Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold191
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 842153
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 45129 characters in sequence are not A, C, G, or T
File 2 of 6
Found at i:116367 original size:48 final size:48
Alignment explanation
Indices: 116296--116482 Score: 207
Period size: 48 Copynumber: 3.9 Consensus size: 48
116286 ATTATATTGG
** * * *
116296 TCATCCCTTGTTTGACTATATTGGTGTTAGAGCCTGGTCAAACTCTTT
1 TCATCCCTCATTTGACTGTATTGGTATTAGAGCCTAGTCAAACTCTTT
*
116344 TCATCCCTCATTTGACTGTATTGGTATTA-AGGCCTAGTCAAACTTTTT
1 TCATCCCTCATTTGACTGTATTGGTATTAGA-GCCTAGTCAAACTCTTT
* * * * *
116392 TCATCCCTCGTTTGATTGTATTGGTGTTAGGGCCAAGTCAAACTCTTT
1 TCATCCCTCATTTGACTGTATTGGTATTAGAGCCTAGTCAAACTCTTT
* * * *
116440 TCATCCCTTATTTGACTGTTTTGGAATTAG-GACCTGGTCAAAC
1 TCATCCCTCATTTGACTGTATTGGTATTAGAG-CCTAGTCAAAC
116483 GTTACTCACC
Statistics
Matches: 116, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
47 2 0.02
48 114 0.98
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.40
Consensus pattern (48 bp):
TCATCCCTCATTTGACTGTATTGGTATTAGAGCCTAGTCAAACTCTTT
Found at i:116480 original size:96 final size:96
Alignment explanation
Indices: 116296--116482 Score: 268
Period size: 96 Copynumber: 1.9 Consensus size: 96
116286 ATTATATTGG
* **
116296 TCATCCCTTGTTTGACTATATTGGTGTTAGAGCCTGGTCAAACTCTTTTCATCCCTCATTTGACT
1 TCATCCCTCGTTTGACTATATTGGTGTTAGAGCCAAGTCAAACTCTTTTCATCCCTCATTTGACT
*
116361 GTATTGGTATTAAGGCCTAGTCAAACTTTTT
66 GTATTGGAATTAAGGCCTAGTCAAACTTTTT
* * * *
116392 TCATCCCTCGTTTGATTGTATTGGTGTTAGGGCCAAGTCAAACTCTTTTCATCCCTTATTTGACT
1 TCATCCCTCGTTTGACTATATTGGTGTTAGAGCCAAGTCAAACTCTTTTCATCCCTCATTTGACT
* *
116457 GTTTTGGAATT-AGGACCTGGTCAAAC
66 GTATTGGAATTAAGG-CCTAGTCAAAC
116483 GTTACTCACC
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
95 3 0.04
96 77 0.96
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.40
Consensus pattern (96 bp):
TCATCCCTCGTTTGACTATATTGGTGTTAGAGCCAAGTCAAACTCTTTTCATCCCTCATTTGACT
GTATTGGAATTAAGGCCTAGTCAAACTTTTT
Found at i:116609 original size:43 final size:43
Alignment explanation
Indices: 116562--116658 Score: 108
Period size: 43 Copynumber: 2.3 Consensus size: 43
116552 CTTATACTCG
* * *
116562 GGAGACTTCCTTCAT-CTTAAGTCTACCTATCGGCTTTGATCTT
1 GGAGACTTCCTTC-TCCTTAAGCCTACCTATCGGCTTTGACCCT
* * *
116605 GGAGACTT-TTTCTCCCTTAAGCCTGCCTGTCGGCTTTGACCCT
1 GGAGACTTCCTTCT-CCTTAAGCCTACCTATCGGCTTTGACCCT
116648 GGAGACTTCCT
1 GGAGACTTCCT
116659 CGCCCTTAAG
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
41 1 0.02
42 3 0.07
43 39 0.89
44 1 0.02
ACGTcount: A:0.15, C:0.29, G:0.20, T:0.36
Consensus pattern (43 bp):
GGAGACTTCCTTCTCCTTAAGCCTACCTATCGGCTTTGACCCT
Found at i:116665 original size:43 final size:43
Alignment explanation
Indices: 116577--116743 Score: 138
Period size: 43 Copynumber: 3.9 Consensus size: 43
116567 CTTCCTTCAT
* * * * ** *
116577 CTTAAGTCTACCTATCGGCTTTGATCTTGGAGACTTTTTCTCC
1 CTTAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCCTCGCC
*
116620 CTTAAGCCTGCCTGTCGGCTTTGACCCTGGAGACTTCCTCGCC
1 CTTAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCCTCGCC
* * * * * **
116663 CTTAAGTTTGCATGTCGGCTTTGACCCTAGTGACTTCTTCATC
1 CTTAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCCTCGCC
* * * * * *
116706 CAT-CGTCTGCCTGTCGACTTAGACCCGGGTGACTTCCT
1 CTTAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCCT
116744 TATCCATTGT
Statistics
Matches: 99, Mismatches: 25, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
42 27 0.27
43 72 0.73
ACGTcount: A:0.14, C:0.31, G:0.20, T:0.35
Consensus pattern (43 bp):
CTTAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCCTCGCC
Found at i:116866 original size:126 final size:126
Alignment explanation
Indices: 116694--118073 Score: 866
Period size: 126 Copynumber: 11.0 Consensus size: 126
116684 TGACCCTAGT
* * * * * * *
116694 GACTTCTTCATCCA-TCGTCTGCCTGTCGACTTAGACCCGGGTGACTTCCTT-ATCCATTGTTTG
1 GACTTTTTCATCCACT-GTCTACCCGTCGACTTAGACCTGGGAGACTT-CTTCATCCATCGTCTG
* * * ** * *
116757 CCCATCGGCTTAGACACAATAGACTTCTTCATCTTTCGTCTATCCGTCAACTTAGACCTAGGA
64 CCCATCGGCTTAGACCCGAGAGACTTCTTCATCTTTCGTCTGCCCATCAGCTTAGACCTAGGA
* ** *
116820 GACTTTTTCATCCACTGTCTACCCGTCGACTTAGACCTAGGAGACTTCTTTGTCCATCGTATG-C
1 GACTTTTTCATCCACTGTCTACCCGTCGACTTAGACCTGGGAGACTTCTTCATCCATCGTCTGCC
* * * *
116884 CAGTCGGCTTAGACCCGAAAGACTTTTTCATTTTTCGTCTGCCCATCAGCTTAGACC-CGAGA
66 CA-TCGGCTTAGACCCGAGAGACTTCTTCATCTTTCGTCTGCCCATCAGCTTAGACCTAG-GA
* ** * * * * *
116946 AACTTTTTCATCCACCATCTACTCGTC-AGCTTAGACAC-GGGAGACATCCTTTAT-CAACTATC
1 GACTTTTTCATCCACTGTCTACCCGTCGA-CTTAGAC-CTGGGAGAC-TTCTTCATCCATC-GTC
** * ** * * * *
117008 TATCTATTAGCTTTGACCCGAGAGACTTTCTTCATCTTTCAG-CTGCCCATC-GATGTAGACTTG
62 TGCCCATCGGCTTAGACCCGAGAGAC-TTCTTCATCTTTC-GTCTGCCCATCAGCT-TAGACCTA
117071 GGA
124 GGA
* * * * *
117074 GACTTCTTCATCCACTGT-TAGCCCATCGGCTTAGACCTGAGAGACTTCTTCATCCATCGTCTAC
1 GACTTTTTCATCCACTGTCTA-CCCGTCGACTTAGACCTGGGAGACTTCTTCATCCATCGTCTGC
* * * * *
117138 TC-TCAGCTTAGACCCGAGAGACTTCTTCATCTTTCGTTTGCCCGTC-GACTTAAACTCT-GGA
65 CCATCGGCTTAGACCCGAGAGACTTCTTCATCTTTCGTCTGCCCATCAG-CTTAGAC-CTAGGA
* * * * * * * * * *
117199 GATTTTTTCATCCACTGTTTATCCTTCGGCTTAGACCCGGGAAACTTTTTCATCCATCTTCTGCT
1 GACTTTTTCATCCACTGTCTACCCGTCGACTTAGACCTGGGAGACTTCTTCATCCATCGTCTGCC
* ** * * * *
117264 CGTCGATTTAGACTCG-GAAGATTTCTTCATCTTTCGTCTGCCCAT-AGGCTTAGACCCAAGA
66 CATCGGCTTAGACCCGAG-AGACTTCTTCATCTTTCGTCTGCCCATCA-GCTTAGACCTAGGA
* * * * * *
117325 GACTTTTTCATCCACCGTTTA-----C--CTTAGACCCGAGAGACTTCCTTTAT-CAAC-TAACT
1 GACTTTTTCATCCACTGTCTACCCGTCGACTTAGACCTGGGAGACTT-CTTCATCCATCGT--CT
* * * * *
117381 GCCCATTGGCTTTGACCCGGGAGACTTTCTTCATCTTTCATCTGCCCATCGGCTTAGA-CTCAGG
63 GCCCATCGGCTTAGACCCGAGAGAC-TTCTTCATCTTTCGTCTGCCCATCAGCTTAGACCT-AGG
117445 A
126 A
* * * * ** *
117446 GACTTCTTCATCCACCGTCTGCCTGTCGACTTAGA-CTCGCAAGACTTCTTCATCCATAGTCTGC
1 GACTTTTTCATCCACTGTCTACCCGTCGACTTAGACCT-GGGAGACTTCTTCATCCATCGTCTGC
** * * * * * *
117510 CCATCTACTTAGATCCGAGAGACTTTTTCATCTTTCATCTGCCCATC-GGTATAGA-GTCGGAA
65 CCATCGGCTTAGACCCGAGAGACTTCTTCATCTTTCGTCTGCCCATCAGCT-TAGACCTAGG-A
* * * * * * * *
117572 AACTTTTTCATCCTCCGTCTACCCATCGGCTTAGACCTGAGAGACTTTTTCATCCATCATCTGCC
1 GACTTTTTCATCCACTGTCTACCCGTCGACTTAGACCTGGGAGACTTCTTCATCCATCGTCTGCC
* * * * *
117637 CATCAGCTTAGACTCGGGAGACTTCTTCATCTTTTGTCTGCCCATCAGCTTAGACCCAGTGA
66 CATCGGCTTAGACCCGAGAGACTTCTTCATCTTTCGTCTGCCCATCAGCTTAGACCTAG-GA
* ** ** * * *
117699 AACTTTTTCAT-CTTTCGTCTACTTGTCGGCTTAGACCTGGGAAACTTCTTCATCCATCGTTTGC
1 GACTTTTTCATCCACT-GTCTACCCGTCGACTTAGACCTGGGAGACTTCTTCATCCATCGTCTGC
* * * * * *
117763 CCGTCGGCTTGAAACTCGGGAGACTTCTTCATCTTTCGTCTGCCCATCGGCTTAAACCT-GTGA
65 CCATCGGCTT-AGACCCGAGAGACTTCTTCATCTTTCGTCTGCCCATCAGCTTAGACCTAG-GA
* * * * * *
117826 GACTTTTTCATCCACCGTCTA-TCGATCGGCTTA-ATCTCGAGAGACTTCTTCATCCATCGTTTG
1 GACTTTTTCATCCACTGTCTACCCG-TCGACTTAGACCT-GGGAGACTTCTTCATCCATCGTCTG
* * * * * * * * * *
117889 CCTATCGACTTAGACCCGAAAGCCTTTTTCATCTTTTGTTTGCCGATCAGTTTAAACCT-GAGA
64 CCCATCGGCTTAGACCCGAGAGACTTCTTCATCTTTCGTCTGCCCATCAGCTTAGACCTAG-GA
* *** * * *
117952 GACTTTTTCATCCACTGTCTACCTGTCGACTTAGACCCAAGAGACTTCCTTTAT-CAACTGTTTG
1 GACTTTTTCATCCACTGTCTACCCGTCGACTTAGACCTGGGAGACTT-CTTCATCCATC-GTCTG
* * * * * * * *
118016 CTCGTCGACTTTGACCCAAGAGACTTTCTTTATCTTTCGTCTGCCCGTCGGCTTAGAC
64 CCCATCGGCTTAGACCCGAGAGAC-TTCTTCATCTTTCGTCTGCCCATCAGCTTAGAC
118074 TCAACAGACT
Statistics
Matches: 986, Mismatches: 209, Indels: 116
0.75 0.16 0.09
Matches are distributed among these distances:
118 1 0.00
119 19 0.02
120 22 0.02
121 52 0.05
124 1 0.00
125 95 0.10
126 424 0.43
127 222 0.23
128 147 0.15
129 3 0.00
ACGTcount: A:0.20, C:0.29, G:0.17, T:0.34
Consensus pattern (126 bp):
GACTTTTTCATCCACTGTCTACCCGTCGACTTAGACCTGGGAGACTTCTTCATCCATCGTCTGCC
CATCGGCTTAGACCCGAGAGACTTCTTCATCTTTCGTCTGCCCATCAGCTTAGACCTAGGA
Found at i:117335 original size:42 final size:42
Alignment explanation
Indices: 116677--118465 Score: 579
Period size: 42 Copynumber: 42.5 Consensus size: 42
116667 AGTTTGCATG
* * * * * **
116677 TCGGCTTTGACCCTAGTGACTTCTTCATCCATCGTCTGCCTG
1 TCGGCTTAGACCCGAGAGACTTTTTCATCCTTCGTCTGCCCA
* * * * *
116719 TCGACTTAGACCCGGGTGACTTCCTT-ATCCATT-GTTTGCCCA
1 TCGGCTTAGACCCGAGAGACTT-TTTCATCC-TTCGTCTGCCCA
* * * * * ** *
116761 TCGGCTTAGACACAATAGACTTCTTCATCTTTCGTCTATCCG
1 TCGGCTTAGACCCGAGAGACTTTTTCATCCTTCGTCTGCCCA
** * * * *
116803 TCAACTTAGA-CCTAGGAGACTTTTTCATCC-ACTGTCTACCCG
1 TCGGCTTAGACCCGA-GAGACTTTTTCATCCTTC-GTCTGCCCA
* * * * *
116845 TCGACTTAGA-CCTAGGAGACTTCTTT-GTCCATCGTATG-CCA
1 TCGGCTTAGACCCGA-GAGACTT-TTTCATCCTTCGTCTGCCCA
* **
116886 GTCGGCTTAGACCCGAAAGACTTTTTCATTTTTCGTCTGCCCA
1 -TCGGCTTAGACCCGAGAGACTTTTTCATCCTTCGTCTGCCCA
* * ** * * * *
116929 TCAGCTTAGACCCGAGAAACTTTTTCATCCACCATCTACTCG
1 TCGGCTTAGACCCGAGAGACTTTTTCATCCTTCGTCTGCCCA
* * * * * *
116971 TCAGCTTAGACACGGGAGACATCCTTTATCA-ACTATC-TAT--CTA
1 TCGGCTTAGACCCGAGAGAC-T--TTT-TCATCCT-TCGTCTGCCCA
** * *
117014 TTAGCTTTGACCCGAGAGACTTTCTTCATCTTTCAG-CTGCCCA
1 TCGGCTTAGACCCGAGAGACTTT-TTCATCCTTC-GTCTGCCCA
* ** * * *
117057 TC-GATGTAGACTTGGGAGACTTCTTCATCC-ACTGT-TAGCCCA
1 TCGGCT-TAGACCCGAGAGACTTTTTCATCCTTC-GTCT-GCCCA
* * * * *
117099 TCGGCTTAGACCTGAGAGACTTCTTCATCCATCGTCTACTC-
1 TCGGCTTAGACCCGAGAGACTTTTTCATCCTTCGTCTGCCCA
* * * * *
117140 TCAGCTTAGACCCGAGAGACTTCTTCATCTTTCGTTTGCCCG
1 TCGGCTTAGACCCGAGAGACTTTTTCATCCTTCGTCTGCCCA
* * * * * * ** *
117182 TCGACTTAAACTCTG-GAGATTTTTTCATCC-ACTGTTTATCCT
1 TCGGCTTAGAC-CCGAGAGACTTTTTCATCCTTC-GTCTGCCCA
* * * * * *
117224 TCGGCTTAGACCCGGGAAACTTTTTCATCCATCTTCTGCTCG
1 TCGGCTTAGACCCGAGAGACTTTTTCATCCTTCGTCTGCCCA
** * *
117266 TCGATTTAGACTCG-GAAGA-TTTCTTCATCTTTCGTCTGCCCA
1 TCGGCTTAGACCCGAG-AGACTTT-TTCATCCTTCGTCTGCCCA
* * ** *
117308 TAGGCTTAGACCCAAGAGACTTTTTCATCCACCGT-T---TA
1 TCGGCTTAGACCCGAGAGACTTTTTCATCCTTCGTCTGCCCA
**
117346 -C--CTTAGACCCGAGAGACTTCCTTT-ATCAAC-T-AACTGCCCA
1 TCGGCTTAGACCCGAGAGACTT--TTTCATC--CTTCGTCTGCCCA
* * * * *
117386 TTGGCTTTGACCCGGGAGACTTTCTTCATCTTTCATCTGCCCA
1 TCGGCTTAGACCCGAGAGACTTT-TTCATCCTTCGTCTGCCCA
* * ** **
117429 TCGGCTTAGACTC-AGGAGACTTCTTCATCCACCGTCTGCCTG
1 TCGGCTTAGACCCGA-GAGACTTTTTCATCCTTCGTCTGCCCA
* * * * *
117471 TCGACTTAGACTCGCA-AGACTTCTTCATCCATAGTCTGCCCA
1 TCGGCTTAGACCCG-AGAGACTTTTTCATCCTTCGTCTGCCCA
** * * *
117513 TCTACTTAGATCCGAGAGACTTTTTCATCTTTCATCTGCCCA
1 TCGGCTTAGACCCGAGAGACTTTTTCATCCTTCGTCTGCCCA
** * * *
117555 TCGG-TATAGAGTCG-GAAAACTTTTTCATCCTCCGTCTACCCA
1 TCGGCT-TAGACCCGAG-AGACTTTTTCATCCTTCGTCTGCCCA
* * *
117597 TCGGCTTAGACCTGAGAGACTTTTTCATCCATCATCTGCCCA
1 TCGGCTTAGACCCGAGAGACTTTTTCATCCTTCGTCTGCCCA
* * * * * *
117639 TCAGCTTAGACTCGGGAGACTTCTTCATCTTTTGTCTGCCCA
1 TCGGCTTAGACCCGAGAGACTTTTTCATCCTTCGTCTGCCCA
* * * * * ***
117681 TCAGCTTAGACCCAGTGAAACTTTTTCATCTTTCGTCTACTTG
1 TCGGCTTAGACCC-GAGAGACTTTTTCATCCTTCGTCTGCCCA
* * * * * * *
117724 TCGGCTTAGACCTGGGAAACTTCTTCATCCATCGTTTGCCCG
1 TCGGCTTAGACCCGAGAGACTTTTTCATCCTTCGTCTGCCCA
* * * * *
117766 TCGGCTTGAAACTCGGGAGACTTCTTCATCTTTCGTCTGCCCA
1 TCGGCTT-AGACCCGAGAGACTTTTTCATCCTTCGTCTGCCCA
* * * ** ** *
117809 TCGGCTTAAACCTGTGAGACTTTTTCATCCACCGTCTATCGA
1 TCGGCTTAGACCCGAGAGACTTTTTCATCCTTCGTCTGCCCA
* * * * *
117851 TCGGCTTA-ATCTCGAGAGACTTCTTCATCCATCGTTTGCCTA
1 TCGGCTTAGA-CCCGAGAGACTTTTTCATCCTTCGTCTGCCCA
* * * * * * *
117893 TCGACTTAGACCCGAAAGCCTTTTTCATCTTTTGTTTGCCGA
1 TCGGCTTAGACCCGAGAGACTTTTTCATCCTTCGTCTGCCCA
* * * * * * **
117935 TCAGTTTAAACCTGAGAGACTTTTTCATCC-ACTGTCTACCTG
1 TCGGCTTAGACCCGAGAGACTTTTTCATCCTTC-GTCTGCCCA
* * * * *
117977 TCGACTTAGACCCAAGAGACTTCCTTT-ATCAAC-T-GTTTGCTCG
1 TCGGCTTAGACCCGAGAGACTT--TTTCATC--CTTCGTCTGCCCA
* * * * * *
118020 TCGACTTTGACCCAAGAGACTTTCTTTATCTTTCGTCTGCCCG
1 TCGGCTTAGACCCGAGAGACTTT-TTCATCCTTCGTCTGCCCA
* * * * ** *
118063 TCGGCTTAGACTCAACAGACTTCTTCA-CCCACTGTTTGCCCA
1 TCGGCTTAGACCCGAGAGACTTTTTCATCCTTC-GTCTGCCCA
* * * ** * **
118105 TCGGCTCAGTCCCAAGAGACTTCCTTT-ATCAATCGTCTACCTT
1 TCGGCTTAGACCCGAGAGACTT--TTTCATCCTTCGTCTGCCCA
* * * ** *
118148 TCGACTTAGACCCGGGAGACTTTTTTTATCAATCGTCTGCCCG
1 TCGGCTTAGACCCGAGAGAC-TTTTTCATCCTTCGTCTGCCCA
* * ** * * **
118191 TTGGCTTAGACCCGAGAGACTTCTTCATTTTTCATCTACTTA
1 TCGGCTTAGACCCGAGAGACTTTTTCATCCTTCGTCTGCCCA
* * * * **
118233 TTGGCTTAGACCTGAGAGGCTTCTTCATCCACCGTCTGCCCA
1 TCGGCTTAGACCCGAGAGACTTTTTCATCCTTCGTCTGCCCA
* * * * **
118275 TCGGTTTAGACCTGTGAGACTTCCTTCATCCACCGTCTGCCCA
1 TCGGCTTAGACCCGAGAGACTT-TTTCATCCTTCGTCTGCCCA
* * ** * **
118318 TTGGCTTAGTCTTGAGAGACCTTTTTTATCAATCGTCTGCCCA
1 TCGGCTTAGACCCGAGAGA-CTTTTTCATCCTTCGTCTGCCCA
* *** * * ***
118361 TCGACTTAGAGTTGAGAGA-TTTCTTCATCTTTTGTCT-ATTA
1 TCGGCTTAGACCCGAGAGACTTT-TTCATCCTTCGTCTGCCCA
* * ** * *
118402 TTGGCTTAGACACGAGAGGTTTTTTCATCC-ACTGTTTGCCCA
1 TCGGCTTAGACCCGAGAGACTTTTTCATCCTTC-GTCTGCCCA
*
118444 TCGACTTAGACCCGAGAGACTT
1 TCGGCTTAGACCCGAGAGACTT
118466 CTTTTATCAA
Statistics
Matches: 1285, Mismatches: 376, Indels: 172
0.70 0.21 0.09
Matches are distributed among these distances:
35 17 0.01
36 3 0.00
37 4 0.00
38 2 0.00
40 8 0.01
41 95 0.07
42 789 0.61
43 343 0.27
44 13 0.01
45 7 0.01
46 4 0.00
ACGTcount: A:0.20, C:0.29, G:0.17, T:0.34
Consensus pattern (42 bp):
TCGGCTTAGACCCGAGAGACTTTTTCATCCTTCGTCTGCCCA
Found at i:117794 original size:85 final size:84
Alignment explanation
Indices: 117525--117879 Score: 216
Period size: 85 Copynumber: 4.2 Consensus size: 84
117515 TACTTAGATC
* * * * * * * *
117525 CGAGAGACTTTTTCATCTTTCATCTGCCCATCGG-TATAGA-GTCGGAAAACTTTTTCATCCTCC
1 CGAGAGACTTCTTCATCTTTCGTCTACCCATCGGCT-TAAACCT-GGGAAACTTCTTCATCCACC
* *
117588 GTCTACCCATCGGCTTAGAC-
64 GTCTACCGATCGGCTTAAACT
* ** * * * * * ****
117608 CTGAGAGACTTTTTCATCCATCATCTGCCCATCAGCTTAGA-CTCGGGAGACTTCTTCATCTTTT
1 C-GAGAGACTTCTTCATCTTTCGTCTACCCATCGGCTTAAACCT-GGGAAACTTCTTCATCCACC
* * * * *
117672 GTCTGCCCATCAGCTTAGACC
64 GTCTACCGATCGGCTTAAACT
* * * *** * *
117693 CAGTGAAACTTTTTCATCTTTCGTCTACTTGTCGGCTTAGACCTGGGAAACTTCTTCATCCATCG
1 C-GAGAGACTTCTTCATCTTTCGTCTACCCATCGGCTTAAACCTGGGAAACTTCTTCATCCACCG
* *
117758 TTTGCCCG-TCGGCTTGAAACT
65 TCT-ACCGATCGGCTT-AAACT
* * * * *
117779 CGGGAGACTTCTTCATCTTTCGTCTGCCCATCGGCTTAAACCTGTGAGACTTTTTCATCCACCGT
1 CGAGAGACTTCTTCATCTTTCGTCTACCCATCGGCTTAAACCTGGGAAACTTCTTCATCCACCGT
* *
117844 CTATCGATCGGCTTAATCT
66 CTACCGATCGGCTTAAACT
117863 CGAGAGACTTCTTCATC
1 CGAGAGACTTCTTCATC
117880 CATCGTTTGC
Statistics
Matches: 215, Mismatches: 50, Indels: 13
0.77 0.18 0.05
Matches are distributed among these distances:
83 1 0.00
84 90 0.42
85 116 0.54
86 8 0.04
ACGTcount: A:0.20, C:0.29, G:0.17, T:0.34
Consensus pattern (84 bp):
CGAGAGACTTCTTCATCTTTCGTCTACCCATCGGCTTAAACCTGGGAAACTTCTTCATCCACCGT
CTACCGATCGGCTTAAACT
Found at i:118026 original size:43 final size:43
Alignment explanation
Indices: 117976--118213 Score: 169
Period size: 43 Copynumber: 5.6 Consensus size: 43
117966 CTGTCTACCT
*
117976 GTCGACTTAGACCCAAGAGACTTCCTTTATCAACTGTTTGCTC
1 GTCGACTTAGACCCAAGAGACTTCCTTTATCAACTGTTTGCCC
* * ** *
118019 GTCGACTTTGACCCAAGAGACTTTCTTTATC-TTTCGTCTGCCC
1 GTCGACTTAGACCCAAGAGACTTCCTTTATCAACT-GTTTGCCC
* * * * * *
118062 GTCGGCTTAGACTCAACAGACTT-CTTCACCCACTGTTTGCCC
1 GTCGACTTAGACCCAAGAGACTTCCTTTATCAACTGTTTGCCC
* * * * * * *
118104 ATCGGCTCAGTCCCAAGAGACTTCCTTTATCAA-TCGTCTACCT
1 GTCGACTTAGACCCAAGAGACTTCCTTTATCAACT-GTTTGCCC
* ** ** *
118147 TTCGACTTAGACCCGGGAGACTTTTTTTATCAA-TCGTCTGCCC
1 GTCGACTTAGACCCAAGAGACTTCCTTTATCAACT-GTTTGCCC
* * *
118190 GTTGGCTTAGACCCGAGAGACTTC
1 GTCGACTTAGACCCAAGAGACTTC
118214 TTCATTTTTC
Statistics
Matches: 150, Mismatches: 41, Indels: 8
0.75 0.21 0.04
Matches are distributed among these distances:
42 32 0.21
43 118 0.79
ACGTcount: A:0.20, C:0.30, G:0.18, T:0.32
Consensus pattern (43 bp):
GTCGACTTAGACCCAAGAGACTTCCTTTATCAACTGTTTGCCC
Found at i:118125 original size:128 final size:128
Alignment explanation
Indices: 117987--118217 Score: 313
Period size: 128 Copynumber: 1.8 Consensus size: 128
117977 TCGACTTAGA
** *
117987 CCCAAGAGACTTCCTTTATCAA-CTGT-TTGCTCGTCGACTTTGACCCAAGAGACTTTCTTTATC
1 CCCAAGAGACTTCCTTTATCAATC-GTCTACCT-GTCGACTTAGACCCAAGAGACTTTCTTTATC
** *
118050 TTTCGTCTGCCCGTCGGCTTAGACTCAACAGACTTCTTCACCCACTGTTTGCCCATCGGCTCAGT
64 AATCGTCTGCCCGTCGGCTTAGACCCAACAGACTTCTTCACCCACTGTTTGCCCATCGGCTCAGT
* ** *
118115 CCCAAGAGACTTCCTTTATCAATCGTCTACCTTTCGACTTAGACCCGGGAGACTTTTTTTATCAA
1 CCCAAGAGACTTCCTTTATCAATCGTCTACCTGTCGACTTAGACCCAAGAGACTTTCTTTATCAA
* * *
118180 TCGTCTGCCCGTTGGCTTAGACCCGAGAGACTTCTTCA
66 TCGTCTGCCCGTCGGCTTAGACCCAACAGACTTCTTCA
118218 TTTTTCATCT
Statistics
Matches: 88, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
128 84 0.95
129 4 0.05
ACGTcount: A:0.20, C:0.31, G:0.17, T:0.32
Consensus pattern (128 bp):
CCCAAGAGACTTCCTTTATCAATCGTCTACCTGTCGACTTAGACCCAAGAGACTTTCTTTATCAA
TCGTCTGCCCGTCGGCTTAGACCCAACAGACTTCTTCACCCACTGTTTGCCCATCGGCTCAGT
Found at i:118168 original size:85 final size:86
Alignment explanation
Indices: 117968--118169 Score: 217
Period size: 85 Copynumber: 2.4 Consensus size: 86
117958 TTCATCCACT
* * * * **
117968 GTCTACCTGTCGACTTAGACCCAAGAGACTTCCTTTATCAACTGTTTGCTCGTCGACTTTGACCC
1 GTCTACCTGTCGACTTAGACCCAAGAGACTTCCTTCACCAACTGTTTGCCCATCGACTCAGACCC
* **
118033 AAGAGACTTTCTTTATCTTTC
66 AAGAGACTTCCTTTATCAATC
* * * * * * * *
118054 GTCTGCCCGTCGGCTTAGACTCAACAGACTT-CTTCACCCACTGTTTGCCCATCGGCTCAGTCCC
1 GTCTACCTGTCGACTTAGACCCAAGAGACTTCCTTCACCAACTGTTTGCCCATCGACTCAGACCC
118118 AAGAGACTTCCTTTATCAATC
66 AAGAGACTTCCTTTATCAATC
* **
118139 GTCTACCTTTCGACTTAGACCCGGGAGACTT
1 GTCTACCTGTCGACTTAGACCCAAGAGACTT
118170 TTTTTATCAA
Statistics
Matches: 91, Mismatches: 25, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
85 65 0.71
86 26 0.29
ACGTcount: A:0.20, C:0.31, G:0.17, T:0.32
Consensus pattern (86 bp):
GTCTACCTGTCGACTTAGACCCAAGAGACTTCCTTCACCAACTGTTTGCCCATCGACTCAGACCC
AAGAGACTTCCTTTATCAATC
Found at i:118841 original size:84 final size:84
Alignment explanation
Indices: 118763--118926 Score: 224
Period size: 84 Copynumber: 2.0 Consensus size: 84
118753 TAGTCTTTGG
* * * *
118763 TAAACCCATTACCTTTATAGTGACCTGTCAGCTTAGTCT-TCAGTCAAC-CTTTATCCATTGTTT
1 TAAACCCATTACCCTTATAGTGACCTGTCAGCTCAGTCTCT-AGGCAACGC-TCATCCATTGTTT
118826 ACTCATCGACTTAGTCCCCGA
64 ACTCATCGACTTAGTCCCCGA
* * * *
118847 TAAACCCATTACCCTTGTGGTGACTTGTCAGCTCAGTCTCTGGGCAACGCTCATCCATTGTTTAC
1 TAAACCCATTACCCTTATAGTGACCTGTCAGCTCAGTCTCTAGGCAACGCTCATCCATTGTTTAC
118912 TCATCGACTTAGTCC
66 TCATCGACTTAGTCC
118927 TAACTAAATC
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
84 68 0.97
85 2 0.03
ACGTcount: A:0.22, C:0.29, G:0.15, T:0.34
Consensus pattern (84 bp):
TAAACCCATTACCCTTATAGTGACCTGTCAGCTCAGTCTCTAGGCAACGCTCATCCATTGTTTAC
TCATCGACTTAGTCCCCGA
Found at i:120018 original size:19 final size:20
Alignment explanation
Indices: 119996--120041 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
119986 AAAAGTATGG
119996 ATACATGCTC-ATTGTATCA
1 ATACATGCTCAATTGTATCA
**
120015 ATACACACTCAATTGTATCA
1 ATACATGCTCAATTGTATCA
120035 ATACATG
1 ATACATG
120042 AAACTGGCAG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.37, C:0.22, G:0.09, T:0.33
Consensus pattern (20 bp):
ATACATGCTCAATTGTATCA
Found at i:125059 original size:158 final size:157
Alignment explanation
Indices: 124405--125741 Score: 921
Period size: 157 Copynumber: 8.5 Consensus size: 157
124395 ATCTATAGTC
* * *
124405 CTTTTTAAGTCCCTTTAGGGTTACCTGGGATACTTTCACGTCGAAGGTATACCCCTAGGGGCATT
1 CTTTTTAAGT-CCTTTAGGGGTACC-GAGATACTTTCACGTCGAAGGTAT-CCCCTAAGGGCATT
* * * * *
124470 TT-TGT-TTTTTTTTCAGAACTGAGTCTTAGGTCATCACTGGATCCGCTTTTATGCCGAAGGT-A
63 TTCAGTATTTTTTCT-AGAACTGAGTCCTAGGTCATCACTGGGTCAGCTTTTATGCCGAAGGTGA
* * **
124532 GGCATTTAGGATAGGTTCATTCCTTTTAAAACC
127 -GCATTTAGGATAGGTTCATCCCATTT-AAAGT
* * * * * * *
124565 CATTTTACGCCCTTTAGAGGTACTGAGATACTTTCACATCGAAGGTATCTCCTAAGGGCATTTTC
1 CTTTTTAAGTCCTTTAGGGGTACCGAGATACTTTCACGTCGAAGGTATCCCCTAAGGGCATTTTC
* * ** * ** ** * *
124630 -GTAATTTCT-TAGAACCAACTCCTAGGTTGT-TGTCGGGTCTGCTTTTATGTC--AGGT-AGGC
66 AGTATTTTTTCTAGAACTGAGTCCTAGGTCATCACT-GGGTCAGCTTTTATGCCGAAGGTGA-GC
* **
124689 ATTTAGGATAGGTTCAT-CAATTTTAAAACC
129 ATTTAGGATAGGTTCATCCCA-TTT-AAAGT
* *
124719 CTTTTTAAGTCCTTTAGGGGTACC-AGGATACTTTCACGTCGAAGATAT-CTCTAAGGGCATTTT
1 CTTTTTAAGTCCTTTAGGGGTACCGA-GATACTTTCACGTCGAAGGTATCCCCTAAGGGCATTTT
* * * * * *
124782 CA-TAATTTTTTC-AAAAATGAGTCCTAGCTCATC-GTCGGGTCCGCTTTTATGCCAAAGGT-AG
65 CAGT-ATTTTTTCTAGAACTGAGTCCTAGGTCATCACT-GGGTCAGCTTTTATGCCGAAGGTGA-
* **
124843 GCATTTA-GATAGGTTCATCCCTTTTAAAAC
127 GCATTTAGGATAGGTTCATCCCATTTAAAGT
* * *
124873 CCTTTTAAGTCTTTTAGTGGTACCGAGATACTTTCACGTCGAAGGTATCCCCTAAGGGCATTTTC
1 CTTTTTAAGTCCTTTAGGGGTACCGAGATACTTTCACGTCGAAGGTATCCCCTAAGGGCATTTTC
* * ** *
124938 AGTACTTTTTTCTAGAACTAACTCGAAGGTCATCACTAGGTCAGCTTTTAT-CCTGAAGGTGAGC
66 AGTA-TTTTTTCTAGAACTGAGTCCTAGGTCATCACTGGGTCAGCTTTTATGCC-GAAGGTGAGC
* * *
125002 ATTTAGAATAGGCTCATCCCATTTCAAGT
129 ATTTAGGATAGGTTCATCCCATTTAAAGT
* *
125031 CTTTTTAAGTCCTTTAGGGGTACCGAGATACTTTCACGTCGAAGATATCCCCTAAAGGCATTTTC
1 CTTTTTAAGTCCTTTAGGGGTACCGAGATACTTTCACGTCGAAGGTATCCCCTAAGGGCATTTTC
* * * *
125096 A-TAATTTTTTCTAGAA-TCGAGTCTTAGGTTATCACCGGGTTCA-CTTTTATGCTGAAGGTG-G
66 AGT-ATTTTTTCTAGAACT-GAGTCCTAGGTCATCACTGGG-TCAGCTTTTATGCCGAAGGTGAG
**
125157 CCATTTAGGATAGGTTCATCACCATTTCTAGT
128 -CATTTAGGATAGGTTCATC-CCATTTAAAGT
* * * * * * *
125189 CTTTTTAAGTCCTTTA-GGGTCACCAAAAAACTTTTACGTCAAAGGTATACTCGT-AGGG-ATAT
1 CTTTTTAAGTCCTTTAGGGGT-ACCGAGATACTTTCACGTCGAAGGTAT-CCCCTAAGGGCAT-T
** * ** *
125251 TTTTGTAATTTTTCTTAGAA-TCGAGTCCTAGGTTGTCATTGGGTCCA-CTTTTATGCCGAAGGT
63 TTCAGTATTTTTTC-TAGAACT-GAGTCCTAGGTCATCACTGGGT-CAGCTTTTATGCCGAAGGT
* **
125314 GGGCATTTAGGATAGGTTCATCACCATTTCTAGT
125 GAGCATTTAGGATAGGTTCATC-CCATTTAAAGT
* * ** * * *
125348 CTTTTTAAGTCCTTTAGGGTTGT-CGGA-ATACTTTTATATCGAAGGTATACTCGT-GGGGACAT
1 CTTTTTAAGTCCTTTAGGG--GTACCGAGATACTTTCACGTCGAAGGTAT-CCCCTAAGGG-CAT
* * * *
125410 TTTCA-TA-ATTTTCTAGAAC-CAATGCCTAGGTCATCA-TCGGGTCTGCTTTTATGCCGAAGGT
62 TTTCAGTATTTTTTCTAGAACTGAGT-CCTAGGTCATCACT-GGGTCAGCTTTTATGCCGAAGGT
* * **
125471 GGGCATTTAGGATAGGTTCATCCCTTTTATGTGT
125 GAGCATTTAGGATAGGTTCATCCCATTTA-AAGT
* * * *
125505 CTTTTTAAGTCCTTTAGGTTGT---GAGGATACTTTTACGACGAAGGTATACCCCATAAGGGTAT
1 CTTTTTAAGTCCTTTAGG-GGTACCGA-GATACTTTCACGTCGAAGGTAT-CCCC-TAAGGGCAT
* * * * * *
125567 TTT-GGTA-ATTTT-TA-AAATCGAGTCCTAGGTTATCACTGAGTCCAG-TTTTATGCTGAAGGT
62 TTTCAGTATTTTTTCTAGAACT-GAGTCCTAGGTCATCACTGGGT-CAGCTTTTATGCCGAAGGT
* * *
125627 GGGTC-TTGAGGATAGGTTCATCCCTTTTATAA-T
125 GAG-CATTTAGGATAGGTTCATCCCATTTA-AAGT
* * * * *
125660 CCTTTTTAAGTCCTTTAGAGGTATC-AGGTACTTTTACGTCGAAGGTATCCCCTAAAGGCATTTT
1 -CTTTTTAAGTCCTTTAGGGGTACCGAGATACTTTCACGTCGAAGGTATCCCCTAAGGGCATTTT
* * *
125724 -TGTAATTTTTCTTGAACT
65 CAGTATTTTTTCTAGAACT
125742 TAGCTCTTTA
Statistics
Matches: 963, Mismatches: 152, Indels: 127
0.78 0.12 0.10
Matches are distributed among these distances:
153 17 0.02
154 169 0.18
155 46 0.05
156 181 0.19
157 219 0.23
158 180 0.19
159 132 0.14
160 15 0.02
161 2 0.00
162 2 0.00
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (157 bp):
CTTTTTAAGTCCTTTAGGGGTACCGAGATACTTTCACGTCGAAGGTATCCCCTAAGGGCATTTTC
AGTATTTTTTCTAGAACTGAGTCCTAGGTCATCACTGGGTCAGCTTTTATGCCGAAGGTGAGCAT
TTAGGATAGGTTCATCCCATTTAAAGT
Found at i:125424 original size:316 final size:312
Alignment explanation
Indices: 124719--125740 Score: 805
Period size: 316 Copynumber: 3.3 Consensus size: 312
124709 TTTTAAAACC
* * *
124719 CTTTTTAAGTCCTTTAGGGGTACC-AGGATACTTTCACGTCGAAGATAT-CTCTAAGGGCATTTT
1 CTTTTTAAGTCCTTTAGGGGTACCGA-GATACTTTCACATCGAAGATATCCCCTAAAGGCATTTT
* * ** * * ** ** *
124782 CATAATTTTTTCAAAAATGAGT-CCTAGCTCATCGTCGGGTCCGCTTTTATGCCAAAGGTAGG-C
65 CATAA-TTTTTCTAGAACCAATGCCTAGGTCATCACCGGGTCTACTTTTATGCCGAAGGT-GGCC
* * ** * * * * *
124845 ATTTA-GATAGGTTCATCCCTTTTA-AAACCCTTTTAAGTCTTTTAGTGGT-ACCGAGATACTTT
128 ATTTAGGATAGGTTCATCCCATTTATGAGTCTTTTTAAGTCCTTTA--GGTCACCAAAAAACTTT
* * * * * * * * * ** *
124907 CACGTCGAAGGTAT-CCCC-TAAGGGCATTTTCAGTACTTTTTTCTAGAA-CTAACTCGAAGGTC
191 TACGACAAAGGTATACCCCATAAGGGTATTTT-GGTA--ATTTT-TAAAATC-GAGTCCTAGGTT
* * * *
124969 ATCACT-AGGT-CAGCTTTTAT-CCTGAAGGTGAGCATTTAGAATAGGCTCATCCCATTTCAAGT
251 ATCACTGA-GTCCA-CTTTTATGCC-GAAGGTGGGCATTTAGGATAGGTTCATCCCATTTCTAGT
*
125031 CTTTTTAAGTCCTTTAGGGGTACCGAGATACTTTCACGTCGAAGATATCCCCTAAAGGCATTTTC
1 CTTTTTAAGTCCTTTAGGGGTACCGAGATACTTTCACATCGAAGATATCCCCTAAAGGCATTTTC
* * * * *
125096 ATAATTTTTTCTAGAATCGA-GTCTTAGGTTATCACCGGGT-TCACTTTTATGCTGAAGGTGGCC
66 ATAA-TTTTTCTAGAACCAATG-CCTAGGTCATCACCGGGTCT-ACTTTTATGCCGAAGGTGGCC
*
125159 ATTTAGGATAGGTTCATCACCATTTCT-AGTCTTTTTAAGTCCTTTAGGGTCACCAAAAAACTTT
128 ATTTAGGATAGGTTCATC-CCATTTATGAGTCTTTTTAAGTCCTTTA-GGTCACCAAAAAACTTT
* * * * * *
125223 TACGTCAAAGGTATA-CTCGT-AGGGATATTTTTGTAATTTTTCTTAGAATCGAGTCCTAGGTTG
191 TACGACAAAGGTATACCCCATAAGGG-TATTTTGGTAA--TTT-TTAAAATCGAGTCCTAGGTTA
* *
125286 TCATTGGGTCCACTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCACCATTTCTAGT
252 TCACTGAGTCCACTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATC-CCATTTCTAGT
* * * * * * **
125348 CTTTTTAAGTCCTTTAGGGTTGT-CGGA-ATACTTTTATATCGAAGGTATACTCGT-GGGGACAT
1 CTTTTTAAGTCCTTTAGGG--GTACCGAGATACTTTCACATCGAAGATAT-CCCCTAAAGG-CAT
* * *
125410 TTTCATAA-TTTTCTAGAACCAATGCCTAGGTCATCATCGGGTCTGCTTTTATGCCGAAGGTGGG
62 TTTCATAATTTTTCTAGAACCAATGCCTAGGTCATCACCGGGTCTACTTTTATGCCGAAGGTGGC
* * **** ** *
125474 CATTTAGGATAGGTTCATCCCTTTTATGTGTCTTTTTAAGTCCTTTAGGTTGTGAGGATACTTTT
127 CATTTAGGATAGGTTCATCCCATTTATGAGTCTTTTTAAGTCCTTTAGGTCACCAAAAAACTTTT
*
125539 ACGACGAAGGTATACCCCATAAGGGTATTTTGGTAATTTTTAAAATCGAGTCCTAGGTTATCACT
192 ACGACAAAGGTATACCCCATAAGGGTATTTTGGTAATTTTTAAAATCGAGTCCTAGGTTATCACT
* * * * * *
125604 GAGTCCAGTTTTATGCTGAAGGTGGGTC-TTGAGGATAGGTTCATCCCTTTTATAAT
257 GAGTCCACTTTTATGCCGAAGGTGGG-CATTTAGGATAGGTTCATCCCATTTCTAGT
* * * * * *
125660 CCTTTTTAAGTCCTTTAGAGGTATC-AGGTACTTTTACGTCGAAGGTATCCCCTAAAGGCATTTT
1 -CTTTTTAAGTCCTTTAGGGGTACCGAGATACTTTCACATCGAAGATATCCCCTAAAGGCATTTT
** *
125724 TGTAATTTTTCTTGAAC
65 CATAATTTTTCTAGAAC
125741 TTAGCTCTTT
Statistics
Matches: 575, Mismatches: 99, Indels: 72
0.77 0.13 0.10
Matches are distributed among these distances:
311 15 0.03
312 84 0.15
313 112 0.19
314 37 0.06
315 44 0.08
316 198 0.34
317 66 0.11
318 17 0.03
319 2 0.00
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.37
Consensus pattern (312 bp):
CTTTTTAAGTCCTTTAGGGGTACCGAGATACTTTCACATCGAAGATATCCCCTAAAGGCATTTTC
ATAATTTTTCTAGAACCAATGCCTAGGTCATCACCGGGTCTACTTTTATGCCGAAGGTGGCCATT
TAGGATAGGTTCATCCCATTTATGAGTCTTTTTAAGTCCTTTAGGTCACCAAAAAACTTTTACGA
CAAAGGTATACCCCATAAGGGTATTTTGGTAATTTTTAAAATCGAGTCCTAGGTTATCACTGAGT
CCACTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCATTTCTAGT
Found at i:127246 original size:80 final size:78
Alignment explanation
Indices: 126971--127356 Score: 341
Period size: 79 Copynumber: 4.9 Consensus size: 78
126961 ACGGGGTTAA
* * * * * * * *
126971 AGTATCCCCTCAAAAATAA-TGAGGTTAGAGTATCCCCGATGATGGAAAATTGATCTTTTGGAAA
1 AGTATCCCCTCAGAAATAACAG-GGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTTAGAAA
* * *
127035 TGAAATCGAGGTTGA
65 T-AAAACCAGGTTGG
* * *
127050 AGTATCCCCTCAAAAATAATAGGGTTGTAGTATCCCCGACT-GTGAAAAATCGATGTTTTAGAAA
1 AGTATCCCCTCAGAAATAACAGGGTTGGAGTATCCCCGA-TGGTGAAAAATCGATGTTTTAGAAA
* * *
127114 TAAAGCCGGGGTTTG
65 TAAAACC-AGGTTGG
* * * * *
127129 AGTATCTCCT-AGGAAATAACGGGGTTGGACTATCCCCGATTGTAAAAAATCGATGTTTTAGAAA
1 AGTATCCCCTCA-GAAATAACAGGGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTTAGAAA
* *
127193 TAAAAACTATGGCTGG
65 T-AAAACCA-GGTTGG
* * *
127209 AGTATCCCCTTAGAAATAACAGGGTTGGAGTATCCCCGATGGTGGAAAAT-TAGTGTTTTAGAAA
1 AGTATCCCCTCAGAAATAACAGGGTTGGAGTATCCCCGATGGTGAAAAATCGA-TGTTTTAGAAA
127273 TAAAACCAGGATTGG
65 TAAAACCAGG-TTGG
* * * * * * *
127288 AGTATCTCCTCGGAAACAAC-GAGGTTGAAGTATCTCCGATGGTGGAAAATCGATATTTTAGAAA
1 AGTATCCCCTCAGAAATAACAG-GGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTTAGAAA
127352 TAAAA
65 TAAAA
127357 ACATGAATGA
Statistics
Matches: 253, Mismatches: 42, Indels: 24
0.79 0.13 0.08
Matches are distributed among these distances:
78 9 0.04
79 178 0.70
80 65 0.26
81 1 0.00
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (78 bp):
AGTATCCCCTCAGAAATAACAGGGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTTAGAAAT
AAAACCAGGTTGG
Found at i:127266 original size:159 final size:159
Alignment explanation
Indices: 127050--127358 Score: 406
Period size: 159 Copynumber: 1.9 Consensus size: 159
127040 TCGAGGTTGA
* * *
127050 AGTATCCCCTCAAAAATAATAGGGTTGTAGTATCCCCGACTGTGAAAAATCGATGTTTTAGAAAT
1 AGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCCCGACTGTGAAAAATAGATGTTTTAGAAAT
* * * * * * * *
127115 AAAGCCGGGGTTTGAGTATCTCCTAGGAAATAACGGGGTTGGACTATCCCCGATTGTAAAAAATC
66 AAAACCAGGATTGGAGTATCTCCTAGGAAACAACGAGGTTGAACTATCCCCGATGGTAAAAAATC
*
127180 GATGTTTTAGAAATAAAAACTATGGCTGG
131 GATATTTTAGAAATAAAAACTATGGCTGG
* * *
127209 AGTATCCCCTTAGAAATAACAGGGTTGGAGTATCCCCGA-TGGTGGAAAATTAG-TGTTTTAGAA
1 AGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCCCGACT-GT-GAAAAATAGATGTTTTAGAA
* * * **
127272 ATAAAACCAGGATTGGAGTATCTCCTCGGAAACAACGAGGTTGAAGTATCTCCGATGGTGGAAAA
64 ATAAAACCAGGATTGGAGTATCTCCTAGGAAACAACGAGGTTGAACTATCCCCGATGGTAAAAAA
127337 TCGATATTTTAGAAATAAAAAC
129 TCGATATTTTAGAAATAAAAAC
127359 ATGAATGAAA
Statistics
Matches: 128, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
158 1 0.01
159 120 0.94
160 7 0.05
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (159 bp):
AGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCCCGACTGTGAAAAATAGATGTTTTAGAAAT
AAAACCAGGATTGGAGTATCTCCTAGGAAACAACGAGGTTGAACTATCCCCGATGGTAAAAAATC
GATATTTTAGAAATAAAAACTATGGCTGG
Found at i:135639 original size:20 final size:20
Alignment explanation
Indices: 135614--135658 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
135604 CTATGTCCAA
*
135614 AAAAATCAATAAAAAATGTC
1 AAAAATCAACAAAAAATGTC
* * *
135634 AAAAATTACCAAAAAATGTT
1 AAAAATCAACAAAAAATGTC
135654 AAAAA
1 AAAAA
135659 AGGAAAAAGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.67, C:0.09, G:0.04, T:0.20
Consensus pattern (20 bp):
AAAAATCAACAAAAAATGTC
Found at i:137416 original size:20 final size:20
Alignment explanation
Indices: 137391--137547 Score: 116
Period size: 20 Copynumber: 7.8 Consensus size: 20
137381 TTTTCACAAT
137391 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
137411 TTGTATCGATACATTCTGGGTTTACCCA
1 TTGTATCGATACA-T-T--G-TT---CA
*
137439 GATGTATCGATACATT-TTGCA
1 -TTGTATCGATACATTGTT-CA
*
137460 TTGTATCGATACATTGCTCA
1 TTGTATCGATACATTGTTCA
*
137480 TTGTATC---A-A---TACA
1 TTGTATCGATACATTGTTCA
137493 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
137513 TTGTATCGATACATT-TTACA
1 TTGTATCGATACATTGTT-CA
*
137533 ATGTATCGATACATT
1 TTGTATCGATACATT
137548 CAGGCATTTT
Statistics
Matches: 111, Mismatches: 8, Indels: 36
0.72 0.05 0.23
Matches are distributed among these distances:
13 9 0.08
16 2 0.02
17 2 0.02
19 2 0.02
20 70 0.63
21 4 0.04
22 1 0.01
23 2 0.02
24 1 0.01
25 2 0.02
27 1 0.01
28 3 0.03
29 12 0.11
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.41
Consensus pattern (20 bp):
TTGTATCGATACATTGTTCA
Found at i:137447 original size:49 final size:53
Alignment explanation
Indices: 137391--137527 Score: 169
Period size: 49 Copynumber: 2.7 Consensus size: 53
137381 TTTTCACAAT
** * *
137391 TTGTATCGATACATTGTTCATTGTATCGATACATT-CTGGGTT-TA-C-CCAGA
1 TTGTATCGATACATTGTTCATTGTATCGATACATTGCT-CATTGTATCAACACA
*
137441 -TGTATCGATACATT-TTGCATTGTATCGATACATTGCTCATTGTATCAATACA
1 TTGTATCGATACATTGTT-CATTGTATCGATACATTGCTCATTGTATCAACACA
137493 TTGTATCGATACATTGTTCATTGTATCGATACATT
1 TTGTATCGATACATTGTTCATTGTATCGATACATT
137528 TTACAATGTA
Statistics
Matches: 75, Mismatches: 5, Indels: 11
0.82 0.05 0.12
Matches are distributed among these distances:
48 2 0.03
49 33 0.44
50 4 0.05
51 1 0.01
52 2 0.03
53 31 0.41
54 2 0.03
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.42
Consensus pattern (53 bp):
TTGTATCGATACATTGTTCATTGTATCGATACATTGCTCATTGTATCAACACA
Found at i:137500 original size:33 final size:33
Alignment explanation
Indices: 137458--137527 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
137448 ATACATTTTG
137458 CATTGTATCGATACATTGCTCATTGTATCAATA
1 CATTGTATCGATACATTGCTCATTGTATCAATA
* *
137491 CATTGTATCGATACATTGTTCATTGTATCGATA
1 CATTGTATCGATACATTGCTCATTGTATCAATA
137524 CATT
1 CATT
137528 TTACAATGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.41
Consensus pattern (33 bp):
CATTGTATCGATACATTGCTCATTGTATCAATA
Found at i:137527 original size:13 final size:13
Alignment explanation
Indices: 137478--137509 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
137468 ATACATTGCT
137478 CATTGTATCAATA
1 CATTGTATCAATA
*
137491 CATTGTATCGATA
1 CATTGTATCAATA
137504 CATTGT
1 CATTGT
137510 TCATTGTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (13 bp):
CATTGTATCAATA
Found at i:139918 original size:51 final size:51
Alignment explanation
Indices: 139863--140006 Score: 171
Period size: 51 Copynumber: 2.8 Consensus size: 51
139853 CCCCGGTTCC
* **
139863 ATTTCCAAAACATCAATTTTTCTTAATCGGGGATACTCCAACTCCGATTTT
1 ATTTCCAAAACATCAATTTTCCGCAATCGGGGATACTCCAACTCCGATTTT
* * * * *
139914 ATTTCTAAAGCATCGATTTACCGCGATCGGGGATACTCCAACTCCGATTTT
1 ATTTCCAAAACATCAATTTTCCGCAATCGGGGATACTCCAACTCCGATTTT
* * * **
139965 ATTTCCAAAACACCAATTTTGCACAATTAGGGATACTCCAAC
1 ATTTCCAAAACATCAATTTTCCGCAATCGGGGATACTCCAAC
140007 CCCGTTATTT
Statistics
Matches: 75, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
51 75 1.00
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.32
Consensus pattern (51 bp):
ATTTCCAAAACATCAATTTTCCGCAATCGGGGATACTCCAACTCCGATTTT
Found at i:140111 original size:28 final size:28
Alignment explanation
Indices: 140075--140145 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
140065 TTTCATAATC
* **
140075 GGGAGTACTCCAGCCCCGTTATTTCATCG
1 GGGA-TACTCCAACCCCGTTATTTCAGAG
* * *
140104 GGGATACTCCAATCCTGTTATTTCCGAG
1 GGGATACTCCAACCCCGTTATTTCAGAG
140132 GGGATACTCCAACC
1 GGGATACTCCAACC
140146 TCGATTTTAT
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
28 31 0.89
29 4 0.11
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.27
Consensus pattern (28 bp):
GGGATACTCCAACCCCGTTATTTCAGAG
Found at i:140368 original size:79 final size:80
Alignment explanation
Indices: 140259--140419 Score: 254
Period size: 79 Copynumber: 2.0 Consensus size: 80
140249 CCCAGCCTTA
*
140259 TTTCTAAATCATCGATTTTTCACAATCAGGGATACTCCAACCCTGTTATTTTCGAAAGGATACTC
1 TTTCAAAATCATCGATTTTTCACAATCAGGGATACTCCAACCCTGTTATTTTCGAAAGGATACTC
*
140324 TAACCCCGATTTTAT
66 CAACCCCGATTTTAT
* **
140339 TTTCAAAAT-ATCGA-TTTTCTATAATCAGGGATACTCCAACCCTGTTATTTTCGAGGGGATACT
1 TTTCAAAATCATCGATTTTTC-ACAATCAGGGATACTCCAACCCTGTTATTTTCGAAAGGATACT
140402 CCAACCCCGATTTTAT
65 CCAACCCCGATTTTAT
140418 TT
1 TT
140420 CTGGAACACC
Statistics
Matches: 75, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
78 5 0.07
79 62 0.83
80 8 0.11
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.37
Consensus pattern (80 bp):
TTTCAAAATCATCGATTTTTCACAATCAGGGATACTCCAACCCTGTTATTTTCGAAAGGATACTC
CAACCCCGATTTTAT
Found at i:140435 original size:79 final size:79
Alignment explanation
Indices: 140273--140454 Score: 240
Period size: 79 Copynumber: 2.3 Consensus size: 79
140263 TAAATCATCG
* * *
140273 ATTTTTCACAATCAGGGATACTCCAACCCTGTTATTTTCGAAAGGATACTCTAACCCCGATTTTA
1 ATTTTCCATAATCAGGGATACTCCAACCCTGTTATTTTCGAAAGGATACTCCAACCCCGATTTTA
* * *
140338 TTTTCAAAATATCG
66 TTTTCAAAACACCA
* **
140352 ATTTTCTATAATCAGGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAACCCCGATTTTA
1 ATTTTCCATAATCAGGGATACTCCAACCCTGTTATTTTCGAAAGGATACTCCAACCCCGATTTTA
**
140417 -TTTCTGGAACACCA
66 TTTTC-AAAACACCA
*
140431 ATTTTCCATAATCGGGGATACTCC
1 ATTTTCCATAATCAGGGATACTCC
140455 GGCCCCGTTG
Statistics
Matches: 89, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
78 4 0.04
79 85 0.96
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (79 bp):
ATTTTCCATAATCAGGGATACTCCAACCCTGTTATTTTCGAAAGGATACTCCAACCCCGATTTTA
TTTTCAAAACACCA
Found at i:145445 original size:97 final size:96
Alignment explanation
Indices: 145269--145467 Score: 247
Period size: 97 Copynumber: 2.1 Consensus size: 96
145259 GCAGCACCCA
* * * * * * *
145269 AAAAGCCACATGAGCTGGTGGCATCCTTTTTTAAAGCCCGCACGATCTGGCGGCACCCAAAAATC
1 AAAAGCCACATGACCTGGTGGCATCCTTTTTCAAAGCCCGCACAAGCTAGCAGCACCCAAAAAGC
* *
145334 CCACACAAGTTGGTGGCGCTCAAACCTTTCC
66 CCACACAAGCTGGTGGCACTCAAACCTTTCC
* *
145365 AAAAGCCTACATGACCTGGTGGCAT-CTTTTCTCAATGCCTGCACAAGCTAGCAGCACCCAAAAA
1 AAAAGCC-ACATGACCTGGTGGCATCCTTTT-TCAAAGCCCGCACAAGCTAGCAGCACCCAAAAA
* * *
145429 GCTCACATAAGCTGGTGGCATTCAAACCTTTCC
64 GCCCACACAAGCTGGTGGCACTCAAACCTTTCC
145462 AAAAGC
1 AAAAGC
145468 TTAAACGAGC
Statistics
Matches: 87, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
96 12 0.14
97 75 0.86
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (96 bp):
AAAAGCCACATGACCTGGTGGCATCCTTTTTCAAAGCCCGCACAAGCTAGCAGCACCCAAAAAGC
CCACACAAGCTGGTGGCACTCAAACCTTTCC
Found at i:145645 original size:79 final size:76
Alignment explanation
Indices: 145512--145790 Score: 231
Period size: 79 Copynumber: 3.6 Consensus size: 76
145502 AACCGATGGC
* * * *
145512 ATCTTCTT-CTAAG-CTCAATATCGCTAGCCTTGAATCAGCACATTAGCATTCTGCCCTAGTCAT
1 ATCTTCTTCCTAAGCCT-AATGTCACTAACCTTGAATCAGCACATTGGCA-TCTG-CCTAGTCAT
145575 GCGGCATCTGTTAA
63 GCGGCATCTGTTAA
* * * * * *
145589 AACTTCTTTCTCAAGCCTAATGTCACTAACCTTGAATGAGTACATTGGCACCCTGCCTATGTCAA
1 ATCTTCTTCCT-AAGCCTAATGTCACTAACCTTGAATCAGCACATTGGCA-TCTGCCTA-GTCAT
** *
145654 AAGGCA-CTTGTCAA
63 GCGGCATC-TGTTAA
* * * * *
145668 ATCTTCTACGCTAAAGCCCAATGGCACTGACCTTGAATCAGCACATTGGCATCTTACCTAAGTCA
1 ATCTTCTTC-CT-AAGCCTAATGTCACTAACCTTGAATCAGCACATTGGCATC-TGCCT-AGTCA
145733 TGCGGCATCTGTTTAA
62 TGCGGCATCTG-TTAA
* * * *
145749 ATCTTCTTCCTAAGCTTAATGTCCCTAGCCTTGAATTAGCAC
1 ATCTTCTTCCTAAGCCTAATGTCACTAACCTTGAATCAGCAC
145791 CCCATTTATG
Statistics
Matches: 156, Mismatches: 36, Indels: 18
0.74 0.17 0.09
Matches are distributed among these distances:
77 7 0.04
78 7 0.04
79 76 0.49
80 53 0.34
81 13 0.08
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (76 bp):
ATCTTCTTCCTAAGCCTAATGTCACTAACCTTGAATCAGCACATTGGCATCTGCCTAGTCATGCG
GCATCTGTTAA
Found at i:146703 original size:20 final size:21
Alignment explanation
Indices: 146661--146711 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 21
146651 TTTCTACAAT
* *
146661 TATATCGATACAATAATTTAA
1 TATATCGATACAATAAATGAA
146682 TATATCGATAC-ATAAATGAA
1 TATATCGATACAATAAATGAA
146702 TATATCGATA
1 TATATCGATA
146712 TATGCTTGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.35
Consensus pattern (21 bp):
TATATCGATACAATAAATGAA
Found at i:146881 original size:52 final size:52
Alignment explanation
Indices: 146819--146927 Score: 209
Period size: 52 Copynumber: 2.1 Consensus size: 52
146809 TGCAATATAC
*
146819 CGATACATTATTTATTGTATCAATACATTATGGGTTTTTGACCCAAATGTAT
1 CGATACATTATTTATTATATCAATACATTATGGGTTTTTGACCCAAATGTAT
146871 CGATACATTATTTATTATATCAATACATTATGGGTTTTTGACCCAAATGTAT
1 CGATACATTATTTATTATATCAATACATTATGGGTTTTTGACCCAAATGTAT
146923 CGATA
1 CGATA
146928 TATTCAGGCA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 56 1.00
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.41
Consensus pattern (52 bp):
CGATACATTATTTATTATATCAATACATTATGGGTTTTTGACCCAAATGTAT
Found at i:150575 original size:20 final size:21
Alignment explanation
Indices: 150531--150582 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
150521 TTCTATAATT
150531 TGTATCGATACAACAAGTCAA
1 TGTATCGATACAACAAGTCAA
* * *
150552 TGTATCGATAC-ATAGGTGAA
1 TGTATCGATACAACAAGTCAA
150572 TGTATCGATAC
1 TGTATCGATAC
150583 TAAGGCTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (21 bp):
TGTATCGATACAACAAGTCAA
Found at i:155220 original size:21 final size:20
Alignment explanation
Indices: 155196--155235 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
155186 AACGTGTGAT
*
155196 TTAATTTTAGTTTAAATTTTA
1 TTAAATTTAGTTT-AATTTTA
155217 TTAAATTTAGTTTAATTTT
1 TTAAATTTAGTTTAATTTT
155236 GATTTAGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (20 bp):
TTAAATTTAGTTTAATTTTA
Found at i:155233 original size:10 final size:11
Alignment explanation
Indices: 155195--155235 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
155185 TAACGTGTGA
155195 TTTAATTTTAG
1 TTTAATTTTAG
155206 TTTAAATTTTA-
1 TTT-AATTTTAG
*
155217 -TTAAATTTAG
1 TTTAATTTTAG
155227 TTTAATTTT
1 TTTAATTTT
155236 GATTTAGATA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
9 6 0.24
10 2 0.08
11 10 0.40
12 7 0.28
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (11 bp):
TTTAATTTTAG
Found at i:155388 original size:19 final size:19
Alignment explanation
Indices: 155366--155404 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
155356 ATATTTTATT
* *
155366 TTAAAATTATTATTAAAAA
1 TTAAAAATATTATAAAAAA
155385 TTAAAAATATTATAAAAAA
1 TTAAAAATATTATAAAAAA
155404 T
1 T
155405 ATATTTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TTAAAAATATTATAAAAAA
Found at i:156117 original size:11 final size:11
Alignment explanation
Indices: 156101--156144 Score: 54
Period size: 12 Copynumber: 3.9 Consensus size: 11
156091 AAATATTAAA
156101 ATTAATTTTAT
1 ATTAATTTTAT
156112 ATTAATATTTAT
1 ATTAAT-TTTAT
156124 A-TAATTTTATT
1 ATTAATTTTA-T
*
156135 ATTAAATTTA
1 ATTAATTTTA
156145 AATAAAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
10 4 0.14
11 12 0.41
12 13 0.45
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
ATTAATTTTAT
Found at i:156118 original size:23 final size:24
Alignment explanation
Indices: 156092--156147 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 24
156082 ATTTTTAAAA
*
156092 AATATTAAAATTAATTTTA-TATT
1 AATATTTAAATTAATTTTATTATT
*
156115 AATATTTATA-TAATTTTATTATT
1 AATATTTAAATTAATTTTATTATT
156138 AA-ATTTAAAT
1 AATATTTAAAT
156148 AAAAATATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
AATATTTAAATTAATTTTATTATT
Found at i:156928 original size:2 final size:2
Alignment explanation
Indices: 156923--156953 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
156913 TCACCTACTC
156923 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
156954 ACAATTGATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:166172 original size:20 final size:20
Alignment explanation
Indices: 166147--166185 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
166137 AATTGTAAGC
166147 ATGTATCGATACATTTTCTA
1 ATGTATCGATACATTTTCTA
166167 ATGTATCGATACATTTTCT
1 ATGTATCGATACATTTTCT
166186 TGGCAGTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.28, C:0.15, G:0.10, T:0.46
Consensus pattern (20 bp):
ATGTATCGATACATTTTCTA
Found at i:166897 original size:87 final size:87
Alignment explanation
Indices: 166803--166975 Score: 283
Period size: 87 Copynumber: 2.0 Consensus size: 87
166793 GGTTTTGGTT
* * **
166803 TTCTAAGGCTTAACCTCCTTAGGCAGGTGCCAACTAATGTGGACTTGACTCGGACTTAGGTGCCA
1 TTCTAAGGCTTAACCTCCTTAGACAAGTGCCAACTAATGTGGACTTGACTCAAACTTAGGTGCCA
*
166868 CCAACTTGTGTGGACTTTGACA
66 CCAACTCGTGTGGACTTTGACA
*
166890 TTCTAAGGCTTAACCTCCTTAGACAAGTGCCAACTAATGTGGACTTGACTCAAACTTAGGTGTCA
1 TTCTAAGGCTTAACCTCCTTAGACAAGTGCCAACTAATGTGGACTTGACTCAAACTTAGGTGCCA
*
166955 CCAACTCGTGTGGGCTTTGAC
66 CCAACTCGTGTGGACTTTGAC
166976 TTGGGTGCCG
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 79 1.00
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (87 bp):
TTCTAAGGCTTAACCTCCTTAGACAAGTGCCAACTAATGTGGACTTGACTCAAACTTAGGTGCCA
CCAACTCGTGTGGACTTTGACA
Found at i:166999 original size:31 final size:31
Alignment explanation
Indices: 166955--167159 Score: 191
Period size: 31 Copynumber: 6.6 Consensus size: 31
166945 TTAGGTGTCA
*
166955 CCAACTCGTGTGGGCTTTGACTTGGGTGCCG
1 CCAACTTGTGTGGGCTTTGACTTGGGTGCCG
* * *
166986 CCAATTTGTGTGGGCTTTGACTAGGGTGCCA
1 CCAACTTGTGTGGGCTTTGACTTGGGTGCCG
* * *
167017 CCAACTTGTGTGAGCTTAGACTCGGGTGCC-
1 CCAACTTGTGTGGGCTTTGACTTGGGTGCCG
* * * *
167047 ACAACTTGTGTGGG-TTTAGACTTAGATGCCA
1 CCAACTTGTGTGGGCTTT-GACTTGGGTGCCG
* * ** *
167078 CCACCTTGTGTGGGCTTTAACTCAGGTGCTG
1 CCAACTTGTGTGGGCTTTGACTTGGGTGCCG
* * * *
167109 CCAGCTTATGTGGGCTTTGACTCT-TGTGTCG
1 CCAACTTGTGTGGGCTTTGACT-TGGGTGCCG
167140 CCAACTTGTGTGGGCTTTGA
1 CCAACTTGTGTGGGCTTTGA
167160 AAGGAGTGTG
Statistics
Matches: 140, Mismatches: 30, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
29 2 0.01
30 21 0.15
31 114 0.81
32 3 0.02
ACGTcount: A:0.15, C:0.22, G:0.30, T:0.32
Consensus pattern (31 bp):
CCAACTTGTGTGGGCTTTGACTTGGGTGCCG
Found at i:167028 original size:62 final size:61
Alignment explanation
Indices: 166946--167159 Score: 216
Period size: 62 Copynumber: 3.5 Consensus size: 61
166936 GACTCAAACT
* * * *
166946 TAGGTGTCACCAACTCGTGTGGGCTTTGACTTGGGTGCCGCCAATTTGTGTGGGCTTTGAC
1 TAGGTGCCACCAACTTGTGTGGGCTTTGACTCGGGTGCCGCCAACTTGTGTGGGCTTTGAC
* * *
167007 TAGGGTGCCACCAACTTGTGTGAGCTTAGACTCGGGTGCC-ACAACTTGTGTGGG-TTTAGAC
1 TA-GGTGCCACCAACTTGTGTGGGCTTTGACTCGGGTGCCGCCAACTTGTGTGGGCTTT-GAC
* * * * * * *
167068 TTAGATGCCACCACCTTGTGTGGGCTTTAACTCAGGTGCTGCCAGCTTATGTGGGCTTTGAC
1 -TAGGTGCCACCAACTTGTGTGGGCTTTGACTCGGGTGCCGCCAACTTGTGTGGGCTTTGAC
** * *
167130 TCTTGTGTCGCCAACTTGTGTGGGCTTTGA
1 T-AGGTGCCACCAACTTGTGTGGGCTTTGA
167160 AAGGAGTGTG
Statistics
Matches: 123, Mismatches: 24, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
60 3 0.02
61 48 0.39
62 69 0.56
63 3 0.02
ACGTcount: A:0.15, C:0.22, G:0.30, T:0.32
Consensus pattern (61 bp):
TAGGTGCCACCAACTTGTGTGGGCTTTGACTCGGGTGCCGCCAACTTGTGTGGGCTTTGAC
Found at i:167131 original size:92 final size:93
Alignment explanation
Indices: 166948--167159 Score: 225
Period size: 92 Copynumber: 2.3 Consensus size: 93
166938 CTCAAACTTA
* * * * * * *
166948 GGTGTCACCAACTCGTGTGGGCTTTGACTTGGGTGCCGCCAATTTGTGTGGGCTTTGACTAGGGT
1 GGTGTCGCCAACTTGTGTGGGCTTTGACTTAGATGCCACCAACTTGTGTGGGCTTTAACTAGGGT
*
167013 GCCACCAACTTGTGTGAGCTTAGACTCG
66 GCCACCAACTTATGTGAGCTTAGACTCG
*
167041 GGTG-C-CACAACTTGTGTGGG-TTTAGACTTAGATGCCACCACCTTGTGTGGGCTTTAACTCA-
1 GGTGTCGC-CAACTTGTGTGGGCTTT-GACTTAGATGCCACCAACTTGTGTGGGCTTTAACT-AG
** * * * *
167102 GGTGCTGCCAGCTTATGTGGGCTTTGACTCT
63 GGTGCCACCAACTTATGTGAGCTTAGACTCG
*
167133 TGTGTCGCCAACTTGTGTGGGCTTTGA
1 GGTGTCGCCAACTTGTGTGGGCTTTGA
167160 AAGGAGTGTG
Statistics
Matches: 98, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
91 4 0.04
92 69 0.70
93 21 0.21
94 4 0.04
ACGTcount: A:0.15, C:0.22, G:0.31, T:0.32
Consensus pattern (93 bp):
GGTGTCGCCAACTTGTGTGGGCTTTGACTTAGATGCCACCAACTTGTGTGGGCTTTAACTAGGGT
GCCACCAACTTATGTGAGCTTAGACTCG
Found at i:167228 original size:40 final size:41
Alignment explanation
Indices: 167171--167323 Score: 134
Period size: 43 Copynumber: 3.7 Consensus size: 41
167161 AGGAGTGTGC
* *
167171 GTCCTGCTCTTTAAGGACAAA-AGAAAAAGAGATGAAGTAA
1 GTCCTGCTCCTTGAGGACAAAGAGAAAAAGAGATGAAGTAA
* * **
167211 GTCCTGCTCCTTGAGGACAAAG-GGAAAAGAAGAATGAAATGG
1 GTCCTGCTCCTTGAGGACAAAGAGAAAAAG-AG-ATGAAGTAA
* * *
167253 GTCCTGC-CCTTTGAGGACAAAGAAAAAAAGAGA-AAAGGAAA
1 GTCCTGCTCC-TTGAGGACAAAGAGAAAAAGAGATGAA-GTAA
*
167294 GTGTCCTGCTTCTTGAGGACAAAGAGAAAA
1 --GTCCTGCTCCTTGAGGACAAAGAGAAAA
167324 TAAGTGTGTT
Statistics
Matches: 89, Mismatches: 15, Indels: 15
0.75 0.13 0.13
Matches are distributed among these distances:
40 27 0.30
41 5 0.06
42 27 0.30
43 29 0.33
44 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.26, T:0.18
Consensus pattern (41 bp):
GTCCTGCTCCTTGAGGACAAAGAGAAAAAGAGATGAAGTAA
Found at i:167267 original size:42 final size:40
Alignment explanation
Indices: 167171--167285 Score: 115
Period size: 42 Copynumber: 2.8 Consensus size: 40
167161 AGGAGTGTGC
* * * *
167171 GTCCTGCTCTTTAAGGACAAAAGAAAAAGAGATGAAGTAA
1 GTCCTGCCCTTTGAGGACAAAGGAAAAAGAGATGAAATAA
* **
167211 GTCCTGCTCC-TTGAGGACAAAGGGAAAAGAAGAATGAAATGG
1 GTCCTGC-CCTTTGAGGACAAAGGAAAAAG-AG-ATGAAATAA
*
167253 GTCCTGCCCTTTGAGGACAAAGAAAAAAAGAGA
1 GTCCTGCCCTTTGAGGACAAAG-GAAAAAGAGA
167286 AAAGGAAAGT
Statistics
Matches: 61, Mismatches: 9, Indels: 9
0.77 0.11 0.11
Matches are distributed among these distances:
40 23 0.38
41 6 0.10
42 27 0.44
43 5 0.08
ACGTcount: A:0.42, C:0.15, G:0.26, T:0.17
Consensus pattern (40 bp):
GTCCTGCCCTTTGAGGACAAAGGAAAAAGAGATGAAATAA
Found at i:168511 original size:15 final size:15
Alignment explanation
Indices: 168486--168527 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
168476 CCTCTTTTCC
*
168486 TTCTTTTTTTTTTGT
1 TTCTTGTTTTTTTGT
*
168501 TT-TTGTGTTTTTGT
1 TTCTTGTTTTTTTGT
168515 TTCTTGTTTTTTT
1 TTCTTGTTTTTTT
168528 TAGGCATAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.00, C:0.05, G:0.12, T:0.83
Consensus pattern (15 bp):
TTCTTGTTTTTTTGT
Found at i:180638 original size:27 final size:27
Alignment explanation
Indices: 180608--180669 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
180598 TTGAAGAAAA
*
180608 GCGGGGTTGGAGTACCCTCTCAGAAGG
1 GCGGGGTTGGAGTACCCCCTCAGAAGG
180635 GCGGGGTTGGAGTACCCCCTCAGAAGG
1 GCGGGGTTGGAGTACCCCCTCAGAAGG
*
180662 GCAGGGTT
1 GCGGGGTT
180670 AGACTATCCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.18, C:0.23, G:0.42, T:0.18
Consensus pattern (27 bp):
GCGGGGTTGGAGTACCCCCTCAGAAGG
Found at i:191307 original size:25 final size:24
Alignment explanation
Indices: 191260--191310 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
191250 TTTGGTAAGA
*
191260 TTGATTTTTATTTAACTTGATAAT
1 TTGATTTTTATTTAACTTAATAAT
191284 TTGATTTTTATTTTATA-TTAATAAT
1 TTGATTTTTA-TTTA-ACTTAATAAT
191309 TT
1 TT
191311 TGCTTTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 10 0.42
25 13 0.54
26 1 0.04
ACGTcount: A:0.29, C:0.02, G:0.06, T:0.63
Consensus pattern (24 bp):
TTGATTTTTATTTAACTTAATAAT
Found at i:193473 original size:21 final size:21
Alignment explanation
Indices: 193449--193503 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
193439 AAGATAGTTT
*
193449 TGTATCGATACATTTGAGACA
1 TGTATCGATACATTTCAGACA
**
193470 TGTATCGATACA-TTCAGTTA
1 TGTATCGATACATTTCAGACA
193490 TGTATCGATACATT
1 TGTATCGATACATT
193504 CACTAATTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTTCAGACA
Found at i:193494 original size:20 final size:20
Alignment explanation
Indices: 193444--193522 Score: 86
Period size: 21 Copynumber: 3.9 Consensus size: 20
193434 TATACAAGAT
* *
193444 AGTTTTGTATCGATACATTTG
1 AGTTATGTATCGATACA-TTC
**
193465 AGACATGTATCGATACATTC
1 AGTTATGTATCGATACATTC
193485 AGTTATGTATCGATACATTC
1 AGTTATGTATCGATACATTC
* *
193505 ACTAATTGTATCGATACA
1 AGTTA-TGTATCGATACA
193523 AATCGTATAA
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
20 23 0.47
21 26 0.53
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (20 bp):
AGTTATGTATCGATACATTC
Found at i:193516 original size:21 final size:20
Alignment explanation
Indices: 193469--193522 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
193459 CATTTGAGAC
* *
193469 ATGTATCGATACATTCAGTT
1 ATGTATCGATACATTCACTA
193489 ATGTATCGATACATTCACTA
1 ATGTATCGATACATTCACTA
193509 ATTGTATCGATACA
1 A-TGTATCGATACA
193523 AATCGTATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 19 0.61
21 12 0.39
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTCACTA
Found at i:194026 original size:18 final size:20
Alignment explanation
Indices: 194000--194045 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 20
193990 TTTTTTTTAA
*
194000 TCTTTTTTCCCATT-TTTTT
1 TCTTCTTTCCCATTCTTTTT
*
194019 TC-TCTTT-CCTTTCTTTTT
1 TCTTCTTTCCCATTCTTTTT
194037 TCTTCTTTC
1 TCTTCTTTC
194046 TATTCTTCAG
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
17 4 0.18
18 11 0.50
19 7 0.32
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.72
Consensus pattern (20 bp):
TCTTCTTTCCCATTCTTTTT
Found at i:194618 original size:10 final size:11
Alignment explanation
Indices: 194599--194623 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
194589 GCTACCATGC
194599 TTTTCTTTTTT
1 TTTTCTTTTTT
194610 TTTTCTTTTTT
1 TTTTCTTTTTT
194621 TTT
1 TTT
194624 AATTTACTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTCTTTTTT
Found at i:195678 original size:22 final size:21
Alignment explanation
Indices: 195653--195700 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
195643 ATTTATAAAT
195653 AAATAAAAAATAATTTATTTTA
1 AAATAAAAAATAA-TTATTTTA
*** *
195675 AAATTTTAACTAATTATTTTA
1 AAATAAAAAATAATTATTTTA
195696 AAATA
1 AAATA
195701 TAATTAATTT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (21 bp):
AAATAAAAAATAATTATTTTA
Found at i:195706 original size:16 final size:18
Alignment explanation
Indices: 195685--195730 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
195675 AAATTTTAAC
195685 TAATTATTT-TAAA-ATA
1 TAATTATTTATAAACATA
195701 TAATTAATTTATAAACATA
1 TAATT-ATTTATAAACATA
*
195720 TAAATATTTAT
1 TAATTATTTAT
195731 TTAAATTACT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
16 5 0.19
17 4 0.15
18 10 0.38
19 7 0.27
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (18 bp):
TAATTATTTATAAACATA
Found at i:195712 original size:21 final size:22
Alignment explanation
Indices: 195663--195712 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
195653 AAATAAAAAA
*
195663 TAATTTATTTTAAAATTTTAAC
1 TAATTTATTTTAAAATTATAAC
*
195685 TAA-TTATTTTAAAA-TATAAT
1 TAATTTATTTTAAAATTATAAC
195705 TAATTTAT
1 TAATTTAT
195713 AAACATATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 7 0.28
21 15 0.60
22 3 0.12
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (22 bp):
TAATTTATTTTAAAATTATAAC
Found at i:197354 original size:20 final size:20
Alignment explanation
Indices: 197329--197383 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
197319 AAAAGAACAG
*
197329 AATGTATTGATACATTGAAA
1 AATGTATCGATACATTGAAA
* *
197349 AATGTATCGATACATTTATA
1 AATGTATCGATACATTGAAA
*
197369 CATGTATCGATACAT
1 AATGTATCGATACAT
197384 CTAGGTAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (20 bp):
AATGTATCGATACATTGAAA
Found at i:202547 original size:28 final size:26
Alignment explanation
Indices: 202510--202570 Score: 86
Period size: 28 Copynumber: 2.3 Consensus size: 26
202500 ATTAACATGA
* *
202510 TGAAAAAAATGATGAAAACATGAGTCC
1 TGAAAGAAATGATG-AAACATGAATCC
202537 GTGAAAGAAATGATGAAACATGAATCC
1 -TGAAAGAAATGATGAAACATGAATCC
202564 TGAAAGA
1 TGAAAGA
202571 CTAGTAAGCT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
26 7 0.23
27 11 0.35
28 13 0.42
ACGTcount: A:0.51, C:0.10, G:0.21, T:0.18
Consensus pattern (26 bp):
TGAAAGAAATGATGAAACATGAATCC
Found at i:203828 original size:21 final size:20
Alignment explanation
Indices: 203789--203834 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
203779 TCATGTATTG
* *
203789 ATACATTCATTTATGTATCA
1 ATACATTCACTAATGTATCA
*
203809 ATACATTCACTAATTGTATCG
1 ATACATTCACTAA-TGTATCA
203830 ATACA
1 ATACA
203835 AATCGTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.37, C:0.17, G:0.07, T:0.39
Consensus pattern (20 bp):
ATACATTCACTAATGTATCA
Found at i:205032 original size:39 final size:39
Alignment explanation
Indices: 204967--205052 Score: 109
Period size: 39 Copynumber: 2.2 Consensus size: 39
204957 CACATCTATT
* *
204967 CCAAAAAAGAATTCATGTATTAGTCACATTTTTCGAATA
1 CCAAAAAAGAATTCATGCATTAGTCACATCTTTCGAATA
* * * *
205006 CCAATAAAGAATTTATGCATTTGTCACATCTTTCGAATT
1 CCAAAAAAGAATTCATGCATTAGTCACATCTTTCGAATA
*
205045 CTAAAAAA
1 CCAAAAAA
205053 TCCATTCATT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.34
Consensus pattern (39 bp):
CCAAAAAAGAATTCATGCATTAGTCACATCTTTCGAATA
Found at i:208460 original size:16 final size:16
Alignment explanation
Indices: 208434--208483 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
208424 ATACGTGAAT
208434 ATATCAAATTATATATA
1 ATAT-AAATTATATATA
208451 ATATAAATTAT-TAATA
1 ATATAAATTATAT-ATA
*
208467 ATTAAAAATT-TATATA
1 A-TATAAATTATATATA
208483 A
1 A
208484 ATTTATAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
15 1 0.03
16 16 0.55
17 12 0.41
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATAAATTATATATA
Found at i:210627 original size:42 final size:44
Alignment explanation
Indices: 210581--210662 Score: 105
Period size: 42 Copynumber: 1.9 Consensus size: 44
210571 TATTTTCCTT
* *
210581 TTTTTACTATAAATAATATT-TTT-GTATAAATATAATTTTTAA
1 TTTTTAATATAAATAATATTATTTAATATAAATATAATTTTTAA
* **
210623 TTTTTAATATATATTTTATTATTTAATATAAATATAATTT
1 TTTTTAATATAAATAATATTATTTAATATAAATATAATTT
210663 AATAAATTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
42 16 0.48
43 3 0.09
44 14 0.42
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (44 bp):
TTTTTAATATAAATAATATTATTTAATATAAATATAATTTTTAA
Found at i:210631 original size:19 final size:20
Alignment explanation
Indices: 210609--210693 Score: 69
Period size: 19 Copynumber: 4.5 Consensus size: 20
210599 TTTTTGTATA
210609 AATATAAT-TTTTAATT-TTT
1 AATATAATATTTT-ATTATTT
210628 AATAT-ATATTTTATTATTT
1 AATATAATATTTTATTATTT
*
210647 AATATAA-A---TATAATTT
1 AATATAATATTTTATTATTT
*
210663 AATA-AATTTTAATTATTATTT
1 AATATAATATT--TTATTATTT
210684 AATATAATAT
1 AATATAATAT
210694 AATTTTATTT
Statistics
Matches: 52, Mismatches: 4, Indels: 17
0.71 0.05 0.23
Matches are distributed among these distances:
15 2 0.04
16 11 0.21
18 5 0.10
19 18 0.35
20 1 0.02
21 11 0.21
22 4 0.08
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
AATATAATATTTTATTATTT
Found at i:210661 original size:37 final size:35
Alignment explanation
Indices: 210624--210711 Score: 108
Period size: 37 Copynumber: 2.5 Consensus size: 35
210614 AATTTTTAAT
210624 TTTTAATATATATTTTATTATTTAATATAAATATAA
1 TTTTAATATATATTTTATTATTTAATAT-AATATAA
* *
210660 -TTTAATAAATTTTAATTATTATTTAATATAATATAA
1 TTTTAATATATATT--TTATTATTTAATATAATATAA
*
210696 TTTT-ATTTATATTTTA
1 TTTTAATATATATTTTA
210712 ATAGAAAATC
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
34 3 0.07
35 11 0.25
36 13 0.30
37 17 0.39
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (35 bp):
TTTTAATATATATTTTATTATTTAATATAATATAA
Found at i:210683 original size:21 final size:20
Alignment explanation
Indices: 210627--210704 Score: 63
Period size: 21 Copynumber: 3.9 Consensus size: 20
210617 TTTTAATTTT
*
210627 TAATATATATTTTA-TT-ATT
1 TAATATA-ATTTTATTTAATA
* *
210646 TAATATAAATATAATTTAATA
1 TAATAT-AATTTTATTTAATA
*
210667 -AATTTTAATTATTATTTAATA
1 TAA-TATAATT-TTATTTAATA
210688 TAATATAATTTTATTTA
1 TAATATAATTTTATTTA
210705 TATTTTAATA
Statistics
Matches: 46, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
19 10 0.22
20 15 0.33
21 19 0.41
22 2 0.04
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TAATATAATTTTATTTAATA
Found at i:210705 original size:27 final size:26
Alignment explanation
Indices: 210657--210714 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
210647 AATATAAATA
*
210657 TAATTTAATAAATTTTAATTAT-TATT
1 TAATATAATAAATTTTAATTATAT-TT
*
210683 TAATATAATATAATTTTATTTATATTT
1 TAATATAATA-AATTTTAATTATATTT
210710 TAATA
1 TAATA
210715 GAAAATCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 9 0.32
27 18 0.64
28 1 0.04
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
TAATATAATAAATTTTAATTATATTT
Found at i:212189 original size:15 final size:16
Alignment explanation
Indices: 212141--212189 Score: 59
Period size: 15 Copynumber: 3.2 Consensus size: 16
212131 ATAATTATAG
*
212141 TATAGGTAATATATGT
1 TATAAGTAATATATGT
212157 ATATAA-TAA-ATATGT
1 -TATAAGTAATATATGT
212172 TATAAGTAATATAT-T
1 TATAAGTAATATATGT
212187 TAT
1 TAT
212190 GTAAAGAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
14 5 0.17
15 13 0.45
16 7 0.24
17 4 0.14
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (16 bp):
TATAAGTAATATATGT
Found at i:213367 original size:17 final size:18
Alignment explanation
Indices: 213325--213367 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 18
213315 TTTAATATTG
213325 TAATAAAA-TATATTATA
1 TAATAAAATTATATTATA
*
213342 TAA-AAAATTA-ATTTTA
1 TAATAAAATTATATTATA
213358 TAATAAAATT
1 TAATAAAATT
213368 TTTATTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAATAAAATTATATTATA
Found at i:216061 original size:5 final size:5
Alignment explanation
Indices: 216051--216088 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
216041 GTAGCTAGAC
216051 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TAT
216089 GATCGAACAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:220116 original size:71 final size:71
Alignment explanation
Indices: 220015--220153 Score: 269
Period size: 71 Copynumber: 2.0 Consensus size: 71
220005 GTGTTGATTA
*
220015 AAGGGGGAAGATCAGTAGATGAATCGCCCATCTAATTGATCTTCAATGGTCACTACGAAGTGACC
1 AAGGGGGAAGATCAGTAGATGAATCGCCCATCTAATTGATCTTCAATGGTCACTACAAAGTGACC
220080 GAGTTG
66 GAGTTG
220086 AAGGGGGAAGATCAGTAGATGAATCGCCCATCTAATTGATCTTCAATGGTCACTACAAAGTGACC
1 AAGGGGGAAGATCAGTAGATGAATCGCCCATCTAATTGATCTTCAATGGTCACTACAAAGTGACC
220151 GAG
66 GAG
220154 ATTTTGGAGT
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 67 1.00
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (71 bp):
AAGGGGGAAGATCAGTAGATGAATCGCCCATCTAATTGATCTTCAATGGTCACTACAAAGTGACC
GAGTTG
Found at i:223136 original size:33 final size:33
Alignment explanation
Indices: 223099--223165 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
223089 AGTAGCTTGA
223099 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
223132 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
223165 A
1 A
223166 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:223139 original size:13 final size:13
Alignment explanation
Indices: 223121--223145 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
223111 CAAAAAAATA
223121 TGTATCGATACAT
1 TGTATCGATACAT
223134 TGTATCGATACA
1 TGTATCGATACA
223146 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:225277 original size:20 final size:20
Alignment explanation
Indices: 225252--225305 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 20
225242 GTTTGAAGCA
225252 ATGTATCGATACAAT-T-CATC
1 ATGTATCGATACAATGTGC--C
225272 ATGTATCGATACAATGTGCC
1 ATGTATCGATACAATGTGCC
225292 ATGTATCGATACAA
1 ATGTATCGATACAA
225306 ACAGTGGTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 30 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAATGTGCC
Found at i:225396 original size:33 final size:34
Alignment explanation
Indices: 225336--225411 Score: 102
Period size: 33 Copynumber: 2.3 Consensus size: 34
225326 GCCAGTTTCA
**
225336 TGTATCGATACAATTGTCCATGTATCGATACATG
1 TGTATCGATACAATTGAACATGTATCGATACATG
*
225370 TGTATTGATACAA-TGAACATGTATCGATACAT-
1 TGTATCGATACAATTGAACATGTATCGATACATG
*
225402 TTTATCGATA
1 TGTATCGATA
225412 TAAAACATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 8 0.22
33 17 0.46
34 12 0.32
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (34 bp):
TGTATCGATACAATTGAACATGTATCGATACATG
Found at i:226012 original size:20 final size:22
Alignment explanation
Indices: 225987--226031 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
225977 AGGCTCTCGT
*
225987 TAAAAA-AATT-TGCCCTTTGA
1 TAAAAACAATTCTCCCCTTTGA
*
226007 TAAAAACATTTCTCCCCTTTGA
1 TAAAAACAATTCTCCCCTTTGA
226029 TAA
1 TAA
226032 TCGGTTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.29
21 3 0.14
22 12 0.57
ACGTcount: A:0.38, C:0.20, G:0.07, T:0.36
Consensus pattern (22 bp):
TAAAAACAATTCTCCCCTTTGA
Found at i:226187 original size:19 final size:19
Alignment explanation
Indices: 226151--226187 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
226141 TATGCAAGTA
* *
226151 AAACATCACATGTTATAGC
1 AAACATCACATATAATAGC
226170 AAACATCACATATAATAG
1 AAACATCACATATAATAG
226188 TATAATGCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.19, G:0.08, T:0.24
Consensus pattern (19 bp):
AAACATCACATATAATAGC
Found at i:237594 original size:19 final size:18
Alignment explanation
Indices: 237543--237632 Score: 75
Period size: 19 Copynumber: 5.1 Consensus size: 18
237533 TTGAATTCCA
237543 ATAA-TTTGTATCGATAC
1 ATAAGTTTGTATCGATAC
* *
237560 ATTCAGTAAATGTATCGATAC
1 A-TAAGT--TTGTATCGATAC
237581 ATAAGTGTTGTATCGATAC
1 ATAAGT-TTGTATCGATAC
237600 --AA---TGTATCGATAC
1 ATAAGTTTGTATCGATAC
237613 ATAAGTTTTGTATCGATAC
1 ATAAG-TTTGTATCGATAC
237632 A
1 A
237633 ATGTATCGCT
Statistics
Matches: 58, Mismatches: 5, Indels: 18
0.72 0.06 0.22
Matches are distributed among these distances:
13 11 0.19
15 2 0.03
17 3 0.05
18 2 0.03
19 24 0.41
20 4 0.07
21 12 0.21
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.37
Consensus pattern (18 bp):
ATAAGTTTGTATCGATAC
Found at i:237607 original size:13 final size:13
Alignment explanation
Indices: 237589--237613 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
237579 ACATAAGTGT
237589 TGTATCGATACAA
1 TGTATCGATACAA
237602 TGTATCGATACA
1 TGTATCGATACA
237614 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:237609 original size:32 final size:32
Alignment explanation
Indices: 237568--237640 Score: 137
Period size: 32 Copynumber: 2.3 Consensus size: 32
237558 ACATTCAGTA
237568 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
*
237600 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
237632 AATGTATCG
1 AATGTATCG
237641 CTAGGAAGCT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCGATAC
Found at i:237702 original size:13 final size:13
Alignment explanation
Indices: 237684--237709 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
237674 CATTTTTTTG
237684 TGTATCGATACAT
1 TGTATCGATACAT
237697 TGTATCGATACAT
1 TGTATCGATACAT
237710 CTATTCTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:237727 original size:34 final size:33
Alignment explanation
Indices: 237666--237730 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 33
237656 CAAGGAAATA
*
237666 TATCGATACATTTTTTTGTGTATCGATACATTG
1 TATCGATACATTTTCTTGTGTATCGATACATTG
237699 TATCGATACATCTATTCTT-TGTATCGATACAT
1 TATCGATACAT-T-TTCTTGTGTATCGATACAT
237731 CTAGGAAGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 11 0.38
34 14 0.48
35 4 0.14
ACGTcount: A:0.26, C:0.15, G:0.12, T:0.46
Consensus pattern (33 bp):
TATCGATACATTTTCTTGTGTATCGATACATTG
Found at i:240129 original size:51 final size:52
Alignment explanation
Indices: 240072--240194 Score: 162
Period size: 51 Copynumber: 2.4 Consensus size: 52
240062 CAATTCTCCG
* * *
240072 CAATCGGGGATA-TCCCAACTCCGATTTTATTTTC-AAAACACTAA-TTTTCTA
1 CAATCGGGGATACT-CCAACTCCGATTTTATCTCCAAAAACACCAATTTTTC-A
*
240123 TAATCGGGGATACTCCAACTCCGATTTTATCTCCAAAAAACACCAATTTTTCA
1 CAATCGGGGATACTCCAACTCCGATTTTATCTCC-AAAAACACCAATTTTTCA
240176 CAATCGGGGATACTCCAAC
1 CAATCGGGGATACTCCAAC
240195 CCCGTTAATC
Statistics
Matches: 63, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
51 29 0.46
52 1 0.02
53 28 0.44
54 5 0.08
ACGTcount: A:0.33, C:0.26, G:0.11, T:0.30
Consensus pattern (52 bp):
CAATCGGGGATACTCCAACTCCGATTTTATCTCCAAAAACACCAATTTTTCA
Found at i:240185 original size:53 final size:51
Alignment explanation
Indices: 240072--240194 Score: 160
Period size: 53 Copynumber: 2.4 Consensus size: 51
240062 CAATTCTCCG
* * *
240072 CAATCGGGGATA-TCCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTA
1 CAATCGGGGATACT-CCAACTCCGATTTTATCTCCAAAACACCAATTTTCTA
*
240123 TAATCGGGGATACTCCAACTCCGATTTTATCTCCAAAAAACACCAATTTT-TCA
1 CAATCGGGGATACTCCAACTCCGATTTTATCTCC--AAAACACCAATTTTCT-A
240176 CAATCGGGGATACTCCAAC
1 CAATCGGGGATACTCCAAC
240195 CCCGTTAATC
Statistics
Matches: 63, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
51 29 0.46
52 2 0.03
53 32 0.51
ACGTcount: A:0.33, C:0.26, G:0.11, T:0.30
Consensus pattern (51 bp):
CAATCGGGGATACTCCAACTCCGATTTTATCTCCAAAACACCAATTTTCTA
Found at i:240248 original size:28 final size:27
Alignment explanation
Indices: 240181--240253 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
240171 TTTCACAATC
*
240181 GGGGATACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCATA
*
240208 GGGGATACTCCAACCCCGTTATTTC-TGA
1 GGGGATACTCCAACCCCGTTA-ATCAT-A
*
240236 GGGGACACTCCAACCCCG
1 GGGGATACTCCAACCCCG
240254 GTTTTATTTC
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.23, C:0.34, G:0.22, T:0.21
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCATA
Found at i:240295 original size:76 final size:79
Alignment explanation
Indices: 240202--240384 Score: 257
Period size: 76 Copynumber: 2.3 Consensus size: 79
240192 AACCCCGTTA
* *
240202 ATCATCGGGGATACTCCAACCCCGTTA-TTTCTGAGGGGACACTCCAA-CCCCGGTTTTATTTCT
1 ATCATCGGGGATACTCCAACCCCGTTATTTTC-GAGGGGACACTCCAACCCCCGGCTTTATTCCT
240265 AAAACATCAATTT-T
65 AAAACATCAATTTCT
*
240279 -TCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCCGGCTTTATTCCTA
1 ATCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGACACTCCAACCCCCGGCTTTATTCCTA
* **
240343 AAATATTGATTTCT
66 AAACATCAATTTCT
*
240357 CATAATCGGGGATACTCCAACCCCGTTA
1 -ATCATCGGGGATACTCCAACCCCGTTA
240385 CTATCTCCAA
Statistics
Matches: 94, Mismatches: 7, Indels: 7
0.87 0.06 0.06
Matches are distributed among these distances:
76 40 0.43
77 28 0.30
78 1 0.01
80 25 0.27
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.30
Consensus pattern (79 bp):
ATCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGACACTCCAACCCCCGGCTTTATTCCTA
AAACATCAATTTCT
Found at i:243181 original size:12 final size:12
Alignment explanation
Indices: 243164--243202 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
243154 AGAAAAAGGC
*
243164 AAAAAAACAAAA
1 AAAAAAAGAAAA
*
243176 AAAAAAAGAAAC
1 AAAAAAAGAAAA
*
243188 AAAAATAGAAAA
1 AAAAAAAGAAAA
243200 AAA
1 AAA
243203 TGCAAAAGCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.87, C:0.05, G:0.05, T:0.03
Consensus pattern (12 bp):
AAAAAAAGAAAA
Found at i:244909 original size:92 final size:91
Alignment explanation
Indices: 244780--244992 Score: 306
Period size: 92 Copynumber: 2.3 Consensus size: 91
244770 ATCCCATTCA
* * * *
244780 TCCAACCACTAGATGGTATTGATGCATTACAAAGCCTGATTTCCTTGGGGCAAGGATATCCTGTC
1 TCCAACCACTAGATGGTATTGATGCATCACAAAGCCTGATTTCCTTGGGGCAAGGACATCCCGAC
* *
244845 CACACATTCCTAATCATA-TCTTTTTT
66 CACACATTCCCAATCATATTC-TGTTT
* *
244871 GTCCAACCATTAGATGGTATTAATGCATCACAAAGCCTGATTTCCTTGGGGCAAGGACATCCCGA
1 -TCCAACCACTAGATGGTATTGATGCATCACAAAGCCTGATTTCCTTGGGGCAAGGACATCCCGA
244936 CCACACATTCCCAATCATATTCTGTTT
65 CCACACATTCCCAATCATATTCTGTTT
244963 T--AAGCCACTAGATGGTATTGATGCATCACA
1 TCCAA-CCACTAGATGGTATTGATGCATCACA
244993 TGACCACAAA
Statistics
Matches: 109, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
89 2 0.02
90 24 0.22
91 1 0.01
92 80 0.73
93 2 0.02
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (91 bp):
TCCAACCACTAGATGGTATTGATGCATCACAAAGCCTGATTTCCTTGGGGCAAGGACATCCCGAC
CACACATTCCCAATCATATTCTGTTT
Found at i:245484 original size:42 final size:42
Alignment explanation
Indices: 245409--246236 Score: 281
Period size: 42 Copynumber: 19.7 Consensus size: 42
245399 GCTAGCTTAG
* ** * *
245409 TCCTGAGTAAATCTTTTTATCCTTTGTGGACTTATTAGTTCAA
1 TCCTGA-TAAACCTTTTTATCCTTTGTTTACTTGTCAGTTCAA
* *
245452 TCCTGATCAACCTTTTTATCCTTTGTTTACTTATC-GATTCAA
1 TCCTGATAAACCTTTTTATCCTTTGTTTACTTGTCAG-TTCAA
* * * * * *
245494 TCTTGAGTAAATCC-TTTTATCTTTTGTTAACCTGCCATTTCAA
1 TCCTGA-TAAA-CCTTTTTATCCTTTGTTTACTTGTCAGTTCAA
* * * * *
245537 TCCCGATCAACCTTTTTATCCTTTG-TTACCTGTCGGCTT-AG
1 TCCTGATAAACCTTTTTATCCTTTGTTTACTTGTCAG-TTCAA
* * * * * *
245578 TCCCGGGTAAATCC-TTTTA-ACTTTATTGACTTGTCGGTTCAA
1 T-CCTGATAAA-CCTTTTTATCCTTTGTTTACTTGTCAGTTCAA
* * * * * *
245620 TTCT-AGTGAACCTTTTTATCTTTTGTTTTCTTGTCAGCTCAG
1 TCCTGA-TAAACCTTTTTATCCTTTGTTTACTTGTCAGTTCAA
* * * *
245662 TACCGGGTAAATCC-TTTTATCCTTTGTTGACTTATCAGTT-AA
1 T-CCTGATAAA-CCTTTTTATCCTTTGTTTACTTGTCAGTTCAA
* * * * * *
245704 T-CTGGGTTAACCTTTTTATCCTTTGTTTACCTATCAGCTCAG
1 TCCT-GATAAACCTTTTTATCCTTTGTTTACTTGTCAGTTCAA
*
245746 T-CTCGAGTAAATCC-TTTTATCCTTTGTTGACTTGTCAGTTCAA
1 TCCT-GA-TAAA-CCTTTTTATCCTTTGTTTACTTGTCAGTTCAA
** * * * *
245789 TCCCAATCAACCTTTTTATCCTTTGTTTACCTGTC-GACTCAG
1 TCCTGATAAACCTTTTTATCCTTTGTTTACTTGTCAG-TTCAA
* * * * *
245831 TCTCGGGTAAATCC-TTTTATCTTTTGTTAACTTATC-GATTCAA
1 TC-CTGATAAA-CCTTTTTATCCTTTGTTTACTTGTCAG-TTCAA
* * * * *
245874 T-CTCAGTTAACCTTTTTATCTTTTGTTTACTTGT-TGACTCAA
1 TCCTGA-TAAACCTTTTTATCCTTTGTTTACTTGTCAG-TTCAA
* * *
245916 T-CTCAAGTAAATCC-TTTTATCCTTTGTTGACTTGTCGGTTCAA
1 TCCT-GA-TAAA-CCTTTTTATCCTTTGTTTACTTGTCAGTTCAA
* * * * *
245959 TCCTGGTCAACCTTTTTATCCTCTT-TTTACTTATCGACTT-AG
1 TCCTGATAAACCTTTTTATCCT-TTGTTTACTTGTC-AGTTCAA
* * *
246001 TTCTAGGTAAATCC-TTTTATCCTTTGTTGACTTGTC-GATTCAA
1 TCCT-GATAAA-CCTTTTTATCCTTTGTTTACTTGTCAG-TTCAA
* * * * *
246044 T-CTCGATCAACCTTTTTATCCTTTGTTTACCTATCAGCTCAG
1 TCCT-GATAAACCTTTTTATCCTTTGTTTACTTGTCAGTTCAA
* * *
246086 TCCCGGGTAAA-TTCTTTTATCCTTTG-----TTGT--GTTCAA
1 T-CCTGATAAACCT-TTTTATCCTTTGTTTACTTGTCAGTTCAA
* * * * * * *
246122 T-CTTAGTTAACCATTTTATCCTTTGTTTACCTATCGGCTC-A
1 TCCTGA-TAAACCTTTTTATCCTTTGTTTACTTGTCAGTTCAA
* * *
246163 GCCTCAGATAAATCTTTTTATCCTTT-TTTGACTTGTCGGTTCAA
1 TCCT--GATAAACCTTTTTATCCTTTGTTT-ACTTGTCAGTTCAA
*
246207 TCCT-AGTCAA-CTTTTGTATCCTTTGTTTAC
1 TCCTGA-TAAACCTTTT-TATCCTTTGTTTAC
246237 CTATCGACTT
Statistics
Matches: 577, Mismatches: 145, Indels: 127
0.68 0.17 0.15
Matches are distributed among these distances:
34 1 0.00
35 15 0.03
36 5 0.01
38 2 0.00
40 7 0.01
41 72 0.12
42 233 0.40
43 220 0.38
44 22 0.04
ACGTcount: A:0.20, C:0.22, G:0.12, T:0.46
Consensus pattern (42 bp):
TCCTGATAAACCTTTTTATCCTTTGTTTACTTGTCAGTTCAA
Found at i:245520 original size:85 final size:85
Alignment explanation
Indices: 245413--246279 Score: 780
Period size: 85 Copynumber: 10.3 Consensus size: 85
245403 GCTTAGTCCT
* * * *
245413 GAGTAAATCTTTTTATCCTTTGTGGACTTATTAGTTCAATCCTGATCAACCTTTTTATCCTTTGT
1 GAGTAAATCCTTTTATCCTTTGTTGACTTGTCAGTTCAATCCTGATCAACCTTTTTATCCTTTGT
* * * *
245478 TTACTTATCGATTCAATCTT
66 TTACCTATCGACTCAGTCTC
* * * * * *
245498 GAGTAAATCCTTTTATCTTTTGTTAACCTGCCATTTCAATCCCGATCAACCTTTTTATCCTTTG-
1 GAGTAAATCCTTTTATCCTTTGTTGACTTGTCAGTTCAATCCTGATCAACCTTTTTATCCTTTGT
* * * *
245562 TTACCTGTCGGCTTAGTCCC
66 TTACCTATCGACTCAGTCTC
* * * * * * *
245582 GGGTAAATCCTTTTA-ACTTTATTGACTTGTCGGTTCAATTCT-AGTGAACCTTTTTATCTTTTG
1 GAGTAAATCCTTTTATCCTTTGTTGACTTGTCAGTTCAATCCTGA-TCAACCTTTTTATCCTTTG
* * *
245645 TTTTCTTGTC-AGCTCAGTAC-C
65 TTTACCTATCGA-CTCAGT-CTC
* * * *
245666 GGGTAAATCCTTTTATCCTTTGTTGACTTATCAGTT-AAT-CTGGGTTAACCTTTTTATCCTTTG
1 GAGTAAATCCTTTTATCCTTTGTTGACTTGTCAGTTCAATCCT-GATCAACCTTTTTATCCTTTG
245729 TTTACCTATC-AGCTCAGTCTC
65 TTTACCTATCGA-CTCAGTCTC
**
245750 GAGTAAATCCTTTTATCCTTTGTTGACTTGTCAGTTCAATCCCAATCAACCTTTTTATCCTTTGT
1 GAGTAAATCCTTTTATCCTTTGTTGACTTGTCAGTTCAATCCTGATCAACCTTTTTATCCTTTGT
*
245815 TTACCTGTCGACTCAGTCTC
66 TTACCTATCGACTCAGTCTC
* * * * * * *
245835 GGGTAAATCCTTTTATCTTTTGTTAACTTATC-GATTCAAT-CTCAGTTAACCTTTTTATCTTTT
1 GAGTAAATCCTTTTATCCTTTGTTGACTTGTCAG-TTCAATCCTGA-TCAACCTTTTTATCCTTT
* * * *
245898 GTTTACTTGTTGACTCAATCTC
64 GTTTACCTATCGACTCAGTCTC
* * *
245920 AAGTAAATCCTTTTATCCTTTGTTGACTTGTCGGTTCAATCCTGGTCAACCTTTTTATCCTCTT-
1 GAGTAAATCCTTTTATCCTTTGTTGACTTGTCAGTTCAATCCTGATCAACCTTTTTATCCT-TTG
* *
245984 TTTACTTATCGACTTAGT-TC
65 TTTACCTATCGACTCAGTCTC
*
246004 TAGGTAAATCCTTTTATCCTTTGTTGACTTGTC-GATTCAAT-CTCGATCAACCTTTTTATCCTT
1 GA-GTAAATCCTTTTATCCTTTGTTGACTTGTCAG-TTCAATCCT-GATCAACCTTTTTATCCTT
*
246067 TGTTTACCTATC-AGCTCAGTCCC
63 TGTTTACCTATCGA-CTCAGTCTC
* * * * *
246090 GGGTAAATTCTTTTATCC--T-TTG--TTGT--GTTCAAT-CTTAGTTAACCATTTTATCCTTTG
1 GAGTAAATCCTTTTATCCTTTGTTGACTTGTCAGTTCAATCCTGA-TCAACCTTTTTATCCTTTG
* *
246147 TTTACCTATCGGCTCAGCCTC
65 TTTACCTATCGACTCAGTCTC
* * *
246168 -AGATAAATCTTTTTATCCTTTTTTGACTTGTCGGTTCAATCCT-AGTCAA-CTTTTGTATCCTT
1 GAG-TAAATCCTTTTATCCTTTGTTGACTTGTCAGTTCAATCCTGA-TCAACCTTTT-TATCCTT
* *
246230 TGTTTACCTATCGACTTAGTCCC
63 TGTTTACCTATCGACTCAGTCTC
* * *
246253 AAGT-AATCCCTTTTATACTTTATTGAC
1 GAGTAAAT-CCTTTTATCCTTTGTTGAC
246280 CTGACTACCT
Statistics
Matches: 644, Mismatches: 102, Indels: 72
0.79 0.12 0.09
Matches are distributed among these distances:
77 2 0.00
78 55 0.09
79 1 0.00
80 5 0.01
81 3 0.00
82 4 0.01
83 42 0.07
84 143 0.22
85 377 0.59
86 12 0.02
ACGTcount: A:0.20, C:0.22, G:0.12, T:0.45
Consensus pattern (85 bp):
GAGTAAATCCTTTTATCCTTTGTTGACTTGTCAGTTCAATCCTGATCAACCTTTTTATCCTTTGT
TTACCTATCGACTCAGTCTC
Found at i:247411 original size:166 final size:166
Alignment explanation
Indices: 247217--247607 Score: 447
Period size: 166 Copynumber: 2.4 Consensus size: 166
247207 CAACTTCAAA
*
247217 ATTCTCTAAATATTATTATTTAATTACCATTAAATCAGTTTTGAAAAATTCCTTTATTTTCATGA
1 ATTCTCTAAATATTATTATTTAATTACCATTAAATCAGTTTTGAAAAATTCATTTA-TTTCATGA
* * * * *
247282 GTTT-TTTATTGTTTTCTTATAATTTTCC-TATTTCTGAAAAACAGAGTTTTCTACTCCATAAAT
65 GTTTCATT-TT-TTTCCTTA-AAATCTCCATATTTCTGAAAAACAGAGTTTGCTACTCCATAAAT
* **
247345 GTTTTCTA-GG-GGGTTTTTCTTGGTTCAAAATTTTTAAT
127 GTTTTCGAGGGCGGGTTTTTCTCCGTTCAAAATTTTTAAT
* * *
247383 ATTCTTTAATTATTATTATTTAATTACCATTAAATTAGTTTTGAAAAATTCATTTATTTCATGAG
1 ATTCTCTAAATATTATTATTTAATTACCATTAAATCAGTTTTGAAAAATTCATTTATTTCATGAG
* * * ** *
247448 TTTCATTTTTTTCCTTAAAATCTCCATGTTTTTGAAATATGGAGTTTGCTACTCCGTAAATGTTT
66 TTTCATTTTTTTCCTTAAAATCTCCATATTTCTGAAAAACAGAGTTTGCTACTCCATAAATGTTT
247513 TCGAGGGCGGGTTTTTCTCCGTTCAAAATTTTTAAT
131 TCGAGGGCGGGTTTTTCTCCGTTCAAAATTTTTAAT
* * * * *
247549 ATTAATC-AAATATCATCT-TTTAATT--CATAGTAAATTATTTTTGAAAAATTGATTTATTT
1 ATT-CTCTAAATATTAT-TATTTAATTACCAT--TAAATCAGTTTTGAAAAATTCATTTATTT
247608 TCATAGGTTT
Statistics
Matches: 193, Mismatches: 24, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
163 6 0.03
164 45 0.23
165 16 0.08
166 124 0.64
167 2 0.01
ACGTcount: A:0.29, C:0.12, G:0.10, T:0.49
Consensus pattern (166 bp):
ATTCTCTAAATATTATTATTTAATTACCATTAAATCAGTTTTGAAAAATTCATTTATTTCATGAG
TTTCATTTTTTTCCTTAAAATCTCCATATTTCTGAAAAACAGAGTTTGCTACTCCATAAATGTTT
TCGAGGGCGGGTTTTTCTCCGTTCAAAATTTTTAAT
Found at i:247696 original size:166 final size:161
Alignment explanation
Indices: 247224--247710 Score: 391
Period size: 166 Copynumber: 2.9 Consensus size: 161
247214 AAAATTCTCT
* * * *
247224 AAATATTATTATTTAATTACCATTAAATCAGTTTTGAAAAATTCCTTTATTTTCATGAGTTTTTT
1 AAATATCATTATTTAATTA-CATTAAATTAGTTTTGAAAAATTCATTTA-TTTCATGAG--TTTC
* * **
247289 ATTGTT-TT-CTTATAATTTTCCTAT-TT-CTGAAAAA-CAGAGTTTTCTACTCCATAAATGTTT
62 ATT-TTCTTCCTTA-AAATCTCC-ATGTTCCCAAAAAATCA-AGTTTTCTACTCCATAAATGTTT
** *
247349 TCTAGGGGGTTTTTCTTGGTTCAAAATTTTTAATATTCTTT
123 T-T-GGGGGTTTTTCTTGGTTCAAAATTTTTAATATTAATC
* *
247390 AATTATTATTATTTAATTACCATTAAATTAGTTTTGAAAAATTCATTTATTTCATGAGTTTCATT
1 AAATATCATTATTTAATTA-CATTAAATTAGTTTTGAAAAATTCATTTATTTCATGAGTTTCATT
* **** * ** * * *
247455 TTTTTCCTTAAAATCTCCATGTTTTTGAAATATGGAGTTTGCTACTCCGTAAATGTTTTCGAGGG
65 TTCTTCCTTAAAATCTCCATGTTCCCAAAAAATCAAGTTTTCTACTCCATAAATGTTTT---TGG
**
247520 CGGGTTTTTCTCCGTTCAAAATTTTTAATATTAATC
127 -GGGTTTTTCTTGGTTCAAAATTTTTAATATTAATC
* *
247556 AAATATCATCT-TTTAATT-CATAGTAAATTATTTTTGAAAAATTGATTTATTTTCAT-AGGTTT
1 AAATATCAT-TATTTAATTACAT--TAAATTAGTTTTGAAAAATTCATTTA-TTTCATGA-G--T
** *
247618 TTCA-TTTCTTCCTTAAAAT-TACTTTGTTCCCAAAAAATCAAGTTTTCTATTCCATAAATGTTT
59 TTCATTTTCTTCCTTAAAATCT-CCATGTTCCCAAAAAATCAAGTTTTCTACTCCATAAATGTTT
*
247681 TTGGGGGATTTTTTCTTGGTTTAAAATTTT
123 TTGGGGG--TTTTTCTTGGTTCAAAATTTT
247711 AAAAGTCATC
Statistics
Matches: 263, Mismatches: 40, Indels: 36
0.78 0.12 0.11
Matches are distributed among these distances:
162 4 0.02
163 16 0.06
164 38 0.14
165 13 0.05
166 133 0.51
167 9 0.03
168 45 0.17
169 5 0.02
ACGTcount: A:0.29, C:0.12, G:0.10, T:0.49
Consensus pattern (161 bp):
AAATATCATTATTTAATTACATTAAATTAGTTTTGAAAAATTCATTTATTTCATGAGTTTCATTT
TCTTCCTTAAAATCTCCATGTTCCCAAAAAATCAAGTTTTCTACTCCATAAATGTTTTTGGGGGT
TTTTCTTGGTTCAAAATTTTTAATATTAATC
Found at i:249632 original size:166 final size:166
Alignment explanation
Indices: 249296--249680 Score: 441
Period size: 166 Copynumber: 2.3 Consensus size: 166
249286 ATAATCATTT
* * * * ** *
249296 TAGGCATTTTCAAAAATTTTCATGTCATTTCGACTTTTCGTCGGGTATGAAATGAAATTTTCAAA
1 TAGGAATTTTCAAAACTTTTCATATCCTTTCGGTTTTTCGTCGGGTATGAAATAAAATTTTCAAA
* * * ** *
249361 AGTTTAGGGACTAAATATCAAATTTAGTTTTTAGAAGAAAAATAGCTCTATTAGTCATTTTATTT
66 AGTTCAGGGACTAAATAGCAAATTCAAATTTTAGAAGAAAAATAGCTCTATTAGTCATCTTATTT
* **** **
249426 AAATTTCTATTAATCCTATAGTATTCCGTCGGGGTA
131 AAATTTCTATTAATCCTATAGCATTCCAAAAGAATA
* * *
249462 TAGGAATTTTTAAAACTTTTCATATCCTTTCGGTTTTTCATCGGGTATGAAATAAAATTTTTAAA
1 TAGGAATTTTCAAAACTTTTCATATCCTTTCGGTTTTTCGTCGGGTATGAAATAAAATTTTCAAA
* * * *
249527 AGTTCAGGGTCTAAATAGCAAATTCAAATTTTGGAAGAAAAATCATCATC-A-TAGTCATCTTCT
66 AGTTCAGGGACTAAATAGCAAATTCAAATTTTAGAAGAAAAAT-AGC-TCTATTAGTCATCTTAT
* * * * *
249590 TTATATTTTTATTATTCCTATGGCCTTCCAAAAGAATA
129 TTAAATTTCTATTAATCCTATAGCATTCCAAAAGAATA
*
249628 TAGGAGTTTTCAAAACTTTTCATATCCTTTCGGTTTTTCGTCGGGTATGAAAT
1 TAGGAATTTTCAAAACTTTTCATATCCTTTCGGTTTTTCGTCGGGTATGAAAT
249681 GTAATTTTGA
Statistics
Matches: 182, Mismatches: 35, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
166 177 0.97
167 3 0.02
168 2 0.01
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.41
Consensus pattern (166 bp):
TAGGAATTTTCAAAACTTTTCATATCCTTTCGGTTTTTCGTCGGGTATGAAATAAAATTTTCAAA
AGTTCAGGGACTAAATAGCAAATTCAAATTTTAGAAGAAAAATAGCTCTATTAGTCATCTTATTT
AAATTTCTATTAATCCTATAGCATTCCAAAAGAATA
Found at i:250211 original size:150 final size:150
Alignment explanation
Indices: 249936--250569 Score: 599
Period size: 150 Copynumber: 4.3 Consensus size: 150
249926 ATTTATGACC
* * * ** * ** *
249936 TTTTCAAGTCTCTTAGGATCACCAAGTGCTTCAAAGTCCATGGTAAACCTTAGGGATATTTTAGC
1 TTTTCAAGTCCCTTAGGATCACTAGGCACTTCTAAGTTGATGGTAAACCTTAGGGATATTTGAGC
* ** * * * * ** *
250001 -ATTTTCCTTGAAATCTAGTCTTATAAAATTACTGAGTCTGCTTCTACGCTGAAGAAATGAATTT
66 TTTTTTCC-CAAAACCTAGTCCTATAAAACTACTGAGTCCGCTTCTACGCTGAAGGTATGAATTA
250065 GGAATGGGTTTGTTTTTATCT
130 GGAATGGGTTTGTTTTTATCT
* * * *
250086 TTTTCAAGTCCCTTAGGATCACTGGGCACTTCTAAGTTGATGGTACATCTTAAGGATATTTGAGC
1 TTTTCAAGTCCCTTAGGATCACTAGGCACTTCTAAGTTGATGGTAAACCTTAGGGATATTTGAGC
* * *
250151 TTTTTTCCCAAAATCTAGTCTTATAAAACTACT-AGGTCCGCTTCTACG-TCGAAGGTATGAACT
66 TTTTTTCCCAAAACCTAGTCCTATAAAACTACTGA-GTCCGCTTCTACGCT-GAAGGTATGAATT
250214 AGG-A-------G------TCT
129 AGGAATGGGTTTGTTTTTATCT
* * * *
250222 TTTTCATGTCCTTTAGGATCACTAGGCACTTCTAAGTCGATGGTAGACCTTAGGGA-ACTTTTGA
1 TTTTCAAGTCCCTTAGGATCACTAGGCACTTCTAAGTTGATGGTAAACCTTAGGGATA--TTTGA
** * * * *
250286 G-TATTTCCCCCCCTAAAACCAAGTCCTATAAAACTACT-AGGTCCGTTTCTAAGCCGAAGGTAT
64 GCT-TTT--TTCCC-AAAACCTAGTCCTATAAAACTACTGA-GTCCGCTTCTACGCTGAAGGTAT
*
250349 GAATTAGGAGTGGGTTTGTTTTTATCT
124 GAATTAGGAATGGGTTTGTTTTTATCT
* * * * *
250376 TTTTCAAGTCCCTTAGGATCATTGGGCACTTCTAATTTGATGGTAAACCTTAGGGATATTTTAAC
1 TTTTCAAGTCCCTTAGGATCACTAGGCACTTCTAAGTTGATGGTAAACCTTAGGGATATTTGAGC
* * * *
250441 ATTTTTCCCCAAACCTAGTCCTATAAAACTACTGAGTCCACTTCTACACTGAAGGT-TGAATTAG
66 TTTTTTCCCAAAACCTAGTCCTATAAAACTACTGAGTCCGCTTCTACGCTGAAGGTATGAATTAG
*
250505 GAGTGGGTTTGTTTTTATCT
131 GAATGGGTTTGTTTTTATCT
*
250525 TTTTCAAGTCCTTTAGGATCACTAGGCACTTCTAAGTTGATGGTA
1 TTTTCAAGTCCCTTAGGATCACTAGGCACTTCTAAGTTGATGGTA
250570 GACTTCAAGG
Statistics
Matches: 395, Mismatches: 62, Indels: 55
0.77 0.12 0.11
Matches are distributed among these distances:
135 1 0.00
136 53 0.13
137 9 0.02
139 3 0.01
140 49 0.12
142 1 0.00
148 1 0.00
149 72 0.18
150 136 0.34
151 10 0.03
153 7 0.02
154 52 0.13
155 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (150 bp):
TTTTCAAGTCCCTTAGGATCACTAGGCACTTCTAAGTTGATGGTAAACCTTAGGGATATTTGAGC
TTTTTTCCCAAAACCTAGTCCTATAAAACTACTGAGTCCGCTTCTACGCTGAAGGTATGAATTAG
GAATGGGTTTGTTTTTATCT
Found at i:250357 original size:140 final size:136
Alignment explanation
Indices: 250083--250508 Score: 342
Period size: 154 Copynumber: 3.0 Consensus size: 136
250073 TTTGTTTTTA
* * *
250083 TCTTTTTCAAGTCCCTTAGGATCACTGGGCACTTCTAAGTTGATGGTACATCTTAAGGATATTTG
1 TCTTTTTCAAGTCCCTTAGGATCACTAGGCACTTCTAAGTCGATGGTACACCTTAAGGATATTTG
** * * * * *
250148 AGCTTTTTTCCCAAAATCTAGTCTTATAAAACTACTAGGTCCGCTTCTACGTCGAAGGTATGAAC
66 AGCTTTTCCCCCAAAACCAAGTCCTATAAAACTACTAGGTCCGCTTCTAAGCCGAAGGTATGAAC
250213 TAGGAG
131 TAGGAG
* * * *
250219 TCTTTTTCATGTCCTTTAGGATCACTAGGCACTTCTAAGTCGATGGTAGACCTTAGGGA-ACTTT
1 TCTTTTTCAAGTCCCTTAGGATCACTAGGCACTTCTAAGTCGATGGTACACCTTAAGGATA--TT
*
250283 TGAG-TATTTCCCCCCCTAAAACCAAGTCCTATAAAACTACTAGGTCCGTTTCTAAGCCGAAGGT
64 TGAGCT-TTT--CCCCC-AAAACCAAGTCCTATAAAACTACTAGGTCCGCTTCTAAGCCGAAGGT
*
250347 ATGAATTAGGAGTGGGTTTG
125 ATGAACTAGGA--------G
* * * * * *
250367 TTTTTATCTTTTTCAAGTCCCTTAGGATCATTGGGCACTTCTAATTTGATGGTAAACCTTAGGGA
1 ------TCTTTTTCAAGTCCCTTAGGATCACTAGGCACTTCTAAGTCGATGGTACACCTTAAGGA
* * * * * *
250432 TATTTTAACATTTTTCCCC-AAACCTAGTCCTATAAAACTACT-GAGTCCACTTCTACA-CTGAA
60 TATTTGAGC-TTTTCCCCCAAAACCAAGTCCTATAAAACTACTAG-GTCCGCTTCTA-AGCCGAA
*
250494 GGT-TGAATTAGGAG
122 GGTATGAACTAGGAG
250508 T
1 T
250509 GGGTTTGTTT
Statistics
Matches: 235, Mismatches: 30, Indels: 51
0.74 0.09 0.16
Matches are distributed among these distances:
135 2 0.01
136 53 0.23
137 9 0.04
139 3 0.01
140 51 0.22
141 1 0.00
148 1 0.00
149 11 0.05
150 38 0.16
151 1 0.00
152 4 0.02
153 4 0.02
154 55 0.23
155 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.35
Consensus pattern (136 bp):
TCTTTTTCAAGTCCCTTAGGATCACTAGGCACTTCTAAGTCGATGGTACACCTTAAGGATATTTG
AGCTTTTCCCCCAAAACCAAGTCCTATAAAACTACTAGGTCCGCTTCTAAGCCGAAGGTATGAAC
TAGGAG
Found at i:250535 original size:149 final size:153
Alignment explanation
Indices: 250219--250663 Score: 512
Period size: 149 Copynumber: 2.9 Consensus size: 153
250209 GAACTAGGAG
* * *
250219 TCTTTTTCATGTCCTTTAGGATCACTAGGCACTTCTAAGTCGATGGTAGACCTTAGGGAACTTTT
1 TCTTTTTCAAGTCCTTTAGGATCACTAGGCACTTCTAAGTTGATGGTAAACCTTAGGGAACTTTT
** **
250284 GAGTATTTCCCCCCCTAAAACCAAGTCCTATAAAACTACTAGGTCCGTTTCTAAGCCGAAGGTAT
66 GAACATTTCCCCCCC-AAAACCAAGTCCTATAAAACTACTAGGTCCACTTCTAAGCCGAAGGTAT
250349 GAATTAGGAGTGGGTTTGTTTTTA
130 GAATTAGGAGTGGGTTTGTTTTTA
* * * *
250373 TCTTTTTCAAGTCCCTTAGGATCATTGGGCACTTCTAATTTGATGGTAAACCTTAGGGATA-TTT
1 TCTTTTTCAAGTCCTTTAGGATCACTAGGCACTTCTAAGTTGATGGTAAACCTTAGGGA-ACTTT
** * *
250437 T-AACATTT-TTCCCC-AAACCTAGTCCTATAAAACTACT-GAGTCCACTTCTACA-CTGAAGGT
65 TGAACATTTCCCCCCCAAAACCAAGTCCTATAAAACTACTAG-GTCCACTTCTA-AGCCGAAGGT
250497 -TGAATTAGGAGTGGGTTTGTTTTTA
128 ATGAATTAGGAGTGGGTTTGTTTTTA
* * *
250522 TCTTTTTCAAGTCCTTTAGGATCACTAGGCACTTCTAAGTTGATGGTAGA-CTTCAAGGACCTTT
1 TCTTTTTCAAGTCCTTTAGGATCACTAGGCACTTCTAAGTTGATGGTAAACCTT-AGGGAACTTT
* * * * * * * * * * *
250586 TTAGCATTTTCCACCCAAAACCTAGTCTTGTAGAACTACCT-GGTCTATTTCTATGCCGAAGGTA
65 TGAACATTTCCCCCCCAAAACCAAGTCCTATAAAACTA-CTAGGTCCACTTCTAAGCCGAAGGTA
250650 TGAATTAGGAGTGG
129 TGAATTAGGAGTGG
250664 TGTTAGGGTC
Statistics
Matches: 247, Mismatches: 33, Indels: 23
0.82 0.11 0.08
Matches are distributed among these distances:
148 3 0.01
149 79 0.32
150 44 0.18
151 4 0.02
152 38 0.15
153 22 0.09
154 56 0.23
155 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.36
Consensus pattern (153 bp):
TCTTTTTCAAGTCCTTTAGGATCACTAGGCACTTCTAAGTTGATGGTAAACCTTAGGGAACTTTT
GAACATTTCCCCCCCAAAACCAAGTCCTATAAAACTACTAGGTCCACTTCTAAGCCGAAGGTATG
AATTAGGAGTGGGTTTGTTTTTA
Found at i:250984 original size:13 final size:13
Alignment explanation
Indices: 250966--250992 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
250956 ACATTATACT
250966 TTGTATCGATATA
1 TTGTATCGATATA
250979 TTGTATCGATATA
1 TTGTATCGATATA
250992 T
1 T
250993 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.48
Consensus pattern (13 bp):
TTGTATCGATATA
Found at i:251100 original size:13 final size:13
Alignment explanation
Indices: 251082--251106 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
251072 CATGGCACAT
251082 TGTATTGATACAA
1 TGTATTGATACAA
251095 TGTATTGATACA
1 TGTATTGATACA
251107 TGATGAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (13 bp):
TGTATTGATACAA
Found at i:259788 original size:13 final size:13
Alignment explanation
Indices: 259770--259805 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
259760 TGGCACATTA
259770 TATCGATACAATG
1 TATCGATACAATG
259783 TATCGATACAATG
1 TATCGATACAATG
259796 TATCGATACA
1 TATCGATACA
259806 TGATGAATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.31
Consensus pattern (13 bp):
TATCGATACAATG
Found at i:259885 original size:19 final size:20
Alignment explanation
Indices: 259861--259898 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
259851 CTAATTTCAA
259861 ATGCATT-TATCGATACATT
1 ATGCATTGTATCGATACATT
259880 ATGCATTGTATCGATACAT
1 ATGCATTGTATCGATACAT
259899 AGCAACGGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (20 bp):
ATGCATTGTATCGATACATT
Found at i:263059 original size:12 final size:11
Alignment explanation
Indices: 263042--263075 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 11
263032 TAAAATAATA
263042 TTTATTTATTAT
1 TTTATTTATT-T
263054 TTTATTTATTT
1 TTTATTTATTT
263065 TTTATTT-TTT
1 TTTATTTATTT
263075 T
1 T
263076 CAAAAATGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 4 0.18
11 8 0.36
12 10 0.45
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTATTTATTT
Found at i:263061 original size:16 final size:16
Alignment explanation
Indices: 263040--263072 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
263030 GATAAAATAA
263040 TATTTATTTATTATTT
1 TATTTATTTATTATTT
*
263056 TATTTATTTTTTATTT
1 TATTTATTTATTATTT
263072 T
1 T
263073 TTTCAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (16 bp):
TATTTATTTATTATTT
Found at i:264994 original size:150 final size:150
Alignment explanation
Indices: 264587--265082 Score: 500
Period size: 154 Copynumber: 3.3 Consensus size: 150
264577 ATGTATATGA
* * * * * * * * * *
264587 AAAAAATTCAAAACT-AAAAAAAAAATT-GAATTTCCTAAAACTAATTTACTATGAATTAAAAAA
1 AAAAAATTTAAAACTCATAAAATAAATTAAAATTTTC-AAAACTAGTTTAATATCAACTAAACAA
* * ** * ** * *
264650 TAATATTTGAAAAATTTTGAAAATTTTGTACCAAGAAAAATCCAACTGAAAATTTTATGGAGTAA
65 TAATATTTGAAGAATTTTGAAAATTATAAACCTAGAAAAATCTTACTGAAAAATTTA-CGAG-AA
*
264715 AAAATTTCATATTTTGCAAAACAG
128 AAAATTTCATATTTTG-ATAACAG
* *
264739 AAAAAATTTTAAAAATCATAAAATAAATTAAAATTTTCAAAACTAGTTTAATATGAACTAAACAA
1 AAAAAA-TTTAAAACTCATAAAATAAATTAAAATTTTCAAAACTAGTTTAATATCAACTAAACAA
**
264804 TAATATTTGAAGAATTTTGAAAATTATAAATTTAGAAAAATCTTACTGAAAAATTTACAGAGAAT
65 TAATATTTGAAGAATTTTGAAAATTATAAACCTAGAAAAATCTTACTGAAAAATTTAC-GAGAA-
*
264869 AAAATTTCATATTTTGATAATAG
128 AAAATTTCATATTTTGATAACAG
* * * * *
264892 GAAAAATTTAAAACTCATAAAAGAAATTAAAA-TTTCAAAACTTA-TTTTA-ATCAATTACACAA
1 AAAAAATTTAAAACTCATAAAATAAATTAAAATTTTCAAAAC-TAGTTTAATATCAACTAAACAA
* *
264954 TAATATTTGAAGAATTTTGAAAATTACAAACCTAGAAAAATCTTACCGAAAAATTTACGA-AAAG
65 TAATATTTGAAGAATTTTGAAAATTATAAACCTAGAAAAATCTTACTGAAAAATTTACGAGAAA-
** * * *
265018 AAAACTCTGTATTTCGATAACAA
129 AAATTTC-ATATTTTGATAACAG
* *
265041 AAAAAATTCTAAAACTCATAAAATAAATTGAATTTTTCAAAA
1 AAAAAATT-TAAAACTCATAAAATAAATTAAAATTTTCAAAA
265083 TTGATTTAAA
Statistics
Matches: 290, Mismatches: 44, Indels: 21
0.82 0.12 0.06
Matches are distributed among these distances:
147 1 0.00
148 7 0.02
149 20 0.07
150 85 0.29
151 21 0.07
152 32 0.11
153 19 0.07
154 99 0.34
155 6 0.02
ACGTcount: A:0.52, C:0.09, G:0.07, T:0.32
Consensus pattern (150 bp):
AAAAAATTTAAAACTCATAAAATAAATTAAAATTTTCAAAACTAGTTTAATATCAACTAAACAAT
AATATTTGAAGAATTTTGAAAATTATAAACCTAGAAAAATCTTACTGAAAAATTTACGAGAAAAA
ATTTCATATTTTGATAACAG
Found at i:265091 original size:150 final size:149
Alignment explanation
Indices: 264643--265084 Score: 431
Period size: 150 Copynumber: 2.9 Consensus size: 149
264633 TACTATGAAT
* * **** * ** * * *
264643 TAAAAAATAATATTTGAAAAATTTTGAAAATTTTGTACCAAGAAAAATCCAACTGAAAATTTTAT
1 TAAACAATAATATTTGAAGAATTTTGAAAATTACAAACCTAGAAAAATCTTACCGAAAAATTTAC
* * * * * *
264708 GGAGTAA-AAAATTTCATATTTTGCAAAACAGAAAAAATTTTAAAAATCATAAAATAAATTAAAA
66 AGA-AAAGAAAATCTCATATTTCG-ATAACAGAAAAAA-TTTAAAACTCATAAAATAAATT-AAA
* *
264772 TTTTCAAAACTAGTTTAATATGAAC
127 TTTTCAAAATTAGTTT-A-ATCAAC
* ** *
264797 TAAACAATAATATTTGAAGAATTTTGAAAATTATAAATTTAGAAAAATCTTACTGAAAAATTTAC
1 TAAACAATAATATTTGAAGAATTTTGAAAATTACAAACCTAGAAAAATCTTACCGAAAAATTTAC
* * * * * * * *
264862 AGAGAATAAAATTTCATATTTTGATAATAGGAAAAATTTAAAACTCATAAAAGAAATTAAAATTT
66 AGAAAAGAAAATCTCATATTTCGATAACAGAAAAAATTTAAAACTCATAAAATAAATTAAATTTT
* *
264927 CAAAACTTATTTTAATCAAT
131 CAAAA-TTAGTTTAATCAAC
*
264947 TACACAATAATATTTGAAGAATTTTGAAAATTACAAACCTAGAAAAATCTTACCGAAAAATTTAC
1 TAAACAATAATATTTGAAGAATTTTGAAAATTACAAACCTAGAAAAATCTTACCGAAAAATTTAC
* * *
265012 -GAAAAGAAAA-CTCTGTATTTCGATAACAAAAAAAATTCTAAAACTCATAAAATAAATTGAATT
66 AGAAAAGAAAATCTC-ATATTTCGATAACAGAAAAAATT-TAAAACTCATAAAATAAATT-AAAT
265075 TTTCAAAATT
128 TTTCAAAATT
265085 GATTTAAAGG
Statistics
Matches: 243, Mismatches: 40, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
148 2 0.01
149 26 0.11
150 85 0.35
151 22 0.09
152 25 0.10
153 12 0.05
154 71 0.29
ACGTcount: A:0.51, C:0.09, G:0.07, T:0.32
Consensus pattern (149 bp):
TAAACAATAATATTTGAAGAATTTTGAAAATTACAAACCTAGAAAAATCTTACCGAAAAATTTAC
AGAAAAGAAAATCTCATATTTCGATAACAGAAAAAATTTAAAACTCATAAAATAAATTAAATTTT
CAAAATTAGTTTAATCAAC
Found at i:265406 original size:158 final size:164
Alignment explanation
Indices: 265229--265604 Score: 394
Period size: 158 Copynumber: 2.3 Consensus size: 164
265219 AAACCTGTGA
* *
265229 AAAT-AAATAAATTTTTCAAAAATGATTTACTATGAATTAAATGATGTTATTTGATAAATTTTAA
1 AAATAAAAGAAATTTTTCAAAAATGATTTA-TATGAATTAAATGATGATATTTGATAAATTTTAA
* * * ** *
265293 AAATTATAAATCAAG-AAAAATCC-CCTCCAAACATTTACGGAGCAGAAAACTCTATATTTC-AG
65 AAATTAT-AAGCAAGTAAAAATCCTCCTCAAAAAATTTACAAAGAAGAAAACTCTATATTTCGA-
* *
265355 AAATAAGAA-AATT-T-CAAG-AAA-AA-AATTCATG
128 AAATAAGAAGAATTCTAAAAGAAAACAATAACTCATG
* * * * * *
265386 AAATAAAAGAAATTTTTCAAAATTGATTTAAAGTGAATTATATGATAATATTTTATGAATTTTAA
1 AAATAAAAGAAATTTTTCAAAAATGATTTATA-TGAATTAAATGATGATATTTGATAAATTTTAA
* * * * * *
265451 AATTTATAAGCTAGTGAAAATCCTCTTGAAAAAATTTATAAAGAAGAAAACTCTATATTTCGAAA
65 AAATTATAAGCAAGTAAAAATCCTCCTCAAAAAATTTACAAAGAAGAAAACTCTATATTTCGAAA
*
265516 ATATGAAGAATTCTAAAAGAAAATCAATAACTCATG
130 ATAAGAAGAATTCTAAAAGAAAA-CAATAACTCATG
* * *
265552 AAATAAAAGGAATTTTTAAAAAATGATTTAATGTGAATTAAATGATGATATTT
1 AAATAAAAGAAATTTTTCAAAAATGATTT-ATATGAATTAAATGATGATATTT
265605 AAAGAATTGT
Statistics
Matches: 176, Mismatches: 30, Indels: 17
0.79 0.13 0.08
Matches are distributed among these distances:
157 10 0.06
158 63 0.36
159 37 0.21
160 5 0.03
161 1 0.01
162 3 0.02
163 3 0.02
165 2 0.01
166 51 0.29
167 1 0.01
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.33
Consensus pattern (164 bp):
AAATAAAAGAAATTTTTCAAAAATGATTTATATGAATTAAATGATGATATTTGATAAATTTTAAA
AATTATAAGCAAGTAAAAATCCTCCTCAAAAAATTTACAAAGAAGAAAACTCTATATTTCGAAAA
TAAGAAGAATTCTAAAAGAAAACAATAACTCATG
Found at i:267370 original size:13 final size:13
Alignment explanation
Indices: 267352--267377 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
267342 CAATTTTTTG
267352 TGTATCGATACAT
1 TGTATCGATACAT
267365 TGTATCGATACAT
1 TGTATCGATACAT
267378 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:268310 original size:44 final size:44
Alignment explanation
Indices: 267853--268308 Score: 297
Period size: 44 Copynumber: 10.3 Consensus size: 44
267843 CGAACGAGGA
* *
267853 TGAAAAGAGTTTGA-CAAGGGCTA-AACCATCGCGTCAAATGGAAG
1 TGAAAAGAGTTTGACCAA-GGC-AGAACCATCACGTCAAATGAAAG
* * * * * *
267897 TGAACAGATTTTGACCATGGCAGAACCATTACCTCAAA--CAAG
1 TGAAAAGAGTTTGACCAAGGCAGAACCATCACGTCAAATGAAAG
* * * *
267939 ATG-AAAGAAGTTTGACTAGGGCAGAAGCATCACGTCAAATGAAAA
1 -TGAAAAG-AGTTTGACCAAGGCAGAACCATCACGTCAAATGAAAG
* * **
267984 TGAAAAAAGTTTAACCAAGGCCA-AACCATCACACCAAAT-AATAG
1 TGAAAAGAGTTTGACCAAGG-CAGAACCATCACGTCAAATGAA-AG
* * * * * * *
268028 TGAAAAGAGTTTAACCAGGGTAGAACCATCGCATCAAACGAACG
1 TGAAAAGAGTTTGACCAAGGCAGAACCATCACGTCAAATGAAAG
* * * * ** *
268072 T-AAAAGGAGTTTGACCAGGGTAGAACCATTACATCAAACAAAAA
1 TGAAAA-GAGTTTGACCAAGGCAGAACCATCACGTCAAATGAAAG
** *
268116 T-AAATAGAGTTTGACCAAGGCAGAACCATTGCGTCAAATG-AGG
1 TGAAA-AGAGTTTGACCAAGGCAGAACCATCACGTCAAATGAAAG
* * * ** * * *
268159 TATAAAAAGGGTTTAACCAAGGTTGAACTATCACATC-AATCGAAAAA
1 --TGAAAAGAGTTTGACCAAGGCAGAACCATCACGTCAAAT-G-AAAG
* *
268206 TGAAAAGAGTTTGACCAGGGCCGAACCATCACGTCAAATGAAAG
1 TGAAAAGAGTTTGACCAAGGCAGAACCATCACGTCAAATGAAAG
* * *
268250 TG-AAAGAAGTTTGACTAAGGCAGAACCATCATGTCAAATGATAG
1 TGAAAAG-AGTTTGACCAAGGCAGAACCATCACGTCAAATGAAAG
268294 TGAAAAGAGTTTGAC
1 TGAAAAGAGTTTGAC
268309 TAGGGTAGAG
Statistics
Matches: 321, Mismatches: 69, Indels: 44
0.74 0.16 0.10
Matches are distributed among these distances:
42 6 0.02
43 40 0.12
44 200 0.62
45 68 0.21
46 6 0.02
47 1 0.00
ACGTcount: A:0.42, C:0.17, G:0.21, T:0.19
Consensus pattern (44 bp):
TGAAAAGAGTTTGACCAAGGCAGAACCATCACGTCAAATGAAAG
Found at i:268670 original size:13 final size:13
Alignment explanation
Indices: 268652--268676 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
268642 TATAAAGTGT
268652 TGTATCGATACAA
1 TGTATCGATACAA
268665 TGTATCGATACA
1 TGTATCGATACA
268677 TAAGTGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:268687 original size:32 final size:33
Alignment explanation
Indices: 268632--268697 Score: 116
Period size: 32 Copynumber: 2.0 Consensus size: 33
268622 TTCAACGATT
*
268632 TGTATCGATATATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
268665 TGTATCGATACAT-AAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
268697 T
1 T
268698 TTAAGCTACT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 20 0.62
33 12 0.38
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:268756 original size:13 final size:13
Alignment explanation
Indices: 268738--268762 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
268728 ATTACTCAAA
268738 TGTATCGATACAT
1 TGTATCGATACAT
268751 TGTATCGATACA
1 TGTATCGATACA
268763 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:268868 original size:51 final size:51
Alignment explanation
Indices: 268771--268900 Score: 206
Period size: 51 Copynumber: 2.5 Consensus size: 51
268761 CACTGATCTT
* *
268771 TGTATCGATACATGCAGACAAATTTACCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTT-TCCAGATGTATCGATACACTATAAAA
* *
268823 TGTATCGATACACGCAGGCAAATTTTCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTTCCAGATGTATCGATACACTATAAAA
*
268874 TGTATCGATACATACAGGCAAATTTTC
1 TGTATCGATACATGCAGGCAAATTTTC
268901 ATATTTCGAG
Statistics
Matches: 72, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
51 49 0.68
52 23 0.32
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.28
Consensus pattern (51 bp):
TGTATCGATACATGCAGGCAAATTTTCCAGATGTATCGATACACTATAAAA
Found at i:272696 original size:92 final size:92
Alignment explanation
Indices: 272556--272755 Score: 215
Period size: 92 Copynumber: 2.2 Consensus size: 92
272546 CCTTGTGGTC
* * * * *
272556 ATGTGATGCATCAGTACTATCTAGTGGTTGAGAAAAAGTAGTAGGATTAGGAATATGGGGTTAGG
1 ATGTGATGCATCAATACTATATAGCGGTTGAGAAAAAGTAGAAGGATTAGGAATATGGGATT-GG
272621 -ATGTCCTTGCCCCAGAGAACTCGAATT
65 AATGTCCTTGCCCCAGAGAACTCGAATT
* * * * *
272648 ATGTGATGCCTCAATACTATATAGCGGTTGAAGGAAAA-TGGAATGATTAGGAATATTGGATTGG
1 ATGTGATGCATCAATACTATATAGCGGTTG-AGAAAAAGTAGAAGGATTAGGAATATGGGATTGG
* *** * *
272712 AATGTCTTTGCCTTGGAGAACTTGGATT
65 AATGTCCTTGCCCCAGAGAACTCGAATT
*
272740 ATGTGATGCACCAATA
1 ATGTGATGCATCAATA
272756 TCATCTAATG
Statistics
Matches: 88, Mismatches: 18, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
91 2 0.02
92 80 0.91
93 6 0.07
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.30
Consensus pattern (92 bp):
ATGTGATGCATCAATACTATATAGCGGTTGAGAAAAAGTAGAAGGATTAGGAATATGGGATTGGA
ATGTCCTTGCCCCAGAGAACTCGAATT
Found at i:287857 original size:50 final size:51
Alignment explanation
Indices: 287715--287848 Score: 189
Period size: 50 Copynumber: 2.6 Consensus size: 51
287705 ATTTACCTGC
* *
287715 ATGTATCGATACATTGAATAATGTATCGATACATCTGGGT-AAAATCCAGA
1 ATGTATCGATACAATGAATAATGTATCGATACATCTGGGTAAAAACCCAGA
* * *
287765 ATGTATTGATACAATAAAGAATGTATCGATACATCTGGGTAAAAACCCAGA
1 ATGTATCGATACAATGAATAATGTATCGATACATCTGGGTAAAAACCCAGA
* * *
287816 ATGTATCAATACAGTGAATAATATATCGATACA
1 ATGTATCGATACAATGAATAATGTATCGATACA
287849 AATAGTAAAA
Statistics
Matches: 72, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
50 36 0.50
51 36 0.50
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.28
Consensus pattern (51 bp):
ATGTATCGATACAATGAATAATGTATCGATACATCTGGGTAAAAACCCAGA
Found at i:288827 original size:48 final size:48
Alignment explanation
Indices: 288771--288867 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
288761 TAAAACTTTC
288771 CCTTGCTACCCCTCTTTGAGCCTAACAAGTTCATTTTTTTGGAACCTT
1 CCTTGCTACCCCTCTTTGAGCCTAACAAGTTCATTTTTTTGGAACCTT
288819 CCTTGCTACCCCTCTTTGAGCCTAACAAGTTCATTTTTTTGGAACCTT
1 CCTTGCTACCCCTCTTTGAGCCTAACAAGTTCATTTTTTTGGAACCTT
288867 C
1 C
288868 ATCAAGGATC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.19, C:0.30, G:0.12, T:0.39
Consensus pattern (48 bp):
CCTTGCTACCCCTCTTTGAGCCTAACAAGTTCATTTTTTTGGAACCTT
Found at i:290876 original size:42 final size:43
Alignment explanation
Indices: 290766--290888 Score: 142
Period size: 42 Copynumber: 2.9 Consensus size: 43
290756 AGGATGCCTA
* **
290766 CTTCTTTTCCCTTTGTCCTCAAAAAGCAGGACAC-ATTCTTTTT
1 CTTCTTTTCCCTTTGTCCTCAAAGAGCAGGAC-CTATTCTCATT
* * * *
290809 TTTCCTTTTTCTTTTGTCCTTAAAGAGCAGGACCTATT-TCATT
1 CTT-CTTTTCCCTTTGTCCTCAAAGAGCAGGACCTATTCTCATT
*
290852 CTTCTTTTCCCTTTGTCCTCAAAGAGCAGGACTTATT
1 CTTCTTTTCCCTTTGTCCTCAAAGAGCAGGACCTATT
290889 AGTTTCCTTT
Statistics
Matches: 66, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
42 30 0.45
43 8 0.12
44 28 0.42
ACGTcount: A:0.20, C:0.25, G:0.11, T:0.44
Consensus pattern (43 bp):
CTTCTTTTCCCTTTGTCCTCAAAGAGCAGGACCTATTCTCATT
Found at i:291172 original size:44 final size:44
Alignment explanation
Indices: 291108--291194 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 44
291098 AAGCCCACAA
* *
291108 GAGTTGGTGGCACCCTAGTCAAAGCCCACACAAGCTGGCGGCAT
1 GAGTTAGTGGCACCCTAGTCAAAGCCCACACAAACTGGCGGCAT
* *
291152 GAGTTAGTGGCA-CCTAAGTCAAAGCCTACACAAACTGGTGGCA
1 GAGTTAGTGGCACCCT-AGTCAAAGCCCACACAAACTGGCGGCA
291195 CCTAAGTTCG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
43 3 0.08
44 35 0.92
ACGTcount: A:0.29, C:0.26, G:0.28, T:0.17
Consensus pattern (44 bp):
GAGTTAGTGGCACCCTAGTCAAAGCCCACACAAACTGGCGGCAT
Found at i:291753 original size:20 final size:20
Alignment explanation
Indices: 291728--291767 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
291718 CAGATGTATC
291728 GCTTTGTATCGATACATTAT
1 GCTTTGTATCGATACATTAT
291748 GCTTTGTATCGATACATTAT
1 GCTTTGTATCGATACATTAT
291768 ATCGATACAT
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:0.25, C:0.15, G:0.15, T:0.45
Consensus pattern (20 bp):
GCTTTGTATCGATACATTAT
Found at i:291773 original size:33 final size:33
Alignment explanation
Indices: 291751--291830 Score: 160
Period size: 33 Copynumber: 2.4 Consensus size: 33
291741 ACATTATGCT
291751 TTGTATCGATACATTATATCGATACATGCACAA
1 TTGTATCGATACATTATATCGATACATGCACAA
291784 TTGTATCGATACATTATATCGATACATGCACAA
1 TTGTATCGATACATTATATCGATACATGCACAA
291817 TTGTATCGATACAT
1 TTGTATCGATACAT
291831 GAAACTGGTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.35
Consensus pattern (33 bp):
TTGTATCGATACATTATATCGATACATGCACAA
Found at i:291792 original size:20 final size:20
Alignment explanation
Indices: 291767--291831 Score: 72
Period size: 20 Copynumber: 3.6 Consensus size: 20
291757 CGATACATTA
291767 TATCGATACATGCACAATTG
1 TATCGATACATGCACAATTG
*
291787 TATCG----AT--AC-ATTA
1 TATCGATACATGCACAATTG
291800 TATCGATACATGCACAATTG
1 TATCGATACATGCACAATTG
291820 TATCGATACATG
1 TATCGATACATG
291832 AAACTGGTAG
Statistics
Matches: 36, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
13 8 0.22
14 2 0.06
16 2 0.06
17 2 0.06
19 2 0.06
20 20 0.56
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.32
Consensus pattern (20 bp):
TATCGATACATGCACAATTG
Found at i:291885 original size:20 final size:20
Alignment explanation
Indices: 291860--291925 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
291850 CTACCACTGT
291860 TTGTATCGATACATGGCACA
1 TTGTATCGATACATGGCACA
291880 TTGTATCGAT--A---CA-A
1 TTGTATCGATACATGGCACA
*
291894 -TGTATTGATACATGGCACA
1 TTGTATCGATACATGGCACA
291913 TTGTATCGATACA
1 TTGTATCGATACA
291926 ATGTATCGAT
Statistics
Matches: 37, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
13 8 0.22
14 1 0.03
15 3 0.08
18 3 0.08
19 1 0.03
20 21 0.57
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (20 bp):
TTGTATCGATACATGGCACA
Found at i:291904 original size:33 final size:33
Alignment explanation
Indices: 291861--291958 Score: 155
Period size: 33 Copynumber: 3.0 Consensus size: 33
291851 TACCACTGTT
291861 TGTATCGATACATGGCACATTGTATCGATACAA
1 TGTATCGATACATGGCACATTGTATCGATACAA
*
291894 TGTATTGATACATGGCACATTGTATCGATACAA
1 TGTATCGATACATGGCACATTGTATCGATACAA
291927 TGTATCGATACATGATG-A-ATTGTATCGATACA
1 TGTATCGATACATG--GCACATTGTATCGATACA
291959 TTGCTTCAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
33 59 0.97
34 1 0.02
35 1 0.02
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (33 bp):
TGTATCGATACATGGCACATTGTATCGATACAA
Found at i:291932 original size:13 final size:13
Alignment explanation
Indices: 291914--291938 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
291904 CATGGCACAT
291914 TGTATCGATACAA
1 TGTATCGATACAA
291927 TGTATCGATACA
1 TGTATCGATACA
291939 TGATGAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:297966 original size:53 final size:53
Alignment explanation
Indices: 297863--297967 Score: 138
Period size: 53 Copynumber: 2.0 Consensus size: 53
297853 CTCGGAGATG
* * * *
297863 ATGGGGTTGGAGTATCCCTAGAAATGAAGAATTCAATATTGTGGAGGTAAAAA
1 ATGGGGTTGGAGTATCCCTAGAAATGAAAAATGCAATATTGTAGAAGTAAAAA
* * * *
297916 ATGGGGTTGGAGTATCCCTAGAGATGAAAAATGCAGTGTTTTAGAAGTAAAA
1 ATGGGGTTGGAGTATCCCTAGAAATGAAAAATGCAATATTGTAGAAGTAAAA
297968 CCAGGGTTGA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
53 44 1.00
ACGTcount: A:0.37, C:0.08, G:0.29, T:0.27
Consensus pattern (53 bp):
ATGGGGTTGGAGTATCCCTAGAAATGAAAAATGCAATATTGTAGAAGTAAAAA
Done.