Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_071384
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: 395542
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Found at i:15336 original size:24 final size:24
Alignment explanation
Indices: 15305--15352 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
15295 ATTATACTTA
15305 TTAGATAGAAATGTTCTTTTCTTC
1 TTAGATAGAAATGTTCTTTTCTTC
15329 TTAGATAGAAATGTTCTTTTCTTC
1 TTAGATAGAAATGTTCTTTTCTTC
15353 AATAGCGCAC
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:0.25, C:0.12, G:0.12, T:0.50
Consensus pattern (24 bp):
TTAGATAGAAATGTTCTTTTCTTC
Left flanking sequence: Indices 14805 -- 15304
GACCTTGCTTCTCTTATGATTTTTGCTACTTTCTAACGTTTAGTGATTGATCTCGTTTAGAGTCT
CAGTCTAGTCACTCAACTAATCCACTCGTGGAGTGCTAGTGGTAACTAGTAGTGTGGTAGTTGAG
ACTCCGACCCTATCTCTTAAAACTACGGCATCCCACTTTGAATGCAAAGCAACATTTTCGAGACG
GTGGGGTAGACTGAAGACCAAGTCAATCTAGATTAACAAAAGAAAGAAATGAAAAATAAATGGCC
GCGCAATTAGCGGTAGGCTTGATTGATCGTACTACATAAAAGACTGCTTGCTCGATTGCACTTTC
TATATGTAGATGAAAGTGACGACTTGGTCGTTTATCGTAATTATACGATTGAAGCTTGACATTTT
TGAATCATCGCAAAAAGAAGTAATCCAACCCGACTTGAATGGGCTATTTGAATCTATATGTGTGC
GGCCAAGCAAGCTAGCCAATGCGAAGCGTTCTATTATTATACTTA
Right flanking sequence: Indices 15353 -- 15852
AATAGCGCACCAAATGCGCGAAAAGGCGGAGGGTAGGGTGAAAGAGAAGTCAAGGTCTCAGCATC
AGCTAGAATAGATGGTGACGGATATCAAATGGATAGTCAAGATGATTTAACACCAGATGACTTGC
AGCAAGGGACATATCCCTCTCGATTATAACAGTGGGCCTCGCCCGTCTACTACTCGACCTTCAGT
AACTACAGTTAGCAGGGACTGGGGATCCATCCAATCAAAATCCAATAGCTTACTGACTTGCTTGG
GTCATCTAAGAGGTAAGGCTCGCCCTCTCTCCCCTAACTCTCATTCTAAAGAATTCTAGAGCTAA
AGGCATCCAGGATAAAAAAAAAGTCCCCCTATATTTCTTTTTTTTTTAATCTATTTCTAGTCTTA
AACTCCTTCAGTTGCAGAATAAATAGTTGCCTCTGGAGTTGCTAGCAAGCAAGAAGGAAGAATTC
TATCAAATGGCAAGGAGAAAGGAGTATTTTAAGCATTTCAAGGAG
Found at i:38394 original size:23 final size:24
Alignment explanation
Indices: 38349--38395 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
38339 ATGAGTTGCT
*
38349 CCTTTTCCTTTAGTAAGCTGGAAA
1 CCTTTTCCTTTAGTAAGCAGGAAA
* *
38373 CCTTTTCTTTTGGTAA-CAGGAAA
1 CCTTTTCCTTTAGTAAGCAGGAAA
38396 TGCAGAAATG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (24 bp):
CCTTTTCCTTTAGTAAGCAGGAAA
Left flanking sequence: Indices 37849 -- 38348
TTATGGTTTCACCTTCTCTTTTTTTGTAGAAGGGGGTCAAACTTTGCTGAGGAAAGATCTCAAGA
CTGTCCATATTTCCTTGGTCTAAAGATAGGAAGGAAACCAATCATAGGTCTACTCTTTTCACTGA
TAGCAAGAAGTAAAGCACCTGAGACAGACAAAAAGCCTTCTAAGCTTCCACTTGGCCAAGAGCCG
CTTAGAAGGCTTTCTAAGGTTGCCATGCCGTCTTCATAAACGAAGATGTTGTCAGAAATGGAACC
AGCTTCGTCTTGACTATGGCACAAAGAGTAAGCTCTGCCAGGGGATTTGTCCATGGCGGAGGAAC
TAGGGTTTGGATGTTTAAAAGGCACGAGTCAAAGTTTGGAATAATAGCCTTACTAATAGCGATAG
AATGCTGGTTAGAAGGAGGGTTTGCTGGATACCCAATTTTGAAGGTTCACCAGGACCCTGGCAGT
TGTCTAGCTCCGATTGAAGGGAAGCAATCTTGGTGATGAGTTGCT
Right flanking sequence: Indices 38396 -- 38895
TGCAGAAATGAGTTTCATCAAGGATGGAGACTCATTGGGCCGTTTTCTCTGAAAGAGAAGAAGAT
ATGGCTTGCTGAGAACGAGCCACAGTCATAAGATAAGGTAACCTTTCCCGTATCCGGTCGGTCTA
ACGAAGAACGAGCAAGTGAAGATAACAACGTTTGAGCAACAGCGTCGATCAGAGCTTGAAGACGA
GCAAGGAAGGCGTCATCGACCAGCGCGTCCATGCCTTGACTCAAAACTTCTACAAATTGATTGTG
CACGTCCGGAACTTGCAGACACTGGGGAGACATGACTTCGAGTTGCGTCGTTAGAAAAGAAAAAG
AGTCCTCCGCTACTGTAAATGACCCTGACTCCTGAAAAGAAGGAGAGGAATGAGGAGAAAGCAAA
AAAATTAGCATAAAAAAAAAGAAAGGGTACCAGGCTGCTTGGTCCTGGAGCTCCAAAGGCCTGTG
GCAGGCAGGTCAGAGGATATCTCAGTATCTGAGACGATGCCTGAA
Found at i:60759 original size:24 final size:24
Alignment explanation
Indices: 60731--60778 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
60721 TCGATTTTAG
60731 TTCTCAATAGAGGGGAATTAGTAA
1 TTCTCAATAGAGGGGAATTAGTAA
* *
60755 TTCTCTATTGAGGGGAATTAGTAA
1 TTCTCAATAGAGGGGAATTAGTAA
60779 ATGCCATAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.33, C:0.08, G:0.25, T:0.33
Consensus pattern (24 bp):
TTCTCAATAGAGGGGAATTAGTAA
Left flanking sequence: Indices 60231 -- 60730
ACTACTGGAACTCAAAGCGGGGTAAACATTGCATGAGGGACCACAAGACAAAATAAATGGAAAGC
GTACCTTACGTTGGATGGAGAGACGGACAAAGAGAAAAAGAAGAACCAATGTTTCCAGTCGAAGA
GGCGGGCGCATATAGCTTATTCTAAGTATATTATGAAACAGGTTACCCGGACCTATAAATAGCCC
ACGGACGTTTTCAACCCAATCAATCTTTTTGAAGCCTTCACTTCACCGTTGAGCGCTTAGTCCCG
CCAGAAGGAAATTATAAACTTCTTACCAACGCGGATTAGTTCTTAAGACTGCTCCGCTCACTAGG
ATACCGTCTTACGCGGTACCCGGTCTCAGACCGGACAGAACAAAACTACTCTCTAGCTCCTTCTA
TAGCTAATCGAGGAGAAGTTCTCTAGACATCCCTGGTTGTTACCGTTTTAGGAAGTCAACTCTTG
CCACTCCTACCTCTGGTTATCAGGCCAAAATAACCTCGATTTTAG
Right flanking sequence: Indices 60779 -- 61278
ATGCCATAAGATCCCGTGCTATCGGAGATCTAGGCACAAGCTCCCATCCATACTAAGTCTTAGCC
TCTTCTCCATACAAAAAAAAGGGTGTTAAGCCAAGCCCGTGGTCGACTTCAACGAAATTCGTTAC
ATTGCCCCTACTGAATATGACTATTCGGTGAGTGCTGTGATCAGGGATGTCCAGTGGAACTTTAA
TGATATTGTTACTTCAATACCCGCTGCTCTCCAGGAGAGAATTCGGGGAGTACATCTTAAACTCT
ATAGCCGGGGTCATGATACTCTTCGATGGTTTGGTTCTTCCTCTGGGATAAAAAAGAGATAGAGG
CGGAGCACTTAGAAGAGCTCAAGGAGTGCTTAGGCGTCTGTCGCACGACTTGCCGCTGGTCAAAG
AATCTTTCACTTCCCTTCGGGGACCGGCCATAACCTTGCTTTCAGTCCCCTTTAAGCAAGTCCTC
ATCGTCGTCTTAGTCACTTTCAGACGAACTAGTCTTCTATCTTAA
Found at i:88826 original size:8 final size:8
Alignment explanation
Indices: 88805--88831 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
88795 AATATATATA
88805 TATATTAT
1 TATATTAT
88813 TATATTAT
1 TATATTAT
88821 TATATTAT
1 TATATTAT
88829 TAT
1 TAT
88832 CCTAGTAGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (8 bp):
TATATTAT
Left flanking sequence: Indices 88305 -- 88804
CTGGAAGTTTGGCAAATTTGATCCGTCAATCCCCTTCAGGGAAGCTGTCTATTCCTGATCTTTTA
TATATTCTAAAACTCTTTCAACATCTTCTTTCTGTCAGTCAATGTTGAGATCTTGCTTATTCTGT
CTTCTCCTTCTTTTGTGCAGGAGGAGCATTCAGGAAAGCTGATTGGGATAGGCCATAGGGTTGGT
AGGCTCTATGGGGTGAAGGATCTTACTCCTCGCTTCCGGCTTGGTACTTCGAATTTCGCGGATCT
GGTCATCATAGGAGAAGGCATCGAAGGTGGTGTGAAGAGGCGTAGCCTTTTCCCCCGGTAGGTAG
GATCTTTCCATTTTCAACTGAGAATTCCGCCGAAGACAGCTAGCCCTCGAATCCAGCTTATCTAT
GAAATATTCCCAGCCATCTAAAGTGCTAGTTTTCATTAGATGAGTGTTGGAGGTGAGTAAGCAAT
CCGGTTCAAAGCCAGTAGCACGCTTGTTAACACGTAATATATATA
Right flanking sequence: Indices 88832 -- 89331
CCTAGTAGGACGGTCTCAATACCGAGAGCCAAGCTGAAGGTTGAAAGTCTTGAATCCGCTCTTAC
AGTTATCGAATCGGATGTGCAATAACAGAAGCAGCCATAATCGGATGTTTCACACTAGGAGGAAA
GTTTGACAACATCGGCTGGCATTCTTTCTTTTAACCAATAACCTTTCCTTCTTTCTTACGGGATG
TCTTATAATAAAATAGTAGTAAGCCAGTCAAGCAAGCCAGTTCGGTAGCTGTTCAATCAGCTCGG
GCAAGCAATGGACCTGCCTTCAGAAAGGGTCAAAGCATGACTATTAGCTATTCGCCAAGCTGCTT
CCATTTCGGGAATGAGAGCAAGCATTTGATTTCCTTCAGTAAAGATTCTTTCTTTGAATGCTGTC
CCTTTCTTCCGAATCCCCAGCTTTGGAAAAGGCTAAGGTTGAAAGCTTGGCTATTGCAATCAAAG
GCTGGTCGAGAATCCAACTGATGGCAATCATTAAGTATTCAACCT
Found at i:96760 original size:24 final size:24
Alignment explanation
Indices: 96741--96819 Score: 97
Period size: 24 Copynumber: 3.3 Consensus size: 24
96731 AGACAAAGCC
96741 TAAGAAGAAAGACAATACAAAGGA
1 TAAGAAGAAAGACAATACAAAGGA
* * *
96765 TAAGAAGAAGGGCAATACCAAGGA
1 TAAGAAGAAAGACAATACAAAGGA
* *
96789 TAAGAAGAAGGATAATA-ACAAGGA
1 TAAGAAGAAAGACAATACA-AAGGA
96813 TAAGAAG
1 TAAGAAG
96820 GACCACGACA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.57, C:0.08, G:0.25, T:0.10
Consensus pattern (24 bp):
TAAGAAGAAAGACAATACAAAGGA
Left flanking sequence: Indices 96241 -- 96740
CTCAGCTCTGGGAACCGGAAGGAACTGAGCGCCCCGGCGGAGAAATTCAATTTAGAATAAGAATC
AAAATGGAAGCCTAAGCCTTCACATTCGAAACTTCAAAATTCTCAGTTGGAGAATCGTTTTTACA
GGGTGGGCATGGTGTTGGCAGAATGGAAATATAAAACTACTAAATGACTTAGTCTTGCCTTCTAA
TAGATGTTCTGTCTTTCATTATTAACATCCAATCCCATGCTAATAAGAAAAACGAGCGATTGCTA
GTCAGCTTTCATTTTTTGAAATAGTGTTTGTTTGGTAGGGGCTGAGGCTCAGAAGGCTTTCCAAC
TTGCTTCAATTAGGGAATAGCGCAGATGGATCAATCACGCGGTTCTGGAGCGTCCTCCAACTTGC
TTTCCGCTCCCCTTCACTTTCAACGCTGGACGGGAAGGCCTGGCATTGTGGAGCTGTGAAGATGA
TAATACCTTTATTATCAATATACCAACTCTATACAAGACAAAGCC
Right flanking sequence: Indices 96820 -- 97319
GACCACGACAATAGCTCTCCCGATAGACCCAAACCAGATGAATAAAAGAAAAGAATAAAAGAAAA
GAAGGCAACCAGGAGAAGGAGCTAAGAAAGATAATGCAGGAGAAAGATAATGAGAAGATGAATAA
AAGAAAAGAAAGATAATGAGAAGGGCCCTCCCCTTATCTCCCAACTCTCCGGTTCAACCGTTAGA
CCGGTCCATTTTAACACCATAATCTCCTCGTTGACACGATCACCTAAGATAACCAGACACACCAA
ATCCTAAGCACTAATCATACGATTTCTCATTACAGATGAATTATACTTTCAGGTCTTTCCCATGG
AAGAAGCCTATATATATTCCAATATAGCTTTCCTTGCCAAGGTCTAAGATCCCTCCTTCTAGATT
ATTGTTTAGCTGTCATTATTCTCAAAGTATTCTTTCATTTTTTTGGCTATCTGGTCTTTCGGCAT
CGTGGATATGGATTCATCCACATGTGGTTTTTCTTCTTTCGAAAA
Found at i:96799 original size:12 final size:12
Alignment explanation
Indices: 96760--96819 Score: 57
Period size: 12 Copynumber: 5.0 Consensus size: 12
96750 AGACAATACA
96760 AAGGATAAGAAG
1 AAGGATAAGAAG
** * **
96772 AAGGGCAATACC
1 AAGGATAAGAAG
96784 AAGGATAAGAAG
1 AAGGATAAGAAG
* *
96796 AAGGATAATAAC
1 AAGGATAAGAAG
96808 AAGGATAAGAAG
1 AAGGATAAGAAG
96820 GACCACGACA
Statistics
Matches: 34, Mismatches: 14, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.55, C:0.07, G:0.28, T:0.10
Consensus pattern (12 bp):
AAGGATAAGAAG
Left flanking sequence: Indices 96260 -- 96759
AGGAACTGAGCGCCCCGGCGGAGAAATTCAATTTAGAATAAGAATCAAAATGGAAGCCTAAGCCT
TCACATTCGAAACTTCAAAATTCTCAGTTGGAGAATCGTTTTTACAGGGTGGGCATGGTGTTGGC
AGAATGGAAATATAAAACTACTAAATGACTTAGTCTTGCCTTCTAATAGATGTTCTGTCTTTCAT
TATTAACATCCAATCCCATGCTAATAAGAAAAACGAGCGATTGCTAGTCAGCTTTCATTTTTTGA
AATAGTGTTTGTTTGGTAGGGGCTGAGGCTCAGAAGGCTTTCCAACTTGCTTCAATTAGGGAATA
GCGCAGATGGATCAATCACGCGGTTCTGGAGCGTCCTCCAACTTGCTTTCCGCTCCCCTTCACTT
TCAACGCTGGACGGGAAGGCCTGGCATTGTGGAGCTGTGAAGATGATAATACCTTTATTATCAAT
ATACCAACTCTATACAAGACAAAGCCTAAGAAGAAAGACAATACA
Right flanking sequence: Indices 96820 -- 97319
GACCACGACAATAGCTCTCCCGATAGACCCAAACCAGATGAATAAAAGAAAAGAATAAAAGAAAA
GAAGGCAACCAGGAGAAGGAGCTAAGAAAGATAATGCAGGAGAAAGATAATGAGAAGATGAATAA
AAGAAAAGAAAGATAATGAGAAGGGCCCTCCCCTTATCTCCCAACTCTCCGGTTCAACCGTTAGA
CCGGTCCATTTTAACACCATAATCTCCTCGTTGACACGATCACCTAAGATAACCAGACACACCAA
ATCCTAAGCACTAATCATACGATTTCTCATTACAGATGAATTATACTTTCAGGTCTTTCCCATGG
AAGAAGCCTATATATATTCCAATATAGCTTTCCTTGCCAAGGTCTAAGATCCCTCCTTCTAGATT
ATTGTTTAGCTGTCATTATTCTCAAAGTATTCTTTCATTTTTTTGGCTATCTGGTCTTTCGGCAT
CGTGGATATGGATTCATCCACATGTGGTTTTTCTTCTTTCGAAAA
Found at i:96877 original size:13 final size:13
Alignment explanation
Indices: 96859--96887 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
96849 CAAACCAGAT
96859 GAATAAAAGAAAA
1 GAATAAAAGAAAA
96872 GAATAAAAGAAAA
1 GAATAAAAGAAAA
96885 GAA
1 GAA
96888 GGCAACCAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (13 bp):
GAATAAAAGAAAA
Left flanking sequence: Indices 96359 -- 96858
ATCGTTTTTACAGGGTGGGCATGGTGTTGGCAGAATGGAAATATAAAACTACTAAATGACTTAGT
CTTGCCTTCTAATAGATGTTCTGTCTTTCATTATTAACATCCAATCCCATGCTAATAAGAAAAAC
GAGCGATTGCTAGTCAGCTTTCATTTTTTGAAATAGTGTTTGTTTGGTAGGGGCTGAGGCTCAGA
AGGCTTTCCAACTTGCTTCAATTAGGGAATAGCGCAGATGGATCAATCACGCGGTTCTGGAGCGT
CCTCCAACTTGCTTTCCGCTCCCCTTCACTTTCAACGCTGGACGGGAAGGCCTGGCATTGTGGAG
CTGTGAAGATGATAATACCTTTATTATCAATATACCAACTCTATACAAGACAAAGCCTAAGAAGA
AAGACAATACAAAGGATAAGAAGAAGGGCAATACCAAGGATAAGAAGAAGGATAATAACAAGGAT
AAGAAGGACCACGACAATAGCTCTCCCGATAGACCCAAACCAGAT
Right flanking sequence: Indices 96888 -- 97387
GGCAACCAGGAGAAGGAGCTAAGAAAGATAATGCAGGAGAAAGATAATGAGAAGATGAATAAAAG
AAAAGAAAGATAATGAGAAGGGCCCTCCCCTTATCTCCCAACTCTCCGGTTCAACCGTTAGACCG
GTCCATTTTAACACCATAATCTCCTCGTTGACACGATCACCTAAGATAACCAGACACACCAAATC
CTAAGCACTAATCATACGATTTCTCATTACAGATGAATTATACTTTCAGGTCTTTCCCATGGAAG
AAGCCTATATATATTCCAATATAGCTTTCCTTGCCAAGGTCTAAGATCCCTCCTTCTAGATTATT
GTTTAGCTGTCATTATTCTCAAAGTATTCTTTCATTTTTTTGGCTATCTGGTCTTTCGGCATCGT
GGATATGGATTCATCCACATGTGGTTTTTCTTCTTTCGAAAAGAAGTGAATAACCCAGTTAAAAA
AGGTTTTGAACCAATTCATTAGAAAATTGAGATTCTTTCTTTTCT
Found at i:104585 original size:25 final size:25
Alignment explanation
Indices: 104540--104587 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
104530 AATGCTCAAT
* *
104540 ATGAAAATATGCGGAATTTCTATCC
1 ATGAAAAAATGCGAAATTTCTATCC
104565 ATGAAAAAAT-CGAAATATTCTAT
1 ATGAAAAAATGCGAAAT-TTCTAT
104588 TAGATTAGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.31
Consensus pattern (25 bp):
ATGAAAAAATGCGAAATTTCTATCC
Left flanking sequence: Indices 104040 -- 104539
CAGCAGCTACCGCAGCCCCTGCTTCTTCAGGCGGAACTCCAGGTTGAGGAGTTACTCGGAATGCT
GCCAAGGTATCAGTAGGTTTGACTTGATAGTCAGGAGTATAATAAGTCAGTCTATAATCTTTAAC
ACCAGCTTTGAATCCAACACTTGCTTTAGTCTCTGTTTGTGGTGACATAAGTTCCTCCCTACAAC
TCATGAATTAAGAATTCTCACAGCAACAAGGTCTACTCGACAGAAATTCGGGGTTAATGAAAGCT
TTCACAGGAATCTTTCAAAAAATCATCAATGAATATTATCAACTAACCATAATAGTTCTTTATTA
GATTAGACCAATGCGATTTTATTCGCCAAATACATTATTTTTTTATACTCTTTCATATATATAGC
GCAACCCAATTCTTTTTTTTTAGTTTCTAACCTTTTTGAATCGAAATATTTGGAAATAATAATAA
ATTGACTCTTGACATTCATCTATGCTGTATATGTAAATGCTCAAT
Right flanking sequence: Indices 104588 -- 105087
TAGATTAGGTATAAAAAAGAAGAAACTAGACATAGACGCCGCTTTGCCTAGCTCTGGAAATAAAA
GAATTGGAAATACAGTTCGAGTTCGAATTCCGCAGAGAATATAGATATTGTTGTCTACTATAATA
ATGATAGACAAATTAAATTAACGACTTTCTTAAGCTCAAGATTCTTATTCATCCACTTTATATTT
TGAAAACGAATTGAGTGACCTCATTCAACTTGAATAAAATTAGAAAGAAACTAAACTAAAATGGA
ATGAGATTCGGTTAGGTGGTACCGCCGAAATCGAGTGCTAATTACAAAATTAACCGATCAACTTG
CTATCGAACATTTTTTCATTCGATCCTCAATAAATTGAAATATATTTCAGTTTAATTATTATGAA
AATAAATCCTACTACTTCGGTTCCTGGAGTTTCCACACTTGAAAAAAAAAACCTAGGACGTATCG
CTCAAATCATTGGTCCAGTACTGGATGTATCCTTTACCCCCGGGA
Found at i:120397 original size:18 final size:19
Alignment explanation
Indices: 120371--120406 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
120361 GCCTCAACAG
120371 CAGAGCTAGATGC-AGATA
1 CAGAGCTAGATGCGAGATA
*
120389 CAGATCTAGATGCGAGAT
1 CAGAGCTAGATGCGAGAT
120407 GATCCCGAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.36, C:0.17, G:0.28, T:0.19
Consensus pattern (19 bp):
CAGAGCTAGATGCGAGATA
Left flanking sequence: Indices 119871 -- 120370
GTACAGCTTTCGATCAAGATGTTCTCGCCTCCCCAGTTCGGGCTCTTGCTCGAATCGGAACCTTT
ATGCGTTAGTAGGCTTTCGACTCAATCTAATATCCCGGGCGCCAATAAAAGAGAAAGTTTTCGCA
TAGGCTCATCATCTGATGCAGAACCGATGCGAGAGGGATAATAAAGATGGGAGAAGCGGGGATTG
AACGCTTTCAAGAACTAGTGGAAATGAACGCCACCCTTGGTAGTTTTCAAACAAATTCCATCTTG
GGCCAAGCGTTGCCAGCCGGTAATAGTCGAAGGCAAAAAAAGACTTTTTTTGTTGGAATGAAATA
AGGGCGAGAAGGAAGAGAAGAAGGATGAGTAGTTGCCTAGCCGAGGAACTTGAGGCCGACATTCA
GAGTGCGGTCCTGAAGTTCAAGACGGCGCCTAAAACTAGTGTCGGTCATAGAGAGGCATTGATTT
TTCAATGAAAGAAAGCCCATCTCTTCTTCCCTCCCGCCTCAACAG
Right flanking sequence: Indices 120407 -- 120906
GATCCCGAACCTATTTCATAACCACCATACATCACCAATCACATTCCACATCCCACTTCAAGCTT
TTCGATTCCCCGGGTAGCCTCCTCTAGAAAGGCATTCCAGCTTCAGAGGCAGGTGAGCCGGGGTC
AGGAAGGACTTTGACTGCTGGGATGGGATCGGATCCAACTCGCAGCACTCCACCCCGAAGGTGAG
TCTTCGGGGCAGTAGATATAGGAACTCCTATCTGTAGGGCGGGATTTCAAGACAGAGATTCACTA
CTCCATCTGGAAAGGGCTTTCCCTCGTGGGGAAAGGAAAGAGAAGAACCCTTATTTATTGTTAGG
TAAGGCCAGAAGGGAGTCATAAATCAATAGAAAAAAGACCTTCCCCTGAACAGGTCGAGAGAGAT
GAACTATAACCCCATTTATTTGACTTCCTTCGAACCGAAACCCCCAACTAGAGATAGAATTCCAG
AACCTAAACAACTCAGTTGAGAGCTCCGTGACCGGTTCAAGGGAA
Found at i:135354 original size:16 final size:17
Alignment explanation
Indices: 135335--135368 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
135325 ATAAGAATAT
135335 AGAT-ATATAAAAGAAA
1 AGATAATATAAAAGAAA
135351 AGATAGATATAAAAGAAA
1 AGATA-ATATAAAAGAAA
135369 GAAAAGAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
18 12 0.75
ACGTcount: A:0.68, C:0.00, G:0.15, T:0.18
Consensus pattern (17 bp):
AGATAATATAAAAGAAA
Left flanking sequence: Indices 134835 -- 135334
TCTTTTTGTGGGGGAAACTATGCGTTTTTGGGATCTGCGTGCTCCCTGGTTAGAACCTCTAAGGG
GTCAAAATGTCTTAGACTTGAGTAGGCTGAAAAAAGATATACAGCCTTGGCAAGAACGGCGTTCC
GCAGAATATATGACTCATGCACCCTTAGGGTCTTTCAATTCTGTGGGGGGCGTCGCTACCGAGAT
CAACGCAGTCAATTATGTCTTTCCGAGAAGTTGGTTAGCTACTTCTCATTTTGTTTTAGGATTCT
TCCTATTCGTAGGACATTTATGGCACGCGGGAAGGGCTCGTGCAGCTGCAGCAGGATTTGAAAAA
GGAATTGATCGTGATTTTGAACCGGTTCTTTCCATGACCCCTCTAAATTGAGGAGCAGGAATCCT
ATGTTTGAAGTGAGAATCCATTTGATTCCCCTGGCATAAATATGTATTGTCTGAATCAGGTCAAG
GTCAGACTTCAAAAAAAGAAAAGAATGGATTCAGAATAAGAATAT
Right flanking sequence: Indices 135369 -- 135868
GAAAAGAGAATAAATTTTTCTGTTTCTGGCTCGGCTAACTGGGATAGCCGGGCCATTTCCTTTTA
GCATACTAAAAAGACATTCAACTCCAATAAGGTAAGGAAAGCAAAAATGAGCAAAAGGAGAGAGA
GGGATTCGAACCCTCGATAATTCTTTGTTAAAAACTATACCGGTTTTCAAGACCGGAGCCATCAA
CCACTCGGCCATCTCTCCGCAATCGAATTTCGATTCAGATTTATTTTATCACATTTTTACACCGA
TAAAACATGGGCAGTTGATACGATCATTACTTCCATATAGATATATGGCGCCAATCTATGTATAC
AGATAGATGTATCATCTATCATATCCTGTATCATATCCCGTAAAGTCAAAAAATGACTCGCGAAC
TCATGTACGAATAAAGTCAGAATAAAGGAAAGACTTATAACAAAGTCAGATAGAATCCATGGATT
CATGAGAAAATCCCTTTATTTATAGTAGAAAGCAGTTTTCTTCCT
Found at i:223897 original size:22 final size:22
Alignment explanation
Indices: 223869--223912 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
223859 TGTCTGCGCA
223869 AGTCACCTTCTTCTAGGCTCCG
1 AGTCACCTTCTTCTAGGCTCCG
223891 AGTCACCTTCTTCTAGGCTCCG
1 AGTCACCTTCTTCTAGGCTCCG
223913 CTAGACGACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.14, C:0.36, G:0.18, T:0.32
Consensus pattern (22 bp):
AGTCACCTTCTTCTAGGCTCCG
Left flanking sequence: Indices 223369 -- 223868
AGCCAGCTGAAGTTAGCTAGCTAGGCTAACGCGCAATGGCTTTCTCTGATAGGGGCTCGCTTCTT
CAAGCTCCGCCCAACCTATACAAGGTGCTGCTCGCTTTCTCTCAGCCACTAGTGGCAACTGTAGT
GGTCGGCATTCCTACGTGCTCCTCCTTGCCCCCCTACTTAAGAATCCAAAGGTGACCTTTGGATG
TTGTCGTGACGTTTTGGTTACGAAGGTTACCGGGGTCTAGGTTTATGGATGGATTCAGTCAGCGA
AAGTCCCTCAAACTCAATCAATATCAACAAGATGTCCTGACCGGTTAGGCTTGGTTGATTTTGTA
AGAAAAGAAAGTAGGTTTAGGGGCTTCTTTGATTAGTACACCTATGGTGCTGGTCAGGTCGGGAC
CGTGGTCGTCCGTCTCCGGTTTGCCGGCCGAGTTGATCTCTGAGATTGACCATCCAGCTGGGTTG
GTTTGGCTATTCCTTTCTATTGAAAAGGAGTCAGCTGTCTGCGCA
Right flanking sequence: Indices 223913 -- 224412
CTAGACGACACGGCATTCTCGTTCAAATATAGGCCGGCCCTACTTGTGATGGTTCCCAAGGATCC
AATATGACCACTTAGGTCTACGTTGCCACGATATTGTTCTATGGAAGCGGGCGGGCAGTTATAAG
TTCGGCCCGGTTTTTTTTGGTGTCGTAGGGGAGGGATTGACCTTTTTAACGCATATTCAGTCGTA
CCGGCATGGCCCCACTGATTTGTTTTCGATCGGAGCATCAAGCAACGCAACCCGGTTCTACTTGA
CGTTGCCCCGTGCTCGTCCAAGGAGGGAGTTTGCTTTACCCAACTCCTTTTTTGATAACAAGGCA
GAAAGCCCCGACCCGACATTCATTAGTTTTGAAGAAAGGAATGAAGAGTGCCCTGCCCAAAAAAG
CACCTACTCCTATCAAAATGAAAAGCGTGACTTTACTAAACAAGCAAGAAAAGCCCTAACTATTC
TATTAGTAAAGCGCTAACGCCCTATCTAGAGTCAGAGGCCTTTTC
Found at i:273170 original size:18 final size:18
Alignment explanation
Indices: 273149--273193 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
273139 AAGGTCACGA
273149 TCAATATCGTCACTATCC
1 TCAATATCGTCACTATCC
273167 TCAATATCGTCACTATCC
1 TCAATATCGTCACTATCC
273185 TCAATATCG
1 TCAATATCG
273194 ATATCATCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.33
Consensus pattern (18 bp):
TCAATATCGTCACTATCC
Left flanking sequence: Indices 272649 -- 273148
TAATCGATAGGGCCTCATTGGTAAGTGCTACAAGATCTCGTACATTGGAACCCATGGTTATGGAC
CTGAATTCATTAGTATGGAACATTTTCTTTTTCTTTTCCAAGTGAAATCCCCTAGTATACGAAAG
GGTGAAAAAGCGCTTTCGTTGTTGTGGAATAAGAAGCCTTCGTATCTTAATGCATGTATTTAATT
TATTCGGAGCTATTAGAGCGGGATCCACTTTTTTGGGAATATGAGTCGAAGCAATAACAAGAATA
TTTTGAGTGGAACATCTTTCACAATCCCTGGAGAGATCGTTCGCTAATAGACCGAGGGATAAGTA
ATTCGACTCATTCACATCCAGATCATGAATGTTTGGAATCCCTATTATGCAAGGAGACATTGCTT
TTGCTAATTCGAATTGAAGGGTGATATAAAATCGGTCTATTTCCGGCATCATATCCATAGTTAGC
GCATTCATCCTAGTTAGAAGCTCCAGCTCCGTATCAAGGTCACGA
Right flanking sequence: Indices 273194 -- 273693
ATATCATCAATAAGAAAACCTTTAGGCTTGTTATCCAGGAACTTGTTCAGAAATACTGTAATGAA
AGGAACATAGGAGTTTGCCGCTAGGTATTTGACCAAATAGGATCGTCCAGTTCCTATAGAACCTA
TCACTAAAATACCCCTAGAGGGGGATAGGGCTAAGCGGAGCGAAAAGGGTTTTCCATGAGATGGG
AAATGAAAACTATTAGCCCCACACGAGTTTTGTGAATAAGTGATTGTCTGATAATGAGCAAGGAA
TATCCGCCTTTCTGCTAAACAGAATGTATTGAACTCATAATTCATTAGATACTTTTTATGAATGT
CAACTAAGTATCGTAAGTAAATTGCTCCCGGTTGTTCAATCATTTGATAACCAGAGTCATTCTTT
GATAAATGATCACTATGAGTCAAACTCAATAGAATTTGATCAATCCTTTTTTCTGTCGTTAAGGT
GGAAAACTGAACCAAGAATTCTCTTTCTTTATCATCAATCGAATC
Found at i:273174 original size:9 final size:9
Alignment explanation
Indices: 273149--273192 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
273139 AAGGTCACGA
*
273149 TCAATATCG
1 TCAATATCC
*
273158 TCACTATCC
1 TCAATATCC
*
273167 TCAATATCG
1 TCAATATCC
*
273176 TCACTATCC
1 TCAATATCC
273185 TCAATATC
1 TCAATATC
273193 GATATCATCA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.30, C:0.32, G:0.05, T:0.34
Consensus pattern (9 bp):
TCAATATCC
Left flanking sequence: Indices 272649 -- 273148
TAATCGATAGGGCCTCATTGGTAAGTGCTACAAGATCTCGTACATTGGAACCCATGGTTATGGAC
CTGAATTCATTAGTATGGAACATTTTCTTTTTCTTTTCCAAGTGAAATCCCCTAGTATACGAAAG
GGTGAAAAAGCGCTTTCGTTGTTGTGGAATAAGAAGCCTTCGTATCTTAATGCATGTATTTAATT
TATTCGGAGCTATTAGAGCGGGATCCACTTTTTTGGGAATATGAGTCGAAGCAATAACAAGAATA
TTTTGAGTGGAACATCTTTCACAATCCCTGGAGAGATCGTTCGCTAATAGACCGAGGGATAAGTA
ATTCGACTCATTCACATCCAGATCATGAATGTTTGGAATCCCTATTATGCAAGGAGACATTGCTT
TTGCTAATTCGAATTGAAGGGTGATATAAAATCGGTCTATTTCCGGCATCATATCCATAGTTAGC
GCATTCATCCTAGTTAGAAGCTCCAGCTCCGTATCAAGGTCACGA
Right flanking sequence: Indices 273193 -- 273692
GATATCATCAATAAGAAAACCTTTAGGCTTGTTATCCAGGAACTTGTTCAGAAATACTGTAATGA
AAGGAACATAGGAGTTTGCCGCTAGGTATTTGACCAAATAGGATCGTCCAGTTCCTATAGAACCT
ATCACTAAAATACCCCTAGAGGGGGATAGGGCTAAGCGGAGCGAAAAGGGTTTTCCATGAGATGG
GAAATGAAAACTATTAGCCCCACACGAGTTTTGTGAATAAGTGATTGTCTGATAATGAGCAAGGA
ATATCCGCCTTTCTGCTAAACAGAATGTATTGAACTCATAATTCATTAGATACTTTTTATGAATG
TCAACTAAGTATCGTAAGTAAATTGCTCCCGGTTGTTCAATCATTTGATAACCAGAGTCATTCTT
TGATAAATGATCACTATGAGTCAAACTCAATAGAATTTGATCAATCCTTTTTTCTGTCGTTAAGG
TGGAAAACTGAACCAAGAATTCTCTTTCTTTATCATCAATCGAAT
Found at i:287406 original size:15 final size:15
Alignment explanation
Indices: 287386--287416 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
287376 AGATAAGCTA
287386 CTAATACATTTTTAC
1 CTAATACATTTTTAC
287401 CTAATACATTTTTAC
1 CTAATACATTTTTAC
287416 C
1 C
287417 CAAAGCGAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.23, G:0.00, T:0.45
Consensus pattern (15 bp):
CTAATACATTTTTAC
Left flanking sequence: Indices 286886 -- 287385
TCTTCCAGCTACCTTATCACCTACTTTGATTTCGCGTTTCTGTAAAAAATATACACGAATACTTT
CTGGATTATAACTGGAACCTCCCCCTTTCTGAATCCATCTCACATCAATAACCCGGCCCCTACCC
CCTATAGGTAGTTTGAGACAAGTTTCCCTTGAAGTGGATACCTGAATGCCAAGTATGGCTCGTAA
TAATCTATCTTCTGGGGCATAGGATGATTCTTTTGCCATCTGAGGCGTTAATTTCCCTACTAAAA
TATCGCCCGCTTCGACCCAAGACCCCAGCATCACAATTCCATTTTTGTCTAAATTCCGGAGTAAA
TGGGCTTCGAGATGTGGTATTTCCTTAGTAATCCGTTCGGGTCCTTGGCTTGTTATATGAGTATT
TTTTTCATATTTCCTTATGTGCAAAGAAGTATAAATATCTTCATATATCAGACGTTCGCTAATAA
GTACTGCATCCTCAAAATTATAACCCTCCCACGGTAGATAAGCTA
Right flanking sequence: Indices 287417 -- 287916
CAAAGCGAGTTCCCCACCAACTGTAGCGGCACCATTTGCTAAAATTTGTCCCCTTTTAATGCATT
TATGCCGCGGAACCTGGGGGTTTTGATGCATACAAGTATTTTTGTTGGAGCGTTGATATATAACT
AATAGAATACTTAGAATATCACCATTCCCCGATATAATGATCTTGTCATTATTGGTATAAATGAT
CTTTCCCGCGTGTTCAGCTATAGCGTTAACCCCTGAATCTAGAGCCGCTTGGCGTTCCAACCCAG
TTCCAACAATGCACTTTTCGGACCGCGAAAGCGGAACTGCTTGACGTTGCATATTCGAACTCATT
AAAGCTCGATTCGCATCATTATGCTCGATAAAAGGAATAAGAGAAGATCCAAGAGAAAAATATTG
GAAAGGAAAAAGACTTCGAAGATGAACCTGTTCCCATGCAATAGTCAGGAATTCTTAACGGTATC
GAGCTGGAACAACCTGTTCTTCTTGAATACCCTGATTCAGCGCCA
Found at i:313951 original size:16 final size:16
Alignment explanation
Indices: 313930--313964 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
313920 GGGAGCTCAT
313930 ACCCGGAGAGACTAAG
1 ACCCGGAGAGACTAAG
313946 ACCCGGAGAGACTAAG
1 ACCCGGAGAGACTAAG
313962 ACC
1 ACC
313965 TACCCTACCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.37, C:0.29, G:0.29, T:0.06
Consensus pattern (16 bp):
ACCCGGAGAGACTAAG
Left flanking sequence: Indices 313430 -- 313929
AATGAGAAAAGTCTTTACTTTACTTCAAGCTTAGTAAGGGAGTCAATAGACTGATTGACTAATTC
TGTAACATAGGAAAAGAAAGGGGATGGTTACTTTTCCCTCCAATTCCGGTAATCGACGAACCGTG
CTGGGAATACTTCAATTAGCACTCGTAAGGCCGACGTAGAGGAGAGATCTTTGAACTCGTTCGAG
ATAGCCAGATCAGATCGGTAACGAAAAGATGTTCGAGATGCGTTTTCATAGCTATCTTTCGTAGC
CAAGCCAGGGATGAGTGACGGTTTAACTTATTTGGGAGTGCAAAAGGGGGCGTAGCGAAGATTCT
ATTTCTTTTGACTCTTTCGAGAAGGGAAGAAGAAGATCACCAGTTGAGGAGATTGATTTCACTCT
GTCTCTATTCCCCAGGAAGGAGAAGATGTGAACACAGGCAAAAACTCATCCTTCACTGAGAAAAG
GAGCGGAGTCACCTCCGGATTAAATTAAATGATTTGGGAGCTCAT
Right flanking sequence: Indices 313965 -- 314464
TACCCTACCTTGGTTATCCGCTTTCATGCTACCACTGAGCGGACTTTCCTATAAATAAGAAGAGA
GATATCTATCGGATTGGTATTCACCGAGTCCTATCATTTTCATTCTTTACGTCCTGCTAAACTCA
TCTTAGTAGCGGATGGTAAAGCCTTTTGGGCTAAGGTCGCTTTGAGCATAATTGGATATAGAAAA
GGTTCATATTCCTGCCTGGTTATCAAGCACCTTCGGTGAAAGAAAGGTGCCATAAATTCATTAAT
AGAAGGGAGACAGTCTCGTGACTGCTGACGAGGAAAGACTACTTTAGCTCTAAAGCAGCTCGAAG
CGTAGATCTATTCTTCCTATACCTAATTCTCTAGTCATAGATGTATTCTTTCGAATGCGCCTCAG
TCTCAAGTGTTTGAGGAAGTGAGCGAAGTTCCCAATGTTAGAGGAATAATAGCTTTCGCCCTAAG
GCTTCATGAGAGCCTGAAAACAGGGGGTTTGGTTCATGACTGATT
Found at i:318852 original size:21 final size:21
Alignment explanation
Indices: 318821--318863 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
318811 TCTTGGGGCA
318821 GAGAAGAGCTGAGAA-GAGCT
1 GAGAAGAGCTGAGAAGGAGCT
*
318841 GAGAAGGAGCTGGGAAGGAGCT
1 GAGAA-GAGCTGAGAAGGAGCT
318863 G
1 G
318864 GTGAAATCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 5 0.25
21 9 0.45
22 6 0.30
ACGTcount: A:0.35, C:0.09, G:0.47, T:0.09
Consensus pattern (21 bp):
GAGAAGAGCTGAGAAGGAGCT
Left flanking sequence: Indices 318321 -- 318820
TCCCGAAGGTTGTGTAGCTTGTGGGCAATTCAAGGACTTGAAACCCGGTATACCTGCTCCCTATC
TTTGGCTTTTTTTGGTCGGTGCCATCCTTTCCTCTGTCGCTCGCTCCGTAGGACAATCACTCTGG
TCACCGGGCTAGGATATAGTCAGTGTGCCGCGACTGGCTTCTCTCTTTTGGCTGTCGATTGCATG
CAGTTTGACCGTCGTTCTCGGTTTATTTGAATTCCGTTCATAGAACTAAGCTCCTCCTAGATAGA
TTCATTTTGTTGACCTTGATTCCAGACACCATGAATGCGCCACTTTCTCTTTCGCTCCTCTCCCA
AGAGCTGTCACCCTTTAGGGTAAAATAACGACTGAATATATATGAGCATTAGTAATAAATAATAA
CTACTTAATATATATAAATGCCCTGCAAAGACCTGACACACTTTAGGGGAAAATAAGGTACCAAG
ATGAGGGCTTGCTCTTGGGCAAGGGGAAGACCTTATCTTGGGGCA
Right flanking sequence: Indices 318864 -- 319363
GTGAAATCAGGTACCATACCAAGATGAGGGCTTGCTCTTAGGAAAGGGGAAGACCTTATCTTGGA
CAAGGGTGGACCTTATCTTATCTTATCTTTGGGCAGAGAAGAGAAGACGGAGTTTGCAGATACTA
TCATCAATGATTTTTGGTTTAGGGGCACATACGGGTCACAACGAGCGTACCTGTCACCTCATAAA
TATAAATTGATAACAATCATGACAACACAAAACAAACTCTACACCTGTTACAGGTGTAACAAATA
TAATATGTTTTCGAACTTTACTTTGTATATGGCATTTAATCGTTCCAATAATAGGAAGAGGTCAT
ATTCGAATTGTGCTGATACTATCATCAATGATTTTTGGAATCAATTCCATAGAGATATAGAAAGG
AAATTACTATCTAAAGTAGATGGAGAGAAAGAGAGAGAGAGGTATAATGATAAAGTTTTTCAATT
ATTGATTAATAATAAGTATGGTATTAATCCTATTTCCATAGAGGA
Found at i:318864 original size:11 final size:11
Alignment explanation
Indices: 318821--318863 Score: 63
Period size: 11 Copynumber: 4.1 Consensus size: 11
318811 TCTTGGGGCA
318821 GAGAA-GAGCT
1 GAGAAGGAGCT
318831 GAGAA-GAGCT
1 GAGAAGGAGCT
318841 GAGAAGGAGCT
1 GAGAAGGAGCT
*
318852 GGGAAGGAGCT
1 GAGAAGGAGCT
318863 G
1 G
318864 GTGAAATCAG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
10 15 0.48
11 16 0.52
ACGTcount: A:0.35, C:0.09, G:0.47, T:0.09
Consensus pattern (11 bp):
GAGAAGGAGCT
Left flanking sequence: Indices 318321 -- 318820
TCCCGAAGGTTGTGTAGCTTGTGGGCAATTCAAGGACTTGAAACCCGGTATACCTGCTCCCTATC
TTTGGCTTTTTTTGGTCGGTGCCATCCTTTCCTCTGTCGCTCGCTCCGTAGGACAATCACTCTGG
TCACCGGGCTAGGATATAGTCAGTGTGCCGCGACTGGCTTCTCTCTTTTGGCTGTCGATTGCATG
CAGTTTGACCGTCGTTCTCGGTTTATTTGAATTCCGTTCATAGAACTAAGCTCCTCCTAGATAGA
TTCATTTTGTTGACCTTGATTCCAGACACCATGAATGCGCCACTTTCTCTTTCGCTCCTCTCCCA
AGAGCTGTCACCCTTTAGGGTAAAATAACGACTGAATATATATGAGCATTAGTAATAAATAATAA
CTACTTAATATATATAAATGCCCTGCAAAGACCTGACACACTTTAGGGGAAAATAAGGTACCAAG
ATGAGGGCTTGCTCTTGGGCAAGGGGAAGACCTTATCTTGGGGCA
Right flanking sequence: Indices 318864 -- 319363
GTGAAATCAGGTACCATACCAAGATGAGGGCTTGCTCTTAGGAAAGGGGAAGACCTTATCTTGGA
CAAGGGTGGACCTTATCTTATCTTATCTTTGGGCAGAGAAGAGAAGACGGAGTTTGCAGATACTA
TCATCAATGATTTTTGGTTTAGGGGCACATACGGGTCACAACGAGCGTACCTGTCACCTCATAAA
TATAAATTGATAACAATCATGACAACACAAAACAAACTCTACACCTGTTACAGGTGTAACAAATA
TAATATGTTTTCGAACTTTACTTTGTATATGGCATTTAATCGTTCCAATAATAGGAAGAGGTCAT
ATTCGAATTGTGCTGATACTATCATCAATGATTTTTGGAATCAATTCCATAGAGATATAGAAAGG
AAATTACTATCTAAAGTAGATGGAGAGAAAGAGAGAGAGAGGTATAATGATAAAGTTTTTCAATT
ATTGATTAATAATAAGTATGGTATTAATCCTATTTCCATAGAGGA
Found at i:318933 original size:23 final size:22
Alignment explanation
Indices: 318899--318948 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 22
318889 GAGGGCTTGC
318899 TCTTAGGAAAGGG-GAAGACCTTA
1 TCTTAGGAAAGGGTG--GACCTTA
318922 TCTT-GGACAAGGGTGGACCTTA
1 TCTTAGGA-AAGGGTGGACCTTA
318944 TCTTA
1 TCTTA
318949 TCTTATCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
22 14 0.58
23 9 0.38
24 1 0.04
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (22 bp):
TCTTAGGAAAGGGTGGACCTTA
Left flanking sequence: Indices 318399 -- 318898
GGTCGGTGCCATCCTTTCCTCTGTCGCTCGCTCCGTAGGACAATCACTCTGGTCACCGGGCTAGG
ATATAGTCAGTGTGCCGCGACTGGCTTCTCTCTTTTGGCTGTCGATTGCATGCAGTTTGACCGTC
GTTCTCGGTTTATTTGAATTCCGTTCATAGAACTAAGCTCCTCCTAGATAGATTCATTTTGTTGA
CCTTGATTCCAGACACCATGAATGCGCCACTTTCTCTTTCGCTCCTCTCCCAAGAGCTGTCACCC
TTTAGGGTAAAATAACGACTGAATATATATGAGCATTAGTAATAAATAATAACTACTTAATATAT
ATAAATGCCCTGCAAAGACCTGACACACTTTAGGGGAAAATAAGGTACCAAGATGAGGGCTTGCT
CTTGGGCAAGGGGAAGACCTTATCTTGGGGCAGAGAAGAGCTGAGAAGAGCTGAGAAGGAGCTGG
GAAGGAGCTGGTGAAATCAGGTACCATACCAAGATGAGGGCTTGC
Right flanking sequence: Indices 318949 -- 319448
TCTTATCTTTGGGCAGAGAAGAGAAGACGGAGTTTGCAGATACTATCATCAATGATTTTTGGTTT
AGGGGCACATACGGGTCACAACGAGCGTACCTGTCACCTCATAAATATAAATTGATAACAATCAT
GACAACACAAAACAAACTCTACACCTGTTACAGGTGTAACAAATATAATATGTTTTCGAACTTTA
CTTTGTATATGGCATTTAATCGTTCCAATAATAGGAAGAGGTCATATTCGAATTGTGCTGATACT
ATCATCAATGATTTTTGGAATCAATTCCATAGAGATATAGAAAGGAAATTACTATCTAAAGTAGA
TGGAGAGAAAGAGAGAGAGAGGTATAATGATAAAGTTTTTCAATTATTGATTAATAATAAGTATG
GTATTAATCCTATTTCCATAGAGGAAGAAGAATTAGAATGTTTACAGATGAAGATTGAAGGTCTA
ACTCATCAATTCGATGAATGTAGTATATTTAATGAGACACCAAAC
Found at i:337441 original size:15 final size:16
Alignment explanation
Indices: 337421--337453 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
337411 ACAAAGCAAG
*
337421 CTTA-TTGAAATAGCC
1 CTTATTTGAAAAAGCC
337436 CTTATTTGAAAAAGCC
1 CTTATTTGAAAAAGCC
337452 CT
1 CT
337454 ATAGCTGCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.33
Consensus pattern (16 bp):
CTTATTTGAAAAAGCC
Left flanking sequence: Indices 336921 -- 337420
GAATGACGACTAGGTACTGAGCCCCTCAGCAAACCCTTGCAAGAAAGAAGAGAAGGACACAAGAA
GAACACGCTCCTTCCTGGAGTTGAAAGACTCCAAATTCGAATCACTTGCTACTGGTGCTTTCCAC
CTTCCACCGCTCTAAAGTGTGTTTCGTAAGGGGGTAGGTTGCATTCTATCGTATAGAAAATAAAG
AAGCAAGACGGACAACATAAAGTTAAGCATAAGGTGCTATTATTGGCAAAAAACCTGGTCTTCGC
TCCCTGTCCCTGGATCAACGACTAACGGACGAGGAGAACTCGACGTGAAAGCTTAATGGGCAAGC
GAGACTTCCCTTGGTCTTAAGGGCGTGGAACCCGAAGCGTGAGCGTGAGGTCGCGCCAAAGAGAC
GATCGACAGTGAGGCCTATCATAAAGTAAAAGTGACTTGTTTGGGAGTCAGAGGGACATTGTCGT
GATAATGTGCCTGGGAGTTAAACTGATAAACAACTACAAAGCAAG
Right flanking sequence: Indices 337454 -- 337953
ATAGCTGCTCTACAGTAAGGCCGGCCTGGCCTCTGGGCCGATTCATCATATTCTCGATCGAGATT
TGGGCGTATATGCATCTTTCTCATAATTCAATTCTGCGGACTGCGAGGTGACCTTCGGAGAGGCC
TATAAGAACCTAGACAGCAAATAAATGTAGGAGCGGACGGAACGAAACTACATCTGATGTCGCCC
GCTATCAAGCGATCAAGTCAGTGGTGTTAAAGTCAGGTGTTCCAGAGGGGCTAATGGTTTTCCCC
AGTCAGAAGCATTTTGTGAACTAACACTCTGCACAAAGGTCTCCACCCTGTGAAGCTCATTCATG
TGGTAGAGGAATGAGAGCTTTTCTAAATCCCCGGGGGGCCAGCCGAAGATGAAAGGTCCGCGGAT
CAACCTCAGCAGGTTTGGTTCCAGTTTGTTTGGAGGGAGTCCCACCAATGGGGCAGGGGGCGCGA
TAGTGCCCTTTATTCCGGGTGACCTGGATAGAGCACTTTTGATCA
Found at i:353267 original size:21 final size:20
Alignment explanation
Indices: 353243--353288 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 20
353233 TAAAGCTTAT
*
353243 GAGAAAGACGAATCCCTATA
1 GAGAAAGAAGAATCCCTATA
353263 GGAGAAAGAAGAATCCCTATA
1 -GAGAAAGAAGAATCCCTATA
353284 GAGAA
1 GAGAA
353289 GTATATGCCT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 5 0.21
21 19 0.79
ACGTcount: A:0.48, C:0.15, G:0.24, T:0.13
Consensus pattern (20 bp):
GAGAAAGAAGAATCCCTATA
Left flanking sequence: Indices 352743 -- 353242
AGAAAAAGGAATAAATATAGTGATAATTTGATTCTTCGTCGCCGTAGTAAATAGGGGAAAAATGG
AATTTCGTTCTTCGTCTTTACAAATGAAAAAATAGGAGCAATTAATCGTGACACGTTCACTAAAA
AAAAACCCTTTTGTAGCTAATCCTTTATTAAGAAAAATCGAAAAGCTTAATACAATGATGGAAAA
AGAAATAATAGTAACTTGGTCGCGGGCATCTACCATTATACCTACAATGATTGGGCACACTATTG
CCATTCATAATGGTAGAGAGCATTTGCCGATTTATATAACAGATCGTATGGTCGGTCATAAATTG
GGCGAATTTTCACCTACTAGCAGTTTCCGCGGACATGCAAAAAACGATAATAGATCTCAGCGTTA
AGTTAAAAAAAAAAAGAATATTAATTTGAATTAAATTAATATCGATAATATTAATATCGAGAATG
AATGATGATTAGTCCTCATTATCTTTAAGAGGAGATAAAGCTTAT
Right flanking sequence: Indices 353289 -- 353788
GTATATGCCTTAGGTCAACATATCTCACTATCTGCTCACAAGTCGCGAAGAGTAATTGATCAGAT
ACGTGGATGCTCTTACGAACAAACCCTTATGATACTTGAACTTATGCCTTATCGAGTGTGTTATC
CAATTATAAAATTGATTTATTCTGCAGCAGCAAATGCTAGTCACAATTGGGATTTCAATAAAACA
AGTTTAGTTATTAGTCAAACTGAAGTTAGCAAGGGTACTACTGTAAAAAAACTAAAACCTCGAGC
TCGGGGGCGGGGTTATCCAATAAAAAGAACCACTTGCCATATAAGAATTGTGTTGCAAGATACTT
CTTGGTATGAGTATGACGAAACTAAAGAATATCTTTTATGCTTCAAAAAGATGACTGAAAAAAAG
AAAAAGAAGCACCAAGATATGACGTATTCTTCGATGTATAATAATGGGGGATTATGGGACAAAAA
AGAAATCCACTCGGTTTCAGACTTGGTACAACCCAAAGTCATCAT
Done.