTCGCCTTATTCAAAACTAT
AACGATTATAGCTGCTGTACAAGAAATAGATTATATTAGTAGTAAACTATAAGACTTTTGCTTCT
AATATTGAAAATGAAGCTTCATCTCTTACCTGCGGATTTTAGTGCTTTTGAAGTGCATCTCGCGG
CCAACAAGCTCTAGTGACTGCCTCGATCAAAAGCCCTTAACCTCCTTCCTATTTGAGGATGATAC
CCGGGAACAATCCTAGATCAATGAAAGCAACCGAAGCATAGCAAGGGGAGCTTTAGCTTCTTCAT
CATGTCATTCTTCTGCTAGATGAGCCCATAAGCAATCGTAGGGCTTCCAAGCCCGACTATACTAG
ATTGGACCCTTCTGTATCTACTCTACAGAAAATAACCATCCCTTC
Right flanking sequence: Indices 233489 -- 233988
CTCTTATTTCATAGAAATGAACCATCTCGCCTTTCTCTACGCTGCCCGGTTCGTCAGGAAGGTAG
ACAATTACCACATAATAAGCAAGCAAGGCCTCATCCTCGGGTAGCATTCATCGGTGGTAGGGTGG
CGTCCCTGAAATAATAACTCTTTAATAGGCACCGCCTCGTCGAAGAAAGATATCTATTGAGTATG
TTCGCGATTCCTCTTCTTTACTCCTCCTTACTTGAAGATTGAACCTCAAAACTCTTTTATTTCGA
CCTCTATTAAGCTAGTTTTACAGGGTGATCCTGACTAAACCAAAGTACCGTGACTCAAGGGGCAT
GATCGCAAGGCCGAATCTTTTAATGTAGGGACTTCACCAGACCCGAACTTATCCTCTTAACTATG
AGTCGCCATCTTCAATTTTCTTTGTAGCCGATATCTTTCCTCCGCACCTACAAGGAGCTATATGC
ACCTCTTGTCTAATTGATCACAAGTCAAGGAAGAAGAATCTCTGG
Found at i:301399 original size:22 final size:22
Alignment explanation
Indices: 301371--301455 Score: 80
Period size: 22 Copynumber: 3.5 Consensus size: 22
301361 AGAAAACAAG
301371 CTCGACCATAGGTAGGGACTCA
1 CTCGACCATAGGTAGGGACTCA
* **
301393 CTCGACCATAGGAGAGGGAGTGAAACTTG
1 CTCGACCATAGG-TA--G-G-G--ACTCA
301422 CTCGACCATAGGTAGGGACTCA
1 CTCGACCATAGGTAGGGACTCA
301444 CTCGACCATAGG
1 CTCGACCATAGG
301456 AGAGGGAGAG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
22 27 0.54
23 1 0.02
24 1 0.02
25 2 0.04
26 2 0.04
27 1 0.02
28 1 0.02
29 15 0.30
ACGTcount: A:0.28, C:0.25, G:0.29, T:0.18
Consensus pattern (22 bp):
CTCGACCATAGGTAGGGACTCA
Left flanking sequence: Indices 300871 -- 301370
ACACTGAGCGAGAACGGTAAGGGGCGCACAAACAATGTCGTTGCGCGGGGATGCGATTCGCCAAG
CTGGGGCAAACAAAGCCGTCCGGCCCCCCACCGGATTAGGAATGCGAAGGCCTCTCCTTTTTTCT
AATTTTGTTTGAGGCTAGAGAATGAAATGCAGAAATAGGGGAAGGGTTCCAAACCTTTTTTGGTT
TAAGGGCTGCTCGCCCTACCGAAGTACCAAAGGCTTTCGAGGCTTACACCTTACCTTCCTATTAC
ACGACCTAAAAAAAGGCTTTCAGTAGCGCCCTTAGAATCTACGAAGCCTTTTGAAGCGCCAGTGG
TTGTAGCTGTGGGTAGAACTTTCGTTCTTATCGCTCTGGGTTTCGATCTATATGACCTCCGGGCG
GTACAAAGTACACCTCTTCCGTAGAGGCAGGTAGTAACCTAACCTTTAAGAGTCTGTTCAAGGTA
GCTTGCTTACTTAGTGCTTGCGCTAAGGTTCTGAAAGAAAACAAG
Right flanking sequence: Indices 301456 -- 301955
AGAGGGAGAGGGAGAGGTAGTTTACTTGCTTAGTGTGAAACGCTAAGAGAGGAGCCCTCTTACCT
ATCAATGGAAAGATCTACGTGCGTGGCGTGATAAGGAATCCTAGAAAAGATCTCATGAGACCCGC
CCACTATTACTACGAAAAAAGTACTGCCCTTTTCCGTCGCTGCTAGGAGAGTCAGCTACTTCTAT
TAGCGCCGGACCTTGAGTCGAATTGATCGTGTCATGTGCAACGTCCATCAATGATGGTTCATTAA
TGTCCATTGATTTAGACTCCTTCCCCCCTCCCAACTACGAATAAGATCGAGAGGAGCCCGAAAGC
CCCCAAACCAAGAACGGAAACGGAAGCCTTTCGATTCACTCCCCATTCTCTCTTAAATAAAGCTC
ACCCTCGAGCCCTGGGCAGGTCGGCCGGGTCTTTCCCTGTTGTTCTGTTCCCGCCACGAGAAAGA
CGCACAGAAGAGGTATGCCCAGCGCGCGGAGGATCCGTTGAGAGT
Found at i:339022 original size:36 final size:36
Alignment explanation
Indices: 338973--339042 Score: 115
Period size: 36 Copynumber: 1.9 Consensus size: 36
338963 TTGGACGGCC
*
338973 CAGCTTCCTGGGAACC-CGCTGGATTCGCGGGCGGTA
1 CAGCTTCCCGGGAACCTC-CTGGATTCGCGGGCGGTA
339009 CAGCTTCCCGGGAACCTCCTGGATTCGCGGGCGG
1 CAGCTTCCCGGGAACCTCCTGGATTCGCGGGCGG
339043 CGCAGCCTCA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
36 31 0.97
37 1 0.03
ACGTcount: A:0.13, C:0.33, G:0.36, T:0.19
Consensus pattern (36 bp):
CAGCTTCCCGGGAACCTCCTGGATTCGCGGGCGGTA
Left flanking sequence: Indices 338473 -- 338972
CAAATGGAAAAGGAACACCGAGTGGGATCAAAGAAACTAGCGGACTGATCACTAAATAGATACAA
ATAGGTGCAAATTCTGACATCACCACAGCCCACTTGGTTCTTTCGCTCCTTGCTCGCGGAGCGGC
ATAACGGAAAAAAAGTCGGAATTCTACAATTTCGTGGTCAGCTTAGCGAACGCCTCCGACTGGCG
TCCGCCCTCCCGGAGTGCGTCCAATATCGCGAAAAGCCTCTCGAGGGACTCCTCCCCCGGGGGTT
ATCGAGCGCCCGAGCACCGCGTTCCAACCAAGGCCCTTCTGGGTCGAGGCGTGACATTTCCCCGA
GAATCTCTGCTTTGACCTCAAAGAGGTCCTCGGCCCTTATGCGGGCGAACTCGCAGACCTCGTAG
GTCAGCCTCGTGCCCCGACAAGAGTCGCCTCTTTATGGTCTCGACACTATCGCCCCCTATCACCT
GATCTGGTTGATACGGATAGGGAGCGGGGCCTTGGTTGGACGGCC
Right flanking sequence: Indices 339043 -- 339542
CGCAGCCTCAGAAGGGGCGGGCTCCCCCCCGGGCTGTTCCACCGAGTCTCTAAAGAGAGACTCCC
CGCTTATGCCCGGGGAAGAGATTTCGAGCGGCGAACCAGGAAGCCGCTGCCCGACTCCCTGAGAA
GGCTGCGAATTTCCTTCTTCCCCCGGTTCGGGGGTATTTTGAACCCAGGCGGAAATACCCTAAAA
AAAGGAAGAGGAAGGATGGTCATCCCCCCCGGCCCCATAAGCATTCATCATAATACACGTAGAGG
AAAAAATGGCCCCTACGGCAATAAAGAAAGAACTTCGGATCCAAAAAAAGTAAAAAAAAACAAAA
TGAGATGCACGATTAGCTTCAATTGAAAGGGCATCTTTCTCCTTCTCCAATAAAGCCATAGATAG
ATAAAGATCAAAGCTAACAGAAAAACAGTAAGAAGCATGCAGTCAAATGGATTGAAATCAATAAT
ATTCTGCAAATTTCTACGCAGCCACATGGATGAGCATGTACTTAT
Found at i:343226 original size:21 final size:21
Alignment explanation
Indices: 343202--343249 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
343192 TTTTCTTCTT
343202 TCTTAGGTATCTTCTCGTCTG
1 TCTTAGGTATCTTCTCGTCTG
* * *
343223 TCTTAGGTATCTTTTGGTCTT
1 TCTTAGGTATCTTCTCGTCTG
343244 TCTTAG
1 TCTTAG
343250 TTTTCTCGTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.10, C:0.19, G:0.19, T:0.52
Consensus pattern (21 bp):
TCTTAGGTATCTTCTCGTCTG
Left flanking sequence: Indices 342702 -- 343201
CCCCAACAGACGTAGGTTGCGTATGAGCCTCCAGTAGGACTCTGGCACCCGAACTGTAGAAATGG
GTCCCGAACTAGAGGTGGTTTGATGGGTGCTCTTTGGGTTCTTAGATCCGGCGGCTACTTTACTC
ACTTAGCACCCTACGTAGGCGGGGGGAATCAACACCCCCCTCAACTGCCAATGGCCAAATCCTTA
CCCATACGAGAACTTGACTGAGCGAAATTAGCGACTTTTCGATCTGCTGTGGCCTACTAAAGAAA
CTCTAACCTTACAATGTTCATTATAGAATACTGCGTATCCATTTTTCCTCCCTTTCATTTCATAA
TACGATTAGCCTAATCTGCGAAGGTCGGTGAAATGCAGAAATGCAGGATGACCAAAAACGAACTC
ACGGAAGTTCGATCAACTATTCCCCCCTAAGGCTGAGGTCTTTGATGCGCTTCTTCATCAGTTCT
TTCGTCAGTTATCAATTGTCTTTCAAGGCGGTTTCTTTTCTTCTT
Right flanking sequence: Indices 343250 -- 343749
TTTTCTCGTCGTTAGTCACCTCTGTTTGTTCTTGTTCTTCTTTATCTAATAGCGTTCTTTCTTCA
GTAAGACTTTTCTGTCTCTCTGTAGTGTATTGAGTGTGCATCCTTTTATCTGTATTCTTCTTAGC
ATCAAACTGTGATATCATCTCTTTGTATCTCTCGGCAAACTCTCTTTCCTTCTTAGATAATTTCT
CATTTAGAATTTCATTTTCAGTCTGTAGTTGTATTAAAGCATTCCCTAGTGATTTTTTTTTTTGT
TTTCCTGGCTAGACAAGTCTTGGATATCAATTGGATCAGTATCCACCCAGACATCTCTGTGATAT
ACTGGTATCCTCTTGGTCCCCAGCTGAAGCCCAACCCTGACCATTGTGTCTTTCTTGATGATGTT
AAGAGTGTGCCAATCAATCCGGAAGTTGGCTTCCACCGGTACCTGTTTTGTACGAGATGGGTCCG
CGTACTGTGACTCAAACCATTCTTGATTGACCTGGTTTTTCGCTG
Found at i:348883 original size:51 final size:51
Alignment explanation
Indices: 348824--348920 Score: 151
Period size: 51 Copynumber: 1.9 Consensus size: 51
348814 ACTGAAATTA
*
348824 GCTTGAGATTCCTTCG-CTGAAATTCGATTCCTTCGCCTGAGATTCCCTGCG
1 GCTTGAGATTCCTT-GTCAGAAATTCGATTCCTTCGCCTGAGATTCCCTGCG
* *
348875 GCTTGAGATTCCTTGTCAGAAATTCGATTCCTTGGCTTGAGATTCC
1 GCTTGAGATTCCTTGTCAGAAATTCGATTCCTTCGCCTGAGATTCC
348921 TTTGCTATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
50 1 0.02
51 41 0.98
ACGTcount: A:0.18, C:0.26, G:0.22, T:0.35
Consensus pattern (51 bp):
GCTTGAGATTCCTTGTCAGAAATTCGATTCCTTCGCCTGAGATTCCCTGCG
Left flanking sequence: Indices 348324 -- 348823
AAAACATACTTAGTACATGAACTATTAATGCCTCAATCGTATATTGACCGAACTCTGAAAGCAAT
TCAAGATCATCCTTTTCGAATGGCCTTCTCCTGAGAAAATCCTTAGCACTTTCCTCATTTTCCCT
GATTAAGATTTTGATTATGTCGGAAGCTGACCTAAAAATAGATTTCTCATCGAACCATATAGTAA
TCTCCTCAATTTGCTTTTGGATCTCACTTAATTCATCTACACTTAATGGTAATCTTGTTTTTGCT
TCTTCCAAAATATCGAAGGCGGTTTCCTTATACTGAACTGAGTGACTCTTACCATGTTGTCCACT
CTTGTTAGTATTTTGCAATAAATAAGTGTAAAACTCATTCCAAAACCTTATTAGTTCCTTTTTGT
CTTCCTCTTTTCTAGGCATATCATCCAATGATCGAGTAAGCCAGTTTTTGTGATTCATGTCTTTC
CTTTTTTTTCAGTTTGAAGTAAAACATGGGATTTCACTGAAATTA
Right flanking sequence: Indices 348921 -- 349420
TTTGCTATTAATTTTTCAGTTGTCGCTACCCATTACTGGACGATCAGTATTCTTTATACCACACC
TCGCTATACTATATTAATGAAGTGGGGGAGAACCCTAGCCACGCTCAGGCTTTGAGTGGAATAAA
TATGAAGCATTGAACCGATCGAGAAATAGGGAAGGCTCGAGAGACCTGCATATAGTTGGCAGGGC
CAACCAATTACGCTTACCAATGAATGATATGGGTTTTCAAAATGCTTAGGCCTCCTTCGGTTCAT
CAAGGAAAAACCCTACCCTCCCTTTCTGTCCTTGAGGCTGGGTTAATTGAACTAATCAAAGTGTC
GCGGAAGCCCCTACTACAACCTTTGTTTGCTCAGGCTTACAGGAGCTAACGTTGAAACGTCTCCC
CGGATCGAGATTCGAATCTTCCGCTCTCCGCCAGCTCCTGCACAAATCTCTTCTGCCACCGTTGG
TTCTATCTTTAACATGCAAGCCTTTGAATTCGGTTCCTATCTACC
Found at i:364422 original size:17 final size:17
Alignment explanation
Indices: 364400--364434 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
364390 AAGAGGAACC
364400 TGAAGTGACTAGTCCTA
1 TGAAGTGACTAGTCCTA
*
364417 TGAAGTGACTCGTCCTA
1 TGAAGTGACTAGTCCTA
364434 T
1 T
364435 ATAGTTGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (17 bp):
TGAAGTGACTAGTCCTA
Left flanking sequence: Indices 363900 -- 364399
CTTGTATACAAATTTCTCACATACCAGATTCCCGAGGAAGAAAGAGAGCTTCTTGCTTTCATGCA
TAGCAGACTAACAGAAAAGTGATCTCGCTGTACCCGATCTCCCAGCACTGACATTGAGAGAAGAG
TGGAACGGGACTTGCTTTATATTATAGGGGACTTCCCTGGATACTTTTCAACTCATATCGGAGCA
AGGAAGCAAGTGGCTAAAATGGTGGAAGTTACTTCAGCGCTTGGGGGAAGAGGACTCTCTACCAC
TGCTGATTGGATCCGGGGATGCTCAAACGGATAACAACAAAAAGAAGAGTGAGGGTTCTATGGTA
TGGATGGCTTTGGTGAGCATAGCAGGAAAGACCGACGAGAAATTGATGTCTGTAGAAGAAGGAAT
TGAAAGCTAGGATAGACCTTCAAATCAGCGAGCTAGGAAGGCCAAGGAAAGTATCCAGAACCCAG
TTGTGAAGGAAAGGCAGGAATTAGTAAGAAATCTCAAGAGGAACC
Right flanking sequence: Indices 364435 -- 364934
ATAGTTGGAAGTGGGCATGACGAACCACAAAACATGAGGAAAGATCCTTAGGGGCAGATGCTTTG
CTACAGTCCCATGCATGTGTGGGTTTCAAGGAAATGAAGGAAAATTTAAACGTATCCAGGGCGGG
AATAAAAAGTGGCTCTCTAGAGACGGAAAGGAGACCCTCATAACATAAAAGAAGTGGCCCAGGCG
ATTCTCTCGTATGCAATGAGTTGGTTAGTTTCATTAGCAGGTTATGGGGGCGGGGTAATAATTAT
AAGCTAAGGAAAAGAAAATGCATTGGATGGGCTGGAATAGAATTGCATCCAAAAGAAGAATGGCG
GGCTAGGTTTCCTAGACCTTAAAGCTTTTTTCCATGCAATGCTAGCAAAGCAAGGTTGGAGGCTT
ACAAAGGCTCCGGAGTCATTATGTGCGCGTGTGCTGAAGGCAAAATCTTTCCCAGCTTGTTTTTT
TCTTTTTTGGAAGCGAAGAAGTTGGGTTGGGCTCGTGCCCTTCGT
Found at i:405048 original size:21 final size:21
Alignment explanation
Indices: 405022--405084 Score: 126
Period size: 21 Copynumber: 3.0 Consensus size: 21
405012 AGAAAGGGTC
405022 CATAGGCTTCTCTCTCAAGAA
1 CATAGGCTTCTCTCTCAAGAA
405043 CATAGGCTTCTCTCTCAAGAA
1 CATAGGCTTCTCTCTCAAGAA
405064 CATAGGCTTCTCTCTCAAGAA
1 CATAGGCTTCTCTCTCAAGAA
405085 AGCGGGTCTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (21 bp):
CATAGGCTTCTCTCTCAAGAA
Left flanking sequence: Indices 404522 -- 405021
ATTTTCTCGTTCATGATCTCTAATCCTTTGAGTAGATTGGGCAGGGGTAAGACTATGCACATAGC
TTCGGTTCCGTCTTGTTTGCCAAGGAGATATGGTTGCTTTTCCTTCTTCAGTAGGCTTTCCCGCA
GGTTCGGTTACAGATAGGATACGCGGGTCAAAGGGAAGGCTTGAGTTCAGAGACGAAGTTGGCTT
TGAAGGGACAAACTTTCAGACAGTTCCTTACTTTCTATTCTCTAATCTCTCGCTTCCGACTCCTA
TATTGAAACTCTAAGGTACGAAACTATATATTTAGTCTCTGTCCCGGACTACACAAATTCCATAA
ACCCCGTGTTTTTTGATGCAAATTGTGTCAAGAGAGTAGTTTCCGCAAGATATTCCATAGGTGGA
TTTAAGCGGAAGATCTGCGTGATCTGATCTTTCTTGAGGACTAGTAACTGGTCCTGTAGCTAGAA
GTCCCCATGAGCTCCCTCAATTCCTATTGAGATTGAGAAAGGGTC
Right flanking sequence: Indices 405085 -- 405584
AGCGGGTCTTAGTGGGTAGTATAGTGCCGTTCAAGCGTACTCCCTGCGGGTAGGGTCTAATACCC
CTTATTGGCATGAGGAACTGGGCTCCCAATTCTTCATCCTCCTTTTTGAGCTGTAAGACCAGGCA
AGGGATCCCGCTTAGTGGGTTCGAGTTCAGTAACAGAACCTCCTAGCCTGCCCTTTTTTAATAGA
TATCTAGGGTTGTCGGCACCCTTCCTCTCCCTCTCCCTACCTTTGGTCGAGCTAGTAAACTTCCT
CAACTGGAGAGGGAAGAATAAGCTGCAAAGCTCTGCTGGTGAATAGCAGATGATGCTCGATTAGG
TATGCCAATCCGGCAGCTTGAAGGCGCGTGTCTGATGTTTCGGTAGGATGTTGCTATGTCCGCTT
TCAGCCCGTAAATCGAAGGCTGTTCTTCCCATAAGGGGGATGACGTTATAGGGTTCAAATTAAAG
AATCTTATAGGTGGAACTAGACATCGAATAAATATTCGTGCATCT
Found at i:410382 original size:15 final size:16
Alignment explanation
Indices: 410340--410382 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
410330 TCCTACCTTA
410340 ACAGTCGATCATGCGCTC
1 ACAGTCGATCATGCG--C
*
410358 ACACTCGATCATGCG-
1 ACAGTCGATCATGCGC
410373 ACAGTCGATC
1 ACAGTCGATC
410383 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 409840 -- 410339
GCCACATAAGAAGCTTTTATTGACCTTTTTTGCCTTTCCTCCGTCTTCGTCACCTGATGACTTTC
CTGCTTTACTTTGTCGGCTTTGGTAGGGTGGTAGCATGTCCTTTAGCAAGGCTAGGCACCTTCCT
TAAAGGAGGCAGCATCCGATCTTTAGCATCCTAGCCAGGGAAATCCCCAAATCGCGAGTCCGGGG
CATATACTTTTTCTTTATCCCCCAGAGAATCCGACAAGAAAGAAGATAAAATAAAGTACATATAT
ATGGGCAAGATCCATATTCCATTTCTAACAGTTCCTTACTTTCTATTCTCTAATCTCGTATGGCA
GCTTTCAGTCTCATCTTCAGTTTCGGGACATTGTTCCTATGCCTCTTTGAAGTGAAGCCCTTATA
TCGAATGATTCAAGACATTTGATTTTATAATAGAAATGAGAGGACAGCCGAATTGACAGAAAATA
GTCTGAACTTGTTGATCAACTCTCTTTGTTGAAGGTCCTACCTTA
Right flanking sequence: Indices 410383 -- 410882
TGTCCATCCGACTACATTCACTGGGGGGTGAGGTTGTCCAATTTCAATTATGTGCCGCTCGTTGA
CATCTAGTTTCCATTGCCGGTGTGAGAGATCTTCCTTCGGTTCTAGTCAAGTATGGCAGCTTGAG
GTCTCCTATTTCACTTTCACCAGCCATTGGGAACTCAAATAAACTTTCATTTAACGGCAGGCGAG
AAAGGTTCTGAAAGAAAGAAAGGTAGAAGGGGGGTTTGCTCCCGTTTCGGGGTTCTCTTGTGGAC
TGGCTGTTGACTGGCCTTTGCCTGGGGAGAAAACCGGTGCTTTTAGCTTAAACGGATTTTAACTG
GATCGGAGCCTTTCGGAAATCCTCCCTTTTTGGCTTCACTTGAGCGGTTGACGCAATCCAAGAGG
AAGAGGAAGCTAAACCCGTGCTGACGAATAACCAAACCCCTTAATTCGTCGAGTAAAGTAAATAG
GGAAGGTATAGGTTTGCTATGAATGACCCAGTATCGAATACTGGT
Found at i:413431 original size:31 final size:31
Alignment explanation
Indices: 413393--413464 Score: 144
Period size: 31 Copynumber: 2.3 Consensus size: 31
413383 CTTTGGCTGC
413393 CTCCTCTTCCTTGCCAGTTGAGCTACTTCCA
1 CTCCTCTTCCTTGCCAGTTGAGCTACTTCCA
413424 CTCCTCTTCCTTGCCAGTTGAGCTACTTCCA
1 CTCCTCTTCCTTGCCAGTTGAGCTACTTCCA
413455 CTCCTCTTCC
1 CTCCTCTTCC
413465 AATTTGAGTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.11, C:0.42, G:0.11, T:0.36
Consensus pattern (31 bp):
CTCCTCTTCCTTGCCAGTTGAGCTACTTCCA
Left flanking sequence: Indices 412893 -- 413392
AAAAGACACTCCGGCCTAACATAACAGCACTTTCCTTACCCGTTGTGCTCTGTCTGAGATAAGGA
GCAAAAGGCTAGACGGAAGACCTCTAATCTACCAATCAATCTAGCTAGCATCCTATGATTTTTGT
TCCAGAGGCCAATAACCCGAAAGTAAGTATTTACATCTCCTGCCAGGTGTAAGATAGAGGTTTAA
AGCTCTCTTGGCAGCCTCTACGCTACGCCCGGTTCACTCTTTTCATAAGGGCTTTACCCGCTCAA
CCATCAGAAGGGGGCTTTTCCCATCATGCCATGGAGTGAGTAACTAGCTCGGCTAACCACTAAGT
CGCTCATGCACAAATTCTTACAAAAAGGGGAGCCCCGCGAAGGGTGGAGATGAATCTATATCTGT
CAATCACAAAGCCAAGACATCCCCCAAACGTAGATTGTAACAACCAACGAATTTCTTTTCTATTC
CTGTCTGGTCTAACCAATTCTCGAGGTTTAATGGCCTTTGGCTGC
Right flanking sequence: Indices 413465 -- 413964
AATTTGAGTTTCCTCCTCTGTTTAGTTTGAAACTGAAAGGCATAGAAGCTCTCTAGAGAGCTACC
GTATCCATGAGGGGCAAGCCAATGCTTTAGAGCTCTTTAGCTGCCTCTGCACGAATTCTTCTTCC
GGTTGGAAAACTATACCTCTTCTTTCGTCTTGCGATTGGATGAACCAGCAAGTGTTTTTCATGCA
TTGACCTCGGTATCGTAAACACATATCTACTGCTTGCTGCCCTTGAAAGTCCCAAAACAGCCTAT
TTTAGACCCTAATTTAACGTTGCGCCGAGAGTTATCGTTAAATCCAATGGCAAGAGCCCTAACCT
CGGCTGCTGCCCCGGGCTGTCATATGTTGGGATCGCCTGCCCGAAGGGCCTAGATCTGAGTCTCC
TATTCTGTTTCTGTTTTAGAGAGATAAACCCCCTTTACTTTACTAAGTCTGGTGCCTCTGTTCCT
TGGGCCCTATCATCAATAGTAAGCTAATCCAATTATGCATGTGTT
Found at i:455083 original size:20 final size:20
Alignment explanation
Indices: 455058--455097 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
455048 TATCTTCATT
455058 CCTTCCCATAGGCATTAGCC
1 CCTTCCCATAGGCATTAGCC
455078 CCTTCCCATAGGCATTAGCC
1 CCTTCCCATAGGCATTAGCC
455098 TCAGAATCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.40, G:0.15, T:0.25
Consensus pattern (20 bp):
CCTTCCCATAGGCATTAGCC
Left flanking sequence: Indices 454558 -- 455057
TGGAATCTTTGAATCATGCAGCTTTGCTCAAGCACATATGGCACCTCCGCTCAGATGGGGATCAT
GGTCTCCCCTCCGGATCTTTGTTGTCCTCCTCAACCAACATATTGATATACTAAGGACTGGCGAA
TTCACACTTCTTCAAGTTCAGCCCCGTGCTTCAAGGCAGGCATCCGAAACAGATCTGGGACTTTG
CACATGCTCTTACCATGTCCCACTGAAAACCGGGATGTTGAGGATACCAATACAGAGTGAGAACA
GTATGGTAACCTACATAACTCATCAGCCTCATGGATGGACACGATCCCTTACCCTGTGCTATAAG
TCGCGCCTTAGCCTATCTTGAGAAGGAAGAAATAGTTAGGTTGGACGGCCGAGGTACCTTACTTC
CCAACTGAAGGAGATGTCTAAATGTCATTAGATACGGAATTGGAAGATAGAAAGGATGGTTCGGT
CCCCCCATAAAAATCGCCTTAGCATTTAGCATCTCTATCTTCATT
Right flanking sequence: Indices 455098 -- 455597
TCAGAATCTCCATCTGATCTGAATCCCATTCACATCGTGTGAAGCCAAATCTGAAGTTTGATTCA
GAGCTAGTTTCAAACTATAGGGTAGGGGCTCTTCCCGCGCTATTGCGTACGTACTTAGCTTAGCT
AGTTTAGGGCTTCTATCGCGCTATTATAGCTAATTTTAGGCTAAAAACACGGGGTTTTAAAGCTA
GAGACGTTCAATTCATGCTTTTTTATGATAGCTATTTAATCTTGTTAGTTAATCCATGCCCCCCG
TCACAAAGTTGCTAATGGCTTTCGGTACGCCGTGCGCACGAAAGGATCTCAACTGGTGTAGGGTT
CTCGTCCCACAGACCCCATTTCGGTGCCATTGCAGTGGGCTCACTGGGCCCTCCAGTTTTTCCGA
TCGCTCTTCTTGCGCGCGAAGTACAGCAAGCTATAGCCACTTTGCTTCCAAGCGCGGATCGCTAA
TCAAGTTGAGAGATCGGTCCTGACGTCGAACAGGTTGCCTCCCTA
Found at i:461865 original size:18 final size:18
Alignment explanation
Indices: 461825--461867 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
461815 ACCGCCCTGC
461825 CATAGTCGCGAGTCTGTTT
1 CATAGTCGCGAG-CTGTTT
461844 -ATAGTCGCGA-CTGTTGT
1 CATAGTCGCGAGCTGTT-T
461861 CATAGTC
1 CATAGTC
461868 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 461325 -- 461824
GAAAGCTTCTTTTTCAAGTGTCAGTAGCGGAACGTTCTGTCAATCGGGGAAGGTTTTTGGTGACA
ACACCTGGAGATATCAGAAGTGAGAATGCTGACATGAGTAACGATAAATCCTGTGAAAAACACGA
TCGCCTGCCAGTGGAAGGCTTTCTGCGTTCAGTCAATCTACGCAGAGTGAATCGGTCCCTAAGGA
ACCCCCGAAAGGGCTGCCGTCCGATGGGTACACGAAAGTGACGAAGTTGCTTTGACTACAGAACC
ATGCCTATCTGTTGGAGCGAATTGGATGATCGGGCCGAGGGCTGCCCCCTCTTCCCCTCACTCTC
CTTTCCCTAATATGAACCTTGAGTCATCAAAGCCTTTCTGACTCGGCCTGGCCCGGTCGCCCTAC
GCGACTGGCGCTTCAAAAGGCGAAACTCTCGTCGTAGTTTGGCGACCTAAGGGGCCCTTAGTCTT
TTGATTAGAGTAGGGGTCGCGAGAGAGCAGAGCGTACCGCCCTGC
Right flanking sequence: Indices 461868 -- 462367
AACAAGGTTGAAACTTCCAGGAAAAAACTTCGAATTGGGAGGGCGATCCTCCCGGTGAACTGACC
GTACCCCAAACCGACACAGGTGAACAAGTAGAGTATACTAGGGCGCTTGAGAGAACCATGTCGAA
GGAACTCGGCAAAATGACCCCGTAACTTCGGGAGAAGGGGTGCTCTCCTATCTTTTGATTAGGAA
AGCGGCACATACCAGGGGGTAGCGACTGTTTATTAAAAACACAGGACTCTGCTAAGTGGTAACAC
GATGTATAGAGTCTGACACCTGCCCGGTGCTGGAAGGTCGGAAGGAGAAGTGTTATAAGCTTTGA
ATGGAAGCCCCGGTAAACGGCGGCAGTAACTCTAACTGTCCTAAGGTAGCGAAATTCCTTGTCGC
ATAAGTAGCGACCTGCACGAATGGTGTAACGACTGCCCCGCTGTCTCCGACATGGACCCGGTGAA
ATTGAATTCTCCGTGAAGATGCGGAGTACCAACGGCTAGACGGTA
Found at i:463274 original size:21 final size:21
Alignment explanation
Indices: 463248--463289 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
463238 CTTCCTCATT
463248 CGACTACCACAAGAAAGAGAA
1 CGACTACCACAAGAAAGAGAA
463269 CGACTACCACAAGAAAGAGAA
1 CGACTACCACAAGAAAGAGAA
463290 GTGGAAGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.52, C:0.24, G:0.19, T:0.05
Consensus pattern (21 bp):
CGACTACCACAAGAAAGAGAA
Left flanking sequence: Indices 462748 -- 463247
CAGGCTGATGACTCCCAAGAGCTCTTATCGACGGAGTCGTTTGGCACCTCGATGTCGACTCATCA
CATCCTGGGGTTGAAGAAGGTCCCAAGGGTTCGGCTGTTCGCCCATTAAAGCGGTACGTGAGCTG
GGTTCAGAACGTCGTGAGACAGTTCGGTTCCTATCTACCGTTGGTGTTAAAGGGAGAACTGCGAG
GAGCCAACCCTAGTACGAGAGGACTGGGTTGGGCCAACCTATGGTGTACCGGTTGTTATGCCAAT
AGCAGCGCCGGGCAGCTAAGTTGGTATGGAAGAACTGCAGCTCTGCGGGAAATCCTTCTCTATAC
AAGTTCTCGGAAGAGGTTTTAGAACAGAACTTCGATAGGCGAGAGGTGTAAGCACCGCGAGGTGT
GAAGCGATCTCGTACTAAACAACTTTACATAACTGAAAGAAAGTCAAACTCTTACTGCAATTGCG
GTCAGTCTCGATAACTCTTTAGTTGCCGCAACATACTTCCTCATT
Right flanking sequence: Indices 463290 -- 463789
GTGGAAGAAGCGGGGTAGAGGAATTGGTCGACTCATCAGGCTCATGCCCTGAAGACTGCAGGTTC
GAATCCTGTCCCCGCCTAATAAAATAACTCAAATTACTTGAGATGCATTTGTAGGTATTGGTCGG
TTACAGCTGGTGTATTTCTACACGCCATAGATAGCATGGATTGGGAAAGAGTACGGCTGATTTAT
CACCCTTCAGTTGAAGTAGGTTTTATTTGTGACGAAAGTTGTCACAAATAAAACCTATCGTTACG
AACAAATGGCATAGAAACCCTTTACCCACACCTAAGCTAAGGAAGTCAAAGGGGAAAGAGCCTAG
AGGACGCTTTGTTACCAGTTGAAAGTAGACACTTCCGAGAATGGTACCCATTGATCTCACAAAGC
AAACCCCCATTAGAAGACCCCAACCTACCCCCTAGACAACACCTTGCTGCAACACATTGACTAGG
CAGAGTTCAGAGACTTCACAGCAGCCTCGGGGGGTACTATTATTA
Found at i:490098 original size:21 final size:20
Alignment explanation
Indices: 490068--490107 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
490058 CAAGCCGACC
490068 TAACCAACCTACGATATATAG
1 TAACCAACCTACGA-ATATAG
*
490089 TAACCGACCTACGAATATA
1 TAACCAACCTACGAATATA
490108 ACTTTGGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.42, C:0.25, G:0.10, T:0.23
Consensus pattern (20 bp):
TAACCAACCTACGAATATAG
Left flanking sequence: Indices 489568 -- 490067
AGACTCACCCTTGCCATGGGCGATAGCGGCTATGTCTAAGCAGCTGCTTTCCCATTCATTCCATA
GGTAAGTCTTATTTTTTGCTGTAAACGAAGAAGGAATGATTCAATATCATATCATAAAAGACCTA
GATGCTCTAGCTCCAAGAAAAGACTAAGAAAACTCCTTAAAAAGAGAAGAGTCAATCCTCAGCGT
CGGATTCTTCTTATGCTGATTGACCTAGCCGTGCGTTTCCAACTGTTATGACTGGGAGCTAGGCG
CTATTTAGCCCTCCATTTCTAAAGCAAGCAGGGGAGCTAGACTCGCTCGACTGAAAGGAACGAAG
TAGCTTGATTGATGAAAGGAACGAAGTAGCTTGACCGCGGGCGCAGGGAAAGGAGAGGGAGTCAC
CGAAGAGAAAAAATAAAGGTTCAAGACAATGAAAAATATAAACGCAGGAAGGAACAAAAGTCAAG
TATGTAATCTAGCAGTCATGAGAGCAGGTTAGAGGCAAGCCGACC
Right flanking sequence: Indices 490108 -- 490607
ACTTTGGGTTAGGTTGAAAAGTCTAGTTGGAAAAACAGATCAATCGCATCCCAAAGGGTCAAGGG
CTGAGTTGCACATTCTATTTTGGCCTCTTTTCTTAAGTAGAATGAAATGTTCGGCCTAATCTATG
ATATTGTGATTATGTTACTGTTATTTGGTCTTTTTCAAGCTTCCCAGAGTTGTCCTTCAGCAAGC
AATTATAGGGGTTGAAGGGGTACCCTTCTAGGTCGTCGCTTTAGTGGTCTAATTTCGGTCTTTTT
ACGTTATGGAGTTTACTCACTTCTTTTTTATATTATTAGAGTTGAGTCTGGTATCGATAGATTGG
CAACCTCTAGGGTACAAGCCCCTCCAGGTACACATATATGGGCTCTAATCCCAGGTTAAACTATC
CAGTCGAACTACGTAATCAAATAATCCATGGAAGACAGGGGTTGATCGAGTTTTGTACCCTTTAT
CGTTTTTGGGTATAGGCTGATAGTTAGGCGGTGACTCACGTATCC
Done.