Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 200 of 425
Found at i:60902504 original size:25 final size:25
Alignment explanation
Indices: 60902458--60902526 Score: 77
Period size: 25 Copynumber: 2.7 Consensus size: 25
60902448 AAGAAAAATA
* * *
60902458 TAAAACAACAAAAAGAATATCTACTC
1 TAAAA-AAGAAAAAGAAAATCTAATC
*
60902484 T-AAAAAGAAAAGAGAAAATCTAATT
1 TAAAAAAGAAAA-AGAAAATCTAATC
60902509 TAAAAAAGAAAAAGAAAA
1 TAAAAAAGAAAAAGAAAA
60902527 GAAAAGAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
24 6 0.16
25 20 0.54
26 11 0.30
ACGTcount: A:0.67, C:0.09, G:0.09, T:0.16
Consensus pattern (25 bp):
TAAAAAAGAAAAAGAAAATCTAATC
Found at i:60905848 original size:16 final size:18
Alignment explanation
Indices: 60905823--60905864 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
60905813 CTACTTATGT
*
60905823 AAATTGAAAAC-AA-TAA
1 AAATTAAAAACTAATTAA
60905839 AAATTAAAAACTAATTAA
1 AAATTAAAAACTAATTAA
*
60905857 GAATTAAA
1 AAATTAAA
60905865 TTTATATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 10 0.45
17 2 0.09
18 10 0.45
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.24
Consensus pattern (18 bp):
AAATTAAAAACTAATTAA
Found at i:60909748 original size:28 final size:28
Alignment explanation
Indices: 60909708--60909763 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
60909698 GAGAGAACAA
60909708 AAGCGCGTCCTATAAGACGTTTTCATTG
1 AAGCGCGTCCTATAAGACGTTTTCATTG
60909736 AAGCGCGTCCTATAAGACGTTTTCATTG
1 AAGCGCGTCCTATAAGACGTTTTCATTG
60909764 CCTCATCAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.32
Consensus pattern (28 bp):
AAGCGCGTCCTATAAGACGTTTTCATTG
Found at i:60913991 original size:19 final size:18
Alignment explanation
Indices: 60913962--60914000 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 18
60913952 GTATATATTT
60913962 TAAATTTATTTAGGTAGA
1 TAAATTTATTTAGGTAGA
60913980 TAAATCTTATTTAGGTAGA
1 TAAAT-TTATTTAGGTAGA
60913999 TA
1 TA
60914001 GGTTTTATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.38, C:0.03, G:0.15, T:0.44
Consensus pattern (18 bp):
TAAATTTATTTAGGTAGA
Found at i:60917538 original size:40 final size:40
Alignment explanation
Indices: 60917483--60917650 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
60917473 TGAATGATAC
* *
60917483 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
60917523 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
60917563 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
60917603 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
60917643 CC-GGCTAA
1 CCGGGCTAA
60917651 ATTCCGAAGA
Statistics
Matches: 106, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 6 0.06
40 98 0.92
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:60925604 original size:40 final size:40
Alignment explanation
Indices: 60925549--60925752 Score: 241
Period size: 40 Copynumber: 5.1 Consensus size: 40
60925539 AGAATGATAC
* * *
60925549 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATAT
*
60925589 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATTATAT
*
60925629 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATTATAT
* * ** *
60925669 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATAT
* * **
60925709 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGT-GATTATAT
60925750 CCG
1 CCG
60925753 ACTAAATTTC
Statistics
Matches: 143, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.01
40 133 0.93
41 9 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATAT
Found at i:60928639 original size:23 final size:21
Alignment explanation
Indices: 60928608--60928653 Score: 56
Period size: 23 Copynumber: 2.1 Consensus size: 21
60928598 GGCAGATAAG
60928608 TTTTATTTATATTCTAGTAATA
1 TTTTATTTATATTCTAGT-ATA
* *
60928630 TTTTATTTTATCTTTTAGTATA
1 TTTTA-TTTATATTCTAGTATA
60928652 TT
1 TT
60928654 AGAATAAGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.65
Consensus pattern (21 bp):
TTTTATTTATATTCTAGTATA
Found at i:60932039 original size:64 final size:64
Alignment explanation
Indices: 60931971--60932098 Score: 256
Period size: 64 Copynumber: 2.0 Consensus size: 64
60931961 TGTCTTGTTT
60931971 ATTTGTGATTATATTTTTTACTCTTTTAAAATAACCCAATCCCAGTCTCACTTCCAACTGGACA
1 ATTTGTGATTATATTTTTTACTCTTTTAAAATAACCCAATCCCAGTCTCACTTCCAACTGGACA
60932035 ATTTGTGATTATATTTTTTACTCTTTTAAAATAACCCAATCCCAGTCTCACTTCCAACTGGACA
1 ATTTGTGATTATATTTTTTACTCTTTTAAAATAACCCAATCCCAGTCTCACTTCCAACTGGACA
60932099 TCTTCATCAC
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (64 bp):
ATTTGTGATTATATTTTTTACTCTTTTAAAATAACCCAATCCCAGTCTCACTTCCAACTGGACA
Found at i:60940505 original size:20 final size:20
Alignment explanation
Indices: 60940471--60940512 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
60940461 AACTATTTAA
** *
60940471 ATAATATTATTTAAATAGTT
1 ATAATATTAAATAAATAATT
60940491 ATAATATTAAATAAATAATT
1 ATAATATTAAATAAATAATT
60940511 AT
1 AT
60940513 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATAAATAATT
Found at i:60940774 original size:14 final size:14
Alignment explanation
Indices: 60940755--60940803 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 14
60940745 TGCGTATAAC
60940755 TATTTAAATAATAT
1 TATTTAAATAATAT
60940769 TATTTAAATAATTAT
1 TATTTAAATAA-TAT
*
60940784 AATATTAAATGAATAAT
1 TAT-TTAAAT-AAT-AT
60940801 TAT
1 TAT
60940804 GTGTTTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
14 11 0.38
15 5 0.17
16 7 0.24
17 6 0.21
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (14 bp):
TATTTAAATAATAT
Found at i:60940983 original size:291 final size:291
Alignment explanation
Indices: 60940459--60941032 Score: 1062
Period size: 291 Copynumber: 2.0 Consensus size: 291
60940449 AAAAAGAATA
*
60940459 ATAACTATTTAAATAATATTATTTAAATAGTTATAATATTAAATAAATAATTATGTGTTTATTTT
1 ATAACTATTTAAATAATATTATTTAAATAATTATAATATTAAATAAATAATTATGTGTTTATTTT
*
60940524 AAAGACATTATTATTCAGAAAGACACCTATTGAAAGATGTCTCTATGAAGAGACATGAAAATTCC
66 AAAGACATTATTATTCAGAAAGACACCTATTGAAAGATGTCTATATGAAGAGACATGAAAATTCC
60940589 TATAAATAGGAATGAGATTTCATTTGGAAAATACACCAACAAATTCTAATATTCTTTATTTCCTT
131 TATAAATAGGAATGAGATTTCATTTGGAAAATACACCAACAAATTCTAATATTCTTTATTTCCTT
60940654 CCTTTATTTTCTAATATTATTAGATTATTCTATAAAGTATTACTAC-AGAAATCCTTTGTAGAAA
196 CCTTTATTTTCTAATATTATTAGATTATTCTATAAAGTATTACT-CTAGAAATCCTTTGTAGAAA
*
60940718 TTGAGTTTCTTGTTATACATTGCTTAATGCGT
260 TTGAGTTTCTTATTATACATTGCTTAATGCGT
*
60940750 ATAACTATTTAAATAATATTATTTAAATAATTATAATATTAAATGAATAATTATGTGTTTATTTT
1 ATAACTATTTAAATAATATTATTTAAATAATTATAATATTAAATAAATAATTATGTGTTTATTTT
60940815 AAAGACATTATTATTCAGAAAGACACCTATTGAAAGATGTCTATATGAAGAGACATGAAAATTCC
66 AAAGACATTATTATTCAGAAAGACACCTATTGAAAGATGTCTATATGAAGAGACATGAAAATTCC
*
60940880 TATAAATAGGAATGAGATTTCATTTGGAAAATACACCAACAAATTCTAATATTCTTTCTTTCCTT
131 TATAAATAGGAATGAGATTTCATTTGGAAAATACACCAACAAATTCTAATATTCTTTATTTCCTT
*
60940945 -TTTTCATTTTCTAATATTATTAGATTATTCTATAAAGTATTACTCTAGAAATCCTTTGTAGAAA
196 CCTTT-ATTTTCTAATATTATTAGATTATTCTATAAAGTATTACTCTAGAAATCCTTTGTAGAAA
60941009 TTGAGTTTCTTATTATACATTGCT
260 TTGAGTTTCTTATTATACATTGCT
60941033 CGGTGCGTAC
Statistics
Matches: 275, Mismatches: 6, Indels: 4
0.96 0.02 0.01
Matches are distributed among these distances:
290 4 0.01
291 271 0.99
ACGTcount: A:0.38, C:0.11, G:0.10, T:0.41
Consensus pattern (291 bp):
ATAACTATTTAAATAATATTATTTAAATAATTATAATATTAAATAAATAATTATGTGTTTATTTT
AAAGACATTATTATTCAGAAAGACACCTATTGAAAGATGTCTATATGAAGAGACATGAAAATTCC
TATAAATAGGAATGAGATTTCATTTGGAAAATACACCAACAAATTCTAATATTCTTTATTTCCTT
CCTTTATTTTCTAATATTATTAGATTATTCTATAAAGTATTACTCTAGAAATCCTTTGTAGAAAT
TGAGTTTCTTATTATACATTGCTTAATGCGT
Found at i:60943831 original size:16 final size:16
Alignment explanation
Indices: 60943810--60943840 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
60943800 CATGTTAGAG
60943810 CATATAAATTTGAAAC
1 CATATAAATTTGAAAC
*
60943826 CATATATATTTGAAA
1 CATATAAATTTGAAA
60943841 ACTTTTTCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.35
Consensus pattern (16 bp):
CATATAAATTTGAAAC
Found at i:60948061 original size:93 final size:95
Alignment explanation
Indices: 60947895--60948211 Score: 365
Period size: 93 Copynumber: 3.3 Consensus size: 95
60947885 GATGCCATGT
* *
60947895 CCCAGACATGGTCTTACACTGGCTCTCATATATCGGTGTCAATGCCATGTTCCAAACATGGTCTT
1 CCCAGACATGGTCTTACACTAGCTCTCATATATCGGTGCCAATGCCATGTTCCAAACATGGTCTT
*
60947960 ACATTAGCCC-CTATGTCAAGGCCAATG-C-
66 ACACTAGCCCAC-ATGTCAAGGCCAATGCCA
*
60947988 CCTAGACATGGTCTTACACTAGCTCTCATATATCGGTGCCAATGCCATGTTCCAAACATGGTCTT
1 CCCAGACATGGTCTTACACTAGCTCTCATATATCGGTGCCAATGCCATGTTCCAAACATGGTCTT
* *
60948053 ACACTAGCCCACATGTCGAGGCCGATGCCATA
66 ACACTAGCCCACATGTCAAGGCCAATGCC--A
*** * *
60948085 TCCCAGACATGGTCTTACACTAGCTCT--TATATAAATACCGATGCCATGTTCCAAACATGGTCT
1 -CCCAGACATGGTCTTACACTAGCTCTCATATATCGGTGCCAATGCCATGTTCCAAACATGGTCT
* * * * * ** *
60948148 TACAATGGCTCACATATCGAGGCTGATGTCA
65 TACACTAGCCCACATGTCAAGGCCAATGCCA
60948179 TGTCCCAGACATGGTCTTACACTAGCTCTCATA
1 ---CCCAGACATGGTCTTACACTAGCTCTCATA
60948212 ACCCTAGTAT
Statistics
Matches: 196, Mismatches: 18, Indels: 15
0.86 0.08 0.07
Matches are distributed among these distances:
93 84 0.43
94 3 0.02
96 82 0.42
98 27 0.14
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (95 bp):
CCCAGACATGGTCTTACACTAGCTCTCATATATCGGTGCCAATGCCATGTTCCAAACATGGTCTT
ACACTAGCCCACATGTCAAGGCCAATGCCA
Found at i:60948100 original size:48 final size:48
Alignment explanation
Indices: 60947882--60948204 Score: 250
Period size: 48 Copynumber: 6.8 Consensus size: 48
60947872 AGGGTAAGAT
* *
60947882 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCG-G
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC-C-CACATATCGAG
* * * * * * *
60947931 TGTCAATGCCATGTTCCAAACATGGTCTTACATTAGCCC-CTATGTCAAG
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCCCAC-ATATCGAG
*
60947980 GCC-A----ATG-CCCTAGACATGGTCTTACACTAGCTCTCATATATCG-G
1 GCCGATGCCATGTCCC-AGACATGGTCTTACACTAGC-C-CACATATCGAG
* * * *
60948024 TGCCAATGCCATGTTCCAAACATGGTCTTACACTAGCCCACATGTCGAG
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCCCACATATCGAG
* * ** ** *
60948073 GCCGATGCCATATCCCAGACATGGTCTTACACTAGCTCTTATATAAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCCCACATATCGAG
* * * * * *
60948121 ACCGATGCCATGTTCCAAACATGGTCTTACAATGGCTCACATATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCCCACATATCGAG
* *
60948169 GCTGATGTCATGTCCCAGACATGGTCTTACACTAGC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC
60948205 TCTCATAACC
Statistics
Matches: 210, Mismatches: 49, Indels: 30
0.73 0.17 0.10
Matches are distributed among these distances:
42 2 0.01
43 21 0.10
44 2 0.01
45 8 0.04
46 1 0.00
47 1 0.00
48 117 0.56
49 4 0.02
50 52 0.25
51 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCCCACATATCGAG
Found at i:60948148 original size:96 final size:97
Alignment explanation
Indices: 60947882--60948207 Score: 416
Period size: 96 Copynumber: 3.4 Consensus size: 97
60947872 AGGGTAAGAT
* *
60947882 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGGTGTCAATGCCATGTTC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-ATATATCGGTGCCAATGCCATGTTC
* *
60947947 CAAACATGGTCTTACATTAGCCC-CTATGTCAAG
65 CAAACATGGTCTTACAATAGCCCAC-ATGTCGAG
60947980 GCC-A----ATG-CCCTAGACATGGTCTTACACTAGCTCTCATATATCGGTGCCAATGCCATGTT
1 GCCGATGCCATGTCCC-AGACATGGTCTTACACTAGCTCT-ATATATCGGTGCCAATGCCATGTT
*
60948039 CCAAACATGGTCTTACACTAGCCCACATGTCGAG
64 CCAAACATGGTCTTACAATAGCCCACATGTCGAG
* *** * *
60948073 GCCGATGCCATATCCCAGACATGGTCTTACACTAGCTCT-TATATAAATACCGATGCCATGTTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTATATATCGGTGCCAATGCCATGTTCC
* * *
60948137 AAACATGGTCTTACAATGGCTCACATATCGAG
66 AAACATGGTCTTACAATAGCCCACATGTCGAG
* *
60948169 GCTGATGTCATGTCCCAGACATGGTCTTACACTAGCTCT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT
60948208 CATAACCCTA
Statistics
Matches: 203, Mismatches: 17, Indels: 18
0.85 0.07 0.08
Matches are distributed among these distances:
92 3 0.01
93 82 0.40
94 2 0.01
96 84 0.41
97 1 0.00
98 28 0.14
99 3 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (97 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTATATATCGGTGCCAATGCCATGTTCC
AAACATGGTCTTACAATAGCCCACATGTCGAG
Found at i:60955127 original size:19 final size:19
Alignment explanation
Indices: 60955099--60955137 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
60955089 AAATAGTGAG
*
60955099 AATTTATTTT-TAAGTATA
1 AATTTATTTTCTAAGAATA
60955117 AATTCTATTTTCTAAGAATA
1 AATT-TATTTTCTAAGAATA
60955137 A
1 A
60955138 TAATTCTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 6 0.33
20 8 0.44
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (19 bp):
AATTTATTTTCTAAGAATA
Found at i:60959864 original size:23 final size:23
Alignment explanation
Indices: 60959836--60959881 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
60959826 GAAACAATGT
*
60959836 AGGGACATTGTCATCAATTAAAC
1 AGGGACATTATCATCAATTAAAC
60959859 AGGGACATTATCATCAATTAAAC
1 AGGGACATTATCATCAATTAAAC
60959882 TATGGTTAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.26
Consensus pattern (23 bp):
AGGGACATTATCATCAATTAAAC
Found at i:60971685 original size:39 final size:39
Alignment explanation
Indices: 60971639--60971788 Score: 203
Period size: 39 Copynumber: 3.8 Consensus size: 39
60971629 ACTGGCACAA
* * * *
60971639 AGCCTGCGGGACTTTAGGCCCGGATAT-ATTCCAGCACGT
1 AGCCTGC-GGACCTTAAGTCCGGATATGTTTCCAGCACGT
*
60971678 AGCCTGCGAACCTTAAGTCCGGATATGTTTCCAGCACGT
1 AGCCTGCGGACCTTAAGTCCGGATATGTTTCCAGCACGT
* *
60971717 AGCCTGCGGACCTCAAGTCCGGATATGTTTCTAGCACGT
1 AGCCTGCGGACCTTAAGTCCGGATATGTTTCCAGCACGT
* *
60971756 AGCCTGTGGACCTCAAGTCCGGATATGTTTCCA
1 AGCCTGCGGACCTTAAGTCCGGATATGTTTCCA
60971789 AATATCATGC
Statistics
Matches: 100, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
38 15 0.15
39 85 0.85
ACGTcount: A:0.21, C:0.28, G:0.25, T:0.25
Consensus pattern (39 bp):
AGCCTGCGGACCTTAAGTCCGGATATGTTTCCAGCACGT
Found at i:60973335 original size:40 final size:40
Alignment explanation
Indices: 60973298--60973483 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
60973288 GCTACTCGTT
*
60973298 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
60973338 CAGATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
60973378 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
60973418 CGAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
60973459 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
60973484 CATCATTCGA
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.02
40 115 0.88
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:60981391 original size:40 final size:39
Alignment explanation
Indices: 60981320--60981500 Score: 190
Period size: 40 Copynumber: 4.6 Consensus size: 39
60981310 ACTCGTTCAA
*
60981320 ATGCCTTCGGACATAGCCCGG-TTATAGTAACTCGCACAG
1 ATGCCTTCGGACTTAGCCCGGATT-TAGTAACTCGCACAG
* *
60981359 ATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAA
1 ATGCCTTC-GGACTTAGCCCGGATTTAGTAACTCGCACAG
*
60981399 ATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCAC-G
1 ATGCCTTCGGA-CTTAGCCCGGATTTAGTAACTCGCACAG
* * * *
60981438 AATGCCTTCGGATCTTAGTCC-GATATAGTCACTTAGCACA-
1 -ATGCCTTCGGA-CTTAGCCCGGATTTAGTAAC-TCGCACAG
*
60981478 AAGCCTTCGGGACTTAGCCCGGA
1 ATGCCTTC-GGACTTAGCCCGGA
60981501 CATCATTCGA
Statistics
Matches: 123, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
39 34 0.28
40 87 0.71
41 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
ATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCACAG
Found at i:60981477 original size:80 final size:80
Alignment explanation
Indices: 60981317--60981500 Score: 218
Period size: 80 Copynumber: 2.3 Consensus size: 80
60981307 GCTACTCGTT
*
60981317 CAAATGCCTTCGGACATAGCCCGG-TTATAGTAACTCGCACAGATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGACTTAGCCCGGATTATAGTAACTCGCACAGATGCCTTCGGGACTTAACCCGG
* *
60981381 ATTTAGTAACTCGCA
66 ATATAGTAACTAGCA
* **
60981396 CAAATGCCTTCGGATCTTAGTCCGGATT-TAGTAACTCGCAC-GAATGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCGGA-CTTAGCCCGGATTATAGTAACTCGCACAG-ATGCCTTCGGGA-CTTAACC
*
60981458 C-GATATAGTCACTTAGCA
63 CGGATATAGTAAC-TAGCA
60981476 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTC-GGACTTAGCCCGGA
60981501 CATCATTCGA
Statistics
Matches: 91, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
79 43 0.47
80 46 0.51
81 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGACTTAGCCCGGATTATAGTAACTCGCACAGATGCCTTCGGGACTTAACCCGG
ATATAGTAACTAGCA
Found at i:60990355 original size:22 final size:22
Alignment explanation
Indices: 60990328--60990370 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
60990318 ATGGCAATAC
*
60990328 ATATATACAACATCAAAAAGTT
1 ATATATACAACAACAAAAAGTT
**
60990350 ATATATTTAACAACAAAAAGT
1 ATATATACAACAACAAAAAGT
60990371 CAAGCCTATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.05, T:0.28
Consensus pattern (22 bp):
ATATATACAACAACAAAAAGTT
Found at i:60990546 original size:25 final size:25
Alignment explanation
Indices: 60990512--60990571 Score: 120
Period size: 25 Copynumber: 2.4 Consensus size: 25
60990502 GGCAACAGAG
60990512 TAAGCATTTCTATGCTTAGTAATTT
1 TAAGCATTTCTATGCTTAGTAATTT
60990537 TAAGCATTTCTATGCTTAGTAATTT
1 TAAGCATTTCTATGCTTAGTAATTT
60990562 TAAGCATTTC
1 TAAGCATTTC
60990572 AAACAATTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.28, C:0.13, G:0.12, T:0.47
Consensus pattern (25 bp):
TAAGCATTTCTATGCTTAGTAATTT
Found at i:60992488 original size:40 final size:40
Alignment explanation
Indices: 60992433--60992596 Score: 188
Period size: 40 Copynumber: 4.1 Consensus size: 40
60992423 TGAATGATAC
* * *
60992433 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
60992473 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * * * *
60992513 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
60992553 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
60992593 CCGG
1 CCGG
60992597 TTAAATCCCG
Statistics
Matches: 105, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
39 3 0.03
40 97 0.92
41 5 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:60992566 original size:80 final size:80
Alignment explanation
Indices: 60992433--60992610 Score: 209
Period size: 80 Copynumber: 2.2 Consensus size: 80
60992423 TGAATGATAC
* * * * * *
60992433 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGC-ATTC
1 CCGGGTTAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATT-
*
60992497 GTGCGAGTTGTTATAT
65 GTGCGAGTGGTTATAT
* * *
60992513 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAATCCGGGTTAAGACCCGAAGGCAATTG
1 CCGGGTTAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATTG
**
60992578 TGCTTGTGGTTATAT
66 TGCGAGTGGTTATAT
60992593 CC-GGTTAA-ATCCCGAAGG
1 CCGGGTTAAGA-CCCGAAGG
60992611 TACGTGACTC
Statistics
Matches: 84, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
79 14 0.17
80 66 0.79
81 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGGGTTAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATTG
TGCGAGTGGTTATAT
Found at i:61000613 original size:40 final size:40
Alignment explanation
Indices: 61000558--61000721 Score: 188
Period size: 40 Copynumber: 4.1 Consensus size: 40
61000548 TGAATGATAC
* * *
61000558 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
61000598 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * * * *
61000638 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
61000678 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
61000718 CCGG
1 CCGG
61000722 TTAAATCCCG
Statistics
Matches: 105, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
39 3 0.03
40 97 0.92
41 5 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:61000691 original size:80 final size:80
Alignment explanation
Indices: 61000558--61000735 Score: 209
Period size: 80 Copynumber: 2.2 Consensus size: 80
61000548 TGAATGATAC
* * * * * *
61000558 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGC-ATTC
1 CCGGGTTAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATT-
*
61000622 GTGCGAGTTGTTATAT
65 GTGCGAGTGGTTATAT
* * *
61000638 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAATCCGGGTTAAGACCCGAAGGCAATTG
1 CCGGGTTAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATTG
**
61000703 TGCTTGTGGTTATAT
66 TGCGAGTGGTTATAT
61000718 CC-GGTTAA-ATCCCGAAGG
1 CCGGGTTAAGA-CCCGAAGG
61000736 TACGTGACTC
Statistics
Matches: 84, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
79 14 0.17
80 66 0.79
81 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGGGTTAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATTG
TGCGAGTGGTTATAT
Found at i:61009224 original size:11 final size:11
Alignment explanation
Indices: 61009208--61009245 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
61009198 TACATGATTG
61009208 ATATGATATGC
1 ATATGATATGC
*
61009219 ATATGATCTG-
1 ATATGATATGC
61009229 -TATGATATGC
1 ATATGATATGC
61009239 ATATGAT
1 ATATGAT
61009246 GTATTCATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 8 0.35
11 15 0.65
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.39
Consensus pattern (11 bp):
ATATGATATGC
Found at i:61009360 original size:23 final size:24
Alignment explanation
Indices: 61009295--61009389 Score: 149
Period size: 24 Copynumber: 4.0 Consensus size: 24
61009285 GAAGAAGTAC
61009295 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
61009319 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
61009343 AAAAGGGCTT-TGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
61009366 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
61009390 ATGATAAAGA
Statistics
Matches: 67, Mismatches: 1, Indels: 5
0.92 0.01 0.07
Matches are distributed among these distances:
23 19 0.28
24 40 0.60
25 8 0.12
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:61009386 original size:48 final size:48
Alignment explanation
Indices: 61009295--61009389 Score: 149
Period size: 47 Copynumber: 2.0 Consensus size: 48
61009285 GAAGAAGTAC
*
61009295 AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTAGGCCCCAGTTATT
61009343 AAAAGGGCTT-TGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATTAAAAG-GGCTTAGGCC-CCAGTTAT
61009390 ATGATAAAGA
Statistics
Matches: 44, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
47 23 0.52
48 21 0.48
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.27
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTAGGCCCCAGTTATT
Found at i:61017172 original size:25 final size:24
Alignment explanation
Indices: 61017125--61017172 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
61017115 TTATAATATG
* *
61017125 AAAAAGACCATTTTGCCCCTAGGT
1 AAAAAGACCATTATACCCCTAGGT
*
61017149 AAAAATGACCATTATACCCTTAGG
1 AAAAA-GACCATTATACCCCTAGG
61017173 GTTTAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (24 bp):
AAAAAGACCATTATACCCCTAGGT
Found at i:61017234 original size:20 final size:20
Alignment explanation
Indices: 61017209--61017274 Score: 107
Period size: 20 Copynumber: 3.3 Consensus size: 20
61017199 ATTTTGATAT
61017209 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
61017229 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
61017249 ACATGATCTGTATGATATGC
1 ACATGATATGTATGATATGC
61017269 ACATGA
1 ACATGA
61017275 GTATTCATAA
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
20 42 0.95
21 2 0.05
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:61017236 original size:11 final size:11
Alignment explanation
Indices: 61017220--61017274 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
61017210 CATGATTGAT
61017220 ATGATATGCAC
1 ATGATATGCAC
*
61017231 ATGATATG--T
1 ATGATATGCAC
61017240 ATGATATGCAC
1 ATGATATGCAC
* *
61017251 ATGATCTG--T
1 ATGATATGCAC
61017260 ATGATATGCAC
1 ATGATATGCAC
61017271 ATGA
1 ATGA
61017275 GTATTCATAA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.33
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:61017351 original size:24 final size:24
Alignment explanation
Indices: 61017324--61017418 Score: 131
Period size: 24 Copynumber: 4.0 Consensus size: 24
61017314 GAGGAAGTAC
61017324 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
61017348 AAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
61017372 AAAAGGGCTT-TGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
61017395 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
61017419 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
23 19 0.29
24 39 0.60
25 7 0.11
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:61017389 original size:23 final size:24
Alignment explanation
Indices: 61017324--61017404 Score: 137
Period size: 24 Copynumber: 3.4 Consensus size: 24
61017314 GAGGAAGTAC
*
61017324 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCTAGTTATT
61017348 AAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCTAGTTATT
61017372 AAAAGGGCTT-TGCCCTAGTTATT
1 AAAAGGGCTTATGCCCTAGTTATT
61017395 AAAAGAGGCT
1 AAAAG-GGCT
61017405 AGGCCTCCAG
Statistics
Matches: 55, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
23 18 0.33
24 37 0.67
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCTAGTTATT
Found at i:61018351 original size:23 final size:23
Alignment explanation
Indices: 61018321--61018364 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
61018311 GCACGTCACG
61018321 TCGGCCATAACGTCTGGGTCGAT
1 TCGGCCATAACGTCTGGGTCGAT
61018344 TCGGCCATAACGTCTGGGTCG
1 TCGGCCATAACGTCTGGGTCG
61018365 GGTTTGGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.16, C:0.27, G:0.32, T:0.25
Consensus pattern (23 bp):
TCGGCCATAACGTCTGGGTCGAT
Found at i:61018398 original size:9 final size:9
Alignment explanation
Indices: 61018384--61018436 Score: 52
Period size: 9 Copynumber: 5.4 Consensus size: 9
61018374 TGTTACATGG
61018384 TATGTATGA
1 TATGTATGA
61018393 TATGTACATGA
1 TATGT--ATGA
*
61018404 CATGTATGA
1 TATGTATGA
*
61018413 TATGCACATGA
1 TATG--TATGA
61018424 TATGTATGA
1 TATGTATGA
61018433 TATG
1 TATG
61018437 CACATGATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
9 20 0.56
11 16 0.44
ACGTcount: A:0.34, C:0.08, G:0.21, T:0.38
Consensus pattern (9 bp):
TATGTATGA
Found at i:61018402 original size:20 final size:20
Alignment explanation
Indices: 61018378--61018444 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
61018368 TTGGGGTGTT
* *
61018378 ACATGGTATGTATGATATGT
1 ACATGATATGTATGATATGC
*
61018398 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
61018418 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
61018438 ACATGAT
1 ACATGAT
61018445 GTAATCATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:61018536 original size:22 final size:23
Alignment explanation
Indices: 61018495--61018542 Score: 89
Period size: 22 Copynumber: 2.1 Consensus size: 23
61018485 AGGAAGTGCA
61018495 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
61018518 AAAGGGCTTATG-CCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
61018540 AAA
1 AAA
61018543 AGAGGCTAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 13 0.52
23 12 0.48
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:61018544 original size:23 final size:24
Alignment explanation
Indices: 61018494--61018563 Score: 92
Period size: 23 Copynumber: 3.0 Consensus size: 24
61018484 GAGGAAGTGC
61018494 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
61018518 -AAAGGGCTTATG-CCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
61018540 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
61018564 ATGATAAAGC
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
22 10 0.24
23 19 0.46
24 4 0.10
25 8 0.20
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:61026628 original size:11 final size:11
Alignment explanation
Indices: 61026592--61026647 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
61026582 CATGGTATGT
61026592 ATGATATGCAC
1 ATGATATGCAC
* *
61026603 ATGACATG--T
1 ATGATATGCAC
61026612 ATGATATGCAC
1 ATGATATGCAC
*
61026623 ATGATATG--T
1 ATGATATGCAC
61026632 ATGATATGCAC
1 ATGATATGCAC
61026643 ATGAT
1 ATGAT
61026648 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:61026647 original size:20 final size:20
Alignment explanation
Indices: 61026581--61026647 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
61026571 ATTTTGATAA
*
61026581 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
61026601 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
61026621 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
61026641 ACATGAT
1 ACATGAT
61026648 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:61026724 original size:24 final size:24
Alignment explanation
Indices: 61026697--61026840 Score: 227
Period size: 24 Copynumber: 6.0 Consensus size: 24
61026687 GAGGAAGTGC
*
61026697 AAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
61026721 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
61026745 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
61026769 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
61026793 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
61026817 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
61026841 ATGATAAAGC
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
24 101 0.90
25 11 0.10
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:61030327 original size:40 final size:40
Alignment explanation
Indices: 61030270--61030417 Score: 158
Period size: 40 Copynumber: 3.7 Consensus size: 40
61030260 TCGAATGATG
* *
61030270 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-AAGTGACCAAA
* **
61030310 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCAAGTGACCAAA
* **
61030350 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCAAGTGACCAAA
**
61030390 TCCGGGTTAAG-TCCCGAAGGCATTTGTG
1 TCCGGACTAAGAT-CCGAAGGCATTTGTG
61030418 TGAGCTATTA
Statistics
Matches: 98, Mismatches: 7, Indels: 6
0.88 0.06 0.05
Matches are distributed among these distances:
39 1 0.01
40 89 0.91
41 8 0.08
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCAAGTGACCAAA
Found at i:61032345 original size:40 final size:40
Alignment explanation
Indices: 61032301--61032456 Score: 226
Period size: 40 Copynumber: 3.9 Consensus size: 40
61032291 GGATATAGCT
* * *
61032301 ACTCGCTCAAATGCCTTCGGGACATAGCTCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* *
61032341 ACTCGCACCAATGCCTTCGGGACTTAGCCCGGATT-TGGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTATAGTA
*
61032381 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-AATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTA
61032421 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
61032457 CATCCGAATA
Statistics
Matches: 103, Mismatches: 9, Indels: 8
0.86 0.08 0.07
Matches are distributed among these distances:
40 100 0.97
41 3 0.03
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:61040329 original size:40 final size:40
Alignment explanation
Indices: 61040285--61040478 Score: 254
Period size: 40 Copynumber: 4.9 Consensus size: 40
61040275 GGATATAGCT
* *
61040285 ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* *
61040325 ACTCGCACCAATG-CTT-GGGACTTAGCCCGGATT-TGGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTATAGTA
*
61040363 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-AATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTA
* *
61040403 ACTCGCACAAATGCCTTCGGGACTTAGCCCAG-AATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTA
*
61040443 ACTCACACAAATGCCTTCGGGACTTAGCCCGGTTAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
61040479 CATCCAATTA
Statistics
Matches: 137, Mismatches: 11, Indels: 12
0.86 0.07 0.08
Matches are distributed among these distances:
38 29 0.21
39 8 0.06
40 99 0.72
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:61044176 original size:48 final size:48
Alignment explanation
Indices: 61044024--61044231 Score: 187
Period size: 48 Copynumber: 4.4 Consensus size: 48
61044014 TAGGGTTATG
* * * *
61044024 TATGATCCTATGTAAGACCATGTCTGGGACATGGCTTTGGCATTGATA
1 TATGATCCCATGTAAGACCATGCCTGGGACATGGCATTGGCATCGATA
** ** * * *
61044072 TACAATTTCATGTAAGATCATAG-CTGGG-C-T---ATCGGCATTGATA
1 TATGATCCCATGTAAGACCAT-GCCTGGGACATGGCATTGGCATCGATA
* **
61044115 GATGATCTTATGTAAGACCATGCCTGGGACATGGCATTGGCATCGACT-
1 TATGATCCCATGTAAGACCATGCCTGGGACATGGCATTGGCATCGA-TA
* * *
61044163 TATGATCCCATGTAATACCATGTCTGGGACATGGCATTGGGATCGATA
1 TATGATCCCATGTAAGACCATGCCTGGGACATGGCATTGGCATCGATA
*
61044211 TGTGATCCCATGTAAGACCAT
1 TATGATCCCATGTAAGACCAT
61044232 ATCTGGGATA
Statistics
Matches: 127, Mismatches: 24, Indels: 18
0.75 0.14 0.11
Matches are distributed among these distances:
42 1 0.01
43 31 0.24
44 1 0.01
45 1 0.01
46 1 0.01
47 2 0.02
48 88 0.69
49 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (48 bp):
TATGATCCCATGTAAGACCATGCCTGGGACATGGCATTGGCATCGATA
Found at i:61044248 original size:17 final size:17
Alignment explanation
Indices: 61044226--61044260 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
61044216 TCCCATGTAA
61044226 GACCATATCTGGGATAT
1 GACCATATCTGGGATAT
61044243 GACCATATCTGGGATAT
1 GACCATATCTGGGATAT
61044260 G
1 G
61044261 GCATTGGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.29
Consensus pattern (17 bp):
GACCATATCTGGGATAT
Found at i:61045689 original size:21 final size:22
Alignment explanation
Indices: 61045646--61045685 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
61045636 TGTAACCCTG
61045646 TTTCATAACAATTCTTCTAAGT
1 TTTCATAACAATTCTTCTAAGT
*
61045668 TTTCCTAA-AATT-TTCTAA
1 TTTCATAACAATTCTTCTAA
61045686 AGTTCTTGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 4 0.24
22 7 0.41
ACGTcount: A:0.33, C:0.17, G:0.03, T:0.47
Consensus pattern (22 bp):
TTTCATAACAATTCTTCTAAGT
Found at i:61049664 original size:48 final size:46
Alignment explanation
Indices: 61049564--61049728 Score: 165
Period size: 46 Copynumber: 3.6 Consensus size: 46
61049554 GTGTCGATGC
* * ** * *
61049564 CATGTCCCAGACAGGTTTTACACT--AACACATGTCAA-GCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCACATCTCAAGGCCAATG
* * *
61049607 CCATGTCCCAGACAGGTCTTACACTGGCTTGCACATCTCGAGGCTAATG
1 -CATGTCCCAGACATGTCTTACACTGGC-T-CACATCTCAAGGCCAATG
* * * *
61049656 CATGTCCCAGACATGTCTTACACTGGCTCTCGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCACATCTCAAGGCCAATG
61049702 CATGTCCCAGACATGTCTTACACTGGC
1 CATGTCCCAGACATGTCTTACACTGGC
61049729 ACATATATCA
Statistics
Matches: 102, Mismatches: 14, Indels: 8
0.82 0.11 0.06
Matches are distributed among these distances:
44 23 0.23
46 39 0.38
47 1 0.01
48 34 0.33
49 5 0.05
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTCACATCTCAAGGCCAATG
Found at i:61049716 original size:46 final size:47
Alignment explanation
Indices: 61049411--61049728 Score: 217
Period size: 48 Copynumber: 6.8 Consensus size: 47
61049401 ATAAAGAACG
* * * * *
61049411 ATGCTGATTCCATGTTCCAAACATGGTCTTACACTGGCTCACA-CATCTA
1 ATGCCGATGCCATGTCCCAGACA-GGTCTTACACTGGCTCTCATC-TC-A
* * * * * *
61049460 A-GTCGATGCCATGT-CTAGACAGGTCTTAAACTGACT-TCCATATGTCG
1 ATGCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCT-C--ATCTCA
* *
61049507 AGGCCGATGCCATGTCCCAG--AGGTCTTACACTGGCTCTCATCTATCG
1 ATGCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATC--TCA
* * * ** * *
61049554 GTGTCGATGCCATGTCCCAGACAGGTTTTACACT--AACACATGTCA
1 ATGCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTCA
* *
61049599 A-GCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTTGCACATCTCG
1 ATGCCGATGCCATGTCCCAGACAGGTCTTACACTGGC-T-CTCATCTCA
* ** * *
61049647 AGGCTAATG-CATGTCCCAGACATGTCTTACACTGGCTCTCGTCTCA
1 ATGCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTCA
*
61049693 ATGCCGATG-CATGTCCCAGACATGTCTTACACTGGC
1 ATGCCGATGCCATGTCCCAGACAGGTCTTACACTGGC
61049729 ACATATATCA
Statistics
Matches: 213, Mismatches: 40, Indels: 35
0.74 0.14 0.12
Matches are distributed among these distances:
44 30 0.14
45 4 0.02
46 53 0.25
47 46 0.22
48 60 0.28
49 20 0.09
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.27
Consensus pattern (47 bp):
ATGCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTCA
Found at i:61054770 original size:33 final size:33
Alignment explanation
Indices: 61054727--61054836 Score: 166
Period size: 33 Copynumber: 3.3 Consensus size: 33
61054717 TGCATTTTGC
61054727 ACTGTACTGATACTGAATAGGGCTTTGGCCCAG
1 ACTGTACTGATACTGAATAGGGCTTTGGCCCAG
* *
61054760 ACTGTGCTGATACTGAATAGGGCTTTGGCCCAA
1 ACTGTACTGATACTGAATAGGGCTTTGGCCCAG
* * *
61054793 ACTGTACTAATACTGAGTAGGGCTTTGCCCCAG
1 ACTGTACTGATACTGAATAGGGCTTTGGCCCAG
*
61054826 ACTGTGCTGAT
1 ACTGTACTGAT
61054837 GCTGTATTAT
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 68 1.00
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (33 bp):
ACTGTACTGATACTGAATAGGGCTTTGGCCCAG
Found at i:61055140 original size:17 final size:18
Alignment explanation
Indices: 61055100--61055142 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
61055090 AGTCTAGGTA
*
61055100 AACACGAGTTTTTAGAAT
1 AACACGAGTTTTTAGAAG
* *
61055118 AGCACGATTTTTTA-AAG
1 AACACGAGTTTTTAGAAG
61055135 AACACGAG
1 AACACGAG
61055143 CTTTCAACAA
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.28
Consensus pattern (18 bp):
AACACGAGTTTTTAGAAG
Found at i:61062509 original size:21 final size:23
Alignment explanation
Indices: 61062485--61062535 Score: 70
Period size: 21 Copynumber: 2.3 Consensus size: 23
61062475 TATCCCCACA
*
61062485 GGTGTGCTGGTTGG-TATGGG-T
1 GGTGTGCTGGATGGTTATGGGAT
61062506 GGTGTGCTGGATGGTTATGGGAT
1 GGTGTGCTGGATGGTTATGGGAT
*
61062529 GGGGTGC
1 GGTGTGC
61062536 ACTTTGCACT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 13 0.50
22 6 0.23
23 7 0.27
ACGTcount: A:0.08, C:0.06, G:0.53, T:0.33
Consensus pattern (23 bp):
GGTGTGCTGGATGGTTATGGGAT
Found at i:61065089 original size:21 final size:21
Alignment explanation
Indices: 61065065--61065107 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
61065055 ACATGTTCAG
61065065 TATATGTATAAATTAT-TTTAA
1 TATAT-TATAAATTATGTTTAA
* *
61065086 TATATTTTAGATTATGTTTAA
1 TATATTATAAATTATGTTTAA
61065107 T
1 T
61065108 TTATATCATG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (21 bp):
TATATTATAAATTATGTTTAA
Found at i:61070136 original size:47 final size:46
Alignment explanation
Indices: 61070019--61070191 Score: 189
Period size: 45 Copynumber: 3.8 Consensus size: 46
61070009 GGATGGTTGA
61070019 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTA-GGATGCGAAT
* *
61070066 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GT-GAGATG-TAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTAG-GATGCGAA-T
*
61070109 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TA-GGATGCGAAT
* *
61070159 GC--CTGAGCTCGTTGAGTTGAGTCCGAGTTCACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
61070192 TAGGGGCGGG
Statistics
Matches: 108, Mismatches: 7, Indels: 24
0.78 0.05 0.17
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
44 1 0.01
45 31 0.29
46 28 0.26
47 30 0.28
48 2 0.02
49 1 0.01
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (46 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTAGGATGCGAAT
Found at i:61070188 original size:93 final size:92
Alignment explanation
Indices: 61070019--61070188 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 92
61070009 GGATGGTTGA
*
61070019 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAACGTCCGAACTCGTTGAGTT
61070084 GAGTCCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
*
61070111 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TATGGATGCGAACGTCC-GAACTCGTTGAG
61070175 TTGAGTCCGAGTTC
64 TTGAGTCCGAGTTC
61070189 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
92 36 0.49
93 38 0.51
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAACGTCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:61078280 original size:27 final size:28
Alignment explanation
Indices: 61078249--61078318 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
61078239 ATATAGTGTC
*
61078249 CGCACACTTAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
61078276 CGCACACTTAGTGCTACATGATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
61078304 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
61078319 GTACAAGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:61086203 original size:40 final size:40
Alignment explanation
Indices: 61086143--61086306 Score: 179
Period size: 40 Copynumber: 4.1 Consensus size: 40
61086133 CGGGATTCAA
* ** *
61086143 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
* *** *
61086183 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
61086223 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATTGCCTTCGGGTCTTAGC
* * * *
61086263 CCGGATATAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CAACTCGCACAATTGCCTTCGGGTCTTAGC
61086303 CCGG
1 CCGG
61086307 GTATCATTCA
Statistics
Matches: 105, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
39 2 0.02
40 100 0.95
41 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
Found at i:61086290 original size:80 final size:80
Alignment explanation
Indices: 61086143--61086306 Score: 204
Period size: 80 Copynumber: 2.0 Consensus size: 80
61086133 CGGGATTCAA
* * ** * *
61086143 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAATTG
1 CCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATG
*
61086208 CCTTCGGGTCTTAGC
66 CCTTCGGGACTTAGC
** * * *
61086223 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAAT
1 CCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAAT
61086287 GCCTTCGGGACTTAGC
65 GCCTTCGGGACTTAGC
61086303 CCGG
1 CCGG
61086307 GTATCATTCA
Statistics
Matches: 71, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
80 69 0.97
81 2 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATG
CCTTCGGGACTTAGC
Found at i:61088601 original size:25 final size:25
Alignment explanation
Indices: 61088573--61088651 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 25
61088563 ACTCGGCCCT
*
61088573 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACATTCACATTC
** * *
61088598 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACATTC-ACATTC
*
61088620 ATCACATATATACACCTTCACATTC
1 ATCACATATATACACATTCACATTC
61088645 ATCACAT
1 ATCACAT
61088652 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.30, G:0.05, T:0.33
Consensus pattern (25 bp):
ATCACATATATACACATTCACATTC
Found at i:61088697 original size:49 final size:49
Alignment explanation
Indices: 61088523--61088972 Score: 705
Period size: 49 Copynumber: 9.3 Consensus size: 49
61088513 CCCTTTGGGA
* * * * * * * *
61088523 CTTATCACAT-T-TATACACTTCCATATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
61088570 CCTATCACATATAT--ACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
61088617 CTTATCACATATATACAC-C-TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
61088664 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
*
61088713 CTTATCACATATATACACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
*
61088762 CTTATCACATATATACACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
61088811 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
61088860 CTTATCGCATATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
*
61088909 CTTATCACATATATACACACTTTCACATTCGTCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
61088958 CTTATCACATATATA
1 CTTATCACATATATA
61088973 TATCTCATAT
Statistics
Matches: 379, Mismatches: 18, Indels: 10
0.93 0.04 0.02
Matches are distributed among these distances:
47 94 0.25
48 3 0.01
49 282 0.74
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:61091423 original size:28 final size:27
Alignment explanation
Indices: 61091332--61091445 Score: 115
Period size: 27 Copynumber: 4.2 Consensus size: 27
61091322 AGCATGGCTG
* * *
61091332 CCAG-AACAGATATTGTGACAGAGTCA
1 CCAGAAACAGATATTGTGGCATAGCCA
* * * *
61091358 CCAGATACAGATATTTTGGTAAAGCCA
1 CCAGAAACAGATATTGTGGCATAGCCA
*
61091385 CCTG-AACAGATATCTGTGGCATAGCCA
1 CCAGAAACAGATAT-TGTGGCATAGCCA
61091412 CCAGAAACAGATAATTGTGGCATAGCCA
1 CCAGAAACAGAT-ATTGTGGCATAGCCA
*
61091440 CTAGAA
1 CCAGAA
61091446 CGCTTCCTCC
Statistics
Matches: 71, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
26 12 0.17
27 32 0.45
28 25 0.35
29 2 0.03
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (27 bp):
CCAGAAACAGATATTGTGGCATAGCCA
Found at i:61091610 original size:27 final size:28
Alignment explanation
Indices: 61091550--61091613 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
61091540 AAATTAACCC
* *
61091550 TAGGGGTATAATGGTCATTTTGCATACT
1 TAGGGGTATAATGGTAATTGTGCATACT
61091578 TAGGGGTATAATGGTAATTGT-CATACT
1 TAGGGGTATAATGGTAATTGTGCATACT
61091605 TAGGGGTAT
1 TAGGGGTAT
61091614 TTTAGTAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 15 0.44
28 19 0.56
ACGTcount: A:0.27, C:0.08, G:0.28, T:0.38
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTGTGCATACT
Found at i:61096815 original size:8 final size:8
Alignment explanation
Indices: 61096802--61096852 Score: 50
Period size: 8 Copynumber: 6.4 Consensus size: 8
61096792 GTAGATCGGC
61096802 AAAAGCCG
1 AAAAGCCG
61096810 AAAAGCCG
1 AAAAGCCG
*
61096818 AAATGCCG
1 AAAAGCCG
*
61096826 AAAAGTC-
1 AAAAGCCG
*
61096833 AAAATGCTG
1 AAAA-GCCG
*
61096842 AAAAGTCG
1 AAAAGCCG
61096850 AAA
1 AAA
61096853 GTTTGGCTGC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
7 4 0.12
8 26 0.76
9 4 0.12
ACGTcount: A:0.51, C:0.18, G:0.22, T:0.10
Consensus pattern (8 bp):
AAAAGCCG
Found at i:61096827 original size:16 final size:16
Alignment explanation
Indices: 61096806--61096852 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
61096796 ATCGGCAAAA
*
61096806 GCCGAAAAGCCGAAAT
1 GCCGAAAAGTCGAAAT
*
61096822 GCCGAAAAGTCAAAAT
1 GCCGAAAAGTCGAAAT
*
61096838 GCTGAAAAGTCGAAA
1 GCCGAAAAGTCGAAA
61096853 GTTTGGCTGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.47, C:0.19, G:0.23, T:0.11
Consensus pattern (16 bp):
GCCGAAAAGTCGAAAT
Found at i:61097107 original size:29 final size:29
Alignment explanation
Indices: 61097064--61097209 Score: 120
Period size: 29 Copynumber: 5.1 Consensus size: 29
61097054 GTGAGCATGT
* *
61097064 ATATAAA-GTGATTTGGGGCTAATGGGCC
1 ATATAAATGTGAATTGGGCCTAATGGGCC
* * *
61097092 ATATAAAGGTGATTTGGGCCTAATAGGCC
1 ATATAAATGTGAATTGGGCCTAATGGGCC
* * * *
61097121 ATATGAATATGAATTGGGCCTGATGGGCT
1 ATATAAATGTGAATTGGGCCTAATGGGCC
* * * *
61097150 ATATGAATGTGAATTGGGGCTGATGGGCA
1 ATATAAATGTGAATTGGGCCTAATGGGCC
* *
61097179 ATATGAATGAG-A-TGGGCC-AAGTGGGCC
1 ATATAAATGTGAATTGGGCCTAA-TGGGCC
61097206 ATAT
1 ATAT
61097210 GCATGTATGT
Statistics
Matches: 100, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
26 1 0.01
27 14 0.14
28 8 0.08
29 77 0.77
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.27
Consensus pattern (29 bp):
ATATAAATGTGAATTGGGCCTAATGGGCC
Found at i:61101543 original size:24 final size:23
Alignment explanation
Indices: 61101516--61101591 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 23
61101506 TGCTCTTTCA
61101516 AGCTATGAACAGTAAGCTTTGACG
1 AGCTATGAACAGTAAGCTTT-ACG
* *
61101540 AGC--TGAAACAGTAAGCTCATACA
1 AGCTATG-AACAGTAAGCT-TTACG
61101563 AGCTGA-GAACAGTAAGCTTTTACG
1 AGCT-ATGAACAGTAAGC-TTTACG
61101587 AGCTA
1 AGCTA
61101592 ATATATCGGT
Statistics
Matches: 42, Mismatches: 4, Indels: 13
0.71 0.07 0.22
Matches are distributed among these distances:
22 2 0.05
23 17 0.40
24 21 0.50
25 2 0.05
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.22
Consensus pattern (23 bp):
AGCTATGAACAGTAAGCTTTACG
Found at i:61101553 original size:23 final size:23
Alignment explanation
Indices: 61101522--61101590 Score: 86
Period size: 23 Copynumber: 2.9 Consensus size: 23
61101512 TTCAAGCTAT
61101522 GAACAGTAAGCTTTGACGAGCTGA
1 GAACAGTAAGCTTT-ACGAGCTGA
* *
61101546 -AACAGTAAGCTCATACAAGCTGA
1 GAACAGTAAGCT-TTACGAGCTGA
61101569 GAACAGTAAGCTTTTACGAGCT
1 GAACAGTAAGC-TTTACGAGCT
61101591 AATATATCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
23 19 0.50
24 18 0.47
25 1 0.03
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (23 bp):
GAACAGTAAGCTTTACGAGCTGA
Found at i:61101783 original size:25 final size:25
Alignment explanation
Indices: 61101754--61101804 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
61101744 CTCATAATTC
61101754 AAGTGGAACAATTACTCAATTATAT
1 AAGTGGAACAATTACTCAATTATAT
*
61101779 AAGTGGATCAATTACTCAATTATAT
1 AAGTGGAACAATTACTCAATTATAT
61101804 A
1 A
61101805 CATTCATTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (25 bp):
AAGTGGAACAATTACTCAATTATAT
Found at i:61110294 original size:40 final size:40
Alignment explanation
Indices: 61110248--61110491 Score: 339
Period size: 40 Copynumber: 6.1 Consensus size: 40
61110238 CGGGAGGTAA
* * *
61110248 CCGGATATAGCT-ACTCGCTCAAATGCATTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
61110288 CCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
61110328 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
61110368 CCAGATATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
61110408 CCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * ** *
61110448 CCGGA-ACTAGTCACTAGTGCCAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
61110488 CCGG
1 CCGG
61110492 TTATCATCCT
Statistics
Matches: 186, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 184 0.99
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:61118284 original size:40 final size:40
Alignment explanation
Indices: 61118222--61118476 Score: 351
Period size: 40 Copynumber: 6.5 Consensus size: 40
61118212 AAGCCAAGTA
* * * *
61118222 CCTTCGGGAGTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
61118261 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
61118301 CCTTCGGGACTTAG-CCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
61118340 CCTTCGGGACTTA-ACCGGATATAGTAACTC-CACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
61118378 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
61118418 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
61118458 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
61118477 TTATCATCCG
Statistics
Matches: 198, Mismatches: 12, Indels: 11
0.90 0.05 0.05
Matches are distributed among these distances:
38 21 0.11
39 82 0.41
40 95 0.48
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:61122950 original size:12 final size:12
Alignment explanation
Indices: 61122933--61122957 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
61122923 AACCATAAAC
61122933 ACACAAACTTTA
1 ACACAAACTTTA
61122945 ACACAAACTTTA
1 ACACAAACTTTA
61122957 A
1 A
61122958 ATTGAGAGTA
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:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (12 bp):
ACACAAACTTTA
Found at i:61135671 original size:29 final size:28
Alignment explanation
Indices: 61135639--61135741 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
61135629 GTGACGAGAT
* *
61135639 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
61135668 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
61135697 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
61135726 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
61135742 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:61139925 original size:40 final size:40
Alignment explanation
Indices: 61139823--61140042 Score: 280
Period size: 40 Copynumber: 5.5 Consensus size: 40
61139813 TCGAATGATG
* * * *
61139823 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
61139864 TCCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
61139904 ACTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
61139944 TCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
61139984 TCCGGGTTAATTCCCGAAGGCAATTGTGCGAATTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
61140025 -CCGGGCTATGTCCCGAAG
1 TCCGGGTTAAGTCCCGAAG
61140043 ACAATCGAGC
Statistics
Matches: 158, Mismatches: 20, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
40 131 0.83
41 27 0.17
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:61140038 original size:120 final size:121
Alignment explanation
Indices: 61139823--61140042 Score: 316
Period size: 120 Copynumber: 1.8 Consensus size: 121
61139813 TCGAATGATG
* *
61139823 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAAT
* * *
61139888 TGTGCGAGTTACCAAAACTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
66 TGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * * *
61139944 TCCGGGTTAATTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAATTCCCGAAGGCAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAAT
* * *
61140008 TGTGCGAATTACTATAACCGGGCTATGTCCCGAAG
66 TGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAG
61140043 ACAATCGAGC
Statistics
Matches: 86, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
120 60 0.70
121 26 0.30
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (121 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAAT
TGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:61140067 original size:80 final size:80
Alignment explanation
Indices: 61139823--61140082 Score: 206
Period size: 80 Copynumber: 3.2 Consensus size: 80
61139813 TCGAATGATG
* * ** * * * *
61139823 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGG-TCAATTCCCGAAGGCAT
1 TCCGGGTTAATTCCCGAAGGCAATTGTGCGAA-TTACTAAATCCGGGCT-AATTCCCGAAGACAA
* * * *
61139887 TTGTGCGAGTTACCAAA
64 TCGAGCGAGTCACTAAA
* * * * * * * * *
61139904 ACTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAATTCCCGAAGGCATTT
1 TCCGGGTTAATTCCCGAAGGCAATTGTGCGAATTACTAAATCCGGGCTAATTCCCGAAGACAATC
* *
61139969 GTGCGAGTTACTAAA
66 GAGCGAGTCACTAAA
61139984 TCCGGGTTAATTCCCGAAGGCAATTGTGCGAATTACTATAA-CCGGGCT-ATGTCCCGAAGACAA
1 TCCGGGTTAATTCCCGAAGGCAATTGTGCGAATTACTA-AATCCGGGCTAAT-TCCCGAAGACAA
* * *
61140047 TCGAGCTAGTCGCTATA
64 TCGAGCGAGTCACTAAA
61140064 TCC-GGTTAAATT-CCGAAGG
1 TCCGGGTT-AATTCCCGAAGG
61140083 TACGTGATTC
Statistics
Matches: 153, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
79 13 0.08
80 111 0.73
81 29 0.19
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (80 bp):
TCCGGGTTAATTCCCGAAGGCAATTGTGCGAATTACTAAATCCGGGCTAATTCCCGAAGACAATC
GAGCGAGTCACTAAA
Found at i:61140067 original size:120 final size:121
Alignment explanation
Indices: 61139823--61140082 Score: 301
Period size: 120 Copynumber: 2.2 Consensus size: 121
61139813 TCGAATGATG
* * * *
61139823 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATT
1 TCCGGGTTAATTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAAT
* * * * * * * *
61139888 TGTGCGAGTTACCAAAACTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
66 TGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAGACAATCGAGCGAGTCACTAAA
* * *
61139944 TCCGGGTTAATTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAATTCCCGAAGGCAAT
1 TCCGGGTTAATTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAAT
* * * * * *
61140008 TGTGCGAATTACTATAACCGGGCTATGTCCCGAAGACAATCGAGCTAGTCGCTATA
66 TGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAGACAATCGAGCGAGTCACTAAA
61140064 TCC-GGTTAAATT-CCGAAGG
1 TCCGGGTT-AATTCCCGAAGG
61140083 TACGTGATTC
Statistics
Matches: 117, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
119 11 0.09
120 80 0.68
121 26 0.22
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (121 bp):
TCCGGGTTAATTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAAT
TGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAGACAATCGAGCGAGTCACTAAA
Found at i:61148020 original size:40 final size:40
Alignment explanation
Indices: 61147918--61148090 Score: 161
Period size: 40 Copynumber: 4.3 Consensus size: 40
61147908 CGAATGATGT
* * * * *
61147918 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGA-CTAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACCAAAA
* * *
61147958 TCGGGTCAA-TTCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* *
61147997 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * * * * *
61148037 CCGGGTTAATTCCCGAAGGCAATTGTGTGAATTACTATAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* *
61148077 CCGGGCTATGTCCC
1 CCGGGTTAAGTCCC
61148091 AAAGACAATC
Statistics
Matches: 109, Mismatches: 22, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
38 4 0.04
39 27 0.25
40 78 0.72
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
Found at i:61148049 original size:79 final size:80
Alignment explanation
Indices: 61147918--61148090 Score: 224
Period size: 79 Copynumber: 2.2 Consensus size: 80
61147908 CGAATGATGT
* *
61147918 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCGGGTCAATT-CCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCGGGTCAATTCCCGAAGGCAATTG
*
61147982 TGCGAGTTACCAAAA
66 TGCGAATTACCAAAA
* * * *
61147997 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAATTCCCGAAGGCAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAAT-CGGGTCAATTCCCGAAGGCAATT
* * *
61148061 GTGTGAATTACTATAA
65 GTGCGAATTACCAAAA
*
61148077 CCGGGCTATGTCCC
1 CCGGGCTAAGTCCC
61148091 AAAGACAATC
Statistics
Matches: 80, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
78 10 0.12
79 35 0.44
80 35 0.44
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCGGGTCAATTCCCGAAGGCAATTG
TGCGAATTACCAAAA
Found at i:61150581 original size:46 final size:46
Alignment explanation
Indices: 61150531--61150706 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
61150521 TATTTGGGCA
61150531 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
61150577 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
61150624 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
61150670 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
61150707 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:61150686 original size:93 final size:93
Alignment explanation
Indices: 61150527--61150698 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
61150517 TGGATATTTG
* *
61150527 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
61150592 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
61150620 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
61150685 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
61150699 ACTTATGGGC
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:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:61153682 original size:15 final size:15
Alignment explanation
Indices: 61153662--61153730 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
61153652 GTATCTTGGG
61153662 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
61153677 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
61153692 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
61153707 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
61153722 TTTCTTTAT
1 TTTCTTTAT
61153731 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:61153731 original size:30 final size:30
Alignment explanation
Indices: 61153653--61153740 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
61153643 CATAGTATCG
* * * *
61153653 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
61153683 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
61153713 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
61153741 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:61156177 original size:46 final size:46
Alignment explanation
Indices: 61156124--61156299 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
61156114 TATTTGGGCA
61156124 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
61156170 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
61156217 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
61156263 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
61156300 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:61156279 original size:93 final size:93
Alignment explanation
Indices: 61156120--61156291 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
61156110 GGGATATTTG
* *
61156120 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
61156185 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
61156213 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
61156278 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
61156292 ACTTATGGGC
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:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:61157941 original size:46 final size:46
Alignment explanation
Indices: 61157868--61158036 Score: 196
Period size: 46 Copynumber: 3.7 Consensus size: 46
61157858 TAGGGTTTAA
* * * * * *
61157868 TATTACTGTATTGTCAAGTCCATAACACATGCAAGAGCTTAGAACC
1 TATTCCTGTATTCTCGAGTCCACAACACATGCATGAGCTTGGAACC
** *
61157914 TAAACCTGTATTCTCGAGTCCGCAACACATGCATGAGCTTGGAACC
1 TATTCCTGTATTCTCGAGTCCACAACACATGCATGAGCTTGGAACC
* * * *
61157960 TATTCCTGTATTCTCGAGTCCATAACATATGTATGAGCTTGGAACT
1 TATTCCTGTATTCTCGAGTCCACAACACATGCATGAGCTTGGAACC
*
61158006 TATTCTTGTATTCTCGAGT-CAGCAACACATG
1 TATTCCTGTATTCTCGAGTCCA-CAACACATG
61158037 TAGGAGCTCA
Statistics
Matches: 103, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
45 2 0.02
46 101 0.98
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (46 bp):
TATTCCTGTATTCTCGAGTCCACAACACATGCATGAGCTTGGAACC
Found at i:61158031 original size:92 final size:92
Alignment explanation
Indices: 61157868--61158036 Score: 230
Period size: 92 Copynumber: 1.8 Consensus size: 92
61157858 TAGGGTTTAA
*
61157868 TATTACTGTATTGTCAAGTCCATAACACATGCAAGAGCTTAGAACCTAAACCTGTATTCTCGAGT
1 TATTACTGTATTCTCAAGTCCATAACACATGCAAGAGCTTAGAACCTAAACCTGTATTCTCGAGT
*
61157933 CCGCAACACATGCATGAGCTTGGAACC
66 CAGCAACACATGCATGAGCTTGGAACC
* * * * * * * ** *
61157960 TATTCCTGTATTCTCGAGTCCATAACATATGTATGAGCTTGGAACTTATTCTTGTATTCTCGAGT
1 TATTACTGTATTCTCAAGTCCATAACACATGCAAGAGCTTAGAACCTAAACCTGTATTCTCGAGT
61158025 CAGCAACACATG
66 CAGCAACACATG
61158037 TAGGAGCTCA
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
92 65 1.00
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (92 bp):
TATTACTGTATTCTCAAGTCCATAACACATGCAAGAGCTTAGAACCTAAACCTGTATTCTCGAGT
CAGCAACACATGCATGAGCTTGGAACC
Found at i:61159645 original size:13 final size:13
Alignment explanation
Indices: 61159623--61159661 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
61159613 GACTCACCCA
*
61159623 TATTTGATTTTTT
1 TATTTAATTTTTT
61159636 TATTTAA--TTTT
1 TATTTAATTTTTT
61159647 TATTTAATTTTTT
1 TATTTAATTTTTT
61159660 TA
1 TA
61159662 AAAATAATAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
11 11 0.48
13 12 0.52
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (13 bp):
TATTTAATTTTTT
Found at i:61159648 original size:11 final size:11
Alignment explanation
Indices: 61159632--61159658 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
61159622 ATATTTGATT
61159632 TTTTTATTTAA
1 TTTTTATTTAA
61159643 TTTTTATTTAA
1 TTTTTATTTAA
61159654 TTTTT
1 TTTTT
61159659 TTAAAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTTTATTTAA
Found at i:61161062 original size:18 final size:19
Alignment explanation
Indices: 61161039--61161078 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
61161029 TTCAAGCACC
61161039 GTTTTTAA-TGATTTTTAT
1 GTTTTTAAGTGATTTTTAT
**
61161057 GTTTTTAAGTTTTTTTTAT
1 GTTTTTAAGTGATTTTTAT
61161076 GTT
1 GTT
61161079 AATCTAGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.17, C:0.00, G:0.12, T:0.70
Consensus pattern (19 bp):
GTTTTTAAGTGATTTTTAT
Found at i:61168263 original size:28 final size:29
Alignment explanation
Indices: 61168218--61168278 Score: 81
Period size: 28 Copynumber: 2.1 Consensus size: 29
61168208 ATAAAAGTTA
61168218 TTAAATTTTAATAAAAAATATA-AAAATAT
1 TTAAATTTTAATAAAAAAT-TAGAAAATAT
* *
61168247 TTAAATTTT-ATTAAAAATTAGAAAATTT
1 TTAAATTTTAATAAAAAATTAGAAAATAT
61168275 TTAA
1 TTAA
61168279 TAATAATCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 2 0.07
28 18 0.62
29 9 0.31
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (29 bp):
TTAAATTTTAATAAAAAATTAGAAAATAT
Found at i:61168406 original size:20 final size:20
Alignment explanation
Indices: 61168345--61168406 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
61168335 TTATAAAGTC
* *
61168345 GTAAGAAAATTATAAAAAAAT
1 GTAAAAAAATTAT-AAAAATT
* **
61168366 GTAAATAAA-TATAAATTTT
1 GTAAAAAAATTATAAAAATT
61168385 GTAAAAAAATTATAAAAATT
1 GTAAAAAAATTATAAAAATT
61168405 GT
1 GT
61168407 TGTACCAAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
19 12 0.38
20 13 0.41
21 7 0.22
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (20 bp):
GTAAAAAAATTATAAAAATT
Found at i:61168679 original size:20 final size:20
Alignment explanation
Indices: 61168624--61168705 Score: 66
Period size: 20 Copynumber: 4.3 Consensus size: 20
61168614 TTTATAAATT
* *
61168624 TTTTTTCTAATTTTAAAT-A
1 TTTTTTATAATTTTTAATAA
**
61168643 TTTTTTATTAAAATTTAATAA
1 TTTTTTA-TAATTTTTAATAA
* *
61168664 TTTTTTATAATTTTTATTGA
1 TTTTTTATAATTTTTAATAA
61168684 -TTTTTAT--TTTTT-ATAA
1 TTTTTTATAATTTTTAATAA
61168700 TTTTTT
1 TTTTTT
61168706 TTGTAACGCC
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
16 2 0.04
17 10 0.20
19 13 0.26
20 17 0.34
21 8 0.16
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.68
Consensus pattern (20 bp):
TTTTTTATAATTTTTAATAA
Found at i:61169922 original size:13 final size:13
Alignment explanation
Indices: 61169906--61169951 Score: 92
Period size: 13 Copynumber: 3.5 Consensus size: 13
61169896 ATAACACGGG
61169906 CGTGTGGTCAGGC
1 CGTGTGGTCAGGC
61169919 CGTGTGGTCAGGC
1 CGTGTGGTCAGGC
61169932 CGTGTGGTCAGGC
1 CGTGTGGTCAGGC
61169945 CGTGTGG
1 CGTGTGG
61169952 ACCACACGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.07, C:0.22, G:0.48, T:0.24
Consensus pattern (13 bp):
CGTGTGGTCAGGC
Found at i:61170946 original size:13 final size:13
Alignment explanation
Indices: 61170925--61170964 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
61170915 AAGTTAAGGG
*
61170925 TAGTTAACTTTAA
1 TAGTCAACTTTAA
*
61170938 TAGTCAACTGTAA
1 TAGTCAACTTTAA
61170951 TAGTCAACTGTTAA
1 TAGTCAACT-TTAA
61170965 AGTTAATGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
13 20 0.87
14 3 0.13
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (13 bp):
TAGTCAACTTTAA
Found at i:61171157 original size:91 final size:89
Alignment explanation
Indices: 61170985--61171207 Score: 231
Period size: 90 Copynumber: 2.5 Consensus size: 89
61170975 CAAATGATCT
* * * * *
61170985 TTTTAATGCATATTTTAACAGTTCAAGTACCCAATTGAG--TGAAAAAAAATCAGGAGCTTAATT
1 TTTTAATGCA-CTTTGAA-AGTTCAAGTACTCAATTGAGTATAAAAAAAAATCAAGAGCTTAATT
* * *
61171048 GCTTTTTTTGAAAAAGTTTGAGGGACT
64 GCTTTATTAGAAAAAGTTTGAGGG-CC
*
61171075 TTTTGATGCACTTTGAAAGTTCAAGTACTCAATTGAGTACTAAAAAAAAAGT-AAGAGCTTAATT
1 TTTTAATGCACTTTGAAAGTTCAAGTACTCAATTGAGTA-TAAAAAAAAA-TCAAGAGCTTAATT
*
61171139 GCTTTATTAGAAATAGTTTGAGGGCC
64 GCTTTATTAGAAAAAGTTTGAGGGCC
* * * *
61171165 TTTTAATGTATTTTGAAAGTTAAAATA-TCCAATTGAGTA-AAAA
1 TTTTAATGCACTTTGAAAGTTCAAGTACT-CAATTGAGTATAAAA
61171208 GAGTATGGAC
Statistics
Matches: 113, Mismatches: 15, Indels: 12
0.81 0.11 0.09
Matches are distributed among these distances:
88 23 0.20
89 6 0.05
90 42 0.37
91 41 0.36
92 1 0.01
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (89 bp):
TTTTAATGCACTTTGAAAGTTCAAGTACTCAATTGAGTATAAAAAAAAATCAAGAGCTTAATTGC
TTTATTAGAAAAAGTTTGAGGGCC
Found at i:61171721 original size:17 final size:18
Alignment explanation
Indices: 61171701--61171747 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
61171691 TTAATTCCAA
61171701 TATATATTTTTAAAT-TT
1 TATATATTTTTAAATATT
*
61171718 TATAT-TATTTAAAATATT
1 TATATAT-TTTTAAATATT
61171736 TATATATTTTTA
1 TATATATTTTTA
61171748 CAAATATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
16 1 0.04
17 12 0.48
18 11 0.44
19 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TATATATTTTTAAATATT
Found at i:61171762 original size:22 final size:20
Alignment explanation
Indices: 61171714--61171754 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
61171704 ATATTTTTAA
61171714 ATTT-TATATTATTTAAAAT
1 ATTTATATATTATTTAAAAT
61171733 ATTTATATATT-TTTACAAAT
1 ATTTATATATTATTTA-AAAT
61171753 AT
1 AT
61171755 ATTGATATCC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
ATTTATATATTATTTAAAAT
Found at i:61178883 original size:138 final size:138
Alignment explanation
Indices: 61178635--61179191 Score: 839
Period size: 138 Copynumber: 4.0 Consensus size: 138
61178625 TAGAAAAAGA
* * *
61178635 AATTATATTATTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAAAATATTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTAA
* *
61178700 TAAAACTGTTTATATTAATAAATTCGGTAAAATATATACTATTAATATTTTGTATGAATCAAATT
66 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
*
61178765 TATATATT
131 CATATATT
* * *
61178773 AATTATATTCGTTCCAAAAAAATATTAATTTCCATGTCTTTTGTATTTTGACCAAAATTAATTCA
1 AATTATATTCTTTCCAAAAAAATATTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTAA
* *
61178838 TATAACTATTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
61178903 CATATATT
131 CATATATT
*
61178911 AATTATATTCTTTCC-AAAAAATATTAATTTCCACGTCTTTTATATTTTGA-CAGAAATTAATTA
1 AATTATATTCTTTCCAAAAAAATATTAATTTCCATGTCTTTTATATTTTGACCA-AAATTAATTA
* * *
61178974 ATATAATTGTTTATATTAATAAATTCGGTCAAATGTATATACAATTAATATTTTATATGAATCAA
65 ATATAACTGTTTATATTAATAAATTCGGT-AAA-ATATATACAATTAATATTTTGTATGAATCAA
*
61179039 ATTCATTTATT
128 ATTCATATATT
* * * * *
61179050 AACTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTAACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAAAATATTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTAA
* * * *
61179115 TTTAATTGTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATAAATCAAATT
66 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
*
61179180 CTTATATT
131 CATATATT
61179188 AATT
1 AATT
61179192 TTATCTATGT
Statistics
Matches: 379, Mismatches: 35, Indels: 10
0.89 0.08 0.02
Matches are distributed among these distances:
136 2 0.01
137 68 0.18
138 184 0.49
139 56 0.15
140 68 0.18
141 1 0.00
ACGTcount: A:0.40, C:0.09, G:0.06, T:0.45
Consensus pattern (138 bp):
AATTATATTCTTTCCAAAAAAATATTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTAA
TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
CATATATT
Found at i:61179147 original size:277 final size:276
Alignment explanation
Indices: 61178635--61179191 Score: 882
Period size: 277 Copynumber: 2.0 Consensus size: 276
61178625 TAGAAAAAGA
* *
61178635 AATTATATTATTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTATTTCCAAAAGAATATTAATTTCCACGTCTTTTATATTTTGACAGAAATTAATTAA
* *
61178700 TAAAACTGTTTATATTAATAAATTCGGTAAAATATATACTATTAATATTTTGTATGAATCAAATT
66 TAAAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTATATGAATCAAATT
* * * *
61178765 TATATATTAATTATATTCGTTCCAAAAAAATATTAATTTCCATGTCTTTTGTATTTTGACCAAAA
131 CATATATTAACTATATTCGTTCCAAAAAAATATTAATTTCCATGTCTTTTATATTTTAACCAAAA
* *
61178830 TTAATTCATATAACTATTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGA
196 TTAATTAATATAACTATTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATAA
61178895 ATCAAATTCATATATT
261 ATCAAATTCATATATT
*
61178911 AATTATATTCTTTCCAAAA-AATATTAATTTCCACGTCTTTTATATTTTGACAGAAATTAATTAA
1 AATTATATTATTTCCAAAAGAATATTAATTTCCACGTCTTTTATATTTTGACAGAAATTAATTAA
* * *
61178975 TATAATTGTTTATATTAATAAATTCGGTCAAATGTATATACAATTAATATTTTATATGAATCAAA
66 TAAAACTGTTTATATTAATAAATTCGGT-AAA-ATATATACAATTAATATTTTATATGAATCAAA
* * * * *
61179040 TTCATTTATTAACTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTAACCGA
129 TTCATATATTAACTATATTCGTTCCAAAAAAATATTAATTTCCATGTCTTTTATATTTTAACCAA
* * *
61179105 AATTAATTAATTTAATTGTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTAT
194 AATTAATTAATATAACTATTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTAT
*
61179170 AAATCAAATTCTTATATT
259 AAATCAAATTCATATATT
61179188 AATT
1 AATT
61179192 TTATCTATGT
Statistics
Matches: 256, Mismatches: 23, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
275 69 0.27
276 21 0.08
277 166 0.65
ACGTcount: A:0.40, C:0.09, G:0.06, T:0.45
Consensus pattern (276 bp):
AATTATATTATTTCCAAAAGAATATTAATTTCCACGTCTTTTATATTTTGACAGAAATTAATTAA
TAAAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTATATGAATCAAATT
CATATATTAACTATATTCGTTCCAAAAAAATATTAATTTCCATGTCTTTTATATTTTAACCAAAA
TTAATTAATATAACTATTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATAA
ATCAAATTCATATATT
Found at i:61183802 original size:32 final size:32
Alignment explanation
Indices: 61183761--61183826 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
61183751 ATACCTAGGA
61183761 AAGAATCTGCTTAAATTTCATTTGTCACTACC
1 AAGAATCTGCTTAAATTTCATTTGTCACTACC
61183793 AAGAATCTGCTTAAATTTCATTTGTCACTACC
1 AAGAATCTGCTTAAATTTCATTTGTCACTACC
61183825 AA
1 AA
61183827 TCTAAATTAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.33, C:0.21, G:0.09, T:0.36
Consensus pattern (32 bp):
AAGAATCTGCTTAAATTTCATTTGTCACTACC
Found at i:61186082 original size:28 final size:28
Alignment explanation
Indices: 61186017--61186117 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
61186007 ATAGTGAATC
*
61186017 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
61186046 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
61186074 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
61186104 CGCACACTTAGTGC
1 CGCACACTTAGTGC
61186118 CATACCCTTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:61186166 original size:29 final size:29
Alignment explanation
Indices: 61186134--61186206 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
61186124 CTTCGAGCTC
*
61186134 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
61186163 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
61186192 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
61186207 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:61194000 original size:28 final size:28
Alignment explanation
Indices: 61193936--61194035 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
61193926 TAGTGAATCT
*
61193936 GCACACTTAGTGCTATATGTATTC-AACTC
1 GCACACTTAGTGCTATA--TAATCAAACTC
61193965 GCACACTTAGTGCTATATAATCAAACTC
1 GCACACTTAGTGCTATATAATCAAACTC
* * * *
61193993 GCACACTTAGTGCTGTACAATTTTAAACCC
1 GCACACTTAGTGCTATATAA--TCAAACTC
61194023 GCACACTTAGTGC
1 GCACACTTAGTGC
61194036 CATACCCTTC
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.37
29 17 0.27
30 19 0.30
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (28 bp):
GCACACTTAGTGCTATATAATCAAACTC
Found at i:61194084 original size:29 final size:29
Alignment explanation
Indices: 61194052--61194124 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
61194042 CTTCGAGCTC
*
61194052 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
61194081 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
61194110 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
61194125 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:61197591 original size:28 final size:28
Alignment explanation
Indices: 61197513--61197591 Score: 122
Period size: 28 Copynumber: 2.8 Consensus size: 28
61197503 TCGACTAAAT
61197513 ATGGCACTTAGTGTGCGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* * *
61197541 ATGACACTTAGTGTGCCAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
61197569 ATGGCACTTAGTGTGTGAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
61197592 CGAATGATTC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.32, C:0.11, G:0.27, T:0.30
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:61203526 original size:16 final size:15
Alignment explanation
Indices: 61203503--61203537 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
61203493 TACTTTAGCC
61203503 ATTTATTTTATTGCA
1 ATTTATTTTATTGCA
*
61203518 ATTTAATTTTATTTCA
1 ATTT-ATTTTATTGCA
61203534 ATTT
1 ATTT
61203538 TGTTTATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.63
Consensus pattern (15 bp):
ATTTATTTTATTGCA
Found at i:61212258 original size:18 final size:18
Alignment explanation
Indices: 61212235--61212281 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
61212225 TAAATTTTTA
*
61212235 TTTATTTTTATTTTTATC
1 TTTATTTTTATTTTTAAC
* *
61212253 TTTATTTATCTTTTTAAC
1 TTTATTTTTATTTTTAAC
61212271 -TTACTTTTTAT
1 TTTA-TTTTTAT
61212282 CCTATTTCTC
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
17 3 0.13
18 20 0.87
ACGTcount: A:0.19, C:0.09, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTATTTTTATTTTTAAC
Found at i:61216984 original size:40 final size:40
Alignment explanation
Indices: 61216940--61217125 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
61216930 GCTACTCGTT
* * *
61216940 CAAATACCTTCGGGACATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
61216980 CAAATGCCTTCGGGACTTATCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
61217020 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * *
61217060 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
61217101 CAAA-GCCTTCGGAACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
61217126 CATCATTCGA
Statistics
Matches: 131, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
39 3 0.02
40 116 0.89
41 12 0.09
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:61219122 original size:39 final size:39
Alignment explanation
Indices: 61219068--61219145 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
61219058 ATAGAATTTC
*
61219068 TCGATTTAGCTATAAAGAGAAGTTGAGTTCGTGATTCAT
1 TCGATTTAGCTATAAAGAGAAGTTAAGTTCGTGATTCAT
61219107 TCGATTTAGCTATAAAGAGAAGTTAAGTTCGTGATTCAT
1 TCGATTTAGCTATAAAGAGAAGTTAAGTTCGTGATTCAT
61219146 CAGGCTGTAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.32, C:0.10, G:0.22, T:0.36
Consensus pattern (39 bp):
TCGATTTAGCTATAAAGAGAAGTTAAGTTCGTGATTCAT
Found at i:61220662 original size:28 final size:28
Alignment explanation
Indices: 61220615--61220718 Score: 111
Period size: 28 Copynumber: 3.7 Consensus size: 28
61220605 GTTATGTACA
** *
61220615 GCACTTAGTGTGCGGGATA-TCAAATATG
1 GCACTTAGTGTGCGAAATATTCAGA-ATG
* *
61220643 GCACTTAGCGTGCGAAATATTGAGAATG
1 GCACTTAGTGTGCGAAATATTCAGAATG
* * *
61220671 ACACTTAGTGTGCGAGATATTGAGAATG
1 GCACTTAGTGTGCGAAATATTCAGAATG
*
61220699 GCACTTAGTGTGCAAAATAT
1 GCACTTAGTGTGCGAAATAT
61220719 CGAATGATTC
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
28 61 0.95
29 3 0.05
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.28
Consensus pattern (28 bp):
GCACTTAGTGTGCGAAATATTCAGAATG
Found at i:61225418 original size:64 final size:64
Alignment explanation
Indices: 61225337--61225520 Score: 176
Period size: 67 Copynumber: 2.8 Consensus size: 64
61225327 AGACATTATG
* * * * *
61225337 ATGTAGCTAGGTTGCATGGGTGATACCATGTGTACACCATGTAGATAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACCATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
61225401 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACTATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACC-A-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
61225466 AA
63 AA
* * * *
61225468 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGGTACCATGTGTACACCATGTAG-ACAAGAGAGC
61225521 CGAACTATAT
Statistics
Matches: 96, Mismatches: 19, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
62 1 0.01
63 18 0.19
64 24 0.25
65 2 0.02
66 20 0.21
67 29 0.30
68 2 0.02
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACCATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:61228734 original size:19 final size:19
Alignment explanation
Indices: 61228703--61228752 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
61228693 CATTCGGAGG
61228703 AAGAAGAAA--AAA-TAAA
1 AAGAAGAAAGGAAATTAAA
**
61228719 AAGAAGAAAAGGAAATTAGG
1 AAGAAG-AAAGGAAATTAAA
61228739 AAGAAGAAAGGAAA
1 AAGAAGAAAGGAAA
61228753 ATTGGGAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
16 6 0.21
17 3 0.11
19 11 0.39
20 8 0.29
ACGTcount: A:0.70, C:0.00, G:0.24, T:0.06
Consensus pattern (19 bp):
AAGAAGAAAGGAAATTAAA
Found at i:61228744 original size:20 final size:21
Alignment explanation
Indices: 61228719--61228766 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
61228709 AAAAAATAAA
61228719 AAGAAGAAAAGG-AAATTAGG
1 AAGAAGAAAAGGAAAATTAGG
*
61228739 AAGAAG-AAAGGAAAATTGGG
1 AAGAAGAAAAGGAAAATTAGG
*
61228759 AAAAAGAA
1 AAGAAGAA
61228767 GGAAAAAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 5 0.21
20 18 0.75
21 1 0.04
ACGTcount: A:0.62, C:0.00, G:0.29, T:0.08
Consensus pattern (21 bp):
AAGAAGAAAAGGAAAATTAGG
Found at i:61228773 original size:20 final size:20
Alignment explanation
Indices: 61228726--61228772 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
61228716 AAAAAGAAGA
*
61228726 AAAGG-AAATTAGGAAGAAG
1 AAAGGAAAATTAGGAAAAAG
*
61228745 AAAGGAAAATTGGGAAAAAG
1 AAAGGAAAATTAGGAAAAAG
61228765 -AAGGAAAA
1 AAAGGAAAA
61228773 AAAGAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 13 0.52
20 12 0.48
ACGTcount: A:0.62, C:0.00, G:0.30, T:0.09
Consensus pattern (20 bp):
AAAGGAAAATTAGGAAAAAG
Found at i:61235112 original size:40 final size:39
Alignment explanation
Indices: 61235041--61235156 Score: 108
Period size: 40 Copynumber: 2.9 Consensus size: 39
61235031 CATATAATTA
* ** **
61235041 TTTCCATATAACTGATTCATATAATTGTTTCGTTTATCTGT
1 TTTCC-TATAACTGATTTATATAATCATTTCGCATATCT-T
61235082 TTTCCTATAACTGATTTATATAATCATTTCGCATATCTT
1 TTTCCTATAACTGATTTATATAATCATTTCGCATATCTT
* ** *
61235121 TTTCTATATAACCAATTCT-TATAATCATTTCCCATA
1 TTTC-CTATAACTGATT-TATATAATCATTTCGCATA
61235157 ACCAATTCAT
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
39 5 0.08
40 53 0.83
41 6 0.09
ACGTcount: A:0.28, C:0.18, G:0.05, T:0.48
Consensus pattern (39 bp):
TTTCCTATAACTGATTTATATAATCATTTCGCATATCTT
Found at i:61235158 original size:26 final size:26
Alignment explanation
Indices: 61235128--61235177 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
61235118 CTTTTTCTAT
* *
61235128 ATAACCAATTCTTATAATCATTTCCC
1 ATAACCAATTCATATAACCATTTCCC
61235154 ATAACCAATTCATATAACCATTTC
1 ATAACCAATTCATATAACCATTTC
61235178 GTATAGCTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.38, C:0.26, G:0.00, T:0.36
Consensus pattern (26 bp):
ATAACCAATTCATATAACCATTTCCC
Found at i:61235182 original size:13 final size:13
Alignment explanation
Indices: 61235126--61235173 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
61235116 ATCTTTTTCT
61235126 ATATAACCAATTC
1 ATATAACCAATTC
* * *
61235139 TTATAATCATTTC
1 ATATAACCAATTC
**
61235152 CCATAACCAATTC
1 ATATAACCAATTC
61235165 ATATAACCA
1 ATATAACCA
61235174 TTTCGTATAG
Statistics
Matches: 26, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.42, C:0.25, G:0.00, T:0.33
Consensus pattern (13 bp):
ATATAACCAATTC
Found at i:61247440 original size:15 final size:15
Alignment explanation
Indices: 61247420--61247464 Score: 72
Period size: 15 Copynumber: 3.0 Consensus size: 15
61247410 TATGATATTG
61247420 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
*
61247435 TATCTTGGATTTCTC
1 TATCTTGGATTTCTT
*
61247450 TATCTTGGACTTCTT
1 TATCTTGGATTTCTT
61247465 AACTCTGGTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.13, C:0.18, G:0.13, T:0.56
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Done.