Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 224 of 310
Found at i:73501251 original size:27 final size:26
Alignment explanation
Indices: 73501207--73501257 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
73501197 CTCGCTGTAA
*
73501207 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
73501234 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
73501258 AGCAGCCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:73501328 original size:26 final size:27
Alignment explanation
Indices: 73501299--73501358 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
73501289 ACATATATAT
*
73501299 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
73501325 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
73501352 ATATCTG
1 ATATCTG
73501359 GCAGCTTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:73504750 original size:29 final size:29
Alignment explanation
Indices: 73504695--73504784 Score: 128
Period size: 29 Copynumber: 3.1 Consensus size: 29
73504685 GTGAGCATGA
* * *
73504695 ATATGAATGTGA-CTGGGCCTAACGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
73504723 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* *
73504752 ATATACAGGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
73504781 ATAT
1 ATAT
73504785 GAATATAATG
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
28 11 0.20
29 45 0.80
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.28
Consensus pattern (29 bp):
ATATAAATGTGATTTGGGCCTAATGGGCC
Found at i:73504814 original size:56 final size:58
Alignment explanation
Indices: 73504708--73504817 Score: 152
Period size: 56 Copynumber: 1.9 Consensus size: 58
73504698 TGAATGTGAC
* * *
73504708 TGGGCCTAACGGGCCATATAAATGTGATTTGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAACGGGCCATATAAATATGATATGGGCCTAATGGGCCAGATACAGGTGATT
* * *
73504766 TGGGCCTAATGGGCCATATGAATAT-A-ATGGGCTTAATGGGCCAGATACAGGT
1 TGGGCCTAACGGGCCATATAAATATGATATGGGCCTAATGGGCCAGATACAGGT
73504818 ATGCGAATTT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
56 23 0.50
57 1 0.02
58 22 0.48
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.26
Consensus pattern (58 bp):
TGGGCCTAACGGGCCATATAAATATGATATGGGCCTAATGGGCCAGATACAGGTGATT
Found at i:73505126 original size:27 final size:26
Alignment explanation
Indices: 73505092--73505144 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
73505082 AATCATAATT
* * *
73505092 AAGGGAAAATTACCGAAATGCCCCTA
1 AAGGGAAAATGACCAAAATACCCCTA
73505118 AAGGCGAAAATGACCAAAATACCCCTA
1 AAGG-GAAAATGACCAAAATACCCCTA
73505145 GATGTTGAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.45, C:0.25, G:0.17, T:0.13
Consensus pattern (26 bp):
AAGGGAAAATGACCAAAATACCCCTA
Found at i:73509468 original size:87 final size:87
Alignment explanation
Indices: 73509322--73509486 Score: 253
Period size: 87 Copynumber: 1.9 Consensus size: 87
73509312 TGTATGTGAA
* * *
73509322 ATGTATGTTCGATTATGTTATAAGTTCAGTAATGCTCCGTAACCCTCTTCCGACAATGGATACGG
1 ATGTATGTTCAATTATGTTATAAGTTCAGTAATGCTCCGTAACCCTATTCCGACAATGGATACGA
73509387 GTTAGGGGTGTTATATTTATTT
66 GTTAGGGGTGTTATATTTATTT
* *
73509409 ATGTATGTTCAATTGTGTTATAAGTTC-GATAATGCTCCGTAACCCTATTCC-AGCGATGGATAC
1 ATGTATGTTCAATTATGTTATAAGTTCAG-TAATGCTCCGTAACCCTATTCCGA-CAATGGATAC
73509472 GAGTTAGGGGTGTTA
64 GAGTTAGGGGTGTTA
73509487 CACTTAGCCT
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
86 2 0.03
87 69 0.97
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (87 bp):
ATGTATGTTCAATTATGTTATAAGTTCAGTAATGCTCCGTAACCCTATTCCGACAATGGATACGA
GTTAGGGGTGTTATATTTATTT
Found at i:73524998 original size:15 final size:15
Alignment explanation
Indices: 73524978--73525046 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
73524968 GTATCTTGGG
73524978 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
73524993 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
73525008 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
73525023 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
73525038 TTTCTTTAT
1 TTTCTTTAT
73525047 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:73525047 original size:30 final size:30
Alignment explanation
Indices: 73524969--73525056 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
73524959 CATAGTATCG
* * * *
73524969 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
73524999 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
73525029 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
73525057 TATTATCTTT
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:73527603 original size:46 final size:45
Alignment explanation
Indices: 73527446--73527619 Score: 163
Period size: 46 Copynumber: 3.8 Consensus size: 45
73527436 GTTTGGGCAT
* * *
73527446 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGT
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AACGC
* * * *** * * * *
73527492 CTGA-ATTGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCAACGC
*
73527536 ATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AACGC
73527584 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
73527620 GCGGGTTACA
Statistics
Matches: 99, Mismatches: 23, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
44 2 0.02
45 22 0.22
46 51 0.52
47 21 0.21
48 3 0.03
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (45 bp):
CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACGC
Found at i:73527942 original size:32 final size:32
Alignment explanation
Indices: 73527906--73527970 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
73527896 ATGTTTGCTT
73527906 ATATAGTTGTGTTACTTGCTATTTGCATGTGA
1 ATATAGTTGTGTTACTTGCTATTTGCATGTGA
73527938 ATATAGTTGTGTTACTTGCTATTTGCATGTGA
1 ATATAGTTGTGTTACTTGCTATTTGCATGTGA
73527970 A
1 A
73527971 CTTACTAAGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.23, C:0.09, G:0.22, T:0.46
Consensus pattern (32 bp):
ATATAGTTGTGTTACTTGCTATTTGCATGTGA
Found at i:73531403 original size:46 final size:47
Alignment explanation
Indices: 73531242--73531506 Score: 269
Period size: 46 Copynumber: 5.7 Consensus size: 47
73531232 AGGGTATAAT
* *
73531242 GCCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCACATATCCG-T
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCT-ACATAT-CGAG
* * *
73531292 GCCGTTGCATGTCCCAGACATGTCTTACACTAG--C-ACATGTCGTA-
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTACATATCG-AG
*
73531336 GCCGATGCATGTCCCAGACATGTCTTACACTGGCT-TACATCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTACATATCGAG
* * * * * *
73531382 GCCGACGCATGTCCCAGACATGTCTTACACTAGCTCT-CGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTACATATCGAG
* *
73531428 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCT-CATAAT-GTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTACAT-ATCGAG
73531476 GCCGATGCATGTCCCAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
73531507 AGCACACACA
Statistics
Matches: 184, Mismatches: 21, Indels: 24
0.80 0.09 0.10
Matches are distributed among these distances:
43 2 0.01
44 36 0.20
45 1 0.01
46 63 0.34
47 27 0.15
48 34 0.18
49 15 0.08
50 6 0.03
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTACATATCGAG
Found at i:73531489 original size:94 final size:95
Alignment explanation
Indices: 73531238--73531512 Score: 363
Period size: 94 Copynumber: 2.9 Consensus size: 95
73531228 ACATAGGGTA
* * *
73531238 TAATGCCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCACATATCCGT-GCCGTTGCAT
1 TAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-AT-CGTGGCCGATGCAT
73531302 GTCCCAGACATGTCTTACACTAGCACATGTCG
64 GTCCCAGACATGTCTTACACTAGCACATGTCG
* * *
73531334 T-A-GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACAT-CTCGAGGCCGACGCATG
1 TAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAATCGTGGCCGATGCATG
*
73531393 TCCCAGACATGTCTTACACTAGCTC-TCGTC-
65 TCCCAGACATGTCTTACACTAGCACAT-GTCG
*
73531423 TCAATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATGCATG
1 T-AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATCGTGGCCGATGCATG
73531487 TCCCAGACATGTCTTACACTAGCACA
65 TCCCAGACATGTCTTACACTAGCACA
73531513 CACACATCGC
Statistics
Matches: 156, Mismatches: 12, Indels: 23
0.82 0.06 0.12
Matches are distributed among these distances:
89 4 0.03
90 37 0.24
91 2 0.01
92 22 0.14
93 27 0.17
94 60 0.38
95 3 0.02
96 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.27
Consensus pattern (95 bp):
TAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATCGTGGCCGATGCATGT
CCCAGACATGTCTTACACTAGCACATGTCG
Found at i:73534974 original size:27 final size:26
Alignment explanation
Indices: 73534943--73534998 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 26
73534933 AGGTAGAGAA
*
73534943 AAAAAGAAAGGGAAAGATGAGAAACC
1 AAAAAGAAAGGGAAAGAGGAGAAACC
*
73534969 ANAAAAGAAAGGGTAAGAGGAGAAACC
1 A-AAAAGAAAGGGAAAGAGGAGAAACC
73534996 AAA
1 AAA
73534999 CACCCCAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 3 0.11
27 24 0.89
ACGTcount: A:0.61, C:0.07, G:0.27, T:0.04
Consensus pattern (26 bp):
AAAAAGAAAGGGAAAGAGGAGAAACC
Found at i:73543322 original size:29 final size:29
Alignment explanation
Indices: 73543256--73543362 Score: 119
Period size: 29 Copynumber: 3.7 Consensus size: 29
73543246 TACATACATG
* *
73543256 CATATGGCCCACTAGGCCCAA-TCTTATT
1 CATATGGCCCATTAGGCCCAATTCTCATT
* * *
73543284 CAAATGGCCCATTTGGCCCAGTTCAT-ATT
1 CATATGGCCCATTAGGCCCAATTC-TCATT
* * *
73543313 CTTATGGCCCACTAGGTCCAATTCTCATT
1 CATATGGCCCATTAGGCCCAATTCTCATT
73543342 CATATGGCCCATTAGGCCCAA
1 CATATGGCCCATTAGGCCCAA
73543363 ATTATATTAT
Statistics
Matches: 63, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
28 18 0.29
29 44 0.70
30 1 0.02
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.29
Consensus pattern (29 bp):
CATATGGCCCATTAGGCCCAATTCTCATT
Found at i:73543370 original size:58 final size:57
Alignment explanation
Indices: 73543258--73543370 Score: 156
Period size: 58 Copynumber: 2.0 Consensus size: 57
73543248 CATACATGCA
* * *
73543258 TATGGCCCACTAGGCCCAATCTTATTCAAATGGCCCATTTGGCCCAGTTCATATTCT
1 TATGGCCCACTAGGCCCAATCTCATTCAAATGGCCCATTAGGCCCAATTCATATTCT
* *
73543315 TATGGCCCACTAGGTCCAATTCTCATTCATATGGCCCATTAGGCCCAAATT-ATATT
1 TATGGCCCACTAGGCCCAA-TCTCATTCAAATGGCCCATTAGGCCC-AATTCATATT
73543371 ATATTCATGC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
57 18 0.37
58 28 0.57
59 3 0.06
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.32
Consensus pattern (57 bp):
TATGGCCCACTAGGCCCAATCTCATTCAAATGGCCCATTAGGCCCAATTCATATTCT
Found at i:73543471 original size:19 final size:19
Alignment explanation
Indices: 73543435--73543471 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
73543425 GCCAATTATA
*
73543435 GGCCCATTTAGCCCATTCC
1 GGCCCATTTAGCCAATTCC
*
73543454 GGCCCATTTGGCCAATTC
1 GGCCCATTTAGCCAATTC
73543472 TCAACCCGAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.16, C:0.38, G:0.19, T:0.27
Consensus pattern (19 bp):
GGCCCATTTAGCCAATTCC
Found at i:73546238 original size:70 final size:70
Alignment explanation
Indices: 73546125--73546282 Score: 199
Period size: 70 Copynumber: 2.3 Consensus size: 70
73546115 GTCGAATACC
* * * * * **
73546125 CGATGTTTTGCGCACTAAGCGCCATTGCATAGCCGAAGCTATTATAATTCCGCACACTAAGTGTG
1 CGATGTTTCGCACACTAAACGCCATCGCATAGCCGAAGCTATTATAATTCCACACACTAAGTGCC
73546190 TTACT
66 TTACT
* * *
73546195 CGATGTTTCGCACACTAAATGCCATCGCATAGCCGAAGTTATTATAATTCTACACACTAAGTGCC
1 CGATGTTTCGCACACTAAACGCCATCGCATAGCCGAAGCTATTATAATTCCACACACTAAGTGCC
73546260 TTACT
66 TTACT
** *
73546265 TAATGTTTCCCACACTAA
1 CGATGTTTCGCACACTAA
73546283 GTGTTATATA
Statistics
Matches: 75, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
70 75 1.00
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.30
Consensus pattern (70 bp):
CGATGTTTCGCACACTAAACGCCATCGCATAGCCGAAGCTATTATAATTCCACACACTAAGTGCC
TTACT
Found at i:73549905 original size:40 final size:40
Alignment explanation
Indices: 73549836--73549959 Score: 205
Period size: 40 Copynumber: 3.1 Consensus size: 40
73549826 AACCCAAGTA
* *
73549836 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
73549875 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
73549915 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
73549955 CCTTC
1 CCTTC
73549960 AGATTTTAGT
Statistics
Matches: 80, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 13 0.16
40 67 0.84
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:73560184 original size:46 final size:46
Alignment explanation
Indices: 73560134--73560262 Score: 206
Period size: 46 Copynumber: 2.8 Consensus size: 46
73560124 TGATTGAGCA
* *
73560134 TCCGAACTCGTTGAGTTCAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
73560180 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
73560226 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
73560263 GCGGGTTACA
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
45 2 0.03
46 76 0.97
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:73567226 original size:27 final size:26
Alignment explanation
Indices: 73567196--73567296 Score: 109
Period size: 27 Copynumber: 3.8 Consensus size: 26
73567186 AATCTCATAT
*
73567196 CTGTAGGCTAGTATTACTGAAATGCCC
1 CTGTAGG-TAGAATTACTGAAATGCCC
* *
73567223 CTGTAGGATAGAATTACTGAGATGCCA
1 CTGTAGG-TAGAATTACTGAAATGCCC
73567250 CTGTAGG-A-AATTACT-AAGATGCCC
1 CTGTAGGTAGAATTACTGAA-ATGCCC
*
73567274 CTGTAGGGTAGAATTACTAAAAT
1 CTGTA-GGTAGAATTACTGAAAT
73567297 ACCCTTGGTT
Statistics
Matches: 63, Mismatches: 6, Indels: 10
0.80 0.08 0.13
Matches are distributed among these distances:
23 1 0.02
24 17 0.27
25 3 0.05
26 1 0.02
27 39 0.62
28 2 0.03
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.28
Consensus pattern (26 bp):
CTGTAGGTAGAATTACTGAAATGCCC
Found at i:73567315 original size:27 final size:27
Alignment explanation
Indices: 73567285--73567656 Score: 255
Period size: 27 Copynumber: 13.9 Consensus size: 27
73567275 TGTAGGGTAG
* *
73567285 AATTACTAAAATACCCTTGGTTTACAA
1 AATTACTAAAATACCCTTGATTTGCAA
* * *
73567312 AATTACT-GAATACCCTTGGTTTACAA
1 AATTACTAAAATACCCTTGATTTGCAA
* * *
73567338 AATTACCAAAATACCCTCGATTAGCAA
1 AATTACTAAAATACCCTTGATTTGCAA
* * *
73567365 AATTACCAAAATATCCC-TGGTTTGTAA
1 AATTACTAAAATA-CCCTTGATTTGCAA
*
73567392 AATTAAC-AAAATACCCTTGATTT--ATG
1 AATT-ACTAAAATACCCTTGATTTGCA-A
** * ** *
73567418 AATTACCGAAATACCCTCGACCTGTAA
1 AATTACTAAAATACCCTTGATTTGCAA
** * *
73567445 AA-TACCGAAATACCCTTGACTTGTAA
1 AATTACTAAAATACCCTTGATTTGCAA
* *
73567471 AATTA-TCAAAATACCCTCGATTTGTAA
1 AATTACT-AAAATACCCTTGATTTGCAA
* *
73567498 AATTA-TCAAAATACCCCTGATTTGGAA
1 AATTACT-AAAATACCCTTGATTTGCAA
*
73567525 AATTACCAAAATACCC-TGATTTGCAA
1 AATTACTAAAATACCCTTGATTTGCAA
* *
73567551 AATTACAAAAATACCCTTGATTTACAA
1 AATTACTAAAATACCCTTGATTTGCAA
* **
73567578 AATTAC-AGAAATACCATTGACTTTTAAA
1 AATTACTA-AAATACCCTTGA-TTTGCAA
* *
73567606 AATTA-TAGAAATACCATTGGTTTGCAA
1 AATTACTA-AAATACCCTTGATTTGCAA
* *
73567633 AATTA-TCGAAATACCCTTGGTTTG
1 AATTACT-AAAATACCCTTGATTTG
73567657 TAGATTTACC
Statistics
Matches: 290, Mismatches: 39, Indels: 32
0.80 0.11 0.09
Matches are distributed among these distances:
25 3 0.01
26 92 0.32
27 166 0.57
28 29 0.10
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (27 bp):
AATTACTAAAATACCCTTGATTTGCAA
Found at i:73567349 original size:53 final size:53
Alignment explanation
Indices: 73567285--73567678 Score: 282
Period size: 53 Copynumber: 7.4 Consensus size: 53
73567275 TGTAGGGTAG
* * * * **
73567285 AATTACTAAAATACCCTTGGTTTACAAAATTACTGAATACCCTTGGTTTACAA
1 AATTACCAAAATACCCTTGATTTACAAAATTACAGAATACCCTTGATTTGTAA
* * *
73567338 AATTACCAAAATACCCTCGA-TTAGCAAAATTACCAAAATATCCC-TGGTTTGTAA
1 AATTACCAAAATACCCTTGATTTA-CAAAATTA-CAGAATA-CCCTTGATTTGTAA
* ** * * **
73567392 AATTAACAAAATACCCTTGATTTA-TGAATTACCGAAATACCCTCGACCTGTAA
1 AATTACCAAAATACCCTTGATTTACAAAATTACAG-AATACCCTTGATTTGTAA
* * ** * *
73567445 AA-TACCGAAATACCCTTGACTTGTAAAATTATCAAAATACCCTCGATTTGTAA
1 AATTACCAAAATACCCTTGATTTACAAAATTA-CAGAATACCCTTGATTTGTAA
* * ** * *
73567498 AATTATCAAAATACCCCTGATTTGGAAAATTACCAAAATACCC-TGATTTGCAA
1 AATTACCAAAATACCCTTGATTTACAAAATTA-CAGAATACCCTTGATTTGTAA
* *
73567551 AATTACAAAAATACCCTTGATTTACAAAATTACAGAAATACCATTGACTTT-TAAA
1 AATTACCAAAATACCCTTGATTTACAAAATTACAG-AATACCCTTGA-TTTGT-AA
* * * * * *
73567606 AATTA-TAGAAATACCATTGGTTTGCAAAATTATC-GAAATACCCTTGGTTTGTAG
1 AATTACCA-AAATACCCTTGATTTACAAAATTA-CAG-AATACCCTTGATTTGTAA
* *
73567660 ATTTACCAAAACACCCTTG
1 AATTACCAAAATACCCTTG
73567679 TAGGGTGAAA
Statistics
Matches: 270, Mismatches: 54, Indels: 33
0.76 0.15 0.09
Matches are distributed among these distances:
52 26 0.10
53 106 0.39
54 87 0.32
55 50 0.19
56 1 0.00
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (53 bp):
AATTACCAAAATACCCTTGATTTACAAAATTACAGAATACCCTTGATTTGTAA
Found at i:73567976 original size:41 final size:41
Alignment explanation
Indices: 73567915--73568037 Score: 201
Period size: 41 Copynumber: 3.0 Consensus size: 41
73567905 GGAGGAAGAA
*
73567915 ATTAAGGATCGCATGGTTGCTTGACAACCGTGGATCCACCG
1 ATTAAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
* * *
73567956 ATTGAGGATCGCATGGTTGCTTGATGACCGTGGATCCACCA
1 ATTAAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
*
73567997 ATTAAGGATCGCATGGTTGCTTGACGATCGTGGATCCACCG
1 ATTAAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
73568038 GTGGCTTTTA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 74 1.00
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (41 bp):
ATTAAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
Found at i:73570265 original size:43 final size:42
Alignment explanation
Indices: 73570216--73570349 Score: 128
Period size: 44 Copynumber: 3.1 Consensus size: 42
73570206 TCTTACAGGT
*
73570216 AATCAAAAATAGATGTC-ACTGTCCCAGACAGGGTCTTACACAA
1 AATCAAAAAT-GATGCCAAC-GTCCCAGACAGGGTCTTACACAA
* * * *
73570259 AATCAAATATGATGCCAACGTCCTAGACATGGTCTTACACGTA
1 AATCAAAAATGATGCCAACGTCCCAGACAGGGTCTTACAC-AA
** * *
73570302 AATCTCAAATCGATGCCAACGTCCCAGAC-GTGGTCTTATACGA
1 AATCAAAAAT-GATGCCAACGTCCCAGACAG-GGTCTTACACAA
73570345 AATCA
1 AATCA
73570350 CATATAGAAA
Statistics
Matches: 74, Mismatches: 13, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
42 24 0.32
43 24 0.32
44 26 0.35
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.23
Consensus pattern (42 bp):
AATCAAAAATGATGCCAACGTCCCAGACAGGGTCTTACACAA
Found at i:73570336 original size:44 final size:43
Alignment explanation
Indices: 73570185--73570357 Score: 147
Period size: 43 Copynumber: 4.0 Consensus size: 43
73570175 AGCTCGTACA
* * * * * **
73570185 ATGCCAACGTTCTAAACGTGGTCTTACAGGTAATCAAAAATAG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCTCAAATAG
* *
73570228 ATGTC-ACTGTCCCAGACAG-GGTCTTACAC-AAA-ATCAAATATG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGAAATCTCAAATA-G
* * *
73570270 ATGCCAACGTCCTAGACATGGTCTTACACGTAAATCTCAAATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-AAATCTCAAATAG
* * *
73570314 ATGCCAACGTCCCAGACGTGGTCTTATACGAAATCACATATAG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCTCAAATAG
73570357 A
1 A
73570358 AAATCCTATG
Statistics
Matches: 102, Mismatches: 20, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
41 5 0.05
42 27 0.26
43 32 0.31
44 32 0.31
45 6 0.06
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCTCAAATAG
Found at i:73570348 original size:86 final size:85
Alignment explanation
Indices: 73570185--73570354 Score: 200
Period size: 86 Copynumber: 2.0 Consensus size: 85
73570175 AGCTCGTACA
* * * *
73570185 ATGCCAACGTTCTAAACGTGGTCTTACAGGTAATCAAAAATAGATGTCACTGTCCCAGACAGGGT
1 ATGCCAACGTCCTAAACATGGTCTTACACGTAATCAAAAATAGATGCCACTGTCCCAGACAGGGT
73570250 CTTACACAAAATCAAATATG
66 CTTACACAAAATCAAATATG
* ** *
73570270 ATGCCAACGTCCTAGACATGGTCTTACACGTAAATCTCAAATCGATGCCAAC-GTCCCAGAC-GT
1 ATGCCAACGTCCTAAACATGGTCTTACACGT-AATCAAAAATAGATGCC-ACTGTCCCAGACAG-
* * *
73570333 GGTCTTATACGAAATCACATAT
63 GGTCTTACACAAAATCAAATAT
73570355 AGAAAATCCT
Statistics
Matches: 71, Mismatches: 11, Indels: 5
0.82 0.13 0.06
Matches are distributed among these distances:
85 28 0.39
86 41 0.58
87 2 0.03
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (85 bp):
ATGCCAACGTCCTAAACATGGTCTTACACGTAATCAAAAATAGATGCCACTGTCCCAGACAGGGT
CTTACACAAAATCAAATATG
Found at i:73572133 original size:45 final size:45
Alignment explanation
Indices: 73572061--73572152 Score: 157
Period size: 45 Copynumber: 2.0 Consensus size: 45
73572051 TCGACATTCC
* *
73572061 ATAGAAGATGGTTGAGACATATAATTGGGAAAAATGTCCCGTTGA
1 ATAGAAGATGGTTGAGACACATAATTGGGAAAAAGGTCCCGTTGA
*
73572106 ATAGAAGATGGTTGAGACACATGATTGGGAAAAAGGTCCCGTTGA
1 ATAGAAGATGGTTGAGACACATAATTGGGAAAAAGGTCCCGTTGA
73572151 AT
1 AT
73572153 CTTAGGAATG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.37, C:0.10, G:0.28, T:0.25
Consensus pattern (45 bp):
ATAGAAGATGGTTGAGACACATAATTGGGAAAAAGGTCCCGTTGA
Found at i:73572256 original size:46 final size:46
Alignment explanation
Indices: 73572203--73572378 Score: 182
Period size: 46 Copynumber: 3.8 Consensus size: 46
73572193 TGGTTGAGCA
*
73572203 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATG
* * * *
73572249 TCTGAACTTC-TTGAGTTGAGTCTGAGTT--C-GA-GAGATGTAACTAGG
1 TCCGAAC-TCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGTAA--ATG
* *
73572294 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATG
* *
73572342 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
73572379 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 12, Indels: 22
0.76 0.09 0.16
Matches are distributed among these distances:
42 1 0.01
43 7 0.07
44 1 0.01
45 2 0.02
46 61 0.57
47 24 0.22
48 2 0.02
49 1 0.01
50 7 0.07
51 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATG
Found at i:73572359 original size:93 final size:93
Alignment explanation
Indices: 73572200--73572370 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
73572190 GGATGGTTGA
* *
73572200 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTGAACTTCTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTTCTTGAGT
*
73572265 TGAGTCTGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* ** *
73572293 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGCCCGAGC-TCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTTC-TTGAG
73572357 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
73572371 ACTTATGGGC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 68 0.97
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTTCTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:73575335 original size:15 final size:15
Alignment explanation
Indices: 73575315--73575368 Score: 63
Period size: 15 Copynumber: 3.6 Consensus size: 15
73575305 ATATCTTGGG
73575315 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* * *
73575330 TCTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
73575345 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
73575360 TTTCTTTAT
1 TTTCTTTAT
73575369 TCAGTTTTCT
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.11, C:0.19, G:0.13, T:0.57
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:73575345 original size:30 final size:30
Alignment explanation
Indices: 73575311--73575370 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
73575301 TATCATATCT
*
73575311 TGGGTTTCTTTATCCTGGATCTCTTTATTC
1 TGGGTTTCTCTATCCTGGATCTCTTTATTC
* *
73575341 TGGGTTTCTCTATCTTGGATTTCTTTATTC
1 TGGGTTTCTCTATCCTGGATCTCTTTATTC
73575371 AGTTTTCTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.10, C:0.18, G:0.17, T:0.55
Consensus pattern (30 bp):
TGGGTTTCTCTATCCTGGATCTCTTTATTC
Found at i:73577943 original size:46 final size:45
Alignment explanation
Indices: 73577785--73577958 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 45
73577775 GGTTGAGCAT
*
73577785 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT-GATGCAAATG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*** * *
73577829 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCAT-
1 -CCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATG
* *
73577877 CCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
73577922 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 -CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
73577959 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 29 0.27
46 42 0.39
47 26 0.24
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:73577978 original size:93 final size:92
Alignment explanation
Indices: 73577781--73577950 Score: 277
Period size: 92 Copynumber: 1.8 Consensus size: 92
73577771 GGATGGTTGA
* * *
73577781 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGCAAATGTCCGAACTCGTTGAGTT
1 GCATCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGATGCAAATGCCCGAACTCGTTGAGTT
*
73577846 GAGTCCGAGTTCGAGAGATGTAACTAG
66 GAGTCCGAGTTCGACAGATGTAACTAG
* *
73577873 GCATCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTAT-GATGCAAATGCCCGAACTCGTTGAGT
73577938 TGAGTCCGAGTTC
65 TGAGTCCGAGTTC
73577951 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
92 36 0.50
93 36 0.50
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (92 bp):
GCATCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGATGCAAATGCCCGAACTCGTTGAGTT
GAGTCCGAGTTCGACAGATGTAACTAG
Found at i:73582583 original size:28 final size:27
Alignment explanation
Indices: 73582526--73582677 Score: 223
Period size: 27 Copynumber: 5.6 Consensus size: 27
73582516 TAAATTGTGC
* *
73582526 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
73582553 AGCACTAAGTGTACGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
73582581 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
73582608 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* *
73582636 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
73582663 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
73582678 GACTTAATAT
Statistics
Matches: 116, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
27 65 0.56
28 51 0.44
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:73582675 original size:55 final size:55
Alignment explanation
Indices: 73582526--73582677 Score: 232
Period size: 55 Copynumber: 2.8 Consensus size: 55
73582516 TAAATTGTGC
* * *
73582526 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTACGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* *
73582581 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* * *
73582636 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
73582678 GACTTAATAT
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 89 1.00
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
Found at i:73586468 original size:70 final size:70
Alignment explanation
Indices: 73586368--73586534 Score: 257
Period size: 70 Copynumber: 2.4 Consensus size: 70
73586358 CACTGTCGAA
* * *
73586368 TACTTGATGTTTCGCACACTAAGTGCCATCGCATAGCCGAAGCTATTATAATT-TCGCACACTAA
1 TACTCGATGTTTCACACACTAAGTGCCATCGCATAGCCGAAGCTATTATAATTCT-ACACACTAA
73586432 GTGCCT
65 GTGCCT
*
73586438 TACTCGATGTTTCACACACTAAATGCCATCGCATAGCCGAAGCTATTATAATTCTACACACTAAG
1 TACTCGATGTTTCACACACTAAGTGCCATCGCATAGCCGAAGCTATTATAATTCTACACACTAAG
73586503 TGCCT
66 TGCCT
*
73586508 TACTCAATGTTTCGA-ACACTAAGTGCC
1 TACTCGATGTTTC-ACACACTAAGTGCC
73586535 GCATATAGTC
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
70 87 0.98
71 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.29
Consensus pattern (70 bp):
TACTCGATGTTTCACACACTAAGTGCCATCGCATAGCCGAAGCTATTATAATTCTACACACTAAG
TGCCT
Found at i:73597126 original size:47 final size:47
Alignment explanation
Indices: 73597072--73597452 Score: 568
Period size: 47 Copynumber: 8.1 Consensus size: 47
73597062 TTAGGATTTT
** * * * *
73597072 ATGTGATGAATGTGAATGTGTATAAATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
73597119 ATGTGATGAATGTGAACATTCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
73597166 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
73597213 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
73597260 ATGTGATGAATGTGAACATGCATATGTGTGATAA-GCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
73597306 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
73597353 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
73597400 ATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
73597447 ATGTGA
1 ATGTGA
73597453 AATGTGTATG
Statistics
Matches: 310, Mismatches: 22, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
46 44 0.14
47 263 0.85
48 3 0.01
ACGTcount: A:0.34, C:0.10, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:73597316 original size:187 final size:188
Alignment explanation
Indices: 73597072--73597452 Score: 577
Period size: 187 Copynumber: 2.0 Consensus size: 188
73597062 TTAGGATTTT
** *
73597072 ATGTGATGAATGTGAATGTGTATAAATGAGATAAGGCCGAATGGCAAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATAAATGAGATAAGGCCGAATGGCAAATGTGATGAATGTGAACA
*
73597137 TTCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGG
66 TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGG
* * * *
73597202 CTGAATGGCCAATGTGATGAATGT-GAACATGCATATGTGTGATAAGGCCGAATGGCCA
131 CAGAATGGCCAATGTGATGAACGTGGAA-ATGCATATATGTGATAAAGCCGAATGGCCA
** * * *
73597260 ATGTGATGAATGTGAACATGCATATGTGTGATAA-GCCGAATGGCCAATGTGATGAATGTGAATA
1 ATGTGATGAATGTGAACATGCATAAATGAGATAAGGCCGAATGGCAAATGTGATGAATGTGAACA
*
73597324 TGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGG
66 TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGG
* * * *
73597389 CAGAATGGCCAATGTGATGAACGTGGAAGTGTATATATGTGGTAAAGCCGAATGGCTA
131 CAGAATGGCCAATGTGATGAACGTGGAAATGCATATATGTGATAAAGCCGAATGGCCA
73597447 ATGTGA
1 ATGTGA
73597453 AATGTGTATG
Statistics
Matches: 174, Mismatches: 18, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
187 143 0.82
188 31 0.18
ACGTcount: A:0.34, C:0.10, G:0.29, T:0.27
Consensus pattern (188 bp):
ATGTGATGAATGTGAACATGCATAAATGAGATAAGGCCGAATGGCAAATGTGATGAATGTGAACA
TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGG
CAGAATGGCCAATGTGATGAACGTGGAAATGCATATATGTGATAAAGCCGAATGGCCA
Found at i:73597483 original size:46 final size:46
Alignment explanation
Indices: 73597423--73597605 Score: 267
Period size: 46 Copynumber: 4.0 Consensus size: 46
73597413 GGAAGTGTAT
* * * *
73597423 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGGGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
73597469 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
*
73597515 ATATGAGGTAAAGCCCAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
* * * * **
73597561 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATG
73597606 TGTATATATA
Statistics
Matches: 126, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 126 1.00
ACGTcount: A:0.34, C:0.09, G:0.32, T:0.25
Consensus pattern (46 bp):
ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
Found at i:73597485 original size:187 final size:185
Alignment explanation
Indices: 73597097--73597495 Score: 543
Period size: 187 Copynumber: 2.1 Consensus size: 185
73597087 ATGTGTATAA
* * *
73597097 ATGAGATAAGGCCGAATGGCAAATGTGATGAATGTGAACATTCATATATGAGATAAGGCCGAATG
1 ATGAGGTAAAGCCGAATGGCAAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATG
* *
73597162 GCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCTGAATGGCCAATGTGATGAATGTG
66 GCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATGAACGTG
* *
73597227 AACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCAT
131 AACATGCATATATGTGATAAAGCCGAATGGCCAATGTGA-GAATGTGAACATGCAT
* * * *
73597283 ATG-TGTGATAAGCCGAATGGCCAATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAA
1 ATGAGGT-A-AAGCCGAATGGCAAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAA
73597347 TGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATGAACG
64 TGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATGAACG
* * * * ** *
73597412 TGGAA-GTGTATATATGTGGTAAAGCCGAATGGCTAATGTGA-AATGTGTATGGGATGGAT
129 T-GAACATGCATATATGTGATAAAGCCGAATGGCCAATGTGAGAATGTG-A--ACATGCAT
*
73597471 ATGAGGTAAAGCCGAATGGCTAATG
1 ATGAGGTAAAGCCGAATGGCAAATG
73597496 CGAAACGTGT
Statistics
Matches: 186, Mismatches: 20, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
185 7 0.04
186 5 0.03
187 160 0.86
188 12 0.06
189 2 0.01
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (185 bp):
ATGAGGTAAAGCCGAATGGCAAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATG
GCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATGAACGTG
AACATGCATATATGTGATAAAGCCGAATGGCCAATGTGAGAATGTGAACATGCAT
Found at i:73599567 original size:22 final size:22
Alignment explanation
Indices: 73599541--73599587 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
73599531 ATTCCATTCT
*
73599541 CAATTCATCAACC-AAATCATAC
1 CAATTC-TAAACCAAAATCATAC
73599563 CAATTCTAAACCAAAATCATAC
1 CAATTCTAAACCAAAATCATAC
73599585 CAA
1 CAA
73599588 AGCATATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.21
Consensus pattern (22 bp):
CAATTCTAAACCAAAATCATAC
Found at i:73600441 original size:44 final size:42
Alignment explanation
Indices: 73600366--73600465 Score: 148
Period size: 44 Copynumber: 2.3 Consensus size: 42
73600356 TCCCAGATAG
* *
73600366 GGTCTTACACGAAATCAAGTACGATGCCAACGTCCTAGACGT
1 GGTCTTACACGAAACCAAGTACGATGCCAACGTCCCAGACGT
73600408 GGTCTTACACGTAAACCATAAGT-CGATGCCAACGTCCCAGACGT
1 GGTCTTACACG-AAACC--AAGTACGATGCCAACGTCCCAGACGT
73600452 GGTCTTACACGAAA
1 GGTCTTACACGAAA
73600466 TCACATATCG
Statistics
Matches: 53, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
42 11 0.21
43 7 0.13
44 31 0.58
45 4 0.08
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (42 bp):
GGTCTTACACGAAACCAAGTACGATGCCAACGTCCCAGACGT
Found at i:73604910 original size:49 final size:50
Alignment explanation
Indices: 73604737--73604933 Score: 243
Period size: 50 Copynumber: 3.9 Consensus size: 50
73604727 ATCTATTGTG
* * *
73604737 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
*** * * **
73604788 CCATCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
*
73604838 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
73604888 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
73604934 GCTTTCGCTA
Statistics
Matches: 123, Mismatches: 23, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
49 41 0.33
50 44 0.36
51 38 0.31
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (50 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:73616825 original size:28 final size:28
Alignment explanation
Indices: 73616780--73616841 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
73616770 TCAGTAATAG
* *
73616780 TTCAGTTTCAGTTAGGGCCTAAGCTCAT
1 TTCAGTATCAGTTAGGGCCTAAGCCCAT
* *
73616808 TTCAGTATCAGTGT-GGGCTTTAGCCCAT
1 TTCAGTATCAGT-TAGGGCCTAAGCCCAT
73616836 TTCAGT
1 TTCAGT
73616842 GACAGTAACA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 28 0.97
29 1 0.03
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (28 bp):
TTCAGTATCAGTTAGGGCCTAAGCCCAT
Found at i:73622591 original size:255 final size:255
Alignment explanation
Indices: 73622140--73622649 Score: 948
Period size: 255 Copynumber: 2.0 Consensus size: 255
73622130 TTGTGTATTT
73622140 TGGTGTTTTATGATATAATATGAGGTTTTAAATTATGTTAGACAACTTGTGCTACTCGGTTTTAA
1 TGGTGTTTTATGATATAATATGAGGTTTTAAATTATGTTAGACAACTTGTGCTACTCGGTTTTAA
73622205 GTGAAAACGAGCAAAAGGGCTTAATCGGTAAAAATACCTAATAGTCATAAGTACATGTTAGAGTG
66 GTGAAAACGAGCAAAAGGGCTTAATCGGTAAAAATACCTAATAGTCATAAGTACATGTTAGAGTG
* *
73622270 AGAATTTGATGTTGCCATAGAAGGGAAAAATGATCAGCATGTCATAAAACATAATAAAATAGGCT
131 AGAATTTGATGTTACCATAGAAGGGAAAAATGATCAGCATGTCATAAAACATAAGAAAATAGGCT
* * * *
73622335 GAAGTTTAATTTACGAGCTTTGGGGTAAAAGTGTAAATATGCAAAAGTTTAGGGTCAAAA
196 GAAGTTTAATTTAAGAGCTTTGAGGCAAAAGTGTAAATATGCAAAAGTTTAGGGGCAAAA
73622395 TGGTGTTTTATGATATAATATGAGGTTTTAAATTATGTTAGACAACTTGTGCTACTCGGTTTTAA
1 TGGTGTTTTATGATATAATATGAGGTTTTAAATTATGTTAGACAACTTGTGCTACTCGGTTTTAA
73622460 GTGAAAACGAGCAAAAGGGCTTAATCGGTAAAAATACCTAATAGTCATAAGTACATGTTAGAGTG
66 GTGAAAACGAGCAAAAGGGCTTAATCGGTAAAAATACCTAATAGTCATAAGTACATGTTAGAGTG
73622525 AGAATTTGATGTTACCATAGAAGGGAAAAATGATCAGCATGTCATAAAACATAAGAAAATAGGCT
131 AGAATTTGATGTTACCATAGAAGGGAAAAATGATCAGCATGTCATAAAACATAAGAAAATAGGCT
* *
73622590 GAAGTTTAATTTAAGAGCTTTGAGGCAAAAGTGTAAATATGCGAAATTTTAGGGGCAAAA
196 GAAGTTTAATTTAAGAGCTTTGAGGCAAAAGTGTAAATATGCAAAAGTTTAGGGGCAAAA
73622650 CTGTAATTTT
Statistics
Matches: 247, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
255 247 1.00
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.30
Consensus pattern (255 bp):
TGGTGTTTTATGATATAATATGAGGTTTTAAATTATGTTAGACAACTTGTGCTACTCGGTTTTAA
GTGAAAACGAGCAAAAGGGCTTAATCGGTAAAAATACCTAATAGTCATAAGTACATGTTAGAGTG
AGAATTTGATGTTACCATAGAAGGGAAAAATGATCAGCATGTCATAAAACATAAGAAAATAGGCT
GAAGTTTAATTTAAGAGCTTTGAGGCAAAAGTGTAAATATGCAAAAGTTTAGGGGCAAAA
Found at i:73627197 original size:30 final size:30
Alignment explanation
Indices: 73627161--73627220 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
73627151 ATAACTAAAA
*
73627161 ACTCATAGT-GTCCGTACCTCGTTCTGATTG
1 ACTCATAGTGGT-CGTACCTCATTCTGATTG
73627191 ACTCATAGTGGTCGTACCTCATTCTGATTG
1 ACTCATAGTGGTCGTACCTCATTCTGATTG
73627221 CAGTTTTTGG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 26 0.93
31 2 0.07
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.37
Consensus pattern (30 bp):
ACTCATAGTGGTCGTACCTCATTCTGATTG
Found at i:73629143 original size:83 final size:83
Alignment explanation
Indices: 73629004--73629166 Score: 290
Period size: 83 Copynumber: 2.0 Consensus size: 83
73628994 TCTGAAATAT
** *
73629004 CAAGTGGTAAGTTAGTTGTGTGTGAAGTTTCGTGCACTTCAGTAATTGGGCCTCGATAGGCTAAA
1 CAAGTGGTAAGTTAGTCATGTGTAAAGTTTCGTGCACTTCAGTAATTGGGCCTCGATAGGCTAAA
73629069 AATGGGCCCAATGGGCCG
66 AATGGGCCCAATGGGCCG
73629087 CAAGTGGTAAGTTAGTCATGTGTAAAGTTTCGTGCACTTCAGTAATTGGGCCTCGATAGGCTAAA
1 CAAGTGGTAAGTTAGTCATGTGTAAAGTTTCGTGCACTTCAGTAATTGGGCCTCGATAGGCTAAA
*
73629152 ACTGGGCCCAATGGG
66 AATGGGCCCAATGGG
73629167 TTTACAGGCC
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
83 76 1.00
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (83 bp):
CAAGTGGTAAGTTAGTCATGTGTAAAGTTTCGTGCACTTCAGTAATTGGGCCTCGATAGGCTAAA
AATGGGCCCAATGGGCCG
Found at i:73629895 original size:32 final size:33
Alignment explanation
Indices: 73629835--73629898 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 33
73629825 CTATGGGCCA
73629835 TACTGTTATCTGAAAAGGGGCTAAGGCCCAGTT
1 TACTGTTATCTGAAAAGGGGCTAAGGCCCAGTT
**
73629868 TACTGTGT-TCTG-AAAGGGGCTTCGGCCCAGT
1 TACTGT-TATCTGAAAAGGGGCTAAGGCCCAGT
73629899 ACACACTGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 17 0.61
33 10 0.36
34 1 0.04
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (33 bp):
TACTGTTATCTGAAAAGGGGCTAAGGCCCAGTT
Found at i:73633210 original size:28 final size:28
Alignment explanation
Indices: 73633170--73633225 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
73633160 TAATTGGGCC
*
73633170 TCGATAGGCTAAAACTGGGCCCAATGGG
1 TCGATAGGCTAAAAATGGGCCCAATGGG
73633198 TCGATAGGCTAAAAATGGGCCCAATGGG
1 TCGATAGGCTAAAAATGGGCCCAATGGG
73633226 CTTACAGGCC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.30, C:0.20, G:0.32, T:0.18
Consensus pattern (28 bp):
TCGATAGGCTAAAAATGGGCCCAATGGG
Found at i:73633964 original size:32 final size:33
Alignment explanation
Indices: 73633904--73633967 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 33
73633894 CTATGGGCCA
73633904 TACTGTTATCTGAAAAGGGGCTAAGGCCCAGTT
1 TACTGTTATCTGAAAAGGGGCTAAGGCCCAGTT
**
73633937 TACTG-TATTCTG-AAAGGGGCTTCGGCCCAGT
1 TACTGTTA-TCTGAAAAGGGGCTAAGGCCCAGT
73633968 ACACACTGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 19 0.68
33 9 0.32
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (33 bp):
TACTGTTATCTGAAAAGGGGCTAAGGCCCAGTT
Found at i:73636667 original size:27 final size:28
Alignment explanation
Indices: 73636633--73636865 Score: 237
Period size: 27 Copynumber: 8.5 Consensus size: 28
73636623 TAAATTGTAC
*
73636633 AGCACTAAGTGTGC-AATTTGACTGTGT
1 AGCACTAAGTGTGCGAATTTGACTATGT
* * *
73636660 TGCACTAAGTGTGCGAA-ATGAATATG-
1 AGCACTAAGTGTGCGAATTTGACTATGT
* * *
73636686 ATGTACTAAGTGTGCGAA-TTGACCATGC
1 A-GCACTAAGTGTGCGAATTTGACTATGT
* *
73636714 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAATTTGACTATGT
* *
73636742 AGCACTAAGTGTGCGAA-TTGACCATGC
1 AGCACTAAGTGTGCGAATTTGACTATGT
* *
73636769 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAATTTGACTATGT
* *
73636797 AGCACTAAGTGTGCG-ATTTGATTACGT
1 AGCACTAAGTGTGCGAATTTGACTATGT
* * *
73636824 AGCACTAAGTGTGCG-AGTTGATTATAT
1 AGCACTAAGTGTGCGAATTTGACTATGT
*
73636851 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
73636866 GACTCAATAT
Statistics
Matches: 171, Mismatches: 30, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
27 124 0.73
28 47 0.27
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAATTTGACTATGT
Found at i:73636748 original size:82 final size:82
Alignment explanation
Indices: 73636632--73636839 Score: 265
Period size: 82 Copynumber: 2.5 Consensus size: 82
73636622 TTAAATTGTA
* * * * * *
73636632 CAGCACTAAGTGTGCAATTTGACTGTGTTGCACTAAGTGTGCGAAATGAATATGATGTACTAAGT
1 CAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAACATGAGGCACTAAGT
73636697 GTGCGA-ATTGACCATG
66 GTGCGAGATTGACCATG
* * * *
73636713 CGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAATTGACCATGCGGCACTAAG
1 CAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAACATGAGGCACTAAG
* *
73636778 TGTGCGAGTTTGACTATG
65 TGTGCGAGATTGACCATG
* * *
73636796 TAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGA
1 CAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGA
73636840 GTTGATTATA
Statistics
Matches: 109, Mismatches: 16, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
81 15 0.14
82 71 0.65
83 23 0.21
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (82 bp):
CAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAACATGAGGCACTAAGT
GTGCGAGATTGACCATG
Found at i:73636762 original size:55 final size:55
Alignment explanation
Indices: 73636633--73636865 Score: 267
Period size: 55 Copynumber: 4.3 Consensus size: 55
73636623 TAAATTGTAC
** ** ** *
73636633 AGCACTAAGTGTGC-AATTTGACTGTGTTGCACTAAGTGTGCGA-AATGAATATG-
1 AGCACTAAGTGTGCGAA-TTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATGT
*
73636686 ATGTACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATGT
1 A-GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATGT
73636742 AGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATGT
* ** * ** * *
73636797 AGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATGT
*
73636851 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
73636866 GACTCAATAT
Statistics
Matches: 158, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
53 1 0.01
54 56 0.35
55 100 0.63
56 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:73636856 original size:82 final size:80
Alignment explanation
Indices: 73636632--73636865 Score: 261
Period size: 82 Copynumber: 2.9 Consensus size: 80
73636622 TTAAATTGTA
* * * * *
73636632 CAGCACTAAGTGTGCAATTTGACTGTGTTGCACTAAGTGTGCGAAATGAATATGATGTACTAAGT
1 CAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAATTGAATAT-ATGCACTAAGT
73636697 GTGCGAATTGACCATG
65 GTGCGAATTGACCATG
* ** **
73636713 CGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAATTGACCATGCGGCACTAAG
1 CAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAATTGAATAT-ATGCACTAAG
* *
73636778 TGTGCGAGTTTGACTATG
64 TGTGCGA-ATTGACCATG
* * * * * *
73636796 TAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGT
1 CAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAATTGAATATAT-GCACTAAGT
73636861 GTGCG
65 GTGCG
73636866 GACTCAATAT
Statistics
Matches: 128, Mismatches: 22, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
81 15 0.12
82 90 0.70
83 23 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (80 bp):
CAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAATTGAATATATGCACTAAGTG
TGCGAATTGACCATG
Found at i:73641662 original size:43 final size:42
Alignment explanation
Indices: 73641597--73641755 Score: 115
Period size: 43 Copynumber: 3.7 Consensus size: 42
73641587 CGTACAATGT
* ** *** *
73641597 CAACGTCCCAAATGTGGTCTTACATGTAATCAAATATTGATGC
1 CAACGTCCCAGACATGGTCTTACACAAAATCAAATA-CGATGC
* *
73641640 C-ACTGTCCCATACATGGTCTTACACAAAATCAAGTACGATGC
1 CAAC-GTCCCAGACATGGTCTTACACAAAATCAAATACGATGC
* * *
73641682 CAACGTCCCAGACATGGTCTTACTCATAAACCATAAGT-CGATGA
1 CAACGTCCCAGACATGGTCTTACACA-AAATCA-AA-TACGATGC
* * *
73641726 CAATGTCCCAGACGTGATCTTACACGAAAA
1 CAACGTCCCAGACATGGTCTTACAC-AAAA
73641756 CACATATCGG
Statistics
Matches: 93, Mismatches: 17, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
42 28 0.30
43 33 0.35
44 30 0.32
45 2 0.02
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.25
Consensus pattern (42 bp):
CAACGTCCCAGACATGGTCTTACACAAAATCAAATACGATGC
Found at i:73641736 original size:44 final size:42
Alignment explanation
Indices: 73641643--73641756 Score: 122
Period size: 44 Copynumber: 2.6 Consensus size: 42
73641633 TTGATGCCAC
* * *
73641643 TGTCCCATACATGGTCTTACACAAAATCAAGTACGATGCCAA
1 TGTCCCAGACATGGTCTTACACAAAACCAAGTACGATGACAA
* *
73641685 CGTCCCAGACATGGTCTTACTCATAAACCATAAGT-CGATGACAA
1 TGTCCCAGACATGGTCTTACACA-AAACC--AAGTACGATGACAA
* *
73641729 TGTCCCAGACGTGATCTTACACGAAAAC
1 TGTCCCAGACATGGTCTTACAC-AAAAC
73641757 ACATATCGGA
Statistics
Matches: 59, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
42 20 0.34
43 4 0.07
44 30 0.51
45 5 0.08
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.23
Consensus pattern (42 bp):
TGTCCCAGACATGGTCTTACACAAAACCAAGTACGATGACAA
Found at i:73646116 original size:19 final size:19
Alignment explanation
Indices: 73646087--73646128 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
73646077 TTAATTTAGT
*
73646087 TTAAG-TAATTAATGTGTC
1 TTAAGTTAATTAATATGTC
73646105 TTAAGTTAATTAATATGTC
1 TTAAGTTAATTAATATGTC
73646124 -TAAGT
1 TTAAGT
73646129 ATTTTTGGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.45
Consensus pattern (19 bp):
TTAAGTTAATTAATATGTC
Found at i:73647674 original size:28 final size:28
Alignment explanation
Indices: 73647629--73647734 Score: 139
Period size: 27 Copynumber: 3.9 Consensus size: 28
73647619 GGCTGCCAGA
* *
73647629 ACAGATAA-TGTGACAGAGTCACCAAAT
1 ACAGATAATTGTGGCAGAGCCACCAAAT
73647656 ACAGATAATTGTGGCAGAGCCACCAAA-
1 ACAGATAATTGTGGCAGAGCCACCAAAT
*
73647683 ACAGA-AATATGTGGCAGAGCCACCAGAT
1 ACAGATAAT-TGTGGCAGAGCCACCAAAT
*
73647711 -CAGATAATTGTGGCATAGCCACCA
1 ACAGATAATTGTGGCAGAGCCACCA
73647735 GGATGCTTCC
Statistics
Matches: 71, Mismatches: 4, Indels: 8
0.86 0.05 0.10
Matches are distributed among these distances:
26 3 0.04
27 49 0.69
28 19 0.27
ACGTcount: A:0.40, C:0.22, G:0.22, T:0.17
Consensus pattern (28 bp):
ACAGATAATTGTGGCAGAGCCACCAAAT
Found at i:73647719 original size:54 final size:54
Alignment explanation
Indices: 73647628--73647734 Score: 153
Period size: 54 Copynumber: 2.0 Consensus size: 54
73647618 TGGCTGCCAG
* *
73647628 AACAGATAATGTGACAGAGTCACCAAATACAGATAATTGTGGCAGAGCCACCAA
1 AACAGAAAATGTGACAGAGCCACCAAATACAGATAATTGTGGCAGAGCCACCAA
* * *
73647682 AACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCA
1 AACAGAAA-ATGTGACAGAGCCACCAAATACAGATAATTGTGGCAGAGCCACCA
73647735 GGATGCTTCC
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
54 30 0.64
55 17 0.36
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.17
Consensus pattern (54 bp):
AACAGAAAATGTGACAGAGCCACCAAATACAGATAATTGTGGCAGAGCCACCAA
Found at i:73654274 original size:27 final size:26
Alignment explanation
Indices: 73654239--73654350 Score: 104
Period size: 27 Copynumber: 4.2 Consensus size: 26
73654229 AGCATGGCTG
*
73654239 CCAGA-ACAGATAATGTGACAGAGTCA
1 CCAGATACAGATAATGTGGCAGAG-CA
*
73654265 CTAGATACAGATAATCGTGGCAGAGCTA
1 CCAGATACAGATAAT-GTGGCAGAGC-A
*
73654293 CCAGA-ACAGAAATATGTGGCAGAGCCA
1 CCAGATACAGATA-ATGTGGCAGAG-CA
*
73654320 CCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGATACAGATAA-TGTGGCAGAG-CA
73654347 CCAG
1 CCAG
73654351 GACGCTTCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
26 5 0.07
27 52 0.71
28 16 0.22
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.17
Consensus pattern (26 bp):
CCAGATACAGATAATGTGGCAGAGCA
Found at i:73654330 original size:54 final size:54
Alignment explanation
Indices: 73654239--73654350 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
73654229 AGCATGGCTG
* * * *
73654239 CCAGAACAGATAATGTGACAGAGTCACTAGATACAGATAATCGTGGCAGAGCTA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
73654293 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
73654347 CCAG
1 CCAG
73654351 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 33 0.66
55 17 0.34
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.17
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:73660194 original size:28 final size:27
Alignment explanation
Indices: 73660139--73660223 Score: 111
Period size: 27 Copynumber: 3.1 Consensus size: 27
73660129 AGCATGGCGG
* *
73660139 CCAGA-ACAGATAATGTGACAGAGTCA
1 CCAGATACAGATAATGTGGCAGAGCCA
73660165 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGATACAGATAAT-GTGGCAGAGCCA
*
73660193 CCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGATACAGATAA-TGTGGCAGAGCCA
73660220 CCAG
1 CCAG
73660224 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
26 5 0.09
27 31 0.58
28 17 0.32
ACGTcount: A:0.36, C:0.24, G:0.24, T:0.16
Consensus pattern (27 bp):
CCAGATACAGATAATGTGGCAGAGCCA
Found at i:73662349 original size:11 final size:11
Alignment explanation
Indices: 73662329--73662363 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
73662319 CTTCCATACT
73662329 AGGAAACTTCA
1 AGGAAACTTCA
*
73662340 AGGAACCTTCA
1 AGGAAACTTCA
*
73662351 AGGAAGCTTCA
1 AGGAAACTTCA
73662362 AG
1 AG
73662364 AGACGTTCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.40, C:0.20, G:0.23, T:0.17
Consensus pattern (11 bp):
AGGAAACTTCA
Found at i:73662376 original size:22 final size:22
Alignment explanation
Indices: 73662327--73662378 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
73662317 GTCTTCCATA
73662327 CTAGGAAACTTCAAGGAACCTT
1 CTAGGAAACTTCAAGGAACCTT
* * *
73662349 CAAGGAAGCTTCAA-GAGACGTT
1 CTAGGAAACTTCAAGGA-ACCTT
73662371 CTAGGAAA
1 CTAGGAAA
73662379 TTGCCAAGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
21 2 0.08
22 22 0.92
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.19
Consensus pattern (22 bp):
CTAGGAAACTTCAAGGAACCTT
Found at i:73671773 original size:17 final size:18
Alignment explanation
Indices: 73671751--73671785 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
73671741 TCACATTGAA
73671751 TTGTTTT-ATCGAAAACC
1 TTGTTTTCATCGAAAACC
*
73671768 TTGTTTTCATTGAAAACC
1 TTGTTTTCATCGAAAACC
73671786 CTTCCTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.29, C:0.17, G:0.11, T:0.43
Consensus pattern (18 bp):
TTGTTTTCATCGAAAACC
Found at i:73672952 original size:29 final size:28
Alignment explanation
Indices: 73672885--73673009 Score: 151
Period size: 29 Copynumber: 4.4 Consensus size: 28
73672875 AAGTCTACAT
* * * *
73672885 ACATGCATATGGCCTACTAGGCCCAATC
1 ACATTCATATGGCCCATTAGGCCAAATC
*
73672913 TCATTCATATGGCCCATTAGGCCTAAATC
1 ACATTCATATGGCCCATTAGGCC-AAATC
*
73672942 ACATTCGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGG-CCAAATC
*
73672971 ACATTCATACGGCCCATTAGGCCAAAATC
1 ACATTCATATGGCCCATTAGGCC-AAATC
*
73673000 ACTTTCATAT
1 ACATTCATAT
73673010 ACATGCTTTC
Statistics
Matches: 83, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
28 21 0.25
29 60 0.72
30 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.26
Consensus pattern (28 bp):
ACATTCATATGGCCCATTAGGCCAAATC
Found at i:73672954 original size:57 final size:58
Alignment explanation
Indices: 73672892--73673001 Score: 168
Period size: 58 Copynumber: 1.9 Consensus size: 58
73672882 CATACATGCA
* * * *
73672892 TATGGCCTACTAGGCCC-AATCTCATTCATATGGCCCATTAGGCCTAAATCACATTCG
1 TATGGCCCACTAGGCCCAAATCACATTCATACGGCCCATTAGGCCAAAATCACATTCG
*
73672949 TATGGCCCATTAGGCCCAAATCACATTCATACGGCCCATTAGGCCAAAATCAC
1 TATGGCCCACTAGGCCCAAATCACATTCATACGGCCCATTAGGCCAAAATCAC
73673002 TTTCATATAC
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
57 15 0.32
58 32 0.68
ACGTcount: A:0.29, C:0.31, G:0.15, T:0.25
Consensus pattern (58 bp):
TATGGCCCACTAGGCCCAAATCACATTCATACGGCCCATTAGGCCAAAATCACATTCG
Found at i:73675473 original size:121 final size:122
Alignment explanation
Indices: 73675235--73675474 Score: 464
Period size: 121 Copynumber: 2.0 Consensus size: 122
73675225 AAATAAGCCA
73675235 ATATTAATTTATAATTGAAATATTTACAGATAAATATATATCCATCAACCATGCTTAACTTCATT
1 ATATTAATTTATAATTGAAATATTTACAGATAAATATATATCCATCAACCATGCTTAACTTCATT
73675300 TAAGCTAATTCATAAAAATATGCATATACAAAACATACCATTATAACAAGCTTGACC
66 TAAGCTAATTCATAAAAATATGCATATACAAAACATACCATTATAACAAGCTTGACC
*
73675357 ATATTAATTTATAATTGAAAT-TTTACATATAAATATATATCCATCAACCATGCTTAACTTCATT
1 ATATTAATTTATAATTGAAATATTTACAGATAAATATATATCCATCAACCATGCTTAACTTCATT
73675421 TAAGCTAATTCATAAAAATATGCATATACAAAACATACCATTATAACAAGCTTG
66 TAAGCTAATTCATAAAAATATGCATATACAAAACATACCATTATAACAAGCTTG
73675475 CCAAAATGAA
Statistics
Matches: 117, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
121 96 0.82
122 21 0.18
ACGTcount: A:0.44, C:0.16, G:0.05, T:0.35
Consensus pattern (122 bp):
ATATTAATTTATAATTGAAATATTTACAGATAAATATATATCCATCAACCATGCTTAACTTCATT
TAAGCTAATTCATAAAAATATGCATATACAAAACATACCATTATAACAAGCTTGACC
Found at i:73677696 original size:29 final size:30
Alignment explanation
Indices: 73677663--73677726 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
73677653 TAAGTAGCCG
*
73677663 AAGCTAG-TTAAATCCCACACTTAGTGCCA
1 AAGCTAGTTTAAATCCCACACTTAATGCCA
*
73677692 AAGCTAGTTTAAATGCCACACTTAATGCCA
1 AAGCTAGTTTAAATCCCACACTTAATGCCA
73677722 AAGCT
1 AAGCT
73677727 CCCGATTCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 7 0.22
30 25 0.78
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.25
Consensus pattern (30 bp):
AAGCTAGTTTAAATCCCACACTTAATGCCA
Found at i:73679217 original size:45 final size:44
Alignment explanation
Indices: 73679075--73679246 Score: 160
Period size: 45 Copynumber: 4.0 Consensus size: 44
73679065 ATATCAAACA
* * *
73679075 ATGCTAACGTCCCAGACATGGTCTTACATGCT-ATCTC-ATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACG-TAATCACAATATCG
* * *
73679118 ATGCC-ACTATCCCAGACAGGGTCTTACA-GGAATCA-AATA-CG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGTAATCACAATATCG
* * *
73679159 ATGTCAATGTCCCAGACATGGTCTTACACGTAACCACATATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAATCACA-ATATCG
* * *
73679204 ATGCCAACGTCCCAGACATGGACTTACACGAAAACAC-ATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAATCACAATATCG
73679247 GATCCTATGT
Statistics
Matches: 105, Mismatches: 16, Indels: 16
0.77 0.12 0.12
Matches are distributed among these distances:
41 24 0.23
42 15 0.14
43 29 0.28
44 3 0.03
45 34 0.32
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (44 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAATCACAATATCG
Found at i:73694570 original size:93 final size:93
Alignment explanation
Indices: 73694461--73694632 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
73694451 GCCCATAAAT
* * *
73694461 GAACTCGGACTCAACTCAATGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
73694526 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
73694554 GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
73694619 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
73694633 CAAATATCCT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:73694628 original size:46 final size:46
Alignment explanation
Indices: 73694453--73694628 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
73694443 TGTAACCCGC
* * *
73694453 CCATAAATGAACTCGGACTCAACTCAATGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
73694499 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** * *
73694545 ACATCTCTCGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
73694592 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
73694629 TGCCCAAATA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
46 67 0.62
47 31 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:73694647 original size:46 final size:44
Alignment explanation
Indices: 73694460--73694647 Score: 109
Period size: 46 Copynumber: 4.1 Consensus size: 44
73694450 CGCCCATAAA
* * * *
73694460 TGAACTCGGACTCAACTCAATGAGCTCGGGCATTCGC--ATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTC-GG-ATGCCCAAATCC-T-AG
* *
73694506 TGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT--
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---A-ATC-CTAG
* * * *
73694553 CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGC--ATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCAAATCC-T-AG
73694599 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCTAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AA-ATCCTAG
73694645 TGA
1 TGA
73694648 CATGTCACTT
Statistics
Matches: 111, Mismatches: 14, Indels: 34
0.70 0.09 0.21
Matches are distributed among these distances:
42 1 0.01
43 4 0.04
44 7 0.06
45 2 0.02
46 58 0.52
47 27 0.24
48 4 0.04
49 3 0.03
50 4 0.04
51 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (44 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCCTAG
Found at i:73702146 original size:30 final size:31
Alignment explanation
Indices: 73702112--73702172 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
73702102 TGCAAGCTGA
73702112 TCAGCTCG-ATCCTAGC-CTATTGAGCTTGAT
1 TCAGCTCGAATCCTAGCTC-ATTGAGCTTGAT
**
73702142 TCAGCTCGAATTTTAGCTCATTGAGCTTGAT
1 TCAGCTCGAATCCTAGCTCATTGAGCTTGAT
73702173 CTGGCTCAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 8 0.30
31 18 0.67
32 1 0.04
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.36
Consensus pattern (31 bp):
TCAGCTCGAATCCTAGCTCATTGAGCTTGAT
Found at i:73702189 original size:30 final size:31
Alignment explanation
Indices: 73702130--73702198 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 31
73702120 ATCCTAGCCT
*
73702130 ATTGAGCTTGATTCAGCTCGAATTTTAGCTC
1 ATTGAGCTTGATTCAGCTCGAACTTTAGCTC
* *
73702161 ATTGAGCTTGA-TCTGGCTC-AACTTTAGCTT
1 ATTGAGCTTGATTC-AGCTCGAACTTTAGCTC
73702191 ATTGAGCT
1 ATTGAGCT
73702199 CGTTCCATCT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
30 19 0.56
31 15 0.44
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.39
Consensus pattern (31 bp):
ATTGAGCTTGATTCAGCTCGAACTTTAGCTC
Found at i:73702288 original size:18 final size:17
Alignment explanation
Indices: 73702274--73702318 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
73702264 AGTTAATTTA
*
73702274 GTTTAAGTAACTAATGT
1 GTTTAAGTAACTAATAT
*
73702291 GTCTTAAGTTAATTAATAT
1 GT-TTAAG-TAACTAATAT
73702310 GTTTAAGTA
1 GTTTAAGTA
73702319 TTTTTAGCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 4 0.17
18 10 0.42
19 10 0.42
ACGTcount: A:0.36, C:0.04, G:0.16, T:0.44
Consensus pattern (17 bp):
GTTTAAGTAACTAATAT
Found at i:73703124 original size:11 final size:11
Alignment explanation
Indices: 73703104--73703139 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
73703094 CTCCCATGCT
73703104 AGGAAACTTCA
1 AGGAAACTTCA
*
73703115 AGGAACCTTCA
1 AGGAAACTTCA
*
73703126 AGGAAGCTTCA
1 AGGAAACTTCA
73703137 AGG
1 AGG
73703140 GATGTTCTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.39, C:0.19, G:0.25, T:0.17
Consensus pattern (11 bp):
AGGAAACTTCA
Found at i:73703151 original size:22 final size:22
Alignment explanation
Indices: 73703102--73703153 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
73703092 GTCTCCCATG
*
73703102 CTAGGAAACTTCAAGGAACCTT
1 CTAGGAAGCTTCAAGGAACCTT
* * **
73703124 CAAGGAAGCTTCAAGGGATGTT
1 CTAGGAAGCTTCAAGGAACCTT
73703146 CTAGGAAG
1 CTAGGAAG
73703154 TTGCTAAGAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.35, C:0.17, G:0.27, T:0.21
Consensus pattern (22 bp):
CTAGGAAGCTTCAAGGAACCTT
Found at i:73706114 original size:27 final size:27
Alignment explanation
Indices: 73706084--73706261 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
73706074 ATATTGAGTC
* * * *
73706084 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
73706111 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
73706138 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
73706166 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
73706193 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
73706220 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
73706247 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
73706262 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:73706223 original size:82 final size:81
Alignment explanation
Indices: 73706105--73706260 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
73706095 TGCTATATAA
* *
73706105 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
73706170 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
73706187 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
73706251 CACTTAGTGC
65 CACTTAGTGC
73706261 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:73706275 original size:82 final size:83
Alignment explanation
Indices: 73706084--73706275 Score: 216
Period size: 82 Copynumber: 2.3 Consensus size: 83
73706074 ATATTGAGTC
* * * * *
73706084 CGCACACTCAGTGCTATATAA-TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTA
1 CGCACACTTAGTGCTGTACAATTCAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTA
*
73706148 GTGCTACATAGTCAAACT
66 GTGCAACATAGTCAAACT
* * **
73706166 CGCACACTTAGTGCCG--C-ATGGTCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACAC
1 CGCACACTTAGTGCTGTACAAT--TCAATTCGCACACTTAGTGCTA-CATAATCAAATCGCACAC
73706227 TTAGTGCAACATAGTCAAA-T
63 TTAGTGCAACATAGTCAAACT
*
73706247 CGCACACTTAGTGCTGTACAATTTAATTC
1 CGCACACTTAGTGCTGTACAATTCAATTC
73706276 CCGCGCACTT
Statistics
Matches: 91, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
79 1 0.01
81 17 0.19
82 70 0.77
83 1 0.01
84 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (83 bp):
CGCACACTTAGTGCTGTACAATTCAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTA
GTGCAACATAGTCAAACT
Found at i:73708354 original size:17 final size:19
Alignment explanation
Indices: 73708309--73708356 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 19
73708299 CACTTAGGTT
*
73708309 TTATTGAATGTTACTTGTAA
1 TTATTGAATGTTAATTG-AA
*
73708329 TTATGGAAT-TTAATTG-A
1 TTATTGAATGTTAATTGAA
73708346 TTATTGAATGT
1 TTATTGAATGT
73708357 AAATCGTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 9 0.38
18 1 0.04
19 6 0.25
20 8 0.33
ACGTcount: A:0.31, C:0.02, G:0.17, T:0.50
Consensus pattern (19 bp):
TTATTGAATGTTAATTGAA
Found at i:73710476 original size:16 final size:16
Alignment explanation
Indices: 73710455--73710488 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
73710445 TAGCTAGACA
73710455 CATGAAATTATTCCAG
1 CATGAAATTATTCCAG
*
73710471 CATGAAATTGTTCCAG
1 CATGAAATTATTCCAG
73710487 CA
1 CA
73710489 AAAAAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (16 bp):
CATGAAATTATTCCAG
Found at i:73711289 original size:15 final size:16
Alignment explanation
Indices: 73711269--73711306 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
73711259 TTTTTTTTTA
73711269 TTAATTTTACT-AGTT
1 TTAATTTTACTAAGTT
**
73711284 TTAATTTTTTTAAGTT
1 TTAATTTTACTAAGTT
73711300 TTAATTT
1 TTAATTT
73711307 ATAGTAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.66
Consensus pattern (16 bp):
TTAATTTTACTAAGTT
Found at i:73716235 original size:28 final size:28
Alignment explanation
Indices: 73716171--73716297 Score: 229
Period size: 28 Copynumber: 4.6 Consensus size: 28
73716161 CTCAATAATG
*
73716171 TCGCACACTTAGTGCTATATAATC-AAC
1 TCGCACACTTAGTGCTACATAATCAAAC
73716198 TCGCACACTTAGTGCTACATAATCAAAC
1 TCGCACACTTAGTGCTACATAATCAAAC
73716226 TCGCACACTTAGTGCTACATAATCAAAC
1 TCGCACACTTAGTGCTACATAATCAAAC
*
73716254 TCGCACACTTAGTGCTACATAGTCAAAC
1 TCGCACACTTAGTGCTACATAATCAAAC
73716282 TCGCACACTTAGTGCT
1 TCGCACACTTAGTGCT
73716298 GTACAATTTA
Statistics
Matches: 97, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
27 23 0.24
28 74 0.76
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.27
Consensus pattern (28 bp):
TCGCACACTTAGTGCTACATAATCAAAC
Found at i:73723433 original size:22 final size:22
Alignment explanation
Indices: 73723408--73723492 Score: 89
Period size: 22 Copynumber: 3.9 Consensus size: 22
73723398 CTATGATATT
* *
73723408 TACGGCCTTTAGCCGTCCTGTC
1 TACGGCGTTGAGCCGTCCTGTC
* **
73723430 TACGGCGTTGAGCCATTTTGTC
1 TACGGCGTTGAGCCGTCCTGTC
* * * *
73723452 TACGGCATTAAGTCGTCCTATC
1 TACGGCGTTGAGCCGTCCTGTC
73723474 TACGGCGTTGAGCCGTCCT
1 TACGGCGTTGAGCCGTCCT
73723493 ATTGACTTAG
Statistics
Matches: 48, Mismatches: 15, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.14, C:0.29, G:0.25, T:0.32
Consensus pattern (22 bp):
TACGGCGTTGAGCCGTCCTGTC
Found at i:73730802 original size:27 final size:27
Alignment explanation
Indices: 73730772--73730949 Score: 160
Period size: 27 Copynumber: 6.6 Consensus size: 27
73730762 ATATTGAGTC
* *
73730772 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
73730799 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
73730826 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
73730854 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* * **
73730881 CGCACACTTAGTAC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
73730908 CGCACACTTAGTGCAACACAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
73730935 TGCACACTTAGTGCT
1 CGCACACTTAGTGCT
73730950 GTACAATTTA
Statistics
Matches: 125, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
27 101 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:73733663 original size:32 final size:33
Alignment explanation
Indices: 73733617--73733680 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 33
73733607 AACAGTGTGT
73733617 ACTGGGCCGAAGCCCC-TTTCAGA-ATACAGTAA
1 ACTGGGCCGAAGCCCCTTTTCAGATA-ACAGTAA
**
73733649 ACTGGGCCTTAGCCCCTTTTCAGATAACAGTA
1 ACTGGGCCGAAGCCCCTTTTCAGATAACAGTA
73733681 TGGCCCATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 14 0.50
33 13 0.46
34 1 0.04
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (33 bp):
ACTGGGCCGAAGCCCCTTTTCAGATAACAGTAA
Found at i:73739435 original size:27 final size:27
Alignment explanation
Indices: 73739405--73739582 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
73739395 ATATTGAGTC
* * * *
73739405 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
73739432 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
73739459 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
73739487 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
73739514 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
73739541 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
73739568 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
73739583 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:73739544 original size:82 final size:81
Alignment explanation
Indices: 73739426--73739581 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
73739416 TGCTATATAA
* *
73739426 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
73739491 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
73739508 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
73739572 CACTTAGTGC
65 CACTTAGTGC
73739582 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:73743519 original size:46 final size:46
Alignment explanation
Indices: 73743452--73743543 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
73743442 ACTTATGCCG
*
73743452 TTTGTCTCTAATGAAACTAGACTCAAAAAGGAATCTGTACATATAA
1 TTTGTCTATAATGAAACTAGACTCAAAAAGGAATCTGTACATATAA
73743498 TTTGTCTATAATGAAACTAGACTCAAAAAGGAATCTGTACATATAA
1 TTTGTCTATAATGAAACTAGACTCAAAAAGGAATCTGTACATATAA
73743544 AGCATGACTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.30
Consensus pattern (46 bp):
TTTGTCTATAATGAAACTAGACTCAAAAAGGAATCTGTACATATAA
Found at i:73746298 original size:41 final size:40
Alignment explanation
Indices: 73746167--73746309 Score: 211
Period size: 40 Copynumber: 3.6 Consensus size: 40
73746157 AACCCAAGTA
*
73746167 CCTTCGGGAT-TTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGG-TCTTAGCCCGGATATAGTC-ACTAGCACAAATG
**
73746206 CCTTCGGGTCTTAGCCAAGATATAGTCACTAGCACAAATG
1 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
73746246 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAATG
1 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCAC-AAATG
73746287 CCTTCGGGTCTTAGCCCGGATAT
1 CCTTCGGGTCTTAGCCCGGATAT
73746310 CATCCAAATA
Statistics
Matches: 95, Mismatches: 5, Indels: 6
0.90 0.05 0.06
Matches are distributed among these distances:
38 1 0.01
39 12 0.13
40 53 0.56
41 29 0.31
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:73751500 original size:40 final size:40
Alignment explanation
Indices: 73751421--73751597 Score: 182
Period size: 40 Copynumber: 4.5 Consensus size: 40
73751411 CGGATGATAA
* * * * *
73751421 CCGGACTAAGATCTGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
* * *
73751461 CCGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATAT
* * * *
73751501 CCAGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
*
73751541 CCGGGCTAAGACCCGAGGGCATTTGTG-TGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCT-AGTTGTTATAT
73751581 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
73751598 ATACTTGGGT
Statistics
Matches: 112, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
38 1 0.01
39 14 0.12
40 95 0.85
41 2 0.02
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
Found at i:73766421 original size:43 final size:42
Alignment explanation
Indices: 73766366--73766565 Score: 201
Period size: 43 Copynumber: 4.7 Consensus size: 42
73766356 ATATCAAACA
* * *
73766366 ATGCCAACGTCCCAGACGTGGTCTTACATTTTATATCATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAACA-CATATCG
** * *
73766409 ATGCC-ACTGTCCCAGACACGGTCTTACACG-AATCAAATA-CG
1 ATGCCAAC-GTCCCAGACGTGGTCTTACATGTAA-CACATATCG
* * * *
73766450 ATGCCGATGTCCCAGACATGGTCTTAC-TCGTAACCACATATCA
1 ATGCCAACGTCCCAGACGTGGTCTTACAT-GTAA-CACATATCG
73766493 ATGCCAACGTCCCAGACGTGGTCTTACATGTAAACACATATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGT-AACAC--ATATCG
73766538 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
73766566 CGAAAACACA
Statistics
Matches: 130, Mismatches: 17, Indels: 18
0.79 0.10 0.11
Matches are distributed among these distances:
41 26 0.20
42 14 0.11
43 54 0.42
44 3 0.02
45 33 0.25
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGTAACACATATCG
Found at i:73766507 original size:84 final size:88
Alignment explanation
Indices: 73766366--73766564 Score: 214
Period size: 84 Copynumber: 2.3 Consensus size: 88
73766356 ATATCAAACA
* ** * *
73766366 ATGCCAACGTCCCAGACGTGGTCTTACATTTTATA--TCATATCGATGCCACTGTCCCAGACACG
1 ATGCCAACGTCCCAGACATGGTCTTAC-TCGTA-ACCACATATCAATGCCACTGTCCCAGACACG
*
73766429 GTCTTACACG-AATCA-A-ATA-CG
64 GTCTTACACGTAAACACATATATCG
* * **
73766450 ATGCCGATGTCCCAGACATGGTCTTACTCGTAACCACATATCAATGCCAAC-GTCCCAGACGTGG
1 ATGCCAACGTCCCAGACATGGTCTTACTCGTAACCACATATCAATGCC-ACTGTCCCAGACACGG
*
73766514 TCTTACATGTAAACACATATATCG
65 TCTTACACGTAAACACATATATCG
*
73766538 ATGCCAACGTCCCAGACGTGGTCTTAC
1 ATGCCAACGTCCCAGACATGGTCTTAC
73766565 ACGAAAACAC
Statistics
Matches: 94, Mismatches: 14, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
82 1 0.01
83 3 0.03
84 54 0.57
85 6 0.06
86 1 0.01
87 3 0.03
88 26 0.28
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (88 bp):
ATGCCAACGTCCCAGACATGGTCTTACTCGTAACCACATATCAATGCCACTGTCCCAGACACGGT
CTTACACGTAAACACATATATCG
Found at i:73768028 original size:34 final size:34
Alignment explanation
Indices: 73767990--73768054 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
73767980 ATATCAGTTA
*
73767990 GGGCCTTAGCCCAATACAGTATCAGTAACAGTGT
1 GGGCCTTAGCCCAATACAGTAACAGTAACAGTGT
*
73768024 GGGCCTTAGCCCAATTCAGTAACAGTAACAG
1 GGGCCTTAGCCCAATACAGTAACAGTAACAG
73768055 AAATGCAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.31, C:0.25, G:0.23, T:0.22
Consensus pattern (34 bp):
GGGCCTTAGCCCAATACAGTAACAGTAACAGTGT
Found at i:73770531 original size:14 final size:14
Alignment explanation
Indices: 73770512--73770541 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
73770502 ACTTTTGCTA
*
73770512 AACTTCTCGTAACC
1 AACTTCCCGTAACC
73770526 AACTTCCCGTAACC
1 AACTTCCCGTAACC
73770540 AA
1 AA
73770542 AACTCACTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.33, C:0.37, G:0.07, T:0.23
Consensus pattern (14 bp):
AACTTCCCGTAACC
Found at i:73774507 original size:53 final size:54
Alignment explanation
Indices: 73774420--73774626 Score: 200
Period size: 53 Copynumber: 3.8 Consensus size: 54
73774410 TTTCTTTTTA
* * *
73774420 AACTTACCATTTCCATGTCTTGGCATGGTCTTACATGGTATCCTTACCTTAT-G
1 AACTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTACCTTATAG
* * * * * *
73774473 AACTCACCATTGCCATGCCTTGGCATGGTGTTACATGGGATCTTTCCCTTATAG
1 AACTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTACCTTATAG
** * ** * * * * *
73774527 TAGTTTATCAATGCCATATCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAG
1 -AACTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTACCTTATAG
* * *
73774582 AATTTACCAATGCCATTCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
73774627 GAACCCTAAT
Statistics
Matches: 122, Mismatches: 30, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
53 45 0.37
54 38 0.31
55 39 0.32
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.39
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTACCTTATAG
Found at i:73774626 original size:54 final size:54
Alignment explanation
Indices: 73774438--73774627 Score: 204
Period size: 54 Copynumber: 3.5 Consensus size: 54
73774428 ATTTCCATGT
* * * * *
73774438 CTTGGCATGGTCTTACATGGTATCCTTACCTTAT-GAACTCACCATTGCCATGC
1 CTTGGCATGGTCTTACATGGTATCCTTGCCTTATAGAATTTACCAATGCCATTC
* * * * * *
73774491 CTTGGCATGGTGTTACATGGGATCTTTCCCTTATAGTAGTTTATCAATGCCATAT-
1 CTTGGCATGGTCTTACATGGTATCCTTGCCTTATAG-AATTTACCAATGCCAT-TC
* * * *
73774546 CTTGACATGGTCTTACATGATTTCCTTGCCTTGTAGAATTTACCAATGCCATTC
1 CTTGGCATGGTCTTACATGGTATCCTTGCCTTATAGAATTTACCAATGCCATTC
*
73774600 CTTGGCATGGTCTTACTTGGTATCCTTG
1 CTTGGCATGGTCTTACATGGTATCCTTG
73774628 AACCCTAATG
Statistics
Matches: 109, Mismatches: 24, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
53 31 0.28
54 39 0.36
55 39 0.36
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.38
Consensus pattern (54 bp):
CTTGGCATGGTCTTACATGGTATCCTTGCCTTATAGAATTTACCAATGCCATTC
Found at i:73779763 original size:23 final size:23
Alignment explanation
Indices: 73779704--73779764 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
73779694 TACTGTTCTC
*
73779704 AGCTCGAT-CAGCTTA-CAATTT
1 AGCTCAATACAGCTTACCAATTT
* * * *
73779725 AGCTCATTAGAACTTACCATTTT
1 AGCTCAATACAGCTTACCAATTT
73779748 AGCTCAATACAGCTTAC
1 AGCTCAATACAGCTTAC
73779765 TGTCCATCAG
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
21 6 0.20
22 5 0.17
23 19 0.63
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.33
Consensus pattern (23 bp):
AGCTCAATACAGCTTACCAATTT
Found at i:73779777 original size:25 final size:25
Alignment explanation
Indices: 73779747--73779802 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
73779737 CTTACCATTT
*
73779747 TAGCTCAATA-CAGCTTACTGTCCA
1 TAGCTCAAGAGCAGCTTACTGTCCA
* *
73779771 TCAGCTCAAGAGGAGCTTACTGTTCA
1 T-AGCTCAAGAGCAGCTTACTGTCCA
73779797 TAGCTC
1 TAGCTC
73779803 GAAAGAGTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 1 0.04
25 13 0.48
26 13 0.48
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.29
Consensus pattern (25 bp):
TAGCTCAAGAGCAGCTTACTGTCCA
Found at i:73789280 original size:24 final size:25
Alignment explanation
Indices: 73789252--73789301 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
73789242 GAAGACCAAG
*
73789252 CCTTTTTAAT-AACTGGGGCAAAGC
1 CCTTTTCAATAAACTGGGGCAAAGC
*
73789276 CCTTTTCGATAAACTGGGGCAAAGC
1 CCTTTTCAATAAACTGGGGCAAAGC
73789301 C
1 C
73789302 TGTAACAGCC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 8 0.35
25 15 0.65
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (25 bp):
CCTTTTCAATAAACTGGGGCAAAGC
Found at i:73790892 original size:39 final size:39
Alignment explanation
Indices: 73790847--73790967 Score: 206
Period size: 39 Copynumber: 3.1 Consensus size: 39
73790837 AAGCAAGACA
*
73790847 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
73790886 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCATG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
73790925 CTGGAAATGTATCCGGGCTAAAGTCCCACAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
73790964 CTGG
1 CTGG
73790968 TAACATAATT
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 77 1.00
ACGTcount: A:0.22, C:0.25, G:0.30, T:0.23
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:73792698 original size:26 final size:26
Alignment explanation
Indices: 73792656--73792743 Score: 122
Period size: 26 Copynumber: 3.4 Consensus size: 26
73792646 GAGTGTTACA
*
73792656 AAGCCTTTTTCAATAAACTGGGGCAT
1 AAGCCCTTTTCAATAAACTGGGGCAT
** ** *
73792682 AATTCCTTTTCGGTAAACTAGGGCAT
1 AAGCCCTTTTCAATAAACTGGGGCAT
73792708 AAGCCCTTTTCAATAAACTGGGGCAT
1 AAGCCCTTTTCAATAAACTGGGGCAT
73792734 AAGCCCTTTT
1 AAGCCCTTTT
73792744 GCACTTCCTC
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 51 1.00
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (26 bp):
AAGCCCTTTTCAATAAACTGGGGCAT
Found at i:73792818 original size:20 final size:20
Alignment explanation
Indices: 73792793--73792867 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
73792783 TTATGAATTC
*
73792793 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
73792813 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
73792833 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
73792853 ATCATGT--ATATCATA
1 ATCATGTGCATATCATA
73792868 TCCCACGTAT
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
18 8 0.15
20 43 0.81
21 2 0.04
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:73792824 original size:11 final size:11
Alignment explanation
Indices: 73792793--73792848 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
73792783 TTATGAATTC
73792793 ATCATGTGCAT
1 ATCATGTGCAT
* *
73792804 TTCA--TACAT
1 ATCATGTGCAT
73792813 ATCATGTGCAT
1 ATCATGTGCAT
*
73792824 ATCA--TACAT
1 ATCATGTGCAT
73792833 ATCATGTGCAT
1 ATCATGTGCAT
73792844 ATCAT
1 ATCAT
73792849 ATCAATCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:73792865 original size:9 final size:10
Alignment explanation
Indices: 73792810--73792866 Score: 57
Period size: 9 Copynumber: 5.8 Consensus size: 10
73792800 GCATTTCATA
73792810 CATATCATGT
1 CATATCATGT
*
73792820 GCATATCAT-A
1 -CATATCATGT
73792830 CATATCATGT
1 CATATCATGT
*
73792840 GCATATCATAT
1 -CATATCATGT
73792851 CA-ATCATGT
1 CATATCATGT
73792860 -ATATCAT
1 CATATCAT
73792867 ATCCCACGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 1 0.03
9 19 0.49
10 2 0.05
11 17 0.44
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (10 bp):
CATATCATGT
Found at i:73800233 original size:22 final size:22
Alignment explanation
Indices: 73800184--73800290 Score: 117
Period size: 22 Copynumber: 4.7 Consensus size: 22
73800174 TCGATAGATC
* *
73800184 AGCTCGTAAGAGCTTACTGTTTTT
1 AGCTCGTTAGAGCTTA-T-TGTTT
73800208 AGCTCG-TATGAGCTTATTGTTT
1 AGCTCGTTA-GAGCTTATTGTTT
73800230 AGCTCGTTAGAGCTTATTGTTT
1 AGCTCGTTAGAGCTTATTGTTT
**
73800252 AGCTCGTTAGAGCTTACCGTTTT
1 AGCTCGTTAGAGCTTATTG-TTT
**
73800275 AGCTCAATAGAGCTTA
1 AGCTCGTTAGAGCTTA
73800291 CTATCCATCA
Statistics
Matches: 74, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
22 40 0.54
23 21 0.28
24 13 0.18
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.40
Consensus pattern (22 bp):
AGCTCGTTAGAGCTTATTGTTT
Found at i:73811755 original size:50 final size:50
Alignment explanation
Indices: 73811694--73811983 Score: 334
Period size: 50 Copynumber: 5.7 Consensus size: 50
73811684 AAGCTCTCTG
* *
73811694 GTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTA
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTA
* * * *
73811744 GTACACGTAGTAGCTTGTACTTAGTACTACACATGTGACCTAACCATC-A
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTA
* * * * * *
73811793 GATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGCTAT-TGG
1 G-TACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA-CAATCT-A
* * * *
73811845 GTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCTAACAATCTG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTA
*
73811895 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA-AACCGTA
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATC-TA
* *
73811945 TTAAACACATAGTAGCCTGCACATAGTACTACACATGTG
1 GT--ACACATAGTAGCCTGCACTTAGTACTACACATGTG
73811984 TTCTCACAAC
Statistics
Matches: 204, Mismatches: 28, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
49 5 0.02
50 125 0.61
51 39 0.19
52 35 0.17
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.26
Consensus pattern (50 bp):
GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTA
Found at i:73811900 original size:101 final size:100
Alignment explanation
Indices: 73811690--73811981 Score: 329
Period size: 101 Copynumber: 2.9 Consensus size: 100
73811680 ATCGAAGCTC
* * *
73811690 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTAGTACACGTAGT
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAGCAATCTAGTACACATAGT
* ** * *
73811755 AGCTTGTACTTAGTACTACACATGTGACCTAACCA
66 AGCCTACACTTAGTACTACACATGCGACCTAACAA
* * * * * * *
73811790 TCAGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGCTAT-TGGGTACGCATA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAAGCAATCT-AGTACACATA
73811854 GTAGCCTACACTTAGTACTACACATGCGACCTAACAA
64 GTAGCCTACACTTAGTACTACACATGCGACCTAACAA
* * *
73811891 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA--AACCGTATTAAACACA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC-AAGCAATC-TAGT--ACACA
* *
73811954 TAGTAGCCTGCACATAGTACTACACATG
62 TAGTAGCCTACACTTAGTACTACACATG
73811982 TGTTCTCACA
Statistics
Matches: 158, Mismatches: 27, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
99 1 0.01
100 42 0.27
101 85 0.54
102 30 0.19
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.26
Consensus pattern (100 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAGCAATCTAGTACACATAGT
AGCCTACACTTAGTACTACACATGCGACCTAACAA
Found at i:73811928 original size:26 final size:26
Alignment explanation
Indices: 73811896--73811980 Score: 68
Period size: 26 Copynumber: 3.3 Consensus size: 26
73811886 AACAATCTGG
*
73811896 TACACATAGTAGCCTGCACTTAGTAC
1 TACACATAGTAGCCTGCACATAGTAC
** * *
73811922 TACACAT-GT-GACCTAAAACCGTATTA-
1 TACACATAGTAG-CCT-GCA-CATAGTAC
*
73811948 AACACATAGTAGCCTGCACATAGTAC
1 TACACATAGTAGCCTGCACATAGTAC
73811974 TACACAT
1 TACACAT
73811981 GTGTTCTCAC
Statistics
Matches: 43, Mismatches: 10, Indels: 12
0.66 0.15 0.18
Matches are distributed among these distances:
24 1 0.02
25 10 0.23
26 21 0.49
27 10 0.23
28 1 0.02
ACGTcount: A:0.36, C:0.26, G:0.13, T:0.25
Consensus pattern (26 bp):
TACACATAGTAGCCTGCACATAGTAC
Found at i:73811929 original size:151 final size:151
Alignment explanation
Indices: 73811680--73811979 Score: 417
Period size: 151 Copynumber: 2.0 Consensus size: 151
73811670 CACCCTTGTA
* * * *
73811680 ATCGAAGCTCTCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTAG
1 ATCGAAGCTATCTGGTACACATAGTAGCCTACACTTAGTACTACACACGCGACCTAACAATCTAG
* * * *
73811745 TACACGTAGTAGCTTGTACTTAGTACTACACATGTGACCT-AACC-ATCAGATACACGTAGTAGC
66 TACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAAACCGATCA-A-ACACATAGTAGC
*
73811808 CTGCACTTAGTACTACACACGTG
129 CTGCACATAGTACTACACACGTG
* * *
73811831 ATCGAAGCTAT-TGGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCTAACAATCTG
1 ATCGAAGCTATCT-GGTACACATAGTAGCCTACACTTAGTACTACACACGCGACCTAACAATCTA
*
73811895 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAAAACCGTATTAAACACATAGTAG
65 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCT-AAACCG-ATCAAACACATAGTAG
73811960 CCTGCACATAGTACTACACA
128 CCTGCACATAGTACTACACA
73811980 TGTGTTCTCA
Statistics
Matches: 131, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
150 1 0.01
151 93 0.71
153 33 0.25
154 1 0.01
155 3 0.02
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (151 bp):
ATCGAAGCTATCTGGTACACATAGTAGCCTACACTTAGTACTACACACGCGACCTAACAATCTAG
TACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAAACCGATCAAACACATAGTAGCCT
GCACATAGTACTACACACGTG
Found at i:73814933 original size:40 final size:40
Alignment explanation
Indices: 73814878--73815093 Score: 287
Period size: 40 Copynumber: 5.4 Consensus size: 40
73814868 GATGATAACG
* * *
73814878 GGGCTAAGCCCCGAAGGCATTTGTGCTAGTGACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
73814918 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
* *
73814958 GGGCTAAGTCCCGAAGGTATTTGTGCGAGTTACTATATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
**
73814998 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
73815038 GGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
* *
73815078 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
73815094 TACTTGGTTT
Statistics
Matches: 161, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 16 0.10
40 144 0.89
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:73831143 original size:83 final size:83
Alignment explanation
Indices: 73831004--73831169 Score: 323
Period size: 83 Copynumber: 2.0 Consensus size: 83
73830994 CGGTACAGAT
73831004 TCGGGTTTCTTTTCTAATTCTTCGTCATCAAGTACATACGCAAGGTATGCTTCGCACCCTTTTCT
1 TCGGGTTTCTTTTCTAATTCTTCGTCATCAAGTACATACGCAAGGTATGCTTCGCACCCTTTTCT
*
73831069 TACATATTTCTGGGCCAA
66 CACATATTTCTGGGCCAA
73831087 TCGGGTTTCTTTTCTAATTCTTCGTCATCAAGTACATACGCAAGGTATGCTTCGCACCCTTTTCT
1 TCGGGTTTCTTTTCTAATTCTTCGTCATCAAGTACATACGCAAGGTATGCTTCGCACCCTTTTCT
73831152 CACATATTTCTGGGCCAA
66 CACATATTTCTGGGCCAA
73831170 CATTGCTGAT
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 82 1.00
ACGTcount: A:0.20, C:0.26, G:0.16, T:0.38
Consensus pattern (83 bp):
TCGGGTTTCTTTTCTAATTCTTCGTCATCAAGTACATACGCAAGGTATGCTTCGCACCCTTTTCT
CACATATTTCTGGGCCAA
Found at i:73833516 original size:113 final size:113
Alignment explanation
Indices: 73833318--73833542 Score: 432
Period size: 113 Copynumber: 2.0 Consensus size: 113
73833308 GCACAGAGCT
* *
73833318 TCAATACTGATGCGGTTTGTTTCTATAGAAACTAGACTCAGAGAGGAATCTGTACATATATGACA
1 TCAATACCGATGCCGTTTGTTTCTATAGAAACTAGACTCAGAGAGGAATCTGTACATATATGACA
73833383 TGACTCCTAATTATCTCTGGTTAATTTATAATGAATTTCCAAAGTCGC
66 TGACTCCTAATTATCTCTGGTTAATTTATAATGAATTTCCAAAGTCGC
73833431 TCAATACCGATGCCGTTTGTTTCTATAGAAACTAGACTCAGAGAGGAATCTGTACATATATGACA
1 TCAATACCGATGCCGTTTGTTTCTATAGAAACTAGACTCAGAGAGGAATCTGTACATATATGACA
73833496 TGACTCCTAATTATCTCTGGTTAATTTATAATGAATTTCCAAAGTCG
66 TGACTCCTAATTATCTCTGGTTAATTTATAATGAATTTCCAAAGTCG
73833543 GAACAGGGAA
Statistics
Matches: 110, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
113 110 1.00
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.34
Consensus pattern (113 bp):
TCAATACCGATGCCGTTTGTTTCTATAGAAACTAGACTCAGAGAGGAATCTGTACATATATGACA
TGACTCCTAATTATCTCTGGTTAATTTATAATGAATTTCCAAAGTCGC
Found at i:73836641 original size:30 final size:30
Alignment explanation
Indices: 73836605--73836665 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
73836595 GTCCTTACTC
73836605 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
73836635 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
73836665 A
1 A
73836666 GGCTCAGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:73849947 original size:27 final size:27
Alignment explanation
Indices: 73849917--73849977 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
73849907 CATAATCGTT
* *
73849917 ATTTTACCATACAGGGGTATTACGGTC
1 ATTTTACCATACAGGGATATTACGATC
*
73849944 ATTTTACCCTACAGGGATATTACGATC
1 ATTTTACCATACAGGGATATTACGATC
73849971 ATTTTAC
1 ATTTTAC
73849978 ATATTTTGGG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (27 bp):
ATTTTACCATACAGGGATATTACGATC
Found at i:73851367 original size:16 final size:17
Alignment explanation
Indices: 73851346--73851378 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
73851336 GAGAGAAAAA
73851346 AAAAACCAAAG-CAAGG
1 AAAAACCAAAGCCAAGG
*
73851362 AAAAACCGAAGCCAAGG
1 AAAAACCAAAGCCAAGG
73851379 TCCCCAGCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.58, C:0.21, G:0.21, T:0.00
Consensus pattern (17 bp):
AAAAACCAAAGCCAAGG
Found at i:73856120 original size:40 final size:40
Alignment explanation
Indices: 73856076--73856374 Score: 435
Period size: 40 Copynumber: 7.5 Consensus size: 40
73856066 CACTCGAATA
* * * *
73856076 CCTTCGGGACATAGCCCAGATA-TAGTAACTCGGACAAATG
1 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGGACAAATG
* * *
73856116 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTCACTAGGACAAATG
*
73856156 CCTTCGGGACTTAGCCCGAAACTAGTCACTAGCG-CAAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTCACTAG-GACAAATG
*
73856196 CCTTCGGGACTTAGCCCGGAACTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTCACTAGGACAAATG
*
73856236 CCTTCGGGACTTAGCCCGAAACTAGTCACTAGCG-CAAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTCACTAG-GACAAATG
*
73856276 CCTTCGGGACTTAGCCCGGAACTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTCACTAGGACAAATG
73856316 CCTTCGGGACTTAGCCCGGAACTAGTCACTAGCG-CAAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTCACTAG-GACAAATG
73856356 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
73856375 TTATCATCCA
Statistics
Matches: 239, Mismatches: 14, Indels: 12
0.90 0.05 0.05
Matches are distributed among these distances:
39 1 0.00
40 238 1.00
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.20
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGAACTAGTCACTAGGACAAATG
Found at i:73856163 original size:80 final size:80
Alignment explanation
Indices: 73856076--73856374 Score: 503
Period size: 80 Copynumber: 3.7 Consensus size: 80
73856066 CACTCGAATA
* * * *
73856076 CCTTCGGGACATAGCCCAGATA-TAGTAACTCG-GACAAATGCCTTCGGGACTTAGCCCGGAACT
1 CCTTCGGGACTTAGCCC-GAAACTAGTCACTAGCG-CAAATGCCTTCGGGACTTAGCCCGGAACT
* *
73856139 AGTAACTCGCACAAATG
64 AGTCACTAGCACAAATG
73856156 CCTTCGGGACTTAGCCCGAAACTAGTCACTAGCGCAAATGCCTTCGGGACTTAGCCCGGAACTAG
1 CCTTCGGGACTTAGCCCGAAACTAGTCACTAGCGCAAATGCCTTCGGGACTTAGCCCGGAACTAG
73856221 TCACTAGCACAAATG
66 TCACTAGCACAAATG
73856236 CCTTCGGGACTTAGCCCGAAACTAGTCACTAGCGCAAATGCCTTCGGGACTTAGCCCGGAACTAG
1 CCTTCGGGACTTAGCCCGAAACTAGTCACTAGCGCAAATGCCTTCGGGACTTAGCCCGGAACTAG
73856301 TCACTAGCACAAATG
66 TCACTAGCACAAATG
*
73856316 CCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCAAATGCCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGAAACTAGTCACTAGCGCAAATGCCTTCGGGACTTAGCCCGG
73856375 TTATCATCCA
Statistics
Matches: 210, Mismatches: 7, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
79 3 0.01
80 206 0.98
81 1 0.00
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.20
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGAAACTAGTCACTAGCGCAAATGCCTTCGGGACTTAGCCCGGAACTAG
TCACTAGCACAAATG
Done.