Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold35
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: 4812169
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 17994 characters in sequence are not A, C, G, or T
File 10 of 30
Found at i:1540618 original size:754 final size:755
Alignment explanation
Indices: 1539703--1541097 Score: 1782
Period size: 754 Copynumber: 1.8 Consensus size: 755
1539693 TGATTGGATG
** ** *
1539703 CAAAAATTCCTCATTGGAATACATGACATTGATGGTTTGGCTTTATAAGAAAAGCCTTTTTTATC
1 CAAAAATTCCTCATTAAAATACATGACATTGATCATTTAGCTTTATAAGAAAAGCCTTTTTTATC
* * * * * * *
1539768 ATCATTTTTCATTGAATTAAAGCTCATCTCTTAAATGAGACAAATAACGATTTTCATAATAATTC
66 ACCAGTTTTCATTGAATCAAAGCTCACCTCTTAAATGAGACAAACAACGATTCTCATAATAATCC
* * *
1539833 AAATTCTTTTCAAGATTAGGCATCGTAAACAC-TTTTTTCTCATTAGGATACACAATATTGATGC
131 AAATTCTTTTCAAGATTAGGCACCATAAACACAATTTTT-TCATTAGGATACACAATATTGATGC
* ** *
1539897 ATTGGTTTTGCA-AG-AAAGGCTTTTCTTCCCACCATTTTCCAAAGAGCCTAGGTTCGTGCCTCC
195 ATTAG-TTT-CATAGAAAAGGCTTTTCTTCCCACCATTTTCCAAAGAGCCTAAATTCGTGCCTCA
** * * * * * *
1539960 AATGAGA-TGATCATGGATTCTTGTAATGATCATC-ATTCTTTTCATGATTGGGA-ACTATAAAC
258 AATGAGACAAAT-ATAG-TTCTAGTAACGATCATCAAAT-TTTTCATGATT-GCACACAATAAAC
* *
1540022 ATATTCTTCTCATTAGGATACAAGATTTTAATGGTTTGCCTTTGCA-AAGA-AAGCTTTTCTCTT
319 ATACTCTTCTCATTAGGATACAAGATATTAATGGTTTG-CTTT-CACAAGAGAAGCTTTTCT-TT
* * *
1540085 -CCCCATTTTCCTTAAAATTAAAGTTCATCCCTT-AATGAGACAAACATGGATTCTTATAATAG-
381 GCCCCATTTTCCTTAAAATCAAAGTTCATCCCTTAAATCACACAAACATGGATTCTTATAATAGT
* * * * *
1540147 TCACCATTATTTTTGAGATTAGGAACCAAAAACACTTTCCTTTCATTTGGAGACATGACATTGAT
446 TC-CCACTATTTTCGAGATTAGGAACCAAAAACACTTTACTTTCATTGGGAGACATGACAGTGAT
** * *
1540212 GC-TTAGGGTCACAAGAAAAGCTTTTCTTTCCACCATTTATGATAGAATCAAAGTTTGTCCTTTA
510 GCTTTAGGGTCACAAGAAAAGCTTTT-TTTCCACCATTTATGATAGAATCAAAGTTCATCCCTCA
* * *
1540276 AATGA-GACAAACTTGGATTGTTGTAACAATCTCCATCTTTTCATGATTAGG-CACCATTAACAC
574 AAT-ACGACAAACTTGGATTGTTGTAACAATCTCCATCTTTCCATGATT-GGCCACCATGAAAAC
1540339 ATTCTTCTGATCGAAATTGATGCAAGAAAAGTATTTCTTTGACTTATTTTCCTTAAATTCAAAGT
637 ATTCTTCTGATCGAAATTGATGCAAGAAAAGTATTTCTTTGACTTATTTTCCTTAAATTCAAAGT
1540404 TTATCTCTCAAATGAGACAAACATGGATTCTAGCAATAGTTTCTAATTGGGCAC
702 TTATCTCTCAAATGAGACAAACATGGATTCTAGCAATAGTTTCTAATTGGGCAC
* *
1540458 CAAAAA-TCCTCATTAAAATACATGACATTGATCATTTAGCTTTGTAAGGAAAG-CTTTTTCTA-
1 CAAAAATTCCTCATTAAAATACATGACATTGATCATTTAGCTTTATAAGAAAAGCCTTTTT-TAT
* * ** *
1540520 CTACCAGTTTTCATAT-AATCAAAGTTCACCTTTTAAATGAGACAAACATGGATTCTCATAGTAA
65 C-ACCAGTTTTCAT-TGAATCAAAGCTCACCTCTTAAATGAGACAAACAACGATTCTCATAATAA
** **
1540584 TCCCCATTCTTTTCAAGATTAGGCACCATAAACACAATTTTTTCATTAGGATACATGATATTGAT
128 TCCAAATTCTTTTCAAGATTAGGCACCATAAACACAATTTTTTCATTAGGATACACAATATTGAT
* * * * * *
1540649 GCTTTAGTTTCATAGAAAAGGCTTTTCTTCCCACCGTTTTCTATAGAGTCTAAATTTGTGCCTCA
193 GCATTAGTTTCATAGAAAAGGCTTTTCTTCCCACCATTTTCCAAAGAGCCTAAATTCGTGCCTCA
* * *
1540714 AATGAGACAAATATAGTTCTAGTAACGATCTTCAAATTTTTCATGATTGCACAGAATAAACATGC
258 AATGAGACAAATATAGTTCTAGTAACGATCATCAAATTTTTCATGATTGCACACAATAAACATAC
* * * *
1540779 TCTTCTTATTAGGATACACGATATTAATGGTTTGGTTTCACAAGAGAAGCTTTTCTTTGCCCTAT
323 TCTTCTCATTAGGATACAAGATATTAATGGTTTGCTTTCACAAGAGAAGCTTTTCTTTGCCCCAT
* * * *
1540844 TTTTCTTAAAATCAAAGTTCATTCCTTAAATCACACAAACATGGATTCTTGTAATAGTTCTCACT
388 TTTCCTTAAAATCAAAGTTCATCCCTTAAATCACACAAACATGGATTCTTATAATAGTTCCCACT
* * * * *
1540909 CTTTTCGAGATTGGGAACCAAAAACACTTTATTTTCATTGGGATACATGATAGTGATGCTTTAGG
453 ATTTTCGAGATTAGGAACCAAAAACACTTTACTTTCATTGGGAGACATGACAGTGATGCTTTAGG
** *
1540974 GTTGCAAGAAAAGCTTTTTTTTCACCATTTATGATAGAATCAAAGTTCATCCCTCAAATACGACA
518 GTCACAAGAAAAGCTTTTTTTCCACCATTTATGATAGAATCAAAGTTCATCCCTCAAATACGACA
*
1541039 AACTTGGGTTGTTGTAACAATCTCCATCTTTCCATGATTGGCCACCATGAAAACATTCT
583 AACTTGGATTGTTGTAACAATCTCCATCTTTCCATGATTGGCCACCATGAAAACATTCT
1541098 CCTCATTAAT
Statistics
Matches: 542, Mismatches: 81, Indels: 35
0.82 0.12 0.05
Matches are distributed among these distances:
751 2 0.00
752 13 0.02
753 119 0.22
754 371 0.68
755 37 0.07
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (755 bp):
CAAAAATTCCTCATTAAAATACATGACATTGATCATTTAGCTTTATAAGAAAAGCCTTTTTTATC
ACCAGTTTTCATTGAATCAAAGCTCACCTCTTAAATGAGACAAACAACGATTCTCATAATAATCC
AAATTCTTTTCAAGATTAGGCACCATAAACACAATTTTTTCATTAGGATACACAATATTGATGCA
TTAGTTTCATAGAAAAGGCTTTTCTTCCCACCATTTTCCAAAGAGCCTAAATTCGTGCCTCAAAT
GAGACAAATATAGTTCTAGTAACGATCATCAAATTTTTCATGATTGCACACAATAAACATACTCT
TCTCATTAGGATACAAGATATTAATGGTTTGCTTTCACAAGAGAAGCTTTTCTTTGCCCCATTTT
CCTTAAAATCAAAGTTCATCCCTTAAATCACACAAACATGGATTCTTATAATAGTTCCCACTATT
TTCGAGATTAGGAACCAAAAACACTTTACTTTCATTGGGAGACATGACAGTGATGCTTTAGGGTC
ACAAGAAAAGCTTTTTTTCCACCATTTATGATAGAATCAAAGTTCATCCCTCAAATACGACAAAC
TTGGATTGTTGTAACAATCTCCATCTTTCCATGATTGGCCACCATGAAAACATTCTTCTGATCGA
AATTGATGCAAGAAAAGTATTTCTTTGACTTATTTTCCTTAAATTCAAAGTTTATCTCTCAAATG
AGACAAACATGGATTCTAGCAATAGTTTCTAATTGGGCAC
Found at i:1543260 original size:18 final size:18
Alignment explanation
Indices: 1543233--1543282 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
1543223 TGATAGGAGG
*
1543233 AGAGACAGGAGAGATAAT
1 AGAGAGAGGAGAGATAAT
* *
1543251 AGAGAGAGGAGGGATGAT
1 AGAGAGAGGAGAGATAAT
1543269 AG-GAGGAGGAGAGA
1 AGAGA-GAGGAGAGA
1543283 AGAAGATGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 2 0.07
18 25 0.93
ACGTcount: A:0.44, C:0.02, G:0.46, T:0.08
Consensus pattern (18 bp):
AGAGAGAGGAGAGATAAT
Found at i:1550286 original size:471 final size:467
Alignment explanation
Indices: 1549423--1550302 Score: 1010
Period size: 471 Copynumber: 1.9 Consensus size: 467
1549413 GCATGGAAAC
* * * * *
1549423 CTTTTCTTGGCCCTATTTTTTTAAAATGAAAGTTCATCTCTTAAATGAGACAAACATGAATTCTT
1 CTTTTCTTGGCCCCATTTTCTTAAAATGAAAGTTCATCCCTCAAATGAGACAAACAAGAATTCTT
* *
1549488 GTAATAGTCTCCATTATTTTCATGATTGGACACCAAAAGTCCTATTCAGGTACATGACATTGATG
66 GTAATAGTCTCCATTATTATCATGATTGGACA-CAAAAGTCCTATTCAGGTACATGACACTGATG
** * * * * * *
1549553 GTTTGGCTTTGCAAAAAAAGATTTTTTACCACCTTTTTTCATAGAATCAAAGTTCATCTCCTACA
130 GTTTGGCCATGCAAAAAAAGATTTTTTACCACCATTTTTAATAAAACCAAAATTCATCTCCTAAA
* * * * * *
1549618 TTAGACAATCATGGATTCTTATAACAATCCCAATTCCTTTTAAGATTAGGCACCGCAAATAGAAT
195 TGAGACAAACATGGATTCTCATAACAATCCCAATTCCTTTTAAGATTAGGCACCACAAACACAAT
* *
1549683 CTACTCATTATGATACACGATATTGATGCTTTGGTTTCACAAGAAAGGTTTTTCTTCCAACCATT
260 CTACTCATTAGGATACACAATATTGATGCTTTGGTTTCACAAGAAAGGTTTTTCTTCCAACCATT
* * * * * *
1549748 TTTCATAGACTCTAATTTCATGCCTCAAGTGAGACAACCATAGATTCTAGTAATGATCTTCATTC
325 TTCCATAGACTCTAAGTTCATGCCTCAAATGAGACAAACATAGATTCTAGTAATGAGCCTCATTC
* *
1549813 TTTTCAGGATTGGGCACCATAAACTCGTTCACCTCATTACGATACATGATATTGATGATTTACTT
390 TTTTCAAGATTGGGAACCATAAACTCGTTCACCTCATTACGATACATGATATTGATGATTTACTT
1549878 TCGCAAAAAAAAG
455 TCGCAAAAAAAAG
* * * *
1549891 CTTTTCTTTGCCCCATTTTCCTTAAAATGAATGTTCGTCCCTCAAATGAGACAAACAAGGATTCT
1 CTTTTCTTGGCCCCATTTT-CTTAAAATGAAAGTTCATCCCTCAAATGAGACAAACAAGAATTCT
* ** * *
1549956 TGTAATAGTCTCCATTCTTATCATGATTCTGTGTGA-AAAA-TCCTTATT-GGGATACATGCCAC
65 TGTAATAGTCTCCATTATTATCATGA-T-TG-GACACAAAAGTCC-TATTCAGG-TACATGACAC
*
1550018 TGATGGTTT-GCCAT-CATAAGAAAAGCATTTTTTACCATCATTTTTAATAAAACCAAAATTCAT
125 TGATGGTTTGGCCATGCA-AA-AAAAG-ATTTTTTACCACCATTTTTAATAAAACCAAAATTCAT
* * * **
1550081 CTCTTAAATGAGACAAACATGGATTCTCATAAATAATCCCCATTTTTTTTCAAGATTAGGC-CTC
187 CTCCTAAATGAGACAAACATGGATTCTCAT-AACAATCCCAATTCCTTTT-AAGATTAGGCAC-C
* ** * **
1550145 ATAAACACTTTCT-TTCTATTAGGATACACAATATTGATGCTTTGGTTTTGCAAGAAA-GTCTTT
249 ACAAACACAATCTACTC-ATTAGGATACACAATATTGATGCTTTGGTTTCACAAGAAAGGT-TTT
* * * **
1550208 T-TTCTC-ACCATTTTCCTTGGA-TCTAAGTTCATGCCTCAAATGAGACAAACATGGATTCTTTT
312 TCTTC-CAACCATTTTCCATAGACTCTAAGTTCATGCCTCAAATGAGACAAACATAGATTCTAGT
1550270 AAT-AGCCTCTATTCTTTTCAAGATTGGGAACCA
376 AATGAGCCTC-ATTCTTTTCAAGATTGGGAACCA
1550303 AAAAGAAGTT
Statistics
Matches: 339, Mismatches: 57, Indels: 29
0.80 0.13 0.07
Matches are distributed among these distances:
468 19 0.06
469 72 0.21
470 35 0.10
471 117 0.35
472 37 0.11
473 59 0.17
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (467 bp):
CTTTTCTTGGCCCCATTTTCTTAAAATGAAAGTTCATCCCTCAAATGAGACAAACAAGAATTCTT
GTAATAGTCTCCATTATTATCATGATTGGACACAAAAGTCCTATTCAGGTACATGACACTGATGG
TTTGGCCATGCAAAAAAAGATTTTTTACCACCATTTTTAATAAAACCAAAATTCATCTCCTAAAT
GAGACAAACATGGATTCTCATAACAATCCCAATTCCTTTTAAGATTAGGCACCACAAACACAATC
TACTCATTAGGATACACAATATTGATGCTTTGGTTTCACAAGAAAGGTTTTTCTTCCAACCATTT
TCCATAGACTCTAAGTTCATGCCTCAAATGAGACAAACATAGATTCTAGTAATGAGCCTCATTCT
TTTCAAGATTGGGAACCATAAACTCGTTCACCTCATTACGATACATGATATTGATGATTTACTTT
CGCAAAAAAAAG
Found at i:1556322 original size:307 final size:306
Alignment explanation
Indices: 1555764--1556323 Score: 665
Period size: 307 Copynumber: 1.8 Consensus size: 306
1555754 ACACCAAACA
* *
1555764 TCCTCATTAGGATCCATGATATTGGTGGTTTGCCTTTCAAGAAAAGCTTTTTTTATCAACCATTT
1 TCCTCATTAGGATACATGATATTGATGGTTTGCCTTTCAAGAAAAGCTTTTTTTATC-ACCATTT
* * **
1555829 TTCATAGAATCAATGTTTGTCTCTTAAATGAGACAAACATGGATTCCCATAATAAGCCCCATTCT
65 TTCATAAAATCAAAGTTCATCTCTTAAATGAGACAAACATGGATTCCCATAATAAGCCCCATTCT
* * * *
1555894 TTTCAACATTAGGCACCATAAACACATTCTTCTCATTAGGATACATGATATTGATGCTTTGGTTT
130 TTTCAACATTAGGCACCATAAACACATTCCTCTCATTAGGATACATGACATTGATGCTTTGATAT
* * * **
1555959 CGCAAGAAAGGCTTTTCTTCCCACCATATTCTATAGAGTCTAAGTTTGTGCCTCAAATGGGACAA
195 CGCAAGAAAAGCTTTTCTTCCCACCATATTCTATAGAATCAAAGTTTGCCCCTCAAATGGGACAA
1556024 ATATGGATTCTAGTGACGATCTTCATTCTTTTCATGATTACATATTT
260 ATATGGATTCTAGTGACGATCTTCATTCTTTTCATGATTACATATTT
*
1556071 TCCTCATTAGGATACATGATATTGATGGTTTG-CTTTCATAAGGAAAGCTTTTCTTT-TC-CC-T
1 TCCTCATTAGGATACATGATATTGATGGTTTGCCTTTC--AAGAAAAGCTTTT-TTTATCACCAT
* * **
1556132 ATTTTCTTTAAAATCAAAGTTCATC-CTTTAAATGAGACAAACATGGATTCTCATAAT-AGTCTT
63 -TTTTC-ATAAAATCAAAGTTCATCTC-TTAAATGAGACAAACATGGATTCCCATAATAAG-CCC
* * * ** *
1556195 TATTCTTTTCAAGATT-GGTAGCCA-AAAGCATGTTCC-CTTCATT-GTGATTCATGACATTGAT
124 CATTCTTTTCAACATTAGGCA-CCATAAA-CACATTCCTC-TCATTAG-GATACATGACATTGAT
* * *
1556256 GCTTTGATATCGCAAGAAAAGCTTTTCTTTCCTCCAT-TTTTGATAGAATCAAAGTTTGCCCCTC
185 GCTTTGATATCGCAAGAAAAGCTTTTCTTCCCACCATATTCT-ATAGAATCAAAGTTTGCCCCTC
1556320 AAAT
249 AAAT
1556324 AAGACAAACA
Statistics
Matches: 212, Mismatches: 29, Indels: 24
0.80 0.11 0.09
Matches are distributed among these distances:
305 1 0.00
306 26 0.12
307 168 0.79
308 14 0.07
309 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (306 bp):
TCCTCATTAGGATACATGATATTGATGGTTTGCCTTTCAAGAAAAGCTTTTTTTATCACCATTTT
TCATAAAATCAAAGTTCATCTCTTAAATGAGACAAACATGGATTCCCATAATAAGCCCCATTCTT
TTCAACATTAGGCACCATAAACACATTCCTCTCATTAGGATACATGACATTGATGCTTTGATATC
GCAAGAAAAGCTTTTCTTCCCACCATATTCTATAGAATCAAAGTTTGCCCCTCAAATGGGACAAA
TATGGATTCTAGTGACGATCTTCATTCTTTTCATGATTACATATTT
Found at i:1563012 original size:63 final size:63
Alignment explanation
Indices: 1562913--1563040 Score: 220
Period size: 63 Copynumber: 2.0 Consensus size: 63
1562903 TCCCACCAAA
*
1562913 TACAACAGGGAGTTTCATACAAATCTTCAAGGTTTGAGGCAAGGTAGAAAAAGTGTCGATGAC
1 TACAACAGGGAGCTTCATACAAATCTTCAAGGTTTGAGGCAAGGTAGAAAAAGTGTCGATGAC
* * *
1562976 TACAATAGGGAGCTTCATACAAATCTTCAAGGTTTGAGGCAAGGTGGAAAAAGTGTTGATGAC
1 TACAACAGGGAGCTTCATACAAATCTTCAAGGTTTGAGGCAAGGTAGAAAAAGTGTCGATGAC
1563039 TA
1 TA
1563041 TTAAAAAAAG
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.25
Consensus pattern (63 bp):
TACAACAGGGAGCTTCATACAAATCTTCAAGGTTTGAGGCAAGGTAGAAAAAGTGTCGATGAC
Found at i:1571712 original size:12 final size:11
Alignment explanation
Indices: 1571690--1571765 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
1571680 AGAGAAAGAA
*
1571690 GAGAGAGGAGG
1 GAGATAGGAGG
1571701 GATGATAGGAGG
1 GA-GATAGGAGG
*
1571713 AGAGACAGGA--
1 -GAGATAGGAGG
*
1571723 GAGATAGTA--
1 GAGATAGGAGG
1571732 GAGATAGGAGG
1 GAGATAGGAGG
1571743 GATGATAGGAGG
1 GA-GATAGGAGG
*
1571755 AGAGACAGGAG
1 -GAGATAGGAG
1571766 AGATAATAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 4 0.08
12 30 0.57
13 4 0.08
ACGTcount: A:0.39, C:0.03, G:0.49, T:0.09
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:1571741 original size:42 final size:42
Alignment explanation
Indices: 1571680--1571798 Score: 202
Period size: 42 Copynumber: 2.8 Consensus size: 42
1571670 TAGCCCTCAA
* *
1571680 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
1571722 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
1571764 AGAGATAATAGAGAGAGGAGGGATGATAGGAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
1571799 GAGAGAAGAA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 72 1.00
ACGTcount: A:0.43, C:0.02, G:0.46, T:0.09
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:1571782 original size:18 final size:18
Alignment explanation
Indices: 1571755--1571804 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
1571745 TGATAGGAGG
*
1571755 AGAGACAGGAGAGATAAT
1 AGAGAGAGGAGAGATAAT
* *
1571773 AGAGAGAGGAGGGATGAT
1 AGAGAGAGGAGAGATAAT
1571791 AG-GAGGAGGAGAGA
1 AGAGA-GAGGAGAGA
1571805 AGAAGATGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 2 0.07
18 25 0.93
ACGTcount: A:0.44, C:0.02, G:0.46, T:0.08
Consensus pattern (18 bp):
AGAGAGAGGAGAGATAAT
Found at i:1576967 original size:9 final size:9
Alignment explanation
Indices: 1576953--1576978 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
1576943 CCTTTCCAAG
1576953 GCATTTGAA
1 GCATTTGAA
1576962 GCATTTGAA
1 GCATTTGAA
1576971 GCATTTGA
1 GCATTTGA
1576979 TTTCCCTATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.31, C:0.12, G:0.23, T:0.35
Consensus pattern (9 bp):
GCATTTGAA
Found at i:1577734 original size:18 final size:18
Alignment explanation
Indices: 1577713--1577783 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 18
1577703 CCTGTCATCC
1577713 CTCCTCTCTCTATTATCT
1 CTCCTCTCTCTATTATCT
* *
1577731 CTCCTGTCTCTCCTCCTATCATCC
1 CT-C---CTCT-CT-CTATTATCT
* *
1577755 CTCCTATCTCTACTATCT
1 CTCCTCTCTCTATTATCT
1577773 CTCCTCTCTCT
1 CTCCTCTCTCT
1577784 CCTCCTATCA
Statistics
Matches: 40, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
18 18 0.45
19 3 0.08
20 3 0.08
22 4 0.10
23 3 0.08
24 9 0.22
ACGTcount: A:0.10, C:0.45, G:0.01, T:0.44
Consensus pattern (18 bp):
CTCCTCTCTCTATTATCT
Found at i:1577753 original size:42 final size:42
Alignment explanation
Indices: 1577692--1577816 Score: 187
Period size: 42 Copynumber: 3.0 Consensus size: 42
1577682 TCCATCTTCT
*
1577692 TCTCTCCTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCC
1 TCTCT-CTCCTCCTATCATCCCTCCTCTCTCTATTATCTCTCC
* * *
1577735 TGTCTCTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCC
1 TCTCTCTCCTCCTATCATCCCTCCTCTCTCTATTATCTCTCC
* *
1577777 TCTCTCTCCTCCTATCATCCCTCCTCTCTCTTTTTTCTCT
1 TCTCTCTCCTCCTATCATCCCTCCTCTCTCTATTATCTCT
1577817 TTGAGGGCTA
Statistics
Matches: 73, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
42 69 0.95
43 4 0.05
ACGTcount: A:0.08, C:0.46, G:0.02, T:0.44
Consensus pattern (42 bp):
TCTCTCTCCTCCTATCATCCCTCCTCTCTCTATTATCTCTCC
Found at i:1577757 original size:12 final size:11
Alignment explanation
Indices: 1577731--1577806 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
1577721 TCTATTATCT
*
1577731 CTCCTGTCTCTC
1 CTCCTATCTC-C
1577743 CTCCTATCATCC
1 CTCCTATC-TCC
1577755 CTCCTATCT--
1 CTCCTATCTCC
*
1577764 CTACTATCT--
1 CTCCTATCTCC
*
1577773 CTCCTCTCTCTC
1 CTCCTATCTC-C
1577785 CTCCTATCATCC
1 CTCCTATC-TCC
*
1577797 CTCCTCTCTC
1 CTCCTATCTC
1577807 TTTTTTCTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 3 0.06
12 31 0.58
13 4 0.08
ACGTcount: A:0.09, C:0.50, G:0.01, T:0.39
Consensus pattern (11 bp):
CTCCTATCTCC
Found at i:1577758 original size:24 final size:24
Alignment explanation
Indices: 1577692--1577807 Score: 94
Period size: 21 Copynumber: 5.3 Consensus size: 24
1577682 TCCATCTTCT
*
1577692 TCTCTCCTCCTCCTGTCATCCCTCC
1 TCTCT-CTCCTCCTATCATCCCTCC
*
1577717 TCTCTCT-AT--TATC-T--CTCC
1 TCTCTCTCCTCCTATCATCCCTCC
*
1577735 TGTCTCTCCTCCTATCATCCCT-C
1 TCTCTCTCCTCCTATCATCCCTCC
* *
1577758 -CTATCT-CTACTATC-T--CTCC
1 TCTCTCTCCTCCTATCATCCCTCC
1577777 TCTCTCTCCTCCTATCATCCCTCC
1 TCTCTCTCCTCCTATCATCCCTCC
1577801 TCTCTCT
1 TCTCTCT
1577808 TTTTTCTCTT
Statistics
Matches: 70, Mismatches: 9, Indels: 25
0.67 0.09 0.24
Matches are distributed among these distances:
18 12 0.17
19 2 0.03
20 7 0.10
21 21 0.30
22 6 0.09
23 2 0.03
24 15 0.21
25 5 0.07
ACGTcount: A:0.09, C:0.48, G:0.02, T:0.41
Consensus pattern (24 bp):
TCTCTCTCCTCCTATCATCCCTCC
Found at i:1585339 original size:18 final size:18
Alignment explanation
Indices: 1585316--1585423 Score: 58
Period size: 21 Copynumber: 5.3 Consensus size: 18
1585306 ATCTTCTTCT
1585316 CTCCTCCTCCTATCATCC
1 CTCCTCCTCCTATCATCC
*
1585334 CTCCT-CTCTCTATTATCTCTC
1 CTCCTCCTC-CTATCA--TC-C
1585355 CTGTCTCTCCTCCTATCATCC
1 C--TC-CTCCTCCTATCATCC
*
1585376 CTCCTATCTCTACTATC-TCTC
1 CTCC--TC-CTCCTATCATC-C
1585397 CTGTCTCTCCTCCTATCATCC
1 C--TC-CTCCTCCTATCATCC
1585418 CTCCTC
1 CTCCTC
1585424 TCTCTTCTTT
Statistics
Matches: 70, Mismatches: 4, Indels: 32
0.66 0.04 0.30
Matches are distributed among these distances:
17 3 0.04
18 14 0.20
19 4 0.06
20 6 0.09
21 22 0.31
22 6 0.09
23 4 0.06
24 8 0.11
25 3 0.04
ACGTcount: A:0.10, C:0.48, G:0.02, T:0.40
Consensus pattern (18 bp):
CTCCTCCTCCTATCATCC
Found at i:1585371 original size:42 final size:42
Alignment explanation
Indices: 1585319--1585437 Score: 202
Period size: 42 Copynumber: 2.8 Consensus size: 42
1585309 TTCTTCTCTC
*
1585319 CTCCTCCTATCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
*
1585361 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
1585403 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
1585438 TTGAGGGCTA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 72 1.00
ACGTcount: A:0.09, C:0.46, G:0.02, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:1585378 original size:12 final size:11
Alignment explanation
Indices: 1585352--1585427 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
1585342 TCTATTATCT
*
1585352 CTCCTGTCTCTC
1 CTCCTATCTC-C
1585364 CTCCTATCATCC
1 CTCCTATC-TCC
1585376 CTCCTATCT--
1 CTCCTATCTCC
*
1585385 CTACTATCT--
1 CTCCTATCTCC
*
1585394 CTCCTGTCTCTC
1 CTCCTATCTC-C
1585406 CTCCTATCATCC
1 CTCCTATC-TCC
*
1585418 CTCCTCTCTC
1 CTCCTATCTC
1585428 TTCTTTCTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 3 0.06
12 31 0.58
13 4 0.08
ACGTcount: A:0.09, C:0.49, G:0.03, T:0.39
Consensus pattern (11 bp):
CTCCTATCTCC
Found at i:1590758 original size:151 final size:157
Alignment explanation
Indices: 1589765--1591697 Score: 656
Period size: 159 Copynumber: 12.5 Consensus size: 157
1589755 CACATCACGA
* ** * * *
1589765 CATTAGGATACA-CGATATTGATGCTCTAACTTCACAAGAAAAGCTTTTCTT-TGAGCCATTTTC
1 CATTAGGATACATC-ATATTGATGCTTTGCCTT-TCAAGAAAAGCTTTTCTTATCA-CCATTTTT
* ** * * ** *
1589828 CTTCA-AATCAAAGTTCAAACCTCAAATGAGGCAAACATGGATTCTTGTAAT-AGTCTCCATTCT
63 CAT-AGAATCAAAGTTCATCCCTTAAATGAGACAAACATGGATTCTTACAATAAGCCTCCATTCT
* **
1589891 TGTGGTGATT-GGACACA-AAA-A-A-TCTT
127 TTTCATGATTAGGACACATAAACACATTCTT
* * * * * * * * *
1589917 CATT-GAGATACGTGACACTGATGGTTTGCCTTTCAAGACAAGCTTTTTTTACCACCATCTTTCA
1 CATTAG-GATACATCATATTGATGCTTTGCCTTTCAAGAAAAGCTTTTCTTATCACCATTTTTCA
* * * * * * *
1589981 TAGAGTCAAAGTTCATCTCTTAAATGAGACAAACATGAATTCTCATAATAATCC-CCATTCTCTT
65 TAGAATCAAAGTTCATCCCTTAAATGAGACAAACATGGATTCTTACAATAAGCCTCCATTCTTTT
* *
1590045 CAAGGTTAGG-CACCATAAACTA-ATTCTTTT
130 CATGATTAGGACA-CATAAAC-ACATTC--TT
* * * ** * * * * *
1590075 TACTAGGATACATGATCA-TGATGCTTTGGTTTTACAAGCAATGTTTTTCTTCTCACCATTTTCC
1 CATTAGGATACATCAT-ATTGATGCTTTGCCTTT-CAAGAAAAGCTTTTCTTATCACCATTTTTC
* * * * * * * * * * **
1590139 ATAAAATCTAAGCTT-GTGCCTTAATTAAGACTAACATAGATTC-TAGTAATAA-TCTTTATTCT
64 ATAGAATCAAAG-TTCATCCCTTAAATGAGACAAACATGGATTCTTA-CAATAAGCCTCCATTCT
* * *
1590201 TTTCATGATT-GGGCACCATAAACTCATTCTCC
127 TTTCATGATTAGGACA-CATAAACACATTCT-T
* ** * * * *
1590233 CTATTGGGATACAAGACACTGATGCTTTGGC-TTCATAAGGAAAGCATTTT-TTAT--CCATTTT
1 C-ATTAGGATACATCATATTGATGCTTTGCCTTTC--AAGAAAAGC-TTTTCTTATCACCATTTT
* * * * * * * *
1590294 CCTTTA-AATCAAAG-TCATCTCTTAAATGAGACAAGCATGAATTCTCATAAT-ATCCTCCATTT
62 TC-ATAGAATCAAAGTTCATCCCTTAAATGAGACAAACATGGATTCTTACAATAAGCCTCCA-TT
* * *
1590356 TTTTTCGA-GA-TA--A-GCA-AAA-A-ATGCCTT
125 CTTTTC-ATGATTAGGACACATAAACACAT-TCTT
* *** * * * * * *
1590383 CGTTAGGATACATGGCATTAATGCTTCG-GTGTTGCTAGAAAAACTGTTCTT-TCCACCATTTTT
1 CATTAGGATACATCATATTGATGCTTTGCCT-TT-CAAGAAAAGCTTTTCTTAT-CACCATTTTT
* * * * * * ** * * * *
1590446 GATAGAATCAAAGGTCATCCCTCAAACGAGACAAACTTGGATTGTTGTAACAA-TCTTCA-TCAT
63 CATAGAATCAAAGTTCATCCCTTAAATGAGACAAACATGGATTCTTACAATAAGCCTCCATTCTT
*
1590509 TCCATGATTAGG-CACCATAAACACATTC-T
128 TTCATGATTAGGACA-CATAAACACATTCTT
* * * * *
1590538 C-------CACATCGGTATTGATGCTTTGGCTTCACAAGAAAAGCTTTT-TGT-TGACCAATTTT
1 CATTAGGATACATC-ATATTGATGCTTTGCCTT-TCAAGAAAAGCTTTTCT-TATCACC-ATTTT
* * *
1590594 CCTTAAAATCAAAGTTCATCCCTTAAATGAGACAAACATGGATTCTTACAAT-AGCCTCCATTCT
62 TCATAGAATCAAAGTTCATCCCTTAAATGAGACAAACATGGATTCTTACAATAAGCCTCCATTCT
*
1590658 TCTCATGATT-GGACACA-AAA-A-A-TCTT
127 TTTCATGATTAGGACACATAAACACATTCTT
** * *
1590684 CATTAGGAGCCATCATATTGGA-GATTTGCCTTTCAGGAAAAGCTTTTCTTATCACCATTTTTCA
1 CATTAGGATACATCATATT-GATGCTTTGCCTTTCAAGAAAAGCTTTTCTTATCACCATTTTTCA
* * * * * * *
1590748 TAGGATCAAAGTTCATCTCTTAAAAGAGACAAACATCGATTCTTATAATAATCC-CCATTCTTGT
65 TAGAATCAAAGTTCATCCCTTAAATGAGACAAACATGGATTCTTACAATAAGCCTCCATTCTTTT
** *
1590812 CAACATTAGGTGC-CATAAACACATTCTTCT
130 CATGATTAGG-ACACATAAACACATTC-T-T
* * * *
1590842 CATTAGGATACA-CGATATTGATGCTTTG-GTTTCATGAGAAAGGCTTTTTTTCTCACCATTTTT
1 CATTAGGATACATC-ATATTGATGCTTTGCCTTTCA--AGAAAAGCTTTTCTTATCACCATTTTT
** * * * * * ** * * *
1590905 TGTAGAGTCTAGGTTCATGCCTTAAATGAGACAAAAATATTCATTCTTTTC-ATGATCCT-CATT
63 CATAGAATCAAAGTTCATCCCTTAAATGAGAC--AAACATGGATTC-TTACAATAAGCCTCCATT
1590968 CTTTTCATGATTAGG-CACCATAAACACATTCTCTT
125 CTTTTCATGATTAGGACA-CATAAACACA-T-TCTT
* ** * * *
1591003 CAGTAGGATACATGGTATTGATGCTCTGACTTTGCAAGAAAAGCTTTTCTT-TGACCCATTTTTC
1 CATTAGGATACATCATATTGATGCTTTGCCTTT-CAAGAAAAGCTTTTCTTATCA-CCATTTTTC
* * * * ** * *
1591067 TTAAAATCAAAGTTCATCCCTCAAATGAGACAAATATGGATTCTTGGAAT-AGTCTCTATTCTTT
64 ATAGAATCAAAGTTCATCCCTTAAATGAGACAAACATGGATTCTTACAATAAGCCTCCATTCTTT
** * *
1591131 TTGTGATT-GGACAC-CAAA-A-A-TCCT
129 TCATGATTAGGACACATAAACACATTCTT
* * * * * *
1591155 CATTAGGATCCATGATATTGGTGGTTTGCCTTCCAAGAAAAGCTTTTTTTATCACCATTTTTCAT
1 CATTAGGATACATCATATTGATGCTTTGCCTTTCAAGAAAAGCTTTTCTTATCACCATTTTTCAT
* ** * * * *
1591220 AGAATCAATGTTTGTCTCTTAAATGAGACAAACATGCATTCTCATAATAAGCC-CCATTCTTTTC
66 AGAATCAAAGTTCATCCCTTAAATGAGACAAACATGGATTCTTACAATAAGCCTCCATTCTTTTC
**
1591284 AACATTAGG-CACCATAAACACATTCTTCT
131 ATGATTAGGACA-CATAAACACATTC-T-T
* * * * ** *
1591313 CATTAGGATACGTGATATTGATGCTTTG-GTTTCGCAAGAAAGGCTTTTCTTCCCACCA-TATTC
1 CATTAGGATACATCATATTGATGCTTTGCCTTT--CAAGAAAAGCTTTTCTTATCACCATTTTTC
* * * ** * * * * *
1591376 TGTAGAGTCTAAGTTTGTGCCTTAAATGGGACAAATATGGATTCTAGTGACGAT----CTTCATT
64 -ATAGAATCAAAGTTCATCCCTTAAATGAGACAAACATGGATTCT--T-ACAATAAGCCTCCATT
* * *
1591437 CTTTTCAAGATT---ACACAT------TTTCCT
125 CTTTTCATGATTAGGACACATAAACACATTCTT
* * * *
1591461 CATTAGGATACATGATATTGATGGTTTG-CTTTCATATGGAAAGCTTTTCTT-TGCCCCA-TTTT
1 CATTAGGATACATCATATTGATGCTTTGCCTTTCA-A-GAAAAGCTTTTCTTAT-CACCATTTTT
* * * * * * * *
1591523 CTTTAAAATCAAAGTCCATCCTTTAAATGAGACAAACATGGATTCTCATAAT-AGTCTCTATTCT
63 C-ATAGAATCAAAGTTCATCCCTTAAATGAGACAAACATGGATTCTTACAATAAGCCTCCATTCT
* **
1591587 TTTCAAGATT-GGTAGC-CA-AAAGCATGTTCCCTT
127 TTTCATGATTAGG-A-CACATAAA-CACATT--CTT
* * * * *
1591620 CATT-GTGATACATGACATTGATGCTTTG-ATGTCACAAGAAAAGCTTTTCTT-TCCTCCATTTT
1 CATTAG-GATACATCATATTGATGCTTTGCCT-T-TCAAGAAAAGCTTTTCTTAT-CACCATTTT
*
1591682 TGATAGAATCAAAGTT
62 TCATAGAATCAAAGTT
1591698 TGCCCCTCAA
Statistics
Matches: 1311, Mismatches: 328, Indels: 277
0.68 0.17 0.14
Matches are distributed among these distances:
145 5 0.00
146 5 0.00
147 2 0.00
148 117 0.09
149 107 0.08
150 30 0.02
151 251 0.19
152 123 0.09
153 19 0.01
154 4 0.00
155 12 0.01
156 39 0.03
157 48 0.04
158 94 0.07
159 315 0.24
160 14 0.01
161 112 0.09
162 10 0.01
163 4 0.00
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (157 bp):
CATTAGGATACATCATATTGATGCTTTGCCTTTCAAGAAAAGCTTTTCTTATCACCATTTTTCAT
AGAATCAAAGTTCATCCCTTAAATGAGACAAACATGGATTCTTACAATAAGCCTCCATTCTTTTC
ATGATTAGGACACATAAACACATTCTT
Found at i:1591895 original size:306 final size:307
Alignment explanation
Indices: 1591505--1592078 Score: 697
Period size: 306 Copynumber: 1.9 Consensus size: 307
1591495 TATGGAAAGC
* ** * * *
1591505 TTTTCTTTGCCCCATTTTCTTTAAAATCAAAGTCCATCCTTTAAATGAGACAAACATGGATTCTC
1 TTTTCTTTGACCCATTTTCCCTAAAATCAAAGTCCACCCTTCAAATGAGACAAACATAGATTCTC
* * * ** * *
1591570 ATAATAGTCTCTATTCTTTTCAAGATT-GGTAGCCAAAAGCATGTTCCCTTCATTGTGATACATG
66 ATAATAGGCTCTATTCTTTTCAAGATTAGG-AACCAAAAACACATTCCATTCATTGGGATACATG
** * * ** **
1591634 ACATTGATGC-TTTGATGTCACAAGAAAAGCTTTTCTTTCCTCCATTTTTGATAGAATCAAAGTT
130 ACATTGATGCTTTTG-TGTCACAAGAAAAGCTAATCTTTCCACCATCTTCAATAGAATCAAAAAT
* * * * ** *
1591698 TGCCCCTCAAATAAGACAACACCT-ATTGCCGTAACAATCTCCATCTTTTTATGATT-GGCACCA
194 TGCCCCTCAAATAAGACAA-ACATGATTGCCATAACAATCTCCATCTATTCACAATTGGGAACCA
1591761 TAAACACATTCCCCTTATCGATATTGATGCATTGGCTTCAAAAGAAATTA
258 TAAACACATTCCCCTTATCGATATTGATGCATTGGCTTCAAAAGAAATTA
* * * * * *
1591811 TTTTCTTTGACCTATTTTCCCTAAAATCAATGTGCACCCTTCAAGTGAGACAAAGATAGATTCTT
1 TTTTCTTTGACCCATTTTCCCTAAAATCAAAGTCCACCCTTCAAATGAGACAAACATAGATTCTC
* * ** *
1591876 GTAATAGGCTTTATTCTTTTCGTGATTAGGAACCAAAAACACATTCCATTCATTGGGATACATGG
66 ATAATAGGCTCTATTCTTTTCAAGATTAGGAACCAAAAACACATTCCATTCATTGGGATACATGA
1591941 CATTGATGCTTTTGTGTCACAAGAAAAGCTAATCTTTCCACCATCTTCAATAGAATCAAAAATTG
131 CATTGATGCTTTTGTGTCACAAGAAAAGCTAATCTTTCCACCATCTTCAATAGAATCAAAAATTG
* * * *
1592006 TCCCTTAAATGAGACAAACATGGATTGTCATAACAATCTCCATCTATTCACAATTGGGAACCATA
196 CCCCTCAAATAAGACAAACAT-GATTGCCATAACAATCTCCATCTATTCACAATTGGGAACCATA
1592071 AACACATT
260 AACACATT
1592079 TTTCTCATTT
Statistics
Matches: 220, Mismatches: 43, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
305 3 0.01
306 169 0.77
307 32 0.15
308 16 0.07
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.34
Consensus pattern (307 bp):
TTTTCTTTGACCCATTTTCCCTAAAATCAAAGTCCACCCTTCAAATGAGACAAACATAGATTCTC
ATAATAGGCTCTATTCTTTTCAAGATTAGGAACCAAAAACACATTCCATTCATTGGGATACATGA
CATTGATGCTTTTGTGTCACAAGAAAAGCTAATCTTTCCACCATCTTCAATAGAATCAAAAATTG
CCCCTCAAATAAGACAAACATGATTGCCATAACAATCTCCATCTATTCACAATTGGGAACCATAA
ACACATTCCCCTTATCGATATTGATGCATTGGCTTCAAAAGAAATTA
Found at i:1602494 original size:25 final size:22
Alignment explanation
Indices: 1602456--1602519 Score: 76
Period size: 22 Copynumber: 2.8 Consensus size: 22
1602446 TGTTCACTCA
1602456 ACTGTTCA-CATACTATTCGTGTTT
1 ACTGTTCATCATACTATT-GTG--T
* *
1602480 ACTGTTTATCATACTGTTGTGT
1 ACTGTTCATCATACTATTGTGT
1602502 ACTGTTCATCATACTATT
1 ACTGTTCATCATACTATT
1602520 TTATGGTACT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
22 17 0.49
24 10 0.29
25 8 0.23
ACGTcount: A:0.22, C:0.19, G:0.12, T:0.47
Consensus pattern (22 bp):
ACTGTTCATCATACTATTGTGT
Found at i:1621525 original size:45 final size:45
Alignment explanation
Indices: 1621465--1621562 Score: 187
Period size: 45 Copynumber: 2.2 Consensus size: 45
1621455 TTAAAGATTA
*
1621465 ATTTCGAACAGTCAATTTGCACCGGTGAAGTTGATTCTGAAAAAG
1 ATTTTGAACAGTCAATTTGCACCGGTGAAGTTGATTCTGAAAAAG
1621510 ATTTTGAACAGTCAATTTGCACCGGTGAAGTTGATTCTGAAAAAG
1 ATTTTGAACAGTCAATTTGCACCGGTGAAGTTGATTCTGAAAAAG
1621555 ATTTTGAA
1 ATTTTGAA
1621563 GAAAACTCTG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 52 1.00
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (45 bp):
ATTTTGAACAGTCAATTTGCACCGGTGAAGTTGATTCTGAAAAAG
Found at i:1625013 original size:10 final size:10
Alignment explanation
Indices: 1624939--1625037 Score: 92
Period size: 10 Copynumber: 9.6 Consensus size: 10
1624929 CTTTACACCC
1624939 AAAAAAAACA
1 AAAAAAAACA
*
1624949 TAAAAAAACA
1 AAAAAAAACA
*
1624959 TAAAAAAACA
1 AAAAAAAACA
1624969 AAAAAAAACA
1 AAAAAAAACA
*
1624979 TTAAAAAAACA
1 -AAAAAAAACA
1624990 AAACAAAAACA
1 AAA-AAAAACA
1625001 AAAACAAAA-A
1 AAAA-AAAACA
** *
1625011 AAAACCAAGA
1 AAAAAAAACA
*
1625021 AAAAAATAGCA
1 AAAAAA-AACA
1625032 AAAAAA
1 AAAAAA
1625038 CAGAAAGGGG
Statistics
Matches: 74, Mismatches: 10, Indels: 9
0.80 0.11 0.10
Matches are distributed among these distances:
9 2 0.03
10 41 0.55
11 31 0.42
ACGTcount: A:0.82, C:0.11, G:0.02, T:0.05
Consensus pattern (10 bp):
AAAAAAAACA
Found at i:1625058 original size:24 final size:25
Alignment explanation
Indices: 1625031--1625077 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
1625021 AAAAAATAGC
*
1625031 AAAAAAACAGAAAGGG-GTCTAGAT
1 AAAAAAACAAAAAGGGTGTCTAGAT
**
1625055 AAAAACCCAAAAAGGGTGTCTAG
1 AAAAAAACAAAAAGGGTGTCTAG
1625078 GCTATCATCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 13 0.68
25 6 0.32
ACGTcount: A:0.51, C:0.13, G:0.23, T:0.13
Consensus pattern (25 bp):
AAAAAAACAAAAAGGGTGTCTAGAT
Found at i:1630277 original size:18 final size:19
Alignment explanation
Indices: 1630235--1630284 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 19
1630225 TCCATCTTCT
1630235 TCTCTCCTC-CTCTTGTCA
1 TCTCTCCTCTCTCTTGTCA
*
1630253 TCCCTCCTCTCTCTAT-T-A
1 TCTCTCCTCTCTCT-TGTCA
*
1630271 TCTCTCCTGTCTCT
1 TCTCTCCTCTCTCT
1630285 CCTCCTATCA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 21 0.78
19 5 0.19
20 1 0.04
ACGTcount: A:0.06, C:0.44, G:0.04, T:0.46
Consensus pattern (19 bp):
TCTCTCCTCTCTCTTGTCA
Found at i:1632952 original size:28 final size:28
Alignment explanation
Indices: 1632918--1633501 Score: 794
Period size: 28 Copynumber: 20.4 Consensus size: 28
1632908 CGTTCATCTC
1632918 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
1632946 TTCAAAGCCTACGAGTCAGTGGCAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGC-A-TCCT
*
1632976 TTCAAAGCCCATAAGTCAGTGGCA-CCAT
1 TTCAAAGCCCACAAGTCAGTGGCATCC-T
1633004 TTCAAAGCCCACAAGTCAGTGGCACTCCT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCT
1633033 TTCAAAGCCCACAAGTCAGTGGCA-CCAT
1 TTCAAAGCCCACAAGTCAGTGGCATCC-T
*
1633061 TTCAAAGCCCACAAGTCAGTGGCACCCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCC-T
* *
1633090 TTTAAAGCCCACAAGTCAGTGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
1633118 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
1633146 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCT
*
1633175 TTCAAAGCCTACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
1633203 TTCAAAGCCCATGCAAGTCAGTGGCACCCT
1 TTCAAAGCCCA--CAAGTCAGTGGCATCCT
* *
1633233 TTCAAAGCCCACAAATCAGTGGCATTCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCT
*
1633262 TTCAAAGCCCATGCAAGTCAGTGGCACCCT
1 TTCAAAGCCCA--CAAGTCAGTGGCATCCT
* **
1633292 TTCAAAGCCCACAAATCAGTGGCATTTTT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCT
* *
1633321 TTCAAAGGCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
1633349 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCT
*
1633378 TTCAAAGCCCACAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
1633406 TTCAAAGCCCACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
1633434 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
1633462 TTCAAAGCCCACAAGTCTGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCT
1633491 TTCAAAGCCCA
1 TTCAAAGCCCA
1633502 TGAGCTAGTG
Statistics
Matches: 496, Mismatches: 44, Indels: 31
0.87 0.08 0.05
Matches are distributed among these distances:
27 3 0.01
28 262 0.53
29 154 0.31
30 65 0.13
31 12 0.02
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.23
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCT
Found at i:1633057 original size:57 final size:57
Alignment explanation
Indices: 1632918--1633580 Score: 875
Period size: 57 Copynumber: 11.5 Consensus size: 57
1632908 CGTTCATCTC
* * *
1632918 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCTACGAGTCAGTGGCAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGC-ACTCTT
* * *
1632976 TTCAAAGCCCATAAGTCAGTGGCACCATTTCAAAGCCCACAAGTCAGTGGCACTCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
1633033 TTCAAAGCCCACAAGTCAGTGGCACCATTTCAAAGCCCACAAGTCAGTGGCACCCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * * *
1633090 TTTAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCA-TCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * *
1633146 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCTACAAGTCAGTGGCA-TCCT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
1633203 TTCAAAGCCCATGCAAGTCAGTGGCACCCTTTCAAAGCCCACAAATCAGTGGCATTCTT
1 TTCAAAGCCCA--CAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * *
1633262 TTCAAAGCCCATGCAAGTCAGTGGCACCCTTTCAAAGCCCACAAATCAGTGGCATTTTT
1 TTCAAAGCCCA--CAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
*
1633321 TTCAAAGGCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * * *
1633378 TTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
*
1633434 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCTGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
** * * * *
1633491 TTCAAAGCCCATGAG-CTAGTGGTAACTCTTTTCAAAACCCACACGAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACAAGTC-AGTGG-CAC-CCTTTCAAAGCCCACA--AGTCAGTGGC-ACTCTT
*
1633553 TTCAAAGCCCACACAAGTTAGTGGCACC
1 TTCAAAG-CC-CACAAGTCAGTGGCACC
1633581 TTTTTTTTAA
Statistics
Matches: 545, Mismatches: 46, Indels: 24
0.89 0.07 0.04
Matches are distributed among these distances:
56 77 0.14
57 261 0.48
58 72 0.13
59 99 0.18
61 9 0.02
62 14 0.03
63 4 0.01
64 9 0.02
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (57 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
Found at i:1633084 original size:85 final size:85
Alignment explanation
Indices: 1632918--1633584 Score: 837
Period size: 85 Copynumber: 7.7 Consensus size: 85
1632908 CGTTCATCTC
* *
1632918 TTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAGCCTACGAGTCAGTGGCAACTCTTTTCAAA
1 TTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGC-AC-CTTTTCAAA
* *
1632982 GCCCATAAGTCAGTGGCACCAT
64 GCCCACAAGTCAGTGGCACCTT
*
1633004 TTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCATTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGC
1633069 CCACAAGTCAGTGGCACCCTT
66 CCACAAGTCAGTGGCA-CCTT
* *
1633090 TTTAAAGCCCACAAGTCAGTGGCA-TCTTTTCAAAGCCCACAAGTCAGTGGCATCC-TTTCAAAG
1 TTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAG
1633153 CCCACAAGTCAGTGGCACTCTT
65 CCCACAAGTCAGTGGCAC-CTT
* *
1633175 TTCAAAGCCTACAAGTCAGTGGCA-TCCTTTCAAAGCCCATGCAAGTCAGTGGCACCCTTTCAAA
1 TTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCA--CAAGTCAGTGGCACCTTTTCAAA
* *
1633239 GCCCACAAATCAGTGGCATTCTT
64 GCCCACAAGTCAGTGGCA-CCTT
* **
1633262 TTCAAAGCCCATGCAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAATCAGTGGCATTTTTTTCAA
1 TTCAAAGCCCA--CAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAA
* *
1633326 AGGCCACAAGTCAGTGGCACCCT
63 AGCCCACAAGTCAGTGGCACCTT
* *
1633349 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCATCC-TTTCAAAG
1 TTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAG
* *
1633413 CCCACAAGTTAGTGGCACCCT
65 CCCACAAGTCAGTGGCACCTT
*
1633434 TTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCTGTGGCACTCTTTTCAAAG
1 TTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCAC-CTTTTCAAAG
** *
1633498 CCCATGAG-CTAGTGGTAACTCTT
65 CCCACAAGTC-AGTGG-CAC-CTT
* * * *
1633521 TTCAAAACCCACACGAGTCGGTGGCAACTCTTTTCAAAGCCCACACAAGTTAGTGGCACCTTTT
1 TTCAAAGCCCACA--AGTCAGTGGC-ACTCCTTTCAAAG-CC-CACAAGTCAGTGGCACCTTTT
1633585 TTTTAAAAAA
Statistics
Matches: 516, Mismatches: 41, Indels: 42
0.86 0.07 0.07
Matches are distributed among these distances:
83 1 0.00
84 26 0.05
85 201 0.39
86 83 0.16
87 114 0.22
88 23 0.04
89 36 0.07
90 2 0.00
91 9 0.02
92 7 0.01
93 14 0.03
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (85 bp):
TTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGC
CCACAAGTCAGTGGCACCTT
Found at i:1635467 original size:12 final size:11
Alignment explanation
Indices: 1635448--1635523 Score: 70
Period size: 12 Copynumber: 6.9 Consensus size: 11
1635438 AGAGAAAGAA
1635448 GAGATAGGAGG
1 GAGATAGGAGG
1635459 GATGATAGGAGG
1 GA-GATAGGAGG
1635471 AGAGATAGGA--
1 -GAGATAGGAGG
*
1635481 GAGATAGTA--
1 GAGATAGGAGG
1635490 GAGATAGGAGG
1 GAGATAGGAGG
*
1635501 GATGATAGGAGAA
1 GA-GATAGGAG-G
1635514 GAGATAGGAG
1 GAGATAGGAG
1635524 AGATAATAGA
Statistics
Matches: 56, Mismatches: 3, Indels: 11
0.80 0.04 0.16
Matches are distributed among these distances:
9 16 0.29
11 4 0.07
12 32 0.57
13 4 0.07
ACGTcount: A:0.41, C:0.00, G:0.46, T:0.13
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:1635482 original size:9 final size:9
Alignment explanation
Indices: 1635468--1635528 Score: 59
Period size: 9 Copynumber: 6.1 Consensus size: 9
1635458 GGATGATAGG
1635468 AGGAGAGAT
1 AGGAGAGAT
1635477 AGGAGAGAT
1 AGGAGAGAT
*
1635486 AGTAGAGAT
1 AGGAGAGAT
1635495 AGGAGGGATGAT
1 AGGA--GA-GAT
1635507 AGGAGAAGAGAT
1 A-G-G-AGAGAT
1635519 AGGAGAGAT
1 AGGAGAGAT
1635528 A
1 A
1635529 ATAGAGAGAG
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
9 27 0.61
10 1 0.02
11 3 0.07
12 8 0.18
13 3 0.07
14 1 0.02
15 1 0.02
ACGTcount: A:0.44, C:0.00, G:0.43, T:0.13
Consensus pattern (9 bp):
AGGAGAGAT
Found at i:1635494 original size:18 final size:18
Alignment explanation
Indices: 1635471--1635541 Score: 61
Period size: 18 Copynumber: 3.6 Consensus size: 18
1635461 TGATAGGAGG
1635471 AGAGATAGGAGAGATAGT
1 AGAGATAGGAGAGATAGT
*
1635489 AGAGATAGGAGGGATGATAGGAGA
1 AGAGATAGGA--GA-GAT---AGT
*
1635513 AGAGATAGGAGAGATAAT
1 AGAGATAGGAGAGATAGT
*
1635531 AGAGAGAGGAG
1 AGAGATAGGAG
1635542 GGATGACAGG
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
18 21 0.49
20 2 0.05
21 6 0.14
22 2 0.05
24 12 0.28
ACGTcount: A:0.45, C:0.00, G:0.42, T:0.13
Consensus pattern (18 bp):
AGAGATAGGAGAGATAGT
Found at i:1635497 original size:42 final size:42
Alignment explanation
Indices: 1635438--1635559 Score: 190
Period size: 42 Copynumber: 2.9 Consensus size: 42
1635428 TAGCCCTCAA
* *
1635438 AGAGAAAGAAGAGATAGGAGGGATGATAGGAGGAGAGATAGG
1 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGATAGG
*
1635480 AGAGATAGTAGAGATAGGAGGGATGATAGGAGAAGAGATAGG
1 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGATAGG
* * *
1635522 AGAGATAATAGAGAGAGGAGGGATGACAGGAGGAGAGA
1 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGA
1635560 AGAAGATGGA
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 73 1.00
ACGTcount: A:0.44, C:0.01, G:0.44, T:0.11
Consensus pattern (42 bp):
AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGATAGG
Found at i:1635532 original size:12 final size:12
Alignment explanation
Indices: 1635450--1635537 Score: 59
Period size: 12 Copynumber: 7.9 Consensus size: 12
1635440 AGAAAGAAGA
*
1635450 GATAGGAGGGAT
1 GATAGGAGAGAT
1635462 GATAGGAGGAGA-
1 GATAGGA-GAGAT
1635474 GATA-G-GAGA-
1 GATAGGAGAGAT
*
1635483 GATA-G-TAGA-
1 GATAGGAGAGAT
*
1635492 GATAGGAGGGAT
1 GATAGGAGAGAT
1635504 GATAGGAGAAGA-
1 GATAGGAG-AGAT
1635516 GATAGGAGAGAT
1 GATAGGAGAGAT
*
1635528 AATA-GAGAGA
1 GATAGGAGAGA
1635538 GGAGGGATGA
Statistics
Matches: 64, Mismatches: 6, Indels: 13
0.77 0.07 0.16
Matches are distributed among these distances:
9 16 0.25
10 1 0.02
11 12 0.19
12 30 0.47
13 5 0.08
ACGTcount: A:0.43, C:0.00, G:0.43, T:0.14
Consensus pattern (12 bp):
GATAGGAGAGAT
Found at i:1635826 original size:108 final size:108
Alignment explanation
Indices: 1635637--1635855 Score: 438
Period size: 108 Copynumber: 2.0 Consensus size: 108
1635627 GGAAGGAATG
1635637 ATGTTGAAGCATACTTAGAGTGGGAGTTGAAGATAGAGCAAATATTCTCATGCTATGATTATAGT
1 ATGTTGAAGCATACTTAGAGTGGGAGTTGAAGATAGAGCAAATATTCTCATGCTATGATTATAGT
1635702 GAGGAAAAGAAAGTGAAGGTGGCTTCCTTAGAGTTCCATGATT
66 GAGGAAAAGAAAGTGAAGGTGGCTTCCTTAGAGTTCCATGATT
1635745 ATGTTGAAGCATACTTAGAGTGGGAGTTGAAGATAGAGCAAATATTCTCATGCTATGATTATAGT
1 ATGTTGAAGCATACTTAGAGTGGGAGTTGAAGATAGAGCAAATATTCTCATGCTATGATTATAGT
1635810 GAGGAAAAGAAAGTGAAGGTGGCTTCCTTAGAGTTCCATGATT
66 GAGGAAAAGAAAGTGAAGGTGGCTTCCTTAGAGTTCCATGATT
1635853 ATG
1 ATG
1635856 CCTTGGTGTG
Statistics
Matches: 111, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
108 111 1.00
ACGTcount: A:0.33, C:0.10, G:0.27, T:0.30
Consensus pattern (108 bp):
ATGTTGAAGCATACTTAGAGTGGGAGTTGAAGATAGAGCAAATATTCTCATGCTATGATTATAGT
GAGGAAAAGAAAGTGAAGGTGGCTTCCTTAGAGTTCCATGATT
Found at i:1640986 original size:20 final size:20
Alignment explanation
Indices: 1640963--1641067 Score: 84
Period size: 20 Copynumber: 4.7 Consensus size: 20
1640953 AAGTACCCAG
1640963 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
1640983 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
1641003 ATGTATCGATACATTCTGTATTTTTACCTA
1 ATGTATCGAT--A--C---ATTTTT--C-A
1641033 GATGTATCGATACATTTTTCA
1 -ATGTATCGATACATTTTTCA
1641054 ATGTATCGATACAT
1 ATGTATCGATACAT
1641068 CTAGTTAAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 22
0.71 0.06 0.23
Matches are distributed among these distances:
20 41 0.60
21 1 0.01
22 2 0.03
24 7 0.10
27 5 0.07
29 1 0.01
30 1 0.01
31 10 0.15
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:1643801 original size:12 final size:11
Alignment explanation
Indices: 1643779--1643854 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
1643769 AGAGAAAGAA
*
1643779 GAGAGAGGAGG
1 GAGATAGGAGG
1643790 GATGATAGGAGG
1 GA-GATAGGAGG
*
1643802 AGAGACAGGA--
1 -GAGATAGGAGG
*
1643812 GAGATAGTA--
1 GAGATAGGAGG
1643821 GAGATAGGAGG
1 GAGATAGGAGG
1643832 GATGATAGGAGG
1 GA-GATAGGAGG
*
1643844 AGAGACAGGAG
1 -GAGATAGGAG
1643855 AGATAATAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 4 0.08
12 30 0.57
13 4 0.08
ACGTcount: A:0.39, C:0.03, G:0.49, T:0.09
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:1643811 original size:24 final size:24
Alignment explanation
Indices: 1643778--1643863 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
1643768 AAGAGAAAGA
*
1643778 AGAGAGAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
*
1643802 AGAGACAGGA--GA-GAT---AGT
1 AGAGACAGGAGGGATGATAGGAGG
*
1643820 AGAGATAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
* *
1643844 AGAGACAGGAGAGATAATAG
1 AGAGACAGGAGGGATGATAG
1643864 AGAGAGGAGG
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 11 0.22
20 2 0.04
21 6 0.12
22 2 0.04
24 28 0.57
ACGTcount: A:0.42, C:0.02, G:0.45, T:0.10
Consensus pattern (24 bp):
AGAGACAGGAGGGATGATAGGAGG
Found at i:1643830 original size:42 final size:42
Alignment explanation
Indices: 1643769--1643887 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
1643759 TAGCCCTCAA
* *
1643769 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
1643811 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* *
1643853 AGAGATAATAGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
1643888 GAGAGAAGAA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.43, C:0.03, G:0.46, T:0.08
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:1653051 original size:42 final size:42
Alignment explanation
Indices: 1652996--1653114 Score: 175
Period size: 42 Copynumber: 2.8 Consensus size: 42
1652986 TTCTTCTCTC
* * *
1652996 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCATGTCT
* *
1653038 CTCCTGCTATCATCCCTCCTATCTCTACTATCTCTCATGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCATGTCT
* *
1653080 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
1653115 TTGAGGGCTA
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 68 1.00
ACGTcount: A:0.09, C:0.45, G:0.03, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCATGTCT
Found at i:1663332 original size:29 final size:29
Alignment explanation
Indices: 1663307--1663402 Score: 88
Period size: 29 Copynumber: 3.3 Consensus size: 29
1663297 TGGACATGTG
*
1663307 AATTGGGCTCTAAGCCATGAATACATGCA
1 AATTGGGCTCCAAGCCATGAATACATGCA
** * * **
1663336 AATTGGGCTCCACTCTTCTTG--GACATGTG
1 AATTGGGCTCCAAGC--CATGAATACATGCA
*
1663365 AATTGGGCTCCAAGCCATGAATGCATGCA
1 AATTGGGCTCCAAGCCATGAATACATGCA
1663394 AATTGGGCT
1 AATTGGGCT
1663403 TCATTCTTCT
Statistics
Matches: 49, Mismatches: 14, Indels: 8
0.69 0.20 0.11
Matches are distributed among these distances:
27 3 0.06
29 43 0.88
31 3 0.06
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (29 bp):
AATTGGGCTCCAAGCCATGAATACATGCA
Found at i:1663363 original size:58 final size:58
Alignment explanation
Indices: 1663263--1663437 Score: 278
Period size: 58 Copynumber: 3.0 Consensus size: 58
1663253 ACAATAGGCC
* * *
1663263 CCATAAATATATGCAAATTGGGCTCCACTCTTCTTGGACATGTGAATTGGGCTCTAAG
1 CCATGAATACATGCAAATTGGGCTCCACTCTTCTTGGACATGTGAATTGGGCTCCAAG
1663321 CCATGAATACATGCAAATTGGGCTCCACTCTTCTTGGACATGTGAATTGGGCTCCAAG
1 CCATGAATACATGCAAATTGGGCTCCACTCTTCTTGGACATGTGAATTGGGCTCCAAG
* * * **
1663379 CCATGAATGCATGCAAATTGGGCTTCATTCTTCTTGGACATACGAATTGGGCTCCAAG
1 CCATGAATACATGCAAATTGGGCTCCACTCTTCTTGGACATGTGAATTGGGCTCCAAG
1663437 C
1 C
1663438 TTTATTCTTC
Statistics
Matches: 109, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 109 1.00
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (58 bp):
CCATGAATACATGCAAATTGGGCTCCACTCTTCTTGGACATGTGAATTGGGCTCCAAG
Found at i:1666646 original size:138 final size:138
Alignment explanation
Indices: 1666396--1666658 Score: 318
Period size: 138 Copynumber: 1.9 Consensus size: 138
1666386 TTCATGCCTC
** * ** * *
1666396 AAATGAAACAAACATGGATTCTAGTAATGATCTTCATTCTTTTCATTATTGGGCACTATAAATCC
1 AAATGAAACAAACATGGATTCTAGTAAAAATCTCCATTCTTTTCAAGATTGGGCACTAAAAAACC
* **
1666461 ATTCTCCTCATTAGGATACAAGATATTAGTGCTTTGGCTTTGCAAGAAAAGCTTTTCTTTGCCCT
66 ATTCACCTCATTAGGATACAAGATATTAGTGCTTT-GCTTCACAAGAAAAGCTTTTCTTTGCCCT
1666526 ATTTTCCTT
130 ATTTTCCTT
*
1666535 AAATGAAACAAACATGGATTCTCA-TAAAAATCTCCATTCTTTTCAAGATTTGG-AC-AAAAAAC
1 AAATGAAACAAACATGGATTCT-AGTAAAAATCTCCATTCTTTTCAAGATTGGGCACTAAAAAAC
* * * *
1666597 ACATTCACTTCATTGGGATACATGATGTTAGTGCTTT-CATGTCACAAGAAAAGCTTTTCTTT
65 -CATTCACCTCATTAGGATACAAGATATTAGTGCTTTGC-T-TCACAAGAAAAGCTTTTCTTT
1666659 TCACCACTTT
Statistics
Matches: 105, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
136 1 0.01
137 6 0.06
138 52 0.50
139 45 0.43
140 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.36
Consensus pattern (138 bp):
AAATGAAACAAACATGGATTCTAGTAAAAATCTCCATTCTTTTCAAGATTGGGCACTAAAAAACC
ATTCACCTCATTAGGATACAAGATATTAGTGCTTTGCTTCACAAGAAAAGCTTTTCTTTGCCCTA
TTTTCCTT
Found at i:1668111 original size:81 final size:80
Alignment explanation
Indices: 1667999--1668148 Score: 196
Period size: 81 Copynumber: 1.9 Consensus size: 80
1667989 ACAAAGACTC
* * * * * *
1667999 TCCTATCTAATAAGGAAAAGTCTATTTCTTATCCTAATCGT-ATTAGGACTTATCTAAATAACTT
1 TCCTATCTAATAAGGAAAAGTCTACTCCTTATCATAAT-GTGATTAGGAATTATCTAAACAAATT
1668063 AAAATCCTAAACACAA
65 AAAATCCTAAACACAA
*
1668079 TCCTAATC-AATAAGGATAAAGTCTACTCCTTATCATAATTTGATTAGGAATTATCTAAACAAAT
1 TCCT-ATCTAATAAGGA-AAAGTCTACTCCTTATCATAATGTGATTAGGAATTATCTAAACAAAT
1668143 TAAAAT
64 TAAAAT
1668149 TGAAAAGTCA
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
80 13 0.22
81 47 0.78
ACGTcount: A:0.41, C:0.17, G:0.08, T:0.34
Consensus pattern (80 bp):
TCCTATCTAATAAGGAAAAGTCTACTCCTTATCATAATGTGATTAGGAATTATCTAAACAAATTA
AAATCCTAAACACAA
Found at i:1671860 original size:28 final size:29
Alignment explanation
Indices: 1671798--1671869 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 29
1671788 TTCTTCTTTA
* * *
1671798 TTGATTTCTTTTTCTTTGAAATTTCTTGC
1 TTGATTTCATTTCCTTTCAAATTTCTTGC
*
1671827 TT-ATTTCATTTCCTTTCATATTTCTTG-
1 TTGATTTCATTTCCTTTCAAATTTCTTGC
* *
1671854 TTGATTTTACTTCCTT
1 TTGATTTCATTTCCTT
1671870 GATCTTTCTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
27 2 0.06
28 32 0.89
29 2 0.06
ACGTcount: A:0.14, C:0.17, G:0.07, T:0.62
Consensus pattern (29 bp):
TTGATTTCATTTCCTTTCAAATTTCTTGC
Found at i:1672874 original size:58 final size:58
Alignment explanation
Indices: 1672779--1672895 Score: 198
Period size: 58 Copynumber: 2.0 Consensus size: 58
1672769 AACAATAGGC
**
1672779 CCATAAATATATGCAAATTGGGCTCCACTCTTCTTGGACATGTGAATTGGGCTCCAAG
1 CCATAAATATATGCAAATTGGGCTCCACTCTTCTTGGACATACGAATTGGGCTCCAAG
* *
1672837 CCATGAATATATGCAAATTGGGCTTCACTCTTCTTGGACATACGAATTGGGCTCCAAG
1 CCATAAATATATGCAAATTGGGCTCCACTCTTCTTGGACATACGAATTGGGCTCCAAG
1672895 C
1 C
1672896 TTTATTCTTC
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (58 bp):
CCATAAATATATGCAAATTGGGCTCCACTCTTCTTGGACATACGAATTGGGCTCCAAG
Found at i:1681266 original size:157 final size:158
Alignment explanation
Indices: 1681105--1681588 Score: 545
Period size: 157 Copynumber: 3.1 Consensus size: 158
1681095 GATACACGAT
1681105 ATTGATGATTTGCTTTCATAAGAAAAGTTTTCTTTGCCCCATTTTCCTTTAAAACAAAATTCATC
1 ATTGATGATTTGCTTTCATAAGAAAAGTTTTCTTTGCCCCATTTTCCTTTAAAACAAAATTCATC
1681170 CCCTTAATGAGACAAAAATGGATTCTTGCAATAGTCTCTATTCTTTTCAAGATTGGGAACCAAAA
66 CCCTTAATGAGACAAAAATGGATTCTTGCAATAGTCTCTATTCTTTTCAAGATTGGGAACCAAAA
1681235 ACA-GTTCCTTTCATTGCGATACTTGAC
131 ACATGTTCCTTTCATTGCGATACTTGAC
** * * ** ** * * *
1681262 ATTGATGATTTGGC-ACCACAAGGAAAGCTTTTCTTT-CCATAATTTT--GATAGAATCCAAGTT
1 ATTGATGATTT-GCTTTCATAAGAAAAG-TTTTCTTTGCC-CCATTTTCCTTTA-AAACAAAATT
** ** * ** * * * * * * *** *
1681323 TGTCCCTCAAAATAAGACAAACTTGGATTGTCGTAACAATCTCCA-TCTTTTTGTGATT-GGCAC
62 CATCCC-CTTAATGAGACAAAAATGGATTCTTGCAATAGTCTCTATTCTTTTCAAGATTGGGAAC
* * * *
1681386 CATAAACATGTT-CTACTT-ATTGGGATACATGAT
126 CAAAAACATGTTCCT--TTCATTGCGATACTTGAC
1681419 ATTGATGATTTGCTTTCATAAGAAAAGTTTTCTTTGCCCCATTTTCCTTTAAAACAAAATTCATC
1 ATTGATGATTTGCTTTCATAAGAAAAGTTTTCTTTGCCCCATTTTCCTTTAAAACAAAATTCATC
1681484 CCCTTAATGAGACAAAAATGGATTCTTGCAATAGTCTCTATTCTTTTCAAGATTGGGAACCAAAA
66 CCCTTAATGAGACAAAAATGGATTCTTGCAATAGTCTCTATTCTTTTCAAGATTGGGAACCAAAA
1681549 ACATGTTCCTTTCATTGCGATACTTGAC
131 ACATGTTCCTTTCATTGCGATACTTGAC
*
1681577 ATTGATGCTTTG
1 ATTGATGATTTG
1681589 GCACCACAAG
Statistics
Matches: 246, Mismatches: 65, Indels: 31
0.72 0.19 0.09
Matches are distributed among these distances:
156 57 0.23
157 103 0.42
158 84 0.34
159 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (158 bp):
ATTGATGATTTGCTTTCATAAGAAAAGTTTTCTTTGCCCCATTTTCCTTTAAAACAAAATTCATC
CCCTTAATGAGACAAAAATGGATTCTTGCAATAGTCTCTATTCTTTTCAAGATTGGGAACCAAAA
ACATGTTCCTTTCATTGCGATACTTGAC
Found at i:1681350 original size:158 final size:159
Alignment explanation
Indices: 1681179--1681658 Score: 539
Period size: 158 Copynumber: 3.0 Consensus size: 159
1681169 CCCCTTAATG
1681179 AGACAAAAATGGATTCTTGCAATAGTCTCTATTCTTTTCAAGATTGGGAACCAAAAACA-GTTCC
1 AGACAAAAATGGATTCTTGCAATAGTCTCTATTCTTTTCAAGATTGGGAACCAAAAACATGTTCC
1681243 TTTCATTGCGATACTTGACATTGATGATTTGGCACCACAAGGAAAGCTTTTCTTTCCATAATTTT
66 TTTCATTGCGATACTTGACATTGATGATTTGGCACCACAAGGAAAGCTTTTCTTTCCATAATTTT
1681308 GATAGAATCCAAGTTTGTCCCTCAAAATA
131 GATAGAATCCAAGTTTGTCCCTCAAAATA
** * * * * * * *** * *
1681337 AGACAAACTTGGATTGTCGTAACAATCTCCA-TCTTTTTGTGATT-GGCACCATAAACATGTT-C
1 AGACAAAAATGGATTCTTGCAATAGTCTCTATTCTTTTCAAGATTGGGAACCAAAAACATGTTCC
* * * ** * * **
1681399 TACTT-ATTGGGATACATGATATTGATGATTT-GCTTTCATAAGAAAAG-TTTTCTTTGCC-CCA
66 T--TTCATTGCGATACTTGACATTGATGATTTGGC-ACCACAAGGAAAGCTTTTCTTT-CCATAA
** * * * ** ** *
1681460 TTTTCCTTTA-AAACAAAATTCATCCC-CTTAATG
127 TTTT--GATAGAATCCAAGTTTGTCCCTCAAAATA
1681493 AGACAAAAATGGATTCTTGCAATAGTCTCTATTCTTTTCAAGATTGGGAACCAAAAACATGTTCC
1 AGACAAAAATGGATTCTTGCAATAGTCTCTATTCTTTTCAAGATTGGGAACCAAAAACATGTTCC
*
1681558 TTTCATTGCGATACTTGACATTGATGCTTTGGCACCACAAGGAAAGCTTTTCTTTCCATAATTTT
66 TTTCATTGCGATACTTGACATTGATGATTTGGCACCACAAGGAAAGCTTTTCTTTCCATAATTTT
1681623 GATAGAATCCAAGTTTGTCCCTCAAAATA
131 GATAGAATCCAAGTTTGTCCCTCAAAATA
1681652 AGACAAA
1 AGACAAA
1681659 CTTGGATTGT
Statistics
Matches: 241, Mismatches: 65, Indels: 31
0.72 0.19 0.09
Matches are distributed among these distances:
156 55 0.23
157 72 0.30
158 86 0.36
159 28 0.12
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.35
Consensus pattern (159 bp):
AGACAAAAATGGATTCTTGCAATAGTCTCTATTCTTTTCAAGATTGGGAACCAAAAACATGTTCC
TTTCATTGCGATACTTGACATTGATGATTTGGCACCACAAGGAAAGCTTTTCTTTCCATAATTTT
GATAGAATCCAAGTTTGTCCCTCAAAATA
Found at i:1681760 original size:156 final size:156
Alignment explanation
Indices: 1681285--1681764 Score: 483
Period size: 156 Copynumber: 3.1 Consensus size: 156
1681275 CACCACAAGG
1681285 AAAGCTTTTCTTTCCATAATTTTGATAGAATCCAAGTTTGTCCCTCAAAATAAGACAAACTTGGA
1 AAAGCTTTTCTTTCCATAATTTTGATAGAATCCAAGTTTGTCCCTCAAAATAAGACAAACTTGGA
1681350 TTGTCGTAACAATCTCCATCTTTTTGTGATTGGCACCATAAACATGTTCTACTTATTGGGATACA
66 TTGTCGTAACAATCTCCATCTTTTTGTGATTGGCACCATAAACATGTTCTACTTATTGGGATACA
*
1681415 TGATATTGATGATTT-GCTTTCATAAGA
131 TGATATTGATGCTTTGGCTTTCA-AA-A
** ** * * * ** ** * **
1681442 AAAG-TTTTCTTTGCC-CCATTTTCCTTTA-AAACAAAATTCATCCC-CTTAATGAGACAAAAAT
1 AAAGCTTTTCTTT-CCATAATTTT--GATAGAATCCAAGTTTGTCCCTCAAAATAAGACAAACTT
* * * * * * *** * *
1681503 GGATTCTTGCAATAGTCTCTATTCTTTTCAAGATTGGGAACCAAAAACATGTTC--CTTTCATTG
63 GGATTGTCGTAACAATCTCCA-TCTTTTTGTGATT-GGCACCATAAACATGTTCTAC-TT-ATTG
* * * ** *
1681566 CGATACTTGACATTGATGCTTTGGC-ACCACAAGG
124 GGATACATGATATTGATGCTTTGGCTTTCA-AA-A
1681600 AAAGCTTTTCTTTCCATAATTTTGATAGAATCCAAGTTTGTCCCTCAAAATAAGACAAACTTGGA
1 AAAGCTTTTCTTTCCATAATTTTGATAGAATCCAAGTTTGTCCCTCAAAATAAGACAAACTTGGA
*
1681665 TTGTCATAACAATCTCCATCTTTTTGTGATTGGCACCATAAA-ATGTTCTACTTATTGGGATACA
66 TTGTCGTAACAATCTCCATCTTTTTGTGATTGGCACCATAAACATGTTCTACTTATTGGGATACA
*
1681729 TGATATTGATGCTTTGGCTTTGCAAAT
131 TGATATTGATGCTTTGGCTTT-CAAAA
1681756 AAAGCTTTT
1 AAAGCTTTT
1681765 TTTTGACCCA
Statistics
Matches: 242, Mismatches: 65, Indels: 33
0.71 0.19 0.10
Matches are distributed among these distances:
156 82 0.34
157 44 0.18
158 75 0.31
159 41 0.17
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (156 bp):
AAAGCTTTTCTTTCCATAATTTTGATAGAATCCAAGTTTGTCCCTCAAAATAAGACAAACTTGGA
TTGTCGTAACAATCTCCATCTTTTTGTGATTGGCACCATAAACATGTTCTACTTATTGGGATACA
TGATATTGATGCTTTGGCTTTCAAAA
Found at i:1681778 original size:156 final size:155
Alignment explanation
Indices: 1681285--1681822 Score: 450
Period size: 156 Copynumber: 3.4 Consensus size: 155
1681275 CACCACAAGG
* * ** *
1681285 AAAGCTTTTCTTT-CCATAATTTTGATAGAATCCAAGTTTGTCCCTCAAAATAAGACAAACTTGG
1 AAAGCTTTTCTTTGCC--CATTTTGATAGAATCAAAGTTCATCCCTCAAAATAAGACAAACATGG
1681349 ATTGTCGTAACAATCTCCATCTTTTTGTGATTGGCACCATAAACATGTTCTACTTATTGGGATAC
64 ATTGTCGTAACAATCTCCATCTTTTTGTGATTGGCACCATAAACATGTTCTACTTATTGGGATAC
*
1681414 ATGATATTGATGATTT-GCTTTCATAAGA
129 ATGATATTGATGCTTTGGCTTTCA-AA-A
** * * ** * *
1681442 AAAG-TTTTCTTTGCCCCATTTTCCTTTA-AAACAAAATTCATCCC-CTTAATGAGACAAAAATG
1 AAAGCTTTTCTTTG-CCCATTTT--GATAGAATCAAAGTTCATCCCTCAAAATAAGACAAACATG
* * * * * * *** * * *
1681504 GATTCTTGCAATAGTCTCTATTCTTTTCAAGATTGGGAACCAAAAACATGTTC--CTTTCATTGC
63 GATTGTCGTAACAATCTCCA-TCTTTTTGTGATT-GGCACCATAAACATGTTCTAC-TT-ATTGG
* * ** *
1681567 GATACTTGACATTGATGCTTTGGC-ACCACAAGG
124 GATACATGATATTGATGCTTTGGCTTTCA-AA-A
* * ** *
1681600 AAAGCTTTTCTTT-CCATAATTTTGATAGAATCCAAGTTTGTCCCTCAAAATAAGACAAACTTGG
1 AAAGCTTTTCTTTGCC--CATTTTGATAGAATCAAAGTTCATCCCTCAAAATAAGACAAACATGG
*
1681664 ATTGTCATAACAATCTCCATCTTTTTGTGATTGGCACCATAAA-ATGTTCTACTTATTGGGATAC
64 ATTGTCGTAACAATCTCCATCTTTTTGTGATTGGCACCATAAACATGTTCTACTTATTGGGATAC
*
1681728 ATGATATTGATGCTTTGGCTTTGCAAAT
129 ATGATATTGATGCTTTGGCTTT-CAAAA
* ** * *
1681756 AAAGCTTTTTTTTGACCCATTTTTCTTAAAATCAAAGTTCATCCCTC-AAATATGACAAACATGG
1 AAAGCTTTTCTTTG-CCCA-TTTTGATAGAATCAAAGTTCATCCCTCAAAATAAGACAAACATGG
1681820 ATT
64 ATT
1681823 CTTATAATAG
Statistics
Matches: 287, Mismatches: 73, Indels: 43
0.71 0.18 0.11
Matches are distributed among these distances:
156 104 0.36
157 65 0.23
158 77 0.27
159 41 0.14
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.37
Consensus pattern (155 bp):
AAAGCTTTTCTTTGCCCATTTTGATAGAATCAAAGTTCATCCCTCAAAATAAGACAAACATGGAT
TGTCGTAACAATCTCCATCTTTTTGTGATTGGCACCATAAACATGTTCTACTTATTGGGATACAT
GATATTGATGCTTTGGCTTTCAAAA
Found at i:1681838 original size:156 final size:156
Alignment explanation
Indices: 1681051--1681845 Score: 495
Period size: 157 Copynumber: 5.1 Consensus size: 156
1681041 TAATGATCTT
** * * * * *
1681051 CATT-TTTTTGTGATTGGGTGCCATAAACATGTTCTCCTTGTTAGGATACACGATATTGATGATT
1 CATTCTTTTTGTGATT-GGCACCATAAACATGTTCTACTTATTGGGATACATGATATTGATGCTT
* * **
1681115 T-GCTTTCATAAGAAAAG-TTTTCTTTGCCCCATTTTCCTTTAAAA-CAAAATTCATCCC-CTTA
65 TGGCTTTCA-AA-AAAAGCTTTTCTTTG-CCCATTTTTC-TTAAAATCAAAGTTCATCCCTCAAA
* **
1681176 ATGAGACAAAAATGGATTCTTGCAATAGTCTC
126 AT-AGACAAACATGGATTCTTATAATAGTCTC
* *** * * * * * *
1681208 TATTCTTTTCAAGATTGGGAACCAAAAACA-GTTC--CTTTCATTGCGATACTTGACATTGATGA
1 CATTCTTTTTGTGATT-GGCACCATAAACATGTTCTAC-TT-ATTGGGATACATGATATTGATGC
** * ** * * **
1681270 TTTGGC-ACCACAAGGAAAGCTTTTCTTT--CCATAATTTTGATAGAATCCAAGTTTGTCCCTCA
63 TTTGGCTTTCA-AA-AAAAGCTTTTCTTTGCCCAT--TTTTCTTAAAATCAAAGTTCATCCCTCA
* * ** * *
1681332 AAATAAGACAAACTTGGATTGTCGTAACAATCTC
124 AAAT-AGACAAACATGGATTCTTATAATAGTCTC
*
1681366 CA-TCTTTTTGTGATTGGCACCATAAACATGTTCTACTTATTGGGATACATGATATTGATGATTT
1 CATTCTTTTTGTGATTGGCACCATAAACATGTTCTACTTATTGGGATACATGATATTGATGCTTT
* * **
1681430 -GCTTTCATAAGAAAAG-TTTTCTTTGCCCCATTTTCCTTTAAAA-CAAAATTCATCCC-CTTAA
66 GGCTTTCA-AA-AAAAGCTTTTCTTTG-CCCATTTTTC-TTAAAATCAAAGTTCATCCCTCAAAA
* **
1681491 TGAGACAAAAATGGATTCTTGCAATAGTCTC
127 T-AGACAAACATGGATTCTTATAATAGTCTC
* *** * * * * *
1681522 TATTCTTTTCAAGATTGGGAACCAAAAACATGTTC--CTTTCATTGCGATACTTGACATTGATGC
1 CATTCTTTTTGTGATT-GGCACCATAAACATGTTCTAC-TT-ATTGGGATACATGATATTGATGC
** * ** * * **
1681585 TTTGGC-ACCACAAGGAAAGCTTTTCTTT--CCATAATTTTGATAGAATCCAAGTTTGTCCCTCA
63 TTTGGCTTTCA-AA-AAAAGCTTTTCTTTGCCCAT--TTTTCTTAAAATCAAAGTTCATCCCTCA
* * * * *
1681647 AAATAAGACAAACTTGGATTGTCATAACAATCTC
124 AAAT-AGACAAACATGGATTCTTATAATAGTCTC
1681681 CA-TCTTTTTGTGATTGGCACCATAAA-ATGTTCTACTTATTGGGATACATGATATTGATGCTTT
1 CATTCTTTTTGTGATTGGCACCATAAACATGTTCTACTTATTGGGATACATGATATTGATGCTTT
* *
1681744 GGCTTTGCAAATAAAGCTTTTTTTTGACCCATTTTTCTTAAAATCAAAGTTCATCCCTC-AAATA
66 GGCTTT-CAAAAAAAGCTTTTCTTTG-CCCATTTTTCTTAAAATCAAAGTTCATCCCTCAAAATA
*
1681808 TGACAAACATGGATTCTTATAATAGCCTC
129 -GACAAACATGGATTCTTATAATAGTCTC
1681837 CATTCTTTT
1 CATTCTTTT
1681846 CATATTAGGC
Statistics
Matches: 478, Mismatches: 124, Indels: 72
0.71 0.18 0.11
Matches are distributed among these distances:
155 6 0.01
156 131 0.27
157 162 0.34
158 134 0.28
159 45 0.09
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (156 bp):
CATTCTTTTTGTGATTGGCACCATAAACATGTTCTACTTATTGGGATACATGATATTGATGCTTT
GGCTTTCAAAAAAAGCTTTTCTTTGCCCATTTTTCTTAAAATCAAAGTTCATCCCTCAAAATAGA
CAAACATGGATTCTTATAATAGTCTC
Found at i:1681863 original size:314 final size:314
Alignment explanation
Indices: 1681046--1681847 Score: 1292
Period size: 315 Copynumber: 2.5 Consensus size: 314
1681036 TCTAGTAATG
* * ** * * * *
1681046 ATCTTCATTTTTTTGTGATTGGGTGCCATAAACATGTTCTCCTTGTTAGGATACACGATATTGAT
1 ATCTCCATCTTTTTGTGATT-GGCACCATAAACATGTTCTACTTATTGGGATACATGATATTGAT
1681111 GATTTGCTTTCATAAGAAAAGTTTTCTTTGCCCCATTTTCCTTTAAAACAAAATTCATCCCCTTA
65 GATTTGCTTTCATAAGAAAAGTTTTCTTTGCCCCATTTTCCTTTAAAACAAAATTCATCCCCTTA
1681176 ATGAGACAAAAATGGATTCTTGCAATAGTCTCTATTCTTTTCAAGATTGGGAACCAAAAACAGTT
130 ATGAGACAAAAATGGATTCTTGCAATAGTCTCTATTCTTTTCAAGATTGGGAACCAAAAACAGTT
1681241 CCTTTCATTGCGATACTTGACATTGATGATTTGGCACCACAAGGAAAGCTTTTCTTTCCATAATT
195 CCTTTCATTGCGATACTTGACATTGATGATTTGGCACCACAAGGAAAGCTTTTCTTTCCATAATT
*
1681306 TTGATAGAATCCAAGTTTGTCCCTCAAAATAAGACAAACTTGGATTGTCGTAACA
260 TTGATAGAATCCAAGTTTGTCCCTCAAAATAAGACAAACTTGGATTGTCATAACA
1681361 ATCTCCATCTTTTTGTGATTGGCACCATAAACATGTTCTACTTATTGGGATACATGATATTGATG
1 ATCTCCATCTTTTTGTGATTGGCACCATAAACATGTTCTACTTATTGGGATACATGATATTGATG
1681426 ATTTGCTTTCATAAGAAAAGTTTTCTTTGCCCCATTTTCCTTTAAAACAAAATTCATCCCCTTAA
66 ATTTGCTTTCATAAGAAAAGTTTTCTTTGCCCCATTTTCCTTTAAAACAAAATTCATCCCCTTAA
1681491 TGAGACAAAAATGGATTCTTGCAATAGTCTCTATTCTTTTCAAGATTGGGAACCAAAAACATGTT
131 TGAGACAAAAATGGATTCTTGCAATAGTCTCTATTCTTTTCAAGATTGGGAACCAAAAACA-GTT
*
1681556 CCTTTCATTGCGATACTTGACATTGATGCTTTGGCACCACAAGGAAAGCTTTTCTTTCCATAATT
195 CCTTTCATTGCGATACTTGACATTGATGATTTGGCACCACAAGGAAAGCTTTTCTTTCCATAATT
1681621 TTGATAGAATCCAAGTTTGTCCCTCAAAATAAGACAAACTTGGATTGTCATAACA
260 TTGATAGAATCCAAGTTTGTCCCTCAAAATAAGACAAACTTGGATTGTCATAACA
1681676 ATCTCCATCTTTTTGTGATTGGCACCATAAA-ATGTTCTACTTATTGGGATACATGATATTGATG
1 ATCTCCATCTTTTTGTGATTGGCACCATAAACATGTTCTACTTATTGGGATACATGATATTGATG
* * * * * *
1681740 CTTTGGCTTTGCA-AA-TAAAGCTTTTTTTTGACCCATTTTTC-TTAAAATCAAAGTTCAT-CCC
66 ATTT-GCTTT-CATAAGAAAAG-TTTTCTTTGCCCCATTTTCCTTTAAAA-CAAAATTCATCCCC
* * ** * *
1681801 TCAAAT-ATGACAAACATGGATTCTTATAATAGCCTCCATTCTTTTCA
127 T-TAATGA-GACAAAAATGGATTCTTGCAATAGTCTCTATTCTTTTCA
1681848 TATTAGGCAC
Statistics
Matches: 458, Mismatches: 22, Indels: 14
0.93 0.04 0.03
Matches are distributed among these distances:
314 216 0.47
315 240 0.52
316 2 0.00
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (314 bp):
ATCTCCATCTTTTTGTGATTGGCACCATAAACATGTTCTACTTATTGGGATACATGATATTGATG
ATTTGCTTTCATAAGAAAAGTTTTCTTTGCCCCATTTTCCTTTAAAACAAAATTCATCCCCTTAA
TGAGACAAAAATGGATTCTTGCAATAGTCTCTATTCTTTTCAAGATTGGGAACCAAAAACAGTTC
CTTTCATTGCGATACTTGACATTGATGATTTGGCACCACAAGGAAAGCTTTTCTTTCCATAATTT
TGATAGAATCCAAGTTTGTCCCTCAAAATAAGACAAACTTGGATTGTCATAACA
Found at i:1684294 original size:716 final size:719
Alignment explanation
Indices: 1682904--1684342 Score: 1925
Period size: 716 Copynumber: 2.0 Consensus size: 719
1682894 TATACATGAT
* * *
1682904 ATTTGATGACAACCGTAATCCATGCTGCCTAATTAACGATCTTGAGATGGATTTCAAACAACAAA
1 ATTTGATGACAACCATAATCCAGGCTGCCTAAATAACGATCTTGAGATGGATTTCAAACAACAAA
* * * * * * *
1682969 ACAAGATTATTTTGCACGAATAGAAATTGAAAGAAGCAGAAAAAAAAAACAAAAGTGGAATAGAA
66 ACAAGATTATTATGCAAGAACAGAAATTAAAAGAAGCAGAAAAAAAAAACAAAACTAGAACAGAA
**
1683034 TAAAGATGAAGGATGGTGCCACAATCACAAGATTGACAAGCTGAAAGAAATGAATGCCACAAGAG
131 TAAAGATGAAGGATGGTGCCACAATCACAAGATTGACAAGCCAAAAGAAATGAATGCCACAAGAG
* * *
1683099 TCTTGGCCTCCTGATAAGATTAAGAAAAATTGGCTCACTCAAGAACCTAAGAGTCACACGCTCAC
196 TCTTGGCCTCCTGATAAGATCAAGAAAAATTGGCTCACTCAAGAACCTAAAAATCACACGCTCAC
* * ** * *
1683164 ACAAGTATGTCTATCTCCAATTGTTATTTGTCCTCCTCAAATCTGTTTTACAAGAGTTTATATAT
261 ACAAATATGTCTATCTCAAATTAATATTTGTCCCCCTCAAATCTGTTTTACAAGAGCTTATATAT
* * * * *
1683229 GTCTAGCCCTCAAGCCAACATTAACACAAACCCTAATGGACTTATTATGCTAACAAGGCCAATTC
326 GTC-ACCCCTCAAGCCAACATTAACACAAACCCTAAGGGACTTACTATGCTAACAAGCCCAACTC
* * * *
1683294 TTAATTAAACCAAAATAATAAGTTTTTTTTTATGCTAAATAAAGCCTAAAGTAAGTCACAATCAA
390 TTAATTAAACCAAAATAACAAG---TTTTTTATGCTAAATAAAGCCCAAAGCAAGTCACAACCAA
* *
1683359 CAGGGCCCTTTATTACAAAATAATTAAATTAACTCAAGTCCTAATTCAATCTATTGGAGCCCATA
452 CAGGGCCCTTTATTAC-----AA-TAAATTAACCCAAGTCCTAATTCAATCCATTGGAGCCCATA
*
1683424 TCTTCCAAACATATGCAATTGACCAGCTTGGGCTCTTCTAACTCCAAATTGGGTCCACTTGCAAA
511 TCTTCCAAACATATGCAATTAACCAGCTTGGGCTCTTCTAACTCCAAATTGGGTCCACTTGCAAA
** *
1683489 TAGGGTAGCAACCATCTTCTCTAGGTCTCCCTTTATCCTCTTTGCCTTTGCCCTCGTCATTGGTC
576 TAGGCCAGCAACCATCTTCTCTAGGTCTCCCTTTATCCTCTTCGCCTTTGCCCTCGTCATTGGTC
*
1683554 CTTGAAACCTTTCCAACACCTTCAGGCCTTTGTCTTCAATGGACCTTCCTTAGTTCTCATCAACC
641 CTTGAAACCCTTCCAACACCTTCAGGCCTTTGTCTTCAATGGACCTTCCTTAGTTCTCATCAACC
*
1683619 TCTCCTTCAAGAGA
706 CCTCCTTCAAGAGA
* * * * *
1683633 ATTTGATGACAACCATGATCCAAGGTTGCCTAAATAATGATCTTGAGATGGATTTCTAACAA-TA
1 ATTTGATGACAACCATAATCC-AGGCTGCCTAAATAACGATCTTGAGATGGATTTCAAACAACAA
*
1683697 AACAA-ATTTATTAATGCAAGAACAGAAATTAAAAGAAGCAG-AAAAAATAACAAAACTAGAACA
65 AACAAGA-TTATT-ATGCAAGAACAGAAATTAAAAGAAGCAGAAAAAAAAAACAAAACTAGAACA
* * * * *
1683760 GATTAGAGATGAAGGATGGTGCCACAATCACAAGATTGATAAGCCAAAAGGAATGATTGCCACAA
128 GAATAAAGATGAAGGATGGTGCCACAATCACAAGATTGACAAGCCAAAAGAAATGAATGCCACAA
* * *
1683825 GAGTCTTGGCCTCTTGATAAGATCCAGAAAAATTGGCTCACTCAAGAACCTAAAAATCACACTCT
193 GAGTCTTGGCCTCCTGATAAGATCAAGAAAAATTGGCTCACTCAAGAACCTAAAAATCACACGCT
* * *
1683890 CACACAAAATGTGTTTAATCTGCAAATATCAATGTTTG-CCCCCTCCAAATCTG-TTTACAAGAG
258 CACAC-AAATATGTCT-ATCT-CAAAT-T-AATATTTGTCCCCCT-CAAATCTGTTTTACAAGAG
* * *
1683953 CTTATATATG-C-CCCCAT-AAGGCATA-GTTAACACAAACCCTAAGGGGCTTACTATGCTAACA
317 CTTATATATGTCACCCC-TCAAGCCA-ACATTAACACAAACCCTAAGGGACTTACTATGCTAACA
* * *
1684014 AGCCCAACTCTTAGTTAGACCCAAATAACAAG-TTTTTATGCTAAATAAAGCCCAAAGCAAGTCA
380 AGCCCAACTCTTAATTAAACCAAAATAACAAGTTTTTTATGCTAAATAAAGCCCAAAGCAAGTCA
** *
1684078 CAACCAGTA-GGCCCTTTATTGC-A-AAA-TAACCCAAGTCCTAATTCAATCCATTGGAGCCCAT
445 CAACCAACAGGGCCCTTTATTACAATAAATTAACCCAAGTCCTAATTCAATCCATTGGAGCCCAT
* * * *
1684139 ATCTTCCAAATATATGCAATTAACTAGCTTGGGCTCTTCTAACTCCAAATTGGGTCTACTTTCAA
510 ATCTTCCAAACATATGCAATTAACCAGCTTGGGCTCTTCTAACTCCAAATTGGGTCCACTTGCAA
*
1684204 ATAGGCCAGCAACCATCTTCTCTAGGTCTTCCTTTATCCTCTTCGCCTTTGCCCTCGTCATTGGT
575 ATAGGCCAGCAACCATCTTCTCTAGGTCTCCCTTTATCCTCTTCGCCTTTGCCCTCGTCATTGGT
** * * *
1684269 CCTTGAAACCCTTCCAATGCCTTCAGGTCTTTGTCTTCAATGGACCTTCCTTGGTTTTCATCAAC
640 CCTTGAAACCCTTCCAACACCTTCAGGCCTTTGTCTTCAATGGACCTTCCTTAGTTCTCATCAAC
1684334 CCCTCCTTC
705 CCCTCCTTC
1684343 TTCAAGAGAA
Statistics
Matches: 625, Mismatches: 74, Indels: 35
0.85 0.10 0.05
Matches are distributed among these distances:
716 221 0.35
717 3 0.00
719 1 0.00
725 12 0.02
726 36 0.06
728 1 0.00
729 170 0.27
730 132 0.21
731 6 0.01
732 5 0.01
733 25 0.04
734 13 0.02
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (719 bp):
ATTTGATGACAACCATAATCCAGGCTGCCTAAATAACGATCTTGAGATGGATTTCAAACAACAAA
ACAAGATTATTATGCAAGAACAGAAATTAAAAGAAGCAGAAAAAAAAAACAAAACTAGAACAGAA
TAAAGATGAAGGATGGTGCCACAATCACAAGATTGACAAGCCAAAAGAAATGAATGCCACAAGAG
TCTTGGCCTCCTGATAAGATCAAGAAAAATTGGCTCACTCAAGAACCTAAAAATCACACGCTCAC
ACAAATATGTCTATCTCAAATTAATATTTGTCCCCCTCAAATCTGTTTTACAAGAGCTTATATAT
GTCACCCCTCAAGCCAACATTAACACAAACCCTAAGGGACTTACTATGCTAACAAGCCCAACTCT
TAATTAAACCAAAATAACAAGTTTTTTATGCTAAATAAAGCCCAAAGCAAGTCACAACCAACAGG
GCCCTTTATTACAATAAATTAACCCAAGTCCTAATTCAATCCATTGGAGCCCATATCTTCCAAAC
ATATGCAATTAACCAGCTTGGGCTCTTCTAACTCCAAATTGGGTCCACTTGCAAATAGGCCAGCA
ACCATCTTCTCTAGGTCTCCCTTTATCCTCTTCGCCTTTGCCCTCGTCATTGGTCCTTGAAACCC
TTCCAACACCTTCAGGCCTTTGTCTTCAATGGACCTTCCTTAGTTCTCATCAACCCCTCCTTCAA
GAGA
Found at i:1688646 original size:9 final size:9
Alignment explanation
Indices: 1688622--1688755 Score: 93
Period size: 9 Copynumber: 15.6 Consensus size: 9
1688612 CTTGTCATCC
*
1688622 CTCCTCTCT
1 CTCCTATCT
*
1688631 CTACTATCT
1 CTCCTATCT
1688640 CTCCTATCT
1 CTCCTATCT
**
1688649 CTATTAT-T
1 CTCCTATCT
*
1688657 TTGCCTATCT
1 CT-CCTATCT
*
1688667 CTCCT-CCT
1 CTCCTATCT
* *
1688675 AT-C-ATCC
1 CTCCTATCT
1688682 CTCCTATCT
1 CTCCTATCT
*
1688691 CTACTATCT
1 CTCCTATCT
1688700 CTCCTATCT
1 CTCCTATCT
*
1688709 CTCCT-CCT
1 CTCCTATCT
* *
1688717 AT-C-ATCC
1 CTCCTATCT
1688724 CTCCTATCT
1 CTCCTATCT
*
1688733 CTACTATCT
1 CTCCTATCT
1688742 CTCCTATCT
1 CTCCTATCT
1688751 CTCCT
1 CTCCT
1688756 CCTATCATCC
Statistics
Matches: 92, Mismatches: 25, Indels: 16
0.69 0.19 0.12
Matches are distributed among these distances:
7 6 0.07
8 10 0.11
9 74 0.80
10 2 0.02
ACGTcount: A:0.13, C:0.43, G:0.01, T:0.43
Consensus pattern (9 bp):
CTCCTATCT
Found at i:1688774 original size:12 final size:11
Alignment explanation
Indices: 1688660--1688773 Score: 100
Period size: 12 Copynumber: 10.5 Consensus size: 11
1688650 TATTATTTTG
1688660 CCTATCTCTCCT
1 CCTATCTC-CCT
1688672 CCTATCATCCCT
1 CCTATC-TCCCT
1688684 CCTATCT--CT
1 CCTATCTCCCT
*
1688693 ACTATCT--CT
1 CCTATCTCCCT
1688702 CCTATCTCTCCT
1 CCTATCTC-CCT
1688714 CCTATCATCCCT
1 CCTATC-TCCCT
1688726 CCTATCT--CT
1 CCTATCTCCCT
*
1688735 ACTATCT--CT
1 CCTATCTCCCT
1688744 CCTATCTCTCCT
1 CCTATCTC-CCT
1688756 CCTATCATCCCT
1 CCTATC-TCCCT
1688768 CCTATC
1 CCTATC
1688774 ACTTCTTTCT
Statistics
Matches: 89, Mismatches: 4, Indels: 18
0.80 0.04 0.16
Matches are distributed among these distances:
9 32 0.36
11 2 0.02
12 49 0.55
13 6 0.07
ACGTcount: A:0.14, C:0.46, G:0.00, T:0.39
Consensus pattern (11 bp):
CCTATCTCCCT
Found at i:1688785 original size:42 final size:42
Alignment explanation
Indices: 1688640--1688773 Score: 234
Period size: 42 Copynumber: 3.2 Consensus size: 42
1688630 TCTACTATCT
* *
1688640 CTCCTATCTCTATTAT-TTTGCCTATCTCTCCTCCTATCATCC
1 CTCCTATCTCTACTATCTCT-CCTATCTCTCCTCCTATCATCC
1688682 CTCCTATCTCTACTATCTCTCCTATCTCTCCTCCTATCATCC
1 CTCCTATCTCTACTATCTCTCCTATCTCTCCTCCTATCATCC
1688724 CTCCTATCTCTACTATCTCTCCTATCTCTCCTCCTATCATCC
1 CTCCTATCTCTACTATCTCTCCTATCTCTCCTCCTATCATCC
1688766 CTCCTATC
1 CTCCTATC
1688774 ACTTCTTTCT
Statistics
Matches: 89, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
42 87 0.98
43 2 0.02
ACGTcount: A:0.14, C:0.43, G:0.01, T:0.42
Consensus pattern (42 bp):
CTCCTATCTCTACTATCTCTCCTATCTCTCCTCCTATCATCC
Found at i:1695314 original size:26 final size:23
Alignment explanation
Indices: 1695268--1695324 Score: 87
Period size: 23 Copynumber: 2.4 Consensus size: 23
1695258 GTTTTTTTTT
1695268 TTATTTTTTTGCATTCTTTCTTC
1 TTATTTTTTTGCATTCTTTCTTC
*
1695291 TTATTTTTTTGTATTCTTTCTTC
1 TTATTTTTTTGCATTCTTTCTTC
*
1695314 TTCTTCTTTTT
1 TTATT-TTTTT
1695325 TTTTTTTGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 26 0.84
24 5 0.16
ACGTcount: A:0.07, C:0.16, G:0.04, T:0.74
Consensus pattern (23 bp):
TTATTTTTTTGCATTCTTTCTTC
Found at i:1697324 original size:12 final size:11
Alignment explanation
Indices: 1697304--1697379 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
1697294 AAGAGAAAAA
*
1697304 GAGAGAGGAGG
1 GAGATAGGAGG
1697315 GATGATAGGAGG
1 GA-GATAGGAGG
*
1697327 AGAGACAGGA--
1 -GAGATAGGAGG
*
1697337 GAGATAGTA--
1 GAGATAGGAGG
1697346 GAGATAGGAGG
1 GAGATAGGAGG
1697357 GATGATAGGAGG
1 GA-GATAGGAGG
*
1697369 AGAGACAGGAG
1 -GAGATAGGAG
1697380 AGATAATAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 4 0.08
12 30 0.57
13 4 0.08
ACGTcount: A:0.39, C:0.03, G:0.49, T:0.09
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:1697336 original size:24 final size:24
Alignment explanation
Indices: 1697303--1697388 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
1697293 AAAGAGAAAA
*
1697303 AGAGAGAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
*
1697327 AGAGACAGGA--GA-GAT---AGT
1 AGAGACAGGAGGGATGATAGGAGG
*
1697345 AGAGATAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
* *
1697369 AGAGACAGGAGAGATAATAG
1 AGAGACAGGAGGGATGATAG
1697389 AGAGAGGAGG
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 11 0.22
20 2 0.04
21 6 0.12
22 2 0.04
24 28 0.57
ACGTcount: A:0.42, C:0.02, G:0.45, T:0.10
Consensus pattern (24 bp):
AGAGACAGGAGGGATGATAGGAGG
Found at i:1697355 original size:42 final size:42
Alignment explanation
Indices: 1697295--1697412 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
1697285 TAGCCCTCAA
*
1697295 AGAGA-AAAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAATAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* *
1697336 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAATAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
1697378 AGAGATAATAGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGATAATAGAGAGAGGAGGGATGATAGGAGGAG
1697413 GAGAGAAGAA
Statistics
Matches: 70, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
41 5 0.07
42 65 0.93
ACGTcount: A:0.43, C:0.03, G:0.46, T:0.08
Consensus pattern (42 bp):
AGAGATAATAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:1706003 original size:12 final size:11
Alignment explanation
Indices: 1705981--1706056 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
1705971 AGAGAAAGAA
*
1705981 GAGAGAGGAGG
1 GAGATAGGAGG
1705992 GATGATAGGAGG
1 GA-GATAGGAGG
*
1706004 AGAGACAGGA--
1 -GAGATAGGAGG
*
1706014 GAGATAGTA--
1 GAGATAGGAGG
1706023 GAGATAGGAGG
1 GAGATAGGAGG
1706034 GATGATAGGAGG
1 GA-GATAGGAGG
*
1706046 AGAGACAGGAG
1 -GAGATAGGAG
1706057 AGATAATAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 4 0.08
12 30 0.57
13 4 0.08
ACGTcount: A:0.39, C:0.03, G:0.49, T:0.09
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:1706013 original size:24 final size:24
Alignment explanation
Indices: 1705980--1706065 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
1705970 AAGAGAAAGA
*
1705980 AGAGAGAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
*
1706004 AGAGACAGGA--GA-GAT---AGT
1 AGAGACAGGAGGGATGATAGGAGG
*
1706022 AGAGATAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
* *
1706046 AGAGACAGGAGAGATAATAG
1 AGAGACAGGAGGGATGATAG
1706066 AGAGAGGAGG
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 11 0.22
20 2 0.04
21 6 0.12
22 2 0.04
24 28 0.57
ACGTcount: A:0.42, C:0.02, G:0.45, T:0.10
Consensus pattern (24 bp):
AGAGACAGGAGGGATGATAGGAGG
Found at i:1706032 original size:42 final size:42
Alignment explanation
Indices: 1705971--1706089 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
1705961 TAGCCCTCAA
* *
1705971 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
1706013 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* *
1706055 AGAGATAATAGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
1706090 GAGAGAAGAA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.43, C:0.03, G:0.46, T:0.08
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:1712036 original size:42 final size:42
Alignment explanation
Indices: 1711988--1712098 Score: 123
Period size: 42 Copynumber: 2.6 Consensus size: 42
1711978 TCCATCTTCT
* * * *
1711988 TCTCTCCTCCTATCTTCCTTCATCTCTATATTATCTCTCCTA
1 TCTCTCCTCCTATCATCCCTCATATCTATACTATCTCTCCTA
* * * * *
1712030 TTTCTCCTTCTATCATCCCTCCTATCTCTACTATCTCTCTTA
1 TCTCTCCTCCTATCATCCCTCATATCTATACTATCTCTCCTA
* *
1712072 TCTCTCCTCATATCATCCCTCCTATCT
1 TCTCTCCTCCTATCATCCCTCATATCT
1712099 CTTCTTTCTC
Statistics
Matches: 57, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 57 1.00
ACGTcount: A:0.14, C:0.40, G:0.00, T:0.46
Consensus pattern (42 bp):
TCTCTCCTCCTATCATCCCTCATATCTATACTATCTCTCCTA
Found at i:1712098 original size:24 final size:23
Alignment explanation
Indices: 1712024--1712100 Score: 74
Period size: 24 Copynumber: 3.5 Consensus size: 23
1712014 TATATTATCT
*
1712024 CTCCTATTTCTCCTTCTATCATCC
1 CTCCTATCTCTCC-TCTATCATCC
*
1712048 CTCCTATCTCT--ACTATC-T--
1 CTCCTATCTCTCCTCTATCATCC
*
1712066 CTCTTATCTCTCCTCATATCATCC
1 CTCCTATCTCTCCTC-TATCATCC
1712090 CTCCTATCTCT
1 CTCCTATCTCT
1712101 TCTTTCTCTT
Statistics
Matches: 42, Mismatches: 5, Indels: 12
0.71 0.08 0.20
Matches are distributed among these distances:
18 10 0.24
20 2 0.05
21 9 0.21
22 1 0.02
24 20 0.48
ACGTcount: A:0.14, C:0.42, G:0.00, T:0.44
Consensus pattern (23 bp):
CTCCTATCTCTCCTCTATCATCC
Found at i:1712099 original size:42 final size:42
Alignment explanation
Indices: 1712019--1712109 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
1712009 ATCTCTATAT
*
1712019 TATCTCTCCTATTTCTCCTTCTATCATCCCTCCTATCTCTAC
1 TATCTCTCCTATCTCTCCTTCTATCATCCCTCCTATCTCTAC
* *
1712061 TATCTCTCTTATCTCTCC-TCATATCATCCCTCCTATCTCTTC
1 TATCTCTCCTATCTCTCCTTC-TATCATCCCTCCTATCTCTAC
*
1712103 TTTCTCT
1 TATCTCT
1712110 TTGAGGGCTA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
41 2 0.05
42 42 0.95
ACGTcount: A:0.13, C:0.40, G:0.00, T:0.47
Consensus pattern (42 bp):
TATCTCTCCTATCTCTCCTTCTATCATCCCTCCTATCTCTAC
Found at i:1713150 original size:42 final size:42
Alignment explanation
Indices: 1713102--1713212 Score: 123
Period size: 42 Copynumber: 2.6 Consensus size: 42
1713092 TCCATCTTCT
* * * *
1713102 TCTCTCCTCCTATCTTCCTTCATCTCTATATTATCTCTCCTA
1 TCTCTCCTCCTATCATCCCTCATATCTATACTATCTCTCCTA
* * * * *
1713144 TTTCTCCTTCTATCATCCCTCCTATCTCTACTATCTCTCTTA
1 TCTCTCCTCCTATCATCCCTCATATCTATACTATCTCTCCTA
* *
1713186 TCTCTCCTCATATCATCCCTCCTATCT
1 TCTCTCCTCCTATCATCCCTCATATCT
1713213 CTTCTTTCTC
Statistics
Matches: 57, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 57 1.00
ACGTcount: A:0.14, C:0.40, G:0.00, T:0.46
Consensus pattern (42 bp):
TCTCTCCTCCTATCATCCCTCATATCTATACTATCTCTCCTA
Found at i:1713212 original size:24 final size:23
Alignment explanation
Indices: 1713138--1713214 Score: 74
Period size: 24 Copynumber: 3.5 Consensus size: 23
1713128 TATATTATCT
*
1713138 CTCCTATTTCTCCTTCTATCATCC
1 CTCCTATCTCTCC-TCTATCATCC
*
1713162 CTCCTATCTCT--ACTATC-T--
1 CTCCTATCTCTCCTCTATCATCC
*
1713180 CTCTTATCTCTCCTCATATCATCC
1 CTCCTATCTCTCCTC-TATCATCC
1713204 CTCCTATCTCT
1 CTCCTATCTCT
1713215 TCTTTCTCTT
Statistics
Matches: 42, Mismatches: 5, Indels: 12
0.71 0.08 0.20
Matches are distributed among these distances:
18 10 0.24
20 2 0.05
21 9 0.21
22 1 0.02
24 20 0.48
ACGTcount: A:0.14, C:0.42, G:0.00, T:0.44
Consensus pattern (23 bp):
CTCCTATCTCTCCTCTATCATCC
Found at i:1713213 original size:42 final size:42
Alignment explanation
Indices: 1713133--1713223 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
1713123 ATCTCTATAT
*
1713133 TATCTCTCCTATTTCTCCTTCTATCATCCCTCCTATCTCTAC
1 TATCTCTCCTATCTCTCCTTCTATCATCCCTCCTATCTCTAC
* *
1713175 TATCTCTCTTATCTCTCC-TCATATCATCCCTCCTATCTCTTC
1 TATCTCTCCTATCTCTCCTTC-TATCATCCCTCCTATCTCTAC
*
1713217 TTTCTCT
1 TATCTCT
1713224 TTGAGGGCTA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
41 2 0.05
42 42 0.95
ACGTcount: A:0.13, C:0.40, G:0.00, T:0.47
Consensus pattern (42 bp):
TATCTCTCCTATCTCTCCTTCTATCATCCCTCCTATCTCTAC
Found at i:1714263 original size:42 final size:42
Alignment explanation
Indices: 1714215--1714325 Score: 123
Period size: 42 Copynumber: 2.6 Consensus size: 42
1714205 TCCATCTTCT
* * * *
1714215 TCTCTCCTCCTATCTTCCTTCATCTCTATATTATCTCTCCTA
1 TCTCTCCTCCTATCATCCCTCATATCTATACTATCTCTCCTA
* * * * *
1714257 TTTCTCCTTCTATCATCCCTCCTATCTCTACTATCTCTCTTA
1 TCTCTCCTCCTATCATCCCTCATATCTATACTATCTCTCCTA
* *
1714299 TCTCTCCTCATATCATCCCTCCTATCT
1 TCTCTCCTCCTATCATCCCTCATATCT
1714326 CTTCTTTCTC
Statistics
Matches: 57, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 57 1.00
ACGTcount: A:0.14, C:0.40, G:0.00, T:0.46
Consensus pattern (42 bp):
TCTCTCCTCCTATCATCCCTCATATCTATACTATCTCTCCTA
Found at i:1714325 original size:24 final size:23
Alignment explanation
Indices: 1714251--1714327 Score: 74
Period size: 24 Copynumber: 3.5 Consensus size: 23
1714241 TATATTATCT
*
1714251 CTCCTATTTCTCCTTCTATCATCC
1 CTCCTATCTCTCC-TCTATCATCC
*
1714275 CTCCTATCTCT--ACTATC-T--
1 CTCCTATCTCTCCTCTATCATCC
*
1714293 CTCTTATCTCTCCTCATATCATCC
1 CTCCTATCTCTCCTC-TATCATCC
1714317 CTCCTATCTCT
1 CTCCTATCTCT
1714328 TCTTTCTCTT
Statistics
Matches: 42, Mismatches: 5, Indels: 12
0.71 0.08 0.20
Matches are distributed among these distances:
18 10 0.24
20 2 0.05
21 9 0.21
22 1 0.02
24 20 0.48
ACGTcount: A:0.14, C:0.42, G:0.00, T:0.44
Consensus pattern (23 bp):
CTCCTATCTCTCCTCTATCATCC
Found at i:1714326 original size:42 final size:42
Alignment explanation
Indices: 1714246--1714336 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
1714236 ATCTCTATAT
*
1714246 TATCTCTCCTATTTCTCCTTCTATCATCCCTCCTATCTCTAC
1 TATCTCTCCTATCTCTCCTTCTATCATCCCTCCTATCTCTAC
* *
1714288 TATCTCTCTTATCTCTCC-TCATATCATCCCTCCTATCTCTTC
1 TATCTCTCCTATCTCTCCTTC-TATCATCCCTCCTATCTCTAC
*
1714330 TTTCTCT
1 TATCTCT
1714337 TTGAGGGCTA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
41 2 0.05
42 42 0.95
ACGTcount: A:0.13, C:0.40, G:0.00, T:0.47
Consensus pattern (42 bp):
TATCTCTCCTATCTCTCCTTCTATCATCCCTCCTATCTCTAC
Found at i:1715362 original size:42 final size:42
Alignment explanation
Indices: 1715314--1715424 Score: 123
Period size: 42 Copynumber: 2.6 Consensus size: 42
1715304 TCCATCTTCT
* * * *
1715314 TCTCTCCTCCTATCTTCCTTCATCTCTATATTATCTCTCCTA
1 TCTCTCCTCCTATCATCCCTCATATCTATACTATCTCTCCTA
* * * * *
1715356 TTTCTCCTTCTATCATCCCTCCTATCTCTACTATCTCTCTTA
1 TCTCTCCTCCTATCATCCCTCATATCTATACTATCTCTCCTA
* *
1715398 TCTCTCCTCATATCATCCCTCCTATCT
1 TCTCTCCTCCTATCATCCCTCATATCT
1715425 CTTCTTTCTC
Statistics
Matches: 57, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 57 1.00
ACGTcount: A:0.14, C:0.40, G:0.00, T:0.46
Consensus pattern (42 bp):
TCTCTCCTCCTATCATCCCTCATATCTATACTATCTCTCCTA
Found at i:1715424 original size:24 final size:23
Alignment explanation
Indices: 1715350--1715426 Score: 74
Period size: 24 Copynumber: 3.5 Consensus size: 23
1715340 TATATTATCT
*
1715350 CTCCTATTTCTCCTTCTATCATCC
1 CTCCTATCTCTCC-TCTATCATCC
*
1715374 CTCCTATCTCT--ACTATC-T--
1 CTCCTATCTCTCCTCTATCATCC
*
1715392 CTCTTATCTCTCCTCATATCATCC
1 CTCCTATCTCTCCTC-TATCATCC
1715416 CTCCTATCTCT
1 CTCCTATCTCT
1715427 TCTTTCTCTT
Statistics
Matches: 42, Mismatches: 5, Indels: 12
0.71 0.08 0.20
Matches are distributed among these distances:
18 10 0.24
20 2 0.05
21 9 0.21
22 1 0.02
24 20 0.48
ACGTcount: A:0.14, C:0.42, G:0.00, T:0.44
Consensus pattern (23 bp):
CTCCTATCTCTCCTCTATCATCC
Found at i:1715425 original size:42 final size:42
Alignment explanation
Indices: 1715345--1715435 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
1715335 ATCTCTATAT
*
1715345 TATCTCTCCTATTTCTCCTTCTATCATCCCTCCTATCTCTAC
1 TATCTCTCCTATCTCTCCTTCTATCATCCCTCCTATCTCTAC
* *
1715387 TATCTCTCTTATCTCTCC-TCATATCATCCCTCCTATCTCTTC
1 TATCTCTCCTATCTCTCCTTC-TATCATCCCTCCTATCTCTAC
*
1715429 TTTCTCT
1 TATCTCT
1715436 TTGAGGGCTA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
41 2 0.05
42 42 0.95
ACGTcount: A:0.13, C:0.40, G:0.00, T:0.47
Consensus pattern (42 bp):
TATCTCTCCTATCTCTCCTTCTATCATCCCTCCTATCTCTAC
Found at i:1716475 original size:42 final size:42
Alignment explanation
Indices: 1716427--1716548 Score: 131
Period size: 42 Copynumber: 2.9 Consensus size: 42
1716417 TCCATCTTCT
* *
1716427 TCTCTCCTCCTATC-TTCCTTC-ATCTCTATATTATCTCTCCTA
1 TCTCTCCTCCTATCATCCCTTCTATCTC--TACTATCTCTCCTA
* * *
1716469 TTTCTCCTTCTATCATCCCTTCTATCTCTACTATCTCTCTTA
1 TCTCTCCTCCTATCATCCCTTCTATCTCTACTATCTCTCCTA
* * * *
1716511 TCTCTCCTCATATCATCCCTCCTATCTCTTCTTTCTCT
1 TCTCTCCTCCTATCATCCCTTCTATCTCTACTATCTCT
1716549 TTGAGGGCTA
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
42 56 0.84
43 6 0.09
44 5 0.07
ACGTcount: A:0.13, C:0.39, G:0.00, T:0.48
Consensus pattern (42 bp):
TCTCTCCTCCTATCATCCCTTCTATCTCTACTATCTCTCCTA
Found at i:1719508 original size:87 final size:85
Alignment explanation
Indices: 1719347--1719517 Score: 261
Period size: 87 Copynumber: 2.0 Consensus size: 85
1719337 GGTTTTGGTT
* * * * *
1719347 TTCTAAGGTTTAACCTCTTTAGACAGGTGGCAACTAATGGACTTCACTCGAACTTAGGTGCCACC
1 TTCTAAGGCTTAACCTCCTTAGACAAGTGCCAACTAATGGACTTCACTCAAACTTAGGTGCCACC
1719412 AACTCGTGTGGACTTTGACA
66 AACTCGTGTGGACTTTGACA
*
1719432 TTCTAAGGCTTAACCTCCTTAGACAAGTGCCAACTAATGTGGACTTGACTCAAACTTAGGTGCCA
1 TTCTAAGGCTTAACCTCCTTAGACAAGTGCCAACTAA--TGGACTTCACTCAAACTTAGGTGCCA
*
1719497 CCAACTCGTGTGGGCTTTGAC
64 CCAACTCGTGTGGACTTTGAC
1719518 TCGAGTGCCG
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
85 33 0.43
87 44 0.57
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.29
Consensus pattern (85 bp):
TTCTAAGGCTTAACCTCCTTAGACAAGTGCCAACTAATGGACTTCACTCAAACTTAGGTGCCACC
AACTCGTGTGGACTTTGACA
Found at i:1719580 original size:118 final size:118
Alignment explanation
Indices: 1719404--1719649 Score: 411
Period size: 118 Copynumber: 2.1 Consensus size: 118
1719394 TCGAACTTAG
*
1719404 GTGCCACCAACTCGTGTGGACTTTGACATTCTAAGGCTTAACCTCCTTAGACAAGTGCCAACTAA
1 GTGCCGCCAACTCGTGTGGACTTTGACATTCTAAGGCTTAACCTCCTTAGACAAGTGCCAACTAA
*
1719469 TGTGGACTTGACTCAAACTTAGGTGCCACCAACTCGTGTGGGCTTTGACTCGA
66 TGTGGACTTGACTCAAACTTAGGTGCCACCAACTCATGTGGGCTTTGACTCGA
* * * * *
1719522 GTGCCGCCAACTCGTGTGGGCTTTGATATTCTAAGTCTTAACCTCCTTAGGCAGGTGCCAACTAA
1 GTGCCGCCAACTCGTGTGGACTTTGACATTCTAAGGCTTAACCTCCTTAGACAAGTGCCAACTAA
* *
1719587 TGTGGACTTGACTCAAACTTAGGTGCCACCAACTCATGTGGGCTTTGACTTGG
66 TGTGGACTTGACTCAAACTTAGGTGCCACCAACTCATGTGGGCTTTGACTCGA
1719640 GTGCCGCCAA
1 GTGCCGCCAA
1719650 TTTGTGCAGG
Statistics
Matches: 119, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
118 119 1.00
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.28
Consensus pattern (118 bp):
GTGCCGCCAACTCGTGTGGACTTTGACATTCTAAGGCTTAACCTCCTTAGACAAGTGCCAACTAA
TGTGGACTTGACTCAAACTTAGGTGCCACCAACTCATGTGGGCTTTGACTCGA
Found at i:1719693 original size:31 final size:31
Alignment explanation
Indices: 1719603--1719697 Score: 111
Period size: 31 Copynumber: 3.1 Consensus size: 31
1719593 CTTGACTCAA
* *
1719603 ACTTAGGTGCCACCAACTCATGTGGGCTTTG
1 ACTTGGGTGCCACCAACTCGTGTGGGCTTTG
* * * **
1719634 ACTTGGGTGCCGCCAATTTGTGCAGGCTTTG
1 ACTTGGGTGCCACCAACTCGTGTGGGCTTTG
1719665 A-TTGGGGTGCCACCAACTCGTGTGGGCTTTG
1 ACTT-GGGTGCCACCAACTCGTGTGGGCTTTG
1719696 AC
1 AC
1719698 ATTCTAAGGC
Statistics
Matches: 50, Mismatches: 12, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
30 2 0.04
31 48 0.96
ACGTcount: A:0.16, C:0.24, G:0.31, T:0.29
Consensus pattern (31 bp):
ACTTGGGTGCCACCAACTCGTGTGGGCTTTG
Found at i:1719760 original size:149 final size:149
Alignment explanation
Indices: 1719485--1719847 Score: 501
Period size: 149 Copynumber: 2.4 Consensus size: 149
1719475 CTTGACTCAA
* * * ** * * * *
1719485 ACTTAGGTGCCACCAACTCGTGTGGGCTTTGACTCGAGTGCCGCCAACTCGTGTGGGCTTTGATA
1 ACTTGGGTGCCGCCAACTTGTGCAGGCTTTGACTGGGGTGCCACCAACTCGTGTGGGCTTTGACA
* * * * *
1719550 TTCTAAGTCTTAACCTCCTTAGGCAGGTGCCAACTAATGTGGACTTGACTCAAACTTAGGTGCCA
66 TTCTAAGGCTTAACCTCCTCAGACAGGTGCCAACCAAAGTGGACTTGACTCAAACTTAGGTGCCA
1719615 CCAACTCATGTGGGCTTTG
131 CCAACTCATGTGGGCTTTG
* *
1719634 ACTTGGGTGCCGCCAATTTGTGCAGGCTTTGATTGGGGTGCCACCAACTCGTGTGGGCTTTGACA
1 ACTTGGGTGCCGCCAACTTGTGCAGGCTTTGACTGGGGTGCCACCAACTCGTGTGGGCTTTGACA
1719699 TTCTAAGGCTTAACCTCCTCAGACAGGTGCCAACCAAAGTGGACTTGACTCAAACTTAGGTGCCA
66 TTCTAAGGCTTAACCTCCTCAGACAGGTGCCAACCAAAGTGGACTTGACTCAAACTTAGGTGCCA
*
1719764 CCAACTCGTGTGGGCTTTG
131 CCAACTCATGTGGGCTTTG
* ** * * * *
1719783 ACTTGGGTGTCGCCAACTTGTGTGGGCTTTGACTGGGATGCTACCAATTCGTATGGGGCTTTGAC
1 ACTTGGGTGCCGCCAACTTGTGCAGGCTTTGACTGGGGTGCCACCAACTCGTGT-GGGCTTTGAC
1719848 TAGGGTGCCA
Statistics
Matches: 187, Mismatches: 26, Indels: 1
0.87 0.12 0.00
Matches are distributed among these distances:
149 177 0.95
150 10 0.05
ACGTcount: A:0.20, C:0.25, G:0.27, T:0.29
Consensus pattern (149 bp):
ACTTGGGTGCCGCCAACTTGTGCAGGCTTTGACTGGGGTGCCACCAACTCGTGTGGGCTTTGACA
TTCTAAGGCTTAACCTCCTCAGACAGGTGCCAACCAAAGTGGACTTGACTCAAACTTAGGTGCCA
CCAACTCATGTGGGCTTTG
Found at i:1719806 original size:31 final size:31
Alignment explanation
Indices: 1719752--1719940 Score: 195
Period size: 31 Copynumber: 6.1 Consensus size: 31
1719742 CTTGACTCAA
* * *
1719752 ACTTAGGTGCCACCAACTCGTGTGGGCTTTG
1 ACTTGGGTGCCACCAACTTGTATGGGCTTTG
* * *
1719783 ACTTGGGTGTCGCCAACTTGTGTGGGCTTTG
1 ACTTGGGTGCCACCAACTTGTATGGGCTTTG
*
1719814 AC-TGGGATGCTACCAA-TTCGTATGGGGCTTTG
1 ACTTGGG-TGCCACCAACTT-GTAT-GGGCTTTG
* * *
1719846 ACTAGGGTGCCACCAATTTGTATTGGCTTTG
1 ACTTGGGTGCCACCAACTTGTATGGGCTTTG
* *
1719877 ACTCGGGTGCCACCAACTTGCATGGGCTTTG
1 ACTTGGGTGCCACCAACTTGTATGGGCTTTG
* *
1719908 A-TTGGGGTGCCACCAACTCGTGTGGGCTTTG
1 ACTT-GGGTGCCACCAACTTGTATGGGCTTTG
1719939 AC
1 AC
1719941 ATTCTAAGGC
Statistics
Matches: 132, Mismatches: 19, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
30 7 0.05
31 98 0.74
32 22 0.17
33 5 0.04
ACGTcount: A:0.16, C:0.23, G:0.31, T:0.31
Consensus pattern (31 bp):
ACTTGGGTGCCACCAACTTGTATGGGCTTTG
Found at i:1719846 original size:63 final size:62
Alignment explanation
Indices: 1719757--1719940 Score: 203
Period size: 63 Copynumber: 3.0 Consensus size: 62
1719747 CTCAAACTTA
* ** * *
1719757 GGTGCCACCAACTCGTGTGGGCTTTGACTTGGGTGTCGCCAACTTGTGTGGGCTTTGACT-G
1 GGTGCCACCAACTTGCATGGGCTTTGACTTGGGTGCCACCAACTTGTGTGGGCTTTGACTCG
* * * * * *
1719818 GGATGCTACCAA-TTCGTATGGGGCTTTGACTAGGGTGCCACCAATTTGTATTGGCTTTGACTCG
1 GG-TGCCACCAACTT-GCAT-GGGCTTTGACTTGGGTGCCACCAACTTGTGTGGGCTTTGACTCG
*
1719882 GGTGCCACCAACTTGCATGGGCTTTGA-TTGGGGTGCCACCAACTCGTGTGGGCTTTGAC
1 GGTGCCACCAACTTGCATGGGCTTTGACTT-GGGTGCCACCAACTTGTGTGGGCTTTGAC
1719941 ATTCTAAGGC
Statistics
Matches: 101, Mismatches: 16, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
61 4 0.04
62 45 0.45
63 47 0.47
64 5 0.05
ACGTcount: A:0.15, C:0.23, G:0.32, T:0.30
Consensus pattern (62 bp):
GGTGCCACCAACTTGCATGGGCTTTGACTTGGGTGCCACCAACTTGTGTGGGCTTTGACTCG
Found at i:1719893 original size:94 final size:93
Alignment explanation
Indices: 1719757--1719940 Score: 233
Period size: 94 Copynumber: 2.0 Consensus size: 93
1719747 CTCAAACTTA
* * * * **
1719757 GGTGCCACCAACTCGTGTGGGCTTTGACTTGGGTGTCGCCAACTTGTGTGGGCTTTGACTGGGAT
1 GGTGCCACCAACTCGTATGGGCTTTGACTCGGGTGCCACCAACTTGCATGGGCTTTGACTGGGAT
* *
1719822 GCTACCAATTCGTATGGGGCTTTGACTAG
66 GCCACCAACTCGTAT-GGGCTTTGACTAG
* * * * *
1719851 GGTGCCACCAATTTGTATTGGCTTTGACTCGGGTGCCACCAACTTGCATGGGCTTTGATTGGGGT
1 GGTGCCACCAACTCGTATGGGCTTTGACTCGGGTGCCACCAACTTGCATGGGCTTTGACTGGGAT
*
1719916 GCCACCAACTCGTGTGGGCTTTGAC
66 GCCACCAACTCGTATGGGCTTTGAC
1719941 ATTCTAAGGC
Statistics
Matches: 76, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
93 10 0.13
94 66 0.87
ACGTcount: A:0.15, C:0.23, G:0.32, T:0.30
Consensus pattern (93 bp):
GGTGCCACCAACTCGTATGGGCTTTGACTCGGGTGCCACCAACTTGCATGGGCTTTGACTGGGAT
GCCACCAACTCGTATGGGCTTTGACTAG
Found at i:1720042 original size:243 final size:240
Alignment explanation
Indices: 1719610--1720181 Score: 767
Period size: 243 Copynumber: 2.4 Consensus size: 240
1719600 CAAACTTAGG
* * * * *
1719610 TGCCACCAACTCATGTGGGCTTTGACTTGGGTGCCGCCAATTTGTGCAGGCTTTGATTGGGGTGC
1 TGCCACCAATTCGTATGGGCTTTGACTAGGGTGCCACCAATTTGTG--GGCTTTGATTGGGGTGC
1719675 CACCAACTCGTGTGGGCTTTGACATTCTAAGGCTTAACCTCCTCAGACAGGTGCCAACCAAAGTG
64 CACCAACTCGTGTGGGCTTTGACATTCTAAGGCTTAACCTCCTCAGACAGGTGCCAACCAAAGTG
* *
1719740 GACTTGACTCAAACTTAGGTGCCACCAACTCGTGTGGGCTTTGACTTGGGTGTCGCCAACTTGTG
129 GACTTGACTCAAACTTAGGTGCCACCAACTCGTGTGGGCTTTGACTTGAGTGCCGCCAACTTGTG
* * *
1719805 TGGGCTTTG-ACTGGGATGCTACCAA-TTCGTATG-GGGCTTTGACTAGGG-
194 CGGGCTTTGAACTGGG-TGCCACCAACTT-G--TGCAGGCTTTGACT-GGGA
* * * *
1719853 TGCCACCAATTTGTATTGGCTTTGACTCGGGTGCCACCAACTTGCATGGGCTTTGATTGGGGTGC
1 TGCCACCAATTCGTATGGGCTTTGACTAGGGTGCCACCAATTTG--TGGGCTTTGATTGGGGTGC
* *
1719918 CACCAACTCGTGTGGGCTTTGACATTCTAAGGCTTAACCTCCTTAGATAGGTGCCAACCAATA-T
64 CACCAACTCGTGTGGGCTTTGACATTCTAAGGCTTAACCTCCTCAGACAGGTGCCAACCAA-AGT
* *
1719982 GGACTTGACTCAAACTTAGGTGCTATCAACTCGTGTGGGCTTTGACTTGAGTGCCGCCAACTTGT
128 GGACTTGACTCAAACTTAGGTGCCACCAACTCGTGTGGGCTTTGACTTGAGTGCCGCCAACTTGT
* *
1720047 GCGGGCTTTGAATTGGGTGCCGCCAACTTGTGCAGGCTTTGACTGGGA
193 GCGGGCTTTGAACTGGGTGCCACCAACTTGTGCAGGCTTTGACTGGGA
* * * *
1720095 TGCCACCAATTCGTGTGGGATTTGACTAGGGTGCCACCAATTTGTGTGGGCTTTGACTCGGGTGC
1 TGCCACCAATTCGTATGGGCTTTGACTAGGGTGCCACCAA-TT-TGTGGGCTTTGATTGGGGTGC
* *
1720160 CACCAACTTGTGCGGGCTTTGA
64 CACCAACTCGTGTGGGCTTTGA
1720182 TTGGGGTGCC
Statistics
Matches: 291, Mismatches: 29, Indels: 19
0.86 0.09 0.06
Matches are distributed among these distances:
241 5 0.02
242 82 0.28
243 192 0.66
244 10 0.03
245 2 0.01
ACGTcount: A:0.19, C:0.24, G:0.28, T:0.29
Consensus pattern (240 bp):
TGCCACCAATTCGTATGGGCTTTGACTAGGGTGCCACCAATTTGTGGGCTTTGATTGGGGTGCCA
CCAACTCGTGTGGGCTTTGACATTCTAAGGCTTAACCTCCTCAGACAGGTGCCAACCAAAGTGGA
CTTGACTCAAACTTAGGTGCCACCAACTCGTGTGGGCTTTGACTTGAGTGCCGCCAACTTGTGCG
GGCTTTGAACTGGGTGCCACCAACTTGTGCAGGCTTTGACTGGGA
Found at i:1720053 original size:31 final size:31
Alignment explanation
Indices: 1720008--1720213 Score: 238
Period size: 31 Copynumber: 6.6 Consensus size: 31
1719998 TAGGTGCTAT
* * *
1720008 CAACTCGTGTGGGCTTTGACTTGAGTGCCGC
1 CAACTTGTGTGGGCTTTGACTTGGGTGCCAC
* * *
1720039 CAACTTGTGCGGGCTTTGAATTGGGTGCCGC
1 CAACTTGTGTGGGCTTTGACTTGGGTGCCAC
**
1720070 CAACTTGTGCAGGCTTTGAC-TGGGATGCCAC
1 CAACTTGTGTGGGCTTTGACTTGGG-TGCCAC
* *
1720101 CAA-TTCGTGTGGGATTTGACTAGGGTGCCAC
1 CAACTT-GTGTGGGCTTTGACTTGGGTGCCAC
* *
1720132 CAATTTGTGTGGGCTTTGACTCGGGTGCCAC
1 CAACTTGTGTGGGCTTTGACTTGGGTGCCAC
*
1720163 CAACTTGTGCGGGCTTTGA-TTGGGGTGCCAC
1 CAACTTGTGTGGGCTTTGACTT-GGGTGCCAC
*
1720194 CAACTTATGTGGGCTTTGAC
1 CAACTTGTGTGGGCTTTGAC
1720214 ATTCTAAGGC
Statistics
Matches: 151, Mismatches: 18, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
30 7 0.05
31 139 0.92
32 5 0.03
ACGTcount: A:0.16, C:0.23, G:0.32, T:0.30
Consensus pattern (31 bp):
CAACTTGTGTGGGCTTTGACTTGGGTGCCAC
Found at i:1720171 original size:93 final size:94
Alignment explanation
Indices: 1720008--1720213 Score: 274
Period size: 93 Copynumber: 2.2 Consensus size: 94
1719998 TAGGTGCTAT
* * * *
1720008 CAAC-TCGTGTGGGCTTTGACTTGAGTGCCGCCAACTTGTGCGGGCTTTGAATTGGGTGCCGCCA
1 CAACTTCGTGTGGGCTTTGACTAGAGTGCCACCAACTTGTGCGGGCTTTGAATCGGGTGCCACCA
1720072 ACTTGTGCAGGCTTTGACTGGGATGCCAC
66 ACTTGTGCAGGCTTTGACTGGGATGCCAC
* * * * *
1720101 CAA-TTCGTGTGGGATTTGACTAGGGTGCCACCAATTTGTGTGGGCTTTGACTCGGGTGCCACCA
1 CAACTTCGTGTGGGCTTTGACTAGAGTGCCACCAACTTGTGCGGGCTTTGAATCGGGTGCCACCA
* * *
1720165 ACTTGTGCGGGCTTTGATTGGGGTGCCAC
66 ACTTGTGCAGGCTTTGACTGGGATGCCAC
*
1720194 CAACTT-ATGTGGGCTTTGAC
1 CAACTTCGTGTGGGCTTTGAC
1720214 ATTCTAAGGC
Statistics
Matches: 97, Mismatches: 14, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
93 95 0.98
94 2 0.02
ACGTcount: A:0.16, C:0.23, G:0.32, T:0.30
Consensus pattern (94 bp):
CAACTTCGTGTGGGCTTTGACTAGAGTGCCACCAACTTGTGCGGGCTTTGAATCGGGTGCCACCA
ACTTGTGCAGGCTTTGACTGGGATGCCAC
Found at i:1720190 original size:273 final size:274
Alignment explanation
Indices: 1719758--1720297 Score: 866
Period size: 273 Copynumber: 2.0 Consensus size: 274
1719748 TCAAACTTAG
* * * **
1719758 GTGCCACCAACTCGTGTGGGCTTTGACTTGGGTGTCGCCAACTTGTGTGGGCTTTGACTGGGATG
1 GTGCCACCAACTCGTGCGGGCTTTGAATTGGGTGCCGCCAACTTGTGCAGGCTTTGACTGGGATG
* * *
1719823 CTACCAATTCGTATGGGGCTTTGACTAGGGTGCCACCAATTTGTATTGGCTTTGACTCGGGTGCC
66 CCACCAATTCGTATGGGGATTTGACTAGGGTGCCACCAATTTGTATGGGCTTTGACTCGGGTGCC
* *
1719888 ACCAACTTGCATGGGCTTTGATTGGGGTGCCACCAACTCGTGTGGGCTTTGACATTCTAAGGCTT
131 ACCAACTTGCACGGGCTTTGATTGGGGTGCCACCAACTCATGTGGGCTTTGACATTCTAAGGCTT
* * * *
1719953 AACCTCCTTAGATAGGTGCCAACCAATATGGACTTGACTCAAACTTAGGTGCTATCAACTCGTGT
196 AACCTCCTTAGACAGGTGCCAACCAATATGGACTTGACTCAAACTTAGGTGCCACCAACTCGTGC
1720018 GGGCTTTGACTTGA
261 GGGCTTTGACTTGA
* *
1720032 GTGCCGCCAACTTGTGCGGGCTTTGAATTGGGTGCCGCCAACTTGTGCAGGCTTTGACTGGGATG
1 GTGCCACCAACTCGTGCGGGCTTTGAATTGGGTGCCGCCAACTTGTGCAGGCTTTGACTGGGATG
* *
1720097 CCACCAATTCGTGT-GGGATTTGACTAGGGTGCCACCAATTTGTGTGGGCTTTGACTCGGGTGCC
66 CCACCAATTCGTATGGGGATTTGACTAGGGTGCCACCAATTTGTATGGGCTTTGACTCGGGTGCC
** *
1720161 ACCAACTTGTGCGGGCTTTGATTGGGGTGCCACCAACTTATGTGGGCTTTGACATTCTAAGGCTT
131 ACCAACTTGCACGGGCTTTGATTGGGGTGCCACCAACTCATGTGGGCTTTGACATTCTAAGGCTT
* *
1720226 AACCTCCTTAGACAGGTGCCAACTAATGTGGACTTGACTCAAACTTAGGTGCCACCAACTCGTGC
196 AACCTCCTTAGACAGGTGCCAACCAATATGGACTTGACTCAAACTTAGGTGCCACCAACTCGTGC
1720291 GGGCTTT
261 GGGCTTT
1720298 AACATTTTAA
Statistics
Matches: 243, Mismatches: 23, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
273 173 0.71
274 70 0.29
ACGTcount: A:0.19, C:0.23, G:0.28, T:0.30
Consensus pattern (274 bp):
GTGCCACCAACTCGTGCGGGCTTTGAATTGGGTGCCGCCAACTTGTGCAGGCTTTGACTGGGATG
CCACCAATTCGTATGGGGATTTGACTAGGGTGCCACCAATTTGTATGGGCTTTGACTCGGGTGCC
ACCAACTTGCACGGGCTTTGATTGGGGTGCCACCAACTCATGTGGGCTTTGACATTCTAAGGCTT
AACCTCCTTAGACAGGTGCCAACCAATATGGACTTGACTCAAACTTAGGTGCCACCAACTCGTGC
GGGCTTTGACTTGA
Found at i:1720295 original size:87 final size:87
Alignment explanation
Indices: 1720186--1720347 Score: 252
Period size: 87 Copynumber: 1.9 Consensus size: 87
1720176 CTTTGATTGG
* * *
1720186 GGTGCCACCAACTTATGTGGGCTTTGACATTCTAAGGCTTAACCTCCTTAGACAGGTGCCAACTA
1 GGTGCCACCAACTCATGCGGGCTTTAACATTCTAAGGCTTAACCTCCTTAGACAGGTGCCAACTA
1720251 ATGTGGACTTGACTCAAACTTA
66 ATGTGGACTTGACTCAAACTTA
* * * *
1720273 GGTGCCACCAACTCGTGCGGGCTTTAACATTTTAAGGCTTAGCCTCCTTAGACAGGTGCCAACTT
1 GGTGCCACCAACTCATGCGGGCTTTAACATTCTAAGGCTTAACCTCCTTAGACAGGTGCCAACTA
*
1720338 GTGTGGACTT
66 ATGTGGACTT
1720348 TAGAAGGGGA
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
87 67 1.00
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.29
Consensus pattern (87 bp):
GGTGCCACCAACTCATGCGGGCTTTAACATTCTAAGGCTTAACCTCCTTAGACAGGTGCCAACTA
ATGTGGACTTGACTCAAACTTA
Found at i:1720432 original size:42 final size:42
Alignment explanation
Indices: 1720375--1720730 Score: 323
Period size: 42 Copynumber: 8.5 Consensus size: 42
1720365 GGAGGGGGCA
* * * *
1720375 TCCTGCTCTTTGAGGATAAAGGAAAAAGAAG-AATGAAATACA
1 TCCTGCTCTTTGAGGACAAAGGAAAAA-AAGAAATCAAATGCG
* * * *
1720417 TCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAATGAAGTGGG
1 TCCTGCTCTTTGAGGACAAAGGAAAAAAAGAAATCAAATGCG
* * * *
1720459 TCAC-GCTCCTTGAAGACAAAGGAAAAAAGGAAAT-AAAGTGCA
1 TC-CTGCTCTTTGAGGACAAAGGAAAAAAAGAAATCAAA-TGCG
* * *
1720501 TCTTGCTCTTTGAGGACAAA-GAAGAAAACGAAATCAAGTGCG
1 TCCTGCTCTTTGAGGACAAAGGAA-AAAAAGAAATCAAATGCG
* * * **
1720543 TCCTACTCTTTAAGGACAAAGGAAAAAAAGGAAATCAAGTGTA
1 TCCTGCTCTTTGAGGACAAAGGAAAAAAA-GAAATCAAATGCG
* * * *
1720586 TCTTGCTCTTTGAGGACAAAGGAGAAAAGGAAATTAAATGCG
1 TCCTGCTCTTTGAGGACAAAGGAAAAAAAGAAATCAAATGCG
* * * *
1720628 TCTTGCTCTTTGAGGACAAAGGACAAAAGGAAATCAAGTGCG
1 TCCTGCTCTTTGAGGACAAAGGAAAAAAAGAAATCAAATGCG
* * *
1720670 TCCTGCTCTTTGAGGACAAAGGGAAAAAAG----GAAATGTG
1 TCCTGCTCTTTGAGGACAAAGGAAAAAAAGAAATCAAATGCG
1720708 TCCTGCTCTTTGAGGACTAAAGG
1 TCCTGCTCTTTGAGGAC-AAAGG
1720731 TGCCACAAAG
Statistics
Matches: 263, Mismatches: 42, Indels: 21
0.81 0.13 0.06
Matches are distributed among these distances:
38 22 0.08
39 5 0.02
41 7 0.03
42 188 0.71
43 41 0.16
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.21
Consensus pattern (42 bp):
TCCTGCTCTTTGAGGACAAAGGAAAAAAAGAAATCAAATGCG
Found at i:1720632 original size:127 final size:126
Alignment explanation
Indices: 1720417--1720704 Score: 416
Period size: 127 Copynumber: 2.3 Consensus size: 126
1720407 ATGAAATACA
* *
1720417 TCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAATGAAGTGGGTCACGCTCCTTGAAGACAAAGGA
1 TCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAATCAAGTGGATCACGCTCCTTGAAGACAAAGGA
*
1720482 AAAAAGGAAATAAAGTGCATCTTGCTCTTTGAGGACAAAGAAGAAAACGAAATCAAGTGCG
66 AAAAAGGAAATAAAGTGCATCTTGCTCTTTGAGGACAAAGAACAAAACGAAATCAAGTGCG
* * * ** * *
1720543 TCCTACTCTTTAAGGACAAAGGAAAAAAAGGAAATCAAGTGTATCTTGCTCTTTGAGGACAAAGG
1 TCCTGCTCTTTGAGGACAAAGG-AAAAAAGGAAATCAAGTGGATCACGCTCCTTGAAGACAAAGG
* * * *
1720608 AGAAAAGGAAATTAAA-TGCGTCTTGCTCTTTGAGGACAAAGGACAAAAGGAAATCAAGTGCG
65 AAAAAAGGAAA-TAAAGTGCATCTTGCTCTTTGAGGACAAAGAACAAAACGAAATCAAGTGCG
1720670 TCCTGCTCTTTGAGGACAAAGGGAAAAAAGGAAAT
1 TCCTGCTCTTTGAGGACAAA-GGAAAAAAGGAAAT
1720705 GTGTCCTGCT
Statistics
Matches: 143, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
126 20 0.14
127 117 0.82
128 6 0.04
ACGTcount: A:0.41, C:0.15, G:0.25, T:0.20
Consensus pattern (126 bp):
TCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAATCAAGTGGATCACGCTCCTTGAAGACAAAGGA
AAAAAGGAAATAAAGTGCATCTTGCTCTTTGAGGACAAAGAACAAAACGAAATCAAGTGCG
Found at i:1720768 original size:34 final size:34
Alignment explanation
Indices: 1720729--1720796 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
1720719 GAGGACTAAA
* *
1720729 GGTGCCACAAAGTTGTGGACTTAAAAAGGAAAAG
1 GGTGCCACAAAGTTATGGACTTAAAAAGAAAAAG
*** *
1720763 GGTGCCATGGAGTTATGGACTTTAAAAGAAAAAG
1 GGTGCCACAAAGTTATGGACTTAAAAAGAAAAAG
1720797 TGCCACTGGG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.40, C:0.10, G:0.29, T:0.21
Consensus pattern (34 bp):
GGTGCCACAAAGTTATGGACTTAAAAAGAAAAAG
Found at i:1726998 original size:106 final size:106
Alignment explanation
Indices: 1726810--1727021 Score: 361
Period size: 106 Copynumber: 2.0 Consensus size: 106
1726800 GCTTTGCTTT
* *
1726810 CACAGGAAAAGCTTTTCTTCAACCTATTTTCCTTAAAATCAAGGTTTATCCCTTAAATGAGATAA
1 CACAGGAAAAGCTTATCTTCAACCTATTTTCCTTAAAATCAAAGTTTATCCCTTAAATGAGATAA
1726875 GCATGGATTCTTATAACAATCTCCACTCCTTTTGTATTAGG
66 GCATGGATTCTTATAACAATCTCCACTCCTTTTGTATTAGG
*
1726916 CACAGGAAAAGCTTATCTTCAGCCTATTTTCCTTAAAATCAAAGTTTATCCCTTAAATGAGATAA
1 CACAGGAAAAGCTTATCTTCAACCTATTTTCCTTAAAATCAAAGTTTATCCCTTAAATGAGATAA
* * * *
1726981 GCATGGATTCTTCTAACAGTCTCCATTCTTTTTGTATTAGG
66 GCATGGATTCTTATAACAATCTCCACTCCTTTTGTATTAGG
1727022 AACCAAAAAT
Statistics
Matches: 99, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
106 99 1.00
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (106 bp):
CACAGGAAAAGCTTATCTTCAACCTATTTTCCTTAAAATCAAAGTTTATCCCTTAAATGAGATAA
GCATGGATTCTTATAACAATCTCCACTCCTTTTGTATTAGG
Found at i:1728982 original size:23 final size:24
Alignment explanation
Indices: 1728938--1728982 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
1728928 GGGGTTGGAG
*
1728938 TATTCTCGATTAATAAAATTTTGA
1 TATTCTCGATGAATAAAATTTTGA
*
1728962 TATTTTCGATGAA-AAAATTTT
1 TATTCTCGATGAATAAAATTTT
1728983 ATTTGAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.38, C:0.07, G:0.09, T:0.47
Consensus pattern (24 bp):
TATTCTCGATGAATAAAATTTTGA
Found at i:1732115 original size:13 final size:13
Alignment explanation
Indices: 1732097--1732122 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1732087 CAAGGTGGTT
1732097 TTGTATTGATACA
1 TTGTATTGATACA
1732110 TTGTATTGATACA
1 TTGTATTGATACA
1732123 AAACTTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
TTGTATTGATACA
Found at i:1732733 original size:87 final size:87
Alignment explanation
Indices: 1732633--1732805 Score: 285
Period size: 87 Copynumber: 2.0 Consensus size: 87
1732623 GGTTTTGGTT
* * *
1732633 TTCTAAGGCTTAACCTCCTTAGACAGGTGCCAACTAATGTGGACTTCACTCGGACT-TAGGTGCC
1 TTCTAAGGCTTAACCTCCTTAGACAAGTGCCAACTAATGTGGACTTCACTC-AAATGTAGGTGCC
1732697 ACCAACTCATGTGGACTTTGACA
65 ACCAACTCATGTGGACTTTGACA
*
1732720 TTCTAAGGCTTAACCTCCTTAGACAAGTGCCAACTAATGTGGACTTGACTCAAATGTAGGTGCCA
1 TTCTAAGGCTTAACCTCCTTAGACAAGTGCCAACTAATGTGGACTTCACTCAAATGTAGGTGCCA
*
1732785 CCAACTCATGTGGGCTTTGAC
66 CCAACTCATGTGGACTTTGAC
1732806 TCGAGTGCCA
Statistics
Matches: 80, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
86 2 0.03
87 78 0.98
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (87 bp):
TTCTAAGGCTTAACCTCCTTAGACAAGTGCCAACTAATGTGGACTTCACTCAAATGTAGGTGCCA
CCAACTCATGTGGACTTTGACA
Found at i:1732938 original size:31 final size:31
Alignment explanation
Indices: 1732891--1733054 Score: 161
Period size: 31 Copynumber: 5.2 Consensus size: 31
1732881 CTTGACTCAA
* * *
1732891 ACTTAGGTGCCACCAACTCATATGGGCTTTG
1 ACTTGGGTGCCACCAACTCGTGTGGGCTTTG
* * *
1732922 ACTTGGGTGCCGCCAACTTGTGCGGGCTTTG
1 ACTTGGGTGCCACCAACTCGTGTGGGCTTTG
* * *
1732953 A-TTGGGGTGCTACCAACTCATGTGGGATTTG
1 ACTT-GGGTGCCACCAACTCGTGTGGGCTTTG
* * *
1732984 ACTTGGGTGTCGCCAACTTGTGTGGGCTTTG
1 ACTTGGGTGCCACCAACTCGTGTGGGCTTTG
*
1733015 AC-TGGGATGCCACCAATTCGTGTGGGGCTTTG
1 ACTTGGG-TGCCACCAACTCGTGT-GGGCTTTG
1733047 ACTATGGG
1 ACT-TGGG
1733055 GATTTGACTA
Statistics
Matches: 105, Mismatches: 22, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
30 6 0.06
31 83 0.79
32 12 0.11
34 4 0.04
ACGTcount: A:0.16, C:0.21, G:0.32, T:0.30
Consensus pattern (31 bp):
ACTTGGGTGCCACCAACTCGTGTGGGCTTTG
Found at i:1732950 original size:118 final size:118
Alignment explanation
Indices: 1732685--1732953 Score: 414
Period size: 118 Copynumber: 2.3 Consensus size: 118
1732675 ACTTCACTCG
* *
1732685 GACTTAGGTGCCACCAACTCATGTGGACTTTGACATTCTAAGGCTTAACCTCCTTAGACAAGTGC
1 GACTTGGGTGCCACCAACTCATGTGGGCTTTGACATTCTAAGGCTTAACCTCCTTAGACAAGTGC
*
1732750 CAACTAATGTGGACTTGACTCAAATGTAGGTGCCACCAACTCATGTGGGCTTT
66 CAACTAATGTGGACTTGACTCAAATGTAGGTGCCACCAACTCATATGGGCTTT
* * * * *
1732803 GACTCGAGTGCCACCAACTCATGTAGGCTTTGACATTCTAAGGCTTAACCTCCTTAGGCAGGTGC
1 GACTTGGGTGCCACCAACTCATGTGGGCTTTGACATTCTAAGGCTTAACCTCCTTAGACAAGTGC
1732868 CAACTAATGTGGACTTGACTCAAACT-TAGGTGCCACCAACTCATATGGGCTTT
66 CAACTAATGTGGACTTGACTCAAA-TGTAGGTGCCACCAACTCATATGGGCTTT
* ** *
1732921 GACTTGGGTGCCGCCAACTTGTGCGGGCTTTGA
1 GACTTGGGTGCCACCAACTCATGTGGGCTTTGA
1732954 TTGGGGTGCT
Statistics
Matches: 135, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
118 134 0.99
119 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.28
Consensus pattern (118 bp):
GACTTGGGTGCCACCAACTCATGTGGGCTTTGACATTCTAAGGCTTAACCTCCTTAGACAAGTGC
CAACTAATGTGGACTTGACTCAAATGTAGGTGCCACCAACTCATATGGGCTTT
Found at i:1732968 original size:62 final size:62
Alignment explanation
Indices: 1732896--1733054 Score: 219
Period size: 62 Copynumber: 2.5 Consensus size: 62
1732886 CTCAAACTTA
* *
1732896 GGTGCCACCAACTCATATGGGCTTTGACTTGGGTGCCGCCAACTTGTGCGGGCTTTGATTGG
1 GGTGCCACCAACTCATGTGGGCTTTGACTTGGGTGCCGCCAACTTGTGCGGGCTTTGACTGG
* * * *
1732958 GGTGCTACCAACTCATGTGGGATTTGACTTGGGTGTCGCCAACTTGTGTGGGCTTTGACTGG
1 GGTGCCACCAACTCATGTGGGCTTTGACTTGGGTGCCGCCAACTTGTGCGGGCTTTGACTGG
* * *
1733020 GATGCCACCAATTCGTGTGGGGCTTTGACTATGGG
1 GGTGCCACCAACTCATGT-GGGCTTTGACT-TGGG
1733055 GATTTGACTA
Statistics
Matches: 84, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
62 70 0.83
63 10 0.12
64 4 0.05
ACGTcount: A:0.15, C:0.21, G:0.33, T:0.30
Consensus pattern (62 bp):
GGTGCCACCAACTCATGTGGGCTTTGACTTGGGTGCCGCCAACTTGTGCGGGCTTTGACTGG
Found at i:1733181 original size:31 final size:31
Alignment explanation
Indices: 1733057--1733185 Score: 114
Period size: 31 Copynumber: 4.2 Consensus size: 31
1733047 ACTATGGGGA
* * * *
1733057 TTTGACTAGGGTGCCACCAATTTGTGTGGGC
1 TTTGATTAGGGTGCCACCAACTCGTATGGGC
* * * *
1733088 TTTAACTAGGGTGCCACCAATTCGTATAGGC
1 TTTGATTAGGGTGCCACCAACTCGTATGGGC
* * * * *
1733119 TTTGATTCGGATGCCACCAGCTTGTACGGGC
1 TTTGATTAGGGTGCCACCAACTCGTATGGGC
* * *
1733150 TTTGATTGGGGTGCCATCAACTCGTGTGGGC
1 TTTGATTAGGGTGCCACCAACTCGTATGGGC
1733181 TTTGA
1 TTTGA
1733186 CATTCTAAGG
Statistics
Matches: 78, Mismatches: 20, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 78 1.00
ACGTcount: A:0.18, C:0.21, G:0.29, T:0.32
Consensus pattern (31 bp):
TTTGATTAGGGTGCCACCAACTCGTATGGGC
Found at i:1733289 original size:31 final size:31
Alignment explanation
Indices: 1733254--1733427 Score: 181
Period size: 31 Copynumber: 5.6 Consensus size: 31
1733244 TAGGTGCTAT
*
1733254 CAACTCGTGTGGGCTTTGACTTGGGTGCCGC
1 CAACTCGTGTGGGCTTTGACTTGGGTGCCAC
* ** *
1733285 CAACTTGTGCAGGCTTTGAC-TGGGATGCCTC
1 CAACTCGTGTGGGCTTTGACTTGGG-TGCCAC
* * *
1733316 CAATTCGTGTGGGATTTGACTAGGGTGCCAC
1 CAACTCGTGTGGGCTTTGACTTGGGTGCCAC
* *
1733347 CAATTCGTGTGGGCTTTTGACTCGGGTGCCAC
1 CAACTCGTGTGGGC-TTTGACTTGGGTGCCAC
* *
1733379 CAACTTGTGCGGGCTTTGA-TTGGGGTGCCAC
1 CAACTCGTGTGGGCTTTGACTT-GGGTGCCAC
**
1733410 CAACTTATGTGGGCTTTG
1 CAACTCGTGTGGGCTTTG
1733428 GCATTCTAAG
Statistics
Matches: 120, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
30 5 0.04
31 85 0.71
32 30 0.25
ACGTcount: A:0.14, C:0.23, G:0.32, T:0.30
Consensus pattern (31 bp):
CAACTCGTGTGGGCTTTGACTTGGGTGCCAC
Found at i:1733405 original size:63 final size:62
Alignment explanation
Indices: 1733254--1733426 Score: 183
Period size: 63 Copynumber: 2.8 Consensus size: 62
1733244 TAGGTGCTAT
* * ** *
1733254 CAACTCGTGTGGGCTTTGACTTGGGTGCCGCCAACTTGTGCAGGC-TTTGACTGGGATGCCTC
1 CAACTTGTGTGGGCTTTGA-TTGGGTGCCACCAACTTGTGTGGGCTTTTGACTGGGATGCCAC
* *
1733316 CAA-TTCGTGTGGGATTTGACTAGGGTGCCACCAA-TTCGTGTGGGCTTTTGACTCGGG-TGCCA
1 CAACTT-GTGTGGGCTTTGA-TTGGGTGCCACCAACTT-GTGTGGGCTTTTGACT-GGGATGCCA
1733378 C
62 C
* *
1733379 CAACTTGTGCGGGCTTTGATTGGGGTGCCACCAACTTATGTGGGCTTT
1 CAACTTGTGTGGGCTTTGATT-GGGTGCCACCAACTTGTGTGGGCTTT
1733427 GGCATTCTAA
Statistics
Matches: 93, Mismatches: 11, Indels: 13
0.79 0.09 0.11
Matches are distributed among these distances:
61 3 0.03
62 35 0.38
63 48 0.52
64 7 0.08
ACGTcount: A:0.14, C:0.23, G:0.32, T:0.31
Consensus pattern (62 bp):
CAACTTGTGTGGGCTTTGATTGGGTGCCACCAACTTGTGTGGGCTTTTGACTGGGATGCCAC
Found at i:1733421 original size:94 final size:93
Alignment explanation
Indices: 1733258--1733427 Score: 243
Period size: 94 Copynumber: 1.8 Consensus size: 93
1733248 TGCTATCAAC
* * * *
1733258 TCGTGTGGGCTTTGACTTGGGTGCCGCCAACTTGTGCAGGCTTTGACTGGGATGCCTCCAATTCG
1 TCGTGTGGGCTTTGACTCGGGTGCCACCAACTTGTGCAGGCTTTGACTGGGATGCCACCAATTCA
1733323 TGTGGGATTTGACTAGGGTGCCACCAAT
66 TGTGGGATTTGACTAGGGTGCCACCAAT
* * *
1733351 TCGTGTGGGCTTTTGACTCGGGTGCCACCAACTTGTGCGGGCTTTGATTGGGGTGCCACCAACTT
1 TCGTGTGGGC-TTTGACTCGGGTGCCACCAACTTGTGCAGGCTTTGACTGGGATGCCACCAA-TT
*
1733416 -ATGTGGGCTTTG
64 CATGTGGGATTTG
1733428 GCATTCTAAG
Statistics
Matches: 67, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
93 10 0.15
94 55 0.82
95 2 0.03
ACGTcount: A:0.14, C:0.22, G:0.33, T:0.31
Consensus pattern (93 bp):
TCGTGTGGGCTTTGACTCGGGTGCCACCAACTTGTGCAGGCTTTGACTGGGATGCCACCAATTCA
TGTGGGATTTGACTAGGGTGCCACCAAT
Found at i:1733484 original size:243 final size:242
Alignment explanation
Indices: 1733057--1733516 Score: 706
Period size: 243 Copynumber: 1.9 Consensus size: 242
1733047 ACTATGGGGA
* *
1733057 TTTGACTAGGGTGCCACCAATTTGTGTGGGCTTTAACTAGGGTGCCACCAATTCGTATAGGCTTT
1 TTTGACTAGGGTGCCACCAATTCGTGTGGGATTTAACTAGGGTGCCACCAATTCGTATAGGCTTT
* * * *
1733122 GATTCGGATGCCACCAGCTTGTACGGGCTTTGATTGGGGTGCCATCAACTCGTGTGGGCTTTGAC
66 GACTCGGATGCCACCAACTTGTACGGGCTTTGATTGGGGTGCCACCAACTCATGTGGGCTTTGAC
* * *
1733187 ATTCTAAGGCTTAACCTCCTTAGATAGGTGCCAACCAATGTGGACTTGACTCAAACTTAGGTGCT
131 ATTCTAAGGCTTAACCTCCTTAGACAAGTGCCAACCAATGTGGACTTGACTCAAACTTAGGTGCC
* *
1733252 ATCAACTCGTGTGGGCTTTGACTTGGGTGCCGCCAACTTGTGCAGGC
196 ACCAACTCATGTGGGCTTTGACTTGGGTGCCGCCAACTTGTGCAGGC
* * * *
1733299 TTTGACT-GGGATGCCTCCAATTCGTGTGGGATTTGACTAGGGTGCCACCAATTCGTGTGGGCTT
1 TTTGACTAGGG-TGCCACCAATTCGTGTGGGATTTAACTAGGGTGCCACCAATTCGTATAGGC-T
* * *
1733363 TTGACTCGGGTGCCACCAACTTGTGCGGGCTTTGATTGGGGTGCCACCAACTTATGTGGGCTTTG
64 TTGACTCGGATGCCACCAACTTGTACGGGCTTTGATTGGGGTGCCACCAACTCATGTGGGCTTTG
* * *
1733428 GCATTCTAAGGCTTAACCTCCTTAGACAAGTGCGAACTAATGTGGACTTGACTCAAACTTAGGTG
129 ACATTCTAAGGCTTAACCTCCTTAGACAAGTGCCAACCAATGTGGACTTGACTCAAACTTAGGTG
1733493 CCACCAACTCATGTGGGCTTTGAC
194 CCACCAACTCATGTGGGCTTTGAC
1733517 ATTTTAAGGC
Statistics
Matches: 195, Mismatches: 21, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
241 3 0.02
242 52 0.27
243 140 0.72
ACGTcount: A:0.20, C:0.23, G:0.27, T:0.30
Consensus pattern (242 bp):
TTTGACTAGGGTGCCACCAATTCGTGTGGGATTTAACTAGGGTGCCACCAATTCGTATAGGCTTT
GACTCGGATGCCACCAACTTGTACGGGCTTTGATTGGGGTGCCACCAACTCATGTGGGCTTTGAC
ATTCTAAGGCTTAACCTCCTTAGACAAGTGCCAACCAATGTGGACTTGACTCAAACTTAGGTGCC
ACCAACTCATGTGGGCTTTGACTTGGGTGCCGCCAACTTGTGCAGGC
Found at i:1733559 original size:87 final size:87
Alignment explanation
Indices: 1733402--1733563 Score: 252
Period size: 87 Copynumber: 1.9 Consensus size: 87
1733392 CTTTGATTGG
* * * *
1733402 GGTGCCACCAACTTATGTGGGCTTTGGCATTCTAAGGCTTAACCTCCTTAGACAAGTGCGAACTA
1 GGTGCCACCAACTCATGTGGGCTTTGACATTCTAAGGCTTAACCTCCTTAAACAAGTGCCAACTA
1733467 ATGTGGACTTGACTCAAACTTA
66 ATGTGGACTTGACTCAAACTTA
* * *
1733489 GGTGCCACCAACTCATGTGGGCTTTGACATTTTAAGGCTTAACCTCCTTAAACAGGTGCCAACTT
1 GGTGCCACCAACTCATGTGGGCTTTGACATTCTAAGGCTTAACCTCCTTAAACAAGTGCCAACTA
*
1733554 GTGTGGACTT
66 ATGTGGACTT
1733564 TAGAAGGGGA
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
87 67 1.00
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (87 bp):
GGTGCCACCAACTCATGTGGGCTTTGACATTCTAAGGCTTAACCTCCTTAAACAAGTGCCAACTA
ATGTGGACTTGACTCAAACTTA
Found at i:1733653 original size:42 final size:42
Alignment explanation
Indices: 1733588--1733920 Score: 280
Period size: 42 Copynumber: 7.9 Consensus size: 42
1733578 AAAATAGAGG
* *
1733588 GCATCCTGCTCTTTGAGGACAAA-GAAAAAAGAAGAATGAAAT
1 GCATCTTGCTCTTTGAGGACAAAGGAAAAAAGAA-AATCAAAT
* * * * *
1733630 ACATCTTGCTCTTTGAGGACAAAGAAAAAAAGGAAATGAAGT
1 GCATCTTGCTCTTTGAGGACAAAGGAAAAAAGAAAATCAAAT
** * * * *
1733672 GGGTCATGCTCCTTGAAGACAAAGGAAAAAAGGAAAT-AAAGT
1 GCATCTTGCTCTTTGAGGACAAAGGAAAAAAGAAAATCAAA-T
* * *
1733714 GCATCTTGCTCTTTAAGGACAAAGGAGAAAATG-AAATCAAGT
1 GCATCTTGCTCTTTGAGGACAAAGGA-AAAAAGAAAATCAAAT
* * * *
1733756 GCGT-TCTGCTCTTTAAGGACAAAGGAAAAAAAGGAAATCAAGT
1 GCATCT-TGCTCTTTGAGGACAAAGG-AAAAAAGAAAATCAAAT
** * * *
1733799 GTGTCTTGCTCTTTGAGGACAAAGGAGAAAAGGAAATCAACT
1 GCATCTTGCTCTTTGAGGACAAAGGAAAAAAGAAAATCAAAT
* * * * *
1733841 GCATCCTGCTCTTTGAAGAAAAAGGAGAAAAGGAAAT-AAAGT
1 GCATCTTGCTCTTTGAGGACAAAGGAAAAAAGAAAATCAAA-T
* *
1733883 GCATCCTGCTCTTTGAGGACAAAGGGAAAAAAGGAAAT
1 GCATCTTGCTCTTTGAGGACAAA-GGAAAAAAGAAAAT
1733921 GCGTCCTACT
Statistics
Matches: 245, Mismatches: 36, Indels: 19
0.82 0.12 0.06
Matches are distributed among these distances:
41 5 0.02
42 180 0.73
43 59 0.24
44 1 0.00
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.20
Consensus pattern (42 bp):
GCATCTTGCTCTTTGAGGACAAAGGAAAAAAGAAAATCAAAT
Found at i:1733719 original size:84 final size:83
Alignment explanation
Indices: 1733593--1733920 Score: 365
Period size: 84 Copynumber: 3.9 Consensus size: 83
1733583 AGAGGGCATC
* * * * *
1733593 CTGCTCTTTGAGGACAAA-GAAAAAAGAAGAATGAAA-TACATCTTGCTCTTTGAGGACAAAGAA
1 CTGCTCCTTGAAGACAAAGGAAAAAAGGA-AAT-AAAGTGCATCTTGCTCTTTGAGGACAAAGGA
* *
1733656 AAAAAGGAAATGAAGTGGGT
64 AAAAAGGAAATCAAGTGGAT
* *
1733676 CATGCTCCTTGAAGACAAAGGAAAAAAGGAAATAAAGTGCATCTTGCTCTTTAAGGACAAAGGAG
1 C-TGCTCCTTGAAGACAAAGGAAAAAAGGAAATAAAGTGCATCTTGCTCTTTGAGGACAAAGGAA
* *
1733741 AAAATGAAATCAAGTGCGTT
65 AAAAGGAAATCAAGTG-GAT
* * **
1733761 CTGCT-CTTTAAGGACAAAGGAAAAAAAGGAAATCAAGTGTGTCTTGCTCTTTGAGGACAAAGGA
1 CTGCTCCTTGAA-GACAAAGG-AAAAAAGGAAATAAAGTGCATCTTGCTCTTTGAGGACAAAGGA
* * *
1733825 GAAAAGGAAATCAACTGCAT
64 AAAAAGGAAATCAAGTGGAT
* * * *
1733845 CCTGCTCTTTGAAGAAAAAGGAGAAAAGGAAATAAAGTGCATCCTGCTCTTTGAGGACAAAGGGA
1 -CTGCTCCTTGAAGACAAAGGAAAAAAGGAAATAAAGTGCATCTTGCTCTTTGAGGACAAA-GGA
1733910 AAAAAGGAAAT
64 AAAAAGGAAAT
1733921 GCGTCCTACT
Statistics
Matches: 208, Mismatches: 28, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
83 9 0.04
84 104 0.50
85 91 0.44
86 4 0.02
ACGTcount: A:0.43, C:0.13, G:0.24, T:0.20
Consensus pattern (83 bp):
CTGCTCCTTGAAGACAAAGGAAAAAAGGAAATAAAGTGCATCTTGCTCTTTGAGGACAAAGGAAA
AAAGGAAATCAAGTGGAT
Found at i:1733844 original size:127 final size:127
Alignment explanation
Indices: 1733588--1733920 Score: 413
Period size: 127 Copynumber: 2.6 Consensus size: 127
1733578 AAAATAGAGG
* * * * * *
1733588 GCATCCTGCTCTTTGAGGACAAA-GAAAAAAGAAGAATGAAA-TACATCTTGCTCTTTGAGGACA
1 GCATCCTGCTCTTTGAAGAAAAAGGAGAAAAGGA-AAT-AAAGTGCATCCTGCTCTTTGAGGACA
* *
1733651 AA-GAAAAAAAGGAAATGAAGTGGGTCATGCTCCTTGAAGACAAAGGAAAAAAGGAAATAAAGT
64 AAGGAAAAAAAGGAAATCAAGTGGGTCATGCTCCTTGAAGACAAAGGAAAAAAGGAAATAAACT
* * * * * * *
1733714 GCATCTTGCTCTTT-AAGGACAAAGGAGAAAATGAAATCAAGTGCGTTCTGCTCTTTAAGGACAA
1 GCATCCTGCTCTTTGAA-GAAAAAGGAGAAAAGGAAATAAAGTGCATCCTGCTCTTTGAGGACAA
* * * * * *
1733778 AGGAAAAAAAGGAAATCAAGTGTGTCTTGCTCTTTGAGGACAAAGGAGAAAAGGAAATCAACT
65 AGGAAAAAAAGGAAATCAAGTGGGTCATGCTCCTTGAAGACAAAGGAAAAAAGGAAATAAACT
1733841 GCATCCTGCTCTTTGAAGAAAAAGGAGAAAAGGAAATAAAGTGCATCCTGCTCTTTGAGGACAAA
1 GCATCCTGCTCTTTGAAGAAAAAGGAGAAAAGGAAATAAAGTGCATCCTGCTCTTTGAGGACAAA
*
1733906 GGGAAAAAAGGAAAT
66 GGAAAAAAAGGAAAT
1733921 GCGTCCTACT
Statistics
Matches: 175, Mismatches: 27, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
125 3 0.02
126 41 0.23
127 129 0.74
128 2 0.01
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.20
Consensus pattern (127 bp):
GCATCCTGCTCTTTGAAGAAAAAGGAGAAAAGGAAATAAAGTGCATCCTGCTCTTTGAGGACAAA
GGAAAAAAAGGAAATCAAGTGGGTCATGCTCCTTGAAGACAAAGGAAAAAAGGAAATAAACT
Found at i:1742735 original size:19 final size:20
Alignment explanation
Indices: 1742691--1742759 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 20
1742681 ACCTAGAATA
* * * *
1742691 TATCGATGCAATGAGAAATC
1 TATCGATACAATAAGTAATG
*
1742711 TATCGATACAATAAG-CATG
1 TATCGATACAATAAGTAATG
* *
1742730 TATCGATACATTTAGTAATG
1 TATCGATACAATAAGTAATG
1742750 TATCGATACA
1 TATCGATACA
1742760 TTTTCTTGGT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
19 15 0.37
20 26 0.63
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.30
Consensus pattern (20 bp):
TATCGATACAATAAGTAATG
Found at i:1742804 original size:13 final size:13
Alignment explanation
Indices: 1742786--1742811 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1742776 CAAGGTGGTT
1742786 TTGTATTGATACA
1 TTGTATTGATACA
1742799 TTGTATTGATACA
1 TTGTATTGATACA
1742812 AAACTTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
TTGTATTGATACA
Found at i:1748122 original size:13 final size:14
Alignment explanation
Indices: 1748099--1748125 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1748089 CTTTTTTAAG
1748099 CAAAGCTTTTTTTT
1 CAAAGCTTTTTTTT
1748113 CAAAGCTTTTTTT
1 CAAAGCTTTTTTT
1748126 ACCACCATTA
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:0.22, C:0.15, G:0.07, T:0.56
Consensus pattern (14 bp):
CAAAGCTTTTTTTT
Found at i:1748570 original size:315 final size:312
Alignment explanation
Indices: 1748157--1748829 Score: 705
Period size: 315 Copynumber: 2.1 Consensus size: 312
1748147 ATGTTCGTCT
* * * * * * *
1748157 CTTAAATGAGATAAATATGGATTCTCATAAGAATCCCCATTCTTTACAAGATTAGATAGCATAAA
1 CTTAAATGAGACAACTATGGATTCTCATAATAATCTCCATTCTTTTCAAGATTAGATACCAAAAA
* *
1748222 CATATTCTATTCATTAGGATACATAATATTGATGCTTTG-GATGCAAGAAAGGCTTTTCTTTGAA
66 CATATTCTATTCATTAGGATACATAACATTGATGCTTTGAGATGCAAGAAA-GCTTTT-TTTCAA
*** * * * * * **
1748286 CCATTTTTTGCAGAGTCTAAGTTTGTGCCTTAAATAAGACAAACATGGATTCT-AGTGATGATCT
129 CCATTTTCAACAGAATCAAAGTTTGTCCCTCAAATAAGACAAACATGGATTCTCA-TAACAATCT
* * *
1748350 TCAT-TTTTGCATAATTAGGCACCATAAACACAT-TTTCCTTATTAGTATACACGATATTGATCA
193 CCATCTTTT-CATAATTAGGCACCAT-AA-A-ATGTTTCCTCATTAGGATACACGATATTGATCA
* * *
1748413 TTTGTTTTCATAAGAAAAGCTTTTCATTGCCCCATTTTCCTAAAAATCAAAGTTAATCC
254 TTTGGTTTCACAAGAAAAGCTTTTCATTGACCCATTTTCCTAAAAATCAAAGTTAATCC
* * *
1748472 CTTAAATGAGACAACTATGGATTCTCATAATAGTCTCCTTTCTTTTCGAGATTGAGA-ACCAAAA
1 CTTAAATGAGACAACTATGGATTCTCATAATAATCTCCATTCTTTTCAAGATT-AGATACCAAAA
* * * * * *
1748536 ACATGTT-TCCTTCATTGGGATACATGACATTGATGCTTTGATGTTGCAAGAAAGCTTTTTTTCT
65 ACATATTCT-ATTCATTAGGATACATAACATTGATGCTTTGA-GATGCAAGAAAGCTTTTTTTCA
* * * * *
1748600 TCTATTTTCAATAGAATCAAAGTTTGTCCCTCAAATAAGACAAACTTGGATTGTCATAACAATCT
128 ACCATTTTCAACAGAATCAAAGTTTGTCCCTCAAATAAGACAAACATGGATTCTCATAACAATCT
* * * * * *
1748665 CCATCTTTTCATGATTGGGCACCATAAAATGTTTCCTCATTGGGCTACATGATATTGATGATTTG
193 CCATCTTTTCATAATTAGGCACCATAAAATGTTTCCTCATTAGGATACACGATATTGATCATTTG
* * * * *
1748730 GTTTCACAAGAAATGCTTTTCTTTGACCTATTTTCCTTAAAATCAAAGTTCATCC
258 GTTTCACAAGAAAAGCTTTTCATTGACCCATTTTCCTAAAAATCAAAGTTAATCC
* ** *
1748785 CTTAAATAAGACAAACTA--GATTCTTGTAATATTCTCCATTCTTTT
1 CTTAAATGAGAC-AACTATGGATTCTCATAATAATCTCCATTCTTTT
1748830 TGTGGTTGGG
Statistics
Matches: 295, Mismatches: 55, Indels: 19
0.80 0.15 0.05
Matches are distributed among these distances:
312 25 0.08
313 87 0.29
314 8 0.03
315 151 0.51
316 14 0.05
317 10 0.03
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (312 bp):
CTTAAATGAGACAACTATGGATTCTCATAATAATCTCCATTCTTTTCAAGATTAGATACCAAAAA
CATATTCTATTCATTAGGATACATAACATTGATGCTTTGAGATGCAAGAAAGCTTTTTTTCAACC
ATTTTCAACAGAATCAAAGTTTGTCCCTCAAATAAGACAAACATGGATTCTCATAACAATCTCCA
TCTTTTCATAATTAGGCACCATAAAATGTTTCCTCATTAGGATACACGATATTGATCATTTGGTT
TCACAAGAAAAGCTTTTCATTGACCCATTTTCCTAAAAATCAAAGTTAATCC
Found at i:1748786 original size:156 final size:155
Alignment explanation
Indices: 1748317--1749000 Score: 517
Period size: 156 Copynumber: 4.4 Consensus size: 155
1748307 TTTGTGCCTT
* * * * * *
1748317 AAATAAGACAAAC-ATGGATTCT-AGTGATGATCTTCATT-TTTGCATAATTAGGCACCATAAAC
1 AAATAAGACAAACTATGGATTCTCA-TAATAATCTCCATTCTTTTCATGATTGGGCACCAT-AA-
* * * * * * * * * *
1748379 ACAT-TTTCCTTATTAGTATACACGATATTGATCATTTGTTTTCATAAGAAAAGCTTTTCATTGC
63 A-ATGTTTCCTCATTGGGATACATGACATTGATGATTTGGTTT-ACAAG-AAAGCTTTT-TTTGA
* * * *
1748443 CCCATTTTCCTAAAAATCAAAGTTAATCCCTT
124 CCTATTTTCCTTAAAATCAAAGTTCATCCCTC
* * * * * *
1748475 AAATGAGAC-AACTATGGATTCTCATAATAGTCTCCTTTCTTTTCGA-GATTGAGAACCAAAAAC
1 AAATAAGACAAACTATGGATTCTCATAATAATCTCCATTCTTTTC-ATGATTGGGCACCATAAA-
* * * ***
1748538 ATGTTTCCTTCATTGGGATACATGACATTGATGCTTTGATGTTGCAAGAAAGCTTTTTTTCTTCT
64 ATGTTTCC-TCATTGGGATACATGACATTGATGATTTGGT-TTACAAGAAAGCTTTTTTTGACCT
** * **
1748603 ATTTTCAATAGAATCAAAGTTTGTCCCTC
127 ATTTTCCTTAAAATCAAAGTTCATCCCTC
* *
1748632 AAATAAGACAAACT-TGGATTGTCATAACAATCTCCA-TCTTTTCATGATTGGGCACCATAAAAT
1 AAATAAGACAAACTATGGATTCTCATAATAATCTCCATTCTTTTCATGATTGGGCACCATAAAAT
* *
1748695 GTTTCCTCATTGGGCTACATGATATTGATGATTTGGTTTCACAAGAAATGCTTTTCTTTGACCTA
66 GTTTCCTCATTGGGATACATGACATTGATGATTTGGTTT-ACAAGAAA-GCTTTT-TTTGACCTA
*
1748760 TTTTCCTTAAAATCAAAGTTCATCCCTT
128 TTTTCCTTAAAATCAAAGTTCATCCCTC
** * ** *
1748788 AAATAAGACAAACTA--GATTCTTGTAATATTCTCCATTCTTTTTGTGGTTGGGCACCA-AAAA-
1 AAATAAGACAAACTATGGATTCTCATAATAATCTCCATTCTTTTCATGATTGGGCACCATAAAAT
* * *
1748849 ---TCCTCATTGTGATGCATGACATTGATGGTTTGGCTTTACAAGGAAAGCTTTTTTT-ACCTTC
66 GTTTCCTCATTGGGATACATGACATTGATGATTTGG-TTTACAA-GAAAGCTTTTTTTGACC-T-
* *
1748910 ATTTT--TTATAGAATCAAAGTTCGTCTCTC
127 ATTTTCCTTA-A-AATCAAAGTTCATCCCTC
* * * * *
1748939 AAATGAGACAAA-TAGGGATTCTCATAATAATCCCCATTCTTCTCAAGA-TGAGGCACCATAAA
1 AAATAAGACAAACTATGGATTCTCATAATAATCTCCATTCTTTTCATGATTG-GGCACCATAAA
1749001 CACATTTTTC
Statistics
Matches: 420, Mismatches: 82, Indels: 53
0.76 0.15 0.10
Matches are distributed among these distances:
149 6 0.01
150 7 0.02
151 71 0.17
152 37 0.09
153 5 0.01
154 34 0.08
155 34 0.08
156 80 0.19
157 58 0.14
158 46 0.11
159 39 0.09
160 3 0.01
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.36
Consensus pattern (155 bp):
AAATAAGACAAACTATGGATTCTCATAATAATCTCCATTCTTTTCATGATTGGGCACCATAAAAT
GTTTCCTCATTGGGATACATGACATTGATGATTTGGTTTACAAGAAAGCTTTTTTTGACCTATTT
TCCTTAAAATCAAAGTTCATCCCTC
Found at i:1748925 original size:151 final size:151
Alignment explanation
Indices: 1748542--1749000 Score: 411
Period size: 151 Copynumber: 3.0 Consensus size: 151
1748532 AAAAACATGT
* * *
1748542 TTCCTTCATTGGGATACATGACATTGATGCTTTGATGTTGCAAGAAAGCTTTTTTT--CTTCTAT
1 TTCC-TCATTGGGATACATGACATTGATGATTTGGT-TTACAAGAAAGCTTTTTTTACCTTC-AT
** * * *
1748605 TTTCAATAGAATCAAAGTTTGTCCCTCAAATAAGACAAACTTGGATTGTCATAACAATCTCCATC
63 TTTTTATAGAATCAAAGTTCGTCCCTCAAATAAGACAAACTTAGATTCTCATAACAATCTCCATC
1748670 TTTTCATGATTGGGCACCATAAAA
128 TTTTCATGATTGGGCACCATAAAA
* *
1748694 TGTTTCCTCATTGGGCTACATGATATTGATGATTTGGTTTCACAAGAAATGCTTTTCTTTGACC-
1 ---TTCCTCATTGGGATACATGACATTGATGATTTGGTTT-ACAAGAAA-GCTTTT-TTT-ACCT
* * ** * *
1748758 T-ATTTTCCTTA-A-AATCAAAGTTCATCCCTTAAATAAGACAAAC-TAGATTCTTGTAATATTC
59 TCATTTT--TTATAGAATCAAAGTTCGTCCCTCAAATAAGACAAACTTAGATTCTCATAACAATC
** *
1748819 TCCATTCTTTTTGTGGTTGGGCACCA-AAAA
122 TCCA-TCTTTTCATGATTGGGCACCATAAAA
* * *
1748849 -TCCTCATTGTGATGCATGACATTGATGGTTTGGCTTTACAAGGAAAGCTTTTTTTACCTTCATT
1 TTCCTCATTGGGATACATGACATTGATGATTTGG-TTTACAA-GAAAGCTTTTTTTACCTTCATT
* * * *
1748913 TTTTATAGAATCAAAGTTCGTCTCTCAAATGAGACAAA--TAGGGATTCTCATAATAATCCCCAT
64 TTTTATAGAATCAAAGTTCGTCCCTCAAATAAGACAAACTTA--GATTCTCATAACAATCTCCA-
* *
1748976 TCTTCTCAAGA-TGAGGCACCATAAA
126 TCTTTTCATGATTG-GGCACCATAAA
1749001 CACATTTTTC
Statistics
Matches: 248, Mismatches: 37, Indels: 40
0.76 0.11 0.12
Matches are distributed among these distances:
149 6 0.02
150 7 0.03
151 71 0.29
152 37 0.15
153 5 0.02
154 34 0.14
155 30 0.12
156 54 0.22
157 1 0.00
158 2 0.01
159 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.37
Consensus pattern (151 bp):
TTCCTCATTGGGATACATGACATTGATGATTTGGTTTACAAGAAAGCTTTTTTTACCTTCATTTT
TTATAGAATCAAAGTTCGTCCCTCAAATAAGACAAACTTAGATTCTCATAACAATCTCCATCTTT
TCATGATTGGGCACCATAAAA
Found at i:1749334 original size:782 final size:786
Alignment explanation
Indices: 1747456--1749357 Score: 1773
Period size: 782 Copynumber: 2.4 Consensus size: 786
1747446 TTTTCAAGGC
* * * * * *
1747456 TAGGATACACAATATTAATGCTTTGGTTTTGCAA-AAAAGGCTTTTCTTTGC-ACCATTTTTTGT
1 TAGGATACACAATATTGATGCTTTGG--ATGCAAGAAAA-GCTTGTC-TTCCAACCATTTTTCGC
* * * * *
1747519 AGTGTCTTAGTTCATGCCTCAAATGAA-ACAAACATGGATTCTAGTAAGGATCATCATTGTTT-C
62 AGAGTCTAAGTTCGTGCCTCAAAT-AAGACAAACAGGGATTCTAGTAATGATCATCATT-TTTGC
* * * * * * *
1747582 ATGATTGGGCACCATAAACACGTTCT-CCTTATTAGGATACACAATATT-AACGGTTTGCTTTTG
125 ATAATTAGGCACCATAAACACATT-TGACTTATTAGGATACACGATATTGATC-ATTTG--TTTG
* ** * * * * *
1747645 CA-AAG-AAAG-GTTT-ATTTTGCCCATTTTTCTTAAAATCAAAGTTCATCCTTTAAATGAGACA
186 CATAAGAAAAGCTTTTCA-TTACCCCATTTTCCTAAAAATCAAAGTTAATCCCTTAAATGACACA
* ** * * * * * *
1747706 ACTATGGATTTTTGT-A-AGTCTCCACTCTTTTCGAGATTGGGAACTAAAAACACA-TTCCTTTT
250 ACTATGGATTCTCATAACAGTCTCCATTCTTTTAGAGATTGAGAACCAAAAACACATTTAC-TTC
* * * * * *
1747768 ATTAGGATACATGACATTGATGCTTT--T-TT----------TTTTTATC-AC-AATTTCGACAG
314 ATTGGGATACATGACATTGATGCTTTGATGTTGCAAGAAAGCTTTTTTTCTTCTATTTTCAATAG
** ** *
1747818 AATCAAAGTTTGTCCCTCAAATGGGACAAACTTGGATTATGGTAACAATCTCCACTTTTTCATGG
379 AATCAAAGTTTGTCCCTCAAATAAGACAAACTTGGATTATCATAACAATCTCCACTTTTTCATGA
* * * *
1747883 CTGGGCACTCTAAACATATCCCCCTTATTAGTATACATGATATTGATGCTTTAGCTTTGCAAGAA
444 CTGGGCACTCTAAACATATCCCCCTCATTAGGATACATGATATTGATGATTTAGCTTTACAAGAA
** * *
1747948 AAGCTTTTCTATGACCCATTTTGTTTAAAAATCAAAGTTCGTCCCTCTAATGAGACAAACATAGA
509 AAGCTTTTCTATGACCCATTTTCCTTAAAAATCAAAGTTCATCCCTCTAATAAGACAAACATAGA
* * * * *
1748013 TTTTTGTAATGGTCTTCACTCCTTTAGTATTGGGCACCAAAAATCTTTATTGGGATACATAACAT
574 TTCTTGTAATAGTCTCCACTCCTTTAGTATTGGGCACCAAAAATCCTCATTGGGATACATAACAT
1748078 TGATGGTTTGGCTTTTTTAAGCAAAGCTTTTTTTTCAAAGCTTTTTTTACCACCATTATTCATAA
639 TGATGGTTTGGC--TTTTAAGCAAAG--------TCAAAGCTTTTTTTACCACCATTATTCATAA
* * * * *
1748143 ATTAATGTTCGTCTCTTAAATGAGATAAATATGGATTCTCATAAGAATCCCCATTCTTTACAAGA
694 ATCAAAGTTCGTCTCTCAAATGAGACAAATAGGGATTCTCATAAGAATCCCCATTCTTTACAAGA
* * * *
1748208 TTAGATAGCATAAACATATTCTATTCAT
759 TGAGACACCATAAACACATTCTATTCAT
* * * ** *
1748236 TAGGATACATAATATTGATGCTTTGGATGCAAGAAAGGCTTTTCTTTGAACCATTTTTTGCAGAG
1 TAGGATACACAATATTGATGCTTTGGATGCAAGAAAAGCTTGTCTTCCAACCATTTTTCGCAGAG
* * * * *
1748301 TCTAAGTTTGTGCCTTAAATAAGACAAACATGGATTCTAGTGATGATCTTCATTTTTGCATAATT
66 TCTAAGTTCGTGCCTCAAATAAGACAAACAGGGATTCTAGTAATGATCATCATTTTTGCATAATT
** * *
1748366 AGGCACCATAAACACATTTTCCTTATTAGTATACACGATATTGATCATTTGTTTTCATAAGAAAA
131 AGGCACCATAAACACATTTGACTTATTAGGATACACGATATTGATCATTTGTTTGCATAAGAAAA
* *
1748431 GCTTTTCATTGCCCCATTTTCCTAAAAATCAAAGTTAATCCCTTAAATGAGACAACTATGGATTC
196 GCTTTTCATTACCCCATTTTCCTAAAAATCAAAGTTAATCCCTTAAATGACACAACTATGGATTC
* * * ** *
1748496 TCATAATAGTCTCCTTTCTTTTCGAGATTGAGAACCAAAAACATGTTTCCTTCATTGGGATACAT
261 TCATAACAGTCTCCATTCTTTTAGAGATTGAGAACCAAAAACACATTTACTTCATTGGGATACAT
1748561 GACATTGATGCTTTGATGTTGCAAGAAAGCTTTTTTTCTTCTATTTTCAATAGAATCAAAGTTTG
326 GACATTGATGCTTTGATGTTGCAAGAAAGCTTTTTTTCTTCTATTTTCAATAGAATCAAAGTTTG
* *
1748626 TCCCTCAAATAAGACAAACTTGGATTGTCATAACAATCTCCA-TCTTTTCATGATTGGGCAC-CA
391 TCCCTCAAATAAGACAAACTTGGATTATCATAACAATCTCCACT-TTTTCATGACTGGGCACTC-
* ** * * * *
1748689 TAAA-ATGT-TTCCTCATTGGGCTACATGATATTGATGATTT-GGTTTCACAAGAAATGCTTTTC
454 TAAACATATCCCCCTCATTAGGATACATGATATTGATGATTTAGCTTT-ACAAGAAAAGCTTTTC
* *
1748751 TTTGACCTATTTTCCTT-AAAATCAAAGTTCATCCCT-TAAATAAGACAAAC-TAGATTCTTGTA
518 TATGACCCATTTTCCTTAAAAATCAAAGTTCATCCCTCT-AATAAGACAAACATAGATTCTTGTA
* * * * * * * *
1748813 ATATTCTCCATTCTTTTTGTGGTTGGGCACCAAAAATCCTCATTGTGATGCATGACATTGATGGT
582 ATAGTCTCCACTCCTTTAGT-ATTGGGCACCAAAAATCCTCATTGGGATACATAACATTGATGGT
* ** * *
1748878 TTGGC-TTT-A-C-AAG-GAAAGCTTTTTTTACCTTCATTTTTTATAGAATCAAAGTTCGTCTCT
646 TTGGCTTTTAAGCAAAGTCAAAGCTTTTTTTACCACCATTATTCATA-AATCAAAGTTCGTCTCT
* *
1748938 CAAATGAGACAAATAGGGATTCTCATAATAATCCCCATTCTTCT-CAAGATGAGGCACCATAAAC
710 CAAATGAGACAAATAGGGATTCTCATAAGAATCCCCATTCTT-TACAAGATGAGACACCATAAAC
*
1749002 ACATT-T-TTCTCT
774 ACATTCTATTC-AT
** * *
1749014 GTAGGATACACAATATTGATGCTTTGCTTTGGCAAGAAAAGCTTGTCTTCCCACCATTTTTCGTA
1 -TAGGATACACAATATTGATGCTTTG-GAT-GCAAGAAAAGCTTGTCTTCCAACCATTTTTCGCA
* * * ***
1749079 GAGTCTTAGTTCGTGCCTCAAATGAGAGAGAA-AGGGATTCTAGTAATGATCATCATTCTTTTTG
63 GAGTCTAAGTTCGTGCCTCAAATAAGACA-AACAGGGATTCTAGTAATGATCATCATT-TTTGCA
* *** ** * * * *
1749143 TGATTAGGCATTGTAAACATGTTTGATTTGTTAGGATACACGATATTGGTGATTTGCTTTCGCA-
126 TAATTAGGCACCATAAACACATTTGACTTATTAGGATACACGATATTGATCATTTG-TTT-GCAT
* * * *
1749207 AAG-AAAGCTTTTCTTTACCCCATTTTCCTTAAAATCAAAG-TATATGCCTTTAATGACACAAAC
189 AAGAAAAGCTTTTCATTACCCCATTTTCCTAAAAATCAAAGTTA-ATCCCTTAAATGACAC-AAC
* * *
1749270 -ATGGATTCTCATAACATTCTCCATTCTTTTTAG-GATTTG-GAACCGAAAACACATTTATTTCA
252 TATGGATTCTCATAACAGTCTCCATTC-TTTTAGAGA-TTGAGAACCAAAAACACATTTACTTCA
1749332 TTGGGATACATGACATTGATGCTTTG
315 TTGGGATACATGACATTGATGCTTTG
1749358 GTTTCATAAA
Statistics
Matches: 925, Mismatches: 150, Indels: 92
0.79 0.13 0.08
Matches are distributed among these distances:
776 5 0.01
777 14 0.02
778 146 0.16
779 157 0.17
780 28 0.03
781 134 0.14
782 168 0.18
783 18 0.02
784 4 0.00
787 3 0.00
788 1 0.00
789 1 0.00
790 3 0.00
792 26 0.03
793 76 0.08
794 59 0.06
795 6 0.01
796 76 0.08
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (786 bp):
TAGGATACACAATATTGATGCTTTGGATGCAAGAAAAGCTTGTCTTCCAACCATTTTTCGCAGAG
TCTAAGTTCGTGCCTCAAATAAGACAAACAGGGATTCTAGTAATGATCATCATTTTTGCATAATT
AGGCACCATAAACACATTTGACTTATTAGGATACACGATATTGATCATTTGTTTGCATAAGAAAA
GCTTTTCATTACCCCATTTTCCTAAAAATCAAAGTTAATCCCTTAAATGACACAACTATGGATTC
TCATAACAGTCTCCATTCTTTTAGAGATTGAGAACCAAAAACACATTTACTTCATTGGGATACAT
GACATTGATGCTTTGATGTTGCAAGAAAGCTTTTTTTCTTCTATTTTCAATAGAATCAAAGTTTG
TCCCTCAAATAAGACAAACTTGGATTATCATAACAATCTCCACTTTTTCATGACTGGGCACTCTA
AACATATCCCCCTCATTAGGATACATGATATTGATGATTTAGCTTTACAAGAAAAGCTTTTCTAT
GACCCATTTTCCTTAAAAATCAAAGTTCATCCCTCTAATAAGACAAACATAGATTCTTGTAATAG
TCTCCACTCCTTTAGTATTGGGCACCAAAAATCCTCATTGGGATACATAACATTGATGGTTTGGC
TTTTAAGCAAAGTCAAAGCTTTTTTTACCACCATTATTCATAAATCAAAGTTCGTCTCTCAAATG
AGACAAATAGGGATTCTCATAAGAATCCCCATTCTTTACAAGATGAGACACCATAAACACATTCT
ATTCAT
Found at i:1751864 original size:42 final size:42
Alignment explanation
Indices: 1751800--1751918 Score: 184
Period size: 42 Copynumber: 2.8 Consensus size: 42
1751790 TAGCCCTCAA
* *
1751800 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* *
1751842 AGAGATAGTAGAGATAGAAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* *
1751884 AGAGATAATAGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
1751919 GAGAGAAGAA
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 69 1.00
ACGTcount: A:0.44, C:0.03, G:0.45, T:0.08
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:1756967 original size:58 final size:58
Alignment explanation
Indices: 1756892--1757001 Score: 193
Period size: 58 Copynumber: 1.9 Consensus size: 58
1756882 ATCAATAGGC
*
1756892 CCATAAATATATGCAAATTGGGCTCCACTCTTCTTGGACATGTGAATTGGGCTCCAAG
1 CCATAAATATATGCAAATTGGGCTCCACTCTTCTTGGACATATGAATTGGGCTCCAAG
* *
1756950 CCATGAATATATGCAAATTGGGCTTCACTCTTCTTGGACATATGAATTGGGC
1 CCATAAATATATGCAAATTGGGCTCCACTCTTCTTGGACATATGAATTGGGC
1757002 AGCCCCAAGC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
58 49 1.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (58 bp):
CCATAAATATATGCAAATTGGGCTCCACTCTTCTTGGACATATGAATTGGGCTCCAAG
Found at i:1756997 original size:29 final size:29
Alignment explanation
Indices: 1756907--1757001 Score: 95
Period size: 29 Copynumber: 3.3 Consensus size: 29
1756897 AATATATGCA
*
1756907 AATTGGGCTCCACTCTTCTTGGACATGTG
1 AATTGGGCTCCACTCTTCTTGGACATATG
** * * *
1756936 AATTGGGCTCCAAGC--CATGAATATATG
1 AATTGGGCTCCACTCTTCTTGGACATATG
*
1756963 CAAATTGGGCTTCACTCTTCTTGGACATATG
1 --AATTGGGCTCCACTCTTCTTGGACATATG
1756994 AATTGGGC
1 AATTGGGC
1757002 AGCCCCAAGC
Statistics
Matches: 50, Mismatches: 12, Indels: 8
0.71 0.17 0.11
Matches are distributed among these distances:
27 8 0.16
29 33 0.66
31 9 0.18
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (29 bp):
AATTGGGCTCCACTCTTCTTGGACATATG
Found at i:1763520 original size:24 final size:24
Alignment explanation
Indices: 1763487--1763572 Score: 76
Period size: 24 Copynumber: 3.8 Consensus size: 24
1763477 AAGAGAAAGA
*
1763487 AGAGAGAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
*
1763511 AGAGACAGGA--GA-GAT---AGT
1 AGAGACAGGAGGGATGATAGGAGG
*
1763529 AGAGATAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
* * *
1763553 AGAGACGGGAGAGATAATAG
1 AGAGACAGGAGGGATGATAG
1763573 AGAGAGGAGG
Statistics
Matches: 48, Mismatches: 8, Indels: 12
0.71 0.12 0.18
Matches are distributed among these distances:
18 11 0.23
20 2 0.04
21 6 0.12
22 2 0.04
24 27 0.56
ACGTcount: A:0.41, C:0.02, G:0.47, T:0.10
Consensus pattern (24 bp):
AGAGACAGGAGGGATGATAGGAGG
Found at i:1763539 original size:42 final size:42
Alignment explanation
Indices: 1763478--1763596 Score: 184
Period size: 42 Copynumber: 2.8 Consensus size: 42
1763468 TAGCCCTCAA
* *
1763478 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* *
1763520 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACGGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* *
1763562 AGAGATAATAGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
1763597 GAGAGAAGAA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.42, C:0.03, G:0.47, T:0.08
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:1772191 original size:42 final size:42
Alignment explanation
Indices: 1772145--1772257 Score: 154
Period size: 42 Copynumber: 2.7 Consensus size: 42
1772135 TTCTTCTCTC
* * * *
1772145 CTCCTCCTATCATCCCTTCTCTCTCTTTTATTTATCCTATCT
1 CTCCTCCTATCATCCCTCCTATCTCTTCTATCTATCCTATCT
* *
1772187 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTATCT
1 CTCCTCCTATCATCCCTCCTATCTCTTCTATCTATCCTATCT
* *
1772229 CCCCTCCTATTATCCCTCCTATCTCTTCT
1 CTCCTCCTATCATCCCTCCTATCTCTTCT
1772258 TTCTCTTCGA
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 62 1.00
ACGTcount: A:0.12, C:0.43, G:0.00, T:0.44
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTATCTCTTCTATCTATCCTATCT
Found at i:1772237 original size:12 final size:11
Alignment explanation
Indices: 1772179--1772253 Score: 68
Period size: 12 Copynumber: 6.8 Consensus size: 11
1772169 CTTTTATTTA
1772179 TCCTATCTCTCC
1 TCCTATCTC-CC
1772191 TCCTATCATCCC
1 TCCTATC-TCCC
1772203 TCCTATCT--C
1 TCCTATCTCCC
*
1772212 TACTATCT--C
1 TCCTATCTCCC
1772221 TCCTATCTCCCC
1 TCCTATCT-CCC
*
1772233 TCCTATTATCCC
1 TCCTA-TCTCCC
1772245 TCCTATCTC
1 TCCTATCTC
1772254 TTCTTTCTCT
Statistics
Matches: 54, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
9 16 0.30
11 4 0.07
12 30 0.56
13 4 0.07
ACGTcount: A:0.13, C:0.47, G:0.00, T:0.40
Consensus pattern (11 bp):
TCCTATCTCCC
Found at i:1775884 original size:28 final size:28
Alignment explanation
Indices: 1775831--1775918 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
1775821 TTGATTGAAA
* *
1775831 AATAAGAAAGATC-AAGGAAGTA-AAATC
1 AATAAGAAATATCAAAGGAA-AAGAAATC
* *
1775858 AATAAGAAATATGAAAGGAAACGAAAT-
1 AATAAGAAATATCAAAGGAAAAGAAATC
* *
1775885 AAGCAAGAAATTTCAAAGGAAAAGAAATC
1 AA-TAAGAAATATCAAAGGAAAAGAAATC
1775914 AATAA
1 AATAA
1775919 AGAAGAATAA
Statistics
Matches: 48, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
27 13 0.27
28 33 0.69
29 2 0.04
ACGTcount: A:0.61, C:0.07, G:0.17, T:0.15
Consensus pattern (28 bp):
AATAAGAAATATCAAAGGAAAAGAAATC
Found at i:1778659 original size:160 final size:160
Alignment explanation
Indices: 1778410--1778756 Score: 375
Period size: 160 Copynumber: 2.2 Consensus size: 160
1778400 ATCCTTCTTG
** * * * * *
1778410 GGATACATGACGTTAATGGTTTGGCTTTGCAAGCAAAGATTTTTTTTGCCACTATTTTTCATAAA
1 GGATACATGATATTGATGATTTGGCTTTGCAAGCAAAGATTTTCTTCGCCACCATTTTTCATAAA
1778475 ATCAAAGTTTGTCTCTTAAATGAGACAAACAGGAATTCTCA-TAGTAG-TCCCCATTCTTTTCAA
66 ATCAAAGTTTGTCTCTTAAATGAGACAAACAGGAATTCT-AGTAGT-GTTCCCCATTCTTTTCAA
*
1778538 GGTTAGGCACCATAAACACATTCTTTTATATTA
129 GATTAGGCACCATAAACACATT-TTTTATATTA
* * * *
1778571 GGATACATGATATTGATGCTTTGGTTTTGCAAG-AAAGGCTTTTCTTCG-CACCATTTTTCATAG
1 GGATACATGATATTGATGATTTGGCTTTGCAAGCAAA-GATTTTCTTCGCCACCATTTTTCATAA
* *** ** *
1778634 AATCTAAGTTCATG-C-CTTAAATGAGACAAACATTTATTCTAGTAGTGTTCTTCATTTTTTTCA
65 AATCAAAGTT--TGTCTCTTAAATGAGACAAACAGGAATTCTAGTAGTGTTCCCCATTCTTTTCA
* ** *
1778697 TGATTAGGCACCATAAACATGTTTTTTTTATTA
128 AGATTAGGCACCATAAACACATTTTTTATATTA
*
1778730 GTATACATGATATTGATGATTT-GCTTT
1 GGATACATGATATTGATGATTTGGCTTT
1778757 AAAGCTTTTA
Statistics
Matches: 156, Mismatches: 25, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
158 4 0.03
159 31 0.20
160 82 0.53
161 37 0.24
162 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.40
Consensus pattern (160 bp):
GGATACATGATATTGATGATTTGGCTTTGCAAGCAAAGATTTTCTTCGCCACCATTTTTCATAAA
ATCAAAGTTTGTCTCTTAAATGAGACAAACAGGAATTCTAGTAGTGTTCCCCATTCTTTTCAAGA
TTAGGCACCATAAACACATTTTTTATATTA
Done.