Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008539.1 Hibiscus syriacus cultivar Beakdansim tig00111427_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 6067759
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 31
Found at i:1838007 original size:11 final size:11
Alignment explanation
Indices: 1837991--1838053 Score: 60
Period size: 11 Copynumber: 5.9 Consensus size: 11
1837981 ATATTATAGA
1837991 ATTTTTAATAT
1 ATTTTTAATAT
1838002 ATTTTTAA-A-
1 ATTTTTAATAT
1838011 ATTTTATAAT-T
1 ATTTT-TAATAT
*** *
1838022 ATCAATAATGT
1 ATTTTTAATAT
1838033 ATTTTTAATAT
1 ATTTTTAATAT
1838044 ATTTTTAATA
1 ATTTTTAATA
1838054 ATGTAATTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
9 5 0.12
10 8 0.20
11 28 0.68
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (11 bp):
ATTTTTAATAT
Found at i:1843657 original size:2 final size:2
Alignment explanation
Indices: 1843650--1843678 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1843640 GGTTCACGGA
1843650 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1843679 AACAAGTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1844321 original size:3 final size:3
Alignment explanation
Indices: 1844313--1844387 Score: 69
Period size: 3 Copynumber: 24.7 Consensus size: 3
1844303 CCATTCGATT
* * *
1844313 TTA TTA TTA TTA TTA TTA TTA TTG TTA TTG TTA TTA TTA TTTA TGA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
* * * * *
1844359 ATA TTT TTA TTT TTA TTT TTA TTT TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1844388 TTTCAGGTCC
Statistics
Matches: 55, Mismatches: 16, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
3 52 0.95
4 3 0.05
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:1844810 original size:7 final size:6
Alignment explanation
Indices: 1844796--1844871 Score: 64
Period size: 6 Copynumber: 12.2 Consensus size: 6
1844786 ATTTTGTTTT
* * *
1844796 AGAAAA AGTAAAA AGTAAAA AGAAAA AGGAAAA GGAAAA GGAAAA GGAAAA
1 AGAAAA AG-AAAA AG-AAAA AGAAAA A-GAAAA AGAAAA AGAAAA AGAAAA
* *
1844847 AG-AAA AGCAAA AGTAAA AGTAAAA A
1 AGAAAA AGAAAA AGAAAA AG-AAAA A
1844872 AATAAGCAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 7
0.85 0.05 0.10
Matches are distributed among these distances:
5 5 0.08
6 35 0.56
7 22 0.35
ACGTcount: A:0.72, C:0.01, G:0.21, T:0.05
Consensus pattern (6 bp):
AGAAAA
Found at i:1844840 original size:18 final size:18
Alignment explanation
Indices: 1844813--1844870 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
1844803 GTAAAAAGTA
1844813 AAAAGAAAAAGGAAAAGG
1 AAAAGAAAAAGGAAAAGG
* *
1844831 AAAAGGAAAAGGAAAAAG
1 AAAAGAAAAAGGAAAAGG
* * *
1844849 AAAAGCAAAAGTAAAAGT
1 AAAAGAAAAAGGAAAAGG
1844867 AAAA
1 AAAA
1844871 AAATAAGCAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.72, C:0.02, G:0.22, T:0.03
Consensus pattern (18 bp):
AAAAGAAAAAGGAAAAGG
Found at i:1845117 original size:2 final size:2
Alignment explanation
Indices: 1845112--1845148 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1845102 TCATATTTTT
1845112 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1845149 TCTAATGAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1852974 original size:17 final size:17
Alignment explanation
Indices: 1852954--1852995 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
1852944 ACGATCGGCT
* *
1852954 GTTGACCGTTGACCTAC
1 GTTGACCATTGACCGAC
*
1852971 GTTGACCATTGACCGGC
1 GTTGACCATTGACCGAC
1852988 GTTGACCA
1 GTTGACCA
1852996 CTGTTGACCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.19, C:0.29, G:0.26, T:0.26
Consensus pattern (17 bp):
GTTGACCATTGACCGAC
Found at i:1855363 original size:23 final size:24
Alignment explanation
Indices: 1855325--1855406 Score: 103
Period size: 24 Copynumber: 3.5 Consensus size: 24
1855315 AATTATGTTA
* *
1855325 TGATACCTGACCTGGATTCTGATC
1 TGATACATGACATGGATTCTGATC
* *
1855349 TAATACA-GACATGGATTCTGATA
1 TGATACATGACATGGATTCTGATC
*
1855372 TGATACATGACTTGGATTCTGATC
1 TGATACATGACATGGATTCTGATC
*
1855396 TGATACTTGAC
1 TGATACATGAC
1855407 CTGAATTATG
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
23 20 0.41
24 29 0.59
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (24 bp):
TGATACATGACATGGATTCTGATC
Found at i:1855573 original size:57 final size:57
Alignment explanation
Indices: 1855481--1855652 Score: 272
Period size: 57 Copynumber: 3.0 Consensus size: 57
1855471 GTTGGAGGAA
* *
1855481 GAATACTTGCAGGTTCCTCGGCTTTGTGCTGAGGGCCTTACTGTTCGTGACGGGGTT
1 GAATACTTGCAGGTTCCTCGACTTTGTGCTCAGGGCCTTACTGTTCGTGACGGGGTT
* * *
1855538 GAATACTTACAGGTTCCTCGACTTTGTGCTCAGGGCCTTAATGTTTGTGACGGGGTT
1 GAATACTTGCAGGTTCCTCGACTTTGTGCTCAGGGCCTTACTGTTCGTGACGGGGTT
* * *
1855595 GAATACTTGCAGGTTCCTCGACTTTTTGTTCAAGGCCTTACTGTTCGTGACGGGGTT
1 GAATACTTGCAGGTTCCTCGACTTTGTGCTCAGGGCCTTACTGTTCGTGACGGGGTT
1855652 G
1 G
1855653 TATGGTTCGG
Statistics
Matches: 104, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
57 104 1.00
ACGTcount: A:0.15, C:0.20, G:0.30, T:0.35
Consensus pattern (57 bp):
GAATACTTGCAGGTTCCTCGACTTTGTGCTCAGGGCCTTACTGTTCGTGACGGGGTT
Found at i:1856190 original size:20 final size:21
Alignment explanation
Indices: 1856150--1856192 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
1856140 AGAAAACCTG
1856150 TTTTATTTTGAATACTGATAAA
1 TTTTATTTTG-ATACTGATAAA
*
1856172 TTTTATTTTG-TACTTATAAA
1 TTTTATTTTGATACTGATAAA
1856192 T
1 T
1856193 GATTTTATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 10 0.50
22 10 0.50
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.56
Consensus pattern (21 bp):
TTTTATTTTGATACTGATAAA
Found at i:1858593 original size:34 final size:34
Alignment explanation
Indices: 1858545--1858610 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
1858535 TCATATTTGT
1858545 CTGTCACAAATTTCAATTAATATTTGTTAGTTGA
1 CTGTCACAAATTTCAATTAATATTTGTTAGTTGA
*
1858579 CTGTCACAATTTTCAATTAATATTTGTTAGTT
1 CTGTCACAAATTTCAATTAATATTTGTTAGTT
1858611 TAGTCAATAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.30, C:0.12, G:0.11, T:0.47
Consensus pattern (34 bp):
CTGTCACAAATTTCAATTAATATTTGTTAGTTGA
Found at i:1860300 original size:23 final size:23
Alignment explanation
Indices: 1860274--1860332 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
1860264 AGGTAAAAAT
*
1860274 ATGTAATAGGTAGCGCTTATATA
1 ATGTAATAGGTAGCACTTATATA
* * *
1860297 ATGTAATATGTATCATTTATATA
1 ATGTAATAGGTAGCACTTATATA
1860320 ATGTAATAGGTAG
1 ATGTAATAGGTAG
1860333 TTGTAAAGTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.37, C:0.05, G:0.19, T:0.39
Consensus pattern (23 bp):
ATGTAATAGGTAGCACTTATATA
Found at i:1860771 original size:23 final size:22
Alignment explanation
Indices: 1860745--1860807 Score: 81
Period size: 22 Copynumber: 2.8 Consensus size: 22
1860735 AATAGGTAAA
* * *
1860745 ATATGATGTAATAAGTAGCGCTT
1 ATATAATGTAATAGGTAGC-ATT
*
1860768 ATATAATGTAATAGGTATCATT
1 ATATAATGTAATAGGTAGCATT
1860790 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
1860808 TTGTAAAGTA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
22 19 0.54
23 16 0.46
ACGTcount: A:0.40, C:0.05, G:0.19, T:0.37
Consensus pattern (22 bp):
ATATAATGTAATAGGTAGCATT
Found at i:1861254 original size:23 final size:23
Alignment explanation
Indices: 1861223--1861286 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
1861213 ATAGGTAAAA
*
1861223 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1861246 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
1861269 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
1861287 TTGTAAAGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1861434 original size:477 final size:477
Alignment explanation
Indices: 1860043--1863116 Score: 5542
Period size: 477 Copynumber: 6.5 Consensus size: 477
1860033 CTGTGAAAAT
1860043 ATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATAT
1 ATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATAT
*
1860108 CAAAACAATCAAATAATTTTTTGTGTAAATAAAATTATTAAATTAATATTGTAGGTGGAAAACAT
66 CAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACAT
* *
1860173 GAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTT-AAAAAAGTATCGATCCTTTTTA
131 AAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTGTCGATCCTTTTTA
1860237 T-AAAAGTATGGACACTTTCAATATAATAGGTAAAA-AT-ATGTAATAGGTAGCGCTTATATAAT
196 TAAAAAGTATGGACACTTTCAATATAATAGGTAAAATATGATGTAATAGGTAGCGCTTATATAAT
* * *
1860299 GTAATATGTATCATTTATATAATGTAATAGGTAGTTGTAAAGTATTTATCCTTTTTATAAAAGTG
261 GTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGTATCTATCCTTTTTATAAAAGTG
1860364 TCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATAT
326 TCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATAT
1860429 TAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACATTACGATATATATTATTAAATTAA
391 TAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACATTACGATATATATTATTAAATTAA
1860494 AAACAATAAACATATATATTAC
456 AAACAATAAACATATATATTAC
1860516 ATA-TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATAT
1 ATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATAT
*
1860580 CAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTATGTGGAAAACAT
66 CAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACAT
* *
1860645 GAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTA
131 AAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTGTCGATCCTTTTTA
*
1860710 TAAAAAGTATGGACACTTTCAATATAATAGGTAAAATATGATGTAATAAGTAGCGCTTATATAAT
196 TAAAAAGTATGGACACTTTCAATATAATAGGTAAAATATGATGTAATAGGTAGCGCTTATATAAT
*
1860775 GTAATAGGTATC-ATTATATAATGTAATAGGTAGTTGTAAAGTATCTATCCTTTTTATAAAAGTG
261 GTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGTATCTATCCTTTTTATAAAAGTG
1860839 TCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATAT
326 TCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATAT
1860904 TAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACATTACGATATATA-TATTATAAATT
391 TAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACATTACGATATATATTA-T-TAAATT
1860968 AAAAACAATAAACATATATATTAC
454 AAAAACAATAAACATATATATTAC
1860992 ATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTAT-AAATAT
1 ATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATAT
1861056 CAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACAT
66 CAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACAT
1861121 AAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTGTCGATCCTTTTT
131 AAAACACTATT-AAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTGTCGATCCTTTTT
*
1861186 ATAAAAAGTATAGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATA
195 ATAAAAAGTATGGACACTTTCAATATAATAGGT-AAAATATGATGTAATAGGTAGCGCTTATATA
*
1861251 ATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGTATATATCCTTTTTATAAAAG
259 ATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGTATCTATCCTTTTTATAAAAG
*
1861316 TGTCCATACTTTTTTCATTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGAT
324 TGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGAT
* *
1861381 ATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACTATATATATTATTATTAA
389 ATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACATTAC--GATATA-TATTATTAA
*
1861446 ATTATAAACAATAAACATATATATTAC
451 ATTAAAAACAATAAACATATATATTAC
*
1861473 ATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAAATCTAAATATTATTTTATAAAATAT
1 ATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATAT
1861538 CAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACAT
66 CAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACAT
1861603 AAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTT-AAAAAAGTGTCGATCCTTTTT
131 AAAACACTATT-AAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTGTCGATCCTTTTT
1861667 ATAAAAAGTATGGACACTTTCAATATAATAGGTAAAATATGATGTAATAGGTAGCGCTTATATAA
195 ATAAAAAGTATGGACACTTTCAATATAATAGGTAAAATATGATGTAATAGGTAGCGCTTATATAA
*
1861732 TGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAATATCTATCCTTTTTATAAAAGT
260 TGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGTATCTATCCTTTTTATAAAAGT
*
1861797 GTCCATACTTTTTTCATTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATA
325 GTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATA
* *
1861862 TTAA-TTAGTAATTATAGGCATCTAATGATTTATTTTTTACGTTACGATATATATTATTAAATTA
390 TTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACATTACGATATATATTATTAAATTA
1861926 AAAACAAT-AACATATATATTAC
455 AAAACAATAAACATATATATTAC
1861948 ATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATAT
1 ATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATAT
1862013 CAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACAT
66 CAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACAT
*
1862078 AAAACATTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAAGTGTCGATCCTTTTT
131 AAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTT-AAAAAAAGTGTCGATCCTTTTT
1862143 ATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATA
195 ATAAAAAGTATGGACACTTTCAATATAATAGGT-AAAATATGATGTAATAGGTAGCGCTTATATA
1862208 ATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGTATCTATCCTTTTTATAAAAG
259 ATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGTATCTATCCTTTTTATAAAAG
1862273 TGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGAT
324 TGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGAT
1862338 ATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACATTACGATATATATTA-TAAATT
389 ATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACATTACGATATATATTATTAAATT
1862402 AAAAACAATAAACATATATATTAC
454 AAAAACAATAAACATATATATTAC
1862426 ATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATA-TATTTTATAAAATAT
1 ATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATAT
*
1862490 CAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACAC
66 CAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACAT
1862555 AAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAAGTGTCGATCCTTTTT
131 AAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTT-AAAAAAAGTGTCGATCCTTTTT
1862620 ATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGC-T-TATA
195 ATAAAAAGTATGGACACTTTCAATATAATAGGT-AAAATATGATGTAATAGGTAGCGCTTATATA
*
1862683 ATGTAATAGGTATCATTTATATAATGTAATAGGTAGTTGTAAAGTATCTATCC-TTTTATAAAAG
259 ATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGTATCTATCCTTTTTATAAAAG
*
1862747 TGTCCATACTTTTTTCATTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGAT
324 TGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGAT
* *
1862812 ATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTAGGATATATATTATTATTAA
389 ATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACATTACG--ATATA-TATTATTAA
* *
1862877 ATTAAAAATAATAAAAATATATATTAC
451 ATTAAAAACAATAAACATATATATTAC
1862904 ATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTC----TATT-TTTTATAAAATAT
1 ATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATAT
* *
1862964 CAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGAAAAACAT
66 CAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACAT
* * *
1863029 GAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAATTATCGATCCTTTTT
131 AAAACACTATT-AAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTGTCGATCCTTTTT
1863094 ATAAAAAGTATGGACACTTTCAA
195 ATAAAAAGTATGGACACTTTCAA
1863117 CATATTATAA
Statistics
Matches: 2531, Mismatches: 44, Indels: 51
0.96 0.02 0.02
Matches are distributed among these distances:
472 166 0.07
473 26 0.01
474 318 0.13
475 412 0.16
476 228 0.09
477 528 0.21
478 228 0.09
479 198 0.08
480 164 0.06
481 144 0.06
482 117 0.05
483 2 0.00
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.40
Consensus pattern (477 bp):
ATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATAT
CAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACAT
AAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTGTCGATCCTTTTTA
TAAAAAGTATGGACACTTTCAATATAATAGGTAAAATATGATGTAATAGGTAGCGCTTATATAAT
GTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGTATCTATCCTTTTTATAAAAGTG
TCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATAT
TAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACATTACGATATATATTATTAAATTAA
AAACAATAAACATATATATTAC
Found at i:1861729 original size:23 final size:23
Alignment explanation
Indices: 1861703--1861766 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
1861693 AATAGGTAAA
*
1861703 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1861726 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
1861749 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
1861767 TTGTAAAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1862211 original size:23 final size:23
Alignment explanation
Indices: 1862180--1862243 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
1862170 ATAGGTAAAA
*
1862180 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1862203 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
1862226 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
1862244 TTGTAAAGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1862263 original size:957 final size:955
Alignment explanation
Indices: 1860043--1863116 Score: 5573
Period size: 957 Copynumber: 3.2 Consensus size: 955
1860033 CTGTGAAAAT
1860043 ATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATAT
1 ATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATAT
*
1860108 CAAAACAATCAAATAATTTTTTGTGTAAATAAAATTATTAAATTAATATTGTAGGTGGAAAACAT
66 CAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACAT
*
1860173 GAAACACTATT-AAAAAAATTGAAACATAAATTACATAACTTT-AAAAAAGTATCGATCCTTTTT
131 AAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTT
1860236 AT-AAAAGTATGGACACTTTCAATATAATAGGT-AAAA-AT-ATGTAATAGGTAGCGCTTATATA
196 ATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATA
* * *
1860297 ATGTAATATGTATCATTTATATAATGTAATAGGTAGTTGTAAAGTATTTATCCTTTTTATAAAAG
261 ATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGTATATATCCTTTTTATAAAAG
1860362 TGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGAT
326 TGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGAT
1860427 ATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACATTACGATATATATTATTAAATT
391 ATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACATTACGATATATATTATTAAATT
1860492 AAAAACAATAAACATATATATTACATA-TTATTATTATCTTTGGTTAATATTGTTAAATTTAAAT
456 AAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAAT
1860556 TCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAA
521 TCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAA
* *
1860621 ATTAATATTGTATGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTT
586 ATTAATATTGTAGGTGGAAAACATAAAACACTATTAAAAAAATTGAAACATAAATTACATAACTT
*
1860686 TAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAATATGA
651 TAAAAAAAGTGTCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAATATGA
* *
1860751 TGTAATAAGTAGCGCTTATATAATGTAATAGGTATCATTATATAATGTAATAGGTAGTTGTAAAG
716 TGTAATAGGTAGCGCTTATATAATGTAATAGGTATCTTTATATAATGTAATAGGTAGTTGTAAAG
*
1860816 TATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTAT
781 TATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCATTGTGGAAAACATTAATTTAAGGTTAT
*
1860881 CTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACAT
846 CTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGT
1860946 TACGATATATA-TATTATAAATTAAAAACAATAAACATATATATTAC
911 TACGATATATATTA-T-TAAATTAAAAACAATAAACATATATATTAC
1860992 ATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTAT-AAATAT
1 ATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATAT
1861056 CAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACAT
66 CAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACAT
*
1861121 AAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTGTCGATCCTTTTT
131 AAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTT
*
1861186 ATAAAAAGTATAGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATA
196 ATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATA
1861251 ATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGTATATATCCTTTTTATAAAAG
261 ATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGTATATATCCTTTTTATAAAAG
*
1861316 TGTCCATACTTTTTTCATTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGAT
326 TGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGAT
* *
1861381 ATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACTATATATATTATTATTAA
391 ATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACATTAC--GATATA-TATTATTAA
*
1861446 ATTATAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTA
453 ATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTA
*
1861511 AAATCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTAT
518 AATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTAT
1861576 TAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAAAAAAATTGAAACATAAATTACATA
583 TAAATTAATATTGTAGGTGGAAAACATAAAACACTATT-AAAAAAATTGAAACATAAATTACATA
1861641 ACTTT-AAAAAAGTGTCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAT
647 ACTTTAAAAAAAGTGTCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAT
1861705 ATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTG
712 ATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATC-TTTATATAATGTAATAGGTAGTTG
*
1861770 TAAAATATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCATTGTGGAAAACATTAATTTAAG
776 TAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCATTGTGGAAAACATTAATTTAAG
*
1861835 GTTATCTTTTGAGTGAGTTTTAAGATATTAA-TTAGTAATTATAGGCATCTAATGATTTATTTTT
841 GTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTT
1861899 TACGTTACGATATATATTATTAAATTAAAAACAAT-AACATATATATTAC
906 TACGTTACGATATATATTATTAAATTAAAAACAATAAACATATATATTAC
1861948 ATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATAT
1 ATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATAT
1862013 CAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACAT
66 CAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACAT
* *
1862078 AAAACATTATT-AAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAAGTGTCGATCCTTTT
131 AAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTT-AAAAAAAGTATCGATCCTTTT
1862142 TATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATAT
195 TATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATAT
*
1862207 AATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGTATCTATCCTTTTTATAAAA
260 AATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGTATATATCCTTTTTATAAAA
1862272 GTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGA
325 GTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGA
1862337 TATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACATTACGATATATATTA-TAAAT
390 TATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACATTACGATATATATTATTAAAT
1862401 TAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAA
455 TAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAA
1862466 TTCTAAATA-TATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTA
520 TTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTA
*
1862530 AATTAATATTGTAGGTGGAAAACACAAAACACTATTAAAAAAATTGAAACATAAATTACATAACT
585 AATTAATATTGTAGGTGGAAAACATAAAACACTATTAAAAAAATTGAAACATAAATTACATAACT
1862595 TTAAAAAAAAGTGTCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATA
650 TT-AAAAAAAGTGTCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGT-AAAATA
1862660 TGATGTAATAGGTAGCGC-T-TATAATGTAATAGGTATCATTTATATAATGTAATAGGTAGTTGT
713 TGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATC-TTTATATAATGTAATAGGTAGTTGT
1862723 AAAGTATCTATCC-TTTTATAAAAGTGTCCATACTTTTTTCATTGTGGAAAACATTAATTTAAGG
777 AAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCATTGTGGAAAACATTAATTTAAGG
1862787 TTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTT
842 TTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTT
* * *
1862852 ACGTTAGGATATATATTATTATTAAATTAAAAATAATAAAAATATATATTAC
907 ACGTTACG--ATATA-TATTATTAAATTAAAAACAATAAACATATATATTAC
1862904 ATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTC----TATT-TTTTATAAAATAT
1 ATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATAT
* *
1862964 CAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGAAAAACAT
66 CAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACAT
* *
1863029 GAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAATTATCGATCCTTTTT
131 AAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTT
1863094 ATAAAAAGTATGGACACTTTCAA
196 ATAAAAAGTATGGACACTTTCAA
1863117 CATATTATAA
Statistics
Matches: 2059, Mismatches: 42, Indels: 46
0.96 0.02 0.02
Matches are distributed among these distances:
948 80 0.04
949 89 0.04
950 22 0.01
951 269 0.13
952 224 0.11
953 134 0.07
954 229 0.11
955 25 0.01
956 164 0.08
957 394 0.19
958 279 0.14
959 150 0.07
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.40
Consensus pattern (955 bp):
ATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATAT
CAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACAT
AAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTT
ATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATA
ATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGTATATATCCTTTTTATAAAAG
TGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGAT
ATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACATTACGATATATATTATTAAATT
AAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAAT
TCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAA
ATTAATATTGTAGGTGGAAAACATAAAACACTATTAAAAAAATTGAAACATAAATTACATAACTT
TAAAAAAAGTGTCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAATATGA
TGTAATAGGTAGCGCTTATATAATGTAATAGGTATCTTTATATAATGTAATAGGTAGTTGTAAAG
TATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCATTGTGGAAAACATTAATTTAAGGTTAT
CTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGT
TACGATATATATTATTAAATTAAAAACAATAAACATATATATTAC
Found at i:1862688 original size:21 final size:23
Alignment explanation
Indices: 1862657--1862718 Score: 74
Period size: 21 Copynumber: 2.8 Consensus size: 23
1862647 ATAGGTAAAA
*
1862657 ATATGATGTAATAGGTAGC-GCT
1 ATATAATGTAATAGGTAGCAGCT
* **
1862679 -TATAATGTAATAGGTATCATTT
1 ATATAATGTAATAGGTAGCAGCT
1862701 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
1862719 TTGTAAAGTA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
21 16 0.48
22 1 0.03
23 16 0.48
ACGTcount: A:0.37, C:0.05, G:0.21, T:0.37
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCAGCT
Found at i:1863448 original size:25 final size:25
Alignment explanation
Indices: 1863420--1863502 Score: 60
Period size: 27 Copynumber: 3.2 Consensus size: 25
1863410 GATAAGTATA
1863420 CATTGTAAGGACAACAAATATCGAC
1 CATTGTAAGGACAACAAATATCGAC
* * * * * *
1863445 CATTTAGTTAGAAC-TCAAAGATAAGTATA
1 CA-TT-GTAAGGACAACAAATAT-CG-A-C
1863474 CATTGTAAGGACAACAAATATCGAC
1 CATTGTAAGGACAACAAATATCGAC
1863499 CATT
1 CATT
1863503 TAGTTAGATA
Statistics
Matches: 40, Mismatches: 12, Indels: 12
0.62 0.19 0.19
Matches are distributed among these distances:
25 6 0.15
26 9 0.22
27 14 0.35
28 9 0.22
29 2 0.05
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.25
Consensus pattern (25 bp):
CATTGTAAGGACAACAAATATCGAC
Found at i:1863484 original size:54 final size:55
Alignment explanation
Indices: 1863401--1863510 Score: 213
Period size: 54 Copynumber: 2.0 Consensus size: 55
1863391 TATACTTTTA
1863401 AACTCCAAAGATAAGTATACATTGTAAGGACAACAAATATCGACCATTTAGTTAG
1 AACTCCAAAGATAAGTATACATTGTAAGGACAACAAATATCGACCATTTAGTTAG
1863456 AACT-CAAAGATAAGTATACATTGTAAGGACAACAAATATCGACCATTTAGTTAG
1 AACTCCAAAGATAAGTATACATTGTAAGGACAACAAATATCGACCATTTAGTTAG
1863510 A
1 A
1863511 TAAGTAGAAG
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
54 51 0.93
55 4 0.07
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.25
Consensus pattern (55 bp):
AACTCCAAAGATAAGTATACATTGTAAGGACAACAAATATCGACCATTTAGTTAG
Found at i:1867261 original size:25 final size:25
Alignment explanation
Indices: 1867232--1867290 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
1867222 ACTTTTCAGA
* * *
1867232 ACTTTCTTATTTATTCTCATTTTCC
1 ACTTTCATATTCATTCTCATATTCC
*
1867257 ACTTTCATATTCATTGTCATATTCC
1 ACTTTCATATTCATTCTCATATTCC
1867282 A-TGTTCATA
1 ACT-TTCATA
1867291 ATAAATACTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 1 0.03
25 28 0.97
ACGTcount: A:0.22, C:0.22, G:0.03, T:0.53
Consensus pattern (25 bp):
ACTTTCATATTCATTCTCATATTCC
Found at i:1867339 original size:19 final size:20
Alignment explanation
Indices: 1867308--1867360 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 20
1867298 CTTTCACATT
*
1867308 TCAAAATTTATTTTCT-GAA
1 TCAAAACTTATTTTCTAGAA
* *
1867327 TCAGAACTTA-TTTCTAGAT
1 TCAAAACTTATTTTCTAGAA
1867346 TCAAAACTTATTTTC
1 TCAAAACTTATTTTC
1867361 AGACTCATAG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
18 5 0.18
19 19 0.68
20 4 0.14
ACGTcount: A:0.34, C:0.15, G:0.06, T:0.45
Consensus pattern (20 bp):
TCAAAACTTATTTTCTAGAA
Found at i:1867374 original size:19 final size:19
Alignment explanation
Indices: 1867352--1867428 Score: 93
Period size: 19 Copynumber: 4.1 Consensus size: 19
1867342 AGATTCAAAA
* *
1867352 CTTATTTTCAGACTCATAG
1 CTTATTTTCAAATTCATAG
* *
1867371 CTTACTGTT-AGATTCATAG
1 CTTA-TTTTCAAATTCATAG
*
1867390 CTTATTTTCAAATTCATAA
1 CTTATTTTCAAATTCATAG
1867409 CTTATTTTCAAATTCATAG
1 CTTATTTTCAAATTCATAG
1867428 C
1 C
1867429 CCAACGCATA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
18 3 0.06
19 44 0.88
20 3 0.06
ACGTcount: A:0.30, C:0.18, G:0.08, T:0.44
Consensus pattern (19 bp):
CTTATTTTCAAATTCATAG
Found at i:1868700 original size:14 final size:14
Alignment explanation
Indices: 1868681--1868709 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1868671 TTTTGATATT
1868681 ATATTAACATTATA
1 ATATTAACATTATA
1868695 ATATTAACATTATA
1 ATATTAACATTATA
1868709 A
1 A
1868710 AAACTGGAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (14 bp):
ATATTAACATTATA
Found at i:1869937 original size:16 final size:16
Alignment explanation
Indices: 1869886--1869938 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
1869876 ATAACTAATT
1869886 AATATCATTATAATAA
1 AATATCATTATAATAA
* *
1869902 AATAT-ACTA-AGATATT
1 AATATCATTATA-ATA-A
1869918 AATATCATTATAATAA
1 AATATCATTATAATAA
1869934 AATAT
1 AATAT
1869939 TTAGTAGTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
14 1 0.03
15 6 0.21
16 15 0.52
17 6 0.21
18 1 0.03
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.38
Consensus pattern (16 bp):
AATATCATTATAATAA
Found at i:1873314 original size:111 final size:113
Alignment explanation
Indices: 1873160--1873365 Score: 301
Period size: 111 Copynumber: 1.8 Consensus size: 113
1873150 TATACATAAA
* * * *
1873160 TAAGATATTTACTTATTTAGAAATATCAGAAAAGGACTCCTAGGTACTTTAAGACAGCTCTTCTC
1 TAAGATATTTACTTATTCAAAAACATCAGAAAAGGACTCCTAGGTACCTTAAGACAGCTCTTCTC
*
1873225 TTTGATATT-TAA-AAATAAATATCAAAAACATTTTATTTTAATATAG
66 TTTGATATTAAAATAAATAAATATCAAAAACATTTTATTTTAATATAG
* * *
1873271 TAAGATATTTATTTATTCAAAAACATCAGAAAA-GAGCTTCTAGGTACCTTAAGACAGCTCTTTT
1 TAAGATATTTACTTATTCAAAAACATCAGAAAAGGA-CTCCTAGGTACCTTAAGACAGCTCTTCT
1873335 CTTTGATATTGAAAATAAATAAATATCAAAA
65 CTTTGATATT-AAAATAAATAAATATCAAAA
1873366 TATGATTATT
Statistics
Matches: 83, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
110 2 0.02
111 64 0.77
113 2 0.02
114 15 0.18
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.36
Consensus pattern (113 bp):
TAAGATATTTACTTATTCAAAAACATCAGAAAAGGACTCCTAGGTACCTTAAGACAGCTCTTCTC
TTTGATATTAAAATAAATAAATATCAAAAACATTTTATTTTAATATAG
Found at i:1874923 original size:3 final size:3
Alignment explanation
Indices: 1874917--1874965 Score: 64
Period size: 3 Copynumber: 16.3 Consensus size: 3
1874907 ATAATATATT
**
1874917 TAA TAA TAA T-A TAA TATA TAA TAA TAA TAA TAA TAA TTT TAA TAA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
1874962 TAA T
1 TAA T
1874966 TTAAGTAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 35 0.88
4 3 0.08
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:1874925 original size:15 final size:18
Alignment explanation
Indices: 1874905--1874965 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 18
1874895 TTTGGGCTTG
1874905 TAATAATAT-AT-T-TAA
1 TAATAATATAATATATAA
1874920 TAATAATATAATATATAA
1 TAATAATATAATATATAA
*
1874938 TAATAATAATAATAATTTTAA
1 TAATAAT-ATAAT-A-TATAA
1874959 TAATAAT
1 TAATAAT
1874966 TTAAGTAAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
15 9 0.23
16 2 0.05
17 1 0.03
18 10 0.26
19 5 0.13
20 1 0.03
21 11 0.28
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TAATAATATAATATATAA
Found at i:1874933 original size:18 final size:19
Alignment explanation
Indices: 1874905--1874965 Score: 81
Period size: 18 Copynumber: 3.2 Consensus size: 19
1874895 TTTGGGCTTG
1874905 TAATAAT-ATATTTAATAA
1 TAATAATAATATTTAATAA
*
1874923 TAAT-ATAATATATAATAA
1 TAATAATAATATTTAATAA
1874941 TAATAATAATAATTTTAATAA
1 TAATAATAAT-A-TTTAATAA
1874962 TAAT
1 TAAT
1874966 TTAAGTAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
17 2 0.05
18 18 0.49
19 5 0.14
20 1 0.03
21 11 0.30
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
TAATAATAATATTTAATAA
Found at i:1875445 original size:75 final size:76
Alignment explanation
Indices: 1875187--1878068 Score: 4727
Period size: 76 Copynumber: 38.4 Consensus size: 76
1875177 GAGGTCTTAA
* *
1875187 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCTCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1875252 AGGCTTTTTGG
66 AGGCTTTTTGG
* * * * * * *
1875263 AAACATCATGCACTGCAAGACTAACAGATGACCCGAAGGCTTTGAAAACATTAAAAAGCCCCCAA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1875328 AGGCTTTTTTGG
66 AGGC-TTTTTGG
* * *
1875340 AAACATCATGCACTGCAAGACTTACAGATGA-CCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
*
1875404 TGGCTTTTTGG
66 AGGCTTTTTGG
* * *
1875415 AAACATCATGCACTGCAGGAATTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1875480 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
1875491 AAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
*
1875556 ATGC-TTTTGG
66 AGGCTTTTTGG
* * *
1875566 AAACATCATGCACTGCAGGACTTACAGAT-ACTCGAAGGC-TTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1875629 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
1875640 -AA-A-CATGCACTGCAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
*
1875702 AAGCTTTTTGG
66 AGGCTTTTTGG
* *
1875713 AAACATTATGCACTGTAGGACCTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1875778 AGGCTTTTTGG
66 AGGCTTTTTGG
1875789 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1875854 AGGC--TTTGG
66 AGGCTTTTTGG
* *
1875863 AAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGCTTTTGAAAACATC-AAAAGCTCCCG
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGC-TTTGAAAACATCAAAAAGCTCCCG
1875927 AAGGCTTTTTGG
65 AAGGCTTTTTGG
* *
1875939 AAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1876004 AGGCTTTTTGG
66 AGGCTTTTTGG
* * *
1876015 AAAACATCATGCACTGCAGGACTTACAGATGACCCGAAAGC-TTG-AAACATCAAAAAGCTCCCG
1 -AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCG
1876078 AAGGCTTTTTGG
65 AAGGCTTTTTGG
* * *
1876090 AAACATCATGCACTGCAGGACTTACATATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1876155 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
1876166 AAACATCATTCACTGTAGGACTTACAGATGATCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
* *
1876231 AGGCTTTTCGA
66 AGGCTTTTTGG
* * *
1876242 AAACATCATGCACTGTAAGAATTACAGATGACCGTAAGGCTTTGAAAAC-TCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1876306 AGGCTTTTTGG
66 AGGCTTTTTGG
1876317 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATC-AAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1876381 AGGCTTTTTTGG
66 AGGC-TTTTTGG
* *
1876393 AAACATCATGCACTGTAGGACTTATAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCTCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1876458 AGGC-TTTTGG
66 AGGCTTTTTGG
* *
1876468 ACACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAATCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1876533 AGGCTTTTTGG
66 AGGCTTTTTGG
* * *
1876544 AAACATCATGCACTATAGGACTTATAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1876609 AGGCTTTTTGG
66 AGGCTTTTTGG
1876620 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACCATC-AAAAGCTCCCG
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAA-CATCAAAAAGCTCCCG
1876684 AAGGCTTTTTGG
65 AAGGCTTTTTGG
1876696 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1876761 AGGCTTTTTGG
66 AGGCTTTTTGG
*
1876772 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAATCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1876837 AGGCTTTTTGG
66 AGGCTTTTTGG
*
1876848 AAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1876913 AGGCTTTTTGG
66 AGGCTTTTTGG
1876924 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1876989 AGGC-TTTTGG
66 AGGCTTTTTGG
*
1876999 AAACATCATGCACTGTA-GACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAACTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1877063 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
1877074 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAATATCAAAAAGCTCCAGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1877139 AGGCTTTTTGG
66 AGGCTTTTTGG
* * *
1877150 AAACATCATGCACTGCAGGACTTACAGATGACACGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1877215 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
1877226 AAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGC-TTG-AAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1877289 AGGCTTTTTGG
66 AGGCTTTTTGG
* * *
1877300 AAACATCATGCACTGCAGGA--TACAGATGACCCGAAGGC-TTGAAAACATC-AAAAGCTCCCAA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1877361 AGGCTTTTTGG
66 AGGCTTTTTGG
* * * *
1877372 AAACATCATGCACTGCAGGACTTACAGAAGACCCGAAGGCTTTGAAAACATCAAAAA--TTCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1877435 AGGC-TTTTGG
66 AGGCTTTTTGG
1877445 AAACATCATGCACTGTAGGACTTACAGATGA-CCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1877509 AGGCTTTTTGG
66 AGGCTTTTTGG
*
1877520 AAACATCATGCACTGTAGGACTTACATATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1877585 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
1877596 -AACATCATGCACTGTAGGACTTAC-GATGACCCGAAGTCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1877659 AGGCTTTTTGG
66 AGGCTTTTTGG
*
1877670 AAACATCATGCACTATA-GACTTACAGATGACCCTAAGGCTTT-AAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1877733 AGGCTTTTTGG
66 AGGCTTTTTGG
1877744 AAACATCATGCTA-TGTAGGACTTACAGATGACCCTAAGGCTTTG-AAACATC-AAAAGCTCCCG
1 AAACATCATGC-ACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCG
1877806 AAGGCTTTTTGG
65 AAGGCTTTTTGG
1877818 AAACATCATGCACTGTAGGACTTAC-GATGACCCTAAGGCTTTGAAAACATC-AAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1877881 AGGCTTTTTGG
66 AGGCTTTTTGG
1877892 AAACATCATGCACTGTAGGACTT--AGATGACCCTAAGGCTTTGAAAAACATCAAAAAGCTCCCG
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTG-AAAACATCAAAAAGCTCCCG
1877955 AAGGCTTTTTGG
65 AAGGCTTTTTGG
*
1877967 AAACA-CATGCACTGCAGGACTTACAGATGA-CCTAAGGCTTTG-AAACATC-AAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1878028 AGGCTTTTTGG
66 AGGCTTTTTGG
1878039 AAACATCATGCACTGCT-GGACTTACAGATG
1 AAACATCATGCACTG-TAGGACTTACAGATG
1878069 TGGGAAATAG
Statistics
Matches: 2664, Mismatches: 96, Indels: 95
0.93 0.03 0.03
Matches are distributed among these distances:
71 23 0.01
72 125 0.05
73 171 0.06
74 472 0.18
75 514 0.19
76 1264 0.47
77 95 0.04
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.23
Consensus pattern (76 bp):
AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGG
Found at i:1878339 original size:162 final size:166
Alignment explanation
Indices: 1878072--1878389 Score: 493
Period size: 162 Copynumber: 1.9 Consensus size: 166
1878062 ACAGATGTGG
*
1878072 GAAATAGTTTACTAAGTAAAAAAACTAAGGAAATCGTTTCTTACTTTTCAACAATTTCATTTTTA
1 GAAATAGTTTACTAAGTAAAAAAACTAAGAAAATCGTTTCTTACTTTTCAACAATTTCATTTTTA
**
1878137 GAAAAGATTGAATGAGAAACTAGGAAAATCGTTTTCTCA-T-TATTTTTCAAAAT-ACATGTTGA
66 GAAAAGATAAAATGAGAAACTAGGAAAATCGTTTTCTCATTCTATTTTTCAAAATAACATGTTGA
*
1878199 TTGGGTAAAATG-CCCCATCTCAAGAAAGGCTGTTA
131 TTGGGTAAAATGACCCAATCTCAAGAAAGGCTGTTA
1878234 GAAATAGTTTACTAAGTAAAAAAACTAAGAAAATCGTTTTCTTACTTTTCAACAATTTCA-TTTT
1 GAAATAGTTTACTAAGTAAAAAAACTAAGAAAATCG-TTTCTTACTTTTCAACAATTTCATTTTT
* * * **
1878298 AGAAAAGATAAAATGAGAAACTATGCAAATCGTTTTCTCATTCTGTTTTTTGAAATAACATGTTG
65 AGAAAAGATAAAATGAGAAACTAGGAAAATCGTTTTCTCATTCTATTTTTCAAAATAACATGTTG
* *
1878363 ATTGGGTAACATGACCCAATCTGAAGA
130 ATTGGGTAAAATGACCCAATCTCAAGA
1878390 TAATGCTCAT
Statistics
Matches: 140, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
162 75 0.54
163 24 0.17
164 10 0.07
165 20 0.14
166 11 0.08
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (166 bp):
GAAATAGTTTACTAAGTAAAAAAACTAAGAAAATCGTTTCTTACTTTTCAACAATTTCATTTTTA
GAAAAGATAAAATGAGAAACTAGGAAAATCGTTTTCTCATTCTATTTTTCAAAATAACATGTTGA
TTGGGTAAAATGACCCAATCTCAAGAAAGGCTGTTA
Found at i:1878939 original size:22 final size:22
Alignment explanation
Indices: 1878905--1878952 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
1878895 AATAAAGCTT
* *
1878905 TCATCTTTGAAAAGAGAATCTA
1 TCATATTTAAAAAGAGAATCTA
1878927 TCATATTTAAAAAGAGAATCTA
1 TCATATTTAAAAAGAGAATCTA
1878949 TCAT
1 TCAT
1878953 CTTTGAAGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.33
Consensus pattern (22 bp):
TCATATTTAAAAAGAGAATCTA
Found at i:1879411 original size:54 final size:54
Alignment explanation
Indices: 1879324--1879532 Score: 321
Period size: 54 Copynumber: 3.9 Consensus size: 54
1879314 AGAATAGCAG
* * * *
1879324 GTTCGTAAAACATTTGACAGCGCATTCATCCTTTCCTGTGGCTTT-TGCTAAAAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGG-TTTCTGTTAAGAT
* *
1879378 GTTCCTAAAACATTTGACAACACATTCATCCTTTCCTGTGGTTTCTGTTTAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGTTTCTGTTAAGAT
*
1879432 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGTTTCTGTTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGTTTCTGTTAAGAT
* *
1879486 GTTCGTAAAACATTTGACAACACATTCATCATTTCCTGTGGCTTCTG
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGTTTCTG
1879533 CCAAGATTTC
Statistics
Matches: 144, Mismatches: 10, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
53 3 0.02
54 141 0.98
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.38
Consensus pattern (54 bp):
GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGTTTCTGTTAAGAT
Found at i:1880503 original size:75 final size:73
Alignment explanation
Indices: 1880412--1880585 Score: 204
Period size: 74 Copynumber: 2.3 Consensus size: 73
1880402 CAAGAGGTTG
* *
1880412 TGGGCCTTCAGCATGCCCCAACATTGGCTAATACAAGTATTCAAAATGCATCAACAGTTCTGATT
1 TGGGCTTTCAGCATGCCCCAACATTGGCTAATA-AA-TATTCAAAATACATCAACAGTTCTGATT
1880477 CTGATTGAAA
64 CTGATTGAAA
* * * * * ** *
1880487 TGGGCTTTCAGCATGCCCCATCATTTTGCTGATAAATATTTAGAATATTTCAACATTTCTGATTC
1 TGGGCTTTCAGCATGCCCCAACA-TTGGCTAATAAATATTCAAAATACATCAACAGTTCTGATTC
1880552 TGATTGAAA
65 TGATTGAAA
* * *
1880561 AGGGTTTTTAGCATGCCCCAACATT
1 TGGGCTTTCAGCATGCCCCAACATT
1880586 TGCTTCTTGT
Statistics
Matches: 84, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
73 2 0.02
74 51 0.61
75 23 0.27
76 8 0.10
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (73 bp):
TGGGCTTTCAGCATGCCCCAACATTGGCTAATAAATATTCAAAATACATCAACAGTTCTGATTCT
GATTGAAA
Found at i:1881892 original size:114 final size:114
Alignment explanation
Indices: 1881692--1882031 Score: 482
Period size: 114 Copynumber: 3.0 Consensus size: 114
1881682 GATCATGCAG
* * * * * * * *
1881692 TTCATCTTTTAATTCCAATGATGGGTTCTGTGGTTCCTACCGAACCAGATCAGATGACTCAAAGA
1 TTCATCATTTAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
*
1881757 AAACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCAAA
* * * *
1881806 TTCATCCTTTAAATCCAATGATTGATTTTGGGGTTCATGCCAAATCAGATCAGATAACTCAAAGA
1 TTCATCATTTAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
* *
1881871 ACACTTCCAGAAGATGCTATTGGGTCTTCGTATTCCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCAAA
* *
1881920 TTCATCATTCAAATCCAATGATTGGTTTTGGGGTTCATATCAAACCAGATCAGATAACTCAAAGA
1 TTCATCATTTAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
* * * **
1881985 ACAATTCCAGAAGATGCTATTGGGTTTTATTAGCTCTACTATGAGCA
66 ACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCA
1882032 CATGGCACTT
Statistics
Matches: 199, Mismatches: 27, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
114 199 1.00
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.32
Consensus pattern (114 bp):
TTCATCATTTAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCAAA
Found at i:1884292 original size:16 final size:15
Alignment explanation
Indices: 1884270--1884316 Score: 51
Period size: 17 Copynumber: 3.0 Consensus size: 15
1884260 TTTTTTTCTA
1884270 TTTCTTTCCCTTTTT
1 TTTCTTTCCCTTTTT
1884285 TGTTCTTTTCCCTCTTTT
1 T-TTC-TTTCCCT-TTTT
*
1884303 TTT-TTTTCCTTTTT
1 TTTCTTTCCCTTTTT
1884317 GCTGGATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
14 4 0.14
15 7 0.25
16 3 0.11
17 9 0.32
18 5 0.18
ACGTcount: A:0.00, C:0.23, G:0.02, T:0.74
Consensus pattern (15 bp):
TTTCTTTCCCTTTTT
Found at i:1884326 original size:23 final size:24
Alignment explanation
Indices: 1884300--1884346 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
1884290 TTTTCCCTCT
*
1884300 TTTTTTTTTTCCTT-TTTGCTGGA
1 TTTTTTCTTTCCTTCTTTGCTGGA
*
1884323 -TTTTTCTTTCTTTCTTTGCTGGA
1 TTTTTTCTTTCCTTCTTTGCTGGA
1884346 T
1 T
1884347 GAGTATAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.04, C:0.15, G:0.13, T:0.68
Consensus pattern (24 bp):
TTTTTTCTTTCCTTCTTTGCTGGA
Found at i:1889624 original size:111 final size:113
Alignment explanation
Indices: 1889461--1889666 Score: 281
Period size: 111 Copynumber: 1.8 Consensus size: 113
1889451 TATACATAAA
* * * * * *
1889461 TAAGATATTTACTTATTTAGAAATATCAGAAAAGGGATTCTAGGTGCTTTAAGACAGCTCTTCTC
1 TAAGATATTTACTTATTCAAAAACATCAGAAAAGAGATTCTAGGTACCTTAAGACAGCTCTTCTC
*
1889526 TTTGATATT-TAA-AAATAAATATCAAAAACATTTTATTTTAATATAG
66 TTTGATATTAAAATAAATAAATATCAAAAACATTTTATTTTAATATAG
* * * * *
1889572 TAAGATATTTATTTATTCAAAAACATCAGAAAAGAGCTTTTAGTTACCTTAAGACAGCTCTTTTC
1 TAAGATATTTACTTATTCAAAAACATCAGAAAAGAGATTCTAGGTACCTTAAGACAGCTCTTCTC
1889637 TTTGATATTGAAAATAAATAAATATCAAAA
66 TTTGATATT-AAAATAAATAAATATCAAAA
1889667 TATGATTATT
Statistics
Matches: 80, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
111 63 0.79
113 2 0.03
114 15 0.19
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.37
Consensus pattern (113 bp):
TAAGATATTTACTTATTCAAAAACATCAGAAAAGAGATTCTAGGTACCTTAAGACAGCTCTTCTC
TTTGATATTAAAATAAATAAATATCAAAAACATTTTATTTTAATATAG
Found at i:1891212 original size:3 final size:3
Alignment explanation
Indices: 1891206--1891282 Score: 88
Period size: 3 Copynumber: 26.3 Consensus size: 3
1891196 ATAATATATT
* *
1891206 TAA TAA TAA T-A TAA T-A TATA TAA T-A TAA TAA TAA TAT TTA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
**
1891249 TAA TAA TAA TAA TAA TAA TTT TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1891283 TTAAGTAAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
2 6 0.10
3 53 0.85
4 3 0.05
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (3 bp):
TAA
Found at i:1891214 original size:15 final size:14
Alignment explanation
Indices: 1891194--1891286 Score: 94
Period size: 15 Copynumber: 7.0 Consensus size: 14
1891184 TTTGGGCTTG
1891194 TAATAATATATTTAA
1 TAATAATA-ATTTAA
1891209 TAATAAT-A--TAA
1 TAATAATAATTTAA
*
1891220 T-ATATATAATATAA
1 TAATA-ATAATTTAA
1891234 TAATAAT-ATTT-A
1 TAATAATAATTTAA
1891246 TAATAATAA--TAA
1 TAATAATAATTTAA
1891258 TAATAATAATTTTAA
1 TAATAATAA-TTTAA
1891273 TAATAATAATTTAA
1 TAATAATAATTTAA
1891287 GTAAAATGAA
Statistics
Matches: 67, Mismatches: 1, Indels: 21
0.75 0.01 0.24
Matches are distributed among these distances:
10 3 0.04
11 7 0.10
12 19 0.28
13 5 0.07
14 11 0.16
15 22 0.33
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TAATAATAATTTAA
Found at i:1891226 original size:9 final size:9
Alignment explanation
Indices: 1891196--1891259 Score: 58
Period size: 9 Copynumber: 6.7 Consensus size: 9
1891186 TGGGCTTGTA
1891196 ATAATATAT
1 ATAATATAT
*
1891205 TTAATAATAAT
1 ATAAT-AT-AT
1891216 ATAATATAT
1 ATAATATAT
1891225 ATAATATAAT
1 ATAATAT-AT
*
1891235 AATAATATTT
1 -ATAATATAT
1891245 ATAATA-AT
1 ATAATATAT
1891253 AATAATA
1 -ATAATA
1891260 ATAATAATTT
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
8 1 0.02
9 25 0.54
10 7 0.15
11 13 0.28
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
ATAATATAT
Found at i:1891278 original size:12 final size:12
Alignment explanation
Indices: 1891194--1891279 Score: 77
Period size: 12 Copynumber: 6.8 Consensus size: 12
1891184 TTTGGGCTTG
1891194 TAATAATATATT-
1 TAATAATA-ATTA
1891206 TAATAATAA-TA
1 TAATAATAATTA
1891217 TAATATATATAATATAA
1 T-A-ATA-ATAAT-T-A
*
1891234 TAATAATATTTA
1 TAATAATAATTA
*
1891246 TAATAATAATAA
1 TAATAATAATTA
*
1891258 TAATAATAATTT
1 TAATAATAATTA
1891270 TAATAATAAT
1 TAATAATAAT
1891280 AATTTAAGTA
Statistics
Matches: 62, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
10 1 0.02
11 2 0.03
12 40 0.65
13 4 0.06
14 8 0.13
15 3 0.05
16 2 0.03
17 2 0.03
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
TAATAATAATTA
Found at i:1893073 original size:85 final size:85
Alignment explanation
Indices: 1892805--1893078 Score: 343
Period size: 85 Copynumber: 3.2 Consensus size: 85
1892795 GATGACACAA
* * * * * * * *
1892805 AATCTTAACTATTCACATTATAATGTTCTCAGTCATATGTCACTTCAAATTAGAATTGGTACAAC
1 AATCTTAACTATTCACGTCATATTCTTTTCAATCATATGTCACTTCAAATCAGAATGGGTACAAC
*
1892870 AATAATTTCCA-TCGACAGAG
66 AATAATTTCCATTC-ATAGAG
* * * * * *
1892890 AATCTTAACTATTAACATCCTATTCTTTTTAGTCATATGCCACTTCAAATCAGAATGGGTACAAC
1 AATCTTAACTATTCACGTCATATTCTTTTCAATCATATGTCACTTCAAATCAGAATGGGTACAAC
*
1892955 ATTAATTTCCATTCATAGAG
66 AATAATTTCCATTCATAGAG
* * *
1892975 AATCTTAATTATTCACGTCATGTTCTTTTCAATCATACGTCACTTCAAATCAGAATGGGTACAAC
1 AATCTTAACTATTCACGTCATATTCTTTTCAATCATATGTCACTTCAAATCAGAATGGGTACAAC
*
1893040 AATAATTTCCATTCATATAG
66 AATAATTTCCATTCATAGAG
*
1893060 AATCTAAACTATTCACGTC
1 AATCTTAACTATTCACGTC
1893079 TTTATCATAT
Statistics
Matches: 163, Mismatches: 25, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
85 161 0.99
86 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.09, T:0.35
Consensus pattern (85 bp):
AATCTTAACTATTCACGTCATATTCTTTTCAATCATATGTCACTTCAAATCAGAATGGGTACAAC
AATAATTTCCATTCATAGAG
Found at i:1893996 original size:6 final size:6
Alignment explanation
Indices: 1893987--1894017 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
1893977 TTTTAATGTT
*
1893987 AATTTG AATTTG AAATTG AATTTG AATTTG A
1 AATTTG AATTTG AATTTG AATTTG AATTTG A
1894018 GCTCAAGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (6 bp):
AATTTG
Found at i:1893996 original size:18 final size:17
Alignment explanation
Indices: 1893945--1894015 Score: 52
Period size: 18 Copynumber: 4.0 Consensus size: 17
1893935 ATTGATTTTG
*
1893945 TAATTTAATTTTCAATTT
1 TAATTTAA-TTTGAATTT
* ***
1893963 TAATGTAATGAAAATTT
1 TAATTTAATTTGAATTT
1893980 TAATGTTAATTTGAATTT
1 TAAT-TTAATTTGAATTT
* *
1893998 GAAATTGAATTTGAATTT
1 -TAATTTAATTTGAATTT
1894016 GAGCTCAAGT
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
17 10 0.24
18 28 0.68
19 3 0.07
ACGTcount: A:0.38, C:0.01, G:0.10, T:0.51
Consensus pattern (17 bp):
TAATTTAATTTGAATTT
Found at i:1894958 original size:20 final size:20
Alignment explanation
Indices: 1894911--1894964 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 20
1894901 TCAATTATTT
* *
1894911 ATTAATTACAATTTACTTTA
1 ATTAATTACATTTTACTGTA
*
1894931 ATTCAATTTCATTTTACTGTA
1 ATT-AATTACATTTTACTGTA
1894952 ATTAATTACATTT
1 ATTAATTACATTT
1894965 GATAATAAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 12 0.41
21 17 0.59
ACGTcount: A:0.35, C:0.11, G:0.02, T:0.52
Consensus pattern (20 bp):
ATTAATTACATTTTACTGTA
Found at i:1897235 original size:28 final size:27
Alignment explanation
Indices: 1897191--1897244 Score: 90
Period size: 28 Copynumber: 2.0 Consensus size: 27
1897181 ATTTATTTAT
*
1897191 ATTATGCGTCGAGCCAGTGCTTGAAAC
1 ATTATGCGTCGAACCAGTGCTTGAAAC
1897218 ATTATGCCGTCGAACCAGTGCTTGAAA
1 ATTATG-CGTCGAACCAGTGCTTGAAA
1897245 GCAATGATGG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 6 0.24
28 19 0.76
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (27 bp):
ATTATGCGTCGAACCAGTGCTTGAAAC
Found at i:1898800 original size:13 final size:14
Alignment explanation
Indices: 1898771--1898830 Score: 63
Period size: 14 Copynumber: 4.4 Consensus size: 14
1898761 TTGATCCTCC
1898771 TTTTT-CTTTTCTAT
1 TTTTTCCTTTTCT-T
*
1898785 TTTGT-C-TTTCTT
1 TTTTTCCTTTTCTT
1898797 TTTTTCCTTTTCTT
1 TTTTTCCTTTTCTT
*
1898811 TTTGTCCTTTTTCTT
1 TTTTTCC-TTTTCTT
1898826 TTTTT
1 TTTTT
1898831 TCATTTAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
12 5 0.13
13 6 0.15
14 17 0.44
15 11 0.28
ACGTcount: A:0.02, C:0.17, G:0.03, T:0.78
Consensus pattern (14 bp):
TTTTTCCTTTTCTT
Found at i:1898813 original size:26 final size:28
Alignment explanation
Indices: 1898771--1898830 Score: 81
Period size: 26 Copynumber: 2.2 Consensus size: 28
1898761 TTGATCCTCC
1898771 TTTTTCTTTTCTATTTTGT-C-TTTCTT
1 TTTTTCTTTTCTATTTTGTCCTTTTCTT
1898797 TTTTTCCTTTTCT-TTTTGTCCTTTTTCTT
1 TTTTT-CTTTTCTATTTTGTCC-TTTTCTT
1898826 TTTTT
1 TTTTT
1898831 TCATTTAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
26 11 0.37
27 8 0.27
29 11 0.37
ACGTcount: A:0.02, C:0.17, G:0.03, T:0.78
Consensus pattern (28 bp):
TTTTTCTTTTCTATTTTGTCCTTTTCTT
Found at i:1898822 original size:15 final size:14
Alignment explanation
Indices: 1898776--1898828 Score: 65
Period size: 14 Copynumber: 3.8 Consensus size: 14
1898766 CCTCCTTTTT
1898776 CTTTTCTATTTTGT-
1 CTTTTCT-TTTTGTC
*
1898790 C-TTTCTTTTTTTC
1 CTTTTCTTTTTGTC
1898803 CTTTTCTTTTTGTC
1 CTTTTCTTTTTGTC
1898817 CTTTTTCTTTTT
1 C-TTTTCTTTTT
1898829 TTTCATTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
12 5 0.15
13 6 0.18
14 13 0.38
15 10 0.29
ACGTcount: A:0.02, C:0.19, G:0.04, T:0.75
Consensus pattern (14 bp):
CTTTTCTTTTTGTC
Found at i:1904238 original size:14 final size:14
Alignment explanation
Indices: 1904214--1904269 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
1904204 ATTGGTTTTA
*
1904214 TGGAAATTGAATTC
1 TGGAAAATGAATTC
*
1904228 TAGAAAATGAATTAC
1 TGGAAAATGAATT-C
**
1904243 TGGAATTTGAATTC
1 TGGAAAATGAATTC
*
1904257 TGGAAAATAAATT
1 TGGAAAATGAATT
1904270 ACATTTCTGG
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
14 22 0.67
15 11 0.33
ACGTcount: A:0.43, C:0.05, G:0.18, T:0.34
Consensus pattern (14 bp):
TGGAAAATGAATTC
Found at i:1904256 original size:29 final size:29
Alignment explanation
Indices: 1904214--1904271 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
1904204 ATTGGTTTTA
*
1904214 TGGAAATTGAATTCTAGAAAATGAATTAC
1 TGGAAATTGAATTCTAGAAAATAAATTAC
* *
1904243 TGGAATTTGAATTCTGGAAAATAAATTAC
1 TGGAAATTGAATTCTAGAAAATAAATTAC
1904272 ATTTCTGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.43, C:0.07, G:0.17, T:0.33
Consensus pattern (29 bp):
TGGAAATTGAATTCTAGAAAATAAATTAC
Found at i:1904296 original size:14 final size:14
Alignment explanation
Indices: 1904279--1904313 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
1904269 TACATTTCTG
*
1904279 GAAAATGTTTTCCA
1 GAAAATGTTTCCCA
1904293 GAAAATGTTTCCCA
1 GAAAATGTTTCCCA
*
1904307 TAAAATG
1 GAAAATG
1904314 AATTACATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.31
Consensus pattern (14 bp):
GAAAATGTTTCCCA
Found at i:1904580 original size:31 final size:29
Alignment explanation
Indices: 1904512--1904581 Score: 70
Period size: 31 Copynumber: 2.2 Consensus size: 29
1904502 AATATTATTT
*
1904512 TTATAATTTTATTAATAAAAATATTAATAT
1 TTAT-ATTTTATTAATAAAAATATTAATAA
1904542 TGGTATATTTTATTAAAATAAAAATATT-ATAAA
1 T--TATATTTTATT--AATAAAAATATTAAT-AA
1904575 TTATATT
1 TTATATT
1904582 AATTATTTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
30 1 0.03
31 14 0.41
32 5 0.15
33 14 0.41
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (29 bp):
TTATATTTTATTAATAAAAATATTAATAA
Found at i:1904660 original size:23 final size:22
Alignment explanation
Indices: 1904612--1904679 Score: 55
Period size: 23 Copynumber: 3.0 Consensus size: 22
1904602 GTGTTATATT
**
1904612 ATATTTTAAAATATTAATTAGT
1 ATATTTTAAAATATTAATTAAA
* *
1904634 ATATTTTAAATATCTTTATTAAA
1 ATATTTTAAA-ATATTAATTAAA
* *
1904657 ATATTATTAGATTATTATATTAA
1 ATATT-TTAAAATATTA-ATTAA
1904680 TATTAAATAT
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
22 10 0.29
23 16 0.46
24 9 0.26
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.51
Consensus pattern (22 bp):
ATATTTTAAAATATTAATTAAA
Found at i:1904875 original size:22 final size:22
Alignment explanation
Indices: 1904850--1904907 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 22
1904840 AATATAAAAA
1904850 TAATATTATATTATTAGAA-ATT
1 TAATATTATATTATTA-AATATT
* *
1904872 TAATAATATATTTTTAAATATT
1 TAATATTATATTATTAAATATT
1904894 TAATAATTAATATT
1 TAAT-ATT-ATATT
1904908 TTGATTAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 2 0.07
22 21 0.70
23 2 0.07
24 5 0.17
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
TAATATTATATTATTAAATATT
Found at i:1905162 original size:42 final size:42
Alignment explanation
Indices: 1905106--1905196 Score: 155
Period size: 42 Copynumber: 2.2 Consensus size: 42
1905096 TTCCTCCAAC
*
1905106 CAAACACTGGAAAACATTTTCCGGAAAACGAATTACGTGAAA
1 CAAACACGGGAAAACATTTTCCGGAAAACGAATTACGTGAAA
* *
1905148 CAAACACGGGAAAACATTTTCTGGAAAATGAATTACGTGAAA
1 CAAACACGGGAAAACATTTTCCGGAAAACGAATTACGTGAAA
1905190 CAAACAC
1 CAAACAC
1905197 ATAATTTCGG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.46, C:0.19, G:0.16, T:0.19
Consensus pattern (42 bp):
CAAACACGGGAAAACATTTTCCGGAAAACGAATTACGTGAAA
Found at i:1908122 original size:21 final size:22
Alignment explanation
Indices: 1908073--1908123 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 22
1908063 TCGAGGGTTT
*
1908073 TATGTGGTCCTTTGGAACAAACC
1 TATGTGGTCCTTCGGAACAAA-C
*
1908096 TATGTGGTCCTTCGGGACAAA-
1 TATGTGGTCCTTCGGAACAAAC
1908117 TATGTGG
1 TATGTGG
1908124 CACTTCGATG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 7 0.27
23 19 0.73
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (22 bp):
TATGTGGTCCTTCGGAACAAAC
Found at i:1916079 original size:34 final size:34
Alignment explanation
Indices: 1916041--1916109 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
1916031 CCACGGCAAG
1916041 AACCAATTTTAAACCAAATTCAACCAAAATTCCA
1 AACCAATTTTAAACCAAATTCAACCAAAATTCCA
1916075 AACCAATTTTAAACCAAATTCAACCAAAATTCCA
1 AACCAATTTTAAACCAAATTCAACCAAAATTCCA
1916109 A
1 A
1916110 CCATCTTCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (34 bp):
AACCAATTTTAAACCAAATTCAACCAAAATTCCA
Found at i:1916104 original size:11 final size:11
Alignment explanation
Indices: 1916052--1916112 Score: 54
Period size: 11 Copynumber: 5.5 Consensus size: 11
1916042 ACCAATTTTA
1916052 AACC-AAATTC
1 AACCAAAATTC
1916062 AACCAAAATTCC
1 AACCAAAATT-C
** *
1916074 AAACCAATTTTA
1 -AACCAAAATTC
1916086 AACC-AAATTC
1 AACCAAAATTC
1916096 AACCAAAATTCC
1 AACCAAAATT-C
1916108 AACCA
1 AACCA
1916113 TCTTCATCTT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
10 11 0.28
11 14 0.35
12 7 0.17
13 8 0.20
ACGTcount: A:0.51, C:0.30, G:0.00, T:0.20
Consensus pattern (11 bp):
AACCAAAATTC
Found at i:1920539 original size:20 final size:20
Alignment explanation
Indices: 1920513--1920564 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
1920503 TGATTCAATC
*
1920513 GGTATCGATACCGAATGGGGA
1 GGTATCGATACCGAA-GGGAA
* *
1920534 -GTATCGGTACTGAAGGGAA
1 GGTATCGATACCGAAGGGAA
1920553 GGTATCGATACC
1 GGTATCGATACC
1920565 ATTTAAAAAC
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.29, C:0.15, G:0.35, T:0.21
Consensus pattern (20 bp):
GGTATCGATACCGAAGGGAA
Found at i:1921117 original size:45 final size:45
Alignment explanation
Indices: 1921059--1921434 Score: 492
Period size: 45 Copynumber: 8.3 Consensus size: 45
1921049 ATAAAAATAA
* * * *
1921059 ATATGGGTGCATTATCGACATGAAAGGATGCCATAGTTGAAATAC
1 ATATGGGTGCATTATCAACATGAAAGTATGCTATAGTTGAAATGC
*
1921104 ATATGGGTGCATTATCAACATAAAAGTATGCTATAGTTGAAATGC
1 ATATGGGTGCATTATCAACATGAAAGTATGCTATAGTTGAAATGC
*
1921149 ATATGGGTGCATTATCAACA-GAAAAGTATGCTATAGTTGAAATAC
1 ATATGGGTGCATTATCAACATG-AAAGTATGCTATAGTTGAAATGC
* *
1921194 ATATGGGTGCATTATCAACA-GAAAAGTATGCTACAATTGAAATGC
1 ATATGGGTGCATTATCAACATG-AAAGTATGCTATAGTTGAAATGC
**
1921239 ATATGGGTGCATTATCAACAAAAAAGTATGCTATAGTTGAAATGC
1 ATATGGGTGCATTATCAACATGAAAGTATGCTATAGTTGAAATGC
* * *
1921284 ATATGGGTGCATTATCAATAT-AAGAGTATGTTATAGTTGAAATGT
1 ATATGGGTGCATTATCAACATGAA-AGTATGCTATAGTTGAAATGC
* * *
1921329 ATATGGGTGCATTATCAATA-GAAAAGTTTGTTATAGTTGAAATGC
1 ATATGGGTGCATTATCAACATG-AAAGTATGCTATAGTTGAAATGC
* * *
1921374 ATATGGGTGCATTATCAACATAAAAGTATGATGTAGTTGAAAATGC
1 ATATGGGTGCATTATCAACATGAAAGTATGCTATAGTTG-AAATGC
1921420 ATAAT-GGTGCATTAT
1 AT-ATGGGTGCATTAT
1921435 AAATAGGAAT
Statistics
Matches: 299, Mismatches: 24, Indels: 15
0.88 0.07 0.04
Matches are distributed among these distances:
44 2 0.01
45 275 0.92
46 20 0.07
47 2 0.01
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (45 bp):
ATATGGGTGCATTATCAACATGAAAGTATGCTATAGTTGAAATGC
Found at i:1921193 original size:90 final size:90
Alignment explanation
Indices: 1921059--1921434 Score: 549
Period size: 90 Copynumber: 4.2 Consensus size: 90
1921049 ATAAAAATAA
* * *
1921059 ATATGGGTGCATTATCGACATG-AAAGGATGCCATAGTTGAAATACATATGGGTGCATTATCAAC
1 ATATGGGTGCATTATCAACA-GAAAAGTATGCTATAGTTGAAATACATATGGGTGCATTATCAAC
1921123 ATAAAAGTATGCTATAGTTGAAATGC
65 ATAAAAGTATGCTATAGTTGAAATGC
1921149 ATATGGGTGCATTATCAACAGAAAAGTATGCTATAGTTGAAATACATATGGGTGCATTATCAACA
1 ATATGGGTGCATTATCAACAGAAAAGTATGCTATAGTTGAAATACATATGGGTGCATTATCAACA
* * *
1921214 GAAAAGTATGCTACAATTGAAATGC
66 TAAAAGTATGCTATAGTTGAAATGC
* * *
1921239 ATATGGGTGCATTATCAACAAAAAAGTATGCTATAGTTGAAATGCATATGGGTGCATTATCAATA
1 ATATGGGTGCATTATCAACAGAAAAGTATGCTATAGTTGAAATACATATGGGTGCATTATCAACA
* * *
1921304 TAAGAGTATGTTATAGTTGAAATGT
66 TAAAAGTATGCTATAGTTGAAATGC
* * * *
1921329 ATATGGGTGCATTATCAATAGAAAAGTTTGTTATAGTTGAAATGCATATGGGTGCATTATCAACA
1 ATATGGGTGCATTATCAACAGAAAAGTATGCTATAGTTGAAATACATATGGGTGCATTATCAACA
* *
1921394 TAAAAGTATGATGTAGTTGAAAATGC
66 TAAAAGTATGCTATAGTTG-AAATGC
1921420 ATAAT-GGTGCATTAT
1 AT-ATGGGTGCATTAT
1921435 AAATAGGAAT
Statistics
Matches: 259, Mismatches: 24, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
89 1 0.00
90 239 0.92
91 17 0.07
92 2 0.01
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (90 bp):
ATATGGGTGCATTATCAACAGAAAAGTATGCTATAGTTGAAATACATATGGGTGCATTATCAACA
TAAAAGTATGCTATAGTTGAAATGC
Found at i:1921278 original size:135 final size:135
Alignment explanation
Indices: 1921053--1921434 Score: 552
Period size: 135 Copynumber: 2.8 Consensus size: 135
1921043 ATGAAAATAA
* * * *
1921053 AAATAAATATGGGTGCATTATCGACATG-AAAGGATGCCATAGTTGAAATACATATGGGTGCATT
1 AAATAAATATGGGTGCATTATCAACA-GAAAAGTATGCTATAGTTGAAATGCATATGGGTGCATT
1921117 ATCAACATAAAAGTATGCTATAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATGCTA
65 ATCAACATAAAAGTATGCTATAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATGCTA
1921182 TAGTTG
130 TAGTTG
* * *
1921188 AAATACATATGGGTGCATTATCAACAGAAAAGTATGCTACAATTGAAATGCATATGGGTGCATTA
1 AAATAAATATGGGTGCATTATCAACAGAAAAGTATGCTATAGTTGAAATGCATATGGGTGCATTA
* * * * *
1921253 TCAACAAAAAAGTATGCTATAGTTGAAATGCATATGGGTGCATTATCAATATAAGAGTATGTTAT
66 TCAACATAAAAGTATGCTATAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATGCTAT
1921318 AGTTG
131 AGTTG
** * * *
1921323 AAATGTATATGGGTGCATTATCAATAGAAAAGTTTGTTATAGTTGAAATGCATATGGGTGCATTA
1 AAATAAATATGGGTGCATTATCAACAGAAAAGTATGCTATAGTTGAAATGCATATGGGTGCATTA
* *
1921388 TCAACATAAAAGTATGATGTAGTTGAAAATGCATAAT-GGTGCATTAT
66 TCAACATAAAAGTATGCTATAGTTG-AAATGCAT-ATGGGTGCATTAT
1921435 AAATAGGAAT
Statistics
Matches: 222, Mismatches: 22, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
134 1 0.00
135 201 0.91
136 18 0.08
137 2 0.01
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (135 bp):
AAATAAATATGGGTGCATTATCAACAGAAAAGTATGCTATAGTTGAAATGCATATGGGTGCATTA
TCAACATAAAAGTATGCTATAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATGCTAT
AGTTG
Found at i:1928011 original size:44 final size:45
Alignment explanation
Indices: 1927947--1928234 Score: 231
Period size: 45 Copynumber: 6.4 Consensus size: 45
1927937 ATAAAAATAA
* *
1927947 AAATGCATATGGGTGCATTACCGGCAGGAAAGGATGTCGTAGTTG
1 AAATGCATATGGGTGCATTACCGGCAGGAAAGGATGCCATAGTTG
*
1927992 AAATGCATA-GGGTGCATTACCGGCATGAAAGGATGCCATAGTTG
1 AAATGCATATGGGTGCATTACCGGCAGGAAAGGATGCCATAGTTG
* ** ** * *
1928036 AAATGCATATGGGT--ATATATTCAACAAAAAAGTATGCTATAGTTG
1 AAATGCATATGGGTGCAT-TA-CCGGCAGGAAAGGATGCCATAGTTG
* * *** * * **
1928081 AAATGCATATGGGTGTATTATCAATAGAAAAGTATGTTATAGTTG
1 AAATGCATATGGGTGCATTACCGGCAGGAAAGGATGCCATAGTTG
* ** * ** *
1928126 AAATGCATATGGGTGCATTATCAACAGAAAAATATGCTATAGTTG
1 AAATGCATATGGGTGCATTACCGGCAGGAAAGGATGCCATAGTTG
* ** * ** **
1928171 AAATGCATATGGGTGCATTATCAACAGAAAAATATGTTATAGTTG
1 AAATGCATATGGGTGCATTACCGGCAGGAAAGGATGCCATAGTTG
1928216 AAATGCATATGGGTGCATT
1 AAATGCATATGGGTGCATT
1928235 TTTTATAGTT
Statistics
Matches: 220, Mismatches: 18, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
43 2 0.01
44 43 0.20
45 171 0.78
46 2 0.01
47 2 0.01
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.29
Consensus pattern (45 bp):
AAATGCATATGGGTGCATTACCGGCAGGAAAGGATGCCATAGTTG
Found at i:1928093 original size:45 final size:45
Alignment explanation
Indices: 1927986--1928234 Score: 289
Period size: 45 Copynumber: 5.5 Consensus size: 45
1927976 AAGGATGTCG
* ** * *
1927986 TAGTTGAAATGCATA-GGGTGCATTACCGGCATG--AAAGGATGCCA
1 TAGTTGAAATGCATATGGGT-CATTATCAACA-GAAAAAGTATGCTA
1928030 TAGTTGAAATGCATATGGGT-ATATATTCAACA-AAAAAGTATGCTA
1 TAGTTGAAATGCATATGGGTCAT-TA-TCAACAGAAAAAGTATGCTA
* * *
1928075 TAGTTGAAATGCATATGGGTGTATTATCAATAG-AAAAGTATGTTA
1 TAGTTGAAATGCATATGGGT-CATTATCAACAGAAAAAGTATGCTA
1928120 TAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAA-TATGCTA
1 TAGTTGAAATGCATATGGGT-CATTATCAACAGAAAAAGTATGCTA
*
1928165 TAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAA-TATGTTA
1 TAGTTGAAATGCATATGGGT-CATTATCAACAGAAAAAGTATGCTA
1928210 TAGTTGAAATGCATATGGGTGCATT
1 TAGTTGAAATGCATATGGGT-CATT
1928235 TTTTATAGTT
Statistics
Matches: 185, Mismatches: 11, Indels: 17
0.87 0.05 0.08
Matches are distributed among these distances:
43 2 0.01
44 17 0.09
45 158 0.85
46 6 0.03
47 2 0.01
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.31
Consensus pattern (45 bp):
TAGTTGAAATGCATATGGGTCATTATCAACAGAAAAAGTATGCTA
Found at i:1928138 original size:90 final size:89
Alignment explanation
Indices: 1927986--1928234 Score: 326
Period size: 90 Copynumber: 2.8 Consensus size: 89
1927976 AAGGATGTCG
* ** ** **
1927986 TAGTTGAAATGCATA-GGGTGCATTACCGGCATG-AAAGGATGCCATAGTTGAAATGCATATGGG
1 TAGTTGAAATGCATATGGGTGCATTATCAACA-GAAAAATATGTTATAGTTGAAATGCATATGGG
1928049 T-ATATATTCAACA-AAAAAGTATGCTA
65 TCAT-TA-TCAACAGAAAAA-TATGCTA
* * *
1928075 TAGTTGAAATGCATATGGGTGTATTATCAATAGAAAAGTATGTTATAGTTGAAATGCATATGGGT
1 TAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAATATGTTATAGTTGAAATGCATATGGGT
1928140 GCATTATCAACAGAAAAATATGCTA
66 -CATTATCAACAGAAAAATATGCTA
1928165 TAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAATATGTTATAGTTGAAATGCATATGGGT
1 TAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAATATGTTATAGTTGAAATGCATATGGGT
1928230 GCATT
66 -CATT
1928235 TTTTATAGTT
Statistics
Matches: 144, Mismatches: 11, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
89 16 0.11
90 119 0.83
91 7 0.05
92 2 0.01
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.31
Consensus pattern (89 bp):
TAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAATATGTTATAGTTGAAATGCATATGGGT
CATTATCAACAGAAAAATATGCTA
Found at i:1928195 original size:135 final size:134
Alignment explanation
Indices: 1927986--1928230 Score: 354
Period size: 135 Copynumber: 1.8 Consensus size: 134
1927976 AAGGATGTCG
** *
1927986 TAGTTGAAATGCATAGGGTGCATTACCGGCATGAAAGGATGCCATAGTTGAAATGCATATGGGTA
1 TAGTTGAAATGCATAGGGTGCATTACCAACATGAAAAGATGCCATAGTTGAAATGCATATGGGTA
1928051 TATATTCAACA-AAAAAGTATGCTATAGTTGAAATGCATATGGGTGTATTATCAATAGAAAAGTA
66 TATATTCAACAGAAAAA-TATGCTATAGTTGAAATGCATATGGGTGTATTATCAATAGAAAAGTA
1928115 TGTTA
130 TGTTA
* * *
1928120 TAGTTGAAATGCATATGGGTGCATTATCAACA-GAAAAATATGCTATAGTTGAAATGCATATGGG
1 TAGTTGAAATGCATA-GGGTGCATTACCAACATG-AAAAGATGCCATAGTTGAAATGCATATGGG
*
1928184 TGCAT-TA-TCAACAGAAAAATATGTTATAGTTGAAATGCATATGGGTG
64 T--ATATATTCAACAGAAAAATATGCTATAGTTGAAATGCATATGGGTG
1928231 CATTTTTTAT
Statistics
Matches: 99, Mismatches: 7, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
134 16 0.16
135 74 0.75
136 7 0.07
137 2 0.02
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.30
Consensus pattern (134 bp):
TAGTTGAAATGCATAGGGTGCATTACCAACATGAAAAGATGCCATAGTTGAAATGCATATGGGTA
TATATTCAACAGAAAAATATGCTATAGTTGAAATGCATATGGGTGTATTATCAATAGAAAAGTAT
GTTA
Found at i:1928243 original size:30 final size:30
Alignment explanation
Indices: 1928207--1928264 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
1928197 GAAAAATATG
1928207 TTATAGTTGAAATGCATATGGGTGCATTTT
1 TTATAGTTGAAATGCATATGGGTGCATTTT
1928237 TTATAGTTGAAATGCATATGGGTGCATT
1 TTATAGTTGAAATGCATATGGGTGCATT
1928265 ATCAACATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.41
Consensus pattern (30 bp):
TTATAGTTGAAATGCATATGGGTGCATTTT
Found at i:1929725 original size:22 final size:22
Alignment explanation
Indices: 1929700--1929741 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
1929690 ATCGAAGTGG
1929700 GTATCGATACCATAGAAGGGAA
1 GTATCGATACCATAGAAGGGAA
* * *
1929722 GTATCGGTACTATAGGAGGG
1 GTATCGATACCATAGAAGGG
1929742 GTACCAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.33, C:0.12, G:0.33, T:0.21
Consensus pattern (22 bp):
GTATCGATACCATAGAAGGGAA
Found at i:1930216 original size:25 final size:25
Alignment explanation
Indices: 1930182--1930236 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 25
1930172 TGCTCTGATC
1930182 TATTT-TGTAAACTTA-TAC-TTTTT
1 TATTTATGTAAA-TTATTACGTTTTT
1930205 GTATTTATGTAAATTATTACGTTTTT
1 -TATTTATGTAAATTATTACGTTTTT
1930231 TATTTA
1 TATTTA
1930237 ACTAAGAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
24 8 0.29
25 15 0.54
26 5 0.18
ACGTcount: A:0.27, C:0.05, G:0.07, T:0.60
Consensus pattern (25 bp):
TATTTATGTAAATTATTACGTTTTT
Found at i:1933102 original size:21 final size:21
Alignment explanation
Indices: 1933067--1933107 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1933057 CTGAAGAAAC
*
1933067 ATCCCCAAACAGCTAGAAATA
1 ATCCCCAAACAGCTAAAAATA
**
1933088 ATCCCCAAATGGCTAAAAAT
1 ATCCCCAAACAGCTAAAAAT
1933108 GACCACAACC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.46, C:0.27, G:0.10, T:0.17
Consensus pattern (21 bp):
ATCCCCAAACAGCTAAAAATA
Found at i:1934257 original size:18 final size:19
Alignment explanation
Indices: 1934218--1934258 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
1934208 TGAAAATGAT
*
1934218 TTGATTTTGAAAGCTAAAA
1 TTGATTTTGAAAGATAAAA
*
1934237 TTGATTTTGAAA-ATCAAA
1 TTGATTTTGAAAGATAAAA
1934255 TTGA
1 TTGA
1934259 AACTTTGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.41, C:0.05, G:0.15, T:0.39
Consensus pattern (19 bp):
TTGATTTTGAAAGATAAAA
Found at i:1935583 original size:38 final size:38
Alignment explanation
Indices: 1935532--1935611 Score: 151
Period size: 38 Copynumber: 2.1 Consensus size: 38
1935522 AAAGTTTTCA
1935532 AAAATAATTCAAAGTCCATTAACCTTGAATTTGAGCAT
1 AAAATAATTCAAAGTCCATTAACCTTGAATTTGAGCAT
*
1935570 AAAATAATTCAAAGTCCATTAACCTTGAATTTGTGCAT
1 AAAATAATTCAAAGTCCATTAACCTTGAATTTGAGCAT
1935608 AAAA
1 AAAA
1935612 ATAGTTTTTC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (38 bp):
AAAATAATTCAAAGTCCATTAACCTTGAATTTGAGCAT
Found at i:1936906 original size:30 final size:32
Alignment explanation
Indices: 1936835--1936917 Score: 125
Period size: 33 Copynumber: 2.6 Consensus size: 32
1936825 ACATGGCATC
1936835 TATTAATAACTCAAATTTATTTTATTAATATGT
1 TATTAATAACTCAAATTTATTTTATTAATA-GT
*
1936868 TATTAATAACTCAATTTTATTTTATTAATA-T
1 TATTAATAACTCAAATTTATTTTATTAATAGT
1936899 T-TTAATAACTCAAAGTTTA
1 TATTAATAACTCAAA-TTTA
1936918 AATTACTTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
30 12 0.26
31 6 0.13
33 29 0.62
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.51
Consensus pattern (32 bp):
TATTAATAACTCAAATTTATTTTATTAATAGT
Found at i:1938808 original size:30 final size:30
Alignment explanation
Indices: 1938769--1938834 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
1938759 AACCCATGAT
* * * * *
1938769 TTTTCCAAAATTTTCTATATGGTCCCCCAAC
1 TTTTCAAAAATTATC-AAATGGTCCCCAAAA
1938800 TTTTCAAAAATTATCAAATGGTCCCCAAAA
1 TTTTCAAAAATTATCAAATGGTCCCCAAAA
1938830 TTTTC
1 TTTTC
1938835 TAAGGCTTGT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 17 0.57
31 13 0.43
ACGTcount: A:0.32, C:0.24, G:0.06, T:0.38
Consensus pattern (30 bp):
TTTTCAAAAATTATCAAATGGTCCCCAAAA
Found at i:1951569 original size:36 final size:36
Alignment explanation
Indices: 1951493--1951630 Score: 224
Period size: 36 Copynumber: 3.9 Consensus size: 36
1951483 AGTGGAGTAT
* *
1951493 TATCAGCTTTGATACATTCGTGTATCAGT-TTATCA
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
1951528 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
**
1951564 TATCAGCTTTGGTACATTTATGTATCAATGTTATCA
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
*
1951600 TATCATCTTTGGTACATTCGTGTATCAATGT
1 TATCAGCTTTGGTACATTCGTGTATCAATGT
1951631 CTAGCACCGT
Statistics
Matches: 95, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
35 27 0.28
36 68 0.72
ACGTcount: A:0.25, C:0.16, G:0.15, T:0.43
Consensus pattern (36 bp):
TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
Found at i:1952829 original size:3 final size:3
Alignment explanation
Indices: 1952760--1952817 Score: 86
Period size: 3 Copynumber: 20.3 Consensus size: 3
1952750 ATTTTTAAAA
*
1952760 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-T ATT ATT A-A ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1952806 ATT A-T ATT ATT A
1 ATT ATT ATT ATT A
1952818 AATAAATTAT
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
2 5 0.10
3 45 0.90
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:1954242 original size:14 final size:13
Alignment explanation
Indices: 1954217--1954256 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
1954207 AATTGTTTAG
1954217 TTATATTTTAATT
1 TTATATTTTAATT
1954230 TTATATGTTTAATT
1 TTATAT-TTTAATT
**
1954244 CAATATTTTAATT
1 TTATATTTTAATT
1954257 ATGATTATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (13 bp):
TTATATTTTAATT
Found at i:1954606 original size:142 final size:140
Alignment explanation
Indices: 1954317--1954703 Score: 392
Period size: 140 Copynumber: 2.8 Consensus size: 140
1954307 TATAAGTTAA
* * *
1954317 TAATATTTATTTATTTTTAAAATATTAAGAAAATGCAGTCTTAAAGCAACTAGATGTCATATTCT
1 TAATATTTATTTATTTTT-TAATATTAAGAAAAGGCAGTCTTAAAGCAACTAGATGTCATTTTCT
* * * *
1954382 GGTA-TTTTAAAGAATAATAAATATCATGCTTATAAAAAATATATACATTTGCTTTAATTTTATA
65 GATATTTTTAAA-TA-AATAAATATCATACTTATAAAAAATATATACATTTGCTTTAATTTTAGA
* *
1954446 TAAATCATTTTTT
128 GAAATCATTTTAT
* *
1954459 TAATATTTATTTATTTTTTAATATTAAGAAAAGGAAGTCTAAAAGCAACTAGATGTCATTTTCTG
1 TAATATTTATTTATTTTTTAATATTAAGAAAAGGCAGTCTTAAAGCAACTAGATGTCATTTTCTG
* * * ** * ** *
1954524 ATATTTTTAAATAAATTAATTTCATACTTTTATATTAATTTAATTTATTTTG-TATTATTTTTAG
66 ATATTTTTAAATAAATAAATATCATACTTATA-AAAAATAT-ATACA-TTTGCT-TTAATTTTAG
1954588 AGAAAT-ATTTTAT
127 AGAAATCATTTTAT
* * * * *
1954601 TAATATTTA-TT-TTTTTTAATATTAAGAAAGGGCTGTCTTAAAGCAGC-AGAAGTCATTCTCTG
1 TAATATTTATTTATTTTTTAATATTAAGAAAAGGCAGTCTTAAAGCAACTAGATGTCATTTTCTG
* * * *
1954663 ATATTTCTAAATAAAATAAATGTCTTATTTAT-AAAAATATA
66 ATATTTTTAAAT-AAATAAATATCATACTTATAAAAAATATA
1954704 AAAATATTTA
Statistics
Matches: 203, Mismatches: 36, Indels: 17
0.79 0.14 0.07
Matches are distributed among these distances:
137 1 0.00
138 5 0.02
139 24 0.12
140 60 0.30
141 52 0.26
142 44 0.22
143 17 0.08
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.45
Consensus pattern (140 bp):
TAATATTTATTTATTTTTTAATATTAAGAAAAGGCAGTCTTAAAGCAACTAGATGTCATTTTCTG
ATATTTTTAAATAAATAAATATCATACTTATAAAAAATATATACATTTGCTTTAATTTTAGAGAA
ATCATTTTAT
Found at i:1954729 original size:20 final size:22
Alignment explanation
Indices: 1954664--1954734 Score: 63
Period size: 24 Copynumber: 3.0 Consensus size: 22
1954654 CATTCTCTGA
* * *
1954664 TATTTCTAAATAAAATAAATGTCT
1 TATTTATAAA-AATATAAATAT-T
1954688 TATTTATAAAAATATAAAAATATT
1 TATTTATAAAAATAT--AAATATT
1954712 TATTTATAAAAAT-TAATATATT
1 TATTTATAAAAATATAA-ATATT
1954734 T
1 T
1954735 TCTAATAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
21 2 0.05
22 6 0.15
23 5 0.12
24 23 0.56
25 5 0.12
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (22 bp):
TATTTATAAAAATATAAATATT
Found at i:1956387 original size:8 final size:7
Alignment explanation
Indices: 1956370--1956415 Score: 51
Period size: 7 Copynumber: 6.4 Consensus size: 7
1956360 TGTATTTACA
1956370 TTTTCAT
1 TTTTCAT
1956377 TTTTGCA-
1 TTTT-CAT
1956384 TTTTCAT
1 TTTTCAT
1956391 TTTTGCA-
1 TTTT-CAT
1956398 TTTTCAT
1 TTTTCAT
1956405 TTTTGCAT
1 TTTT-CAT
1956413 TTT
1 TTT
1956416 CATCTTTGCA
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
6 4 0.12
7 20 0.59
8 10 0.29
ACGTcount: A:0.13, C:0.13, G:0.07, T:0.67
Consensus pattern (7 bp):
TTTTCAT
Found at i:1956387 original size:14 final size:14
Alignment explanation
Indices: 1956368--1956426 Score: 109
Period size: 14 Copynumber: 4.2 Consensus size: 14
1956358 TTTGTATTTA
1956368 CATTTTCATTTTTG
1 CATTTTCATTTTTG
1956382 CATTTTCATTTTTG
1 CATTTTCATTTTTG
1956396 CATTTTCATTTTTG
1 CATTTTCATTTTTG
*
1956410 CATTTTCATCTTTG
1 CATTTTCATTTTTG
1956424 CAT
1 CAT
1956427 AATTACATTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
14 44 1.00
ACGTcount: A:0.15, C:0.17, G:0.07, T:0.61
Consensus pattern (14 bp):
CATTTTCATTTTTG
Found at i:1962383 original size:75 final size:75
Alignment explanation
Indices: 1962233--1962411 Score: 223
Period size: 75 Copynumber: 2.4 Consensus size: 75
1962223 ATTAACAAGA
* * *
1962233 AGCAAATGATGGAGCATGCTGAAAGACCATTTCAATCATAATCAGGAATATTGACACATTTTGAA
1 AGCAAATGTTGGGGCATGCTGAAAGACCATTTCAATCAGAATCAGGAATATTGACACATTTTGAA
*
1962298 TGTTTATATT
66 CGTTTATATT
* * * * * ***
1962308 AGCCAATGTTGGGGCATACTGAAAGCCCCTTTCAATCAGAATCAGGAATGTTGATGTATTTTGAA
1 AGCAAATGTTGGGGCATGCTGAAAGACCATTTCAATCAGAATCAGGAATATTGACACATTTTGAA
*
1962373 CGTTTGTATT
66 CGTTTATATT
* *
1962383 AGCAAATGTTGGGTCATGCTGAAGGACCA
1 AGCAAATGTTGGGGCATGCTGAAAGACCA
1962412 CATCATCATG
Statistics
Matches: 85, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
75 85 1.00
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (75 bp):
AGCAAATGTTGGGGCATGCTGAAAGACCATTTCAATCAGAATCAGGAATATTGACACATTTTGAA
CGTTTATATT
Found at i:1963352 original size:54 final size:54
Alignment explanation
Indices: 1963263--1963518 Score: 327
Period size: 54 Copynumber: 4.8 Consensus size: 54
1963253 TATGCAGAAA
* * *
1963263 CCACAGAAAAGGATGAATGT-TTGTCAAATATTTTACGAACATCTGTGCAAAAG
1 CCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGGGCAAAAG
* * * *
1963316 CCACAAGAAAGGATGAATGTGTTTTCAAATGCTTTACGAACATCTGGGCAGAAG
1 CCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGGGCAAAAG
* * *
1963370 GCACAGGAAAGGATGAATGTGTTGTCAAATGCTTTACGAACATCTGGGCAGAAG
1 CCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGGGCAAAAG
* * * *
1963424 CCACAGGAAAGAATGAATGTGTTTTCAAATGTTTTACGAACATCTGAG-AAGAAA
1 CCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGGGCAA-AAG
* * * *
1963478 TCACATGAGATGATGAATGTGTTGTCAAATGTTTTACGAAC
1 CCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAAC
1963519 CAGTAATTAT
Statistics
Matches: 178, Mismatches: 23, Indels: 3
0.87 0.11 0.01
Matches are distributed among these distances:
53 19 0.11
54 159 0.89
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.26
Consensus pattern (54 bp):
CCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGGGCAAAAG
Found at i:1963444 original size:108 final size:108
Alignment explanation
Indices: 1963258--1963518 Score: 371
Period size: 108 Copynumber: 2.4 Consensus size: 108
1963248 AAATCTATGC
* * * *
1963258 AGAAACCACAGAAAAGGATGAATGT-TTGTCAAATATTTTACGAACATCTGTGCAAAAGCCACAA
1 AGAAAGCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGGGCAAAAGCCACAA
* * *
1963322 GAAAGGATGAATGTGTTTTCAAATGCTTTACGAACATCTGGGC
66 GAAAGAATGAATGTGTTTTCAAATGCTTTACGAACATCTGAGA
* * * *
1963365 AGAAGGCACAGGAAAGGATGAATGTGTTGTCAAATGCTTTACGAACATCTGGGCAGAAGCCACAG
1 AGAAAGCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGGGCAAAAGCCACAA
*
1963430 GAAAGAATGAATGTGTTTTCAAATGTTTTACGAACATCTGAGA
66 GAAAGAATGAATGTGTTTTCAAATGCTTTACGAACATCTGAGA
* * * *
1963473 AGAAATCACATGAGATGATGAATGTGTTGTCAAATGTTTTACGAAC
1 AGAAAGCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAAC
1963519 CAGTAATTAT
Statistics
Matches: 135, Mismatches: 18, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
107 22 0.16
108 113 0.84
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (108 bp):
AGAAAGCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGGGCAAAAGCCACAA
GAAAGAATGAATGTGTTTTCAAATGCTTTACGAACATCTGAGA
Found at i:1966602 original size:89 final size:89
Alignment explanation
Indices: 1966477--1966804 Score: 401
Period size: 92 Copynumber: 3.7 Consensus size: 89
1966467 ATAGCAAAAG
* * * * *
1966477 GGGAGCCAACCTAAGAATATACCTT--GGGCCTATGGGCCTACCCAATGATATCCTTAGATCCGT
1 GGGAACCAACCTAAGGATATGCCTTGGGGGCCAATAGGCCTACCCAATGATATCCTTAGATCCGT
*
1966540 AGGGTTACCTTCAACACACAGCGAA
66 AGGGTTACCTT-AACACACAGCAAA
* * * * *
1966565 GGGAACCAACCTAAGGATATGCCTT-GGGGCCTATGGGCCTACCCAAGGGTATCCTTAGATTCGT
1 GGGAACCAACCTAAGGATATGCCTTGGGGGCCAATAGGCCTACCCAATGATATCCTTAGATCCGT
*
1966629 AGGGTTATCTTAAGCACACAGCAAAA
66 AGGGTTACCTTAA-CACACAGC-AAA
* * * *
1966655 GGGAACCAACCTAAGGATATGCCTTGGGGGCCAATATGCCTACCCAAAGGTATCTTTAGATCCGT
1 GGGAACCAACCTAAGGATATGCCTTGGGGGCCAATAGGCCTACCCAATGATATCCTTAGATCCGT
* *
1966720 AGGGTTACCTTAAGAACACAACAAAAA
66 AGGGTTACCTTAA-CACACAGC--AAA
* *
1966747 GGGAACCAACCTAAAGATATGCCTTGGGGGCCAATATGCCTACCCAATGATATCCTTA
1 GGGAACCAACCTAAGGATATGCCTTGGGGGCCAATAGGCCTACCCAATGATATCCTTA
1966805 AGTCCGCAAG
Statistics
Matches: 214, Mismatches: 21, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
88 24 0.11
89 53 0.25
90 27 0.13
91 52 0.24
92 58 0.27
ACGTcount: A:0.31, C:0.25, G:0.23, T:0.22
Consensus pattern (89 bp):
GGGAACCAACCTAAGGATATGCCTTGGGGGCCAATAGGCCTACCCAATGATATCCTTAGATCCGT
AGGGTTACCTTAACACACAGCAAA
Found at i:1966714 original size:91 final size:90
Alignment explanation
Indices: 1966443--1966804 Score: 424
Period size: 91 Copynumber: 4.0 Consensus size: 90
1966433 CCAGAACTGC
* * * * * * *
1966443 ATCCGTAGGGCTTACCCTCAGCATATAGCAAAAGGGGAGCCAACCTAAGAATATACCTT-GGGCC
1 ATCCGTAGGG-TTACCTTAAGCACACAGCAAAA-GGGAACCAACCTAAGGATATGCCTTGGGGCC
* * * *
1966507 TATGGGCCTACCCAATGATATCCTTAG
64 AATAGGCCTACCCAAAGGTATCCTTAG
* *
1966534 ATCCGTAGGGTTACCTTCAA-CACACAGC-GAAGGGAACCAACCTAAGGATATGCCTTGGGGCCT
1 ATCCGTAGGGTTACCTT-AAGCACACAGCAAAAGGGAACCAACCTAAGGATATGCCTTGGGGCCA
* *
1966597 ATGGGCCTACCCAAGGGTATCCTTAG
65 ATAGGCCTACCCAAAGGTATCCTTAG
* *
1966623 ATTCGTAGGGTTATCTTAAGCACACAGCAAAAGGGAACCAACCTAAGGATATGCCTTGGGGGCCA
1 ATCCGTAGGGTTACCTTAAGCACACAGCAAAAGGGAACCAACCTAAGGATATGCCTT-GGGGCCA
* *
1966688 ATATGCCTACCCAAAGGTATCTTTAG
65 ATAGGCCTACCCAAAGGTATCCTTAG
* * *
1966714 ATCCGTAGGGTTACCTTAAGAACACAACAAAAAGGGAACCAACCTAAAGATATGCCTTGGGGGCC
1 ATCCGTAGGGTTACCTTAAGCACACAGC-AAAAGGGAACCAACCTAAGGATATGCCTT-GGGGCC
* * *
1966779 AATATGCCTACCCAATGATATCCTTA
64 AATAGGCCTACCCAAAGGTATCCTTA
1966805 AGTCCGCAAG
Statistics
Matches: 239, Mismatches: 26, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
88 24 0.10
89 55 0.23
90 39 0.16
91 63 0.26
92 58 0.24
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (90 bp):
ATCCGTAGGGTTACCTTAAGCACACAGCAAAAGGGAACCAACCTAAGGATATGCCTTGGGGCCAA
TAGGCCTACCCAAAGGTATCCTTAG
Found at i:1969535 original size:17 final size:16
Alignment explanation
Indices: 1969513--1969544 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
1969503 AGTTAACACT
1969513 GGTCAACGACGGTCAAC
1 GGTCAACGA-GGTCAAC
1969530 GGTCAACGAGGTCAA
1 GGTCAACGAGGTCAA
1969545 TGGTTTTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.31, C:0.25, G:0.31, T:0.12
Consensus pattern (16 bp):
GGTCAACGAGGTCAAC
Found at i:1971691 original size:89 final size:90
Alignment explanation
Indices: 1971562--1971904 Score: 379
Period size: 92 Copynumber: 3.8 Consensus size: 90
1971552 CATTACATAG
* * * * *
1971562 CAAAAGGGGAGCCAACCTAAGGATATACC-TAGGGCCTATGGGCTTACCCAAGGATATCCTTAGA
1 CAAAAAGGGAACCAACCTAAGGATATGCCTTGGGGCCTATGGGCCTACCCAAGGATATCCTTAGA
** *
1971626 TATGTAGGGCTACCTTCAGCACACA
66 TCCGTAGGGCTACCTTAAGCACACA
** * *
1971651 -ATGAAGGGAACTAACCTAAGGATATGCCTTGGGGCCTATGGGCCTACCCAAGGGTATCCTTAGA
1 CAAAAAGGGAACCAACCTAAGGATATGCCTTGGGGCCTATGGGCCTACCCAAGGATATCCTTAGA
1971715 TCCGTAGGGCTACCTTAAGCACACA
66 TCCGTAGGGCTACCTTAAGCACACA
* * * ** *
1971740 GCAAAAAGTGAACCAACCTAAGGATATGTCTTGGGGGCCAATATGCCTTCCCAATGG-TATCCTT
1 -CAAAAAGGGAACCAACCTAAGGATATGCCTT-GGGGCCTATGGGCCTACCCAA-GGATATCCTT
* *
1971804 AGTTCCGTAGGGTTACCTTAAGCACACAA
63 AGATCCGTAGGGCTACCTTAAGCACAC-A
* * ***
1971833 CAAAAAGGGAACCAACCTAAAGATATGCCTTGGGGGCTAATATACCTACCCAAGGATATCCTTA-
1 CAAAAAGGGAACCAACCTAAGGATATGCCTTGGGGCCT-ATGGGCCTACCCAAGGATATCCTTAG
1971897 AGTCCGTA
65 A-TCCGTA
1971905 AGGTCTCACC
Statistics
Matches: 214, Mismatches: 31, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
88 22 0.10
89 54 0.25
91 32 0.15
92 103 0.48
93 3 0.01
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.22
Consensus pattern (90 bp):
CAAAAAGGGAACCAACCTAAGGATATGCCTTGGGGCCTATGGGCCTACCCAAGGATATCCTTAGA
TCCGTAGGGCTACCTTAAGCACACA
Found at i:1974582 original size:23 final size:23
Alignment explanation
Indices: 1974546--1974613 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
1974536 CATATTATAT
*
1974546 GGCACTTCGATGCATTTCTACGC
1 GGCACTTCGGTGCATTTCTACGC
* * *
1974569 GGCACTGCGGTGCAATTCTACGT
1 GGCACTTCGGTGCATTTCTACGC
*
1974592 GGCACTTCGGTGCATTTATACG
1 GGCACTTCGGTGCATTTCTACG
1974614 AGCTGTGGTG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.18, C:0.26, G:0.26, T:0.29
Consensus pattern (23 bp):
GGCACTTCGGTGCATTTCTACGC
Found at i:1979275 original size:23 final size:23
Alignment explanation
Indices: 1979214--1979275 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
1979204 GACATATTAT
*
1979214 ATGGCACTTCGGTGCATTTCTAC
1 ATGGCACTTCGGTGCAATTCTAC
** * *
1979237 GCGACACTGCGGTGCAATTCTAC
1 ATGGCACTTCGGTGCAATTCTAC
*
1979260 ATGGCACTTCGATGCA
1 ATGGCACTTCGGTGCA
1979276 TTTATACGAG
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.21, C:0.27, G:0.24, T:0.27
Consensus pattern (23 bp):
ATGGCACTTCGGTGCAATTCTAC
Found at i:1980156 original size:23 final size:22
Alignment explanation
Indices: 1980112--1980156 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
1980102 AATCTCATAG
*
1980112 GGGAACCGATTCCCACACAGGA
1 GGGAACCGATTCCCACAAAGGA
* *
1980134 GGGAACCTATTCCCCCTAAAGGA
1 GGGAACCGATTCCCAC-AAAGGA
1980157 AAATTGTGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.31, C:0.31, G:0.24, T:0.13
Consensus pattern (22 bp):
GGGAACCGATTCCCACAAAGGA
Found at i:1981654 original size:103 final size:103
Alignment explanation
Indices: 1981434--1981646 Score: 372
Period size: 103 Copynumber: 2.1 Consensus size: 103
1981424 GGGTCTACGC
*
1981434 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAGTTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
* *
1981499 CCTTGGCATATGTATATGATTCTTAAAGAATGATATGT
66 CCCTAGCATATGTATATGATTCTTAAAGAATGATATGT
*
1981537 GGTCCTTCGGGACATATATGTGTTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
* *
1981602 CCCTAGTATATGTATATGATTCTTAAGGAATGATATGT
66 CCCTAGCATATGTATATGATTCTTAAAGAATGATATGT
1981640 GGTCCTT
1 GGTCCTT
1981647 ATGGACATTA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 104 1.00
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (103 bp):
GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
CCCTAGCATATGTATATGATTCTTAAAGAATGATATGT
Found at i:1981723 original size:23 final size:23
Alignment explanation
Indices: 1981674--1981730 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
1981664 GCGCTACGGT
*
1981674 GCAATTCTACGTGGCACTCCGGT
1 GCAATTCTACGTGGCACTCCGGA
*
1981697 GCAATTCTACGTGGCTA-TTCGGA
1 GCAATTCTACGTGGC-ACTCCGGA
*
1981720 GCAATTATACG
1 GCAATTCTACG
1981731 AGCTGTGGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
23 29 0.97
24 1 0.03
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.28
Consensus pattern (23 bp):
GCAATTCTACGTGGCACTCCGGA
Found at i:1985308 original size:21 final size:21
Alignment explanation
Indices: 1985266--1985308 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1985256 TTTCTGGGCT
* *
1985266 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
1985287 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
1985308 A
1 A
1985309 ACGAACCAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:1985380 original size:23 final size:22
Alignment explanation
Indices: 1985336--1985380 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
1985326 AATCTCATAG
* *
1985336 GGGAACCGATTCCCCCACAGGA
1 GGGAACCAATTCCCCCAAAGGA
1985358 GGGAACCAATTCCCCCTAAAGGA
1 GGGAACCAATTCCCCC-AAAGGA
1985381 AAATTGTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.31, C:0.33, G:0.24, T:0.11
Consensus pattern (22 bp):
GGGAACCAATTCCCCCAAAGGA
Found at i:1986857 original size:103 final size:103
Alignment explanation
Indices: 1986674--1986886 Score: 354
Period size: 103 Copynumber: 2.1 Consensus size: 103
1986664 GGGTCTACGC
**
1986674 GGTCCTTCGGGACATATATATATTCTTTGGAACATGTTTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCCTTCGGGACATATATATATTCTTTGGAACATGTGAGAAGTCTGGTGAGACACATACTTGAT
** *
1986739 CTTTGGCATAAGTATATGATTCTTAAGGAATGATATGT
66 CCCTAGCATAAGTATATGATTCTTAAGGAATGATATGT
*
1986777 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGAGAAGTCTGGTGAGACACATACTTGAT
1 GGTCCTTCGGGACATATATATATTCTTTGGAACATGTGAGAAGTCTGGTGAGACACATACTTGAT
* *
1986842 CCCTAGTATATGTATATGATTCTTAAGGAATGATATGT
66 CCCTAGCATAAGTATATGATTCTTAAGGAATGATATGT
1986880 GGTCCTT
1 GGTCCTT
1986887 ATGAACATTA
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
103 102 1.00
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (103 bp):
GGTCCTTCGGGACATATATATATTCTTTGGAACATGTGAGAAGTCTGGTGAGACACATACTTGAT
CCCTAGCATAAGTATATGATTCTTAAGGAATGATATGT
Found at i:1990701 original size:21 final size:22
Alignment explanation
Indices: 1990672--1990729 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 22
1990662 CCGGAAAAAT
* *
1990672 TCAATGCCGTTCAATG-TCCGG
1 TCAACGCCGATCAATGTTCCGG
* * *
1990693 TCAACGCCGGTCAAAGTTCTGG
1 TCAACGCCGATCAATGTTCCGG
1990715 TCAACG-CGATCAATG
1 TCAACGCCGATCAATG
1990730 GTCAACGGTT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
21 20 0.67
22 10 0.33
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (22 bp):
TCAACGCCGATCAATGTTCCGG
Found at i:1993624 original size:18 final size:17
Alignment explanation
Indices: 1993601--1993634 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
1993591 ACCGTCAATC
*
1993601 CCAGCAGCAGTTCCTAGT
1 CCAGCACCAG-TCCTAGT
1993619 CCAGCACCAGTCCTAG
1 CCAGCACCAGTCCTAG
1993635 CACAACCAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.24, C:0.38, G:0.21, T:0.18
Consensus pattern (17 bp):
CCAGCACCAGTCCTAGT
Found at i:2006654 original size:19 final size:19
Alignment explanation
Indices: 2006632--2006698 Score: 91
Period size: 19 Copynumber: 3.5 Consensus size: 19
2006622 AAATCACAAT
2006632 ATTAAAATTAAGCATCAAA
1 ATTAAAATTAAGCATCAAA
*
2006651 ATTAAAATTAATG-ATCAAT
1 ATTAAAATTAA-GCATCAAA
*
2006670 ATTAAAATTAAGCACCAAA
1 ATTAAAATTAAGCATCAAA
*
2006689 ATTAATATTA
1 ATTAAAATTA
2006699 TTATTCAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
18 1 0.02
19 40 0.95
20 1 0.02
ACGTcount: A:0.55, C:0.09, G:0.04, T:0.31
Consensus pattern (19 bp):
ATTAAAATTAAGCATCAAA
Found at i:2007580 original size:18 final size:18
Alignment explanation
Indices: 2007542--2007580 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
2007532 AATTTATAAT
**
2007542 TTAAATTTAAATAAATGA
1 TTAAATTTAAATAAACCA
*
2007560 TTAATTTTAAATAAACCA
1 TTAAATTTAAATAAACCA
2007578 TTA
1 TTA
2007581 TACTTTTTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (18 bp):
TTAAATTTAAATAAACCA
Found at i:2012975 original size:41 final size:40
Alignment explanation
Indices: 2012930--2013030 Score: 148
Period size: 41 Copynumber: 2.5 Consensus size: 40
2012920 CGATATATGT
2012930 ATTCTATTGCGGCGTTTGTTTAGAAACGCCACTAAAGTAAG
1 ATTCT-TTGCGGCGTTTGTTTAGAAACGCCACTAAAGTAAG
* *
2012971 ATTCTCTGGCAGCGTTTGTTTAGAAACGCCACTAAAGTAAG
1 ATTCT-TTGCGGCGTTTGTTTAGAAACGCCACTAAAGTAAG
*
2013012 ATTCTTTGGAGGCGTTTGT
1 ATTCTTT-GCGGCGTTTGT
2013031 CAAATAAACA
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
40 1 0.02
41 52 0.98
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.34
Consensus pattern (40 bp):
ATTCTTTGCGGCGTTTGTTTAGAAACGCCACTAAAGTAAG
Found at i:2013075 original size:41 final size:41
Alignment explanation
Indices: 2013026--2013112 Score: 131
Period size: 41 Copynumber: 2.1 Consensus size: 41
2013016 TTTGGAGGCG
*
2013026 TTTGTCAAATAAACACCACTAAAGCAC-TATTTGTAGCGGCA
1 TTTGTCAAATAAACACCACTAAAGCACGCATTT-TAGCGGCA
* *
2013067 TTTGTCAAATAAACACCACTAAAGTACGCATTTTAGCGGCG
1 TTTGTCAAATAAACACCACTAAAGCACGCATTTTAGCGGCA
2013108 TTTGT
1 TTTGT
2013113 TGAAAAACGC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
41 38 0.90
42 4 0.10
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (41 bp):
TTTGTCAAATAAACACCACTAAAGCACGCATTTTAGCGGCA
Found at i:2014585 original size:38 final size:38
Alignment explanation
Indices: 2014542--2014620 Score: 140
Period size: 38 Copynumber: 2.1 Consensus size: 38
2014532 TAATATATCC
2014542 TAAAATCGAATATGTCAATTTAATAATAATATTGGATT
1 TAAAATCGAATATGTCAATTTAATAATAATATTGGATT
* *
2014580 TAAAATCTAATATGTCAATTTAATACTAATATTGGATT
1 TAAAATCGAATATGTCAATTTAATAATAATATTGGATT
2014618 TAA
1 TAA
2014621 GTATCGATAC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.41
Consensus pattern (38 bp):
TAAAATCGAATATGTCAATTTAATAATAATATTGGATT
Found at i:2014590 original size:19 final size:18
Alignment explanation
Indices: 2014559--2014620 Score: 63
Period size: 18 Copynumber: 3.3 Consensus size: 18
2014549 GAATATGTCA
2014559 ATTTAATAA-TAATATTGG
1 ATTTAA-AACTAATATTGG
**
2014577 ATTTAAAATCTAATATGTCA
1 ATTTAAAA-CTAATAT-TGG
*
2014597 ATTTAATACTAATATTGG
1 ATTTAAAACTAATATTGG
2014615 ATTTAA
1 ATTTAA
2014621 GTATCGATAC
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
17 2 0.06
18 13 0.36
19 13 0.36
20 8 0.22
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.44
Consensus pattern (18 bp):
ATTTAAAACTAATATTGG
Found at i:2020561 original size:2 final size:2
Alignment explanation
Indices: 2020556--2020588 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2020546 AAAAAAAAAC
2020556 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2020589 TCAAATATGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2020622 original size:24 final size:25
Alignment explanation
Indices: 2020584--2020630 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
2020574 TATATATATA
*
2020584 TATATTCAAATATGTTTTGAAAAAC
1 TATATTCAAATATGTTTTCAAAAAC
*
2020609 TATATT-ATATATGTTTTCAAAA
1 TATATTCAAATATGTTTTCAAAA
2020631 TGATTTCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (25 bp):
TATATTCAAATATGTTTTCAAAAAC
Found at i:2020686 original size:2 final size:2
Alignment explanation
Indices: 2020681--2020705 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2020671 AAAAAAAACC
2020681 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
2020706 TCAAAATATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2020736 original size:117 final size:117
Alignment explanation
Indices: 2020564--2020775 Score: 390
Period size: 117 Copynumber: 1.8 Consensus size: 117
2020554 ACTATATATA
*
2020564 TATATATATATATATATATATATATTCAAATATGTTTTGAAAAACTATATTATATATGTTTTCAA
1 TATATATATATATATATATATATATTCAAATATGTTTTGAAAAACTATATTATATACGTTTTCAA
2020629 AATGATTTCAAAACCATACATTTTCGAAAAGTCATTTTTTATAAAAAAAACC
66 AATGATTTCAAAACCATACATTTTCGAAAAGTCATTTTTTATAAAAAAAACC
*
2020681 TATATATATATATATATATATATATTCAAAATATGTTTT-CAAAACTATATTATATACGTTTTCA
1 TATATATATATATATATATATATATTC-AAATATGTTTTGAAAAACTATATTATATACGTTTTCA
2020745 AAATGATTTCAAAACCATACATTTTCGAAAA
65 AAATGATTTCAAAACCATACATTTTCGAAAA
2020776 TGTTTTCAAA
Statistics
Matches: 92, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
117 81 0.88
118 11 0.12
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (117 bp):
TATATATATATATATATATATATATTCAAATATGTTTTGAAAAACTATATTATATACGTTTTCAA
AATGATTTCAAAACCATACATTTTCGAAAAGTCATTTTTTATAAAAAAAACC
Found at i:2020782 original size:28 final size:27
Alignment explanation
Indices: 2020734--2020813 Score: 106
Period size: 28 Copynumber: 2.9 Consensus size: 27
2020724 ACTATATTAT
*
2020734 ATACGTTTTCAAAATGATTTCAAAACC
1 ATACGTTTTCAAAATGTTTTCAAAACC
*
2020761 ATACATTTTCGAAAATGTTTTCAAAACC
1 ATACGTTTTC-AAAATGTTTTCAAAACC
* *
2020789 ATGCGTTTTCAAAAATATTTTCAAA
1 ATACGTTTTC-AAAATGTTTTCAAA
2020814 GTCATTATAT
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
27 9 0.20
28 37 0.80
ACGTcount: A:0.40, C:0.16, G:0.07, T:0.36
Consensus pattern (27 bp):
ATACGTTTTCAAAATGTTTTCAAAACC
Found at i:2020960 original size:35 final size:35
Alignment explanation
Indices: 2020854--2021014 Score: 205
Period size: 35 Copynumber: 4.5 Consensus size: 35
2020844 CTTTTTTTTT
* *** *
2020854 AAACAATATATTATACATTTTCAAAACTATTTAAAAA
1 AAACTATATATTATATGCTTTCAAAACTATTT--TAA
* * **
2020891 AAACTATATACTATATGTTTTTCAAAACCGTTTTAA
1 AAACTATATATTATATG-CTTTCAAAACTATTTTAA
2020927 AAACTATATATTATATGCTTTCAAAACTATTTTAA
1 AAACTATATATTATATGCTTTCAAAACTATTTTAA
2020962 AAACTATATATTATATGCTTTCAAAACTATTTTAAA
1 AAACTATATATTATATGCTTTCAAAACTATTTT-AA
2020998 AAACTATATATTATATG
1 AAACTATATATTATATG
2021015 TTTTTTTAAA
Statistics
Matches: 111, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
35 48 0.43
36 37 0.33
37 13 0.12
38 13 0.12
ACGTcount: A:0.45, C:0.11, G:0.03, T:0.40
Consensus pattern (35 bp):
AAACTATATATTATATGCTTTCAAAACTATTTTAA
Found at i:2020965 original size:71 final size:72
Alignment explanation
Indices: 2020854--2021014 Score: 209
Period size: 71 Copynumber: 2.2 Consensus size: 72
2020844 CTTTTTTTTT
* *** *
2020854 AAACAATATATTATACATTTTCAAAACTATTTAAAAAAAACTATATACTATATGTTTTTCAAAAC
1 AAACTATATATTATATGCTTTCAAAACTATTT-AAAAAAACTATATACTATATG-CTTTCAAAAC
*
2020919 CGTTTT-AA
64 CATTTTAAA
* * *
2020927 AAACTATATATTATATGCTTTCAAAACTATTT-TAAAAACTATATATTATATGCTTTCAAAACTA
1 AAACTATATATTATATGCTTTCAAAACTATTTAAAAAAACTATATACTATATGCTTTCAAAACCA
2020991 TTTTAAA
66 TTTTAAA
2020998 AAACTATATATTATATG
1 AAACTATATATTATATG
2021015 TTTTTTTAAA
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
70 13 0.17
71 37 0.47
73 28 0.36
ACGTcount: A:0.45, C:0.11, G:0.03, T:0.40
Consensus pattern (72 bp):
AAACTATATATTATATGCTTTCAAAACTATTTAAAAAAACTATATACTATATGCTTTCAAAACCA
TTTTAAA
Found at i:2026807 original size:61 final size:61
Alignment explanation
Indices: 2026686--2027233 Score: 741
Period size: 61 Copynumber: 9.1 Consensus size: 61
2026676 CCGTTTATCT
*
2026686 TCTAACTTGCATTAGTGGCACCTTTCTGCC-AAAATGCACCGTTAGGCATTTAACTTTTCA
1 TCTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATGCATCGTTAGGCATTTAACTTTTCA
* * * * *
2026746 TTTCACTTGTAATAGTGGCACCTTTCTGCCAAAAATGCATTGTTAGGCATTTAA-TGTTTCA
1 TCTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATGCATCGTTAGGCATTTAACT-TTTCA
* * * *
2026807 TCTAACTTGCATTATTGGCACCTTTCTGCAAAAAATGCATCGTTAGACATTTAACATTTCA
1 TCTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATGCATCGTTAGGCATTTAACTTTTCA
* ** *
2026868 TCTAACTTGTATTAGTGGCATTTTTCTGCCAAAAATACATCGTTAGGCATTTAACTTTTCA
1 TCTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATGCATCGTTAGGCATTTAACTTTTCA
* * * *
2026929 TCTAACTTGCATTAGTGGCAACTTTCTACCAAAAATGCATTGTTACGCATTTAACTTTTCA
1 TCTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATGCATCGTTAGGCATTTAACTTTTCA
*
2026990 TCTAACTTGCATTAGTGGCACATTTCTGCC-AAAATGCATCGTTAGGCATTTAACTTTTCA
1 TCTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATGCATCGTTAGGCATTTAACTTTTCA
*
2027050 TCTAACTTGCATTAGTGGCACCTTTCTACCAAAAATG---CGTTAGGCATTTAACTTTTCA
1 TCTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATGCATCGTTAGGCATTTAACTTTTCA
* * * * * *
2027108 TCTAACTTGCATTAGTGGCACATTTCTTCCAAAAATGTATTGTTTGGCATTTAAATTTTCA
1 TCTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATGCATCGTTAGGCATTTAACTTTTCA
* * * ** *
2027169 TCTAACTTGCATCAGTGGAAGCTTTCTGCCAAAAATAAACCGTTAGGCATTT-ACGTTTTCA
1 TCTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATGCATCGTTAGGCATTTAAC-TTTTCA
2027230 TCTA
1 TCTA
2027234 TGCACAATTA
Statistics
Matches: 427, Mismatches: 53, Indels: 15
0.86 0.11 0.03
Matches are distributed among these distances:
58 56 0.13
60 84 0.20
61 287 0.67
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.38
Consensus pattern (61 bp):
TCTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATGCATCGTTAGGCATTTAACTTTTCA
Found at i:2027298 original size:53 final size:53
Alignment explanation
Indices: 2027232--2027666 Score: 574
Period size: 53 Copynumber: 8.3 Consensus size: 53
2027222 CGTTTTCATC
* * *
2027232 TATGCACAATTAGGTCTTTCATCTAACTTACATTATTAACACCTTTCTGCCAA
1 TATGCACAGTTAGGCCTTTCATCTAACTTACATTATTGACACCTTTCTGCCAA
** *
2027285 TATGCACAGTTAGGCCTTTCATCTAACTTACATTATTGACATATTTCTGTCAA
1 TATGCACAGTTAGGCCTTTCATCTAACTTACATTATTGACACCTTTCTGCCAA
* * **
2027338 TATGCACAGTTAGGTCTTTCATCTAACATGTATTATTGACACCTTTCTGCCAA
1 TATGCACAGTTAGGCCTTTCATCTAACTTACATTATTGACACCTTTCTGCCAA
* *
2027391 TATGCACAATTAGG-CTTTCATCTAACTTGCATTATTGACACCTTTCTGCCAA
1 TATGCACAGTTAGGCCTTTCATCTAACTTACATTATTGACACCTTTCTGCCAA
* *
2027443 -ATGCATAGTTAGGCC-TTCATCTAACTTACATTATTGACACCTTTCTACCAA
1 TATGCACAGTTAGGCCTTTCATCTAACTTACATTATTGACACCTTTCTGCCAA
* * *
2027494 TATGCAAAGTTAAGCCTTTCATCTAACTGT-CATTATTGACACATTTCTGCCAA
1 TATGCACAGTTAGGCCTTTCATCTAACT-TACATTATTGACACCTTTCTGCCAA
* * * *
2027547 -ATGCATAGTTAGGTCTTTCATTTAACTTACATTATTGACACCTTTATGCCAA
1 TATGCACAGTTAGGCCTTTCATCTAACTTACATTATTGACACCTTTCTGCCAA
* * * * * *
2027599 TATGCAGAGTTACGCCTTTCATATAACTTGCATTATTGACACATTTCTGTCAA
1 TATGCACAGTTAGGCCTTTCATCTAACTTACATTATTGACACCTTTCTGCCAA
*
2027652 TATGCAGAGTTAGGC
1 TATGCACAGTTAGGC
2027667 ATTTAACATT
Statistics
Matches: 337, Mismatches: 39, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
51 46 0.14
52 94 0.28
53 196 0.58
54 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (53 bp):
TATGCACAGTTAGGCCTTTCATCTAACTTACATTATTGACACCTTTCTGCCAA
Found at i:2027620 original size:209 final size:210
Alignment explanation
Indices: 2027249--2027666 Score: 626
Period size: 209 Copynumber: 2.0 Consensus size: 210
2027239 AATTAGGTCT
* * *
2027249 TTCATCTAACTTACATTATTAACACCTTTCTGCCAATATGCACAGTTAGGCCTTTCATCTAACTT
1 TTCATCTAACTTACATTATTAACACCTTTCTACCAATATGCAAAGTTAAGCCTTTCATCTAACTT
* * **
2027314 ACATTATTGACATATTTCTGTCAATATGCACAGTTAGGTCTTTCATCTAACATGTATTATTGACA
66 ACATTATTGACACATTTCTGCCAATATGCACAGTTAGGTCTTTCATCTAACATACATTATTGACA
* * * *
2027379 CCTTTCTGCCAATATGCACAATTAGGCTTTCATCTAACTTGCATTATTGACACCTTTCTGCCAA-
131 CCTTTATGCCAATATGCACAATTAGCCTTTCATATAACTTGCATTATTGACACATTTCTGCCAAT
*
2027443 ATGCATAGTTAGGCC
196 ATGCAGAGTTAGGCC
*
2027458 TTCATCTAACTTACATTATTGACACCTTTCTACCAATATGCAAAGTTAAGCCTTTCATCTAACTG
1 TTCATCTAACTTACATTATTAACACCTTTCTACCAATATGCAAAGTTAAGCCTTTCATCTAACT-
* * *
2027523 T-CATTATTGACACATTTCTGCCAA-ATGCATAGTTAGGTCTTTCATTTAACTTACATTATTGAC
65 TACATTATTGACACATTTCTGCCAATATGCACAGTTAGGTCTTTCATCTAACATACATTATTGAC
* * *
2027586 ACCTTTATGCCAATATGCAGAGTTACGCCTTTCATATAACTTGCATTATTGACACATTTCTGTCA
130 ACCTTTATGCCAATATGCACAATTA-GCCTTTCATATAACTTGCATTATTGACACATTTCTGCCA
2027651 ATATGCAGAGTTAGGC
194 ATATGCAGAGTTAGGC
2027667 ATTTAACATT
Statistics
Matches: 187, Mismatches: 19, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
208 56 0.30
209 117 0.63
210 14 0.07
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.37
Consensus pattern (210 bp):
TTCATCTAACTTACATTATTAACACCTTTCTACCAATATGCAAAGTTAAGCCTTTCATCTAACTT
ACATTATTGACACATTTCTGCCAATATGCACAGTTAGGTCTTTCATCTAACATACATTATTGACA
CCTTTATGCCAATATGCACAATTAGCCTTTCATATAACTTGCATTATTGACACATTTCTGCCAAT
ATGCAGAGTTAGGCC
Found at i:2032912 original size:60 final size:61
Alignment explanation
Indices: 2032634--2033290 Score: 826
Period size: 60 Copynumber: 11.0 Consensus size: 61
2032624 TTATGCACTG
* * * * *
2032634 TTTTCATCTAAATTGCATTAGTGGCATCTTTCTGCCAAAAATGCACCGATAGGCATTT-AC
1 TTTTCATCTAACTTGCATTAGTGGCACCTTTATGCCAAAAATGCATCGTTAGGCATTTAAC
* * * * **
2032694 GTTTCATCTCACTTGCATTAGTGGCACCTTTTCTGTCAAAAATGCATCGTTAGGCATTTATTT
1 TTTTCATCTAACTTGCATTAGTGGCACC-TTTATGCCAAAAATGCATCGTTAGGCATTTA-AC
* *
2032757 TTTTCATCTAACTTGCATTAGTGGCACCTTTCA-GCCAAATATGCATCATTAGGCATTTAAC
1 TTTTCATCTAACTTGCATTAGTGGCACCTTT-ATGCCAAAAATGCATCGTTAGGCATTTAAC
*
2032818 TTTTCATCTAA----CATTAGTGGTACCTTTATGCCAAAAATGCATCGTTAGGCATTTAAC
1 TTTTCATCTAACTTGCATTAGTGGCACCTTTATGCCAAAAATGCATCGTTAGGCATTTAAC
* *
2032875 -TTTAATCTAACTTGCATTAGTGGCACCTTTATGCC-AAAATACATCGTTAGGCATTTAAC
1 TTTTCATCTAACTTGCATTAGTGGCACCTTTATGCCAAAAATGCATCGTTAGGCATTTAAC
** * * *
2032934 TTTTCATCTAACTTGCATTAGTGGCATTTTTCTGCCAAAAA-ACATCGTTAGGCATTTAGC
1 TTTTCATCTAACTTGCATTAGTGGCACCTTTATGCCAAAAATGCATCGTTAGGCATTTAAC
*
2032994 TTTTCATCTAACTTGCATTAGTGGCACCTTTATGCCAAAAAATGCATCGTTAGGCATTTAAT
1 TTTTCATCTAACTTGCATTAGTGGCACCTTTATGCC-AAAAATGCATCGTTAGGCATTTAAC
* * *
2033056 TTTTCATCTAACTTGCATTAGTGGCACCTTTCTACTAAAAATGCATCGTTAGGCA-TTAAC
1 TTTTCATCTAACTTGCATTAGTGGCACCTTTATGCCAAAAATGCATCGTTAGGCATTTAAC
* * * *
2033116 TGTTCATCTAGCTTACATTAGTGGCACC-TTACTGCCAAAAATGCATCGTTAGGTATTTAAC
1 TTTTCATCTAACTTGCATTAGTGGCACCTTTA-TGCCAAAAATGCATCGTTAGGCATTTAAC
* * *
2033177 TTTTCATCTAACAT--ATTATTGGCACCTTTTTGCCAAAAATGCATCGTTAGGC-TTTAAC
1 TTTTCATCTAACTTGCATTAGTGGCACCTTTATGCCAAAAATGCATCGTTAGGCATTTAAC
* * *
2033235 TTTTCATCTAACTTGCATTATTGGCACATTTCTGCC--AAATGCA-CAGTTAGGCATTT
1 TTTTCATCTAACTTGCATTAGTGGCACCTTTATGCCAAAAATGCATC-GTTAGGCATTT
2033291 CATCTAACTT
Statistics
Matches: 523, Mismatches: 54, Indels: 41
0.85 0.09 0.07
Matches are distributed among these distances:
56 10 0.02
57 42 0.08
58 33 0.06
59 60 0.11
60 195 0.37
61 82 0.16
62 75 0.14
63 26 0.05
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (61 bp):
TTTTCATCTAACTTGCATTAGTGGCACCTTTATGCCAAAAATGCATCGTTAGGCATTTAAC
Found at i:2032983 original size:119 final size:121
Alignment explanation
Indices: 2032635--2033290 Score: 806
Period size: 119 Copynumber: 5.5 Consensus size: 121
2032625 TATGCACTGT
* * * * * *
2032635 TTTCATCTAAATTGCATTAGTGGCATCTTTCTGCCAAAAATGCACCGATAGGCATTT-ACGTTTC
1 TTTCATCTAACTTGCATTAGTGGCACCTTTATGCCAAAAATGCATCGTTAGGCATTTAACTTTTC
* * **
2032699 ATCTCACTTGCATTAGTGGCACCTTTTCTGTCAAAAATGCATCGTTAGGCATTTATTTT
66 ATCTAACTTGCATTAGTGGCA-CTTTTCTGCCAAAAATGCATCGTTAGGCATTTA--AC
* *
2032758 TTTCATCTAACTTGCATTAGTGGCACCTTTCA-GCCAAATATGCATCATTAGGCATTTAACTTTT
1 TTTCATCTAACTTGCATTAGTGGCACCTTT-ATGCCAAAAATGCATCGTTAGGCATTTAACTTTT
* * *
2032822 CATCTAA----CATTAGTGGTACCTTTATGCCAAAAATGCATCGTTAGGCATTTAAC
65 CATCTAACTTGCATTAGTGGCACTTTTCTGCCAAAAATGCATCGTTAGGCATTTAAC
* *
2032875 TTTAATCTAACTTGCATTAGTGGCACCTTTATGCC-AAAATACATCGTTAGGCATTTAACTTTTC
1 TTTCATCTAACTTGCATTAGTGGCACCTTTATGCCAAAAATGCATCGTTAGGCATTTAACTTTTC
* * *
2032939 ATCTAACTTGCATTAGTGGCATTTTTCTGCCAAAAA-ACATCGTTAGGCATTTAGC
66 ATCTAACTTGCATTAGTGGCACTTTTCTGCCAAAAATGCATCGTTAGGCATTTAAC
*
2032994 TTTTCATCTAACTTGCATTAGTGGCACCTTTATGCCAAAAAATGCATCGTTAGGCATTTAATTTT
1 -TTTCATCTAACTTGCATTAGTGGCACCTTTATGCC-AAAAATGCATCGTTAGGCATTTAACTTT
* * *
2033059 TCATCTAACTTGCATTAGTGGCACCTTTCTACTAAAAATGCATCGTTAGGCA-TTAAC
64 TCATCTAACTTGCATTAGTGGCACTTTTCTGCCAAAAATGCATCGTTAGGCATTTAAC
* * *
2033116 TGTTCATCTAGCTTACATTAGTGGCACC-TTACTGCCAAAAATGCATCGTTAGGTATTTAACTTT
1 T-TTCATCTAACTTGCATTAGTGGCACCTTTA-TGCCAAAAATGCATCGTTAGGCATTTAACTTT
* *
2033180 TCATCTAACAT--ATTATTGGCACCTTTT-TGCCAAAAATGCATCGTTAGGC-TTTAAC
64 TCATCTAACTTGCATTAGTGGCA-CTTTTCTGCCAAAAATGCATCGTTAGGCATTTAAC
* * *
2033235 TTTTCATCTAACTTGCATTATTGGCACATTTCTGCC--AAATGCA-CAGTTAGGCATTT
1 -TTTCATCTAACTTGCATTAGTGGCACCTTTATGCCAAAAATGCATC-GTTAGGCATTT
2033291 CATCTAACTT
Statistics
Matches: 466, Mismatches: 49, Indels: 42
0.84 0.09 0.08
Matches are distributed among these distances:
116 34 0.07
117 49 0.11
119 107 0.23
120 73 0.16
121 40 0.09
122 91 0.20
123 61 0.13
124 11 0.02
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (121 bp):
TTTCATCTAACTTGCATTAGTGGCACCTTTATGCCAAAAATGCATCGTTAGGCATTTAACTTTTC
ATCTAACTTGCATTAGTGGCACTTTTCTGCCAAAAATGCATCGTTAGGCATTTAAC
Found at i:2033566 original size:51 final size:51
Alignment explanation
Indices: 2033236--2033628 Score: 467
Period size: 52 Copynumber: 7.7 Consensus size: 51
2033226 GGCTTTAACT
* *
2033236 TTTCATCTAACTTGCATTATTGGCACATTTCTGCCAAATGCACAGTTAGGC
1 TTTCATCTAACTTGCATTATTGACACCTTTCTGCCAAATGCACAGTTAGGC
*
2033287 ATTTCATCTAACTTACATTATTGACACCTTTCTGCCAATATGCACAGTTAGGC
1 -TTTCATCTAACTTGCATTATTGACACCTTTCTGCCAA-ATGCACAGTTAGGC
* *
2033340 TTTCATCTAACTTGCATTATCGACACCTTTATGCCAATATGCCACAGTTAGGCC
1 TTTCATCTAACTTGCATTATTGACACCTTTCTGCCAA-ATG-CACAGTTAGG-C
* * *
2033394 TTTCATCTAACTTGCA-TATTGACACCTTTCTG-CAAATGCACAGCTCGACC
1 TTTCATCTAACTTGCATTATTGACACCTTTCTGCCAAATGCACAGTTAG-GC
* * * **
2033444 TTTCATCTAACTTACATTATTGACACATTTATGCCAATATGCACAGTTAAACC
1 TTTCATCTAACTTGCATTATTGACACCTTTCTGCCAA-ATGCACAGTT-AGGC
* *
2033497 TTTTATCTAACTTGCATTATTGACACCTTTCTGTC-AATGCACAGTTAGGTC
1 TTTCATCTAACTTGCATTATTGACACCTTTCTGCCAAATGCACAGTTAGG-C
* * * * *
2033548 TTTCATCTTACTTACATTATTGATACCTTTCTACC-AATGCATAGTTAGGC
1 TTTCATCTAACTTGCATTATTGACACCTTTCTGCCAAATGCACAGTTAGGC
*
2033598 CTT--TCTAACTTGCA-TATTGACACCTTTCTGC
1 TTTCATCTAACTTGCATTATTGACACCTTTCTGC
2033629 AATATGGACA
Statistics
Matches: 296, Mismatches: 36, Indels: 23
0.83 0.10 0.06
Matches are distributed among these distances:
47 15 0.05
48 9 0.03
50 27 0.09
51 70 0.24
52 79 0.27
53 79 0.27
54 17 0.06
ACGTcount: A:0.26, C:0.25, G:0.12, T:0.37
Consensus pattern (51 bp):
TTTCATCTAACTTGCATTATTGACACCTTTCTGCCAAATGCACAGTTAGGC
Done.