Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 614 of 770
Found at i:192171868 original size:129 final size:131
Alignment explanation
Indices: 192171635--192171900 Score: 500
Period size: 129 Copynumber: 2.0 Consensus size: 131
192171625 TACCTCAAAG
192171635 GTAAACAATTCAGGATTATTGCTTCATTCATTTTTTTTTATCTAATTTCTATGAACAATTGTTTT
1 GTAAACAATTCAGGATTATTGCTTCATTCATTTTTTTTTATCTAATTTCTATGAACAATTGTTTT
192171700 AAAAATGGTGAAGCGGGACTTTAAACAATAACCACTAAGTTCAATGCTATCAAAACGAAACTTAA
66 -AAAATGGTGAAGCGGGACTTTAAACAATAACCACTAAGTTCAATGCTATCAAAACGAAACTTAA
192171765 TC
130 TC
192171767 GTAAACAATTCAGGATTATTGCTTCATTCA-TTTTTTTTATCTAATTTCTATGAACAATTGTTTT
1 GTAAACAATTCAGGATTATTGCTTCATTCATTTTTTTTTATCTAATTTCTATGAACAATTGTTTT
192171831 -AAATGGTGAAGCGGGACTTTAAACAATAACCACTAAGTTCAATGCTATCAAAACGAAACTTAAT
66 AAAATGGTGAAGCGGGACTTTAAACAATAACCACTAAGTTCAATGCTATCAAAACGAAACTTAAT
192171895 C
131 C
*
192171896 ATAAA
1 GTAAA
192171901 GTGTATATAT
Statistics
Matches: 133, Mismatches: 1, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
129 69 0.52
131 34 0.26
132 30 0.23
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (131 bp):
GTAAACAATTCAGGATTATTGCTTCATTCATTTTTTTTTATCTAATTTCTATGAACAATTGTTTT
AAAATGGTGAAGCGGGACTTTAAACAATAACCACTAAGTTCAATGCTATCAAAACGAAACTTAAT
C
Found at i:192176058 original size:2 final size:2
Alignment explanation
Indices: 192176051--192176076 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
192176041 ACATATACAC
192176051 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
192176077 CCCAAAACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:192179748 original size:32 final size:32
Alignment explanation
Indices: 192179712--192179779 Score: 136
Period size: 32 Copynumber: 2.1 Consensus size: 32
192179702 TGCTCAGCCA
192179712 TAGTTGAGATAAACATAGTACATGAGTTTTAC
1 TAGTTGAGATAAACATAGTACATGAGTTTTAC
192179744 TAGTTGAGATAAACATAGTACATGAGTTTTAC
1 TAGTTGAGATAAACATAGTACATGAGTTTTAC
192179776 TAGT
1 TAGT
192179780 AAGCTATTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (32 bp):
TAGTTGAGATAAACATAGTACATGAGTTTTAC
Found at i:192190003 original size:26 final size:26
Alignment explanation
Indices: 192189974--192190081 Score: 207
Period size: 26 Copynumber: 4.2 Consensus size: 26
192189964 TGATACAAAT
*
192189974 TGATAATGGGTTAGGTAAGTGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
192190000 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
192190026 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
192190052 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
192190078 TGAT
1 TGAT
192190082 GGGAATTTCA
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.30, C:0.07, G:0.28, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:192191594 original size:26 final size:26
Alignment explanation
Indices: 192191565--192191617 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
192191555 TTTACAGTTT
192191565 TACCCCTAGGAGATAAATT-ACTGAAA
1 TACCCCTAGG-GATAAATTGACTGAAA
* *
192191591 TACCCCTAGGGTTAAATTGACTTAAA
1 TACCCCTAGGGATAAATTGACTGAAA
192191617 T
1 T
192191618 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACTGAAA
Found at i:192203681 original size:47 final size:47
Alignment explanation
Indices: 192203628--192203969 Score: 531
Period size: 47 Copynumber: 7.3 Consensus size: 47
192203618 ACAAGATATG
192203628 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
192203675 TATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAAGTATA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* * *
192203722 TATATGTGATAGGGCCGAGTGGCCAACGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* * * * *
192203769 TATATGTGATAGGGTCGAGTGACCAACGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
192203816 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* * * *
192203863 TATATGAGATAAGACCTAATGGCCAATGTGATGAATGTGAAAGTGTC
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
192203910 TATATGTGATAAGGCCAAATGGCCAATGTGATGGATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
*
192203957 TAAATGTGATAAG
1 TATATGTGATAAG
192203970 TCCCGAAGGG
Statistics
Matches: 273, Mismatches: 22, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 273 1.00
ACGTcount: A:0.34, C:0.09, G:0.30, T:0.27
Consensus pattern (47 bp):
TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:192207204 original size:46 final size:46
Alignment explanation
Indices: 192207151--192207324 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 46
192207141 TATTTGGGCA
*
192207151 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAATG
* * *
192207197 TCCGAACTCGTTGAGTTGAGTCCGAGTT--CTT-GAGATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAA--ATG
* * * *
192207242 CATCCGAGCTAGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAATG
* * * *
192207290 CCCTAGCTCGTTGAGTTGAGTCCGAGTTCGCTTAT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT
192207325 GGGCGGGTTA
Statistics
Matches: 107, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 3 0.03
45 2 0.02
46 59 0.55
47 26 0.24
48 2 0.02
49 3 0.03
50 6 0.06
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAATG
Found at i:192207306 original size:93 final size:93
Alignment explanation
Indices: 192207147--192207318 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
192207137 GGGATATTTG
* * * *
192207147 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTAGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAACGCCCGAACTCGTTGAG
192207212 TTGAGTCCGAGTTCTTGAGATGTAACTA
66 TTGAGTCCGAGTTCTTGAGATGTAACTA
* * * *
192207240 GGCATCCGAGCTAGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCTAGCTCGTTGAG
1 GGCATCCGAACTAGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAACGCCCGAACTCGTTGAG
192207305 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
192207319 GCTTATGGGC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTAGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCTTGAGATGTAACTA
Found at i:192208958 original size:53 final size:53
Alignment explanation
Indices: 192208775--192208982 Score: 249
Period size: 55 Copynumber: 3.8 Consensus size: 53
192208765 ATTAGGGTTT
* *
192208775 AAGGATACCATGTAAGACAATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCA
1 AAGG-TACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-G-TTCATAAGGCA
* *
192208831 AAGGTACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCA
1 AAGGTACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-C-ATAAGGCA
* * *
192208886 AAGGTCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC-
1 AAGGTACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGCA
* * *
192208938 AAGGATACCATGTAAGACCATGTCGAGACATGGCAATGGTAAGTT
1 AAGG-TACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT
192208983 TCAAAAGGAT
Statistics
Matches: 133, Mismatches: 15, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
52 6 0.05
53 43 0.32
54 8 0.06
55 72 0.54
56 4 0.03
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (53 bp):
AAGGTACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGCA
Found at i:192208981 original size:108 final size:110
Alignment explanation
Indices: 192208782--192208982 Score: 311
Period size: 108 Copynumber: 1.8 Consensus size: 110
192208772 TTTAAGGATA
192208782 CCATGTAAGACAATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAAGGTACCATGTAAGA
1 CCATGTAAGACAATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAAGGTACCATGTAAGA
*
192208847 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* *
192208892 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGC-AAGGATACCATGTAA
1 CCATGTAAGACAATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAAGG-TACCATGTAA
* *
192208953 GACCATGTCGAGACATGGCAATGGTAAGTT
64 GACCATGTCAAGACATGGCAATGATAAGTT
192208983 TCAAAAGGAT
Statistics
Matches: 84, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
107 7 0.08
108 44 0.52
109 7 0.08
110 26 0.31
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACAATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAAGGTACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:192209242 original size:16 final size:16
Alignment explanation
Indices: 192209221--192209251 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
192209211 GTGAATTTGA
192209221 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
192209237 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
192209252 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:192217337 original size:28 final size:29
Alignment explanation
Indices: 192217270--192217341 Score: 112
Period size: 29 Copynumber: 2.5 Consensus size: 29
192217260 ATAGTGAATC
*
192217270 CGCACACTTAGTGCTATATATATTCAGCT
1 CGCACACTTAGTGCTATATATATTCAACT
192217299 CGCACACTTAGTGCTATATA-A-TCAAACT
1 CGCACACTTAGTGCTATATATATTC-AACT
192217327 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
192217342 GTACAATTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATATTCAACT
Found at i:192217363 original size:30 final size:28
Alignment explanation
Indices: 192217269--192217370 Score: 89
Period size: 28 Copynumber: 3.5 Consensus size: 28
192217259 TATAGTGAAT
* *
192217269 CCGCACACTTAGTGCTATATATATTC-AGC
1 CCGCACACTTAGTGCTATACA-A-TCAAAC
* *
192217298 TCGCACACTTAGTGCTATATAATCAAAC
1 CCGCACACTTAGTGCTATACAATCAAAC
* * *
192217326 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATACAA--TCAAAC
*
192217356 CCGCACACTCAGTGC
1 CCGCACACTTAGTGC
192217371 CAATCTTGTC
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.37
29 20 0.32
30 18 0.29
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.28
Consensus pattern (28 bp):
CCGCACACTTAGTGCTATACAATCAAAC
Found at i:192225336 original size:28 final size:29
Alignment explanation
Indices: 192225269--192225340 Score: 112
Period size: 29 Copynumber: 2.5 Consensus size: 29
192225259 ATAGTGAATC
*
192225269 CGCACACTTAGTGCTATATATATTCAGCT
1 CGCACACTTAGTGCTATATATATTCAACT
192225298 CGCACACTTAGTGCTATATA-A-TCAAACT
1 CGCACACTTAGTGCTATATATATTC-AACT
192225326 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
192225341 GTACAATTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATATTCAACT
Found at i:192225362 original size:30 final size:28
Alignment explanation
Indices: 192225268--192225369 Score: 89
Period size: 28 Copynumber: 3.5 Consensus size: 28
192225258 TATAGTGAAT
* *
192225268 CCGCACACTTAGTGCTATATATATTC-AGC
1 CCGCACACTTAGTGCTATACA-A-TCAAAC
* *
192225297 TCGCACACTTAGTGCTATATAATCAAAC
1 CCGCACACTTAGTGCTATACAATCAAAC
* * *
192225325 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATACAA--TCAAAC
*
192225355 CCGCACACTCAGTGC
1 CCGCACACTTAGTGC
192225370 CAATCTTGTC
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.37
29 20 0.32
30 18 0.29
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.28
Consensus pattern (28 bp):
CCGCACACTTAGTGCTATACAATCAAAC
Found at i:192229265 original size:58 final size:58
Alignment explanation
Indices: 192229170--192229287 Score: 173
Period size: 58 Copynumber: 2.0 Consensus size: 58
192229160 GGTAAATCAT
* * *
192229170 ATACTTCAATGCTCACACAGAGCTACAATAGTCCACAACTTATGCGGAATTACTACCA
1 ATACATCAATGCTCACACAAAGCTACAATAGCCCACAACTTATGCGGAATTACTACCA
* ** *
192229228 ATACATCAATGCTTACACAAAGCTACGGTAGCCCACAACTTATGCGGAATTGCTACCA
1 ATACATCAATGCTCACACAAAGCTACAATAGCCCACAACTTATGCGGAATTACTACCA
192229286 AT
1 AT
192229288 CACTAAATTT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
58 53 1.00
ACGTcount: A:0.36, C:0.27, G:0.14, T:0.24
Consensus pattern (58 bp):
ATACATCAATGCTCACACAAAGCTACAATAGCCCACAACTTATGCGGAATTACTACCA
Found at i:192230297 original size:16 final size:16
Alignment explanation
Indices: 192230276--192230340 Score: 68
Period size: 14 Copynumber: 4.3 Consensus size: 16
192230266 TTTGTTTACT
192230276 TATATATATAATAT-A
1 TATATATATAATATAA
*
192230291 -ATATATATAATGTAA
1 TATATATATAATATAA
192230306 TA-ATATAATAATATAA
1 TATATAT-ATAATATAA
*
192230322 TA-ATATAAAAT-TAA
1 TATATATATAATATAA
192230336 TATAT
1 TATAT
192230341 TACTTATTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
14 17 0.40
15 11 0.26
16 15 0.35
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (16 bp):
TATATATATAATATAA
Found at i:192230342 original size:8 final size:8
Alignment explanation
Indices: 192230277--192230337 Score: 76
Period size: 8 Copynumber: 8.0 Consensus size: 8
192230267 TTGTTTACTT
192230277 ATATATATA
1 ATATA-ATA
192230286 ATATAAT-
1 ATATAATA
192230293 ATAT-ATA
1 ATATAATA
*
192230300 ATGTAATA
1 ATATAATA
192230308 ATATAATA
1 ATATAATA
192230316 ATATAATA
1 ATATAATA
192230324 ATATAA-A
1 ATATAATA
192230331 AT-TAATA
1 ATATAATA
192230338 TATTACTTAT
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
6 5 0.11
7 11 0.23
8 26 0.55
9 5 0.11
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (8 bp):
ATATAATA
Found at i:192239057 original size:71 final size:70
Alignment explanation
Indices: 192238935--192239097 Score: 308
Period size: 71 Copynumber: 2.3 Consensus size: 70
192238925 CGATTTGTCT
*
192238935 CGTAGCTCTCTTGTCTACATGGTGTCTTCACTTGGAATCACGCATGTGACCTAGCTACATTTATC
1 CGTAGCTCTCTTGTCTACATGGTGTCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTATC
192239000 TTTCA
66 TTTCA
192239005 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGT-CTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
192239070 CTTTCA
65 CTTTCA
192239076 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
192239098 GATACATCTC
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
70 25 0.27
71 66 0.73
ACGTcount: A:0.19, C:0.27, G:0.18, T:0.36
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:192239135 original size:71 final size:69
Alignment explanation
Indices: 192238935--192239131 Score: 265
Period size: 71 Copynumber: 2.8 Consensus size: 69
192238925 CGATTTGTCT
*
192238935 CGTAGCTCTCTTGTCTACATGGTGT-CTTCACTTGGAATCACGCATGTGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT--CTTGGAATCACGCATGTGACCTAGCTACATTTAT
192238999 CTTTCA
64 CTTTCA
* * *
192239005 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT--CTTGGAATCACGCATGTGACCTAGCTACATTTAT
192239070 CTTTCA
64 CTTTCA
* * *
192239076 CGTAGCTCTCTTGTCTACATGG-GATACATC-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATCTTGGAATCACGCATGTGACCTAGCTAC
192239132 TACAGGGTGT
Statistics
Matches: 118, Mismatches: 7, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 26 0.22
71 69 0.58
ACGTcount: A:0.21, C:0.27, G:0.17, T:0.35
Consensus pattern (69 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATCTTGGAATCACGCATGTGACCTAGCTACATTTATCT
TTCA
Found at i:192244944 original size:30 final size:30
Alignment explanation
Indices: 192244868--192244945 Score: 77
Period size: 30 Copynumber: 2.6 Consensus size: 30
192244858 TTCAACTTAT
* * *
192244868 GAGCTAAACCTTAGCTCAACTTCAGCTTAG
1 GAGCTAAAGCTTAGCTCAACTTCAGCTCAC
** * *
192244898 GAG-TTTAGCCTCAGCTCAACTTTAGCTCAC
1 GAGCTAAAG-CTTAGCTCAACTTCAGCTCAC
192244928 GAGCTAAAGCTTAGCTCA
1 GAGCTAAAGCTTAGCTCA
192244946 TTTTAGTTGA
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
29 2 0.06
30 31 0.86
31 3 0.08
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (30 bp):
GAGCTAAAGCTTAGCTCAACTTCAGCTCAC
Found at i:192245835 original size:22 final size:20
Alignment explanation
Indices: 192245803--192245851 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 20
192245793 GCCGAATTTA
192245803 TGAACTATTTTAATACATTAGTG
1 TGAAC-ATTTTAAT-CATT-GTG
* *
192245826 TGAACATTTTTATTATTGTG
1 TGAACATTTTAATCATTGTG
192245846 TGAACA
1 TGAACA
192245852 CCTAGATGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 9 0.38
21 3 0.12
22 7 0.29
23 5 0.21
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.45
Consensus pattern (20 bp):
TGAACATTTTAATCATTGTG
Found at i:192247365 original size:66 final size:68
Alignment explanation
Indices: 192247289--192247475 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
192247279 TAGTACCACT
*
192247289 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
192247351 CACG
65 CACG
192247355 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
192247420 ATCACG
63 ATCACG
192247426 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
192247476 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:192247400 original size:71 final size:71
Alignment explanation
Indices: 192247312--192247475 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
192247302 CGATTTGTCT
192247312 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
192247377 CTTTCA
66 CTTTCA
192247383 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
192247448 CTTTCA
66 CTTTCA
192247454 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
192247476 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:192247513 original size:71 final size:70
Alignment explanation
Indices: 192247312--192247509 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
192247302 CGATTTGTCT
* * *
192247312 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
192247377 CTTTCA
65 CTTTCA
* * *
192247383 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
192247448 CTTTCA
65 CTTTCA
* *
192247454 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
192247510 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:192251792 original size:46 final size:45
Alignment explanation
Indices: 192251707--192251826 Score: 125
Period size: 46 Copynumber: 2.6 Consensus size: 45
192251697 CTAGTAGCTA
* * * *
192251707 ATGCATGTCCCAAACATGTCTTAAACTGGCTTACGTCTTGAGGCCG
1 ATGCATGTCCCAGACATGTCTTACACTGACTTAC-TCTTGAGGACG
* * *
192251753 ATGCATGTCCCGGACATGTCTTACACTAGCACTTA-TCTTGATGATG
1 ATGCATGTCCCAGACATGTCTTACACT-G-ACTTACTCTTGAGGACG
192251799 ATGCCATGTCCCAGACATGGTCTTACAC
1 ATG-CATGTCCCAGACAT-GTCTTACAC
192251827 AGGCTCTCAT
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
46 35 0.56
47 14 0.23
48 13 0.21
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (45 bp):
ATGCATGTCCCAGACATGTCTTACACTGACTTACTCTTGAGGACG
Found at i:192256561 original size:29 final size:29
Alignment explanation
Indices: 192256471--192256630 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
192256461 ACTCGATTTC
* * **
192256471 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
192256500 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
192256528 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
192256558 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
192256587 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
192256616 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
192256631 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:192264745 original size:31 final size:29
Alignment explanation
Indices: 192264626--192264787 Score: 166
Period size: 29 Copynumber: 5.5 Consensus size: 29
192264616 ACTCGATTTC
* * **
192264626 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
192264655 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
192264683 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
192264713 GCACACTTAGTGCCATATATTTCAGCAGCAT
1 GCACACTTAGTGCCATATATTTC--CAGCAT
192264744 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
192264773 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
192264788 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 17, Indels: 10
0.80 0.12 0.07
Matches are distributed among these distances:
28 2 0.02
29 79 0.71
30 1 0.01
31 29 0.26
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:192268325 original size:28 final size:28
Alignment explanation
Indices: 192268256--192268356 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
192268246 GACAAGATTG
* * * *
192268256 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
192268286 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
192268314 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
192268343 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
192268357 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:192274960 original size:40 final size:39
Alignment explanation
Indices: 192274849--192274999 Score: 142
Period size: 40 Copynumber: 3.8 Consensus size: 39
192274839 TTAATCACGT
* * *
192274849 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* * *
192274889 GCACGAATGCCTTCGGGCCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *** *
192274929 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *
192274969 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAT
192275000 CATTCAATTT
Statistics
Matches: 93, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
39 15 0.16
40 78 0.84
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
Found at i:192274983 original size:80 final size:79
Alignment explanation
Indices: 192274849--192274999 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
192274839 TTAATCACGT
*
192274849 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
192274914 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
192274929 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
192274992 CCGGATAT
64 CCGGATAT
192275000 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:192279500 original size:28 final size:28
Alignment explanation
Indices: 192279431--192279531 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
192279421 GACAAGATTG
* * * *
192279431 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
192279461 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
192279489 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
192279518 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
192279532 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:192281260 original size:14 final size:15
Alignment explanation
Indices: 192281241--192281269 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
192281231 AGCACAAAAT
192281241 TTCACACAT-ATAAA
1 TTCACACATAATAAA
192281255 TTCACACATAATAAA
1 TTCACACATAATAAA
192281270 CACAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:192288827 original size:14 final size:15
Alignment explanation
Indices: 192288808--192288836 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
192288798 GAACAAAAAT
192288808 TTCACACAT-ATAAA
1 TTCACACATAATAAA
192288822 TTCACACATAATAAA
1 TTCACACATAATAAA
192288837 CACAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:192291129 original size:17 final size:18
Alignment explanation
Indices: 192291087--192291135 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
192291077 AGTTGAAAAG
192291087 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
192291106 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
192291123 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
192291136 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:192292024 original size:40 final size:40
Alignment explanation
Indices: 192291958--192292124 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
192291948 AAATTGAATG
* * *
192291958 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
192291997 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
192292037 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
192292077 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
192292117 ATATCCGG
1 ATATCCGG
192292125 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:192295871 original size:31 final size:30
Alignment explanation
Indices: 192295832--192295893 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 30
192295822 ATATTTGGTC
192295832 GATTGTAGTCGTGTTCATTGATGACATCTT
1 GATTGTAGTCGTGTTCATTGATGACATCTT
192295862 GATTCGTAGTCGTGTTCATTGATGACATCTT
1 GATT-GTAGTCGTGTTCATTGATGACATCTT
192295893 G
1 G
192295894 GTCTATTCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 4 0.13
31 27 0.87
ACGTcount: A:0.19, C:0.15, G:0.24, T:0.42
Consensus pattern (30 bp):
GATTGTAGTCGTGTTCATTGATGACATCTT
Found at i:192299036 original size:17 final size:18
Alignment explanation
Indices: 192298994--192299042 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
192298984 AGTTGAAAAG
192298994 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
192299013 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
192299030 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
192299043 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:192299979 original size:39 final size:40
Alignment explanation
Indices: 192299856--192300021 Score: 171
Period size: 40 Copynumber: 4.2 Consensus size: 40
192299846 AAATTGAATG
* * *
192299856 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTAATT
* * **
192299895 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTAATT
*
192299935 ATATCCGGGCTAAG-CCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTAATT
* * *
192299974 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTAATT
192300014 ATATCCGG
1 ATATCCGG
192300022 TTATATTCCG
Statistics
Matches: 106, Mismatches: 15, Indels: 11
0.80 0.11 0.08
Matches are distributed among these distances:
38 3 0.03
39 45 0.42
40 56 0.53
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTAATT
Found at i:192299988 original size:79 final size:79
Alignment explanation
Indices: 192299856--192300021 Score: 212
Period size: 79 Copynumber: 2.1 Consensus size: 79
192299846 AAATTGAATG
*
192299856 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAA
1 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
*
192299921 TTGTGCTA-GTGGTT
66 TTGTGC-ACGTGATT
* * ** *
192299935 ATATCCGGGCTAAGCCCGAAGGC-ATTCGTGC-GAGTTATTCTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGCCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGC
*
192299998 ATTTGTGCACGTGATT
64 AATTGTGCACGTGATT
192300014 ATATCCGG
1 ATATCCGG
192300022 TTATATTCCG
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 5 0.07
79 71 0.93
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCACGTGATT
Found at i:192303679 original size:40 final size:40
Alignment explanation
Indices: 192303605--192303750 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
192303595 CCGCACCAAG
* * * * * *
192303605 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
192303645 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
192303685 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
192303725 GCCTTCGGGTCTTAACCCGGATATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
192303751 TTTTCAGCAT
Statistics
Matches: 90, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:192303765 original size:40 final size:40
Alignment explanation
Indices: 192303637--192303788 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
192303627 ATCACGATTT
* * * * *
192303637 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
192303677 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
* * **
192303717 GCACAATTGCCTTCGGGTCTTAACCCGGATATA-ATTTTCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACT-A
* * *
192303757 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
192303789 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
39 4 0.04
40 91 0.94
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
Found at i:192311781 original size:40 final size:40
Alignment explanation
Indices: 192311707--192311852 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
192311697 CCGCACCAAG
* * * * * *
192311707 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
192311747 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
192311787 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
192311827 GCCTTCGGGTCTTAACCCGGATATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
192311853 TTTTCAGCAT
Statistics
Matches: 90, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:192311867 original size:40 final size:40
Alignment explanation
Indices: 192311739--192311890 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
192311729 ATCACGATTT
* * * * *
192311739 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
192311779 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
* * **
192311819 GCACAATTGCCTTCGGGTCTTAACCCGGATATA-ATTTTCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACT-A
* * *
192311859 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
192311891 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
39 4 0.04
40 91 0.94
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
Found at i:192314865 original size:30 final size:30
Alignment explanation
Indices: 192314829--192314959 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
192314819 GACAAGATTG
* * * * *
192314829 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
192314859 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
192314887 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
192314917 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
192314946 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
192314960 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:192314920 original size:58 final size:58
Alignment explanation
Indices: 192314829--192314959 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
192314819 GACAAGATTG
* * * * * *
192314829 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
192314887 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
192314946 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
192314960 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:192323685 original size:40 final size:40
Alignment explanation
Indices: 192323577--192323686 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
192323567 ATTGAATGAT
* * * * *
192323577 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
* * *
192323617 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
192323657 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
192323687 AAATTGTGAA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
Found at i:192323701 original size:40 final size:39
Alignment explanation
Indices: 192323577--192323726 Score: 133
Period size: 40 Copynumber: 3.8 Consensus size: 39
192323567 ATTGAATGAT
* * * * * * *
192323577 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGA-CAC
*
192323617 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGAC-AC
* *
192323657 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTGTGA-A-
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC---TAGTGACAC
* *
192323697 ATCCGGGTTAAGTCCCGAAGGCCTTTGTGC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC
192323727 GGGTTACCAT
Statistics
Matches: 92, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
40 86 0.93
41 1 0.01
43 5 0.05
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGACAC
Found at i:192327579 original size:27 final size:27
Alignment explanation
Indices: 192327539--192327650 Score: 138
Period size: 27 Copynumber: 4.1 Consensus size: 27
192327529 AGGAAGCGTC
*
192327539 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
192327566 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
192327593 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
192327621 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
192327647 CTGG
1 CTGG
192327651 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 8 0.11
27 49 0.65
28 18 0.24
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:192327645 original size:54 final size:54
Alignment explanation
Indices: 192327539--192327650 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
192327529 AGGAAGCGTC
* *
192327539 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * *
192327593 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
192327647 CTGG
1 CTGG
192327651 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:192328733 original size:11 final size:10
Alignment explanation
Indices: 192328705--192328738 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
192328695 AGCCTGTAAG
192328705 TATTCTGAAT
1 TATTCTGAAT
*
192328715 TTTTCTGAAT
1 TATTCTGAAT
192328725 ATATTCTGAAT
1 -TATTCTGAAT
192328736 TAT
1 TAT
192328739 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:192335442 original size:27 final size:27
Alignment explanation
Indices: 192335402--192335513 Score: 138
Period size: 27 Copynumber: 4.1 Consensus size: 27
192335392 AGGAAGCGTC
*
192335402 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
192335429 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
192335456 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
192335484 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
192335510 CTGG
1 CTGG
192335514 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 8 0.11
27 49 0.65
28 18 0.24
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:192335508 original size:54 final size:54
Alignment explanation
Indices: 192335402--192335513 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
192335392 AGGAAGCGTC
* *
192335402 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * *
192335456 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
192335510 CTGG
1 CTGG
192335514 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:192340846 original size:40 final size:39
Alignment explanation
Indices: 192340678--192340848 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
192340668 AGAAATTGAA
* *
192340678 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
192340718 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
192340758 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
192340798 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
192340838 TGATATCCGGG
1 TGATATCCGGG
192340849 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:192348691 original size:40 final size:39
Alignment explanation
Indices: 192348523--192348693 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
192348513 AGAAATTGAA
* *
192348523 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
192348563 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
192348603 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
192348643 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
192348683 TGATATCCGGG
1 TGATATCCGGG
192348694 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:192350225 original size:42 final size:43
Alignment explanation
Indices: 192350178--192350282 Score: 117
Period size: 43 Copynumber: 2.5 Consensus size: 43
192350168 AGATTTATGC
* * *
192350178 GTAAGACCATGTTTGGGAGA-TCGACATCG-TATTTGATTT-CGT
1 GTAAGACCATGTCTGGGACAGT-GACATCGATATTTG-TTTACAT
* *
192350220 GTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGTTTACAT
1 GTAAGACCATGTCTGGGACAGTGACATCGATATTTGTTTACAT
*
192350263 GTAAGACCACGTCTGGGACA
1 GTAAGACCATGTCTGGGACA
192350283 TTAGCATTGT
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
42 26 0.49
43 27 0.51
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (43 bp):
GTAAGACCATGTCTGGGACAGTGACATCGATATTTGTTTACAT
Found at i:192354871 original size:43 final size:43
Alignment explanation
Indices: 192354824--192354934 Score: 177
Period size: 43 Copynumber: 2.6 Consensus size: 43
192354814 CGGCATTACG
192354824 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAA
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAA
* * * *
192354867 CCTGCAAGGCACGAAGGCCCGAATACACATCACTGGTACGAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAA
*
192354910 CCTGCTAGGCACGAAGGCCTGAATA
1 CCTGCTAGGCACGAAGGCCCGAATA
192354935 TAATACCAGC
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 62 1.00
ACGTcount: A:0.32, C:0.32, G:0.25, T:0.12
Consensus pattern (43 bp):
CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAA
Found at i:192356741 original size:18 final size:20
Alignment explanation
Indices: 192356718--192356760 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
192356708 TTAAGAAAGG
*
192356718 GACTAT-ATAT-TGATATTT
1 GACTATGATATATGATATAT
192356736 GACTATGATATGATGATATAT
1 GACTATGATAT-ATGATATAT
192356757 GACT
1 GACT
192356761 TTTGATTGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 6 0.29
19 4 0.19
21 11 0.52
ACGTcount: A:0.35, C:0.07, G:0.16, T:0.42
Consensus pattern (20 bp):
GACTATGATATATGATATAT
Found at i:192361704 original size:40 final size:40
Alignment explanation
Indices: 192361646--192361813 Score: 175
Period size: 40 Copynumber: 4.2 Consensus size: 40
192361636 CAATTGAATG
* *
192361646 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTG-CTT
*
192361687 -TATCCGGGCTAATACCCGAAGGC-ATTCGTGCAAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TGCTT
* * *
192361726 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGT-CGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGC-TT
** *
192361766 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTGCTT
192361806 ATATCCGG
1 ATATCCGG
192361814 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 9, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
39 8 0.07
40 98 0.89
41 4 0.04
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGCTT
Found at i:192361784 original size:80 final size:79
Alignment explanation
Indices: 192361646--192361813 Score: 230
Period size: 80 Copynumber: 2.1 Consensus size: 79
192361636 CAATTGAATG
* * *
192361646 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTTTATCCGGGCTAATACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGA-TTTATCCGGGCTAAGACCCGAAGGCA
*
192361711 TTCGTGCAAGTTGTT
65 TTCGTGCAAGTGGTT
* *
192361726 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCG-TTATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-GATT-TATCCGGGCTAAGACCCGAAGGC
**
192361790 ATTCGTGCGTGTGGTT
64 ATTCGTGCAAGTGGTT
192361806 ATATCCGG
1 ATATCCGG
192361814 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
79 2 0.03
80 75 0.96
81 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTTATCCGGGCTAAGACCCGAAGGCAT
TCGTGCAAGTGGTT
Found at i:192369699 original size:40 final size:40
Alignment explanation
Indices: 192369641--192369808 Score: 175
Period size: 40 Copynumber: 4.2 Consensus size: 40
192369631 CAATTGAATG
* *
192369641 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTG-CTT
*
192369682 -TATCCGGGCTAATACCCGAAGGC-ATTCGTGCAAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TGCTT
* * *
192369721 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGT-CGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGC-TT
** *
192369761 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTGCTT
192369801 ATATCCGG
1 ATATCCGG
192369809 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 9, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
39 8 0.07
40 98 0.89
41 4 0.04
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGCTT
Found at i:192369779 original size:80 final size:79
Alignment explanation
Indices: 192369641--192369808 Score: 230
Period size: 80 Copynumber: 2.1 Consensus size: 79
192369631 CAATTGAATG
* * *
192369641 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTTTATCCGGGCTAATACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGA-TTTATCCGGGCTAAGACCCGAAGGCA
*
192369706 TTCGTGCAAGTTGTT
65 TTCGTGCAAGTGGTT
* *
192369721 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCG-TTATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-GATT-TATCCGGGCTAAGACCCGAAGGC
**
192369785 ATTCGTGCGTGTGGTT
64 ATTCGTGCAAGTGGTT
192369801 ATATCCGG
1 ATATCCGG
192369809 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
79 2 0.03
80 75 0.96
81 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTTATCCGGGCTAAGACCCGAAGGCAT
TCGTGCAAGTGGTT
Found at i:192374566 original size:37 final size:37
Alignment explanation
Indices: 192374516--192374589 Score: 91
Period size: 37 Copynumber: 2.0 Consensus size: 37
192374506 GATCGACGTC
*
192374516 GTTGTGATTAGCCAAATG-TAT-TGGCTTATAATGATTT
1 GTTGTGATTAGCC--ATGAGATGTGGCTTATAATGATTT
192374553 GTTGT-ATGTAGCCATGAGATGTGGCTTATAATGATTT
1 GTTGTGAT-TAGCCATGAGATGTGGCTTATAATGATTT
192374590 TGGCTTGTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
35 3 0.09
36 4 0.12
37 26 0.79
ACGTcount: A:0.26, C:0.08, G:0.24, T:0.42
Consensus pattern (37 bp):
GTTGTGATTAGCCATGAGATGTGGCTTATAATGATTT
Found at i:192375532 original size:3 final size:3
Alignment explanation
Indices: 192375524--192375576 Score: 97
Period size: 3 Copynumber: 17.7 Consensus size: 3
192375514 GTTTATTTGT
*
192375524 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
192375572 TTA TT
1 TTA TT
192375577 TTTACTTTTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:192375585 original size:7 final size:6
Alignment explanation
Indices: 192375523--192375588 Score: 60
Period size: 6 Copynumber: 11.0 Consensus size: 6
192375513 AGTTTATTTG
* * * * * * *
192375523 TTTATT ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
*
192375571 TTTATT TTTACT TTTATT
1 TTTATT TTTATT TTTATT
192375589 CTTCTTCCAT
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 56 1.00
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (6 bp):
TTTATT
Found at i:192378063 original size:26 final size:26
Alignment explanation
Indices: 192378011--192378063 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
192378001 CCAACACACC
** *
192378011 AATATCGTAGCAAAACTGTGAGTAAT
1 AATATCGTAGCAAAACTGCCAGCAAT
* *
192378037 AATATCGTAGCAGAGCTGCCAGCAAT
1 AATATCGTAGCAAAACTGCCAGCAAT
192378063 A
1 A
192378064 GTAATGCAGC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.23
Consensus pattern (26 bp):
AATATCGTAGCAAAACTGCCAGCAAT
Found at i:192380391 original size:40 final size:40
Alignment explanation
Indices: 192380272--192380540 Score: 189
Period size: 40 Copynumber: 6.7 Consensus size: 40
192380262 CCTACTCGTT
* * * *** **
192380272 CAAACGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAACAACTAGCA
* * * * * * * *
192380312 CCAAGGCCTACGGGACTTAACCCGGATATCACGATTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAACAACTAGCA
* * *
192380352 CAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAACAACTAGCA
* **
192380392 CGAATGCCTTCGGGACTTAGCCCGGATATAATTACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAACAACTAGCA
* * * *
192380432 TAAATGTCC-TCGGGACTTAGCCCGGATGTAGCCACTAGCA
1 CAAATG-CCTTCGGGACTTAGCCCGGATATAACAACTAGCA
* * * *** *
192380472 CAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAACAACTAGCA
** * *
192380512 TTAACGTCTTCGGGACTTAGCCCGGATAT
1 CAAATGCCTTCGGGACTTAGCCCGGATAT
192380541 CATTCAATTT
Statistics
Matches: 176, Mismatches: 51, Indels: 4
0.76 0.22 0.02
Matches are distributed among these distances:
39 2 0.01
40 172 0.98
41 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAACAACTAGCA
Found at i:192380406 original size:80 final size:80
Alignment explanation
Indices: 192380317--192380538 Score: 214
Period size: 80 Copynumber: 2.8 Consensus size: 80
192380307 CCGCACCAAG
* * * * * *
192380317 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAATG-CCTTCGGGTCTTAGCCCGGATTT
1 GCCTTCGGGACTTAACCCGGATATAACGACTAGCACAAATGTCC-TCGGGACTTAGCCCGGATGT
*
192380381 AACAACTTGCACGAA-T
65 AACAACTAGCAC-AATT
* ** *
192380397 GCCTTCGGGACTTAGCCCGGATATAATTACTAGCATAAATGTCCTCGGGACTTAGCCCGGATGTA
1 GCCTTCGGGACTTAACCCGGATATAACGACTAGCACAAATGTCCTCGGGACTTAGCCCGGATGTA
* *
192380462 GCCACTAGCACAATT
66 ACAACTAGCACAATT
* *** * ** * *
192380477 GCCTTCGGGTCTTAACCCGGATATAATTTCCAGCATTAACGTCTTCGGGACTTAGCCCGGAT
1 GCCTTCGGGACTTAACCCGGATATAACGACTAGCACAAATGTCCTCGGGACTTAGCCCGGAT
192380539 ATCATTCAAT
Statistics
Matches: 120, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
79 2 0.02
80 116 0.97
81 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATAACGACTAGCACAAATGTCCTCGGGACTTAGCCCGGATGTA
ACAACTAGCACAATT
Found at i:192384484 original size:23 final size:24
Alignment explanation
Indices: 192384436--192384485 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 24
192384426 GTTTATAGTA
192384436 AAATAAATAATATTTAAAATAAAT
1 AAATAAATAATATTTAAAATAAAT
*
192384460 AAATAAA-AA-ATTTAGAAATATAT
1 AAATAAATAATATTTA-AAATAAAT
192384483 AAA
1 AAA
192384486 AAAGGATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 5 0.21
23 12 0.50
24 7 0.29
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (24 bp):
AAATAAATAATATTTAAAATAAAT
Found at i:192385153 original size:17 final size:16
Alignment explanation
Indices: 192385128--192385163 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
192385118 GTATGTATTG
*
192385128 AAAAAAACAAAAACGA
1 AAAAAAACAAAAAAGA
192385144 AAAAATAACAAAAAAGA
1 AAAAA-AACAAAAAAGA
192385161 AAA
1 AAA
192385164 TATCACCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.83, C:0.08, G:0.06, T:0.03
Consensus pattern (16 bp):
AAAAAAACAAAAAAGA
Found at i:192385781 original size:17 final size:17
Alignment explanation
Indices: 192385759--192385791 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
192385749 TAAATGGACT
*
192385759 GTTTAATTTTATTTTTC
1 GTTTAATTTCATTTTTC
192385776 GTTTAATTTCATTTTT
1 GTTTAATTTCATTTTT
192385792 AAATTTTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.06, G:0.06, T:0.70
Consensus pattern (17 bp):
GTTTAATTTCATTTTTC
Found at i:192386156 original size:44 final size:44
Alignment explanation
Indices: 192386076--192386327 Score: 202
Period size: 44 Copynumber: 5.9 Consensus size: 44
192386066 ATCTGTTATG
* * * * *
192386076 TCTTCGATTTGCTCCCTGTCAAATACAGAGAAGCCAAATCATCT
1 TCTTGGATTTGCTCCCCGTCGAATACGGAGATGCCAAATCATCT
* * *
192386120 TCTTGGTTTTGCTCCCCGTCGAATATGGAGATGCCAAATCTATCA
1 TCTTGGATTTGCTCCCCGTCGAATACGGAGATGCCAAATC-ATCT
* *
192386165 TCTTGGATCTGC-CCCC--C---TACGGGGATGCCAAATC-TGCT
1 TCTTGGATTTGCTCCCCGTCGAATACGGAGATGCCAAATCAT-CT
* * *
192386203 TCTTGGATTTACTCCTCGTCGAATACGAAGATGCCAAATCA---
1 TCTTGGATTTGCTCCCCGTCGAATACGGAGATGCCAAATCATCT
* * *
192386244 TCTTGGATCTGTTCCCTGTCGAATACGGAGATGCCAAATC-TACT
1 TCTTGGATTTGCTCCCCGTCGAATACGGAGATGCCAAATCAT-CT
* * ** **
192386288 TCTTAGATTTGCTCCTCGTTAAATACAAAGATGCCAAATC
1 TCTTGGATTTGCTCCCCGTCGAATACGGAGATGCCAAATC
192386328 TACTGTCTTC
Statistics
Matches: 162, Mismatches: 33, Indels: 26
0.73 0.15 0.12
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 18 0.11
41 35 0.22
42 1 0.01
44 83 0.51
45 13 0.08
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (44 bp):
TCTTGGATTTGCTCCCCGTCGAATACGGAGATGCCAAATCATCT
Found at i:192386291 original size:85 final size:83
Alignment explanation
Indices: 192386088--192386589 Score: 258
Period size: 88 Copynumber: 5.8 Consensus size: 83
192386078 TTCGATTTGC
* * * * *
192386088 TCCCTGTCAAATACAGAGAAGCCAAATC-ATCTTCTTGGTTTTGCTCCCCGTCGAATATGGAGAT
1 TCCCTGTC-AATACAGAGATGCCAAATCTA-CTTCTTGGATTTGCTCCTCGTCGAATACGAAGAT
192386152 GCCAAATCTATCATCTTGGATCTG
64 GCC-AA---ATCATCTTGGATCTG
** * * * *
192386176 -CCC---CCCTACGGGGATGCCAAATCTGCTTCTTGGATTTACTCCTCGTCGAATACGAAGATGC
1 TCCCTGTCAATACAGAGATGCCAAATCTACTTCTTGGATTTGCTCCTCGTCGAATACGAAGATGC
192386237 CAAATCATCTTGGATCTG
66 CAAATCATCTTGGATCTG
* * ** *
192386255 TTCCCTGTCGAATACGGAGATGCCAAATCTACTTCTTAGATTTGCTCCTCGTTAAATACAAAGAT
1 -TCCCTGTC-AATACAGAGATGCCAAATCTACTTCTTGGATTTGCTCCTCGTCGAATACGAAGAT
*
192386320 GCCAAATCTACTGTCTTCGATCTG
64 GCCAAATC-A---TCTTGGATCTG
** * * * * *
192386344 CTCTTTGACAATACAGAGATGCCAAATCTACTATCTTCGATCTGCT-CTCTGAC-AATA-TAGAG
1 -TCCCTGTCAATACAGAGATGCCAAATCTACT-TCTTGGATTTGCTCCTC-GTCGAATACGA-AG
*
192386406 ATGCCAAATCTGCTATCTTCGATCTG
62 ATGCCAAA--T-C-ATCTTGGATCTG
* * * * * * *
192386432 TTCTCTAG-CAATATAGAGATGCCAAATCTTCTATCTTCGATCTGCT-CTCTGAC-AATACAAAG
1 -TCCCT-GTCAATACAGAGATGCCAAATCTACT-TCTTGGATTTGCTCCTC-GTCGAATACGAAG
*
192386494 ATGCCAAATCTGCTATCTTTGATCTG
62 ATGCCAAA--T-C-ATCTTGGATCTG
** * * * * * *
192386520 CTTTCTGACAATACAGAGATGTCAAATCTGCTATCTTCGATCTGCT-CTC-T-GAAATACAAAGA
1 -TCCCTGTCAATACAGAGATGCCAAATCTACT-TCTTGGATTTGCTCCTCGTCG-AATACGAAGA
192386582 TGCCAAAT
63 TGCCAAAT
192386590 TTGCTATCTT
Statistics
Matches: 349, Mismatches: 43, Indels: 47
0.79 0.10 0.11
Matches are distributed among these distances:
79 15 0.04
81 3 0.01
82 2 0.01
83 46 0.13
84 2 0.01
85 55 0.16
86 1 0.00
87 22 0.06
88 170 0.49
89 29 0.08
90 1 0.00
91 3 0.01
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.31
Consensus pattern (83 bp):
TCCCTGTCAATACAGAGATGCCAAATCTACTTCTTGGATTTGCTCCTCGTCGAATACGAAGATGC
CAAATCATCTTGGATCTG
Found at i:192386328 original size:44 final size:44
Alignment explanation
Indices: 192386265--192386610 Score: 448
Period size: 44 Copynumber: 7.9 Consensus size: 44
192386255 TTCCCTGTCG
* * * *
192386265 AATACGGAGATGCCAAATCTACT-TCTTAGATTTGCTCCTCGTTA-
1 AATACAGAGATGCCAAATCTACTATCTTCGATCTGCT-CTC-TGAC
* * *
192386309 AATACAAAGATGCCAAATCTACTGTCTTCGATCTGCTCTTTGAC
1 AATACAGAGATGCCAAATCTACTATCTTCGATCTGCTCTCTGAC
192386353 AATACAGAGATGCCAAATCTACTATCTTCGATCTGCTCTCTGAC
1 AATACAGAGATGCCAAATCTACTATCTTCGATCTGCTCTCTGAC
* * *
192386397 AATATAGAGATGCCAAATCTGCTATCTTCGATCTGTTCTCT-AGC
1 AATACAGAGATGCCAAATCTACTATCTTCGATCTGCTCTCTGA-C
* *
192386441 AATATAGAGATGCCAAATCTTCTATCTTCGATCTGCTCTCTGAC
1 AATACAGAGATGCCAAATCTACTATCTTCGATCTGCTCTCTGAC
* * * *
192386485 AATACAAAGATGCCAAATCTGCTATCTTTGATCTGCTTTCTGAC
1 AATACAGAGATGCCAAATCTACTATCTTCGATCTGCTCTCTGAC
* *
192386529 AATACAGAGATGTCAAATCTGCTATCTTCGATCTGCTCTCTGA-
1 AATACAGAGATGCCAAATCTACTATCTTCGATCTGCTCTCTGAC
* * *
192386572 AATACAAAGATGCCAAATTTGCTATCTTCGATCTGCTCT
1 AATACAGAGATGCCAAATCTACTATCTTCGATCTGCTCT
192386611 TTGTAAACGC
Statistics
Matches: 272, Mismatches: 26, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
43 39 0.14
44 221 0.81
45 12 0.04
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (44 bp):
AATACAGAGATGCCAAATCTACTATCTTCGATCTGCTCTCTGAC
Found at i:192386460 original size:132 final size:131
Alignment explanation
Indices: 192386224--192386613 Score: 484
Period size: 132 Copynumber: 3.0 Consensus size: 131
192386214 CTCCTCGTCG
* * * * * *
192386224 AATACGAAGATGCCAAA--T-C-ATCTTGGATCTGTTCCCTGTCGAATACGGAGATGCCAAATCT
1 AATACAAAGATGCCAAATCTACTATCTTCGATCTGCTCTCTGAC-AATACAGAGATGCCAAATCT
* * * * *
192386285 ACT-TCTTAGATTTGCTCCTCGTTAAATACAAAGATGCCAAATCTACTGTCTTCGATCTGCTCTT
65 GCTATCTTCGATCTGCT-CTC-TGAAATACAAAGATGCCAAATCTACTATCTTCGATCTGCTCTT
192386349 TGAC
128 TGAC
* *
192386353 AATACAGAGATGCCAAATCTACTATCTTCGATCTGCTCTCTGACAATATAGAGATGCCAAATCTG
1 AATACAAAGATGCCAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTG
* * * * * *
192386418 CTATCTTCGATCTGTTCTCTAGCAATATAGAGATGCCAAATCTTCTATCTTCGATCTGCTCTCTG
66 CTATCTTCGATCTGCTCTCT-GAAATACAAAGATGCCAAATCTACTATCTTCGATCTGCTCTTTG
192386483 AC
130 AC
* * * *
192386485 AATACAAAGATGCCAAATCTGCTATCTTTGATCTGCTTTCTGACAATACAGAGATGTCAAATCTG
1 AATACAAAGATGCCAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTG
* *
192386550 CTATCTTCGATCTGCTCTCTGAAATACAAAGATGCCAAATTTGCTATCTTCGATCTGCTCTTTG
66 CTATCTTCGATCTGCTCTCTGAAATACAAAGATGCCAAATCTACTATCTTCGATCTGCTCTTTG
192386614 TAAACGCAAG
Statistics
Matches: 223, Mismatches: 32, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
129 15 0.07
131 40 0.18
132 141 0.63
133 27 0.12
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (131 bp):
AATACAAAGATGCCAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTG
CTATCTTCGATCTGCTCTCTGAAATACAAAGATGCCAAATCTACTATCTTCGATCTGCTCTTTGA
C
Found at i:192397448 original size:40 final size:39
Alignment explanation
Indices: 192397280--192397450 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
192397270 AGAAATTGAA
* *
192397280 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
192397320 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
192397360 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
192397400 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
192397440 TGATATCCGGG
1 TGATATCCGGG
192397451 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:192405344 original size:39 final size:40
Alignment explanation
Indices: 192405286--192405386 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
192405276 AAATTGAATG
* *
192405286 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
192405325 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
192405365 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
192405387 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:192405379 original size:40 final size:40
Alignment explanation
Indices: 192405286--192405462 Score: 180
Period size: 40 Copynumber: 4.5 Consensus size: 40
192405276 AAATTGAATG
* * * * *
192405286 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
192405325 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
192405365 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
192405405 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
*
192405445 ATATCCGGG-TAAGTCCCG
1 ATATCCGGGCTAAGACCCG
192405463 TTGGCCTTGG
Statistics
Matches: 117, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
39 40 0.34
40 75 0.64
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:192409621 original size:38 final size:39
Alignment explanation
Indices: 192409556--192409658 Score: 118
Period size: 39 Copynumber: 2.6 Consensus size: 39
192409546 AAATTGAATG
* * *
192409556 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAG-ACCGAAGGCAATTATGCTAGAAACT
* * * *
192409595 ATATCCGGGTTAAGACCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCGAAGGCAATTATGCTAGAAACT
192409634 ATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGA-CCGAAGGCA
192409659 TTCGTGCAAG
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
38 15 0.28
39 30 0.56
40 9 0.17
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.21
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCGAAGGCAATTATGCTAGAAACT
Found at i:192409637 original size:39 final size:40
Alignment explanation
Indices: 192409556--192409707 Score: 157
Period size: 40 Copynumber: 3.9 Consensus size: 40
192409546 AAATTGAATG
* * * * * **
192409556 ATATCCGGGCTAAGCCCCGAAGACAATTATGC-TGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGCT
* *
192409595 ATATCCGGGTTAAGA-CCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGCT
* *
192409634 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTAGCT
* *
192409674 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAA
192409708 ATCGTGATAT
Statistics
Matches: 95, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
38 14 0.15
39 33 0.35
40 46 0.48
41 2 0.02
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGCT
Found at i:192409720 original size:40 final size:38
Alignment explanation
Indices: 192409552--192409722 Score: 152
Period size: 40 Copynumber: 4.4 Consensus size: 38
192409542 TGAGAAATTG
* *
192409552 AATG-ATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-A
1 AATGTATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCA
* * *
192409591 AAT-TATATCCGGGTTAAGA-CCGAAGGCAATTGTGCT
1 AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
192409627 AGTAGCTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA
1 AAT-G-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
192409667 AGTTGTTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCA
1 A-ATG-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
192409707 AATCGTGATATCCGGG
1 AAT-GT-ATATCCGGG
192409723 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 16, Indels: 17
0.76 0.11 0.12
Matches are distributed among these distances:
35 2 0.02
36 4 0.04
37 2 0.02
38 7 0.07
39 33 0.31
40 58 0.54
41 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.23
Consensus pattern (38 bp):
AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
Found at i:192415292 original size:17 final size:18
Alignment explanation
Indices: 192415270--192415312 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
192415260 TGCTTTGAAG
192415270 ATTTGG-CGCCACTATCT
1 ATTTGGACGCCACTATCT
192415287 ATTTGGTGACGCCACTATCT
1 ATTT-G-GACGCCACTATCT
192415307 ATTTGG
1 ATTTGG
192415313 TGAGAAATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 4 0.17
18 2 0.09
19 2 0.09
20 15 0.65
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (18 bp):
ATTTGGACGCCACTATCT
Found at i:192415301 original size:20 final size:20
Alignment explanation
Indices: 192415276--192415315 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
192415266 GAAGATTTGG
192415276 CGCCACTATCTATTTGGTGA
1 CGCCACTATCTATTTGGTGA
192415296 CGCCACTATCTATTTGGTGA
1 CGCCACTATCTATTTGGTGA
192415316 GAAATGTCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (20 bp):
CGCCACTATCTATTTGGTGA
Found at i:192425600 original size:79 final size:78
Alignment explanation
Indices: 192425515--192425685 Score: 225
Period size: 78 Copynumber: 2.2 Consensus size: 78
192425505 CTTCGGGACA
* ** *
192425515 TAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGTACTTAACCCGGATATCACAATTTCCACA
1 TAGCCCGGATATCATAACCCGCACAAAGGACTTCGG-ACTTAACCCGGATATCACAATTTCCACA
192425580 ATTGCCTTCAGGCT
65 ATTGCCTTCAGGCT
* ** * * * *
192425594 TAGCCCGGATATCATAACTCGCACAATTGACTTCGGGCTTAGCCCGGGTATCACAATTTGCACAA
1 TAGCCCGGATATCATAACCCGCACAAAGGACTTCGGACTTAACCCGGATATCACAATTTCCACAA
*
192425659 TTGCCTTCGGGCT
66 TTGCCTTCAGGCT
192425672 TAGCCCGGATATCA
1 TAGCCCGGATATCA
192425686 CTCGAACATT
Statistics
Matches: 80, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
78 51 0.64
79 29 0.36
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (78 bp):
TAGCCCGGATATCATAACCCGCACAAAGGACTTCGGACTTAACCCGGATATCACAATTTCCACAA
TTGCCTTCAGGCT
Found at i:192425607 original size:39 final size:39
Alignment explanation
Indices: 192425543--192425686 Score: 191
Period size: 39 Copynumber: 3.7 Consensus size: 39
192425533 CCGCACAAAG
* *
192425543 GCCTTCGGTACTTAACCCGGATATCACAATTTCCACAATT
1 GCCTTCGG-GCTTAGCCCGGATATCACAATTTCCACAATT
* * *
192425583 GCCTTCAGGCTTAGCCCGGATATCATAA-CTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTC-CACAATT
* * *
192425622 GACTTCGGGCTTAGCCCGGGTATCACAATTTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTCCACAATT
192425661 GCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCCGGATATCAC
192425687 TCGAACATTC
Statistics
Matches: 89, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
38 2 0.02
39 79 0.89
40 8 0.09
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCACAATTTCCACAATT
Found at i:192432478 original size:40 final size:40
Alignment explanation
Indices: 192432433--192432562 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
192432423 CGGAATACAA
192432433 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
192432473 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
192432513 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
192432553 CCGGATATAA
1 CCGGATATAA
192432563 TTTCCAGCAT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.04
40 75 0.96
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:192440434 original size:40 final size:40
Alignment explanation
Indices: 192440389--192440518 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
192440379 CGGAATACAA
192440389 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
192440429 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
192440469 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
192440509 CCGGATATAA
1 CCGGATATAA
192440519 TTTCCAGCAT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.04
40 75 0.96
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:192446414 original size:40 final size:40
Alignment explanation
Indices: 192446369--192446535 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
192446359 CGGAATATAA
192446369 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
192446409 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
192446449 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
192446489 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
192446528 CCGGATAT
1 CCGGATAT
192446536 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:192454423 original size:40 final size:40
Alignment explanation
Indices: 192454378--192454545 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
192454368 CGGAATATAA
192454378 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
192454418 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
192454458 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
192454498 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
192454538 CCGGATAT
1 CCGGATAT
192454546 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:192455783 original size:46 final size:46
Alignment explanation
Indices: 192455730--192455904 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
192455720 TATTTGGGCA
192455730 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
192455776 TCCGAACTCGTTGAGTTGAG-CCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
**
192455822 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
192455868 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
192455905 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 16
0.80 0.09 0.12
Matches are distributed among these distances:
42 4 0.04
44 2 0.02
45 10 0.09
46 77 0.71
47 10 0.09
48 2 0.02
50 4 0.04
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:192455883 original size:92 final size:93
Alignment explanation
Indices: 192455726--192455896 Score: 299
Period size: 92 Copynumber: 1.8 Consensus size: 93
192455716 GGGATATTTG
* *
192455726 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
192455791 TTGAG-CCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
192455818 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
192455883 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
192455897 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 66 0.89
93 8 0.11
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:192457091 original size:15 final size:15
Alignment explanation
Indices: 192457071--192457139 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
192457061 GTATCTTGGG
192457071 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
192457086 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
192457101 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
192457116 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
192457131 TTTCTTTAT
1 TTTCTTTAT
192457140 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:192457140 original size:30 final size:30
Alignment explanation
Indices: 192457062--192457149 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
192457052 CATAGTATCG
* * * *
192457062 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
192457092 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
192457122 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
192457150 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:192459121 original size:46 final size:46
Alignment explanation
Indices: 192459068--192459243 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
192459058 TATTTGGGCA
192459068 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
192459114 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
192459161 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
192459207 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
192459244 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:192459223 original size:93 final size:93
Alignment explanation
Indices: 192459064--192459235 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
192459054 GGGATATTTG
* *
192459064 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
192459129 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
192459157 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
192459222 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
192459236 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:192465877 original size:94 final size:95
Alignment explanation
Indices: 192465728--192465925 Score: 256
Period size: 94 Copynumber: 2.1 Consensus size: 95
192465718 GCACGTAGAA
* * * * * *
192465728 TGAGACATATCACAAATCTTACAAAAGCCCATGCTCTCAAGGAGCACGTAGAGTGAGGCTCGCAA
1 TGAGACTTATCACAAAACTCACAAAAGCCCATGCTCTCAAGGAGCACGCAAAGTGAGGCTCACAA
*
192465793 AAGCTCATATT-TCAAAGGAACACACAGAG
66 AAGCTCATATTCTCAAAAGAACACACAGAG
* *
192465822 TGAGACTTATCACAAAACTCACAAAATCCCATGCT-TACGAGGAGCACGCAAAGTGAGGCTCACA
1 TGAGACTTATCACAAAACTCACAAAAGCCCATGCTCT-CAAGGAGCACGCAAAGTGAGGCTCACA
* * **
192465886 AAAGCTCATGTTCTTAAAAGAACACGTAGAG
65 AAAGCTCATATTCTCAAAAGAACACACAGAG
192465917 TGAGACTTA
1 TGAGACTTA
192465926 ACATGGGTGA
Statistics
Matches: 89, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
93 1 0.01
94 65 0.73
95 23 0.26
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.19
Consensus pattern (95 bp):
TGAGACTTATCACAAAACTCACAAAAGCCCATGCTCTCAAGGAGCACGCAAAGTGAGGCTCACAA
AAGCTCATATTCTCAAAAGAACACACAGAG
Found at i:192471394 original size:40 final size:40
Alignment explanation
Indices: 192471349--192471515 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
192471339 CGGAATATAA
192471349 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
192471389 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
192471429 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
192471469 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
192471508 CCGGATAT
1 CCGGATAT
192471516 CATTCAATTT
Statistics
Matches: 102, Mismatches: 24, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
39 14 0.14
40 88 0.86
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:192471499 original size:80 final size:79
Alignment explanation
Indices: 192471365--192471513 Score: 203
Period size: 80 Copynumber: 1.9 Consensus size: 79
192471355 ATAACCACGT
*
192471365 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-CTTAGCC
192471430 CGGATGTAGCCACTA
65 CGGATGTAGCCACTA
* * * * *
192471445 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGCTTAGC
192471508 CCGGAT
64 CCGGAT
192471514 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
79 15 0.25
80 46 0.75
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.27
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGCTTAGCCC
GGATGTAGCCACTA
Found at i:192485688 original size:40 final size:40
Alignment explanation
Indices: 192485644--192485795 Score: 189
Period size: 40 Copynumber: 3.8 Consensus size: 40
192485634 TTATAGTGAT
*
192485644 TCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGTAAC
1 TCGCACAAATGCCTTCGGGAATTAGCCCGGATTTAGTAAC
* * * * *
192485684 TCGCACGAATGCCTTCGGGACTTAACCCGGTTTTGGTAAC
1 TCGCACAAATGCCTTCGGGAATTAGCCCGGATTTAGTAAC
*
192485724 TCGCACAAATGCCTTCGGGAATT-GACCCGGATTTAGTCAC
1 TCGCACAAATGCCTTCGGGAATTAG-CCCGGATTTAGTAAC
* * *
192485764 TTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 -TCGCACAAATGCCTTCGGGAATTAGCCCGGA
192485796 CACCATTCGA
Statistics
Matches: 94, Mismatches: 15, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
40 67 0.71
41 26 0.28
42 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
TCGCACAAATGCCTTCGGGAATTAGCCCGGATTTAGTAAC
Found at i:192485744 original size:80 final size:81
Alignment explanation
Indices: 192485644--192485794 Score: 225
Period size: 80 Copynumber: 1.9 Consensus size: 81
192485634 TTATAGTGAT
* * * *
192485644 TCGCACAATTGCCTTCGGGAATT-AGCCCGGATTTAGTAAC-TCGCACGAATGCCTTCGGGACTT
1 TCGCACAAATGCCTTCGGGAATTGA-CCCGGATTTAGTAACTTAGCACAAAAGCCTTCGGGACTT
192485707 AACCCGGTTTTGGTAAC
65 AACCCGGTTTTGGTAAC
*
192485724 TCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGTCACTTAGCACAAAAGCCTTCGGGACTTA
1 TCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGTAACTTAGCACAAAAGCCTTCGGGACTTA
*
192485789 GCCCGG
66 ACCCGG
192485795 ACACCATTCG
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
80 36 0.57
81 27 0.43
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (81 bp):
TCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGTAACTTAGCACAAAAGCCTTCGGGACTTA
ACCCGGTTTTGGTAAC
Found at i:192493724 original size:40 final size:40
Alignment explanation
Indices: 192493680--192493859 Score: 170
Period size: 40 Copynumber: 4.5 Consensus size: 40
192493670 GCTCGATTGT
* * *
192493680 CTTCGGGACATAGCCCGG-TTATAGTGATTCGCACAATTGC
1 CTTCGGGACATAGCCCGGATT-TAGTAACTCGCACAAATGC
*
192493720 CTTCGGGA-ATTAGCCCGGATTTAGTAACTCGCACGAATGC
1 CTTCGGGACA-TAGCCCGGATTTAGTAACTCGCACAAATGC
* * *
192493760 CTTCGGGACTTAACCC-GATTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAGCCCGGA-TTTAGTAACTCGCACAAATGC
* * * * *
192493800 CTTTGGGA-ATTGACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACATAG-CCCGGATTTAGTAAC-TCGCACAAATGC
*
192493841 CTTCGGGACTTAGCCCGGA
1 CTTCGGGACATAGCCCGGA
192493860 CACCATTCGA
Statistics
Matches: 113, Mismatches: 19, Indels: 15
0.77 0.13 0.10
Matches are distributed among these distances:
39 4 0.04
40 80 0.71
41 27 0.24
42 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
CTTCGGGACATAGCCCGGATTTAGTAACTCGCACAAATGC
Found at i:192493792 original size:80 final size:81
Alignment explanation
Indices: 192493708--192493857 Score: 214
Period size: 80 Copynumber: 1.9 Consensus size: 81
192493698 TTATAGTGAT
* * * *
192493708 TCGCACAATTGCCTTCGGGAATT-AGCCCGGATTTAGTAAC-TCGCACGAATGCCTTCGGGACTT
1 TCGCACAAATGCCTTCGGGAATTGA-CCCGGATTTAGTAACTTAGCACAAAAGCCTTCGGGACTT
192493771 AACCCGATTTTGGTAAC
65 AACCCGATTTTGGTAAC
* *
192493788 TCGCACAAATGCCTTTGGGAATTGACCCGGATTTAGTCACTTAGCACAAAAGCCTTCGGGACTTA
1 TCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGTAACTTAGCACAAAAGCCTTCGGGACTTA
*
192493853 GCCCG
66 ACCCG
192493858 GACACCATTC
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
80 35 0.57
81 26 0.43
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (81 bp):
TCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGTAACTTAGCACAAAAGCCTTCGGGACTTA
ACCCGATTTTGGTAAC
Found at i:192502949 original size:37 final size:37
Alignment explanation
Indices: 192502896--192502994 Score: 171
Period size: 37 Copynumber: 2.7 Consensus size: 37
192502886 CGAATAGTCC
*
192502896 CCACACGTAGTTATCGGGTCTTACCCGGACAAAACCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAACCT
* *
192502933 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAACCT
192502970 CCACACGTAGTCATCGGGTCTTACC
1 CCACACGTAGTCATCGGGTCTTACC
192502995 TGGAATATAT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAACCT
Found at i:192503197 original size:48 final size:48
Alignment explanation
Indices: 192503139--192504174 Score: 1407
Period size: 48 Copynumber: 21.9 Consensus size: 48
192503129 ATATACACAC
* *
192503139 ATCTCCTACATATTTCACATTAGCCATTTGGATTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATACAT
* *
192503187 ATCTCATACATATTTCACACTCGCCATTTGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATACAT
* * * *
192503235 AACTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATAAAT
1 ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATACAT
* * *
192503283 ATCTCATACATATTTCACATTAGCCATTCGGCTTTATCTC--ATACAT
1 ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATACAT
* * * * * * * * * *
192503329 ATTTCACAC-TA--GC-CATTCGGC-TTT-AC--CA-CATATACATAT
1 ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATACAT
* * * *
192503368 CTCAT-A-C-ATATTTCACATTAGCCATTCGGCTTTACCACATATTCAT
1 ATC-TCATACATATTTCACATTAGCCATTTGGCTTTACCACATATACAT
* * *
192503414 ATCTCATACATATTTAACATTAGCCATTCGGCTTTACCACATACACAT
1 ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATACAT
* * *
192503462 ATCTCATTCATATTTCACATTAGCCATTGGGCTTTACCAAATATACAT
1 ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATACAT
* * *
192503510 ATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATACAT
* *
192503558 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATACAT
*
192503606 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATACAT
* * *
192503654 ATCACATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATACAT
* *
192503702 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATACAT
* *
192503750 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATACAT
* *
192503798 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATACAT
*
192503846 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATACAT
* * * * *
192503894 ATCTCATTCATATTTCACACTATCCATTCGGCTTTACAACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATACAT
* * * *
192503942 ATCTCATATATATTTCACAGTAGCCATTCGGCTTTACAACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATACAT
*
192503990 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATACAT
* * *
192504038 ATCTCATACATATTTCTCACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATACAT
*
192504086 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATACAT
*
192504134 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACA
1 ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACA
192504175 CACATATATA
Statistics
Matches: 897, Mismatches: 76, Indels: 30
0.89 0.08 0.03
Matches are distributed among these distances:
37 1 0.00
38 3 0.00
39 6 0.01
40 3 0.00
41 8 0.01
42 8 0.01
43 2 0.00
45 4 0.00
46 22 0.02
48 840 0.94
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATACAT
Found at i:192503250 original size:96 final size:96
Alignment explanation
Indices: 192503139--192504174 Score: 1684
Period size: 96 Copynumber: 10.9 Consensus size: 96
192503129 ATATACACAC
* * *
192503139 ATCTCCTACATATTTCACATTAGCCATTTGGATTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* * *
192503204 CACTCGCCATTTGGCTTTACCACATATACAT
66 CATTAGCCATTCGGCTTTACCACATATACAT
* * *
192503235 AACTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATAAATATCTCATACATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
192503300 CATTAGCCATTCGG--------C-T-T---T
66 CATTAGCCATTCGGCTTTACCACATATACAT
*
192503318 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
192503383 CATTAGCCATTCGGCTTTACCACATATTCAT
66 CATTAGCCATTCGGCTTTACCACATATACAT
* * *
192503414 ATCTCATACATATTTAACATTAGCCATTCGGCTTTACCACATACACATATCTCATTCATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* *
192503479 CATTAGCCATTGGGCTTTACCAAATATACAT
66 CATTAGCCATTCGGCTTTACCACATATACAT
* * *
192503510 ATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
192503575 CATTAGCCATTCGGCTTTACCACATATACAT
66 CATTAGCCATTCGGCTTTACCACATATACAT
*
192503606 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACATACATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
192503671 CACTAGCCATTCGGCTTTACCACATATACAT
66 CATTAGCCATTCGGCTTTACCACATATACAT
*
192503702 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
192503767 CACTAGCCATTCGGCTTTACCACATATACAT
66 CATTAGCCATTCGGCTTTACCACATATACAT
*
192503798 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
192503863 CATTAGCCATTCGGCTTTACCACATATACAT
66 CATTAGCCATTCGGCTTTACCACATATACAT
* * * * *
192503894 ATCTCATTCATATTTCACACTATCCATTCGGCTTTACAACATATACATATCTCATATATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* *
192503959 CAGTAGCCATTCGGCTTTACAACATATACAT
66 CATTAGCCATTCGGCTTTACCACATATACAT
*
192503990 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
192504055 CACTAGCCATTCGGCTTTACCACATATACAT
66 CATTAGCCATTCGGCTTTACCACATATACAT
192504086 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
192504151 CATTAGCCATTCGGCTTTACCACA
66 CATTAGCCATTCGGCTTTACCACA
192504175 CACATATATA
Statistics
Matches: 875, Mismatches: 52, Indels: 26
0.92 0.05 0.03
Matches are distributed among these distances:
83 76 0.09
86 1 0.00
87 1 0.00
88 1 0.00
91 1 0.00
92 1 0.00
93 1 0.00
96 793 0.91
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.35
Consensus pattern (96 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
CATTAGCCATTCGGCTTTACCACATATACAT
Found at i:192503300 original size:144 final size:144
Alignment explanation
Indices: 192503139--192504174 Score: 1711
Period size: 144 Copynumber: 7.3 Consensus size: 144
192503129 ATATACACAC
* * *
192503139 ATCTCCTACATATTTCACATTAGCCATTTGGATTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* * * * *
192503204 CACTCGCCATTTGGCTTTACCACATATACATAACTCATATATATTTCACATTAGCCATTCGGCTT
66 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTT
*
192503269 TACCACATATAAAT
131 TACCACATATACAT
192503283 ATCTCATACATATTTCACATTAGCCATTCGG--------C-T-T---TATCTCATACATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
192503335 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTT
66 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTT
*
192503400 TACCACATATTCAT
131 TACCACATATACAT
* * *
192503414 ATCTCATACATATTTAACATTAGCCATTCGGCTTTACCACATACACATATCTCATTCATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* * * *
192503479 CATTAGCCATTGGGCTTTACCAAATATACATATCTCATTCATATTTCACACTAGCCATTCGGCTT
66 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTT
192503544 TACCACATATACAT
131 TACCACATATACAT
*
192503558 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* *
192503623 CATTAGCCATTCGGCTTTACCACATATACATATCACATACATATTTCACACTAGCCATTCGGCTT
66 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTT
192503688 TACCACATATACAT
131 TACCACATATACAT
*
192503702 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
192503767 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTT
66 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTT
192503832 TACCACATATACAT
131 TACCACATATACAT
*
192503846 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATTCATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* * * *
192503911 CACTATCCATTCGGCTTTACAACATATACATATCTCATATATATTTCACAGTAGCCATTCGGCTT
66 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTT
*
192503976 TACAACATATACAT
131 TACCACATATACAT
*
192503990 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
192504055 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTT
66 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTT
192504120 TACCACATATACAT
131 TACCACATATACAT
192504134 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACA
192504175 CACATATATA
Statistics
Matches: 836, Mismatches: 43, Indels: 26
0.92 0.05 0.03
Matches are distributed among these distances:
131 121 0.14
134 1 0.00
135 1 0.00
136 1 0.00
139 1 0.00
140 1 0.00
144 710 0.85
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.35
Consensus pattern (144 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTT
TACCACATATACAT
Found at i:192503328 original size:35 final size:35
Alignment explanation
Indices: 192503282--192503353 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
192503272 CACATATAAA
*
192503282 TATCTCATACATATTTCACATTAGCCATTCGGCTT
1 TATCTCATACATATTTCACACTAGCCATTCGGCTT
192503317 TATCTCATACATATTTCACACTAGCCATTCGGCTT
1 TATCTCATACATATTTCACACTAGCCATTCGGCTT
192503352 TA
1 TA
192503354 CCACATATAC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.26, C:0.26, G:0.08, T:0.39
Consensus pattern (35 bp):
TATCTCATACATATTTCACACTAGCCATTCGGCTT
Found at i:192503901 original size:28 final size:28
Alignment explanation
Indices: 192503870--192503948 Score: 66
Period size: 28 Copynumber: 3.1 Consensus size: 28
192503860 TCACATTAGC
192503870 CATTCGGCTTTACCACATATACATATCT
1 CATTCGGCTTTACCACATATACATATCT
***
192503898 CATTCATATTT--CAC----AC-TATC-
1 CATTCGGCTTTACCACATATACATATCT
*
192503918 CATTCGGCTTTACAACATATACATATCT
1 CATTCGGCTTTACCACATATACATATCT
192503946 CAT
1 CAT
192503949 ATATATTTCA
Statistics
Matches: 36, Mismatches: 7, Indels: 16
0.61 0.12 0.27
Matches are distributed among these distances:
20 8 0.22
21 4 0.11
22 4 0.11
26 5 0.14
27 4 0.11
28 11 0.31
ACGTcount: A:0.30, C:0.28, G:0.05, T:0.37
Consensus pattern (28 bp):
CATTCGGCTTTACCACATATACATATCT
Found at i:192507061 original size:93 final size:93
Alignment explanation
Indices: 192506933--192507103 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
192506923 GCCCATAAGT
* * *
192506933 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
192506998 CGAGCTCGGATGCCTAGTTACATTTCAC
66 CGAGCTCAGATGCCTAGTTACATTTCAC
*
192507026 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
192507091 CGAGTTCAGATGC
66 CGAGCTCAGATGC
192507104 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCAGATGCCTAGTTACATTTCAC
Found at i:192507097 original size:46 final size:46
Alignment explanation
Indices: 192506925--192507094 Score: 195
Period size: 46 Copynumber: 3.7 Consensus size: 46
192506915 TGTAACCCGC
* * *
192506925 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
192506971 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* * * *
192507021 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
192507064 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
192507095 TTCAGATGCT
Statistics
Matches: 103, Mismatches: 12, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 58 0.56
47 28 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:192510217 original size:28 final size:28
Alignment explanation
Indices: 192510186--192510342 Score: 138
Period size: 28 Copynumber: 5.5 Consensus size: 28
192510176 CTGACTGATT
*
192510186 TCGCACACATAGCGCTCGATTAAAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
* * *
192510214 TCGCACACATAGTGCCTCAATTACCA-ATC
1 TCGCACACATAGTG-CTCGATTA-AAGAAC
*
192510243 TCGCACACATAGTGCTCGATTGAAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
* * ** *
192510271 TCGCACACATAGTGCCTCAACTACTGATC
1 TCGCACACATAGTG-CTCGATTAAAGAAC
* *
192510300 TGGCACACATAGTGCTC-AGTTGAAGAAC
1 TCGCACACATAGTGCTCGA-TTAAAGAAC
* *
192510328 TTGCACACACAGTGC
1 TCGCACACATAGTGC
192510343 CTCATAACTC
Statistics
Matches: 102, Mismatches: 22, Indels: 10
0.76 0.16 0.07
Matches are distributed among these distances:
27 2 0.02
28 55 0.54
29 44 0.43
30 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (28 bp):
TCGCACACATAGTGCTCGATTAAAGAAC
Found at i:192510246 original size:29 final size:29
Alignment explanation
Indices: 192510213--192510314 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
192510203 GATTAAAGAA
192510213 CTCGCACACATAGTGCCTCAATTACCAAT
1 CTCGCACACATAGTGCCTCAATTACCAAT
* **
192510242 CTCGCACACATAGTG-CTCGATTGAAGAA-
1 CTCGCACACATAGTGCCTCAATT-ACCAAT
* **
192510270 CTCGCACACATAGTGCCTCAACTACTGAT
1 CTCGCACACATAGTGCCTCAATTACCAAT
*
192510299 CTGGCACACATAGTGC
1 CTCGCACACATAGTGC
192510315 TCAGTTGAAG
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
28 23 0.38
29 38 0.62
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (29 bp):
CTCGCACACATAGTGCCTCAATTACCAAT
Found at i:192510253 original size:57 final size:57
Alignment explanation
Indices: 192510186--192510346 Score: 234
Period size: 57 Copynumber: 2.8 Consensus size: 57
192510176 CTGACTGATT
* * *
192510186 TCGCACACATAGCGCTCGATTAAAGAACTCGCACACATAGTGCCTCAATTACCAATC
1 TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATC
**
192510243 TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACTGATC
1 TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATC
* * *
192510300 TGGCACACATAGTGCTC-AGTTGAAGAACTTGCACACACAGTGCCTCA
1 TCGCACACATAGTGCTCGA-TTGAAGAACTCGCACACATAGTGCCTCA
192510347 TAACTCCAGC
Statistics
Matches: 95, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
56 1 0.01
57 94 0.99
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (57 bp):
TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATC
Found at i:192510419 original size:40 final size:40
Alignment explanation
Indices: 192510374--192510665 Score: 358
Period size: 40 Copynumber: 7.3 Consensus size: 40
192510364 CCTTCGAGGT
* *
192510374 TTAGCCCGGATATATCACTAGCACGAATGCTCTTTGGAAC
1 TTAGCCCGGATATAACACTAGCACGAATGCTCTTCGGAAC
* * ** *
192510414 TTAGCCCAGATACATTACTAGCACGAATGCTCTTTGGAAC
1 TTAGCCCGGATATAACACTAGCACGAATGCTCTTCGGAAC
* * * * *
192510454 TTAGCCCGGATACATCATTAGCACAAATGCTCTTCGAAAC
1 TTAGCCCGGATATAACACTAGCACGAATGCTCTTCGGAAC
*
192510494 TTAGCCCGGATATAACA-TCAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATATAACACT-AGCACGAATGCTCTTCGGAAC
* *
192510534 TTAGCCCGGATATAACATTAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATATAACACTAGCACGAATGCTCTTCGGAAC
* * *
192510574 TTAGCCCGGATATAACACCAGCAC-AATGCTCCTCGGGAC
1 TTAGCCCGGATATAACACTAGCACGAATGCTCTTCGGAAC
*
192510613 TTAGCCCGGATATAACACCA-CACGAATGCTCTTC-GAGAC
1 TTAGCCCGGATATAACACTAGCACGAATGCTCTTCGGA-AC
*
192510652 TTAGCCCGGCTATA
1 TTAGCCCGGATATA
192510666 TAACTCTCAA
Statistics
Matches: 228, Mismatches: 20, Indels: 9
0.89 0.08 0.04
Matches are distributed among these distances:
38 4 0.02
39 59 0.26
40 164 0.72
41 1 0.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAACACTAGCACGAATGCTCTTCGGAAC
Found at i:192511988 original size:37 final size:37
Alignment explanation
Indices: 192511935--192512037 Score: 188
Period size: 37 Copynumber: 2.8 Consensus size: 37
192511925 CGAATAGTCC
*
192511935 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
192511972 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
192512009 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
192512038 ATATATTTCC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:192512236 original size:48 final size:48
Alignment explanation
Indices: 192512178--192512527 Score: 641
Period size: 48 Copynumber: 7.3 Consensus size: 48
192512168 ATATACACAC
* *
192512178 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
192512226 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
192512274 ATCTCAT--ATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
192512320 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
192512368 ATCTCACACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
192512416 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
192512464 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
192512512 ATCTCATACATATTTC
1 ATCTCATACATATTTC
192512528 NNNNNNNNNN
Statistics
Matches: 296, Mismatches: 4, Indels: 4
0.97 0.01 0.01
Matches are distributed among these distances:
46 46 0.16
48 250 0.84
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:192522654 original size:30 final size:30
Alignment explanation
Indices: 192522618--192522715 Score: 112
Period size: 28 Copynumber: 3.4 Consensus size: 30
192522608 GACAAGATTG
* * *
192522618 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
192522648 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
192522676 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
192522705 GCACTAAGTGT
1 GCACTAAGTGT
192522716 ACGGATTCAC
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.40
29 16 0.28
30 19 0.33
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.30
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:192525621 original size:24 final size:24
Alignment explanation
Indices: 192525582--192525639 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
192525572 GGTTTTAAGG
* *
192525582 AGAT-AAAAGTGAAGAGTTACGAA
1 AGATGAAAAGTGAAGAGCTAAGAA
* *
192525605 AGATGAAAGGTGAAGAGCTAAGGA
1 AGATGAAAAGTGAAGAGCTAAGAA
192525629 AGATGAAAAGT
1 AGATGAAAAGT
192525640 AAAAAGTTGA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 4 0.14
24 25 0.86
ACGTcount: A:0.50, C:0.03, G:0.31, T:0.16
Consensus pattern (24 bp):
AGATGAAAAGTGAAGAGCTAAGAA
Found at i:192526375 original size:21 final size:21
Alignment explanation
Indices: 192526336--192526374 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
192526326 AGACTAAACT
192526336 GAAAACCTTAGAAAGTTTTGG
1 GAAAACCTTAGAAAGTTTTGG
*
192526357 GAAAA-CTTAGAAAATTTT
1 GAAAACCTTAGAAAGTTTT
192526375 TCCATGACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.44, C:0.08, G:0.18, T:0.31
Consensus pattern (21 bp):
GAAAACCTTAGAAAGTTTTGG
Found at i:192529320 original size:99 final size:99
Alignment explanation
Indices: 192529150--192529423 Score: 319
Period size: 99 Copynumber: 2.8 Consensus size: 99
192529140 AGGTGTCGAC
* * * ** *
192529150 GCCATGTCCTTGACATGGTCTTACACTGGCTCACA-CATCAAAGT--CGATGCCATGTCCTAGAC
1 GCCATGTCCTAGACATGGTCTTACACTGACTCTCATC-T-ACGGTGCCGATGCCATGTCCCAGAC
192529212 ATGGTCTTACACT-GAATCTCAAATATCGAGGCAGAT
64 ATGGTCTTACACTAG-ATCTCAAATATCGAGGCAGAT
192529248 GCCATGTCCTAGACATGGTCTTACACTGACTCTCATCTACGGTGCCGATGCCATGTCCCAGACAT
1 GCCATGTCCTAGACATGGTCTTACACTGACTCTCATCTACGGTGCCGATGCCATGTCCCAGACAT
* * * *
192529313 GGTCTTACACTAGCTCTCATATCTCGAGGCCGAT
66 GGTCTTACACTAGATCTCAAATATCGAGGCAGAT
* * *
192529347 ACCATGTCCCAGACATGGTCTTACACT-AGCTCTCATATCT-CGAG-GCCGATGCCATATCCCAG
1 GCCATGTCCTAGACATGGTCTTACACTGA-CTCTC--ATCTACG-GTGCCGATGCCATGTCCCAG
192529409 ACATGGTCTTACACT
62 ACATGGTCTTACACT
192529424 CGCTCTCATA
Statistics
Matches: 155, Mismatches: 13, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
97 3 0.02
98 34 0.22
99 78 0.50
100 35 0.23
101 5 0.03
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (99 bp):
GCCATGTCCTAGACATGGTCTTACACTGACTCTCATCTACGGTGCCGATGCCATGTCCCAGACAT
GGTCTTACACTAGATCTCAAATATCGAGGCAGAT
Done.