Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 160 of 318
Found at i:49371664 original size:5 final size:6
Alignment explanation
Indices: 49371619--49371702 Score: 87
Period size: 6 Copynumber: 13.3 Consensus size: 6
49371609 ATTTAGTCCA
* * * *
49371619 TTTATC TTTATG TTTATT TTTAATT TTTAATT TTTATT TTTATT TTTGTC
1 TTTATT TTTATT TTTATT TTT-ATT TTT-ATT TTTATT TTTATT TTTATT
*
49371669 TTTATT TTTATTT TTATATT TTTATG TTTATT TT
1 TTTATT TTTA-TT TT-TATT TTTATT TTTATT TT
49371703 GTCTTTATAT
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
6 44 0.66
7 21 0.31
8 2 0.03
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.76
Consensus pattern (6 bp):
TTTATT
Found at i:49371673 original size:38 final size:37
Alignment explanation
Indices: 49371631--49371715 Score: 127
Period size: 38 Copynumber: 2.2 Consensus size: 37
49371621 TATCTTTATG
*
49371631 TTTATTTTTAATTTTTA-ATTTTTATTTTTATTTTTGTC
1 TTTATTTTT-ATTTTTATATTTTTATGTTTA-TTTTGTC
49371669 TTTATTTTTATTTTTATATTTTTATGTTTATTTTGTC
1 TTTATTTTTATTTTTATATTTTTATGTTTATTTTGTC
49371706 TTTATATTTT
1 TTTAT-TTTT
49371716 GAACTCTATT
Statistics
Matches: 44, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
37 19 0.43
38 25 0.57
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.76
Consensus pattern (37 bp):
TTTATTTTTATTTTTATATTTTTATGTTTATTTTGTC
Found at i:49379972 original size:20 final size:21
Alignment explanation
Indices: 49379899--49379974 Score: 61
Period size: 20 Copynumber: 3.8 Consensus size: 21
49379889 GGGTACCAAA
*
49379899 GTGCAATCAAGGGCACC-GAC
1 GTGCATTCAAGGGCACCAGAC
* *
49379919 GTGCATTCAAGGGCACGA-AT
1 GTGCATTCAAGGGCACCAGAC
* *
49379939 ATGC-TGTCATGGGCACCAGA-
1 GTGCAT-TCAAGGGCACCAGAC
*
49379959 GTGCATTCAGGGGCAC
1 GTGCATTCAAGGGCAC
49379975 AGTTGTGCAA
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
19 1 0.02
20 41 0.93
21 2 0.05
ACGTcount: A:0.26, C:0.25, G:0.32, T:0.17
Consensus pattern (21 bp):
GTGCATTCAAGGGCACCAGAC
Found at i:49389884 original size:47 final size:47
Alignment explanation
Indices: 49389814--49389986 Score: 185
Period size: 47 Copynumber: 3.7 Consensus size: 47
49389804 TGTGTAAGCC
49389814 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGTGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-TTGAGACGAGTGCT
* * *
49389862 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAAACGA-TAGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCT-TGAGACGAGT-GCT
* * * * *
49389908 AGTGTAAGACCATGTCTGGGACATGGCTTCGACTTGAGA-TATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGAGACGA-GTGCT
*
49389955 AGTGTAAGA-CAGTGTCTGGGACACGGCATCGG
1 AGTGTAAGACCA-TGTCTGGGACATGGCATCGG
49389987 TACCTTACCC
Statistics
Matches: 104, Mismatches: 14, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
45 2 0.02
46 28 0.27
47 58 0.56
48 16 0.15
ACGTcount: A:0.27, C:0.18, G:0.32, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGAGACGAGTGCT
Found at i:49389975 original size:94 final size:95
Alignment explanation
Indices: 49389814--49389986 Score: 253
Period size: 94 Copynumber: 1.8 Consensus size: 95
49389804 TGTGTAAGCC
* * *
49389814 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGTGCTAGTGTAAGACATGTCTG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGACGAGAGCCAGTGTAAGACATGTCTG
*
49389879 GGACA-TGCATCGGCTACGAAACGATAGTT
66 GGACACGGCATCGGCTACGAAACGATAGTT
* *
49389908 AGTGTAAGACCATGTCTGGGACATGGCTTCGAC-TTGAGA-TATGAGCCAGTGTAAGACAGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGACGA-GAGCCAGTGTAAGACA-TGTC
49389971 TGGGACACGGCATCGG
64 TGGGACACGGCATCGG
49389987 TACCTTACCC
Statistics
Matches: 70, Mismatches: 6, Indels: 5
0.86 0.07 0.06
Matches are distributed among these distances:
92 1 0.01
93 20 0.29
94 42 0.60
95 7 0.10
ACGTcount: A:0.27, C:0.18, G:0.32, T:0.23
Consensus pattern (95 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGACGAGAGCCAGTGTAAGACATGTCTG
GGACACGGCATCGGCTACGAAACGATAGTT
Found at i:49399496 original size:43 final size:42
Alignment explanation
Indices: 49399411--49399513 Score: 111
Period size: 43 Copynumber: 2.4 Consensus size: 42
49399401 GTCTGAGACA
* * *
49399411 TCGTGTAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATT
1 TCGTATAAGACCATGTCTGGGACACAGGCATCGATTGAGATT
*
49399453 TACGTATAAGACCATGTCTGGGACATC-GGCATCGTATT-TGATT
1 T-CGTATAAGACCATGTCTGGGACA-CAGGCATCG-ATTGAGATT
* *
49399496 TCGTGTAAGACCCTGTCT
1 TCGTATAAGACCATGTCT
49399514 AGCATAGAGG
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
42 16 0.31
43 32 0.62
44 4 0.08
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.30
Consensus pattern (42 bp):
TCGTATAAGACCATGTCTGGGACACAGGCATCGATTGAGATT
Found at i:49406293 original size:27 final size:28
Alignment explanation
Indices: 49406234--49406306 Score: 139
Period size: 27 Copynumber: 2.6 Consensus size: 28
49406224 TTAAAATTTG
49406234 TATAGCACTAAGTGTGCGAGTTTGATTA
1 TATAGCACTAAGTGTGCGAGTTTGATTA
49406262 TATAGCACTAAGTGTGCGAG-TTGATTA
1 TATAGCACTAAGTGTGCGAGTTTGATTA
49406289 TATAGCACTAAGTGTGCG
1 TATAGCACTAAGTGTGCG
49406307 GACTCACTAT
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 25 0.56
28 20 0.44
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (28 bp):
TATAGCACTAAGTGTGCGAGTTTGATTA
Found at i:49414010 original size:40 final size:40
Alignment explanation
Indices: 49413918--49414047 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
49413908 ATGCTGGAAA
* * *
49413918 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAG-CGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGGGCAAGTC-G
* * *
49413958 CTACATCTGGGCTAAGACCCGAAGGCATTCGGGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGGGCAAGTCG
* * * *
49413998 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGGGCAAGTCG
49414038 TTATATCCGG
1 TTATATCCGG
49414048 TTGTATTCCG
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
39 3 0.04
40 70 0.95
41 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.29, T:0.23
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGGGCAAGTCG
Found at i:49417496 original size:10 final size:10
Alignment explanation
Indices: 49417481--49417530 Score: 55
Period size: 10 Copynumber: 5.0 Consensus size: 10
49417471 GTCCAAGTGC
49417481 CATTTTATCT
1 CATTTTATCT
*
49417491 CATTTTATTT
1 CATTTTATCT
*
49417501 CTTTTTATCT
1 CATTTTATCT
**
49417511 TGTTTTATCT
1 CATTTTATCT
*
49417521 CTTTTTATCT
1 CATTTTATCT
49417531 TATATTATAT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
10 33 1.00
ACGTcount: A:0.14, C:0.16, G:0.02, T:0.68
Consensus pattern (10 bp):
CATTTTATCT
Found at i:49417531 original size:20 final size:20
Alignment explanation
Indices: 49417483--49417538 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
49417473 CCAAGTGCCA
* *
49417483 TTTTATCTCATTTTATTTCT
1 TTTTATCTTATTTTATCTCT
*
49417503 TTTTATCTTGTTTTATCTCT
1 TTTTATCTTATTTTATCTCT
*
49417523 TTTTATCTTATATTAT
1 TTTTATCTTATTTTAT
49417539 ATGACTTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.16, C:0.12, G:0.02, T:0.70
Consensus pattern (20 bp):
TTTTATCTTATTTTATCTCT
Found at i:49420365 original size:15 final size:15
Alignment explanation
Indices: 49420345--49420378 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
49420335 GTATATGGAG
49420345 AAGCTCATCTACTTT
1 AAGCTCATCTACTTT
49420360 AAGCTCATCTACTTT
1 AAGCTCATCTACTTT
49420375 AAGC
1 AAGC
49420379 CTTGATGGCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.29, C:0.26, G:0.09, T:0.35
Consensus pattern (15 bp):
AAGCTCATCTACTTT
Found at i:49423963 original size:62 final size:64
Alignment explanation
Indices: 49423845--49423971 Score: 195
Period size: 62 Copynumber: 2.0 Consensus size: 64
49423835 AGAAATGGTA
* * *
49423845 AAAATGGAGAAATGGGAAACATTTGGAAATGATTATGATTTTCTACAAAATTAAAATGAAAATG
1 AAAATGGAGAAATGGGAAACATTTGGAAATGAATATGAGTTTCTACAAAATGAAAATGAAAATG
* *
49423909 AAAATGGAGAAAT-GGAATCATTTGGAAATGAATATG-GTTTCTCCAAAATGAAAATGAAAATG
1 AAAATGGAGAAATGGGAAACATTTGGAAATGAATATGAGTTTCTACAAAATGAAAATGAAAATG
49423971 A
1 A
49423972 CCTGGAAATA
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
62 24 0.41
63 21 0.36
64 13 0.22
ACGTcount: A:0.48, C:0.06, G:0.20, T:0.27
Consensus pattern (64 bp):
AAAATGGAGAAATGGGAAACATTTGGAAATGAATATGAGTTTCTACAAAATGAAAATGAAAATG
Found at i:49424508 original size:110 final size:110
Alignment explanation
Indices: 49424305--49424510 Score: 270
Period size: 110 Copynumber: 1.9 Consensus size: 110
49424295 AGAGGGACAG
* * * *
49424305 AAAACCCTAGTATTATTAACTAGGGTTGTGGCCTCCTATACTTCCAGTTAGACTAGGAGTTCATT
1 AAAACCCTAATATTATTAACTAGGGTTGTGGCCCCCTATACTACCAGTTAAACTAGGAGTTCATT
*
49424370 TTTTTAGTTGAAATAAACTTCTACAATTCAATAAAGGTGGGATGA
66 TTTCTAGTTGAAATAAACTTCTACAATTCAATAAAGGTGGGATGA
*** **
49424415 AAAACCCTAATATTATTAACTAGGGTTGCT-GCCCCCTATACTACTTTTTAAACTAGGAGTTTGT
1 AAAACCCTAATATTATTAACTAGGGTTG-TGGCCCCCTATACTACCAGTTAAACTAGGAGTTCAT
* * * *
49424479 TTTTCTAGTTGGAATAAATTTTTATAATTCAA
65 TTTTCTAGTTGAAATAAACTTCTACAATTCAA
49424511 CAAGGGTTCT
Statistics
Matches: 81, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
110 80 0.99
111 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (110 bp):
AAAACCCTAATATTATTAACTAGGGTTGTGGCCCCCTATACTACCAGTTAAACTAGGAGTTCATT
TTTCTAGTTGAAATAAACTTCTACAATTCAATAAAGGTGGGATGA
Found at i:49427526 original size:40 final size:40
Alignment explanation
Indices: 49427481--49427610 Score: 140
Period size: 40 Copynumber: 3.3 Consensus size: 40
49427471 GACTCACTCA
* * *
49427481 AATGCCTTTGGGACGAAGCCC-GGTTATAGTGACTCGCACG
1 AATGCCTTCGGGACTAAGCCCAGGTT-TAGTAACTCGCACG
* * *
49427521 AATGCCTTCGGGACTTAA-CCCGGGTTTAGTAACTTGCACA
1 AATGCCTTCGGGAC-TAAGCCCAGGTTTAGTAACTCGCACG
* * *
49427561 AATGCCTTCGGG-CTTAGCCCAGATTTATTAACTCGCACG
1 AATGCCTTCGGGACTAAGCCCAGGTTTAGTAACTCGCACG
49427600 AATGCCTTCGG
1 AATGCCTTCGG
49427611 ATCCTAGTCC
Statistics
Matches: 76, Mismatches: 11, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
38 2 0.03
39 29 0.38
40 39 0.51
41 6 0.08
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
AATGCCTTCGGGACTAAGCCCAGGTTTAGTAACTCGCACG
Found at i:49427604 original size:39 final size:40
Alignment explanation
Indices: 49427507--49427610 Score: 138
Period size: 39 Copynumber: 2.6 Consensus size: 40
49427497 AGCCCGGTTA
* * *
49427507 TAGTGACTCGCACGAATGCCTTCGGGACTTAACCCGGGTT
1 TAGTAACTCGCACGAATGCCTTCGGGACTTAACCCAGATT
* * *
49427547 TAGTAACTTGCACAAATGCCTTCGGG-CTTAGCCCAGATT
1 TAGTAACTCGCACGAATGCCTTCGGGACTTAACCCAGATT
*
49427586 TATTAACTCGCACGAATGCCTTCGG
1 TAGTAACTCGCACGAATGCCTTCGG
49427611 ATCCTAGTCC
Statistics
Matches: 55, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
39 32 0.58
40 23 0.42
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
TAGTAACTCGCACGAATGCCTTCGGGACTTAACCCAGATT
Found at i:49427647 original size:79 final size:80
Alignment explanation
Indices: 49427512--49427658 Score: 192
Period size: 79 Copynumber: 1.9 Consensus size: 80
49427502 GGTTATAGTG
* * * *
49427512 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTTGCACAAATGCCTTCG-GGCTT
1 ACTCGCACGAATGCCTTCGGGACCTAACCCGGATATAGTAACTTGCACAAATGCCTTCGAGACTT
49427576 AGCCCAGATTTATTA
66 AGCCCAGATTTATTA
** *
49427591 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTCGAGAC
1 ACTCGCACGAATGCCTTCGGGA-CCTAACCCGGATATAGTAACTT-GCACAAATGCCTTCGAGAC
49427654 TTAGC
64 TTAGC
49427659 GCGGACATCA
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.05
79 41 0.71
80 14 0.24
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
ACTCGCACGAATGCCTTCGGGACCTAACCCGGATATAGTAACTTGCACAAATGCCTTCGAGACTT
AGCCCAGATTTATTA
Found at i:49429255 original size:19 final size:20
Alignment explanation
Indices: 49429209--49429258 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
49429199 ATTCTCATTT
*
49429209 TCTTCTACTTTTTTTTTTTGC
1 TCTTCT-CTTTTTTTCTTTGC
*
49429230 ACTTTCTCTTTTTTTCTTT-C
1 TC-TTCTCTTTTTTTCTTTGC
49429250 TCTTCTCTT
1 TCTTCTCTT
49429259 GTTATATTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
19 7 0.28
20 2 0.08
21 12 0.48
22 4 0.16
ACGTcount: A:0.04, C:0.24, G:0.02, T:0.70
Consensus pattern (20 bp):
TCTTCTCTTTTTTTCTTTGC
Found at i:49439498 original size:17 final size:17
Alignment explanation
Indices: 49439472--49439507 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
49439462 ATTCACTAAC
49439472 TAAGAATTTTGTATTTT
1 TAAGAATTTTGTATTTT
*
49439489 TAAGAGTTTTGTATTTT
1 TAAGAATTTTGTATTTT
49439506 TA
1 TA
49439508 CCCAATAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.58
Consensus pattern (17 bp):
TAAGAATTTTGTATTTT
Found at i:49440005 original size:26 final size:24
Alignment explanation
Indices: 49439967--49440018 Score: 77
Period size: 26 Copynumber: 2.1 Consensus size: 24
49439957 GGAAAATATT
*
49439967 TTTATTTTTTTAATATTAATATAA
1 TTTATTTTTTTAATACTAATATAA
49439991 TTTATTTTTAATTAATACTAATATAA
1 TTTATTTTT--TTAATACTAATATAA
49440017 TT
1 TT
49440019 GTAAAATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 9 0.36
26 16 0.64
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (24 bp):
TTTATTTTTTTAATACTAATATAA
Found at i:49440827 original size:68 final size:68
Alignment explanation
Indices: 49440740--49440880 Score: 282
Period size: 68 Copynumber: 2.1 Consensus size: 68
49440730 CTTTTGACTC
49440740 ATGTTACTGTTTAAGGGCCCACTAAATTTTTTTAGTAGACATTGCATGTTTTAGATGCCTAGCTT
1 ATGTTACTGTTTAAGGGCCCACTAAATTTTTTTAGTAGACATTGCATGTTTTAGATGCCTAGCTT
49440805 AAT
66 AAT
49440808 ATGTTACTGTTTAAGGGCCCACTAAATTTTTTTAGTAGACATTGCATGTTTTAGATGCCTAGCTT
1 ATGTTACTGTTTAAGGGCCCACTAAATTTTTTTAGTAGACATTGCATGTTTTAGATGCCTAGCTT
49440873 AAT
66 AAT
49440876 ATGTT
1 ATGTT
49440881 TTAGTTTTGA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 73 1.00
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.42
Consensus pattern (68 bp):
ATGTTACTGTTTAAGGGCCCACTAAATTTTTTTAGTAGACATTGCATGTTTTAGATGCCTAGCTT
AAT
Found at i:49451043 original size:19 final size:19
Alignment explanation
Indices: 49451008--49451064 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 19
49450998 ATTTTAAAAA
*
49451008 TATAAAT-TTTAGAATTTT
1 TATAAATATTTTGAATTTT
49451026 TATAAATATTTTGAA-TTT
1 TATAAATATTTTGAATTTT
* *
49451044 TAAAAATTAATTTGAATTTT
1 TATAAA-TATTTTGAATTTT
49451064 T
1 T
49451065 TTGTAATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 15 0.45
19 14 0.42
20 4 0.12
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.54
Consensus pattern (19 bp):
TATAAATATTTTGAATTTT
Found at i:49451045 original size:18 final size:18
Alignment explanation
Indices: 49451008--49451063 Score: 60
Period size: 19 Copynumber: 3.1 Consensus size: 18
49450998 ATTTTAAAAA
*
49451008 TATAAAT-TTTAGAATTTT
1 TATAAATATTTTGAA-TTT
49451026 TATAAATATTTTGAATTT
1 TATAAATATTTTGAATTT
* *
49451044 TAAAAATTAATTTGAATTT
1 TATAAA-TATTTTGAATTT
49451063 T
1 T
49451064 TTTGTAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 15 0.45
19 18 0.55
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (18 bp):
TATAAATATTTTGAATTT
Found at i:49451156 original size:9 final size:9
Alignment explanation
Indices: 49451142--49451173 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
49451132 ACATCAATCT
49451142 ATTATTTGA
1 ATTATTTGA
49451151 ATTATTTGA
1 ATTATTTGA
*
49451160 GTTATTTGA
1 ATTATTTGA
49451169 ATTAT
1 ATTAT
49451174 ATAATTCAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (9 bp):
ATTATTTGA
Found at i:49463082 original size:18 final size:18
Alignment explanation
Indices: 49463059--49463099 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
49463049 CACTGGTACC
49463059 GATTCAAGTTTCTTTTCT
1 GATTCAAGTTTCTTTTCT
49463077 GATTCAAGTTTCTTTTCT
1 GATTCAAGTTTCTTTTCT
49463095 GATTC
1 GATTC
49463100 TTTATTATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.17, C:0.17, G:0.12, T:0.54
Consensus pattern (18 bp):
GATTCAAGTTTCTTTTCT
Found at i:49466499 original size:40 final size:40
Alignment explanation
Indices: 49466450--49466624 Score: 278
Period size: 40 Copynumber: 4.4 Consensus size: 40
49466440 CGAATGTAAC
* *
49466450 AACCAGCATGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* * * *
49466490 AACTCGCATGAATGCCTTCAGGACTTAACTCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
49466530 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
49466570 AACCCGCACGAATGCCTTTGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
49466610 AACCCGTACGAATGC
1 AACCCGCACGAATGC
49466625 TATGCACATA
Statistics
Matches: 125, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 125 1.00
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:49474178 original size:67 final size:67
Alignment explanation
Indices: 49474077--49474252 Score: 266
Period size: 67 Copynumber: 2.6 Consensus size: 67
49474067 CACCCATGTG
* * *
49474077 ACCTAGCCAC-TTTAT-TTCGTAGCTTTATTATTTACATGGTGTCCTTCACCTGGAACCACACAT
1 ACCTAGCTACATTTATCTT-GTAGCTTTCTTGTTTACATGGTGTCCTTCACCTGGAACCACACAT
49474140 GCA
65 GCA
* *
49474143 ACCTAGCTACATTTATCTTGTAGCTCTCTTGTTTACATGGTGTTCTTCACCTGGAACCACACATG
1 ACCTAGCTACATTTATCTTGTAGCTTTCTTGTTTACATGGTGTCCTTCACCTGGAACCACACATG
49474208 CA
66 CA
* *
49474210 ACCTAGCTACATTTATCTCGTAGCTTTCTTGTCTACATGGTGT
1 ACCTAGCTACATTTATCTTGTAGCTTTCTTGTTTACATGGTGT
49474253 ACACATAGTA
Statistics
Matches: 100, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
66 9 0.09
67 89 0.89
68 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (67 bp):
ACCTAGCTACATTTATCTTGTAGCTTTCTTGTTTACATGGTGTCCTTCACCTGGAACCACACATG
CA
Found at i:49474306 original size:64 final size:64
Alignment explanation
Indices: 49474204--49474347 Score: 207
Period size: 64 Copynumber: 2.2 Consensus size: 64
49474194 TGGAACCACA
* * * * * *
49474204 CATGCAACCTAGCTACATTTATCTCGTAGCTTTCTTGTCTACATGGTGTACACATAGTATCACC
1 CATGCGACATAGCTACATATATCCCGTAACTCTCTTGTCTACATGGTGTACACATAGTATCACC
* *
49474268 TATGCGACATAGCTACATATATCCCGTAACTCTCTTGTCTACATGGTGTATACATAGTATCACC
1 CATGCGACATAGCTACATATATCCCGTAACTCTCTTGTCTACATGGTGTACACATAGTATCACC
*
49474332 CATGCGACCTAGCTAC
1 CATGCGACATAGCTAC
49474348 CTCATAATGT
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
64 70 1.00
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (64 bp):
CATGCGACATAGCTACATATATCCCGTAACTCTCTTGTCTACATGGTGTACACATAGTATCACC
Found at i:49479067 original size:18 final size:18
Alignment explanation
Indices: 49479014--49479084 Score: 74
Period size: 18 Copynumber: 3.8 Consensus size: 18
49479004 GGAACATAAT
49479014 ATCCTTGATTAGGA-TAGA
1 ATCCTTGATTAGGAGTA-A
*
49479032 ATCCTGTTAATATAGGAGTAA
1 ATCC--TTGAT-TAGGAGTAA
49479053 ATTCC-TGATTAGGAGTAA
1 A-TCCTTGATTAGGAGTAA
49479071 ATCCTTGATTAGGA
1 ATCCTTGATTAGGA
49479085 TTTATCTGCT
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
17 3 0.07
18 23 0.51
19 3 0.07
20 4 0.09
21 7 0.16
22 5 0.11
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.34
Consensus pattern (18 bp):
ATCCTTGATTAGGAGTAA
Found at i:49479855 original size:15 final size:15
Alignment explanation
Indices: 49479835--49479864 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
49479825 AACCCAAAAA
*
49479835 TTCTATTTCTGTTTT
1 TTCTATTTCTATTTT
49479850 TTCTATTTCTATTTT
1 TTCTATTTCTATTTT
49479865 CTTAGGACTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.13, G:0.03, T:0.73
Consensus pattern (15 bp):
TTCTATTTCTATTTT
Found at i:49483279 original size:40 final size:40
Alignment explanation
Indices: 49483194--49483344 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
49483184 AATTGAATGA
* * * **
49483194 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCA-TAC
* *
49483234 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--CATAC
*
49483275 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATAC
*
49483314 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
49483345 AATCGTGATA
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 1 0.01
39 5 0.05
40 84 0.91
41 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATAC
Found at i:49488414 original size:28 final size:28
Alignment explanation
Indices: 49488378--49488436 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
49488368 TAGAGGTATA
49488378 TCGGTAATTTTGCTCTTTAGGGGTAATT
1 TCGGTAATTTTGCTCTTTAGGGGTAATT
49488406 TCGGTAATTTTGCTCTTTAGGGGTAATT
1 TCGGTAATTTTGCTCTTTAGGGGTAATT
49488434 TCG
1 TCG
49488437 TGATCTACGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.17, C:0.12, G:0.25, T:0.46
Consensus pattern (28 bp):
TCGGTAATTTTGCTCTTTAGGGGTAATT
Found at i:49489087 original size:27 final size:27
Alignment explanation
Indices: 49489057--49489118 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
49489047 GGGCAAAATG
49489057 GTAATTTTACCCCACAAGGGTATTTCA
1 GTAATTTTACCCCACAAGGGTATTTCA
* * *
49489084 GTAATTTTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCCACAAGGGTATTTCA
49489111 GTAATTTT
1 GTAATTTT
49489119 TCAAACCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (27 bp):
GTAATTTTACCCCACAAGGGTATTTCA
Found at i:49489132 original size:54 final size:54
Alignment explanation
Indices: 49489074--49489224 Score: 160
Period size: 54 Copynumber: 2.8 Consensus size: 54
49489064 TACCCCACAA
** * * *
49489074 GGGTATTTCAGTAATTTTACCCTAC-AGGGGTATTTTAGTAATTTTTCAAACCAT
1 GGGTATTTCAGTAATTTTA-CAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
** *
49489128 GGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
** * * * *
49489182 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATT
1 GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATT
49489225 CTGTAAATTG
Statistics
Matches: 85, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
53 2 0.02
54 83 0.98
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (54 bp):
GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:49489190 original size:81 final size:81
Alignment explanation
Indices: 49489072--49489224 Score: 220
Period size: 81 Copynumber: 1.9 Consensus size: 81
49489062 TTTACCCCAC
** *
49489072 AAGGGTATTTCAGTAATTTTACCCTACAGGGGTATTTTAGTAATTTT-TCAAACCATGGGTATTT
1 AAGGGTATTTCAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTAT-AAACCAAGGGTATTT
49489136 TGGTAATTTTATAAACA
65 TGGTAATTTTATAAACA
* * *
49489153 AAGGGTATTTTAGTAATTTTA-CAAACCAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTT
1 AAGGGTATTTCAGTAATTTTACCAAA-CAGGGGTATTTTAGTAATTTTATAAACCAAGGGTATTT
49489217 TGGTAATT
65 TGGTAATT
49489225 CTGTAAATTG
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
80 2 0.03
81 61 0.95
82 1 0.02
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.41
Consensus pattern (81 bp):
AAGGGTATTTCAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTATAAACCAAGGGTATTTT
GGTAATTTTATAAACA
Found at i:49489231 original size:27 final size:27
Alignment explanation
Indices: 49489101--49489224 Score: 169
Period size: 27 Copynumber: 4.6 Consensus size: 27
49489091 TACCCTACAG
* *
49489101 GGGTATTTTAGTAATTTT-TCAAACCAT
1 GGGTATTTTGGTAATTTTAT-AAACCAA
*
49489128 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * *
49489155 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
*
49489182 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
49489209 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
49489225 CTGTAAATTG
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
27 83 0.99
28 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAA
Found at i:49489238 original size:27 final size:27
Alignment explanation
Indices: 49489208--49489278 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
49489198 TTATAAACCA
* *
49489208 AGGGTATTTTGGTAATTCTGTAAATTG
1 AGGGTAATTTGGTAATTCTGTAAATCG
***
49489235 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAATTTGGTAATTCTGTAAATCG
*
49489262 -GGAGTACTTTGGTAATT
1 AGG-GTAATTTGGTAATT
49489279 TTACAAGTCG
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
26 2 0.06
27 32 0.94
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (27 bp):
AGGGTAATTTGGTAATTCTGTAAATCG
Found at i:49489240 original size:54 final size:54
Alignment explanation
Indices: 49489101--49489224 Score: 203
Period size: 54 Copynumber: 2.3 Consensus size: 54
49489091 TACCCTACAG
* *
49489101 GGGTATTTTAGTAATTTTTCAAACCATGGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
* *
49489155 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
*
49489209 GGGTATTTTGGTAATT
1 GGGTATTTTAGTAATT
49489225 CTGTAAATTG
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 65 1.00
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (54 bp):
GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
Found at i:49489250 original size:81 final size:81
Alignment explanation
Indices: 49489098--49489251 Score: 175
Period size: 81 Copynumber: 1.9 Consensus size: 81
49489088 TTTTACCCTA
* * ***
49489098 CAGGGGTATTTTAGTAATTTTTCAAACCATGGGTATTTTGGTAATTTTATAAACAAAGGGTATTT
1 CAGGGGTATTTTAGTAATTTTTCAAACCAAGGGTATTTTGGTAATTCTATAAACAAAGGGTAAAA
*
49489163 TAGTAATTTTACAAAC
66 CAGTAATTTTACAAAC
* * * ***
49489179 CAGGGGTATTTTGGTGATTTTAT-AAACCAAGGGTATTTTGGTAATTCTGTAAATTGAGGGTAAA
1 CAGGGGTATTTTAGTAATTTT-TCAAACCAAGGGTATTTTGGTAATTCTATAAACAAAGGGTAAA
*
49489243 ACGGTAATT
65 ACAGTAATT
49489252 CTGTAAATCG
Statistics
Matches: 59, Mismatches: 13, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
81 58 0.98
82 1 0.02
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (81 bp):
CAGGGGTATTTTAGTAATTTTTCAAACCAAGGGTATTTTGGTAATTCTATAAACAAAGGGTAAAA
CAGTAATTTTACAAAC
Found at i:49492523 original size:28 final size:28
Alignment explanation
Indices: 49492488--49492546 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
49492478 CTAGGGTATA
49492488 TCGGTAATTTTGCTCTTTAGGGGTAATT
1 TCGGTAATTTTGCTCTTTAGGGGTAATT
49492516 TCGGTAATTTTGCTCTTTAGGGGTAATT
1 TCGGTAATTTTGCTCTTTAGGGGTAATT
49492544 TCG
1 TCG
49492547 TGATCTACGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.17, C:0.12, G:0.25, T:0.46
Consensus pattern (28 bp):
TCGGTAATTTTGCTCTTTAGGGGTAATT
Found at i:49493196 original size:27 final size:27
Alignment explanation
Indices: 49493166--49493227 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
49493156 GGGCAAAATG
49493166 GTAATTTTACCCCACAAGGGTATTTCA
1 GTAATTTTACCCCACAAGGGTATTTCA
* * *
49493193 GTAATTTTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCCACAAGGGTATTTCA
49493220 GTAATTTT
1 GTAATTTT
49493228 TCAAACCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (27 bp):
GTAATTTTACCCCACAAGGGTATTTCA
Found at i:49493241 original size:54 final size:54
Alignment explanation
Indices: 49493183--49493333 Score: 160
Period size: 54 Copynumber: 2.8 Consensus size: 54
49493173 TACCCCACAA
** * * *
49493183 GGGTATTTCAGTAATTTTACCCTAC-AGGGGTATTTTAGTAATTTTTCAAACCAT
1 GGGTATTTCAGTAATTTTA-CAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
** *
49493237 GGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
** * * * *
49493291 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATT
1 GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATT
49493334 CTGTAAATTG
Statistics
Matches: 85, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
53 2 0.02
54 83 0.98
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (54 bp):
GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:49493299 original size:81 final size:81
Alignment explanation
Indices: 49493181--49493333 Score: 220
Period size: 81 Copynumber: 1.9 Consensus size: 81
49493171 TTTACCCCAC
** *
49493181 AAGGGTATTTCAGTAATTTTACCCTACAGGGGTATTTTAGTAATTTT-TCAAACCATGGGTATTT
1 AAGGGTATTTCAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTAT-AAACCAAGGGTATTT
49493245 TGGTAATTTTATAAACA
65 TGGTAATTTTATAAACA
* * *
49493262 AAGGGTATTTTAGTAATTTTA-CAAACCAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTT
1 AAGGGTATTTCAGTAATTTTACCAAA-CAGGGGTATTTTAGTAATTTTATAAACCAAGGGTATTT
49493326 TGGTAATT
65 TGGTAATT
49493334 CTGTAAATTG
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
80 2 0.03
81 61 0.95
82 1 0.02
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.41
Consensus pattern (81 bp):
AAGGGTATTTCAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTATAAACCAAGGGTATTTT
GGTAATTTTATAAACA
Found at i:49493340 original size:27 final size:27
Alignment explanation
Indices: 49493210--49493333 Score: 169
Period size: 27 Copynumber: 4.6 Consensus size: 27
49493200 TACCCTACAG
* *
49493210 GGGTATTTTAGTAATTTT-TCAAACCAT
1 GGGTATTTTGGTAATTTTAT-AAACCAA
*
49493237 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * *
49493264 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
*
49493291 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
49493318 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
49493334 CTGTAAATTG
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
27 83 0.99
28 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAA
Found at i:49493347 original size:27 final size:27
Alignment explanation
Indices: 49493317--49493387 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
49493307 TTATAAACCA
* *
49493317 AGGGTATTTTGGTAATTCTGTAAATTG
1 AGGGTAATTTGGTAATTCTGTAAATCG
***
49493344 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAATTTGGTAATTCTGTAAATCG
*
49493371 -GGAGTACTTTGGTAATT
1 AGG-GTAATTTGGTAATT
49493388 TTACAAGTCG
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
26 2 0.06
27 32 0.94
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (27 bp):
AGGGTAATTTGGTAATTCTGTAAATCG
Found at i:49493349 original size:54 final size:54
Alignment explanation
Indices: 49493210--49493333 Score: 203
Period size: 54 Copynumber: 2.3 Consensus size: 54
49493200 TACCCTACAG
* *
49493210 GGGTATTTTAGTAATTTTTCAAACCATGGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
* *
49493264 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
*
49493318 GGGTATTTTGGTAATT
1 GGGTATTTTAGTAATT
49493334 CTGTAAATTG
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 65 1.00
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (54 bp):
GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
Found at i:49493359 original size:81 final size:81
Alignment explanation
Indices: 49493207--49493360 Score: 175
Period size: 81 Copynumber: 1.9 Consensus size: 81
49493197 TTTTACCCTA
* * ***
49493207 CAGGGGTATTTTAGTAATTTTTCAAACCATGGGTATTTTGGTAATTTTATAAACAAAGGGTATTT
1 CAGGGGTATTTTAGTAATTTTTCAAACCAAGGGTATTTTGGTAATTCTATAAACAAAGGGTAAAA
*
49493272 TAGTAATTTTACAAAC
66 CAGTAATTTTACAAAC
* * * ***
49493288 CAGGGGTATTTTGGTGATTTTAT-AAACCAAGGGTATTTTGGTAATTCTGTAAATTGAGGGTAAA
1 CAGGGGTATTTTAGTAATTTT-TCAAACCAAGGGTATTTTGGTAATTCTATAAACAAAGGGTAAA
*
49493352 ACGGTAATT
65 ACAGTAATT
49493361 CTGTAAATCG
Statistics
Matches: 59, Mismatches: 13, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
81 58 0.98
82 1 0.02
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (81 bp):
CAGGGGTATTTTAGTAATTTTTCAAACCAAGGGTATTTTGGTAATTCTATAAACAAAGGGTAAAA
CAGTAATTTTACAAAC
Found at i:49496595 original size:28 final size:28
Alignment explanation
Indices: 49496559--49496617 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
49496549 TAGAGGTATA
49496559 TCGGTAATTTTGCTCTTTAGGGGTAATT
1 TCGGTAATTTTGCTCTTTAGGGGTAATT
49496587 TCGGTAATTTTGCTCTTTAGGGGTAATT
1 TCGGTAATTTTGCTCTTTAGGGGTAATT
49496615 TCG
1 TCG
49496618 TGATCTACGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.17, C:0.12, G:0.25, T:0.46
Consensus pattern (28 bp):
TCGGTAATTTTGCTCTTTAGGGGTAATT
Found at i:49496897 original size:8 final size:8
Alignment explanation
Indices: 49496884--49496908 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
49496874 TGAAATGCCA
49496884 GAATTTCG
1 GAATTTCG
49496892 GAATTTCG
1 GAATTTCG
49496900 GAATTTCG
1 GAATTTCG
49496908 G
1 G
49496909 CTTTTGCCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.28, T:0.36
Consensus pattern (8 bp):
GAATTTCG
Found at i:49497276 original size:27 final size:27
Alignment explanation
Indices: 49497246--49497307 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
49497236 GGGCAAAATG
49497246 GTAATTTTACCCCACAAGGGTATTTCA
1 GTAATTTTACCCCACAAGGGTATTTCA
* * *
49497273 GTAATTTTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCCACAAGGGTATTTCA
49497300 GTAATTTT
1 GTAATTTT
49497308 TCAAACCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (27 bp):
GTAATTTTACCCCACAAGGGTATTTCA
Found at i:49497321 original size:54 final size:54
Alignment explanation
Indices: 49497263--49497413 Score: 160
Period size: 54 Copynumber: 2.8 Consensus size: 54
49497253 TACCCCACAA
** * * *
49497263 GGGTATTTCAGTAATTTTACCCTAC-AGGGGTATTTTAGTAATTTTTCAAACCAT
1 GGGTATTTCAGTAATTTTA-CAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
** *
49497317 GGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
** * * * *
49497371 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATT
1 GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATT
49497414 CTGTAAATTG
Statistics
Matches: 85, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
53 2 0.02
54 83 0.98
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (54 bp):
GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:49497379 original size:81 final size:81
Alignment explanation
Indices: 49497261--49497413 Score: 220
Period size: 81 Copynumber: 1.9 Consensus size: 81
49497251 TTTACCCCAC
** *
49497261 AAGGGTATTTCAGTAATTTTACCCTACAGGGGTATTTTAGTAATTTT-TCAAACCATGGGTATTT
1 AAGGGTATTTCAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTAT-AAACCAAGGGTATTT
49497325 TGGTAATTTTATAAACA
65 TGGTAATTTTATAAACA
* * *
49497342 AAGGGTATTTTAGTAATTTTA-CAAACCAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTT
1 AAGGGTATTTCAGTAATTTTACCAAA-CAGGGGTATTTTAGTAATTTTATAAACCAAGGGTATTT
49497406 TGGTAATT
65 TGGTAATT
49497414 CTGTAAATTG
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
80 2 0.03
81 61 0.95
82 1 0.02
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.41
Consensus pattern (81 bp):
AAGGGTATTTCAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTATAAACCAAGGGTATTTT
GGTAATTTTATAAACA
Found at i:49497420 original size:27 final size:27
Alignment explanation
Indices: 49497290--49497413 Score: 169
Period size: 27 Copynumber: 4.6 Consensus size: 27
49497280 TACCCTACAG
* *
49497290 GGGTATTTTAGTAATTTT-TCAAACCAT
1 GGGTATTTTGGTAATTTTAT-AAACCAA
*
49497317 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * *
49497344 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
*
49497371 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
49497398 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
49497414 CTGTAAATTG
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
27 83 0.99
28 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAA
Found at i:49497427 original size:27 final size:27
Alignment explanation
Indices: 49497397--49497467 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
49497387 TTATAAACCA
* *
49497397 AGGGTATTTTGGTAATTCTGTAAATTG
1 AGGGTAATTTGGTAATTCTGTAAATCG
***
49497424 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAATTTGGTAATTCTGTAAATCG
*
49497451 -GGAGTACTTTGGTAATT
1 AGG-GTAATTTGGTAATT
49497468 TTACAAGTCG
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
26 2 0.06
27 32 0.94
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (27 bp):
AGGGTAATTTGGTAATTCTGTAAATCG
Found at i:49497429 original size:54 final size:54
Alignment explanation
Indices: 49497290--49497413 Score: 203
Period size: 54 Copynumber: 2.3 Consensus size: 54
49497280 TACCCTACAG
* *
49497290 GGGTATTTTAGTAATTTTTCAAACCATGGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
* *
49497344 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
*
49497398 GGGTATTTTGGTAATT
1 GGGTATTTTAGTAATT
49497414 CTGTAAATTG
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 65 1.00
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (54 bp):
GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
Found at i:49497439 original size:81 final size:81
Alignment explanation
Indices: 49497287--49497440 Score: 175
Period size: 81 Copynumber: 1.9 Consensus size: 81
49497277 TTTTACCCTA
* * ***
49497287 CAGGGGTATTTTAGTAATTTTTCAAACCATGGGTATTTTGGTAATTTTATAAACAAAGGGTATTT
1 CAGGGGTATTTTAGTAATTTTTCAAACCAAGGGTATTTTGGTAATTCTATAAACAAAGGGTAAAA
*
49497352 TAGTAATTTTACAAAC
66 CAGTAATTTTACAAAC
* * * ***
49497368 CAGGGGTATTTTGGTGATTTTAT-AAACCAAGGGTATTTTGGTAATTCTGTAAATTGAGGGTAAA
1 CAGGGGTATTTTAGTAATTTT-TCAAACCAAGGGTATTTTGGTAATTCTATAAACAAAGGGTAAA
*
49497432 ACGGTAATT
65 ACAGTAATT
49497441 CTGTAAATCG
Statistics
Matches: 59, Mismatches: 13, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
81 58 0.98
82 1 0.02
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (81 bp):
CAGGGGTATTTTAGTAATTTTTCAAACCAAGGGTATTTTGGTAATTCTATAAACAAAGGGTAAAA
CAGTAATTTTACAAAC
Found at i:49505165 original size:43 final size:43
Alignment explanation
Indices: 49505106--49505269 Score: 147
Period size: 43 Copynumber: 3.8 Consensus size: 43
49505096 TCATTCACTG
** *
49505106 GCATT-TCGCCTGCTAGGCTTGAAGCCCGATATCATTTCACCA
1 GCATTATCGCCTGCTAGGCCCGAAGCCCGATATCATCTCACCA
* * *
49505148 GCATTATCGCCTACTAGGCCCGAAGCCCGATATTATCTCACCG
1 GCATTATCGCCTGCTAGGCCCGAAGCCCGATATCATCTCACCA
* * * *
49505191 GCATTATAGCCTGCTAGGCCAGAAGCCTGATAAT-ATTATTCACCA
1 GCATTATCGCCTGCTAGGCCCGAAGCCCGAT-ATCA-T-CTCACCA
** *
49505236 GC-TTAAAGCTTGCTAGG-CCGAAGCCCGAATATCA
1 GCATTATCGCCTGCTAGGCCCGAAGCCCG-ATATCA
49505270 CATTTTGATA
Statistics
Matches: 100, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
42 5 0.05
43 69 0.69
44 19 0.19
45 7 0.07
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (43 bp):
GCATTATCGCCTGCTAGGCCCGAAGCCCGATATCATCTCACCA
Found at i:49511966 original size:15 final size:16
Alignment explanation
Indices: 49511946--49511975 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
49511936 AAATTAAATC
49511946 TTAATAAAAA-GGGAG
1 TTAATAAAAATGGGAG
49511961 TTAATAAAAATGGGA
1 TTAATAAAAATGGGA
49511976 AAAATTCTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.53, C:0.00, G:0.23, T:0.23
Consensus pattern (16 bp):
TTAATAAAAATGGGAG
Found at i:49512851 original size:6 final size:6
Alignment explanation
Indices: 49512836--49512895 Score: 102
Period size: 6 Copynumber: 10.0 Consensus size: 6
49512826 AACAGAAAGG
*
49512836 TAAAAT TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
*
49512884 TAAAAG TAAAAA
1 TAAAAA TAAAAA
49512896 GAAAGGGACT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 51 1.00
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (6 bp):
TAAAAA
Found at i:49515152 original size:33 final size:33
Alignment explanation
Indices: 49515110--49515214 Score: 210
Period size: 33 Copynumber: 3.2 Consensus size: 33
49515100 CTTCTCCCAC
49515110 GCCCGTGTGTCCGGACACACGGCCGTGTGCCAT
1 GCCCGTGTGTCCGGACACACGGCCGTGTGCCAT
49515143 GCCCGTGTGTCCGGACACACGGCCGTGTGCCAT
1 GCCCGTGTGTCCGGACACACGGCCGTGTGCCAT
49515176 GCCCGTGTGTCCGGACACACGGCCGTGTGCCAT
1 GCCCGTGTGTCCGGACACACGGCCGTGTGCCAT
49515209 GCCCGT
1 GCCCGT
49515215 ATGGCACCCT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 72 1.00
ACGTcount: A:0.11, C:0.37, G:0.33, T:0.18
Consensus pattern (33 bp):
GCCCGTGTGTCCGGACACACGGCCGTGTGCCAT
Found at i:49517655 original size:43 final size:42
Alignment explanation
Indices: 49517594--49517680 Score: 120
Period size: 43 Copynumber: 2.0 Consensus size: 42
49517584 GGTGTTTATT
*
49517594 TTAAAAAACGCTGCTAAAAGCCATGACTTTTAGCGGCCTTTG
1 TTAAAAAACGCAGCTAAAAGCCATGACTTTTAGCGGCCTTTG
* * * *
49517636 TTAAAAAAGCGCAGTTAAAAGTCATGGCTTTTAGCGGCGTTTG
1 TTAAAAAA-CGCAGCTAAAAGCCATGACTTTTAGCGGCCTTTG
49517679 TT
1 TT
49517681 GGGTAAGCGC
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
42 8 0.21
43 31 0.79
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (42 bp):
TTAAAAAACGCAGCTAAAAGCCATGACTTTTAGCGGCCTTTG
Found at i:49517689 original size:43 final size:42
Alignment explanation
Indices: 49517606--49517900 Score: 259
Period size: 43 Copynumber: 6.6 Consensus size: 42
49517596 AAAAAACGCT
* * * *** *
49517606 GCTAAAAGCCATGACTTTTAGCGGCCTTTGTTAAAAAAGCGCA
1 GCTAAAAGTCATGGCTTTTAGCGGCGTTTGTT-GGGAAGCGCC
* *
49517649 GTTAAAAGTCATGGCTTTTAGCGGCGTTTGTTGGGTAAGCGCT
1 GCTAAAAGTCATGGCTTTTAGCGGCGTTTGTTGGG-AAGCGCC
*
49517692 GCTAAAAGTCACGGCTTTTTAGCGGCGTTTGTTGGGGAAGCGCC
1 GCTAAAAGTCATGGC-TTTTAGCGGCGTTTGTT-GGGAAGCGCC
*
49517736 GCTAAAAGTCATGGCTTTTAGCGGCGTTTGTTTGGGAAGCTCC
1 GCTAAAAGTCATGGCTTTTAGCGGCGTTTG-TTGGGAAGCGCC
* *
49517779 GCTAAAAGTATGACTTTTAGCGGGGCTTTTAGCGGCGTTTGTTGGGAAAGCACC
1 GCTAAAAG--T--C----A---TGGCTTTTAGCGGCGTTTGTTGGG-AAGCGCC
* *
49517833 GCTAAAAGTCATGGCTTTTAGCGGCGTTTG-TGCAGAAAGTGCC
1 GCTAAAAGTCATGGCTTTTAGCGGCGTTTGTTG--GGAAGCGCC
* *
49517876 GCTAAAATTAATGGCTTTTAGCGGC
1 GCTAAAAGTCATGGCTTTTAGCGGC
49517901 ATTTTTCCTA
Statistics
Matches: 213, Mismatches: 21, Indels: 36
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.01
43 125 0.59
44 40 0.19
45 4 0.02
46 1 0.00
47 1 0.00
50 1 0.00
51 1 0.00
52 1 0.00
53 5 0.02
54 32 0.15
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (42 bp):
GCTAAAAGTCATGGCTTTTAGCGGCGTTTGTTGGGAAGCGCC
Found at i:49517747 original size:87 final size:85
Alignment explanation
Indices: 49517602--49517863 Score: 281
Period size: 87 Copynumber: 2.9 Consensus size: 85
49517592 TTTTAAAAAA
* * * * *** * *
49517602 CGCTGCTAAAAGCCATGACTTTTAGCGGCCTTTGTTAAAAAAGCGCAGTTAAAAGTCATGGCTTT
1 CGCTGCTAAAAGTCACGGCTTTTAGCGGCGTTTGTTGGGAAAGCGCCGCTAAAAGTCATGGCTTT
49517667 TAGCGGCGTTTGTTGGGTAAG
66 TAGCGGCGTTTGTTGGG-AAG
*
49517688 CGCTGCTAAAAGTCACGGCTTTTTAGCGGCGTTTGTTGGGGAAGCGCCGCTAAAAGTCATGGCTT
1 CGCTGCTAAAAGTCACGGC-TTTTAGCGGCGTTTGTTGGGAAAGCGCCGCTAAAAGTCATGGCTT
49517753 TTAGCGGCGTTTGTTTGGGAAG
65 TTAGCGGCGTTTG-TTGGGAAG
* * *
49517775 CTCCGCTAAAAGTATGACTTTTAGCGGGGCTTTTAGCGGCGTTTGTTGGGAAAGCACCGCTAAAA
1 CGCTGCTAAAAG--T--C----A-C--GGCTTTTAGCGGCGTTTGTTGGGAAAGCGCCGCTAAAA
49517840 GTCATGGCTTTTAGCGGCGTTTGT
55 GTCATGGCTTTTAGCGGCGTTTGT
49517864 GCAGAAAGTG
Statistics
Matches: 149, Mismatches: 14, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
86 16 0.11
87 64 0.43
88 5 0.03
89 1 0.01
91 1 0.01
95 1 0.01
96 2 0.01
97 56 0.38
98 3 0.02
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (85 bp):
CGCTGCTAAAAGTCACGGCTTTTAGCGGCGTTTGTTGGGAAAGCGCCGCTAAAAGTCATGGCTTT
TAGCGGCGTTTGTTGGGAAG
Found at i:49517835 original size:54 final size:55
Alignment explanation
Indices: 49517748--49517856 Score: 177
Period size: 54 Copynumber: 2.0 Consensus size: 55
49517738 TAAAAGTCAT
*
49517748 GGCTTTTAGCGGCGTTTGTTTGGGAAGCTCCGCTAAAAGT-ATGACTTTTAGCGG
1 GGCTTTTAGCGGCGTTTGTTTGGGAAGCACCGCTAAAAGTCATGACTTTTAGCGG
*
49517802 GGCTTTTAGCGGCGTTTG-TTGGGAAAGCACCGCTAAAAGTCATGGCTTTTAGCGG
1 GGCTTTTAGCGGCGTTTGTTTGGG-AAGCACCGCTAAAAGTCATGACTTTTAGCGG
49517857 CGTTTGTGCA
Statistics
Matches: 51, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
53 5 0.10
54 33 0.65
55 13 0.25
ACGTcount: A:0.19, C:0.17, G:0.32, T:0.31
Consensus pattern (55 bp):
GGCTTTTAGCGGCGTTTGTTTGGGAAGCACCGCTAAAAGTCATGACTTTTAGCGG
Found at i:49517878 original size:97 final size:98
Alignment explanation
Indices: 49517708--49517899 Score: 289
Period size: 97 Copynumber: 2.0 Consensus size: 98
49517698 AGTCACGGCT
* * *** *
49517708 TTTTAGCGGCGTTTGTTGGGGAAGCGCCGCTAAAAGTCATGGCTTTTAGCGGCGTTTGTTTGGGA
1 TTTTAGCGGCGTTTGTTGGGAAAGCACCGCTAAAAGTCATGGCTTTTAGCGGCGTTTGTGCAGAA
49517773 AGCTCCGCTAAAAGT-ATGACTTTTAGCGGGGC
66 AGCTCCGCTAAAAGTAATGACTTTTAGCGGGGC
49517805 TTTTAGCGGCGTTTGTTGGGAAAGCACCGCTAAAAGTCATGGCTTTTAGCGGCGTTTGTGCAGAA
1 TTTTAGCGGCGTTTGTTGGGAAAGCACCGCTAAAAGTCATGGCTTTTAGCGGCGTTTGTGCAGAA
* *
49517870 AG-TGCCGCTAAAATTAATGGCTTTTAGCGG
66 AGCT-CCGCTAAAAGTAATGACTTTTAGCGG
49517900 CATTTTTCCT
Statistics
Matches: 85, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
96 1 0.01
97 71 0.84
98 13 0.15
ACGTcount: A:0.21, C:0.17, G:0.31, T:0.31
Consensus pattern (98 bp):
TTTTAGCGGCGTTTGTTGGGAAAGCACCGCTAAAAGTCATGGCTTTTAGCGGCGTTTGTGCAGAA
AGCTCCGCTAAAAGTAATGACTTTTAGCGGGGC
Found at i:49518012 original size:31 final size:31
Alignment explanation
Indices: 49517977--49518059 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 31
49517967 CTTCCTGCAT
*
49517977 TAAAATCCAACCAAATACAACAAATATAGCA
1 TAAAATCCAACCAAAAACAACAAATATAGCA
* * * * *
49518008 TAAAATGCAGCCAAAAATAGCAAATTTAGCA
1 TAAAATCCAACCAAAAACAACAAATATAGCA
*
49518039 TAAAAAATACAACCAAAAACA
1 T--AAAATCCAACCAAAAACA
49518060 TTAATTCTAA
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
31 26 0.63
33 15 0.37
ACGTcount: A:0.59, C:0.19, G:0.06, T:0.16
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAGCA
Found at i:49518758 original size:13 final size:14
Alignment explanation
Indices: 49518733--49518761 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
49518723 TGATGAATTG
49518733 AATTAAACAATTAT
1 AATTAAACAATTAT
49518747 AATTAAAC-ATTAT
1 AATTAAACAATTAT
49518760 AA
1 AA
49518762 ATATTCAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACAATTAT
Found at i:49521504 original size:26 final size:26
Alignment explanation
Indices: 49521475--49521582 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
49521465 TGGTACAAAT
*
49521475 TGATAATGGGTTATGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
49521501 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
49521527 TGATAATGGGTTAGGTAAATGTTCCG
1 TGATAATGGGTTAGGTAAATGTTCCA
*
49521553 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
49521579 TGAT
1 TGAT
49521583 GGGCATTTCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:49523225 original size:27 final size:27
Alignment explanation
Indices: 49523185--49523343 Score: 175
Period size: 27 Copynumber: 5.9 Consensus size: 27
49523175 AGGAAGCGTC
49523185 CTGGTGGC-CATGCCACAATTATCTGAT
1 CTGGTGGCTC-TGCCACAATTATCTGAT
*
49523212 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
* *
49523239 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
49523266 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
49523293 CTGGTGGCTCTACCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
49523320 CTGGTGACTTTGTCACAATT-TCTG
1 CTGGTGGCTCTGCCACAATTATCTG
49523344 GCAGCCTCGC
Statistics
Matches: 114, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
26 10 0.09
27 99 0.87
28 5 0.04
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:49523267 original size:54 final size:53
Alignment explanation
Indices: 49523185--49523325 Score: 219
Period size: 54 Copynumber: 2.6 Consensus size: 53
49523175 AGGAAGCGTC
*
49523185 CTGGTGGCCATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
49523239 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* * *
49523293 CTGGTGGCTCTACCACAATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTG
49523326 ACTTTGTCAC
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
53 7 0.09
54 74 0.91
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:49528623 original size:26 final size:26
Alignment explanation
Indices: 49528594--49528701 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
49528584 TGGTACAAAT
*
49528594 TGATAATGGGTTAGATAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
49528620 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
49528646 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
49528672 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
49528698 TGAT
1 TGAT
49528702 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:49530334 original size:27 final size:27
Alignment explanation
Indices: 49530303--49530451 Score: 171
Period size: 27 Copynumber: 5.6 Consensus size: 27
49530293 CTAGTGGCCA
49530303 TGCCACAATTATCTGATCTGGTGGCTC
1 TGCCACAATTATCTGATCTGGTGGCTC
* *
49530330 TGCCAC-ATATATCTGTTCTGGTGGCTA
1 TGCCACAAT-TATCTGATCTGGTGGCTC
*
49530357 TGCCACGATTATCTGATCTGGTGGCTC
1 TGCCACAATTATCTGATCTGGTGGCTC
*
49530384 TGCCAC-ATATATCTGTTCTGGTGGCTC
1 TGCCACAAT-TATCTGATCTGGTGGCTC
* * *
49530411 TACCACAA-TATCTGTATCTGGTGACTT
1 TGCCACAATTATCTG-ATCTGGTGGCTC
*
49530438 TGTCACAA-TATCTG
1 TGCCACAATTATCTG
49530452 GCAGCCTCGC
Statistics
Matches: 106, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
26 10 0.09
27 93 0.88
28 3 0.03
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (27 bp):
TGCCACAATTATCTGATCTGGTGGCTC
Found at i:49530378 original size:54 final size:53
Alignment explanation
Indices: 49530296--49530451 Score: 215
Period size: 54 Copynumber: 2.9 Consensus size: 53
49530286 AAGCGTCCTA
*
49530296 GTGGCCATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTG
49530350 GTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTG
* * * * * *
49530404 GTGGCTCTACCACAATATCTGTATCTGGTGACTTTGTCACA-ATATCTG
1 GTGGCTATGCCACATTATCTG-ATCTGGTGGCTCTGCCACATATATCTG
49530452 GCAGCCTCGC
Statistics
Matches: 93, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
53 14 0.15
54 79 0.85
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (53 bp):
GTGGCTATGCCACATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTG
Found at i:49534242 original size:15 final size:17
Alignment explanation
Indices: 49534203--49534244 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
49534193 GTTATGATAT
*
49534203 GATATATATTTATGTAA
1 GATATATATTTATCTAA
49534220 GATATATATTTATCTAA
1 GATATATATTTATCTAA
*
49534237 GTTATATA
1 GATATATA
49534245 AGTTATGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.40, C:0.02, G:0.10, T:0.48
Consensus pattern (17 bp):
GATATATATTTATCTAA
Found at i:49534246 original size:9 final size:9
Alignment explanation
Indices: 49534185--49534888 Score: 770
Period size: 9 Copynumber: 79.4 Consensus size: 9
49534175 ATTATGTAAA
*
49534185 TTATGTAAG
1 TTATATAAG
*
49534194 TTATGATATG
1 TTAT-ATAAG
* *
49534204 ATATAT-AT
1 TTATATAAG
*
49534212 TTATGTAAG
1 TTATATAAG
* *
49534221 ATATAT-AT
1 TTATATAAG
*
49534229 TTATCTAAG
1 TTATATAAG
49534238 TTATATAAG
1 TTATATAAG
*
49534247 TTATGTAAG
1 TTATATAAG
49534256 TTATATAAG
1 TTATATAAG
49534265 TTATATAAG
1 TTATATAAG
49534274 TTATATAAG
1 TTATATAAG
*
49534283 TTATAT-AT
1 TTATATAAG
*
49534291 TTATCTAAG
1 TTATATAAG
49534300 TTATATAAG
1 TTATATAAG
49534309 TTATATATAAG
1 -T-TATATAAG
*
49534320 TTATGTAAG
1 TTATATAAG
*
49534329 TTATGTAAG
1 TTATATAAG
*
49534338 TTATAT-AT
1 TTATATAAG
* *
49534346 TTATCTAGG
1 TTATATAAG
49534355 TTATATAAG
1 TTATATAAG
*
49534364 TTATGTAAG
1 TTATATAAG
49534373 TTATATAAG
1 TTATATAAG
*
49534382 TTATGTAAG
1 TTATATAAG
49534391 TTATATAAG
1 TTATATAAG
*
49534400 TTATAT-AT
1 TTATATAAG
*
49534408 TTATCTAAG
1 TTATATAAG
49534417 TTATATAAG
1 TTATATAAG
*
49534426 TTATGTAAG
1 TTATATAAG
49534435 TTATATAAG
1 TTATATAAG
* *
49534444 TAATAT-AT
1 TTATATAAG
*
49534452 TTATCTAAG
1 TTATATAAG
49534461 TTATATAAG
1 TTATATAAG
49534470 TTATATAAG
1 TTATATAAG
*
49534479 TTATGTAAG
1 TTATATAAG
49534488 TTATATAAG
1 TTATATAAG
*
49534497 TTATAT-AT
1 TTATATAAG
* *
49534505 TTATCTAGG
1 TTATATAAG
49534514 TTATATAAG
1 TTATATAAG
*
49534523 TTATCTAAG
1 TTATATAAG
49534532 TTATATAAG
1 TTATATAAG
*
49534541 TTATGTAAG
1 TTATATAAG
49534550 TTATATAAG
1 TTATATAAG
*
49534559 TTATAT-AT
1 TTATATAAG
*
49534567 TTATCTAAG
1 TTATATAAG
49534576 TTATATAAG
1 TTATATAAG
*
49534585 TTATGTAAG
1 TTATATAAG
*
49534594 TTATGTAAG
1 TTATATAAG
*
49534603 TTATAT-AT
1 TTATATAAG
*
49534611 TTATCTAAG
1 TTATATAAG
49534620 TTATATAAG
1 TTATATAAG
*
49534629 TTATGTAAG
1 TTATATAAG
49534638 TTATATAAG
1 TTATATAAG
* *
49534647 TGATTTAAG
1 TTATATAAG
49534656 TTATATAAG
1 TTATATAAG
*
49534665 TTATAT-AT
1 TTATATAAG
*
49534673 TTATCTAAG
1 TTATATAAG
49534682 TTATATAAG
1 TTATATAAG
49534691 TTATATAAG
1 TTATATAAG
*
49534700 TTATGTAAG
1 TTATATAAG
49534709 TTATATAAG
1 TTATATAAG
*
49534718 TTATAT-AT
1 TTATATAAG
*
49534726 TTATCTAAG
1 TTATATAAG
49534735 TTATATAAG
1 TTATATAAG
*
49534744 TTATCTAAG
1 TTATATAAG
49534753 TTATATAAG
1 TTATATAAG
*
49534762 TTATGTAAG
1 TTATATAAG
*
49534771 TTATGTAAG
1 TTATATAAG
*
49534780 TTATAT-AT
1 TTATATAAG
*
49534788 TTATCTAAG
1 TTATATAAG
49534797 TTATATAAG
1 TTATATAAG
*
49534806 TTATGTAAG
1 TTATATAAG
*
49534815 TTATAT-AT
1 TTATATAAG
*
49534823 TTATCTAAG
1 TTATATAAG
49534832 TTATATAAG
1 TTATATAAG
*
49534841 TTATAT-AT
1 TTATATAAG
*
49534849 TTATCTAAG
1 TTATATAAG
49534858 TTATATAAG
1 TTATATAAG
*
49534867 TTATGTAAG
1 TTATATAAG
* *
49534876 TTTTGTAAG
1 TTATATAAG
49534885 TTAT
1 TTAT
49534889 GTTAAATATT
Statistics
Matches: 574, Mismatches: 104, Indels: 34
0.81 0.15 0.05
Matches are distributed among these distances:
8 80 0.14
9 478 0.83
10 8 0.01
11 8 0.01
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.47
Consensus pattern (9 bp):
TTATATAAG
Found at i:49534250 original size:53 final size:53
Alignment explanation
Indices: 49534238--49534870 Score: 774
Period size: 53 Copynumber: 11.9 Consensus size: 53
49534228 TTTATCTAAG
* * *
49534238 TTATATAAGTTATGTAAGTTATATAAGTTATATAAGTTATATAAGTTATATAT
1 TTATCTAAGTTATATAAGTTATATAAGTTATATAAGTTATGTAAGTTATATAT
*
49534291 TTATCTAAGTTATATAAGTTATATATAAGTTATGTAAGTTATGTAAGTTATATAT
1 TTATCTAAGTTATATAAG-T-TATATAAGTTATATAAGTTATGTAAGTTATATAT
* * *
49534346 TTATCTAGGTTATATAAGTTATGTAAGTTATATAAGTTATGTAAGTTATATAAG
1 TTATCTAAGTTATATAAGTTATATAAGTTATATAAGTTATGTAAGTTATAT-AT
* * * * * *
49534400 TTATAT-ATTTATCTAAGTTATATAAGTTATGTAAGTTATATAAGTAATATAT
1 TTATCTAAGTTATATAAGTTATATAAGTTATATAAGTTATGTAAGTTATATAT
* *
49534452 TTATCTAAGTTATATAAGTTATATAAGTTATGTAAGTTATATAAGTTATATAT
1 TTATCTAAGTTATATAAGTTATATAAGTTATATAAGTTATGTAAGTTATATAT
* * *
49534505 TTATCTAGGTTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTATATAAG
1 TTATCTAAGTTATATAAGTTATATAAGTTATATAAGTTATGTAAGTTATAT-AT
* * * *
49534559 TTATAT-ATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAGTTATATAT
1 TTATCTAAGTTATATAAGTTATATAAGTTATATAAGTTATGTAAGTTATATAT
* * * *
49534611 TTATCTAAGTTATATAAGTTATGTAAGTTATATAAGTGATTTAAGTTATATAAG
1 TTATCTAAGTTATATAAGTTATATAAGTTATATAAGTTATGTAAGTTATAT-AT
* * * *
49534665 TTATAT-ATTTATCTAAGTTATATAAGTTATATAAGTTATGTAAGTTATATAAG
1 TTATCTAAGTTATATAAGTTATATAAGTTATATAAGTTATGTAAGTTATAT-AT
* * * * * * *
49534718 TTATAT-ATTTATCTAAGTTATATAAGTTATCTAAGTTATATAAGTTATGTAAG
1 TTATCTAAGTTATATAAGTTATATAAGTTATATAAGTTATGTAAGTTATAT-AT
* * *
49534771 TTATGTAAGTTATAT-ATTTATCTAAGTTATATAAGTTATGTAAGTTATATAT
1 TTATCTAAGTTATATAAGTTATATAAGTTATATAAGTTATGTAAGTTATATAT
* * *
49534823 TTATCTAAGTTATATAAGTTATAT-ATTTATCTAAGTTATATAAGTTAT
1 TTATCTAAGTTATATAAGTTATATAAGTTATATAAGTTATGTAAGTTAT
49534871 GTAAGTTTTG
Statistics
Matches: 506, Mismatches: 65, Indels: 19
0.86 0.11 0.03
Matches are distributed among these distances:
52 48 0.09
53 383 0.76
54 26 0.05
55 49 0.10
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.47
Consensus pattern (53 bp):
TTATCTAAGTTATATAAGTTATATAAGTTATATAAGTTATGTAAGTTATATAT
Found at i:49534258 original size:62 final size:62
Alignment explanation
Indices: 49534176--49534888 Score: 702
Period size: 62 Copynumber: 11.8 Consensus size: 62
49534166 TATTTAAGTA
* * * * * * *
49534176 TTATGTAAATTATGTAAGTTATGATATGATATAT-ATTTATGTAAGATATATATTTATCTAAG
1 TTATATAAGTTATGTAAGTTAT-ATAAGTTATATAAGTTATATAAGTTATATATTTATCTAAG
49534238 TTATATAAGTTATGTAAGTTATATAAGTTATATAAGTTATATAAGTTATATATTTATCTAAG
1 TTATATAAGTTATGTAAGTTATATAAGTTATATAAGTTATATAAGTTATATATTTATCTAAG
* * *
49534300 TTATATAAG---T-T-A--TATATAAGTTATGTAAGTTATGTAAGTTATATATTTATCTAGG
1 TTATATAAGTTATGTAAGTTATATAAGTTATATAAGTTATATAAGTTATATATTTATCTAAG
*
49534355 TTATATAAGTTATGTAAGTTATATAAGTTATGTAAGTTATATAAGTTATATATTTATCTAAG
1 TTATATAAGTTATGTAAGTTATATAAGTTATATAAGTTATATAAGTTATATATTTATCTAAG
* * *
49534417 TTATATAAGTTATGTAAGTTATATAAGTAATAT-ATTTATCTAAG---T-TA--TA--TAAG
1 TTATATAAGTTATGTAAGTTATATAAGTTATATAAGTTATATAAGTTATATATTTATCTAAG
* * * *
49534470 TTATATAAGTTATGTAAGTTATATAAGTTATAT-ATTTATCTAGGTTATATAAGTTATCTAAG
1 TTATATAAGTTATGTAAGTTATATAAGTTATATAAGTTATATAAGTTATAT-ATTTATCTAAG
* * * *
49534532 TTATATAAGTTATGTAAGTTATATAAGTTATAT-ATTTATCTAAGTTATATAAGTTATGTAAG
1 TTATATAAGTTATGTAAGTTATATAAGTTATATAAGTTATATAAGTTATAT-ATTTATCTAAG
* * * * * * * *
49534594 TTATGTAAGTTATAT-ATTTATCTAAGTTATATAAGTTATGTAAGTTATATAAGTGATTTAAG
1 TTATATAAGTTATGTAAGTTATATAAGTTATATAAGTTATATAAGTTATAT-ATTTATCTAAG
* * * * * *
49534656 TTATATAAGTTATAT-ATTTATCTAAGTTATATAAGTTATATAAGTTATGTAAGTTATATAAG
1 TTATATAAGTTATGTAAGTTATATAAGTTATATAAGTTATATAAGTTATAT-ATTTATCTAAG
* * * * * *
49534718 TTATAT-ATTTATCTAAGTTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAG
1 TTATATAAGTTATGTAAGTTATATAAGTTATATAAGTTATATAAGTTATAT-ATTTATCTAAG
* * * * * * *
49534780 TTATAT-ATTTATCTAAGTTATATAAGTTATGTAAGTTATAT-ATTTATCTAAGTTATATAAG
1 TTATATAAGTTATGTAAGTTATATAAGTTATATAAGTTATATAAGTTATAT-ATTTATCTAAG
* * * * *
49534841 TTATAT-ATTTATCTAAGTTATATAAGTTATGTAAGTTTTGTAAGTTAT
1 TTATATAAGTTATGTAAGTTATATAAGTTATATAAGTTATATAAGTTAT
49534889 GTTAAATATT
Statistics
Matches: 585, Mismatches: 46, Indels: 40
0.87 0.07 0.06
Matches are distributed among these distances:
53 46 0.08
55 51 0.09
56 1 0.00
57 4 0.01
58 4 0.01
59 2 0.00
60 3 0.01
61 95 0.16
62 379 0.65
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.47
Consensus pattern (62 bp):
TTATATAAGTTATGTAAGTTATATAAGTTATATAAGTTATATAAGTTATATATTTATCTAAG
Found at i:49534270 original size:44 final size:45
Alignment explanation
Indices: 49534212--49534888 Score: 757
Period size: 44 Copynumber: 15.1 Consensus size: 45
49534202 TGATATATAT
* * * *
49534212 TTATGTAAGATATAT-ATTTATCTAAGTTATATAAGTTATGTAAG
1 TTATATAAGTTATATAAGTTATATAAGTTATATAAGTTATGTAAG
* *
49534256 TTATATAAGTTATATAAGTTATATAAGTTATAT-ATTTATCTAAG
1 TTATATAAGTTATATAAGTTATATAAGTTATATAAGTTATGTAAG
* * * *
49534300 TTATATAAGTTATATATAAGTTATGTAAGTTATGTAAGTTATAT-AT
1 TTATATAAG-T-TATATAAGTTATATAAGTTATATAAGTTATGTAAG
* * *
49534346 TTATCTAGGTTATATAAGTTATGTAAGTTATATAAGTTATGTAAG
1 TTATATAAGTTATATAAGTTATATAAGTTATATAAGTTATGTAAG
* *
49534391 TTATATAAGTTATAT-ATTTATCTAAGTTATATAAGTTATGTAAG
1 TTATATAAGTTATATAAGTTATATAAGTTATATAAGTTATGTAAG
49534435 TTATATAAGTAATATATTTATCTAAGTTATATAAGTTATATAAGTTATGTAAG
1 TTATATAAG---T-TA--TA--TAAGTTATATAAGTTATATAAGTTATGTAAG
* * * *
49534488 TTATATAAGTTATAT-ATTTATCTAGGTTATATAAGTTATCTAAG
1 TTATATAAGTTATATAAGTTATATAAGTTATATAAGTTATGTAAG
* * *
49534532 TTATATAAGTTATGTAAGTTATATAAGTTATAT-ATTTATCTAAG
1 TTATATAAGTTATATAAGTTATATAAGTTATATAAGTTATGTAAG
* * * *
49534576 TTATATAAGTTATGTAAGTTATGTAAGTTATAT-ATTTATCTAAG
1 TTATATAAGTTATATAAGTTATATAAGTTATATAAGTTATGTAAG
* * * *
49534620 TTATATAAGTTATGTAAGTTATATAAGTGATTTAAGTTATATAAG
1 TTATATAAGTTATATAAGTTATATAAGTTATATAAGTTATGTAAG
* *
49534665 TTATAT-ATTTATCTAAGTTATATAAGTTATATAAGTTATGTAAG
1 TTATATAAGTTATATAAGTTATATAAGTTATATAAGTTATGTAAG
* * *
49534709 TTATATAAGTTATAT-ATTTATCTAAGTTATATAAGTTATCTAAG
1 TTATATAAGTTATATAAGTTATATAAGTTATATAAGTTATGTAAG
* * * *
49534753 TTATATAAGTTATGTAAGTTATGTAAGTTATAT-ATTTATCTAAG
1 TTATATAAGTTATATAAGTTATATAAGTTATATAAGTTATGTAAG
* * * *
49534797 TTATATAAGTTATGTAAGTTATAT-ATTTATCTAAGTTATATAAG
1 TTATATAAGTTATATAAGTTATATAAGTTATATAAGTTATGTAAG
* * * *
49534841 TTATAT-ATTTATCTAAGTTATATAAGTTATGTAAGTTTTGTAAG
1 TTATATAAGTTATATAAGTTATATAAGTTATATAAGTTATGTAAG
49534885 TTAT
1 TTAT
49534889 GTTAAATATT
Statistics
Matches: 551, Mismatches: 62, Indels: 40
0.84 0.09 0.06
Matches are distributed among these distances:
43 21 0.04
44 366 0.66
45 82 0.15
46 29 0.05
47 9 0.02
48 2 0.00
49 2 0.00
50 3 0.01
52 1 0.00
53 36 0.07
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.47
Consensus pattern (45 bp):
TTATATAAGTTATATAAGTTATATAAGTTATATAAGTTATGTAAG
Found at i:49535013 original size:15 final size:15
Alignment explanation
Indices: 49534993--49535078 Score: 90
Period size: 15 Copynumber: 5.9 Consensus size: 15
49534983 GTAAGTTGCA
49534993 AATTAAATAATATTT
1 AATTAAATAATATTT
49535008 AATTAAATAATATTT
1 AATTAAATAATATTT
49535023 -A-TAAA-AATTATTTT
1 AATTAAATAA-TA-TTT
*
49535037 AATTAAATAATATTG
1 AATTAAATAATATTT
** *
49535052 AAAAAAATTAT-TTT
1 AATTAAATAATATTT
49535066 AATTAAATAATAT
1 AATTAAATAATAT
49535079 ACATGTCGTT
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
12 2 0.04
13 6 0.11
14 14 0.25
15 27 0.47
16 6 0.11
17 2 0.04
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (15 bp):
AATTAAATAATATTT
Found at i:49535042 original size:29 final size:29
Alignment explanation
Indices: 49535005--49535078 Score: 130
Period size: 29 Copynumber: 2.6 Consensus size: 29
49534995 TTAAATAATA
* *
49535005 TTTAATTAAATAATATTTATAAAAATTAT
1 TTTAATTAAATAATATTGAAAAAAATTAT
49535034 TTTAATTAAATAATATTGAAAAAAATTAT
1 TTTAATTAAATAATATTGAAAAAAATTAT
49535063 TTTAATTAAATAATAT
1 TTTAATTAAATAATAT
49535079 ACATGTCGTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (29 bp):
TTTAATTAAATAATATTGAAAAAAATTAT
Found at i:49535288 original size:24 final size:24
Alignment explanation
Indices: 49535252--49535322 Score: 106
Period size: 24 Copynumber: 3.0 Consensus size: 24
49535242 TGAACTTAAA
49535252 TGATAAAACGGACGATAATATTTG
1 TGATAAAACGGACGATAATATTTG
* *
49535276 TGATAAAATGGACAATAATATTTG
1 TGATAAAACGGACGATAATATTTG
* *
49535300 TGATCAAACGGACGAGAATATTT
1 TGATAAAACGGACGATAATATTT
49535323 CAATAATAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.42, C:0.08, G:0.20, T:0.30
Consensus pattern (24 bp):
TGATAAAACGGACGATAATATTTG
Found at i:49536672 original size:24 final size:24
Alignment explanation
Indices: 49536640--49536687 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
49536630 AAACATCTAA
49536640 AGCTACTTATTTTATGCCATTATT
1 AGCTACTTATTTTATGCCATTATT
49536664 AGCTACTTATTTTATGCCATTATT
1 AGCTACTTATTTTATGCCATTATT
49536688 TGTTCTCGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.17, G:0.08, T:0.50
Consensus pattern (24 bp):
AGCTACTTATTTTATGCCATTATT
Found at i:49540281 original size:22 final size:22
Alignment explanation
Indices: 49540256--49540331 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
49540246 AAGTGTATAT
49540256 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * **
49540278 ATGTGATGAATG-TGAATGTGTATA
1 ATGTGAT-AAGGCCGAATG-G-CCA
*
49540302 TATGTGATAAGGCCGAATGGCCG
1 -ATGTGATAAGGCCGAATGGCCA
49540325 ATGTGAT
1 ATGTGAT
49540332 GGATGTGAAG
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 19 0.47
23 4 0.10
24 5 0.12
25 12 0.30
ACGTcount: A:0.30, C:0.11, G:0.32, T:0.28
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:49540288 original size:47 final size:47
Alignment explanation
Indices: 49540234--49540406 Score: 283
Period size: 47 Copynumber: 3.7 Consensus size: 47
49540224 ATGATGAAAT
49540234 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATG
1 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATG
* *
49540281 TGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCCGATG
1 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATG
* * *
49540328 TGATGGATGTGAAGGTGTATATATGTGATAAGGCCAAATGGCCAATG
1 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATG
* *
49540375 TGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TGATGAATGTGAAAGTGTATATATGTGATAAG
49540407 TCCCGAAGGG
Statistics
Matches: 118, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 118 1.00
ACGTcount: A:0.33, C:0.07, G:0.31, T:0.29
Consensus pattern (47 bp):
TGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATG
Found at i:49540319 original size:25 final size:25
Alignment explanation
Indices: 49540248--49540320 Score: 73
Period size: 25 Copynumber: 3.0 Consensus size: 25
49540238 GAATGTGAAA
49540248 GTGTATATATGTGATAAGGCCGAAT
1 GTGTATATATGTGATAAGGCCGAAT
** * *
49540273 G-G-CCA-ATGTGATGAATG-TGAAT
1 GTGTATATATGTGAT-AAGGCCGAAT
49540295 GTGTATATATGTGATAAGGCCGAAT
1 GTGTATATATGTGATAAGGCCGAAT
49540320 G
1 G
49540321 GCCGATGTGA
Statistics
Matches: 35, Mismatches: 8, Indels: 10
0.66 0.15 0.19
Matches are distributed among these distances:
22 12 0.34
23 5 0.14
24 5 0.14
25 13 0.37
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (25 bp):
GTGTATATATGTGATAAGGCCGAAT
Found at i:49542439 original size:43 final size:43
Alignment explanation
Indices: 49542389--49542656 Score: 439
Period size: 43 Copynumber: 6.3 Consensus size: 43
49542379 AAGAGCATTC
49542389 GTGCCGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTT
1 GTGCCGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTT
49542432 GTGCCGGTGATATGTATTCGGGCCTTCGTG-CTAGCAGGCTTT
1 GTGCCGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTT
*
49542474 GTGCTGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTT
1 GTGCCGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTT
*
49542517 GTGCCGATGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTT
1 GTGCCGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTT
*
49542560 GTGCCGATGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTT
1 GTGCCGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTT
* * * ** *
49542603 ATGCCGATAATATGTATTCGGGTTTTCGTGCCTAGCAGGCTTA
1 GTGCCGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTT
*
49542646 ATGCCGGTGAT
1 GTGCCGGTGAT
49542657 TCGAGCAAGG
Statistics
Matches: 214, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
42 41 0.19
43 173 0.81
ACGTcount: A:0.14, C:0.22, G:0.31, T:0.33
Consensus pattern (43 bp):
GTGCCGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTT
Found at i:49542876 original size:28 final size:27
Alignment explanation
Indices: 49542785--49542884 Score: 83
Period size: 28 Copynumber: 3.6 Consensus size: 27
49542775 CGAATGAATA
* * *
49542785 TGGGCACTATGTGTGCGAAATCAGTAAT
1 TGGGCACTATGTGTGCGAGATC-GTCAC
* * *
49542813 TGAGGCACTGTGTGTGCGAGTTCTTCAAC
1 TG-GGCACTATGTGTGCGAGATCGTC-AC
* *
49542842 TGAGCACTATGTGTGCGAGATCGGTCAG
1 TGGGCACTATGTGTGCGAGATC-GTCAC
*
49542870 TGGGCACTAAGTGTG
1 TGGGCACTATGTGTG
49542885 TGAAATAAGA
Statistics
Matches: 56, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
28 34 0.61
29 22 0.39
ACGTcount: A:0.22, C:0.17, G:0.33, T:0.28
Consensus pattern (27 bp):
TGGGCACTATGTGTGCGAGATCGTCAC
Found at i:49545574 original size:30 final size:30
Alignment explanation
Indices: 49545538--49545638 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
49545528 GACAAGATTG
* * *
49545538 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
49545568 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
49545596 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
49545625 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
49545639 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:49545650 original size:29 final size:28
Alignment explanation
Indices: 49545567--49545642 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
49545557 AAAATTGTAC
* *
49545567 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
49545595 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
49545624 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
49545643 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:49553464 original size:30 final size:30
Alignment explanation
Indices: 49553428--49553528 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
49553418 GACAAGATTG
* * *
49553428 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
49553458 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
49553486 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
49553515 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
49553529 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:49553540 original size:29 final size:28
Alignment explanation
Indices: 49553457--49553532 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
49553447 AAAATTGTAC
* *
49553457 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
49553485 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
49553514 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
49553533 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:49557350 original size:47 final size:47
Alignment explanation
Indices: 49557296--49557468 Score: 274
Period size: 47 Copynumber: 3.7 Consensus size: 47
49557286 ATGATGAAAT
49557296 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATG
1 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATG
* **
49557343 TGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCCGGTG
1 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATG
* * *
49557390 TGATGGATGTGAAGGTGTATATATGTGATAAGGCCAAATGGCCAATG
1 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATG
* *
49557437 TGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TGATGAATGTGAAAGTGTATATATGTGATAAG
49557469 TCCCGAAGGG
Statistics
Matches: 116, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 116 1.00
ACGTcount: A:0.32, C:0.07, G:0.32, T:0.29
Consensus pattern (47 bp):
TGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATG
Found at i:49557381 original size:25 final size:25
Alignment explanation
Indices: 49557310--49557382 Score: 73
Period size: 25 Copynumber: 3.0 Consensus size: 25
49557300 GAATGTGAAA
49557310 GTGTATATATGTGATAAGGCCGAAT
1 GTGTATATATGTGATAAGGCCGAAT
** * *
49557335 G-G-CCA-ATGTGATGAATG-TGAAT
1 GTGTATATATGTGAT-AAGGCCGAAT
49557357 GTGTATATATGTGATAAGGCCGAAT
1 GTGTATATATGTGATAAGGCCGAAT
49557382 G
1 G
49557383 GCCGGTGTGA
Statistics
Matches: 35, Mismatches: 8, Indels: 10
0.66 0.15 0.19
Matches are distributed among these distances:
22 12 0.34
23 5 0.14
24 5 0.14
25 13 0.37
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (25 bp):
GTGTATATATGTGATAAGGCCGAAT
Found at i:49559015 original size:20 final size:20
Alignment explanation
Indices: 49558990--49559035 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
49558980 TTGTAATTCA
*
49558990 GGGAAATATTTAGGGATTAG
1 GGGAAATAGTTAGGGATTAG
*
49559010 GGGAAA-AGTTAGGGATTTG
1 GGGAAATAGTTAGGGATTAG
49559029 GGGAAAT
1 GGGAAAT
49559036 TTGGGTGGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.35, C:0.00, G:0.39, T:0.26
Consensus pattern (20 bp):
GGGAAATAGTTAGGGATTAG
Found at i:49560339 original size:14 final size:14
Alignment explanation
Indices: 49560320--49560368 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
49560310 TTTAGATCAT
49560320 GGGTTATGATTTAG
1 GGGTTATGATTTAG
* * * *
49560334 GGGTTAGGCAGTCAT
1 GGGTTATG-ATTTAG
49560349 GGGTTATGATTTAG
1 GGGTTATGATTTAG
49560363 GGGTTA
1 GGGTTA
49560369 GGCTTCATAT
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
14 16 0.62
15 10 0.38
ACGTcount: A:0.20, C:0.04, G:0.39, T:0.37
Consensus pattern (14 bp):
GGGTTATGATTTAG
Found at i:49560348 original size:29 final size:29
Alignment explanation
Indices: 49560316--49560371 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
49560306 AGAGTTTAGA
49560316 TCATGGGTTATGATTTAGGGGTTAGGCAG
1 TCATGGGTTATGATTTAGGGGTTAGGCAG
49560345 TCATGGGTTATGATTTAGGGGTTAGGC
1 TCATGGGTTATGATTTAGGGGTTAGGC
49560372 TTCATATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.20, C:0.07, G:0.38, T:0.36
Consensus pattern (29 bp):
TCATGGGTTATGATTTAGGGGTTAGGCAG
Found at i:49561010 original size:41 final size:41
Alignment explanation
Indices: 49560951--49561050 Score: 130
Period size: 40 Copynumber: 2.5 Consensus size: 41
49560941 AACAAAAGTG
* * *
49560951 CCACTATATCTTAGTTTTTTGCAGCGTTTTGAAT-AAAACA
1 CCACTATTTCTCAGTTTTTTACAGCGTTTTGAATGAAAACA
* * *
49560991 CCACTATTTCTCAGTTTTTTACGGTGTTTTGGATGAAAACA
1 CCACTATTTCTCAGTTTTTTACAGCGTTTTGAATGAAAACA
*
49561032 CCACTATTACTCAGTTTTT
1 CCACTATTTCTCAGTTTTT
49561051 AGTGGCGTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
40 28 0.54
41 24 0.46
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.42
Consensus pattern (41 bp):
CCACTATTTCTCAGTTTTTTACAGCGTTTTGAATGAAAACA
Found at i:49561061 original size:41 final size:40
Alignment explanation
Indices: 49560963--49561050 Score: 122
Period size: 41 Copynumber: 2.2 Consensus size: 40
49560953 ACTATATCTT
* * *
49560963 AGTTTTTTGCAGCGTTTTGAATAAAACACCACTATTTCTC
1 AGTTTTTTACGGCGTTTTGAATAAAACACCACTATTACTC
* *
49561003 AGTTTTTTACGGTGTTTTGGATGAAAACACCACTATTACTC
1 AGTTTTTTACGGCGTTTTGAAT-AAAACACCACTATTACTC
49561044 AGTTTTT
1 AGTTTTT
49561051 AGTGGCGTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
40 18 0.43
41 24 0.57
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.42
Consensus pattern (40 bp):
AGTTTTTTACGGCGTTTTGAATAAAACACCACTATTACTC
Found at i:49568813 original size:40 final size:40
Alignment explanation
Indices: 49568769--49568956 Score: 351
Period size: 40 Copynumber: 4.7 Consensus size: 40
49568759 GCTACTTGCT
49568769 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
49568809 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
49568849 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
49568889 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
49568928 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
49568957 CATCCGAATA
Statistics
Matches: 144, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
39 35 0.24
40 109 0.76
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:49568950 original size:39 final size:40
Alignment explanation
Indices: 49568736--49568952 Score: 350
Period size: 40 Copynumber: 5.5 Consensus size: 40
49568726 AAACCAAGTA
* * * *
49568736 CCTTCGGAATTTAG-CCGGATATAGCT-ACTTGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
49568775 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
49568815 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
49568855 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
49568895 CCTTCGGGACTTAGCCCGGATATAGT-ACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
49568934 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
49568953 TTATCATCCG
Statistics
Matches: 168, Mismatches: 8, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
39 45 0.27
40 123 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:49576890 original size:40 final size:40
Alignment explanation
Indices: 49576846--49577031 Score: 333
Period size: 40 Copynumber: 4.7 Consensus size: 40
49576836 GCTACTTGCT
49576846 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
49576886 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
49576926 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
49576966 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAA---GCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
49577003 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
49577032 CATCCGAATA
Statistics
Matches: 142, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
37 31 0.22
40 111 0.78
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:49576945 original size:80 final size:79
Alignment explanation
Indices: 49576813--49577031 Score: 356
Period size: 80 Copynumber: 2.8 Consensus size: 79
49576803 AAACCAAGTA
* * *
49576813 CCTTCGGAATTTAG-CCGGATATAGCT-ACTTGCTCAAATGCCTTCGGGACTTAGCCCGGTTATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAAC-TGCACAAATGCCTTCGGGACTTAGCCCGGTTATA
49576876 GTAACTCGCACAAATG
64 GTAACTCGCACAAATG
49576892 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACT-GCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
49576957 TAACTCGCACAAATG
65 TAACTCGCACAAATG
49576972 CCTTCGGGACTTAGCCCGGATATAGTAA--GCACAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGATATAGTAACTGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
49577032 CATCCGAATA
Statistics
Matches: 134, Mismatches: 3, Indels: 8
0.92 0.02 0.06
Matches are distributed among these distances:
77 32 0.24
79 14 0.10
80 88 0.66
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGT
AACTCGCACAAATG
Found at i:49584641 original size:46 final size:46
Alignment explanation
Indices: 49584588--49584763 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
49584578 TATTTGGGCA
49584588 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
49584634 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
49584681 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
49584727 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
49584764 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:49584743 original size:93 final size:93
Alignment explanation
Indices: 49584584--49584755 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
49584574 GGGATATTTG
* *
49584584 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
49584649 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
49584677 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
49584742 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
49584756 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:49587727 original size:15 final size:15
Alignment explanation
Indices: 49587707--49587775 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
49587697 GTATCTTGGG
49587707 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
49587722 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
49587737 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
49587752 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
49587767 TTTCTTTAT
1 TTTCTTTAT
49587776 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:49587776 original size:30 final size:30
Alignment explanation
Indices: 49587698--49587785 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
49587688 CATAGTATCG
* * * *
49587698 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
49587728 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
49587758 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
49587786 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:49590065 original size:41 final size:41
Alignment explanation
Indices: 49590008--49590157 Score: 212
Period size: 41 Copynumber: 3.7 Consensus size: 41
49589998 TCGGGGTTTA
49590008 AATCCGAGCTTGGTCTCGAAGGGCTTTTGGGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGGGCCAGTGTCAT
* *
49590049 AATCCGAGCTTTGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGGGCCAGTGTCAT
* * * * * * *
49590090 AA-CCGAACCTAGTTTCGAAGGGCCTTCGGGCCAATGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGGGCCAGTGTCAT
49590130 AATCCGAGCTTGGTCTCGAAGGGCTTTT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTT
49590158 TGAGTCAGCG
Statistics
Matches: 92, Mismatches: 16, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
40 32 0.35
41 60 0.65
ACGTcount: A:0.20, C:0.23, G:0.28, T:0.29
Consensus pattern (41 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTGGGCCAGTGTCAT
Found at i:49612750 original size:37 final size:37
Alignment explanation
Indices: 49612691--49612799 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
49612681 AGCTCAGACG
** *
49612691 AAATCTCCACACAAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
49612728 AAATCTCCACACGTAGCCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
49612765 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
49612800 ATATATTTCC
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.22
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:49613000 original size:48 final size:48
Alignment explanation
Indices: 49612946--49613080 Score: 243
Period size: 48 Copynumber: 2.8 Consensus size: 48
49612936 GCACATCGCC
49612946 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
49612994 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
* * *
49613042 TACATATTTCACATTAGCCATTCGGCCTTAACACATATA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATA
49613081 TGCATGTTCA
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 84 1.00
ACGTcount: A:0.32, C:0.28, G:0.07, T:0.33
Consensus pattern (48 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:49613115 original size:47 final size:47
Alignment explanation
Indices: 49613050--49613214 Score: 303
Period size: 47 Copynumber: 3.5 Consensus size: 47
49613040 CATACATATT
* * *
49613050 TCACATTAGCCATTCGGCCTTAACACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
49613097 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
49613144 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
49613191 TCACATTGGCCATTCGGCCTTATC
1 TCACATTGGCCATTCGGCCTTATC
49613215 TCATATATAC
Statistics
Matches: 115, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 115 1.00
ACGTcount: A:0.25, C:0.30, G:0.13, T:0.32
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
Found at i:49613122 original size:22 final size:22
Alignment explanation
Indices: 49613096--49613170 Score: 57
Period size: 22 Copynumber: 3.3 Consensus size: 22
49613086 GTTCACATTC
49613096 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
49613118 ATCACACATAT-G-CATGTTC-ACATT
1 AT--CACAT-TGGCCA--TTCGGCCTT
49613142 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
49613165 ATCACA
1 ATCACA
49613171 CATATGCATG
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 12 0.30
23 11 0.28
24 11 0.28
25 6 0.15
ACGTcount: A:0.25, C:0.31, G:0.13, T:0.31
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:49613147 original size:25 final size:25
Alignment explanation
Indices: 49613118--49613195 Score: 69
Period size: 25 Copynumber: 3.2 Consensus size: 25
49613108 ATTCGGCCTT
49613118 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
* *
49613143 AT--CACAT-TGGCCA--TTCGGCCTT-
1 ATCACACATAT-G-CATGTTC-ACATTC
49613165 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
49613190 ATCACA
1 ATCACA
49613196 TTGGCCATTC
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 6 0.15
23 11 0.28
24 11 0.28
25 12 0.30
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.31
Consensus pattern (25 bp):
ATCACACATATGCATGTTCACATTC
Found at i:49613196 original size:23 final size:23
Alignment explanation
Indices: 49613122--49613196 Score: 59
Period size: 23 Copynumber: 3.2 Consensus size: 23
49613112 GGCCTTATCA
49613122 CACATATGCATGTTCACATTCAT
1 CACATATGCATGTTCACATTCAT
* *
49613145 CACAT-TGGCCA--TTCGGCCTT-AT
1 CACATAT-G-CATGTTC-ACATTCAT
49613167 CACACATATGCATGTTCACATTCAT
1 --CACATATGCATGTTCACATTCAT
49613192 CACAT
1 CACAT
49613197 TGGCCATTCG
Statistics
Matches: 39, Mismatches: 4, Indels: 18
0.64 0.07 0.30
Matches are distributed among these distances:
22 6 0.15
23 16 0.41
24 11 0.28
25 6 0.15
ACGTcount: A:0.28, C:0.29, G:0.11, T:0.32
Consensus pattern (23 bp):
CACATATGCATGTTCACATTCAT
Found at i:49617326 original size:40 final size:40
Alignment explanation
Indices: 49617294--49617642 Score: 533
Period size: 40 Copynumber: 8.8 Consensus size: 40
49617284 CCAGCATGAT
* * *
49617294 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** *
49617334 TGCTCTT-GGGGTTTAGCACGGATATATCACTAGCA-GAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * *
49617372 TGCTCTTCAGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
49617412 TGCTCTTCGGGACTTAG-TCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
49617451 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** *
49617491 TGCTCTTCGGGACTTAGTTCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
49617531 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
49617571 TGCTCTTCGGGACTTAGCCCAGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
49617611 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
49617643 CTCAATTCTC
Statistics
Matches: 280, Mismatches: 26, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
38 10 0.04
39 81 0.29
40 189 0.68
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:49618973 original size:37 final size:37
Alignment explanation
Indices: 49618910--49619018 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
49618900 AGCTCAGACG
* *
49618910 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
49618947 AAATCTCCACACGTAGTCATCAGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
49618984 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
49619019 ATATATTTCC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:49619219 original size:48 final size:48
Alignment explanation
Indices: 49619165--49619299 Score: 227
Period size: 48 Copynumber: 2.8 Consensus size: 48
49619155 GCACATCGCC
49619165 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
49619213 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
49619261 TACATATTT-ACATTAGCCATTCGGCCTTATCACACATAT
1 TACATATTTCACACTAGCCATTCGGCTTTA-C-CACATAT
49619300 GCATGTTCAC
Statistics
Matches: 83, Mismatches: 2, Indels: 3
0.94 0.02 0.03
Matches are distributed among these distances:
47 18 0.22
48 58 0.70
49 7 0.08
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.34
Consensus pattern (48 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:49619321 original size:47 final size:47
Alignment explanation
Indices: 49619270--49619476 Score: 366
Period size: 47 Copynumber: 4.5 Consensus size: 47
49619260 ATACATATTT
*
49619270 ACATTAGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATC
1 ACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATC
* *
49619317 ACATTGGCCATTCGGCCTTA--ACACATATACATGTTCGCATTCA-C
1 ACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATC
49619361 ACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATC
1 ACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATC
49619408 ACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATC
1 ACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATC
49619455 ACATTGGCCATTCGGCCTTATC
1 ACATTGGCCATTCGGCCTTATC
49619477 TCATATATAC
Statistics
Matches: 152, Mismatches: 5, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
44 21 0.14
45 21 0.14
46 21 0.14
47 89 0.59
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.31
Consensus pattern (47 bp):
ACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATC
Found at i:49619381 original size:91 final size:93
Alignment explanation
Indices: 49619270--49619476 Score: 364
Period size: 91 Copynumber: 2.2 Consensus size: 93
49619260 ATACATATTT
*
49619270 ACATTAGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCT
1 ACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCT
*
49619335 TA-ACACATATACATGTTCGCATTCA-C
66 TACACACATATACATGTTCACATTCATC
49619361 ACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCT
1 ACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCT
*
49619426 TATCACACATATGCATGTTCACATTCATC
66 TA-CACACATATACATGTTCACATTCATC
49619455 ACATTGGCCATTCGGCCTTATC
1 ACATTGGCCATTCGGCCTTATC
49619477 TCATATATAC
Statistics
Matches: 110, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
91 66 0.60
93 21 0.19
94 23 0.21
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.31
Consensus pattern (93 bp):
ACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCT
TACACACATATACATGTTCACATTCATC
Found at i:49619385 original size:22 final size:22
Alignment explanation
Indices: 49619314--49619385 Score: 53
Period size: 22 Copynumber: 3.3 Consensus size: 22
49619304 GTTCACATTC
49619314 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
49619336 AACACATAT--ACATGTTC-GCATT
1 ATCACAT-TGGCCA--TTCGGCCTT
49619358 CA-CACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
49619380 ATCACA
1 ATCACA
49619386 CATATGCATG
Statistics
Matches: 37, Mismatches: 5, Indels: 16
0.64 0.09 0.28
Matches are distributed among these distances:
21 7 0.19
22 23 0.62
23 7 0.19
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.29
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:49619386 original size:24 final size:24
Alignment explanation
Indices: 49619357--49619435 Score: 69
Period size: 24 Copynumber: 3.3 Consensus size: 24
49619347 ATGTTCGCAT
49619357 TCACACATTGGCCATTCGGCCTTA
1 TCACACATTGGCCATTCGGCCTTA
* *
49619381 TCACACATAT-G-CATGTTC-ACATTCA
1 TCACACAT-TGGCCA--TTCGGCCTT-A
49619406 T--CACATTGGCCATTCGGCCTTA
1 TCACACATTGGCCATTCGGCCTTA
49619428 TCACACAT
1 TCACACAT
49619436 ATGCATGTTC
Statistics
Matches: 42, Mismatches: 4, Indels: 18
0.66 0.06 0.28
Matches are distributed among these distances:
22 6 0.14
23 11 0.26
24 19 0.45
25 6 0.14
ACGTcount: A:0.25, C:0.32, G:0.13, T:0.30
Consensus pattern (24 bp):
TCACACATTGGCCATTCGGCCTTA
Found at i:49626058 original size:30 final size:30
Alignment explanation
Indices: 49626022--49626078 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
49626012 GGTGTTACAT
49626022 GGCAAAAGTGTAAATATGCAAAAGTTTAGG
1 GGCAAAAGTGTAAATATGCAAAAGTTTAGG
* * * *
49626052 GGCAAAATTGTAATTTTGCCAAAGTTT
1 GGCAAAAGTGTAAATATGCAAAAGTTT
49626079 GAGTTAAGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.30
Consensus pattern (30 bp):
GGCAAAAGTGTAAATATGCAAAAGTTTAGG
Done.