Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 5 of 444
Found at i:1435711 original size:39 final size:39
Alignment explanation
Indices: 1435643--1435837 Score: 255
Period size: 39 Copynumber: 5.0 Consensus size: 39
1435633 GGGTACCATT
* * *
1435643 CAGCACGTAGCCTGCGGACTTCAAGTCCGGATATATTTC
1 CAGCACATAGCCTGCGGACCTCATGTCCGGATATATTTC
* * * * *
1435682 CGGCACATAGACTACGGACTTCAAGTCCGGATATATTTC
1 CAGCACATAGCCTGCGGACCTCATGTCCGGATATATTTC
** * *
1435721 TGGCACATAGCCTGCGGACCTCATGTCCAGATATATTCC
1 CAGCACATAGCCTGCGGACCTCATGTCCGGATATATTTC
* *
1435760 CAGCATATAGCCTGCGGACCTCATGTCCGGATATATTCC
1 CAGCACATAGCCTGCGGACCTCATGTCCGGATATATTTC
*
1435799 CAGCATATAGCCTGCGGACCTCATGTCCGGATATATTTC
1 CAGCACATAGCCTGCGGACCTCATGTCCGGATATATTTC
1435838 AAATACCATG
Statistics
Matches: 140, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 140 1.00
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (39 bp):
CAGCACATAGCCTGCGGACCTCATGTCCGGATATATTTC
Found at i:1437162 original size:21 final size:21
Alignment explanation
Indices: 1437137--1437177 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1437127 CGGCAATTTC
1437137 AATTCATACTT-TTCAACCATG
1 AATTC-TACTTATTCAACCATG
1437158 AATTCTACTTATTCAACCAT
1 AATTCTACTTATTCAACCAT
1437178 CATTTAAGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.34, C:0.24, G:0.02, T:0.39
Consensus pattern (21 bp):
AATTCTACTTATTCAACCATG
Found at i:1439846 original size:20 final size:21
Alignment explanation
Indices: 1439823--1439866 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1439813 TGATAAAATA
* *
1439823 AAAT-TTGTTTTATAACTTTT
1 AAATATTGTTTGATAAATTTT
1439843 AAATATTGTTTGATAAATTTT
1 AAATATTGTTTGATAAATTTT
1439864 AAA
1 AAA
1439867 CTCAAGTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.52
Consensus pattern (21 bp):
AAATATTGTTTGATAAATTTT
Found at i:1440478 original size:3 final size:3
Alignment explanation
Indices: 1440470--1440501 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
1440460 TCTTCCATGG
*
1440470 CTT CTT CTT CTT CTT CTT CTT CTT CAT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
1440502 ACTCTAATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.03, C:0.34, G:0.00, T:0.62
Consensus pattern (3 bp):
CTT
Found at i:1445006 original size:439 final size:437
Alignment explanation
Indices: 1444059--1446600 Score: 3453
Period size: 445 Copynumber: 5.8 Consensus size: 437
1444049 AGGAAAAAAA
* * * * * *
1444059 TTATAATTTAATGTATCAAATAATCATACGATGACATCTTATTTAAAGTTTTTAAAAAATAAATA
1 TTATAATTTGATGTATCAAATATTTATATGATAACATTTTATTTAAAGTTTTTAAAAAATAAATA
* * * * * * * * * * * * *
1444124 TGAAAGATTTTATTATATATAAATTAGTGGCATGGTTTGATGTATTAATTGTGGGTTAGTTTTCA
66 TAAAAGATTTTATTTTATTTAGATAAATGACATCGTTTGATTTATTAATTGTGGATGAATTTTAA
* ** * * ** *
1444189 CACCTAATACATCAAATATGAATTTTTATTTTTCT-TAGTATTATAATTATTTATTTCCTTTTTC
131 CGCCCGATACGTCAAATATAAATTTTTATTTTT-TATTCTATTATAATTATTTATTTTC-TTTTC
* *** * ** * *
1444253 ATTTGTTACTATTTAA-AGTAAGTAGTTGATAATTAAAAGTAATACAAATATTTTTTCTATATAG
194 ATTTTTTACTGCCTAACA-TAAATAGTTGATGCTTAAAAGTAATACAATTATTTTTTCTATACAG
* * ** * * *
1444317 GACTTTGTTAATTTAACCACAATTCAAC-TTGATGGGTGCGTGAATTTAA-AAAAATTCATAATC
258 GGCCTTGTTAATTTAAGGA-AATT-AACTTTGAGGGGTGCGTGAATTTAAGAAAGATAC-TAATC
* * * * * *
1444380 TATCAAGAACCATCAACTTTGAAATCCTTGATTGCACTAACTGCAAAAGTTTAATTGAACTTTGA
320 TTTCAAGAGCCATCAACCTTGAAATCCTTGATTGCACTAACTGCGAAAGTTTAGTTGAACTTTGG
* * * *
1444445 AATGAAGATGATCATATGGTATATGTTTTCAAATTTTTTTTTGAAAAAAATGATT
385 AATGAAGATGATCATATGGTATGTGTTTTCATA-TTTATTTCGAAAAAAATGA-T
* *
1444500 TTATAATTTGATGTATTAAATATTCATATGATAACATTTTATTTAAAGTTTTTAAAAAA-AAATA
1 TTATAATTTGATGTATCAAATATTTATATGATAACATTTTATTTAAAGTTTTTAAAAAATAAATA
* * *
1444564 TAAAAGATTTTATTTTATTTAGATAAATGACATCGTTTAATTTATTAATTGTGGGTGAATTTTCA
66 TAAAAGATTTTATTTTATTTAGATAAATGACATCGTTTGATTTATTAATTGTGGATGAATTTTAA
**
1444629 CGCCCGATA-GTCAAATATAAATTTTTATTTTTTTATAATATTATAATTATTTATTTTCTTTTCA
131 CGCCCGATACGTCAAATATAAATTTTTA-TTTTTTATTCTATTATAATTATTTATTTTCTTTTCA
*
1444693 TTTTTTATTGCCTAACATAAATAGTTGATGCTTAAAAGTAATACAATTATTTTTTCTATACAGGG
195 TTTTTTACTGCCTAACATAAATAGTTGATGCTTAAAAGTAATACAATTATTTTTTCTATACA-GG
* * * *** * * *
1444758 GCC-TGTTAATTTAACCGCAATTTACTTTGATAAGTGCTTGAATTTAATAAAGATACGTAATTTT
259 GCCTTGTTAATTTAA-GGAAATTAACTTTGAGGGGTGCGTGAATTTAAGAAAGATAC-TAATCTT
* * * **
1444822 TCAAGAGCCACCAACCTTGAAATCCTTGATTGCTCTCACTGTAAAAGTTTAGTTGAACTTTGGAA
322 TCAAGAGCCATCAACCTTGAAATCCTTGATTGCACTAACTGCGAAAGTTTAGTTGAACTTTGGAA
* *
1444887 CGAAGATGATCATATGGAATGTGTTTTCATATTTATTTCGAAAAAAATGAT
387 TGAAGATGATCATATGGTATGTGTTTTCATATTTATTTCGAAAAAAATGAT
* *
1444938 TTATAATTTGATGTATCAAATATTTATACGATAACATTTTATTTGAAGTTTTTAAAAAATAAATA
1 TTATAATTTGATGTATCAAATATTTATATGATAACATTTTATTTAAAGTTTTTAAAAAATAAATA
* *
1445003 TAAAAGATTTTATTTTATTTAGATAAATGACATCTTTTGATTTATTAATTGTGGATTAATTTTAA
66 TAAAAGATTTTATTTTATTTAGATAAATGACATCGTTTGATTTATTAATTGTGGATGAATTTTAA
* *
1445068 CGCCCAATACGTCAAATATAAATTTTTATTTTTTATTCTATTATAATAATTTATTTTCTTTTCAT
131 CGCCCGATACGTCAAATATAAATTTTTATTTTTTATTCTATTATAATTATTTATTTTCTTTTCAT
* **
1445133 TTTTTACTGCCTAATATAAATAGTTGATGCTTAAAAGTAATACAATTATTTTTTCTATACAAAGC
196 TTTTTACTGCCTAACATAAATAGTTGATGCTTAAAAGTAATACAATTATTTTTTCTATACAGGGC
* * *
1445198 CTTGTTAATTTAAGGGAAATTAACTTTGGGGGGTGCATGAATTTAAGGAAGATATCTAATCTTTC
261 CTTGTTAATTTAA-GGAAATTAACTTTGAGGGGTGCGTGAATTTAAGAAAGATA-CTAATCTTTC
** * * * *
1445263 AAGAGTTATCAACCTTGAAATCTTTGATTTCACTGACTGCGAAAGTTTGGTTGAACTTTGGAATG
324 AAGAGCCATCAACCTTGAAATCCTTGATTGCACTAACTGCGAAAGTTTAGTTGAACTTTGGAATG
** *
1445328 AAGATGATCATATGGTATGTGTTTTCATATTTATTTAAAAAAAAAGATTTATAAT
389 AAGATGATCATATGGTATGTGTTTTCATATTTATTT--CGAAAAA-A---ATGAT
* * *
1445383 TTATAATTTGATGTATCGAATATTTATATGATAACATTGTATTTGAAGTTTTTAAAAAATAAATA
1 TTATAATTTGATGTATCAAATATTTATATGATAACATTTTATTTAAAGTTTTTAAAAAATAAATA
*
1445448 TAAAAGATTTTATTTTATTTAGATAAATGACATGGTTTGATTTATTAATTGTGGATGAATTTTAA
66 TAAAAGATTTTATTTTATTTAGATAAATGACATCGTTTGATTTATTAATTGTGGATGAATTTTAA
* *
1445513 CGCCCGATACGTCAAATATAATTTTTTATTTTTTATTCTATTGTAATTATTTATTTTCTTTTCAT
131 CGCCCGATACGTCAAATATAAATTTTTATTTTTTATTCTATTATAATTATTTATTTTCTTTTCAT
1445578 TTTTTACTGCCTAACATAAATAGTTGATGCTTAAAAGTAATACAATTATTTTTTCTATACAGGGC
196 TTTTTACTGCCTAACATAAATAGTTGATGCTTAAAAGTAATACAATTATTTTTTCTATACAGGGC
* *
1445643 CTTGTTAATTTAAGGAAAATTAACTTTGGGGGGTGCGTGAATTTAAGGAAGATATCTAATCTTTC
261 CTTGTTAATTTAAGG-AAATTAACTTTGAGGGGTGCGTGAATTTAAGAAAGATA-CTAATCTTTC
* * * *
1445708 AAGAGCCATCAACCTTGAAATCCTTGTTTTCACTGACTGCGAAAGTTTGGTTGAACTTTGGAATG
324 AAGAGCCATCAACCTTGAAATCCTTGATTGCACTAACTGCGAAAGTTTAGTTGAACTTTGGAATG
**
1445773 AAGATGATCATATGGTATGTGTTTTCATATTTATTTTTAAAAAAATGATTTATAAT
389 AAGATGATCATATGGTATGTGTTTTCATATTTATTTCGAAAAAAATG-------AT
*
1445829 TTATAATTTGATGTATCAAATATTTATATGATAACATTTTATTTGAAGTTTTTAAAAAATAAATA
1 TTATAATTTGATGTATCAAATATTTATATGATAACATTTTATTTAAAGTTTTTAAAAAATAAATA
* *
1445894 TAAAAGATTTTATATTATTTAGATAAATGACATGGTTTGATTTATTAATTGTGGATGAATTTTAA
66 TAAAAGATTTTATTTTATTTAGATAAATGACATCGTTTGATTTATTAATTGTGGATGAATTTTAA
* *
1445959 CGGCCGATACGTCAAATATAAATTTTTATTTTTTATTTTATTATAATTATTTATTTTCTTTTCAT
131 CGCCCGATACGTCAAATATAAATTTTTATTTTTTATTCTATTATAATTATTTATTTTCTTTTCAT
1446024 TTTTTACTGCCTAACATAAATAGTTGATGCTTAAAAGTAATACAATTATTTTTTCTATACAGGGC
196 TTTTTACTGCCTAACATAAATAGTTGATGCTTAAAAGTAATACAATTATTTTTTCTATACAGGGC
* * * *
1446089 CTTGTTAATTTAAGGGAAATTTATTTTGAGCGGTGCGTGAATTTAAGGAAGATACCTAATCTTTC
261 CTTGTTAATTTAA-GGAAATTAACTTTGAGGGGTGCGTGAATTTAAGAAAGATA-CTAATCTTTC
* * ** * *
1446154 AAGAGTCATC-ACCTTAAAATCCTTGATTGCTTTAACTGCGAAAGTTCAATTGAACTTTGGAATG
324 AAGAGCCATCAACCTTGAAATCCTTGATTGCACTAACTGCGAAAGTTTAGTTGAACTTTGGAATG
*
1446218 AAGATGATCATATGGTATGTGTTTTCATATTTATTTCGAAAAAAATAAT
389 AAGATGATCATATGGTATGTGTTTTCATATTTATTTCGAAAAAAATGAT
1446267 TTATAATTTGATGTATCAAATATTTATATGATAACATTTTATTTAAAGTTTTTAAAAAATAAATA
1 TTATAATTTGATGTATCAAATATTTATATGATAACATTTTATTTAAAGTTTTTAAAAAATAAATA
* * *
1446332 TAAAAGATTTTATTTTATTTAGTTAAATGACATCGTTTGATTTATTAATTGTGGATTAATTTTCA
66 TAAAAGATTTTATTTTATTTAGATAAATGACATCGTTTGATTTATTAATTGTGGATGAATTTTAA
1446397 CGCCCGATACGTCAAATATAAATTTTTATTTTTTATTCTATTATAATTATTTATTTTCTTTTCAT
131 CGCCCGATACGTCAAATATAAATTTTTATTTTTTATTCTATTATAATTATTTATTTTCTTTTCAT
* * * * *
1446462 TTTTTACTGCCTAACATAAATAGTTAATACTTAAAAGTAACACAATTATTTTTTCTATACAAGAC
196 TTTTTACTGCCTAACATAAATAGTTGATGCTTAAAAGTAATACAATTATTTTTTCTATACAGGGC
* * * * * *
1446527 GTTGTTAATTTAAAGAAAATTTACTTTAAAGAGTGCGTGAATTTAAGAAAGATACCTAATCTTTC
261 CTTGTTAATTT-AAGGAAATTAACTTTGAGGGGTGCGTGAATTTAAGAAAGATA-CTAATCTTTC
1446592 AAGAGCCAT
324 AAGAGCCAT
1446601 TAGAGTGCTT
Statistics
Matches: 1900, Mismatches: 174, Indels: 57
0.89 0.08 0.03
Matches are distributed among these distances:
438 372 0.20
439 431 0.23
440 209 0.11
441 58 0.03
442 2 0.00
443 5 0.00
444 2 0.00
445 498 0.26
446 321 0.17
447 2 0.00
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.43
Consensus pattern (437 bp):
TTATAATTTGATGTATCAAATATTTATATGATAACATTTTATTTAAAGTTTTTAAAAAATAAATA
TAAAAGATTTTATTTTATTTAGATAAATGACATCGTTTGATTTATTAATTGTGGATGAATTTTAA
CGCCCGATACGTCAAATATAAATTTTTATTTTTTATTCTATTATAATTATTTATTTTCTTTTCAT
TTTTTACTGCCTAACATAAATAGTTGATGCTTAAAAGTAATACAATTATTTTTTCTATACAGGGC
CTTGTTAATTTAAGGAAATTAACTTTGAGGGGTGCGTGAATTTAAGAAAGATACTAATCTTTCAA
GAGCCATCAACCTTGAAATCCTTGATTGCACTAACTGCGAAAGTTTAGTTGAACTTTGGAATGAA
GATGATCATATGGTATGTGTTTTCATATTTATTTCGAAAAAAATGAT
Found at i:1445763 original size:884 final size:878
Alignment explanation
Indices: 1444059--1446600 Score: 3586
Period size: 884 Copynumber: 2.9 Consensus size: 878
1444049 AGGAAAAAAA
* * * * * *
1444059 TTATAATTTAATGTATCAAATAATCATACGATGACATCTTATTTAAAGTTTTTAAAAAATAAATA
1 TTATAATTTGATGTATCAAATATTTATACGATAACATTTTATTTGAAGTTTTTAAAAAATAAATA
* * * * * * * * * * *
1444124 TGAAAGATTTTATTATATATAAATTAGTGGCATGGTTTGATGTATTAATTGTGGGTTAGTTTTCA
66 TAAAAGATTTTATTTTATTTAGATAAATGACATGGTTTGATTTATTAATTGTGGATTAATTTTAA
* * * * ** *
1444189 CACCTAATACATCAAATATGAATTTTTATTTTTCT-TAGTATTATAATTATTTATTTCCTTTTTC
131 CGCCCAATACGTCAAATATAAATTTTTATTTTT-TATTCTATTATAATTATTTATTTTC-TTTTC
* *** * ** * *
1444253 ATTTGTTACTATTTAAAGTAAGTAGTTGATAATTAAAAGTAATACAAATATTTTTTCTATA-TAG
194 ATTTTTTACTGCCTAAA-TAAATAGTTGATGCTTAAAAGTAATACAATTATTTTTTCTATACAAG
* ** * * *
1444317 GACTTTGTTAATTTAA-CCACAATTCAAC-TTGATGGGTGCGTGAATTTAA-AAAAAT-TCATAA
258 G-CCTTGTTAATTTAAGGGA-AATT-AACTTTGAGGGGTGCGTGAATTTAAGGAAGATATC-TAA
* ** * *
1444378 TCTATCAAGAACCATCAACTTTGAAATCCTTGATTGCACTAACTGCAAAAGTTTAATTGAACTTT
319 TCTTTCAAGAGTCATCAACCTTGAAATCCTTGATTGCACTAACTGCGAAAGTTTAATTGAACTTT
* * * * *
1444443 GAAATGAAGATGATCATATGGTATATGTTTTCAAATTTTTTTTTGAAAAAAATGAT--TTTATAA
384 GGAATGAAGATGATCATATGGTATGTGTTTTC--ATATTTATTTAAAAAAAAT-ATAATTTATAA
* *
1444506 TTTGATGTATTAAATATTCATATGATAACATTTTATTTAAAGTTTTTAAAAAA-AAATATAAAAG
446 TTTGATGTATCAAATATTTATATGATAACATTTTATTTAAAGTTTTTAAAAAATAAATATAAAAG
* *
1444570 ATTTTATTTTATTTAGATAAATGACATCGTTTAATTTATTAATTGTGGGTGAATTTTCACGCCCG
511 ATTTTATTTTATTTAGATAAATGACATCGTTTGATTTATTAATTGTGGATGAATTTTCACGCCCG
**
1444635 ATA-GTCAAATATAAATTTTTATTTTTTTATAATATTATAATTATTTATTTTCTTTTCATTTTTT
576 ATACGTCAAATATAAATTTTTA-TTTTTTATTCTATTATAATTATTTATTTTCTTTTCATTTTTT
*
1444699 ATTGCCTAACATAAATAGTTGATGCTTAAAAGTAATACAATTATTTTTTCTATACAGGGGCC-TG
640 ACTGCCTAACATAAATAGTTGATGCTTAAAAGTAATACAATTATTTTTTCTATACA-GGGCCTTG
* * * * *
1444763 TTAATTTAACCG-CAATTTACTTTGATA-AGTGCTTGAATTTAATAAAGATACGTAATTTTTCAA
704 TTAATTTAA-AGAAAATTTACTTTGA-AGAGTGCGTGAATTTAAGAAAGATAC-TAATCTTTCAA
* * *
1444826 GAGCCACCAACCTTGAAATCCTTGATTGCTCTCACTGTAAAAGTTTAGTTGAACTTTGGAACGAA
766 GAGCCATCAACCTTGAAATCCTTGATTGCACTCACTGCAAAAGTTTAGTTGAACTTTGGAACGAA
1444891 GATGATCATATGGAATGTGTTTTCATATTTATTTCGAAAAAAATG-AT
831 GATGATCATATGGAATGTGTTTTCATATTTATTTCGAAAAAAATGTAT
1444938 TTATAATTTGATGTATCAAATATTTATACGATAACATTTTATTTGAAGTTTTTAAAAAATAAATA
1 TTATAATTTGATGTATCAAATATTTATACGATAACATTTTATTTGAAGTTTTTAAAAAATAAATA
**
1445003 TAAAAGATTTTATTTTATTTAGATAAATGACATCTTTTGATTTATTAATTGTGGATTAATTTTAA
66 TAAAAGATTTTATTTTATTTAGATAAATGACATGGTTTGATTTATTAATTGTGGATTAATTTTAA
*
1445068 CGCCCAATACGTCAAATATAAATTTTTATTTTTTATTCTATTATAATAATTTATTTTCTTTTCAT
131 CGCCCAATACGTCAAATATAAATTTTTATTTTTTATTCTATTATAATTATTTATTTTCTTTTCAT
*
1445133 TTTTTACTGCCTAATATAAATAGTTGATGCTTAAAAGTAATACAATTATTTTTTCTATACAAAGC
196 TTTTTACTGCCTAA-ATAAATAGTTGATGCTTAAAAGTAATACAATTATTTTTTCTATACAAGGC
* *
1445198 CTTGTTAATTTAAGGGAAATTAACTTTGGGGGGTGCATGAATTTAAGGAAGATATCTAATCTTTC
260 CTTGTTAATTTAAGGGAAATTAACTTTGAGGGGTGCGTGAATTTAAGGAAGATATCTAATCTTTC
* * * * **
1445263 AAGAGTTATCAACCTTGAAATCTTTGATTTCACTGACTGCGAAAGTTTGGTTGAACTTTGGAATG
325 AAGAGTCATCAACCTTGAAATCCTTGATTGCACTAACTGCGAAAGTTTAATTGAACTTTGGAATG
1445328 AAGATGATCATATGGTATGTGTTTTCATATTTATTTAAAAAAAAAGATTTATAATTTATAATTTG
390 AAGATGATCATATGGTATGTGTTTTCATATTTATTT--AAAAAAA-A--TATAATTTATAATTTG
* * *
1445393 ATGTATCGAATATTTATATGATAACATTGTATTTGAAGTTTTTAAAAAATAAATATAAAAGATTT
450 ATGTATCAAATATTTATATGATAACATTTTATTTAAAGTTTTTAAAAAATAAATATAAAAGATTT
* *
1445458 TATTTTATTTAGATAAATGACATGGTTTGATTTATTAATTGTGGATGAATTTTAACGCCCGATAC
515 TATTTTATTTAGATAAATGACATCGTTTGATTTATTAATTGTGGATGAATTTTCACGCCCGATAC
* *
1445523 GTCAAATATAATTTTTTATTTTTTATTCTATTGTAATTATTTATTTTCTTTTCATTTTTTACTGC
580 GTCAAATATAAATTTTTATTTTTTATTCTATTATAATTATTTATTTTCTTTTCATTTTTTACTGC
1445588 CTAACATAAATAGTTGATGCTTAAAAGTAATACAATTATTTTTTCTATACAGGGCCTTGTTAATT
645 CTAACATAAATAGTTGATGCTTAAAAGTAATACAATTATTTTTTCTATACAGGGCCTTGTTAATT
* * ** * *
1445653 TAAGGAAAATTAACTTTGGGGGGTGCGTGAATTTAAGGAAGATATCTAATCTTTCAAGAGCCATC
710 TAAAGAAAATTTACTTTGAAGAGTGCGTGAATTTAAGAAAGATA-CTAATCTTTCAAGAGCCATC
* * * * * *
1445718 AACCTTGAAATCCTTGTTTTCACTGACTGCGAAAGTTTGGTTGAACTTTGGAATGAAGATGATCA
774 AACCTTGAAATCCTTGATTGCACTCACTGCAAAAGTTTAGTTGAACTTTGGAACGAAGATGATCA
* **
1445783 TATGGTATGTGTTTTCATATTTATTTTTAAAAAAATGATTTATAAT
839 TATGGAATGTGTTTTCATATTTATTTCGAAAAAAATG-----T-AT
*
1445829 TTATAATTTGATGTATCAAATATTTATATGATAACATTTTATTTGAAGTTTTTAAAAAATAAATA
1 TTATAATTTGATGTATCAAATATTTATACGATAACATTTTATTTGAAGTTTTTAAAAAATAAATA
* *
1445894 TAAAAGATTTTATATTATTTAGATAAATGACATGGTTTGATTTATTAATTGTGGATGAATTTTAA
66 TAAAAGATTTTATTTTATTTAGATAAATGACATGGTTTGATTTATTAATTGTGGATTAATTTTAA
* * *
1445959 CGGCCGATACGTCAAATATAAATTTTTATTTTTTATTTTATTATAATTATTTATTTTCTTTTCAT
131 CGCCCAATACGTCAAATATAAATTTTTATTTTTTATTCTATTATAATTATTTATTTTCTTTTCAT
*
1446024 TTTTTACTGCCTAACATAAATAGTTGATGCTTAAAAGTAATACAATTATTTTTTCTATACAGGGC
196 TTTTTACTGCCTAA-ATAAATAGTTGATGCTTAAAAGTAATACAATTATTTTTTCTATACAAGGC
* * * *
1446089 CTTGTTAATTTAAGGGAAATTTATTTTGAGCGGTGCGTGAATTTAAGGAAGATACCTAATCTTTC
260 CTTGTTAATTTAAGGGAAATTAACTTTGAGGGGTGCGTGAATTTAAGGAAGATATCTAATCTTTC
* ** *
1446154 AAGAGTCATC-ACCTTAAAATCCTTGATTGCTTTAACTGCGAAAGTTCAATTGAACTTTGGAATG
325 AAGAGTCATCAACCTTGAAATCCTTGATTGCACTAACTGCGAAAGTTTAATTGAACTTTGGAATG
**
1446218 AAGATGATCATATGGTATGTGTTTTCATATTTATTTCGAAAAAA-ATAATTTATAATTTGATGTA
390 AAGATGATCATATGGTATGTGTTTTCATATTTATTTAAAAAAAATATAATTTATAATTTGATGTA
1446282 TCAAATATTTATATGATAACATTTTATTTAAAGTTTTTAAAAAATAAATATAAAAGATTTTATTT
455 TCAAATATTTATATGATAACATTTTATTTAAAGTTTTTAAAAAATAAATATAAAAGATTTTATTT
* *
1446347 TATTTAGTTAAATGACATCGTTTGATTTATTAATTGTGGATTAATTTTCACGCCCGATACGTCAA
520 TATTTAGATAAATGACATCGTTTGATTTATTAATTGTGGATGAATTTTCACGCCCGATACGTCAA
1446412 ATATAAATTTTTATTTTTTATTCTATTATAATTATTTATTTTCTTTTCATTTTTTACTGCCTAAC
585 ATATAAATTTTTATTTTTTATTCTATTATAATTATTTATTTTCTTTTCATTTTTTACTGCCTAAC
* * * * * *
1446477 ATAAATAGTTAATACTTAAAAGTAACACAATTATTTTTTCTATACAAGACGTTGTTAATTTAAAG
650 ATAAATAGTTGATGCTTAAAAGTAATACAATTATTTTTTCTATACAGGGCCTTGTTAATTTAAAG
*
1446542 AAAATTTACTTTAAAGAGTGCGTGAATTTAAGAAAGATACCTAATCTTTCAAGAGCCAT
715 AAAATTTACTTTGAAGAGTGCGTGAATTTAAGAAAGATA-CTAATCTTTCAAGAGCCAT
1446601 TAGAGTGCTT
Statistics
Matches: 1486, Mismatches: 150, Indels: 49
0.88 0.09 0.03
Matches are distributed among these distances:
877 11 0.01
878 92 0.06
879 260 0.17
880 3 0.00
881 2 0.00
882 1 0.00
883 61 0.04
884 633 0.43
885 18 0.01
887 1 0.00
888 5 0.00
890 81 0.05
891 318 0.21
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.43
Consensus pattern (878 bp):
TTATAATTTGATGTATCAAATATTTATACGATAACATTTTATTTGAAGTTTTTAAAAAATAAATA
TAAAAGATTTTATTTTATTTAGATAAATGACATGGTTTGATTTATTAATTGTGGATTAATTTTAA
CGCCCAATACGTCAAATATAAATTTTTATTTTTTATTCTATTATAATTATTTATTTTCTTTTCAT
TTTTTACTGCCTAAATAAATAGTTGATGCTTAAAAGTAATACAATTATTTTTTCTATACAAGGCC
TTGTTAATTTAAGGGAAATTAACTTTGAGGGGTGCGTGAATTTAAGGAAGATATCTAATCTTTCA
AGAGTCATCAACCTTGAAATCCTTGATTGCACTAACTGCGAAAGTTTAATTGAACTTTGGAATGA
AGATGATCATATGGTATGTGTTTTCATATTTATTTAAAAAAAATATAATTTATAATTTGATGTAT
CAAATATTTATATGATAACATTTTATTTAAAGTTTTTAAAAAATAAATATAAAAGATTTTATTTT
ATTTAGATAAATGACATCGTTTGATTTATTAATTGTGGATGAATTTTCACGCCCGATACGTCAAA
TATAAATTTTTATTTTTTATTCTATTATAATTATTTATTTTCTTTTCATTTTTTACTGCCTAACA
TAAATAGTTGATGCTTAAAAGTAATACAATTATTTTTTCTATACAGGGCCTTGTTAATTTAAAGA
AAATTTACTTTGAAGAGTGCGTGAATTTAAGAAAGATACTAATCTTTCAAGAGCCATCAACCTTG
AAATCCTTGATTGCACTCACTGCAAAAGTTTAGTTGAACTTTGGAACGAAGATGATCATATGGAA
TGTGTTTTCATATTTATTTCGAAAAAAATGTAT
Found at i:1446029 original size:18 final size:18
Alignment explanation
Indices: 1445980--1446029 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
1445970 TCAAATATAA
*
1445980 ATTTTTATTTTTTATTTT
1 ATTTTAATTTTTTATTTT
* *
1445998 ATTATAATTATTTATTTT
1 ATTTTAATTTTTTATTTT
* *
1446016 CTTTTCATTTTTTA
1 ATTTTAATTTTTTA
1446030 CTGCCTAACA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (18 bp):
ATTTTAATTTTTTATTTT
Found at i:1450445 original size:2 final size:2
Alignment explanation
Indices: 1450438--1450476 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
1450428 CTCTAATGCC
1450438 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1450477 GGGCTTACAT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1454014 original size:23 final size:26
Alignment explanation
Indices: 1453971--1454025 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 26
1453961 CAATACAGAA
1453971 TAATCTCTTCAGATATTTATTT-T-TT
1 TAATCTCTTCAGATA-TTATTTCTCTT
1453996 TAATCTTCTTCAGA-A-TATTTCTCTT
1 TAATC-TCTTCAGATATTATTTCTCTT
1454021 TAATC
1 TAATC
1454026 GAGTTTCTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
23 5 0.19
24 1 0.04
25 13 0.48
26 8 0.30
ACGTcount: A:0.25, C:0.16, G:0.04, T:0.55
Consensus pattern (26 bp):
TAATCTCTTCAGATATTATTTCTCTT
Found at i:1455596 original size:32 final size:32
Alignment explanation
Indices: 1455536--1455596 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
1455526 CTACCATTTC
*
1455536 AACTAAATTTTATAATTTTTGTACTAAAAAAA
1 AACTAAATTTTATAATTTGTGTACTAAAAAAA
1455568 AACTAAATTTTATAATTTGT-TACATAAAA
1 AACTAAATTTTATAATTTGTGTAC-TAAAA
1455597 TTTTCATCCC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 3 0.11
32 24 0.89
ACGTcount: A:0.49, C:0.07, G:0.03, T:0.41
Consensus pattern (32 bp):
AACTAAATTTTATAATTTGTGTACTAAAAAAA
Found at i:1461292 original size:11 final size:11
Alignment explanation
Indices: 1461278--1461302 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1461268 CCCCACAGAT
1461278 AACCCAACATA
1 AACCCAACATA
1461289 AACCCAACATA
1 AACCCAACATA
1461300 AAC
1 AAC
1461303 TAATATATAC
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:0.56, C:0.36, G:0.00, T:0.08
Consensus pattern (11 bp):
AACCCAACATA
Found at i:1463648 original size:28 final size:25
Alignment explanation
Indices: 1463616--1463681 Score: 62
Period size: 24 Copynumber: 2.6 Consensus size: 25
1463606 TGTCACTATT
*
1463616 TTAAATATAAAATATGTAATTTTATATC
1 TTAAATATAAAATAT-TAA--TTATATA
* *
1463644 TTAAAAATTAAA-ATTAATTATATA
1 TTAAATATAAAATATTAATTATATA
*
1463668 TTAAATAAAAAATA
1 TTAAATATAAAATA
1463682 AAATTCGATT
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
24 15 0.48
25 1 0.03
26 3 0.10
27 2 0.06
28 10 0.32
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (25 bp):
TTAAATATAAAATATTAATTATATA
Found at i:1468831 original size:439 final size:440
Alignment explanation
Indices: 1467552--1472214 Score: 6761
Period size: 440 Copynumber: 10.7 Consensus size: 440
1467542 ATAATTTAGC
* * * * *
1467552 GTATCAAATAATTATATGATGACATCTTATTTAAAGTTTTTAAAAAATAAATATGAAATATTTTA
1 GTATCAAATATTTATATGATAACATTTTATTTAAAGTTTTTAAAAAATAAATATAAAAGATTTTA
* * * * * * * * * * ** *
1467617 TTTTATATAAATTAGTGGCATGGTTTGATGTATTAATTGTGGGTTAGTTTTCACACCTAATACAT
66 TTTTATTTAGATAAATGACATCGTTTGATTTATTAATTGTGGGTGAATTTTCACGCCCGATACGT
* ** * * *
1467682 CAAATATGAATTTTTA-TTTTTCGTAGTATTATAATTATTTATTTCCTTTTTCATTTGTTACTAT
131 CAAATATAAATTTTTATTTTTTTATAGTATTATAATTATTTATTTTC-TTTTCATTTTTTACTAC
* * * * * * * * *
1467746 TTAA-AGTAAGTAATTGATACTTAAAAGTAACAAAAATATTTTTTCTATATAGGACCTTGTTAAT
195 CTAACA-TAAATAGTTGATGCTTAAAAGTAATACAATTATTTTTTCTATACAGGGCCTTGTTAAT
* ** ** * * * *
1467810 TTAACCGC-AATTCAAC-TTGATGGGTGCGTGAATTTAAAAAAGATTCATAATCTATCAAGAGCC
259 TTAA-GGCAAATT-TGCTTTGATGGGTGCGTGAATTTAAGGAAGATACCTAATTTTTCAAGAGCC
* * * **
1467873 ATCAACCTTGAAATCATTGATTGCACTAACTGTAAAAGTTTAATTGAACTTTGGAATGAAGATGA
322 ATCAACCTTGAAATCCTTGATTGCTCTAACTGCAAAAGTTTGGTTGAACTTTGGAATGAAGATGA
* * * *
1467938 TCATATGGTATATGTTTTCA-ATTTTTTTTTGAAAAAAATGATTTATAATTTTAT
387 TCATATGGTATGTGTTTTCATA-TTTATTTCGAAAAAAATGATTTATAATTTGAT
* *
1467992 GTATTAAATATTCATATGATAACATTTTATTTAAAGTTTTTAAAAAATAAATATAAAAGATTTTA
1 GTATCAAATATTTATATGATAACATTTTATTTAAAGTTTTTAAAAAATAAATATAAAAGATTTTA
* *
1468057 TTTTATTTAGATAAATGACATCGTTTAATTTATTAATTGTGGGTGAATTTTCACTCCCGATA-GT
66 TTTTATTTAGATAAATGACATCGTTTGATTTATTAATTGTGGGTGAATTTTCACGCCCGATACGT
* * *
1468121 CAAATATAAATTTTTA-TTTTTTATAATATTATAATTATTTA-TTT-TTTT-ATTTTTTATTGCC
131 CAAATATAAATTTTTATTTTTTTATAGTATTATAATTATTTATTTTCTTTTCATTTTTTACTACC
* * *
1468182 TAACACAAATAGTTGACGCTTAAAAGTAATACAATTATTTTTTCTATACAGGGCCCTGTTAATTT
196 TAACATAAATAGTTGATGCTTAAAAGTAATACAATTATTTTTTCTATACAGGGCCTTGTTAATTT
* * ** * * *
1468247 AACCGC-AATTTACTTTGATAAGTGCTTGAATTTAATGAAGATACGTAATTTTTCAAGAGCCATC
261 AA-GGCAAATTTGCTTTGATGGGTGCGTGAATTTAAGGAAGATACCTAATTTTTCAAGAGCCATC
* * * * *
1468311 AACCTTGAAATTCTTGATTGCTCTCACTGTAAAAGTTTAGTTGAACTTTAGAATGAAGATGATCA
325 AACCTTGAAATCCTTGATTGCTCTAACTGCAAAAGTTTGGTTGAACTTTGGAATGAAGATGATCA
*
1468376 TATGGAATGTGTTTTCATATTTATTTCGAAAAAAATGATTTATAATTTGAT
390 TATGGTATGTGTTTTCATATTTATTTCGAAAAAAATGATTTATAATTTGAT
1468427 GTATCAAATATTTATATGATAACATTTTATTTAAAGTTTTTAAAAAATAAATATAAAAGATTTTA
1 GTATCAAATATTTATATGATAACATTTTATTTAAAGTTTTTAAAAAATAAATATAAAAGATTTTA
* * ** *
1468492 TTTTATTTAGATAAATAAGATCGTTTGATTTATTAATTGTGGGTGAATTTTCACGCTTGATATGT
66 TTTTATTTAGATAAATGACATCGTTTGATTTATTAATTGTGGGTGAATTTTCACGCCCGATACGT
* *
1468557 CAAATATAAATTTTTATTTTTTTATAGTATTATAATTATTTATTTTCTTTTTATTTTTTACTGCC
131 CAAATATAAATTTTTATTTTTTTATAGTATTATAATTATTTATTTTCTTTTCATTTTTTACTACC
1468622 TAACATAAATAGTTGATGCTTAAAAGTAATACAATTA-TTTTTCTATACAGGGCCTTGTTAATTT
196 TAACATAAATAGTTGATGCTTAAAAGTAATACAATTATTTTTTCTATACAGGGCCTTGTTAATTT
* * * **
1468686 AAGGAAAATTTACTTTGAGGGGTGCGTGAATTTAAGGAAGATACCTAACCTTTCAAGAGCCATCA
261 AAGGCAAATTTGCTTTGATGGGTGCGTGAATTTAAGGAAGATACCTAATTTTTCAAGAGCCATCA
* * * ** *
1468751 ACCTTGAAATCTTTAATTTCTCTGGCTGCCAAAGTTTGGTTGAACTTTGGAATGAAGATGATCAT
326 ACCTTGAAATCCTTGATTGCTCTAACTGCAAAAGTTTGGTTGAACTTTGGAATGAAGATGATCAT
1468816 ATGGTATGTGTTTTCATATTTATTTCGAAAAAAATGATTTATAATTTATAATTTGAT
391 ATGGTATGTGTTTTCATATTTATTTCGAAAAAAATG-------ATTTATAATTTGAT
* *
1468873 GTATCAAATATTTATATGACAACATTTTATTTAAAGTTTTTAAAGAATAAATATAAAAGATTTTA
1 GTATCAAATATTTATATGATAACATTTTATTTAAAGTTTTTAAAAAATAAATATAAAAGATTTTA
* * *
1468938 CTTTATTTAGATAAATGACATC-TTTGATTTATTAATTGTGGATGAATTTTCACGCCTGATACGT
66 TTTTATTTAGATAAATGACATCGTTTGATTTATTAATTGTGGGTGAATTTTCACGCCCGATACGT
** * **
1469002 CAAATATAAATTTTTA-TTTTTTATTCTATTATAATAATTTATTTTCTTTTCATTTTTTACTGTC
131 CAAATATAAATTTTTATTTTTTTATAGTATTATAATTATTTATTTTCTTTTCATTTTTTACTACC
1469066 TAACATAAATAGTTGATGCTTAAAAGTAATACAATTATTTTTTCTATACAGGGCCTTGTTAATTT
196 TAACATAAATAGTTGATGCTTAAAAGTAATACAATTATTTTTTCTATACAGGGCCTTGTTAATTT
* *
1469131 AAGGCAAATTTGCTTTCG-TGGGTGTGTGAATTTAAGGAAGATACCTAATTTTTCAAGATCCATC
261 AAGGCAAATTTGCTTT-GATGGGTGCGTGAATTTAAGGAAGATACCTAATTTTTCAAGAGCCATC
*
1469195 AACCTTGAAGTCCTTGATTGCTCTAACTGCAAAAGTTTGGTTGAACTTTGGAATGAAGATGATCA
325 AACCTTGAAATCCTTGATTGCTCTAACTGCAAAAGTTTGGTTGAACTTTGGAATGAAGATGATCA
*
1469260 TATGGTATGTGTTTTCATATTTATTTCGAAAAAAGTGATTTATAATTTGAT
390 TATGGTATGTGTTTTCATATTTATTTCGAAAAAAATGATTTATAATTTGAT
* * * * *
1469311 GTATCAATTATTTCTATGATAACATTTTATTTAAAGCTGTTAAAAAATAAATATAAAATATTTTA
1 GTATCAAATATTTATATGATAACATTTTATTTAAAGTTTTTAAAAAATAAATATAAAAGATTTTA
* * * *
1469376 CTTTATTCAGATAAATGACATCGTTTG--------A-T-T---T--ATTTTCACACCCGATACAT
66 TTTTATTTAGATAAATGACATCGTTTGATTTATTAATTGTGGGTGAATTTTCACGCCCGATACGT
* *
1469426 CAAATATAACTTTTTATTTTTTTACAGTATTATAATTATTTATTTTCTTTTCATTTTTTACTACC
131 CAAATATAAATTTTTATTTTTTTATAGTATTATAATTATTTATTTTCTTTTCATTTTTTACTACC
* * *
1469491 TAACGTAAATAGTTTATGCTTAAAAGTAATACAATTATTTTTTCCATACAGGGCCTTGTTAATTT
196 TAACATAAATAGTTGATGCTTAAAAGTAATACAATTATTTTTTCTATACAGGGCCTTGTTAATTT
* *
1469556 AAGGCAAATTTGCTTTGCTGGGTGCGTGAATTTAAGGAAGATACCTAATTTTTCAAAAGCCATCA
261 AAGGCAAATTTGCTTTGATGGGTGCGTGAATTTAAGGAAGATACCTAATTTTTCAAGAGCCATCA
* *
1469621 ACCTT-AAAGTCCTTGATTGCTCAAACTGCAAAAGTTTGGTTGAACTTTGGAATGAAGATAATCA
326 ACCTTGAAA-TCCTTGATTGCTCTAACTGCAAAAGTTTGGTTGAACTTTGGAATGAAGATGATCA
* * *
1469685 GATGGTATGTGTTTTTATATTTATTTTGAAAAAAAAATGATTTATAATTTGAT
390 TATGGTATGTGTTTTCATATTTATTTCG--AAAAAAATGATTTATAATTTGAT
*
1469738 GTATCAAATATTTATATGATAACATTTT-TTTAAAGTTTTTAAAAAATATATATAAAAGATTTTA
1 GTATCAAATATTTATATGATAACATTTTATTTAAAGTTTTTAAAAAATAAATATAAAAGATTTTA
* * *
1469802 TTTTATTTAGGTAAATGACATCATTTGATTTATTAATTGTGGGTGAATTTTCACGCCCAATACGT
66 TTTTATTTAGATAAATGACATCGTTTGATTTATTAATTGTGGGTGAATTTTCACGCCCGATACGT
* *
1469867 CAAATATAAATTTTTATTATTTTATAGTATTATAATTATTTATTTTCTTTTCATTTTTTACTGCC
131 CAAATATAAATTTTTATTTTTTTATAGTATTATAATTATTTATTTTCTTTTCATTTTTTACTACC
**
1469932 TAACATAAATAGTTGATGCTTAAAAGTAATACAATTATTTTTTTCTATACAGAACCTTGTTAATT
196 TAACATAAATAGTTGATGCTTAAAAGTAATACAATTA-TTTTTTCTATACAGGGCCTTGTTAATT
* ** *
1469997 TATGGCAAATTTGCTTTCG-TGGGTGCGTGAATTTAAAAAAGATACATAATTTTTCAAGAGCCAT
260 TAAGGCAAATTTGCTTT-GATGGGTGCGTGAATTTAAGGAAGATACCTAATTTTTCAAGAGCCAT
* * *
1470061 CAACCTTGAATTTCTTGATTGCTCTAACTGCAAAAGTTTGGTTGAACTTTGGAATGAAGGTGATC
324 CAACCTTGAAATCCTTGATTGCTCTAACTGCAAAAGTTTGGTTGAACTTTGGAATGAAGATGATC
*
1470126 ATATGGTATGTGTTTTCATATTTATTTCGAAAAAAATTATTTATAATTTGAT
389 ATATGGTATGTGTTTTCATATTTATTTCGAAAAAAATGATTTATAATTTGAT
*
1470178 GTATCAAATATTTATATGATAACATTTTA-TTATAGTTTTTAAAAAATAAATATAAAAGATTTTA
1 GTATCAAATATTTATATGATAACATTTTATTTAAAGTTTTTAAAAAATAAATATAAAAGATTTTA
* * * * *
1470242 TTTTATTTAGGTAAATAACATCGTTTGATTTATTAATTGTGCGTGAATTTTCACGCCTGATACAT
66 TTTTATTTAGATAAATGACATCGTTTGATTTATTAATTGTGGGTGAATTTTCACGCCCGATACGT
* *
1470307 CAAATATAAATTTTTATTTTTTTACAGTATTATAATTATTTATTTTATTTTCATTTTTTTACTAC
131 CAAATATAAATTTTTATTTTTTTATAGTATTATAATTATTTATTTTCTTTTCA-TTTTTTACTAC
*
1470372 CTAACGTAAATAGTTGATGCTTAAAAGTAATACAATTATTTTTTCTATACAGGGCCTTGTTAATT
195 CTAACATAAATAGTTGATGCTTAAAAGTAATACAATTATTTTTTCTATACAGGGCCTTGTTAATT
*
1470437 TAAGGCAAATTTGCTTT-ACTGGGTGCGTGAATTTAAGGAAGATACCTAATTTTTCAAAAGCCAT
260 TAAGGCAAATTTGCTTTGA-TGGGTGCGTGAATTTAAGGAAGATACCTAATTTTTCAAGAGCCAT
*
1470501 CAACCTTGAAGTCCTAT-ATTGCTCTAACTGCAAAAGTTTGGTTGAACTTTGGAATGAAGATGAT
324 CAACCTTGAAATCCT-TGATTGCTCTAACTGCAAAAGTTTGGTTGAACTTTGGAATGAAGATGAT
* *
1470565 CATATGGTATATGTTTTTATATTTATTTCGAAAAAAGATGATTTATAATTTGAT
388 CATATGGTATGTGTTTTCATATTTATTTCGAAAAAA-ATGATTTATAATTTGAT
*
1470619 GTATCAAATATTTATATGATAACATTTTATTTAAAGTTTTTAAAAAATATATATAAAAGATTTTA
1 GTATCAAATATTTATATGATAACATTTTATTTAAAGTTTTTAAAAAATAAATATAAAAGATTTTA
* * *
1470684 TTTTATTTAGGTAAATAACATCGTTTGATTTATTAATTGTGGGTGAATTTTCACGCCCGATACAT
66 TTTTATTTAGATAAATGACATCGTTTGATTTATTAATTGTGGGTGAATTTTCACGCCCGATACGT
*
1470749 CAAATATAAA-TTTT-TTTTTTTACAGTATTATAATTATTTATTTTCTTTTCATTTTTTACTACC
131 CAAATATAAATTTTTATTTTTTTATAGTATTATAATTATTTATTTTCTTTTCATTTTTTACTACC
*
1470812 TAACGTAAATAGTTGATGCTTAAAAGTAATACAATTATTTTTTCTATACAGGGCCTTGTTAATTT
196 TAACATAAATAGTTGATGCTTAAAAGTAATACAATTATTTTTTCTATACAGGGCCTTGTTAATTT
* *
1470877 AAGGCAAATTTGCTTTGCTGGGTGCGTGAATTTAAGGAAGATACCTAATTTTTCAAAAGCCATCA
261 AAGGCAAATTTGCTTTGATGGGTGCGTGAATTTAAGGAAGATACCTAATTTTTCAAGAGCCATCA
1470942 ACCTT-AAAGTCCTTGATTGCTCTAACTGCAAAAGTTTGGTTGAACTTTGGAATGAAGATGATCA
326 ACCTTGAAA-TCCTTGATTGCTCTAACTGCAAAAGTTTGGTTGAACTTTGGAATGAAGATGATCA
*
1471006 TATGGTATGTGTTTTTATATTTATTTCGAAAAAAAAATGATTTATAATTTGAT
390 TATGGTATGTGTTTTCATATTTATTTCG--AAAAAAATGATTTATAATTTGAT
*
1471059 GTATCAAATATTTATATGATAACATTTTATTTAAAGTTTTTTAAAAAATATATATAAAAGATTTT
1 GTATCAAATATTTATATGATAACATTTTATTTAAAG-TTTTTAAAAAATAAATATAAAAGATTTT
* * *
1471124 ATTTTATTTAGGTAAATGACATCGTTTGATTTATTAATTGTGGGTGAATTTTCTCGCCCAATACG
65 ATTTTATTTAGATAAATGACATCGTTTGATTTATTAATTGTGGGTGAATTTTCACGCCCGATACG
*
1471189 TCAAATATAAATTTTTA-TTTTTTATAGTATTATAATTA--T-TTTT-TTTTCATTTTTTACTGC
130 TCAAATATAAATTTTTATTTTTTTATAGTATTATAATTATTTATTTTCTTTTCATTTTTTACTAC
1471249 CTAACATAAATAGTTGATGCTTAAAAGTAATACAATTATTTTTTTCTATACAGGGCCTTGTTAAT
195 CTAACATAAATAGTTGATGCTTAAAAGTAATACAATTA-TTTTTTCTATACAGGGCCTTGTTAAT
* * ** *
1471314 TTAAGACAAATTTACTTTCG-TGGGTGCGTGAATTTAAAAAAGATACATAATTTTTCAAGAGCCA
259 TTAAGGCAAATTTGCTTT-GATGGGTGCGTGAATTTAAGGAAGATACCTAATTTTTCAAGAGCCA
* *
1471378 TCAACCTTGAAGTCCTTGATTGCTCTAACTGCAAAAGTTTGGTTGAATTTTGGAATGAAGATGAT
323 TCAACCTTGAAATCCTTGATTGCTCTAACTGCAAAAGTTTGGTTGAACTTTGGAATGAAGATGAT
* * *
1471443 CATATGATATGTGTTTTCATATTTATTTCAAAAAAAATTATTTATAATTTGAT
388 CATATGGTATGTGTTTTCATATTTATTTCGAAAAAAATGATTTATAATTTGAT
*
1471496 GTATCAAATATTTATATGATAACATTTTATTTAAAGTTTTTTAAAAATAAATATAAAAGATTTTA
1 GTATCAAATATTTATATGATAACATTTTATTTAAAGTTTTTAAAAAATAAATATAAAAGATTTTA
* *
1471561 TTTTATTTAGGTAAATGACATCGTTTGATTTATTAATTGTGGGTGAATTTTCACGCCCGATACAT
66 TTTTATTTAGATAAATGACATCGTTTGATTTATTAATTGTGGGTGAATTTTCACGCCCGATACGT
*
1471626 CAAATATAAATTTTTATTTTTTTACAGTATTATAATTATTTATTTTCTTTTCATTTTTTACTACC
131 CAAATATAAATTTTTATTTTTTTATAGTATTATAATTATTTATTTTCTTTTCATTTTTTACTACC
* * *
1471691 TAACGTAAATAGTTGATGTTTAAAAGTAATACAATTATTTTTTCTATACAGGGACTTGTTAATTT
196 TAACATAAATAGTTGATGCTTAAAAGTAATACAATTATTTTTTCTATACAGGGCCTTGTTAATTT
* *
1471756 AAGGCAAATTTGCTTTGCTGGGTGCGTGAATTTAAGGAAGATACCTAATTTTTCAAAAGCCATCA
261 AAGGCAAATTTGCTTTGATGGGTGCGTGAATTTAAGGAAGATACCTAATTTTTCAAGAGCCATCA
* *
1471821 ACCTTGAAGTCCTTGATTGCTCTAACTGCAAAAGTTTAGTTGAACTTTGGAATGAAGATGATCAT
326 ACCTTGAAATCCTTGATTGCTCTAACTGCAAAAGTTTGGTTGAACTTTGGAATGAAGATGATCAT
* *
1471886 ATGGTATGTGTTTTTATATTTATTTCGAAAAAAATAATTTATAATTTGAT
391 ATGGTATGTGTTTTCATATTTATTTCGAAAAAAATGATTTATAATTTGAT
1471936 GTATCAAATATTTATATGATAACATTTTATTTAAAGTTTTTAAAAAATAAATATAAAAGATTTTA
1 GTATCAAATATTTATATGATAACATTTTATTTAAAGTTTTTAAAAAATAAATATAAAAGATTTTA
* ** * *
1472001 TTTTATTTAGA-AGAATGACATTGTTTGATTTATTAATTGTGAATAAATTTTCACGCCCGATATG
66 TTTTATTTAGATA-AATGACATCGTTTGATTTATTAATTGTGGGTGAATTTTCACGCCCGATACG
* * * *
1472065 TCAAATATAAATTTTTATTTTTTTATA--ATT-TTA-TAATTA-TTT-TTTT-ATTTTTTATTAA
130 TCAAATATAAATTTTTATTTTTTTATAGTATTATAATTATTTATTTTCTTTTCATTTTTTACTAC
* * * * **
1472123 CTAAAATAAATAATTGATACTTAAAAGTAATACAATTATTTTTTGTATACAGTCCCTTGTTAAGT
195 CTAACATAAATAGTTGATGCTTAAAAGTAATACAATTATTTTTTCTATACAGGGCCTTGTTAA-T
* * * *
1472188 TAAAGG-AAATTCGCTGTGGTGGGTGCG
259 TTAAGGCAAATTTGCTTTGATGGGTGCG
1472215 AGTCTCTTGT
Statistics
Matches: 3862, Mismatches: 293, Indels: 143
0.90 0.07 0.03
Matches are distributed among these distances:
424 34 0.01
425 247 0.06
426 56 0.01
427 48 0.01
429 1 0.00
430 1 0.00
431 1 0.00
433 82 0.02
434 13 0.00
435 337 0.09
436 135 0.03
437 104 0.03
438 158 0.04
439 617 0.16
440 956 0.25
441 367 0.10
442 294 0.08
443 3 0.00
444 80 0.02
445 231 0.06
446 97 0.03
ACGTcount: A:0.34, C:0.10, G:0.13, T:0.43
Consensus pattern (440 bp):
GTATCAAATATTTATATGATAACATTTTATTTAAAGTTTTTAAAAAATAAATATAAAAGATTTTA
TTTTATTTAGATAAATGACATCGTTTGATTTATTAATTGTGGGTGAATTTTCACGCCCGATACGT
CAAATATAAATTTTTATTTTTTTATAGTATTATAATTATTTATTTTCTTTTCATTTTTTACTACC
TAACATAAATAGTTGATGCTTAAAAGTAATACAATTATTTTTTCTATACAGGGCCTTGTTAATTT
AAGGCAAATTTGCTTTGATGGGTGCGTGAATTTAAGGAAGATACCTAATTTTTCAAGAGCCATCA
ACCTTGAAATCCTTGATTGCTCTAACTGCAAAAGTTTGGTTGAACTTTGGAATGAAGATGATCAT
ATGGTATGTGTTTTCATATTTATTTCGAAAAAAATGATTTATAATTTGAT
Found at i:1471662 original size:879 final size:879
Alignment explanation
Indices: 1467552--1472190 Score: 6747
Period size: 879 Copynumber: 5.3 Consensus size: 879
1467542 ATAATTTAGC
* * * * *
1467552 GTATCAAATAATTATATGATGACATCTTATTTAAAGTTTTTAAAAAATAAATATGAAATATTTTA
1 GTATCAAATATTTATATGATAACATTTTATTTAAAGTTTTTAAAAAATAAATATAAAAGATTTTA
* * * * * * * * * * **
1467617 TTTTATATAAATTAGTGGCATGGTTTGATGTATTAATTGTGGGTTAGTTTTCACACCTAATACAT
66 TTTTATTTAGATAAATGACATCGTTTGATTTATTAATTGTGGGTGAATTTTCACGCCCGATACAT
* ** * * *
1467682 CAAATATGAATTTTTA-TTTTTCGTAGTATTATAATTATTTATTTCCTTTTTCATTTGTTACTAT
131 CAAATATAAATTTTTATTTTTTTATAGTATTATAATTA-TTATTTTC-TTTTCATTTTTTACTAC
* * * * * * * * *
1467746 TTAA-AGTAAGTAATTGATACTTAAAAGTAACAAAAATATTTTTTCTATATAGGACCTTGTTAAT
194 CTAACA-TAAATAGTTGATGCTTAAAAGTAATACAATTATTTTTTCTATACAGGGCCTTGTTAAT
* ** * * * *
1467810 TTAACCG-C-AATTCAAC-TTGATGGGTGCGTGAATTTAAAAAAGATTCATAATCTATCAAGAGC
258 TTAA--GACAAATT-TACTTTGATGGGTGCGTGAATTTAAGGAAGATACCTAATTTTTCAAGAGC
* * * * **
1467872 CATCAACCTTGAAATCATTGATTGCACTAACTGTAAAAGTTTAATTGAACTTTGGAATGAAGATG
320 CATCAACCTTGAAGTCCTTGATTGCTCTAACTGCAAAAGTTTGGTTGAACTTTGGAATGAAGATG
* * ** * *
1467937 ATCATATGGTATATGTTTTCA-ATTTTTTTTTGAAAAAAATGATTTATAATTTTATGTATTAAAT
385 ATCATATGGTATGTGTTTTCATA-TTTATTTCAAAAAAAATGATTTATAATTTGATGTATCAAAT
*
1468001 ATTCATATGATAACATTTTATTTAAAGTTTTTAAAAAATAAATATAAAAGATTTTATTTTATTTA
449 ATTTATATGATAACATTTTATTTAAAGTTTTTAAAAAATAAATATAAAAGATTTTATTTTATTTA
* * *
1468066 GATAAATGACATCGTTTAATTTATTAATTGTGGGTGAATTTTCACTCCCGATA-GTCAAATATAA
514 GGTAAATGACATCGTTTGATTTATTAATTGTGGGTGAATTTTCACGCCCGATACGTCAAATATAA
* *
1468130 ATTTTTATTTTTTATA-A-TATTATAATTATTTA-TTT-TTTT-ATTTTTTATTGCCTAACACAA
579 ATTTTTATTTTTT-TACAGTATTATAATTATTTATTTTCTTTTCATTTTTTACTGCCTAACATAA
* * *
1468190 ATAGTTGACGCTTAAAAGTAATACAATTATTTTTTCTATACAGGGCCCTGTTAATTTAACCGC-A
643 ATAGTTGATGCTTAAAAGTAATACAATTATTTTTTCTATACAGGGCCTTGTTAATTTAA-GGCAA
* * ** * * *
1468254 ATTTACTTTGATAAGTGCTTGAATTTAATGAAGATACGTAATTTTTCAAGAGCCATCAACCTTGA
707 ATTTGCTTTGCTGGGTGCGTGAATTTAAGGAAGATACCTAATTTTTCAAGAGCCATCAACCTTGA
* * * * * * *
1468319 AATTCTTGATTGCTCTCACTGTAAAAGTTTAGTTGAACTTTAGAATGAAGATGATCATATGGAAT
772 AGTCCTTGATTGCTCTAACTGCAAAAGTTTGGTTGAACTTTGGAATGAAGATGATCATATGGTAT
1468384 GTGTTTTCATATTTATTTCGAAAAAAATGATTTATAATTTGAT
837 GTGTTTTCATATTTATTTCGAAAAAAATGATTTATAATTTGAT
1468427 GTATCAAATATTTATATGATAACATTTTATTTAAAGTTTTTAAAAAATAAATATAAAAGATTTTA
1 GTATCAAATATTTATATGATAACATTTTATTTAAAGTTTTTAAAAAATAAATATAAAAGATTTTA
* * ** **
1468492 TTTTATTTAGATAAATAAGATCGTTTGATTTATTAATTGTGGGTGAATTTTCACGCTTGATATGT
66 TTTTATTTAGATAAATGACATCGTTTGATTTATTAATTGTGGGTGAATTTTCACGCCCGATACAT
* *
1468557 CAAATATAAATTTTTATTTTTTTATAGTATTATAATTATTTATTTTCTTTTTATTTTTTACTGCC
131 CAAATATAAATTTTTATTTTTTTATAGTATTATAATTA-TTATTTTCTTTTCATTTTTTACTACC
1468622 TAACATAAATAGTTGATGCTTAAAAGTAATACAATTA-TTTTTCTATACAGGGCCTTGTTAATTT
195 TAACATAAATAGTTGATGCTTAAAAGTAATACAATTATTTTTTCTATACAGGGCCTTGTTAATTT
* **
1468686 AAGGA-AAATTTACTTTGAGGGGTGCGTGAATTTAAGGAAGATACCTAACCTTTCAAGAGCCATC
260 AA-GACAAATTTACTTTGATGGGTGCGTGAATTTAAGGAAGATACCTAATTTTTCAAGAGCCATC
* * * * ** *
1468750 AACCTTGAAATCTTTAATTTCTCTGGCTGCCAAAGTTTGGTTGAACTTTGGAATGAAGATGATCA
324 AACCTTGAAGTCCTTGATTGCTCTAACTGCAAAAGTTTGGTTGAACTTTGGAATGAAGATGATCA
*
1468815 TATGGTATGTGTTTTCATATTTATTTCGAAAAAAATGATTTATAATTTATAATTTGATGTATCAA
389 TATGGTATGTGTTTTCATATTTATTTC--AAAAAA--A---ATGATTTATAATTTGATGTATCAA
* * *
1468880 ATATTTATATGACAACATTTTATTTAAAGTTTTTAAAGAATAAATATAAAAGATTTTACTTTATT
447 ATATTTATATGATAACATTTTATTTAAAGTTTTTAAAAAATAAATATAAAAGATTTTATTTTATT
* * *
1468945 TAGATAAATGACATC-TTTGATTTATTAATTGTGGATGAATTTTCACGCCTGATACGTCAAATAT
512 TAGGTAAATGACATCGTTTGATTTATTAATTGTGGGTGAATTTTCACGCCCGATACGTCAAATAT
* * *
1469009 AAATTTTTATTTTTTATTC--TATTATAATAATTTATTTTCTTTTCATTTTTTACTGTCTAACAT
577 AAATTTTTATTTTTT-TACAGTATTATAATTATTTATTTTCTTTTCATTTTTTACTGCCTAACAT
1469072 AAATAGTTGATGCTTAAAAGTAATACAATTATTTTTTCTATACAGGGCCTTGTTAATTTAAGGCA
641 AAATAGTTGATGCTTAAAAGTAATACAATTATTTTTTCTATACAGGGCCTTGTTAATTTAAGGCA
* *
1469137 AATTTGCTTT-CGTGGGTGTGTGAATTTAAGGAAGATACCTAATTTTTCAAGATCCATCAACCTT
706 AATTTGCTTTGC-TGGGTGCGTGAATTTAAGGAAGATACCTAATTTTTCAAGAGCCATCAACCTT
1469201 GAAGTCCTTGATTGCTCTAACTGCAAAAGTTTGGTTGAACTTTGGAATGAAGATGATCATATGGT
770 GAAGTCCTTGATTGCTCTAACTGCAAAAGTTTGGTTGAACTTTGGAATGAAGATGATCATATGGT
*
1469266 ATGTGTTTTCATATTTATTTCGAAAAAAGTGATTTATAATTTGAT
835 ATGTGTTTTCATATTTATTTCGAAAAAAATGATTTATAATTTGAT
* * * * *
1469311 GTATCAATTATTTCTATGATAACATTTTATTTAAAGCTGTTAAAAAATAAATATAAAATATTTTA
1 GTATCAAATATTTATATGATAACATTTTATTTAAAGTTTTTAAAAAATAAATATAAAAGATTTTA
* * *
1469376 CTTTATTCAGATAAATGACATCGTTTG--------A-T-T---T--ATTTTCACACCCGATACAT
66 TTTTATTTAGATAAATGACATCGTTTGATTTATTAATTGTGGGTGAATTTTCACGCCCGATACAT
* *
1469426 CAAATATAACTTTTTATTTTTTTACAGTATTATAATTATTTATTTTCTTTTCATTTTTTACTACC
131 CAAATATAAATTTTTATTTTTTTATAGTATTATAATTA-TTATTTTCTTTTCATTTTTTACTACC
* * *
1469491 TAACGTAAATAGTTTATGCTTAAAAGTAATACAATTATTTTTTCCATACAGGGCCTTGTTAATTT
195 TAACATAAATAGTTGATGCTTAAAAGTAATACAATTATTTTTTCTATACAGGGCCTTGTTAATTT
* * * *
1469556 AAGGCAAATTTGCTTTGCTGGGTGCGTGAATTTAAGGAAGATACCTAATTTTTCAAAAGCCATCA
260 AAGACAAATTTACTTTGATGGGTGCGTGAATTTAAGGAAGATACCTAATTTTTCAAGAGCCATCA
* * * *
1469621 ACCTTAAAGTCCTTGATTGCTCAAACTGCAAAAGTTTGGTTGAACTTTGGAATGAAGATAATCAG
325 ACCTTGAAGTCCTTGATTGCTCTAACTGCAAAAGTTTGGTTGAACTTTGGAATGAAGATGATCAT
* *
1469686 ATGGTATGTGTTTTTATATTTATTTTGAAAAAAAAATGATTTATAATTTGATGTATCAAATATTT
390 ATGGTATGTGTTTTCATATTTA-TTT-CAAAAAAAATGATTTATAATTTGATGTATCAAATATTT
*
1469751 ATATGATAACATTTT-TTTAAAGTTTTTAAAAAATATATATAAAAGATTTTATTTTATTTAGGTA
453 ATATGATAACATTTTATTTAAAGTTTTTAAAAAATAAATATAAAAGATTTTATTTTATTTAGGTA
* *
1469815 AATGACATCATTTGATTTATTAATTGTGGGTGAATTTTCACGCCCAATACGTCAAATATAAATTT
518 AATGACATCGTTTGATTTATTAATTGTGGGTGAATTTTCACGCCCGATACGTCAAATATAAATTT
* *
1469880 TTATTATTTTATAGTATTATAATTATTTATTTTCTTTTCATTTTTTACTGCCTAACATAAATAGT
583 TTATTTTTTTACAGTATTATAATTATTTATTTTCTTTTCATTTTTTACTGCCTAACATAAATAGT
** *
1469945 TGATGCTTAAAAGTAATACAATTATTTTTTTCTATACAGAACCTTGTTAATTTATGGCAAATTTG
648 TGATGCTTAAAAGTAATACAATTA-TTTTTTCTATACAGGGCCTTGTTAATTTAAGGCAAATTTG
** * * *
1470010 CTTT-CGTGGGTGCGTGAATTTAAAAAAGATACATAATTTTTCAAGAGCCATCAACCTTGAATTT
712 CTTTGC-TGGGTGCGTGAATTTAAGGAAGATACCTAATTTTTCAAGAGCCATCAACCTTGAAGTC
*
1470074 CTTGATTGCTCTAACTGCAAAAGTTTGGTTGAACTTTGGAATGAAGGTGATCATATGGTATGTGT
776 CTTGATTGCTCTAACTGCAAAAGTTTGGTTGAACTTTGGAATGAAGATGATCATATGGTATGTGT
*
1470139 TTTCATATTTATTTCGAAAAAAATTATTTATAATTTGAT
841 TTTCATATTTATTTCGAAAAAAATGATTTATAATTTGAT
*
1470178 GTATCAAATATTTATATGATAACATTTTA-TTATAGTTTTTAAAAAATAAATATAAAAGATTTTA
1 GTATCAAATATTTATATGATAACATTTTATTTAAAGTTTTTAAAAAATAAATATAAAAGATTTTA
* * * *
1470242 TTTTATTTAGGTAAATAACATCGTTTGATTTATTAATTGTGCGTGAATTTTCACGCCTGATACAT
66 TTTTATTTAGATAAATGACATCGTTTGATTTATTAATTGTGGGTGAATTTTCACGCCCGATACAT
* *
1470307 CAAATATAAATTTTTATTTTTTTACAGTATTATAATTATTTATTTTATTTTCATTTTTTTACTAC
131 CAAATATAAATTTTTATTTTTTTATAGTATTATAATTA-TTATTTTCTTTTCA-TTTTTTACTAC
*
1470372 CTAACGTAAATAGTTGATGCTTAAAAGTAATACAATTATTTTTTCTATACAGGGCCTTGTTAATT
194 CTAACATAAATAGTTGATGCTTAAAAGTAATACAATTATTTTTTCTATACAGGGCCTTGTTAATT
* * *
1470437 TAAGGCAAATTTGCTTT-ACTGGGTGCGTGAATTTAAGGAAGATACCTAATTTTTCAAAAGCCAT
259 TAAGACAAATTTACTTTGA-TGGGTGCGTGAATTTAAGGAAGATACCTAATTTTTCAAGAGCCAT
1470501 CAACCTTGAAGTCCTAT-ATTGCTCTAACTGCAAAAGTTTGGTTGAACTTTGGAATGAAGATGAT
323 CAACCTTGAAGTCCT-TGATTGCTCTAACTGCAAAAGTTTGGTTGAACTTTGGAATGAAGATGAT
* * *
1470565 CATATGGTATATGTTTTTATATTTATTTCGAAAAAAGATGATTTATAATTTGATGTATCAAATAT
387 CATATGGTATGTGTTTTCATATTTATTTC-AAAAAAAATGATTTATAATTTGATGTATCAAATAT
*
1470630 TTATATGATAACATTTTATTTAAAGTTTTTAAAAAATATATATAAAAGATTTTATTTTATTTAGG
451 TTATATGATAACATTTTATTTAAAGTTTTTAAAAAATAAATATAAAAGATTTTATTTTATTTAGG
* *
1470695 TAAATAACATCGTTTGATTTATTAATTGTGGGTGAATTTTCACGCCCGATACATCAAATATAAA-
516 TAAATGACATCGTTTGATTTATTAATTGTGGGTGAATTTTCACGCCCGATACGTCAAATATAAAT
* *
1470759 TTTT-TTTTTTTACAGTATTATAATTATTTATTTTCTTTTCATTTTTTACTACCTAACGTAAATA
581 TTTTATTTTTTTACAGTATTATAATTATTTATTTTCTTTTCATTTTTTACTGCCTAACATAAATA
1470823 GTTGATGCTTAAAAGTAATACAATTATTTTTTCTATACAGGGCCTTGTTAATTTAAGGCAAATTT
646 GTTGATGCTTAAAAGTAATACAATTATTTTTTCTATACAGGGCCTTGTTAATTTAAGGCAAATTT
* *
1470888 GCTTTGCTGGGTGCGTGAATTTAAGGAAGATACCTAATTTTTCAAAAGCCATCAACCTTAAAGTC
711 GCTTTGCTGGGTGCGTGAATTTAAGGAAGATACCTAATTTTTCAAGAGCCATCAACCTTGAAGTC
1470953 CTTGATTGCTCTAACTGCAAAAGTTTGGTTGAACTTTGGAATGAAGATGATCATATGGTATGTGT
776 CTTGATTGCTCTAACTGCAAAAGTTTGGTTGAACTTTGGAATGAAGATGATCATATGGTATGTGT
*
1471018 TTTTATATTTATTTCGAAAAAAAAATGATTTATAATTTGAT
841 TTTCATATTTATTTCG--AAAAAAATGATTTATAATTTGAT
*
1471059 GTATCAAATATTTATATGATAACATTTTATTTAAAGTTTTTTAAAAAATATATATAAAAGATTTT
1 GTATCAAATATTTATATGATAACATTTTATTTAAAG-TTTTTAAAAAATAAATATAAAAGATTTT
* * * *
1471124 ATTTTATTTAGGTAAATGACATCGTTTGATTTATTAATTGTGGGTGAATTTTCTCGCCCAATACG
65 ATTTTATTTAGATAAATGACATCGTTTGATTTATTAATTGTGGGTGAATTTTCACGCCCGATACA
*
1471189 TCAAATATAAATTTTTA-TTTTTTATAGTATTATAATTA-T-TTTT-TTTTCATTTTTTACTGCC
130 TCAAATATAAATTTTTATTTTTTTATAGTATTATAATTATTATTTTCTTTTCATTTTTTACTACC
1471250 TAACATAAATAGTTGATGCTTAAAAGTAATACAATTATTTTTTTCTATACAGGGCCTTGTTAATT
195 TAACATAAATAGTTGATGCTTAAAAGTAATACAATTA-TTTTTTCTATACAGGGCCTTGTTAATT
** *
1471315 TAAGACAAATTTACTTTCG-TGGGTGCGTGAATTTAAAAAAGATACATAATTTTTCAAGAGCCAT
259 TAAGACAAATTTACTTT-GATGGGTGCGTGAATTTAAGGAAGATACCTAATTTTTCAAGAGCCAT
*
1471379 CAACCTTGAAGTCCTTGATTGCTCTAACTGCAAAAGTTTGGTTGAATTTTGGAATGAAGATGATC
323 CAACCTTGAAGTCCTTGATTGCTCTAACTGCAAAAGTTTGGTTGAACTTTGGAATGAAGATGATC
* *
1471444 ATATGATATGTGTTTTCATATTTATTTCAAAAAAAATTATTTATAATTTGATGTATCAAATATTT
388 ATATGGTATGTGTTTTCATATTTATTTCAAAAAAAATGATTTATAATTTGATGTATCAAATATTT
*
1471509 ATATGATAACATTTTATTTAAAGTTTTTTAAAAATAAATATAAAAGATTTTATTTTATTTAGGTA
453 ATATGATAACATTTTATTTAAAGTTTTTAAAAAATAAATATAAAAGATTTTATTTTATTTAGGTA
*
1471574 AATGACATCGTTTGATTTATTAATTGTGGGTGAATTTTCACGCCCGATACATCAAATATAAATTT
518 AATGACATCGTTTGATTTATTAATTGTGGGTGAATTTTCACGCCCGATACGTCAAATATAAATTT
* *
1471639 TTATTTTTTTACAGTATTATAATTATTTATTTTCTTTTCATTTTTTACTACCTAACGTAAATAGT
583 TTATTTTTTTACAGTATTATAATTATTTATTTTCTTTTCATTTTTTACTGCCTAACATAAATAGT
* *
1471704 TGATGTTTAAAAGTAATACAATTATTTTTTCTATACAGGGACTTGTTAATTTAAGGCAAATTTGC
648 TGATGCTTAAAAGTAATACAATTATTTTTTCTATACAGGGCCTTGTTAATTTAAGGCAAATTTGC
*
1471769 TTTGCTGGGTGCGTGAATTTAAGGAAGATACCTAATTTTTCAAAAGCCATCAACCTTGAAGTCCT
713 TTTGCTGGGTGCGTGAATTTAAGGAAGATACCTAATTTTTCAAGAGCCATCAACCTTGAAGTCCT
*
1471834 TGATTGCTCTAACTGCAAAAGTTTAGTTGAACTTTGGAATGAAGATGATCATATGGTATGTGTTT
778 TGATTGCTCTAACTGCAAAAGTTTGGTTGAACTTTGGAATGAAGATGATCATATGGTATGTGTTT
* *
1471899 TTATATTTATTTCGAAAAAAATAATTTATAATTTGAT
843 TCATATTTATTTCGAAAAAAATGATTTATAATTTGAT
1471936 GTATCAAATATTTATATGATAACATTTTATTTAAAGTTTTTAAAAAATAAATATAAAAGATTTTA
1 GTATCAAATATTTATATGATAACATTTTATTTAAAGTTTTTAAAAAATAAATATAAAAGATTTTA
* ** * **
1472001 TTTTATTTAGA-AGAATGACATTGTTTGATTTATTAATTGTGAATAAATTTTCACGCCCGATATG
66 TTTTATTTAGATA-AATGACATCGTTTGATTTATTAATTGTGGGTGAATTTTCACGCCCGATACA
* * * *
1472065 TCAAATATAAATTTTTATTTTTTTATA--ATT-TTATAATTA-TTT-TTTT-ATTTTTTATTAAC
130 TCAAATATAAATTTTTATTTTTTTATAGTATTATAATTATTATTTTCTTTTCATTTTTTACTACC
* * * * ** *
1472124 TAAAATAAATAATTGATACTTAAAAGTAATACAATTATTTTTTGTATACAGTCCCTTGTTAAGTT
195 TAACATAAATAGTTGATGCTTAAAAGTAATACAATTATTTTTTCTATACAGGGCCTTGTTAATTT
1472189 AA
260 AA
1472191 AGGAAATTCG
Statistics
Matches: 3439, Mismatches: 262, Indels: 128
0.90 0.07 0.03
Matches are distributed among these distances:
864 55 0.02
865 103 0.03
866 127 0.04
867 222 0.06
868 1 0.00
869 111 0.03
870 163 0.05
871 4 0.00
873 29 0.01
874 201 0.06
875 181 0.05
876 134 0.04
877 274 0.08
878 181 0.05
879 443 0.13
880 119 0.03
881 314 0.09
882 353 0.10
883 110 0.03
884 314 0.09
ACGTcount: A:0.34, C:0.10, G:0.13, T:0.43
Consensus pattern (879 bp):
GTATCAAATATTTATATGATAACATTTTATTTAAAGTTTTTAAAAAATAAATATAAAAGATTTTA
TTTTATTTAGATAAATGACATCGTTTGATTTATTAATTGTGGGTGAATTTTCACGCCCGATACAT
CAAATATAAATTTTTATTTTTTTATAGTATTATAATTATTATTTTCTTTTCATTTTTTACTACCT
AACATAAATAGTTGATGCTTAAAAGTAATACAATTATTTTTTCTATACAGGGCCTTGTTAATTTA
AGACAAATTTACTTTGATGGGTGCGTGAATTTAAGGAAGATACCTAATTTTTCAAGAGCCATCAA
CCTTGAAGTCCTTGATTGCTCTAACTGCAAAAGTTTGGTTGAACTTTGGAATGAAGATGATCATA
TGGTATGTGTTTTCATATTTATTTCAAAAAAAATGATTTATAATTTGATGTATCAAATATTTATA
TGATAACATTTTATTTAAAGTTTTTAAAAAATAAATATAAAAGATTTTATTTTATTTAGGTAAAT
GACATCGTTTGATTTATTAATTGTGGGTGAATTTTCACGCCCGATACGTCAAATATAAATTTTTA
TTTTTTTACAGTATTATAATTATTTATTTTCTTTTCATTTTTTACTGCCTAACATAAATAGTTGA
TGCTTAAAAGTAATACAATTATTTTTTCTATACAGGGCCTTGTTAATTTAAGGCAAATTTGCTTT
GCTGGGTGCGTGAATTTAAGGAAGATACCTAATTTTTCAAGAGCCATCAACCTTGAAGTCCTTGA
TTGCTCTAACTGCAAAAGTTTGGTTGAACTTTGGAATGAAGATGATCATATGGTATGTGTTTTCA
TATTTATTTCGAAAAAAATGATTTATAATTTGAT
Found at i:1472225 original size:42 final size:42
Alignment explanation
Indices: 1472173--1472256 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
1472163 TTTTGTATAC
1472173 AGTCCCTTGTTAAGTTAAAGGAAATTCGCTGTGGTGGGTGCG
1 AGTCCCTTGTTAAGTTAAAGGAAATTCGCTGTGGTGGGTGCG
*
1472215 AGTCTCTTGTTAAGTTAAAGGAAATTCGCTGTGGTGGGTGCG
1 AGTCCCTTGTTAAGTTAAAGGAAATTCGCTGTGGTGGGTGCG
1472257 TGAATTTAAG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.21, C:0.13, G:0.33, T:0.32
Consensus pattern (42 bp):
AGTCCCTTGTTAAGTTAAAGGAAATTCGCTGTGGTGGGTGCG
Found at i:1473704 original size:20 final size:21
Alignment explanation
Indices: 1473668--1473719 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
1473658 TTTCATCTCA
1473668 ATTTTTC-ATATTATCATAT-
1 ATTTTTCAATATTATCATATC
* * *
1473687 ATTTTTCAATTTTTTCATTTC
1 ATTTTTCAATATTATCATATC
1473708 ATTTTTC-ATATT
1 ATTTTTCAATATT
1473720 GCCATAGTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 7 0.26
20 13 0.48
21 7 0.26
ACGTcount: A:0.25, C:0.12, G:0.00, T:0.63
Consensus pattern (21 bp):
ATTTTTCAATATTATCATATC
Found at i:1484735 original size:10 final size:10
Alignment explanation
Indices: 1484711--1484772 Score: 61
Period size: 10 Copynumber: 6.1 Consensus size: 10
1484701 AATGAAATTC
1484711 TAAAAGATAAA
1 TAAAA-ATAAA
*
1484722 TAAAAATAAT
1 TAAAAATAAA
* *
1484732 TAAAGATAAT
1 TAAAAATAAA
*
1484742 TAAAGATAAA
1 TAAAAATAAA
*
1484752 TAAAGATAAA
1 TAAAAATAAA
*
1484762 TGAAAATAAA
1 TAAAAATAAA
1484772 T
1 T
1484773 CCTAAAATTA
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
10 41 0.89
11 5 0.11
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (10 bp):
TAAAAATAAA
Found at i:1484736 original size:20 final size:20
Alignment explanation
Indices: 1484713--1484772 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 20
1484703 TGAAATTCTA
*
1484713 AAAGATAAATAAAAATAATT
1 AAAGATAAATAAAAATAAAT
* *
1484733 AAAGATAATTAAAGATAAAT
1 AAAGATAAATAAAAATAAAT
*
1484753 AAAGATAAATGAAAATAAAT
1 AAAGATAAATAAAAATAAAT
1484773 CCTAAAATTA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.23
Consensus pattern (20 bp):
AAAGATAAATAAAAATAAAT
Found at i:1485453 original size:21 final size:20
Alignment explanation
Indices: 1485429--1485467 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1485419 TTTTTCCTTT
1485429 TTTATTTACTTTAATTTCAAC
1 TTTATTTA-TTTAATTTCAAC
*
1485450 TTTATTTATTTACTTTCA
1 TTTATTTATTTAATTTCA
1485468 CTTAGGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.26, C:0.13, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTATTTATTTAATTTCAAC
Found at i:1486368 original size:5 final size:5
Alignment explanation
Indices: 1486358--1486416 Score: 77
Period size: 5 Copynumber: 11.8 Consensus size: 5
1486348 AACATCCAAA
*
1486358 AAAAT AAAAT AAAAT --AAT AAATAGT AAAAT AAAGT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAA-A-T AAAAT AAAAT AAAAT AAAAT AAAAT
1486408 AAAAT AAAA
1 AAAAT AAAA
1486417 AAATTGGGTT
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
3 3 0.06
5 39 0.81
6 2 0.04
7 4 0.08
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:1486400 original size:15 final size:14
Alignment explanation
Indices: 1486355--1486420 Score: 75
Period size: 15 Copynumber: 4.6 Consensus size: 14
1486345 ATCAACATCC
1486355 AAAA-AAATAAAAT
1 AAAATAAATAAAAT
1486368 AAAAT-AATAAATAGT
1 AAAATAAATAAA-A-T
1486383 AAAATAAAGTAAAAT
1 AAAATAAA-TAAAAT
1486398 AAAATAAAATAAAAT
1 AAAAT-AAATAAAAT
1486413 AAAA-AAAT
1 AAAATAAAT
1486421 TGGGTTGCCT
Statistics
Matches: 47, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
13 14 0.30
14 1 0.02
15 22 0.47
16 6 0.13
17 4 0.09
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (14 bp):
AAAATAAATAAAAT
Found at i:1500566 original size:32 final size:31
Alignment explanation
Indices: 1500525--1500586 Score: 106
Period size: 32 Copynumber: 2.0 Consensus size: 31
1500515 AGTCCCCCCA
1500525 AAAAACCTAACCCAAAAAAAAAAAGAAAAAAG
1 AAAAACCTAACCCAAAAAAAAAAA-AAAAAAG
*
1500557 AAAAACCTAACCCAAAAAAAATAAAAAAAA
1 AAAAACCTAACCCAAAAAAAAAAAAAAAAA
1500587 CCCTAGCCAC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 6 0.21
32 23 0.79
ACGTcount: A:0.76, C:0.16, G:0.03, T:0.05
Consensus pattern (31 bp):
AAAAACCTAACCCAAAAAAAAAAAAAAAAAG
Found at i:1508479 original size:6 final size:6
Alignment explanation
Indices: 1508470--1508503 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
1508460 GTCTTTGGGT
1508470 TTGTGC TTGTGC TTGTGC TTGTGC TTGTGC TTGT
1 TTGTGC TTGTGC TTGTGC TTGTGC TTGTGC TTGT
1508504 TAATTGTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.00, C:0.15, G:0.32, T:0.53
Consensus pattern (6 bp):
TTGTGC
Found at i:1510216 original size:18 final size:19
Alignment explanation
Indices: 1510193--1510231 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
1510183 AACTTTAATC
* *
1510193 AAATTAATC-CTAAAACTT
1 AAATTAAACACTAAAAATT
1510211 AAATTAAACACTAAAAATT
1 AAATTAAACACTAAAAATT
1510230 AA
1 AA
1510232 CATTGTTTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.59, C:0.13, G:0.00, T:0.28
Consensus pattern (19 bp):
AAATTAAACACTAAAAATT
Found at i:1510689 original size:20 final size:20
Alignment explanation
Indices: 1510651--1510692 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
1510641 TGTGAAATTG
**
1510651 CAATAAGGATTATTCTTTTA
1 CAATAAGGATTATAATTTTA
*
1510671 CAATAGGGATTATAATTTTA
1 CAATAAGGATTATAATTTTA
1510691 CA
1 CA
1510693 CTTAGTTGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (20 bp):
CAATAAGGATTATAATTTTA
Found at i:1512036 original size:16 final size:17
Alignment explanation
Indices: 1512004--1512050 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 17
1511994 CTAAATTTGT
* *
1512004 TTCTATATCTG-ATCTG
1 TTCTGTATCTGAAACTG
*
1512020 TTGTGTATCT-AAACTG
1 TTCTGTATCTGAAACTG
1512036 TTCTGTATCTGAAAC
1 TTCTGTATCTGAAAC
1512051 CATTGTGAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
16 21 0.84
17 4 0.16
ACGTcount: A:0.23, C:0.17, G:0.15, T:0.45
Consensus pattern (17 bp):
TTCTGTATCTGAAACTG
Found at i:1512859 original size:17 final size:17
Alignment explanation
Indices: 1512834--1512867 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1512824 AAATCTAAAA
* *
1512834 ATAAGAATAAGATTAAC
1 ATAAAAATAAGAATAAC
1512851 ATAAAAATAAGAATAAC
1 ATAAAAATAAGAATAAC
1512868 TCAAATTTGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.06, G:0.09, T:0.21
Consensus pattern (17 bp):
ATAAAAATAAGAATAAC
Found at i:1513645 original size:53 final size:53
Alignment explanation
Indices: 1513578--1513683 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
1513568 TTTCTTGACT
1513578 CAGATAATTAACCAAAGCTCCCTTTATGTATTTTCCTCTCTTCTTCCTCTCAA
1 CAGATAATTAACCAAAGCTCCCTTTATGTATTTTCCTCTCTTCTTCCTCTCAA
1513631 CAGATAATTAACCAAAGCTCCCTTTATGTATTTTCCTCTCTTCTTCCTCTCAA
1 CAGATAATTAACCAAAGCTCCCTTTATGTATTTTCCTCTCTTCTTCCTCTCAA
1513684 AATCCGTACT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.25, C:0.30, G:0.06, T:0.40
Consensus pattern (53 bp):
CAGATAATTAACCAAAGCTCCCTTTATGTATTTTCCTCTCTTCTTCCTCTCAA
Found at i:1513742 original size:37 final size:37
Alignment explanation
Indices: 1513699--1513773 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
1513689 GTACTCTTAC
* *
1513699 ATAGCCTTTGTGTATTATAAAATCCTCACTATTTTTT
1 ATAGCCTTTATATATTATAAAATCCTCACTATTTTTT
1513736 ATAGCCTTTATATATTATAAAATCCTCACTATTTTTT
1 ATAGCCTTTATATATTATAAAATCCTCACTATTTTTT
1513773 A
1 A
1513774 GATGCATGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.31, C:0.16, G:0.05, T:0.48
Consensus pattern (37 bp):
ATAGCCTTTATATATTATAAAATCCTCACTATTTTTT
Found at i:1518710 original size:15 final size:15
Alignment explanation
Indices: 1518690--1518718 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1518680 GAAGTGGACT
1518690 TGTCTTCCAACTCAG
1 TGTCTTCCAACTCAG
1518705 TGTCTTCCAACTCA
1 TGTCTTCCAACTCA
1518719 AGGGCAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.34, G:0.10, T:0.34
Consensus pattern (15 bp):
TGTCTTCCAACTCAG
Found at i:1521245 original size:21 final size:21
Alignment explanation
Indices: 1521219--1521259 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1521209 ATCTGCTCAA
* *
1521219 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
1521240 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
1521260 TCGCTTGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:1529397 original size:36 final size:36
Alignment explanation
Indices: 1529357--1529428 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
1529347 TTTATTCGAG
1529357 CCAAACTTGATTAAGATAAGACAGTTTTTTAATCTT
1 CCAAACTTGATTAAGATAAGACAGTTTTTTAATCTT
1529393 CCAAACTTGATTAAGATAAGACAGTTTTTTAATCTT
1 CCAAACTTGATTAAGATAAGACAGTTTTTTAATCTT
1529429 ACTTTTTACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (36 bp):
CCAAACTTGATTAAGATAAGACAGTTTTTTAATCTT
Found at i:1533295 original size:48 final size:49
Alignment explanation
Indices: 1533201--1533302 Score: 127
Period size: 48 Copynumber: 2.0 Consensus size: 49
1533191 ATACCAAAGA
* * *
1533201 TCTTTTGCCTTAATCAGACAATTAATCCATACTCTTTGACTTCTTCTTCTTC
1 TCTTTTGCCTCAATCAGAC-A--AATCCATACTCTTGGACTTCTTCTCCTTC
1533253 TCTTTTGCCTCAATCAGAC-AATCCATACTCTATGGA-TTCTTCTCCTTC
1 TCTTTTGCCTCAATCAGACAAATCCATACTCT-TGGACTTCTTCTCCTTC
1533301 TC
1 TC
1533303 GTCAAATGAA
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
48 25 0.54
49 3 0.07
52 18 0.39
ACGTcount: A:0.21, C:0.29, G:0.07, T:0.43
Consensus pattern (49 bp):
TCTTTTGCCTCAATCAGACAAATCCATACTCTTGGACTTCTTCTCCTTC
Found at i:1533859 original size:54 final size:54
Alignment explanation
Indices: 1533777--1533883 Score: 196
Period size: 54 Copynumber: 2.0 Consensus size: 54
1533767 AGTTGGTTTC
* *
1533777 ATGATAGAGCCATTTGACTTGATTATCAAGTCAGTTTGGGTGAAACTTTAATCT
1 ATGATAGAGCCATTTGACTTCATTATCAAGTCAGTTTGCGTGAAACTTTAATCT
1533831 ATGATAGAGCCATTTGACTTCATTATCAAGTCAGTTTGCGTGAAACTTTAATC
1 ATGATAGAGCCATTTGACTTCATTATCAAGTCAGTTTGCGTGAAACTTTAATC
1533884 AATTTTCGGC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (54 bp):
ATGATAGAGCCATTTGACTTCATTATCAAGTCAGTTTGCGTGAAACTTTAATCT
Found at i:1536924 original size:10 final size:10
Alignment explanation
Indices: 1536909--1536943 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
1536899 ATTTATTACA
1536909 AATGTTTAAT
1 AATGTTTAAT
1536919 AATGTTTAAT
1 AATGTTTAAT
*
1536929 AATCTTTAAT
1 AATGTTTAAT
1536939 -ATGTT
1 AATGTT
1536944 GGCGTGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 4 0.17
10 19 0.83
ACGTcount: A:0.37, C:0.03, G:0.09, T:0.51
Consensus pattern (10 bp):
AATGTTTAAT
Found at i:1537555 original size:73 final size:73
Alignment explanation
Indices: 1537436--1537578 Score: 268
Period size: 73 Copynumber: 2.0 Consensus size: 73
1537426 TAATATTTTG
* *
1537436 GAGATAGTAAAGTTATCATCTGGTGTTAGTGCCCGAGGACGTAGGTATAATTTACCGAACCTTGT
1 GAGATAATAAAGTTATCATCTGGTGTTAGTGCCCGAGGACGTAGGTATAATTTACCGAACCTCGT
1537501 TAAAAAAA
66 TAAAAAAA
1537509 GAGATAATAAAGTTATCATCTGGTGTTAGTGCCCGAGGACGTAGGTATAATTTACCGAACCTCGT
1 GAGATAATAAAGTTATCATCTGGTGTTAGTGCCCGAGGACGTAGGTATAATTTACCGAACCTCGT
1537574 TAAAA
66 TAAAA
1537579 CTCTTGTGTT
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 68 1.00
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.29
Consensus pattern (73 bp):
GAGATAATAAAGTTATCATCTGGTGTTAGTGCCCGAGGACGTAGGTATAATTTACCGAACCTCGT
TAAAAAAA
Found at i:1540088 original size:21 final size:21
Alignment explanation
Indices: 1540062--1540102 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1540052 AGACGAACGA
* *
1540062 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
1540083 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
1540103 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:1544217 original size:13 final size:13
Alignment explanation
Indices: 1544201--1544225 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1544191 ACCAAATTTT
1544201 TCAAAAGCACTTC
1 TCAAAAGCACTTC
1544214 TCAAAAGCACTT
1 TCAAAAGCACTT
1544226 TTCCACAGTA
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:0.40, C:0.28, G:0.08, T:0.24
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:1544250 original size:13 final size:13
Alignment explanation
Indices: 1544234--1544258 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1544224 TTTTCCACAG
1544234 TACTTTTCAAAAA
1 TACTTTTCAAAAA
1544247 TACTTTTCAAAA
1 TACTTTTCAAAA
1544259 GCATTGCTAA
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:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (13 bp):
TACTTTTCAAAAA
Found at i:1561537 original size:3 final size:3
Alignment explanation
Indices: 1561529--1561931 Score: 154
Period size: 3 Copynumber: 133.7 Consensus size: 3
1561519 TAAAACATAT
* * * *
1561529 ATA ATA AT- ATG ATA ATA ATA ATA ACA ATA GTA ATAA ATAA ATA ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A AT-A ATA ATA
* * * * *
1561575 ATA ATA AAA ATA ATA GTA A-A GAAA ATA A-A GATA AAA AAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA
* * * * * *
1561620 ATG GTA ATA ATA ATA AAA ATA A-A AGTA ATA ATA AT- ATG TTA AGTT
1 ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA A-TA
* * * * * *
1561665 ATA ATA GT- AGA ATA ATA ATA ATA GTG ACA ATA ATA AT- ATA TTA GATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
* * * * * *
1561712 ATA ATA ACA GTA ATA A-A TATA ATG GTA ATA ATA ATT ATT ATA ATTA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA A-TA
* * * * * *
1561758 ATA CTA ATA CTA ACA ATA A-A TGTA ATA GTA A-A AT- ATT ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
1561801 ATA ATA ATA GCT- ATA ATA ATA AT- ATT TTAA ATA A-G ATA A-A GATA
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA -ATA
* * * * *
1561845 ATA GATA GA-A AGTG GTA GTA GTG ATA ATA CATTA ATA ATA ATA ATA
1 ATA -ATA -ATA A-TA ATA ATA ATA ATA ATA -A-TA ATA ATA ATA ATA
1561891 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1561932 TAATTTGAAA
Statistics
Matches: 297, Mismatches: 71, Indels: 64
0.69 0.16 0.15
Matches are distributed among these distances:
2 22 0.07
3 243 0.82
4 30 0.10
5 2 0.01
ACGTcount: A:0.59, C:0.02, G:0.08, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:1561562 original size:29 final size:28
Alignment explanation
Indices: 1561522--1561589 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 28
1561512 CAATTAGTAA
*
1561522 AACATATATAAT-AATATGATAATAATAAT
1 AACA-ATATAATAAATA-AATAATAATAAT
*
1561551 AACAATAGTAATAAATAAATAATGATAAT
1 AACAATA-TAATAAATAAATAATAATAAT
1561580 AA-AA-ATAATA
1 AACAATATAATA
1561590 GTAAAGAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
26 5 0.14
27 1 0.03
28 5 0.14
29 20 0.57
30 4 0.11
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.29
Consensus pattern (28 bp):
AACAATATAATAAATAAATAATAATAAT
Found at i:1561698 original size:18 final size:17
Alignment explanation
Indices: 1561665--1561723 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
1561655 ATGTTAAGTT
*
1561665 ATAATAGTAGAATAATA
1 ATAATAGTACAATAATA
1561682 ATAATAGTGACAATAATA
1 ATAATAGT-ACAATAATA
* *
1561700 AT-ATATTA-GATAATA
1 ATAATAGTACAATAATA
*
1561715 ATAACAGTA
1 ATAATAGTA
1561724 ATAAATATAA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
15 8 0.23
16 5 0.14
17 12 0.34
18 10 0.29
ACGTcount: A:0.56, C:0.03, G:0.10, T:0.31
Consensus pattern (17 bp):
ATAATAGTACAATAATA
Found at i:1567487 original size:19 final size:19
Alignment explanation
Indices: 1567463--1567501 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
1567453 GACAAGTAAC
*
1567463 TATATTTTTCTCATATTTT
1 TATATTTTACTCATATTTT
*
1567482 TATATTTTACTTATATTTT
1 TATATTTTACTCATATTTT
1567501 T
1 T
1567502 CTTTTTTTAT
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:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (19 bp):
TATATTTTACTCATATTTT
Found at i:1583255 original size:21 final size:21
Alignment explanation
Indices: 1583229--1583269 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1583219 AGACGAGCGA
* *
1583229 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
1583250 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
1583270 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:1597661 original size:358 final size:356
Alignment explanation
Indices: 1596949--1597595 Score: 777
Period size: 358 Copynumber: 1.8 Consensus size: 356
1596939 ATTTTTCTAT
* * * *
1596949 ACAGGACCTGGTAAATTTGAGGGAAATTAACGTTTCAAATTGCAAAAATTTAAGGAAGATACCTA
1 ACAGGACCTGGTAAATTTAAAGGAAATTAACATTTCAAATTGCAAAAACTTAAGGAAGATACCTA
* * * * *
1597014 ATCTTTCAGGAGCCATCAACCTTGAACTCCTTCATTGCTCTAATTGTGAAAGTTTGGTTCAATTT
66 ATCTTTCAAGAGCCATCAACCTTGAACTCCTTAATTGCTCTAACTGTAAAAGTTTGGTTCAATCT
* * * * **
1597079 TGGGGCGAAGATAATCATATGGTATGTGCTTTCATACTTTCTTTGAAAATAAGAATTTGTAATTT
131 TGGGACGAAGATAATCATATGGTATGTACTTTCATACTTTCTTCGAAAATAAGAAATAATAATTT
*
1597144 GATGTATGAAATATCCATACAATGACATCTTATTTAAGATTTTAAAAAAATAAATATAAAATATT
196 GATGTATGAAATATCCAT--AATGACATCTTATTTAAAATTTTAAAAAAATAAATATAAAATATT
* * * ** * * * * * *
1597209 TTATTTTTCTTAGTATTATAATTATTTATTTCCTTTTTGTTTTTTATGTAGATGATGCTTAAAAG
259 TTATTTTTCTTAGTATTATAATAAGTGACATCCTATTTGTTATTAATGTAGATCATACATAAAAG
*
1597274 TAATATAATTAATTAATTAATTATTTATTTTGC
324 TAATATAATTAATTAATTAATAATTTATTTTGC
* * * *
1597307 ACAGGACCTTGTTAATTTAAAGGAAATTGACATTTCAAATTGCAAGAACTTAAGGAAGATACCTA
1 ACAGGACCTGGTAAATTTAAAGGAAATTAACATTTCAAATTGCAAAAACTTAAGGAAGATACCTA
* * *
1597372 ATCTTTCAAGAGCCATCAATCTTGAGCTCCTTAATTGCTTTAACTGTAAAAGTTTGGTTCAA-CT
66 ATCTTTCAAGAGCCATCAACCTTGAACTCCTTAATTGCTCTAACTGTAAAAGTTTGGTTCAATCT
* * *
1597436 TGGGAATGAAGATGATTATATGGTATGTACTTTCATACTTTCTTCGAACAA-AA-AAATAATAAT
131 TGGG-ACGAAGATAATCATATGGTATGTACTTTCATACTTTCTTCGAA-AATAAGAAATAATAAT
* * * *
1597499 TTGATGTATTAAATATTCAT-ATGGCATCTTATTTAAAATTTTTTAAAAAATAAATATAAAAAAT
194 TTGATGTATGAAATATCCATAATGACATCTTATTTAAAA-TTTTAAAAAAATAAATAT--AAAAT
* *
1597563 ATTTTGTTTTATTTTA-T-TTA-AATAAGTGACATC
256 ATTTTATTTT-TCTTAGTATTATAATAAGTGACATC
1597596 ATTTGATCTA
Statistics
Matches: 246, Mismatches: 37, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
354 16 0.07
355 25 0.10
356 3 0.01
357 45 0.18
358 155 0.63
359 2 0.01
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (356 bp):
ACAGGACCTGGTAAATTTAAAGGAAATTAACATTTCAAATTGCAAAAACTTAAGGAAGATACCTA
ATCTTTCAAGAGCCATCAACCTTGAACTCCTTAATTGCTCTAACTGTAAAAGTTTGGTTCAATCT
TGGGACGAAGATAATCATATGGTATGTACTTTCATACTTTCTTCGAAAATAAGAAATAATAATTT
GATGTATGAAATATCCATAATGACATCTTATTTAAAATTTTAAAAAAATAAATATAAAATATTTT
ATTTTTCTTAGTATTATAATAAGTGACATCCTATTTGTTATTAATGTAGATCATACATAAAAGTA
ATATAATTAATTAATTAATAATTTATTTTGC
Found at i:1598303 original size:189 final size:189
Alignment explanation
Indices: 1598078--1598714 Score: 938
Period size: 189 Copynumber: 3.4 Consensus size: 189
1598068 CAATATTTCA
* *
1598078 AAGTTGGAATTCCTTCATCAATTGGATCTTAGTGATTGCCCAATGATTAAATTTCCAGAAATCCC
1 AAGTTGGAATCCCTTCGTCAATTGGATCTTAGTGATTGCCCAATGATTAAATTTCCAGAAATCCC
1598143 AAGAAGCTTAACAGAATTAAACTTATCTGGCACTCAAATTGAAGAAGTGTCCTTGCCTTTCGACT
66 AAGAAGCTTAACAGAATTAAACTTATCTGGCACTCAAATTGAAGAAGTGTCCTTGCCTTTCGACT
*
1598208 CCCTATGTAATCTTCGGAATTTAAATATGAAGGGCTCAAGGGTAAAAAATGTGTCGATC
131 CCCTATGTAATCTTCGGAATTTAAATATGAAGGGCTCAAGGGTAAAAAATGTATCGATC
*
1598267 AAGTTGGAATCCCTTCGTCAATTAGATCTTAGTGATTGCCCAATGATTAAATTTCCAGAAATCCC
1 AAGTTGGAATCCCTTCGTCAATTGGATCTTAGTGATTGCCCAATGATTAAATTTCCAGAAATCCC
* * * * *
1598332 AGGAAGCTTAACTGAATTAAACTTATCTGGCACTCAAATTGAATAAGTGTTCTTGCCTTTCAACT
66 AAGAAGCTTAACAGAATTAAACTTATCTGGCACTCAAATTGAAGAAGTGTCCTTGCCTTTCGACT
* *
1598397 CCCTAAGTAATCTTCGGAATTTAAATATGAGGGGCTCAAGGGTAAAAAATGTATCGATC
131 CCCTATGTAATCTTCGGAATTTAAATATGAAGGGCTCAAGGGTAAAAAATGTATCGATC
* * * * *
1598456 AAGTTGGAATCCCTTCGTAAACTGAATCTTAGTAATTGCCCAATGATCAAATTTCCAGAAATCCC
1 AAGTTGGAATCCCTTCGTCAATTGGATCTTAGTGATTGCCCAATGATTAAATTTCCAGAAATCCC
* * *
1598521 AAGAAGCTTAATAGAATTAAACTTATCTGGCACTCAAATTGAAGAAGTGTCATTGCCTTTGGACT
66 AAGAAGCTTAACAGAATTAAACTTATCTGGCACTCAAATTGAAGAAGTGTCCTTGCCTTTCGACT
* * * * * * *
1598586 CTCTATGTAATCTTCGGGACTTAGATATG-AGTGGCTC-TGCGGTCAAAAATGTATCGACC
131 CCCTATGTAATCTTCGGAATTTAAATATGAAG-GGCTCAAG-GGTAAAAAATGTATCGATC
* * * * * *
1598645 AAGTTGGAATCTCTTCGT-TATCTGGATCTTAGTGGTTGCCCAATGGTTGAATTTCCAGAAATTC
1 AAGTTGGAATCCCTTCGTCAAT-TGGATCTTAGTGATTGCCCAATGATTAAATTTCCAGAAATCC
1598709 CAAGAA
65 CAAGAA
1598715 TTACATGGGA
Statistics
Matches: 401, Mismatches: 44, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
188 3 0.01
189 398 0.99
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (189 bp):
AAGTTGGAATCCCTTCGTCAATTGGATCTTAGTGATTGCCCAATGATTAAATTTCCAGAAATCCC
AAGAAGCTTAACAGAATTAAACTTATCTGGCACTCAAATTGAAGAAGTGTCCTTGCCTTTCGACT
CCCTATGTAATCTTCGGAATTTAAATATGAAGGGCTCAAGGGTAAAAAATGTATCGATC
Found at i:1600617 original size:18 final size:18
Alignment explanation
Indices: 1600590--1600682 Score: 105
Period size: 18 Copynumber: 5.2 Consensus size: 18
1600580 TACGACCGTT
*
1600590 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
1600608 TACGGTACTATTCACATA
1 TACGGTACTATTCACGTA
*
1600626 TACAGTACTATTCACGTA
1 TACGGTACTATTCACGTA
* * * **
1600644 TATGGCACTATTTATATA
1 TACGGTACTATTCACGTA
*
1600662 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
1600680 TAC
1 TAC
1600683 AGTAGTTGGG
Statistics
Matches: 59, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 59 1.00
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:1600643 original size:36 final size:36
Alignment explanation
Indices: 1600596--1600682 Score: 120
Period size: 36 Copynumber: 2.4 Consensus size: 36
1600586 CGTTTACGGC
*
1600596 ACTATTCACGTATACGGTACTATTCACATATACAGT
1 ACTATTCACGTATACGGCACTATTCACATATACAGT
* * * *
1600632 ACTATTCACGTATATGGCACTATTTATATATACGGT
1 ACTATTCACGTATACGGCACTATTCACATATACAGT
*
1600668 ACTGTTCACGTATAC
1 ACTATTCACGTATAC
1600683 AGTAGTTGGG
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 44 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.36
Consensus pattern (36 bp):
ACTATTCACGTATACGGCACTATTCACATATACAGT
Found at i:1606625 original size:9 final size:10
Alignment explanation
Indices: 1606576--1606647 Score: 57
Period size: 10 Copynumber: 7.6 Consensus size: 10
1606566 CTTTTACAAG
1606576 TTTTATAAT-
1 TTTTATAATA
1606585 TTTATATAAT-
1 TTT-TATAATA
1606595 TTTTA-ATATA
1 TTTTATA-ATA
*
1606605 TTTCATAA-A
1 TTTTATAATA
1606614 TTTTA-AATA
1 TTTTATAATA
*
1606623 TTTTATAATT
1 TTTTATAATA
*
1606633 TTTTATGAT-
1 TTTTATAATA
1606642 TTTTAT
1 TTTTAT
1606648 GTGAAAAATG
Statistics
Matches: 53, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
8 3 0.06
9 24 0.45
10 25 0.47
11 1 0.02
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (10 bp):
TTTTATAATA
Found at i:1606637 original size:19 final size:19
Alignment explanation
Indices: 1606589--1606635 Score: 69
Period size: 18 Copynumber: 2.5 Consensus size: 19
1606579 TATAATTTTA
1606589 TATAATTTTTAATATATTT
1 TATAATTTTTAATATATTT
* *
1606608 CATAAATTTTAA-ATATTT
1 TATAATTTTTAATATATTT
1606626 TATAATTTTT
1 TATAATTTTT
1606636 TATGATTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
TATAATTTTTAATATATTT
Found at i:1606645 original size:19 final size:20
Alignment explanation
Indices: 1606576--1606647 Score: 64
Period size: 19 Copynumber: 3.8 Consensus size: 20
1606566 CTTTTACAAG
1606576 TTTTATAAT-TTTATATAATT
1 TTTTATAATATTT-TATAATT
* * *
1606596 TTTAAT-ATATTTCATAA-A
1 TTTTATAATATTTTATAATT
1606614 TTTTA-AATATTTTATAATT
1 TTTTATAATATTTTATAATT
*
1606633 TTTTATGAT-TTTTAT
1 TTTTATAATATTTTAT
1606648 GTGAAAAATG
Statistics
Matches: 41, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
18 14 0.34
19 17 0.41
20 10 0.24
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (20 bp):
TTTTATAATATTTTATAATT
Found at i:1612507 original size:30 final size:30
Alignment explanation
Indices: 1612473--1612542 Score: 140
Period size: 30 Copynumber: 2.3 Consensus size: 30
1612463 GCCACATCTA
1612473 AAATTATAAAAATTCAATTTAATCATTTAC
1 AAATTATAAAAATTCAATTTAATCATTTAC
1612503 AAATTATAAAAATTCAATTTAATCATTTAC
1 AAATTATAAAAATTCAATTTAATCATTTAC
1612533 AAATTATAAA
1 AAATTATAAA
1612543 GATATAAACT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.39
Consensus pattern (30 bp):
AAATTATAAAAATTCAATTTAATCATTTAC
Found at i:1613281 original size:16 final size:16
Alignment explanation
Indices: 1613260--1613293 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
1613250 TTGAAATCTT
*
1613260 AAGCTTTAAAATGGGA
1 AAGCTTGAAAATGGGA
1613276 AAGCTTGAAAATGGGA
1 AAGCTTGAAAATGGGA
1613292 AA
1 AA
1613294 CACTTTCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.26, T:0.21
Consensus pattern (16 bp):
AAGCTTGAAAATGGGA
Found at i:1614134 original size:2 final size:2
Alignment explanation
Indices: 1614127--1614157 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1614117 GATAAATTGT
1614127 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1614158 TGTTAGGATC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1619780 original size:189 final size:189
Alignment explanation
Indices: 1619562--1620198 Score: 990
Period size: 189 Copynumber: 3.4 Consensus size: 189
1619552 CAATATTTCA
* * *
1619562 AAGTTGGAATTCCTTCATCAATTGGATCTTAGTGATTGCCCAATGATTAAATTTCCAGAAATCCC
1 AAGTTGGAATCCCTTCGTCAATTGGATCTTAGTGATTGCCCAATGATCAAATTTCCAGAAATCCC
1619627 AAGAAGCTTAACAGAATTAAACTTATCTGGCACTCAAATTGAAGAAGTGTCCTTGCCTTTCGACT
66 AAGAAGCTTAACAGAATTAAACTTATCTGGCACTCAAATTGAAGAAGTGTCCTTGCCTTTCGACT
1619692 CCCTATGTAATCTTCGGAATTTAAATATGAGGGGCTCAAGGGTAAAAAATGTATCGATC
131 CCCTATGTAATCTTCGGAATTTAAATATGAGGGGCTCAAGGGTAAAAAATGTATCGATC
*
1619751 AAGTTGGAATCCCTTCGTCAATTGGATCTTAGTGATTGCCCAATGATTAAATTTCCAGAAATCCC
1 AAGTTGGAATCCCTTCGTCAATTGGATCTTAGTGATTGCCCAATGATCAAATTTCCAGAAATCCC
* * * *
1619816 AGGAAGCTTAACAGAATTAAACTTATCTGGCACTCAAATTGAAGACGTGTTCTTGCCTTTTGACT
66 AAGAAGCTTAACAGAATTAAACTTATCTGGCACTCAAATTGAAGAAGTGTCCTTGCCTTTCGACT
*
1619881 CCCTATGTAATCTTCGGAATTTAAATATGAGGGGCTCAAGAGTAAAAAATGTATCGATC
131 CCCTATGTAATCTTCGGAATTTAAATATGAGGGGCTCAAGGGTAAAAAATGTATCGATC
* * *
1619940 AAGTTGGAATCCCTTCGTAAACTGAATCTTAGTGATTGCCCAATGATCAAATTTCCAGAAATCCC
1 AAGTTGGAATCCCTTCGTCAATTGGATCTTAGTGATTGCCCAATGATCAAATTTCCAGAAATCCC
* * *
1620005 AAGAAGCTTAATAGAATTAAACTTATCTGGCACTCAAATTGAAGAAGTGTCATTGCCTTTGGACT
66 AAGAAGCTTAACAGAATTAAACTTATCTGGCACTCAAATTGAAGAAGTGTCCTTGCCTTTCGACT
* * * * * * *
1620070 CTCTATGTAATCTTCGGGACTTAGATATGAGTGGCTC-TGCGGTTAAAAATGTATCGATC
131 CCCTATGTAATCTTCGGAATTTAAATATGAGGGGCTCAAG-GGTAAAAAATGTATCGATC
* * * * * *
1620129 AAGTTGGAATCTCTTCGT-TATCTGGATCTTAGTGGTTGCCCAATGGTCGAATTTCCAGAAATTC
1 AAGTTGGAATCCCTTCGTCAAT-TGGATCTTAGTGATTGCCCAATGATCAAATTTCCAGAAATCC
1620193 CAAGAA
65 CAAGAA
1620199 TTACATGGGA
Statistics
Matches: 413, Mismatches: 33, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
188 2 0.00
189 411 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (189 bp):
AAGTTGGAATCCCTTCGTCAATTGGATCTTAGTGATTGCCCAATGATCAAATTTCCAGAAATCCC
AAGAAGCTTAACAGAATTAAACTTATCTGGCACTCAAATTGAAGAAGTGTCCTTGCCTTTCGACT
CCCTATGTAATCTTCGGAATTTAAATATGAGGGGCTCAAGGGTAAAAAATGTATCGATC
Found at i:1626837 original size:21 final size:21
Alignment explanation
Indices: 1626811--1626851 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1626801 ATCTGCTCAA
* *
1626811 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
1626832 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
1626852 TCGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:1639252 original size:21 final size:21
Alignment explanation
Indices: 1639226--1639266 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1639216 AGACAAGCGA
* *
1639226 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
1639247 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
1639267 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:1644590 original size:39 final size:39
Alignment explanation
Indices: 1644444--1644610 Score: 203
Period size: 39 Copynumber: 4.3 Consensus size: 39
1644434 TATTTTATGT
* * * * *
1644444 GGATGAAGTTCAGCTTGATGAGATGAGCAATGATGTATT
1 GGATGAAGATCAGATTGATGAGACGAGCAATGATGCATC
* *
1644483 GGATGAAGATCAGAGTGATGAGACGAGCAATGATGTATC
1 GGATGAAGATCAGATTGATGAGACGAGCAATGATGCATC
* * *
1644522 GGATGAAGATAAGATTGATGAGACGAGCAGTGATGCGTC
1 GGATGAAGATCAGATTGATGAGACGAGCAATGATGCATC
* *
1644561 GGATGAAGATCA-ATTAGATGAGACGAGCAGTAATGCATC
1 GGATGAAGATCAGATT-GATGAGACGAGCAATGATGCATC
1644600 GGATGAA-ATCA
1 GGATGAAGATCA
1644611 AGAAATGTGC
Statistics
Matches: 114, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
38 7 0.06
39 107 0.94
ACGTcount: A:0.35, C:0.10, G:0.32, T:0.23
Consensus pattern (39 bp):
GGATGAAGATCAGATTGATGAGACGAGCAATGATGCATC
Found at i:1649685 original size:23 final size:23
Alignment explanation
Indices: 1649655--1649723 Score: 138
Period size: 23 Copynumber: 3.0 Consensus size: 23
1649645 AGAAATTTGT
1649655 ATTGGTACCCCTTCCATAGGATC
1 ATTGGTACCCCTTCCATAGGATC
1649678 ATTGGTACCCCTTCCATAGGATC
1 ATTGGTACCCCTTCCATAGGATC
1649701 ATTGGTACCCCTTCCATAGGATC
1 ATTGGTACCCCTTCCATAGGATC
1649724 CCCATACCAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.22, C:0.30, G:0.17, T:0.30
Consensus pattern (23 bp):
ATTGGTACCCCTTCCATAGGATC
Found at i:1654191 original size:56 final size:56
Alignment explanation
Indices: 1654117--1654241 Score: 200
Period size: 56 Copynumber: 2.2 Consensus size: 56
1654107 GAGTGATTTT
*
1654117 AATTTTTTTTT-AAAAACTCGTATTCTGGTGCCGGTCATTGACA-AGCCAGCACCAA
1 AATTTTTTTTTAAAAAACTCGTATTCTGGTGCCGGCCATTGACAGA-CCAGCACCAA
*
1654172 AATTTTTTTTTAAAAAACTCGTATTCTGGTGCCGGCCATTGACAGACTAGCACCAA
1 AATTTTTTTTTAAAAAACTCGTATTCTGGTGCCGGCCATTGACAGACCAGCACCAA
*
1654228 AATTTTTTATTAAA
1 AATTTTTTTTTAAA
1654242 TATTGGTATT
Statistics
Matches: 65, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
55 11 0.17
56 53 0.82
57 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.35
Consensus pattern (56 bp):
AATTTTTTTTTAAAAAACTCGTATTCTGGTGCCGGCCATTGACAGACCAGCACCAA
Found at i:1655695 original size:34 final size:35
Alignment explanation
Indices: 1655648--1655718 Score: 94
Period size: 35 Copynumber: 2.1 Consensus size: 35
1655638 AACTCAATTG
1655648 ATTAAATTATT-AAAT-TTTTTTATATTT-AAAATAA
1 ATTAAATTATTAAAATATTTTTT-TATTTGAAAA-AA
*
1655682 ATTATATTATTAAAATATTTTTTTATTTGAAAAAA
1 ATTAAATTATTAAAATATTTTTTTATTTGAAAAAA
1655717 AT
1 AT
1655719 AAAAATATCA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
34 10 0.30
35 13 0.39
36 10 0.30
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (35 bp):
ATTAAATTATTAAAATATTTTTTTATTTGAAAAAA
Found at i:1656317 original size:20 final size:20
Alignment explanation
Indices: 1656275--1656325 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
1656265 TAATTTTAGG
* ** *
1656275 ATTTAATTTTAATTATCTTT
1 ATTTATTTTTAATTAAATGT
1656295 ATTTATTTTTAATTAAATGT
1 ATTTATTTTTAATTAAATGT
1656315 ATTTATCTTTT
1 ATTTAT-TTTT
1656326 TAGAATTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 22 0.85
21 4 0.15
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (20 bp):
ATTTATTTTTAATTAAATGT
Found at i:1658570 original size:27 final size:26
Alignment explanation
Indices: 1658540--1658601 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
1658530 AGATAATTAA
1658540 AATAAAATCCTAAAT-TTGAATAATCCT
1 AATAAAAT-CTAAATATT-AATAATCCT
* * *
1658567 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCTAAATATTAATAATCCT
1658594 AATAAAAT
1 AATAAAAT
1658602 AAAATAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
26 2 0.07
27 23 0.79
28 4 0.14
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (26 bp):
AATAAAATCTAAATATTAATAATCCT
Found at i:1659191 original size:13 final size:12
Alignment explanation
Indices: 1659172--1659211 Score: 55
Period size: 13 Copynumber: 3.3 Consensus size: 12
1659162 TTAGTACTTA
1659172 TTTTTTTCTTCT
1 TTTTTTTCTTCT
*
1659184 TCTTTTTTTTTCT
1 T-TTTTTTCTTCT
1659197 TTTTTTTCTT-T
1 TTTTTTTCTTCT
1659208 TTTT
1 TTTT
1659212 CTTTTTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 5 0.20
12 9 0.36
13 11 0.44
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (12 bp):
TTTTTTTCTTCT
Found at i:1659194 original size:17 final size:16
Alignment explanation
Indices: 1659172--1659221 Score: 68
Period size: 15 Copynumber: 3.2 Consensus size: 16
1659162 TTAGTACTTA
*
1659172 TTTTTTTCTTCTTCTT
1 TTTTTTTCTTCTTTTT
1659188 TTTTTTTCTT-TTTTT
1 TTTTTTTCTTCTTTTT
*
1659203 TCTTTTT-TTCTTTTT
1 TTTTTTTCTTCTTTTT
1659218 TTTT
1 TTTT
1659222 AAATTTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
14 2 0.07
15 18 0.60
16 10 0.33
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (16 bp):
TTTTTTTCTTCTTTTT
Found at i:1659221 original size:10 final size:9
Alignment explanation
Indices: 1659187--1659220 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
1659177 TTCTTCTTCT
1659187 TTTTTTTTC
1 TTTTTTTTC
1659196 TTTTTTTTC
1 TTTTTTTTC
1659205 -TTTTTTTC
1 TTTTTTTTC
1659213 TTTTTTTT
1 TTTTTTTT
1659221 TAAATTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:1660559 original size:7 final size:6
Alignment explanation
Indices: 1660534--1660620 Score: 72
Period size: 6 Copynumber: 13.7 Consensus size: 6
1660524 ATATTTAACT
*
1660534 AAAAT- AAAATA AAAATA AAAAGT- AAAATA ATATATA AATAATAA ATAAATA
1 AAAATA AAAATA AAAATA AAAA-TA AAAATA A-AAATA AA-AAT-A A-AAATA
1660585 AGAAA-A GAAAATA ATAAATA AAAATA AAAATA AAAA
1 A-AAATA -AAAATA A-AAATA AAAATA AAAATA AAAA
1660621 GAAAGATTGG
Statistics
Matches: 69, Mismatches: 3, Indels: 19
0.76 0.03 0.21
Matches are distributed among these distances:
5 6 0.09
6 36 0.52
7 21 0.30
8 5 0.07
9 1 0.01
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (6 bp):
AAAATA
Found at i:1660598 original size:13 final size:13
Alignment explanation
Indices: 1660535--1660620 Score: 58
Period size: 13 Copynumber: 6.7 Consensus size: 13
1660525 TATTTAACTA
1660535 AAAT-AAAATAA-
1 AAATAAAAATAAG
*
1660546 AAATAAAAAGTAAA
1 AAATAAAAA-TAAG
*
1660560 ATAATATATAAATAAT
1 A-AATA-A-AAATAAG
1660576 AAAT--AAATAAG
1 AAATAAAAATAAG
*
1660587 AAA-AGAAAATAAT
1 AAATA-AAAATAAG
1660600 AAATAAAAATAA-
1 AAATAAAAATAAG
1660612 AAATAAAAA
1 AAATAAAAA
1660621 GAAAGATTGG
Statistics
Matches: 62, Mismatches: 3, Indels: 19
0.74 0.04 0.23
Matches are distributed among these distances:
11 13 0.21
12 13 0.21
13 19 0.31
14 2 0.03
15 7 0.11
16 5 0.08
17 3 0.05
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (13 bp):
AAATAAAAATAAG
Found at i:1660602 original size:20 final size:19
Alignment explanation
Indices: 1660540--1660617 Score: 72
Period size: 19 Copynumber: 3.9 Consensus size: 19
1660530 AACTAAAATA
1660540 AAATAAAAATAAAAAGT-A-
1 AAATAAAAATAAAAA-TAAT
*
1660558 AAATAATATATAAATAATAAAT
1 AAATAA-AAATAAA-AAT-AAT
1660580 AAATAAGAAA-AGAAAATAAT
1 AAATAA-AAATA-AAAATAAT
1660600 AAATAAAAATAAAAATAA
1 AAATAAAAATAAAAATAA
1660618 AAAGAAAGAT
Statistics
Matches: 50, Mismatches: 3, Indels: 13
0.76 0.05 0.20
Matches are distributed among these distances:
18 6 0.12
19 17 0.34
20 12 0.24
21 5 0.10
22 10 0.20
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.21
Consensus pattern (19 bp):
AAATAAAAATAAAAATAAT
Found at i:1660621 original size:30 final size:30
Alignment explanation
Indices: 1660535--1660624 Score: 110
Period size: 35 Copynumber: 2.8 Consensus size: 30
1660525 TATTTAACTA
1660535 AAAT-AAAATAAAAATAAAAAGTAAAATAAT
1 AAATAAAAATAAAAATAAAAAG-AAAATAAT
*
1660565 ATATAAATAATAAATAAATAAGAAAAGAAAATAAT
1 AAATAAA-AAT-AA-AAAT-A-AAAAGAAAATAAT
1660600 AAATAAAAATAAAAATAAAAAGAAA
1 AAATAAAAATAAAAATAAAAAGAAA
1660625 GATTGGGTTG
Statistics
Matches: 52, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
30 11 0.21
31 3 0.06
32 7 0.13
33 4 0.08
34 7 0.13
35 15 0.29
36 5 0.10
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (30 bp):
AAATAAAAATAAAAATAAAAAGAAAATAAT
Found at i:1667067 original size:27 final size:26
Alignment explanation
Indices: 1667037--1667098 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
1667027 AGATAATTAA
1667037 AATAAAATCCTAAAT-TTGAATAATCCT
1 AATAAAAT-CTAAATATT-AATAATCCT
* * *
1667064 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCTAAATATTAATAATCCT
1667091 AATAAAAT
1 AATAAAAT
1667099 AAAATAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
26 2 0.07
27 23 0.79
28 4 0.14
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (26 bp):
AATAAAATCTAAATATTAATAATCCT
Found at i:1669947 original size:50 final size:51
Alignment explanation
Indices: 1669870--1669978 Score: 184
Period size: 50 Copynumber: 2.2 Consensus size: 51
1669860 GACCATGGCA
* * *
1669870 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTG
1 ACAAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
1669921 A-AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
1 ACAAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
1669971 ACAAGTGA
1 ACAAGTGA
1669979 AATGTGGTAG
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
50 47 0.87
51 7 0.13
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:1670017 original size:31 final size:31
Alignment explanation
Indices: 1669974--1670122 Score: 210
Period size: 31 Copynumber: 4.8 Consensus size: 31
1669964 ACAAATGACA
*
1669974 AGTGAAATGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
*
1670005 AGTGAAAAGTGGTAGCTT-TGGTTACCTGATC
1 AGTGAAAAGTGGTAGCTTCT-GCTACCTGATC
1670036 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
* * *
1670067 AGTGAAAAATGGTAGCTCCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
* * *
1670098 AGTGAATAGTGGTAGATTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCTGCTAC
1670123 AAGTGACAAG
Statistics
Matches: 105, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
30 1 0.01
31 103 0.98
32 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
Found at i:1670210 original size:47 final size:46
Alignment explanation
Indices: 1670140--1670252 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 46
1670130 AAGTGATTTC
* * *
1670140 CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATA
* *
1670186 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATT
1 C-GTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATA
* *
1670233 CGTGTAAGACCATAGCTGGG
1 CGTATAAGACCATATCTGGG
1670253 CTTTGGGATT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
46 18 0.31
47 41 0.69
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.29
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATA
Found at i:1670313 original size:49 final size:48
Alignment explanation
Indices: 1670222--1670316 Score: 154
Period size: 49 Copynumber: 2.0 Consensus size: 48
1670212 GCATCAGTGA
* **
1670222 GATATGTGATTCGTGTAAGACCATAGCTGGGCTTTGGGATTGATATGT
1 GATATGTGATTCGTGTAAGACCATAGCTGGGCTATGACATTGATATGT
1670270 GATATGTGATTACGTGTAAGACCATAGCTGGGCTATGACATTGATAT
1 GATATGTGATT-CGTGTAAGACCATAGCTGGGCTATGACATTGATAT
1670317 ATGAAGATGT
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
48 11 0.26
49 32 0.74
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (48 bp):
GATATGTGATTCGTGTAAGACCATAGCTGGGCTATGACATTGATATGT
Found at i:1674365 original size:29 final size:28
Alignment explanation
Indices: 1674332--1674400 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 28
1674322 AGGCAACCCA
1674332 ATTTTTATTTTTTTATT-TTAGTTTAATTT
1 ATTTTTATTTTTTTATTATTA-TTTAA-TT
* *
1674361 ATTTTTATTTTTTTCTTATTATTTTATT
1 ATTTTTATTTTTTTATTATTATTTAATT
1674389 ATTTATTATTTT
1 ATTT-TTATTTT
1674401 CAGATATTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
28 6 0.17
29 27 0.75
30 3 0.08
ACGTcount: A:0.20, C:0.01, G:0.01, T:0.77
Consensus pattern (28 bp):
ATTTTTATTTTTTTATTATTATTTAATT
Found at i:1675350 original size:15 final size:14
Alignment explanation
Indices: 1675328--1675360 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1675318 AAATTCTATT
1675328 AAAA-AAAAGATAAA
1 AAAAGAAAAGA-AAA
1675342 AAAAGAAAAGAAAA
1 AAAAGAAAAGAAAA
1675356 AAAAG
1 AAAAG
1675361 TCATATTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (14 bp):
AAAAGAAAAGAAAA
Found at i:1675943 original size:15 final size:15
Alignment explanation
Indices: 1675923--1675952 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1675913 TATTTTATTT
*
1675923 ATATTAGGATAATTA
1 ATATTAAGATAATTA
1675938 ATATTAAGATAATTA
1 ATATTAAGATAATTA
1675953 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:1680231 original size:24 final size:24
Alignment explanation
Indices: 1680204--1680277 Score: 139
Period size: 24 Copynumber: 3.1 Consensus size: 24
1680194 TCTACTTATA
1680204 ATGAAGGTATAATATCTATGCATG
1 ATGAAGGTATAATATCTATGCATG
1680228 ATGAAGGTATAATATCTATGCATG
1 ATGAAGGTATAATATCTATGCATG
*
1680252 ATGAAGATATAATATCTATGCATG
1 ATGAAGGTATAATATCTATGCATG
1680276 AT
1 AT
1680278 ATGCTTGAAG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.39, C:0.08, G:0.19, T:0.34
Consensus pattern (24 bp):
ATGAAGGTATAATATCTATGCATG
Found at i:1682459 original size:432 final size:425
Alignment explanation
Indices: 1681445--1683248 Score: 2492
Period size: 422 Copynumber: 4.2 Consensus size: 425
1681435 CATATTGCAA
* * * * ** **
1681445 GAATTTAAGGAAGATGCCTGATCTTTCAGGAGCCATCAACCTTGAGCTCCTTCG-TTGCAT-TGG
1 GAATTTAAGGAAGATACCTAATTTTTCAAGAGCCATCAACCTTGAAATCCTT-GATTGC-TCTAA
** * * *
1681508 CTGTGAAAGTTTGGTTGAATTTTGGGATGAAGATGATCATATGGTATGTGTTTGCATATTTATTT
64 CTGCAAAAGTTTGGTTGAACTTTGGAATGAAGATGATCATATGGTATGTGTTTTCATATTTATTT
* *
1681573 CGAAAAAAATGATTTATAATTTGATATATCAAATATTTATATGACAACATTTTATTTAAAGTTTT
129 CGAAAAAAATGATTTATAATTTGATGTATCAAATATTTATATGATAACATTTTATTTAAAGTTTT
*
1681638 TAAAAAATAAATATAAAAAATTTTATTTTATTTAGATAAATGACATCGTTTGATTTATTAATTGT
194 TAAAAAATAAATATAAAAGATTTTATTTTATTTAGATAAATGACATCGTTTGATTTATTAATTGT
* *
1681703 GGGTGAATTTTCACGCCCTATATGTCAAATATAAATTTTTATTTTTTTATAGTATAATAATTATT
259 -GG-G-----T---G----AT-TGTCAAATATAAATTTTTAATTTTTTATAGTATTATAATTATT
* *
1681768 TATTTTCTTTTCATTTTTTACTGCTTAACATAAATAGTTGATGCTTAAAAGTAATACAATTAGTT
309 TATTTTCTTTTCATTTTTTACTGCCTAACATAAATAGTTGATGCTTAAAAGTAATAAAATTA-TT
* *
1681833 TTTTCTATATAGGGCCTAGTTAATTTAAAGAAAATTCACTTTGGTGGGTGCGT
373 TTTTCTATACAGGGCCTTGTTAATTTAAAGAAAATTCACTTTGGTGGGTGCGT
*
1681886 GAATTTAAAGAAGATACCTAATTTTTCAAGAGCCATCAACCTTGAAATCCTTGATTGCTCTAACT
1 GAATTTAAGGAAGATACCTAATTTTTCAAGAGCCATCAACCTTGAAATCCTTGATTGCTCTAACT
1681951 GCAAAAGTTTGGTTGAACTTTGGAATGAAGATGATCATATGGTATGTGTTTTCATATTTATTTCG
66 GCAAAAGTTTGGTTGAACTTTGGAATGAAGATGATCATATGGTATGTGTTTTCATATTTATTTCG
1682016 AAAAAAATGATTTATAATTTGATGTATCAAATATTTATATGATAACATTTTATTTAAAGTTTTTA
131 AAAAAAATGATTTATAATTTGATGTATCAAATATTTATATGATAACATTTTATTTAAAGTTTTTA
*
1682081 AAAAATAAATATAAAAGATTTTATTTTATTCAGATAAATGACATCGTTTGATTTATTAATTGTGG
196 AAAAATAAATATAAAAGATTTTATTTTATTTAGATAAATGACATCGTTTGATTTATTAATTGTGG
* * *
1682146 GTGAATTTTCACGCCTGATATGTCAAA-TTTT-ATTTTTTATAATATTATAATTATTTATTTTCT
261 GTG-ATTGTCA------A-ATAT-AAATTTTTAATTTTTTATAGTATTATAATTATTTATTTTCT
* *
1682209 TTTTATTTTTTATTGCCTAACATAAATAGTTGATGCTTAAAAGTAATAAAATTATTTTTTCTATA
317 TTTCATTTTTTACTGCCTAACATAAATAGTTGATGCTTAAAAGTAATAAAATTATTTTTTCTATA
* * * * *
1682274 TAGGGCCTTGTTAATTT-AAGAGAAATTCGCTTTGGTTGCTGCCT
382 CAGGGCCTTGTTAATTTAAAGA-AAATTCACTTTGGTGGGTGCGT
* *
1682318 GAATTTAAGGAAAATACCTAATTTTTCAAGAGCCATCAACCTTGAAATCCTTGATTGCTCTGACT
1 GAATTTAAGGAAGATACCTAATTTTTCAAGAGCCATCAACCTTGAAATCCTTGATTGCTCTAACT
*
1682383 GCAAAAGTTTGGTTGAACTTTGGAAAGAAGATGATCATATGGTATGTGTTTTCATATTTATTTCG
66 GCAAAAGTTTGGTTGAACTTTGGAATGAAGATGATCATATGGTATGTGTTTTCATATTTATTTCG
1682448 AAAAAAATGATTTATAATTTGATGTATCAAATATTTATATGATAACA-TTTATTTAAAGTTTTTA
131 AAAAAAATGATTTATAATTTGATGTATCAAATATTTATATGATAACATTTTATTTAAAGTTTTTA
* * *
1682512 AAAAATAAATATAAAATATTTTATTTTATTTAGATAAATGACATCGTTTGATCTGTCTTCACACT
196 AAAAATAAATATAAAAGATTTTATTTTATTTAGATAAATGACATCGTTTGAT-T-TATT-A-ATT
* *
1682577 -T-GAT-A-TGTCAAATATAAA-TTTTAATTTTTTATAGTATTATAATTACTTATTTTCTTTTCA
257 GTGGGTGATTGTCAAATATAAATTTTTAATTTTTTATAGTATTATAATTATTTATTTTCTTTTCA
*
1682637 TTTTTTACTGTCTAACATAAATAGTTGATGCTTAAAAGTAATATAAA-TA-TTTTTCTATACAGG
322 TTTTTTACTGCCTAACATAAATAGTTGATGCTTAAAAGTAATA-AAATTATTTTTTCTATACAGG
1682700 GCCTTGTTAATTTAAAGAAAATTCACTTTGGTGGGTGCGT
386 GCCTTGTTAATTTAAAGAAAATTCACTTTGGTGGGTGCGT
*
1682740 GAATTTAAAGAAGATACCTAATTTTTCAAGAGCCATCAACCTTGAAATCCTTGATTGCTCTAACT
1 GAATTTAAGGAAGATACCTAATTTTTCAAGAGCCATCAACCTTGAAATCCTTGATTGCTCTAACT
1682805 GCAAAAGTTTGGTTGAACTTTGGAATGAAGATGATCATATGGTATGTGTTTTCATATTTATTTCG
66 GCAAAAGTTTGGTTGAACTTTGGAATGAAGATGATCATATGGTATGTGTTTTCATATTTATTTCG
* * *
1682870 AAAAAAATAATTTATAATTTGATGTATCAAATA-TCATATGATAACATTTTATTTAAGGTTTTTA
131 AAAAAAATGATTTATAATTTGATGTATCAAATATTTATATGATAACATTTTATTTAAAGTTTTTA
* **
1682934 AAAAATAAATATAAAAGATTTTATTTTATTTAGATAAATGACATCATTTGATTTATT--TTCACG
196 AAAAATAAATATAAAAGATTTTATTTTATTTAGATAAATGACATCGTTTGATTTATTAATT-GTG
*** *
1682997 CCCGATATGTCAAATATAAATTTTTAATTTTTTATATTATTATAATTATTTATTTTCTTTTCATT
260 GGTGAT-TGTCAAATATAAATTTTTAATTTTTTATAGTATTATAATTATTTATTTTCTTTTCATT
* * * * * *
1683062 TTTTACTGCCTAAAATAAATAATTGATGTTTAAAAGTAATACAATTATTTTTTGTATACAGGGCT
324 TTTTACTGCCTAACATAAATAGTTGATGCTTAAAAGTAATAAAATTATTTTTTCTATACAGGGCC
** *
1683127 TTGTTAATTT-AAGACAAATTCGTTTTAGTGGGTGCGT
389 TTGTTAATTTAAAGA-AAATTCACTTTGGTGGGTGCGT
* ** * * * * *
1683164 AAATTTAAGGAAGATAATTAATCTTTCAGGAGCCATCAAACTT-ACACTCCTTGATTGCTATAAC
1 GAATTTAAGGAAGATACCTAATTTTTCAAGAGCCATCAACCTTGA-AATCCTTGATTGCTCTAAC
**
1683228 TGTGAAAGTTTGGTTGAACTT
65 TGCAAAAGTTTGGTTGAACTT
1683249 CCTTGCCTCA
Statistics
Matches: 1241, Mismatches: 92, Indels: 77
0.88 0.07 0.05
Matches are distributed among these distances:
416 1 0.00
420 4 0.00
421 13 0.01
422 290 0.23
423 170 0.14
424 120 0.10
427 4 0.00
428 2 0.00
430 4 0.00
431 73 0.06
432 219 0.18
433 85 0.07
434 10 0.01
435 5 0.00
439 1 0.00
440 4 0.00
441 236 0.19
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.42
Consensus pattern (425 bp):
GAATTTAAGGAAGATACCTAATTTTTCAAGAGCCATCAACCTTGAAATCCTTGATTGCTCTAACT
GCAAAAGTTTGGTTGAACTTTGGAATGAAGATGATCATATGGTATGTGTTTTCATATTTATTTCG
AAAAAAATGATTTATAATTTGATGTATCAAATATTTATATGATAACATTTTATTTAAAGTTTTTA
AAAAATAAATATAAAAGATTTTATTTTATTTAGATAAATGACATCGTTTGATTTATTAATTGTGG
GTGATTGTCAAATATAAATTTTTAATTTTTTATAGTATTATAATTATTTATTTTCTTTTCATTTT
TTACTGCCTAACATAAATAGTTGATGCTTAAAAGTAATAAAATTATTTTTTCTATACAGGGCCTT
GTTAATTTAAAGAAAATTCACTTTGGTGGGTGCGT
Found at i:1689853 original size:21 final size:19
Alignment explanation
Indices: 1689800--1690035 Score: 74
Period size: 20 Copynumber: 11.6 Consensus size: 19
1689790 TTTAATGATA
1689800 ATAATATATAGATAAA-AATGT
1 ATAATATATA-A-AAATAAT-T
* *
1689821 ATAAAAATATAAAAATGACTT
1 AT-AATATATAAAAAT-AATT
1689842 AATAATATAT-AAAATAATT
1 -ATAATATATAAAAATAATT
**
1689861 ATAATATATAATATAA-AAGC
1 ATAATATATAA-A-AATAATT
*
1689881 AT-ATATATAAAAATAGTAT
1 ATAATATATAAAAATAAT-T
*
1689900 ATAATATATAATAAA-CA-T
1 ATAATATATAA-AAATAATT
* *
1689918 ATAATATAATAATAATATATAA
1 ATAATAT-ATAAAAATA-AT-T
* *
1689940 ATAATGATGT-AAAATAATA
1 ATAAT-ATATAAAAATAATT
*
1689959 ATAACT-TGTGAAAAATAATAT
1 ATAA-TATAT-AAAAATAAT-T
* * *
1689980 AAAATAAATAATAATAATAT
1 ATAATATATAAAAATAAT-T
1690000 AAATAATATATAATAAAATAATTTT
1 --ATAATATAT-A-AAAATAA--TT
1690025 ATAATATATAA
1 ATAATATATAA
1690036 TATAAAAATA
Statistics
Matches: 163, Mismatches: 24, Indels: 56
0.67 0.10 0.23
Matches are distributed among these distances:
17 2 0.01
18 24 0.15
19 23 0.14
20 44 0.27
21 25 0.15
22 25 0.15
23 12 0.07
24 6 0.04
25 1 0.01
26 1 0.01
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.34
Consensus pattern (19 bp):
ATAATATATAAAAATAATT
Found at i:1689929 original size:3 final size:3
Alignment explanation
Indices: 1689900--1690021 Score: 55
Period size: 3 Copynumber: 40.7 Consensus size: 3
1689890 AAAATAGTAT
*
1689900 ATA ATA TATA ATA A-A CAT- ATA AT- ATA ATA ATA ATA TATAA ATA ATG
1 ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA -AT-A ATA ATA
* * * *
1689946 AT- GTA A-A ATA ATA ATA ACTT GTGA AAA ATA AT- ATA A-A ATAA ATA
1 ATA ATA ATA ATA ATA ATA A-TA AT-A ATA ATA ATA ATA ATA AT-A ATA
1689990 ATA ATA AT- ATAA ATA ATA TATA ATA A-A ATA AT
1 ATA ATA ATA AT-A ATA ATA -ATA ATA ATA ATA AT
1690022 TTTATAATAT
Statistics
Matches: 92, Mismatches: 9, Indels: 36
0.67 0.07 0.26
Matches are distributed among these distances:
2 16 0.17
3 59 0.64
4 16 0.17
5 1 0.01
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:1689957 original size:30 final size:30
Alignment explanation
Indices: 1689841--1690045 Score: 133
Period size: 30 Copynumber: 6.7 Consensus size: 30
1689831 AAAAATGACT
*
1689841 TAATAATATAT-AA-AATAAT-TATAAT-A
1 TAATAATATATAAATAATAATATAAAATAA
** *
1689867 T-ATAATATA-AAAGCATATATATAAAAATAG
1 TAATAATATATAAATAATA-ATAT-AAAATAA
*
1689897 TATATAATATAT-AATAA-ACATATAATATAA
1 TA-ATAATATATAAATAATA-ATATAAAATAA
* *
1689927 TAATAATATATAAATAATGATGTAAAATAA
1 TAATAATATATAAATAATAATATAAAATAA
*
1689957 TAATAACT-TGTGAAA-AATAATATAAAATAAA
1 TAATAA-TATAT-AAATAATAATATAAAAT-AA
1689988 TAATAATAATATAAATAATATATAATAAAATAA
1 TAATAAT-ATATAAATAATA-AT-ATAAAATAA
* *
1690021 TTTTATAATATATAATATAAAAATA
1 --TAATAATATATAA-ATAATAATA
1690046 AGGTTAAAAA
Statistics
Matches: 140, Mismatches: 17, Indels: 37
0.72 0.09 0.19
Matches are distributed among these distances:
25 10 0.07
26 4 0.03
27 2 0.01
28 1 0.01
29 13 0.09
30 42 0.30
31 20 0.14
32 17 0.12
33 5 0.04
34 15 0.11
35 11 0.08
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (30 bp):
TAATAATATATAAATAATAATATAAAATAA
Found at i:1689995 original size:20 final size:18
Alignment explanation
Indices: 1689841--1690046 Score: 86
Period size: 18 Copynumber: 11.0 Consensus size: 18
1689831 AAAAATGACT
1689841 TAATAATATATAA-AATAA
1 TAATAATATA-AATAATAA
*
1689859 TTATAATATATAAT-ATAA
1 TAATAATATA-AATAATAA
** * *
1689877 -AAGCATATATATAAAAA
1 TAATAATATAAATAATAA
*
1689894 TAGT-ATAT-AATATATAA
1 TAATAATATAAATA-ATAA
1689911 TAA-ACATATAATATAATAA
1 TAATA-ATATAA-ATAATAA
1689930 TAAT-ATATAAATAATGATGTA
1 TAATAATATAAATAAT-A---A
* * **
1689951 AAATAATAATAACTTGTGAA
1 TAATAAT-ATAAATAAT-AA
*
1689971 AAATAATATAAAATAAATAA
1 TAATAATAT-AAAT-AATAA
1689991 TAATAATATAAATAATATA
1 TAATAATATAAATAATA-A
* * *
1690010 TAATAAAATAATTTTATAA
1 TAATAATATAA-ATAATAA
1690029 TATATAATATAAA-AATAA
1 TA-ATAATATAAATAATAA
1690047 GGTTAAAAAT
Statistics
Matches: 143, Mismatches: 25, Indels: 40
0.69 0.12 0.19
Matches are distributed among these distances:
16 5 0.03
17 23 0.16
18 36 0.25
19 28 0.20
20 36 0.25
21 5 0.03
22 2 0.01
23 8 0.06
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.34
Consensus pattern (18 bp):
TAATAATATAAATAATAA
Found at i:1696717 original size:11 final size:11
Alignment explanation
Indices: 1696703--1696728 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
1696693 TTTAAATTGT
1696703 TTTTCTTTTTA
1 TTTTCTTTTTA
1696714 TTTTCTTTTTA
1 TTTTCTTTTTA
1696725 TTTT
1 TTTT
1696729 TGCATTTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTCTTTTTA
Found at i:1706440 original size:23 final size:25
Alignment explanation
Indices: 1706414--1706459 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
1706404 TATCATTCAT
*
1706414 TTCATTATAT-CA-ATATTTTATAC
1 TTCATCATATCCATATATTTTATAC
*
1706437 TTCATCATTTCCATATATTTTAT
1 TTCATCATATCCATATATTTTAT
1706460 GTATATTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 8 0.42
24 2 0.11
25 9 0.47
ACGTcount: A:0.30, C:0.15, G:0.00, T:0.54
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATAC
Found at i:1706781 original size:46 final size:46
Alignment explanation
Indices: 1706721--1707032 Score: 399
Period size: 46 Copynumber: 7.0 Consensus size: 46
1706711 TTTGACGTGA
* * * * * *
1706721 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
1706767 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
1706813 TACCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1706859 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* * *
1706905 TGCCATGCTATCTTTCAATCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
1706951 TTCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1706989 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1707033 AGAGCACACT
Statistics
Matches: 235, Mismatches: 22, Indels: 18
0.85 0.08 0.07
Matches are distributed among these distances:
38 32 0.14
39 1 0.00
40 3 0.01
41 1 0.00
43 1 0.00
44 3 0.01
45 5 0.02
46 189 0.80
ACGTcount: A:0.22, C:0.25, G:0.14, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:1706997 original size:38 final size:38
Alignment explanation
Indices: 1706946--1707021 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
1706936 CATCTCATAT
*
1706946 CAGGTTTCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1706984 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1707022 TTTCATATCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:1713899 original size:19 final size:19
Alignment explanation
Indices: 1713875--1713915 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
1713865 TTTGTTGCCG
1713875 TAATATATATTACTTACTA
1 TAATATATATTACTTACTA
*
1713894 TAATATGTATTACTTACTA
1 TAATATATATTACTTACTA
1713913 TAA
1 TAA
1713916 CCATAATGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.41, C:0.10, G:0.02, T:0.46
Consensus pattern (19 bp):
TAATATATATTACTTACTA
Found at i:1727540 original size:38 final size:38
Alignment explanation
Indices: 1727489--1727602 Score: 228
Period size: 38 Copynumber: 3.0 Consensus size: 38
1727479 TCAAGCATAG
1727489 CTGTCAAATATCTTGTAGATATATACTTTCCTAAGAAT
1 CTGTCAAATATCTTGTAGATATATACTTTCCTAAGAAT
1727527 CTGTCAAATATCTTGTAGATATATACTTTCCTAAGAAT
1 CTGTCAAATATCTTGTAGATATATACTTTCCTAAGAAT
1727565 CTGTCAAATATCTTGTAGATATATACTTTCCTAAGAAT
1 CTGTCAAATATCTTGTAGATATATACTTTCCTAAGAAT
1727603 AGGTTGCTGT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 76 1.00
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (38 bp):
CTGTCAAATATCTTGTAGATATATACTTTCCTAAGAAT
Found at i:1744635 original size:19 final size:19
Alignment explanation
Indices: 1744610--1744698 Score: 121
Period size: 19 Copynumber: 4.8 Consensus size: 19
1744600 ATAATCTTCA
1744610 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
1744629 GTGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
* *
1744648 ATCATA--CAATTTTAGAT
1 ATGATATGCAATCTTAGAT
1744665 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
1744683 ATGATATACAATCTTA
1 ATGATATGCAATCTTA
1744699 AAAGATATGA
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
17 14 0.23
18 15 0.25
19 31 0.52
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.38
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:1750422 original size:5 final size:5
Alignment explanation
Indices: 1750409--1750489 Score: 75
Period size: 5 Copynumber: 16.8 Consensus size: 5
1750399 CTTCTATTTC
*
1750409 AAAAA AAAAG AAAAG AAAAG --AAG AAAAG AAAAG AAAAG AAAAAG AGAAA-
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG -AAAAG A-AAAG
*
1750458 AAAAG AAAAAG AGAA- AAAAG -AAA- AAAAG AAAA
1 AAAAG -AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
1750490 ATAGAGAGGC
Statistics
Matches: 64, Mismatches: 3, Indels: 18
0.75 0.04 0.21
Matches are distributed among these distances:
3 3 0.05
4 12 0.19
5 36 0.56
6 13 0.20
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:1750432 original size:8 final size:7
Alignment explanation
Indices: 1750409--1750490 Score: 76
Period size: 8 Copynumber: 10.7 Consensus size: 7
1750399 CTTCTATTTC
*
1750409 AAAAAAA
1 AAAAAAG
1750416 AAGAAAAG
1 AA-AAAAG
1750424 AAAAGAAG
1 AAAA-AAG
1750432 AAAAGAA-
1 AAAA-AAG
1750439 AAGAAAAG
1 AA-AAAAG
1750447 AAAAAGAG
1 AAAAA-AG
1750455 AAAAAAAG
1 -AAAAAAG
1750463 AAAAAGAG
1 AAAAA-AG
1750471 AAAAAAG
1 AAAAAAG
1750478 AAAAAAAG
1 -AAAAAAG
1750486 AAAAA
1 AAAAA
1750491 TAGAGAGGCC
Statistics
Matches: 66, Mismatches: 1, Indels: 16
0.80 0.01 0.19
Matches are distributed among these distances:
7 23 0.35
8 38 0.58
9 5 0.08
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:1750464 original size:31 final size:31
Alignment explanation
Indices: 1750409--1750490 Score: 105
Period size: 31 Copynumber: 2.7 Consensus size: 31
1750399 CTTCTATTTC
* *
1750409 AAAAAAA-AAGAAAAGAAAAGAAG-AAAAGA
1 AAAAAAAGAAAAAAAGAAAAAAAGAAAAAGA
*
1750438 AAAGAAAAGAAAAAGAGAAAAAAAGAAAAAGA
1 AAA-AAAAGAAAAAAAGAAAAAAAGAAAAAGA
*
1750470 GAAAAAAGAAAAAAAGAAAAA
1 AAAAAAAGAAAAAAAGAAAAA
1750491 TAGAGAGGCC
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
29 3 0.07
30 4 0.09
31 30 0.67
32 8 0.18
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (31 bp):
AAAAAAAGAAAAAAAGAAAAAAAGAAAAAGA
Found at i:1750485 original size:23 final size:22
Alignment explanation
Indices: 1750411--1750490 Score: 101
Period size: 23 Copynumber: 3.6 Consensus size: 22
1750401 TCTATTTCAA
*
1750411 AAAAAAAG-AAAAGAAAAGAAG
1 AAAAAAAGAAAAAGAAAAAAAG
*
1750432 AAAAGAAA-AGAAAAGAAAAAGAG
1 AAAA-AAAGA-AAAAGAAAAAAAG
1750455 AAAAAAAGAAAAAGAGAAAAAAG
1 AAAAAAAGAAAAAGA-AAAAAAG
1750478 AAAAAAAGAAAAA
1 AAAAAAAGAAAAA
1750491 TAGAGAGGCC
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
21 4 0.08
22 12 0.24
23 35 0.69
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.00
Consensus pattern (22 bp):
AAAAAAAGAAAAAGAAAAAAAG
Found at i:1751477 original size:43 final size:43
Alignment explanation
Indices: 1751430--1751572 Score: 132
Period size: 43 Copynumber: 3.3 Consensus size: 43
1751420 CGCCTTAACC
1751430 CCCTAAGCAGTAGGGTAACAGG-CTAAAATTATAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTC-AAAATTATAGATCTTATCT
* ** * *
1751473 CCCTAAGCAGTAGTGG-AACAGATCAACAACGACTCG-CCTTAATC-
1 CCCTAAGCAGTAG-GGTAACAGGTCAA-AATTA-TAGATCTT-ATCT
* * *
1751517 CCCTAAGCAATAGGGTAACAGGTCAAAATTGTGGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTCAAAATTATAGATCTTATCT
*
1751560 CCCCAAGCAGTAG
1 CCCTAAGCAGTAG
1751573 TGGAGCAGAT
Statistics
Matches: 78, Mismatches: 14, Indels: 16
0.72 0.13 0.15
Matches are distributed among these distances:
42 5 0.06
43 38 0.49
44 30 0.38
45 5 0.06
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.23
Consensus pattern (43 bp):
CCCTAAGCAGTAGGGTAACAGGTCAAAATTATAGATCTTATCT
Found at i:1751568 original size:87 final size:84
Alignment explanation
Indices: 1751419--1751626 Score: 271
Period size: 87 Copynumber: 2.5 Consensus size: 84
1751409 ACAAAATTCA
*
1751419 GCGCCTTAACCCCCTAAGCAGTAGGGTAACAGG-CTAAAATTATAGATCTTATCTCCCTAAGCAG
1 GCGCCTTAA-CCCCTAAGCAGTAGGGTAACAGGTCTAAAATTATAGATCTTATCTCCCCAAGCAG
1751483 TAGTGGAACAGATCAACAACGACT
65 TAGTGGAACAGATC--CAA-GA-T
* * *
1751507 -CGCCTTAATCCCCTAAGCAATAGGGTAACAGGTC-AAAATTGTGGATCTTATCTCCCCAAGCAG
1 GCGCCTTAA-CCCCTAAGCAGTAGGGTAACAGGTCTAAAATTATAGATCTTATCTCCCCAAGCAG
* *
1751570 TAGTGGAGCAGATCGAAGAT
65 TAGTGGAACAGATCCAAGAT
*
1751590 GCGCCTTAACCCCTAAGTAGTAGGGTAACAGGT-TAAA
1 GCGCCTTAACCCCTAAGCAGTAGGGTAACAGGTCTAAA
1751627 GTATAGCAGA
Statistics
Matches: 108, Mismatches: 9, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
83 26 0.24
84 10 0.09
85 2 0.02
87 69 0.64
88 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.22
Consensus pattern (84 bp):
GCGCCTTAACCCCTAAGCAGTAGGGTAACAGGTCTAAAATTATAGATCTTATCTCCCCAAGCAGT
AGTGGAACAGATCCAAGAT
Found at i:1752109 original size:207 final size:207
Alignment explanation
Indices: 1751751--1752879 Score: 1997
Period size: 207 Copynumber: 5.5 Consensus size: 207
1751741 CGGAGAGCAG
* * * * * *
1751751 ATCGAAGACATAACTGATTTGGCTTTCACGTGCTTATGATGAAGCAAATCTAAGATGATTTGGGA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
*
1751816 TCTCTGTATTGTCAAAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
*
1751881 AGTAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
131 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
1751946 TACAAGGAACAA
196 TACAAGGAACAA
* * *
1751958 ATTGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTAAAGCAAGTCTAAGATGATTTGCCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
*
1752023 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCATCTCCATATTCGACGGAGGGCAGACACAT
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
*
1752088 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTATGCT
131 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
1752153 TACAAGGAACAA
196 TACAAGGAACAA
1752165 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
* * *
1752230 TCTCTGTATTGTTAGAGAACAAATCGAAGTTTGGCGTCTCCATGTTTGACGGAGGGCAGACACAT
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
1752295 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
131 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
1752360 TACAAGGAACAA
196 TACAAGGAACAA
1752372 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
* * * * *
1752437 TCTCTGTATTGTTAGAGAACAAATCAAAGTTTGGCGACTCCATGTTTGACGGAGGGCAGACACAT
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
*
1752502 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATAGTTTGGCATCCTTGTGCT
131 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
1752567 TACAAGGAACAA
196 TACAAGGAACAA
1752579 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
*
1752644 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGTGCAGACACAT
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
* * *
1752709 AGCAGATCTGGCCTTCAGATGTTTATACTAAAACAAGATCCAAGATGGTTTGGCATCCTTGTCCT
131 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
1752774 TACAAGGAACAA
196 TACAAGGAACAA
*
1752786 ATCGAAGGCATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
* *
1752851 TCTCTGTATTGTCAGGGAACAAATTGAAG
66 TCTCTGTATTGTCAGAGAACAAATCGAAG
1752880 AAGCAGATTT
Statistics
Matches: 885, Mismatches: 37, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
207 885 1.00
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.29
Consensus pattern (207 bp):
ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
TACAAGGAACAA
Found at i:1753289 original size:17 final size:18
Alignment explanation
Indices: 1753276--1753380 Score: 76
Period size: 19 Copynumber: 5.8 Consensus size: 18
1753266 TAATCTTCAA
1753276 TGATATGCAATCTTAGATG
1 TGATATGCAATCTTAGA-G
1753295 TGATATGCAATCTTAGA-
1 TGATATGCAATCTTAGAG
* * *
1753312 T-ATGATACAATTTTAGAAA
1 TGAT-ATGCAATCTTAG-AG
1753331 TGAT-TGCAATCTTAGA-
1 TGATATGCAATCTTAGAG
* *
1753347 T-ATGATACAATCTTAGATA
1 TGAT-ATGCAATCTTAGA-G
*
1753366 TGATATACAATCTTA
1 TGATATGCAATCTTA
1753381 AAAGATATGA
Statistics
Matches: 72, Mismatches: 5, Indels: 18
0.76 0.05 0.19
Matches are distributed among these distances:
15 2 0.03
16 3 0.04
17 23 0.32
18 10 0.14
19 30 0.42
20 4 0.06
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.37
Consensus pattern (18 bp):
TGATATGCAATCTTAGAG
Found at i:1753300 original size:19 final size:19
Alignment explanation
Indices: 1753275--1753380 Score: 141
Period size: 17 Copynumber: 5.8 Consensus size: 19
1753265 ATAATCTTCA
1753275 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
1753294 GTGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
* *
1753313 ATGATA--CAATTTTAGAA
1 ATGATATGCAATCTTAGAT
1753330 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
1753348 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
1753365 ATGATATACAATCTTA
1 ATGATATGCAATCTTA
1753381 AAAGATATGA
Statistics
Matches: 76, Mismatches: 6, Indels: 10
0.83 0.07 0.11
Matches are distributed among these distances:
17 31 0.41
18 14 0.18
19 31 0.41
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:1753344 original size:35 final size:36
Alignment explanation
Indices: 1753283--1753380 Score: 144
Period size: 35 Copynumber: 2.8 Consensus size: 36
1753273 CAATGATATG
**
1753283 CAATCTTAGATGTGATATGCAATCTTAGATATGATA
1 CAATCTTAGAAATGATATGCAATCTTAGATATGATA
*
1753319 CAATTTTAGAAATGAT-TGCAATCTTAGATATGATA
1 CAATCTTAGAAATGATATGCAATCTTAGATATGATA
* *
1753354 CAATCTTAGATATGATATACAATCTTA
1 CAATCTTAGAAATGATATGCAATCTTA
1753381 AAAGATATGA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
35 33 0.60
36 22 0.40
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (36 bp):
CAATCTTAGAAATGATATGCAATCTTAGATATGATA
Found at i:1755007 original size:31 final size:30
Alignment explanation
Indices: 1754946--1755012 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 30
1754936 CTAGTCTTAC
*
1754946 ATCAACATAAAAGCCTAATTTATAAGAAAAA
1 ATCAA-ATAAAAGCCTAAGTTATAAGAAAAA
1754977 ATCAAATAAAAGCCTAAGTTATAAGAAAAA
1 ATCAAATAAAAGCCTAAGTTATAAGAAAAA
1755007 ATCAAA
1 ATCAAA
1755013 CTTTCTGATT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
30 30 0.86
31 5 0.14
ACGTcount: A:0.60, C:0.12, G:0.07, T:0.21
Consensus pattern (30 bp):
ATCAAATAAAAGCCTAAGTTATAAGAAAAA
Found at i:1759861 original size:15 final size:15
Alignment explanation
Indices: 1759841--1759874 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
1759831 GAAGAGGAAG
1759841 AAGAATAAGCCATGA
1 AAGAATAAGCCATGA
1759856 AAGAATAAGCCATGA
1 AAGAATAAGCCATGA
1759871 AAGA
1 AAGA
1759875 GTAGTTAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.56, C:0.12, G:0.21, T:0.12
Consensus pattern (15 bp):
AAGAATAAGCCATGA
Found at i:1760753 original size:3 final size:3
Alignment explanation
Indices: 1760740--1760803 Score: 119
Period size: 3 Copynumber: 21.0 Consensus size: 3
1760730 ATTTCAAAGA
1760740 AAT ATAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1760786 AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT
1760804 GGCCTCAAAT
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 57 0.95
4 3 0.05
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:1764635 original size:18 final size:18
Alignment explanation
Indices: 1764595--1764635 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
1764585 TTAATCTTTG
1764595 ATTTA-TTATTTTATTTT
1 ATTTATTTATTTTATTTT
*
1764612 AGTTATTTATTTTAATTTT
1 ATTTATTTATTTT-ATTTT
1764631 -TTTAT
1 ATTTAT
1764636 CTGACTTGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 4 0.20
18 11 0.55
19 5 0.25
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (18 bp):
ATTTATTTATTTTATTTT
Found at i:1772280 original size:5 final size:5
Alignment explanation
Indices: 1772270--1772301 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
1772260 TTGTGTGTTC
1772270 TTTAT TTTAT TTTA- TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1772302 TCACAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:1772289 original size:14 final size:14
Alignment explanation
Indices: 1772270--1772300 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
1772260 TTGTGTGTTC
1772270 TTTATTTTATTTTA
1 TTTATTTTATTTTA
1772284 TTTATTTTATTTTA
1 TTTATTTTATTTTA
1772298 TTT
1 TTT
1772301 TTCACAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTATTTTATTTTA
Found at i:1776734 original size:9 final size:9
Alignment explanation
Indices: 1776720--1776745 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
1776710 ATTTGTGTTC
1776720 TTTATTTTA
1 TTTATTTTA
1776729 TTTATTTTA
1 TTTATTTTA
1776738 TTTATTTT
1 TTTATTTT
1776746 TCATATTAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:1780581 original size:11 final size:11
Alignment explanation
Indices: 1780567--1780597 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
1780557 ATTTTGTTTC
1780567 TGTTTTAATCA
1 TGTTTTAATCA
1780578 TGTTTTAATCA
1 TGTTTTAATCA
*
1780589 TGTATTAAT
1 TGTTTTAAT
1780598 TTTATTAGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.29, C:0.06, G:0.10, T:0.55
Consensus pattern (11 bp):
TGTTTTAATCA
Found at i:1782630 original size:38 final size:38
Alignment explanation
Indices: 1782587--1782696 Score: 148
Period size: 38 Copynumber: 2.9 Consensus size: 38
1782577 AGATTGGTAC
* * * *
1782587 TAAATGCCCCCTATGCAATGTTGTTTTCTTCTTGAATT
1 TAAATGGCCCCTATCCAATGTTGTTTTCTTCCTGAACT
* *
1782625 TAAATGGCCCCTGTCCAATGTTGTTTACTTCCTGAACT
1 TAAATGGCCCCTATCCAATGTTGTTTTCTTCCTGAACT
* *
1782663 TAAGTGGCCCCTTTCCAATGTTGTTTTCTTCCTG
1 TAAATGGCCCCTATCCAATGTTGTTTTCTTCCTG
1782697 TATCAAATGG
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 63 1.00
ACGTcount: A:0.18, C:0.25, G:0.15, T:0.42
Consensus pattern (38 bp):
TAAATGGCCCCTATCCAATGTTGTTTTCTTCCTGAACT
Found at i:1783950 original size:46 final size:47
Alignment explanation
Indices: 1783885--1784022 Score: 165
Period size: 46 Copynumber: 3.0 Consensus size: 47
1783875 TTATCTTTGA
* * * * *
1783885 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATAT
**
1783931 CATGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATAT
* * *
1783977 CACGTTGCCATGGTATCTTTTAACCATGGTCTTACACA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATAT
1784023 TTCAACCATG
Statistics
Matches: 79, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
45 4 0.05
46 75 0.95
ACGTcount: A:0.21, C:0.22, G:0.14, T:0.42
Consensus pattern (47 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATAT
Found at i:1784064 original size:30 final size:28
Alignment explanation
Indices: 1783998--1784051 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
1783988 GGTATCTTTT
1783998 AACCATGGTCTTACACATTTCATATTTC
1 AACCATGGTCTTACACATTTCATATTTC
1784026 AACCATGGTCTTACACATTTCATATT
1 AACCATGGTCTTACACATTTCATATT
1784052 AGGTTGCCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.30, C:0.24, G:0.07, T:0.39
Consensus pattern (28 bp):
AACCATGGTCTTACACATTTCATATTTC
Found at i:1784069 original size:74 final size:74
Alignment explanation
Indices: 1783948--1784096 Score: 244
Period size: 74 Copynumber: 2.0 Consensus size: 74
1783938 CCATGGTATC
*** *
1783948 TTTCAACCATGGTCTTGTTCATTTCATATCACGTTGCCATGGTATCTTTTAACCATGGTCTTACA
1 TTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACA
1784013 CATTTCATA
66 CATTTCATA
* *
1784022 TTTCAACCATGGTCTTACACATTTCATATTAGGTTGCCATGGTATCTTTCAACCATGGTCTTACA
1 TTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACA
1784087 CATTTCATA
66 CATTTCATA
1784096 T
1 T
1784097 CAGAGAGCAC
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
74 69 1.00
ACGTcount: A:0.24, C:0.23, G:0.12, T:0.41
Consensus pattern (74 bp):
TTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACA
CATTTCATA
Found at i:1793262 original size:2 final size:2
Alignment explanation
Indices: 1793255--1793282 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1793245 CTTATATTTG
1793255 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1793283 TGTTATCAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1793817 original size:17 final size:17
Alignment explanation
Indices: 1793795--1793836 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
1793785 CAATGATTTC
*
1793795 TTATTTATTTATTATTA
1 TTATTTATTAATTATTA
*
1793812 TTATTTAATAATTATTA
1 TTATTTATTAATTATTA
1793829 TTATTTAT
1 TTATTTAT
1793837 AGTATTTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTATTTATTAATTATTA
Found at i:1811962 original size:25 final size:25
Alignment explanation
Indices: 1811928--1811992 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 25
1811918 AGGCGCGATC
1811928 TATTTTTTTAATAATATAATT-TATT
1 TATTTTTTTAATAATATAATTAT-TT
*
1811953 TATTTTTTT-A-AATATTATTATTT
1 TATTTTTTTAATAATATAATTATTT
1811976 TATTATATTTTAATAAT
1 TATT-T-TTTTAATAAT
1811993 TTTTAAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
23 14 0.41
24 3 0.09
25 13 0.38
26 1 0.03
27 3 0.09
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (25 bp):
TATTTTTTTAATAATATAATTATTT
Found at i:1811966 original size:26 final size:27
Alignment explanation
Indices: 1811928--1811986 Score: 77
Period size: 25 Copynumber: 2.2 Consensus size: 27
1811918 AGGCGCGATC
1811928 TATTTTTTTAATAATA-TAATTTATT-
1 TATTTTTTTAATAATATTAATTTATTA
* *
1811953 TATTTTTTTAAATATTATTATTTTATTA
1 TATTTTTTT-AATAATATTAATTTATTA
1811981 TATTTT
1 TATTTT
1811987 AATAATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 9 0.31
26 6 0.21
27 8 0.28
28 6 0.21
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (27 bp):
TATTTTTTTAATAATATTAATTTATTA
Found at i:1812074 original size:27 final size:27
Alignment explanation
Indices: 1812051--1812107 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
1812041 CCGGAGGTGG
1812051 GACCAGTCGCTCCTGCTGCAGAGGCGC
1 GACCAGTCGCTCCTGCTGCAGAGGCGC
*
1812078 GACCAGTCGCTCCTGCTGCAAAGGCGC
1 GACCAGTCGCTCCTGCTGCAGAGGCGC
1812105 GAC
1 GAC
1812108 TCCCCTGTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.18, C:0.37, G:0.32, T:0.14
Consensus pattern (27 bp):
GACCAGTCGCTCCTGCTGCAGAGGCGC
Found at i:1812306 original size:3 final size:3
Alignment explanation
Indices: 1812239--1812286 Score: 71
Period size: 3 Copynumber: 16.0 Consensus size: 3
1812229 TGCAGCAGCA
*
1812239 AAG AGAG AA- AAG AAG AAG AAG AAG AAG AAA AAG AAG AAG AAG AAG
1 AAG A-AG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1812284 AAG
1 AAG
1812287 GAGGAGGAGG
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
2 2 0.05
3 36 0.88
4 3 0.07
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:1813401 original size:11 final size:11
Alignment explanation
Indices: 1813366--1813393 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
1813356 GAGAGTAAGA
1813366 AATTTTAATGT
1 AATTTTAATGT
1813377 AATTTTAATGT
1 AATTTTAATGT
1813388 AATTTT
1 AATTTT
1813394 GATATAATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (11 bp):
AATTTTAATGT
Done.