Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 265 of 284
Found at i:89102244 original size:18 final size:18
Alignment explanation
Indices: 89102221--89102255 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
89102211 ATTCTGTCAC
89102221 CTAATTCT-GATTCTGATT
1 CTAATTCTAG-TTCTGATT
89102239 CTAATTCTAGTTCTGAT
1 CTAATTCTAGTTCTGAT
89102256 AATGTTTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.94
19 1 0.06
ACGTcount: A:0.23, C:0.17, G:0.11, T:0.49
Consensus pattern (18 bp):
CTAATTCTAGTTCTGATT
Found at i:89109017 original size:40 final size:40
Alignment explanation
Indices: 89108962--89109041 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
89108952 ATTTCATTTT
89108962 ACAAGCATAGGGACTAATTTGTAGATATGTGAAAGTGTAG
1 ACAAGCATAGGGACTAATTTGTAGATATGTGAAAGTGTAG
*
89109002 ACAAGCATAGGGACTAATTTGTAGATATGTTAAAGTGTAG
1 ACAAGCATAGGGACTAATTTGTAGATATGTGAAAGTGTAG
89109042 GGAAAAAATT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.38, C:0.07, G:0.26, T:0.29
Consensus pattern (40 bp):
ACAAGCATAGGGACTAATTTGTAGATATGTGAAAGTGTAG
Found at i:89125533 original size:47 final size:47
Alignment explanation
Indices: 89125479--89125589 Score: 186
Period size: 47 Copynumber: 2.4 Consensus size: 47
89125469 AGGATTTTAT
*
89125479 GTGATGAATGTGAATGTGCATATATGTGATAAGGCCTAATAGCCGAC
1 GTGATGAATGTGAAAGTGCATATATGTGATAAGGCCTAATAGCCGAC
* * *
89125526 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 GTGATGAATGTGAAAGTGCATATATGTGATAAGGCCTAATAGCCGAC
89125573 GTGATGAATGTGAAAGT
1 GTGATGAATGTGAAAGT
89125590 ATTCGAATAT
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 60 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
GTGATGAATGTGAAAGTGCATATATGTGATAAGGCCTAATAGCCGAC
Found at i:89125769 original size:47 final size:47
Alignment explanation
Indices: 89125715--89126354 Score: 1077
Period size: 47 Copynumber: 13.6 Consensus size: 47
89125705 TATTTGAATA
89125715 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
89125762 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
89125809 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
89125858 AATGTGAAAGTGTATATATGTG-TAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
89125904 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
89125951 AATGTGAAAGTGAATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
89125998 AATGTGAAAGTGTATATATGTGATACGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
89126045 AATGTGAAAGTGTAT-GATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
89126091 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
89126138 AATGTGGAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
89126185 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
89126234 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
89126281 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
89126328 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
89126355 TCCCGAAGGG
Statistics
Matches: 561, Mismatches: 26, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
46 89 0.16
47 380 0.68
49 92 0.16
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:89126013 original size:236 final size:235
Alignment explanation
Indices: 89125715--89126354 Score: 1095
Period size: 236 Copynumber: 2.7 Consensus size: 235
89125705 TATTTGAATA
*
89125715 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGAATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
89125780 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
66 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAAT
89125845 GGCCGATGTGATGAATGTGAAAGTGTATATATGTG-TAAGGCCTAATAGCCGATGTGATGAATGT
129 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
89125909 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
194 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
89125951 AATGTGAAAGTGAATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGAATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
89126016 TGTGATACGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT-GATGTGATAAGGCCTAATGG
66 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
*
89126080 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGG
131 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGA
*
89126145 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
196 AAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
89126185 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG-A-ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* * * *
89126250 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGT
64 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
* * * *
89126315 GGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
129 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
89126355 TCCCGAAGGG
Statistics
Matches: 383, Mismatches: 17, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
233 52 0.14
234 84 0.22
235 1 0.00
236 197 0.51
237 49 0.13
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (235 bp):
AATGTGAAAGTGAATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGA
AAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
Found at i:89126088 original size:22 final size:22
Alignment explanation
Indices: 89126015--89126089 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
89126005 AAGTGTATAT
*
89126015 ATGTGATACGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
* *** ***
89126037 ATGTGATGAATGTGAAAGTGTATG
1 ATGTGAT-AAGGCCTAA-TGGCCG
89126061 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
89126083 ATGTGAT
1 ATGTGAT
89126090 GAATGTGAAA
Statistics
Matches: 36, Mismatches: 15, Indels: 4
0.65 0.27 0.07
Matches are distributed among these distances:
22 17 0.47
23 9 0.25
24 10 0.28
ACGTcount: A:0.28, C:0.12, G:0.32, T:0.28
Consensus pattern (22 bp):
ATGTGATAAGGCCTAATGGCCG
Found at i:89127827 original size:43 final size:43
Alignment explanation
Indices: 89127779--89127924 Score: 283
Period size: 43 Copynumber: 3.4 Consensus size: 43
89127769 TTGGTTTTCA
89127779 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
*
89127822 GCACTAAGTGTGCGGGCAATAAGTGTTCACAGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
89127865 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
89127908 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
89127925 TTGAAATGCA
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 101 1.00
ACGTcount: A:0.23, C:0.15, G:0.35, T:0.27
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:89127941 original size:29 final size:29
Alignment explanation
Indices: 89127906--89127979 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
89127896 GTTGTGAGAT
* *
89127906 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
89127935 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
89127964 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
89127980 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:89128388 original size:40 final size:41
Alignment explanation
Indices: 89128290--89128592 Score: 230
Period size: 40 Copynumber: 7.6 Consensus size: 41
89128280 TCGAATGATG
* *
89128290 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGC-AAGTGACTATA
* * * * * * *
89128330 CCCGGACTAAGAT-TCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCGTGCAAGTGACTATA
* * * *
89128370 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGA-TGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCAAGTGACTATA
* * * *
89128410 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGA-TGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCAAGTGACTATA
* * *
89128450 TCCGGGCTAAGTTCCGAAGAGCATTCATG-ATAGTGA-TGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCA-AGTGACTATA
** *
89128490 TCCGGGCTAAGTTTCGAAGAGCATTCGTGCTAGTGA-TATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCAAGTGACTATA
* ** ** * *
89128530 TCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTG-TTATG
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCAAGTGACTATA
*
89128570 TCCGGGCTAGGTCCCGAAGAGCA
1 TCCGGGCTAAGTCCCGAAGAGCA
89128593 ATCATGCTGG
Statistics
Matches: 220, Mismatches: 36, Indels: 14
0.81 0.13 0.05
Matches are distributed among these distances:
39 1 0.00
40 201 0.91
41 18 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCAAGTGACTATA
Found at i:89128601 original size:40 final size:40
Alignment explanation
Indices: 89128369--89128605 Score: 303
Period size: 40 Copynumber: 5.9 Consensus size: 40
89128359 GAGTTACTAA
*
89128369 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
*
89128409 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* *
89128449 ATCCGGGCTAAGTTCCGAAGAGCATTCATGATAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
** * *
89128489 ATCCGGGCTAAGTTTCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* ** * * * *
89128529 ATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * * *
89128569 GTCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
89128606 CGTGTATTCG
Statistics
Matches: 175, Mismatches: 22, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 175 1.00
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
Found at i:89141050 original size:25 final size:25
Alignment explanation
Indices: 89141022--89141090 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 25
89141012 AAAAATTTTC
89141022 AAATAAACAAAATAAAAAAAACTTA
1 AAATAAACAAAATAAAAAAAACTTA
* *
89141047 AAAT-AACTAACAAT-AAAATAATTTA
1 AAATAAAC-AA-AATAAAAAAAACTTA
* *
89141072 AAATAAATAATATAAAAAA
1 AAATAAACAAAATAAAAAA
89141091 TAACATATAA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
24 5 0.14
25 25 0.71
26 5 0.14
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (25 bp):
AAATAAACAAAATAAAAAAAACTTA
Found at i:89141235 original size:26 final size:26
Alignment explanation
Indices: 89141138--89141237 Score: 114
Period size: 26 Copynumber: 3.8 Consensus size: 26
89141128 AATTTGAAAG
* * *
89141138 ATATATATAATAGTTTACAATAAATA
1 ATATATATAAAAATTTAAAATAAATA
*
89141164 ATATATAAAAGAAATTT-AAATAAATA
1 ATATATATAA-AAATTTAAAATAAATA
* *
89141190 ATATGTA-AAACAACTTAAAATAAATA
1 ATATATATAAA-AATTTAAAATAAATA
89141216 ATATATATAAAAATTTAAAATA
1 ATATATATAAAAATTTAAAATA
89141238 GAGGATGATA
Statistics
Matches: 62, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
24 1 0.02
25 6 0.10
26 48 0.77
27 7 0.11
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (26 bp):
ATATATATAAAAATTTAAAATAAATA
Found at i:89144246 original size:40 final size:40
Alignment explanation
Indices: 89144200--89144341 Score: 180
Period size: 40 Copynumber: 3.6 Consensus size: 40
89144190 TGTTATACTC
* *
89144200 TCTGTCTAGTGTGTTCCGGTTGGATTAGCTCTTATAAGCT
1 TCTGTCTAGTGTGTTTCGGTTGGATTAGCTCTTATGAGCT
* *
89144240 TCTGTCTAGCT-TGTTTCAGTTGGATTAGCTTTTATGAGCT
1 TCTGTCTAG-TGTGTTTCGGTTGGATTAGCTCTTATGAGCT
* * *
89144280 TTTGTTTAGCGTGTTTCGGTTGGATTAGCTCTTATGAGCT
1 TCTGTCTAGTGTGTTTCGGTTGGATTAGCTCTTATGAGCT
* *
89144320 TCTATCTGGTGTG-TTCGGTTGG
1 TCTGTCTAGTGTGTTTCGGTTGG
89144342 TCTGACGATG
Statistics
Matches: 86, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
39 9 0.10
40 76 0.88
41 1 0.01
ACGTcount: A:0.13, C:0.15, G:0.27, T:0.46
Consensus pattern (40 bp):
TCTGTCTAGTGTGTTTCGGTTGGATTAGCTCTTATGAGCT
Found at i:89152194 original size:25 final size:26
Alignment explanation
Indices: 89152160--89152208 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
89152150 AGATAAGCAA
* *
89152160 ATTCAATTC-ATTCAACATTCATTCT
1 ATTCAATTCAATCCAAAATTCATTCT
89152185 ATTCAATTCAATCCAAAATTCATT
1 ATTCAATTCAATCCAAAATTCATT
89152209 TTTTGCAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (26 bp):
ATTCAATTCAATCCAAAATTCATTCT
Found at i:89155631 original size:30 final size:29
Alignment explanation
Indices: 89155578--89155695 Score: 110
Period size: 29 Copynumber: 4.0 Consensus size: 29
89155568 CAGTGCTAAA
*** * *
89155578 CGATGGTCGAAACCATTTGTTTTCTTTAAT
1 CGATGGTCGAAACCATCCCTTTTC-ATATT
*
89155608 CGATGGTTGAAACCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
* * *
89155637 TGATGATCGAAGCCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
* ** *
89155666 CGATGGTTGTCACCATCCCTTTTCTTATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
89155695 C
1 C
89155696 AATGAGCGTC
Statistics
Matches: 71, Mismatches: 17, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
29 51 0.72
30 20 0.28
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (29 bp):
CGATGGTCGAAACCATCCCTTTTCATATT
Found at i:89156566 original size:24 final size:24
Alignment explanation
Indices: 89156501--89156566 Score: 87
Period size: 24 Copynumber: 2.8 Consensus size: 24
89156491 GTTATCTATG
*
89156501 ATGCCTTTGTGGTGTATCTGATAA
1 ATGCCTTTGTGGTGTATTTGATAA
** *
89156525 ATGCCTTTGTGGCATATTTGGTAA
1 ATGCCTTTGTGGTGTATTTGATAA
*
89156549 ATGTCTTTGTGGTGTATT
1 ATGCCTTTGTGGTGTATT
89156567 CTATGTTGCC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.18, C:0.11, G:0.26, T:0.45
Consensus pattern (24 bp):
ATGCCTTTGTGGTGTATTTGATAA
Found at i:89162826 original size:15 final size:15
Alignment explanation
Indices: 89162806--89162835 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
89162796 ACATGCGAAA
89162806 AAAAATATAAAAAAT
1 AAAAATATAAAAAAT
89162821 AAAAATATAAAAAAT
1 AAAAATATAAAAAAT
89162836 TATTAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (15 bp):
AAAAATATAAAAAAT
Found at i:89162887 original size:27 final size:27
Alignment explanation
Indices: 89162818--89162963 Score: 90
Period size: 27 Copynumber: 5.3 Consensus size: 27
89162808 AAATATAAAA
89162818 AATAAAAATATAAAAAATTATTAAATTTC
1 AATAAAAATAT--AAAATTATTAAATTTC
*
89162847 AATAAAAATATAAAATTATTTAAATTTT
1 AATAAAAATATAAAATTA-TTAAATTTC
* * *
89162875 ATTAGAAAT-TAAAATATATATATAA-ATC
1 AATAAAAATATAAAAT-TAT-TA-AATTTC
*
89162903 -ATAAAAATATAAAAAATT-GTAAATTT-
1 AATAAAAATAT--AAAATTATTAAATTTC
* *
89162929 TATAAAAATAATAAAAATTA-TAAATTGC
1 AATAAAAAT-AT-AAAATTATTAAATTTC
89162957 -ATAAAAA
1 AATAAAAA
89162964 AGCTCTTTAA
Statistics
Matches: 95, Mismatches: 10, Indels: 26
0.73 0.08 0.20
Matches are distributed among these distances:
26 2 0.02
27 51 0.54
28 23 0.24
29 14 0.15
30 5 0.05
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (27 bp):
AATAAAAATATAAAATTATTAAATTTC
Found at i:89162920 original size:36 final size:37
Alignment explanation
Indices: 89162880--89162952 Score: 87
Period size: 36 Copynumber: 2.0 Consensus size: 37
89162870 ATTTTATTAG
* *
89162880 AAATT-AAAATATATATATAAATCATAAAAA-TATAAA
1 AAATTGAAAAT-TATATAAAAATAATAAAAATTATAAA
* *
89162916 AAATTGTAAATTTTATAAAAATAATAAAAATTATAAA
1 AAATTGAAAATTATATAAAAATAATAAAAATTATAAA
89162953 TTGCATAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
36 21 0.68
37 10 0.32
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (37 bp):
AAATTGAAAATTATATAAAAATAATAAAAATTATAAA
Found at i:89163171 original size:19 final size:20
Alignment explanation
Indices: 89163126--89163178 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
89163116 TTAGTACGAT
89163126 AATTTTTATAATTCTTTTAC
1 AATTTTTATAATTCTTTTAC
* *
89163146 AAATTTTATATTTC-TTTAC
1 AATTTTTATAATTCTTTTAC
89163165 AATTTTTTATAATT
1 AA-TTTTTATAATT
89163179 TTCTTACGAC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 7 0.25
20 21 0.75
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (20 bp):
AATTTTTATAATTCTTTTAC
Found at i:89163211 original size:10 final size:10
Alignment explanation
Indices: 89163189--89163252 Score: 51
Period size: 10 Copynumber: 6.5 Consensus size: 10
89163179 TTCTTACGAC
*
89163189 TTTATAAAGT
1 TTTATAAATT
89163199 TTTATAAATT
1 TTTATAAATT
* *
89163209 TTTTTATATT
1 TTTATAAATT
*
89163219 TTTATTAAAAT
1 TTTA-TAAATT
*
89163230 TTAAT-AATT
1 TTTATAAATT
*
89163239 TTTAT-TATT
1 TTTATAAATT
89163248 TTTAT
1 TTTAT
89163253 TTATTTGTAT
Statistics
Matches: 43, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
9 15 0.35
10 21 0.49
11 7 0.16
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (10 bp):
TTTATAAATT
Found at i:89163253 original size:9 final size:9
Alignment explanation
Indices: 89163209--89163276 Score: 52
Period size: 8 Copynumber: 7.6 Consensus size: 9
89163199 TTTATAAATT
89163209 TTTTTA-TA
1 TTTTTATTA
89163217 TTTTTATTAAA
1 TTTTTATT--A
* * *
89163228 ATTTAATAA
1 TTTTTATTA
89163237 TTTTTATTA
1 TTTTTATTA
89163246 TTTTTATTTA
1 TTTTTA-TTA
*
89163256 TTTGTATT-
1 TTTTTATTA
89163264 TTTTTA-TA
1 TTTTTATTA
89163272 TTTTT
1 TTTTT
89163277 TTCTGCATAT
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
7 1 0.02
8 16 0.34
9 16 0.34
10 8 0.17
11 6 0.13
ACGTcount: A:0.26, C:0.00, G:0.01, T:0.72
Consensus pattern (9 bp):
TTTTTATTA
Found at i:89172367 original size:28 final size:27
Alignment explanation
Indices: 89172327--89172381 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 27
89172317 GTATTGACAT
*
89172327 GAATAGTCAACAAAAACACGGTTCAGC
1 GAATACTCAACAAAAACACGGTTCAGC
*
89172354 NGAATACTCAACAAAAACGCGGTTCAGC
1 -GAATACTCAACAAAAACACGGTTCAGC
89172382 AGTGGAGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.42, C:0.24, G:0.18, T:0.15
Consensus pattern (27 bp):
GAATACTCAACAAAAACACGGTTCAGC
Found at i:89185252 original size:237 final size:227
Alignment explanation
Indices: 89184811--89185276 Score: 643
Period size: 228 Copynumber: 2.0 Consensus size: 227
89184801 TCTGGCAATG
89184811 TCTTACCAGAACTTCATTCATTTTGCTCCTTGAAACTAAACGACAAACCCTTTTGCTTCCTTCTC
1 TCTTACCAGAACTTCATTCATTTTGCTCCTTGAAACTAAACGACAAACCCTTTTGCTTCCTTCTC
* *
89184876 CTCTACAGGTAAATGGGTTCTGTGCTTTTTTTTCTTTCTTGTTTTGAAACTTTTAATGAGAATTT
66 CTCCACAGGTAAATGGGTTCTGTGCTTTTTTTTCTTTCTTGTTTTGAAACTTTTAATGAGAATTC
* *
89184941 ATGGGTTATTTTTTGGGGTTTAGTGTTGTTTTTACTATATATGTTCTTAGCCTTTTCAGTTTGGA
131 ATGGGTTATTTTTTGGGGTTTAGTGTTGTTTTTACTATACATGTTCTCAGCCTTTTCAGTTTGGA
*
89185006 GG-GTTTTTTTGGGTTTAAATCTATGAGATTT
196 GGTGTTTTTTTGGGTTTAAATCCATGAGATTT
* * * * * *
89185037 TCTTACTAGAAGTTTATTCATTTTGCTCTTAATGAAACTAAATGACATACCCTTTTGCTTCCTTC
1 TCTTACCAGAACTTCATTCATTTTGCTCCT--TGAAACTAAACGACAAACCCTTTTGCTTCCTTC
* *
89185102 TCCTCCACAGGTAAATGGGTTTTGTGCTCTCTCTCTTTTTTCTTTTCTTTTTTTTTTTG-AACAT
64 TCCTCCACAGGTAAATGGGTTCTGTG----CT-T-TTTTTTC-TTTC----TTGTTTTGAAAC-T
89185166 TTTAATGAGAATTCATGGGTT-TTTTTT-GGGTTTAGTGTTGTTTTTACTATACATGTTCTCAGC
117 TTTAATGAGAATTCATGGGTTATTTTTTGGGGTTTAGTGTTGTTTTTACTATACATGTTCTCAGC
* *
89185229 CTTTTCAGTTTGGAGGTTTTTTTTTGGGTTTAAATCCATGGGATTT
182 CTTTTCAGTTTGGAGGTGTTTTTTTGGGTTTAAATCCATGAGATTT
89185275 TC
1 TC
89185277 AGGTTAGAGT
Statistics
Matches: 210, Mismatches: 15, Indels: 18
0.86 0.06 0.07
Matches are distributed among these distances:
226 26 0.12
228 55 0.26
232 2 0.01
233 1 0.00
234 7 0.03
235 4 0.02
237 50 0.24
238 37 0.18
239 28 0.13
ACGTcount: A:0.19, C:0.15, G:0.17, T:0.49
Consensus pattern (227 bp):
TCTTACCAGAACTTCATTCATTTTGCTCCTTGAAACTAAACGACAAACCCTTTTGCTTCCTTCTC
CTCCACAGGTAAATGGGTTCTGTGCTTTTTTTTCTTTCTTGTTTTGAAACTTTTAATGAGAATTC
ATGGGTTATTTTTTGGGGTTTAGTGTTGTTTTTACTATACATGTTCTCAGCCTTTTCAGTTTGGA
GGTGTTTTTTTGGGTTTAAATCCATGAGATTT
Found at i:89187132 original size:28 final size:28
Alignment explanation
Indices: 89187100--89187183 Score: 70
Period size: 28 Copynumber: 3.1 Consensus size: 28
89187090 ATTAATTTAT
89187100 ATATTATTTTATTAAATTGTATTTAATA
1 ATATTATTTTATTAAATTGTATTTAATA
*
89187128 ATATTATGTTA--AAATATG-A-TTAA-A
1 ATATTATTTTATTAAAT-TGTATTTAATA
* * * *
89187152 ATATTGTTTTTATTAAAATATTTTTAATA
1 ATATT-ATTTTATTAAATTGTATTTAATA
89187181 ATA
1 ATA
89187184 ATCTTTTTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 13
0.69 0.10 0.21
Matches are distributed among these distances:
24 6 0.14
25 8 0.19
26 6 0.14
27 5 0.12
28 14 0.33
29 4 0.09
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (28 bp):
ATATTATTTTATTAAATTGTATTTAATA
Found at i:89187390 original size:16 final size:16
Alignment explanation
Indices: 89187371--89187412 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
89187361 AATTACAACT
*
89187371 CTATTCTATTACAGTC
1 CTATTCCATTACAGTC
89187387 CTATTCCATTACAGTC
1 CTATTCCATTACAGTC
89187403 CTATTCCATT
1 CTATTCCATT
89187413 CACCCCAACC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.24, C:0.29, G:0.05, T:0.43
Consensus pattern (16 bp):
CTATTCCATTACAGTC
Found at i:89190016 original size:209 final size:209
Alignment explanation
Indices: 89189656--89190076 Score: 691
Period size: 209 Copynumber: 2.0 Consensus size: 209
89189646 TAATTATTTA
89189656 TTTAGATCAAGATAAATCTCAACCAGAATTAAATCAAGGAAAGCCAAAAATCACGGATTAGCTCG
1 TTTAGATCAAGATAAATCTCAACCAGAATTAAATCAAGGAAAGCCAAAAATCACGGATTAGCTCG
* * ** *
89189721 ATCGCATTTCAATGCTCTAGTTGTCAATGTAAGTTCATAGTATTTCTATATGTAATTGAATTTCT
66 ATCACATTTCAATGCTCTAGTTGTCAATGTAAGTTCATAGTATTACTATACATAATTGAATTTCC
89189786 ACTTGTTTGTTTACAATATAATTATGTAATTAATTGCTTACACTTAATTATTTCCCTAAATTACA
131 ACTTGTTTGTTTACAATATAATTATGTAATTAATTGCTTACACTTAATTATTTCCCTAAATTACA
*
89189851 CATACGTGCCCCTG
196 CATACATGCCCCTG
* * * * *
89189865 TTTAGATCAAGATAAATCTCAATC-GAAATTAAATCGAGGAAAGGCGAAAATCATGGATTAGCTC
1 TTTAGATCAAGATAAATCTCAACCAG-AATTAAATCAAGGAAAGCCAAAAATCACGGATTAGCTC
*
89189929 GATCACATTTCAATGCTCTAGTTGTCAATGTAAGTTCATAGTATTACTATACATAATTGAGTTTC
65 GATCACATTTCAATGCTCTAGTTGTCAATGTAAGTTCATAGTATTACTATACATAATTGAATTTC
* * *
89189994 CACTTGTTTTTTTACAATATAATTATGTAATTAATTGCTTACACTTAATTATTTCCCTGAATTGC
130 CACTTGTTTGTTTACAATATAATTATGTAATTAATTGCTTACACTTAATTATTTCCCTAAATTAC
89190059 ACATACATGCCCCTG
195 ACATACATGCCCCTG
89190074 TTT
1 TTT
89190077 GTACTTCGGT
Statistics
Matches: 196, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
208 1 0.01
209 195 0.99
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (209 bp):
TTTAGATCAAGATAAATCTCAACCAGAATTAAATCAAGGAAAGCCAAAAATCACGGATTAGCTCG
ATCACATTTCAATGCTCTAGTTGTCAATGTAAGTTCATAGTATTACTATACATAATTGAATTTCC
ACTTGTTTGTTTACAATATAATTATGTAATTAATTGCTTACACTTAATTATTTCCCTAAATTACA
CATACATGCCCCTG
Found at i:89198835 original size:33 final size:33
Alignment explanation
Indices: 89198793--89199002 Score: 136
Period size: 33 Copynumber: 5.7 Consensus size: 33
89198783 TCCCCCAAGG
89198793 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
*
89198826 GGTTGCTAAGTGCTGA-TCCCATCGTATCTTAAATGTGAAAG-
1 GGTTGCTAAGTGCTGATTCCC--CGAATC----AT-TG---GT
*
89198867 GGTTTGCTAAGTGCTGATTCCCCGATTCATTGGT
1 GG-TTGCTAAGTGCTGATTCCCCGAATCATTGGT
* * *
89198901 GGTTGCTAAGTGCTGATTCCACCGTATTTTTGAATGTGAAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A---AT-CAT-TG----GT
*
89198945 GGTTGTTAAGTGCTGATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
*
89198978 GGTTGCTAAGTGCTGAATCCACCGA
1 GGTTGCTAAGTGCTGATTCC-CCGA
89199003 TAACGGATAA
Statistics
Matches: 141, Mismatches: 11, Indels: 49
0.70 0.05 0.24
Matches are distributed among these distances:
32 4 0.03
33 54 0.38
34 14 0.10
35 1 0.01
36 2 0.01
37 4 0.03
38 6 0.04
39 5 0.04
40 2 0.01
41 6 0.04
42 16 0.11
43 7 0.05
44 20 0.14
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.33
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
Found at i:89198877 original size:102 final size:96
Alignment explanation
Indices: 89198695--89198889 Score: 248
Period size: 102 Copynumber: 2.0 Consensus size: 96
89198685 GAATATAATG
* * *
89198695 GGGGTTGCTAAGTGCTGATTCCCCCAAGGGATTGCTAAGTGTTGATTCCACTGTATTTTAAATGT
1 GGGGTTGCTAAGTGCTGATTCCCCCAAGGGATTGCTAAGTGCTGATCCCACTGTATCTTAAATGT
*
89198760 GAAGGGGGTTACTAAGTGCTGATTCCCCCAA
66 GAAAGGGGTTACTAAGTGCTGATTCCCCCAA
* *
89198791 GGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCA-TCGTATCT
1 GGGGTTGCTAAGTGCTGATTCCCC----CA-AGG-GATTGCTAAGTGCTGATCCCACT-GTATCT
* *
89198855 TAAATGTGAAAGGGTTTGCTAAGTGCTGATTCCCC
59 TAAATGTGAAAGGGGTTACTAAGTGCTGATTCCCC
89198890 GATTCATTGG
Statistics
Matches: 84, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
96 24 0.29
100 2 0.02
101 3 0.04
102 55 0.65
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (96 bp):
GGGGTTGCTAAGTGCTGATTCCCCCAAGGGATTGCTAAGTGCTGATCCCACTGTATCTTAAATGT
GAAAGGGGTTACTAAGTGCTGATTCCCCCAA
Found at i:89198878 original size:75 final size:77
Alignment explanation
Indices: 89198789--89199001 Score: 333
Period size: 75 Copynumber: 2.8 Consensus size: 77
89198779 TGATTCCCCC
*
89198789 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCATCGTA-T
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATT
89198853 CTTAAATGTG-A
66 CTTAAATGTGAA
* * *
89198864 AAGGGTTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATT
* *
89198929 TTTGAATGTGAA
66 CTTAAATGTGAA
*
89198941 AAGGGGTTGTTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGAAT-CCACCG
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTG-ATCCCACCG
89199002 ATAACGGATA
Statistics
Matches: 126, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
75 59 0.47
76 9 0.07
77 56 0.44
78 2 0.02
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (77 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATT
CTTAAATGTGAA
Found at i:89199604 original size:9 final size:9
Alignment explanation
Indices: 89199590--89199640 Score: 93
Period size: 9 Copynumber: 5.7 Consensus size: 9
89199580 GGCTAAGCAA
89199590 AAAATTCTG
1 AAAATTCTG
89199599 AAAATTCTG
1 AAAATTCTG
*
89199608 AAAATTTTG
1 AAAATTCTG
89199617 AAAATTCTG
1 AAAATTCTG
89199626 AAAATTCTG
1 AAAATTCTG
89199635 AAAATT
1 AAAATT
89199641 TTACGGAACT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 40 1.00
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.35
Consensus pattern (9 bp):
AAAATTCTG
Found at i:89199620 original size:27 final size:27
Alignment explanation
Indices: 89199590--89199642 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
89199580 GGCTAAGCAA
89199590 AAAATTCTGAAAATTCTGAAAATTTTG
1 AAAATTCTGAAAATTCTGAAAATTTTG
89199617 AAAATTCTGAAAATTCTGAAAATTTT
1 AAAATTCTGAAAATTCTGAAAATTTT
89199643 ACGGAACTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.45, C:0.08, G:0.09, T:0.38
Consensus pattern (27 bp):
AAAATTCTGAAAATTCTGAAAATTTTG
Found at i:89209236 original size:19 final size:19
Alignment explanation
Indices: 89209212--89209248 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
89209202 TATCACTTTT
*
89209212 CCCTCTTGCATTAAAACAA
1 CCCTCTTGCAATAAAACAA
89209231 CCCTCTTGCAATAAAACA
1 CCCTCTTGCAATAAAACA
89209249 CTATCGGTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.32, G:0.05, T:0.24
Consensus pattern (19 bp):
CCCTCTTGCAATAAAACAA
Found at i:89209427 original size:30 final size:30
Alignment explanation
Indices: 89209391--89209449 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
89209381 TTGGGCCTAG
*
89209391 TCGGAATAGTGGTTTTGTGACCATAAAATT
1 TCGGAATAGTGGTTTCGTGACCATAAAATT
89209421 TCGGAATAGTGGTTTCGTGACCATAAAAT
1 TCGGAATAGTGGTTTCGTGACCATAAAAT
89209450 CCGAGATAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.34
Consensus pattern (30 bp):
TCGGAATAGTGGTTTCGTGACCATAAAATT
Found at i:89210744 original size:46 final size:46
Alignment explanation
Indices: 89210694--89210869 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 46
89210684 TGGTTGAGCA
* *
89210694 TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*** * * ** *
89210740 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
* *
89210787 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
89210833 -CCTAAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
89210870 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 23, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
45 3 0.03
46 65 0.63
47 35 0.34
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:89210850 original size:93 final size:93
Alignment explanation
Indices: 89210691--89210861 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
89210681 GGATGGTTGA
* * *
89210691 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCATTGAGT
89210756 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * *
89210784 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTAAGCTCATTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAA-CTCATTGAG
89210848 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
89210862 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 4 0.06
93 67 0.94
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCATTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:89213738 original size:15 final size:15
Alignment explanation
Indices: 89213694--89213778 Score: 64
Period size: 15 Copynumber: 5.7 Consensus size: 15
89213684 GTATCGTATC
* *
89213694 TTGGGTTTCTTTATC
1 TTGGATTTCTTTATT
* *
89213709 CTGGATCTCTTTATT
1 TTGGATTTCTTTATT
89213724 TTGGATTTCTTTATT
1 TTGGATTTCTTTATT
** * * *
89213739 CCGGGTTTCTCTATC
1 TTGGATTTCTTTATT
*
89213754 TTGGATTTTTTTA-T
1 TTGGATTTCTTTATT
*
89213768 TTGGTTTTCTT
1 TTGGATTTCTT
89213779 GTTATCTTTG
Statistics
Matches: 51, Mismatches: 19, Indels: 1
0.72 0.27 0.01
Matches are distributed among these distances:
14 9 0.18
15 42 0.82
ACGTcount: A:0.09, C:0.14, G:0.16, T:0.60
Consensus pattern (15 bp):
TTGGATTTCTTTATT
Found at i:89213758 original size:30 final size:31
Alignment explanation
Indices: 89213690--89213768 Score: 90
Period size: 30 Copynumber: 2.6 Consensus size: 31
89213680 CATAGTATCG
* *
89213690 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCCTGGATCTCTC
* * *
89213720 TATTTTGGATTTCTTTATTCC-GGGTTTCTC
1 TATCTTGGATTTCTTTATTCCTGGATCTCTC
*
89213750 TATCTTGGATTTTTTTATT
1 TATCTTGGATTTCTTTATT
89213769 TGGTTTTCTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
30 38 0.93
31 3 0.07
ACGTcount: A:0.11, C:0.15, G:0.15, T:0.58
Consensus pattern (31 bp):
TATCTTGGATTTCTTTATTCCTGGATCTCTC
Found at i:89215700 original size:46 final size:45
Alignment explanation
Indices: 89215647--89215803 Score: 165
Period size: 46 Copynumber: 3.4 Consensus size: 45
89215637 TATTTGGGCA
89215647 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
89215693 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
89215740 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGGTGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
89215786 CCCGAGCTCGTTGAGTTG
1 TCCGAACTCGTTGAGTTG
89215804 TGTAATAGCC
Statistics
Matches: 91, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 50 0.55
47 32 0.35
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:89217865 original size:39 final size:39
Alignment explanation
Indices: 89217811--89217903 Score: 134
Period size: 39 Copynumber: 2.4 Consensus size: 39
89217801 TGCATGGTAT
* * *
89217811 TGGAAAAATATCCGGACTTGAAGTCCGTAGGCTTTA-TGC
1 TGGAAAAATATCCGGACTTAAAGTCCGCAGGC-TAAGTGC
*
89217850 TGGAAATATATCCGGACTTAAAGTCCGCAGGCTAAGTGC
1 TGGAAAAATATCCGGACTTAAAGTCCGCAGGCTAAGTGC
89217889 TGGAAAAATATCCGG
1 TGGAAAAATATCCGG
89217904 GCTAAGTCCC
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
38 2 0.04
39 46 0.96
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (39 bp):
TGGAAAAATATCCGGACTTAAAGTCCGCAGGCTAAGTGC
Found at i:89217928 original size:39 final size:39
Alignment explanation
Indices: 89217811--89217953 Score: 130
Period size: 39 Copynumber: 3.7 Consensus size: 39
89217801 TGCATGGTAT
* *
89217811 TGGAAAAATATCCGGACTTGAAGTCCGTAGGCTTTA-TGC
1 TGGAAAAATATCCGGACTTAAAGTCCGAAGGC-TTAGTGC
* * *
89217850 TGGAAATATATCCGGACTTAAAGTCCGCAGGCTAAGTGC
1 TGGAAAAATATCCGGACTTAAAGTCCGAAGGCTTAGTGC
* *
89217889 TGGAAAAATATCCGGGC-T-AAGTCCCGAAGGCATTCGTGC
1 TGGAAAAATATCCGGACTTAAAGT-CCGAAGGC-TTAGTGC
** ** *
89217928 TGCTATTATATCCGGGCTTAAAGTCC
1 TGGAAAAATATCCGGACTTAAAGTCC
89217954 CGCATGCTTT
Statistics
Matches: 86, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
37 4 0.05
38 10 0.12
39 65 0.76
40 3 0.03
41 4 0.05
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (39 bp):
TGGAAAAATATCCGGACTTAAAGTCCGAAGGCTTAGTGC
Found at i:89222053 original size:10 final size:10
Alignment explanation
Indices: 89222038--89222062 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
89222028 CTCTTAAGTT
89222038 TTTTTTTCTA
1 TTTTTTTCTA
89222048 TTTTTTTCTA
1 TTTTTTTCTA
89222058 TTTTT
1 TTTTT
89222063 GATTCCATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTTTCTA
Found at i:89225004 original size:43 final size:43
Alignment explanation
Indices: 89224945--89225030 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
89224935 GAGATAAGTG
* *
89224945 GCATCCGAGCTCGTTGAGTGGTCCGAGTTCATTATGGATGCGA
1 GCATCCAAGCTCGTTGAGTGGTCAGAGTTCATTATGGATGCGA
*
89224988 GCATCCAAGCTCGTTGAGTGGTCAGAGTTCATTTTGGATGCGA
1 GCATCCAAGCTCGTTGAGTGGTCAGAGTTCATTATGGATGCGA
89225031 TGCCTATGAC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.29
Consensus pattern (43 bp):
GCATCCAAGCTCGTTGAGTGGTCAGAGTTCATTATGGATGCGA
Found at i:89228003 original size:35 final size:35
Alignment explanation
Indices: 89227963--89228121 Score: 174
Period size: 35 Copynumber: 4.5 Consensus size: 35
89227953 GTATGTACAT
89227963 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * * * *
89227998 ATGTGATGTTATATTAAACTTGAATATTTGACTAC
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * * * * *
89228033 ATGTGATGTTTTATTGAGCTTGTATATTGGGTCAT
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * * *
89228068 ATATGATGATATTTTGTACTTGTATATTTGGCCAT
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
*
89228103 ATGTGATGATATAATGAAC
1 ATGTGATGATATATTGAAC
89228122 CTTGAGTATT
Statistics
Matches: 98, Mismatches: 26, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
35 98 1.00
ACGTcount: A:0.29, C:0.08, G:0.19, T:0.43
Consensus pattern (35 bp):
ATGTGATGATATATTGAACTTGTATATTTGGCCAC
Found at i:89230429 original size:18 final size:18
Alignment explanation
Indices: 89230408--89230451 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
89230398 ATAAGGCGAT
89230408 TTGTATTAACTTGGCAAA
1 TTGTATTAACTTGGCAAA
*
89230426 TTGTATTAATTTGGCAAA
1 TTGTATTAACTTGGCAAA
*
89230444 CTGTATTA
1 TTGTATTA
89230452 TTTATGCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (18 bp):
TTGTATTAACTTGGCAAA
Found at i:89232592 original size:46 final size:46
Alignment explanation
Indices: 89232525--89232746 Score: 250
Period size: 46 Copynumber: 4.8 Consensus size: 46
89232515 TGTAACCCGC
* * **
89232525 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGACGTTCGCAT
* *
89232571 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGACGTTCGCAT
* * * *
89232617 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGACG-TTCGCAT
* * ** * *
89232663 ACATTTCA-CAAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAATGAGTTCGGACGTTCGCAT
*
89232710 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGA
89232747 TGCTCAACCA
Statistics
Matches: 149, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
45 2 0.01
46 113 0.76
47 32 0.21
48 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGACGTTCGCAT
Found at i:89232714 original size:93 final size:93
Alignment explanation
Indices: 89232580--89232749 Score: 295
Period size: 93 Copynumber: 1.8 Consensus size: 93
89232570 TCCATAAGTG
* * * *
89232580 AACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAT
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
89232645 GAGTTCGGATGCCTAGTTACATTTCACA
66 GAGTTCGGATGCCTAGTTACATTTCACA
*
89232673 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
89232738 GAGTTCGGATGC
66 GAGTTCGGATGC
89232750 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.23
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATTTCACA
Found at i:89236874 original size:57 final size:57
Alignment explanation
Indices: 89236806--89236920 Score: 221
Period size: 57 Copynumber: 2.0 Consensus size: 57
89236796 GAAGGGTGTG
*
89236806 GGGAAAAATAGCCAAAGGGTTTGGACACTAACAAAGAGTTGAGCATAAAAGAAAAGA
1 GGGAAAAATAGCCAAAGGGTTTGGACACTAACAAAGAGTTGAGAATAAAAGAAAAGA
89236863 GGGAAAAATAGCCAAAGGGTTTGGACACTAACAAAGAGTTGAGAATAAAAGAAAAGA
1 GGGAAAAATAGCCAAAGGGTTTGGACACTAACAAAGAGTTGAGAATAAAAGAAAAGA
89236920 G
1 G
89236921 AAAGGCTGGA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.50, C:0.10, G:0.27, T:0.14
Consensus pattern (57 bp):
GGGAAAAATAGCCAAAGGGTTTGGACACTAACAAAGAGTTGAGAATAAAAGAAAAGA
Found at i:89239474 original size:65 final size:65
Alignment explanation
Indices: 89239370--89239503 Score: 259
Period size: 65 Copynumber: 2.1 Consensus size: 65
89239360 TAACATACTG
89239370 TTCATATGATTGTTTCGTTACTTTCCTATGAAAATAGATTCATCAAGGTTCGATTACATAATTTA
1 TTCATATGATTGTTTCGTTACTTTCCTATGAAAATAGATTCATCAAGGTTCGATTACATAATTTA
*
89239435 TTCATTTGATTGTTTCGTTACTTTCCTATGAAAATAGATTCATCAAGGTTCGATTACATAATTTA
1 TTCATATGATTGTTTCGTTACTTTCCTATGAAAATAGATTCATCAAGGTTCGATTACATAATTTA
89239500 TTCA
1 TTCA
89239504 CTATTTAATT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 68 1.00
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (65 bp):
TTCATATGATTGTTTCGTTACTTTCCTATGAAAATAGATTCATCAAGGTTCGATTACATAATTTA
Found at i:89241328 original size:29 final size:28
Alignment explanation
Indices: 89241296--89241351 Score: 94
Period size: 29 Copynumber: 2.0 Consensus size: 28
89241286 GAGATAAACC
89241296 GATTTGGCTTCGGGCCATGCATATCAGTT
1 GATTTGGCTTCGGGCCATG-ATATCAGTT
*
89241325 GATTTGGCTTTGGGCCATGATATCAGT
1 GATTTGGCTTCGGGCCATGATATCAGT
89241352 ATTTTGGATA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 8 0.31
29 18 0.69
ACGTcount: A:0.18, C:0.18, G:0.29, T:0.36
Consensus pattern (28 bp):
GATTTGGCTTCGGGCCATGATATCAGTT
Found at i:89246975 original size:29 final size:28
Alignment explanation
Indices: 89246929--89246988 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
89246919 TTTTCATTTA
*
89246929 TTTCACATTTCAACCCCTCAATTTACATT
1 TTTCACATTTCAACCCCT-AATATACATT
* *
89246958 TTTCACAATTT-AATCCCTAATATGCATT
1 TTTCAC-ATTTCAACCCCTAATATACATT
89246986 TTT
1 TTT
89246989 ACTCAAAATC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 11 0.41
29 12 0.44
30 4 0.15
ACGTcount: A:0.28, C:0.25, G:0.02, T:0.45
Consensus pattern (28 bp):
TTTCACATTTCAACCCCTAATATACATT
Found at i:89252542 original size:12 final size:12
Alignment explanation
Indices: 89252525--89252549 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
89252515 TTATTAAATG
89252525 AATTAAAAGCCA
1 AATTAAAAGCCA
89252537 AATTAAAAGCCA
1 AATTAAAAGCCA
89252549 A
1 A
89252550 TTTTTGTCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AATTAAAAGCCA
Found at i:89257855 original size:25 final size:25
Alignment explanation
Indices: 89257818--89257865 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
89257808 AATAATTTAT
*
89257818 ATTTTTATAATTTTTAAA-AGATTAA
1 ATTTTTACAA-TTTTAAAGAGATTAA
*
89257843 ATTTTTACCATTTTAAAGAGATT
1 ATTTTTACAATTTTAAAGAGATT
89257866 GAGGCTTCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (25 bp):
ATTTTTACAATTTTAAAGAGATTAA
Found at i:89259265 original size:18 final size:18
Alignment explanation
Indices: 89259242--89259278 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
89259232 ACAAGTTCAG
*
89259242 ATTGCTGTGAACTAAGTT
1 ATTGCTGTCAACTAAGTT
89259260 ATTGCTGTCAACTAAGTT
1 ATTGCTGTCAACTAAGTT
89259278 A
1 A
89259279 AATTTCCTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.38
Consensus pattern (18 bp):
ATTGCTGTCAACTAAGTT
Found at i:89260527 original size:16 final size:18
Alignment explanation
Indices: 89260501--89260536 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
89260491 CTTCATGCTA
89260501 TTTATTTTTTAAA-ATTT
1 TTTATTTTTTAAATATTT
89260518 TTTA-TTTTTAAATATTT
1 TTTATTTTTTAAATATTT
89260535 TT
1 TT
89260537 ATAATTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTATTTTTTAAATATTT
Found at i:89261535 original size:14 final size:17
Alignment explanation
Indices: 89261503--89261540 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 17
89261493 GATTACAAAG
89261503 TATATTATTAAATTAAT
1 TATATTATTAAATTAAT
89261520 TATATTA-TAAA-T-AT
1 TATATTATTAAATTAAT
89261534 TATATTA
1 TATATTA
89261541 AGAAATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 9 0.43
15 1 0.05
16 4 0.19
17 7 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TATATTATTAAATTAAT
Found at i:89262692 original size:22 final size:22
Alignment explanation
Indices: 89262651--89262692 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
89262641 ATATTTGAGC
*
89262651 ATTGGTATTGAATTTAAATTGA
1 ATTGGTATTGAATTCAAATTGA
* *
89262673 ATTGGTATTTAATTCGAATT
1 ATTGGTATTGAATTCAAATT
89262693 TTAATTATTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (22 bp):
ATTGGTATTGAATTCAAATTGA
Found at i:89274509 original size:85 final size:85
Alignment explanation
Indices: 89274380--89274558 Score: 358
Period size: 85 Copynumber: 2.1 Consensus size: 85
89274370 TATTTTATTG
89274380 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
89274445 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
89274465 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
89274530 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
89274550 CCCATGCTC
1 CCCATGCTC
89274559 ATGGCCGGCC
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 94 1.00
ACGTcount: A:0.26, C:0.27, G:0.08, T:0.38
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:89278893 original size:46 final size:46
Alignment explanation
Indices: 89278843--89279018 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
89278833 TGGTTGAGCA
89278843 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
89278889 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
89278934 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
89278982 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
89279019 GCAAGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:89278999 original size:93 final size:93
Alignment explanation
Indices: 89278840--89279011 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
89278830 GGATGGTTGA
* *
89278840 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
89278905 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
89278933 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
89278998 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
89279012 CTTATGGGCA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:89287896 original size:54 final size:53
Alignment explanation
Indices: 89287834--89287945 Score: 120
Period size: 54 Copynumber: 2.1 Consensus size: 53
89287824 TTACCATACA
*
89287834 GGGGTATTTTAG-TAATTTTACACGACAAGGG-TATTTCGATAATTTTACAAATC
1 GGGGTA-TTTAGATAATTTTACA-AACAAGGGTTATTTCGATAATTTTACAAATC
* * * * * *
89287887 GGGGCTATTTCGATAATTTTACAAACTAGGGTTATTTTGGTAATTTTACATACC
1 GGGG-TATTTAGATAATTTTACAAACAAGGGTTATTTCGATAATTTTACAAATC
89287941 GGGGT
1 GGGGT
89287946 CTTAACTACC
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
53 15 0.31
54 34 0.69
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (53 bp):
GGGGTATTTAGATAATTTTACAAACAAGGGTTATTTCGATAATTTTACAAATC
Found at i:89287945 original size:27 final size:26
Alignment explanation
Indices: 89287821--89287945 Score: 101
Period size: 27 Copynumber: 4.7 Consensus size: 26
89287811 TAAAACAGTT
* *
89287821 ATTTTACCATACAGGGGTATTT-TAGTA
1 ATTTTA-CAAACAGGGGTATTTCGA-TA
* *
89287848 ATTTTACACGACAAGGGTATTTCGATA
1 ATTTTACA-AACAGGGGTATTTCGATA
89287875 ATTTTACAAATC-GGGGCTATTTCGATA
1 ATTTTACAAA-CAGGGG-TATTTCGATA
* * *
89287902 ATTTTACAAACTAGGGTTATTTTGGTA
1 ATTTTACAAAC-AGGGGTATTTCGATA
* *
89287929 ATTTTACATACCGGGGT
1 ATTTTACAAACAGGGGT
89287946 CTTAACTACC
Statistics
Matches: 81, Mismatches: 11, Indels: 13
0.77 0.10 0.12
Matches are distributed among these distances:
26 11 0.14
27 66 0.81
28 4 0.05
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.38
Consensus pattern (26 bp):
ATTTTACAAACAGGGGTATTTCGATA
Found at i:89301284 original size:27 final size:27
Alignment explanation
Indices: 89301253--89301430 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
89301243 TAAATTGTAC
89301253 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
89301280 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
89301306 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
89301334 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
89301362 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
89301389 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
89301416 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
89301431 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:89301367 original size:82 final size:81
Alignment explanation
Indices: 89301254--89301409 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
89301244 AAATTGTACA
* *
89301254 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
89301318 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
89301335 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
89301400 TGCGAGTTGA
65 TGCGAATTGA
89301410 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:89301421 original size:82 final size:81
Alignment explanation
Indices: 89301250--89301430 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
89301240 GATTAAATTG
* *
89301250 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
89301315 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
89301331 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
89301395 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
89301413 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
89301431 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:89304928 original size:27 final size:26
Alignment explanation
Indices: 89304890--89304977 Score: 97
Period size: 27 Copynumber: 3.3 Consensus size: 26
89304880 AAAAATAGTC
*
89304890 ATTTTACCCTACAGGGATATTTTGATA
1 ATTTTACACTACAGGG-TATTTTGATA
*
89304917 ATTTTACACTACAAGGGTATTTCGATA
1 ATTTTACACTAC-AGGGTATTTTGATA
* * *
89304944 ATTTTACA-AACTGAGGTATTTTGGTA
1 ATTTTACACTACAG-GGTATTTTGATA
89304970 ATTTTACA
1 ATTTTACA
89304978 AACTGGGGGT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
25 1 0.02
26 20 0.38
27 28 0.53
28 4 0.08
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (26 bp):
ATTTTACACTACAGGGTATTTTGATA
Found at i:89304971 original size:26 final size:26
Alignment explanation
Indices: 89304932--89305013 Score: 128
Period size: 26 Copynumber: 3.1 Consensus size: 26
89304922 ACACTACAAG
*
89304932 GGTATTTCGATAATTTTACAAACTGA
1 GGTATTTCGGTAATTTTACAAACTGA
* *
89304958 GGTATTTTGGTAATTTTACAAACTGGG
1 GGTATTTCGGTAATTTTACAAACT-GA
89304985 GGTATTTCGGTAATTTTACAAACTGA
1 GGTATTTCGGTAATTTTACAAACTGA
89305011 GGT
1 GGT
89305014 CTTAACGACC
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
26 26 0.52
27 24 0.48
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (26 bp):
GGTATTTCGGTAATTTTACAAACTGA
Found at i:89304972 original size:53 final size:53
Alignment explanation
Indices: 89304907--89305013 Score: 153
Period size: 53 Copynumber: 2.0 Consensus size: 53
89304897 CCTACAGGGA
*
89304907 TATTTTGATAATTTTACACTAC-AAGGGTATTTCGATAATTTTACAAACTGAGG
1 TATTTTGATAATTTTACA-AACTAAGGGTATTTCGATAATTTTACAAACTGAGG
* ** *
89304960 TATTTTGGTAATTTTACAAACTGGGGGTATTTCGGTAATTTTACAAACTGAGG
1 TATTTTGATAATTTTACAAACTAAGGGTATTTCGATAATTTTACAAACTGAGG
89305013 T
1 T
89305014 CTTAACGACC
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
52 2 0.04
53 46 0.96
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (53 bp):
TATTTTGATAATTTTACAAACTAAGGGTATTTCGATAATTTTACAAACTGAGG
Found at i:89304996 original size:27 final size:27
Alignment explanation
Indices: 89304931--89305009 Score: 124
Period size: 27 Copynumber: 3.0 Consensus size: 27
89304921 TACACTACAA
*
89304931 GGGTATTTCGATAATTTTACAAACT-G
1 GGGTATTTCGGTAATTTTACAAACTGG
* *
89304957 AGGTATTTTGGTAATTTTACAAACTGG
1 GGGTATTTCGGTAATTTTACAAACTGG
89304984 GGGTATTTCGGTAATTTTACAAACTG
1 GGGTATTTCGGTAATTTTACAAACTG
89305010 AGGTCTTAAC
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
26 22 0.47
27 25 0.53
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACAAACTGG
Found at i:89315872 original size:89 final size:89
Alignment explanation
Indices: 89315767--89315945 Score: 349
Period size: 89 Copynumber: 2.0 Consensus size: 89
89315757 ATTTAGTTTA
89315767 GCTTTCTTTCTTTCTTACGACTTTAGATTTATTTCAATTGTTCTTGTTGATTTCAAGAGATTTGA
1 GCTTTCTTTCTTTCTTACGACTTTAGATTTATTTCAATTGTTCTTGTTGATTTCAAGAGATTTGA
89315832 ATTGTGGAAGCATTCAAAATCTGT
66 ATTGTGGAAGCATTCAAAATCTGT
*
89315856 GCTTTCTTTCTTTCTTACGACTTTAGATTTATTTCAATTGTTCTTGTTGATTTTAAGAGATTTGA
1 GCTTTCTTTCTTTCTTACGACTTTAGATTTATTTCAATTGTTCTTGTTGATTTCAAGAGATTTGA
89315921 ATTGTGGAAGCATTCAAAATCTGT
66 ATTGTGGAAGCATTCAAAATCTGT
89315945 G
1 G
89315946 GATTTGTGCT
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
89 89 1.00
ACGTcount: A:0.23, C:0.13, G:0.16, T:0.47
Consensus pattern (89 bp):
GCTTTCTTTCTTTCTTACGACTTTAGATTTATTTCAATTGTTCTTGTTGATTTCAAGAGATTTGA
ATTGTGGAAGCATTCAAAATCTGT
Found at i:89319714 original size:44 final size:44
Alignment explanation
Indices: 89319664--89319750 Score: 138
Period size: 44 Copynumber: 2.0 Consensus size: 44
89319654 ACTAATTATG
89319664 TGCACTTAGTGTGCGAAATCAAGATAGCTTTAACTATATATATT
1 TGCACTTAGTGTGCGAAATCAAGATAGCTTTAACTATATATATT
* * **
89319708 TGCACTTAGTGTGCGAGATCGAGATAGCTTTGGCTATATATAT
1 TGCACTTAGTGTGCGAAATCAAGATAGCTTTAACTATATATAT
89319751 GTATATTGGC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.36
Consensus pattern (44 bp):
TGCACTTAGTGTGCGAAATCAAGATAGCTTTAACTATATATATT
Found at i:89319763 original size:50 final size:46
Alignment explanation
Indices: 89319664--89319793 Score: 131
Period size: 44 Copynumber: 2.8 Consensus size: 46
89319654 ACTAATTATG
* * *
89319664 TGCACTTAGTGTGCGAAATCAAGATAGCTTTAAC--TATATATATT
1 TGCACTTAGTGTGCGAGATCGAGATAGCTTTGACTATATATATATT
*
89319708 TGCACTTAGTGTGCGAGATCGAGATAGCTTTGGCTATATATATGTATAT
1 TGCACTTAGTGTGCGAGATCGAGATAGCTTTGACTATATATA--TAT-T
* * * *
89319757 TGGCACTTAGTATGCAAGATTG-TATAGCTTTGACTAT
1 T-GCACTTAGTGTGCGAGATCGAGATAGCTTTGACTAT
89319794 TTATTTGGCA
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
44 30 0.42
46 6 0.08
48 3 0.04
49 15 0.21
50 17 0.24
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.37
Consensus pattern (46 bp):
TGCACTTAGTGTGCGAGATCGAGATAGCTTTGACTATATATATATT
Found at i:89329273 original size:29 final size:29
Alignment explanation
Indices: 89329223--89329390 Score: 91
Period size: 30 Copynumber: 6.2 Consensus size: 29
89329213 TATATTTATT
* *
89329223 TTTTTAATTTTAAAATATTTTTTACATAC
1 TTTTTAATTTTAAAATATTTTTAAAATAC
89329252 TTTTTAATTTTTTAAAA-A-TTTTAAAATAC
1 TTTTTAA--TTTTAAAATATTTTTAAAATAC
*** **
89329281 -------TTTTAAAATACTTTTTTTTATTT
1 TTTTTAATTTTAAAATA-TTTTTAAAATAC
89329304 TTTTTAATTTTAAAATATTTTTAAAATA-
1 TTTTTAATTTTAAAATATTTTTAAAATAC
*
89329332 ----T--TTTTAAAATATTTTTAAAATATT
1 TTTTTAATTTTAAAATATTTTTAAAATA-C
**
89329356 TTTTTAATTTTAAAATATTTAAAAAATA-
1 TTTTTAATTTTAAAATATTTTTAAAATAC
89329384 TTTTTAA
1 TTTTTAA
89329391 AATACTTTTT
Statistics
Matches: 106, Mismatches: 13, Indels: 41
0.66 0.08 0.26
Matches are distributed among these distances:
20 8 0.08
21 1 0.01
22 21 0.20
23 6 0.06
24 1 0.01
28 8 0.08
29 23 0.22
30 30 0.28
31 8 0.08
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.58
Consensus pattern (29 bp):
TTTTTAATTTTAAAATATTTTTAAAATAC
Found at i:89329284 original size:11 final size:11
Alignment explanation
Indices: 89329230--89329425 Score: 134
Period size: 11 Copynumber: 18.9 Consensus size: 11
89329220 ATTTTTTTAA
89329230 TTTTAAAATAT
1 TTTTAAAATAT
* *
89329241 TTTTTACATACT
1 TTTTAAAATA-T
89329253 TTTT--AAT-T
1 TTTTAAAATAT
89329261 TTTTAAAA-A-
1 TTTTAAAATAT
*
89329270 TTTTAAAATAC
1 TTTTAAAATAT
89329281 TTTTAAAATACT
1 TTTTAAAATA-T
**
89329293 TTTT--TTTAT
1 TTTTAAAATAT
** *
89329302 TTTT--TTTAA
1 TTTTAAAATAT
89329311 TTTTAAAATAT
1 TTTTAAAATAT
89329322 TTTTAAAATAT
1 TTTTAAAATAT
89329333 TTTTAAAATAT
1 TTTTAAAATAT
89329344 TTTTAAAATAT
1 TTTTAAAATAT
* *
89329355 TTTT---TTAA
1 TTTTAAAATAT
89329363 TTTTAAAATAT
1 TTTTAAAATAT
**
89329374 TTAAAAAATAT
1 TTTTAAAATAT
89329385 TTTTAAAATACT
1 TTTTAAAATA-T
**
89329397 TTTTTTAAT-T
1 TTTTAAAATAT
89329407 TTTT-AAA-AT
1 TTTTAAAATAT
89329416 TTTTAAAATA
1 TTTTAAAATA
89329426 AAAATTGGCC
Statistics
Matches: 148, Mismatches: 21, Indels: 32
0.74 0.10 0.16
Matches are distributed among these distances:
8 11 0.07
9 28 0.19
10 15 0.10
11 77 0.52
12 17 0.11
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.58
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:89329313 original size:41 final size:41
Alignment explanation
Indices: 89329217--89329336 Score: 149
Period size: 40 Copynumber: 3.0 Consensus size: 41
89329207 AATAAATATA
* *
89329217 TTTA-TTTTTTTAATTTTAAAATATTTTTTACATAC--TTT
1 TTTATTTTTTTTAATTTTAAAATATTTTTAAAATACTTTTT
* ** *
89329255 TTAATTTTTTAAAAATTTTAAAATACTTTTAAAATACTTTTT
1 TTTATTTTTT-TTAATTTTAAAATATTTTTAAAATACTTTTT
89329297 TTTATTTTTTTTAATTTTAAAATATTTTTAAAATA-TTTTT
1 TTTATTTTTTTTAATTTTAAAATATTTTTAAAATACTTTTT
89329337 AAAATATTTT
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
38 3 0.04
39 5 0.07
40 26 0.38
41 22 0.32
42 12 0.18
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (41 bp):
TTTATTTTTTTTAATTTTAAAATATTTTTAAAATACTTTTT
Found at i:89329326 original size:52 final size:52
Alignment explanation
Indices: 89329230--89329425 Score: 220
Period size: 52 Copynumber: 3.8 Consensus size: 52
89329220 ATTTTTTTAA
* ** *
89329230 TTTTAAAATATTTTTTACATACTTTTTAATTTTTTAAAA-A-TTTTAAAATAC
1 TTTTAAAATATTTTTTAAATTTTTTTTAA-TTTTTAAAATATTTTTAAAATAT
**
89329281 TTTTAAAATACTTTTTTTTATTTTTTTTAA-TTTTAAAATATTTTTAAAATAT
1 TTTTAAAATA-TTTTTTAAATTTTTTTTAATTTTTAAAATATTTTTAAAATAT
* **
89329333 TTTTAAAATATTTTTAAAATATTTTTTTAA-TTTTAAAATATTTAAAAAATAT
1 TTTTAAAATATTTTTTAAAT-TTTTTTTAATTTTTAAAATATTTTTAAAATAT
* **
89329385 TTTTAAAATACTTTTTTTAATTTTTTAAAATTTTTAAAATA
1 TTTTAAAATA-TTTTTTAAATTTTTTTTAATTTTTAAAATA
89329426 AAAATTGGCC
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
50 8 0.06
51 18 0.14
52 81 0.65
53 18 0.14
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.58
Consensus pattern (52 bp):
TTTTAAAATATTTTTTAAATTTTTTTTAATTTTTAAAATATTTTTAAAATAT
Found at i:89329347 original size:41 final size:43
Alignment explanation
Indices: 89329320--89329425 Score: 164
Period size: 41 Copynumber: 2.5 Consensus size: 43
89329310 ATTTTAAAAT
89329320 ATTTTTAAAATATTTTTAAAATATTTTTAAAATA-TTTTTTTA
1 ATTTTTAAAATATTTTTAAAATATTTTTAAAATACTTTTTTTA
**
89329362 A-TTTTAAAATATTTAAAAAATATTTTTAAAATACTTTTTTTA
1 ATTTTTAAAATATTTTTAAAATATTTTTAAAATACTTTTTTTA
*
89329404 ATTTTTTAAA-ATTTTTAAAATA
1 ATTTTTAAAATATTTTTAAAATA
89329426 AAAATTGGCC
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
41 30 0.53
42 20 0.35
43 7 0.12
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (43 bp):
ATTTTTAAAATATTTTTAAAATATTTTTAAAATACTTTTTTTA
Found at i:89330299 original size:19 final size:18
Alignment explanation
Indices: 89330262--89330296 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
89330252 AAAAACTCAA
89330262 AAAAAAACGCAAGTAAAT
1 AAAAAAACGCAAGTAAAT
89330280 AAAAAAACGCAAGTAAA
1 AAAAAAACGCAAGTAAA
89330297 ATAGAACAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.69, C:0.11, G:0.11, T:0.09
Consensus pattern (18 bp):
AAAAAAACGCAAGTAAAT
Found at i:89331082 original size:29 final size:29
Alignment explanation
Indices: 89331045--89331100 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
89331035 AGCGAGAGAT
89331045 GCATCAAATGAATACTAAATATGAAGAAG
1 GCATCAAATGAATACTAAATATGAAGAAG
* * *
89331074 GCATGAAATGGATACTGAATATGAAGA
1 GCATCAAATGAATACTAAATATGAAGA
89331101 GGGATGCGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.48, C:0.09, G:0.21, T:0.21
Consensus pattern (29 bp):
GCATCAAATGAATACTAAATATGAAGAAG
Found at i:89333461 original size:46 final size:46
Alignment explanation
Indices: 89333284--89333448 Score: 267
Period size: 46 Copynumber: 3.6 Consensus size: 46
89333274 GGAAGTGTAT
* *
89333284 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGAGGTAAAGCCAAATGGCTAATGCGAAACGTGTATGAGATGG
*
89333330 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCAAATGGCTAATGCGAAACGTGTATGAGATGG
* *
89333376 ATATGAGGTAAAGCCGAATGGATAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCAAATGGCTAATGCGAAACGTGTATGAGATGG
* *
89333422 ATATGTGGTAAAGCCAAATGGGTAATG
1 ATATGAGGTAAAGCCAAATGGCTAATG
89333449 TGAGATATGT
Statistics
Matches: 112, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 112 1.00
ACGTcount: A:0.36, C:0.09, G:0.32, T:0.24
Consensus pattern (46 bp):
ATATGAGGTAAAGCCAAATGGCTAATGCGAAACGTGTATGAGATGG
Found at i:89334034 original size:25 final size:24
Alignment explanation
Indices: 89334006--89334058 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 24
89333996 AGTTAACTTT
89334006 GAATTC-ATATAGATCAAGAAAAAAA
1 GAATTCGATATAGATC--GAAAAAAA
*
89334031 GAATTCGGATTTAGATCGAAAAAAA
1 GAATTC-GATATAGATCGAAAAAAA
89334056 GAA
1 GAA
89334059 AGGTTATCGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 17 0.68
27 8 0.32
ACGTcount: A:0.55, C:0.08, G:0.17, T:0.21
Consensus pattern (24 bp):
GAATTCGATATAGATCGAAAAAAA
Found at i:89348095 original size:40 final size:39
Alignment explanation
Indices: 89348064--89348273 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
89348054 GGACTAAGAT
* *
89348064 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
89348104 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
89348144 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
89348184 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
89348224 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
89348263 CCGAAGGCATT
1 CCGAAGGCATT
89348274 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:89348227 original size:120 final size:120
Alignment explanation
Indices: 89348011--89348273 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
89348001 TTGAATGCTG
* *
89348011 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
89348075 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
89348131 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
89348194 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
89348250 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
89348274 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:89348293 original size:79 final size:80
Alignment explanation
Indices: 89348012--89348308 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
89348002 TGAATGCTGT
* ** * * * **
89348012 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
89348075 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
89348092 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
89348156 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
89348172 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
89348236 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
89348251 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
89348309 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:89350178 original size:47 final size:47
Alignment explanation
Indices: 89350126--89350486 Score: 508
Period size: 47 Copynumber: 7.6 Consensus size: 47
89350116 GATAATTGTG
*
89350126 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
89350173 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
89350220 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGTCGATGTGATGA
1 ATGTGAAA--GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
89350269 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAA--GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
89350318 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAA--GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
89350367 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
89350414 ATGTGAAAGTGTATATATGTGA-CAGAGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTATATATATGTGATAAG-GCCTAATGGCCGATGTGATGA
* *
89350461 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTATATATATGTGATAAG
89350487 TCCCGAAGGA
Statistics
Matches: 291, Mismatches: 19, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
46 2 0.01
47 147 0.51
48 2 0.01
49 140 0.48
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:89350186 original size:49 final size:49
Alignment explanation
Indices: 89350126--89350486 Score: 546
Period size: 49 Copynumber: 7.6 Consensus size: 49
89350116 GATAATTGTG
89350126 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
89350173 ATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
89350220 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGTCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
89350269 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
89350318 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
89350367 ATGTGAAAGTG--TATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
89350414 ATGTGAAAGTG--TATATATGTGA-CAGAGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATATGTGATAAG-GCCTAATGGCCGATGTGATGA
89350461 ATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
89350487 TCCCGAAGGA
Statistics
Matches: 292, Mismatches: 14, Indels: 15
0.91 0.04 0.05
Matches are distributed among these distances:
46 2 0.01
47 140 0.48
48 5 0.02
49 145 0.50
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.30
Consensus pattern (49 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:89350408 original size:96 final size:96
Alignment explanation
Indices: 89350126--89350486 Score: 561
Period size: 96 Copynumber: 3.8 Consensus size: 96
89350116 GATAATTGTG
89350126 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* *
89350189 ATGTGATAAGGCCGAATGGCCAATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
*
89350220 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGTCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
89350285 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
89350318 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
89350383 ATGTGATGAGGCCTAATGGCCGATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
89350414 ATGTGAAAGTG--TATATATGTGA-CAGAGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA
1 ATGTGAAAGTGTATATATATGTGATAAG-GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
89350476 AATGTGATAAG
65 TATGTGATAAG
89350487 TCCCGAAGGA
Statistics
Matches: 249, Mismatches: 13, Indels: 10
0.92 0.05 0.04
Matches are distributed among these distances:
93 2 0.01
94 56 0.22
95 2 0.01
96 96 0.39
98 93 0.37
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.30
Consensus pattern (96 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:89355662 original size:156 final size:156
Alignment explanation
Indices: 89355378--89355665 Score: 522
Period size: 156 Copynumber: 1.8 Consensus size: 156
89355368 TCTTATCCCA
* * *
89355378 TTAAATTTTGCTACTTTGGTCGATTGGTCTAAGAACATGGCTGATCATAGGAACTAATCTAAACT
1 TTAAATTTTGCTACTTTGGCCGATTGGTCTAAGAACATGGCTGATCATAGGAAATAATATAAACT
*
89355443 CCCCAGGTCAGTGATGGCTTCAAATCATGTTTGCATCCTCGAATTGTACTAAACTGTGTAAGTAT
66 CCCCAGGTCAATGATGGCTTCAAATCATGTTTGCATCCTCGAATTGTACTAAACTGTGTAAGTAT
89355508 TGCTTACCGATAGTGGATATGTTGTG
131 TGCTTACCGATAGTGGATATGTTGTG
89355534 TTAAATTTTGCTACTTTGGCCGATTGGTCTAAGAACATGGCTGATCATAGGAAATAATATAAACT
1 TTAAATTTTGCTACTTTGGCCGATTGGTCTAAGAACATGGCTGATCATAGGAAATAATATAAACT
* *
89355599 CCCTAGGTCAATGATGGCTTCAAATCGTGTTTGCATCCTCGAATTGTACTAAACTGTGTAAGTAT
66 CCCCAGGTCAATGATGGCTTCAAATCATGTTTGCATCCTCGAATTGTACTAAACTGTGTAAGTAT
89355664 TG
131 TG
89355666 TAATATCCTG
Statistics
Matches: 126, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
156 126 1.00
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.34
Consensus pattern (156 bp):
TTAAATTTTGCTACTTTGGCCGATTGGTCTAAGAACATGGCTGATCATAGGAAATAATATAAACT
CCCCAGGTCAATGATGGCTTCAAATCATGTTTGCATCCTCGAATTGTACTAAACTGTGTAAGTAT
TGCTTACCGATAGTGGATATGTTGTG
Found at i:89357345 original size:19 final size:20
Alignment explanation
Indices: 89357308--89357345 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
89357298 ATAAGGTGGT
89357308 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
89357328 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
89357346 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:89363994 original size:60 final size:60
Alignment explanation
Indices: 89363901--89364019 Score: 213
Period size: 60 Copynumber: 2.0 Consensus size: 60
89363891 GCTTAATTGG
*
89363901 CAAAAATACCTAATAGTCACAAGTATATGTTAGAGTA-AGAATTTGATGTTGCCATAGAAA
1 CAAAAATACCCAATAGTCACAAGTATATGTTAGAG-AGAGAATTTGATGTTGCCATAGAAA
89363961 CAAAAATACCCAATAGTCACAAGTATATGTTAGAGAGAGAATTTGATGTTGCCATAGAA
1 CAAAAATACCCAATAGTCACAAGTATATGTTAGAGAGAGAATTTGATGTTGCCATAGAA
89364020 GGGAAAAGTG
Statistics
Matches: 57, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
59 1 0.02
60 56 0.98
ACGTcount: A:0.43, C:0.13, G:0.18, T:0.27
Consensus pattern (60 bp):
CAAAAATACCCAATAGTCACAAGTATATGTTAGAGAGAGAATTTGATGTTGCCATAGAAA
Found at i:89364906 original size:19 final size:20
Alignment explanation
Indices: 89364869--89364906 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
89364859 ATAAGGTGGT
89364869 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
89364889 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
89364907 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:89367579 original size:49 final size:46
Alignment explanation
Indices: 89367521--89367636 Score: 135
Period size: 49 Copynumber: 2.5 Consensus size: 46
89367511 GTCGATGCCA
*
89367521 TGTCCCAGACAGGTCTTACATTGACT-TTCATATATCGAGGCCGATGTAG
1 TGTCCCAGACAGGTCTTACACTGACTCTT-ATA-AT-GAGGCCGATG-AG
* * * *
89367570 TGTCCCAGACAGGTCTTACACTGGCTCTTATAATGTGGCCGTTGCG
1 TGTCCCAGACAGGTCTTACACTGACTCTTATAATGAGGCCGATGAG
*
89367616 TGTCCCAGACATGTCTTACAC
1 TGTCCCAGACAGGTCTTACAC
89367637 AAGCACACAG
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
46 21 0.35
47 8 0.13
48 2 0.03
49 27 0.45
50 2 0.03
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.30
Consensus pattern (46 bp):
TGTCCCAGACAGGTCTTACACTGACTCTTATAATGAGGCCGATGAG
Found at i:89371236 original size:3 final size:3
Alignment explanation
Indices: 89371228--89371258 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
89371218 CACTAAGCTT
89371228 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
89371259 CACATATGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:89371869 original size:25 final size:26
Alignment explanation
Indices: 89371831--89371882 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
89371821 ATATTAGATA
*
89371831 TTTATATTAGA-TTTAGAATTTTTAT
1 TTTATATTAAATTTTAGAATTTTTAT
* *
89371856 TTTATTTTAAATTTTAGGATTTTTAT
1 TTTATATTAAATTTTAGAATTTTTAT
89371882 T
1 T
89371883 ATTTCAGATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (26 bp):
TTTATATTAAATTTTAGAATTTTTAT
Found at i:89372838 original size:24 final size:25
Alignment explanation
Indices: 89372788--89372852 Score: 64
Period size: 24 Copynumber: 2.6 Consensus size: 25
89372778 TCTATAATAA
*
89372788 ATAATTTAAAATT-ATAATTATAATT
1 ATAATTT-AAATTAAAAATTATAATT
*
89372813 AT-ATTTATATTAAAAATTA-AATTT
1 ATAATTTAAATTAAAAATTATAA-TT
89372837 ATGAATTTAAATTAAA
1 AT-AATTTAAATTAAA
89372853 TTTATATTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
23 6 0.18
24 14 0.42
25 2 0.06
26 11 0.33
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (25 bp):
ATAATTTAAATTAAAAATTATAATT
Found at i:89372850 original size:37 final size:36
Alignment explanation
Indices: 89372793--89372863 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 36
89372783 AATAAATAAT
*
89372793 TTAAAATTATAATTATAATTATATTTATATTAAAAA
1 TTAAAATTATAATTATAATTAAATTTATATTAAAAA
*
89372829 TTAAATTTATGAATT-TAAATTAAATTTATATTAAA
1 TTAAAATTAT-AATTAT-AATTAAATTTATATTAAA
89372864 TAATAATTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
36 10 0.32
37 21 0.68
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (36 bp):
TTAAAATTATAATTATAATTAAATTTATATTAAAAA
Found at i:89381026 original size:40 final size:40
Alignment explanation
Indices: 89380966--89381149 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 40
89380956 TATTCAAATG
* *
89380966 ATATCCAGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * *
89381006 ATATCCGGACTAAGATCCGAAGGCATTTGTGCAAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * * *
89381046 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
* *
89381086 ATATCCGGGCTAAG-TCCCAAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
89381126 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
89381150 CTTGTGCGAG
Statistics
Matches: 121, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
39 1 0.01
40 117 0.97
41 3 0.02
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:89381099 original size:80 final size:80
Alignment explanation
Indices: 89380966--89381185 Score: 261
Period size: 80 Copynumber: 2.8 Consensus size: 80
89380956 TATTCAAATG
* * * * *
89380966 ATATCCAGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC-TTTGTGCTAGTGATTATATCCGGGCTAAGATCCCGAAGGC
* *
89381030 ATTTGTGCAAGTTG-CT
65 ATTTATGCAAG-TGACC
* *
89381046 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAG-TCCCAAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC-TTTGTGCTAGTGATTATATCCGGGCTAAGATCCCGAAGGC
*
89381110 ATTTATGCTAGTGACC
65 ATTTATGCAAGTGACC
* * *
89381126 ATATCCGGGCTAAGACCCGAAGGCCTTGTGCGAGTGGTTATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGACCCGAAGGCTTTGTGCTAGTGATTATATCCGGGCTAAGATCCCGAAG
89381186 ATACTTGGGT
Statistics
Matches: 121, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
78 13 0.11
79 20 0.17
80 88 0.73
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCTTTGTGCTAGTGATTATATCCGGGCTAAGATCCCGAAGGCA
TTTATGCAAGTGACC
Found at i:89393906 original size:40 final size:40
Alignment explanation
Indices: 89393851--89393928 Score: 138
Period size: 40 Copynumber: 1.9 Consensus size: 40
89393841 TCGGGATTAT
* *
89393851 TGCAACCTGTGAAAATTCCGTTATGGAAGTGGGAAAGAAC
1 TGCAACCTGTGAAAATTCCGCTATGGAAGTGGAAAAGAAC
89393891 TGCAACCTGTGAAAATTCCGCTATGGAAGTGGAAAAGA
1 TGCAACCTGTGAAAATTCCGCTATGGAAGTGGAAAAGA
89393929 GTAACAATGG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.36, C:0.15, G:0.27, T:0.22
Consensus pattern (40 bp):
TGCAACCTGTGAAAATTCCGCTATGGAAGTGGAAAAGAAC
Found at i:89406659 original size:94 final size:92
Alignment explanation
Indices: 89406459--89406818 Score: 279
Period size: 94 Copynumber: 3.9 Consensus size: 92
89406449 TGGATATTCG
* * * * * *
89406459 GCCAGTGTAAGACGTGTCTGGGACATGC-TTCGGCCACATTATGAGAGCTAGTGCAAGACCATGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATT-AGCCATACTATGAGAGCCAGTGTAAGACCATGT
* *
89406523 CTGGGGCATGACATCGGCATCCAGACGTGG-
65 CTGGGACATGGCATCGGCA--CAGA-GTGGT
* * * *
89406553 GCTAGTGAAAGACATGTTTGGGACATGCATTAGCCATACTATGATAGCCAGTGTAAGACCATGTC
1 GCCAGTGTAAGACATGTCTGGGACATGCATTAGCCATACTATGAGAGCCAGTGTAAGACCATGTC
* *
89406618 TGGCACATGGCACCGGCACAGAGATGAGT
66 TGGGACATGGCATCGGCACAGAG-TG-GT
** * * **
89406647 GCCAGTGTAAGACATGTCTAAGACATGCATTTGCC-TCGAC-A-GAGATAGCCAATGTAAGA-TG
1 GCCAGTGTAAGACATGTCTGGGACATGCATTAGCCAT--ACTATGAG--AGCCAGTGTAAGACCA
* * *
89406708 TGTTTGGGATAT-GCATCGGCTA-AGAGTTGT
62 TGTCTGGGACATGGCATCGGC-ACAGAGTGGT
* * * * * *
89406738 GCTAGTGTAAGACATGTATGGGACATGCATCACACGCGTA-TATGAGAGCCAGTGTAAGATCATG
1 GCCAGTGTAAGACATGTCTGGGACATGCATTA-GC-CATACTATGAGAGCCAGTGTAAGACCATG
89406802 TCTGGGACATGGCATCG
64 TCTGGGACATGGCATCG
89406819 ACAATATATC
Statistics
Matches: 209, Mismatches: 41, Indels: 33
0.74 0.14 0.12
Matches are distributed among these distances:
91 41 0.20
92 20 0.10
93 25 0.12
94 107 0.51
95 16 0.08
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (92 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATTAGCCATACTATGAGAGCCAGTGTAAGACCATGTC
TGGGACATGGCATCGGCACAGAGTGGT
Found at i:89410578 original size:54 final size:53
Alignment explanation
Indices: 89410478--89410581 Score: 145
Period size: 54 Copynumber: 1.9 Consensus size: 53
89410468 GGACTTGATG
* * * *
89410478 AATCGCATCTTCCGATCGTACTTGGATAAGTTTGTTGTCATTTTTATCGACGA
1 AATCGCATCTGCCGATCGTACTTAGATAAGTTCGTTGTCATCTTTATCGACGA
**
89410531 NAATCGCATCTGCCGATCGTACTTAGATAAGTTCGTTGTTGTCTTTATCGA
1 -AATCGCATCTGCCGATCGTACTTAGATAAGTTCGTTGTCATCTTTATCGA
89410582 TGACATATTG
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 44 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.38
Consensus pattern (53 bp):
AATCGCATCTGCCGATCGTACTTAGATAAGTTCGTTGTCATCTTTATCGACGA
Found at i:89414228 original size:47 final size:46
Alignment explanation
Indices: 89414069--89414381 Score: 167
Period size: 47 Copynumber: 6.7 Consensus size: 46
89414059 TGGATATTCG
* * * * * * *
89414069 GCCAATGTAAGACGTGTTTGGGACATGCTTCGGCCACATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGAGA
* ** * *
89414115 GCTAGTGTAAGACCATGTCTGGGGTATGGCATCAG-CAT-CTAGGCGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCATACTATGAGA
* * *
89414161 GGACTAGTGTAAGACTTGTCTGGGACATGCATCAGCCATACTATGATA
1 -G-CCAGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGAGA
*
89414209 GCCAGTGTAAGACCATGTCTGGGACATGCATCGGCC-TCGAC-A-GAGATA
1 GCCAGTGTAAGA-CATGTCTGGGACATGCATCAGCCAT--ACTATGAG--A
* * * * ** * *
89414257 GCCAGTGTAAGACGTGTTTGGGACATGCAT-TGGC-TAAGA-GTTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATG-AGA
* * * *
89414301 GCTACTGTGAGACATGTCTGGGACATGCATCAGCACGCGTA-TATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAG--C-CATACTATGAGA
*
89414349 CCCAGTGTAAGACCATGTCTGGGACATGGCATC
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATC
89414382 GACAATATAT
Statistics
Matches: 203, Mismatches: 43, Indels: 38
0.71 0.15 0.13
Matches are distributed among these distances:
44 26 0.13
45 3 0.01
46 39 0.19
47 66 0.33
48 47 0.23
49 17 0.08
50 5 0.02
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.24
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGAGA
Found at i:89414264 original size:94 final size:94
Alignment explanation
Indices: 89414069--89414286 Score: 244
Period size: 94 Copynumber: 2.3 Consensus size: 94
89414059 TGGATATTCG
* * * * *
89414069 GCCAATGTAAGACGTGTTTGGGACATGCTTCGGCCACATTATGAGAGCTAGTGTAAGACCATGTC
1 GCCAGTGTAAGACGTGTTTGGGACATGCATCAGCCACACTATGAGAGCCAGTGTAAGACCATGTC
** *
89414134 TGGGGTATGGCATCAGCATCTAGGCGAGGA
66 TGGGACATGGCATCAGCA-CTAGACGAGGA
* * * * *
89414164 -CTAGTGTAAGACTTGTCTGGGACATGCATCAGCCATACTATGATAGCCAGTGTAAGACCATGTC
1 GCCAGTGTAAGACGTGTTTGGGACATGCATCAGCCACACTATGAGAGCCAGTGTAAGACCATGTC
* * *
89414228 TGGGACAT-GCATCGGC-CTCGACAGAGATA
66 TGGGACATGGCATCAGCACTAGAC-GAG-GA
89414257 GCCAGTGTAAGACGTGTTTGGGACATGCAT
1 GCCAGTGTAAGACGTGTTTGGGACATGCAT
89414287 TGGCTAAGAG
Statistics
Matches: 101, Mismatches: 19, Indels: 7
0.80 0.15 0.06
Matches are distributed among these distances:
91 4 0.04
92 3 0.03
93 8 0.08
94 86 0.85
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.24
Consensus pattern (94 bp):
GCCAGTGTAAGACGTGTTTGGGACATGCATCAGCCACACTATGAGAGCCAGTGTAAGACCATGTC
TGGGACATGGCATCAGCACTAGACGAGGA
Found at i:89432494 original size:30 final size:30
Alignment explanation
Indices: 89432431--89432496 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
89432421 AATAACTTTA
* * *
89432431 TGAGCTACGACTAAGCTCGTGAGCTATATT
1 TGAGCTAAGACTAAGCTCGGGAGCTATAGT
*
89432461 TGAGCTAAGTCTAAGCTCGGGAGCTGA-AGT
1 TGAGCTAAGACTAAGCTCGGGAGCT-ATAGT
89432491 TGAGCT
1 TGAGCT
89432497 GAGAACAAGC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 30 0.97
31 1 0.03
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (30 bp):
TGAGCTAAGACTAAGCTCGGGAGCTATAGT
Found at i:89434709 original size:20 final size:21
Alignment explanation
Indices: 89434651--89434709 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 21
89434641 ATAAACTTGT
*
89434651 AATCAAGTTAAAA-TGGTTTC
1 AATCAAGTTAAAACTGTTTTC
*
89434671 AATCGAGTT-AAACAT-TTTTC
1 AATCAAGTTAAAAC-TGTTTTC
89434691 AA-CAAGTTAAAACTGTTTT
1 AATCAAGTTAAAACTGTTTT
89434710 AAAACTAGTC
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
19 9 0.28
20 22 0.69
21 1 0.03
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (21 bp):
AATCAAGTTAAAACTGTTTTC
Found at i:89435848 original size:29 final size:29
Alignment explanation
Indices: 89435811--89435870 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
89435801 CCAAAGAGAA
89435811 AGAAAGAATAGAACAAAGAAGATAAAAGG
1 AGAAAGAATAGAACAAAGAAGATAAAAGG
* *
89435840 AGAAAGAATAGAACGAAGAAGATAGAAGG
1 AGAAAGAATAGAACAAAGAAGATAAAAGG
89435869 AG
1 AG
89435871 TGTCACACTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.62, C:0.03, G:0.28, T:0.07
Consensus pattern (29 bp):
AGAAAGAATAGAACAAAGAAGATAAAAGG
Found at i:89439086 original size:21 final size:21
Alignment explanation
Indices: 89439033--89439076 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
89439023 CCAGGCCAAG
89439033 TATAAGGTGTTATAATTAACT
1 TATAAGGTGTTATAATTAACT
89439054 TATAAGGTGTTATAATTAACT
1 TATAAGGTGTTATAATTAACT
89439075 TA
1 TA
89439077 ATATTAGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.05, G:0.14, T:0.43
Consensus pattern (21 bp):
TATAAGGTGTTATAATTAACT
Found at i:89444474 original size:21 final size:21
Alignment explanation
Indices: 89444434--89444475 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
89444424 GAATATAGTA
* *
89444434 ATTATTTATTTAGAAATAAAT
1 ATTATTTAGTTACAAATAAAT
*
89444455 ATTATTTAGTTACAATTAAAT
1 ATTATTTAGTTACAAATAAAT
89444476 TAAAATAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (21 bp):
ATTATTTAGTTACAAATAAAT
Found at i:89446647 original size:27 final size:27
Alignment explanation
Indices: 89446607--89446770 Score: 186
Period size: 27 Copynumber: 6.0 Consensus size: 27
89446597 TGTTCTTTTC
89446607 CATAGATTGCCACAAAGGCTTCCATTT
1 CATAGATTGCCACAAAGGCTTCCATTT
** *
89446634 CATAGATTTTCACAAAGGCTTTCATTT
1 CATAGATTGCCACAAAGGCTTCCATTT
* *
89446661 TATAGATATGCCACGAAGGCTTCCATTT
1 CATAGAT-TGCCACAAAGGCTTCCATTT
*
89446689 CATAGATTGCCATAAAGGCTTCCATTT
1 CATAGATTGCCACAAAGGCTTCCATTT
* * * * *
89446716 TATAGGTACGTCATGAAA-GCTTCCATTT
1 CATAGAT-TGCCA-CAAAGGCTTCCATTT
*
89446744 CATAGATTGCCACAAAGGCTTCTATTT
1 CATAGATTGCCACAAAGGCTTCCATTT
89446771 TCTGGCATGT
Statistics
Matches: 111, Mismatches: 22, Indels: 8
0.79 0.16 0.06
Matches are distributed among these distances:
26 3 0.03
27 65 0.59
28 40 0.36
29 3 0.03
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.34
Consensus pattern (27 bp):
CATAGATTGCCACAAAGGCTTCCATTT
Found at i:89446673 original size:55 final size:55
Alignment explanation
Indices: 89446608--89446771 Score: 215
Period size: 55 Copynumber: 3.0 Consensus size: 55
89446598 GTTCTTTTCC
** *
89446608 ATAGAT-TGCCACAAAGGCTTCCATTTCATAGATTTTCACAAAGGCTTTCATTTT
1 ATAGATATGCCACAAAGGCTTCCATTTCATAGATTGCCACAAAGGCTTCCATTTT
* *
89446662 ATAGATATGCCACGAAGGCTTCCATTTCATAGATTGCCATAAAGGCTTCCATTTT
1 ATAGATATGCCACAAAGGCTTCCATTTCATAGATTGCCACAAAGGCTTCCATTTT
* * * * *
89446717 ATAGGTACGTCATGAAA-GCTTCCATTTCATAGATTGCCACAAAGGCTTCTATTTT
1 ATAGATATGCCA-CAAAGGCTTCCATTTCATAGATTGCCACAAAGGCTTCCATTTT
89446772 CTGGCATGTT
Statistics
Matches: 96, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
54 6 0.06
55 88 0.92
56 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (55 bp):
ATAGATATGCCACAAAGGCTTCCATTTCATAGATTGCCACAAAGGCTTCCATTTT
Found at i:89446755 original size:82 final size:82
Alignment explanation
Indices: 89446607--89446770 Score: 206
Period size: 82 Copynumber: 2.0 Consensus size: 82
89446597 TGTTCTTTTC
** * *
89446607 CATAGATTGCCACAAAGGCTTCCATTTCATAGATTTTCACAAAGGCTTTCATTTTATAGATATGC
1 CATAGATTGCCACAAAGGCTTCCATTTCATAGATCGTCACAAAGGCTTCCATTTCATAGATATGC
*
89446672 CACGAAGGCTTCCATTT
66 CACAAAGGCTTCCATTT
* * * *
89446689 CATAGATTGCCATAAAGGCTTCCATTTTATAGGTACGTCATGAAA-GCTTCCATTTCATAGAT-T
1 CATAGATTGCCACAAAGGCTTCCATTTCATAGAT-CGTCA-CAAAGGCTTCCATTTCATAGATAT
*
89446752 GCCACAAAGGCTTCTATTT
64 GCCACAAAGGCTTCCATTT
89446771 TCTGGCATGT
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
82 49 0.70
83 18 0.26
84 3 0.04
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.34
Consensus pattern (82 bp):
CATAGATTGCCACAAAGGCTTCCATTTCATAGATCGTCACAAAGGCTTCCATTTCATAGATATGC
CACAAAGGCTTCCATTT
Found at i:89446772 original size:28 final size:28
Alignment explanation
Indices: 89446586--89446772 Score: 174
Period size: 27 Copynumber: 6.8 Consensus size: 28
89446576 CTTTAGAATG
*
89446586 TGCCACAAAGG-TGTTC-TTTTCCATAGAT
1 TGCCACAAAGGCT-TCCATTTT-CATAGAT
89446614 TGCCACAAAGGCTTCCA-TTTCATAGAT
1 TGCCACAAAGGCTTCCATTTTCATAGAT
** *
89446641 TTTCACAAAGGCTTTCATTTT-ATAGAT
1 TGCCACAAAGGCTTCCATTTTCATAGAT
*
89446668 ATGCCACGAAGGCTTCCA-TTTCATAGAT
1 -TGCCACAAAGGCTTCCATTTTCATAGAT
* *
89446696 TGCCATAAAGGCTTCCATTTT-ATAGGT
1 TGCCACAAAGGCTTCCATTTTCATAGAT
* * *
89446723 ACGTCATGAAA-GCTTCCA-TTTCATAGAT
1 -TGCCA-CAAAGGCTTCCATTTTCATAGAT
*
89446751 TGCCACAAAGGCTTCTATTTTC
1 TGCCACAAAGGCTTCCATTTTC
89446773 TGGCATGTTC
Statistics
Matches: 129, Mismatches: 19, Indels: 22
0.76 0.11 0.13
Matches are distributed among these distances:
26 3 0.02
27 62 0.48
28 60 0.47
29 4 0.03
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.35
Consensus pattern (28 bp):
TGCCACAAAGGCTTCCATTTTCATAGAT
Found at i:89452513 original size:30 final size:30
Alignment explanation
Indices: 89452479--89452539 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
89452469 TCCTTAACTC
89452479 AAACTTTGGCAAAATTACAATTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
* * * *
89452509 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
89452539 A
1 A
89452540 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCCT
Found at i:89457260 original size:27 final size:26
Alignment explanation
Indices: 89457222--89457457 Score: 249
Period size: 27 Copynumber: 8.8 Consensus size: 26
89457212 CCTCATTTTT
*
89457222 TAAAATTATCGATATACCCCAAGTTTG
1 TAAAATTATCGAAATACCCCAA-TTTG
**
89457249 TAAAATTATCGAAATACCCCCGGTTTG
1 TAAAATTATCGAAATA-CCCCAATTTG
89457276 TAAAATTATCGAAATACCCCTAATTTG
1 TAAAATTATCGAAATACCCC-AATTTG
* *
89457303 TAAAATTACCAAAATACCCCCAATTTG
1 TAAAATTATCGAAATA-CCCCAATTTG
* *
89457330 TAAAATTAACGAAATGCCCCCAATTTG
1 TAAAATTATCGAAAT-ACCCCAATTTG
* *
89457357 TAAAATTACCGAAATACCCTCGATTTG
1 TAAAATTATCGAAATACCC-CAATTTG
* *
89457384 TAAAATTATTGAAATACCCCTGATTTG
1 TAAAATTATCGAAATACCCC-AATTTG
** *
89457411 TAAAATTA-CTGAAATACCCTTATAGTG
1 TAAAATTATC-GAAATACCCCAAT-TTG
*
89457438 TAAAATTATTGAAATACCCC
1 TAAAATTATCGAAATACCCC
89457458 TGTAGGGTAA
Statistics
Matches: 179, Mismatches: 21, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
26 10 0.06
27 161 0.90
28 8 0.04
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (26 bp):
TAAAATTATCGAAATACCCCAATTTG
Found at i:89457304 original size:54 final size:54
Alignment explanation
Indices: 89457222--89457458 Score: 298
Period size: 54 Copynumber: 4.4 Consensus size: 54
89457212 CCTCATTTTT
* * *
89457222 TAAAATTATCGATATACCCC-AAGTTTGTAAAATTATCGAAATACCCCCGGTTTG
1 TAAAATTATCGAAATACCCCTAA-TTTGTAAAATTACCGAAATACCCCCGATTTG
* *
89457276 TAAAATTATCGAAATACCCCTAATTTGTAAAATTACCAAAATACCCCCAATTTG
1 TAAAATTATCGAAATACCCCTAATTTGTAAAATTACCGAAATACCCCCGATTTG
* * * *
89457330 TAAAATTAACGAAATGCCCCCAATTTGTAAAATTACCGAAATACCCTCGATTTG
1 TAAAATTATCGAAATACCCCTAATTTGTAAAATTACCGAAATACCCCCGATTTG
* * * ** *
89457384 TAAAATTATTGAAATACCCCTGATTTGTAAAATTACTGAAATA-CCCTTATAGTG
1 TAAAATTATCGAAATACCCCTAATTTGTAAAATTACCGAAATACCCCCGAT-TTG
*
89457438 TAAAATTATTGAAATACCCCT
1 TAAAATTATCGAAATACCCCT
89457459 GTAGGGTAAA
Statistics
Matches: 160, Mismatches: 21, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
53 4 0.03
54 154 0.96
55 2 0.01
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (54 bp):
TAAAATTATCGAAATACCCCTAATTTGTAAAATTACCGAAATACCCCCGATTTG
Found at i:89457467 original size:27 final size:27
Alignment explanation
Indices: 89457382--89457475 Score: 118
Period size: 27 Copynumber: 3.5 Consensus size: 27
89457372 ACCCTCGATT
*
89457382 TGTAAAATTATTGAAATACCCCTG-ATT
1 TGTAAAATTATTGAAATACCCCTGTA-G
* * *
89457409 TGTAAAATTACTGAAATACCCTTATAG
1 TGTAAAATTATTGAAATACCCCTGTAG
89457436 TGTAAAATTATTGAAATACCCCTGTAG
1 TGTAAAATTATTGAAATACCCCTGTAG
* *
89457463 GGTAAAATGATTG
1 TGTAAAATTATTG
89457476 TTTTGCCCTT
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
27 56 0.98
28 1 0.02
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.34
Consensus pattern (27 bp):
TGTAAAATTATTGAAATACCCCTGTAG
Found at i:89457485 original size:54 final size:54
Alignment explanation
Indices: 89457356--89457472 Score: 139
Period size: 54 Copynumber: 2.2 Consensus size: 54
89457346 CCCCCAATTT
* * * * **
89457356 GTAAAATTACCGAAATACCCTCGAT-TTGTAAAATTATTGAAATACCCCTGATTT
1 GTAAAATGACTGAAATACCCT-TATAGTGTAAAATTATTGAAATACCCCTGATGG
*
89457410 GTAAAATTACTGAAATACCCTTATAGTGTAAAATTATTGAAATACCCCTG-TAGG
1 GTAAAATGACTGAAATACCCTTATAGTGTAAAATTATTGAAATACCCCTGAT-GG
89457464 GTAAAATGA
1 GTAAAATGA
89457473 TTGTTTTGCC
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
53 3 0.05
54 52 0.95
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.32
Consensus pattern (54 bp):
GTAAAATGACTGAAATACCCTTATAGTGTAAAATTATTGAAATACCCCTGATGG
Found at i:89459098 original size:39 final size:39
Alignment explanation
Indices: 89458974--89459170 Score: 204
Period size: 39 Copynumber: 5.1 Consensus size: 39
89458964 AACTTGAAAC
** **
89458974 TAATTACCAGCACA-AGCCTGCGGGAATTTAAACCCGG-TA
1 TAATT-CCAGCACATAGCCTGC-GGACCTTAAGTCCGGATA
* * * * *
89459013 TAATACCAGCTCGA-AGCCTGCGGGA-CTTTAGCCCGGACA
1 TAATTCCAGCAC-ATAGCCTGC-GGACCTTAAGTCCGGATA
* * *
89459052 TATTTCCAGCACGTAGCCTGCGGACCTTAAGTTCGGATA
1 TAATTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATA
*
89459091 TAATTCCAGCACATAGCCTGTGGACCTTAAGTCCGGATA
1 TAATTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATA
*
89459130 TAATTCTAGCACATAGCCTGCGGACCTTAAGTCCGGATA
1 TAATTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATA
89459169 TA
1 TA
89459171 CTCCATCACT
Statistics
Matches: 134, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
38 17 0.13
39 117 0.87
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (39 bp):
TAATTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATA
Found at i:89473266 original size:93 final size:93
Alignment explanation
Indices: 89473107--89473277 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
89473097 GGATGGTTGA
* *
89473107 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
89473172 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
89473200 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
89473265 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
89473278 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:89473280 original size:46 final size:46
Alignment explanation
Indices: 89473111--89473282 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
89473101 GGTTGAGCAT
* * *
89473111 CCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
89473157 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
89473202 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
89473250 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
89473283 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 2 0.02
46 60 0.56
47 28 0.26
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Done.