Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008259.1 Hibiscus syriacus cultivar Beakdansim tig00110912_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: 2373650
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 11
Found at i:1521751 original size:718 final size:718
Alignment explanation
Indices: 1520375--1521809 Score: 2602
Period size: 718 Copynumber: 2.0 Consensus size: 718
1520365 TTCTTCTTGG
1520375 AACAAACGAAATGATTCACGCGTATAAATTTCAGCAGCATGGCTTTCAAGGTCAATAAGTTTTGT
1 AACAAACGAAATGATTCACGCGTATAAATTTCAGCAGCATGGCTTTCAAGGTCAATAAGTTTTGT
1520440 GATCTAGAATGGCTTTGTCTAGGAACTTAAGTAATCCACTTTCAACTCATTGATACGCATTCTAA
66 GATCTAGAATGGCTTTGTCTAGGAACTTAAGTAATCCACTTTCAACTCATTGATACGCATTCTAA
* *
1520505 TAATTCCTTCTTCAATTGCACGAACAACATCTAAATATATTTTCTTGTTTTTCAGTGCAATCGCA
131 TAATTCCTTCTTCAATTGCACGAACAACATCTAAATATATCTTCTTATTTTTCAGTGCAATCGCA
* *
1520570 AGTAAAGCATTCATAGACTTGCACCTTTATGTTGAGTGAATATTGGCAAAGAAATGACCGGTTAG
196 AGTAAAGCATTCATAGACTTACACCTTTATGTTGAGTGAATATTGGCAAAGAAATAACCGGTTAG
* *
1520635 ATATGCTGATGCCCATAAGTGCTGAGTATTTCCCTTCTCAATCACCCATGGATGCTTTTTGACAT
261 AGATGCTGATGCCCATAAGTGCTGAGTATTTCCCTTCTCAATCACCCATGGATGCTTTTCGACAT
* *
1520700 TGAATTCTGAAATAATTGAACTCCATTGAGTATCAAATTCCTCTGTTGTCCACCAGAAAGTCATG
326 TGAATTATGAAATAATTGAACGCCATTGAGTATCAAATTCCTCTGTTGTCCACCAGAAAGTCATG
* *
1520765 CATTTTGAGAATGTTGCTATAAATTTGGGGTCACCAATGTTAGCTTGTGCATTGCGAGAAAGATG
391 CATTTTGAGAATGATGCTATAAATTTGGGGTCACCAACGTTAGCTTGTGCATTGCGAGAAAGATG
1520830 CCAAGAACATAATTTGTGCTTAGCAAAAGAGATAATAAATTTATAGCCCTCTGTATTACTCTATC
456 CCAAGAACATAATTTGTGCTTAGCAAAAGAGATAATAAATTTATAGCCCTCTGTATTACTCTATC
1520895 TCCATCAGTAACAACTGAAATAAGTGATTTATTAATCATGGCTTCTAAAAAATTCTTCAGCACCC
521 TCCATCAGTAACAACTGAAATAAGTGATTTATTAATCATGGCTTCTAAAAAATTCTTCAGCACCC
*
1520960 ACTCAAAAGATTGGGACGTTTCGTCAGTGATTATGGCAGTAGCAAACACTATTATGATATGATGA
586 ACTCAAAAGATTGGGACATTTCGTCAGTGATTATGGCAGTAGCAAACACTATTATGATATGATGA
*
1521025 TCATTGACATTGATAATAAGCATAATTGGTCGACAACACGAATTATCTTTGTACGGTGTGTCGAA
651 TCATTGACATTGATAATAAGCATAATTGGTCGACAACACAAATTATCTTTGTACGGTGTGTCGAA
1521090 CGT
716 CGT
* *
1521093 AACAAACGAAATGATTCATGCGTATAAATTTCAGCAGCATGGCTTTCAAGGTTAATAAGTTTTGT
1 AACAAACGAAATGATTCACGCGTATAAATTTCAGCAGCATGGCTTTCAAGGTCAATAAGTTTTGT
*
1521158 GATCTAGAATGGCTTTGTCTAGGAACTTAAGTAATCCACTTTCAACTCATTGATACGCATTCTAC
66 GATCTAGAATGGCTTTGTCTAGGAACTTAAGTAATCCACTTTCAACTCATTGATACGCATTCTAA
1521223 TAATTCCTTCTTCAATTGCACGAACAACATCTAAATATATCTTCTTATTTTTCAGTGCAATCGCA
131 TAATTCCTTCTTCAATTGCACGAACAACATCTAAATATATCTTCTTATTTTTCAGTGCAATCGCA
*
1521288 AGTAAAGCATTCATAGACTTACACCTTTGTGTTGAGTGAATATTGGCAAAGAAATAACCGGTTAG
196 AGTAAAGCATTCATAGACTTACACCTTTATGTTGAGTGAATATTGGCAAAGAAATAACCGGTTAG
* *
1521353 AGATGCTTATGCCCATAAGTGCTGAGTATTTCCCTTCTCAATCCCCCATGGATGCTTTTCGACAT
261 AGATGCTGATGCCCATAAGTGCTGAGTATTTCCCTTCTCAATCACCCATGGATGCTTTTCGACAT
* *
1521418 TGAATTATGAAATAATTGAACGCCATTGAGTATCAAATTCCTCTGTTGTGCACCAGGAAGTCATG
326 TGAATTATGAAATAATTGAACGCCATTGAGTATCAAATTCCTCTGTTGTCCACCAGAAAGTCATG
1521483 CATTTTGAGAATGCAT-CTATAAATTTGGGGTCACCAACGTTAGCTTGTGCATTGCGAGAAAGAT
391 CATTTTGAGAATG-ATGCTATAAATTTGGGGTCACCAACGTTAGCTTGTGCATTGCGAGAAAGAT
* *
1521547 GCCAAGAACATAATTTGTGCTTAGCAAAAGAGATAATAAATTTATAGCCCTCTTTATTGCTCTAT
455 GCCAAGAACATAATTTGTGCTTAGCAAAAGAGATAATAAATTTATAGCCCTCTGTATTACTCTAT
* *
1521612 CTCCATCGGTAACAACTGAAATAGGTGATTTATTAATCATGGCTTCTAAAAAATTCTTCAGCACC
520 CTCCATCAGTAACAACTGAAATAAGTGATTTATTAATCATGGCTTCTAAAAAATTCTTCAGCACC
* *
1521677 CACTCAAAAGATTGGGACATTTCGTCAGTGATTATGGCAGTAGCAAACACTATTGTGCTATGATG
585 CACTCAAAAGATTGGGACATTTCGTCAGTGATTATGGCAGTAGCAAACACTATTATGATATGATG
* *
1521742 ATTATTGACATTGATAATAAGCATAATTGGTCGACAACATAAATTATCTTTGTACGGTGTGTCGA
650 ATCATTGACATTGATAATAAGCATAATTGGTCGACAACACAAATTATCTTTGTACGGTGTGTCGA
1521807 ACG
715 ACG
1521810 CAATTATATC
Statistics
Matches: 688, Mismatches: 28, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
718 687 1.00
719 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (718 bp):
AACAAACGAAATGATTCACGCGTATAAATTTCAGCAGCATGGCTTTCAAGGTCAATAAGTTTTGT
GATCTAGAATGGCTTTGTCTAGGAACTTAAGTAATCCACTTTCAACTCATTGATACGCATTCTAA
TAATTCCTTCTTCAATTGCACGAACAACATCTAAATATATCTTCTTATTTTTCAGTGCAATCGCA
AGTAAAGCATTCATAGACTTACACCTTTATGTTGAGTGAATATTGGCAAAGAAATAACCGGTTAG
AGATGCTGATGCCCATAAGTGCTGAGTATTTCCCTTCTCAATCACCCATGGATGCTTTTCGACAT
TGAATTATGAAATAATTGAACGCCATTGAGTATCAAATTCCTCTGTTGTCCACCAGAAAGTCATG
CATTTTGAGAATGATGCTATAAATTTGGGGTCACCAACGTTAGCTTGTGCATTGCGAGAAAGATG
CCAAGAACATAATTTGTGCTTAGCAAAAGAGATAATAAATTTATAGCCCTCTGTATTACTCTATC
TCCATCAGTAACAACTGAAATAAGTGATTTATTAATCATGGCTTCTAAAAAATTCTTCAGCACCC
ACTCAAAAGATTGGGACATTTCGTCAGTGATTATGGCAGTAGCAAACACTATTATGATATGATGA
TCATTGACATTGATAATAAGCATAATTGGTCGACAACACAAATTATCTTTGTACGGTGTGTCGAA
CGT
Found at i:1523144 original size:199 final size:200
Alignment explanation
Indices: 1522789--1523565 Score: 1117
Period size: 199 Copynumber: 3.9 Consensus size: 200
1522779 TTCAACATTT
* *
1522789 ATTACTTTAAAGTAATAGGTAAATTTACAATGTAAGAGGTAAAAATATATCGGTTTAATGACAAA
1 ATTAATTTAAAGTAATAGGTAAATTTACAATGTAAGCGGTAAAAATATATCGGTTTAATGACAAA
* * *
1522854 ATGTGTAAATATAAAGTTTCGAT-CTTTTTTGTATATGTATCGATAC-TTATTTTCCAGTATGCT
66 ATATGTAAACATAAAGTTTCGATAC-TTTTTGTATATGTATCGATACATT-TGTTCCAGTATGCT
*
1522917 TCCCAAA-TGAGATGCACACAGAAAGTATCGATACACGTATGAAAAGTATCGATTCTTACAACTT
129 TCCCAAACT-AGATGCACACAGAAAGTATCGATACACGTATGAAAAGTATCGATTCTTAAAACTT
1522981 TGAAACCG
193 TGAAACCG
* *
1522989 ATTAATTTAAAGTAATAGGTAAATTTACAATGTAAG-GGTAAAAATATACCAGTTTAATGACAAA
1 ATTAATTTAAAGTAATAGGTAAATTTACAATGTAAGCGGTAAAAATATATCGGTTTAATGACAAA
* * * * * *
1523053 ATATATAAACATAAAGTTTTGATCCTTTTTGTATATGTATCGATACACTTGTTCCAGTATGATTA
66 ATATGTAAACATAAAGTTTCGATACTTTTTGTATATGTATCGATACATTTGTTCCAGTATGCTTC
* * *
1523118 CCAAACTAGATGCACGCA-AGAAGTATCGATACATGTA-GGAAAGTATCGATTCTTAAAACTTTG
131 CCAAACTAGATGCACACAGA-AAGTATCGATACACGTATGAAAAGTATCGATTCTTAAAACTTTG
1523181 AAACCG
195 AAACCG
*
1523187 ATTAATTTAAAGTAATAGGTAAATTTACAATGTAAGCTGTAAAAATATATCGGTTTAATGACAAA
1 ATTAATTTAAAGTAATAGGTAAATTTACAATGTAAGCGGTAAAAATATATCGGTTTAATGACAAA
* * *
1523252 ATACGTAAACATAAAGTTTCGATACTTTTTGTATATGTATCGATA-ATTTTGGTCCAATATGCTT
66 ATATGTAAACATAAAGTTTCGATACTTTTTGTATATGTATCGATACA-TTTGTTCCAGTATGCTT
* *
1523316 CCCAAACTAGATGCACACA-AGAAGTATCGATACACGTATGAAAAGCATCGATTCTTAAAATTTT
130 CCCAAACTAGATGCACACAGA-AAGTATCGATACACGTATGAAAAGTATCGATTCTTAAAACTTT
*
1523380 GAAACTG
194 GAAACCG
* *
1523387 ATAAATTTAAAGTAATAGGTAAATTTACAATGTTAGCGGTAAAAATATATCGGTTTAATGAC--A
1 ATTAATTTAAAGTAATAGGTAAATTTACAATGTAAGCGGTAAAAATATATCGGTTTAATGACAAA
* *
1523450 ATATGTAAACATAAAGTTTCGATACTTTTTGTATATGTATCGATAC-TTTTTGTCTAGTATGCTT
66 ATATGTAAACATAAAGTTTCGATACTTTTTGTATATGTATCGATACATTTGT-TCCAGTATGCTT
* ** * *
1523514 CCCAAACTAAATGCATGCAGAAAGTATCGATAGACGTATCAAAAGTATCGAT
130 CCCAAACTAGATGCACACAGAAAGTATCGATACACGTATGAAAAGTATCGAT
1523566 ACACGTATCA
Statistics
Matches: 520, Mismatches: 47, Indels: 22
0.88 0.08 0.04
Matches are distributed among these distances:
197 3 0.01
198 167 0.32
199 225 0.43
200 125 0.24
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (200 bp):
ATTAATTTAAAGTAATAGGTAAATTTACAATGTAAGCGGTAAAAATATATCGGTTTAATGACAAA
ATATGTAAACATAAAGTTTCGATACTTTTTGTATATGTATCGATACATTTGTTCCAGTATGCTTC
CCAAACTAGATGCACACAGAAAGTATCGATACACGTATGAAAAGTATCGATTCTTAAAACTTTGA
AACCG
Found at i:1523560 original size:21 final size:21
Alignment explanation
Indices: 1523534--1523583 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
1523524 ATGCATGCAG
*
1523534 AAAGTATCGATAGACGTATCA
1 AAAGTATCGATACACGTATCA
1523555 AAAGTATCGATACACGTATCA
1 AAAGTATCGATACACGTATCA
1523576 AAAGTATC
1 AAAGTATC
1523584 ACCACTTGTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.24
Consensus pattern (21 bp):
AAAGTATCGATACACGTATCA
Found at i:1527604 original size:200 final size:200
Alignment explanation
Indices: 1527021--1528142 Score: 1627
Period size: 199 Copynumber: 5.6 Consensus size: 200
1527011 TTCAACATTT
* *
1527021 ATTACTTTAAAGTAATAGGTAAATTTACAATGTAAGAGGTAAAAATATATCGGTTTAATGACAAA
1 ATTAATTTAAAGTAATAGGTAAATTTACAATGTAAGCGGTAAAAATATATCGGTTTAATGACAAA
** *
1527086 ATGTGTAAATATAAAGTTTCGAT-CTTTTTTGTATATGTATCGATACTTATT-GTCCAGTATGCT
66 ATACGTAAACATAAAGTTTCGATAC-TTTTTGTATATGTATCGATACTT-TTGGTCCAGTATGCT
* *
1527149 TCCCAAA-TGAGATGCACACAGAAAGTATCGATACACGTATGAAAAGTATAGATTCTTACAACTT
129 TCCCAAACT-AGATGCACACAGAAAGTATCGATACACGTATGAAAAGTATCGATTCTTAAAACTT
1527213 TGAAACCG
193 TGAAACCG
* * *
1527221 ATTAATTTAAAGTAATAGGTAAATTTACAATGTAAG-GGTTAAAATATACCAGTTTAATGACAAA
1 ATTAATTTAAAGTAATAGGTAAATTTACAATGTAAGCGGTAAAAATATATCGGTTTAATGACAAA
* * * * * *
1527285 ATATGTAAACATAAAGTTTCGATACTTTTTGTATAAGTATCGATACGTTTGTTCCAGTATGATTA
66 ATACGTAAACATAAAGTTTCGATACTTTTTGTATATGTATCGATACTTTTGGTCCAGTATGCTTC
* * *
1527350 CTAAA-TGAGATGCACACAGAAAGTATCGATACACGTATGAAAAGTATAGATTCTTACAACTTTG
131 CCAAACT-AGATGCACACAGAAAGTATCGATACACGTATGAAAAGTATCGATTCTTAAAACTTTG
1527414 AAACCG
195 AAACCG
*
1527420 ATTAATTTAAAGTAATAGGTAAATTTACAATGTAAGCTGTAAAAATATATCGGTTTAATGACAAA
1 ATTAATTTAAAGTAATAGGTAAATTTACAATGTAAGCGGTAAAAATATATCGGTTTAATGACAAA
* *
1527485 ATACGTAAACATAAAGTTTCGATACTTTTTGTATATGTATCGATAATTTTGGTCCAATATGCTTC
66 ATACGTAAACATAAAGTTTCGATACTTTTTGTATATGTATCGATACTTTTGGTCCAGTATGCTTC
* *
1527550 CCAAACTAGATGCACACA-AGAAGTATTGATACACGTATGAAAAGCATCGATTCTTAAAACTTTG
131 CCAAACTAGATGCACACAGA-AAGTATCGATACACGTATGAAAAGTATCGATTCTTAAAACTTTG
1527614 AAACCG
195 AAACCG
*
1527620 ATTAATTTAAAGTAATAGGTAAATTTACAATGTAAGCTGTAAAAATATATCGGTTTAATGACAAA
1 ATTAATTTAAAGTAATAGGTAAATTTACAATGTAAGCGGTAAAAATATATCGGTTTAATGACAAA
* *
1527685 ATACGTAAACATAAAGTTTCGATAC-TTTTGTATATGTATCGATAATTTTGGTCCAATATGCTTC
66 ATACGTAAACATAAAGTTTCGATACTTTTTGTATATGTATCGATACTTTTGGTCCAGTATGCTTC
* *
1527749 CCAAACTAGATGCACACA-AGAAGTATTGATACACGTATGAAAAGCATCGATTCTTAAAACTTTG
131 CCAAACTAGATGCACACAGA-AAGTATCGATACACGTATGAAAAGTATCGATTCTTAAAACTTTG
*
1527813 AAACTG
195 AAACCG
* *
1527819 ATTAATTTAAAGTAATAGGTAAATTTACAATGTTAGCGGTAAAAATATATCAGTTTAATGAC--A
1 ATTAATTTAAAGTAATAGGTAAATTTACAATGTAAGCGGTAAAAATATATCGGTTTAATGACAAA
* * * *
1527882 ATATGTAAACATAACGTTTCGATACTTTTTGTATATGTATCGATACTTTTTGTCTAGTATGCTTC
66 ATACGTAAACATAAAGTTTCGATACTTTTTGTATATGTATCGATACTTTTGGTCCAGTATGCTTC
* * * * *
1527947 CCAAACTAAATGCACGCAGAAAGTATCGATACACGTATCAAAAGTATCAATTCTAAAAACTTTGA
131 CCAAACTAGATGCACACAGAAAGTATCGATACACGTATGAAAAGTATCGATTCTTAAAACTTTGA
* *
1528012 AATCT
196 AACCG
* * * **
1528017 ATTACTTTAAATTAATAGGTAAATTTACAATGTAAACAATAAAAATATA-CTGGTTTAATGACAA
1 ATTAATTTAAAGTAATAGGTAAATTTACAATGTAAGCGGTAAAAATATATC-GGTTTAATGACAA
** * * *
1528081 AATACGTAAACATAAAGTACCAATACTTTTCGTATATATATCGATACTTTTGGTCCAGTATG
65 AATACGTAAACATAAAGTTTCGATACTTTTTGTATATGTATCGATACTTTTGGTCCAGTATG
1528143 AAAACACCGA
Statistics
Matches: 847, Mismatches: 65, Indels: 20
0.91 0.07 0.02
Matches are distributed among these distances:
197 25 0.03
198 148 0.17
199 352 0.42
200 321 0.38
201 1 0.00
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.33
Consensus pattern (200 bp):
ATTAATTTAAAGTAATAGGTAAATTTACAATGTAAGCGGTAAAAATATATCGGTTTAATGACAAA
ATACGTAAACATAAAGTTTCGATACTTTTTGTATATGTATCGATACTTTTGGTCCAGTATGCTTC
CCAAACTAGATGCACACAGAAAGTATCGATACACGTATGAAAAGTATCGATTCTTAAAACTTTGA
AACCG
Found at i:1527764 original size:399 final size:397
Alignment explanation
Indices: 1527021--1528143 Score: 1632
Period size: 399 Copynumber: 2.8 Consensus size: 397
1527011 TTCAACATTT
* *
1527021 ATTACTTTAAAGTAATAGGTAAATTTACAATGTAAGAGGTAAAAATATATCGGTTTAATGACAAA
1 ATTAATTTAAAGTAATAGGTAAATTTACAATGTAAGCGGTAAAAATATATCGGTTTAATGACAAA
* *
1527086 ATGTGTAAATATAAAGTTTCGAT-CTTTTTTGTATATGTATCGATACTTATTGTCCAGTATGCTT
66 ATATGTAAACATAAAGTTTCGATAC-TTTTTGTATATGTATCGATACTT-TTGTCCAGTATGCTT
* *
1527150 CCCAAA-TGAGATGCACACAGAAAGTATCGATACACGTATGAAAAGTATAGATTCTTACAACTTT
129 CCCAAACT-AGATGCACACAGAAAGTATCGATACACGTATGAAAAGTATCGATTCTTAAAACTTT
* * *
1527214 GAAACCGATTAATTTAAAGTAATAGGTAAATTTACAATGTAAG-GGTTAAAATATACCAGTTTAA
193 GAAACCGATTAATTTAAAGTAATAGGTAAATTTACAATGTAAGCAGTAAAAATATA-CGGTTTAA
* * * *
1527278 TGACAAAATATGTAAACATAAAGTTTCGATACTTTTTGTATAAGTATCGATACGTTTGTTCCAGT
257 TGACAAAATACGTAAACATAAAGTTTCGATAC-TTTTGTATATGTATCGATACTTTTGGTCCAGT
* * *
1527343 ATGATTACTAAATGAGATGCACAC-AGAAAGTATCGATACACGTATGAAAAGTATAGATTCTTAC
321 ATGATTACCAAATGAGATGCACACAAG-AAGTATCGATACACGTATGAAAAGCATAGATTCTTAA
1527407 AACTTTGAAACCG
385 AACTTTGAAACCG
*
1527420 ATTAATTTAAAGTAATAGGTAAATTTACAATGTAAGCTGTAAAAATATATCGGTTTAATGACAAA
1 ATTAATTTAAAGTAATAGGTAAATTTACAATGTAAGCGGTAAAAATATATCGGTTTAATGACAAA
* * *
1527485 ATACGTAAACATAAAGTTTCGATACTTTTTGTATATGTATCGATAATTTTGGTCCAATATGCTTC
66 ATATGTAAACATAAAGTTTCGATACTTTTTGTATATGTATCGATACTTTT-GTCCAGTATGCTTC
* *
1527550 CCAAACTAGATGCACACA-AGAAGTATTGATACACGTATGAAAAGCATCGATTCTTAAAACTTTG
130 CCAAACTAGATGCACACAGA-AAGTATCGATACACGTATGAAAAGTATCGATTCTTAAAACTTTG
*
1527614 AAACCGATTAATTTAAAGTAATAGGTAAATTTACAATGTAAGCTGTAAAAATATATCGGTTTAAT
194 AAACCGATTAATTTAAAGTAATAGGTAAATTTACAATGTAAGCAGTAAAAATATA-CGGTTTAAT
* *
1527679 GACAAAATACGTAAACATAAAGTTTCGATACTTTTGTATATGTATCGATAATTTTGGTCCAATAT
258 GACAAAATACGTAAACATAAAGTTTCGATACTTTTGTATATGTATCGATACTTTTGGTCCAGTAT
* * * *
1527744 GCTTCCCAAACT-AGATGCACACAAGAAGTATTGATACACGTATGAAAAGCATCGATTCTTAAAA
323 GATTACCAAA-TGAGATGCACACAAGAAGTATCGATACACGTATGAAAAGCATAGATTCTTAAAA
*
1527808 CTTTGAAACTG
387 CTTTGAAACCG
* *
1527819 ATTAATTTAAAGTAATAGGTAAATTTACAATGTTAGCGGTAAAAATATATCAGTTTAATGAC--A
1 ATTAATTTAAAGTAATAGGTAAATTTACAATGTAAGCGGTAAAAATATATCGGTTTAATGACAAA
* *
1527882 ATATGTAAACATAACGTTTCGATACTTTTTGTATATGTATCGATACTTTTTGTCTAGTATGCTTC
66 ATATGTAAACATAAAGTTTCGATACTTTTTGTATATGTATCGATAC-TTTTGTCCAGTATGCTTC
* * * * *
1527947 CCAAACTAAATGCACGCAGAAAGTATCGATACACGTATCAAAAGTATCAATTCTAAAAACTTTGA
130 CCAAACTAGATGCACACAGAAAGTATCGATACACGTATGAAAAGTATCGATTCTTAAAACTTTGA
* * * * * *
1528012 AATCTATTACTTTAAATTAATAGGTAAATTTACAATGTAAACAATAAAAATATACTGGTTTAATG
195 AACCGATTAATTTAAAGTAATAGGTAAATTTACAATGTAAGCAGTAAAAATATAC-GGTTTAATG
** * *
1528077 ACAAAATACGTAAACATAAAGTACCAATACTTTTCGTATATATATCGATACTTTTGGTCCAGTAT
259 ACAAAATACGTAAACATAAAGTTTCGATACTTTT-GTATATGTATCGATACTTTTGGTCCAGTAT
1528142 GA
323 GA
1528144 AAACACCGAT
Statistics
Matches: 654, Mismatches: 59, Indels: 23
0.89 0.08 0.03
Matches are distributed among these distances:
396 1 0.00
397 199 0.30
398 36 0.06
399 365 0.56
400 53 0.08
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.33
Consensus pattern (397 bp):
ATTAATTTAAAGTAATAGGTAAATTTACAATGTAAGCGGTAAAAATATATCGGTTTAATGACAAA
ATATGTAAACATAAAGTTTCGATACTTTTTGTATATGTATCGATACTTTTGTCCAGTATGCTTCC
CAAACTAGATGCACACAGAAAGTATCGATACACGTATGAAAAGTATCGATTCTTAAAACTTTGAA
ACCGATTAATTTAAAGTAATAGGTAAATTTACAATGTAAGCAGTAAAAATATACGGTTTAATGAC
AAAATACGTAAACATAAAGTTTCGATACTTTTGTATATGTATCGATACTTTTGGTCCAGTATGAT
TACCAAATGAGATGCACACAAGAAGTATCGATACACGTATGAAAAGCATAGATTCTTAAAACTTT
GAAACCG
Found at i:1529538 original size:17 final size:18
Alignment explanation
Indices: 1529511--1529545 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
1529501 TTAGGTAATT
1529511 CATTATTCATGTTCTAAA
1 CATTATTCATGTTCTAAA
*
1529529 CATT-TTCATGTTGTAAA
1 CATTATTCATGTTCTAAA
1529546 ATGTATTTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.31, C:0.14, G:0.09, T:0.46
Consensus pattern (18 bp):
CATTATTCATGTTCTAAA
Found at i:1530957 original size:6 final size:6
Alignment explanation
Indices: 1530946--1531015 Score: 61
Period size: 6 Copynumber: 11.7 Consensus size: 6
1530936 TTTATGCAGT
* * * * *
1530946 TTTCAA TTTCAA TTTGAGA -TTGAA TTTCAA TTTCAA TTTTAA TTTGAT
1 TTTCAA TTTCAA TTTCA-A TTTCAA TTTCAA TTTCAA TTTCAA TTTCAA
* *
1530994 TTTGAA TTTCAA TTTTAA TTTC
1 TTTCAA TTTCAA TTTCAA TTTC
1531016 GGCTCCACTA
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
5 1 0.02
6 51 0.96
7 1 0.02
ACGTcount: A:0.30, C:0.09, G:0.07, T:0.54
Consensus pattern (6 bp):
TTTCAA
Found at i:1530973 original size:24 final size:24
Alignment explanation
Indices: 1530946--1531014 Score: 86
Period size: 24 Copynumber: 2.9 Consensus size: 24
1530936 TTTATGCAGT
1530946 TTTCAATTTCAATTTGAGA-TTGAA
1 TTTCAATTTCAATTTGA-ATTTGAA
* *
1530970 TTTCAATTTCAATTTTAATTTGAT
1 TTTCAATTTCAATTTGAATTTGAA
* *
1530994 TTTGAATTTCAATTTTAATTT
1 TTTCAATTTCAATTTGAATTT
1531015 CGGCTCCACT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
23 1 0.02
24 40 0.98
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.55
Consensus pattern (24 bp):
TTTCAATTTCAATTTGAATTTGAA
Found at i:1530982 original size:30 final size:30
Alignment explanation
Indices: 1530946--1531015 Score: 104
Period size: 30 Copynumber: 2.3 Consensus size: 30
1530936 TTTATGCAGT
1530946 TTTCAATTTCAATTTGAGATTGAATTTCAA
1 TTTCAATTTCAATTTGAGATTGAATTTCAA
* **
1530976 TTTCAATTTTAATTTGATTTTGAATTTCAA
1 TTTCAATTTCAATTTGAGATTGAATTTCAA
*
1531006 TTTTAATTTC
1 TTTCAATTTC
1531016 GGCTCCACTA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.30, C:0.09, G:0.07, T:0.54
Consensus pattern (30 bp):
TTTCAATTTCAATTTGAGATTGAATTTCAA
Found at i:1532532 original size:247 final size:247
Alignment explanation
Indices: 1532129--1532597 Score: 688
Period size: 247 Copynumber: 1.9 Consensus size: 247
1532119 TCAACTAAAT
* *
1532129 ATAACAGGTTCAAAATTGACAAAATCTGTTTCAATAATAGCGCCTATAAAGTATCGATACCTCAT
1 ATAACAGGTTCAAAATTGACAAAATCTGTTTCAATAATAGCACCTATAAAGTATCGATACCTCAG
* * * * *
1532194 ACACATGTATCGATACATGACAATAGAACATGTTAAAAATTGACAAAATTGGTTTTAATATGACA
66 ACACATGTATAGATACATAACAATAGAACAGGTTAAAAATTGACAAAATTGGTTTCAATATGAAA
* * ** * **
1532259 AAACTAGTAAAGGGCTACTGGTTTACACAAAAACGAAACGTCTTGAAAGTATCGATACCTTACAC
131 AAACCAGTAAAGCGCTACCCGTTTACACAAAAACGAAACATCTCAAAAGTATCGATACCTTACAC
*
1532324 AAAAGTATCGACACATCGGTAAGGGTAATGATATCGATTAAATATAAATAAC
196 AAAAGTATCAACACATCGGTAAGGGTAATGATATCGATTAAATATAAATAAC
* * * *
1532376 ATAACAGGTTGAAAATTGACAAAATC-GATTTCAATAATTGCACCTATAAAGTATTGATACTTCA
1 ATAACAGGTTCAAAATTGACAAAATCTG-TTTCAATAATAGCACCTATAAAGTATCGATACCTCA
* *
1532440 GACACATGTATATATACATAACAATATAACAGGTTAAAAATTGACAAAATTGGTTTCAATATGAA
65 GACACATGTATAGATACATAACAATAGAACAGGTTAAAAATTGACAAAATTGGTTTCAATATGAA
* * **
1532505 AAAACCGGTAAAGCGCTACCCGTTTACAGAAAATTGAAACATCTCAAAAGTATCGATACCTTACA
130 AAAACCAGTAAAGCGCTACCCGTTTACACAAAAACGAAACATCTCAAAAGTATCGATACCTTACA
*
1532570 CAAAAGTATCAACACTTCGGTAAGGGTA
195 CAAAAGTATCAACACATCGGTAAGGGTA
1532598 TTCAATATAA
Statistics
Matches: 195, Mismatches: 26, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
246 1 0.01
247 194 0.99
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (247 bp):
ATAACAGGTTCAAAATTGACAAAATCTGTTTCAATAATAGCACCTATAAAGTATCGATACCTCAG
ACACATGTATAGATACATAACAATAGAACAGGTTAAAAATTGACAAAATTGGTTTCAATATGAAA
AAACCAGTAAAGCGCTACCCGTTTACACAAAAACGAAACATCTCAAAAGTATCGATACCTTACAC
AAAAGTATCAACACATCGGTAAGGGTAATGATATCGATTAAATATAAATAAC
Found at i:1535434 original size:130 final size:131
Alignment explanation
Indices: 1535107--1535443 Score: 367
Period size: 131 Copynumber: 2.6 Consensus size: 131
1535097 TCTTAAGAGT
* * * * *
1535107 GAAAATGATAATATCTAATTACTTCAAATCGAGAATAAAAGACCTTTCGTGCATTAAAATAGTCA
1 GAAAATGATAATATCTAATTATTTCCAATCGAGAATAAAAGACCTTTCATGCATTAAAACAATCA
* * * * * *
1535172 TTTATTACTCCAATTGAAATAAAAATATATTACGATTTCATCTTAAAATTCAATATCGATTCAAG
66 TTTATTACTCCAATCGAAACAAAAAGATATTAAGATTTCATCTTAAAAATCAATATCAATTCAAG
*
1535237 T
131 A
* * * *
1535238 GAAAATGATAATATCTAATGATTTCCAAT-AAGGAATAAACGACTTTTCATGCATTAAAACAATC
1 GAAAATGATAATATCTAATTATTTCCAATCGA-GAATAAAAGACCTTTCATGCATTAAAACAATC
* * * * *
1535302 ATTTATTAC-CCAAATCGAAACAAAGAGATATTAATATTTCATC-TAAAAATCGATATTAATTCG
65 ATTTATTACTCC-AATCGAAACAAAAAGATATTAAGATTTCATCTTAAAAATCAATATCAATTCA
1535365 AGA
129 AGA
* * * * * * *
1535368 GAAAACGACAATATCAAATTATTTCCAATCGAGAATAAATGACCTCTT-ATGCCTTAAAGCATTC
1 GAAAATGATAATATCTAATTATTTCCAATCGAGAATAAAAGACCT-TTCATGCATTAAAACAATC
1535432 ATTTATTACTCC
65 ATTTATTACTCC
1535444 GACCAAAATG
Statistics
Matches: 170, Mismatches: 31, Indels: 10
0.81 0.15 0.05
Matches are distributed among these distances:
130 78 0.46
131 92 0.54
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.32
Consensus pattern (131 bp):
GAAAATGATAATATCTAATTATTTCCAATCGAGAATAAAAGACCTTTCATGCATTAAAACAATCA
TTTATTACTCCAATCGAAACAAAAAGATATTAAGATTTCATCTTAAAAATCAATATCAATTCAAG
A
Found at i:1538334 original size:42 final size:41
Alignment explanation
Indices: 1538288--1538368 Score: 117
Period size: 42 Copynumber: 2.0 Consensus size: 41
1538278 AGGATATCAA
* * *
1538288 TAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTG
1 TAAGTCTTTCGAGCAAGATG-ATAAATCCTTCGGGCCATCTG
*
1538330 TAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATC
1 TAAGTCTTTCGAGCAAGATGATAAATCCTTCGGGCCATC
1538369 CATAAGACCT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
41 16 0.46
42 19 0.54
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.32
Consensus pattern (41 bp):
TAAGTCTTTCGAGCAAGATGATAAATCCTTCGGGCCATCTG
Found at i:1538759 original size:245 final size:246
Alignment explanation
Indices: 1538008--1538908 Score: 1358
Period size: 246 Copynumber: 3.7 Consensus size: 246
1537998 CCTAGTAAAC
* *
1538008 TATTTCCAAAATTATAAGTCATTCGGGCCATCAGTAAGTCTTTCAAGCATGATGCTTAAATCCTT
1 TATTTCCAAAATTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTT
* * * * *
1538073 CGAGTCATCTGTAAGTCTATCAAGCAAGATAATAAGTCATTCGGGCCATCCATAAGACCTTTGGG
66 CGGGTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTTGGG
*
1538138 CAGGATGTTTTCACAGATCCCTCTTTTCCAAGATTTGATATTCACTGAGT-ACCAGCGGAACAAG
131 CAGGATGTTTTCACAGATCCCTCTTTTCCAAGATTTGATATTCACTAAGTGA-CAGCGGAACAAG
* * *
1538202 TCTGCCCCAGATCTGATATTCCCAGAGTGACAGGGAAACAAATCCCTTATCA
195 TCTGCCCCAGATCTGATATTCCCTGAGTGACAGCGAAACAGATCCCTTATCA
* ** *
1538254 TATTTCCAAAATTATAAGTCCTTCAGGATATCAATAAGTCTTTCGAGCATGATGCTTAAATCCTT
1 TATTTCCAAAATTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTT
*
1538319 CGGGTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTTGGA
66 CGGGTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTTGGG
* * * * * *
1538384 TAGGATGTTTTCACAGGTCTCTCTTTTCCAAGATTTGATATTCCCTAAGTGACAGTGAAACAAGT
131 CAGGATGTTTTCACAGATCCCTCTTTTCCAAGATTTGATATTCACTAAGTGACAGCGGAACAAGT
* * *
1538449 CTGCCCCAGATCTGATATTCCCTGAGTAATAGCGGAACAGATCCCTTATCA
196 CTGCCCCAGATCTGATATTCCCTGAGTGACAGCGAAACAGATCCCTTATCA
* *
1538500 TA-TTACATAAATTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCTT
1 TATTTCCA-AAATTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCT
* * *
1538564 TCGGGTCATTTGTTAGTCTTTCGAGTAAGATGATAAGTCCTTCGGGCCATCCATAAGACC-TTGG
65 TCGGGTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTTGG
* * * *
1538628 GTAGGATGTTTTCACAGGTCCCTCTATTCCAAGATTTGATATTCTCTAAGTGACAGCGGAACAAG
130 GCAGGATGTTTTCACAGATCCCTCTTTTCCAAGATTTGATATTCACTAAGTGACAGCGGAACAAG
* *
1538693 TCTGCCCTAGATCTGATATTCCCTGAGTGACAGCGAAACAGATCCCTTACCA
195 TCTGCCCCAGATCTGATATTCCCTGAGTGACAGCGAAACAGATCCCTTATCA
* * * *
1538745 TATTTCCAAAATTATAAGTCCTTTGGGCCATCAGAAAGTCTTTTGAGCATGATGCTTAAATCTTT
1 TATTTCCAAAATTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTT
* * *
1538810 CGGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTCTTTCAGGCCATCCATAAGACCTTTGGG
66 CGGGTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTTGGG
* *
1538875 CAGGATGTTTTCACATATCCCTCTTTTCAAAGAT
131 CAGGATGTTTTCACAGATCCCTCTTTTCCAAGAT
1538909 CGAATACGAA
Statistics
Matches: 591, Mismatches: 60, Indels: 8
0.90 0.09 0.01
Matches are distributed among these distances:
245 223 0.38
246 367 0.62
247 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (246 bp):
TATTTCCAAAATTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTT
CGGGTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTTGGG
CAGGATGTTTTCACAGATCCCTCTTTTCCAAGATTTGATATTCACTAAGTGACAGCGGAACAAGT
CTGCCCCAGATCTGATATTCCCTGAGTGACAGCGAAACAGATCCCTTATCA
Found at i:1538865 original size:41 final size:42
Alignment explanation
Indices: 1538780--1538865 Score: 102
Period size: 41 Copynumber: 2.1 Consensus size: 42
1538770 GGCCATCAGA
* * * * * *
1538780 AAGTCTTTTGAGCATGATGCTTAAATCTTTCGGGTCATCTAT
1 AAGTCTTTCGAGCAAGATGCATAAATCTTTCAGGCCATCCAT
*
1538822 AAGTCTTTCGAGCAAGATG-ATAAGTCTTTCAGGCCATCCAT
1 AAGTCTTTCGAGCAAGATGCATAAATCTTTCAGGCCATCCAT
1538863 AAG
1 AAG
1538866 ACCTTTGGGC
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
41 20 0.54
42 17 0.46
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.34
Consensus pattern (42 bp):
AAGTCTTTCGAGCAAGATGCATAAATCTTTCAGGCCATCCAT
Found at i:1541180 original size:131 final size:131
Alignment explanation
Indices: 1540861--1541167 Score: 379
Period size: 131 Copynumber: 2.3 Consensus size: 131
1540851 TCTTAAGAGT
* * * *
1540861 GAAAATGATAATATCTAATTACTTCCAATCGAGAATAAACGACCTTTTGTGCATTAAAACAGTTA
1 GAAAATGATAATATCTAATTATTTCCAATGGAGAATAAAAGACCTTTTGTGCATTAAAACAGTCA
* * * * *
1540926 TTTATTACTCCAATTGAAATAAAAAGATATTACTATTTCATCTTAAAATTCATTATAGATTCAAG
66 TTTATTACCCCAATCGAAACAAAAAGATATTACTATTTCATCTAAAAATACATTATAGATTCAAG
*
1540991 T
131 A
*
1540992 GAAAATGATAATATCTAATGATTTCCAATTGG-GAATAAAAGACCTTTTGTGCATTAAAACAGTC
1 GAAAATGATAATATCTAATTATTTCCAA-TGGAGAATAAAAGACCTTTTGTGCATTAAAACAGTC
* *
1541056 ATTTATTACCCCAATCGAAACAAAGAGATATTTA-TATTTCATCTAAAAAATAGA-TATTA-ATT
65 ATTTATTACCCCAATCGAAACAAAAAGATA-TTACTATTTCATCT-AAAAATACATTA-TAGATT
**
1541118 TGAGA
127 CAAGA
* * * *
1541123 GAAAACGACAATATCAAATTATTTCCAATGGAGAATAAATGACCT
1 GAAAATGATAATATCTAATTATTTCCAATGGAGAATAAAAGACCT
1541168 CTTATGCCTT
Statistics
Matches: 151, Mismatches: 20, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
130 3 0.02
131 135 0.89
132 13 0.09
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.33
Consensus pattern (131 bp):
GAAAATGATAATATCTAATTATTTCCAATGGAGAATAAAAGACCTTTTGTGCATTAAAACAGTCA
TTTATTACCCCAATCGAAACAAAAAGATATTACTATTTCATCTAAAAATACATTATAGATTCAAG
A
Found at i:1543345 original size:3 final size:3
Alignment explanation
Indices: 1543339--1543364 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1543329 AAAATGTTTT
1543339 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
1543365 GCGGTAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:1544116 original size:225 final size:225
Alignment explanation
Indices: 1543718--1544418 Score: 978
Period size: 226 Copynumber: 3.1 Consensus size: 225
1543708 ATAAATCAAA
* * *
1543718 TAATTAACCGGCTATGTTATCGTCGGATTTCTAAGGCTCGATCAA-CTAAAACTTTGGTAACATT
1 TAATTAACCGGTTATGTTATCGTCGGATTTCTAAGGCTCCAT-AAGCTTAAACTTTGGTAACATT
* * * *
1543782 TT-AGACGTTGCCTCATATGTTGATAATACTGATAAAAAATTAAGTGATTAACCTATTTTGTTAT
65 TTAAG-CGTTACCTAATATGTTGATAATACTAATAAAAAATTAAGTAATTAACCTATTTTGTTAT
* * * *
1543846 CGTCGGATTT-TTAAGGCTCCATCAGCTTTAAAAATGTGTTACCTATTACGTTACATAAACGCTA
129 CGTCGGATTTCTAAAGCCT-CATCAGCTTTAAAAATGTGCTACCTATTACGTTACATAAGCGCTA
1543910 CCTAATATGTTATTATGCTTGATAATGTTCCAG
193 CCTAATATGTTATTATGCTTGATAATGTTCCAG
*
1543943 TAATTAACCGGTTATGTTATCGTTGGATTTCTAAGGCTCCATAAGCTTAAACTTTGGTAACATTT
1 TAATTAACCGGTTATGTTATCGTCGGATTTCTAAGGCTCCATAAGCTTAAACTTTGGTAACATTT
* * *
1544008 TAAGCGTTACCTAATATGTCGATAATACTTATAACAAATTAAGTAATTAACCTATTTTGTTATCG
66 TAAGCGTTACCTAATATGTTGATAATACTAATAAAAAATTAAGTAATTAACCTATTTTGTTATCG
* *** * * *
1544073 TCGGATTTCTAAAGCCTCATCAACTTTAAAAACACGCTACCTATTACGTTAGATAAGTGTTACCT
131 TCGGATTTCTAAAGCCTCATCAGCTTTAAAAATGTGCTACCTATTACGTTACATAAGCGCTACCT
*
1544138 AATATGTTATTATGCTTGATAATATTTCCAG
196 AATATGTTATTATGCTTGATAAT-GTTCCAG
* * * * *
1544169 TAATTAACCGATTATGTTATAGTCGGATTTCCAAGGCTCCATCAGTTTAAACTTTGGTAACATTT
1 TAATTAACCGGTTATGTTATCGTCGGATTTCTAAGGCTCCATAAGCTTAAACTTTGGTAACATTT
* * *
1544234 TACGAGTTATCTAATATGTTGATAATACTAATAAAAAATTAAGTAATTAACCTATTTTGTTATCG
66 TAAGCGTTACCTAATATGTTGATAATACTAATAAAAAATTAAGTAATTAACCTATTTTGTTATCG
* * * * *
1544299 TCGAATTTCTAAAGCCCCATCAGCTTTAAAAATGTACTACCTATTACATTACATAAGCACTACCT
131 TCGGATTTCTAAAGCCTCATCAGCTTTAAAAATGTGCTACCTATTACGTTACATAAGCGCTACCT
*
1544364 AATATGTTATTAT-CTTTGATAATGTTTCCAA
196 AATATGTTATTATGC-TTGATAATG-TTCCAG
*
1544395 TAATTAACCGGATATGTTATCGTC
1 TAATTAACCGGTTATGTTATCGTC
1544419 AGTATTTTTT
Statistics
Matches: 419, Mismatches: 51, Indels: 11
0.87 0.11 0.02
Matches are distributed among these distances:
224 2 0.00
225 185 0.44
226 232 0.55
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.38
Consensus pattern (225 bp):
TAATTAACCGGTTATGTTATCGTCGGATTTCTAAGGCTCCATAAGCTTAAACTTTGGTAACATTT
TAAGCGTTACCTAATATGTTGATAATACTAATAAAAAATTAAGTAATTAACCTATTTTGTTATCG
TCGGATTTCTAAAGCCTCATCAGCTTTAAAAATGTGCTACCTATTACGTTACATAAGCGCTACCT
AATATGTTATTATGCTTGATAATGTTCCAG
Found at i:1547017 original size:3 final size:3
Alignment explanation
Indices: 1547009--1547071 Score: 81
Period size: 3 Copynumber: 20.3 Consensus size: 3
1546999 ATATTATAAA
* *
1547009 ATT ATT ATT ATT ATT ATT ATT ATC ATT ATT ATT ATT ATT ATTT ATA
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT
*
1547055 ATT ATT AAT ATTT ATT A
1 ATT ATT ATT A-TT ATT A
1547072 CAACTATCTG
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
3 47 0.90
4 5 0.10
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:1547071 original size:10 final size:9
Alignment explanation
Indices: 1546995--1547071 Score: 59
Period size: 9 Copynumber: 8.6 Consensus size: 9
1546985 GGGATATAAA
1546995 TATT-ATAT
1 TATTAATAT
*
1547003 TA-TAAAAT
1 TATTAATAT
*
1547011 TATTATTAT
1 TATTAATAT
*
1547020 TATTATTAT
1 TATTAATAT
* *
1547029 TATCATTAT
1 TATTAATAT
*
1547038 TATTATTAT
1 TATTAATAT
*
1547047 TATTTATAAT
1 TATTAAT-AT
1547057 TATTAATATT
1 TATTAATA-T
1547067 TATTA
1 TATTA
1547072 CAACTATCTG
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
7 1 0.02
8 7 0.12
9 35 0.61
10 14 0.25
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (9 bp):
TATTAATAT
Found at i:1548558 original size:17 final size:17
Alignment explanation
Indices: 1548521--1548560 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
1548511 TCGGTTCGAT
**
1548521 TTTTTTAACAGTTCGTT
1 TTTTTTAACAGTTCGGG
*
1548538 TTTTTTAACGGTTCGGG
1 TTTTTTAACAGTTCGGG
1548555 TTTTTT
1 TTTTTT
1548561 GGTTCGATTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.12, C:0.10, G:0.17, T:0.60
Consensus pattern (17 bp):
TTTTTTAACAGTTCGGG
Found at i:1548560 original size:19 final size:17
Alignment explanation
Indices: 1548514--1548552 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
1548504 TTTCGGTTCG
*
1548514 GTTCGATTTTTTTAACA
1 GTTCGTTTTTTTTAACA
*
1548531 GTTCGTTTTTTTTAACG
1 GTTCGTTTTTTTTAACA
1548548 GTTCG
1 GTTCG
1548553 GGTTTTTTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.15, C:0.13, G:0.18, T:0.54
Consensus pattern (17 bp):
GTTCGTTTTTTTTAACA
Found at i:1553439 original size:3 final size:3
Alignment explanation
Indices: 1553421--1553476 Score: 62
Period size: 3 Copynumber: 18.7 Consensus size: 3
1553411 CAAATAGTTG
* *
1553421 TAA TAAA TAT TAA TAA TAA TAAA TAA TAA TAA TAA TAA TAA TCA T-A
1 TAA T-AA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA
1553467 TAA T-A TAA TA
1 TAA TAA TAA TA
1553477 TTTATATCCC
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
2 4 0.09
3 36 0.78
4 6 0.13
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:1553442 original size:16 final size:16
Alignment explanation
Indices: 1553421--1553476 Score: 71
Period size: 16 Copynumber: 3.6 Consensus size: 16
1553411 CAAATAGTTG
*
1553421 TAATAAATATTAATAA
1 TAATAAATAATAATAA
1553437 TAATAAATAATAATAA
1 TAATAAATAATAATAA
*
1553453 TAAT-AATAATCAT-A
1 TAATAAATAATAATAA
1553467 TAATATAATA
1 TAATA-AATA
1553477 TTTATATCCC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
14 5 0.14
15 8 0.22
16 23 0.64
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (16 bp):
TAATAAATAATAATAA
Found at i:1553474 original size:19 final size:21
Alignment explanation
Indices: 1553421--1553476 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 21
1553411 CAAATAGTTG
1553421 TAATAAATATTAATAATAATAAA
1 TAAT-AATA-TAATAATAATAAA
*
1553444 TAATAATAATAATAATAAT-CA
1 TAATAAT-ATAATAATAATAAA
1553465 T-ATAATATAATA
1 TAATAATATAATA
1553477 TTTATATCCC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
19 6 0.19
20 5 0.16
21 2 0.06
22 13 0.42
23 5 0.16
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
TAATAATATAATAATAATAAA
Found at i:1553733 original size:54 final size:54
Alignment explanation
Indices: 1553597--1554145 Score: 730
Period size: 54 Copynumber: 10.2 Consensus size: 54
1553587 TCAGGATGTA
* * * * *
1553597 GAACTCAAACAATCTTCTGCCTACGGGTTCGCTTCCTCTTGCTTCAGGGAGTA-
1 GAACTCGAACAATCTTCTGCCAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAG
* * *
1553650 GAAATCGAACAATCTTCTGCCAACAGGTTCGCTCCCTCTTTATTTAGGGAGTAG
1 GAACTCGAACAATCTTCTGCCAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAG
*
1553704 GAACTCGAACAATCTTCTGCCAACGGGTTCGCTCCGTCTTTCTTTAGGGAGTAG
1 GAACTCGAACAATCTTCTGCCAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAG
* * *
1553758 GAACTCGAATAATCTTCTGCCTACGGGTTCGCTCCCTATTTCTTTAGGGAGTAG
1 GAACTCGAACAATCTTCTGCCAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAG
* * * * *
1553812 GAACTCAAACAATCTTCTTCCAACGGTTTCGCTTCCTCTTTCTTTAGGGAGTATA
1 GAACTCGAACAATCTTCTGCCAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTA-G
* * * *
1553867 GAACTCGAATAATCTTCTGCCAGCGAGTTCGCTCCCTCTTTATTTAGGGAGTAG
1 GAACTCGAACAATCTTCTGCCAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAG
* *
1553921 GAACTCGAACAATCTTCTTCCAACAGGTTCGCTCCCTCTTTCTTTAGGGAGTAG
1 GAACTCGAACAATCTTCTGCCAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAG
* * * * *
1553975 GAACTCGAACAATCTTCTTCTAACGGGTTCACTCACTCTTTCTTTAAGGAGTAG
1 GAACTCGAACAATCTTCTGCCAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAG
* ***
1554029 GAACTTGAACAATCTTCT-TTTAC-GGTTCGCTCCCTCTTTCTTTAGGGAGTAG
1 GAACTCGAACAATCTTCTGCCAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAG
** **
1554081 GAACTCG-A-AATCTTCTGCTTACGGGTTTACTCCCTCTTTCTTTAGGGAGTAG
1 GAACTCGAACAATCTTCTGCCAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAG
1554133 GAACTCGAACAAT
1 GAACTCGAACAAT
1554146 ATTCATTTGC
Statistics
Matches: 436, Mismatches: 54, Indels: 11
0.87 0.11 0.02
Matches are distributed among these distances:
50 8 0.02
51 5 0.01
52 66 0.15
53 49 0.11
54 263 0.60
55 45 0.10
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.33
Consensus pattern (54 bp):
GAACTCGAACAATCTTCTGCCAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAG
Found at i:1553970 original size:217 final size:214
Alignment explanation
Indices: 1553589--1554145 Score: 752
Period size: 217 Copynumber: 2.6 Consensus size: 214
1553579 AGTTTCATTC
* * *
1553589 AGGATGTA-GAACTCAAACAATCTTCTGCCTACGGGTTCGCTTCCTCTTGCTTCAGGGAG--TAG
1 AGGA-GTAGGAACTCAAACAATCTTCTTCCTAC-GGTTCGCTTCCTCTTTCTTTAGGGAGTATAG
*
1553651 AAATCGAACAATCTTCTGCCAAC-AGGTTCGCTCCCTCTTTATTTAGGGAGTAGGAACTCGAACA
64 AACTCGAA-AATCTTCTGCC-ACGA-GTTCGCTCCCTCTTTATTTAGGGAGTAGGAACTCGAACA
* * *
1553715 ATCTTCTGCCAACGGGTTCGCTCCGTCTTTCTTTAGGGAGTAGGAACTCGAATAATCTTCTGCCT
126 ATCTTCTGCCAACAGGTTCGCTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACAATCTTCT-CCT
* *
1553780 -ACGGGTTCGCTCCCTATTTCTTTA
190 AACGGGTTCACTCACTATTTCTTTA
* *
1553804 GGGAGTAGGAACTCAAACAATCTTCTTCCAACGGTTTCGCTTCCTCTTTCTTTAGGGAGTATAGA
1 AGGAGTAGGAACTCAAACAATCTTCTTCCTACGG-TTCGCTTCCTCTTTCTTTAGGGAGTATAGA
1553869 ACTCGAATAATCTTCTGCCAGCGAGTTCGCTCCCTCTTTATTTAGGGAGTAGGAACTCGAACAAT
65 ACTCGAA-AATCTTCTGCCA-CGAGTTCGCTCCCTCTTTATTTAGGGAGTAGGAACTCGAACAAT
* *
1553934 CTTCTTCCAACAGGTTCGCTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACAATCTTCTTCTAAC
128 CTTCTGCCAACAGGTTCGCTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACAATCTTCTCCTAAC
*
1553999 GGGTTCACTCACTCTTTCTTTA
193 GGGTTCACTCACTATTTCTTTA
** * * *
1554021 AGGAGTAGGAACTTGAACAATCTTCTT-TTACGGTTCGCTCCCTCTTTCTTTAGGGAGTA-GGAA
1 AGGAGTAGGAACTCAAACAATCTTCTTCCTACGGTTCGCTTCCTCTTTCTTTAGGGAGTATAGAA
* * ** *
1554084 CTCG-AAATCTTCTGCTTACGGGTTTACTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACAAT
66 CTCGAAAATCTTCTGC-CACGAGTTCGCTCCCTCTTTATTTAGGGAGTAGGAACTCGAACAAT
1554146 ATTCATTTGC
Statistics
Matches: 307, Mismatches: 27, Indels: 19
0.87 0.08 0.05
Matches are distributed among these distances:
212 50 0.16
213 2 0.01
214 12 0.04
215 72 0.23
216 7 0.02
217 163 0.53
218 1 0.00
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (214 bp):
AGGAGTAGGAACTCAAACAATCTTCTTCCTACGGTTCGCTTCCTCTTTCTTTAGGGAGTATAGAA
CTCGAAAATCTTCTGCCACGAGTTCGCTCCCTCTTTATTTAGGGAGTAGGAACTCGAACAATCTT
CTGCCAACAGGTTCGCTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACAATCTTCTCCTAACGGG
TTCACTCACTATTTCTTTA
Found at i:1555414 original size:15 final size:15
Alignment explanation
Indices: 1555396--1555433 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
1555386 TTTTCTCTCT
*
1555396 TTTTTCTTTTTTTCA
1 TTTTTCTTTTTTCCA
*
1555411 TTTTTCTCTTTTCCA
1 TTTTTCTTTTTTCCA
1555426 TTTTTCTT
1 TTTTTCTT
1555434 CTTCAAGCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTCTTTTTTCCA
Found at i:1555429 original size:24 final size:24
Alignment explanation
Indices: 1555380--1555430 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
1555370 TTAGACCTGC
*
1555380 TTTTTATTTTCTCTCTTTTTTCTT
1 TTTTTATTTTCTCTCTTTTTCCTT
*
1555404 TTTTTCATTTT-TCTC-TTTTCCAT
1 TTTTT-ATTTTCTCTCTTTTTCCTT
1555427 TTTT
1 TTTT
1555431 CTTCTTCAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 10 0.42
24 9 0.38
25 5 0.21
ACGTcount: A:0.06, C:0.18, G:0.00, T:0.76
Consensus pattern (24 bp):
TTTTTATTTTCTCTCTTTTTCCTT
Found at i:1559993 original size:34 final size:35
Alignment explanation
Indices: 1559927--1560012 Score: 120
Period size: 34 Copynumber: 2.5 Consensus size: 35
1559917 ATTGCCCAGA
*
1559927 GGGAACAGATTCCCCCCCAGGGAGTATAGATTCCCC
1 GGGAAAAGATT-CCCCCCAGGGAGTATAGATTCCCC
*
1559963 GGGAAAAGATTCCCCCCAGGG-GTATCGATTCCCC
1 GGGAAAAGATTCCCCCCAGGGAGTATAGATTCCCC
* *
1559997 GGGTATAGATTCCCCC
1 GGGAAAAGATTCCCCC
1560013 TTGCATGGTT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
34 26 0.57
35 10 0.22
36 10 0.22
ACGTcount: A:0.23, C:0.33, G:0.26, T:0.19
Consensus pattern (35 bp):
GGGAAAAGATTCCCCCCAGGGAGTATAGATTCCCC
Found at i:1560002 original size:15 final size:15
Alignment explanation
Indices: 1559950--1560011 Score: 61
Period size: 15 Copynumber: 3.9 Consensus size: 15
1559940 CCCCCAGGGA
1559950 GTATAGATTCCCCGG
1 GTATAGATTCCCCGG
* *
1559965 GAAAAGATTCCCCCCAGGG
1 GTATAGATT--CCCC--GG
*
1559984 GTATCGATTCCCCGG
1 GTATAGATTCCCCGG
1559999 GTATAGATTCCCC
1 GTATAGATTCCCC
1560012 CTTGCATGGT
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
15 21 0.57
17 8 0.22
19 8 0.22
ACGTcount: A:0.23, C:0.31, G:0.24, T:0.23
Consensus pattern (15 bp):
GTATAGATTCCCCGG
Found at i:1560079 original size:20 final size:20
Alignment explanation
Indices: 1560050--1560087 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1560040 AAATTACTCG
1560050 GAGGGAACCGATTCCCTCTT
1 GAGGGAACCGATTCCCTCTT
*
1560070 GAGGGTACCGATTCCCTC
1 GAGGGAACCGATTCCCTC
1560088 ACTGTTCATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.32, G:0.26, T:0.24
Consensus pattern (20 bp):
GAGGGAACCGATTCCCTCTT
Found at i:1560151 original size:21 final size:21
Alignment explanation
Indices: 1560125--1560166 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
1560115 ATTTGAATAT
*
1560125 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
1560146 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
1560167 CCCATTCTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:1560228 original size:21 final size:21
Alignment explanation
Indices: 1560195--1560234 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
1560185 TTTTTGCAGA
*
1560195 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
1560217 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
1560235 AGATATGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:1563493 original size:36 final size:33
Alignment explanation
Indices: 1563445--1563530 Score: 100
Period size: 33 Copynumber: 2.5 Consensus size: 33
1563435 ATTGCCCAGA
*
1563445 GGGAACAGATTCCCCCCCAGGGGGTATCGATTCCCC
1 GGGAACAGATT--CCCCCA-AGGGTATCGATTCCCC
*
1563481 GGGAACATATTCCCCCAAGGGTATCGATTCCCC
1 GGGAACAGATTCCCCCAAGGGTATCGATTCCCC
** *
1563514 ATGTACAGATTCCCCCA
1 GGGAACAGATTCCCCCA
1563531 TGCATGGTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
33 28 0.64
34 6 0.14
36 10 0.23
ACGTcount: A:0.23, C:0.35, G:0.22, T:0.20
Consensus pattern (33 bp):
GGGAACAGATTCCCCCAAGGGTATCGATTCCCC
Found at i:1563669 original size:21 final size:21
Alignment explanation
Indices: 1563643--1563683 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
1563633 ATTTGAATAT
*
1563643 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
1563664 TATGAAGGGGTACCGATTCC
1 TATGAAGGGGTACCGATTCC
1563684 ATCTATTCTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:1564722 original size:55 final size:54
Alignment explanation
Indices: 1564585--1564736 Score: 223
Period size: 55 Copynumber: 2.8 Consensus size: 54
1564575 TTTGAAAGAA
* * * * *
1564585 GTCTTCGATCAACTTCAAACTTCTTCATTCATCAGATGTCTTTCTTCATGATCG
1 GTCTTCAATCAATTTCAAAATTCTTCATTCATCGGATGTCTTTCTTCATGATAG
* * *
1564639 GTCTTCAATCAGTTACAAATTTCTTCATTCATCGGATGTCTTTCTTCATGGATAG
1 GTCTTCAATCAATTTCAAAATTCTTCATTCATCGGATGTCTTTCTTCAT-GATAG
1564694 GTCTTCAATCAATTTCAAAATTCTTCATTCATCGGATGTCTTT
1 GTCTTCAATCAATTTCAAAATTCTTCATTCATCGGATGTCTTT
1564737 ATTTATGAAT
Statistics
Matches: 87, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
54 43 0.49
55 44 0.51
ACGTcount: A:0.24, C:0.22, G:0.12, T:0.42
Consensus pattern (54 bp):
GTCTTCAATCAATTTCAAAATTCTTCATTCATCGGATGTCTTTCTTCATGATAG
Found at i:1568367 original size:3 final size:3
Alignment explanation
Indices: 1568348--1568404 Score: 71
Period size: 3 Copynumber: 19.0 Consensus size: 3
1568338 TGTAATAAAC
* * *
1568348 ATA AGTA ATA TTA ATA ATA ATA CTA ATA ATA ATA ATA ATA ATA ATT
1 ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1568394 ATA AT- ATA ATA
1 ATA ATA ATA ATA
1568405 TTTATAATTC
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
2 2 0.04
3 41 0.89
4 3 0.07
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:1568710 original size:32 final size:31
Alignment explanation
Indices: 1568644--1568710 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 31
1568634 TATTAATATT
*
1568644 TTTTATAGAAAAAATAATATTTTATATAATA
1 TTTTATAGAAAAAATAATATTTTATATAACA
1568675 TTTTACTA-AAAATAATAATATTTT-TAGTAACA
1 TTTTA-TAGAAAA-AATAATATTTTATA-TAACA
1568707 TTTT
1 TTTT
1568711 TTTAACTATA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
31 11 0.34
32 21 0.66
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (31 bp):
TTTTATAGAAAAAATAATATTTTATATAACA
Found at i:1569554 original size:2 final size:2
Alignment explanation
Indices: 1569547--1569664 Score: 59
Period size: 2 Copynumber: 58.5 Consensus size: 2
1569537 GACAATTACA
* * *
1569547 AT AT AT AT AT AT AT AT AT AT AGT AC A- AGT AT AA AGT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT A-T AT AT A-T AT AT A-T AT AT AT
* * *
1569589 AT AT AT A- AT -T TT AGT AT A- AA AT AT AT AT AC AT AT AT AGT A-
1 AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT A-T AT
* *
1569629 AT AT AT AT AT AT AC AT AA AGT AT A- AGT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A-T AT AT A-T AT AT AT AT A
1569665 AACTTTAAAG
Statistics
Matches: 90, Mismatches: 13, Indels: 26
0.70 0.10 0.20
Matches are distributed among these distances:
1 6 0.07
2 75 0.83
3 9 0.10
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.41
Consensus pattern (2 bp):
AT
Found at i:1569627 original size:24 final size:24
Alignment explanation
Indices: 1569547--1569664 Score: 97
Period size: 24 Copynumber: 5.0 Consensus size: 24
1569537 GACAATTACA
1569547 ATATATA-TATATATATATATAGTAC
1 ATATATAGTATA-ATATATATA-TAC
* *
1569572 AAGTATAAAGTGT-ATATATATATA-
1 -A-TATATAGTATAATATATATATAC
* *
1569596 AT-TTTAGTATAAAATATATATAC
1 ATATATAGTATAATATATATATAC
1569619 ATATATAGTA-ATATATATATATAC
1 ATATATAGTATA-ATATATATATAC
1569643 ATA-A-AGTATAAGTATATATATA
1 ATATATAGTATAA-TATATATATA
1569665 AACTTTAAAG
Statistics
Matches: 76, Mismatches: 8, Indels: 19
0.74 0.08 0.18
Matches are distributed among these distances:
21 5 0.07
22 16 0.21
23 16 0.21
24 20 0.26
25 2 0.03
26 10 0.13
27 5 0.07
28 2 0.03
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.41
Consensus pattern (24 bp):
ATATATAGTATAATATATATATAC
Found at i:1569680 original size:26 final size:25
Alignment explanation
Indices: 1569609--1569692 Score: 91
Period size: 26 Copynumber: 3.4 Consensus size: 25
1569599 TTAGTATAAA
* *
1569609 ATATATATACATATA-TAGTAA-TAT
1 ATATATAAACATAAAGTA-TAAGTAT
*
1569633 ATATATATACATAAAGTATAAGTAT
1 ATATATAAACATAAAGTATAAGTAT
* *
1569658 ATATATAAACTTTAAAGTATAAGTTT
1 ATATATAAAC-ATAAAGTATAAGTAT
1569684 ATATATAAA
1 ATATATAAA
1569693 GTATAACTAT
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
24 17 0.32
25 14 0.26
26 22 0.42
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.39
Consensus pattern (25 bp):
ATATATAAACATAAAGTATAAGTAT
Found at i:1569727 original size:19 final size:18
Alignment explanation
Indices: 1569547--1569730 Score: 64
Period size: 19 Copynumber: 10.0 Consensus size: 18
1569537 GACAATTACA
*
1569547 ATATATATATATAT-A-T
1 ATATATATAAATATAAGT
* *
1569563 ATATAGTACAAGTATAAAGT
1 ATATA-TATAAATAT-AAGT
* *
1569583 GTATATAT--ATATAATT
1 ATATATATAAATATAAGT
*
1569599 TTAGTATA-AAATATATA-T
1 ATA-TATATAAATATA-AGT
*
1569617 ACATATATAGTAATATATA-T
1 ATATATATA--AATATA-AGT
*
1569637 ATATACATAAAGTATAAGT
1 ATATATATAAA-TATAAGT
*
1569656 ATATATATAAACTTTAAAGT
1 ATATATATAAA-TAT-AAGT
* *
1569676 ATA-AGTTTATATATAAAGT
1 ATATA-TATAAATAT-AAGT
*
1569695 ATA-ACTAT-TATATAAGT
1 ATATA-TATAAATATAAGT
1569712 ATATATATAAAGTATAAGT
1 ATATATATAAA-TATAAGT
1569731 GTGTGTATAT
Statistics
Matches: 129, Mismatches: 21, Indels: 33
0.70 0.11 0.18
Matches are distributed among these distances:
16 10 0.08
17 27 0.21
18 18 0.14
19 42 0.33
20 32 0.25
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.40
Consensus pattern (18 bp):
ATATATATAAATATAAGT
Found at i:1572756 original size:18 final size:19
Alignment explanation
Indices: 1572715--1572754 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
1572705 ATTTTAAAAT
1572715 AAAATCATTTTTTATTTCG
1 AAAATCATTTTTTATTTCG
*
1572734 AAAATTATTTTTT-TTT-G
1 AAAATCATTTTTTATTTCG
1572751 AAAA
1 AAAA
1572755 ATCTTGTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 5 0.25
18 3 0.15
19 12 0.60
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.53
Consensus pattern (19 bp):
AAAATCATTTTTTATTTCG
Found at i:1573179 original size:21 final size:23
Alignment explanation
Indices: 1573134--1573190 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
1573124 CCCGTGAGGG
*
1573134 GTATCGATACACATTCAAGGAAT
1 GTATCGATACATATTCAAGGAAT
*
1573157 GTATCGGTACATATTCAA-G-AT
1 GTATCGATACATATTCAAGGAAT
1573178 GTATCGATACATA
1 GTATCGATACATA
1573191 GGAAGGGGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
21 14 0.45
22 1 0.03
23 16 0.52
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.30
Consensus pattern (23 bp):
GTATCGATACATATTCAAGGAAT
Found at i:1578730 original size:30 final size:30
Alignment explanation
Indices: 1578695--1578760 Score: 132
Period size: 30 Copynumber: 2.2 Consensus size: 30
1578685 GAATGAAAAT
1578695 AGGCTTGAAAATGCTCAAACAATAAGTTTA
1 AGGCTTGAAAATGCTCAAACAATAAGTTTA
1578725 AGGCTTGAAAATGCTCAAACAATAAGTTTA
1 AGGCTTGAAAATGCTCAAACAATAAGTTTA
1578755 AGGCTT
1 AGGCTT
1578761 TCTCTTTGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (30 bp):
AGGCTTGAAAATGCTCAAACAATAAGTTTA
Found at i:1579654 original size:10 final size:11
Alignment explanation
Indices: 1579630--1579666 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
1579620 TCGGTCTGAT
1579630 CGGTTTTGAAC
1 CGGTTTTGAAC
1579641 CGGTTTTG-AC
1 CGGTTTTGAAC
*
1579651 CGG-TTCGAAC
1 CGGTTTTGAAC
1579661 CGGTTT
1 CGGTTT
1579667 GACCGGTCTG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
9 3 0.13
10 10 0.43
11 10 0.43
ACGTcount: A:0.14, C:0.22, G:0.30, T:0.35
Consensus pattern (11 bp):
CGGTTTTGAAC
Found at i:1582350 original size:18 final size:18
Alignment explanation
Indices: 1582329--1582373 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
1582319 CAAAAAGTCT
1582329 TATACTTTACACTTTATA
1 TATACTTTACACTTTATA
1582347 TATACTTTACACTTTATA
1 TATACTTTACACTTTATA
*
1582365 TATATTTTA
1 TATACTTTA
1582374 ATACTTATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.33, C:0.13, G:0.00, T:0.53
Consensus pattern (18 bp):
TATACTTTACACTTTATA
Found at i:1582381 original size:18 final size:18
Alignment explanation
Indices: 1582329--1582404 Score: 80
Period size: 18 Copynumber: 4.0 Consensus size: 18
1582319 CAAAAAGTCT
*
1582329 TATACTTTACACTTTATA
1 TATATTTTACACTTTATA
*
1582347 TATACTTTACACTTTATA
1 TATATTTTACACTTTATA
*
1582365 TATATTTTAATACTTATATTA
1 TATATTTT-ACACTT-TA-TA
*
1582386 TATAGTTTTATACTTTATA
1 TATA-TTTTACACTTTATA
1582405 GAATATACAT
Statistics
Matches: 52, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
18 25 0.48
19 7 0.13
20 4 0.08
21 12 0.23
22 4 0.08
ACGTcount: A:0.34, C:0.11, G:0.01, T:0.54
Consensus pattern (18 bp):
TATATTTTACACTTTATA
Found at i:1582403 original size:22 final size:22
Alignment explanation
Indices: 1582363--1582463 Score: 107
Period size: 22 Copynumber: 4.6 Consensus size: 22
1582353 TTACACTTTA
1582363 TATATA-TTTTAATAC-TTATAT
1 TATATAGTTTT-ATACTTTATAT
*
1582384 TATATAGTTTTATACTTTATAG
1 TATATAGTTTTATACTTTATAT
* ** * *
1582406 AATATACATTAATACTTTCTAT
1 TATATAGTTTTATACTTTATAT
* *
1582428 TAAATAGTTTAATACTTTATAT
1 TATATAGTTTTATACTTTATAT
1582450 TATATAGTTTTATA
1 TATATAGTTTTATA
1582464 TATATTTTAA
Statistics
Matches: 64, Mismatches: 14, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
21 10 0.16
22 54 0.84
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (22 bp):
TATATAGTTTTATACTTTATAT
Found at i:1582469 original size:19 final size:19
Alignment explanation
Indices: 1582445--1582483 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
1582435 TTTAATACTT
1582445 TATATTAT-ATAGTTTTATA
1 TATATTATAATA-TTTTATA
*
1582464 TATATTTTAATATTTTATA
1 TATATTATAATATTTTATA
1582483 T
1 T
1582484 TAGTTCAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (19 bp):
TATATTATAATATTTTATA
Found at i:1582585 original size:22 final size:22
Alignment explanation
Indices: 1582560--1582620 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
1582550 TTATAAAGTA
* *
1582560 TTATGTTATATAGTTTTATACT
1 TTATGTTATATACTTTAATACT
1582582 TTATAG-TATATACTTTAATACT
1 TTAT-GTTATATACTTTAATACT
*
1582604 TTATATTATATACTTTA
1 TTATGTTATATACTTTA
1582621 TAGACTATAG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
22 33 0.97
23 1 0.03
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.56
Consensus pattern (22 bp):
TTATGTTATATACTTTAATACT
Found at i:1582595 original size:14 final size:13
Alignment explanation
Indices: 1582576--1582640 Score: 50
Period size: 14 Copynumber: 5.2 Consensus size: 13
1582566 TATATAGTTT
1582576 TATACTTTATAGTA
1 TATACTTTATA-TA
1582590 TATAC--T-T-TA
1 TATACTTTATATA
1582599 -ATACTTTATATTA
1 TATACTTTATA-TA
*
1582612 TATACTTTATAGA
1 TATACTTTATATA
*
1582625 CTATAGTTTATATA
1 -TATACTTTATATA
1582639 TA
1 TA
1582641 CACCAATATA
Statistics
Matches: 41, Mismatches: 3, Indels: 15
0.69 0.05 0.25
Matches are distributed among these distances:
8 4 0.10
9 2 0.05
10 1 0.02
11 2 0.05
12 1 0.02
13 5 0.12
14 26 0.63
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.51
Consensus pattern (13 bp):
TATACTTTATATA
Found at i:1582636 original size:7 final size:7
Alignment explanation
Indices: 1582574--1582622 Score: 55
Period size: 7 Copynumber: 6.9 Consensus size: 7
1582564 GTTATATAGT
1582574 TTTATAC
1 TTTATAC
*
1582581 TTTATAG
1 TTTATAC
*
1582588 TATATAC
1 TTTATAC
1582595 TTTAATAC
1 TTT-ATAC
1582603 TTTATA-
1 TTTATAC
1582609 TTATATAC
1 TT-TATAC
1582617 TTTATA
1 TTTATA
1582623 GACTATAGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
6 2 0.06
7 24 0.69
8 9 0.26
ACGTcount: A:0.35, C:0.08, G:0.02, T:0.55
Consensus pattern (7 bp):
TTTATAC
Found at i:1582696 original size:150 final size:148
Alignment explanation
Indices: 1582530--1582962 Score: 460
Period size: 162 Copynumber: 2.8 Consensus size: 148
1582520 CTCACACACT
1582530 TACATACTTTAATACTTATATTATAAAGTATTATGTTATATAGTTTTATACTTTATAGTATATAC
1 TACATACTTTAATACTTATATTATAAAGTATTATGTTATATAGTTTTATACTTTATAGTATATAC
1582595 TTTAATACTTTATATTATATACTTTATAGACTATAGTTTATATATACACCAATATATATATATAC
66 TTTAATACTTTATATTATATACTTTATAGACTATAGTTTATATATA-ACCAATATATATATATAC
1582660 ACAC-ACACACTTATACATTA-
130 ACACTACACACTT-TA-A-TAC
* * * * * * * *
1582680 TATATACTTTAATACTTATATTATAAACTATTATTTTATATAGTTTAATACTTTCTATTACATAG
1 TACATACTTTAATACTTATATTATAAAGTATTATGTTATATAGTTTTATACTTTATAGTATATAC
* * **
1582745 TTTAATACTTTATATTATATTATAGTTTA-ATACTTTATA-TTTATTAGTTTAATATATAAATAT
66 TTTAATACTTTATA-T-TA-TATACTTTATAGAC--TATAGTTTA-TA---T-ATA-A-CCA-AT
* * * *
1582808 ATATATATATATATATACTATATACTTTAATAC
118 A--TATATATATACACACTACACACTTTAATAC
1582841 TTACATACTTTAATACTTATATTATAAAGTATTATGTTATATAGTTTTATACTTTATAGTATATA
1 -TACATACTTTAATACTTATATTATAAAGTATTATGTTATATAGTTTTATACTTTATAGTATATA
* * * * *
1582906 CTTTAATACTTTATAGTATATACTTTATAGACAAAAATTTATATATATACCTATATA
65 CTTTAATACTTTATATTATATACTTTATAGACTATAGTTTATATATA-ACCAATATA
1582963 CTTATACTTT
Statistics
Matches: 231, Mismatches: 33, Indels: 38
0.76 0.11 0.13
Matches are distributed among these distances:
150 73 0.32
151 1 0.00
152 8 0.03
153 12 0.05
154 11 0.05
155 1 0.00
157 1 0.00
158 8 0.03
159 13 0.06
160 10 0.04
161 1 0.00
162 86 0.37
163 6 0.03
ACGTcount: A:0.39, C:0.09, G:0.04, T:0.48
Consensus pattern (148 bp):
TACATACTTTAATACTTATATTATAAAGTATTATGTTATATAGTTTTATACTTTATAGTATATAC
TTTAATACTTTATATTATATACTTTATAGACTATAGTTTATATATAACCAATATATATATATACA
CACTACACACTTTAATAC
Found at i:1582775 original size:25 final size:23
Alignment explanation
Indices: 1582710--1582920 Score: 122
Period size: 22 Copynumber: 9.2 Consensus size: 23
1582700 TTATAAACTA
1582710 TTAT-TTTATATAGTTTAATACT
1 TTATATTTATATAGTTTAATACT
* *
1582732 TTCTA-TTACATAGTTTAATACT
1 TTATATTTATATAGTTTAATACT
1582754 TTATATTATATTATAGTTTAATACT
1 TTATATT-TA-TATAGTTTAATACT
1582779 TTATATTTAT-TAGTTTAATA-T
1 TTATATTTATATAGTTTAATACT
* *
1582800 ATAAATATATATATATA-TATATATACT
1 -T---TATATTTATATAGTTTA-ATACT
* *
1582827 ATATACTTTA-ATA-CTTACATACT
1 TTATA-TTTATATAGTTTA-ATACT
* * *
1582850 TTAATACTTATAT--TATAA-AGT
1 TT-ATATTTATATAGTTTAATACT
* *
1582871 ATTAT-GTTATATAGTTTTATACT
1 -TTATATTTATATAGTTTAATACT
* *
1582894 TTATA-GTATATACTTTAATACT
1 TTATATTTATATAGTTTAATACT
1582916 TTATA
1 TTATA
1582921 GTATATACTT
Statistics
Matches: 147, Mismatches: 23, Indels: 38
0.71 0.11 0.18
Matches are distributed among these distances:
20 6 0.04
21 5 0.03
22 63 0.43
23 24 0.16
24 12 0.08
25 31 0.21
26 5 0.03
27 1 0.01
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.52
Consensus pattern (23 bp):
TTATATTTATATAGTTTAATACT
Found at i:1582795 original size:14 final size:15
Alignment explanation
Indices: 1582741--1582787 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
1582731 TTTCTATTAC
1582741 ATAGTTTAATACTTT
1 ATAGTTTAATACTTT
1582756 ATA--TT-ATA--TT
1 ATAGTTTAATACTTT
1582766 ATAGTTTAATACTTT
1 ATAGTTTAATACTTT
1582781 ATA-TTTA
1 ATAGTTTA
1582788 TTAGTTTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 11
0.71 0.00 0.29
Matches are distributed among these distances:
10 5 0.19
12 5 0.19
13 5 0.19
14 4 0.15
15 8 0.30
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.55
Consensus pattern (15 bp):
ATAGTTTAATACTTT
Found at i:1582809 original size:2 final size:2
Alignment explanation
Indices: 1582796--1582831 Score: 54
Period size: 2 Copynumber: 17.5 Consensus size: 2
1582786 TATTAGTTTA
*
1582796 AT AT AT AA AT AT AT AT AT AT AT AT AT AT ACT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT A
1582832 CTTTAATACT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 29 0.94
3 2 0.06
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:1582811 original size:47 final size:48
Alignment explanation
Indices: 1582716--1582816 Score: 127
Period size: 47 Copynumber: 2.1 Consensus size: 48
1582706 ACTATTATTT
* * *
1582716 TATATAGTTTAATACTTTCTATTACATAGTTTAATACTTTATATTATA
1 TATATAGTTTAATACTTTATATTACATAGTTTAATACTATAAATTATA
*
1582764 T-TATAGTTTAATACTTTATATTTA-TTAGTTTAATA-TATAAATATATA
1 TATATAGTTTAATACTTTATA-TTACATAGTTTAATACTATAAAT-TATA
1582811 TATATA
1 TATATA
1582817 TATATATACT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
46 5 0.11
47 33 0.72
48 8 0.17
ACGTcount: A:0.39, C:0.05, G:0.04, T:0.52
Consensus pattern (48 bp):
TATATAGTTTAATACTTTATATTACATAGTTTAATACTATAAATTATA
Found at i:1582840 original size:15 final size:15
Alignment explanation
Indices: 1582822--1582920 Score: 57
Period size: 14 Copynumber: 6.7 Consensus size: 15
1582812 ATATATATAT
1582822 ATACTATATACTTTA
1 ATACTATATACTTTA
*
1582837 ATACTTACATACTTTA
1 ATAC-TATATACTTTA
1582853 ATACT-TATA-TTATA
1 ATACTATATACTT-TA
*
1582867 A-AGTAT-TA-TGTTA
1 ATACTATATACT-TTA
* *
1582880 TATAGTTTTATACTTT-
1 -ATA-CTATATACTTTA
*
1582896 ATAGTATATACTTTA
1 ATACTATATACTTTA
*
1582911 ATACTTTATA
1 ATACTATATA
1582921 GTATATACTT
Statistics
Matches: 65, Mismatches: 9, Indels: 20
0.69 0.10 0.21
Matches are distributed among these distances:
13 9 0.14
14 18 0.28
15 17 0.26
16 16 0.25
17 4 0.06
18 1 0.02
ACGTcount: A:0.37, C:0.09, G:0.04, T:0.49
Consensus pattern (15 bp):
ATACTATATACTTTA
Found at i:1582850 original size:16 final size:16
Alignment explanation
Indices: 1582829--1582859 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1582819 TATATACTAT
1582829 ATACTTTAATACTTAC
1 ATACTTTAATACTTAC
1582845 ATACTTTAATACTTA
1 ATACTTTAATACTTA
1582860 TATTATAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.16, G:0.00, T:0.45
Consensus pattern (16 bp):
ATACTTTAATACTTAC
Found at i:1582897 original size:22 final size:22
Alignment explanation
Indices: 1582878--1582932 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
1582868 AGTATTATGT
* *
1582878 TATATAGTTTTATACTTTATAG
1 TATATACTTTAATACTTTATAG
1582900 TATATACTTTAATACTTTATAG
1 TATATACTTTAATACTTTATAG
1582922 TATATACTTTA
1 TATATACTTTA
1582933 TAGACAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (22 bp):
TATATACTTTAATACTTTATAG
Found at i:1582898 original size:7 final size:7
Alignment explanation
Indices: 1582886--1582934 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
1582876 GTTATATAGT
1582886 TTTATAC
1 TTTATAC
*
1582893 TTTATAG
1 TTTATAC
*
1582900 TATATAC
1 TTTATAC
1582907 TTTAATAC
1 TTT-ATAC
*
1582915 TTTATAG
1 TTTATAC
*
1582922 TATATAC
1 TTTATAC
1582929 TTTATA
1 TTTATA
1582935 GACAAAAATT
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
7 26 0.79
8 7 0.21
ACGTcount: A:0.35, C:0.08, G:0.04, T:0.53
Consensus pattern (7 bp):
TTTATAC
Found at i:1582907 original size:14 final size:14
Alignment explanation
Indices: 1582888--1582992 Score: 57
Period size: 14 Copynumber: 7.8 Consensus size: 14
1582878 TATATAGTTT
1582888 TATACTTTATAGTA
1 TATACTTTATAGTA
1582902 TATAC--T-T--TA
1 TATACTTTATAGTA
1582911 -ATACTTTATAGTA
1 TATACTTTATAGTA
1582924 TATACTTTATAG-A
1 TATACTTTATAGTA
* * *
1582937 CAAAAATTTATA-TA
1 -TATACTTTATAGTA
* *
1582951 TATACCTATATACT-
1 TATA-CTTTATAGTA
1582965 TATACTTTATAGTTTA
1 TATACTTTATAG--TA
1582981 TATACTTATATA
1 TATACTT-TATA
1582993 TTGTTGGGAT
Statistics
Matches: 68, Mismatches: 9, Indels: 25
0.67 0.09 0.25
Matches are distributed among these distances:
8 4 0.06
9 2 0.03
10 1 0.01
11 2 0.03
12 1 0.01
13 11 0.16
14 34 0.50
15 2 0.03
16 7 0.10
17 4 0.06
ACGTcount: A:0.39, C:0.10, G:0.04, T:0.48
Consensus pattern (14 bp):
TATACTTTATAGTA
Found at i:1583755 original size:20 final size:20
Alignment explanation
Indices: 1583727--1583790 Score: 87
Period size: 20 Copynumber: 3.3 Consensus size: 20
1583717 CTCATTATTG
* *
1583727 TTCACACAATATCGGTACTA
1 TTCATACAATATCGATACTA
1583747 TTCATACAATATCGATACTA
1 TTCATACAATATCGATACTA
*
1583767 TTCATAC-ATA-CAATACTA
1 TTCATACAATATCGATACTA
1583785 TTCATA
1 TTCATA
1583791 AAAACATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
18 13 0.32
19 3 0.07
20 25 0.61
ACGTcount: A:0.39, C:0.22, G:0.05, T:0.34
Consensus pattern (20 bp):
TTCATACAATATCGATACTA
Found at i:1584246 original size:2 final size:2
Alignment explanation
Indices: 1584241--1584289 Score: 55
Period size: 2 Copynumber: 24.0 Consensus size: 2
1584231 AGACAATTAC
*
1584241 AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AA ACT AT AT AGT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT A-T AT
*
1584284 AC AT AT
1 AT AT AT
1584290 TAAAGTATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
1 1 0.03
2 36 0.90
3 3 0.08
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (2 bp):
AT
Found at i:1584466 original size:22 final size:22
Alignment explanation
Indices: 1584441--1584489 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1584431 AACTATGGTC
* * *
1584441 TATAAATTATTAAAGTATATAA
1 TATAAAGTATAAAACTATATAA
1584463 TATAAAGTATAAAACTATATAA
1 TATAAAGTATAAAACTATATAA
*
1584485 CATAA
1 TATAA
1584490 TACTTTATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.35
Consensus pattern (22 bp):
TATAAAGTATAAAACTATATAA
Found at i:1584523 original size:16 final size:16
Alignment explanation
Indices: 1584502--1584532 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1584492 CTTTATAATT
1584502 TAAGTATTAAAGTATG
1 TAAGTATTAAAGTATG
1584518 TAAGTATTAAAGTAT
1 TAAGTATTAAAGTAT
1584533 ATAGTTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.16, T:0.39
Consensus pattern (16 bp):
TAAGTATTAAAGTATG
Found at i:1585458 original size:18 final size:18
Alignment explanation
Indices: 1585435--1585510 Score: 118
Period size: 18 Copynumber: 4.3 Consensus size: 18
1585425 ACCGGTTACA
1585435 ACCCGACCCGTTGACCCG
1 ACCCGACCCGTTGACCCG
* **
1585453 ACCCGACTCGTTGACCTT
1 ACCCGACCCGTTGACCCG
1585471 ACCCGACCCGTTGACCCG
1 ACCCGACCCGTTGACCCG
1585489 A-CCGACCCGTTGACCCG
1 ACCCGACCCGTTGACCCG
1585506 ACCCG
1 ACCCG
1585511 TTTGACCCGT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
17 17 0.33
18 34 0.67
ACGTcount: A:0.17, C:0.47, G:0.21, T:0.14
Consensus pattern (18 bp):
ACCCGACCCGTTGACCCG
Found at i:1585508 original size:22 final size:22
Alignment explanation
Indices: 1585483--1585527 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
1585473 CCGACCCGTT
1585483 GACCCGACCGACCCGTTGACCC
1 GACCCGACCGACCCGTTGACCC
***
1585505 GACCCGTTTGACCCGTTGACCC
1 GACCCGACCGACCCGTTGACCC
1585527 G
1 G
1585528 CGTTGACCAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.16, C:0.44, G:0.24, T:0.16
Consensus pattern (22 bp):
GACCCGACCGACCCGTTGACCC
Found at i:1585517 original size:14 final size:13
Alignment explanation
Indices: 1585471--1585519 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 13
1585461 CGTTGACCTT
1585471 ACCCGACCCGTTG
1 ACCCGACCCGTTG
1585484 ACCCGACCGACCCGTTG
1 A--C--CCGACCCGTTG
1585501 ACCCGACCCGTTTG
1 ACCCGACCCG-TTG
1585515 ACCCG
1 ACCCG
1585520 TTGACCCGCG
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
13 9 0.29
14 8 0.26
15 2 0.06
17 12 0.39
ACGTcount: A:0.16, C:0.47, G:0.22, T:0.14
Consensus pattern (13 bp):
ACCCGACCCGTTG
Found at i:1588007 original size:24 final size:24
Alignment explanation
Indices: 1587980--1588057 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 24
1587970 TAATTATTTA
*
1587980 TCTGATTTCTGACTTGAATTCTAT
1 TCTGATTTCTGACCTGAATTCTAT
* *
1588004 TCTGA-TACATGACCTGAATTCTGT
1 TCTGATTTC-TGACCTGAATTCTAT
* * * * *
1588028 TTTGATTTCTGATCTGGATGCTGT
1 TCTGATTTCTGACCTGAATTCTAT
1588052 TCTGAT
1 TCTGAT
1588058 ATATGTTATG
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
23 2 0.05
24 39 0.91
25 2 0.05
ACGTcount: A:0.19, C:0.17, G:0.18, T:0.46
Consensus pattern (24 bp):
TCTGATTTCTGACCTGAATTCTAT
Found at i:1588075 original size:24 final size:24
Alignment explanation
Indices: 1587994--1588076 Score: 76
Period size: 24 Copynumber: 3.5 Consensus size: 24
1587984 ATTTCTGACT
* * *
1587994 TGAATTCTATTCTGATACATGACC
1 TGAATTCTGTTCTGATATATGATC
* * *
1588018 TGAATTCTGTTTTGATTTCTGATC
1 TGAATTCTGTTCTGATATATGATC
* * * *
1588042 TGGATGCTGTTCTGATATATGTTA
1 TGAATTCTGTTCTGATATATGATC
1588066 TGAATTCTGTT
1 TGAATTCTGTT
1588077 TTGTTTTCTG
Statistics
Matches: 44, Mismatches: 15, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.22, C:0.13, G:0.18, T:0.47
Consensus pattern (24 bp):
TGAATTCTGTTCTGATATATGATC
Found at i:1588255 original size:2 final size:2
Alignment explanation
Indices: 1588248--1588278 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1588238 GGGACGGGGG
1588248 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1588279 GTTTTAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1590454 original size:7 final size:7
Alignment explanation
Indices: 1590444--1590491 Score: 53
Period size: 7 Copynumber: 6.7 Consensus size: 7
1590434 AACTATAGTC
1590444 TATAAAG
1 TATAAAG
1590451 TATATAA-
1 TATA-AAG
1590458 TATAAAG
1 TATAAAG
1590465 TATTAAAG
1 TA-TAAAG
* *
1590473 TATATAC
1 TATAAAG
1590480 TATAAAG
1 TATAAAG
1590487 TATAA
1 TATAA
1590492 CTATATAACA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
6 2 0.06
7 23 0.68
8 9 0.26
ACGTcount: A:0.54, C:0.02, G:0.08, T:0.35
Consensus pattern (7 bp):
TATAAAG
Found at i:1590496 original size:13 final size:14
Alignment explanation
Indices: 1590424--1590496 Score: 56
Period size: 14 Copynumber: 5.8 Consensus size: 14
1590414 CTCCGTAGTA
*
1590424 TATATA-TATAAAC
1 TATATACTATAAAG
1590437 TATAGT-CTATAAAG
1 TATA-TACTATAAAG
*
1590451 TATATAATATAAAG
1 TATATACTATAAAG
1590465 ----TA-T-TAAAG
1 TATATACTATAAAG
1590473 TATATACTATAAAG
1 TATATACTATAAAG
1590487 TATA-ACTATA
1 TATATACTATA
1590497 TAACATAATA
Statistics
Matches: 49, Mismatches: 2, Indels: 18
0.71 0.03 0.26
Matches are distributed among these distances:
8 5 0.10
9 1 0.02
10 2 0.04
12 2 0.04
13 12 0.24
14 27 0.55
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.37
Consensus pattern (14 bp):
TATATACTATAAAG
Found at i:1590498 original size:22 final size:22
Alignment explanation
Indices: 1590446--1591270 Score: 167
Period size: 22 Copynumber: 36.7 Consensus size: 22
1590436 CTATAGTCTA
1590446 TAAAGTATATAATATAAAGTAT
1 TAAAGTATATAATATAAAGTAT
*
1590468 TAAAGTATATACTATAAAGTA-
1 TAAAGTATATAATATAAAGTAT
* *
1590489 T-AACTATATAACATAATA-TAT
1 TAAAGTATATAATATAA-AGTAT
* *
1590510 TATAA-TATA-ATTATTACAGTAT
1 TA-AAGTATATAATA-TAAAGTAT
* * *
1590532 GAAAGTGT-TAAAGTATATAGTTAT
1 TAAAGTATAT-AA-TATAAAG-TAT
*
1590556 ATATATGTACTGAACTAATATAAAGTAT
1 -TA-AAGTA-T--A-TAATATAAAGTAT
* *
1590584 TAAAATATATAATATAAAACTAT
1 TAAAGTATATAATAT-AAAGTAT
* *
1590607 AAAACTATATAATATAAAGTAT
1 TAAAGTATATAATATAAAGTAT
* *
1590629 TAAACTATTTAATATAAAGTAT
1 TAAAGTATATAATATAAAGTAT
* **
1590651 TAATGTATATTCTATAAAGTAT
1 TAAAGTATATAATATAAAGTAT
* *
1590673 AAAACTATATAATAT-AAGTAT
1 TAAAGTATATAATATAAAGTAT
* *
1590694 TTAAG--TAT-ATATAAAGT-G
1 TAAAGTATATAATATAAAGTAT
*
1590712 TAAAGTATA-AGTATATAAAATA-
1 TAAAGTATATA--ATATAAAGTAT
* *
1590734 CAAAGTATA-AGTATATAAAATA-
1 TAAAGTATATA--ATATAAAGTAT
* *
1590756 CAAAGTATATAGGCATATATA-TAT
1 TAAAGTATATA---ATATAAAGTAT
* * *
1590780 ATAAACTATAGT-CTATAGAGTA-
1 -TAAAGTATA-TAATATAAAGTAT
1590802 TATAA-TATA-AAGTATTAAAGTA-
1 TA-AAGTATATAA-TA-TAAAGTAT
* *
1590824 TAAACTATA-AAGTATAAAACTA-
1 TAAAGTATATAA-TAT-AAAGTAT
*
1590846 TATAA-TATA-AGTATTAAAGTAT
1 TA-AAGTATATAATA-TAAAGTAT
* * *
1590868 AAAATTATATAATAT-AAGTTT
1 TAAAGTATATAATATAAAGTAT
*
1590889 TGAAG--TAT-ATATAAAGTA-
1 TAAAGTATATAATATAAAGTAT
* *
1590907 TAAAGTATA-AGTATGTATA-TAT
1 TAAAGTATATA--ATATAAAGTAT
*
1590929 AAATAAGTATATAAACTATAAAGTA-
1 -TA-AAGTATAT-AA-TATAAAGTAT
1590954 T-AAGTATATAGGTATATATATA-TAT
1 TAAAGTATATA---ATATA-A-AGTAT
* *
1590979 ATAAACTATAGT-CTATAAAGTA-
1 -TAAAGTATA-TAATATAAAGTAT
1591001 TATAA-TATA-AAGTATTAAAGTA-
1 TA-AAGTATATAA-TA-TAAAGTAT
* * *
1591023 TATACTATA-AAGTATAAAACTAT
1 TAAAGTATATAA-TAT-AAAGTAT
*
1591046 ATAACA-TAATACTTTATAATATAAGTAT
1 -TAA-AGT-ATA--TAAT-ATA-AAGTAT
* *
1591074 TAAAGTATGTAAGTATGTAAGTAT
1 TAAAGTATATAA-TAT-AAAGTAT
* *
1591098 TAAAGTATATAGTTATATA-TAT
1 TAAAGTATATA-ATATAAAGTAT
**
1591120 GTATTG-A-ACTAATATAAAGTAT
1 -TAAAGTATA-TAATATAAAGTAT
* * * *
1591142 TAAACTACAAAATATAAAACTAT
1 TAAAGTATATAATAT-AAAGTAT
* * * *
1591165 AAAACTATATAATATAAATTAA
1 TAAAGTATATAATATAAAGTAT
*
1591187 TAAACTATAATATAATATAAAGTAT
1 TAAA--GT-ATATAATATAAAGTAT
*
1591212 TAAACTATATAATAT-AAGTAT
1 TAAAGTATATAATATAAAGTAT
*
1591233 TAAAGTATATACTATAAAGTAT
1 TAAAGTATATAATATAAAGTAT
* * *
1591255 AAAACTATATAGTATA
1 TAAAGTATATAATATA
1591271 GTTTATAAGT
Statistics
Matches: 604, Mismatches: 104, Indels: 190
0.67 0.12 0.21
Matches are distributed among these distances:
18 16 0.03
19 14 0.02
20 18 0.03
21 83 0.14
22 262 0.43
23 69 0.11
24 55 0.09
25 37 0.06
26 14 0.02
27 15 0.02
28 12 0.02
29 6 0.01
30 2 0.00
31 1 0.00
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.36
Consensus pattern (22 bp):
TAAAGTATATAATATAAAGTAT
Found at i:1590609 original size:8 final size:7
Alignment explanation
Indices: 1590572--1590624 Score: 52
Period size: 8 Copynumber: 7.1 Consensus size: 7
1590562 GTACTGAACT
1590572 AATATAA
1 AATATAA
*
1590579 AGTATTAA
1 AATA-TAA
*
1590587 AATATAT
1 AATATAA
1590594 AATATAA
1 AATATAA
1590601 AACTATAA
1 AA-TATAA
*
1590609 AACTATAT
1 AA-TATAA
1590617 AATATAA
1 AATATAA
1590624 A
1 A
1590625 GTATTAAACT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
7 18 0.47
8 20 0.53
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (7 bp):
AATATAA
Found at i:1590678 original size:44 final size:43
Alignment explanation
Indices: 1590571--1591343 Score: 239
Period size: 45 Copynumber: 17.2 Consensus size: 43
1590561 TGTACTGAAC
* * *
1590571 TAATATAAAGTATTAAAA-TATATAATATAAAACTATAAAACTATA
1 TAATATAAAGTA-TAAAACTATATAATAT-AAAGTAT-TAAGTATA
* *
1590616 TAATATAAAGTATTAAACTATTTAATATAAAGTATTAATGTATA
1 TAATATAAAGTATAAAACTATATAATATAAAGTATTAA-GTATA
**
1590660 TTCTATAAAGTATAAAACTATATAATAT-AAGTATTTAAGTATATA
1 TAATATAAAGTATAAAACTATATAATATAAAGTA-TTAAG--TATA
* * * *
1590705 TAAAGTGTAAAGTATAAGTA-TATAAAATACAAAGTA-TAAGTATA
1 T-AA-TATAAAGTATAA-AACTATATAATATAAAGTATTAAGTATA
* ** *
1590749 TAAAATACAAAGTATATAGGCATATATATATATAAACTATAGTCTATAGAGTATA
1 T--AATATAAAGTATA-AAAC-TATATA-ATAT--A--A-AGTAT-TA-AGTATA
* *
1590804 TAATATAAAGTATTAAAGTATA-AACTATAAAGTATAAAACTATA-TAATA
1 TAATATAAAGTATAAAACTATATAA-TATAAAGTAT-----TA-AGT-ATA
* *
1590853 TAAGTATTAAAGTATAAAATTATATAATAT-AAGTTTTGAAGTATATA
1 TAA-TA-TAAAGTATAAAACTATATAATATAAAGTATT-AAG--TATA
* *
1590900 TAAAGTATAAAGTAT--AAGTATGT-ATATATAA--A-TAAGTATA
1 T-AA-TATAAAGTATAAAACTATATAATATA-AAGTATTAAGTATA
* * *
1590940 TAAACTATAAAGTAT--AAGTATATAGGTATATA-TA-T-A-TATA
1 T-AA-TATAAAGTATAAAACTATATA-ATATAAAGTATTAAGTATA
* * *
1590980 TAA-ACTATAGTCTATAAAGTATATAATATAAAGTATTAAAGTATA
1 TAATA-TAAAGTATA-AAACTATATAATATAAAGTATT-AAGTATA
* * *
1591025 TACTATAAAGTATAAAACTATATAACAT-AA-TACT---T-TA
1 TAATATAAAGTATAAAACTATATAATATAAAGTATTAAGTATA
* * * *
1591062 TAATAT-AAGTATTAAAGTATGTAAGTATGTAAGTATTAAAGTATA
1 TAATATAAAGTATAAAACTATATAA-TAT-AAAGTATT-AAGTATA
* ** * *
1591107 TAGTTATATATATGTATTGAAC----TAATATAAAGTATTAAACTACA
1 TA---ATATA-AAGTATAAAACTATATAATATAAAGTATT-AAGTATA
* * * * *
1591151 AAATATAAAACTATAAAACTATATAATATAAATTAATAAACTATAATA
1 TAATAT-AAAGTATAAAACTATATAATATAAAGT-ATTAA--GT-ATA
*
1591199 TAATATAAAGTATTAAACTATATAATAT-AAGTATTAAAGTATA
1 TAATATAAAGTATAAAACTATATAATATAAAGTATT-AAGTATA
*
1591242 TACTATAAAGTATAAAACTATATAGTATAGTTTATAAGTATTAAAGTATA
1 TAATATAAAGTATAAAACTATATA--ATA---TA-AAGTATT-AAGTATA
* * *
1591292 TAAAAATAAA-TATAAAGC-ATATTAGTATTAAAGTATTAAAGTATA
1 T-AATATAAAGTATAAAACTATA-TAATA-TAAAGTATT-AAGTATA
1591337 TAA-ATAA
1 TAATATAA
1591344 CTAAATATAA
Statistics
Matches: 561, Mismatches: 83, Indels: 170
0.69 0.10 0.21
Matches are distributed among these distances:
36 15 0.03
37 10 0.02
38 7 0.01
39 4 0.01
40 38 0.07
41 24 0.04
42 14 0.02
43 40 0.07
44 91 0.16
45 95 0.17
46 27 0.05
47 55 0.10
48 28 0.05
49 14 0.02
50 44 0.08
51 29 0.05
52 6 0.01
53 11 0.02
54 2 0.00
55 7 0.01
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.36
Consensus pattern (43 bp):
TAATATAAAGTATAAAACTATATAATATAAAGTATTAAGTATA
Found at i:1590822 original size:8 final size:7
Alignment explanation
Indices: 1590793--1591040 Score: 90
Period size: 7 Copynumber: 34.9 Consensus size: 7
1590783 AACTATAGTC
*
1590793 TATAGAG
1 TATAAAG
1590800 TATATAA-
1 TATA-AAG
1590807 TATAAAG
1 TATAAAG
1590814 TATTAAAG
1 TA-TAAAG
*
1590822 TATAAAC
1 TATAAAG
1590829 TATAAAG
1 TATAAAG
*
1590836 TATAAAAC
1 TAT-AAAG
1590844 TATATAA-
1 TATA-AAG
1590851 TAT-AAG
1 TATAAAG
1590857 TATTAAAG
1 TA-TAAAG
*
1590865 TATAAAAT
1 TAT-AAAG
1590873 TATATAA-
1 TATA-AAG
1590880 TAT-AAG
1 TATAAAG
* *
1590886 TTTTGAAG
1 -TATAAAG
1590894 TAT--A-
1 TATAAAG
1590898 TATAAAG
1 TATAAAG
1590905 TATAAAG
1 TATAAAG
1590912 TATAAGTATG
1 TATAA--A-G
*
1590922 TATATA-
1 TATAAAG
*
1590928 TAAATAAG
1 TATA-AAG
*
1590936 TATATAAAC
1 --TATAAAG
1590945 TATAAAG
1 TATAAAG
1590952 TAT-AAG
1 TATAAAG
*
1590958 TATATAGG
1 TATA-AAG
*
1590966 TATATA-
1 TATAAAG
*
1590972 TATATA-
1 TATAAAG
*
1590978 TATAAAC
1 TATAAAG
***
1590985 TATAGTC
1 TATAAAG
1590992 TATAAAG
1 TATAAAG
1590999 TATATAA-
1 TATA-AAG
1591006 TATAAAG
1 TATAAAG
1591013 TATTAAAG
1 TA-TAAAG
* *
1591021 TATATAC
1 TATAAAG
1591028 TATAAAG
1 TATAAAG
1591035 TATAAA
1 TATAAA
1591041 ACTATATAAC
Statistics
Matches: 186, Mismatches: 26, Indels: 58
0.69 0.10 0.21
Matches are distributed among these distances:
4 3 0.02
5 5 0.03
6 27 0.15
7 92 0.49
8 48 0.26
9 3 0.02
10 8 0.04
ACGTcount: A:0.52, C:0.02, G:0.10, T:0.36
Consensus pattern (7 bp):
TATAAAG
Found at i:1590854 original size:29 final size:30
Alignment explanation
Indices: 1590822--1590884 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 30
1590812 AGTATTAAAG
1590822 TATAAACTA-TAAAGTATAAAACTATATAA
1 TATAAACTATTAAAGTATAAAACTATATAA
* *
1590851 TAT-AAGTATTAAAGTATAAAATTATATAA
1 TATAAACTATTAAAGTATAAAACTATATAA
1590880 TATAA
1 TATAA
1590885 GTTTTGAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 4 0.13
29 25 0.83
30 1 0.03
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (30 bp):
TATAAACTATTAAAGTATAAAACTATATAA
Found at i:1590885 original size:29 final size:29
Alignment explanation
Indices: 1590831--1590897 Score: 107
Period size: 29 Copynumber: 2.3 Consensus size: 29
1590821 GTATAAACTA
1590831 TAAAGTATAAAACTATATAATATAAGTAT
1 TAAAGTATAAAACTATATAATATAAGTAT
* *
1590860 TAAAGTATAAAATTATATAATATAAGTTT
1 TAAAGTATAAAACTATATAATATAAGTAT
*
1590889 TGAAGTATA
1 TAAAGTATA
1590898 TATAAAGTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.52, C:0.01, G:0.09, T:0.37
Consensus pattern (29 bp):
TAAAGTATAAAACTATATAATATAAGTAT
Found at i:1590971 original size:166 final size:164
Alignment explanation
Indices: 1590638--1591040 Score: 385
Period size: 166 Copynumber: 2.5 Consensus size: 164
1590628 TTAAACTATT
* * *
1590638 TAATATAAAGTATTAATGTATATTCTATAAAGTATAAAACTATATAATATAAGTATTTAAGTATA
1 TAATATAAAGTATTAAAGTATAATCTATAAAGTATAAAACTATATAATATAAGTATTAAAGTATA
*
1590703 TATAAAGTGTAAAGTATAAGTATATAAAATACAAAGTATAAGTATATAAAATACAAAGTATATAG
66 TATAAAGTATAAAGTATAAGTATATAAAATACAAAGTATAAGTATATAAAATACAAAG-ATATAG
* *
1590768 GCATATATATATATAAACTATAGTCTATAGAGTATA
130 G-ATATATAAATATAAACTATAGTATATAGAGTATA
*
1590804 TAATATAAAGTATTAAAGTATAAACTATAAAGTATAAAACTATATAATATAAGTATTAAAGTATA
1 TAATATAAAGTATTAAAGTATAATCTATAAAGTATAAAACTATATAATATAAGTATTAAAGTAT-
* * * * *
1590869 AAATTATATAA-TAT-AAGTTTTGAAGTATATATAAAGTATAAAGTATAAGTATGT-ATATA-TA
65 --A-TATA-AAGTATAAAG-TAT-AAGTATATA-AAA-TACAAAGTATAAGTATATAAAATACAA
*
1590930 A-ATA-A-G-TATATAAACTATAAAGTATAAGTATATAG-GTATA
122 AGATATAGGATATATAAA-TATAAACTAT-AGTATATAGAGTATA
* * *
1590970 T-ATATATA-TA-TAAACTATAGTCTATAAAGTAT---A-TA-AT-ATA-AAGTATTAAAGTATA
1 TAATATAAAGTATTAAAGTATAATCTATAAAGTATAAAACTATATAATATAAGTATTAAAG--TA
1591025 TACTATAAAGTATAAA
64 TA-TATAAAGTATAAA
1591041 ACTATATAAC
Statistics
Matches: 204, Mismatches: 18, Indels: 40
0.78 0.07 0.15
Matches are distributed among these distances:
154 2 0.01
155 8 0.04
156 13 0.06
157 3 0.01
158 5 0.02
159 2 0.01
160 1 0.00
163 19 0.09
164 2 0.01
165 13 0.06
166 75 0.37
167 9 0.04
168 1 0.00
169 7 0.03
170 8 0.04
171 13 0.06
172 7 0.03
173 16 0.08
ACGTcount: A:0.52, C:0.03, G:0.10, T:0.35
Consensus pattern (164 bp):
TAATATAAAGTATTAAAGTATAATCTATAAAGTATAAAACTATATAATATAAGTATTAAAGTATA
TATAAAGTATAAAGTATAAGTATATAAAATACAAAGTATAAGTATATAAAATACAAAGATATAGG
ATATATAAATATAAACTATAGTATATAGAGTATA
Found at i:1590980 original size:40 final size:38
Alignment explanation
Indices: 1590946--1591039 Score: 64
Period size: 43 Copynumber: 2.3 Consensus size: 38
1590936 TATATAAACT
*
1590946 ATAAAGTATAAGTATATAGGTATATATATATATATAAACT
1 ATAAAGTATAAGTATATA--TATATAAATATATATAAACT
*** *
1590986 ATAGTCTATAAAGTATATA-ATATAAAGTATTAAAGTATATACT
1 ATAAAGTAT-AAGTATATATATATAAA-TA-T--A-TATAAACT
1591029 ATAAAGTATAA
1 ATAAAGTATAA
1591040 AACTATATAA
Statistics
Matches: 40, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
38 6 0.15
39 2 0.05
40 7 0.17
41 9 0.22
42 3 0.08
43 13 0.32
ACGTcount: A:0.51, C:0.03, G:0.10, T:0.36
Consensus pattern (38 bp):
ATAAAGTATAAGTATATATATATAAATATATATAAACT
Found at i:1591032 original size:199 final size:194
Alignment explanation
Indices: 1590603--1591054 Score: 589
Period size: 199 Copynumber: 2.3 Consensus size: 194
1590593 TAATATAAAA
* * * * * *
1590603 CTATAAAACTATATAATATAAAGTATTAAACTATTTAATATAAAGTAT-TAA-TGTAT-AT-T--
1 CTAT-AAAGTATATAATATAAAGTATTAAAGTATATACTATAAAGTATAAAACTATATAATATAA
*
1590662 CTATAAAGTATAAAACTATATAATATAAGTATTTAAGTATATATAAAGTGTAAAGTATAAGTATA
65 CTATAAAGTATAAAACTATATAATATAAGTATTTAAGTATATATAAAGTATAAAGTATAAGTATA
* *
1590727 TAAAATACAAAGTATAAGTATATAAAATACAAAGTATATAGGCATATATATATATAAACTATAGT
130 TAAAATAAAAAGTATAAGAATATAAAATACAAAGTATATAGGCATATATATATATAAACTATAGT
* * *
1590792 CTATAGAGTATATAATATAAAGTATTAAAGTATAAACTATAAAGTATAAAACTATATAATATAAG
1 CTATAAAGTATATAATATAAAGTATTAAAGTATATACTATAAAGTATAAAACTATATAATATAAC
*
1590857 TATTAAAGTATAAAATTATATAATATAAGT-TTTGAAGTATATATAAAGTATAAAGTATAAGTAT
66 TA-TAAAGTATAAAACTATATAATATAAGTATTT-AAGTATATATAAAGTATAAAGTATAAGTAT
* * * * *
1590921 GTATATATAAATAAGTATATA-AACTATAAAGTA-TAAGTATATAGGTATATATATATATATAAA
129 ATA-AAATAAA-AAGTATA-AGAA-TATAAAATACAAAGTATATAGG--CATATATATATATAAA
1590984 CTATAGT
188 CTATAGT
*
1590991 CTATAAAGTATATAATATAAAGTATTAAAGTATATACTATAAAGTATAAAACTATATAACATAA
1 CTATAAAGTATATAATATAAAGTATTAAAGTATATACTATAAAGTATAAAACTATATAATATAA
1591055 TACTTTATAA
Statistics
Matches: 228, Mismatches: 21, Indels: 18
0.85 0.08 0.07
Matches are distributed among these distances:
188 37 0.16
189 6 0.03
190 4 0.02
191 2 0.01
192 1 0.00
194 5 0.02
195 57 0.25
196 5 0.02
197 19 0.08
198 9 0.04
199 83 0.36
ACGTcount: A:0.52, C:0.04, G:0.09, T:0.35
Consensus pattern (194 bp):
CTATAAAGTATATAATATAAAGTATTAAAGTATATACTATAAAGTATAAAACTATATAATATAAC
TATAAAGTATAAAACTATATAATATAAGTATTTAAGTATATATAAAGTATAAAGTATAAGTATAT
AAAATAAAAAGTATAAGAATATAAAATACAAAGTATATAGGCATATATATATATAAACTATAGT
Found at i:1591046 original size:15 final size:14
Alignment explanation
Indices: 1590807--1591270 Score: 94
Period size: 14 Copynumber: 32.3 Consensus size: 14
1590797 GAGTATATAA
*
1590807 TATAAAGTATTAAAG
1 TATAAACTA-TAAAG
1590822 TATAAACTATAAAG
1 TATAAACTATAAAG
1590836 TATAAAACTATATAA-
1 TAT-AAACTATA-AAG
*
1590851 TAT-AAGTATTAAAG
1 TATAAACTA-TAAAG
*
1590865 TATAAAATTATATAA-
1 TAT-AAACTATA-AAG
** * *
1590880 TATAAGTTTTGAAG
1 TATAAACTATAAAG
1590894 TAT--A-TATAAAG
1 TATAAACTATAAAG
*
1590905 TATAAAGTATAAGTATG
1 TATAAACTATAA--A-G
* *
1590922 TATATA-TAAATAAG
1 TATAAACTATA-AAG
1590936 TATATAAACTATAAAG
1 --TATAAACTATAAAG
* *
1590952 TAT-AAGTATATAGG
1 TATAAACTATA-AAG
* *
1590966 TATATA-TATATA-
1 TATAAACTATAAAG
***
1590978 TATAAACTATAGTC
1 TATAAACTATAAAG
*
1590992 TATAAAGTATATAA-
1 TATAAACTATA-AAG
*
1591006 TATAAAGTATTAAAG
1 TATAAACTA-TAAAG
*
1591021 TATATACTATAAAG
1 TATAAACTATAAAG
1591035 TATAAAACTATATAA-
1 TAT-AAACTATA-AAG
* *
1591050 CATAATACTTTATAA-
1 TATAA-ACTATA-AAG
*
1591065 TAT-AAGTATTAAAG
1 TATAAACTA-TAAAG
* * *
1591079 TATGTAAGTATGTAAG
1 TAT-AAACTAT-AAAG
* *
1591095 TATTAAAGTATATAG
1 TA-TAAACTATAAAG
* *
1591110 T-TATA-TAT-ATG
1 TATAAACTATAAAG
*
1591121 TATTGAACTAATATAAAG
1 TA-T-AA--ACTATAAAG
* *
1591139 TATTAAACTACAAAA
1 TA-TAAACTATAAAG
*
1591154 TATAAAACTATAAAAC
1 TAT-AAACTAT-AAAG
*
1591170 TATATAA-TATAAAT
1 TATA-AACTATAAAG
1591184 TAATAAACTAT-AA-
1 T-ATAAACTATAAAG
1591197 TAT-AA-TATAAAG
1 TATAAACTATAAAG
1591209 TATTAAACTATATAA-
1 TA-TAAACTATA-AAG
*
1591224 TAT-AAGTATTAAAG
1 TATAAACTA-TAAAG
*
1591238 TATATACTATAAAG
1 TATAAACTATAAAG
*
1591252 TATAAAACTATATAG
1 TAT-AAACTATAAAG
1591267 TATA
1 TATA
1591271 GTTTATAAGT
Statistics
Matches: 341, Mismatches: 52, Indels: 113
0.67 0.10 0.22
Matches are distributed among these distances:
10 3 0.01
11 14 0.04
12 12 0.04
13 35 0.10
14 103 0.30
15 103 0.30
16 49 0.14
17 16 0.05
18 6 0.02
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.36
Consensus pattern (14 bp):
TATAAACTATAAAG
Found at i:1591182 original size:199 final size:195
Alignment explanation
Indices: 1590665--1591243 Score: 507
Period size: 199 Copynumber: 2.9 Consensus size: 195
1590655 GTATATTCTA
* * * * *
1590665 TAAAGTATAAAACTATATAATATAAGTAT-TTAAGTATATATAAAGTGTAAAGTATAAGTATATA
1 TAAAGTATAAAATTAAATAATATAAGT-TGTGAAG-ATATATAAAGTATAAAGTATAAGTATGTA
* * * * * * **
1590729 -AAATACA-AAGTATA-AGTA-TATAAAATACAAAGTATATAGGCATATATATATATAAACTATA
64 TATATAAATAAGTATATA-AACTACAAAATA-TAAGAATATAGAAATATATATATATAAACTATA
* *
1590790 GTCTATAGAGTATATAATATAAAGTATTAAAGTATAAACTATAAAGTATAAAACTATATAATATA
127 GTCTATA-AGTATATAATATAAAGTATTAAAGTATATACTATAAAGTATAAAACTATATAACATA
1590855 AGTAT
191 AGTAT
* *
1590860 TAAAGTATAAAATTATATAATATAAGTTTTGAAGTATATATAAAGTATAAAGTATAAGTATGTAT
1 TAAAGTATAAAATTAAATAATATAAGTTGTGAAG-ATATATAAAGTATAAAGTATAAGTATGTAT
* * * *
1590925 ATATAAATAAGTATATAAACTATAAAGTATAAGTATATAGGTATATATATATATATAAACTATAG
65 ATATAAATAAGTATATAAACTACAAAATATAAGAATATA-G-AAATATATATATATAAACTATAG
1590990 TCTATAAAGTATATAATATAAAGTATTAAAGTATATACTATAAAGTATAAAACTATATAACATAA
128 TCTAT-AAGTATATAATATAAAGTATTAAAGTATATACTATAAAGTATAAAACTATATAACATAA
1591055 -TACTT
192 GTA--T
* * *
1591060 TATAA-TATAAGTATTAAAGT-ATGTAAGTATGT-AAG-TAT-TAAAGTATATAGTTATATA-TA
1 TA-AAGTATAA-AATTAAA-TAATATAAGT-TGTGAAGATATATAAAGTATAAAG-TATA-AGTA
1591119 TGTAT-TGAACTAATATAAAGTAT-TAAACTACAAAATATAA-AACTATA-AAACTATATA-ATA
60 TGTATAT--A-TAA-AT-AAGTATATAAACTACAAAATATAAGAA-TATAGAAA-TATATATATA
* ** * * * *
1591179 TAAATTAATAAACTAT-A--ATATAATATAAAGTATTAAACTATATAATAT-AAGTATTAAAGTA
118 TAAACT-ATAGTCTATAAGTATATAATATAAAGTATTAAAGTATATACTATAAAGTATAAAACTA
1591240 TATA
182 TATA
1591244 CTATAAAGTA
Statistics
Matches: 331, Mismatches: 29, Indels: 48
0.81 0.07 0.12
Matches are distributed among these distances:
194 1 0.00
195 73 0.22
196 34 0.10
197 17 0.05
198 25 0.08
199 106 0.32
200 24 0.07
201 21 0.06
202 24 0.07
203 6 0.02
ACGTcount: A:0.52, C:0.04, G:0.09, T:0.35
Consensus pattern (195 bp):
TAAAGTATAAAATTAAATAATATAAGTTGTGAAGATATATAAAGTATAAAGTATAAGTATGTATA
TATAAATAAGTATATAAACTACAAAATATAAGAATATAGAAATATATATATATAAACTATAGTCT
ATAAGTATATAATATAAAGTATTAAAGTATATACTATAAAGTATAAAACTATATAACATAAGTAT
Found at i:1591205 original size:25 final size:25
Alignment explanation
Indices: 1591171--1591249 Score: 88
Period size: 25 Copynumber: 3.0 Consensus size: 25
1591161 CTATAAAACT
*
1591171 ATATAATATAAATTAATAAACTATA
1 ATATAATATAAAGTAATAAACTATA
*
1591196 ATATAATATAAAGTATTAAACTATATA
1 ATATAATATAAAGTAATAAAC--TATA
*
1591223 ATATAAGTATTAAAGT-ATATACTATA
1 ATATAA-TA-TAAAGTAATAAACTATA
1591249 A
1 A
1591250 AGTATAAAAC
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
25 19 0.41
26 5 0.11
27 10 0.22
28 6 0.13
29 6 0.13
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.37
Consensus pattern (25 bp):
ATATAATATAAAGTAATAAACTATA
Found at i:1591270 original size:7 final size:7
Alignment explanation
Indices: 1591202--1591336 Score: 55
Period size: 8 Copynumber: 18.6 Consensus size: 7
1591192 TATAATATAA
1591202 TATAAAG
1 TATAAAG
*
1591209 TATTAAAC
1 TA-TAAAG
1591217 TATATAA-
1 TATA-AAG
1591224 TAT-AAG
1 TATAAAG
1591230 TATTAAAG
1 TA-TAAAG
* *
1591238 TATATAC
1 TATAAAG
1591245 TATAAAG
1 TATAAAG
*
1591252 TATAAAAC
1 TAT-AAAG
*
1591260 TATATAG
1 TATAAAG
1591267 TAT--AG
1 TATAAAG
*
1591272 TTTATAAG
1 TATA-AAG
1591280 TATTAAAG
1 TA-TAAAG
*
1591288 TATATAAA
1 TATA-AAG
*
1591296 AATAAA-
1 TATAAAG
1591302 TATAAAG
1 TATAAAG
* *
1591309 CATATTAG
1 TATA-AAG
1591317 TATTAAAG
1 TA-TAAAG
1591325 TATTAAAG
1 TA-TAAAG
1591333 TATA
1 TATA
1591337 TAAATAACTA
Statistics
Matches: 97, Mismatches: 17, Indels: 28
0.68 0.12 0.20
Matches are distributed among these distances:
5 6 0.06
6 7 0.07
7 33 0.34
8 47 0.48
9 4 0.04
ACGTcount: A:0.52, C:0.03, G:0.09, T:0.36
Consensus pattern (7 bp):
TATAAAG
Found at i:1591306 original size:50 final size:46
Alignment explanation
Indices: 1591224--1591353 Score: 140
Period size: 50 Copynumber: 2.7 Consensus size: 46
1591214 AACTATATAA
**
1591224 TATAAGTATTAAAGTATAT-ACTATAAAGTATAAAAC-TATATAGTATAGTT
1 TATAAGTATTAAAGTATATAAAAATAAA-TATAAAACATAT-TAG--TA--T
*
1591274 TATAAGTATTAAAGTATATAAAAATAAATATAAAGCATATTAGTAT
1 TATAAGTATTAAAGTATATAAAAATAAATATAAAACATATTAGTAT
1591320 TA-AAGTATTAAAGTATATAAATAACTAAATATAA
1 TATAAGTATTAAAGTATATAAA-AA-TAAATATAA
1591354 GTATTAAGTA
Statistics
Matches: 73, Mismatches: 3, Indels: 11
0.84 0.03 0.13
Matches are distributed among these distances:
45 19 0.26
46 5 0.07
47 9 0.12
48 2 0.03
50 29 0.40
51 9 0.12
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.35
Consensus pattern (46 bp):
TATAAGTATTAAAGTATATAAAAATAAATATAAAACATATTAGTAT
Found at i:1592218 original size:36 final size:37
Alignment explanation
Indices: 1592155--1592225 Score: 108
Period size: 36 Copynumber: 1.9 Consensus size: 37
1592145 CCGAAGTATT
*
1592155 ATTCATCTTCTTCTCATAACCATAAATCCCAAATCCC
1 ATTCATCTTCTTCTCATAACCATAAATCACAAATCCC
* *
1592192 ATTCATCTTCTTC-CCTAACCTTAAATCACAAATC
1 ATTCATCTTCTTCTCATAACCATAAATCACAAATC
1592226 TCACTGTTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
36 18 0.58
37 13 0.42
ACGTcount: A:0.32, C:0.34, G:0.00, T:0.34
Consensus pattern (37 bp):
ATTCATCTTCTTCTCATAACCATAAATCACAAATCCC
Found at i:1593198 original size:39 final size:38
Alignment explanation
Indices: 1593134--1593240 Score: 110
Period size: 39 Copynumber: 2.7 Consensus size: 38
1593124 CATTGTTTAT
* **
1593134 TATTTGTTTTGTTTTTTCTAATTGTTTTCTGT-TTGTTCA
1 TATTT-TTTTGTTTTTTATTTTTGTTTTCTGTCTTGTT-A
*
1593173 TATGTTTTTTGTTTTTTATTTTTG-TTTCTGTCTTGTTT
1 TAT-TTTTTTGTTTTTTATTTTTGTTTTCTGTCTTGTTA
*
1593211 TATTTTATATGTTTTTTATTTTCTGTTTTC
1 TATTTT-TTTGTTTTTTATTTT-TGTTTTC
1593241 ATTTTTTATT
Statistics
Matches: 58, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
37 3 0.05
38 24 0.41
39 25 0.43
40 6 0.10
ACGTcount: A:0.09, C:0.07, G:0.11, T:0.73
Consensus pattern (38 bp):
TATTTTTTTGTTTTTTATTTTTGTTTTCTGTCTTGTTA
Found at i:1593302 original size:27 final size:27
Alignment explanation
Indices: 1593250--1593309 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
1593240 CATTTTTTAT
* *
1593250 TTGTTTTCTGTATGACTGTATACATTA
1 TTGTTTTCTATATGACTATATACATTA
*
1593277 TATGTTTT-TATATGACTATATGCATT-
1 T-TGTTTTCTATATGACTATATACATTA
1593303 TTGTTTT
1 TTGTTTT
1593310 ATTTTTTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 6 0.21
26 1 0.03
27 16 0.55
28 6 0.21
ACGTcount: A:0.22, C:0.08, G:0.13, T:0.57
Consensus pattern (27 bp):
TTGTTTTCTATATGACTATATACATTA
Found at i:1593374 original size:23 final size:21
Alignment explanation
Indices: 1593338--1593400 Score: 81
Period size: 21 Copynumber: 2.9 Consensus size: 21
1593328 ATTTTTTATT
*
1593338 TGTTTTCTTTTATTTATTTCC
1 TGTTTTCTTTTATTTATTTCA
* *
1593359 TGTTTATGTTATTATTTATTTTA
1 TGTTT-TCTT-TTATTTATTTCA
1593382 TGTTTTCTTTTATTTATTT
1 TGTTTTCTTTTATTTATTT
1593401 ATTATTTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
21 15 0.42
22 6 0.17
23 15 0.42
ACGTcount: A:0.14, C:0.06, G:0.06, T:0.73
Consensus pattern (21 bp):
TGTTTTCTTTTATTTATTTCA
Found at i:1593383 original size:17 final size:16
Alignment explanation
Indices: 1593361--1593427 Score: 66
Period size: 16 Copynumber: 4.1 Consensus size: 16
1593351 TTATTTCCTG
1593361 TTTATGTTATTATTTAT
1 TTTATGTT-TTATTTAT
*
1593378 TTTATGTTTTCTTT-T
1 TTTATGTTTTATTTAT
1593393 ATTTAT-TTATTATTTAT
1 -TTTATGTT-TTATTTAT
*
1593410 TTTTTGTTTATATTTAT
1 TTTATGTTT-TATTTAT
1593427 T
1 T
1593428 ATTCTAACAA
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
15 3 0.07
16 20 0.48
17 19 0.45
ACGTcount: A:0.19, C:0.01, G:0.04, T:0.75
Consensus pattern (16 bp):
TTTATGTTTTATTTAT
Found at i:1593398 original size:28 final size:27
Alignment explanation
Indices: 1593361--1593430 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 27
1593351 TTATTTCCTG
1593361 TTTATGTTATTATTTATTTTATGTTTTCT
1 TTTAT-TTATTATTTA-TTTATGTTTTCT
* *
1593390 TTTATTTATT-TATTATTTATTTTTTGT
1 TTTATTTATTAT-TTATTTATGTTTTCT
1593417 TTATATTTATTATT
1 TT-TATTTATTATT
1593431 CTAACAAATG
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
27 13 0.36
28 17 0.47
29 6 0.17
ACGTcount: A:0.20, C:0.01, G:0.04, T:0.74
Consensus pattern (27 bp):
TTTATTTATTATTTATTTATGTTTTCT
Found at i:1593409 original size:44 final size:44
Alignment explanation
Indices: 1593338--1593426 Score: 117
Period size: 44 Copynumber: 2.0 Consensus size: 44
1593328 ATTTTTTATT
* *
1593338 TGTTTTCTTTTATTTATTTCCTGTTTATGTTATTATTTAT-TTTA
1 TGTTTTCTTTTATTTATTTACTATTTAT-TTATTATTTATATTTA
* * *
1593382 TGTTTTCTTTTATTTATTTATTATTTATTTTTTGTTTATATTTA
1 TGTTTTCTTTTATTTATTTACTATTTATTTATTATTTATATTTA
1593426 T
1 T
1593427 TATTCTAACA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
43 9 0.23
44 30 0.77
ACGTcount: A:0.17, C:0.04, G:0.06, T:0.73
Consensus pattern (44 bp):
TGTTTTCTTTTATTTATTTACTATTTATTTATTATTTATATTTA
Found at i:1593426 original size:32 final size:33
Alignment explanation
Indices: 1593361--1593427 Score: 93
Period size: 32 Copynumber: 2.1 Consensus size: 33
1593351 TTATTTCCTG
*
1593361 TTTATGTTATTATTTATTTTATGTTTTCTTTTA
1 TTTATGTTATTATTTATTTTATGTTTTCATTTA
*
1593394 TTTAT-TTATTATTTATTTTTTGTTTAT-ATTTA
1 TTTATGTTATTATTTATTTTATGTTT-TCATTTA
1593426 TT
1 TT
1593428 ATTCTAACAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
32 25 0.81
33 6 0.19
ACGTcount: A:0.19, C:0.01, G:0.04, T:0.75
Consensus pattern (33 bp):
TTTATGTTATTATTTATTTTATGTTTTCATTTA
Found at i:1595539 original size:29 final size:29
Alignment explanation
Indices: 1595483--1595542 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
1595473 CCAAATTTTG
* *
1595483 TTTAGTGGCTAAAATGTAAGTTTTGAAAA
1 TTTAGTGACTAAAATGTAAATTTTGAAAA
*
1595512 TTTAGTGACTAAATTG-AAATTTTAGAAAA
1 TTTAGTGACTAAAATGTAAATTTT-GAAAA
1595541 TT
1 TT
1595543 GAAGGGTCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 6 0.22
29 21 0.78
ACGTcount: A:0.40, C:0.03, G:0.17, T:0.40
Consensus pattern (29 bp):
TTTAGTGACTAAAATGTAAATTTTGAAAA
Found at i:1597569 original size:36 final size:36
Alignment explanation
Indices: 1597529--1597625 Score: 167
Period size: 36 Copynumber: 2.7 Consensus size: 36
1597519 CCATTATTAG
1597529 CTTTGGTACATTCGTGTATCAATGTTATCATATCAA
1 CTTTGGTACATTCGTGTATCAATGTTATCATATCAA
* * *
1597565 CTTTGGTACATTCATGTATTAATGTTATCATATCAG
1 CTTTGGTACATTCGTGTATCAATGTTATCATATCAA
1597601 CTTTGGTACATTCGTGTATCAATGT
1 CTTTGGTACATTCGTGTATCAATGT
1597626 CCAGCACCGT
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 56 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.43
Consensus pattern (36 bp):
CTTTGGTACATTCGTGTATCAATGTTATCATATCAA
Found at i:1598846 original size:56 final size:57
Alignment explanation
Indices: 1598762--1598875 Score: 167
Period size: 56 Copynumber: 2.0 Consensus size: 57
1598752 TATTATATGG
* * * *
1598762 TGCTACTGCTTTTACATTTACTATTTTTTCATTAATTTTGATGAATTTCAGCAAGCA
1 TGCTACTGCTTTTACATTTACTACTTTTTCATTAATTTTCATAAATTTCAACAAGCA
* *
1598819 TGCTACTGC-TTTACATTTACTGCTTTTTGATTAATTTTCATAAATTTCAACAAGCA
1 TGCTACTGCTTTTACATTTACTACTTTTTCATTAATTTTCATAAATTTCAACAAGCA
1598875 T
1 T
1598876 ATAAATGAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
56 42 0.82
57 9 0.18
ACGTcount: A:0.27, C:0.17, G:0.10, T:0.46
Consensus pattern (57 bp):
TGCTACTGCTTTTACATTTACTACTTTTTCATTAATTTTCATAAATTTCAACAAGCA
Found at i:1599042 original size:22 final size:22
Alignment explanation
Indices: 1598988--1599043 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
1598978 TGGATTGATA
*
1598988 TGAATGCTGGA-TGGAATTGGAC
1 TGAATGCT-GATTGGAATTCGAC
* *
1599010 TGAATGTTGATTGGAATTCGTC
1 TGAATGCTGATTGGAATTCGAC
1599032 TGAATGCTGATT
1 TGAATGCTGATT
1599044 ACTTATGGTC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 2 0.07
22 27 0.93
ACGTcount: A:0.25, C:0.09, G:0.30, T:0.36
Consensus pattern (22 bp):
TGAATGCTGATTGGAATTCGAC
Found at i:1608096 original size:23 final size:23
Alignment explanation
Indices: 1608070--1608125 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
1608060 GAGTTGAGGG
*
1608070 ATTCTATGTGGTCATTCGGGACA
1 ATTCTATGTGGTCATTCGAGACA
*
1608093 ATTCTATGTGGTCCTTCGAGACA
1 ATTCTATGTGGTCATTCGAGACA
*
1608116 AATCTATGTG
1 ATTCTATGTG
1608126 ACACTTCGGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (23 bp):
ATTCTATGTGGTCATTCGAGACA
Found at i:1608132 original size:23 final size:23
Alignment explanation
Indices: 1608072--1608133 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
1608062 GTTGAGGGAT
* * * *
1608072 TCTATGTGGTCATTCGGGACAAT
1 TCTATGTGGACCTTCGAGACAAA
*
1608095 TCTATGTGGTCCTTCGAGACAAA
1 TCTATGTGGACCTTCGAGACAAA
1608118 TCTATGT-GACACTTCG
1 TCTATGTGGAC-CTTCG
1608134 GGCATAATCT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 2 0.06
23 32 0.94
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.34
Consensus pattern (23 bp):
TCTATGTGGACCTTCGAGACAAA
Found at i:1608157 original size:23 final size:23
Alignment explanation
Indices: 1608114--1608171 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
1608104 TCCTTCGAGA
* *
1608114 CAAATCTATGTGACACTTCGG-G
1 CAAATCTACGTGACACATCGGTG
*
1608136 CATAATCTACGTGGCACATCGGTG
1 CA-AATCTACGTGACACATCGGTG
1608160 CAAATTCTACGT
1 CAAA-TCTACGT
1608172 CAGTTTCGAC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 2 0.07
23 18 0.60
24 10 0.33
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (23 bp):
CAAATCTACGTGACACATCGGTG
Found at i:1620306 original size:13 final size:13
Alignment explanation
Indices: 1620290--1620340 Score: 57
Period size: 13 Copynumber: 3.6 Consensus size: 13
1620280 AATAATTCAT
1620290 AGAAATAAGAACA
1 AGAAATAAGAACA
*
1620303 AGAAATAAATAATTCA
1 AGAAAT-AAGAA--CA
1620319 TAGAAATAAGAACA
1 -AGAAATAAGAACA
1620333 AGAAATAA
1 AGAAATAA
1620341 ATATTACTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
13 14 0.44
14 6 0.19
16 6 0.19
17 6 0.19
ACGTcount: A:0.67, C:0.06, G:0.12, T:0.16
Consensus pattern (13 bp):
AGAAATAAGAACA
Found at i:1620316 original size:30 final size:30
Alignment explanation
Indices: 1620280--1620343 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
1620270 AATCAATATC
1620280 AATAATTCATAGAAATAAGAACAAGAAATA
1 AATAATTCATAGAAATAAGAACAAGAAATA
1620310 AATAATTCATAGAAATAAGAACAAGAAATA
1 AATAATTCATAGAAATAAGAACAAGAAATA
1620340 AATA
1 AATA
1620344 TTACTTGGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.64, C:0.06, G:0.09, T:0.20
Consensus pattern (30 bp):
AATAATTCATAGAAATAAGAACAAGAAATA
Found at i:1620323 original size:17 final size:17
Alignment explanation
Indices: 1620280--1620327 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 17
1620270 AATCAATATC
1620280 AATAATTCATAGAAAT-
1 AATAATTCATAGAAATA
*
1620296 AAGAA--CA-AGAAATA
1 AATAATTCATAGAAATA
1620310 AATAATTCATAGAAATA
1 AATAATTCATAGAAATA
1620327 A
1 A
1620328 GAACAAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
13 6 0.23
14 6 0.23
16 6 0.23
17 8 0.31
ACGTcount: A:0.62, C:0.06, G:0.08, T:0.23
Consensus pattern (17 bp):
AATAATTCATAGAAATA
Found at i:1622709 original size:31 final size:28
Alignment explanation
Indices: 1622629--1622709 Score: 78
Period size: 27 Copynumber: 2.8 Consensus size: 28
1622619 CAAAATATTT
*
1622629 AAAAAAGTAAAA-AATAAAATAAACCAAA
1 AAAAAAG-AAAAGAGTAAAATAAACCAAA
*
1622657 AGAAAAGAAAAGAG-AAAATAAACCAATA
1 AAAAAAGAAAAGAGTAAAATAAACCAA-A
1622685 ACAATAAAGAAAA-ATGTAAAATAAA
1 A-AA-AAAGAAAAGA-GTAAAATAAA
1622710 ATAATAAATT
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
27 16 0.36
28 9 0.20
29 2 0.05
30 9 0.20
31 8 0.18
ACGTcount: A:0.74, C:0.06, G:0.09, T:0.11
Consensus pattern (28 bp):
AAAAAAGAAAAGAGTAAAATAAACCAAA
Found at i:1628851 original size:17 final size:17
Alignment explanation
Indices: 1628829--1628862 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1628819 TTTGCATGAG
1628829 TGTTGCTTTGATCTTGA
1 TGTTGCTTTGATCTTGA
*
1628846 TGTTGCTTTGGTCTTGA
1 TGTTGCTTTGATCTTGA
1628863 GGATTATAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.09, C:0.12, G:0.26, T:0.53
Consensus pattern (17 bp):
TGTTGCTTTGATCTTGA
Found at i:1638223 original size:16 final size:16
Alignment explanation
Indices: 1638202--1638233 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
1638192 ATAAAGTCTC
1638202 CAAACATCTAAAAAAA
1 CAAACATCTAAAAAAA
1638218 CAAACATCTAAAAAAA
1 CAAACATCTAAAAAAA
1638234 GGTAGATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.69, C:0.19, G:0.00, T:0.12
Consensus pattern (16 bp):
CAAACATCTAAAAAAA
Found at i:1638564 original size:2 final size:2
Alignment explanation
Indices: 1638557--1638612 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
1638547 TTTGCAATGG
1638557 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1638599 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
1638613 GAATTCTTGT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1640451 original size:28 final size:28
Alignment explanation
Indices: 1640410--1640478 Score: 111
Period size: 28 Copynumber: 2.5 Consensus size: 28
1640400 TTTTCACCCT
1640410 AAACCCGACCCGAATATCACACTTAAAA
1 AAACCCGACCCGAATATCACACTTAAAA
* *
1640438 AAACTCGACTCGAATATCACACTTAAAA
1 AAACCCGACCCGAATATCACACTTAAAA
*
1640466 CAACCCGACCCGA
1 AAACCCGACCCGA
1640479 CCAGAATATC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.43, C:0.33, G:0.09, T:0.14
Consensus pattern (28 bp):
AAACCCGACCCGAATATCACACTTAAAA
Found at i:1640510 original size:33 final size:32
Alignment explanation
Indices: 1640411--1640511 Score: 104
Period size: 33 Copynumber: 3.2 Consensus size: 32
1640401 TTTCACCCTA
1640411 AACCCGACCCGAATATCACACTTAAAAAAACT-
1 AACCCGA-CCGAATATCACACTTAAAAAAACTC
* *
1640443 ----CGACTCGAATATCACACTTAAAACAACCC
1 AACCCGAC-CGAATATCACACTTAAAAAAACTC
* *
1640472 GACCCGACCAGAATATCAAACTTAAAAAAACTC
1 AACCCGACC-GAATATCACACTTAAAAAAACTC
1640505 AACCCGA
1 AACCCGA
1640512 ACCCGAATTT
Statistics
Matches: 56, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
27 1 0.02
28 24 0.43
32 1 0.02
33 30 0.54
ACGTcount: A:0.46, C:0.32, G:0.08, T:0.15
Consensus pattern (32 bp):
AACCCGACCGAATATCACACTTAAAAAAACTC
Found at i:1641059 original size:86 final size:86
Alignment explanation
Indices: 1640943--1641108 Score: 298
Period size: 86 Copynumber: 1.9 Consensus size: 86
1640933 CGGTTATGTT
1640943 ATATTATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAAT
1 ATATTATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAAT
1641008 AGATAGCGCTTATATAATAAA
66 AGATAGCGCTTATATAATAAA
*
1641029 ATATGTATTTAACC-GAAATATTATCAAGTACAATAACATATTAGGTAACGTTTATATAATGTAA
1 ATAT-TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAA
*
1641093 TAGGTAGCGCTTATAT
65 TAGATAGCGCTTATAT
1641109 TGACCTATTT
Statistics
Matches: 77, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
86 68 0.88
87 9 0.12
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (86 bp):
ATATTATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAAT
AGATAGCGCTTATATAATAAA
Found at i:1642001 original size:23 final size:23
Alignment explanation
Indices: 1641971--1642020 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
1641961 ATACTTTACA
*
1641971 ATATAAGCGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATC
1641994 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATC
1642017 ATAT
1 ATAT
1642021 TTTTATCTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.36, C:0.22, G:0.08, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATC
Found at i:1642559 original size:23 final size:23
Alignment explanation
Indices: 1642529--1642578 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
1642519 GATACTTACA
*
1642529 ATATAAGCGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATC
1642552 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATC
1642575 ATAT
1 ATAT
1642579 TTTTATCTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.36, C:0.22, G:0.08, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATC
Found at i:1642695 original size:559 final size:558
Alignment explanation
Indices: 1641540--1642934 Score: 2517
Period size: 559 Copynumber: 2.5 Consensus size: 558
1641530 TCTTCTCTTT
*
1641540 TAAAAAAGGTAACATTTACCTGATATGTTGAAAGTGTTCATACTTTTTATAAAAAGGATCGATAC
1 TAAAAAAGGTAACATTTACCTGATATGTTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAC
*
1641605 TATTTTTAAAGTTATGTAATTTATGTTTCAATCTTTTTTTAACAGTGTTTCATGTTTTCCACCTA
66 TATTTTTAAAGTTATGTAATTTATGTTTCAATCTTTTTTTAATAGTGTTTCATGTTTTCCACCTA
1641670 CAATATTAATTTAATAATTTCATTTACACAAAAAACTATTTAATTGTTTTGATATTTTATAAAAT
131 CAATATTAATTTAATAATTTCATTTACACAAAAAA-TATTT-ATTGTTTTGATATTTTATAAAAT
1641735 ATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATACATATGTAATATATATGTT
194 ATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATACATATGTAATATATATGTT
*
1641800 TATTGTTTTTAATTTAATAATAATATATACCGTAACATAAAAAATAAATCATTATATACATATAA
259 TATTGTTTTTAATTTAATAATAATATATACCGTAACATAAAAAATAAATCATTAGATACATATAA
* *
1641865 TTACTAAATTGATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCAGAGTGAA
324 TTACTAAATTGATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCAACAGTGAA
1641930 ATAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCGCTACCTATTACATTA
389 ATAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCGCTACCTATTACATTA
1641995 TATAAGCGCTACCTATTACATCATATTTTTATCTATTATATTGTACAGTATCGATCCTTTTTATA
454 TATAAGCGCTACCTATTACATCATATTTTTATCTATTATATTGTACAGTATCGATCCTTTTTATA
1642060 AAAAGGATCGATACTTTCAACATATCAAGTAACATTATGA
519 AAAAGGATCGATACTTTCAACATATCAAGTAACATTATGA
1642100 TAAAAAAGGTAACATTTACCTGATATGTTG-AAGTGTCCATACTTTTTATAAAAAGGATCGATAC
1 TAAAAAAGGTAACATTTACCTGATATGTTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAC
* * *
1642164 TATTTTTAAAGTTATGTAATTTATGTTTCAATCCTTTTTTAATAGTGTTTCATATTTTCCGCCTA
66 TATTTTTAAAGTTATGTAATTTATGTTTCAATCTTTTTTTAATAGTGTTTCATGTTTTCCACCTA
1642229 CAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAAT
131 CAATATTAATTTAATAATTTCATTTACACAAAAAA-TATTT-ATTGTTTTGATATTTTATAAAAT
*
1642294 ATTATTTAGAATTTAAATTTAATAATATTAACCAAAGATAATAATACATATGTAATATATATGTT
194 ATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATACATATGTAATATATATGTT
1642359 TATTGTTTTTAATTTAATAATAATATATACCGTAACATAAAAAATAAATCATTAGATACATATAA
259 TATTGTTTTTAATTTAATAATAATATATACCGTAACATAAAAAATAAATCATTAGATACATATAA
1642424 TTACTAAATTGATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCAACAGTGAA
324 TTACTAAATTGATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCAACAGTGAA
1642489 ATAAGTATGGACACTTTTATAAAAAGGATAGATAC-TTACAATATAAGCGCTACCTATTACATTA
389 ATAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCGCTACCTATTACATTA
1642553 TATAAGCGCTACCTATTACATCATATTTTTATCTATTATATTGTACAGTATCGATCCTTTTTATA
454 TATAAGCGCTACCTATTACATCATATTTTTATCTATTATATTGTACAGTATCGATCCTTTTTATA
* *
1642618 AAAATGATCGATACTTTCAACATATCAGGTAACATTATGA
519 AAAAGGATCGATACTTTCAACATATCAAGTAACATTATGA
*
1642658 TAAAAAAGGTCAA-ATTTATCTGATATGTTGAAAGTGTCCATACTTTTTATAAAAA-GATCGATA
1 TAAAAAAGGT-AACATTTACCTGATATGTTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATA
* *
1642721 CTTTTTTTAATGTTATGTAATTTATGTTTCAAT-TTTTTTTAATAGTGTTTCATGTTTTCCACCT
65 CTATTTTTAAAGTTATGTAATTTATGTTTCAATCTTTTTTTAATAGTGTTTCATGTTTTCCACCT
*
1642785 ACAATATTAATTTAATAACTTCATTTACAC-AAAAA-A-TTA----TTTGATATTTTATAAAATA
130 ACAATATTAATTTAATAATTTCATTTACACAAAAAATATTTATTGTTTTGATATTTTATAAAATA
*
1642843 TTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTT
195 TTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATACATATGTAATATATATGTTT
1642908 ATTGTTTTTAATTTAATAATAATATAT
260 ATTGTTTTTAATTTAATAATAATATAT
1642935 TTTTACCTAT
Statistics
Matches: 811, Mismatches: 22, Indels: 16
0.96 0.03 0.02
Matches are distributed among these distances:
548 109 0.13
552 1 0.00
553 2 0.00
554 1 0.00
556 5 0.01
557 57 0.07
558 197 0.24
559 409 0.50
560 30 0.04
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.41
Consensus pattern (558 bp):
TAAAAAAGGTAACATTTACCTGATATGTTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAC
TATTTTTAAAGTTATGTAATTTATGTTTCAATCTTTTTTTAATAGTGTTTCATGTTTTCCACCTA
CAATATTAATTTAATAATTTCATTTACACAAAAAATATTTATTGTTTTGATATTTTATAAAATAT
TATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATACATATGTAATATATATGTTTA
TTGTTTTTAATTTAATAATAATATATACCGTAACATAAAAAATAAATCATTAGATACATATAATT
ACTAAATTGATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCAACAGTGAAAT
AAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCGCTACCTATTACATTATA
TAAGCGCTACCTATTACATCATATTTTTATCTATTATATTGTACAGTATCGATCCTTTTTATAAA
AAGGATCGATACTTTCAACATATCAAGTAACATTATGA
Found at i:1646086 original size:184 final size:184
Alignment explanation
Indices: 1645557--1646089 Score: 969
Period size: 184 Copynumber: 2.9 Consensus size: 184
1645547 GCGTTACTTA
* * *
1645557 AAAGTATG-GACACAATATTAAAAAGTGTTGATATATGTTGTAGACCTATTCTCTCATAAAACTG
1 AAAGTA-GCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAACCG
*
1645621 GTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTTTT
65 GTATATATATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTTTT
*
1645686 TTCAATCGACACTTTTTGAAAAGGTATCGACAATTTTTTCATCCATTCTGGACAT
130 TTCAATCGACACTTTTTGAAAAGGTATCGACACTTTTTTCATCCATTCTGGACAT
*
1645741 ACAGTAGCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAACCGG
1 AAAGTAGCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAACCGG
1645806 TATATATATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTTTTT
66 TATATATATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTTTTT
1645871 TCAATCGACACTTTTTGAAAAGGTATCGACACTTTTTTCATCCATTCTGGACAT
131 TCAATCGACACTTTTTGAAAAGGTATCGACACTTTTTTCATCCATTCTGGACAT
1645925 AAAGTAGCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAACCGG
1 AAAGTAGCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAACCGG
* * *
1645990 CATATCTATACTGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTTTTT
66 TATATATATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTTTTT
1646055 TCAATCGACACTTTTTGAAAAGGTATCGACACTTT
131 TCAATCGACACTTTTTGAAAAGGTATCGACACTTT
1646090 ATGCTGATAT
Statistics
Matches: 338, Mismatches: 10, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
183 1 0.00
184 337 1.00
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (184 bp):
AAAGTAGCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAACCGG
TATATATATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTTTTT
TCAATCGACACTTTTTGAAAAGGTATCGACACTTTTTTCATCCATTCTGGACAT
Found at i:1647488 original size:12 final size:12
Alignment explanation
Indices: 1647468--1647518 Score: 66
Period size: 12 Copynumber: 4.2 Consensus size: 12
1647458 ATTGTTTGGA
* *
1647468 CATCATCATCAT
1 CATCTTCATCGT
1647480 CATCTTCATCGT
1 CATCTTCATCGT
1647492 CATCTTCATCGT
1 CATCTTCATCGT
* *
1647504 CAGCTTCATCTT
1 CATCTTCATCGT
1647516 CAT
1 CAT
1647519 TGACAGCTTG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.22, C:0.33, G:0.06, T:0.39
Consensus pattern (12 bp):
CATCTTCATCGT
Found at i:1647516 original size:6 final size:6
Alignment explanation
Indices: 1647468--1647518 Score: 57
Period size: 6 Copynumber: 8.5 Consensus size: 6
1647458 ATTGTTTGGA
* * * * *
1647468 CATCAT CATCAT CATCTT CATCGT CATCTT CATCGT CAGCTT CATCTT
1 CATCTT CATCTT CATCTT CATCTT CATCTT CATCTT CATCTT CATCTT
1647516 CAT
1 CAT
1647519 TGACAGCTTG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.22, C:0.33, G:0.06, T:0.39
Consensus pattern (6 bp):
CATCTT
Done.