Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008274.1 Hibiscus syriacus cultivar Beakdansim tig00110931_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: 1661830
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 6
Found at i:1461685 original size:18 final size:18
Alignment explanation
Indices: 1461662--1461698 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1461652 CCGAATATAT
1461662 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
1461680 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
1461698 A
1 A
1461699 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:1461928 original size:23 final size:23
Alignment explanation
Indices: 1461902--1461966 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 23
1461892 ATGCGAGATA
1461902 GATACCTATTACATTATATAAAC
1 GATACCTATTACATTATATAAAC
* **
1461925 GATACATATTACATTATATAAGG
1 GATACCTATTACATTATATAAAC
* *
1461948 GCTACCTATTACATCATAT
1 GATACCTATTACATTATAT
1461967 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.35
Consensus pattern (23 bp):
GATACCTATTACATTATATAAAC
Found at i:1462338 original size:21 final size:20
Alignment explanation
Indices: 1462313--1462366 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
1462303 GATAGACACT
1462313 TTACAATATAACCATTACCTA
1 TTACAATATAACCA-TACCTA
*
1462334 TTACATTATATAAACGATACCTA
1 TTACA--ATAT-AACCATACCTA
*
1462357 TTACATTATA
1 TTACAATATA
1462367 TAAGGGCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 1 0.04
21 8 0.29
23 15 0.54
24 4 0.14
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.37
Consensus pattern (20 bp):
TTACAATATAACCATACCTA
Found at i:1462354 original size:23 final size:23
Alignment explanation
Indices: 1462328--1462390 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
1462318 ATATAACCAT
1462328 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
1462351 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
1462374 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1462391 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1462692 original size:424 final size:426
Alignment explanation
Indices: 1461904--1462912 Score: 1924
Period size: 424 Copynumber: 2.4 Consensus size: 426
1461894 GCGAGATAGA
*
1461904 TACCTATTACATTATATAAACGATACATATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1461969 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
66 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
1462034 TGTAATTTATGTTTCAATTTTTTAACAGTG-TTCATGTTTCCACCTACAATATTGATTTAATAAT
131 TGTAATTTATGTTTCAATTTTTTAACAGTGTTTCATGTTTCCACCTACAATATTGATTTAATAAT
1462098 TCATTTGCACAAAAAAAATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTTAATT
196 TCATTTGCACAAAAAAAATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTTAATT
1462163 TAATAATATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
261 TAATAATATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
1462228 CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACT
326 CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACT
1462293 TTTAT-AAAAGGATAGACACTTTACAATATAACCAT
391 TTTATAAAAAGGATAGACACTTTACAATATAACCAT
1462328 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1462393 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
66 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
1462458 TGTAATTTATGTTTCAATTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAA
131 TGTAATTTATGTTTCAATTTTTTAACAGTGTTTCATG-TTTCCACCTACAATATTGATTTAATAA
*
1462523 TTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAA-TTTTA
195 -TTCATTTGCACAAAAAA-AATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTTA
1462587 ATTTAAT-A-ATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAA-TACTAAATTAA
258 ATTTAATAATATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAA
1462649 TATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGAC
323 TATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGAC
1462714 ACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
388 ACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
1462753 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATAT-T
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1462817 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
66 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
1462882 TGTAATTTATGTTTCAATTTTTTAACAGTGT
131 TGTAATTTATGTTTCAATTTTTTAACAGTGT
1462913 ACTGCGAATT
Statistics
Matches: 578, Mismatches: 2, Indels: 10
0.98 0.00 0.02
Matches are distributed among these distances:
424 340 0.59
425 142 0.25
426 28 0.05
427 29 0.05
428 39 0.07
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.40
Consensus pattern (426 bp):
TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
TGTAATTTATGTTTCAATTTTTTAACAGTGTTTCATGTTTCCACCTACAATATTGATTTAATAAT
TCATTTGCACAAAAAAAATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTTAATT
TAATAATATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACT
TTTATAAAAAGGATAGACACTTTACAATATAACCAT
Found at i:1462768 original size:21 final size:20
Alignment explanation
Indices: 1462738--1462791 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
1462728 GATAGACACT
*
1462738 TTACAATATAACCATTACCTA
1 TTACATTATAACCA-TACCTA
*
1462759 TTACATTATATAAACGATACCTA
1 TTACA-T-TAT-AACCATACCTA
1462782 TTACATTATA
1 TTACATTATA
1462792 TAAGGGCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 1 0.04
21 8 0.29
22 1 0.04
23 14 0.50
24 4 0.14
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.37
Consensus pattern (20 bp):
TTACATTATAACCATACCTA
Found at i:1462779 original size:23 final size:23
Alignment explanation
Indices: 1462753--1462815 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
1462743 ATATAACCAT
1462753 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
1462776 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
1462799 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1462816 TTTACCTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1465716 original size:184 final size:184
Alignment explanation
Indices: 1465355--1466204 Score: 1545
Period size: 184 Copynumber: 4.7 Consensus size: 184
1465345 TTTTAAATGG
* *
1465355 TATGGACATAAAGTACCGACACAATATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
*
1465420 TAAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTC
66 T-AAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTC
1465485 CGATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACA-ATTTTTCTTCCAA
130 CGATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
1465539 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1465604 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
*
1465669 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCTAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
1465723 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1465788 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTAT-ATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
*
1465852 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACA-TTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
* *
1465905 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTGGCTCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
*
1465970 TAAAACCGGTATA-TTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
1466034 GATGTGGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
131 GATGT-GTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
1466089 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
*
1466154 TAAGA-CGGTATA-TT-TACCGGTTATATTACAAAATTATCTATT-TATTATAAT
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAT
1466205 ATGTTGAAAG
Statistics
Matches: 648, Mismatches: 14, Indels: 11
0.96 0.02 0.02
Matches are distributed among these distances:
181 46 0.07
182 130 0.20
183 201 0.31
184 271 0.42
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (184 bp):
TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
Found at i:1466046 original size:366 final size:367
Alignment explanation
Indices: 1465355--1466204 Score: 1543
Period size: 366 Copynumber: 2.3 Consensus size: 367
1465345 TTTTAAATGG
* *
1465355 TATGGACATAAAGTACCGACACAATATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
*
1465420 TAAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTC
66 T-AAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTC
1465485 CGATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACAATTTTTCTTCCAATATGGACATAA
130 CGATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACAATTTTTCTTCCAATATGGACATAA
*
1465550 AGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTA
195 AGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTA
1465615 TATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAA
260 TATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAA
*
1465680 TGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCTAA
325 TGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
1465723 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1465788 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTAT-ATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
*
1465852 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACA-TTTTCTTCCAATATGGACATAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACA-ATTTTTCTTCCAATATGGACATAA
* *
1465916 AGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTGGCTCATAAAACCGGTA
195 AGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTA
1465981 TA-TTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGGTAAA
260 TATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGT-GTAAA
1466045 ATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
324 ATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
1466089 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
*
1466154 TAAGA-CGGTATA-TT-TACCGGTTATATTACAAAATTATCTATT-TATTATAAT
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAT
1466205 ATGTTGAAAG
Statistics
Matches: 470, Mismatches: 9, Indels: 11
0.96 0.02 0.02
Matches are distributed among these distances:
362 5 0.01
363 30 0.06
364 2 0.00
365 63 0.13
366 255 0.54
367 51 0.11
368 64 0.14
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (367 bp):
TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACAATTTTTCTTCCAATATGGACATAAA
GTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTAT
ATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAAT
GTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
Found at i:1467655 original size:3 final size:3
Alignment explanation
Indices: 1467647--1467727 Score: 65
Period size: 3 Copynumber: 27.0 Consensus size: 3
1467637 ACTTGTTTGG
* * * **
1467647 ATC ATC ATC TTC ATCC ATC ATC ATC ATC GTC ATC ATC TTC ATC GCC
1 ATC ATC ATC ATC AT-C ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * * *
1467693 AGC -TC ATC GTC ATC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1467728 GTCAGCTTCA
Statistics
Matches: 59, Mismatches: 17, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
2 1 0.02
3 55 0.93
4 3 0.05
ACGTcount: A:0.23, C:0.36, G:0.06, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:1467736 original size:12 final size:12
Alignment explanation
Indices: 1467683--1467739 Score: 53
Period size: 12 Copynumber: 4.6 Consensus size: 12
1467673 TCGTCATCAT
*
1467683 CTTCATCGCCAG
1 CTTCATCGTCAG
*
1467695 C-TCATCGTCAT
1 CTTCATCGTCAG
*
1467706 CATCATCATCGTCAT
1 C-T--TCATCGTCAG
1467721 CTTCATCGTCAG
1 CTTCATCGTCAG
1467733 CTTCATC
1 CTTCATC
1467740 TTCTGCGACC
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
11 9 0.24
12 17 0.45
14 1 0.03
15 11 0.29
ACGTcount: A:0.19, C:0.37, G:0.11, T:0.33
Consensus pattern (12 bp):
CTTCATCGTCAG
Found at i:1469742 original size:196 final size:198
Alignment explanation
Indices: 1469157--1470550 Score: 2324
Period size: 197 Copynumber: 7.1 Consensus size: 198
1469147 TTTAAATTAG
* *
1469157 TATCGACACAAAATATATTAGTGTCGACACATTATTTAGACATATTCTCTCATTAAAACCGGTAT
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCA-TAAAACCGGTAT
1469222 AATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
65 AATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
* *
1469287 TCGACAC-TTTTTAAATATGGATCGACACTTTATTGGTGCACC-TGTTTTAATTCATTCTGGGGA
130 TCGACACTTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTAATTCATTCT-GGAA
1469350 AAAAA
194 AAAAA
1469355 TATCGACAC--ACTATATTAGTGTCGACAC---ATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1469415 ATTGTACCGG-TAGATT-AAAAATTACATATTACATTATACTTTTGGGTTCGATGA-TTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * *
1469477 TGACACTTTTTTATATATGGATCGACAC-TTATGGGTGCACCTTGTTTTAATTCATTCTGGGAAA
131 CGACACTTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTAATTCATTCTGGAAAA
1469541 AAA
196 AAA
1469544 TATCGACAC-AACTATATTAGTGTCGACACATTATTTAGAC-TATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1469607 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * *
1469672 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTATTCATTCTGGGAAA
131 CGACACTTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTAATTCATTCTGGAAAA
1469737 AAA
196 AAA
1469740 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTA-T-TCTCATCAAAACCGGTAT
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCAT-AAAACCGGTAT
1469803 AATTGTACCGGTTAGATTG--AAA--ACATATTACATTATAC-TTTGGGTTCGATGA-TTTGGGA
65 AATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
*
1469862 TCGACAC-TTTTTATAT-GGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGAA
130 TCGACACTTTTTTATATATGGATCGACACTTTATTGGTGCACCTTG-TTTTAATTCATTCTGG-A
1469925 AAAAAA
193 AAAAAA
1469931 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
1469996 ATTGTACCGG-TAGATT-AAAAATTACATATTACATTATACTTTGGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
1470059 CGACACTTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTAATTCATTCTGG-AAA
1470124 AAAA
195 AAAA
*
1470128 TATCGACACAAACTATATTAGTATCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
* *
1470193 ATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGTTTCGATGATTTT-GGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
1470257 CGACACTTTTTAATATATGGATCGACACTTTATTGATGC-CCTTGTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTAATTCATTCTGGAAAA
1470321 AAA
196 AAA
*
1470324 TATCCACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
1470389 ATTGTACCGGTTAGA-TAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
1470453 CGACAC-TTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGAAA
131 CGACACTTTTTTATATATGGATCGACACTTTATTGGTGCACCTTG-TTTTAATTCATTCTGG-AA
1470517 AAAAA
194 AAAAA
*
1470522 TATCGACACAAACTATATTAGTATCGACA
1 TATCGACACAAACTATATTAGTGTCGACA
1470551 TGACCTTAAT
Statistics
Matches: 1137, Mismatches: 28, Indels: 62
0.93 0.02 0.05
Matches are distributed among these distances:
189 69 0.06
190 117 0.10
191 76 0.07
192 96 0.08
193 54 0.05
194 54 0.05
195 122 0.11
196 185 0.16
197 206 0.18
198 119 0.10
199 39 0.03
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.37
Consensus pattern (198 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTAATTCATTCTGGAAAA
AAA
Found at i:1470055 original size:387 final size:390
Alignment explanation
Indices: 1469157--1470550 Score: 2304
Period size: 387 Copynumber: 3.6 Consensus size: 390
1469147 TTTAAATTAG
* *
1469157 TATCGACACAAAATATATTAGTGTCGACACATTATTTAGACATATTCTCTCATTAAAACCGGTAT
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCA-TAAAACCGGTAT
1469222 AATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
65 AATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
* **
1469287 TCGACACTTTTTAAATATGGATCGACACTTTATTGGTGCACC-TGTTTTAATTCATTCTGGGGAA
130 TCGACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTAATTCATTCTGGAAAA
*
1469351 AAAATATCGACAC--ACTATATTAGTGTCGACAC---ATTTAGACTTATTCTCTCATAAAACCGG
195 AAAATATCGACACAAACTATATTAGTATCGACACATTATTTAGACTTATTCTCTCA-AAAACCGG
*
1469411 TATAATTGTACCGG-TAGATTAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTGGG
259 TATAATTGTACCGGTTAGATT-GAAA-TACATATTACATTATACTTTTGGGTTCGATGATTTGGG
* * *
1469475 ATTGACACTTTTTTATATATGGATCGACAC-TTATGGGTGCACCTTGTTTTAATTCATTCTGGGA
322 ATCGACAC-TTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTAATTCATTCTGGAA
1469539 AAAAA
386 AAAAA
1469544 TATCGACAC-AACTATATTAGTGTCGACACATTATTTAGAC-TATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1469607 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * *
1469672 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTATTCATTCTGG-GAA
131 CGACAC-TTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTAATTCATTCTGGAAAA
*
1469736 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCATC-AAAACCGG
195 AAAATATCGACACAAACTATATTAGTATCGACACATTATTTAGACTTATTCTC-TCAAAAACCGG
1469800 TATAATTGTACCGGTTAGATTGAAA-ACATATTACATTATAC-TTTGGGTTCGATGATTTGGGAT
259 TATAATTGTACCGGTTAGATTGAAATACATATTACATTATACTTTTGGGTTCGATGATTTGGGAT
*
1469863 CGACACTTTTTATAT-GGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
324 CGACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTG-TTTTAATTCATTCTGG-AAA
1469927 AAAA
387 AAAA
1469931 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
1469996 ATTGTACCGG-TAGATT-AAAAATTACATATTACATTATACTTTGGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
1470059 CGACACTTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTAATTCATTCTGGAAAA
131 CGACAC-TTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTAATTCATTCTGGAAAA
1470124 AAAATATCGACACAAACTATATTAGTATCGACACATTATTTAGACTTATTCTCTCATAAAACCGG
195 AAAATATCGACACAAACTATATTAGTATCGACACATTATTTAGACTTATTCTCTCA-AAAACCGG
* * *
1470189 TATAATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGTTTCGATGATTTTG
259 TATAATTGTACCGGTTAGATTG--AAA-TACATATTACATTATACTTTTGGGTTCGATGATTTGG
*
1470254 GATCGACACTTTTTAATATATGGATCGACACTTTATTGATGC-CCTTGTTTTAATTCATTCTGGA
321 GATCGACACTTTTT-ATATATGGATCGACACTTTATTGGTGCACCTTGTTTTAATTCATTCTGGA
1470318 AAAAAA
385 AAAAAA
*
1470324 TATCCACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
1470389 ATTGTACCGGTTAGA-TAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
1470453 CGACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTG-TTTTAATTCATTCTGGAAAA
1470518 AAAATATCGACACAAACTATATTAGTATCGACA
195 AAAATATCGACACAAACTATATTAGTATCGACA
1470551 TGACCTTAAT
Statistics
Matches: 957, Mismatches: 23, Indels: 47
0.93 0.02 0.05
Matches are distributed among these distances:
384 94 0.10
385 83 0.09
386 90 0.09
387 165 0.17
388 91 0.10
389 88 0.09
390 22 0.02
391 5 0.01
393 134 0.14
394 156 0.16
395 9 0.01
396 20 0.02
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.37
Consensus pattern (390 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTAATTCATTCTGGAAAAA
AAATATCGACACAAACTATATTAGTATCGACACATTATTTAGACTTATTCTCTCAAAAACCGGTA
TAATTGTACCGGTTAGATTGAAATACATATTACATTATACTTTTGGGTTCGATGATTTGGGATCG
ACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTAATTCATTCTGGAAAAAAA
Found at i:1470654 original size:17 final size:17
Alignment explanation
Indices: 1470632--1470668 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
1470622 TCACATAAAA
1470632 AAATATAAATCGTATAC
1 AAATATAAATCGTATAC
*
1470649 AAATATAAATCTTATAC
1 AAATATAAATCGTATAC
1470666 AAA
1 AAA
1470669 ATTAACTCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.03, T:0.30
Consensus pattern (17 bp):
AAATATAAATCGTATAC
Found at i:1472409 original size:32 final size:33
Alignment explanation
Indices: 1472367--1472428 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 33
1472357 TTAATATCAC
*
1472367 CCCTTAACACCGAAACTTCTTTC-ACCACTTCA
1 CCCTCAACACCGAAACTTCTTTCAACCACTTCA
***
1472399 CCCTCAACACCTCTACTTCTTTCAACCACT
1 CCCTCAACACCGAAACTTCTTTCAACCACT
1472429 CCATCTATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
32 19 0.76
33 6 0.24
ACGTcount: A:0.26, C:0.44, G:0.02, T:0.29
Consensus pattern (33 bp):
CCCTCAACACCGAAACTTCTTTCAACCACTTCA
Found at i:1474533 original size:23 final size:23
Alignment explanation
Indices: 1474498--1474553 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
1474488 CCGTTCTATC
**
1474498 TATTTCAGAGGATAT-TTAGCTTA
1 TATTTCATCGGATATGTTA-CTTA
*
1474521 TATTTCATCGGATATGTTATTTA
1 TATTTCATCGGATATGTTACTTA
*
1474544 TATTTAATCG
1 TATTTCATCG
1474554 ATACAAATAC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 25 0.89
24 3 0.11
ACGTcount: A:0.29, C:0.09, G:0.14, T:0.48
Consensus pattern (23 bp):
TATTTCATCGGATATGTTACTTA
Found at i:1474880 original size:20 final size:19
Alignment explanation
Indices: 1474855--1474892 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
1474845 ACTTTTAAAT
1474855 TTACCGGTTTTATCATTTTG
1 TTACCGGTTTTATC-TTTTG
1474875 TTACCGGTTTTATCTTTT
1 TTACCGGTTTTATCTTTT
1474893 ACCTGGTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.13, C:0.16, G:0.13, T:0.58
Consensus pattern (19 bp):
TTACCGGTTTTATCTTTTG
Found at i:1475327 original size:220 final size:222
Alignment explanation
Indices: 1474964--1475399 Score: 670
Period size: 221 Copynumber: 2.0 Consensus size: 222
1474954 TAAAAACTGC
*
1474964 TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
1 TTTTAAAGTTATGTAATTTATGTTTCAAATTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
*
1475029 TTAATTTAATAATTTAATTTACACAATTTATTTGATGTTTTGATATTTTATAAAATATTATTTAG
66 TTAATTTAATAATTTAATTTACACAAATTATTTGATGTTTTGATATTTTATAAAATATTATTTAG
* * *
1475094 CATTTAAATTTAACAATATTAACCAAATATAAT-ATAAATATGTTTTAACAGTGAAATAAGTATG
131 CACTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTAACAGTGAAATAAGTATG
*
1475158 GACACTTTTATAAAAATGATATATACT
196 GACACTTTTATAAAAAGGATATATACT
1475185 TTTTGAAAG-TATGTAATTTATGTTTCAAATT-TTTAATAGTGTTTCATGTTTTCCACCTACAAT
1 TTTT-AAAGTTATGTAATTTATGTTTCAAATTATTTAATAGTGTTTCATGTTTTCCACCTACAAT
* * *
1475248 ATTTATTTAA-ATTTTCATTTACACAAAAATTATTTGAT-TGTTTGATA-TTTATAAAATATTAT
65 ATTAATTTAATAATTTAATTTACAC--AAATTATTTGATGT-TTTGATATTTTATAAAATATTAT
* * *
1475310 TTAG-ACTTATTATTTAACAATATTAACTAAAGATAATAATAAATATATTTTCACAGTGAAATAA
127 TTAGCACTTA-AATTTAACAATATTAACCAAAGATAATAATAAATATATTTTAACAGTGAAATAA
1475374 GTATGGACACTTTTATAAAAAGGATA
191 GTATGGACACTTTTATAAAAAGGATA
1475400 GATAATTTAC
Statistics
Matches: 197, Mismatches: 12, Indels: 12
0.89 0.05 0.05
Matches are distributed among these distances:
219 16 0.08
220 85 0.43
221 92 0.47
222 4 0.02
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (222 bp):
TTTTAAAGTTATGTAATTTATGTTTCAAATTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
TTAATTTAATAATTTAATTTACACAAATTATTTGATGTTTTGATATTTTATAAAATATTATTTAG
CACTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTAACAGTGAAATAAGTATG
GACACTTTTATAAAAAGGATATATACT
Found at i:1476847 original size:30 final size:31
Alignment explanation
Indices: 1476787--1476857 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
1476777 AATTTTAAGA
* * *
1476787 ATTAAATTAATATTTTGTTTAAAATTTAGAT
1 ATTAAATTAATATTGTATATAAAATTTAGAT
*
1476818 ATTAAATTAATA-TGTATATAAAGTTTAGAT
1 ATTAAATTAATATTGTATATAAAATTTAGAT
* *
1476848 GTAAAATTAA
1 ATTAAATTAA
1476858 AATTTAATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
30 22 0.65
31 12 0.35
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.45
Consensus pattern (31 bp):
ATTAAATTAATATTGTATATAAAATTTAGAT
Found at i:1488607 original size:2 final size:2
Alignment explanation
Indices: 1488594--1488632 Score: 69
Period size: 2 Copynumber: 19.0 Consensus size: 2
1488584 CTAATTTTCA
1488594 AT AT AT AGT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1488633 CTTTGCATCA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 34 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1489893 original size:56 final size:56
Alignment explanation
Indices: 1489808--1489920 Score: 210
Period size: 56 Copynumber: 2.0 Consensus size: 56
1489798 TATATTTCAA
1489808 AGTGTAGGGTTTAAATGAATCAAGCTTGACCTAATAGACTTTTATT-ATGTTTGTT
1 AGTGTAGGGTTTAAATGAATCAAGCTTGACCTAATAGACTTTTATTAATGTTTGTT
1489863 AGTGTAGGGTTTTAAATGAATCAAGCTTGACCTAATAGACTTTTATTAATGTTTGTT
1 AGTGTAGGG-TTTAAATGAATCAAGCTTGACCTAATAGACTTTTATTAATGTTTGTT
1489920 A
1 A
1489921 ATTTTCAACT
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
55 9 0.16
56 37 0.66
57 10 0.18
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (56 bp):
AGTGTAGGGTTTAAATGAATCAAGCTTGACCTAATAGACTTTTATTAATGTTTGTT
Found at i:1491000 original size:22 final size:22
Alignment explanation
Indices: 1490972--1491042 Score: 85
Period size: 22 Copynumber: 3.4 Consensus size: 22
1490962 TTTCATTTCG
1490972 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
* * **
1490994 CGTTGCGAT--TTTCCAAAT-T
1 CGTTGCGATAGTCTACAGTTGT
1491013 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
1491035 CGTTGCGA
1 CGTTGCGA
1491043 AAATTCGTTG
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
19 10 0.26
20 5 0.13
21 5 0.13
22 18 0.47
ACGTcount: A:0.18, C:0.20, G:0.25, T:0.37
Consensus pattern (22 bp):
CGTTGCGATAGTCTACAGTTGT
Found at i:1491058 original size:35 final size:36
Alignment explanation
Indices: 1490972--1491059 Score: 115
Period size: 41 Copynumber: 2.3 Consensus size: 36
1490962 TTTCATTTCG
1490972 CGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATT
1 CGTTGCGATAGTCTACAGTTGTCGTTGCGA---T--AAATT
1491013 CGTTGCGATAGTCTACAGTTGTCGTTGCGA-AAATT
1 CGTTGCGATAGTCTACAGTTGTCGTTGCGATAAATT
*
1491048 CGTTGTGATAGT
1 CGTTGCGATAGT
1491060 TAAAAAAAGA
Statistics
Matches: 46, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
35 16 0.35
41 30 0.65
ACGTcount: A:0.20, C:0.17, G:0.25, T:0.38
Consensus pattern (36 bp):
CGTTGCGATAGTCTACAGTTGTCGTTGCGATAAATT
Found at i:1491750 original size:41 final size:41
Alignment explanation
Indices: 1491659--1491764 Score: 128
Period size: 41 Copynumber: 2.6 Consensus size: 41
1491649 AAAATCTTTT
*
1491659 TTTTAACTATCGCAA--CGAATTTGAAAAATCGCAACGACAA
1 TTTTAACTATCGCAACGCGAA-ATGAAAAATCGCAACGACAA
* * *
1491699 CTGTAGACTATCGCAACGCGAAATGAAAAATCGCAAC-ACGA
1 TTTTA-ACTATCGCAACGCGAAATGAAAAATCGCAACGACAA
1491740 TTTTCAACTATCGCAACGCGAAATG
1 TTTT-AACTATCGCAACGCGAAATG
1491765 TTTCAACTAT
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
40 3 0.05
41 34 0.61
42 15 0.27
43 4 0.07
ACGTcount: A:0.40, C:0.23, G:0.16, T:0.22
Consensus pattern (41 bp):
TTTTAACTATCGCAACGCGAAATGAAAAATCGCAACGACAA
Found at i:1491772 original size:24 final size:24
Alignment explanation
Indices: 1491741--1491788 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
1491731 GCAACACGAT
1491741 TTTCAACTATCGCAACGCGAAATG
1 TTTCAACTATCGCAACGCGAAATG
1491765 TTTCAACTATCGCAACGCGAAATG
1 TTTCAACTATCGCAACGCGAAATG
1491789 AAAAATTGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (24 bp):
TTTCAACTATCGCAACGCGAAATG
Found at i:1491778 original size:65 final size:65
Alignment explanation
Indices: 1491705--1491829 Score: 232
Period size: 65 Copynumber: 1.9 Consensus size: 65
1491695 ACAACTGTAG
1491705 ACTATCGCAACGCGAAATGAAAAATCGCAACACGATTTTCAACTATCGCAACGCGAAATGTTTCA
1 ACTATCGCAACGCGAAATGAAAAATCGCAACACGATTTTCAACTATCGCAACGCGAAATGTTTCA
* *
1491770 ACTATCGCAACGCGAAATGAAAAATTGCAACGCGATTTTCAACTATCGCAACGCGAAATG
1 ACTATCGCAACGCGAAATGAAAAATCGCAACACGATTTTCAACTATCGCAACGCGAAATG
1491830 GAAAATTGCA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 58 1.00
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.21
Consensus pattern (65 bp):
ACTATCGCAACGCGAAATGAAAAATCGCAACACGATTTTCAACTATCGCAACGCGAAATGTTTCA
Found at i:1491814 original size:41 final size:41
Alignment explanation
Indices: 1491749--1491952 Score: 302
Period size: 41 Copynumber: 4.9 Consensus size: 41
1491739 ATTTTCAACT
*
1491749 ATCGCAACGCGAAATGTTTCAACTATCGCAACGCGAAATGAAAA
1 ATCGCAACGCG--AT-TTTCAACTATCGCAACGCGAAATGGAAA
*
1491793 ATTGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAA
*
1491834 ATTGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAA
* * *
1491875 AGCGCAATGCGATTTTCAACTATTGCAACGCGAAATGGAAA
1 ATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAA
*
1491916 ATCGCAACGCG-TTTGTCAACTATCGCAACACGAAATG
1 ATCGCAACGCGATTT-TCAACTATCGCAACGCGAAATG
1491953 CAACGCGAAT
Statistics
Matches: 149, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
40 3 0.02
41 134 0.90
42 2 0.01
44 10 0.07
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.21
Consensus pattern (41 bp):
ATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAA
Found at i:1492286 original size:153 final size:153
Alignment explanation
Indices: 1492008--1492315 Score: 600
Period size: 153 Copynumber: 2.0 Consensus size: 153
1491998 CGCATTACGA
1492008 TTTTGTTGGTCATTTTCGTAAATCTAAAAAAATTGGTCAAAATCGTATATTATCTAAGATTTTTG
1 TTTTGTTGGTCATTTTCGTAAATCTAAAAAAATTGGTCAAAATCGTATATTATCTAAGATTTTTG
1492073 ATCACTGAGATTATTTTATCTTAAAAAAAAAGTTGGGAGACCAGGACTGAGAGTTACGTGTGATG
66 ATCACTGAGATTATTTTATCTTAAAAAAAAAGTTGGGAGACCAGGACTGAGAGTTACGTGTGATG
1492138 GCTCCCAATCACGTGATACGATT
131 GCTCCCAATCACGTGATACGATT
1492161 TTTTGTTGGTCATTTTCGTAAATCTAAAAAAATTGGTCAAAATCGTATATTATCTAAGATTTTTG
1 TTTTGTTGGTCATTTTCGTAAATCTAAAAAAATTGGTCAAAATCGTATATTATCTAAGATTTTTG
1492226 ATCACTGAGATTATTTTATCTTAAAAAAAAAAG-TGGGAGACCAGGACTGAGAGTTACGTGTGAT
66 ATCACTGAGATTATTTTATCTT-AAAAAAAAAGTTGGGAGACCAGGACTGAGAGTTACGTGTGAT
1492290 GGCTCCCAATCACGTGATACGATT
130 GGCTCCCAATCACGTGATACGATT
1492314 TT
1 TT
1492316 GCACGTGCTA
Statistics
Matches: 154, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
153 144 0.94
154 10 0.06
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (153 bp):
TTTTGTTGGTCATTTTCGTAAATCTAAAAAAATTGGTCAAAATCGTATATTATCTAAGATTTTTG
ATCACTGAGATTATTTTATCTTAAAAAAAAAGTTGGGAGACCAGGACTGAGAGTTACGTGTGATG
GCTCCCAATCACGTGATACGATT
Found at i:1493553 original size:20 final size:20
Alignment explanation
Indices: 1493528--1493566 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
1493518 TTAAATAGTT
*
1493528 ACATTATATGTAAT-ATCTAC
1 ACATTAAATG-AATCATCTAC
1493548 ACATTAAATGAATCATCTA
1 ACATTAAATGAATCATCTA
1493567 TATGTAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.44, C:0.15, G:0.05, T:0.36
Consensus pattern (20 bp):
ACATTAAATGAATCATCTAC
Found at i:1494642 original size:24 final size:23
Alignment explanation
Indices: 1494589--1494643 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
1494579 GTGTGATTGG
* **
1494589 TATAATTATATTATATAATTTAT
1 TATAATAATATTATATAAAATAT
*
1494612 AATTAATAATATTATATAAAATATT
1 TA-TAATAATATTATATAAAATA-T
1494637 TATAATA
1 TATAATA
1494644 TAATATTTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
23 1 0.04
24 22 0.88
25 2 0.08
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
TATAATAATATTATATAAAATAT
Found at i:1494650 original size:14 final size:14
Alignment explanation
Indices: 1494606--1494653 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
1494596 ATATTATATA
1494606 ATTTATAAT-TAAT
1 ATTTATAATATAAT
*
1494619 AATATTAT-ATAAAAT
1 -AT-TTATAATATAAT
1494634 ATTTATAATATAAT
1 ATTTATAATATAAT
1494648 ATTTAT
1 ATTTAT
1494654 TCAAAATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
13 4 0.14
14 18 0.62
15 7 0.24
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
ATTTATAATATAAT
Found at i:1496442 original size:23 final size:23
Alignment explanation
Indices: 1496416--1496460 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
1496406 CTGTTTGTTG
1496416 TAAAT-ATTGATTTTAATTAAATC
1 TAAATCATTGA-TTTAATTAAATC
* *
1496439 TAAATCATTTATTTATTTAAAT
1 TAAATCATTGATTTAATTAAAT
1496461 TTAATGCTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.51
Consensus pattern (23 bp):
TAAATCATTGATTTAATTAAATC
Found at i:1496519 original size:2 final size:2
Alignment explanation
Indices: 1496512--1496552 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
1496502 AATGTAAGTG
1496512 TA TA 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 TA TA T
1496553 GATTTAATTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1498919 original size:15 final size:13
Alignment explanation
Indices: 1498893--1498940 Score: 51
Period size: 15 Copynumber: 3.4 Consensus size: 13
1498883 AAGTAAAATC
1498893 AAAAAAAATTTTA
1 AAAAAAAATTTTA
1498906 AAAAAAAGAGTTTTA
1 AAAAAAA-A-TTTTA
*
1498921 ATAAAAAAATATATA
1 A-AAAAAAAT-TTTA
1498936 AAAAA
1 AAAAA
1498941 TATAATAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
13 7 0.23
14 6 0.20
15 11 0.37
16 6 0.20
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (13 bp):
AAAAAAAATTTTA
Found at i:1503852 original size:2 final size:2
Alignment explanation
Indices: 1503845--1503910 Score: 118
Period size: 2 Copynumber: 34.0 Consensus size: 2
1503835 TTACATAGCA
1503845 AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1503886 A- AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
1503911 TGATATTTTA
Statistics
Matches: 62, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
1 2 0.03
2 60 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1505424 original size:25 final size:26
Alignment explanation
Indices: 1505370--1505427 Score: 66
Period size: 25 Copynumber: 2.2 Consensus size: 26
1505360 TAACAAAATT
**
1505370 ATTGTATTACTAATAATTATTTATGTA
1 ATTGTATTAC-AATAATTATTTATCAA
1505397 ATTGTATTA-AATAATTTATTT-TCAA
1 ATTGTATTACAATAA-TTATTTATCAA
1505422 ATTGTA
1 ATTGTA
1505428 GCGAGAAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 13 0.46
26 6 0.21
27 9 0.32
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.52
Consensus pattern (26 bp):
ATTGTATTACAATAATTATTTATCAA
Found at i:1510979 original size:36 final size:36
Alignment explanation
Indices: 1510939--1511010 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
1510929 TAGAGGAATA
1510939 TAATGGGTTGGATTCGGATTATGAGAAATTGTTTTT
1 TAATGGGTTGGATTCGGATTATGAGAAATTGTTTTT
1510975 TAATGGGTTGGATTCGGATTATGAGAAATTGTTTTT
1 TAATGGGTTGGATTCGGATTATGAGAAATTGTTTTT
1511011 AAAATATAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.25, C:0.03, G:0.28, T:0.44
Consensus pattern (36 bp):
TAATGGGTTGGATTCGGATTATGAGAAATTGTTTTT
Found at i:1514866 original size:21 final size:21
Alignment explanation
Indices: 1514840--1514910 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 21
1514830 AGGAAATCGA
*
1514840 TCCCCCCATGAGGGTACCGAT
1 TCCCCCCATGAGGGAACCGAT
**
1514861 TCCCCCTTTGAAGGGGAACCGAT
1 TCCCCCCATG-A-GGGAACCGAT
*
1514884 TCCCCCCAT-AGGGGAATCGAT
1 TCCCCCCATGA-GGGAACCGAT
*
1514905 ACCCCC
1 TCCCCC
1514911 TGGGGTTCTG
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
21 24 0.59
22 1 0.02
23 16 0.39
ACGTcount: A:0.21, C:0.38, G:0.23, T:0.18
Consensus pattern (21 bp):
TCCCCCCATGAGGGAACCGAT
Found at i:1519873 original size:16 final size:16
Alignment explanation
Indices: 1519854--1519888 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
1519844 TATTTCATTA
* *
1519854 ACCGTATATTAAAACT
1 ACCGTACATCAAAACT
1519870 ACCGTACATCAAAACT
1 ACCGTACATCAAAACT
1519886 ACC
1 ACC
1519889 CTTAAAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.43, C:0.29, G:0.06, T:0.23
Consensus pattern (16 bp):
ACCGTACATCAAAACT
Found at i:1551340 original size:28 final size:28
Alignment explanation
Indices: 1551309--1551372 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 28
1551299 TTATTAGTTT
1551309 TAATATATGGTCGACTCTGCCACCTAAA
1 TAATATATGGTCGACTCTGCCACCTAAA
* * * *
1551337 TAATATATGGTCGGCTTTGCCTCTTAAA
1 TAATATATGGTCGACTCTGCCACCTAAA
*
1551365 TGATATAT
1 TAATATAT
1551373 AGTCAGTCCG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.36
Consensus pattern (28 bp):
TAATATATGGTCGACTCTGCCACCTAAA
Found at i:1555646 original size:20 final size:20
Alignment explanation
Indices: 1555617--1555670 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
1555607 ATAGAATATT
*
1555617 ATATATTATTATAAAATAACTGA
1 ATATATTA-T-TAAAAT-ACTAA
*
1555640 ATATATTATTATAATACTAA
1 ATATATTATTAAAATACTAA
1555660 ATATATT-TTAA
1 ATATATTATTAA
1555671 TAACTAATGC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 3 0.11
20 11 0.39
21 5 0.18
22 1 0.04
23 8 0.29
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (20 bp):
ATATATTATTAAAATACTAA
Found at i:1555663 original size:18 final size:20
Alignment explanation
Indices: 1555617--1555678 Score: 67
Period size: 23 Copynumber: 3.1 Consensus size: 20
1555607 ATAGAATATT
1555617 ATATATTATTATAAAATAACTGA
1 ATATATTATTAT--AATAACT-A
1555640 ATATATTATTATAAT-ACTA
1 ATATATTATTATAATAACTA
*
1555659 A-ATA-TATTTTAATAACTA
1 ATATATTATTATAATAACTA
1555677 AT
1 AT
1555679 GCATTTATTA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
17 8 0.22
18 8 0.22
19 2 0.06
20 3 0.08
21 3 0.08
23 12 0.33
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.44
Consensus pattern (20 bp):
ATATATTATTATAATAACTA
Found at i:1566861 original size:10 final size:10
Alignment explanation
Indices: 1566846--1566901 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 10
1566836 TCATTTTTTA
1566846 AAAAATCAAT
1 AAAAATCAAT
1566856 AAAAATACAAT
1 AAAAAT-CAAT
*
1566867 AAAAA-AAATT
1 AAAAATCAA-T
* *
1566877 AAAAGTGAAT
1 AAAAATCAAT
*
1566887 AAAATTCAAT
1 AAAAATCAAT
1566897 AAAAA
1 AAAAA
1566902 AAGAATGTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 2 0.05
10 24 0.65
11 11 0.30
ACGTcount: A:0.71, C:0.05, G:0.04, T:0.20
Consensus pattern (10 bp):
AAAAATCAAT
Found at i:1567377 original size:334 final size:332
Alignment explanation
Indices: 1566974--1567650 Score: 1028
Period size: 335 Copynumber: 2.0 Consensus size: 332
1566964 TAAAAAATAT
* *
1566974 AAAATCAAAATAATTTTATTAAAATGAATAAACATTATCAACTTTTGTTAAAAAATAATAATTAA
1 AAAATCAAAATAATTTTATTAAAATAAATAAACATTATCAACTGTTGTTAAAAAATAATAATTAA
*
1567039 TGAATAATAATTCATTTAATCCCTCAATTGTAATTAAAAGTTTA-TTTTAATATTTTAATATTTT
66 TGAATAATAATTCATTTAATCCCTCAATTGTAATTAAAAATTTATTTTTAATATTTTAATATTTT
* *
1567103 TAAACAATTAATTTTAAAGGTCAATAAATTTTTTAAAAATATATGAAATTTATAATTTTTT-AAA
131 TAAACAATTAATTTTAAAAGTCAATAAATTTTTTAAAAATATATAAAATTTAT-ATTTTTTAAAA
1567167 TTATAAAATATTTACCATCATTATCATCATCATTTTGTAAAA-AAATACTAGTTAT-AAA-TTTT
195 TTATAAAATATTT---ATC---ATCATCATCATTTTGTAAAAGAAATACTAGTTATAAAACTTTT
* * *
1567229 ATAAATTTATTCATATTTTAAAATACTTACCCTCAAAG-TTTTCATATATTAGATTATACATATT
254 ATAAAATTATTCATATTTTAAAATACTTACCCTCAAAGTTTTTC-TATACTAAATTATACATATT
*
1567293 GTGT-ATTTTTATGCA
318 GTGTAATTTCT-TGCA
1567308 AAAATCAAAATAATTTTATTAAAAATAAATAAACATTATCAACTGTTGTT-AAAAATAATAATTA
1 AAAATCAAAATAATTTTATT-AAAATAAATAAACATTATCAACTGTTGTTAAAAAATAATAATTA
* * * * *
1567372 ATGAATAATAATTCATTTGATCTCTCGATTGTAATTAAAAATTTATTTTTGATATTTTTATATTT
65 ATGAATAATAATTCATTTAATCCCTCAATTGTAATTAAAAATTTATTTTTAATATTTTAATATTT
*
1567437 TTAAACAATTAATTTTAAAAGTCAATAAATTTTTTTAAAATATATAAAATTTATATTTTTTAAAA
130 TTAAACAATTAATTTTAAAAGTCAATAAATTTTTTAAAAATATATAAAATTTATATTTTTTAAAA
* *
1567502 TTATAAAATATTTATCATCATCATCATTTTGTAAAAGAAATATTAGTTTTAAAACTTTTATAAAA
195 TTATAAAATATTTATCATCATCATCATTTTGTAAAAGAAATACTAGTTATAAAACTTTTATAAAA
* * *
1567567 TTATTCATATTTTAAAATAGTTACCTTCAAAGTTTTTCTATACTAAATTATACGTATTGTGTAAT
260 TTATTCATATTTTAAAATACTTACCCTCAAAGTTTTTCTATACTAAATTATACATATTGTGTAAT
1567632 TTCTTGCA
325 TTCTTGCA
1567640 AAAATCAAAAT
1 AAAATCAAAAT
1567651 TTATCGAGTT
Statistics
Matches: 315, Mismatches: 20, Indels: 18
0.89 0.06 0.05
Matches are distributed among these distances:
329 20 0.06
330 11 0.03
331 3 0.01
332 78 0.25
333 10 0.03
334 82 0.26
335 111 0.35
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.44
Consensus pattern (332 bp):
AAAATCAAAATAATTTTATTAAAATAAATAAACATTATCAACTGTTGTTAAAAAATAATAATTAA
TGAATAATAATTCATTTAATCCCTCAATTGTAATTAAAAATTTATTTTTAATATTTTAATATTTT
TAAACAATTAATTTTAAAAGTCAATAAATTTTTTAAAAATATATAAAATTTATATTTTTTAAAAT
TATAAAATATTTATCATCATCATCATTTTGTAAAAGAAATACTAGTTATAAAACTTTTATAAAAT
TATTCATATTTTAAAATACTTACCCTCAAAGTTTTTCTATACTAAATTATACATATTGTGTAATT
TCTTGCA
Found at i:1579343 original size:36 final size:35
Alignment explanation
Indices: 1579302--1579370 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
1579292 AAGTCTCTGC
* * *
1579302 AGGTTCAACTTGGATCAAGCTGGTAATTCCTTATAT
1 AGGTTCAACATCGATC-AGCTAGTAATTCCTTATAT
* *
1579338 AGGTTCAGCATCGATCAGTTAGTAATTCCTTAT
1 AGGTTCAACATCGATCAGCTAGTAATTCCTTAT
1579371 GAACCTAAGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
35 15 0.54
36 13 0.46
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (35 bp):
AGGTTCAACATCGATCAGCTAGTAATTCCTTATAT
Found at i:1581191 original size:21 final size:21
Alignment explanation
Indices: 1581167--1581358 Score: 91
Period size: 21 Copynumber: 9.2 Consensus size: 21
1581157 GATTCGCAAC
1581167 GCGATAGTCGAAGTTCGCGTT
1 GCGATAGTCGAAGTTCGCGTT
* * *
1581188 GCGATTCATTCCAAATT--CGTT
1 GCGA-T-AGTCGAAGTTCGCGTT
1581209 GCGATAGTCGAAGTTCGCGTT
1 GCGATAGTCGAAGTTCGCGTT
* * *
1581230 GCGATTCATTCCAAATT--CGTT
1 GCGA-T-AGTCGAAGTTCGCGTT
* *
1581251 GCGATAGGCGAAGTTCGCATT
1 GCGATAGTCGAAGTTCGCGTT
*
1581272 GCGATTCATTCCG-A-TT--CGTT
1 GCGA-T-AGT-CGAAGTTCGCGTT
* *
1581292 GCGATAGACGAAGTTCGCATT
1 GCGATAGTCGAAGTTCGCGTT
* *
1581313 GCGATTCATTCCAA-TT--CGTT
1 GCGA-T-AGTCGAAGTTCGCGTT
* *
1581333 GCGACAGGCGAAGTTCGCGTT
1 GCGATAGTCGAAGTTCGCGTT
1581354 GCGAT
1 GCGAT
1581359 TCATTCCAAA
Statistics
Matches: 122, Mismatches: 29, Indels: 40
0.64 0.15 0.21
Matches are distributed among these distances:
17 2 0.02
18 6 0.05
19 18 0.15
20 16 0.13
21 50 0.41
22 8 0.07
23 20 0.16
24 2 0.02
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.31
Consensus pattern (21 bp):
GCGATAGTCGAAGTTCGCGTT
Found at i:1581219 original size:42 final size:42
Alignment explanation
Indices: 1581167--1581383 Score: 357
Period size: 42 Copynumber: 5.2 Consensus size: 42
1581157 GATTCGCAAC
1581167 GCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAATTCGTT
1 GCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAATTCGTT
1581209 GCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAATTCGTT
1 GCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAATTCGTT
* * *
1581251 GCGATAGGCGAAGTTCGCATTGCGATTCATTCC-GATTCGTT
1 GCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAATTCGTT
* *
1581292 GCGATAGACGAAGTTCGCATTGCGATTCATTCC-AATTCGTT
1 GCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAATTCGTT
* *
1581333 GCGACAGGCGAAGTTCGCGTTGCGATTCATTCCAAATTCGTT
1 GCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAATTCGTT
1581375 GCGATAGTC
1 GCGATAGTC
1581384 CAAAAAAAAT
Statistics
Matches: 164, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
41 76 0.46
42 88 0.54
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (42 bp):
GCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAATTCGTT
Found at i:1581595 original size:14 final size:15
Alignment explanation
Indices: 1581569--1581597 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1581559 AGATCGAATC
1581569 ATATTATAATTAAAT
1 ATATTATAATTAAAT
1581584 ATATTA-AATTAAAT
1 ATATTATAATTAAAT
1581598 TAAAATTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATATTATAATTAAAT
Found at i:1587331 original size:21 final size:22
Alignment explanation
Indices: 1587292--1587338 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
1587282 CAAAATTCAC
*
1587292 AATCCATCATTTATCAACTCAA
1 AATCCAACATTTATCAACTCAA
* *
1587314 AATCCAAC-TTTATGAACTCAG
1 AATCCAACATTTATCAACTCAA
1587335 AATC
1 AATC
1587339 AATCCATATC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.40, C:0.26, G:0.04, T:0.30
Consensus pattern (22 bp):
AATCCAACATTTATCAACTCAA
Found at i:1593637 original size:3 final size:3
Alignment explanation
Indices: 1593629--1593668 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
1593619 ATTAATAAAC
1593629 ATA ATA ATA ATAA ATA ATA ATA ATA ATA ATA ATA A-A ATA A
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1593669 CGATAAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.86
4 3 0.09
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:1593654 original size:22 final size:22
Alignment explanation
Indices: 1593621--1593664 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
1593611 AATATGTAAT
1593621 TAATAAACATAATAATAATAAA
1 TAATAAACATAATAATAATAAA
1593643 TAATAATA-ATAATAATAATAAA
1 TAATAA-ACATAATAATAATAAA
1593665 ATAACGATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (22 bp):
TAATAAACATAATAATAATAAA
Found at i:1594038 original size:46 final size:44
Alignment explanation
Indices: 1593860--1594412 Score: 176
Period size: 40 Copynumber: 13.0 Consensus size: 44
1593850 AGTTCTGGCC
** *
1593860 ATCTAAAGGTGATAACACGATTCCTACGTGATGAGGACGGCTGGTT
1 ATCT-AAGG-GATAACACGGCTCCTACGTGATGAGGATGGCTGGTT
* *
1593906 ATCT-AGGG-TGACACGGCTCATACGTGATGAAGAGAT--CTGG--
1 ATCTAAGGGATAACACGGCTCCTACGTGATG-AG-GATGGCTGGTT
* * * * **
1593946 -TC---GGAGAAAGACACGGCTCATACGTGATGAAGA-GTTCTGGCC
1 ATCTAAGG-GATA-ACACGGCTCCTACGTGATGAGGATG-GCTGGTT
* *
1593988 ATCTAAAGGTGATAATACGGTTCCTACGTGATGAGGATGGCTGGTT
1 ATCT-AAGG-GATAACACGGCTCCTACGTGATGAGGATGGCTGGTT
*
1594034 ATCTAAGGG-TGACACGGCTCCTACGTGATGAAGAGAT--CTGG--
1 ATCTAAGGGATAACACGGCTCCTACGTGATG-AG-GATGGCTGGTT
* * * * **
1594075 -TC---GGAGAAAGACACGGCTCATACGTGATGAAGA-GTTCTGGCC
1 ATCTAAGG-GATA-ACACGGCTCCTACGTGATGAGGATG-GCTGGTT
* * * *
1594117 ATCTAAAGGTGATAATACAGTTCCTACGTGATGAGGACGGCTGGTT
1 ATCT-AAGG-GATAACACGGCTCCTACGTGATGAGGATGGCTGGTT
* * *
1594163 ATCTAAGGG-TGACACGGCTCCTACGTGATGAGGA-GATCTGGTC
1 ATCTAAGGGATAACACGGCTCCTACGTGATGAGGATG-GCTGGTT
* * * *
1594206 AGCT----GATGACACGGCTCATACGTGATGAAGAGAT--CTGGTC
1 ATCTAAGGGATAACACGGCTCCTACGTGATG-AG-GATGGCTGGTT
* * * * * **
1594246 AGCT----GATGACACGGCTCATACGTGATGAAGA-GTTCTGGCC
1 ATCTAAGGGATAACACGGCTCCTACGTGATGAGGATG-GCTGGTT
* *
1594286 ATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTT
1 ATCT-AAGG-GATAACACGGCTCCTACGTGATGAGGATGGCTGGTT
* * * * * *
1594332 ATCT-ATGGTTGACACGGCTCCTACGTGATGAAGA--GCT-CTG
1 ATCTAAGGGATAACACGGCTCCTACGTGATGAGGATGGCTGGTT
* * * * *
1594372 ATCT-GGGGATGACACGGTTCCTACATGATGAGGACGGCTGG
1 ATCTAAGGGATAACACGGCTCCTACGTGATGAGGATGGCTGG
1594413 CCATCTTTAG
Statistics
Matches: 391, Mismatches: 66, Indels: 103
0.70 0.12 0.18
Matches are distributed among these distances:
37 4 0.01
38 8 0.02
39 6 0.02
40 137 0.35
41 5 0.01
42 27 0.07
43 81 0.21
44 11 0.03
45 11 0.03
46 88 0.23
47 13 0.03
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (44 bp):
ATCTAAGGGATAACACGGCTCCTACGTGATGAGGATGGCTGGTT
Found at i:1594109 original size:129 final size:129
Alignment explanation
Indices: 1593835--1594243 Score: 705
Period size: 129 Copynumber: 3.2 Consensus size: 129
1593825 ACGACACTGT
* *
1593835 TCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGATTCCTACGTGATGAGGACGG
1 TCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAATACGGTTCCTACGTGATGAGGACGG
*
1593900 CTGGTTATCT-AGGGTGACACGGCTCATACGTGATGAAGAGATCTGGTCGGAGAAAGACACGGC
66 CTGGTTATCTAAGGGTGACACGGCTCCTACGTGATGAAGAGATCTGGTCGGAGAAAGACACGGC
*
1593963 TCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAATACGGTTCCTACGTGATGAGGATGG
1 TCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAATACGGTTCCTACGTGATGAGGACGG
1594028 CTGGTTATCTAAGGGTGACACGGCTCCTACGTGATGAAGAGATCTGGTCGGAGAAAGACACGGC
66 CTGGTTATCTAAGGGTGACACGGCTCCTACGTGATGAAGAGATCTGGTCGGAGAAAGACACGGC
*
1594092 TCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAATACAGTTCCTACGTGATGAGGACGG
1 TCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAATACGGTTCCTACGTGATGAGGACGG
* ** *
1594157 CTGGTTATCTAAGGGTGACACGGCTCCTACGTGATGAGGAGATCTGGTCAGCTG-ATGACACGGC
66 CTGGTTATCTAAGGGTGACACGGCTCCTACGTGATGAAGAGATCTGGTC-GGAGAAAGACACGGC
*
1594221 TCATACGTGATGAAGAGATCTGG
1 TCATACGTGATGAAGAGTTCTGG
1594244 TCAGCTGATG
Statistics
Matches: 268, Mismatches: 11, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
128 72 0.27
129 194 0.72
130 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (129 bp):
TCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAATACGGTTCCTACGTGATGAGGACGG
CTGGTTATCTAAGGGTGACACGGCTCCTACGTGATGAAGAGATCTGGTCGGAGAAAGACACGGC
Found at i:1594218 original size:169 final size:169
Alignment explanation
Indices: 1594043--1594402 Score: 560
Period size: 169 Copynumber: 2.1 Consensus size: 169
1594033 TATCTAAGGG
*
1594043 TGACACGGCTCCTACGTGATGAAGAGATCTGGTC-GGAGAAAGACACGGCTCATACGTGATGAAG
1 TGACACGGCTCCTACGTGATGAAGAGATCTGGTCAGCAG-AAGACACGGCTCATACGTGATGAAG
*
1594107 AGTTCTGGCCATCTAAAGGTGATAATACAGTTCCTACGTGATGAGGACGGCTGGTTATCTAAGGG
65 AGTTCTGGCCATCTAAAGGTGATAACACAGTTCCTACGTGATGAGGACGGCTGGTTATCTAAGGG
* * *
1594172 TGACACGGCTCCTACGTGATGAGGAGATCTGGTCAGCTGA
130 TGACACGGCTCCTACGTGATGAAGAGATCTGATCAGCGGA
* * *
1594212 TGACACGGCTCATACGTGATGAAGAGATCTGGTCAGCTGATGACACGGCTCATACGTGATGAAGA
1 TGACACGGCTCCTACGTGATGAAGAGATCTGGTCAGCAGAAGACACGGCTCATACGTGATGAAGA
* * *
1594277 GTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTT
66 GTTCTGGCCATCTAAAGGTGATAACACAGTTCCTACGTGATGAGGACGGCTGGTTATCTAAGGGT
* * *
1594342 GACACGGCTCCTACGTGATGAAGAGCTCTGATCTGGGGA
131 GACACGGCTCCTACGTGATGAAGAGATCTGATCAGCGGA
* *
1594381 TGACACGGTTCCTACATGATGA
1 TGACACGGCTCCTACGTGATGA
1594403 GGACGGCTGG
Statistics
Matches: 173, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
169 171 0.99
170 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (169 bp):
TGACACGGCTCCTACGTGATGAAGAGATCTGGTCAGCAGAAGACACGGCTCATACGTGATGAAGA
GTTCTGGCCATCTAAAGGTGATAACACAGTTCCTACGTGATGAGGACGGCTGGTTATCTAAGGGT
GACACGGCTCCTACGTGATGAAGAGATCTGATCAGCGGA
Found at i:1594408 original size:83 final size:83
Alignment explanation
Indices: 1593867--1594412 Score: 314
Period size: 83 Copynumber: 6.4 Consensus size: 83
1593857 GCCATCTAAA
* * * *
1593867 GGTGATAACACGATTCCTACGTGATGAGGACGGCTGGTTATCTA-GGGTGACACGGCTCATACGT
1 GGTGATGACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGATGACACGGCTCCTACGT
*
1593931 GATGAAGAGATCTGGTC-
66 GATGAAGAGATCTGATCT
* * * * * * ** * * * *
1593948 GGAGAAAGACACGGCTCATACGTGATGAAGA-GTTCTGGCCATCTAAAGGTGATAATACGGTTCC
1 GGTG-ATGACACGGTTCCTACGTGATGAGGACG-GCTGGTTATCT--ATG-GATGACACGGCTCC
1594012 TACGTGATG-AG-GATGGCTGGTTATCT
61 TACGTGATGAAGAGAT--CT-G--ATCT
* * * * * * *
1594038 AAGG-G-TGACACGGCTCCTACGTGATGAAGA-GATCTGG---TCGGA-GAAAGACACGGCTCAT
1 --GGTGATGACACGGTTCCTACGTGATGAGGACG-GCTGGTTATC-TATGGATGACACGGCTCCT
*
1594096 ACGTGATGAAGAGTTCTGGCCATCT
62 ACGTGATGAAGAGATCT-G--ATCT
* * * * *
1594121 AAAGGTGATAATACAGTTCCTACGTGATGAGGACGGCTGGTTATCTAAGGGTGACACGGCTCCTA
1 ---GGTGATGACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGATGACACGGCTCCTA
* * *
1594186 CGTGATGAGGAGATCTGGTCA
63 CGTGATGAAGAGATCTGATCT
* * * * * * * *
1594207 GCTGATGACACGGCTCATACGTGATGAAGA-GATCTGGTCAGC--T-GATGACACGGCTCATACG
1 GGTGATGACACGGTTCCTACGTGATGAGGACG-GCTGGTTATCTATGGATGACACGGCTCCTACG
*
1594268 TGATGAAGAGTTCTGGCCATCT
65 TGATGAAGAGATCT-G--ATCT
* *
1594290 AAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTA
1 ---GGTGATGACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGATGACACGGCTCCTA
*
1594355 CGTGATGAAGAGCTCTGATCT
63 CGTGATGAAGAGATCTGATCT
* *
1594376 GGGGATGACACGGTTCCTACATGATGAGGACGGCTGG
1 GGTGATGACACGGTTCCTACGTGATGAGGACGGCTGG
1594413 CCATCTTTAG
Statistics
Matches: 354, Mismatches: 75, Indels: 70
0.71 0.15 0.14
Matches are distributed among these distances:
80 28 0.08
81 5 0.01
82 29 0.08
83 91 0.26
84 11 0.03
85 7 0.02
86 84 0.24
87 3 0.01
88 4 0.01
89 89 0.25
91 1 0.00
92 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (83 bp):
GGTGATGACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGATGACACGGCTCCTACGT
GATGAAGAGATCTGATCT
Found at i:1594413 original size:129 final size:123
Alignment explanation
Indices: 1593874--1594418 Score: 420
Period size: 129 Copynumber: 4.3 Consensus size: 123
1593864 AAAGGTGATA
* ** * * *
1593874 ACACGATTCCTACGTGATGAGGACGGCTGGTTATCT-AGGGTGACACGGCTCATACGTGATGAAG
1 ACACGGTTCCTACGTGATGAGGACGGCTGGCCATCTAAGGGTAACACGGCTCCTACGTGATGAGG
* ** * *
1593938 AGATCTGGTC-GGAGAAAGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAG-GTGAT
66 AGAGCTGGTCAGCTG-ATGACACGGCTCATACGTGATGAAGAGATCT-G--ATC---AGCG-GAT
*
1594001 A
123 G
* * ** * *
1594002 ATACGGTTCCTACGTGATGAGGATGGCTGGTTATCTAAGGGTGACACGGCTCCTACGTGATGAAG
1 ACACGGTTCCTACGTGATGAGGACGGCTGGCCATCTAAGGGTAACACGGCTCCTACGTGATGAGG
* ** * *
1594067 AGATCTGGTC-GGAGAAAGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAG-GTGAT
66 AGAGCTGGTCAGCTG-ATGACACGGCTCATACGTGATGAAGAGATCT-G--ATC---AGCG-GAT
*
1594130 A
123 G
* * ** *
1594131 ATACAGTTCCTACGTGATGAGGACGGCTGGTTATCTAAGGGTGACACGGCTCCTACGTGATGAGG
1 ACACGGTTCCTACGTGATGAGGACGGCTGGCCATCTAAGGGTAACACGGCTCCTACGTGATGAGG
* * *
1594196 AGATCTGGTCAGCTGATGACACGGCTCATACGTGATGAAGAGATCTGGTCAGCTGATG
66 AGAGCTGGTCAGCTGATGACACGGCTCATACGTGATGAAGAGATCTGATCAGCGGATG
* * * * *
1594254 ACACGGCTCATACGTGATGAAGA-GTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGAT
1 ACACGGTTCCTACGTGATGAGGACG-GCTGGCCATCT-AAGG-G-TAACACGGCTCCTACGTGAT
* * * * * * *
1594318 GAGGACG-GCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAAGAGCTCTGATCTGGGGAT
62 GAGGA-GAGCTGGTCAGC--T-GATGACACGGCTCATACGTGATGAAGAGATCTGATCAGCGGAT
1594382 G
123 G
*
1594383 ACACGGTTCCTACATGATGAGGACGGCTGGCCATCT
1 ACACGGTTCCTACGTGATGAGGACGGCTGGCCATCT
1594419 TTAGGATTTA
Statistics
Matches: 366, Mismatches: 39, Indels: 23
0.86 0.09 0.05
Matches are distributed among these distances:
122 1 0.00
123 31 0.08
124 4 0.01
125 1 0.00
126 32 0.09
127 1 0.00
128 35 0.10
129 258 0.70
130 3 0.01
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.24
Consensus pattern (123 bp):
ACACGGTTCCTACGTGATGAGGACGGCTGGCCATCTAAGGGTAACACGGCTCCTACGTGATGAGG
AGAGCTGGTCAGCTGATGACACGGCTCATACGTGATGAAGAGATCTGATCAGCGGATG
Found at i:1594481 original size:28 final size:28
Alignment explanation
Indices: 1594431--1594484 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
1594421 AGGATTTATG
* *
1594431 GTTTCAAGAGAAACCAAATCAAAGATTT
1 GTTTCAAAAGAAACCAAACCAAAGATTT
1594459 GTTTCAAAAGAAA-CAAACCCAAAGAT
1 GTTTCAAAAGAAACCAAA-CCAAAGAT
1594485 AATATTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.50, C:0.17, G:0.13, T:0.20
Consensus pattern (28 bp):
GTTTCAAAAGAAACCAAACCAAAGATTT
Found at i:1594676 original size:66 final size:65
Alignment explanation
Indices: 1594500--1594682 Score: 210
Period size: 66 Copynumber: 2.8 Consensus size: 65
1594490 TTTTAAAAGC
* * *
1594500 AACTGTCTCAAAAGAGACCAAATTCGTTTTAAGGGAAACGA-CTCAAAGATGACATTTAAAGGGA
1 AACTGTCTCAAATGAGACAAAATTCATTTTAAGGGAAACGATCTCAAAGATGACATTTAAAGGGA
* * * * * *
1594564 AACTGTCTC--GTGCAAGACAAAATTCGTTTTTAAGGGAAACGTTCTCAAAGATCGACTTTTCAT
1 AACTGTCTCAAATG--AGACAAAATTC-ATTTTAAGGGAAACGATCTCAAAGAT-GACATTTAAA
1594627 GGGA
62 GGGA
* *
1594631 AATTGTCTCAAATGAGACAAAATTCATTTCAAGGGAAACGATCTCAAAGATG
1 AACTGTCTCAAATGAGACAAAATTCATTTTAAGGGAAACGATCTCAAAGATG
1594683 TTTGTTTTGT
Statistics
Matches: 99, Mismatches: 13, Indels: 13
0.79 0.10 0.10
Matches are distributed among these distances:
62 1 0.01
64 19 0.19
65 15 0.15
66 32 0.32
67 30 0.30
69 2 0.02
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (65 bp):
AACTGTCTCAAATGAGACAAAATTCATTTTAAGGGAAACGATCTCAAAGATGACATTTAAAGGGA
Found at i:1594804 original size:65 final size:63
Alignment explanation
Indices: 1594723--1594878 Score: 172
Period size: 65 Copynumber: 2.5 Consensus size: 63
1594713 AGATGGTAAA
* *
1594723 TTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTTCTCAAAGAAACTGTCTCGAGAGATACAAAC
1 TTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTTC-AAAAGAAACTGTCTCAAGAGATA-AAAC
* * * * * * * *
1594788 TTTTGTTTCCAAAGAAAGAGATTCAATGA-TTTTTCAAAAGAAATTGTTTTAAGGGATAAAAC
1 TTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTTCAAAAGAAACTGTCTCAAGAGATAAAAC
* *
1594850 -ATTGTTTCCAGAGAAACAAACTCAAAGAT
1 TTTTGTTTCCAAAGAAACAAACTCAAAGAT
1594879 GATCTTGTTT
Statistics
Matches: 74, Mismatches: 16, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
61 22 0.30
62 4 0.05
63 17 0.23
64 6 0.08
65 25 0.34
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (63 bp):
TTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTTCAAAAGAAACTGTCTCAAGAGATAAAAC
Found at i:1594907 original size:14 final size:14
Alignment explanation
Indices: 1594884--1594926 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
1594874 AAGATGATCT
*
1594884 TGTTTTAAGAGAAA
1 TGTTTCAAGAGAAA
1594898 TGTTTCAAGAGAAAA
1 TGTTTCAAGAG-AAA
*
1594913 TGTTTCAAGTGAAA
1 TGTTTCAAGAGAAA
1594927 CGACTCAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
14 13 0.50
15 13 0.50
ACGTcount: A:0.42, C:0.05, G:0.21, T:0.33
Consensus pattern (14 bp):
TGTTTCAAGAGAAA
Found at i:1594915 original size:15 final size:15
Alignment explanation
Indices: 1594884--1594926 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
1594874 AAGATGATCT
*
1594884 TGTTTTAAGAG-AAA
1 TGTTTCAAGAGAAAA
1594898 TGTTTCAAGAGAAAA
1 TGTTTCAAGAGAAAA
*
1594913 TGTTTCAAGTGAAA
1 TGTTTCAAGAGAAA
1594927 CGACTCAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
14 10 0.38
15 16 0.62
ACGTcount: A:0.42, C:0.05, G:0.21, T:0.33
Consensus pattern (15 bp):
TGTTTCAAGAGAAAA
Found at i:1595450 original size:64 final size:64
Alignment explanation
Indices: 1595363--1595530 Score: 178
Period size: 64 Copynumber: 2.6 Consensus size: 64
1595353 TTTCAAAATG
* ** * * *
1595363 AACATATTCAAAGATTTACTTCAAGAGAAACTGTCTCAAGAGATACAAAATTCAT-TTT-AAGAG
1 AACAAATTCAAAGATTTTTTTCAAAAGAAACTATCTCAAGAGAGACAAAATT-ATGTTTCAA-AG
1595426 A
64 A
* * * * *
1595427 AACAGATTCAAAGATTTTTTTCAAAAGAAATTATTTTAAGAGAGACAAAATTTTGTTTCCAAAGA
1 AACAAATTCAAAGATTTTTTTCAAAAGAAACTATCTCAAGAGAGACAAAATTATGTTT-CAAAGA
* *
1595492 AACAAACTCAAAGATTTTTTTCAAAAGAAACAATCTCAA
1 AACAAATTCAAAGATTTTTTTCAAAAGAAACTATCTCAA
1595531 AGATTTTTTT
Statistics
Matches: 85, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
63 1 0.01
64 46 0.54
65 36 0.42
66 2 0.02
ACGTcount: A:0.46, C:0.13, G:0.11, T:0.30
Consensus pattern (64 bp):
AACAAATTCAAAGATTTTTTTCAAAAGAAACTATCTCAAGAGAGACAAAATTATGTTTCAAAGA
Found at i:1595537 original size:27 final size:28
Alignment explanation
Indices: 1595472--1595546 Score: 107
Period size: 28 Copynumber: 2.6 Consensus size: 28
1595462 TTAAGAGAGA
*
1595472 CAAA-ATTTTGTTTCCAAAGAAACAAACT
1 CAAAGATTTT-TTTCAAAAGAAACAAACT
*
1595500 CAAAGATTTTTTTCAAAAGAAACAATCT
1 CAAAGATTTTTTTCAAAAGAAACAAACT
1595528 CAAAGATTTTTTTACAAAA
1 CAAAGATTTTTTT-CAAAA
1595547 TTGTCTCAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
28 33 0.77
29 10 0.23
ACGTcount: A:0.47, C:0.15, G:0.07, T:0.32
Consensus pattern (28 bp):
CAAAGATTTTTTTCAAAAGAAACAAACT
Found at i:1595608 original size:52 final size:52
Alignment explanation
Indices: 1595526--1595682 Score: 269
Period size: 52 Copynumber: 3.0 Consensus size: 52
1595516 AAGAAACAAT
* * *
1595526 CTCAAAGATTTTTTTACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGA
1 CTCAAAGA-TTTTTCACGAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAAA
1595579 CTCAAAGATTTTTCACGAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAAA
1 CTCAAAGATTTTTCACGAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAAA
*
1595631 CTCAAAGATTTTTCACGAAATTGTCTCAAGAGAGACAAGACTTTGTTTCAAA
1 CTCAAAGATTTTTCACGAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAAA
1595683 ATAAATAGAC
Statistics
Matches: 100, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
52 92 0.92
53 8 0.08
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.32
Consensus pattern (52 bp):
CTCAAAGATTTTTCACGAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAAA
Found at i:1595737 original size:28 final size:26
Alignment explanation
Indices: 1595667--1595745 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 26
1595657 CAAGAGAGAC
* *
1595667 AAGACTTTGTTTCAAAATAAATAGACTCA
1 AAGA-TTT-TTTCAAAAGAAACA-ACTCA
1595696 AAGATTTTTTCAAAAGAAACAACTCA
1 AAGATTTTTTCAAAAGAAACAACTCA
*
1595722 AAGATATTTATTCAAAAGGAACAA
1 AAGAT-TTT-TTCAAAAGAAACAA
1595746 ACTCTAACAA
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
26 10 0.22
27 15 0.33
28 16 0.36
29 4 0.09
ACGTcount: A:0.49, C:0.13, G:0.10, T:0.28
Consensus pattern (26 bp):
AAGATTTTTTCAAAAGAAACAACTCA
Found at i:1595755 original size:38 final size:38
Alignment explanation
Indices: 1595713--1595787 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 38
1595703 TTTCAAAAGA
1595713 AACAACTCAAAGATATTTATTCAAAAGGAACAAACTCT
1 AACAACTCAAAGATATTTATTCAAAAGGAACAAACTCT
*
1595751 AACAACTCAAAGATTTTTATTCAAAAGGAACAAACTC
1 AACAACTCAAAGATATTTATTCAAAAGGAACAAACTC
1595788 AAAGATTTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.49, C:0.19, G:0.08, T:0.24
Consensus pattern (38 bp):
AACAACTCAAAGATATTTATTCAAAAGGAACAAACTCT
Found at i:1595808 original size:27 final size:27
Alignment explanation
Indices: 1595754--1595825 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
1595744 AAACTCTAAC
1595754 AACTCAAAGATTTTTATTCAAAAGGAACA
1 AACTCAAAGA-TTTT-TTCAAAAGGAACA
*
1595783 AACTCAAAGATTTTTTCAAGAGGAACA
1 AACTCAAAGATTTTTTCAAAAGGAACA
* *
1595810 AACTCACATATTTTTT
1 AACTCAAAGATTTTTT
1595826 TTTTAAAAGA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
27 26 0.65
28 4 0.10
29 10 0.25
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.32
Consensus pattern (27 bp):
AACTCAAAGATTTTTTCAAAAGGAACA
Found at i:1595811 original size:65 final size:64
Alignment explanation
Indices: 1595691--1595814 Score: 189
Period size: 65 Copynumber: 1.9 Consensus size: 64
1595681 AAATAAATAG
1595691 ACTCAAAGATTTTTTCAAAAGAAACAACTCAAAGATATTTATTCAAAAGGAACAAACTCTAACA
1 ACTCAAAGATTTTTTCAAAAGAAACAACTCAAAGATATTTATTCAAAAGGAACAAACTCTAACA
* *
1595755 ACTCAAAGATTTTTATTCAAAAGGAACAAACTCAAAGAT-TTT-TTCAAGAGGAACAAACTC
1 ACTCAAAGA-TTTT-TTCAAAAGAAAC-AACTCAAAGATATTTATTCAAAAGGAACAAACTC
1595815 ACATATTTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
64 9 0.16
65 21 0.38
66 14 0.25
67 11 0.20
ACGTcount: A:0.48, C:0.17, G:0.10, T:0.26
Consensus pattern (64 bp):
ACTCAAAGATTTTTTCAAAAGAAACAACTCAAAGATATTTATTCAAAAGGAACAAACTCTAACA
Found at i:1596166 original size:36 final size:36
Alignment explanation
Indices: 1596082--1596185 Score: 115
Period size: 36 Copynumber: 3.0 Consensus size: 36
1596072 GAGAAAATGA
* * *
1596082 TGTCTCAAGCGAGACGAAATTTG-CTTTA-AGATAC
1 TGTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAC
* ** *
1596116 AGTCTCAAATGAGACAAAATTTGTTTTTAGAGAAAT
1 TGTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAC
*
1596152 TGTCTCAAGCGAGACAAAGTTTGTTTTT-GAGAAA
1 TGTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAA
1596186 ACGATCTCAA
Statistics
Matches: 57, Mismatches: 11, Indels: 3
0.80 0.15 0.04
Matches are distributed among these distances:
34 19 0.33
35 10 0.18
36 28 0.49
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (36 bp):
TGTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAC
Found at i:1596213 original size:36 final size:36
Alignment explanation
Indices: 1596083--1596201 Score: 111
Period size: 36 Copynumber: 3.4 Consensus size: 36
1596073 AGAAAATGAT
* * * *
1596083 GTCTCAAGCGAGACGAAATTTG-CTTTA-AG-ATAC
1 GTCTCAAGTGAGACAAAATTTGTTTTTAGAGAAAAC
* **
1596116 AGTCTCAAATGAGACAAAATTTGTTTTTAGAGAAATT
1 -GTCTCAAGTGAGACAAAATTTGTTTTTAGAGAAAAC
* *
1596153 GTCTCAAGCGAGACAAAGTTTGTTTTT-GAGAAAAC
1 GTCTCAAGTGAGACAAAATTTGTTTTTAGAGAAAAC
1596188 GATCTCAAGTGAGA
1 G-TCTCAAGTGAGA
1596202 TCAACTTTGT
Statistics
Matches: 68, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
34 19 0.28
35 11 0.16
36 37 0.54
37 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.29
Consensus pattern (36 bp):
GTCTCAAGTGAGACAAAATTTGTTTTTAGAGAAAAC
Found at i:1596332 original size:105 final size:101
Alignment explanation
Indices: 1596153--1596385 Score: 267
Period size: 105 Copynumber: 2.3 Consensus size: 101
1596143 TAGAGAAATT
*
1596153 GTCTCAAGCGAGAC-AAAGTTTGTTTTTGAGAAAACGATCTCAAGTGAGATCAACTTTGTTTAAT
1 GTCTCAAGCGAGACGAAA-TTTG-TTTTGAGAAAAAGATCTCAAGTGAGATCAACTTTGTTTAAT
* *
1596217 GTGAAACAAATTCGAAATTT-TGATCTCAAAGGGAAAAG
64 GTGAAACAAATTCAAAATTTGT-ATCTCAAAGGAAAAAG
* *
1596255 GTCTCAAGCGAGACGAAATTTGTTTTGAAAGAAACAAGAATCT-AATGTGAGATTAATTTTGTTT
1 GTCTCAAGCGAGACGAAATTTGTTTTG--AGAAA-AAG-ATCTCAA-GTGAGATCAACTTTGTTT
* * *
1596319 -TTAGTGAATCAAATTCAAAATTTGTATCTCAAAGGAAAAAT
61 AAT-GTGAAACAAATTCAAAATTTGTATCTCAAAGGAAAAAG
* *
1596360 GTCTCGAGCGAGACGCAATTTGTTTT
1 GTCTCAAGCGAGACGAAATTTGTTTT
1596386 AAAATTCTCA
Statistics
Matches: 113, Mismatches: 10, Indels: 13
0.83 0.07 0.10
Matches are distributed among these distances:
101 5 0.04
102 18 0.16
103 8 0.07
104 5 0.04
105 76 0.67
106 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (101 bp):
GTCTCAAGCGAGACGAAATTTGTTTTGAGAAAAAGATCTCAAGTGAGATCAACTTTGTTTAATGT
GAAACAAATTCAAAATTTGTATCTCAAAGGAAAAAG
Found at i:1598040 original size:11 final size:11
Alignment explanation
Indices: 1598026--1598086 Score: 70
Period size: 11 Copynumber: 5.4 Consensus size: 11
1598016 CCTCTTTTTG
*
1598026 TTCTTTGCTTT
1 TTCTTTGATTT
*
1598037 TTCTTTGCTCTTT
1 TTCTTTG--ATTT
1598050 TTCTTTGATTT
1 TTCTTTGATTT
1598061 TTCTTTG-TTT
1 TTCTTTGATTT
1598071 TTGCTTTGATTT
1 TT-CTTTGATTT
1598083 TTCT
1 TTCT
1598087 CTCTGCTCTT
Statistics
Matches: 45, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
10 5 0.11
11 24 0.53
12 5 0.11
13 11 0.24
ACGTcount: A:0.03, C:0.15, G:0.10, T:0.72
Consensus pattern (11 bp):
TTCTTTGATTT
Found at i:1598061 original size:24 final size:24
Alignment explanation
Indices: 1598026--1598097 Score: 94
Period size: 24 Copynumber: 3.0 Consensus size: 24
1598016 CCTCTTTTTG
*
1598026 TTCTTTGCTTTTTCTTTGCTCTTT
1 TTCTTTGATTTTTCTTTGCTCTTT
1598050 TTCTTTGATTTTTCTTTG-T-TTT
1 TTCTTTGATTTTTCTTTGCTCTTT
*
1598072 TGCTTTGATTTTTCTCTCTGCTCTTT
1 TTCTTTGATTTTTCT-T-TGCTCTTT
1598098 GTTTTTTCTT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
22 17 0.40
23 2 0.05
24 19 0.45
25 1 0.02
26 3 0.07
ACGTcount: A:0.03, C:0.18, G:0.10, T:0.69
Consensus pattern (24 bp):
TTCTTTGATTTTTCTTTGCTCTTT
Found at i:1598077 original size:22 final size:24
Alignment explanation
Indices: 1598028--1598097 Score: 90
Period size: 22 Copynumber: 2.9 Consensus size: 24
1598018 TCTTTTTGTT
* *
1598028 CTTTGCTTTTTCTTTGCTCTTTTT
1 CTTTGATTTTTCTTTGCTCTTTTG
1598052 CTTTGATTTTTCTTTG-T-TTTTG
1 CTTTGATTTTTCTTTGCTCTTTTG
1598074 CTTTGATTTTTCTCTCTGCTCTTT
1 CTTTGATTTTTCT-T-TGCTCTTT
1598098 GTTTTTTCTT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
22 17 0.43
23 2 0.05
24 17 0.43
25 1 0.03
26 3 0.08
ACGTcount: A:0.03, C:0.19, G:0.10, T:0.69
Consensus pattern (24 bp):
CTTTGATTTTTCTTTGCTCTTTTG
Found at i:1598747 original size:26 final size:24
Alignment explanation
Indices: 1598717--1598787 Score: 78
Period size: 20 Copynumber: 3.0 Consensus size: 24
1598707 CAAGGTGGAA
1598717 AGAATATTTCAAGGTCTCAAAGAG
1 AGAATATTTCAAGGTCTCAAAGAG
* *
1598741 AGGGAATGTTTCAAGG--TCGAA-A-
1 A--GAATATTTCAAGGTCTCAAAGAG
1598763 AGAATATTTCAAGGTCTCAAAGAG
1 AGAATATTTCAAGGTCTCAAAGAG
1598787 A
1 A
1598788 TAGAATGTCA
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
20 12 0.32
22 5 0.14
23 2 0.05
24 6 0.16
26 12 0.32
ACGTcount: A:0.41, C:0.11, G:0.24, T:0.24
Consensus pattern (24 bp):
AGAATATTTCAAGGTCTCAAAGAG
Found at i:1598772 original size:20 final size:20
Alignment explanation
Indices: 1598704--1598778 Score: 62
Period size: 20 Copynumber: 3.5 Consensus size: 20
1598694 AAATACAGTG
*
1598704 TTTCAAGGT-GGAAAGAATA
1 TTTCAAGGTCGAAAAGAATA
* *
1598723 TTTCAAGGTCTCAAAGAGAGGGAATG
1 TTTCAAGG--TCGAA-A-A--GAATA
1598749 TTTCAAGGTCGAAAAGAATA
1 TTTCAAGGTCGAAAAGAATA
1598769 TTTCAAGGTC
1 TTTCAAGGTC
1598779 TCAAAGAGAT
Statistics
Matches: 44, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
19 8 0.18
20 14 0.32
21 1 0.02
22 2 0.05
23 2 0.05
24 5 0.11
26 12 0.27
ACGTcount: A:0.37, C:0.11, G:0.25, T:0.27
Consensus pattern (20 bp):
TTTCAAGGTCGAAAAGAATA
Found at i:1598792 original size:26 final size:26
Alignment explanation
Indices: 1598714--1598793 Score: 82
Period size: 26 Copynumber: 3.3 Consensus size: 26
1598704 TTTCAAGGTG
1598714 GAAAGAATATTTCAAGGTCTCAAAGA
1 GAAAGAATATTTCAAGGTCTCAAAGA
** *
1598740 GAGGGAATGTTTCAAGG--TC---GA
1 GAAAGAATATTTCAAGGTCTCAAAGA
1598761 -AAAGAATATTTCAAGGTCTCAAAGA
1 GAAAGAATATTTCAAGGTCTCAAAGA
*
1598786 GATAGAAT
1 GAAAGAAT
1598794 GTCAAAAATT
Statistics
Matches: 41, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
20 13 0.32
21 2 0.05
22 2 0.05
24 2 0.05
25 2 0.05
26 20 0.49
ACGTcount: A:0.42, C:0.10, G:0.24, T:0.24
Consensus pattern (26 bp):
GAAAGAATATTTCAAGGTCTCAAAGA
Found at i:1598794 original size:46 final size:45
Alignment explanation
Indices: 1598702--1598795 Score: 152
Period size: 46 Copynumber: 2.1 Consensus size: 45
1598692 ATAAATACAG
* *
1598702 TGTTTCAAGGTGGAAAGAATATTTCAAGGTCTCAAAGAGAGGGAA
1 TGTTTCAAGGTGAAAAGAATATTTCAAGGTCTCAAAGAGAGAGAA
*
1598747 TGTTTCAAGGTCGAAAAGAATATTTCAAGGTCTCAAAGAGATAGAA
1 TGTTTCAAGGT-GAAAAGAATATTTCAAGGTCTCAAAGAGAGAGAA
1598793 TGT
1 TGT
1598796 CAAAAATTGG
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
45 11 0.24
46 34 0.76
ACGTcount: A:0.38, C:0.10, G:0.26, T:0.27
Consensus pattern (45 bp):
TGTTTCAAGGTGAAAAGAATATTTCAAGGTCTCAAAGAGAGAGAA
Found at i:1600990 original size:210 final size:210
Alignment explanation
Indices: 1600628--1601043 Score: 564
Period size: 210 Copynumber: 2.0 Consensus size: 210
1600618 AAATAGATCG
* * * *
1600628 CTGCTTCGTCTCAGATCTTCGTCCTTGAAAATAATGCCCCTCAATGATCTGTAATCTGACACCAT
1 CTGCTTCGTCTCAGATCTTCGTACTTGAAAACAATGCCCCTCAATGATCTGTAAACTAACACCAT
* * * * *
1600693 TAATGCCCCGGCGGTGCTGAAGTCAGTGCGTCGCTCCTTGATGGATAGCGATGAAATAATTGTAG
66 TAATACCCCGGCGATGCTGAAGTCAGTGCGTCACTCCCTGATGGATAACGATGAAATAATTGTAG
* *
1600758 ATGAGAATCTACTGTTGGATTACT-CTTCGGATCAATGGATTATCATATCAGTCTCGAATGATGC
131 ATGAGAATCTACTGCTGGATTACTCCTT-AGATCAATGGATTATCATATCAGTCTCGAATGATGC
1600822 ACGATCTTCGAGCTCA
195 ACGATCTTCGAGCTCA
* * * * * * * *
1600838 CTGCTTCGTCTCGGATCTTTGTACTTGGAACCGATGCCCCTCTATGCTCTGTAAACTAACTCCAT
1 CTGCTTCGTCTCAGATCTTCGTACTTGAAAACAATGCCCCTCAATGATCTGTAAACTAACACCAT
* * ** * * * *
1600903 TAATACCTCGGCTATGCTGAAGTTTGTGCTTCACTCCCTGATGGTTAACGATGGAATAATTGTGG
66 TAATACCCCGGCGATGCTGAAGTCAGTGCGTCACTCCCTGATGGATAACGATGAAATAATTGTAG
*
1600968 ATGAGAATCTACTGCTGGATTACTCCTTAGATCAGTGGATTATCATATCAGTCTCGAATGATGCA
131 ATGAGAATCTACTGCTGGATTACTCCTTAGATCAATGGATTATCATATCAGTCTCGAATGATGCA
1601033 CGATCTTCGAG
196 CGATCTTCGAG
1601044 AAAATCTCAT
Statistics
Matches: 177, Mismatches: 28, Indels: 2
0.86 0.14 0.01
Matches are distributed among these distances:
210 174 0.98
211 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.32
Consensus pattern (210 bp):
CTGCTTCGTCTCAGATCTTCGTACTTGAAAACAATGCCCCTCAATGATCTGTAAACTAACACCAT
TAATACCCCGGCGATGCTGAAGTCAGTGCGTCACTCCCTGATGGATAACGATGAAATAATTGTAG
ATGAGAATCTACTGCTGGATTACTCCTTAGATCAATGGATTATCATATCAGTCTCGAATGATGCA
CGATCTTCGAGCTCA
Found at i:1601278 original size:31 final size:32
Alignment explanation
Indices: 1601222--1601283 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1601212 TGACAAAATG
1601222 ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
1 ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
1601254 ACACAAACAAAAGAGAA-AAATAAGTTAGTA
1 ACACAAACAAAAGAGAAGAAATAAGTTAGTA
1601284 CATGTAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.61, C:0.10, G:0.15, T:0.15
Consensus pattern (32 bp):
ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
Found at i:1604385 original size:18 final size:19
Alignment explanation
Indices: 1604349--1604392 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
1604339 TTCGAATCTC
1604349 TTTTTTTTTTCTATCTTCT
1 TTTTTTTTTTCTATCTTCT
*
1604368 GTTTTTTTTTTGT-T-TTCT
1 -TTTTTTTTTTCTATCTTCT
1604386 TTTTTTT
1 TTTTTTT
1604393 CCTTTTTCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 7 0.30
18 4 0.17
19 1 0.04
20 11 0.48
ACGTcount: A:0.02, C:0.09, G:0.05, T:0.84
Consensus pattern (19 bp):
TTTTTTTTTTCTATCTTCT
Found at i:1604999 original size:3 final size:3
Alignment explanation
Indices: 1604991--1605030 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
1604981 ATTAATAAAC
1604991 ATA ATA ATA ATAA ATA ATA ATA ATA ATA ATA ATA A-A ATA A
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1605031 CGATAAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.86
4 3 0.09
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:1605016 original size:22 final size:22
Alignment explanation
Indices: 1604983--1605026 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
1604973 AATATGTAAT
1604983 TAATAAACATAATAATAATAAA
1 TAATAAACATAATAATAATAAA
1605005 TAATAATA-ATAATAATAATAAA
1 TAATAA-ACATAATAATAATAAA
1605027 ATAACGATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (22 bp):
TAATAAACATAATAATAATAAA
Found at i:1607469 original size:60 final size:62
Alignment explanation
Indices: 1607394--1607541 Score: 166
Period size: 60 Copynumber: 2.5 Consensus size: 62
1607384 TTACATATTT
* * * *
1607394 GGATGAAATTGGAATATTCAAAAGGTTT-GGGACTGATTTAGAAA-GAGGGTCA-AATTT-TA
1 GGATGAAATTAGAATATTCAAAAGGTTTAAGGACTAATTTA-AAATGAGAGTCATAATTTATA
*
1607453 GGGATCAAATTAGAATATTCAAAA-GTTTAAGGACTAATTTAAAATGAGAGTCATAATTTATA
1 -GGATGAAATTAGAATATTCAAAAGGTTTAAGGACTAATTTAAAATGAGAGTCATAATTTATA
* *
1607515 -GATGAAATTAAAATATT-AAAAAGTTTA
1 GGATGAAATTAGAATATTCAAAAGGTTTA
1607542 GGTACCTATT
Statistics
Matches: 76, Mismatches: 7, Indels: 10
0.82 0.08 0.11
Matches are distributed among these distances:
59 11 0.14
60 58 0.76
61 5 0.07
62 2 0.03
ACGTcount: A:0.44, C:0.05, G:0.20, T:0.32
Consensus pattern (62 bp):
GGATGAAATTAGAATATTCAAAAGGTTTAAGGACTAATTTAAAATGAGAGTCATAATTTATA
Found at i:1608148 original size:21 final size:21
Alignment explanation
Indices: 1608094--1608149 Score: 53
Period size: 21 Copynumber: 2.6 Consensus size: 21
1608084 AGAAAACGAA
1608094 AATTTAAATTTAT-ATCATAAT
1 AATTT-AATTTATAATCATAAT
* *
1608115 ACATTT-GTATTATAATGATAAT
1 A-ATTTAAT-TTATAATCATAAT
1608137 AATTTAATTTATA
1 AATTTAATTTATA
1608150 TAAAAATTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
20 1 0.04
21 14 0.50
22 13 0.46
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.48
Consensus pattern (21 bp):
AATTTAATTTATAATCATAAT
Found at i:1608757 original size:27 final size:27
Alignment explanation
Indices: 1608693--1608761 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 27
1608683 TTCAATAGTT
*
1608693 AAATTAATATTTTATCTAAAGTTTAGGTT
1 AAATTAATA-TTT-TCTAAAGTTTAGGTC
* *
1608722 AAATCAATATTTTGT-AAGTTTAGAGTC
1 AAATTAATATTTTCTAAAGTTTAG-GTC
1608749 AAATTAATATTTT
1 AAATTAATATTTT
1608762 TTTCTAAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
26 8 0.23
27 16 0.46
28 3 0.09
29 8 0.23
ACGTcount: A:0.39, C:0.04, G:0.10, T:0.46
Consensus pattern (27 bp):
AAATTAATATTTTCTAAAGTTTAGGTC
Found at i:1609210 original size:4 final size:4
Alignment explanation
Indices: 1609203--1610973 Score: 3253
Period size: 4 Copynumber: 449.5 Consensus size: 4
1609193 TATATATAAT
1609203 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1609251 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1609299 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC --AC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1609345 ATAC ATAC ATAC ATA- ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1609392 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1609440 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
1609488 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AGAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1609536 ATAC ATAC ATAC ATAC ATAC -TAC ATAC ATAC ATAC AATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC -ATAC ATAC ATAC
1609584 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1609632 ATAC ATAC ATAC ATAC ATAC ATAC A-AC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1609679 ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT-- ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1609725 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT-AC ATAC ATAC ATAC ATAC
1609774 ATAC ATAC ATAC ATAC A-AC ATAC ATAC ATAC ATAC ATAC ATAAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT-AC ATAC
1609822 ATAC ATAAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT-- ATAC ATAC
1 ATAC AT-AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1609869 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1609917 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1609965 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC --AC ATAC ATAC -TAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1610010 ATAC ATAC -TAC ATAC ATAC ATAC -TAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1610056 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1610104 ATAC AT-- ATAC ATAC AT-- ATAC ATAC ATAC ATAC --AC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
1610146 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AGAC -TAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1610193 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1610241 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1610289 ATAC ATAC ATAC ATAC -TAC ATAC ATAC ATAC A-AC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1610335 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1610383 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1610431 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1610479 ATAC ATAC ATAC ATAC ATAC ATA- ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1610526 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1610574 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA- ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
1610621 ATAC ATAC ATAC ATAC ATAC ATAT ATAC ATAC ATAC ATAC ATAC ATA-
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1610668 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1610716 AT-C ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1610763 ATAC ATAC ATAC ATAC ATAC ATAC -TAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1610810 ATAC ATAC ATAC A-AC ATAC -TAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1610856 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1610904 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
1610952 ATAC ATAC ATGC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC AT
1610974 GCATGCATGC
Statistics
Matches: 1724, Mismatches: 8, Indels: 70
0.96 0.00 0.04
Matches are distributed among these distances:
2 14 0.01
3 50 0.03
4 1644 0.95
5 16 0.01
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:1610978 original size:4 final size:4
Alignment explanation
Indices: 1610959--1611047 Score: 146
Period size: 4 Copynumber: 22.8 Consensus size: 4
1610949 TACATACATA
* *
1610959 CATG CATA CATA CATG CATG CATG CATG CATG CA-G CATG CATG CATG
1 CATG CATG CATG CATG CATG CATG CATG CATG CATG CATG CATG CATG
1611006 CATG CATG CA-G CATG CATG CATG CATG CATG CATG CATG CAT
1 CATG CATG CATG CATG CATG CATG CATG CATG CATG CATG CAT
1611048 ATTGAGAAAA
Statistics
Matches: 81, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
3 6 0.07
4 75 0.93
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (4 bp):
CATG
Found at i:1611000 original size:23 final size:23
Alignment explanation
Indices: 1610971--1611047 Score: 145
Period size: 23 Copynumber: 3.3 Consensus size: 23
1610961 TGCATACATA
1610971 CATGCATGCATGCATGCATGCAG
1 CATGCATGCATGCATGCATGCAG
1610994 CATGCATGCATGCATGCATGCAG
1 CATGCATGCATGCATGCATGCAG
1611017 CATGCATGCATGCATGCATGCATG
1 CATGCATGCATGCATGCATGCA-G
1611041 CATGCAT
1 CATGCAT
1611048 ATTGAGAAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
23 45 0.85
24 8 0.15
ACGTcount: A:0.26, C:0.26, G:0.25, T:0.23
Consensus pattern (23 bp):
CATGCATGCATGCATGCATGCAG
Found at i:1617024 original size:2 final size:2
Alignment explanation
Indices: 1617017--1617043 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1617007 CTACATTATG
1617017 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 A
1617044 GATTGAGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1618345 original size:112 final size:112
Alignment explanation
Indices: 1618148--1618371 Score: 448
Period size: 112 Copynumber: 2.0 Consensus size: 112
1618138 TTGAAAAACT
1618148 TTGGGTTATGGAGTATAATGGCATTCATGTAGTTCTGGTATAATACTAGTGGCTTTCTTCTACAG
1 TTGGGTTATGGAGTATAATGGCATTCATGTAGTTCTGGTATAATACTAGTGGCTTTCTTCTACAG
1618213 CTATGCAAATAAAAGCACACATTGGCACTCATCATCTTTCCATCCAA
66 CTATGCAAATAAAAGCACACATTGGCACTCATCATCTTTCCATCCAA
1618260 TTGGGTTATGGAGTATAATGGCATTCATGTAGTTCTGGTATAATACTAGTGGCTTTCTTCTACAG
1 TTGGGTTATGGAGTATAATGGCATTCATGTAGTTCTGGTATAATACTAGTGGCTTTCTTCTACAG
1618325 CTATGCAAATAAAAGCACACATTGGCACTCATCATCTTTCCATCCAA
66 CTATGCAAATAAAAGCACACATTGGCACTCATCATCTTTCCATCCAA
1618372 ATTCTCTTTT
Statistics
Matches: 112, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
112 112 1.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.34
Consensus pattern (112 bp):
TTGGGTTATGGAGTATAATGGCATTCATGTAGTTCTGGTATAATACTAGTGGCTTTCTTCTACAG
CTATGCAAATAAAAGCACACATTGGCACTCATCATCTTTCCATCCAA
Found at i:1620071 original size:60 final size:59
Alignment explanation
Indices: 1619930--1620121 Score: 160
Period size: 60 Copynumber: 3.2 Consensus size: 59
1619920 ACATCCTATG
* * *
1619930 TCCTCAAAATATGATCCTT-ATTTTAAATTATTACCTAAACTTTTAAATA-TTCTAGTTTCA
1 TCCTCAAACTATGA-CCTTCATTTTAAATTAGT-CCTAAACTTTTAAATATTTC-AATTTCA
* *
1619990 TCACT-AAACTATGA-TTATCATTTTAAATTAGTCCTTAAACTTTTGAATATTTCAATTTCA
1 TC-CTCAAACTATGACCT-TCATTTTAAATTAGTCC-TAAACTTTTAAATATTTCAATTTCA
** * * * * * *
1620050 TCCTCAAACTATGACCTTCATTCAAAATTGGTCCCCAAATTTTTTTAACATTCCAATTTCA
1 TCCTCAAACTATGACCTTCATTTTAAATTAGT-CCTAAA-CTTTTAAATATTTCAATTTCA
1620111 TCC-CAAACTAT
1 TCCTCAAACTAT
1620122 ACATACATAC
Statistics
Matches: 109, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
58 1 0.01
59 5 0.05
60 75 0.69
61 28 0.26
ACGTcount: A:0.34, C:0.20, G:0.04, T:0.42
Consensus pattern (59 bp):
TCCTCAAACTATGACCTTCATTTTAAATTAGTCCTAAACTTTTAAATATTTCAATTTCA
Found at i:1620669 original size:19 final size:20
Alignment explanation
Indices: 1620657--1620702 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 20
1620647 TTATTAAAAT
1620657 TTTAAAATTTTATAATAATG
1 TTTAAAATTTTATAATAATG
* *
1620677 TTTAATATTTT-T-ATAATT
1 TTTAAAATTTTATAATAATG
1620695 TTTAAAAT
1 TTTAAAAT
1620703 AATTTTATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 12 0.52
19 1 0.04
20 10 0.43
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
TTTAAAATTTTATAATAATG
Found at i:1620686 original size:20 final size:20
Alignment explanation
Indices: 1620657--1620714 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
1620647 TTATTAAAAT
*
1620657 TTTAAAATTTTATAATAATG
1 TTTAATATTTTATAATAATG
*
1620677 TTTAATATTTT-T-ATAATT
1 TTTAATATTTTATAATAATG
1620695 TTTAAAATAATTTTATAATA
1 TTT--AAT-ATTTTATAATA
1620715 TCTTATCATT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
18 8 0.26
19 1 0.03
20 13 0.42
21 5 0.16
22 1 0.03
23 3 0.10
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (20 bp):
TTTAATATTTTATAATAATG
Found at i:1620726 original size:30 final size:30
Alignment explanation
Indices: 1620664--1620726 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
1620654 AATTTTAAAA
* *
1620664 TTTTATAATAATGTTTAATATTTTTATAAT
1 TTTTAAAATAATGTTTAATATTCTTATAAT
* *
1620694 TTTTAAAATAATTTTATAATA-TCTTATCAT
1 TTTTAAAATAATGTT-TAATATTCTTATAAT
1620724 TTT
1 TTT
1620727 ACTACTTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 23 0.82
31 5 0.18
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.59
Consensus pattern (30 bp):
TTTTAAAATAATGTTTAATATTCTTATAAT
Found at i:1626059 original size:23 final size:23
Alignment explanation
Indices: 1626027--1626076 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
1626017 AATATAATAT
1626027 TATTACAATA-AT-ATACTCAATTA
1 TATTACAATATATGATACT--ATTA
*
1626050 TATTATAATATATGATACTATTA
1 TATTACAATATATGATACTATTA
1626073 TATT
1 TATT
1626077 CTTATTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 17 0.71
24 2 0.08
25 5 0.21
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.46
Consensus pattern (23 bp):
TATTACAATATATGATACTATTA
Found at i:1626466 original size:22 final size:20
Alignment explanation
Indices: 1626414--1626467 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 20
1626404 ATTATTATAA
*
1626414 TATTTTTAAAATAATAATAT
1 TATTTTTATAATAATAATAT
1626434 TAAGTTTTTATAATAAATAATAT
1 T-A-TTTTTATAAT-AATAATAT
1626457 TATTTATTATA
1 TATTT-TTATA
1626468 TTTTATATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
20 1 0.03
21 4 0.14
22 15 0.52
23 9 0.31
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (20 bp):
TATTTTTATAATAATAATAT
Found at i:1626581 original size:14 final size:14
Alignment explanation
Indices: 1626543--1626570 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1626533 ATTTCGAACA
1626543 CCATAAAATATTTT
1 CCATAAAATATTTT
1626557 CCATAAAATATTTT
1 CCATAAAATATTTT
1626571 TCAAAAGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (14 bp):
CCATAAAATATTTT
Found at i:1629622 original size:11 final size:11
Alignment explanation
Indices: 1629606--1629633 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
1629596 TTGACAATGC
1629606 ACAAACACTCT
1 ACAAACACTCT
1629617 ACAAACACTCT
1 ACAAACACTCT
1629628 ACAAAC
1 ACAAAC
1629634 GCAGTTGCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.50, C:0.36, G:0.00, T:0.14
Consensus pattern (11 bp):
ACAAACACTCT
Found at i:1634818 original size:11 final size:11
Alignment explanation
Indices: 1634802--1634835 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
1634792 TCGAGAGTAT
1634802 ATTTAATCATA
1 ATTTAATCATA
1634813 ATTTAATCATA
1 ATTTAATCATA
1634824 ATTTAATCATA
1 ATTTAATCATA
1634835 A
1 A
1634836 ATATGGATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (11 bp):
ATTTAATCATA
Found at i:1639241 original size:17 final size:18
Alignment explanation
Indices: 1639209--1639242 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1639199 GTTTAAATGA
*
1639209 TTTTTTATAATTATATAT
1 TTTTTTATAATGATATAT
1639227 TTTTTTAT-ATGATATA
1 TTTTTTATAATGATATA
1639243 CATATATATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (18 bp):
TTTTTTATAATGATATAT
Found at i:1640632 original size:24 final size:24
Alignment explanation
Indices: 1640605--1640656 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
1640595 AACGGATATA
*
1640605 TCAAAAATCAAAACATAATCCAGG
1 TCAAAAATCAAAACAAAATCCAGG
** * *
1640629 TCAAGTATCAGATCAAAATCCAGG
1 TCAAAAATCAAAACAAAATCCAGG
1640653 TCAA
1 TCAA
1640657 GTATTCGATC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.48, C:0.21, G:0.12, T:0.19
Consensus pattern (24 bp):
TCAAAAATCAAAACAAAATCCAGG
Found at i:1640656 original size:12 final size:13
Alignment explanation
Indices: 1640621--1640703 Score: 52
Period size: 12 Copynumber: 6.8 Consensus size: 13
1640611 ATCAAAACAT
1640621 AATCCAGGTCAAG
1 AATCCAGGTCAAG
* *
1640634 TAT-CAGATCAA-
1 AATCCAGGTCAAG
1640645 AATCCAGGTCAAG
1 AATCCAGGTCAAG
* * *
1640658 TATTC-GATC-AG
1 AATCCAGGTCAAG
*
1640669 AATCCATGTCAAG
1 AATCCAGGTCAAG
* *
1640682 TATCCA-ATC-AG
1 AATCCAGGTCAAG
1640693 AATCCAGGTCA
1 AATCCAGGTCA
1640704 GGTATTATAA
Statistics
Matches: 49, Mismatches: 15, Indels: 12
0.64 0.20 0.16
Matches are distributed among these distances:
11 14 0.29
12 23 0.47
13 12 0.24
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (13 bp):
AATCCAGGTCAAG
Found at i:1640657 original size:24 final size:24
Alignment explanation
Indices: 1640621--1640708 Score: 117
Period size: 24 Copynumber: 3.7 Consensus size: 24
1640611 ATCAAAACAT
*
1640621 AATCCAGGTCAAGTATCAGATCAA
1 AATCCAGGTCAAGTATCAGATCAG
1640645 AATCCAGGTCAAGTATTC-GATCAG
1 AATCCAGGTCAAGTA-TCAGATCAG
*
1640669 AATCCATGTCAAGTATCCA-ATCAG
1 AATCCAGGTCAAGTAT-CAGATCAG
*
1640693 AATCCAGGTCAGGTAT
1 AATCCAGGTCAAGTAT
1640709 TATAATAGAA
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
23 1 0.02
24 54 0.95
25 2 0.04
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (24 bp):
AATCCAGGTCAAGTATCAGATCAG
Found at i:1641804 original size:27 final size:27
Alignment explanation
Indices: 1641783--1641842 Score: 120
Period size: 27 Copynumber: 2.2 Consensus size: 27
1641773 GGTATTTTGG
1641783 TCATTTTATAGATTCAGTGTATTTCAA
1 TCATTTTATAGATTCAGTGTATTTCAA
1641810 TCATTTTATAGATTCAGTGTATTTCAA
1 TCATTTTATAGATTCAGTGTATTTCAA
1641837 TCATTT
1 TCATTT
1641843 CATTCCGTCC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.28, C:0.12, G:0.10, T:0.50
Consensus pattern (27 bp):
TCATTTTATAGATTCAGTGTATTTCAA
Done.