Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167893.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_16, whole genome shotgun sequence
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: 22157061
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 74000 characters in sequence are not A, C, G, or T
File 100 of 113
Found at i:20032344 original size:161 final size:161
Alignment explanation
Indices: 20031546--20033367 Score: 1731
Period size: 161 Copynumber: 11.3 Consensus size: 161
20031536 AAGTAAATTT
* * *
20031546 ATGATATTAAACTTAT-TCGAATGATTGAACTTGATTTTCATTGTTGATATGTG-GTAAAAAGTT
1 ATGATATTAAACTTGTCT-GAATGATTGAACTTGGTTTTCATAGTTGATATGTGTG-AAAAAGTT
* ** * * * * *
20031609 ACAATTTATGTCTGTTTAAGATTTTTTGTGCCATTAAAAGGTAAAAATGCAAATTT-ATAATTAT
64 ACCATTTACATCTGTTTAAGACTTTTTATGCCGTTAAAAGGTAAAAATGTAAATTTGCT-ATTAT
* * *
20031673 TATTCTATTTTAACAGTTTTGATAGTTTCAATAC
128 TGTTCTATTTTAACAGTTTGGATAGCTTCAATAC
* * * * * *
20031707 ATGATATTAAACTTGTCTAAATAATTGAACTTGGTTTCCAT-GATTAATATGTATGAAAATGTT-
1 ATGATATTAAACTTGTCTGAATGATTGAACTTGGTTTTCATAG-TTGATATGTGTGAAAAAGTTA
* * * *
20031770 --GTTT--ATGCTTGTTTAGGACTTTTTATGCCGTTAAAAGGTAAAAATGTAAATTT-CTTGTTG
65 CCATTTACAT-C-TGTTTAAGACTTTTTATGCCGTTAAAAGGTAAAAATGTAAATTTGC-TATTA
* * * ** *
20031830 TTGTTTTGTTTTAACAATTTGGATAAATTTAATAC
127 TTGTTCTATTTTAACAGTTTGGATAGCTTCAATAC
* * * * *
20031865 ATGATATTAAACTTGTCCGAATAATTGAACTTGG-TTTCATAGTTAATATGTGTAAAAAAGCTAC
1 ATGATATTAAACTTGTCTGAATGATTGAACTTGGTTTTCATAGTTGATATGTGTGAAAAAGTTAC
* * * **
20031929 CGTTTACATCTGTTTAGGACTTTTTATGCCATTAAAAGGT-AGTA-GTACGAATTTGCTATTATT
66 CATTTACATCTGTTTAAGACTTTTTATGCCGTTAAAAGGTAAAAATGTA--AATTTGCTATTATT
*
20031992 GTTCTATTTTAACAGTTTAGATAGCTTCAACATAC
129 GTTCTATTTTAACAGTTTGGATAGCTTC-A-ATAC
*
20032027 A--ATATTAAACTTGT-TCGAATGATTGAACTTGGTTTTCATAATTGATATGTGTGAAAAAGTTA
1 ATGATATTAAACTTGTCT-GAATGATTGAACTTGGTTTTCATAGTTGATATGTGTGAAAAAGTTA
*** * * * * * *
20032089 TTGTATACCTCTGTTT-AGA-TATTTTATGTCGTTAAAAGGTAAAAATGTAAAATTGCTGTTGTT
65 CCATTTACATCTGTTTAAGACT-TTTTATGCCGTTAAAAGGTAAAAATGTAAATTTGCTATTATT
20032152 GTTCTATTTTAACAGTTTGGATAGCTTCAATAC
129 GTTCTATTTTAACAGTTTGGATAGCTTCAATAC
* * * * *
20032185 ATGATATTAAACTTGTCTAAATGATTGAACTTAGTTTCCAAAGTTGATATGTGTGAAAAATTTAC
1 ATGATATTAAACTTGTCTGAATGATTGAACTTGGTTTTCATAGTTGATATGTGTGAAAAAGTTAC
* * * * * * * *
20032250 CGTTTACCTCTGTTTAAGATTTTTTATGTCGTTAAAAAGCAACAATGTAAATTTACTATTATTGT
66 CATTTACATCTGTTTAAGACTTTTTATGCCGTTAAAAGGTAAAAATGTAAATTTGCTATTATTGT
*
20032315 TCTATTTTAAC-GATTTGGATGGCTTCAATAC
131 TCTATTTTAACAG-TTTGGATAGCTTCAATAC
* * * * * *
20032346 ATAATATTAGACTTAT-TCGAATGATTGAACTTGGTTTTCACAGTTGAAATGTGTGAAAAAGCTA
1 ATGATATTAAACTTGTCT-GAATGATTGAACTTGGTTTTCATAGTTGATATGTGTGAAAAAGTTA
* * * * * *
20032410 TCATTTACATCTGTTTAGGACTTTTTGTGTCGTTAAAAGGTAAAAGTATAAATTTGCTATTATTG
65 CCATTTACATCTGTTTAAGACTTTTTATGCCGTTAAAAGGTAAAAATGTAAATTTGCTATTATTG
*
20032475 TTCTATTTTAATAGTTTGGATAGCTTCAATAC
130 TTCTATTTTAACAGTTTGGATAGCTTCAATAC
* * * * * *
20032507 ATGATATTAAACTTGT-TCGAATAATTGAATTTCGTTTTTATTGTTGATATGTGTGAAAAAGCTA
1 ATGATATTAAACTTGTCT-GAATGATTGAACTTGGTTTTCATAGTTGATATGTGTGAAAAAGTTA
* * * * *
20032571 CTATTTACATTTGTTTAAGACTTTTTATGCCATTAAAA-GTAAAAAATGCAAAATTGCTATTATT
65 CCATTTACATCTGTTTAAGACTTTTTATGCCGTTAAAAGGT-AAAAATGTAAATTTGCTATTATT
* * *
20032635 GTCCTGTTTTAACAGTTTGGATAGCTTTAATAC
129 GTTCTATTTTAACAGTTTGGATAGCTTCAATAC
* *
20032668 ATGATATTAAACTTGT-TCGAATGATTAAATTTGGTTTTCATCA-TTGATATGTGTGAAATAGAC
1 ATGATATTAAACTTGTCT-GAATGATTGAACTTGGTTTTCAT-AGTTGATATGTGTGAAA-A-A-
* * * * * ** *
20032731 GTT---GTTTATC-TCTGTTTAAGATTCTTTTGTGCCATTAAAAAGTAAAAATACAAATTTGCTG
61 GTTACCATTTA-CATCTGTTTAAGACT-TTTTATGCCGTTAAAAGGTAAAAATGTAAATTTGCTA
* * * * *
20032792 TTATTGTTCTATTTTAATAGTTTAGATGGTTTCAATAT
124 TTATTGTTCTATTTTAACAGTTTGGATAGCTTCAATAC
* * * * * *
20032830 ATGATATTAAACTTATCTGAATGATTGAACTTAGTTTCCATAGTTAAAATGTGTGAAAAAGTTAT
1 ATGATATTAAACTTGTCTGAATGATTGAACTTGGTTTTCATAGTTGATATGTGTGAAAAAGTTAC
* * * * * * * *
20032895 CTTTTACATTTGTTTAAGACTTTTTATGCTGTTAAAAGGCAAAATTGCAAAATTACTATTATTGT
66 CATTTACATCTGTTTAAGACTTTTTATGCCGTTAAAAGGTAAAAATGTAAATTTGCTATTATTGT
* * *
20032960 GCTATTTTAGCAGTTTGGATGGCTAGCTTTAATAC
131 TCTATTTTAACAGTTTGGA----TAGCTTCAATAC
* * * * * * *
20032995 ATGATATTAAACTTGTCTAAATGATTAAATTTGATTTTCATTGTTAATATGTGTGAAAAAGTTAT
1 ATGATATTAAACTTGTCTGAATGATTGAACTTGGTTTTCATAGTTGATATGTGTGAAAAAGTTAC
* * * * * * * *
20033060 CATTTACATCTGTTTAAGATTTTTTGTGTCGTTAAAAAGAAAAAATGCAAAATTGTTATTATTGT
66 CATTTACATCTGTTTAAGACTTTTTATGCCGTTAAAAGGTAAAAATGTAAATTTGCTATTATTGT
*
20033125 ACTATTTTAACAGTTTGGATAGCTTCAATAC
131 TCTATTTTAACAGTTTGGATAGCTTCAATAC
* ** * * * *
20033156 ATGATAATAAACTTGTCCAAATGATTGAACTTGATTTTCACAGTTAATATGTGTGAAAAAGCTAC
1 ATGATATTAAACTTGTCTGAATGATTGAACTTGGTTTTCATAGTTGATATGTGTGAAAAAGTTAC
* * * * * **
20033221 TATTTACGTCTATTTAAGACTTTTTGTGCCGTTAAAAGGTAAAAGTACAAATTTGCTATTATTGT
66 CATTTACATCTGTTTAAGACTTTTTATGCCGTTAAAAGGTAAAAATGTAAATTTGCTATTATTGT
* *
20033286 TCTATTTTAACAGTTTGGATAGCTTAAATAT
131 TCTATTTTAACAGTTTGGATAGCTTCAATAC
* ** * *
20033317 ATGATATTAAATTTGTCCAAATGATTGAACTTAG-TTTCTATGGTTGATATG
1 ATGATATTAAACTTGTCTGAATGATTGAACTTGGTTTTC-ATAGTTGATATG
20033368 CATGAATAAG
Statistics
Matches: 1381, Mismatches: 231, Indels: 98
0.81 0.14 0.06
Matches are distributed among these distances:
156 1 0.00
157 22 0.02
158 112 0.08
159 8 0.01
160 225 0.16
161 734 0.53
162 138 0.10
163 4 0.00
164 2 0.00
165 135 0.10
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (161 bp):
ATGATATTAAACTTGTCTGAATGATTGAACTTGGTTTTCATAGTTGATATGTGTGAAAAAGTTAC
CATTTACATCTGTTTAAGACTTTTTATGCCGTTAAAAGGTAAAAATGTAAATTTGCTATTATTGT
TCTATTTTAACAGTTTGGATAGCTTCAATAC
Found at i:20033144 original size:810 final size:799
Alignment explanation
Indices: 20031549--20033379 Score: 2211
Period size: 810 Copynumber: 2.3 Consensus size: 799
20031539 TAAATTTATG
** * *
20031549 ATATTAAACTTATTCGAATGATTGAACTTGATTTTCATTGTTGATATGTG-GTAAAAAGTTACAA
1 ATATTAAACTTATTCGAATGATTGAACTTGATTTTCACAGTTGAAATGTGTG-AAAAAGCTACAA
* * * * * * *
20031613 TTTATGTCTGTTTAAGATTTTTTGTGCCATTAAAAGGTAAAAATGCAAATTT-ATAATTATTATT
65 TTTACGTCTGTTTAAGACTTTTTGTGCCGTTAAAAGGTAAAAGTACAAATTTGCT-ATTATTGTT
* * *
20031677 CTATTTTAACAGTTTTGATAGTTTCAATACATGATATTAAACTTG-TCTAAATAATTGAACTTGG
129 CTATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTGTTC-AAATAATTGAACTTAG
* * * * ** * *
20031741 TTTCCA-TGATTAATATGTATGAAAATGTTGTTTATGCTTGTTTAGGACTTTTTATGCCGTTAAA
193 TTTCTATTG-TTGATATGTATGAAAAAGTTATTTACACTTGTTTAAGACTTTTTATGCCATTAAA
* * * * **
20031805 AGGTAAAAATGTAAATTTCTTGTTGTTGTTTTGTTTTAACAATTTGGATAAATTTAATACATGAT
257 AGGTAAAAATGAAAATTGCTTATTATTGTCCTGTTTTAACAATTTGGATAAATTTAATACATGAT
*
20031870 ATTAAACTTGTCCGAATAATTGAACTTGGTTTCATAGTTAATATGTGTAAAAAAGCTACCGTTTA
322 ATTAAACTTGTCCGAATAATTAAACTTGGTTTCATAGTTAATATGTGTAAAAAAGCTA-CGTTTA
* * ** * *
20031935 CATCTGTTTAGGACTTTTTATGCCATTAAAAGGTAGTAGTACGAATTTGCTATTATTGTTCTATT
386 CATCTGTTTAAGACTTTTTATGCCATTAAAAAGTAAAAATACAAATTTGCTATTATTGTTCTATT
* * *
20032000 TTAACAGTTTAGATAGCTTCAACATACAATATTAAACTTGTTCGAATGATTGAACTTGGTTTTCA
451 TTAACAGTTTAGATAGCTTCAACATACAATATTAAACTTATTCGAATGATTGAACTTAGTTTCCA
* * * *
20032065 TAATTGATATGTGTGAAAAAGTTATTGTATACCTCTGTTTAGATATTTTATGTCGTTAAAAGGTA
516 TAATTAAAATGTGTGAAAAAGTTATTGTATACATCTGTTTAGATATTTTATGTCGTTAAAAGGCA
* * * * *
20032130 AAAATGTAAAATTGCTGTTGTTGTTCTATTTTAACAGTTTGGATAGCTTCAATACATGATATTAA
581 AAAATGCAAAATTACTATTATTGTGCTATTTTAACAGTTTGGATAGCTTCAATACATGATATTAA
* * * * *
20032195 ACTTGTCTAAATGATTGAACTTAGTTTCCAAAGTTGATATGTGTGAAAAATTTACCGTTTACCTC
646 ACTTGTCTAAATGATTAAACTTAGTTTCCAAAGTTAATATGTGTGAAAAAGTTACCATTTACATC
* * * * *
20032260 TGTTTAAGATTTTTTATGTCGTTAAAAAGCAACAATGTAAATTTACTATTATTGTTCTATTTTAA
711 TGTTTAAGATTTTTTATGTCGTTAAAAAGAAAAAATGCAAAATTACTATTATTGTACTATTTTAA
*
20032325 CGATTTGGATGGCTTCAATACATA
776 CGATTTGGATAGCTTCAATACATA
* *
20032349 ATATTAGACTTATTCGAATGATTGAACTTGGTTTTCACAGTTGAAATGTGTGAAAAAGCTATC-A
1 ATATTAAACTTATTCGAATGATTGAACTTGATTTTCACAGTTGAAATGTGTGAAAAAGCTA-CAA
* * * *
20032413 TTTACATCTGTTTAGGACTTTTTGTGTCGTTAAAAGGTAAAAGTATAAATTTGCTATTATTGTTC
65 TTTACGTCTGTTTAAGACTTTTTGTGCCGTTAAAAGGTAAAAGTACAAATTTGCTATTATTGTTC
* * * *
20032478 TATTTTAATAGTTTGGATAGCTTCAATACATGATATTAAACTTGTTCGAATAATTGAATTTCGTT
130 TATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTGTTCAAATAATTGAACTTAGTT
* * *
20032543 TTTATTGTTGATATGTGTGAAAAAGCTACTATTTACATTTGTTTAAGACTTTTTATGCCATTAAA
195 TCTATTGTTGATATGTATGAAAAAG-T--TATTTACACTTGTTTAAGACTTTTTATGCCATTAAA
* **
20032608 A-GTAAAAAATGCAAAATTGC-TATTATTGTCCTGTTTTAACAGTTTGGATAGCTTTAATACATG
257 AGGT-AAAAATG-AAAATTGCTTATTATTGTCCTGTTTTAACAATTTGGATAAATTTAATACATG
* * * * * * *
20032671 ATATTAAACTTGTTCGAATGATTAAATTTGGTTTTCATCA-TTGATATGTGTGAAATAGACGT-T
320 ATATTAAACTTGTCCGAATAATTAAACTTGG-TTTCAT-AGTTAATATGTGTAAAAAAG-C-TAC
* * *
20032734 GTTTATC-TCTGTTTAAGATTCTTTTGTGCCATTAAAAAGTAAAAATACAAATTTGCTGTTATTG
381 GTTTA-CATCTGTTTAAGACT-TTTTATGCCATTAAAAAGTAAAAATACAAATTTGCTATTATTG
* * * * **
20032798 TTCTATTTTAATAGTTTAGATGGTTTCAATATATGATATTAAACTTA-TCTGAATGATTGAACTT
444 TTCTATTTTAACAGTTTAGATAGCTTCAACATACAATATTAAACTTATTC-GAATGATTGAACTT
* * *
20032862 AGTTTCCATAGTTAAAATGTGTGAAAAAGTTATCT-TTTACATTTGTTTAAGACT-TTTTATG-C
508 AGTTTCCATAATTAAAATGTGTGAAAAAGTTAT-TGTATACATCTGTTT-AGA-TATTTTATGTC
* *
20032924 TGTTAAAAGGCAAAATTGCAAAATTACTATTATTGTGCTATTTTAGCAGTTTGGATGGCTAGCTT
570 -GTTAAAAGGCAAAAATGCAAAATTACTATTATTGTGCTATTTTAACAGTTTGGA----TAGCTT
* * * **
20032989 TAATACATGATATTAAACTTGTCTAAATGATTAAA-TTTGATTTTCATTGTTAATATGTGTGAAA
630 CAATACATGATATTAAACTTGTCTAAATGATTAAACTTAG-TTTCCAAAGTTAATATGTGTGAAA
* * **
20033053 AAGTTATCATTTACATCTGTTTAAGATTTTTTGTGTCGTTAAAAAGAAAAAATGCAAAATTGTTA
694 AAGTTACCATTTACATCTGTTTAAGATTTTTTATGTCGTTAAAAAGAAAAAATGCAAAATTACTA
*
20033118 TTATTGTACTATTTTAAC-AGTTTGGATAGCTTCAATACATG
759 TTATTGTACTATTTTAACGA-TTTGGATAGCTTCAATACATA
* * * * *
20033159 ATAATAAACTTGTCCAAATGATTGAACTTGATTTTCACAGTT-AATATGTGTGAAAAAGCTACTA
1 ATATTAAACTTATTCGAATGATTGAACTTGATTTTCACAGTTGAA-ATGTGTGAAAAAGCTACAA
*
20033223 TTTACGTCTATTTAAGACTTTTTGTGCCGTTAAAAGGTAAAAGTACAAATTTGCTATTATTGTTC
65 TTTACGTCTGTTTAAGACTTTTTGTGCCGTTAAAAGGTAAAAGTACAAATTTGCTATTATTGTTC
* * * * *
20033288 TATTTTAACAGTTTGGATAGCTTAAATATATGATATTAAATTTGTCCAAATGATTGAACTTAGTT
130 TATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTGTTCAAATAATTGAACTTAGTT
* * *
20033353 TCTATGGTTGATATGCATGAATAAGTT
195 TCTATTGTTGATATGTATGAAAAAGTT
20033380 GTGGTTGCCA
Statistics
Matches: 873, Mismatches: 129, Indels: 51
0.83 0.12 0.05
Matches are distributed among these distances:
800 179 0.21
801 8 0.01
802 2 0.00
803 101 0.12
804 45 0.05
805 132 0.15
806 58 0.07
807 2 0.00
809 8 0.01
810 338 0.39
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (799 bp):
ATATTAAACTTATTCGAATGATTGAACTTGATTTTCACAGTTGAAATGTGTGAAAAAGCTACAAT
TTACGTCTGTTTAAGACTTTTTGTGCCGTTAAAAGGTAAAAGTACAAATTTGCTATTATTGTTCT
ATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTGTTCAAATAATTGAACTTAGTTT
CTATTGTTGATATGTATGAAAAAGTTATTTACACTTGTTTAAGACTTTTTATGCCATTAAAAGGT
AAAAATGAAAATTGCTTATTATTGTCCTGTTTTAACAATTTGGATAAATTTAATACATGATATTA
AACTTGTCCGAATAATTAAACTTGGTTTCATAGTTAATATGTGTAAAAAAGCTACGTTTACATCT
GTTTAAGACTTTTTATGCCATTAAAAAGTAAAAATACAAATTTGCTATTATTGTTCTATTTTAAC
AGTTTAGATAGCTTCAACATACAATATTAAACTTATTCGAATGATTGAACTTAGTTTCCATAATT
AAAATGTGTGAAAAAGTTATTGTATACATCTGTTTAGATATTTTATGTCGTTAAAAGGCAAAAAT
GCAAAATTACTATTATTGTGCTATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTG
TCTAAATGATTAAACTTAGTTTCCAAAGTTAATATGTGTGAAAAAGTTACCATTTACATCTGTTT
AAGATTTTTTATGTCGTTAAAAAGAAAAAATGCAAAATTACTATTATTGTACTATTTTAACGATT
TGGATAGCTTCAATACATA
Found at i:20033367 original size:649 final size:641
Alignment explanation
Indices: 20031545--20033353 Score: 2133
Period size: 649 Copynumber: 2.8 Consensus size: 641
20031535 AAAGTAAATT
* *
20031545 TATGATATTAAACTTAT-TCGAATGATTGAACTT-GATTTTCATTGTTGATATGTG-GTAAAAAG
1 TATGATATTAAACTTATCT-GAATGATTGAACTTAG-TTTCCATAGTTGATATGTGTG-AAAAAG
** * ** *
20031607 TTACAATTTATGTCTGTTTAAGATTTTTTGTGCCATTAAAAGGTAAAAATGCAAATTTA-TAATT
63 TTAC-ATTTACATCTGTTTAAGATTTTTTATGCTGTTAAAAGG-CAAAATGCAAATTTACT-ATT
* * *
20031671 ATTATTCTATTTTAACAGTTTTGA--TAG-TTTCAATACATGATATTAAACTTGTCTAAATAATT
125 ATTGTTCTATTTTAACAGTTTGGATGTAGCTTT-AATACATGATATTAAACTTGTCTAAATGATT
* * * * *
20031733 GAACTTGGTTTCCATGATTAATATGTATGAAAATGTTGT--TTATGC-T-TGTTTAGGACTTTTT
189 GAACTTGGTTTTCATG-TTAATATGTGTGAAAAAGTTATCATT-TACATCTGTTTAGGACTTTTT
* * * * * * * * **
20031794 ATGCCGTTAAAAGGTAAAAATGTAAATTTCTTGTTGTTGTTTTGTTTTAACAATTTGGATAAATT
252 GTGTCGTTAAAAGGTAAAAATGTAAATTTGTTATTATTGTTCTATTTTAACAGTTTGGATAGCTT
* * *
20031859 TAATACATGATATTAAACTTGTCCGAATAATTGAACTTGGTTTCATAGTTAATATGTGTAAAAAA
317 CAATACATGATATTAAACTTGTCCGAATAATTGAACTTGTTTTCATAGTTAATATGTGTGAAAAA
** * ** *
20031924 GCTACCGTTTACATCTGTTTAGGACTTTTTATGCCATTAAAAGGTAGTAGTACGAATTTGCTATT
382 GCTACTATTTACATCTGTTTAAGACTTTTTATGCCATTAAAAGGTAAAAGTACAAATTTGCTATT
* * * **
20031989 ATTGTTCTATTTTAACAGTTTAGATAGCTTCAACATACAATATTAAACTTGTTCGAATGATTGAA
447 ATTGTTCTATTTTAACAGTTTGGATAGCTTAAATATATGATATTAAACTTGTTCGAATGATTGAA
** *
20032054 CTTGGTTTTCATAATTGATATGTGTGAAAAAGTTATTGTATACCTCTGTTTAGATATTTTATGTC
512 CTTGGTTTTCATAATTGATATGTGTGAAAAAGACATTGTATACCTCTGTTTAGATATTTTATGCC
* * ** * *
20032119 GTTAAAAGGTAAAAATGTAAAATTGCTGTTGTTGTTCTATTTTAACAGTTTGGATAGCTTCAATA
577 ATTAAAAAGTAAAAATACAAAATTGCTGTTATTGTTCTATTTTAACAGTTTAGATAGCTTCAATA
* * * * *
20032184 CATGATATTAAACTTGTCTAAATGATTGAACTTAGTTTCCAAAGTTGATATGTGTGAAAAATTTA
1 TATGATATTAAACTTATCTGAATGATTGAACTTAGTTTCCATAGTTGATATGTGTGAAAAAGTTA
* * * *
20032249 CCGTTTACCTCTGTTTAAGATTTTTTATG-TCGTTAAAAAGCAACAATGTAAATTTACTATTATT
66 -CATTTACATCTGTTTAAGATTTTTTATGCT-GTTAAAAGGCAA-AATGCAAATTTACTATTATT
* * * * *
20032313 GTTCTATTTTAAC-GATTTGGATG--GCTTCAATACATAATATTAGACTTAT-TCGAATGATTGA
128 GTTCTATTTTAACAG-TTTGGATGTAGCTTTAATACATGATATTAAACTTGTCT-AAATGATTGA
* *
20032374 ACTTGGTTTTCACAGTTGAA-ATGTGTGAAAAAGCTATCATTTACATCTGTTTAGGACTTTTTGT
191 ACTTGGTTTTCA-TGTT-AATATGTGTGAAAAAGTTATCATTTACATCTGTTTAGGACTTTTTGT
* * * *
20032438 GTCGTTAAAAGGTAAAAGTATAAATTTGCTATTATTGTTCTATTTTAATAGTTTGGATAGCTTCA
254 GTCGTTAAAAGGTAAAAATGTAAATTTGTTATTATTGTTCTATTTTAACAGTTTGGATAGCTTCA
* * * * *
20032503 ATACATGATATTAAACTTGTTCGAATAATTGAATTTCGTTTTTATTGTTGATATGTGTGAAAAAG
319 ATACATGATATTAAACTTGTCCGAATAATTGAACTT-GTTTTCATAGTTAATATGTGTGAAAAAG
* * * *
20032568 CTACTATTTACATTTGTTTAAGACTTTTTATGCCATTAAAA-GTAAAAAATGCAAAATTGCTATT
383 CTACTATTTACATCTGTTTAAGACTTTTTATGCCATTAAAAGGT-AAAAGTACAAATTTGCTATT
* * * * *
20032632 ATTGTCCTGTTTTAACAGTTTGGATAGCTTTAATACATGATATTAAACTTGTTCGAATGATTAAA
447 ATTGTTCTATTTTAACAGTTTGGATAGCTTAAATATATGATATTAAACTTGTTCGAATGATTGAA
* * * * * * * *
20032697 TTTGGTTTTCATCATTGATATGTGTGAAATAGACGTTGTTTATCTCTGTTTAAGATTCTTTTGTG
512 CTTGGTTTTCATAATTGATATGTGTGAAAAAGACATTGTATACCTCTGTTT-AGA-TATTTTATG
* * * *
20032762 CCATTAAAAAGTAAAAATACAAATTTGCTGTTATTGTTCTATTTTAATAGTTTAGATGGTTTCAA
575 CCATTAAAAAGTAAAAATACAAAATTGCTGTTATTGTTCTATTTTAACAGTTTAGATAGCTTCAA
20032827 TA
640 TA
* *
20032829 TATGATATTAAACTTATCTGAATGATTGAACTTAGTTTCCATAGTTAAAATGTGTGAAAAAGTTA
1 TATGATATTAAACTTATCTGAATGATTGAACTTAGTTTCCATAGTTGATATGTGTGAAAAAGTTA
* * * *
20032894 TCTTTTACATTTGTTTAAGACTTTTTATGCTGTTAAAAGGCAAAATTGCAAAATTACTATTATTG
66 -CATTTACATCTGTTTAAGATTTTTTATGCTGTTAAAAGGCAAAA-TGCAAATTTACTATTATTG
* * *
20032959 TGCTATTTTAGCAGTTTGGATGGCTAGCTTTAATACATGATATTAAACTTGTCTAAATGATTAAA
129 TTCTATTTTAACAGTTTGGAT-G-TAGCTTTAATACATGATATTAAACTTGTCTAAATGATTGAA
* * * *
20033024 TTTGATTTTCATTGTTAATATGTGTGAAAAAGTTATCATTTACATCTGTTTAAGATTTTTTGTGT
192 CTTGGTTTTCA-TGTTAATATGTGTGAAAAAGTTATCATTTACATCTGTTTAGGACTTTTTGTGT
* * * * *
20033089 CGTTAAAAAGAAAAAATGCAAAATTGTTATTATTGTACTATTTTAACAGTTTGGATAGCTTCAAT
256 CGTTAAAAGGTAAAAATGTAAATTTGTTATTATTGTTCTATTTTAACAGTTTGGATAGCTTCAAT
* * * *
20033154 ACATGATAATAAACTTGTCCAAATGATTGAACTTGATTTTCACAGTTAATATGTGTGAAAAAGCT
321 ACATGATATTAAACTTGTCCGAATAATTGAACTTG-TTTTCATAGTTAATATGTGTGAAAAAGCT
* * * *
20033219 ACTATTTACGTCTATTTAAGACTTTTTGTGCCGTTAAAAGGTAAAAGTACAAATTTGCTATTATT
385 ACTATTTACATCTGTTTAAGACTTTTTATGCCATTAAAAGGTAAAAGTACAAATTTGCTATTATT
* * *
20033284 GTTCTATTTTAACAGTTTGGATAGCTTAAATATATGATATTAAATTTGTCCAAATGATTGAACTT
450 GTTCTATTTTAACAGTTTGGATAGCTTAAATATATGATATTAAACTTGTTCGAATGATTGAACTT
*
20033349 AGTTT
515 GGTTT
20033354 CTATGGTTGA
Statistics
Matches: 978, Mismatches: 159, Indels: 56
0.82 0.13 0.05
Matches are distributed among these distances:
638 4 0.00
639 169 0.17
640 12 0.01
641 3 0.00
642 103 0.11
643 173 0.18
644 5 0.01
645 190 0.19
646 3 0.00
648 3 0.00
649 310 0.32
650 3 0.00
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (641 bp):
TATGATATTAAACTTATCTGAATGATTGAACTTAGTTTCCATAGTTGATATGTGTGAAAAAGTTA
CATTTACATCTGTTTAAGATTTTTTATGCTGTTAAAAGGCAAAATGCAAATTTACTATTATTGTT
CTATTTTAACAGTTTGGATGTAGCTTTAATACATGATATTAAACTTGTCTAAATGATTGAACTTG
GTTTTCATGTTAATATGTGTGAAAAAGTTATCATTTACATCTGTTTAGGACTTTTTGTGTCGTTA
AAAGGTAAAAATGTAAATTTGTTATTATTGTTCTATTTTAACAGTTTGGATAGCTTCAATACATG
ATATTAAACTTGTCCGAATAATTGAACTTGTTTTCATAGTTAATATGTGTGAAAAAGCTACTATT
TACATCTGTTTAAGACTTTTTATGCCATTAAAAGGTAAAAGTACAAATTTGCTATTATTGTTCTA
TTTTAACAGTTTGGATAGCTTAAATATATGATATTAAACTTGTTCGAATGATTGAACTTGGTTTT
CATAATTGATATGTGTGAAAAAGACATTGTATACCTCTGTTTAGATATTTTATGCCATTAAAAAG
TAAAAATACAAAATTGCTGTTATTGTTCTATTTTAACAGTTTAGATAGCTTCAATA
Found at i:20034515 original size:34 final size:34
Alignment explanation
Indices: 20034474--20034547 Score: 94
Period size: 34 Copynumber: 2.2 Consensus size: 34
20034464 TCGTTAAATG
* * *
20034474 CCAAATTTAGTGGCACTTTCTACTATAAATGTCA
1 CCAAATTTAATAGCACTTTCTACTATAAACGTCA
* **
20034508 CTAAATTTAATAGCGGTTTCTACTATAAACGTCA
1 CCAAATTTAATAGCACTTTCTACTATAAACGTCA
20034542 CCAAAT
1 CCAAAT
20034548 GCAAATTTGG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.35, C:0.20, G:0.11, T:0.34
Consensus pattern (34 bp):
CCAAATTTAATAGCACTTTCTACTATAAACGTCA
Found at i:20037358 original size:19 final size:18
Alignment explanation
Indices: 20037335--20037384 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
20037325 ATATTCATTG
*
20037335 AAATTATAATTATTATTA
1 AAATTATAATTAATATTA
*
20037353 ACAATTATATTTAAATATTA
1 A-AATTATAATT-AATATTA
20037373 AAATT-TAATTAA
1 AAATTATAATTAA
20037385 AATATATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
17 2 0.07
18 5 0.19
19 13 0.48
20 7 0.26
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (18 bp):
AAATTATAATTAATATTA
Found at i:20038963 original size:20 final size:20
Alignment explanation
Indices: 20038914--20038965 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
20038904 ACATATTAGA
20038914 GATTTATAAA-ATTTAAATAC
1 GATTTA-AAATATTTAAATAC
* *
20038934 CATATT-AAATATTTAAATAT
1 GAT-TTAAAATATTTAAATAC
20038954 GATTTAAAATAT
1 GATTTAAAATAT
20038966 ATTTATAGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
19 5 0.19
20 19 0.73
21 2 0.08
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (20 bp):
GATTTAAAATATTTAAATAC
Found at i:20039726 original size:9 final size:10
Alignment explanation
Indices: 20039692--20039726 Score: 56
Period size: 9 Copynumber: 3.7 Consensus size: 10
20039682 GAGGGACGTC
20039692 ATCTATACT-
1 ATCTATACTA
20039701 ATCTATACTA
1 ATCTATACTA
20039711 ATCTATACTA
1 ATCTATACTA
20039721 AT-TATA
1 ATCTATA
20039727 TTAAAATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 13 0.52
10 12 0.48
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.43
Consensus pattern (10 bp):
ATCTATACTA
Found at i:20043034 original size:44 final size:44
Alignment explanation
Indices: 20042979--20043063 Score: 118
Period size: 44 Copynumber: 1.9 Consensus size: 44
20042969 TGAATATAAA
*
20042979 TTTTGGATGTGAAT-TCTTAAATTTTTCAAATGAAAATCTTTAAC
1 TTTTGGATGTGAATCTCTAAAATTTTT-AAATGAAAATCTTTAAC
* * *
20043023 TTTTGGGTGTGAATCTCTAAAATTTTTGAATGAGAATCTTT
1 TTTTGGATGTGAATCTCTAAAATTTTTAAATGAAAATCTTT
20043064 GAATTCTAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
44 25 0.69
45 11 0.31
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (44 bp):
TTTTGGATGTGAATCTCTAAAATTTTTAAATGAAAATCTTTAAC
Found at i:20043151 original size:42 final size:43
Alignment explanation
Indices: 20043040--20043151 Score: 122
Period size: 42 Copynumber: 2.7 Consensus size: 43
20043030 TGTGAATCTC
* **
20043040 TAAAATTTTTGAATGAGAATCTTTGAATTCTAAAGATGAGCCT
1 TAAAATTTTTGAATGTGAATCTTTGAATTCTAAAGATGAAACT
* ** * *
20043083 TGAAATTTTTG-ATGTGAATCCATGAATT-T-TATATGAAACT
1 TAAAATTTTTGAATGTGAATCTTTGAATTCTAAAGATGAAACT
20043123 TAAAATCTTTTGAATGTGAATCTTTGAAT
1 TAAAAT-TTTTGAATGTGAATCTTTGAAT
20043152 ATTGTCTGTG
Statistics
Matches: 56, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
40 12 0.21
41 6 0.11
42 28 0.50
43 10 0.18
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.41
Consensus pattern (43 bp):
TAAAATTTTTGAATGTGAATCTTTGAATTCTAAAGATGAAACT
Found at i:20043690 original size:84 final size:83
Alignment explanation
Indices: 20043583--20043996 Score: 381
Period size: 84 Copynumber: 4.9 Consensus size: 83
20043573 TCCAAAGACG
** * * *
20043583 ATCTCTAAGTCCTTCGGGTAAGATTCATAAGT-TTTCTAAGTTGAATCTATTTTAGAGTTAAGAT
1 ATCTCTAAGT-CTTTAGGCAAGATTCGTAAGTCTTT-TAAGTTGAATCTATTTTAGAGTCAAGAT
**
20043647 TTGTAAGACCTTCGAGTGTA
64 TTGTAAGACCTTCGAGCATA
* * *
20043667 ATCTCTAAGTCATTTAGGCAAGATTTGTAAGTCTTTTAAGTTGAATCTATTTTAGAGTCGAGGTT
1 ATCTCTAAGTC-TTTAGGCAAGATTCGTAAGTCTTTTAAGTTGAATCTATTTTAGAGTCAAGATT
*
20043732 TGTAAGACCTTTTG-GCATA
65 TGTAAGACC-TTCGAGCATA
* ** * * *
20043751 ATCTCTAAGTCTTTCAGACAAGATTTTTAAGTC-TTTAGAGCTAAATCTATTTTAGAGTCAATAT
1 ATCTCTAAGTCTTT-AGGCAAGATTCGTAAGTCTTTTA-AGTTGAATCTATTTTAGAGTCAAGAT
* * *
20043815 TTGTAAAACCTCCTAGCATA
64 TTGTAAGACCTTCGAGCATA
* * ** * *
20043835 ATCTTTAAGTCTTTCAGGCAAAATTCGTATA-TCTTACAGGTTGAATATATTTTAGAGTCAAGAT
1 ATCTCTAAGTCTTT-AGGCAAGATTCGTA-AGTCTTTTAAGTTGAATCTATTTTAGAGTCAAGAT
*
20043899 TTGTAAGACC-TCCAG-ATGTA
64 TTGTAAGACCTTCGAGCA--TA
* * * * * *
20043919 ATCTCTAAGTTTTTTGGACAAGATTCGTAAGTCTTTTGAGCTAAATCTATTTTAGAATCAAGATT
1 ATCTCTAAGTCTTTAGG-CAAGATTCGTAAGTCTTTTAAGTTGAATCTATTTTAGAGTCAAGATT
*
20043984 TGTAAGACATTCG
65 TGTAAGACCTTCG
20043997 GGCGTAGTCT
Statistics
Matches: 266, Mismatches: 51, Indels: 25
0.78 0.15 0.07
Matches are distributed among these distances:
82 1 0.00
83 15 0.06
84 239 0.90
85 11 0.04
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (83 bp):
ATCTCTAAGTCTTTAGGCAAGATTCGTAAGTCTTTTAAGTTGAATCTATTTTAGAGTCAAGATTT
GTAAGACCTTCGAGCATA
Found at i:20044010 original size:168 final size:168
Alignment explanation
Indices: 20043626--20044010 Score: 450
Period size: 168 Copynumber: 2.3 Consensus size: 168
20043616 TTCTAAGTTG
* * * *
20043626 AATCTATTTTAGAGTTAAGATTTGTAAGACCTTCGAGTGTAATCTCTAAGTCATTTAGGCAAGAT
1 AATCTATTTTAGAGTCAAGATTTGTAAGACCTTCGAGCGTAATCTTTAAGTCATTTAGGCAAAAT
* ** * * * *** *
20043691 TTGTAAGTCTTTTAAGTTGAATCTATTTTAGAGTCGAGGTTTGTAAGACCTTTTGGCATAATCTC
66 TCGTAAGTCTTACAAGTTGAATATATTTTAGAGTCAAGATTTGTAAGACCTCCAGACATAATCTC
**
20043756 TAAGTCTTTCAGACAAGATTTTTAAGTCTTTAGAGCTA
131 TAAGTCTTTCAGACAAGATTCGTAAGTCTTTAGAGCTA
* * * * *
20043794 AATCTATTTTAGAGTCAATATTTGTAAAACCTCCTAGCATAATCTTTAAGTC-TTTCAGGCAAAA
1 AATCTATTTTAGAGTCAAGATTTGTAAGACCTTCGAGCGTAATCTTTAAGTCATTT-AGGCAAAA
* **
20043858 TTCGTATA-TCTTACAGGTTGAATATATTTTAGAGTCAAGATTTGTAAGACCTCCAGATGTAATC
65 TTCGTA-AGTCTTACAAGTTGAATATATTTTAGAGTCAAGATTTGTAAGACCTCCAGACATAATC
* ** *
20043922 TCTAAGTTTTTTGGACAAGATTCGTAAGTCTTTTGAGCTA
129 TCTAAGTCTTTCAGACAAGATTCGTAAGTCTTTAGAGCTA
* * * *
20043962 AATCTATTTTAGAATCAAGATTTGTAAGACATTCGGGCGTAGTCTTTAA
1 AATCTATTTTAGAGTCAAGATTTGTAAGACCTTCGAGCGTAATCTTTAA
20044011 TACCTTCAGG
Statistics
Matches: 178, Mismatches: 37, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
167 3 0.02
168 174 0.98
169 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.39
Consensus pattern (168 bp):
AATCTATTTTAGAGTCAAGATTTGTAAGACCTTCGAGCGTAATCTTTAAGTCATTTAGGCAAAAT
TCGTAAGTCTTACAAGTTGAATATATTTTAGAGTCAAGATTTGTAAGACCTCCAGACATAATCTC
TAAGTCTTTCAGACAAGATTCGTAAGTCTTTAGAGCTA
Found at i:20044514 original size:18 final size:17
Alignment explanation
Indices: 20044471--20044528 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 17
20044461 TTTCTTACAT
*
20044471 TTTTTATATTTTGTTTGTC
1 TTTTT-TATTTT-TTTATC
*
20044490 TTATTTATTTTTTTATC
1 TTTTTTATTTTTTTATC
* *
20044507 ATTTTTTATGTTTTAATC
1 -TTTTTTATTTTTTTATC
20044525 TTTT
1 TTTT
20044529 ATTTATCTGG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
17 9 0.27
18 20 0.61
19 4 0.12
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.74
Consensus pattern (17 bp):
TTTTTTATTTTTTTATC
Found at i:20045477 original size:102 final size:101
Alignment explanation
Indices: 20045202--20045516 Score: 389
Period size: 101 Copynumber: 3.1 Consensus size: 101
20045192 TGAAAATTCA
* * *
20045202 TAATGAATTTTTGAAAAAAAATAATAATAAAATTTTCAATCCTACCAAACTACTAAAAGATTTAA
1 TAATGAATTTTTGAAAAAAAATAATAATAAAATTTTCAATCCTACCAAACTATTAGAGGATTTAA
* * * * * *
20045267 ATCTTAAATTAAGTTTTAGCAAACTATTGAAGGACT
66 ATCTTGAATTAAATCTTATCAAAATATTGAAAGACT
* * *
20045303 TAATGAATTTTT-AAAAAACAATAATAATAAAGTTTTTAATCTTACCAAACTATTAGAGGATTTA
1 TAATGAATTTTTGAAAAAA-AATAATAATAAAATTTTCAATCCTACCAAACTATTAGAGGATTTA
*
20045367 AATCTTGAATTAAATCTTATCAAAATGTTGAAAGACT
65 AATCTTGAATTAAATCTTATCAAAATATTGAAAGACT
* * * *
20045404 TAATGAATTTTTTGTAAAAAAATAATAATAAAATTTTCAATCGTACCAAACTTTTGGAGGATTTA
1 TAATGAA-TTTTTGAAAAAAAATAATAATAAAATTTTCAATCCTACCAAACTATTAGAGGATTTA
* * ** * **
20045469 AATATTGAATTAGATCTTATCAACTTATTGGAAGGTT
65 AATCTTGAATTAAATCTTATCAAAATATTGAAAGACT
20045506 TAATGAATTTT
1 TAATGAATTTT
20045517 CTTAAAATAA
Statistics
Matches: 184, Mismatches: 27, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
100 6 0.03
101 92 0.50
102 81 0.44
103 5 0.03
ACGTcount: A:0.44, C:0.09, G:0.10, T:0.37
Consensus pattern (101 bp):
TAATGAATTTTTGAAAAAAAATAATAATAAAATTTTCAATCCTACCAAACTATTAGAGGATTTAA
ATCTTGAATTAAATCTTATCAAAATATTGAAAGACT
Found at i:20046738 original size:21 final size:21
Alignment explanation
Indices: 20046689--20046740 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
20046679 CCTGTTTATT
*
20046689 TTCATTCATTTAATGCATCTCA
1 TTCATTCA-TAAATGCATCTCA
*
20046711 CTCATTCATAAAT-CATCATCA
1 TTCATTCATAAATGCATC-TCA
20046732 TTCATTCAT
1 TTCATTCAT
20046741 TATGTCATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 4 0.15
21 15 0.58
22 7 0.27
ACGTcount: A:0.31, C:0.25, G:0.02, T:0.42
Consensus pattern (21 bp):
TTCATTCATAAATGCATCTCA
Found at i:20050374 original size:8 final size:8
Alignment explanation
Indices: 20050361--20050411 Score: 54
Period size: 8 Copynumber: 6.6 Consensus size: 8
20050351 AAATATGAAG
20050361 AAAAAAGA
1 AAAAAAGA
20050369 AAAAAAG-
1 AAAAAAGA
20050376 --AAAAGA
1 AAAAAAGA
20050382 AAAAAAGA
1 AAAAAAGA
*
20050390 ACAAAAGA
1 AAAAAAGA
*
20050398 AATGAAAGA
1 AA-AAAAGA
20050407 AAAAA
1 AAAAA
20050412 GATGAAAATG
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
5 5 0.14
8 23 0.66
9 7 0.20
ACGTcount: A:0.82, C:0.02, G:0.14, T:0.02
Consensus pattern (8 bp):
AAAAAAGA
Found at i:20050381 original size:13 final size:13
Alignment explanation
Indices: 20050363--20050411 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
20050353 ATATGAAGAA
20050363 AAAAGAAAAAAAG
1 AAAAGAAAAAAAG
20050376 AAAAGAAAAAAAG
1 AAAAGAAAAAAAG
* *
20050389 AACAA-AAGAAATG
1 AA-AAGAAAAAAAG
20050402 -AAAGAAAAAA
1 AAAAGAAAAAA
20050412 GATGAAAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
11 2 0.06
12 6 0.19
13 21 0.68
14 2 0.06
ACGTcount: A:0.82, C:0.02, G:0.14, T:0.02
Consensus pattern (13 bp):
AAAAGAAAAAAAG
Found at i:20050387 original size:21 final size:21
Alignment explanation
Indices: 20050361--20050409 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
20050351 AAATATGAAG
20050361 AAAAAAGAAAAAAAGAAAAGA
1 AAAAAAGAAAAAAAGAAAAGA
* *
20050382 AAAAAAGAACAAAAGAAATGA
1 AAAAAAGAAAAAAAGAAAAGA
20050403 AAGAAAA
1 AA-AAAA
20050410 AAGATGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.82, C:0.02, G:0.14, T:0.02
Consensus pattern (21 bp):
AAAAAAGAAAAAAAGAAAAGA
Found at i:20051219 original size:115 final size:119
Alignment explanation
Indices: 20051078--20051289 Score: 315
Period size: 119 Copynumber: 1.8 Consensus size: 119
20051068 CATTTCATCT
* * * *
20051078 TTTTGGAAAAACGAAGATTCAACTAATTCATTTT-CG-A-TAGTAATCACCAACTTT-TAAGAGA
1 TTTTGGAAAAACCAAGATTCAACTAATTCATTTTGCGTAGTAGTAATCACCAACTTTCAAAAAAA
* * *
20051139 TTTAAATGTGATATGTTGATACATTTTGGTCAAAGTGATATGTAGGGTTAATCA
66 TCTAAATGTCATATGTTGATACATTTTAGTCAAAGTGATATGTAGGGTTAATCA
* *
20051193 TTTTGGAAAAACCAAGATTCAGCTAATTCATTTTGGGTAGTAGTAATCACCAACTTTCAAAAAAA
1 TTTTGGAAAAACCAAGATTCAACTAATTCATTTTGCGTAGTAGTAATCACCAACTTTCAAAAAAA
20051258 TCTAAATGTCATATGTTGATACATTTTAGTCA
66 TCTAAATGTCATATGTTGATACATTTTAGTCA
20051290 TGGAAAAGTG
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
115 32 0.38
116 1 0.01
117 1 0.01
118 17 0.20
119 33 0.39
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (119 bp):
TTTTGGAAAAACCAAGATTCAACTAATTCATTTTGCGTAGTAGTAATCACCAACTTTCAAAAAAA
TCTAAATGTCATATGTTGATACATTTTAGTCAAAGTGATATGTAGGGTTAATCA
Found at i:20051380 original size:2 final size:2
Alignment explanation
Indices: 20051373--20051405 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
20051363 TTTGAAGTGT
20051373 TA 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 TA T
20051406 GAATTTTGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:20052203 original size:45 final size:46
Alignment explanation
Indices: 20052144--20052256 Score: 122
Period size: 45 Copynumber: 2.5 Consensus size: 46
20052134 TAAATGTGAG
* *
20052144 TCTTTGAAACTTTGGATGTGAA-TCTCTAAAAATTTT-GAAGGTAAA
1 TCTTTGAAATTTTGGATGTGAATTC-CTAAAAATTTTCAAAGGTAAA
*** * * *
20052189 TCTTTGAAATTTTGGATAAAAATTCCTAAAATTTTTCAAATGTGAA
1 TCTTTGAAATTTTGGATGTGAATTCCTAAAAATTTTCAAAGGTAAA
*
20052235 TCTTTAAAATTTTGGATGTGAA
1 TCTTTGAAATTTTGGATGTGAA
20052257 ATGTTAAAGT
Statistics
Matches: 54, Mismatches: 12, Indels: 3
0.78 0.17 0.04
Matches are distributed among these distances:
45 28 0.52
46 26 0.48
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.41
Consensus pattern (46 bp):
TCTTTGAAATTTTGGATGTGAATTCCTAAAAATTTTCAAAGGTAAA
Found at i:20052256 original size:22 final size:22
Alignment explanation
Indices: 20052101--20052298 Score: 103
Period size: 22 Copynumber: 8.8 Consensus size: 22
20052091 GAAAAATAAC
* *
20052101 CTTTGAAACTTTGAATGTGAAT
1 CTTTAAAATTTTGAATGTGAAT
** * *
20052123 CTTTAATTTTTTAAATGTGAGT
1 CTTTAAAATTTTGAATGTGAAT
* * *
20052145 CTTTGAAACTTTGGATGTGAAT
1 CTTTAAAATTTTGAATGTGAAT
* * *
20052167 CTCTAAAAATTTTGAAGGTAAAT
1 CT-TTAAAATTTTGAATGTGAAT
* * ***
20052190 CTTTGAAATTTTGGATAAAAAT
1 CTTTAAAATTTTGAATGTGAAT
* *
20052212 -TCCTAAAATTTTTCAAATGTGAAT
1 CT-TTAAAA-TTTT-GAATGTGAAT
*
20052236 CTTTAAAATTTTGGATGTGAAAT
1 CTTTAAAATTTTGAATGTG-AAT
* * *
20052259 -GTTAAAGTTTTTAATGTGAATT
1 CTTTAAAATTTTGAATGTGAA-T
* *
20052281 TTTTAAAATTTTCAATGT
1 CTTTAAAATTTTGAATGT
20052299 TAATTTCAAA
Statistics
Matches: 126, Mismatches: 42, Indels: 15
0.69 0.23 0.08
Matches are distributed among these distances:
21 3 0.02
22 71 0.56
23 41 0.33
24 10 0.08
25 1 0.01
ACGTcount: A:0.34, C:0.07, G:0.15, T:0.44
Consensus pattern (22 bp):
CTTTAAAATTTTGAATGTGAAT
Found at i:20052286 original size:23 final size:23
Alignment explanation
Indices: 20052215--20052304 Score: 76
Period size: 23 Copynumber: 3.9 Consensus size: 23
20052205 TAAAAATTCC
*
20052215 TAAAATTTTTCAAATGTGAA-TCTT
1 TAAAA-TTTTC-AATGTGAATTTTT
** * *
20052239 TAAAATTTTGGATGTGAA-ATGT
1 TAAAATTTTCAATGTGAATTTTT
* *
20052261 TAAAGTTTTTAATGTGAATTTTT
1 TAAAATTTTCAATGTGAATTTTT
*
20052284 TAAAATTTTCAATGTTAATTT
1 TAAAATTTTCAATGTGAATTT
20052305 CAAAGTTTTT
Statistics
Matches: 52, Mismatches: 13, Indels: 3
0.76 0.19 0.04
Matches are distributed among these distances:
22 23 0.44
23 24 0.46
24 5 0.10
ACGTcount: A:0.36, C:0.03, G:0.12, T:0.49
Consensus pattern (23 bp):
TAAAATTTTCAATGTGAATTTTT
Found at i:20052310 original size:44 final size:44
Alignment explanation
Indices: 20052227--20052315 Score: 110
Period size: 44 Copynumber: 2.0 Consensus size: 44
20052217 AAATTTTTCA
**
20052227 AATGTGAATCTTTAAAATTTTGGATGTGAAATGTTAAAGTTTTT
1 AATGTGAATCTTTAAAATTTTCAATGTGAAATGTTAAAGTTTTT
* *
20052271 AATGTGAATTTTTTAAAATTTTCAATGT-TAAT-TTCAAAGTTTTT
1 AATGTGAA-TCTTTAAAATTTTCAATGTGAAATGTT-AAAGTTTTT
20052315 A
1 A
20052316 GAATAAAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
43 2 0.05
44 21 0.54
45 16 0.41
ACGTcount: A:0.35, C:0.03, G:0.13, T:0.48
Consensus pattern (44 bp):
AATGTGAATCTTTAAAATTTTCAATGTGAAATGTTAAAGTTTTT
Found at i:20052644 original size:34 final size:34
Alignment explanation
Indices: 20052589--20052727 Score: 145
Period size: 34 Copynumber: 4.1 Consensus size: 34
20052579 ATGAAAATTT
* * *
20052589 TTGCAAAACAGAAACTCTTACAAATATGAAGTTC
1 TTGCAAATCTGAAACTCTTACAAATCTGAAGTTC
** * * * *
20052623 TTGCAAATCTGAAGTTTTTACAAACCTTAAATTC
1 TTGCAAATCTGAAACTCTTACAAATCTGAAGTTC
*
20052657 TTGCAAA-CTTGAAACTCTTGCAAATCTGAAGTTC
1 TTGCAAATC-TGAAACTCTTACAAATCTGAAGTTC
* * *
20052691 TTGCGAATTTGAAACTCTTACAAATCTAAAGTTC
1 TTGCAAATCTGAAACTCTTACAAATCTGAAGTTC
20052725 TTG
1 TTG
20052728 ACTTAAATTC
Statistics
Matches: 83, Mismatches: 20, Indels: 4
0.78 0.19 0.04
Matches are distributed among these distances:
33 1 0.01
34 82 0.99
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (34 bp):
TTGCAAATCTGAAACTCTTACAAATCTGAAGTTC
Found at i:20052663 original size:17 final size:17
Alignment explanation
Indices: 20052583--20052837 Score: 105
Period size: 17 Copynumber: 15.2 Consensus size: 17
20052573 ACAATGATGA
* * *
20052583 AAATTTTTGCAAAACAG
1 AAATTCTTGCAAATCTG
* * *
20052600 AAACTCTTACAAATATG
1 AAATTCTTGCAAATCTG
*
20052617 AAGTTCTTGCAAATCTG
1 AAATTCTTGCAAATCTG
* * * * *
20052634 AAGTTTTTACAAACCTT
1 AAATTCTTGCAAATCTG
20052651 AAATTCTTGCAAA-CTTG
1 AAATTCTTGCAAATC-TG
*
20052668 AAACTCTTGCAAATCTG
1 AAATTCTTGCAAATCTG
* * *
20052685 AAGTTCTTGCGAATTTG
1 AAATTCTTGCAAATCTG
* *
20052702 AAACTCTTACAAATCT-
1 AAATTCTTGCAAATCTG
*
20052718 AAAGTTCTTG---A-CTT
1 AAA-TTCTTGCAAATCTG
*
20052732 AAATTCTTGCAAATCTT
1 AAATTCTTGCAAATCTG
** * **
20052749 CCACTCTTGTGAATCTG
1 AAATTCTTGCAAATCTG
*
20052766 AAAGTCTTGCAAATCTTTG
1 AAATTCTTGCAAATC--TG
* *
20052785 -AACTCTTATGC-ACT-TG
1 AAATTC-T-TGCAAATCTG
* **
20052801 AAGTTCTTGTGAATCTG
1 AAATTCTTGCAAATCTG
*
20052818 AAAATCTTGCAAATCTG
1 AAATTCTTGCAAATCTG
20052835 AAA
1 AAA
20052838 GTTTTACGAA
Statistics
Matches: 172, Mismatches: 51, Indels: 30
0.68 0.20 0.12
Matches are distributed among these distances:
13 8 0.05
14 4 0.02
15 2 0.01
16 10 0.06
17 135 0.78
18 5 0.03
19 5 0.03
20 3 0.02
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.35
Consensus pattern (17 bp):
AAATTCTTGCAAATCTG
Found at i:20052727 original size:51 final size:52
Alignment explanation
Indices: 20052599--20052727 Score: 131
Period size: 51 Copynumber: 2.5 Consensus size: 52
20052589 TTGCAAAACA
* * *
20052599 GAAACTCTTACAAATATGAAGTTCTTGCAAATCTGAAGTTTTTACAAACCTT
1 GAAACTCTTACAAATCTAAAGTTCTTGCAAATCTGAAGTTCTTACAAACCTT
* * * * * *
20052651 -AAATTCTTGCAAA-CTTGAAA-CTCTTGCAAATCTGAAGTTCTTGCGAA-TTT
1 GAAACTCTTACAAATC-T-AAAGTTCTTGCAAATCTGAAGTTCTTACAAACCTT
20052701 GAAACTCTTACAAATCTAAAGTTCTTG
1 GAAACTCTTACAAATCTAAAGTTCTTG
20052728 ACTTAAATTC
Statistics
Matches: 60, Mismatches: 12, Indels: 11
0.72 0.14 0.13
Matches are distributed among these distances:
50 5 0.08
51 52 0.87
52 3 0.05
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (52 bp):
GAAACTCTTACAAATCTAAAGTTCTTGCAAATCTGAAGTTCTTACAAACCTT
Found at i:20053269 original size:84 final size:82
Alignment explanation
Indices: 20053155--20053380 Score: 240
Period size: 84 Copynumber: 2.7 Consensus size: 82
20053145 TTTGTAATCT
* * *
20053155 TTCAAGCTAAATCTGTTTTAAAGTTAAGA-TTGATAAGACCTCCGAACATAATCTCTAAGTCCTT
1 TTCAAGCTAAATCTATTTTTAAGTTGAGATTTG-TAAGACCTCC-AACATAATCTCTAAGTCCTT
*
20053219 CAGGCAAGATTCATAAGTC
64 CAGGCAAAATTCATAAGTC
*** **
20053238 TTACAAGCTAAATCTATTTTTAAGTTGAGATTTGTAAGACCTCCAGGTGTAATCTCTAAGTTTTT
1 TT-CAAGCTAAATCTATTTTTAAGTTGAGATTTGTAAGACCTCCA-ACATAATCTCTAAGTCCTT
*
20053303 CGGGCAAAATTCATAAGTC
64 CAGGCAAAATTCATAAGTC
* * * * *
20053322 TTCTGAGCTGAATCTA-TTTTAGAGTCGAGATTTGTAAAACCTCTAAGCATAATCTCTAA
1 TTC-AAGCTAAATCTATTTTTA-AGTTGAGATTTGTAAGACCTCCAA-CATAATCTCTAA
20053381 TACTTTCAAA
Statistics
Matches: 119, Mismatches: 18, Indels: 11
0.80 0.12 0.07
Matches are distributed among these distances:
83 9 0.08
84 107 0.90
85 3 0.03
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (82 bp):
TTCAAGCTAAATCTATTTTTAAGTTGAGATTTGTAAGACCTCCAACATAATCTCTAAGTCCTTCA
GGCAAAATTCATAAGTC
Found at i:20054541 original size:100 final size:96
Alignment explanation
Indices: 20054381--20054700 Score: 399
Period size: 98 Copynumber: 3.2 Consensus size: 96
20054371 GAGAATTTCA
* * *
20054381 TAATGAAGTTTTTGAAAAAAAATAATAAAATTTTCAATTTTATCAAACTTTTAGAGGATTTAAAT
1 TAATGAA-TTTTTTAAAAAAAATAATAAAATTTTCAATTCTATCAAACTTTTGGAGGATTTAAAT
* *
20054446 ATTGAATTAGGTTTTATCAAACTATTAGAGAGTT
65 ATTGAATTAGATCTTATCAAACTATT-GA-AGTT
* *
20054480 TAATGAATTTTTTAAAATAATAATAATAAAATGTTT-AATTCTATCAAACTATTGGAAGATTTAA
1 TAATGAATTTTTTAAAA-AA-AATAATAAAAT-TTTCAATTCTATCAAACTTTTGGAGGATTTAA
* * * *
20054544 ATCTTGAATTAAATCTTATCAAAATATTGAAGGACT
63 ATATTGAATTAGATCTTATCAAACTATTGAA-G-TT
* * *
20054580 TAATGAATTTTTAAAAAAAAATAATAAAATTTTCAATCCTATTAAACTTTTGGAGGATTTAAATA
1 TAATGAATTTTTTAAAAAAAATAATAAAATTTTCAATTCTATCAAACTTTTGGAGGATTTAAATA
20054645 TTGAATTAGATCTTATCAAACTATTTGAAAGTT
66 TTGAATTAGATCTTATCAAACTA-TTG-AAGTT
*
20054678 TAATGAATTTTCTTAAAATAAAT
1 TAATGAATTTT-TTAAAAAAAAT
20054701 TTCATACAGA
Statistics
Matches: 190, Mismatches: 22, Indels: 18
0.83 0.10 0.08
Matches are distributed among these distances:
97 3 0.02
98 80 0.42
99 27 0.14
100 77 0.41
101 3 0.02
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.40
Consensus pattern (96 bp):
TAATGAATTTTTTAAAAAAAATAATAAAATTTTCAATTCTATCAAACTTTTGGAGGATTTAAATA
TTGAATTAGATCTTATCAAACTATTGAAGTT
Found at i:20054649 original size:98 final size:99
Alignment explanation
Indices: 20054381--20054695 Score: 388
Period size: 100 Copynumber: 3.2 Consensus size: 99
20054371 GAGAATTTCA
* * *
20054381 TAATGAAGTTTTTGAAAAAAAATAATAAAATTTTCAATTTTATCAAACTTTTAGAGGATTTAAAT
1 TAATGAAGTTTTTAAAAAAAAATAATAAAATTTTCAATTCTATCAAACTTTTGGAGGATTTAAAT
* *
20054446 ATTGAATTAGGTTTTATCAAACTATT--AGAGAGTT
66 ATTGAATTAGATCTTATCAAACTATTGAAG-GA-TT
* * * *
20054480 TAATGAATTTTTTAAAATAATAATAATAAAATGTTT-AATTCTATCAAACTATTGGAAGATTTAA
1 TAATGAAGTTTTTAAAA-AAAAATAATAAAAT-TTTCAATTCTATCAAACTTTTGGAGGATTTAA
* * * *
20054544 ATCTTGAATTAAATCTTATCAAAATATTGAAGGACT
64 ATATTGAATTAGATCTTATCAAACTATTGAAGGATT
* *
20054580 TAATGAA-TTTTTAAAAAAAAATAATAAAATTTTCAATCCTATTAAACTTTTGGAGGATTTAAAT
1 TAATGAAGTTTTTAAAAAAAAATAATAAAATTTTCAATTCTATCAAACTTTTGGAGGATTTAAAT
*
20054644 ATTGAATTAGATCTTATCAAACTATTTGAAAG-TT
66 ATTGAATTAGATCTTATCAAACTA-TTGAAGGATT
*
20054678 TAATGAATTTTCTTAAAA
1 TAATGAAGTTT-TTAAAA
20054696 TAAATTTCAT
Statistics
Matches: 185, Mismatches: 23, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
97 3 0.02
98 68 0.37
99 33 0.18
100 74 0.40
101 5 0.03
102 2 0.01
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.40
Consensus pattern (99 bp):
TAATGAAGTTTTTAAAAAAAAATAATAAAATTTTCAATTCTATCAAACTTTTGGAGGATTTAAAT
ATTGAATTAGATCTTATCAAACTATTGAAGGATT
Found at i:20057198 original size:101 final size:101
Alignment explanation
Indices: 20057014--20057201 Score: 238
Period size: 101 Copynumber: 1.9 Consensus size: 101
20057004 CCGAATTCTC
* * *
20057014 ACAAGTTTAAGAATAAAGATTAAGAACACAATTAGGAAAAATAAAACATGAAGACAAATGGGAAA
1 ACAAGTTTAAGAATAAAGATTAAGAACACAATAAAGAAAAATAAAACATAAAGACAAATGGGAAA
* *
20057079 GATAAGATATGAACAATCAAAATCTCTAGAAGTCTT
66 GAAAAGATATGAAAAATCAAAATCTCTAGAAGTCTT
* * *
20057115 ACAAGTTTAAGAATGAAGATTAAGAACATAACTAAAGAAAAGA-AAACCA-AAAGACAAATGGTG
1 ACAAGTTTAAGAATAAAGATTAAGAACACAA-TAAAGAAAA-ATAAAACATAAAGACAAATGG-G
* *
20057178 -TAGAAAAGATTTGAAAAATCAAAA
63 AAAGAAAAGATATGAAAAATCAAAA
20057202 CCTCCAAAGT
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
101 60 0.81
102 13 0.18
103 1 0.01
ACGTcount: A:0.56, C:0.09, G:0.16, T:0.19
Consensus pattern (101 bp):
ACAAGTTTAAGAATAAAGATTAAGAACACAATAAAGAAAAATAAAACATAAAGACAAATGGGAAA
GAAAAGATATGAAAAATCAAAATCTCTAGAAGTCTT
Found at i:20057696 original size:27 final size:28
Alignment explanation
Indices: 20057564--20057746 Score: 109
Period size: 28 Copynumber: 6.6 Consensus size: 28
20057554 GATCTAAAAA
* ** *
20057564 AATCCGTAAATTGATATCAAA-TTCTAAA
1 AATCCCTAAATTGGGATCAAATTTC-AAG
** * * *
20057592 AATCCCTAAATTAAGACCAAATTTTAAA
1 AATCCCTAAATTGGGATCAAATTTCAAG
* * * *
20057620 AATCTCTAAATTGGGATTAAGTTCCAAG
1 AATCCCTAAATTGGGATCAAATTTCAAG
20057648 AATCCCTAAATTGGGATCAAATTTCAAG
1 AATCCCTAAATTGGGATCAAATTTCAAG
** * * *
20057676 AA-CTTTAAATTGGGATGAAATATCAAA
1 AATCCCTAAATTGGGATCAAATTTCAAG
** * *** *
20057703 AATCATTCAATTAAAACCAAATTTCAAG
1 AATCCCTAAATTGGGATCAAATTTCAAG
*
20057731 AATCCTTAAATTGGGA
1 AATCCCTAAATTGGGA
20057747 CTAAGTTCCA
Statistics
Matches: 116, Mismatches: 37, Indels: 4
0.74 0.24 0.03
Matches are distributed among these distances:
27 22 0.19
28 92 0.79
29 2 0.02
ACGTcount: A:0.44, C:0.15, G:0.11, T:0.30
Consensus pattern (28 bp):
AATCCCTAAATTGGGATCAAATTTCAAG
Found at i:20060499 original size:14 final size:14
Alignment explanation
Indices: 20060480--20060510 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
20060470 TTGAGAAATG
20060480 TTTTTTATTTTCAT
1 TTTTTTATTTTCAT
*
20060494 TTTTTTATTTTGAT
1 TTTTTTATTTTCAT
20060508 TTT
1 TTT
20060511 CTAGAAAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.03, G:0.03, T:0.81
Consensus pattern (14 bp):
TTTTTTATTTTCAT
Found at i:20061790 original size:112 final size:111
Alignment explanation
Indices: 20061550--20061814 Score: 274
Period size: 112 Copynumber: 2.4 Consensus size: 111
20061540 AGTTTAAGAT
* *
20061550 GAAAAATCTAAAAAACAAAGTTTCTAAAGTTCCAACAAACAAATTCAAAGACAATTGAGGAAAAG
1 GAAAAATCTAAAAAACAAAGTTTTTAAAGTTCCAACAAAC-AATTCAAAGACAAATGAGGAAAAG
* * * * *
20061615 AAGATTTGAAGATTCAAAGTTTCCAAAACTGCCATAAGTTTAAAAAG
65 AAGATCTGAAGATTCAAAATCTCCAAAACTGCCACAAGTTCAAAAAG
* * * *
20061662 GTATAAA--TGAAGAACAAAGTTTTTAGAGTTCCAACAAACAATT-AGGAAGACAAATGAAGGAA
1 G-AAAAATCTAAAAAACAAAGTTTTTAAAGTTCCAACAAACAATTCA--AAGACAAATG-AGGAA
*
20061724 GAGATA-ATCTGAAGAATT-AAAATCTCCAAAACT-CACACAAGTTCAAAAA-
62 AAGA-AGATCTGAAG-ATTCAAAATCTCCAAAACTGC-CACAAGTTCAAAAAG
* * *
20061773 GAAAAATCTAAAAAACAAAGTCTTTAAAATTTCAACAAACAA
1 GAAAAATCTAAAAAACAAAGTTTTTAAAGTTCCAACAAACAA
20061815 ATCTAAAATG
Statistics
Matches: 125, Mismatches: 19, Indels: 18
0.77 0.12 0.11
Matches are distributed among these distances:
109 1 0.01
110 8 0.06
111 39 0.31
112 69 0.55
113 8 0.06
ACGTcount: A:0.52, C:0.14, G:0.13, T:0.22
Consensus pattern (111 bp):
GAAAAATCTAAAAAACAAAGTTTTTAAAGTTCCAACAAACAATTCAAAGACAAATGAGGAAAAGA
AGATCTGAAGATTCAAAATCTCCAAAACTGCCACAAGTTCAAAAAG
Found at i:20061894 original size:28 final size:28
Alignment explanation
Indices: 20061855--20061991 Score: 149
Period size: 28 Copynumber: 4.9 Consensus size: 28
20061845 TTGAATATCC
20061855 AAAAATTCCTAAATTGAGA-CTAAA-TTT
1 AAAAATTCCTAAATTGAGATC-AAATTTT
*
20061882 AAAAATTCTCTAAATTAAGATCAAATTTT
1 AAAAATTC-CTAAATTGAGATCAAATTTT
*
20061911 AAAAATTCCTAAATTGACATCAAATTTT
1 AAAAATTCCTAAATTGAGATCAAATTTT
*
20061939 AAGAA-TCCTTAAATTTG-GATCAAATTTT
1 AAAAATTCC-TAAA-TTGAGATCAAATTTT
* * *
20061967 AAAAACT-CTAGATTGAGACCAAATT
1 AAAAATTCCTAAATTGAGATCAAATT
20061992 CAAGAATCTT
Statistics
Matches: 95, Mismatches: 8, Indels: 14
0.81 0.07 0.12
Matches are distributed among these distances:
26 3 0.03
27 22 0.23
28 54 0.57
29 16 0.17
ACGTcount: A:0.46, C:0.12, G:0.07, T:0.34
Consensus pattern (28 bp):
AAAAATTCCTAAATTGAGATCAAATTTT
Found at i:20065162 original size:2 final size:2
Alignment explanation
Indices: 20065155--20065184 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
20065145 AAATTTCATC
20065155 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
20065185 AGGTAATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:20068055 original size:12 final size:12
Alignment explanation
Indices: 20068038--20068064 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
20068028 AGTTTGCTAG
20068038 AAACTAGTACAT
1 AAACTAGTACAT
20068050 AAACTAGTACAT
1 AAACTAGTACAT
20068062 AAA
1 AAA
20068065 ATAACAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.56, C:0.15, G:0.07, T:0.22
Consensus pattern (12 bp):
AAACTAGTACAT
Found at i:20073363 original size:21 final size:21
Alignment explanation
Indices: 20073333--20073373 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
20073323 AATAATAATT
*
20073333 TATAAGATAATAATCATTTTA
1 TATAAAATAATAATCATTTTA
*
20073354 TATAAAATAATAATTATTTT
1 TATAAAATAATAATCATTTT
20073374 TCTTCAAAAT
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:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (21 bp):
TATAAAATAATAATCATTTTA
Found at i:20073913 original size:20 final size:19
Alignment explanation
Indices: 20073871--20073916 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
20073861 TTATTAGATA
*
20073871 AATTCAATGTGTAATCTACT
1 AATTC-ATGTGTAATCAACT
*
20073891 AATTCATGTGTAAGTCAATT
1 AATTCATGTGTAA-TCAACT
20073911 AATTCA
1 AATTCA
20073917 CAAATGAGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (19 bp):
AATTCATGTGTAATCAACT
Found at i:20075051 original size:35 final size:32
Alignment explanation
Indices: 20074995--20075064 Score: 79
Period size: 35 Copynumber: 2.1 Consensus size: 32
20074985 AATTAGTTAG
20074995 TATAAAAAAGTATAGAATTTTTAAAT-TATAGT
1 TATAAAAAAGTATAGAATTTTTAAATATA-AGT
* *
20075027 TATAAAAAGTGTATTAGAATTTTTTTAATATAAGT
1 TATAAAAA-AGTA-TAGAA-TTTTTAAATATAAGT
20075062 TAT
1 TAT
20075065 TATCCCATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
32 8 0.25
33 3 0.09
34 5 0.16
35 14 0.44
36 2 0.06
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (32 bp):
TATAAAAAAGTATAGAATTTTTAAATATAAGT
Found at i:20077212 original size:14 final size:13
Alignment explanation
Indices: 20077175--20077204 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
20077165 GTGGTAAAGA
20077175 ATTTAATTTTTTT
1 ATTTAATTTTTTT
*
20077188 AATTAATTTTTTT
1 ATTTAATTTTTTT
20077201 ATTT
1 ATTT
20077205 TAAATTTTGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (13 bp):
ATTTAATTTTTTT
Found at i:20077212 original size:27 final size:28
Alignment explanation
Indices: 20077176--20077228 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
20077166 TGGTAAAGAA
* * *
20077176 TTTAATTTTTTTAATTAATTT-TTTTAT
1 TTTAAATTTTGTAATAAATTTATTTTAT
20077203 TTTAAATTTTGTAATAAATTTATTTT
1 TTTAAATTTTGTAATAAATTTATTTT
20077229 TTATAAGATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 18 0.82
28 4 0.18
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (28 bp):
TTTAAATTTTGTAATAAATTTATTTTAT
Found at i:20079650 original size:25 final size:26
Alignment explanation
Indices: 20079615--20079671 Score: 66
Period size: 25 Copynumber: 2.2 Consensus size: 26
20079605 TTTGTTTAGA
20079615 TTTATTATAATTAATTT-TTTATAT-TT
1 TTTATTATAA-TAATTTATTTA-ATGTT
*
20079641 TTTATT-TAATCATTTATTTAATGTT
1 TTTATTATAATAATTTATTTAATGTT
20079666 TTTATT
1 TTTATT
20079672 CTCTATTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
24 7 0.25
25 15 0.54
26 6 0.21
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (26 bp):
TTTATTATAATAATTTATTTAATGTT
Found at i:20080783 original size:9 final size:9
Alignment explanation
Indices: 20080760--20080789 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
20080750 AATTTTAAGT
20080760 TTATTCAAA
1 TTATTCAAA
20080769 -TATTCAAA
1 TTATTCAAA
20080777 TTATTCAAA
1 TTATTCAAA
20080786 TTAT
1 TTAT
20080790 AATAAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.47
Consensus pattern (9 bp):
TTATTCAAA
Found at i:20080873 original size:21 final size:22
Alignment explanation
Indices: 20080848--20080898 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
20080838 TAAAATATGG
20080848 ATTTTATCTTC-TTAAT-AAATA
1 ATTTTAT-TTCATTAATCAAATA
*
20080869 ATTTTA-TTCATTTATCAAATA
1 ATTTTATTTCATTAATCAAATA
20080890 ATTTTATTT
1 ATTTTATTT
20080899 AAGAAATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 3 0.12
20 4 0.15
21 17 0.65
22 2 0.08
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.57
Consensus pattern (22 bp):
ATTTTATTTCATTAATCAAATA
Found at i:20088321 original size:15 final size:15
Alignment explanation
Indices: 20088301--20088334 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
20088291 AAAACAAAAG
20088301 CAAAAAAGCATTTGA
1 CAAAAAAGCATTTGA
20088316 CAAAAAAGCATTTGA
1 CAAAAAAGCATTTGA
20088331 CAAA
1 CAAA
20088335 TAACTGTTTA
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:0.15, G:0.12, T:0.18
Consensus pattern (15 bp):
CAAAAAAGCATTTGA
Found at i:20089616 original size:61 final size:60
Alignment explanation
Indices: 20089545--20089713 Score: 146
Period size: 61 Copynumber: 2.8 Consensus size: 60
20089535 AGAATTATCG
* *
20089545 AAGGTGTTTTTAGCCAGAAATACCTTAAATAATCCTTTACAAAAAATA-AATGGGATTATTT
1 AAGGTATTTTT-GCCA-AAATACCTTAAATAATCCTTTACAAAAAATATAAGGGGATTATTT
* * * * ****
20089606 AAGGTATTTTTGGCAAAAAAGCCTTCAATAATCCCCTT-CAATTTTTATAAGGGGATTATTT
1 AAGGTATTTTTGCCAAAATA-CCTTAAATAAT-CCTTTACAAAAAATATAAGGGGATTATTT
* *
20089667 AAGGTATTTTTGGCCAAAAATGCCTTGAATAAT-CTCTTACAAAAAAT
1 AAGGTATTTTT-GCC-AAAATACCTTAAATAATCCT-TTACAAAAAAT
20089714 GCCTTAAATA
Statistics
Matches: 82, Mismatches: 19, Indels: 13
0.72 0.17 0.11
Matches are distributed among these distances:
59 4 0.05
60 19 0.23
61 39 0.48
62 16 0.20
63 4 0.05
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.35
Consensus pattern (60 bp):
AAGGTATTTTTGCCAAAATACCTTAAATAATCCTTTACAAAAAATATAAGGGGATTATTT
Found at i:20089671 original size:122 final size:122
Alignment explanation
Indices: 20089352--20089713 Score: 392
Period size: 122 Copynumber: 2.9 Consensus size: 122
20089342 TTTATTAAGA
* * *
20089352 ATTATTTAAGGTGTTTTTGGTAAAAAAAGCCTTTAATAAATCCCCTTCAATTTTTATAAAGGGAT
1 ATTATTTAAGGTGTTTTTGG-CAAAAAAGCCTTCAAT-AATCCCCTTCAATTTTTATAAGGGGAT
* * **
20089417 TATTCAAGGCATTTTTAGCTAAAAATGCCTTGAATAATCCTTTACAAAAAATTTTATAGG
64 TATTCAAGGTATTTTTAGCCAAAAATGCCTTGAATAATCCTTTACAAAAAA-TAAATAGG
* * * * * * * * * *
20089477 -TT-TTTCAAGGCGTTTCTAGCCAAAAACGTCTTGAATAATCCCCTTTAATTTTT-TATTGAGAA
1 ATTATTT-AAGGTGTTT-TTGGCAAAAAAGCCTTCAATAATCCCCTTCAATTTTTATA-AGGGGA
* * * * *
20089539 TTA-TCGAAGGTGTTTTTAGCCAGAAATACCTTAAATAATCCTTTACAAAAAATAAATGGG
63 TTATTC-AAGGTATTTTTAGCCAAAAATGCCTTGAATAATCCTTTACAAAAAATAAATAGG
*
20089599 ATTATTTAAGGTATTTTTGGCAAAAAAGCCTTCAATAATCCCCTTCAATTTTTATAAGGGGATTA
1 ATTATTTAAGGTGTTTTTGGCAAAAAAGCCTTCAATAATCCCCTTCAATTTTTATAAGGGGATTA
* *
20089664 TTTAAGGTATTTTTGGCCAAAAATGCCTTGAATAAT-CTCTTACAAAAAAT
66 TTCAAGGTATTTTTAGCCAAAAATGCCTTGAATAATCCT-TTACAAAAAAT
20089714 GCCTTAAATA
Statistics
Matches: 190, Mismatches: 38, Indels: 21
0.76 0.15 0.08
Matches are distributed among these distances:
121 2 0.01
122 85 0.45
123 76 0.40
124 25 0.13
125 2 0.01
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (122 bp):
ATTATTTAAGGTGTTTTTGGCAAAAAAGCCTTCAATAATCCCCTTCAATTTTTATAAGGGGATTA
TTCAAGGTATTTTTAGCCAAAAATGCCTTGAATAATCCTTTACAAAAAATAAATAGG
Found at i:20089801 original size:90 final size:88
Alignment explanation
Indices: 20089619--20089803 Score: 228
Period size: 90 Copynumber: 2.1 Consensus size: 88
20089609 GTATTTTTGG
* * * *
20089619 CAAAAAA-GCCTTCAATAATCCCCTTCAATTTTTATAAGGGGATTATTTAAGGTATTTTTGGCCA
1 CAAAAAATGCCTTAAATAATACCCTTCAATTTTTATAAGAGGATTATTGAAGGTATTTTTGGCCA
** * * *
20089683 AAAATGCCTTGAATAATCTCTTA
66 AAAACACCTTCAATAATCCCTAA
** *
20089706 CAAAAAATGCCTTAAATAATACTTTTCAATTTTTATAAAGAGGATTATTGAAGGTATTTTTTTGC
1 CAAAAAATGCCTTAAATAATACCCTTCAATTTTTAT-AAGAGGATTATTGAAGGTA-TTTTTGGC
20089771 CAAAAACACCTTCAATAATCCCTAA
64 CAAAAACACCTTCAATAATCCCTAA
*
20089796 TAAAAAAT
1 CAAAAAAT
20089804 TAGAAGGGAT
Statistics
Matches: 82, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
87 7 0.09
88 24 0.29
89 17 0.21
90 34 0.41
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.35
Consensus pattern (88 bp):
CAAAAAATGCCTTAAATAATACCCTTCAATTTTTATAAGAGGATTATTGAAGGTATTTTTGGCCA
AAAACACCTTCAATAATCCCTAA
Found at i:20092052 original size:17 final size:18
Alignment explanation
Indices: 20092021--20092054 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
20092011 ATTAATATTA
*
20092021 GAAATGTGAATAGAAAGC
1 GAAATGTGAAAAGAAAGC
20092039 GAAA-GTGAAAAGAAAG
1 GAAATGTGAAAAGAAAG
20092055 ATAGTAAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.56, C:0.03, G:0.29, T:0.12
Consensus pattern (18 bp):
GAAATGTGAAAAGAAAGC
Found at i:20094121 original size:20 final size:21
Alignment explanation
Indices: 20094096--20094135 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
20094086 TTTAATGTTT
20094096 GTTTATATTCATTT-GGATTG
1 GTTTATATTCATTTAGGATTG
* *
20094116 GTTTATCTTCGTTTAGGATT
1 GTTTATATTCATTTAGGATT
20094136 TATTTGTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.17, C:0.07, G:0.20, T:0.55
Consensus pattern (21 bp):
GTTTATATTCATTTAGGATTG
Found at i:20094152 original size:14 final size:15
Alignment explanation
Indices: 20094133--20094163 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
20094123 TTCGTTTAGG
20094133 ATTTA-TTTGTTTAA
1 ATTTATTTTGTTTAA
20094147 ATTTATTTTGTTTAA
1 ATTTATTTTGTTTAA
20094162 AT
1 AT
20094164 AGTTATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (15 bp):
ATTTATTTTGTTTAA
Found at i:20099439 original size:16 final size:16
Alignment explanation
Indices: 20099418--20099448 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20099408 GAATCCTAAA
*
20099418 ATGAGGAAAATATTTT
1 ATGAGGAAAACATTTT
20099434 ATGAGGAAAACATTT
1 ATGAGGAAAACATTT
20099449 AGAATTTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.03, G:0.19, T:0.32
Consensus pattern (16 bp):
ATGAGGAAAACATTTT
Found at i:20099941 original size:18 final size:18
Alignment explanation
Indices: 20099893--20100042 Score: 67
Period size: 18 Copynumber: 8.5 Consensus size: 18
20099883 CTGAACTTGA
*
20099893 AAAATTCTTATGAATCTT
1 AAAATTCTTACGAATCTT
* *
20099911 TAAA-TCTTGCGAATCTT
1 AAAATTCTTACGAATCTT
20099928 AAAATTCTTACGAAT-TT
1 AAAATTCTTACGAATCTT
** ** * *
20099945 GAAAATGATTGTGAATATA
1 -AAAATTCTTACGAATCTT
* *
20099964 AAAAATCTTAC-AAACTT
1 AAAATTCTTACGAATCTT
* **
20099981 GAAA-TCTTGTGAATCTT
1 AAAATTCTTACGAATCTT
* * * **
20099998 GAATTTATTGTGAAT-TT
1 AAAATTCTTACGAATCTT
*
20100015 GAAAATTCTTACGAATCTA
1 -AAAATTCTTACGAATCTT
20100034 AAAATTCTT
1 AAAATTCTT
20100043 GCCAAACAGA
Statistics
Matches: 95, Mismatches: 30, Indels: 14
0.68 0.22 0.10
Matches are distributed among these distances:
16 4 0.04
17 32 0.34
18 57 0.60
19 2 0.02
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (18 bp):
AAAATTCTTACGAATCTT
Found at i:20100036 original size:70 final size:70
Alignment explanation
Indices: 20099912--20100042 Score: 154
Period size: 70 Copynumber: 1.9 Consensus size: 70
20099902 ATGAATCTTT
* **
20099912 AAATCTTGCGAATCTTAAAATTCTTACGAATTTGAAAATGATTGTGAATATAAAAAATCTTACAA
1 AAATCTTGCGAATCTTAAAATTATTACGAATTTGAAAATGATTACGAATATAAAAAATCTTACAA
20099977 ACTTG
66 ACTTG
* * * ** ** * *
20099982 AAATCTTGTGAATCTTGAATTTATTGTGAATTTGAAAATTCTTACGAATCTAAAAATTCTT
1 AAATCTTGCGAATCTTAAAATTATTACGAATTTGAAAATGATTACGAATATAAAAAATCTT
20100043 GCCAAACAGA
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
70 49 1.00
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.38
Consensus pattern (70 bp):
AAATCTTGCGAATCTTAAAATTATTACGAATTTGAAAATGATTACGAATATAAAAAATCTTACAA
ACTTG
Found at i:20105431 original size:27 final size:26
Alignment explanation
Indices: 20105353--20105432 Score: 92
Period size: 27 Copynumber: 3.1 Consensus size: 26
20105343 AATTTCATGG
* *
20105353 ACAACCCTCA-CATTCTTGCTTGGGT
1 ACAACCCTCACCATTCTTGCTAGGCT
*
20105378 -CAACCCTCACCATTCTTGCTAACGCT
1 ACAACCCTCACCATTCTTGCT-AGGCT
*
20105404 ACTACCCTCACCATTCTTGCTAGTGCT
1 ACAACCCTCACCATTCTTGCTAG-GCT
20105431 AC
1 AC
20105433 CAACACTTTC
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
24 9 0.20
25 10 0.22
26 3 0.07
27 24 0.52
ACGTcount: A:0.21, C:0.38, G:0.11, T:0.30
Consensus pattern (26 bp):
ACAACCCTCACCATTCTTGCTAGGCT
Found at i:20106328 original size:19 final size:19
Alignment explanation
Indices: 20106306--20106365 Score: 61
Period size: 19 Copynumber: 3.1 Consensus size: 19
20106296 GATTGGAGGG
20106306 GGTGGGGAGGATTGGGTGT
1 GGTGGGGAGGATTGGGTGT
* *
20106325 GGTGGGG-CG-TTGGGGGGT
1 GGTGGGGAGGATT-GGGTGT
20106343 AGGTGGGGAGGGATTGGGTGT
1 -GGTGGGGA-GGATTGGGTGT
20106364 GG
1 GG
20106366 ATTGGGTGTG
Statistics
Matches: 32, Mismatches: 4, Indels: 9
0.71 0.09 0.20
Matches are distributed among these distances:
17 2 0.06
18 6 0.19
19 14 0.44
20 2 0.06
21 6 0.19
22 2 0.06
ACGTcount: A:0.08, C:0.02, G:0.67, T:0.23
Consensus pattern (19 bp):
GGTGGGGAGGATTGGGTGT
Found at i:20106362 original size:39 final size:39
Alignment explanation
Indices: 20106306--20106448 Score: 126
Period size: 50 Copynumber: 3.4 Consensus size: 39
20106296 GATTGGAGGG
*
20106306 GGTGGGGA-GGATTGGGTGTGGTGGGGCGTTGGGGGGTA
1 GGTGGGGAGGGATTGGGTGTGGTGGGGCGTTGGGGGGAA
*
20106344 GGTGGGGAGGGATTGGGTGTGGATTGGGTGTGGTAGGGTGTTGGGAGGAA
1 GGTGGGGAGGGATTGGGTGTGG--TGGG-G-CGT----TG--GGG-GGAA
**
20106394 GGTGGGGAGGGATTGGGTGTGGTGGGATGTTGGGGGGGAA
1 GGTGGGGAGGGATTGGGTGTGGTGGGGCGTT-GGGGGGAA
*
20106434 GGTGGAGAGGGATTG
1 GGTGGGGAGGGATTG
20106449 ATGGGGGTGG
Statistics
Matches: 87, Mismatches: 5, Indels: 24
0.75 0.04 0.21
Matches are distributed among these distances:
38 8 0.09
39 13 0.15
40 18 0.21
41 7 0.08
42 2 0.02
43 3 0.03
46 2 0.02
47 2 0.02
48 4 0.05
49 3 0.03
50 25 0.29
ACGTcount: A:0.13, C:0.01, G:0.63, T:0.24
Consensus pattern (39 bp):
GGTGGGGAGGGATTGGGTGTGGTGGGGCGTTGGGGGGAA
Found at i:20106374 original size:50 final size:50
Alignment explanation
Indices: 20106314--20106415 Score: 168
Period size: 50 Copynumber: 2.0 Consensus size: 50
20106304 GGGGTGGGGA
* * *
20106314 GGATTGGGTGTGGTGGGGCGTTGGGGGGTAGGTGGGGAGGGATTGGGTGT
1 GGATTGGGTGTGGTAGGGCGTTGGGAGGAAGGTGGGGAGGGATTGGGTGT
*
20106364 GGATTGGGTGTGGTAGGGTGTTGGGAGGAAGGTGGGGAGGGATTGGGTGT
1 GGATTGGGTGTGGTAGGGCGTTGGGAGGAAGGTGGGGAGGGATTGGGTGT
20106414 GG
1 GG
20106416 TGGGATGTTG
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.11, C:0.01, G:0.63, T:0.25
Consensus pattern (50 bp):
GGATTGGGTGTGGTAGGGCGTTGGGAGGAAGGTGGGGAGGGATTGGGTGT
Found at i:20106459 original size:40 final size:39
Alignment explanation
Indices: 20106364--20106448 Score: 127
Period size: 40 Copynumber: 2.2 Consensus size: 39
20106354 GATTGGGTGT
*
20106364 GGATTGGGTGTGGTAGGG-TGTTGGGAGGAAGGTGGGGAG
1 GGATTGGGTGTGGT-GGGATGTTGGGAGGAAGGTGGAGAG
*
20106403 GGATTGGGTGTGGTGGGATGTTGGGGGGGAAGGTGGAGAG
1 GGATTGGGTGTGGTGGGATGTT-GGGAGGAAGGTGGAGAG
20106443 GGATTG
1 GGATTG
20106449 ATGGGGGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
38 3 0.07
39 18 0.43
40 21 0.50
ACGTcount: A:0.15, C:0.00, G:0.61, T:0.24
Consensus pattern (39 bp):
GGATTGGGTGTGGTGGGATGTTGGGAGGAAGGTGGAGAG
Found at i:20106720 original size:20 final size:20
Alignment explanation
Indices: 20106682--20106719 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
20106672 GATTGTGTTA
*
20106682 TATATTAATTTATAATTTTG
1 TATATGAATTTATAATTTTG
20106702 TATATGAATTT-TAATTTT
1 TATATGAATTTATAATTTT
20106720 TTTTGTTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (20 bp):
TATATGAATTTATAATTTTG
Found at i:20106973 original size:26 final size:26
Alignment explanation
Indices: 20106945--20106993 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
20106935 TAAAAAATAA
*
20106945 AAAATATAGGTTTGAAAA-TTTTATT
1 AAAATATAAGTTTGAAAACTTTTATT
20106970 AAAATATAAGTTTGAAAACTTTTA
1 AAAATATAAGTTTGAAAACTTTTA
20106994 ATTTTTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.47, C:0.02, G:0.10, T:0.41
Consensus pattern (26 bp):
AAAATATAAGTTTGAAAACTTTTATT
Found at i:20110408 original size:6 final size:6
Alignment explanation
Indices: 20110399--20110435 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
20110389 TTTAAGTCCA
* *
20110399 GATGAT GATGGT GATGGA GATGGT GATGGT GATGGT G
1 GATGGT GATGGT GATGGT GATGGT GATGGT GATGGT G
20110436 CGAATTTTGG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.22, C:0.00, G:0.49, T:0.30
Consensus pattern (6 bp):
GATGGT
Found at i:20110425 original size:18 final size:18
Alignment explanation
Indices: 20110398--20110433 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
20110388 GTTTAAGTCC
20110398 AGATGATGATGGTGATGG
1 AGATGATGATGGTGATGG
*
20110416 AGATGGTGATGGTGATGG
1 AGATGATGATGGTGATGG
20110434 TGCGAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.00, G:0.47, T:0.28
Consensus pattern (18 bp):
AGATGATGATGGTGATGG
Found at i:20110802 original size:18 final size:18
Alignment explanation
Indices: 20110779--20110903 Score: 105
Period size: 18 Copynumber: 6.9 Consensus size: 18
20110769 ATGGTTATTA
20110779 TCCACCTCAAATGTATCC
1 TCCACCTCAAATGTATCC
*
20110797 TCCACCTTCTCAAATATATCC
1 TCCA-C--CTCAAATGTATCC
*
20110818 TCCACCTCAAATGTATCAG
1 TCCACCTCAAATGTATC-C
* * *
20110837 T-TACCACAAATGTACCC
1 TCCACCTCAAATGTATCC
* *
20110854 TCCACCACAAATGTATCA
1 TCCACCTCAAATGTATCC
*
20110872 T---CCTCAAATATATCC
1 TCCACCTCAAATGTATCC
*
20110887 TCCACCTCGAATGTATC
1 TCCACCTCAAATGTATC
20110904 AAGAACAAAG
Statistics
Matches: 84, Mismatches: 15, Indels: 16
0.73 0.13 0.14
Matches are distributed among these distances:
15 12 0.14
17 1 0.01
18 52 0.62
19 2 0.02
20 1 0.01
21 16 0.19
ACGTcount: A:0.31, C:0.35, G:0.06, T:0.28
Consensus pattern (18 bp):
TCCACCTCAAATGTATCC
Found at i:20110810 original size:21 final size:21
Alignment explanation
Indices: 20110784--20110824 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
20110774 TATTATCCAC
*
20110784 CTCAAATGTATCCTCCACCTT
1 CTCAAATATATCCTCCACCTT
20110805 CTCAAATATATCCTCCACCT
1 CTCAAATATATCCTCCACCT
20110825 CAAATGTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.39, G:0.02, T:0.32
Consensus pattern (21 bp):
CTCAAATATATCCTCCACCTT
Found at i:20110847 original size:36 final size:33
Alignment explanation
Indices: 20110807--20110904 Score: 124
Period size: 33 Copynumber: 2.9 Consensus size: 33
20110797 TCCACCTTCT
20110807 CAAATATATCCTCCACCTCAAATGTATCAGTTACCA
1 CAAATATATCCTCCACCTCAAATGTATCA--T-CCA
* * * *
20110843 CAAATGTACCCTCCACCACAAATGTATCATCCT
1 CAAATATATCCTCCACCTCAAATGTATCATCCA
*
20110876 CAAATATATCCTCCACCTCGAATGTATCA
1 CAAATATATCCTCCACCTCAAATGTATCA
20110905 AGAACAAAGG
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
33 27 0.50
34 1 0.02
36 26 0.48
ACGTcount: A:0.35, C:0.33, G:0.06, T:0.27
Consensus pattern (33 bp):
CAAATATATCCTCCACCTCAAATGTATCATCCA
Found at i:20119288 original size:161 final size:161
Alignment explanation
Indices: 20118798--20120636 Score: 1590
Period size: 161 Copynumber: 11.5 Consensus size: 161
20118788 AAGTAAGTTT
* * * * *
20118798 ATGATATTAAATTTATTCGAATGATTGAACTTGATTTTCATTA-TTGATATGTG-GTAAAAAGTT
1 ATGATATTAAACTTGTCCGAATGATTGAACTTGGTTTTCA-TAGTTAATATGTGTG-AAAAAGTT
* ** * * * * * *
20118861 A-CAATTTATGTTTGTTTAAGACTTTTTGTGTCGTTAAAAGGTAAAAATATAAATTTAC-AGTTA
64 ATC-GTTTACATCTGTTTAAGATTTTTTATGCCGTTAAAAGGTAAAAATACAAATTTGCTA-TTA
* *
20118924 TTATTCTATTTTAACAGTTTTGATAGTTTCAATAC
127 TTGTTCTATTTTAACAGTTTGGATAGTTTCAATAC
** * * * * *
20118959 ATGATATTAAACTTGTCTAAATAATTGAATTTGGTTTCCAT-GATTAATATGTATGAAAATG-T-
1 ATGATATTAAACTTGTCCGAATGATTGAACTTGGTTTTCATAG-TTAATATGTGTGAAAAAGTTA
** * * * ** * *
20119021 T-GTTTATGTCTGTTTAGGACTTTTTATGCCGTTAAAAGGCAAAAATGTAAATTT-CTTGTTGTT
65 TCGTTTACATCTGTTTAAGATTTTTTATGCCGTTAAAAGGTAAAAATACAAATTTGC-TATTATT
* * * * **
20119084 GTTTTGTTTTAATAGTTTGAATAAATTCAATAC
129 GTTCTATTTTAACAGTTTGGATAGTTTCAATAC
* *
20119117 ATGATATTAAACTTCTCCGAATGATTGAACTTGATTTTCATAGTTAATATGTGTGAAAAAGTTAT
1 ATGATATTAAACTTGTCCGAATGATTGAACTTGGTTTTCATAGTTAATATGTGTGAAAAAGTTAT
* * * ** * * *
20119182 CGTTTACATCTGTTTAGGACTTTTTATGCCATTAAAAGGTAGTAGTACGAATTTGTTATTATTGT
66 CGTTTACATCTGTTTAAGATTTTTTATGCCGTTAAAAGGTAAAAATACAAATTTGCTATTATTGT
* *
20119247 TCTATTTTAACAGTTTAGATAGTTTCAACAC
131 TCTATTTTAACAGTTTGGATAGTTTCAATAC
** ** * * * * *
20119278 ACAATATTAAACTTGTTTGAATTATTGAACTTGGTTTCCACAATTGATATGTGTGAAAAAGTTAT
1 ATGATATTAAACTTGTCCGAATGATTGAACTTGGTTTTCATAGTTAATATGTGTGAAAAAGTTAT
* * * * * * *
20119343 TGTTTACCTCTGTTTAAGATTTTTTATGTCGTTAAAAGGTAAAAATGCAAAATTACTATTGTTGT
66 CGTTTACATCTGTTTAAGATTTTTTATGCCGTTAAAAGGTAAAAATACAAATTTGCTATTATTGT
* *
20119408 TCTATTTTAATAGTTTGGATAGCTTCAATAC
131 TCTATTTTAACAGTTTGGATAGTTTCAATAC
* * * *
20119439 ATGATATTAAACTTGTTCGAATAATTGAACTTGGTTTTCAAAGTTGATATGTGTGAAAAAGTTAT
1 ATGATATTAAACTTGTCCGAATGATTGAACTTGGTTTTCATAGTTAATATGTGTGAAAAAGTTAT
* * * * * * ** *
20119504 TGTTTACCTCTGTTTAAGATTTTTTATGTCGTTAAAAAGCAACAATGTAAATTTACTATTATTGT
66 CGTTTACATCTGTTTAAGATTTTTTATGCCGTTAAAAGGTAAAAATACAAATTTGCTATTATTGT
* *
20119569 TCTATTTTAACGGTTTGGATGGCTTTC-ATAC
131 TCTATTTTAACAGTTTGGATAG-TTTCAATAC
* * * * * * *
20119600 ATAATATTAGATTTATTCGAATGATTGAATTTGGTTTT-ACAGTTGAA-ATGTGTG----A---A
1 ATGATATTAAACTTGTCCGAATGATTGAACTTGGTTTTCATAGTT-AATATGTGTGAAAAAGTTA
* * * * * * * *
20119656 ---TTTACATCTATTTAGGACTTTTTGTGTCGTTAAAAGGTAAAAGTATAAATTTGCTATTATTA
65 TCGTTTACATCTGTTTAAGATTTTTTATGCCGTTAAAAGGTAAAAATACAAATTTGCTATTATTG
*
20119718 TTTTATTTTAACAGTTTGGATAGTTTCAATAC
130 TTCTATTTTAACAGTTTGGATAGTTTCAATAC
* * * *
20119750 ATGATATTAAACTTGTCCGAATAATTGAACTTGGTTTTTATTGTTAATATGTGTGAAAAAGCTA-
1 ATGATATTAAACTTGTCCGAATGATTGAACTTGGTTTTCATAGTTAATATGTGTGAAAAAGTTAT
* * * * *
20119814 CTATTTACGTTTGTTTAAGATTTTTTATGCCGTTAAAA-GTAAAAAATGCAAAATTGCTATTATT
66 C-GTTTACATCTGTTTAAGATTTTTTATGCCGTTAAAAGGT-AAAAATACAAATTTGCTATTATT
* * * * *
20119878 ATCCTGTTTTAATAGTTTGGATAGCTTCAATAC
129 GTTCTATTTTAACAGTTTGGATAGTTTCAATAC
* * * * * * * * *
20119911 ATAATATTAAACTTGTTCAAATGATTAAATTTGGTTTCCATCA-TTGATATGTGTGAAATAGTTG
1 ATGATATTAAACTTGTCCGAATGATTGAACTTGGTTTTCAT-AGTTAATATGTGTGAAAAAGTTA
* * * * * *
20119975 TTGTTTATC-TCTGTTTAAGATTCTTTTGTGCCATTAAAAGGTAAAAATGCAAAATTGCTGTTAT
65 TCGTTTA-CATCTGTTTAAGATT-TTTTATGCCGTTAAAAGGTAAAAATACAAATTTGCTATTAT
* * *
20120039 TGTTCT-TATTTAACAATTTGGATGGTTTCAATAT
128 TGTTCTAT-TTTAACAGTTTGGATAGTTTCAATAC
* * *
20120073 ATGATATTAAACTTATCCGAATGATTGAACTTGGTTTCCATAGTTAAAATGTGTGAAAAAGTTAT
1 ATGATATTAAACTTGTCCGAATGATTGAACTTGGTTTTCATAGTTAATATGTGTGAAAAAGTTAT
* * * * * * *
20120138 CTTTTACATTTGTTTAAGACTTTTTATGCTGTTAAAAGGCAAAAA-AGCAAAATTACTATTATTG
66 CGTTTACATCTGTTTAAGATTTTTTATGCCGTTAAAAGGTAAAAATA-CAAATTTGCTATTATTG
* *
20120202 TGCTATTTTAACAGTTTGGATGGTTAGATTCAATAC
130 TTCTATTTTAACAGTTTGGA----TAGTTTCAATAC
* * * *
20120238 ATGATATTAAACTTGT-CTAATTGATTAAATTTGGTTTTTATAGTTAA-ATGTGTGAAAAAGTTA
1 ATGATATTAAACTTGTCCGAA-TGATTGAACTTGGTTTTCATAGTTAATATGTGTGAAAAAGTTA
* * * * * * * *
20120301 TCATTTACATCTGTTTAAGATTTTTTGTGTCGTTAAAAAGCAAAAATGCAAAATTGTTATTATTG
65 TCGTTTACATCTGTTTAAGATTTTTTATGCCGTTAAAAGGTAAAAATACAAATTTGCTATTATTG
* *
20120366 TACTATTTTAACAGTTTGGATAGCTTCAATAC
130 TTCTATTTTAACAGTTTGGATAGTTTCAATAC
* * * *
20120398 ATGATATTAAACTTGTCCAAATAATTGAACTTGATTTTCATAGTTAATATGTATGAAAAAGTTA-
1 ATGATATTAAACTTGTCCGAATGATTGAACTTGGTTTTCATAGTTAATATGTGTGAAAAAGTTAT
* ** * * * * * *
20120462 CTATTTATGTATATTTAGGATTTTTTGTGCCGTTAAAAGGTGAAAGT----ATTTGCTATTATTG
66 C-GTTTACATCTGTTTAAGATTTTTTATGCCGTTAAAAGGTAAAAATACAAATTTGCTATTATTG
*
20120523 TTCTATTTTAACAGTTTGGATAGTTTAAATAC
130 TTCTATTTTAACAGTTTGGATAGTTTCAATAC
* * * * * * ** *
20120555 ATGATATTAAATTTATCCAAATGATTGAACTTGGTTTTTATGGTTGATATGCATGAATAAGTTA-
1 ATGATATTAAACTTGTCCGAATGATTGAACTTGGTTTTCATAGTTAATATGTGTGAAAAAGTTAT
* *
20120619 CGGTTTCCATGTGTTTAA
66 C-GTTTACATCTGTTTAA
20120637 CAATAACATG
Statistics
Matches: 1369, Mismatches: 263, Indels: 96
0.79 0.15 0.06
Matches are distributed among these distances:
149 4 0.00
150 107 0.08
151 11 0.01
153 1 0.00
155 1 0.00
156 1 0.00
157 107 0.08
158 126 0.09
159 2 0.00
160 66 0.05
161 669 0.49
162 134 0.10
163 2 0.00
164 92 0.07
165 46 0.03
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.43
Consensus pattern (161 bp):
ATGATATTAAACTTGTCCGAATGATTGAACTTGGTTTTCATAGTTAATATGTGTGAAAAAGTTAT
CGTTTACATCTGTTTAAGATTTTTTATGCCGTTAAAAGGTAAAAATACAAATTTGCTATTATTGT
TCTATTTTAACAGTTTGGATAGTTTCAATAC
Found at i:20119805 original size:472 final size:472
Alignment explanation
Indices: 20118798--20120592 Score: 1800
Period size: 472 Copynumber: 3.8 Consensus size: 472
20118788 AAGTAAGTTT
* * * * *
20118798 ATGATATTAAATTTATTCGAATGATTGAACTTGATTTTCATTATTGATATGTG-GTAAAAAGTTA
1 ATGATATTAAACTTGTTCGAATGATTGAACTTGGTTTTCATAATTAATATGTGTG-AAAAAGTTA
* * * * * ** *
20118862 CAATTTATGTTTGTTTAAGACTTTTTGTGTCGTTAAAAGGTAAAAATATAAATTTAC-AGTTATT
65 CTATTTACGTCTGTTTAAGATTTTTTATGTCGTTAAAAGGTAAAAATGCAAAATTACTA-TTATT
* * *
20118926 ATTCTATTTTAACAGTTTTGATAGTTTCAATACATGATATTAAACTTG-TCTAAATAATTGAATT
129 ATTCTATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTGTTC-AAATAATTGAACT
* * * * * *
20118990 TGG-TTTCCATGATTAATATGTATG-AAAA--TGTTGTTTATGTCTGTTTAGGACTTTTTATGCC
193 TGGTTTTCAAAG-TTAATATGTATGAAAAAGTTATTGTTTATCTCTGTTTAAGATTTTTTATGCC
* * * * * * ***
20119051 GTTAAAAGGCAAAAATGTAAATTT-CTTGTTGTTGTTTTGTTTTAATAGTTTGAATAAATTCAAT
257 GTTAAAAGGCAAAAATGTAAATTTGC-TATTATTGTTCTATTTTAACAGTTTGGATGGTTTCAAT
* *
20119115 ACATGATATTAAACTTCTCCGAATGATTGAACTTGATTTTCATAGTTAATATGTGTGAAAAAGTT
321 ACATGATATTAAACTTATCCGAATGATTGAACTTGGTTTT-ATAGTTAA-ATGTGTG---AA--T
* ** * *
20119180 ATCGTTTACATCTGTTTAGGACTTTTTATGCCATTAAAAGGTAGTAGTACGAATTTGTTATTATT
379 AT--TTTACATCTGTTTAGGACTTTTTATG-CGTTAAAAGGTAAAAGTA-AAATTTGCTATTATT
* *
20119245 GTTCTATTTTAACAGTTTAGATAGTTTCAACAC
440 GTTCTATTTTAACAGTTTGGATAGTTTCAATAC
** * * * * * *
20119278 ACAATATTAAACTTGTTTGAATTATTGAACTTGGTTTCCACAATTGATATGTGTGAAAAAGTTAT
1 ATGATATTAAACTTGTTCGAATGATTGAACTTGGTTTTCATAATTAATATGTGTGAAAAAGTTAC
* * * *
20119343 TGTTTACCTCTGTTTAAGATTTTTTATGTCGTTAAAAGGTAAAAATGCAAAATTACTATTGTTGT
66 TATTTACGTCTGTTTAAGATTTTTTATGTCGTTAAAAGGTAAAAATGCAAAATTACTATTATTAT
* *
20119408 TCTATTTTAATAGTTTGGATAGCTTCAATACATGATATTAAACTTGTTCGAATAATTGAACTTGG
131 TCTATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTGTTCAAATAATTGAACTTGG
* * * *
20119473 TTTTCAAAGTTGATATGTGTGAAAAAGTTATTGTTTACCTCTGTTTAAGATTTTTTATGTCGTTA
196 TTTTCAAAGTTAATATGTATGAAAAAGTTATTGTTTATCTCTGTTTAAGATTTTTTATGCCGTTA
* * * *
20119538 AAAAGCAACAATGTAAATTTACTATTATTGTTCTATTTTAACGGTTTGGATGGCTTTC-ATACAT
261 AAAGGCAAAAATGTAAATTTGCTATTATTGTTCTATTTTAACAGTTTGGATGG-TTTCAATACAT
* * * * * *
20119602 AATATTAGATTTATTCGAATGATTGAATTTGGTTTTACAGTTGAAATGTGTG-A-A-TTTACATC
325 GATATTAAACTTATCCGAATGATTGAACTTGGTTTTATAGTT-AAATGTGTGAATATTTTACATC
* * * *
20119664 TATTTAGGACTTTTTGTGTCGTTAAAAGGTAAAAGTATAAATTTGCTATTATTATTTTATTTTAA
389 TGTTTAGGACTTTTTATG-CGTTAAAAGGTAAAAGTA-AAATTTGCTATTATTGTTCTATTTTAA
20119729 CAGTTTGGATAGTTTCAATAC
452 CAGTTTGGATAGTTTCAATAC
* * * ** *
20119750 ATGATATTAAACTTGTCCGAATAATTGAACTTGGTTTTTATTGTTAATATGTGTGAAAAAGCTAC
1 ATGATATTAAACTTGTTCGAATGATTGAACTTGGTTTTCATAATTAATATGTGTGAAAAAGTTAC
* * *
20119815 TATTTACGTTTGTTTAAGATTTTTTATGCCGTTAAAA-GTAAAAAATGCAAAATTGCTATTATTA
66 TATTTACGTCTGTTTAAGATTTTTTATGTCGTTAAAAGGT-AAAAATGCAAAATTACTATTATTA
* * * * * * *
20119879 TCCTGTTTTAATAGTTTGGATAGCTTCAATACATAATATTAAACTTGTTCAAATGATTAAATTTG
130 TTCTATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTGTTCAAATAATTGAACTTG
* * * * * * * *
20119944 GTTTCCATCA-TTGATATGTGTGAAATAGTTGTTGTTTATCTCTGTTTAAGATTCTTTTGTGCCA
195 GTTTTCA-AAGTTAATATGTATGAAAAAGTTATTGTTTATCTCTGTTTAAGATT-TTTTATGCCG
* * * * *
20120008 TTAAAAGGTAAAAATGCAAAATTGCTGTTATTGTTCT-TATTTAACAATTTGGATGGTTTCAATA
258 TTAAAAGGCAAAAATGTAAATTTGCTATTATTGTTCTAT-TTTAACAGTTTGGATGGTTTCAATA
* *
20120072 TATGATATTAAACTTATCCGAATGATTGAACTTGGTTTCCATAGTTAAAATGTGTGAAAAAGTTA
322 CATGATATTAAACTTATCCGAATGATTGAACTTGGTTT-TATAGTT-AAATGTGTG---AA--TA
* * * * *
20120137 TCTTTTACATTTGTTTAAGACTTTTTATGCTGTTAAAAGGCAAAAAAGCAAAA-TTACTATTATT
380 --TTTTACATCTGTTTAGGACTTTTTATGC-GTTAAAAGG--TAAAAGTAAAATTTGCTATTATT
* *
20120201 GTGCTATTTTAACAGTTTGGATGGTTAGATTCAATAC
440 GTTCTATTTTAACAGTTTGGA----TAGTTTCAATAC
* * * * *
20120238 ATGATATTAAACTTG-TCTAATTGATTAAATTTGGTTTTTATAGTTAA-ATGTGTGAAAAAGTTA
1 ATGATATTAAACTTGTTCGAA-TGATTGAACTTGGTTTTCATAATTAATATGTGTGAAAAAGTTA
* * * * **
20120301 -TCATTTACATCTGTTTAAGATTTTTTGTGTCGTTAAAAAGCAAAAATGCAAAATTGTTATTATT
65 CT-ATTTACGTCTGTTTAAGATTTTTTATGTCGTTAAAAGGTAAAAATGCAAAATTACTATTATT
* * *
20120365 GTACTATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTGTCCAAATAATTGAACTT
129 ATTCTATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTGTTCAAATAATTGAACTT
* * * * * * * * *
20120430 GATTTTCATAGTTAATATGTATGAAAAAGTTACTATTTATGTATATTTAGGATTTTTTGTGCCGT
194 GGTTTTCAAAGTTAATATGTATGAAAAAGTTATTGTTTATCTCTGTTTAAGATTTTTTATGCCGT
** * *
20120495 TAAAAGG-TGAAA-GT--ATTTGCTATTATTGTTCTATTTTAACAGTTTGGATAGTTTAAATACA
259 TAAAAGGCAAAAATGTAAATTTGCTATTATTGTTCTATTTTAACAGTTTGGATGGTTTCAATACA
* *
20120556 TGATATTAAATTTATCCAAATGATTGAACTTGGTTTT
324 TGATATTAAACTTATCCGAATGATTGAACTTGGTTTT
20120593 TATGGTTGAT
Statistics
Matches: 1094, Mismatches: 183, Indels: 75
0.81 0.14 0.06
Matches are distributed among these distances:
471 2 0.00
472 296 0.27
473 88 0.08
474 14 0.01
475 1 0.00
478 2 0.00
480 170 0.16
481 15 0.01
482 85 0.08
483 110 0.10
484 64 0.06
485 6 0.01
486 25 0.02
487 167 0.15
488 49 0.04
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.43
Consensus pattern (472 bp):
ATGATATTAAACTTGTTCGAATGATTGAACTTGGTTTTCATAATTAATATGTGTGAAAAAGTTAC
TATTTACGTCTGTTTAAGATTTTTTATGTCGTTAAAAGGTAAAAATGCAAAATTACTATTATTAT
TCTATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTGTTCAAATAATTGAACTTGG
TTTTCAAAGTTAATATGTATGAAAAAGTTATTGTTTATCTCTGTTTAAGATTTTTTATGCCGTTA
AAAGGCAAAAATGTAAATTTGCTATTATTGTTCTATTTTAACAGTTTGGATGGTTTCAATACATG
ATATTAAACTTATCCGAATGATTGAACTTGGTTTTATAGTTAAATGTGTGAATATTTTACATCTG
TTTAGGACTTTTTATGCGTTAAAAGGTAAAAGTAAAATTTGCTATTATTGTTCTATTTTAACAGT
TTGGATAGTTTCAATAC
Found at i:20121641 original size:19 final size:19
Alignment explanation
Indices: 20121617--20121654 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
20121607 GTTTATGGAA
* *
20121617 TTTTAAACTTGTTTTATTT
1 TTTTAAACATGTTCTATTT
20121636 TTTTAAACATGTTCTATTT
1 TTTTAAACATGTTCTATTT
20121655 AATGATAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.08, G:0.05, T:0.63
Consensus pattern (19 bp):
TTTTAAACATGTTCTATTT
Found at i:20121781 original size:33 final size:34
Alignment explanation
Indices: 20121741--20121813 Score: 94
Period size: 34 Copynumber: 2.2 Consensus size: 34
20121731 TCGTTAAATG
* *
20121741 CCAAATTTAGT-GCACTTTCTACTATAAATGTCA
1 CCAAATTTAATAGCACTTTCTACTATAAACGTCA
* **
20121774 CTAAATTTAATAGCGGTTTCTACTATAAACGTCA
1 CCAAATTTAATAGCACTTTCTACTATAAACGTCA
20121808 CCAAAT
1 CCAAAT
20121814 GCAAATTTGG
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
33 9 0.27
34 24 0.73
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.34
Consensus pattern (34 bp):
CCAAATTTAATAGCACTTTCTACTATAAACGTCA
Found at i:20125772 original size:30 final size:30
Alignment explanation
Indices: 20125736--20125803 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
20125726 AGACAATTAA
20125736 ATTTATTTCGAATC-AATTAAACCATTAAAT
1 ATTTATTT-GAATCAAATTAAACCATTAAAT
** * *
20125766 ATTTATTTTTATCAAATTAAATCTTTAAAT
1 ATTTATTTGAATCAAATTAAACCATTAAAT
20125796 ATTTATTT
1 ATTTATTT
20125804 TTACTTTAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 3 0.09
30 30 0.91
ACGTcount: A:0.40, C:0.09, G:0.01, T:0.50
Consensus pattern (30 bp):
ATTTATTTGAATCAAATTAAACCATTAAAT
Found at i:20125804 original size:30 final size:30
Alignment explanation
Indices: 20125750--20125806 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
20125740 ATTTCGAATC
20125750 AATTAAACCATTAAATATTTATTTTTATCA
1 AATTAAACCATTAAATATTTATTTTTATCA
* *
20125780 AATTAAATCTTTAAATATTTATTTTTA
1 AATTAAACCATTAAATATTTATTTTTA
20125807 CTTTAATTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (30 bp):
AATTAAACCATTAAATATTTATTTTTATCA
Found at i:20126973 original size:9 final size:10
Alignment explanation
Indices: 20126939--20126973 Score: 56
Period size: 9 Copynumber: 3.7 Consensus size: 10
20126929 GAGGGACGTC
20126939 ATCTATACT-
1 ATCTATACTA
20126948 ATCTATACTA
1 ATCTATACTA
20126958 ATCTATACTA
1 ATCTATACTA
20126968 AT-TATA
1 ATCTATA
20126974 TTAAAATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 13 0.52
10 12 0.48
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.43
Consensus pattern (10 bp):
ATCTATACTA
Found at i:20141911 original size:27 final size:27
Alignment explanation
Indices: 20141866--20141917 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
20141856 AAGTTCAGTC
* **
20141866 TATTGGGTTTATTTGGGCTTGGTGCTT
1 TATTGGGTTTACTAAGGCTTGGTGCTT
20141893 TATTGGGTTTACTAAGGCTTGGTGC
1 TATTGGGTTTACTAAGGCTTGGTGC
20141918 ACCTACACTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.12, C:0.10, G:0.33, T:0.46
Consensus pattern (27 bp):
TATTGGGTTTACTAAGGCTTGGTGCTT
Found at i:20147855 original size:49 final size:48
Alignment explanation
Indices: 20147780--20148568 Score: 735
Period size: 48 Copynumber: 16.1 Consensus size: 48
20147770 GTTATTTAAA
*
20147780 ATCTTGAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATCTC
1 ATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTC
* * * *
20147828 ATCTTGAAAAGGGCTCCTCTCAGCAGAGGCTCAATAACTTTAAAAATTTT
1 ATCTTGAAAA-AGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTC
* * *
20147878 ATC-TGAAAAAGCTCATCTCAACAGAGGCTTAACAACTTTAAAATC-C
1 ATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTC
* *
20147924 ATCTT-AAAAGGGGCTCTTCTCAGCAGAGGCTCAACAACTTTAAAAATCTC
1 ATCTTGAAAA--AGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTC
* * * * * *
20147974 ATC-TGAAAAAGCTCCACTCAACAAAAGCTTAATAACTTTAAAATC-C
1 ATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTC
*
20148020 ATCTTGAAAAAGGCTCCTCTTC-GCAAAGGCTCAACAACTTTAAAATCTC
1 ATCTTGAAAAA-GCTCCTC-TCAGCAGAGGCTCAACAACTTTAAAATCTC
* * * *
20148069 AT-TTGGAAAAGGGCTCCTCTCAGCAAAAGCTCAACAACTTTAAAAATTTC
1 ATCTT-GAAAA-AGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTC
* *
20148119 AT-TTGGAAAAGCTCCTATCAGCAGAGGCTCAACAACTTTAAAAAATTCTC
1 ATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT--AAAA-TCTC
* * * *
20148169 ATATTGAAAAAAGCTCCTTTCAGCAGAGGCTTAACAACTCTAAAAAT-TC
1 ATCTTG-AAAAAGCTCCTCTCAGCAGAGGCTCAACAACT-TTAAAATCTC
* * *
20148218 ATCTTGAAAATGGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATTTC
1 ATCTTGAAAA-AGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTC
* * * * *
20148267 AT-TTAGAAAAGGGCTCCTCTTAGCAAAGGCTCAACGACTTTAAAA-ATC
1 ATCTT-GAAAA-AGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTC
* ** *
20148315 ATCTTGAAAAGAGCTCCTCTTAGCAGAGGCTCAGTAACTTTAAAAAT-TT
1 ATCTTGAAAA-AGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTC
* * * *
20148364 A-CTTTGGAAAAGCTCCTCTCAGCAGAGGCTTAACATCTTTAAAAAAAAATTCTT
1 ATC-TTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT-----AAAA-TCTC
* *
20148418 ATCTTGAAAAAAGCTCTTCTCAGCAGAGACTCAACAACTTTAAAAATCTC
1 ATCTTG-AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTC
* * *
20148468 ATCTTGAAAAAAGCTCCTCTCAGCAAAGGCTTAACGACTTTAAAATCTC
1 ATCTTG-AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTC
* * *
20148517 -TTTTCG-AAAAGCTCCTCTCAGTAGAGGCTCAACAATTTTAAAATCTC
1 ATCTT-GAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTC
20148564 ATCTT
1 ATCTT
20148569 TTCTCAAAAC
Statistics
Matches: 619, Mismatches: 84, Indels: 76
0.79 0.11 0.10
Matches are distributed among these distances:
46 11 0.02
47 55 0.09
48 219 0.35
49 177 0.29
50 73 0.12
51 12 0.02
52 34 0.05
53 2 0.00
54 6 0.01
55 30 0.05
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (48 bp):
ATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTC
Found at i:20148133 original size:97 final size:96
Alignment explanation
Indices: 20147783--20148565 Score: 766
Period size: 97 Copynumber: 8.0 Consensus size: 96
20147773 ATTTAAAATC
* * * *
20147783 TTGAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTT-AAAATCTCATCTTGAAAAGGGCTCCTC
1 TTGAAAAAGCTCCTCTCAGCAAAGGCTTAACAACTTTAAAAAT-TCATCTTGAAAA-AGCTCCTC
* * *
20147847 TCAGCAGAGGCTCAATAACTTTAAAAATTTTAT
64 TCAGCAGAGGCTCAACAACTTTAAAAATCTCAT
* * * * * * *
20147880 CTGAAAAAGCTCATCTCAACAGAGGCTTAACAACTTT-AAAATCCATCTT-AAAAGGGGCTCTTC
1 TTGAAAAAGCTCCTCTCAGCAAAGGCTTAACAACTTTAAAAATTCATCTTGAAAA--AGCTCCTC
20147943 TCAGCAGAGGCTCAACAACTTTAAAAATCTCAT
64 TCAGCAGAGGCTCAACAACTTTAAAAATCTCAT
* * * * * *
20147976 CTGAAAAAGCTCCACTCAACAAAAGCTTAATAACTTT-AAAATCCATCTTGAAAAAGGCTCCTCT
1 TTGAAAAAGCTCCTCTCAGCAAAGGCTTAACAACTTTAAAAATTCATCTTGAAAAA-GCTCCTC-
*
20148040 TC-GCAAAGGCTCAACAACTTT-AAAATCTCAT
64 TCAGCAGAGGCTCAACAACTTTAAAAATCTCAT
* * * *
20148071 TTGGAAAAGGGCTCCTCTCAGCAAAAGCTCAACAACTTTAAAAATTTCAT-TTGGAAAAGCTCCT
1 TT-GAAAA-AGCTCCTCTCAGCAAAGGCTTAACAACTTTAAAAA-TTCATCTTGAAAAAGCTCCT
*
20148135 ATCAGCAGAGGCTCAACAACTTTAAAAAATTCTCAT
63 CTCAGCAGAGGCTCAACAACTTT-AAAAA-TCTCAT
* * * * *
20148171 ATTGAAAAAAGCTCCTTTCAGCAGAGGCTTAACAACTCTAAAAATTCATCTTGAAAATGGCTCAT
1 -TTG-AAAAAGCTCCTCTCAGCAAAGGCTTAACAACTTTAAAAATTCATCTTGAAAA-AGCTCCT
*
20148236 CTCAGCAGAGGCTCAACAACTTT-AAAATTTCAT
63 CTCAGCAGAGGCTCAACAACTTTAAAAATCTCAT
* * * *
20148269 TTAGAAAAGGGCTCCTCTTAGCAAAGGCTCAACGACTTTAAAAA-TCATCTTGAAAAGAGCTCCT
1 TT-GAAAA-AGCTCCTCTCAGCAAAGGCTTAACAACTTTAAAAATTCATCTTGAAAA-AGCTCCT
* ** *
20148333 CTTAGCAGAGGCTCAGTAACTTTAAAAAT-TTACT
63 CTCAGCAGAGGCTCAACAACTTTAAAAATCTCA-T
* * *
20148367 TTGGAAAAGCTCCTCTCAGCAGAGGCTTAACATCTTTAAAAAAAAATTCTTATCTTGAAAAAAGC
1 TTGAAAAAGCTCCTCTCAGCAAAGGCTTAACAACTTT----AAAAATTC--ATCTTG-AAAAAGC
* *
20148432 TCTTCTCAGCAGAGACTCAACAACTTTAAAAATCTCAT
59 TCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCAT
* *
20148470 CTTGAAAAAAGCTCCTCTCAGCAAAGGCTTAACGACTTT-AAAATCTC-TTTTCG-AAAAGCTCC
1 -TTG-AAAAAGCTCCTCTCAGCAAAGGCTTAACAACTTTAAAAAT-TCATCTT-GAAAAAGCTCC
* *
20148532 TCTCAGTAGAGGCTCAACAA-TTTTAAAATCTCAT
62 TCTCAGCAGAGGCTCAACAACTTTAAAAATCTCAT
20148566 CTTTTCTCAA
Statistics
Matches: 580, Mismatches: 73, Indels: 67
0.81 0.10 0.09
Matches are distributed among these distances:
95 15 0.03
96 156 0.27
97 169 0.29
98 56 0.10
99 18 0.03
100 52 0.09
101 37 0.06
103 38 0.07
104 9 0.02
105 30 0.05
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (96 bp):
TTGAAAAAGCTCCTCTCAGCAAAGGCTTAACAACTTTAAAAATTCATCTTGAAAAAGCTCCTCTC
AGCAGAGGCTCAACAACTTTAAAAATCTCAT
Found at i:20148439 original size:55 final size:53
Alignment explanation
Indices: 20148371--20148512 Score: 175
Period size: 50 Copynumber: 2.7 Consensus size: 53
20148361 TTTACTTTGG
*
20148371 AAAAGCTCCTCTCAGCAGAGGCTTAACATCTTTAAAAAAAAATTCTTATCTTGAA
1 AAAAGCTCCTCTCAGCAGAGGCTTAACA-CTTTAAAAAAAAA-TCTCATCTTGAA
* * *
20148426 AAAAGCTCTTCTCAGCAGAGACTCAACAACTTT----AAAAATCTCATCTTGAA
1 AAAAGCTCCTCTCAGCAGAGGCTTAAC-ACTTTAAAAAAAAATCTCATCTTGAA
*
20148476 AAAAGCTCCTCTCAGCAAAGGCTTAACGACTTTAAAA
1 AAAAGCTCCTCTCAGCAGAGGCTTAAC-ACTTTAAAA
20148513 TCTCTTTTCG
Statistics
Matches: 73, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
50 39 0.53
51 5 0.07
55 28 0.38
56 1 0.01
ACGTcount: A:0.40, C:0.23, G:0.11, T:0.26
Consensus pattern (53 bp):
AAAAGCTCCTCTCAGCAGAGGCTTAACACTTTAAAAAAAAATCTCATCTTGAA
Found at i:20152670 original size:3 final size:3
Alignment explanation
Indices: 20152662--20152714 Score: 65
Period size: 3 Copynumber: 17.7 Consensus size: 3
20152652 AGTTATATAT
*
20152662 TTA TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA TTTA TTA AT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
20152706 TTTA TTA TT
1 -TTA TTA TT
20152715 TTTTTTTGGT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
2 3 0.07
3 35 0.80
4 6 0.14
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:20152679 original size:20 final size:20
Alignment explanation
Indices: 20152654--20152714 Score: 72
Period size: 20 Copynumber: 3.0 Consensus size: 20
20152644 ATGTATATAG
20152654 TTATATATTTATTATTATTA
1 TTATATATTTATTATTATTA
20152674 TTATAT-TATTATTATTATTA
1 TTATATAT-TTATTATTATTA
20152694 TT-TATTAATTTATTTATTATT
1 TTATA-T-ATTTA-TTATTATT
20152715 TTTTTTTGGT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
19 3 0.08
20 21 0.58
21 3 0.08
22 9 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TTATATATTTATTATTATTA
Found at i:20152680 original size:11 final size:10
Alignment explanation
Indices: 20152665--20152714 Score: 66
Period size: 11 Copynumber: 4.8 Consensus size: 10
20152655 TATATATTTA
20152665 TTATTATTAT
1 TTATTATTAT
20152675 TATATTATTA-
1 T-TATTATTAT
20152685 TTATTATTAT
1 TTATTATTAT
20152695 TTATTAATTTAT
1 TTATT-A-TTAT
20152707 TTATTATT
1 TTATTATT
20152715 TTTTTTTGGT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
9 8 0.22
10 9 0.25
11 10 0.28
12 9 0.25
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
TTATTATTAT
Found at i:20153173 original size:25 final size:25
Alignment explanation
Indices: 20153121--20153173 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
20153111 CTGAGAGTGA
* *
20153121 AAAAAATTTTTAGAAGTTTTTGGCG
1 AAAAAATTTTTAGAAATTTCTGGCG
*
20153146 AAAAAATTTTCTGGAAATTTCTGG-G
1 AAAAAATTTT-TAGAAATTTCTGGCG
20153171 AAA
1 AAA
20153174 TTTCCAGATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 14 0.58
26 10 0.42
ACGTcount: A:0.40, C:0.06, G:0.19, T:0.36
Consensus pattern (25 bp):
AAAAAATTTTTAGAAATTTCTGGCG
Found at i:20153281 original size:20 final size:20
Alignment explanation
Indices: 20153266--20153305 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
20153256 TGCCCAGTTT
20153266 CCGACGAAGAATCCCAGAAA
1 CCGACGAAGAATCCCAGAAA
*
20153286 CCGACGAAGATTCCCAGAAA
1 CCGACGAAGAATCCCAGAAA
20153306 TCGATGAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.42, C:0.30, G:0.20, T:0.07
Consensus pattern (20 bp):
CCGACGAAGAATCCCAGAAA
Found at i:20153771 original size:11 final size:11
Alignment explanation
Indices: 20153755--20153800 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
20153745 TTAATATTCT
20153755 TTTTATCTTTA
1 TTTTATCTTTA
*
20153766 TTTTATTTTTA
1 TTTTATCTTTA
20153777 TTTTTAT-TTTA
1 -TTTTATCTTTA
*
20153788 CTTT-TCTTTA
1 TTTTATCTTTA
20153798 TTT
1 TTT
20153801 ATTTATTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
9 1 0.03
10 9 0.30
11 14 0.47
12 6 0.20
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTTATCTTTA
Found at i:20153775 original size:6 final size:6
Alignment explanation
Indices: 20153754--20153823 Score: 56
Period size: 6 Copynumber: 11.7 Consensus size: 6
20153744 TTTAATATTC
* * *
20153754 TTTTTA TCTTTA -TTTTA TTTTTA TTTTTA -TTTTA CTTTTC TTTATT-
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT-TTA
*
20153800 TATTTA TTTTTA TTATTCTA TTTT
1 TTTTTA TTTTTA TT-TT-TA TTTT
20153824 CTTTAAATAA
Statistics
Matches: 52, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
5 11 0.21
6 31 0.60
7 6 0.12
8 4 0.08
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:20153776 original size:17 final size:17
Alignment explanation
Indices: 20153754--20153823 Score: 70
Period size: 17 Copynumber: 3.9 Consensus size: 17
20153744 TTTAATATTC
*
20153754 TTTTTATCTTTATTTTA
1 TTTTTATATTTATTTTA
*
20153771 TTTTTATTTTTATTTTA
1 TTTTTATATTTATTTTA
*
20153788 CTTTTCTTTATTTA-TTTA
1 -TTTT-TATATTTATTTTA
20153806 TTTTTATTATTCTATTTT
1 TTTTTA-TATT-TATTTT
20153824 CTTTAAATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
16 1 0.02
17 24 0.55
18 10 0.23
19 9 0.20
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTTATATTTATTTTA
Found at i:20153799 original size:32 final size:31
Alignment explanation
Indices: 20153744--20153828 Score: 93
Period size: 32 Copynumber: 2.7 Consensus size: 31
20153734 ATTAGGTTTA
* *
20153744 TTTAATATTCTTTTTATCTTTATTTTATTT-TT
1 TTTATTATTCTATTT-TCTTTA-TTTATTTATT
*
20153776 ATTT-TTATTTTACTTTTCTTTATTTATTTATT
1 -TTTATTATTCTA-TTTTCTTTATTTATTTATT
20153808 TTTATTATTCTATTTTCTTTA
1 TTTATTATTCTATTTTCTTTA
20153829 AATAAAAATC
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
31 19 0.42
32 20 0.44
33 6 0.13
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (31 bp):
TTTATTATTCTATTTTCTTTATTTATTTATT
Found at i:20153823 original size:13 final size:14
Alignment explanation
Indices: 20153714--20153823 Score: 53
Period size: 14 Copynumber: 7.1 Consensus size: 14
20153704 TTTTGTTTTA
20153714 TTTATTTATTTATT
1 TTTATTTATTTATT
*
20153728 TATTAGATTAGGTTTATT
1 T-TTA-TTTA--TTTATT
* * *
20153746 TAATATTCTTTTTATC
1 T-TTATT-TATTTATT
20153762 TTTATTTTATTTTTATT
1 TTTA-TTTA--TTTATT
*
20153779 TTTATTTTACTTT-TC
1 TTTA-TTTA-TTTATT
20153794 TTTATTTATTTATT
1 TTTATTTATTTATT
20153808 TTTA-TTATTCTATT
1 TTTATTTATT-TATT
20153822 TT
1 TT
20153824 CTTTAAATAA
Statistics
Matches: 75, Mismatches: 11, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
13 8 0.11
14 16 0.21
15 11 0.15
16 14 0.19
17 15 0.20
18 11 0.15
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.72
Consensus pattern (14 bp):
TTTATTTATTTATT
Found at i:20153910 original size:59 final size:60
Alignment explanation
Indices: 20153833--20154008 Score: 245
Period size: 59 Copynumber: 3.0 Consensus size: 60
20153823 TCTTTAAATA
* *
20153833 AAAATCAAAAATTCCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTT-
1 AAAAT-AAAATTTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTG
* *
20153893 AGAAAT-AAATTTTCAAAAAAAGA-ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
1 A-AAATAAAATTTTCAAAAAAA-ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTG
20153953 AAAATCAAAATTTTC--AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTC
1 AAAAT-AAAATTTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTC
20154009 CTACAGAAAA
Statistics
Matches: 104, Mismatches: 6, Indels: 13
0.85 0.05 0.11
Matches are distributed among these distances:
58 1 0.01
59 88 0.85
60 3 0.03
61 12 0.12
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.34
Consensus pattern (60 bp):
AAAATAAAATTTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTG
Found at i:20154061 original size:14 final size:14
Alignment explanation
Indices: 20154042--20154068 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
20154032 CATTCCTTTC
20154042 TATTTTGATTTTTT
1 TATTTTGATTTTTT
20154056 TATTTTGATTTTT
1 TATTTTGATTTTT
20154069 CTTTAACTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (14 bp):
TATTTTGATTTTTT
Found at i:20157904 original size:17 final size:17
Alignment explanation
Indices: 20157884--20157938 Score: 76
Period size: 17 Copynumber: 3.2 Consensus size: 17
20157874 AAAAGATGAT
20157884 GAAAAAAA-AAAAAGAAA
1 GAAAAAAAGAAAAA-AAA
20157901 GAAAAAAAGAAAAAAAA
1 GAAAAAAAGAAAAAAAA
*
20157918 GAAAAAATGAGAAAAAAA
1 GAAAAAAAGA-AAAAAAA
20157936 GAA
1 GAA
20157939 GGAAAAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
17 20 0.57
18 15 0.43
ACGTcount: A:0.84, C:0.00, G:0.15, T:0.02
Consensus pattern (17 bp):
GAAAAAAAGAAAAAAAA
Found at i:20157905 original size:12 final size:12
Alignment explanation
Indices: 20157890--20157946 Score: 60
Period size: 12 Copynumber: 4.5 Consensus size: 12
20157880 TGATGAAAAA
20157890 AAAAAAAGAAAG
1 AAAAAAAGAAAG
*
20157902 AAAAAAAGAAAA
1 AAAAAAAGAAAG
*
20157914 AAAAGAAAAAATGAG
1 AAAA-AAAGAA--AG
*
20157929 AAAAAAAGAAGG
1 AAAAAAAGAAAG
20157941 AAAAAA
1 AAAAAA
20157947 TGAGAAAATG
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
12 22 0.59
13 5 0.14
14 5 0.14
15 5 0.14
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (12 bp):
AAAAAAAGAAAG
Found at i:20157909 original size:8 final size:8
Alignment explanation
Indices: 20157884--20157938 Score: 65
Period size: 8 Copynumber: 6.4 Consensus size: 8
20157874 AAAAGATGAT
20157884 GAAAAAAA
1 GAAAAAAA
*
20157892 AAAAAGAAA
1 GAAAA-AAA
20157901 GAAAAAAA
1 GAAAAAAA
20157909 GAAAAAAAA
1 G-AAAAAAA
20157918 GAAAAAATGA
1 GAAAAAA--A
20157928 GAAAAAAA
1 GAAAAAAA
20157936 GAA
1 GAA
20157939 GGAAAAAATG
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
8 18 0.44
9 15 0.37
10 8 0.20
ACGTcount: A:0.84, C:0.00, G:0.15, T:0.02
Consensus pattern (8 bp):
GAAAAAAA
Found at i:20157955 original size:30 final size:27
Alignment explanation
Indices: 20157906--20157967 Score: 79
Period size: 30 Copynumber: 2.2 Consensus size: 27
20157896 AGAAAGAAAA
20157906 AAAGAAAAAAAAGAAAAAATGAGAAAA
1 AAAGAAAAAAAAGAAAAAATGAGAAAA
* *
20157933 AAAGAAGGAAAAAATGAGAAAATGAAAAAA
1 AAAGAA--AAAAAA-GAAAAAATGAGAAAA
20157963 AAAGA
1 AAAGA
20157968 TTCAAATTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
27 6 0.20
29 6 0.20
30 18 0.60
ACGTcount: A:0.77, C:0.00, G:0.18, T:0.05
Consensus pattern (27 bp):
AAAGAAAAAAAAGAAAAAATGAGAAAA
Found at i:20159228 original size:43 final size:43
Alignment explanation
Indices: 20159181--20159326 Score: 242
Period size: 42 Copynumber: 3.4 Consensus size: 43
20159171 AAAGTTCCGT
20159181 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCCCAAAGTCGTGG
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCCCAAAGTCGTGG
20159224 TGCCTCTGTTTAGAGGAGCAATTTACTTTT-CCAAAGTCGTGG
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCCCAAAGTCGTGG
* *
20159266 TGCCTCTGTTTAGAGGAGCAATTTAC-TTTCTCAAAGTCGTTG
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCCCAAAGTCGTGG
* *
20159308 AGCCTCTGCTTAGAGGAGC
1 TGCCTCTGTTTAGAGGAGC
20159327 TTTGGTAAAA
Statistics
Matches: 98, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
41 3 0.03
42 65 0.66
43 30 0.31
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.34
Consensus pattern (43 bp):
TGCCTCTGTTTAGAGGAGCAATTTACTTTTCCCAAAGTCGTGG
Found at i:20159271 original size:42 final size:41
Alignment explanation
Indices: 20159160--20159326 Score: 239
Period size: 42 Copynumber: 4.0 Consensus size: 41
20159150 GTCAAGGAGT
20159160 ATTTACTTTCCAAAGTTCCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTCCAAAG-T-CGTGGTGCCTCTGTTTAGAGGAGCA
20159201 ATTTACTTTTCCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTAC-TTT-CCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
20159244 ATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTAC-TTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* * *
20159286 ATTTACTTTCTCAAAGTCGTTGAGCCTCTGCTTAGAGGAGC
1 ATTTACTTTC-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
20159327 TTTGGTAAAA
Statistics
Matches: 118, Mismatches: 3, Indels: 9
0.91 0.02 0.07
Matches are distributed among these distances:
41 13 0.11
42 69 0.58
43 36 0.31
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (41 bp):
ATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
Found at i:20159350 original size:8 final size:8
Alignment explanation
Indices: 20159339--20159456 Score: 136
Period size: 8 Copynumber: 14.6 Consensus size: 8
20159329 TGGTAAAAAT
*
20159339 AAAAAATA
1 AAAAAACA
20159347 AAAAAACA
1 AAAAAACA
20159355 AAAAAAC-
1 AAAAAACA
20159362 AAAAAAC-
1 AAAAAACA
20159369 -AAAAACA
1 AAAAAACA
*
20159376 AAAAAATA
1 AAAAAACA
*
20159384 AAAATA-A
1 AAAAAACA
20159391 AAAAAACA
1 AAAAAACA
20159399 AAAAAACAA
1 AAAAAAC-A
20159408 AAAAACACA
1 AAAAA-ACA
20159417 AAAAACACA
1 AAAAA-ACA
20159426 AAAAACACA
1 AAAAA-ACA
20159435 AAAAAACA
1 AAAAAACA
20159443 AAAAAAGCA
1 AAAAAA-CA
20159452 AAAAA
1 AAAAA
20159457 TGACAATGTT
Statistics
Matches: 100, Mismatches: 4, Indels: 11
0.87 0.03 0.10
Matches are distributed among these distances:
6 6 0.06
7 13 0.13
8 42 0.42
9 37 0.37
10 2 0.02
ACGTcount: A:0.85, C:0.12, G:0.01, T:0.03
Consensus pattern (8 bp):
AAAAAACA
Found at i:20159358 original size:9 final size:9
Alignment explanation
Indices: 20159346--20159456 Score: 115
Period size: 9 Copynumber: 12.6 Consensus size: 9
20159336 AATAAAAAAT
20159346 AAAAAAAC-
1 AAAAAAACA
20159354 AAAAAAACA
1 AAAAAAACA
20159363 AAAAACAA-A
1 AAAAA-AACA
20159372 AACAAAAA-A
1 AA-AAAAACA
* *
20159381 ATAAAAATA
1 AAAAAAACA
20159390 AAAAAAAC-
1 AAAAAAACA
20159398 AAAAAAAC-
1 AAAAAAACA
20159406 AAAAAAACA
1 AAAAAAACA
*
20159415 CAAAAAACA
1 AAAAAAACA
*
20159424 CAAAAAACA
1 AAAAAAACA
20159433 CAAAAAAACA
1 -AAAAAAACA
*
20159443 AAAAAAGCA
1 AAAAAAACA
20159452 AAAAA
1 AAAAA
20159457 TGACAATGTT
Statistics
Matches: 91, Mismatches: 6, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
8 29 0.32
9 49 0.54
10 13 0.14
ACGTcount: A:0.85, C:0.13, G:0.01, T:0.02
Consensus pattern (9 bp):
AAAAAAACA
Found at i:20159396 original size:44 final size:43
Alignment explanation
Indices: 20159334--20159456 Score: 151
Period size: 44 Copynumber: 2.8 Consensus size: 43
20159324 AGCTTTGGTA
*
20159334 AAAATAAAAAATAAAAAAACAAAAAAACAAAAAACAAAAACAAA
1 AAAATAAAAAACAAAAAAACAAAAAAACAAAAAACAAAAA-AAA
*
20159378 AAAATAAAAATA-AAAAAAACAAAAAAACAAAAAAACACAAAAAAC
1 AAAATAAAAA-ACAAAAAAACAAAAAAAC-AAAAAACA-AAAAAAA
* *
20159423 ACAA-AAAACACAAAAAAACAAAAAAAGCAAAAAA
1 AAAATAAAAAACAAAAAAACAAAAAAA-CAAAAAA
20159457 TGACAATGTT
Statistics
Matches: 71, Mismatches: 3, Indels: 10
0.85 0.04 0.12
Matches are distributed among these distances:
43 1 0.01
44 51 0.72
45 15 0.21
46 4 0.06
ACGTcount: A:0.85, C:0.11, G:0.01, T:0.03
Consensus pattern (43 bp):
AAAATAAAAAACAAAAAAACAAAAAAACAAAAAACAAAAAAAA
Found at i:20159456 original size:1 final size:1
Alignment explanation
Indices: 20159333--20159448 Score: 79
Period size: 1 Copynumber: 116.0 Consensus size: 1
20159323 GAGCTTTGGT
* * * * * * * * *
20159333 AAAAATAAAAAATAAAAAAACAAAAAAACAAAAAACAAAAACAAAAAAATAAAAATAAAAAAAAC
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * * *
20159398 AAAAAAACAAAAAAACACAAAAAACACAAAAAACACAAAAAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
20159449 GCAAAAAATG
Statistics
Matches: 81, Mismatches: 34, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
1 81 1.00
ACGTcount: A:0.85, C:0.11, G:0.00, T:0.03
Consensus pattern (1 bp):
A
Found at i:20159704 original size:3 final size:3
Alignment explanation
Indices: 20159696--20159756 Score: 88
Period size: 3 Copynumber: 19.7 Consensus size: 3
20159686 AGTTATATAT
20159696 TTA TTA TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
20159744 TTTA TTTA TTA TT
1 -TTA -TTA TTA TT
20159757 TTTTTTTGGT
Statistics
Matches: 56, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.04
3 43 0.77
4 11 0.20
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:20159716 original size:23 final size:23
Alignment explanation
Indices: 20159688--20159756 Score: 97
Period size: 23 Copynumber: 3.0 Consensus size: 23
20159678 ATGTATATAG
20159688 TTATATATTTATTATTATTATTA
1 TTATATATTTATTATTATTATTA
20159711 TTATAT-TATTATTATTATTATTA
1 TTATATAT-TTATTATTATTATTA
20159734 TTAT-TATTTATTTATTTATTATT
1 TTATATATTTA-TTA-TTATTATT
20159757 TTTTTTTGGT
Statistics
Matches: 42, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
22 5 0.12
23 29 0.69
24 8 0.19
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (23 bp):
TTATATATTTATTATTATTATTA
Found at i:20159852 original size:18 final size:18
Alignment explanation
Indices: 20159818--20159851 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
20159808 TCTGTTAATT
20159818 TTATCTGATTCTTTTTTA
1 TTATCTGATTCTTTTTTA
20159836 TTATCTGATT-TTTTTT
1 TTATCTGATTCTTTTTT
20159852 TTCTTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.15, C:0.09, G:0.06, T:0.71
Consensus pattern (18 bp):
TTATCTGATTCTTTTTTA
Found at i:20160212 original size:25 final size:25
Alignment explanation
Indices: 20160160--20160212 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
20160150 CTGGGAGTGA
* *
20160160 AAAAAATTTTTAGAAGTTTTTGGCG
1 AAAAAATTTTTAGAAATTTCTGGCG
*
20160185 AAAAAATTTTCTGGAAATTTCTGG-G
1 AAAAAATTTT-TAGAAATTTCTGGCG
20160210 AAA
1 AAA
20160213 TTTTCAGATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 14 0.58
26 10 0.42
ACGTcount: A:0.40, C:0.06, G:0.19, T:0.36
Consensus pattern (25 bp):
AAAAAATTTTTAGAAATTTCTGGCG
Found at i:20160328 original size:20 final size:20
Alignment explanation
Indices: 20160305--20160344 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
20160295 GCCCAGTTTT
20160305 CGACGAAGAATCCCAGAAAC
1 CGACGAAGAATCCCAGAAAC
*
20160325 CGACGAAGATTCCCAGAAAC
1 CGACGAAGAATCCCAGAAAC
20160345 TGGTGAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.42, C:0.30, G:0.20, T:0.07
Consensus pattern (20 bp):
CGACGAAGAATCCCAGAAAC
Found at i:20160362 original size:11 final size:11
Alignment explanation
Indices: 20160346--20160376 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
20160336 CCCAGAAACT
20160346 GGTGAATTTTC
1 GGTGAATTTTC
20160357 GGTGAATTTTC
1 GGTGAATTTTC
20160368 GGTGAATTT
1 GGTGAATTT
20160377 CCAGATTCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.19, C:0.06, G:0.29, T:0.45
Consensus pattern (11 bp):
GGTGAATTTTC
Found at i:20160809 original size:6 final size:6
Alignment explanation
Indices: 20160788--20160867 Score: 58
Period size: 6 Copynumber: 12.7 Consensus size: 6
20160778 TTTAATATTC
*
20160788 TTTTTA TCTTTA -TTTTA TTTTTA TTTTT- TGTTTTA CTTTTCT- TTATTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA T-TTTTA -TTTT-TA TT-TTTA
*
20160837 TTTTTA TTTATTT TTTTTA TTATTCTA TTTT
1 TTTTTA TTT-TTA TTTTTA TT-TT-TA TTTT
20160868 CTTTAAATAA
Statistics
Matches: 60, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
5 5 0.08
6 33 0.55
7 16 0.27
8 6 0.10
ACGTcount: A:0.15, C:0.05, G:0.01, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:20160983 original size:59 final size:59
Alignment explanation
Indices: 20160877--20161052 Score: 234
Period size: 59 Copynumber: 2.9 Consensus size: 59
20160867 TCTTTAAATA
* * *
20160877 AAAATCAAAAATTCCAAAAAAAAATATTTTTGGGGAAAGTTGAAAGTATCAATTTTCCTT-
1 AAAAT-AAAATTTTCAAAAAAAAA-ATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTG
20160937 AGAAAT-AAATTTTCAAAAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
1 A-AAATAAAATTTTCAAAAAAAAAATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTG
*
20160997 AAAATCAAAATTTTC--AAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAT-AAAATTTTCAAAAAAAAAATTTTTGG-GAAAAGTTGAAAGTATCAATTTTCC
20161053 CTACACAAAA
Statistics
Matches: 106, Mismatches: 4, Indels: 13
0.86 0.03 0.11
Matches are distributed among these distances:
58 8 0.08
59 84 0.79
60 2 0.02
61 12 0.11
ACGTcount: A:0.47, C:0.09, G:0.12, T:0.33
Consensus pattern (59 bp):
AAAATAAAATTTTCAAAAAAAAAATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTG
Found at i:20170996 original size:10 final size:10
Alignment explanation
Indices: 20170969--20171051 Score: 60
Period size: 10 Copynumber: 8.0 Consensus size: 10
20170959 CCACCTTCGA
20170969 TTTTTT-TTT
1 TTTTTTATTT
* *
20170978 TGTTCTATTT
1 TTTTTTATTT
20170988 TTTTTTATTT
1 TTTTTTATTT
20170998 TTTTTGTATATT
1 TTTTT-TAT-TT
*
20171010 TTTTGGTATTT
1 TTTT-TTATTT
* *
20171021 TGTATTATTT
1 TTTTTTATTT
*
20171031 TTTGTATATTT
1 TTT-TTTATTT
*
20171042 TTTTGTATTT
1 TTTTTTATTT
20171052 CATATTTTAT
Statistics
Matches: 57, Mismatches: 12, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
9 4 0.07
10 29 0.51
11 15 0.26
12 9 0.16
ACGTcount: A:0.12, C:0.01, G:0.08, T:0.78
Consensus pattern (10 bp):
TTTTTTATTT
Found at i:20171018 original size:12 final size:12
Alignment explanation
Indices: 20170972--20171071 Score: 63
Period size: 12 Copynumber: 8.6 Consensus size: 12
20170962 CCTTCGATTT
*
20170972 TTTTTTTGTTCTA
1 TTTTTTTG-TATA
*
20170985 TTTTTTTTTAT-
1 TTTTTTTGTATA
20170996 TTTTTTTGTATA
1 TTTTTTTGTATA
*
20171008 -TTTTTTG-GTA
1 TTTTTTTGTATA
20171018 ---TTTTGTAT-
1 TTTTTTTGTATA
20171026 TATTTTTTGTATA
1 T-TTTTTTGTATA
20171039 TTTTTTTGTAT-
1 TTTTTTTGTATA
*
20171050 TTCATATTTTATATA
1 TT--T-TTTTGTATA
20171065 TTTTTTT
1 TTTTTTT
20171072 CTAGACAAAT
Statistics
Matches: 70, Mismatches: 6, Indels: 23
0.71 0.06 0.23
Matches are distributed among these distances:
8 5 0.07
9 1 0.01
10 2 0.03
11 19 0.27
12 24 0.34
13 10 0.14
14 7 0.10
15 2 0.03
ACGTcount: A:0.15, C:0.02, G:0.07, T:0.76
Consensus pattern (12 bp):
TTTTTTTGTATA
Found at i:20171035 original size:31 final size:30
Alignment explanation
Indices: 20170988--20171051 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 30
20170978 TGTTCTATTT
*
20170988 TTTTTTATTTTTTTTGTATATTTTTTGGTA
1 TTTTGTATTTTTTTTGTATATTTTTTGGTA
*
20171018 TTTTGTATTATTTTTTGTATATTTTTTTGTA
1 TTTTGTATT-TTTTTTGTATATTTTTTGGTA
20171049 TTT
1 TTT
20171052 CATATTTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 8 0.26
31 23 0.74
ACGTcount: A:0.14, C:0.00, G:0.09, T:0.77
Consensus pattern (30 bp):
TTTTGTATTTTTTTTGTATATTTTTTGGTA
Found at i:20171066 original size:26 final size:24
Alignment explanation
Indices: 20171018--20171071 Score: 72
Period size: 26 Copynumber: 2.2 Consensus size: 24
20171008 TTTTTTGGTA
* *
20171018 TTTTGTATTATTTTTTGTATATTT
1 TTTTGTATTATATTTTATATATTT
20171042 TTTTGTATTTCATATTTTATATATTT
1 TTTTGTA-TT-ATATTTTATATATTT
20171068 TTTT
1 TTTT
20171072 CTAGACAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 7 0.27
25 2 0.08
26 17 0.65
ACGTcount: A:0.19, C:0.02, G:0.06, T:0.74
Consensus pattern (24 bp):
TTTTGTATTATATTTTATATATTT
Found at i:20171296 original size:65 final size:67
Alignment explanation
Indices: 20171189--20171583 Score: 349
Period size: 65 Copynumber: 6.0 Consensus size: 67
20171179 GTAAATGCAT
* * *
20171189 TGGGCTTAATATTTCATCAGGGGGCCAGCTAATCTGGGCTTAAATATTTCTTTAAAGGTTGGCTA
1 TGGGCTTAATATTTCATTA-GGGGCCAGCTAATCTGGGCTTAAATATTTCTTTAAAGGCTAGCTA
20171254 AAC
65 AAC
* * * * * * * * * * *
20171257 TGGGCTT-ACA-TTCATTTGGGGTCAACTAATTTGGGCTTAAATCTTTTTTTGAAGGCCAACTAG
1 TGGGCTTAATATTTCATTAGGGGCCAGCTAATCTGGGCTTAAATATTTCTTTAAAGGCTAGCTAA
20171320 AC
66 AC
* ** * * * * * *
20171322 TGGACTTAATATTTCATTAAAGGCTAGCGAATTTGGGCTT-AATATTT-ATTAGAGGCAAGCTAA
1 TGGGCTTAATATTTCATTAGGGGCCAGCTAATCTGGGCTTAAATATTTCTTTAAAGGCTAGCTAA
20171385 TA-
66 -AC
* * * * **
20171387 TAGGCTTAATATTTCATTAGGGGCCAGGTAATTTGGGCTT-AATATTTCTTTAAAGGCCATTTAA
1 TGGGCTTAATATTTCATTAGGGGCCAGCTAATCTGGGCTTAAATATTTCTTTAAAGGCTAGCTAA
20171451 AC
66 AC
* * * * * *
20171453 TGGGCTT-ACATTT-ATTGGGGGCCAGCTAATCTAGACTTGAATCTTTCTTTAAAGGCTAGCTAA
1 TGGGCTTAATATTTCATTAGGGGCCAGCTAATCTGGGCTTAAATATTTCTTTAAAGGCTAGCTAA
*
20171516 AT
66 AC
* * *
20171518 TGGGCTTAATATTTCATT-GAGGGTCAGCTAATCTGGGCTTAAATCTTTCTTTAAAGGATAGCTA
1 TGGGCTTAATATTTCATTAG-GGGCCAGCTAATCTGGGCTTAAATATTTCTTTAAAGGCTAGCTA
20171582 AA
65 AA
20171584 TTAGGCCTAC
Statistics
Matches: 258, Mismatches: 60, Indels: 19
0.77 0.18 0.06
Matches are distributed among these distances:
64 20 0.08
65 127 0.49
66 37 0.14
67 67 0.26
68 7 0.03
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (67 bp):
TGGGCTTAATATTTCATTAGGGGCCAGCTAATCTGGGCTTAAATATTTCTTTAAAGGCTAGCTAA
AC
Found at i:20171445 original size:33 final size:33
Alignment explanation
Indices: 20171189--20171574 Score: 210
Period size: 33 Copynumber: 11.7 Consensus size: 33
20171179 GTAAATGCAT
* **
20171189 TGGGCTTAATATTTCATCAGGGGGCCAGCTAATC
1 TGGGCTTAATATTTCATTA-AAGGCCAGCTAATC
* *** *
20171223 TGGGCTTAAATATTTCTTTAAAGGTTGGCTAAAC
1 TGGGCTT-AATATTTCATTAAAGGCCAGCTAATC
* *** * * *
20171257 TGGGCTT-ACA-TTCATTTGGGGTCAACTAATT
1 TGGGCTTAATATTTCATTAAAGGCCAGCTAATC
* ** * *
20171288 TGGGCTTAAATCTTTTTTTGAAGGCCAACTAGA-C
1 TGGGCTT-AATATTTCATTAAAGGCCAGCTA-ATC
* * * *
20171322 TGGACTTAATATTTCATTAAAGGCTAGCGAATT
1 TGGGCTTAATATTTCATTAAAGGCCAGCTAATC
* * *
20171355 TGGGCTTAATATTT-ATTAGAGGCAAGCTAATA
1 TGGGCTTAATATTTCATTAAAGGCCAGCTAATC
* ** * *
20171387 TAGGCTTAATATTTCATTAGGGGCCAGGTAATT
1 TGGGCTTAATATTTCATTAAAGGCCAGCTAATC
* ** *
20171420 TGGGCTTAATATTTCTTTAAAGGCCATTTAAAC
1 TGGGCTTAATATTTCATTAAAGGCCAGCTAATC
* ***
20171453 TGGGCTT-ACATTT-ATTGGGGGCCAGCTAATC
1 TGGGCTTAATATTTCATTAAAGGCCAGCTAATC
* * * * *
20171484 TAGACTTGAATCTTTCTTTAAAGGCTAGCTAAAT-
1 TGGGCTT-AATATTTCATTAAAGGCCAGCT-AATC
* * *
20171518 TGGGCTTAATATTTCATTGAGGGTCAGCTAATC
1 TGGGCTTAATATTTCATTAAAGGCCAGCTAATC
* *
20171551 TGGGCTTAAATCTTTCTTTAAAGG
1 TGGGCTT-AATATTTCATTAAAGG
20171575 ATAGCTAAAT
Statistics
Matches: 256, Mismatches: 83, Indels: 26
0.70 0.23 0.07
Matches are distributed among these distances:
31 35 0.14
32 38 0.15
33 103 0.40
34 66 0.26
35 14 0.05
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.36
Consensus pattern (33 bp):
TGGGCTTAATATTTCATTAAAGGCCAGCTAATC
Found at i:20171554 original size:98 final size:97
Alignment explanation
Indices: 20171211--20171558 Score: 286
Period size: 98 Copynumber: 3.5 Consensus size: 97
20171201 TTCATCAGGG
* ** * *
20171211 GGCCAGCT-AATCTGGGCTTAAATATTTCTTTAAAGGTTGGCTAAACTGGGCTTACATTCATTTG
1 GGCCAGCTAAAT-TGGGCTT-AATATTTCATTAAAGGTCAGCTAAACTGGGCTTACATTTATTAG
* * * * * *
20171275 GGGTCAACTAATTTGGGCTTAAATCTTTTTTTGAA
64 GGGCCAGCTAATATAGGCTT-AATCTTTCTTTAAA
* * * * * ** *
20171310 GGCCAACTAGACTGGACTTAATATTTCATTAAAGG-CTAGCGAATTTGGGCTTAATATTTATTAG
1 GGCCAGCTAAATTGGGCTTAATATTTCATTAAAGGTC-AGCTAAACTGGGCTT-ACATTTATTAG
* * * * **
20171374 AGGCAAGCTAATATAGGCTTAATATTTCATTAGG
64 GGGCCAGCTAATATAGGCTTAATCTTTCTTTAAA
* * * * ** *
20171408 GGCCAGGTAATTTGGGCTTAATATTTCTTTAAAGGCCATTTAAACTGGGCTTACATTTATTGGGG
1 GGCCAGCTAAATTGGGCTTAATATTTCATTAAAGGTCAGCTAAACTGGGCTTACATTTATTAGGG
* *
20171473 GCCAGCTAATCTAGACTTGAATCTTTCTTTAAA
66 GCCAGCTAATATAGGCTT-AATCTTTCTTTAAA
* * * *
20171506 GGCTAGCTAAATTGGGCTTAATATTTCATTGAGGGTCAGCTAATCTGGGCTTA
1 GGCCAGCTAAATTGGGCTTAATATTTCATTAAAGGTCAGCTAAACTGGGCTTA
20171559 AATCTTTCTT
Statistics
Matches: 187, Mismatches: 57, Indels: 11
0.73 0.22 0.04
Matches are distributed among these distances:
97 25 0.13
98 125 0.67
99 36 0.19
100 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.36
Consensus pattern (97 bp):
GGCCAGCTAAATTGGGCTTAATATTTCATTAAAGGTCAGCTAAACTGGGCTTACATTTATTAGGG
GCCAGCTAATATAGGCTTAATCTTTCTTTAAA
Found at i:20172273 original size:17 final size:17
Alignment explanation
Indices: 20172232--20172296 Score: 53
Period size: 17 Copynumber: 3.8 Consensus size: 17
20172222 CATTCATTCC
*
20172232 TTTTTC-TTTCTTTTAT
1 TTTTTCTTTTCTTTCAT
* *
20172248 TCTTCCTTTTCTTTCAT
1 TTTTTCTTTTCTTTCAT
*
20172265 TTTTTCTTTTTTTTTC-T
1 TTTTTC-TTTTCTTTCAT
*
20172282 TTTTTTTTTTGCTTT
1 TTTTTCTTTT-CTTT
20172297 GCTTTTTTTT
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
16 8 0.21
17 22 0.58
18 8 0.21
ACGTcount: A:0.03, C:0.15, G:0.02, T:0.80
Consensus pattern (17 bp):
TTTTTCTTTTCTTTCAT
Found at i:20172288 original size:21 final size:21
Alignment explanation
Indices: 20172231--20172312 Score: 74
Period size: 21 Copynumber: 3.7 Consensus size: 21
20172221 CCATTCATTC
*
20172231 CTTTTTCTTTCTTTTATTCTT
1 CTTTTTCTTTCTTTTTTTCTT
* *
20172252 CCTTTTCTTTCATTTTTTCTTT
1 CTTTTTCTTTCTTTTTTTC-TT
* *
20172274 TTTTTTCTTTTTTTTTTTGCTTT
1 CTTTTTCTTTCTTTTTTT-C-TT
*
20172297 GCTTTTTTTTTCTTTT
1 -CTTTTTCTTTCTTTT
20172313 AGATCCTATC
Statistics
Matches: 48, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
21 16 0.33
22 16 0.33
23 4 0.08
24 12 0.25
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.79
Consensus pattern (21 bp):
CTTTTTCTTTCTTTTTTTCTT
Found at i:20172654 original size:6 final size:7
Alignment explanation
Indices: 20172637--20172674 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
20172627 TCAACATTTT
20172637 TTTTTGG
1 TTTTTGG
20172644 TTTTTGG
1 TTTTTGG
20172651 TTTTTGG
1 TTTTTGG
20172658 TTTTT--
1 TTTTTGG
*
20172663 TTTTTTG
1 TTTTTGG
20172670 TTTTT
1 TTTTT
20172675 TTTTTTAGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 5 0.17
7 24 0.83
ACGTcount: A:0.00, C:0.00, G:0.18, T:0.82
Consensus pattern (7 bp):
TTTTTGG
Found at i:20172654 original size:14 final size:12
Alignment explanation
Indices: 20172633--20172679 Score: 67
Period size: 12 Copynumber: 3.8 Consensus size: 12
20172623 CATTTCAACA
20172633 TTTTTTTTTGGT
1 TTTTTTTTTGGT
20172645 TTTTGGTTTTTGGT
1 TTTT--TTTTTGGT
*
20172659 TTTTTTTTTTGT
1 TTTTTTTTTGGT
20172671 TTTTTTTTT
1 TTTTTTTTT
20172680 TAGTTTTGGC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
12 20 0.62
14 12 0.38
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (12 bp):
TTTTTTTTTGGT
Found at i:20172675 original size:7 final size:7
Alignment explanation
Indices: 20172636--20172686 Score: 52
Period size: 7 Copynumber: 7.6 Consensus size: 7
20172626 TTCAACATTT
20172636 TTTTTTG
1 TTTTTTG
*
20172643 GTTTTTG
1 TTTTTTG
*
20172650 GTTTTTG
1 TTTTTTG
*
20172657 GTTTTT-
1 TTTTTTG
20172663 TTTTTTG
1 TTTTTTG
20172670 TTTTTT-
1 TTTTTTG
*
20172676 TTTTTAG
1 TTTTTTG
20172683 TTTT
1 TTTT
20172687 GGCATTTCTA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
6 10 0.26
7 29 0.74
ACGTcount: A:0.02, C:0.00, G:0.16, T:0.82
Consensus pattern (7 bp):
TTTTTTG
Found at i:20172680 original size:14 final size:13
Alignment explanation
Indices: 20172633--20172686 Score: 63
Period size: 13 Copynumber: 4.2 Consensus size: 13
20172623 CATTTCAACA
*
20172633 TTTTTTTTTGGTT
1 TTTTTTTTTTGTT
** *
20172646 TTTGGTTTTTGGT
1 TTTTTTTTTTGTT
20172659 TTTTTTTTTTGTT
1 TTTTTTTTTTGTT
*
20172672 TTTTTTTTTAGTT
1 TTTTTTTTTTGTT
20172685 TT
1 TT
20172687 GGCATTTCTA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.02, C:0.00, G:0.15, T:0.83
Consensus pattern (13 bp):
TTTTTTTTTTGTT
Done.