Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 262 of 373
Found at i:89006059 original size:13 final size:13
Alignment explanation
Indices: 89006041--89006079 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
89006031 TATTTTATTA
89006041 ATATTTTAATAAT
1 ATATTTTAATAAT
*
89006054 ATATTTT-ATTA-
1 ATATTTTAATAAT
89006065 ATATTTTAATAAT
1 ATATTTTAATAAT
89006078 AT
1 AT
89006080 TTTATTAGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
11 7 0.32
12 6 0.27
13 9 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
ATATTTTAATAAT
Found at i:89007995 original size:46 final size:46
Alignment explanation
Indices: 89007933--89008243 Score: 401
Period size: 46 Copynumber: 6.7 Consensus size: 46
89007923 ATGAAATATG
* * * * **
89007933 TAAGACCATGGCTGAAAGATGCCATGTCAACATGATATGAAATGTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAA
* *
89007979 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAA
**
89008025 TAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAA
* * *
89008071 TAAGAACATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAA
* *
89008117 TAAGACCATGGTTG-AAGATACCATGGCAACGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAA
*
89008162 TAAGACCATGGTTGAAAGATACCATATGGCAACATGACA-GAAAATGAG
1 TAAGACCATGGTTGAAAGATACC--ATGGCAACATGACATG-AAATGAA
* * * *
89008210 TAAGACCATAGTTGAAAGACACTATGGCATCATG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATG
89008244 TCAAAGATAA
Statistics
Matches: 234, Mismatches: 27, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
45 43 0.18
46 152 0.65
47 1 0.00
48 38 0.16
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAA
Found at i:89008182 original size:137 final size:139
Alignment explanation
Indices: 89007933--89008243 Score: 455
Period size: 137 Copynumber: 2.2 Consensus size: 139
89007923 ATGAAATATG
* * * * **
89007933 TAAGACCATGGCTGAAAGATGCCATGTCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATAAGACCATGGTTGAAAGA
*
89007998 TACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGATACC-ATGGCAACATGACG
66 TACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCAATGGCAACATGACA
*
89008062 GGAAATGAA
131 GAAAATGAA
* * *
89008071 TAAGAACATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGAATAAGACCATGGTTG-AAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATAAGACCATGGTTGAAAGA
89008135 TACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATATGGCAACATGAC
66 TACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCA-ATGGCAACATGAC
*
89008200 AGAAAATGAG
130 AGAAAATGAA
* * * *
89008210 TAAGACCATAGTTGAAAGACACTATGGCATCATG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATG
89008244 TCAAAGATAA
Statistics
Matches: 153, Mismatches: 18, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
137 54 0.35
138 51 0.33
139 48 0.31
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (139 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATAAGACCATGGTTGAAAGA
TACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCAATGGCAACATGACA
GAAAATGAA
Found at i:89009574 original size:37 final size:36
Alignment explanation
Indices: 89009525--89009599 Score: 132
Period size: 37 Copynumber: 2.1 Consensus size: 36
89009515 GGTAATAAAA
89009525 TTAAAAAAACTAAATAAAATTAACTCACTGCTCATT
1 TTAAAAAAACTAAATAAAATTAACTCACTGCTCATT
*
89009561 TTAAAAGAAACTAAATAAAATTAACTCCCTGCTCATT
1 TTAAAA-AAACTAAATAAAATTAACTCACTGCTCATT
89009598 TT
1 TT
89009600 GGGGTAACTT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 6 0.16
37 31 0.84
ACGTcount: A:0.47, C:0.17, G:0.04, T:0.32
Consensus pattern (36 bp):
TTAAAAAAACTAAATAAAATTAACTCACTGCTCATT
Found at i:89010619 original size:27 final size:27
Alignment explanation
Indices: 89010589--89010648 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
89010579 GACATCCTCA
* *
89010589 TGTTTACTCTC-CTGATGGACTACCCCG
1 TGTTTACTCTCTC-GACGAACTACCCCG
*
89010616 TGTTTACTGTCTCGACGAACTACCCCG
1 TGTTTACTCTCTCGACGAACTACCCCG
89010643 TGTTTA
1 TGTTTA
89010649 TTGTCTTGGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 28 0.97
28 1 0.03
ACGTcount: A:0.17, C:0.30, G:0.18, T:0.35
Consensus pattern (27 bp):
TGTTTACTCTCTCGACGAACTACCCCG
Found at i:89014657 original size:20 final size:20
Alignment explanation
Indices: 89014606--89014661 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
89014596 TAAATTGTAA
* *
89014606 TTCATTCATATAACCAGTAG
1 TTCATCCATATAAACAGTAG
* *
89014626 TTTATCCGTATAAACAGTAG
1 TTCATCCATATAAACAGTAG
*
89014646 TTCATCTATATAAACA
1 TTCATCCATATAAACA
89014662 CATATCTTAT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.36
Consensus pattern (20 bp):
TTCATCCATATAAACAGTAG
Found at i:89014859 original size:23 final size:23
Alignment explanation
Indices: 89014803--89014881 Score: 88
Period size: 23 Copynumber: 3.3 Consensus size: 23
89014793 TCGAGCCTCG
*
89014803 GTAAGCTCCTATTGAGCTGATGAATA
1 GTAAGCT-CTATTGAGCTGA--AACA
* *
89014829 GTAAGCTCTGTTGAGCTGAAACG
1 GTAAGCTCTATTGAGCTGAAACA
*
89014852 GTAAGCTCTATCGAGCTG-AACA
1 GTAAGCTCTATTGAGCTGAAACA
89014874 GTAAGCTC
1 GTAAGCTC
89014882 ATACGAGCTG
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
22 11 0.23
23 18 0.38
25 11 0.23
26 7 0.15
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (23 bp):
GTAAGCTCTATTGAGCTGAAACA
Found at i:89014880 original size:22 final size:22
Alignment explanation
Indices: 89014823--89014891 Score: 77
Period size: 22 Copynumber: 3.1 Consensus size: 22
89014813 ATTGAGCTGA
* * *
89014823 TGAATAGTAAGCTCTGTTGAGC
1 TGAACAGTAAGCTCTATCGAGC
*
89014845 TGAAACGGTAAGCTCTATCGAGC
1 TG-AACAGTAAGCTCTATCGAGC
89014868 TGAACAGTAAGCTC-ATACGAGC
1 TGAACAGTAAGCTCTAT-CGAGC
89014890 TG
1 TG
89014892 TGATAAGTCT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
21 2 0.05
22 20 0.50
23 18 0.45
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (22 bp):
TGAACAGTAAGCTCTATCGAGC
Found at i:89016393 original size:21 final size:22
Alignment explanation
Indices: 89016349--89016395 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
89016339 AATTTTCTTG
89016349 TTCACCCCAAAAGGAAATTTTT
1 TTCACCCCAAAAGGAAATTTTT
89016371 TTCACCCCAAAAGGAAATTTTT
1 TTCACCCCAAAAGGAAATTTTT
89016393 TTC
1 TTC
89016396 TAGTTCTATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.34, C:0.23, G:0.09, T:0.34
Consensus pattern (22 bp):
TTCACCCCAAAAGGAAATTTTT
Found at i:89020331 original size:3 final size:3
Alignment explanation
Indices: 89020323--89020360 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
89020313 CTACAAAAGC
89020323 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
89020361 ATTTTGCCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:89022717 original size:40 final size:40
Alignment explanation
Indices: 89022662--89022808 Score: 276
Period size: 40 Copynumber: 3.7 Consensus size: 40
89022652 AGCATTGGAT
89022662 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
89022702 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
89022742 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
89022782 TATGTCCGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAA
89022809 ATGTGTTTGC
Statistics
Matches: 105, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 105 1.00
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Found at i:89031102 original size:40 final size:40
Alignment explanation
Indices: 89031037--89031302 Score: 491
Period size: 40 Copynumber: 6.7 Consensus size: 40
89031027 GGATTATATC
89031037 GGCTAAGA-CCGAAGGC-ATTATGCGAGTTGATATATCCG
1 GGCTAAGACCCGAAGGCAATTATGCGAGTTGATATATCCG
89031075 GGCTAAGACCCGAAGGCAATTATGCGAGTTGATATATCCG
1 GGCTAAGACCCGAAGGCAATTATGCGAGTTGATATATCCG
89031115 GGCTAAGACCCGAAGGCAATTATGCGAGTTGATATATCCG
1 GGCTAAGACCCGAAGGCAATTATGCGAGTTGATATATCCG
89031155 GGCTAAGACCCGAAGGCAATTATGCGAGTTGATATATCCG
1 GGCTAAGACCCGAAGGCAATTATGCGAGTTGATATATCCG
*
89031195 GGCTAAGACCCGAAGGCAATTATGCGAGATGATATATCCG
1 GGCTAAGACCCGAAGGCAATTATGCGAGTTGATATATCCG
*
89031235 GGCTAAGACCCGAAGGTAATTATGCGAGTTGATATATCCG
1 GGCTAAGACCCGAAGGCAATTATGCGAGTTGATATATCCG
*
89031275 GGCTATGACCCGAAGGCAATTATGCGAG
1 GGCTAAGACCCGAAGGCAATTATGCGAG
89031303 ATGAGGCAAT
Statistics
Matches: 221, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
38 8 0.04
39 8 0.04
40 205 0.93
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (40 bp):
GGCTAAGACCCGAAGGCAATTATGCGAGTTGATATATCCG
Found at i:89031365 original size:40 final size:40
Alignment explanation
Indices: 89031306--89031471 Score: 287
Period size: 40 Copynumber: 4.2 Consensus size: 40
89031296 ATGCGAGATG
89031306 AGGCAATTATGCGAGTTGATATATCCGGGCTAAGACCCGA
1 AGGCAATTATGCGAGTTGATATATCCGGGCTAAGACCCGA
* *
89031346 AGGTAATTATGCGAGTTGATATATCCGGGCTATGACCCGA
1 AGGCAATTATGCGAGTTGATATATCCGGGCTAAGACCCGA
*
89031386 AGGCAATTATGCGAGATGATATATCCGGGCTAAGACCCGA
1 AGGCAATTATGCGAGTTGATATATCCGGGCTAAGACCCGA
* *
89031426 AGGCAATTATGCGAGTTGATATGTCCGGGTTAAGACCCGA
1 AGGCAATTATGCGAGTTGATATATCCGGGCTAAGACCCGA
89031466 AGGCAA
1 AGGCAA
89031472 ATGTGTTTGC
Statistics
Matches: 118, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 118 1.00
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (40 bp):
AGGCAATTATGCGAGTTGATATATCCGGGCTAAGACCCGA
Found at i:89031377 original size:98 final size:98
Alignment explanation
Indices: 89031208--89031404 Score: 385
Period size: 98 Copynumber: 2.0 Consensus size: 98
89031198 TAAGACCCGA
89031208 AGGCAATTATGCGAGATGATATATCCGGGCTAAGACCCGAAGGTAATTATGCGAGTTGATATATC
1 AGGCAATTATGCGAGATGATATATCCGGGCTAAGACCCGAAGGTAATTATGCGAGTTGATATATC
89031273 CGGGCTATGACCCGAAGGCAATTATGCGAGATG
66 CGGGCTATGACCCGAAGGCAATTATGCGAGATG
*
89031306 AGGCAATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGTAATTATGCGAGTTGATATATC
1 AGGCAATTATGCGAGATGATATATCCGGGCTAAGACCCGAAGGTAATTATGCGAGTTGATATATC
89031371 CGGGCTATGACCCGAAGGCAATTATGCGAGATG
66 CGGGCTATGACCCGAAGGCAATTATGCGAGATG
89031404 A
1 A
89031405 TATATCCGGG
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 98 1.00
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.24
Consensus pattern (98 bp):
AGGCAATTATGCGAGATGATATATCCGGGCTAAGACCCGAAGGTAATTATGCGAGTTGATATATC
CGGGCTATGACCCGAAGGCAATTATGCGAGATG
Found at i:89031416 original size:138 final size:138
Alignment explanation
Indices: 89031168--89031440 Score: 492
Period size: 138 Copynumber: 2.0 Consensus size: 138
89031158 TAAGACCCGA
89031168 AGGCAATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGATATATC
1 AGGCAATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGATATATC
* * *
89031233 CGGGCTAAGACCCGAAGGTAATTATGCGAGTTGATATATCCGGGCTATGACCCGAAGGCAATTAT
66 CGGGCTAAGACCCGAAGGCAATTATGCGAGATGATATATCCGGGCTAAGACCCGAAGGCAATTAT
89031298 GCGAGATG
131 GCGAGATG
* *
89031306 AGGCAATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGTAATTATGCGAGTTGATATATC
1 AGGCAATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGATATATC
*
89031371 CGGGCTATGACCCGAAGGCAATTATGCGAGATGATATATCCGGGCTAAGACCCGAAGGCAATTAT
66 CGGGCTAAGACCCGAAGGCAATTATGCGAGATGATATATCCGGGCTAAGACCCGAAGGCAATTAT
89031436 GCGAG
131 GCGAG
89031441 TTGATATGTC
Statistics
Matches: 129, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
138 129 1.00
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.23
Consensus pattern (138 bp):
AGGCAATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGATATATC
CGGGCTAAGACCCGAAGGCAATTATGCGAGATGATATATCCGGGCTAAGACCCGAAGGCAATTAT
GCGAGATG
Found at i:89031427 original size:178 final size:178
Alignment explanation
Indices: 89031128--89031471 Score: 634
Period size: 178 Copynumber: 1.9 Consensus size: 178
89031118 TAAGACCCGA
89031128 AGGCAATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGATATATC
1 AGGCAATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGATATATC
*
89031193 CGGGCTAAGACCCGAAGGCAATTATGCGAGATGATATATCCGGGCTAAGACCCGAAGGTAATTAT
66 CGGGCTAAGACCCGAAGGCAATTATGCGAGATGATATATCCGGGCTAAGACCCGAAGGCAATTAT
*
89031258 GCGAGTTGATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
131 GCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
*
89031306 AGGCAATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGTAATTATGCGAGTTGATATATC
1 AGGCAATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGATATATC
*
89031371 CGGGCTATGACCCGAAGGCAATTATGCGAGATGATATATCCGGGCTAAGACCCGAAGGCAATTAT
66 CGGGCTAAGACCCGAAGGCAATTATGCGAGATGATATATCCGGGCTAAGACCCGAAGGCAATTAT
* *
89031436 GCGAGTTGATATGTCCGGGTTAAGACCCGAAGGCAA
131 GCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAA
89031472 ATGTGTTTGC
Statistics
Matches: 160, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
178 160 1.00
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (178 bp):
AGGCAATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGATATATC
CGGGCTAAGACCCGAAGGCAATTATGCGAGATGATATATCCGGGCTAAGACCCGAAGGCAATTAT
GCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
Found at i:89032899 original size:25 final size:25
Alignment explanation
Indices: 89032865--89032915 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
89032855 TTTAACTTAG
89032865 TTCATTTTCATCATGCTTACAATAT
1 TTCATTTTCATCATGCTTACAATAT
89032890 TTCATTTTCATCATGCTTACAATAT
1 TTCATTTTCATCATGCTTACAATAT
89032915 T
1 T
89032916 CCGAAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.20, G:0.04, T:0.49
Consensus pattern (25 bp):
TTCATTTTCATCATGCTTACAATAT
Found at i:89039040 original size:5 final size:5
Alignment explanation
Indices: 89039030--89039084 Score: 51
Period size: 5 Copynumber: 11.0 Consensus size: 5
89039020 TAGGAAGATA
* * *
89039030 TTATT TTATTT TTATTT TTACT TTA-T TTATT TTATT TTA-T TTCTT TTAAT
1 TTATT TTA-TT TTA-TT TTATT TTATT TTATT TTATT TTATT TTATT TTATT
89039080 TTATT
1 TTATT
89039085 AAATTAGTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
4 7 0.17
5 24 0.57
6 11 0.26
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (5 bp):
TTATT
Found at i:89039062 original size:14 final size:14
Alignment explanation
Indices: 89039040--89039084 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
89039030 TTATTTTATT
*
89039040 TTTATTTTTACTTTA
1 TTTA-TTTTAATTTA
*
89039055 TTTATTTTATTTTA
1 TTTATTTTAATTTA
*
89039069 TTTCTTTTAATTTA
1 TTTATTTTAATTTA
89039083 TT
1 TT
89039085 AAATTAGTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 23 0.85
15 4 0.15
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTATTTTAATTTA
Found at i:89039077 original size:19 final size:19
Alignment explanation
Indices: 89039033--89039084 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 19
89039023 GAAGATATTA
89039033 TTTTATTTTTATTTTTACTTT
1 TTTTA-TTTTA-TTTTACTTT
*
89039054 ATTTATTTTATTTTA-TTT
1 TTTTATTTTATTTTACTTT
*
89039072 CTTTTAATTTATT
1 -TTTTATTTTATT
89039085 AAATTAGTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 3 0.11
19 15 0.56
20 5 0.19
21 4 0.15
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTTATTTTATTTTACTTT
Found at i:89039594 original size:3 final size:3
Alignment explanation
Indices: 89039586--89039754 Score: 110
Period size: 3 Copynumber: 56.7 Consensus size: 3
89039576 AGTTTTATAT
* * * * *
89039586 TTA TTA TTA TTT TTA GTA TTA TTA TT- TCTG TTA TTA TTG TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
* * ** * *
89039631 CTTA TTA GTA TTG TTA TTA TTA TTA TTA CCA CTA TTA CTA TTA TTA
1 -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
89039677 TT- TTA TCA CTA TTG TCA TTA TTA -TA GTA TTA TTA GTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
89039723 CTA TTA TTC TTA TTA TCA TTA TTT TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
89039755 TTTTTAAACC
Statistics
Matches: 123, Mismatches: 38, Indels: 10
0.72 0.22 0.06
Matches are distributed among these distances:
2 5 0.04
3 115 0.93
4 3 0.02
ACGTcount: A:0.28, C:0.08, G:0.05, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:89039644 original size:19 final size:18
Alignment explanation
Indices: 89039620--89039655 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
89039610 TTTCTGTTAT
89039620 TATTGTTACTACTTATTAG
1 TATTGTTACTA-TTATTAG
*
89039639 TATTGTTATTATTATTA
1 TATTGTTACTATTATTA
89039656 TTACCACTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.28, C:0.06, G:0.08, T:0.58
Consensus pattern (18 bp):
TATTGTTACTATTATTAG
Found at i:89039870 original size:21 final size:20
Alignment explanation
Indices: 89039846--89039887 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
89039836 ATTTCCTTTG
89039846 TTATTTCATTAATTATTTTAT
1 TTATTTCATT-ATTATTTTAT
*
89039867 TTATTTCATTTTTATTTTAT
1 TTATTTCATTATTATTTTAT
89039887 T
1 T
89039888 CTTGTCCTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (20 bp):
TTATTTCATTATTATTTTAT
Found at i:89039920 original size:15 final size:14
Alignment explanation
Indices: 89039892--89039930 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
89039882 TTTATTCTTG
89039892 TCCTCATTATTATTA
1 TCCT-ATTATTATTA
*
89039907 TCTTATTATATATTA
1 TCCTATTAT-TATTA
89039922 TCCTATTAT
1 TCCTATTAT
89039931 GTAGGTATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.28, C:0.15, G:0.00, T:0.56
Consensus pattern (14 bp):
TCCTATTATTATTA
Found at i:89046567 original size:45 final size:45
Alignment explanation
Indices: 89046475--89046581 Score: 103
Period size: 45 Copynumber: 2.4 Consensus size: 45
89046465 GAAGCAGGCG
* * * *
89046475 AGATTGTAG-TCTTATCTTCTTGAGGTAACAAGTAAGTAGATTAA
1 AGATTGTAGATCTTATCTCCTTGAGATAACAAGTAAGCAGATCAA
* * *
89046519 AGATTGTAGATCTTATCTCCTTGAGATAGC-AGTGGAGCAGATCGA
1 AGATTGTAGATCTTATCTCCTTGAGATAACAAGT-AAGCAGATCAA
*
89046564 AGATGGT-GAATCTTATCT
1 AGATTGTAG-ATCTTATCT
89046582 TTTCGAAGTT
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
44 13 0.25
45 39 0.75
ACGTcount: A:0.31, C:0.12, G:0.23, T:0.34
Consensus pattern (45 bp):
AGATTGTAGATCTTATCTCCTTGAGATAACAAGTAAGCAGATCAA
Found at i:89046830 original size:173 final size:173
Alignment explanation
Indices: 89046352--89046842 Score: 553
Period size: 174 Copynumber: 2.8 Consensus size: 173
89046342 GTGAATTCAC
* * * * *
89046352 AGATCTTATCTCCATGAGGTAGCAATGGAGCAGATCAAAGACGATGAATCTTATC-TCCTTGAAT
1 AGATCTTATCTCCCTGAGATAGC-ATGGAGCAGATCAAAGATGGTGAATCTTATCTTCC-CGAAT
* * *
89046416 AGCAGGGGAACAGATTTTAGCTACCAGCCTTAT-TCCTTGAGGTAGCAAGGAAGCAGGCGAGATT
64 AGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCCTTGAGGTAGCAAGG-AGCAGGCAAGATT
* ** * * *
89046480 GTAGTCTTATCTTCTTGAGGTAACAAGTAAGTAGATTAAAGATTGT
128 GTATTCTTATCTTCCAGAGGTAACAAGGAAGCAGACTAAAGATTGT
* * **
89046526 AGATCTTATCTCCTTGAGATAGCAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTTTCGAAGT
1 AGATCTTATCTCCCTGAGATAGCA-TGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCGAA-T
* ** * * * *
89046591 TGCAAAGAAGCAGATTTTAGCCA-CAGTCTTATCTCCCTGAGGTAGCAAGAGAGTAGGCCGAAGA
64 AGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCCTTGAGGTAGCAAG-GAGCAGG-C-AAGA
* *
89046655 TTGT-TTCTTATCTTCCAGAGGTAGCAAGGAAGCAGACT-GAGATTGT
126 TTGTATTCTTATCTTCCAGAGGTAACAAGGAAGCAGACTAAAGATTGT
* *
89046701 AGATCTTATGTCCCTGA-ATAGTATGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCGAGATA
1 AGATCTTATCTCCCTGAGATAGCATGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCGA-ATA
* *
89046765 GCAGGGGAGTAGATTTAAGCCACCAGCCTTATCTCCTTGAGGTAGCAAGGAGCAGGCTAAAGATT
65 GCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCCTTGAGGTAGCAAGGAGCAGGC--AAGATT
89046830 GTATATCTTATCT
128 GTAT-TCTTATCT
89046843 CCCTAAGATA
Statistics
Matches: 263, Mismatches: 42, Indels: 23
0.80 0.13 0.07
Matches are distributed among these distances:
172 1 0.00
173 67 0.25
174 90 0.34
175 69 0.26
176 29 0.11
177 7 0.03
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (173 bp):
AGATCTTATCTCCCTGAGATAGCATGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCGAATAG
CAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCCTTGAGGTAGCAAGGAGCAGGCAAGATTGTA
TTCTTATCTTCCAGAGGTAACAAGGAAGCAGACTAAAGATTGT
Found at i:89046929 original size:132 final size:129
Alignment explanation
Indices: 89046672--89046973 Score: 356
Period size: 132 Copynumber: 2.3 Consensus size: 129
89046662 TTATCTTCCA
* * * * *
89046672 GAGGTAGCAAGGAAGCAGACTGAGATTGTAGATCTTATGTCCCTGAATAGTATGGAGCAGATCAA
1 GAGGTAGCAAGG-AGCAGGCTAAGATTGTA-ATCTTATCTCCCTAAATAGCATGGAGCAGATCAA
* *** **
89046737 AGATGGTGAATCTTATCTTCCCGAGATAGCAGGGGAGTAGATTTAAGCCACCAGCCTTATCTCCT
64 AGACGACAAATCTTATCTTCCCGAGATAGCAGGGGAACAGATTTAAGCCACCAGCCTTATCTCCT
*
89046802 T
129 G
89046803 GAGGTAGCAAGGAGCAGGCTAAAGATTGTATATCTTATCTCCCTAAGATAGCAGTGGAGCAGATC
1 GAGGTAGCAAGGAGCAGGCT-AAGATTGTA-ATCTTATCTCCCTAA-ATAGCA-TGGAGCAGATC
* ***
89046868 GAAGACGACAAATCTTAT-TTTTTGAGATAGCAGGGGAACAGATTTAAGCCACCAGCCTTATCTC
62 AAAGACGACAAATCTTATCTTCCCGAGATAGCAGGGGAACAGATTTAAGCCACCAGCCTTATCTC
89046932 CTG
127 CTG
* *
89046935 GAGGTAGCAAAGGAGTAGG-TGAAGATTGTAATTTTATCT
1 GAGGTAGC-AAGGAGCAGGCT-AAGATTGTAATCTTATCT
89046974 TCCCGAGGAA
Statistics
Matches: 147, Mismatches: 20, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
130 7 0.05
131 41 0.28
132 66 0.45
133 33 0.22
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (129 bp):
GAGGTAGCAAGGAGCAGGCTAAGATTGTAATCTTATCTCCCTAAATAGCATGGAGCAGATCAAAG
ACGACAAATCTTATCTTCCCGAGATAGCAGGGGAACAGATTTAAGCCACCAGCCTTATCTCCTG
Found at i:89047001 original size:87 final size:88
Alignment explanation
Indices: 89046901--89047062 Score: 256
Period size: 87 Copynumber: 1.9 Consensus size: 88
89046891 GAGATAGCAG
** *
89046901 GGGAACAGATTTAAGCCACCAGCCTTATCTCCTGGAGGTAGCAAAGGAGTAG-GTGAAGATTGTA
1 GGGAACAGATTTAAGCCACCAGCCTTATCTCCTGGAGGTAGCAAAGGAACAGACTGAAGATTGTA
*
89046965 -ATTTTATCTTCCCGAGGAAGTA
66 GATCTTATCTTCCCGAGGAAGTA
*
89046987 GGGAAGCAGATTTAAGCCACCAGCCTTATCTCCTTGAGGTAGCAAAGGAACAGACTGAAGATTGT
1 GGGAA-CAGATTTAAGCCACCAGCCTTATCTCCTGGAGGTAGCAAAGGAACAGACTGAAGATTGT
89047052 AGATCTTATCT
65 AGATCTTATCT
89047063 CCTTGAGATA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
86 5 0.07
87 44 0.65
88 11 0.16
89 8 0.12
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (88 bp):
GGGAACAGATTTAAGCCACCAGCCTTATCTCCTGGAGGTAGCAAAGGAACAGACTGAAGATTGTA
GATCTTATCTTCCCGAGGAAGTA
Found at i:89047060 original size:132 final size:129
Alignment explanation
Indices: 89046924--89047193 Score: 283
Period size: 132 Copynumber: 2.1 Consensus size: 129
89046914 AGCCACCAGC
* * * * **** * * *
89046924 CTTATCTCCTGGAGGTAGCAAAGGAGTAGGT-GAAGATTGTAATTTTATCTTCCCGAGGAAGTAG
1 CTTATCTCCTGGAGATAGCAAAGGAGCAGATCAAAGACACAAATCTTAT-TTCCCAAGGAAGCAG
*
89046988 G-GAAGCAGATTTAAGCCACCAGCCTTATCTCCTTGAGGTAGCAAAGGAACAGACTGAAGATTGT
65 GAG-AGCAGATTT-AGCCACAAGCCTTATCTCCTTGAGGTAGC-AAGGAACAGACTG-AGATTGT
89047052 AGAT
126 AGAT
* * ** * *
89047056 CTTATCTCCTTGAGATAGTAGTGGAGCAGATCAAAGACACAAATCTTATTTCTCAAGGTAGCAGG
1 CTTATCTCCTGGAGATAGCAAAGGAGCAGATCAAAGACACAAATCTTATTTCCCAAGGAAGCAGG
* * * *
89047121 AGAGCATATTTAGCCACAAGCCTTATCTCCTTGAGGTAGCAAGGAGCAGGCTGAGATTGTAGGT
66 AGAGCAGATTTAGCCACAAGCCTTATCTCCTTGAGGTAGCAAGGAACAGACTGAGATTGTAGAT
89047185 CTTATCTCC
1 CTTATCTCC
89047194 CTAAAGTAGC
Statistics
Matches: 114, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
129 19 0.17
130 11 0.10
131 28 0.25
132 44 0.39
133 12 0.11
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.27
Consensus pattern (129 bp):
CTTATCTCCTGGAGATAGCAAAGGAGCAGATCAAAGACACAAATCTTATTTCCCAAGGAAGCAGG
AGAGCAGATTTAGCCACAAGCCTTATCTCCTTGAGGTAGCAAGGAACAGACTGAGATTGTAGAT
Found at i:89047379 original size:46 final size:45
Alignment explanation
Indices: 89047271--89047385 Score: 131
Period size: 45 Copynumber: 2.5 Consensus size: 45
89047261 AAGTCACCAG
* * * *
89047271 TCTTATTTCCTTGAAGTTGTAGCGGAGTAGACTGAAGATAATAGG
1 TCTTATCTCCTTGAAGTTGTAGCGGAGCAGACTGAAGATAACAGA
* * * * *
89047316 TTTTATCTCCCTAAAGTTGTAGTGGAGCAGACTGAAAGATAGCAGA
1 TCTTATCTCCTTGAAGTTGTAGCGGAGCAGACTG-AAGATAACAGA
*
89047362 TCTTATCTCCTTGAAGTTGCAGCG
1 TCTTATCTCCTTGAAGTTGTAGCG
89047386 AAATAGATCG
Statistics
Matches: 55, Mismatches: 14, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
45 28 0.51
46 27 0.49
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (45 bp):
TCTTATCTCCTTGAAGTTGTAGCGGAGCAGACTGAAGATAACAGA
Found at i:89047486 original size:42 final size:43
Alignment explanation
Indices: 89047421--89047503 Score: 98
Period size: 42 Copynumber: 2.0 Consensus size: 43
89047411 CTTCTGAGTT
** * *
89047421 GCAGTAGAGCAGGTTGAAGTAGCA-AGTCTTATC-TCCTGAAGG
1 GCAGTAGAGCAGACTGAAATAGCAGA-TCATATCTTCCTGAAGG
*
89047463 GCAGTGGAGCAGACTGAAATAGCAGATCATATCTTCCTGAA
1 GCAGTAGAGCAGACTGAAATAGCAGATCATATCTTCCTGAA
89047504 TACAGCGGAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
42 26 0.76
43 8 0.24
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23
Consensus pattern (43 bp):
GCAGTAGAGCAGACTGAAATAGCAGATCATATCTTCCTGAAGG
Found at i:89049505 original size:5 final size:5
Alignment explanation
Indices: 89049495--89049524 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
89049485 TAGGAAGATA
*
89049495 TTATT TTATT TTATT TTATT TTAAT TTATT
1 TTATT TTATT TTATT TTATT TTATT TTATT
89049525 AAATTAGCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
TTATT
Found at i:89050025 original size:3 final size:3
Alignment explanation
Indices: 89050017--89050152 Score: 105
Period size: 3 Copynumber: 46.0 Consensus size: 3
89050007 AGTTTTATAT
* * * * * * * *
89050017 TTA TTA TTA TTT TTA GTA TTA TTA TTT TTG TTA TTA CTG TTA CTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
89050065 CTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TCA CTA CTG TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
89050112 TTA TTA -TA GTA TTA TTA GTA TTA TTA TTA CTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
89050153 CTATAATTTT
Statistics
Matches: 105, Mismatches: 26, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
2 4 0.04
3 101 0.96
ACGTcount: A:0.29, C:0.07, G:0.04, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:89050252 original size:25 final size:25
Alignment explanation
Indices: 89050222--89050272 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
89050212 TCACTTTCAA
89050222 TTTAAATTAAATTCTCGCTAGAATT
1 TTTAAATTAAATTCTCGCTAGAATT
89050247 TTTAAATTAAATTCTCGCTAGAATT
1 TTTAAATTAAATTCTCGCTAGAATT
89050272 T
1 T
89050273 CCTTTGTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.45
Consensus pattern (25 bp):
TTTAAATTAAATTCTCGCTAGAATT
Found at i:89050301 original size:5 final size:5
Alignment explanation
Indices: 89050291--89050315 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
89050281 ATTTCATTAA
89050291 TTATT TTATT TTATT TTATT TTATT
1 TTATT TTATT TTATT TTATT TTATT
89050316 CTTGTCCTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:89050348 original size:15 final size:14
Alignment explanation
Indices: 89050320--89050358 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
89050310 TTTATTCTTG
89050320 TCCTCATTATTATTA
1 TCCT-ATTATTATTA
*
89050335 TCTTATTATATATTA
1 TCCTATTAT-TATTA
89050350 TCCTATTAT
1 TCCTATTAT
89050359 GTAGCTATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.28, C:0.15, G:0.00, T:0.56
Consensus pattern (14 bp):
TCCTATTATTATTA
Found at i:89061314 original size:26 final size:26
Alignment explanation
Indices: 89061278--89061329 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
89061268 TTTAACTTAG
89061278 TTCATTTTCATCATGCTTACAATATT
1 TTCATTTTCATCATGCTTACAATATT
89061304 TTCATTTTCATCATGCTTACAATATT
1 TTCATTTTCATCATGCTTACAATATT
89061330 CCGAAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.19, G:0.04, T:0.50
Consensus pattern (26 bp):
TTCATTTTCATCATGCTTACAATATT
Found at i:89067458 original size:5 final size:5
Alignment explanation
Indices: 89067448--89067503 Score: 60
Period size: 5 Copynumber: 11.0 Consensus size: 5
89067438 TAGGAAGATA
* * *
89067448 TTATT TTATTT TTATTT TTACT TTA-T TTATT TTATT TTATT TTCTT TTAAT
1 TTATT TTA-TT TTA-TT TTATT TTATT TTATT TTATT TTATT TTATT TTATT
89067499 TTATT
1 TTATT
89067504 AAATTAGTTA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 11 0.25
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.77
Consensus pattern (5 bp):
TTATT
Found at i:89067500 original size:25 final size:25
Alignment explanation
Indices: 89067448--89067503 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 25
89067438 TAGGAAGATA
89067448 TTATTTTATTTTTATTTTTACTTTAT
1 TTATTTTATTTTTATTTTTA-TTTAT
89067474 TTATTTTA-TTTTATTTTCT-TTTAAT
1 TTATTTTATTTTTATTTT-TATTT-AT
89067499 TTATT
1 TTATT
89067504 AAATTAGTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
24 3 0.11
25 16 0.57
26 9 0.32
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.77
Consensus pattern (25 bp):
TTATTTTATTTTTATTTTTATTTAT
Found at i:89068013 original size:3 final size:3
Alignment explanation
Indices: 89068005--89068173 Score: 110
Period size: 3 Copynumber: 56.7 Consensus size: 3
89067995 AGTTTTATAT
* * * * *
89068005 TTA TTA TTA TTT TTA GTA TTA TTA TT- TCTG TTA TTA TTG TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
* * ** * *
89068050 CTTA TTA GTA TTG TTA TTA TTA TTA TTA CCA CTA TTA CTA TTA TTA
1 -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
89068096 TT- TTA TCA CTA TTG TCA TTA TTA -TA GTA TTA TTA GTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
89068142 CTA TTA TTC TTA TTA TCA TTA TTT TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
89068174 TTTTTTAAAC
Statistics
Matches: 123, Mismatches: 38, Indels: 10
0.72 0.22 0.06
Matches are distributed among these distances:
2 5 0.04
3 115 0.93
4 3 0.02
ACGTcount: A:0.28, C:0.08, G:0.05, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:89068063 original size:19 final size:18
Alignment explanation
Indices: 89068039--89068074 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
89068029 TTTCTGTTAT
89068039 TATTGTTACTACTTATTAG
1 TATTGTTACTA-TTATTAG
*
89068058 TATTGTTATTATTATTA
1 TATTGTTACTATTATTA
89068075 TTACCACTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.28, C:0.06, G:0.08, T:0.58
Consensus pattern (18 bp):
TATTGTTACTATTATTAG
Found at i:89068290 original size:21 final size:20
Alignment explanation
Indices: 89068266--89068307 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
89068256 ATTTCCTTTG
89068266 TTATTTCATTAATTATTTTAT
1 TTATTTCATT-ATTATTTTAT
*
89068287 TTATTTCATTTTTATTTTAT
1 TTATTTCATTATTATTTTAT
89068307 T
1 T
89068308 CTTGTCCTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (20 bp):
TTATTTCATTATTATTTTAT
Found at i:89068340 original size:15 final size:14
Alignment explanation
Indices: 89068312--89068350 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
89068302 TTTATTCTTG
89068312 TCCTCATTATTATTA
1 TCCT-ATTATTATTA
*
89068327 TCTTATTATATATTA
1 TCCTATTAT-TATTA
89068342 TCCTATTAT
1 TCCTATTAT
89068351 GTAGGTATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.28, C:0.15, G:0.00, T:0.56
Consensus pattern (14 bp):
TCCTATTATTATTA
Found at i:89075055 original size:43 final size:45
Alignment explanation
Indices: 89075008--89075115 Score: 121
Period size: 43 Copynumber: 2.4 Consensus size: 45
89074998 AGCTACCAGC
**
89075008 CTTATCTCCTTGAGGTAGCAAGGAAGCAG-GCCGAGATTGTAG-T
1 CTTATCTCCTTGAGGTAGCAAGGAAGCAGAGCAAAGATTGTAGAT
* * * * **
89075051 CTTATCTTCTTGAGGTAACAAGTAAGTAGATTAAAGATTGTAGAT
1 CTTATCTCCTTGAGGTAGCAAGGAAGCAGAGCAAAGATTGTAGAT
*
89075096 CTTATCTCCTTGAGATAGCA
1 CTTATCTCCTTGAGGTAGCA
89075116 GTGGAGCAGA
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
43 25 0.48
44 9 0.17
45 18 0.35
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (45 bp):
CTTATCTCCTTGAGGTAGCAAGGAAGCAGAGCAAAGATTGTAGAT
Found at i:89075133 original size:45 final size:45
Alignment explanation
Indices: 89075008--89075444 Score: 116
Period size: 45 Copynumber: 9.8 Consensus size: 45
89074998 AGCTACCAGC
* * **
89075008 CTTATCTCCTTGAGGTAGCAAG-GAAGCAGGCCG-AGATTGTAG-T
1 CTTATCTCCTTGAGATAGC-AGTGGAGCAGATCGAAGATTGTAGAT
* * * * * **
89075051 CTTATCTTCTTGAGGTAACAAGT-AAGTAGATTAAAGATTGTAGAT
1 CTTATCTCCTTGAGATAGC-AGTGGAGCAGATCGAAGATTGTAGAT
*
89075096 CTTATCTCCTTGAGATAGCAGTGGAGCAGATCGAAGATGGT-GAAT
1 CTTATCTCCTTGAGATAGCAGTGGAGCAGATCGAAGATTGTAG-AT
* * ** * *** *****
89075141 CTTATCT-TTTCGA-AGTTGCAAAGAAGCAGATTTTAGCCACCAG-T
1 CTTATCTCCTT-GAGA-TAGCAGTGGAGCAGATCGAAGATTGTAGAT
* * * * ** *
89075185 CTTATCTCCCTGAGGTAGCAAG-AGAGTAGGCCGAAGATTGTA-TT
1 CTTATCTCCTTGAGATAGC-AGTGGAGCAGATCGAAGATTGTAGAT
* * *
89075229 CTTATCTTCC-AGAGGTAGCAAG-GAAGCAGA-CTGAAGATTGTAGAT
1 CTTATC-TCCTTGAGATAGC-AGTGGAGCAGATC-GAAGATTGTAGAT
* * * * *
89075274 CTTATGTCCCTGAGATAGTAGTGGAGCAGATCAAAGATGGT-GAAT
1 CTTATCTCCTTGAGATAGCAGTGGAGCAGATCGAAGATTGTAG-AT
* * * ** ***** *
89075319 CTTATCTTCC-CGAGATAGCAGGGGAGTAGATTTAAGCCACCAG-C
1 CTTATC-TCCTTGAGATAGCAGTGGAGCAGATCGAAGATTGTAGAT
* ** * * *
89075363 CTTATCTCCTTGAGGTAGCAAAGGAGCAG-GCTAAAGATTGTATAT
1 CTTATCTCCTTGAGATAGCAGTGGAGCAGATC-GAAGATTGTAGAT
* *
89075408 CTTATCTCCCTAAGATAGCAGTGGAGCAGATCGAAGA
1 CTTATCTCCTTGAGATAGCAGTGGAGCAGATCGAAGA
89075445 CGACAAATCT
Statistics
Matches: 275, Mismatches: 94, Indels: 48
0.66 0.23 0.12
Matches are distributed among these distances:
43 29 0.11
44 98 0.36
45 141 0.51
46 7 0.03
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.27
Consensus pattern (45 bp):
CTTATCTCCTTGAGATAGCAGTGGAGCAGATCGAAGATTGTAGAT
Found at i:89075204 original size:89 final size:89
Alignment explanation
Indices: 89075095--89075391 Score: 242
Period size: 89 Copynumber: 3.3 Consensus size: 89
89075085 AGATTGTAGA
* * *
89075095 TCTTATCTCCTTGAGATAGCAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTTTCGAAGTTGC
1 TCTTATCTCCCTGAGATAGCAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTTCCGAAGTAGC
* *
89075160 AAAGAAGCAGATTTTAGCCACCAG
66 AAGGAAGCAGATTTAAGCCACCAG
* * * ** * * *
89075184 TCTTATCTCCCTGAGGTAGCAAG-AGAGTAGGCCGAAGATTGT-ATTCTTATC-TTCCAGAGGTA
1 TCTTATCTCCCTGAGATAGC-AGTGGAGCAGATCGAAGATGGTGAATCTTATCTTTCC-GAAGTA
* * *****
89075246 GCAAGGAAGCAGACTGAAGATTGTAG
64 GCAAGGAAGCAGATTTAAGCCACCAG
* * * *
89075272 ATCTTATGTCCCTGAGATAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCG-AGATA
1 -TCTTATCTCCCTGAGATAGCAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTTCCGAAG-TA
* * *
89075336 GCAGGGGAGTAGATTTAAGCCACCAG
64 GCAAGGAAGCAGATTTAAGCCACCAG
* * * **
89075362 CCTTATCTCCTTGAGGTAGCAAAGGAGCAG
1 TCTTATCTCCCTGAGATAGCAGTGGAGCAG
89075392 GCTAAAGATT
Statistics
Matches: 152, Mismatches: 49, Indels: 14
0.71 0.23 0.07
Matches are distributed among these distances:
87 3 0.02
88 31 0.20
89 86 0.57
90 29 0.19
91 3 0.02
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (89 bp):
TCTTATCTCCCTGAGATAGCAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTTCCGAAGTAGC
AAGGAAGCAGATTTAAGCCACCAG
Found at i:89075232 original size:44 final size:45
Alignment explanation
Indices: 89075184--89075287 Score: 122
Period size: 44 Copynumber: 2.3 Consensus size: 45
89075174 TAGCCACCAG
* * *
89075184 TCTTATCTCCCTGAGGTAGCAA-GAGAGTAGGCCGAAGATTGTA-T
1 TCTTATCTCCCTGAGGTAGCAAGGA-AGCAGACCGAAGATTGTAGA
* * *
89075228 TCTTATCTTCCAGAGGTAGCAAGGAAGCAGACTGAAGATTGTAGA
1 TCTTATCTCCCTGAGGTAGCAAGGAAGCAGACCGAAGATTGTAGA
*
89075273 TCTTATGTCCCTGAG
1 TCTTATCTCCCTGAG
89075288 ATAGTAGTGG
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
44 35 0.71
45 14 0.29
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (45 bp):
TCTTATCTCCCTGAGGTAGCAAGGAAGCAGACCGAAGATTGTAGA
Found at i:89075290 original size:178 final size:178
Alignment explanation
Indices: 89074916--89075414 Score: 607
Period size: 178 Copynumber: 2.8 Consensus size: 178
89074906 GTGAATTCAC
* * * * *
89074916 AGATCTTATCTCCATGAGGTAGCAATGGAGCAGATCAAAGACGATGAATCTTATCTCCTT-GAA-
1 AGATCTTATCTCCATGAGATAGCAGTGGAGCAGATCAAAGATGGTGAATCTTATCT-TTTCGAAG
*
89074979 TAGCAGGGGAA-CAGATTTTAGCTACCAGCCTTATCTCCTTGAGGTAGCAAG-GAAGCAGGCCG-
65 TAGCA-GGGAAGCAGATTTTAGCCACCAGCCTTATCTCCTTGAGGTAGCAAGAG-AGCAGGCCGA
* ** * * *
89075041 AGATTGTAGTCTTATCTTCTTGAGGTAACAAGTAAGTAGATTAAAGATTGT
128 AGATTGTATTCTTATCTTCCAGAGGTAACAAGGAAGCAGACTAAAGATTGT
* *
89075092 AGATCTTATCTCCTTGAGATAGCAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTTTCGAAGT
1 AGATCTTATCTCCATGAGATAGCAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTTTCGAAGT
* ** * * *
89075157 TGCAAAGAAGCAGATTTTAGCCACCAGTCTTATCTCCCTGAGGTAGCAAGAGAGTAGGCCGAAGA
66 AGCAGGGAAGCAGATTTTAGCCACCAGCCTTATCTCCTTGAGGTAGCAAGAGAGCAGGCCGAAGA
* *
89075222 TTGTATTCTTATCTTCCAGAGGTAGCAAGGAAGCAGACTGAAGATTGT
131 TTGTATTCTTATCTTCCAGAGGTAACAAGGAAGCAGACTAAAGATTGT
* * * **
89075270 AGATCTTATGTCCCTGAGATAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCG-AGA
1 AGATCTTATCTCCATGAGATAGCAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTTTCGAAG-
* * * **
89075334 TAGCAGGGGAGTAGATTTAAGCCACCAGCCTTATCTCCTTGAGGTAGCAA-AGGAGCAGGCTAAA
65 TAGCAGGGAAGCAGATTTTAGCCACCAGCCTTATCTCCTTGAGGTAGCAAGA-GAGCAGGCCGAA
89075398 GATTGTATATCTTATCT
129 GATTGTAT-TCTTATCT
89075415 CCCTAAGATA
Statistics
Matches: 276, Mismatches: 39, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
175 2 0.01
176 56 0.20
177 52 0.19
178 158 0.57
179 8 0.03
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (178 bp):
AGATCTTATCTCCATGAGATAGCAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTTTCGAAGT
AGCAGGGAAGCAGATTTTAGCCACCAGCCTTATCTCCTTGAGGTAGCAAGAGAGCAGGCCGAAGA
TTGTATTCTTATCTTCCAGAGGTAACAAGGAAGCAGACTAAAGATTGT
Found at i:89075378 original size:134 final size:134
Alignment explanation
Indices: 89075240--89075548 Score: 431
Period size: 134 Copynumber: 2.3 Consensus size: 134
89075230 TTATCTTCCA
* * * *
89075240 GAGGTAGC-AAGGAAGCAGACTGAAGATTGTAGATCTTATGTCCCTGAGATAGTAGTGGAGCAGA
1 GAGGTAGCAAAGG-AGCAGGCTGAAGATTGTAGATCTTATCTCCCTAAGATAGCAGTGGAGCAGA
* *** **
89075304 TCAAAGATGGTGAATCTTATCTTCCCGAGATAGCAGGGGAGTAGATTTAAGCCACCAGCCTTATC
65 TCAAAGACGACAAATCTTATCTTCCCGAGATAGCAGGGGAACAGATTTAAGCCACCAGCCTTATC
*
89075369 TCCTT
130 TCCTG
* *
89075374 GAGGTAGCAAAGGAGCAGGCTAAAGATTGTATATCTTATCTCCCTAAGATAGCAGTGGAGCAGAT
1 GAGGTAGCAAAGGAGCAGGCTGAAGATTGTAGATCTTATCTCCCTAAGATAGCAGTGGAGCAGAT
* * * *
89075439 CGAAGACGACAAATCTTATTTTTCTGAGATAGCAGGGGAACAGATTTAAGCCACCAGCCTTATCT
66 CAAAGACGACAAATCTTATCTTCCCGAGATAGCAGGGGAACAGATTTAAGCCACCAGCCTTATCT
89075504 CCTG
131 CCTG
* *
89075508 GAGGTAGCAAAGGAGTAGGCTGAAGATTGTAGATTTTATCT
1 GAGGTAGCAAAGGAGCAGGCTGAAGATTGTAGATCTTATCT
89075549 TCCCGAGGAA
Statistics
Matches: 153, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
134 149 0.97
135 4 0.03
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (134 bp):
GAGGTAGCAAAGGAGCAGGCTGAAGATTGTAGATCTTATCTCCCTAAGATAGCAGTGGAGCAGAT
CAAAGACGACAAATCTTATCTTCCCGAGATAGCAGGGGAACAGATTTAAGCCACCAGCCTTATCT
CCTG
Found at i:89075609 original size:223 final size:223
Alignment explanation
Indices: 89075317--89075771 Score: 671
Period size: 223 Copynumber: 2.0 Consensus size: 223
89075307 AAGATGGTGA
* *
89075317 ATCTTATCTTCCCGAGATAGCAGGGGAGTAGATTTAAGCCACCAGCCTTATCTCCTTGAGGTAGC
1 ATCTTATCTTCCCGAGATAGCAGGGAAGCAGATTTAAGCCACCAGCCTTATCTCCTTGAGGTAGC
* * * * *
89075382 AAAGGAGCAGGCTAAAGATTGTATATCTTATCTCCCTAAGATAGCAGTGGAGCAGATCGAAGACG
66 AAAGGAACAGACTAAAGATTGTAGATCTTATCTCCCTAAGATAGCAGTGGAGCAGATCAAAGACA
* * * *
89075447 ACAAATCTTAT-TTTTCTGAGATAGCAGGGGAACAGATTTAAGCCACCAGCCTTATCTCCTGGAG
131 ACAAATCTTATCTTCTC-AAGATAGCAGGAGAACAGATTTAAGCCACAAGCCTTATCTCCTGGAG
*
89075511 GTAGCAAAGGAGTAGGCTGAAGATTGTAG
195 GTAGCAAAGGAGCAGGCTGAAGATTGTAG
* *
89075540 ATTTTATCTTCCCGAGGA-AGTAGGGAAGCAGATTTAAGCCACCAGCCTTATCTCCTTGAGGTAG
1 ATCTTATCTTCCCGA-GATAGCAGGGAAGCAGATTTAAGCCACCAGCCTTATCTCCTTGAGGTAG
* * * *
89075604 CAAAGGAACAGACTGAAGATTGTAGATCTTATCTCCTTGAGATAGTAGTGGAGCAGATCAAAGAC
65 CAAAGGAACAGACTAAAGATTGTAGATCTTATCTCCCTAAGATAGCAGTGGAGCAGATCAAAGAC
* * * *
89075669 AACAAATCTTATCTTCTCAAGGTAGCAGGAGAGCATATTTAAGCCACAAGCCTTATCTCCTTGAG
130 AACAAATCTTATCTTCTCAAGATAGCAGGAGAACAGATTTAAGCCACAAGCCTTATCTCCTGGAG
89075734 GTAGCAAAGGAGCAGGCTGAAGATTGTAG
195 GTAGCAAAGGAGCAGGCTGAAGATTGTAG
*
89075763 GTCTTATCT
1 ATCTTATCT
89075772 CCCTAAAGTA
Statistics
Matches: 206, Mismatches: 24, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
223 200 0.97
224 6 0.03
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (223 bp):
ATCTTATCTTCCCGAGATAGCAGGGAAGCAGATTTAAGCCACCAGCCTTATCTCCTTGAGGTAGC
AAAGGAACAGACTAAAGATTGTAGATCTTATCTCCCTAAGATAGCAGTGGAGCAGATCAAAGACA
ACAAATCTTATCTTCTCAAGATAGCAGGAGAACAGATTTAAGCCACAAGCCTTATCTCCTGGAGG
TAGCAAAGGAGCAGGCTGAAGATTGTAG
Found at i:89075651 original size:89 final size:89
Alignment explanation
Indices: 89075451--89075661 Score: 277
Period size: 89 Copynumber: 2.4 Consensus size: 89
89075441 AAGACGACAA
* * *
89075451 ATCTTATTTTTCTGAGATAGCAGGGGAA-CAGATTTAAGCCACCAGCCTTATCTCCTGGAGGTAG
1 ATCTTATCTTCCTGAGATAGTA-GGGAAGCAGATTTAAGCCACCAGCCTTATCTCCTGGAGGTAG
** *
89075515 CAAAGGAGTAGGCTGAAGATTGTAG
65 CAAAGGAACAGACTGAAGATTGTAG
* * *
89075540 ATTTTATCTTCCCGAGGA-AGTAGGGAAGCAGATTTAAGCCACCAGCCTTATCTCCTTGAGGTAG
1 ATCTTATCTTCCTGA-GATAGTAGGGAAGCAGATTTAAGCCACCAGCCTTATCTCCTGGAGGTAG
89075604 CAAAGGAACAGACTGAAGATTGTAG
65 CAAAGGAACAGACTGAAGATTGTAG
89075629 ATCTTATC-TCCTTGAGATAGTAGTGG-AGCAGAT
1 ATCTTATCTTCC-TGAGATAGTAG-GGAAGCAGAT
89075662 CAAAGACAAC
Statistics
Matches: 106, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
88 10 0.09
89 92 0.87
90 4 0.04
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.27
Consensus pattern (89 bp):
ATCTTATCTTCCTGAGATAGTAGGGAAGCAGATTTAAGCCACCAGCCTTATCTCCTGGAGGTAGC
AAAGGAACAGACTGAAGATTGTAG
Found at i:89075796 original size:134 final size:134
Alignment explanation
Indices: 89075566--89075818 Score: 364
Period size: 134 Copynumber: 1.9 Consensus size: 134
89075556 GAAGTAGGGA
*
89075566 AGCAGATTTAAGCCACCAGCCTTATCTCCTTGAGGTAGCAAAGGAACAGACTGAAGATTGTAGAT
1 AGCAGATTTAAGCCACAAGCCTTATCTCCTTGAGGTAGCAAAGGAACAGACTGAAGATTGTAGAT
** * *
89075631 CTTATCTCCTTGAGATAGTAGTGGAGCAGATCAAAGACAACAAATCTTATCTTCTCAAGGTAGCA
66 CTTATCTCCTAAAGATAGCAGTAGAGCAGATCAAAGACAACAAATCTTATCTTCTCAAGGTAGCA
89075696 GGAG
131 GGAG
* * * *
89075700 AGCATATTTAAGCCACAAGCCTTATCTCCTTGAGGTAGCAAAGGAGCAGGCTGAAGATTGTAGGT
1 AGCAGATTTAAGCCACAAGCCTTATCTCCTTGAGGTAGCAAAGGAACAGACTGAAGATTGTAGAT
* * * **
89075765 CTTATCTCCCTAAAG-TAGCAGTAGAGTAGATCGAAGACGATGAATCTTATCTTC
66 CTTATCT-CCTAAAGATAGCAGTAGAGCAGATCAAAGACAACAAATCTTATCTTC
89075819 ATGTAGTGGA
Statistics
Matches: 104, Mismatches: 14, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
134 99 0.95
135 5 0.05
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (134 bp):
AGCAGATTTAAGCCACAAGCCTTATCTCCTTGAGGTAGCAAAGGAACAGACTGAAGATTGTAGAT
CTTATCTCCTAAAGATAGCAGTAGAGCAGATCAAAGACAACAAATCTTATCTTCTCAAGGTAGCA
GGAG
Found at i:89075843 original size:134 final size:134
Alignment explanation
Indices: 89075566--89075928 Score: 363
Period size: 134 Copynumber: 2.7 Consensus size: 134
89075556 GAAGTAGGGA
* *
89075566 AGCAGATTTAAGCCACCAGCCTTATCTCCTTGAGGTAGCAAAGGAACAGACTGAAGATTGTAGAT
1 AGCAGATTTAAGCCACCAGCCTTATCTCCTTGAGGTAGCAAAGGAGCAGACTGAAGATTGTAGGT
** * * * *
89075631 CTTATCT-CCTTGAGATAGTAGTGGAGCAGATCAAAGACAACAAATCTTATCTTCTCAAGGTAGC
66 CTTATCTCCCTAAAG-TAGCAGTAGAGCAGATCAAAGACAACAAATCTTATCTTCTCAAGGGAGA
89075695 AGGAG
130 AGGAG
* * *
89075700 AGCATATTTAAGCCACAAGCCTTATCTCCTTGAGGTAGCAAAGGAGCAGGCTGAAGATTGTAGGT
1 AGCAGATTTAAGCCACCAGCCTTATCTCCTTGAGGTAGCAAAGGAGCAGACTGAAGATTGTAGGT
* * * ** **
89075765 CTTATCTCCCTAAAGTAGCAGTAGAGTAGATCGAAGACGATGAATCTTATCTTCATGTAGTGGA-
66 CTTATCTCCCTAAAGTAGCAGTAGAGCAGATCAAAGACAACAAATCTTATCTTC-TCAAG-GGAG
*
89075829 AATG-G
129 AAGGAG
* * * * * * * ** * **
89075834 ATCAGATTTAAGTCACCAGTCTTATTTCCTTGAAGTTGTAGCGGAGTAGACTGAAGATAATAGGT
1 AGCAGATTTAAGCCACCAGCCTTATCTCCTTGAGGTAGCAAAGGAGCAGACTGAAGATTGTAGGT
* * * *
89075899 TTTATCTCCCTAAAGTTGTAGTGGAGCAGA
66 CTTATCTCCCTAAAGTAGCAGTAGAGCAGA
89075929 CTGAAGATAG
Statistics
Matches: 187, Mismatches: 39, Indels: 6
0.81 0.17 0.03
Matches are distributed among these distances:
134 175 0.94
135 10 0.05
136 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (134 bp):
AGCAGATTTAAGCCACCAGCCTTATCTCCTTGAGGTAGCAAAGGAGCAGACTGAAGATTGTAGGT
CTTATCTCCCTAAAGTAGCAGTAGAGCAGATCAAAGACAACAAATCTTATCTTCTCAAGGGAGAA
GGAG
Found at i:89075890 original size:357 final size:357
Alignment explanation
Indices: 89075240--89075905 Score: 908
Period size: 357 Copynumber: 1.9 Consensus size: 357
89075230 TTATCTTCCA
*
89075240 GAGGTAGCAAGGAAGCAGACTGAAGATTGTAGATCTTATGTCCCTGAGATAGTAGTGGAGCAGAT
1 GAGGTAGCAAGGAAGCAGACTGAAGATTGTAGATCTTATCTCCCTGAGATAGTAGTGGAGCAGAT
***** * * * *
89075305 CAAAGATGGTGAATCTTATCTTCCCGAGATAGCAGGGGAGTAGATTTAAGCCACCAGCCTTATCT
66 CAAAGACAACAAATCTTATCTTCCCAAGATAGCAGGAGAGCAGATTTAAGCCACAAGCCTTATCT
* *
89075370 CCTTGAGGTAGCAAAGGAGCAGGCTAAAGATTGTATATCTTATCTCCCTAAGATAGCAGTGGAGC
131 CCTTGAGGTAGCAAAGGAGCAGGCTAAAGATTGTAGATCTTATCTCCCTAAGATAGCAGTAGAGC
* * *
89075435 AGATCGAAGACGACAAATCTTATTTTTCTGAGATAGCAGGGGAACAGATTTAAGCCACCAGCCTT
196 AGATCGAAGACGACAAATCTTATTCTTCTGAGATAGAAAGGGAACAGATTTAAGCCACCAGCCTT
* * **
89075500 ATCTCCTGGAGGTAGCAAAGGAGTAGGCTGAAGATTGTAGATTTTATCTTCCCGAGGAAGTAGGG
261 ATCTCCTGGAAGTAGCAAAGGAGTAGACTGAAGATAATAGATTTTATCTTCCCGAGGAAGTAGGG
89075565 AAGCAGATTTAAGCCACCAGCCTTATCTCCTT
326 AAGCAGATTTAAGCCACCAGCCTTATCTCCTT
*
89075597 GAGGTAGCAAAGGAA-CAGACTGAAGATTGTAGATCTTATCTCCTTGAGATAGTAGTGGAGCAGA
1 GAGGTAGC-AAGGAAGCAGACTGAAGATTGTAGATCTTATCTCCCTGAGATAGTAGTGGAGCAGA
* * *
89075661 TCAAAGACAACAAATCTTATCTTCTCAAGGTAGCAGGAGAGCATATTTAAGCCACAAGCCTTATC
65 TCAAAGACAACAAATCTTATCTTCCCAAGATAGCAGGAGAGCAGATTTAAGCCACAAGCCTTATC
* *
89075726 TCCTTGAGGTAGCAAAGGAGCAGGCTGAAGATTGTAGGTCTTATCTCCCTAA-AGTAGCAGTAGA
130 TCCTTGAGGTAGCAAAGGAGCAGGCTAAAGATTGTAGATCTTATCTCCCTAAGA-TAGCAGTAGA
* ** * * * *
89075790 GTAGATCGAAGACGATGAATCTTA-TCTTCATGTAG-TGGAAATGGATCAGATTTAAGTCACCAG
194 GCAGATCGAAGACGACAAATCTTATTCTTC-TG-AGATAGAAAGGGAACAGATTTAAGCCACCAG
* * * * * ** *
89075853 TCTTATTTCCTTGAAGTTGTAGCGGAGTAGACTGAAGATAATAGGTTTTATCT
257 CCTTATCTCCTGGAAGTAGCAAAGGAGTAGACTGAAGATAATAGATTTTATCT
89075906 CCCTAAAGTT
Statistics
Matches: 265, Mismatches: 40, Indels: 8
0.85 0.13 0.03
Matches are distributed among these distances:
356 5 0.02
357 252 0.95
358 8 0.03
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.26
Consensus pattern (357 bp):
GAGGTAGCAAGGAAGCAGACTGAAGATTGTAGATCTTATCTCCCTGAGATAGTAGTGGAGCAGAT
CAAAGACAACAAATCTTATCTTCCCAAGATAGCAGGAGAGCAGATTTAAGCCACAAGCCTTATCT
CCTTGAGGTAGCAAAGGAGCAGGCTAAAGATTGTAGATCTTATCTCCCTAAGATAGCAGTAGAGC
AGATCGAAGACGACAAATCTTATTCTTCTGAGATAGAAAGGGAACAGATTTAAGCCACCAGCCTT
ATCTCCTGGAAGTAGCAAAGGAGTAGACTGAAGATAATAGATTTTATCTTCCCGAGGAAGTAGGG
AAGCAGATTTAAGCCACCAGCCTTATCTCCTT
Found at i:89075949 original size:45 final size:45
Alignment explanation
Indices: 89075853--89076140 Score: 199
Period size: 45 Copynumber: 6.4 Consensus size: 45
89075843 AAGTCACCAG
* * * * * ** *
89075853 TCTTATTTCCTTGAAGTTGTAGCGGAGTAGACTGAAGATAATAGG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAGA
* * *
89075898 TTTTATCTCCCTAAAGTTGTAGTGGAGCAGACTGAAGATAGCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAGA
* * * ** *
89075943 TCTTATCTCCTTGAAGTTGCAGCGAAATAGA-TCGAAGATAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-GAAGATAGCAGA
* * * * **
89075988 CCTTATCTCTCTGAGGTTGCAGTAGAGCAGGTTGAAG-TAGCA-A
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAGA
* * *
89076031 GTCTTATCTCCTTGAAGTGGCAGTGGAGCAGACTGAAAATAGCAGA
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAGA
* * * * **
89076077 TCATATCTTCCTGAAGTTACAGCGGAATAGA-TCGAAGATAGCA-A
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-GAAGATAGCAGA
* *
89076121 ACTTTATCTCTCTGAAGTTG
1 TC-TTATCTCCCTGAAGTTG
89076141 TTGTAGAACA
Statistics
Matches: 185, Mismatches: 51, Indels: 14
0.74 0.20 0.06
Matches are distributed among these distances:
43 1 0.01
44 37 0.20
45 145 0.78
46 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.29
Consensus pattern (45 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAGA
Found at i:89076039 original size:134 final size:135
Alignment explanation
Indices: 89075900--89076193 Score: 403
Period size: 134 Copynumber: 2.2 Consensus size: 135
89075890 ATAATAGGTT
* * * * *
89075900 TTATCTCCCTAAAGTTGTAGTGGAGCAGACTGAAGATAGCAGATCTTATC-TCCTTGAAGTTGCA
1 TTATCTCCTTAAAGTTGCAGTGGAGCAGACTGAAAATAGCAGATCATATCTTCC-TGAAGTTACA
* * *
89075964 GCGAAATAGATCGAAGATAGCAAACCTTATCTCTCTGAGGTTGCAGTAGAGCAGGTTG-AAGTAG
65 GCGAAATAGATCGAAGATAGCAAACCTTATCTCTCTGAAGTTGCAGTAGAACAGGTTGAAAGTAC
89076028 CAAGTC
130 CAAGTC
* *
89076034 TTATCTCCTTGAAGTGGCAGTGGAGCAGACTGAAAATAGCAGATCATATCTTCCTGAAGTTACAG
1 TTATCTCCTTAAAGTTGCAGTGGAGCAGACTGAAAATAGCAGATCATATCTTCCTGAAGTTACAG
* * ** *
89076099 CGGAATAGATCGAAGATAGCAAACTTTATCTCTCTGAAGTTGTTGTAGAACAGGTTGAAATTACC
66 CGAAATAGATCGAAGATAGCAAACCTTATCTCTCTGAAGTTGCAGTAGAACAGGTTGAAAGTACC
*
89076164 AATTC
131 AAGTC
* *
89076169 TTATCTCCTTAAAGTTTCAGCGGAG
1 TTATCTCCTTAAAGTTGCAGTGGAG
89076194 TAGATCGAAG
Statistics
Matches: 138, Mismatches: 20, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
134 105 0.76
135 33 0.24
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.29
Consensus pattern (135 bp):
TTATCTCCTTAAAGTTGCAGTGGAGCAGACTGAAAATAGCAGATCATATCTTCCTGAAGTTACAG
CGAAATAGATCGAAGATAGCAAACCTTATCTCTCTGAAGTTGCAGTAGAACAGGTTGAAAGTACC
AAGTC
Found at i:89078117 original size:5 final size:5
Alignment explanation
Indices: 89078107--89078136 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
89078097 TAGGAAGATA
*
89078107 TTATT TTATT TTATT TTATT TTAAT TTATT
1 TTATT TTATT TTATT TTATT TTATT TTATT
89078137 AAATTAGCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
TTATT
Found at i:89078637 original size:3 final size:3
Alignment explanation
Indices: 89078629--89078764 Score: 105
Period size: 3 Copynumber: 46.0 Consensus size: 3
89078619 AGTTTTATAT
* * * * * * * *
89078629 TTA TTA TTA TTT TTA GTA TTA TTA TTT TTG TTA TTA CTG TTA CTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
89078677 CTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TCA CTA CTG TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
89078724 TTA TTA -TA GTA TTA TTA GTA TTA TTA TTA CTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
89078765 CTATAATTTT
Statistics
Matches: 105, Mismatches: 26, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
2 4 0.04
3 101 0.96
ACGTcount: A:0.29, C:0.07, G:0.04, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:89078864 original size:25 final size:25
Alignment explanation
Indices: 89078834--89078884 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
89078824 TCACTTTCAA
89078834 TTTAAATTAAATTCTCGCTAGAATT
1 TTTAAATTAAATTCTCGCTAGAATT
89078859 TTTAAATTAAATTCTCGCTAGAATT
1 TTTAAATTAAATTCTCGCTAGAATT
89078884 T
1 T
89078885 CCTTTGTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.45
Consensus pattern (25 bp):
TTTAAATTAAATTCTCGCTAGAATT
Found at i:89078965 original size:15 final size:14
Alignment explanation
Indices: 89078937--89078975 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
89078927 TTTATTCTTG
89078937 TCCTCATTATTATTA
1 TCCT-ATTATTATTA
*
89078952 TCTTATTATATATTA
1 TCCTATTAT-TATTA
89078967 TCCTATTAT
1 TCCTATTAT
89078976 GTAGCTATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.28, C:0.15, G:0.00, T:0.56
Consensus pattern (14 bp):
TCCTATTATTATTA
Found at i:89100018 original size:21 final size:21
Alignment explanation
Indices: 89099976--89100021 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
89099966 TATATAATAT
* *
89099976 TATTTATTTTAAAATGTTTTA
1 TATTTATTTTAAAATCTCTTA
**
89099997 TATTTATTTTAAGTTCTCTTA
1 TATTTATTTTAAAATCTCTTA
89100018 TATT
1 TATT
89100022 GTTTATTCGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.63
Consensus pattern (21 bp):
TATTTATTTTAAAATCTCTTA
Found at i:89102033 original size:19 final size:20
Alignment explanation
Indices: 89101993--89102036 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
89101983 GTCTCCTTAG
* *
89101993 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
89102012 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
89102031 GCATTA
1 GCATTA
89102037 GATTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:89106499 original size:88 final size:88
Alignment explanation
Indices: 89106350--89106939 Score: 850
Period size: 88 Copynumber: 6.7 Consensus size: 88
89106340 ATGAAGTTAC
* * *
89106350 AGATCTTGCCTTCCTGCATTGATAGTGAAGCAGGTCGAAGACACAAACCTTGCCTCTTTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
89106415 TGATAGAGCTGGTTGAAGACAAA
66 TGATAGAGCTGGTTGAAGACAAA
* * *
89106438 AGATCTTGCCTTCCTGCATTGATAGTGAAGCAGGTCGAAGACACAAACCTTGCCTCTTTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
89106503 TGATAGAGCTGGTTGAAGACAAA
66 TGATAGAGCTGGTTGAAGACAAA
* * * *
89106526 AGATCTTGCTTTCCTGCATTGACAGTGAAGCAGGTCGAAGACACAAACCTTGCCTCTTTTGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
89106591 TGATAGAGCTGGTTGAAGACAAA
66 TGATAGAGCTGGTTGAAGACAAA
* *
89106614 AGATCTTGCTTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
89106679 TGATAGAGCTGGTTGAAGACAAA
66 TGATAGAGCTGGTTGAAGACAAA
*
89106702 AGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
89106767 TGATAGAGCTGGTTGAAGACAAA
66 TGATAGAGCTGGTTGAAGACAAA
* * * ** **
89106790 AGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAA-A-ACAAAGCCTTGCGTCCATCGACT
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAA-CCTTGCCTCTTTCGGTT
* * **
89106853 GT-AGTGGAGCTGGTTAAAGA-AGC
65 GTGA-TAGAGCTGGTTGAAGACAAA
* * * **
89106876 AGATCTTGCCTTCCTGCATTAACAGCAAAGCAGATC-AA-AAACAAAGCCTTGCCTCCATCGGTT
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAA-CCTTGCCTCTTTCGGTT
89106939 G
65 G
89106940 CATTGGAGCT
Statistics
Matches: 474, Mismatches: 25, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
85 3 0.01
86 62 0.13
87 29 0.06
88 380 0.80
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (88 bp):
AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
TGATAGAGCTGGTTGAAGACAAA
Found at i:89108902 original size:21 final size:21
Alignment explanation
Indices: 89108860--89108905 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
89108850 TATATAATAT
* *
89108860 TATTTATTTTAAAATGTTTTA
1 TATTTATTTTAAAATCTCTTA
**
89108881 TATTTATTTTAAGTTCTCTTA
1 TATTTATTTTAAAATCTCTTA
89108902 TATT
1 TATT
89108906 GTTTATTCGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.63
Consensus pattern (21 bp):
TATTTATTTTAAAATCTCTTA
Found at i:89112375 original size:70 final size:69
Alignment explanation
Indices: 89112301--89112505 Score: 187
Period size: 69 Copynumber: 3.0 Consensus size: 69
89112291 AGAGTTTTTT
* ** *** * *
89112301 CAACTTCAACATGGTGAGTGGAAGATGCATTTCGAACTTTGCAGCTTCAATATGGTAGGAAGAAC
1 CAACTTCAACATGGTGAGAGGAAGACCCATTTCGAACTTTGCAAAATCAACATGATAGGAAGAA-
89112366 CCTTA
65 CCTTA
* * * * *
89112371 CAACTTCAACATGGCGAGAGGAGGGCCCATTTTGAATTTTGCAAAATCAACATGATAGGAAGAAC
1 CAACTTCAACATGGTGAGAGGAAGACCCATTTCGAACTTTGCAAAATCAACATGATAGGAAGAAC
*
89112436 CTTG
66 CTTA
* ** * * * * *
89112440 CAACTTCAACATGATGAGAGG-AGAACAAATTTCAAACTTTGCAACATGAACATGACAAGAAGAA
1 CAACTTCAACATGGTGAGAGGAAG-ACCCATTTCGAACTTTGCAAAATCAACATGATAGGAAGAA
89112504 CC
65 CC
89112506 CTTTCAAATT
Statistics
Matches: 107, Mismatches: 27, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
68 1 0.01
69 55 0.51
70 51 0.48
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (69 bp):
CAACTTCAACATGGTGAGAGGAAGACCCATTTCGAACTTTGCAAAATCAACATGATAGGAAGAAC
CTTA
Found at i:89112698 original size:70 final size:70
Alignment explanation
Indices: 89112328--89112766 Score: 214
Period size: 70 Copynumber: 6.3 Consensus size: 70
89112318 GTGGAAGATG
* * * * * *
89112328 CATTTCGAACTTTGCAGCTTCAATATGG-TAGGAAGAACCCTTACAACTTCAACATGGCGAGAGG
1 CATTTTGAACTTTGCAACATCAACA-GGATAGGAAGAACCCTTACAACTTCAACATGGAGAAAGG
89112392 AGGGCC
65 AGGGCC
* * * * *
89112398 CATTTTGAATTTTGCAAAATCAACATGATAGGAAGAA-CCTTGCAACTTCAACAT-GATGAGAGG
1 CATTTTGAACTTTGCAACATCAACAGGATAGGAAGAACCCTTACAACTTCAACATGGA-GAAAGG
** *
89112461 AGAACA
65 AGGGCC
* ** * * * * * * * * *
89112467 AATTTCAAACTTTGCAACATGAACATGACAAGAAGAACCCTTTCAAATTTAATATGGTA-ATAGG
1 CATTTTGAACTTTGCAACATCAACAGGATAGGAAGAACCCTTACAACTTCAACATGG-AGAAAGG
89112531 AGGG--
65 AGGGCC
* * * * * * *** * * * *
89112535 CTTTAATTGAACTATGTATCATTAACATGG-CA-GATAGAAGTTTTGCACCCTT-AACGTGGTGA
1 CATT--TTGAACTTTGCAACATCAACA-GGATAGGA-AGAACCCTTACA-ACTTCAACATGGAGA
** *
89112597 GGGGAGGACC
61 AAGGAGGGCC
* * ** * * *
89112607 CATTTTGGACTTTACAACATCAGTAGGGTGGGAAGAACCCTTACAACTTTAACAT-GACGAAAGG
1 CATTTTGAACTTTGCAACATCAACAGGATAGGAAGAACCCTTACAACTTCAACATGGA-GAAAGG
89112671 AGGGCC
65 AGGGCC
* * * * *
89112677 CATTTTGAACTTTGCAGCATCAACATGATAGGAAGAGCCCTTGCAACTTCAACATGGAGAGAGGA
1 CATTTTGAACTTTGCAACATCAACAGGATAGGAAGAACCCTTACAACTTCAACATGGAGAAAGGA
*
89112742 GGGCT
66 GGGCC
* *
89112747 CACTTCGAACTTTGCAACAT
1 CATTTTGAACTTTGCAACAT
89112767 TGTGGCTAGA
Statistics
Matches: 266, Mismatches: 85, Indels: 36
0.69 0.22 0.09
Matches are distributed among these distances:
68 3 0.01
69 63 0.24
70 188 0.71
71 8 0.03
72 4 0.02
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (70 bp):
CATTTTGAACTTTGCAACATCAACAGGATAGGAAGAACCCTTACAACTTCAACATGGAGAAAGGA
GGGCC
Found at i:89112743 original size:140 final size:138
Alignment explanation
Indices: 89112357--89112743 Score: 300
Period size: 140 Copynumber: 2.8 Consensus size: 138
89112347 TCAATATGGT
* * * *
89112357 AGGAAGAACCCTTACAACTTCAACATGGCGAGAGGAGGGCCCATTTTGAATTTTGCAAAATCAAC
1 AGGAAGAACCCTTACAACTTTAACAT-GCGAAAGGAGGGCCCATTTTGAACTTTGCAACATCAAC
* * *
89112422 ATGATAGGAAGAACCTTGCAACTTCAACAT-GATGAGAGGAGAACAAATTTCAAACTTTGCAACA
65 ATGATAGGAAGAGCCTTGCAACTTCAACATGGA-GAGAGGAGGACAAATTTCAAACTTTACAACA
* *
89112486 TGAACATGAC
129 TCAACAGGAC
* * * * * * * * *
89112496 AAGAAGAACCCTTTCAAATTTAATATG-GTAATAGGAGGG--CTTTAATTGAACTATGTATCATT
1 AGGAAGAACCCTTACAACTTTAACATGCG-AA-AGGAGGGCCCATT--TTGAACTTTGCAACATC
** ** * * * * ** ***
89112558 AACATGGCA-GATAGAAGTTTTGCACCCTT-AACGTGGTGAGGGGAGGACCCATTTTGGACTTTA
62 AACATGATAGGA-AG-AGCCTTGCA-ACTTCAACATGGAGAGAGGAGGACAAATTTCAAACTTTA
** **
89112621 CAACATCAGTAGGGT
124 CAACATCAACAGGAC
* *
89112636 GGGAAGAACCCTTACAACTTTAACATGACGAAAGGAGGGCCCATTTTGAACTTTGCAGCATCAAC
1 AGGAAGAACCCTTACAACTTTAACATG-CGAAAGGAGGGCCCATTTTGAACTTTGCAACATCAAC
89112701 ATGATAGGAAGAGCCCTTGCAACTTCAACATGGAGAGAGGAGG
65 ATGATAGGAAGAG-CCTTGCAACTTCAACATGGAGAGAGGAGG
89112744 GCTCACTTCG
Statistics
Matches: 180, Mismatches: 53, Indels: 29
0.69 0.20 0.11
Matches are distributed among these distances:
137 4 0.02
138 4 0.02
139 53 0.29
140 107 0.59
141 8 0.04
142 4 0.02
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.24
Consensus pattern (138 bp):
AGGAAGAACCCTTACAACTTTAACATGCGAAAGGAGGGCCCATTTTGAACTTTGCAACATCAACA
TGATAGGAAGAGCCTTGCAACTTCAACATGGAGAGAGGAGGACAAATTTCAAACTTTACAACATC
AACAGGAC
Found at i:89115020 original size:47 final size:47
Alignment explanation
Indices: 89114962--89115083 Score: 208
Period size: 47 Copynumber: 2.6 Consensus size: 47
89114952 ACATTGGCAC
*
89114962 TAAGACAAGGATACCATGTATGACCATGTTTAGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTAGAACATGGCATTTGG
*
89115009 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTAGAACATGGCATTTGG
* *
89115056 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
89115084 CCAAGGCATG
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTAGAACATGGCATTTGG
Found at i:89115191 original size:55 final size:53
Alignment explanation
Indices: 89115070--89115255 Score: 214
Period size: 55 Copynumber: 3.5 Consensus size: 53
89115060 ATAAGGATAT
* * * ** *
89115070 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCGAAGAAAT
1 CATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGC-AAGGTAC
*
89115124 CATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCC
1 CATGTAAGACCATGTCAAGACATGGCATTGATGAGTT-CTATAAGGC-AAGGTAC
* * *
89115179 CATGTAAGACCAT-TCCAAGGCATGACATTGGTGAGTTC-ATAAGGCAAGGATAC
1 CATGTAAGACCATGT-CAAGACATGGCATTGATGAGTTCTATAAGGCAAGG-TAC
*
89115232 CACGTAAGACCATGTCAAGACATG
1 CATGTAAGACCATGTCAAGACATG
89115256 AAAATGGTAA
Statistics
Matches: 114, Mismatches: 14, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
52 4 0.04
53 29 0.25
54 37 0.32
55 44 0.39
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (53 bp):
CATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGCAAGGTAC
Found at i:89120735 original size:35 final size:35
Alignment explanation
Indices: 89120682--89120753 Score: 108
Period size: 35 Copynumber: 2.1 Consensus size: 35
89120672 ATTTCTGATT
89120682 AAACTAAGGACATCTTTAGGTTCATCTACTAATAC
1 AAACTAAGGACATCTTTAGGTTCATCTACTAATAC
* * * *
89120717 AAACTGAGGATATTTTTAGGTTCGTCTACTAATAC
1 AAACTAAGGACATCTTTAGGTTCATCTACTAATAC
89120752 AA
1 AA
89120754 GCTGTCTTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (35 bp):
AAACTAAGGACATCTTTAGGTTCATCTACTAATAC
Found at i:89121544 original size:27 final size:28
Alignment explanation
Indices: 89121500--89121633 Score: 143
Period size: 27 Copynumber: 4.9 Consensus size: 28
89121490 CATTAAATGC
* *
89121500 GAGGTAGTCCA-CTAGGACATTAAACAAA
1 GAGGTAGTCCATC-GGGACAATAAACAAA
*
89121528 GA-GTAGTCCATCGGGACAATAAAC-AC
1 GAGGTAGTCCATCGGGACAATAAACAAA
*
89121554 GAGGTAGTCCATCGGGACAATAAAC-AT
1 GAGGTAGTCCATCGGGACAATAAACAAA
* *
89121581 GAGGTAGTCCATTGGGACAATAAAC-AT
1 GAGGTAGTCCATCGGGACAATAAACAAA
* * *
89121608 GGGGTAGTCCATCGAGACATTAAACA
1 GAGGTAGTCCATCGGGACAATAAACA
89121634 CAAACATTAA
Statistics
Matches: 94, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
26 3 0.03
27 88 0.94
28 3 0.03
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.19
Consensus pattern (28 bp):
GAGGTAGTCCATCGGGACAATAAACAAA
Found at i:89121559 original size:54 final size:54
Alignment explanation
Indices: 89121499--89121633 Score: 166
Period size: 54 Copynumber: 2.5 Consensus size: 54
89121489 ACATTAAATG
89121499 CGAGGTAGTCCACTAGGACATTAAACAAAGA-GTAGTCCATCGGGACAATAAACA
1 CGAGGTAGTCCA-TAGGACATTAAACAAAGAGGTAGTCCATCGGGACAATAAACA
* * * *
89121553 CGAGGTAGTCCATCGGGACAATAAAC-ATGAGGTAGTCCATTGGGACAATAAACA
1 CGAGGTAGTCCAT-AGGACATTAAACAAAGAGGTAGTCCATCGGGACAATAAACA
* * *
89121607 TGGGGTAGTCCATCGAGACATTAAACA
1 CGAGGTAGTCCATAG-GACATTAAACA
89121634 CAAACATTAA
Statistics
Matches: 69, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
53 5 0.07
54 64 0.93
ACGTcount: A:0.38, C:0.19, G:0.24, T:0.19
Consensus pattern (54 bp):
CGAGGTAGTCCATAGGACATTAAACAAAGAGGTAGTCCATCGGGACAATAAACA
Found at i:89121726 original size:94 final size:94
Alignment explanation
Indices: 89121555--89121726 Score: 211
Period size: 94 Copynumber: 1.8 Consensus size: 94
89121545 AATAAACACG
* * ** * * * *
89121555 AGGTAGTCCATCGGGACAATAAACATGAGGTAGTCCATTGGGACAATAAACATGGGGTAGTCCAT
1 AGGTAGTCCACCGAGACAATAAACATGAGGTAGTCCATCAGGAAAATAAACACGGAGTAGCCCAT
*
89121620 CGAGACATTAAACACAAACATTAAATGAA
66 CGAGACAATAAACACAAACATTAAATGAA
* * *
89121649 AGGTAGTCTACCGAGACAATAAATAT-AGGATAGTCCATCAGGAAAATAAACACGGAGTAGCCCG
1 AGGTAGTCCACCGAGACAATAAACATGAGG-TAGTCCATCAGGAAAATAAACACGGAGTAGCCCA
*
89121713 TCGGGACAATAAAC
65 TCGAGACAATAAAC
89121727 GTGGGGTAGC
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
93 3 0.05
94 61 0.95
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.19
Consensus pattern (94 bp):
AGGTAGTCCACCGAGACAATAAACATGAGGTAGTCCATCAGGAAAATAAACACGGAGTAGCCCAT
CGAGACAATAAACACAAACATTAAATGAA
Found at i:89121833 original size:27 final size:26
Alignment explanation
Indices: 89121803--89121886 Score: 78
Period size: 27 Copynumber: 3.2 Consensus size: 26
89121793 GCTGGGTCAA
* *
89121803 TAAATATGGGGTTGTCTGCCAAGACAT
1 TAAATA-GGGGTAGTCTACCAAGACAT
* * * * *
89121830 TAAACAAAGGGTAGTCCACTAAGACAA
1 TAAA-TAGGGGTAGTCTACCAAGACAT
*
89121857 TAAATAGGGGTAGTCTACCGAGACAT
1 TAAATAGGGGTAGTCTACCAAGACAT
89121883 TAAA
1 TAAA
89121887 CGTGGGATGG
Statistics
Matches: 43, Mismatches: 13, Indels: 3
0.73 0.22 0.05
Matches are distributed among these distances:
26 20 0.47
27 22 0.51
28 1 0.02
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.23
Consensus pattern (26 bp):
TAAATAGGGGTAGTCTACCAAGACAT
Found at i:89132723 original size:27 final size:27
Alignment explanation
Indices: 89132640--89132736 Score: 95
Period size: 27 Copynumber: 3.6 Consensus size: 27
89132630 CTTTAATCAT
* * *
89132640 TTGCCACAAAGGCTTTCCTTTCCTTATA
1 TTGCCACAAAGGCTTTCATTT-CATAGA
* * * *
89132668 TTGCCACAAAGGATTCCATTTGATCGA
1 TTGCCACAAAGGCTTTCATTTCATAGA
*
89132695 TTGCCACATAGGCTTTCATTTCATAGA
1 TTGCCACAAAGGCTTTCATTTCATAGA
**
89132722 TTATCACAAAGGCTT
1 TTGCCACAAAGGCTT
89132737 CTATTTTTCT
Statistics
Matches: 54, Mismatches: 15, Indels: 1
0.77 0.21 0.01
Matches are distributed among these distances:
27 36 0.67
28 18 0.33
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (27 bp):
TTGCCACAAAGGCTTTCATTTCATAGA
Found at i:89151373 original size:26 final size:26
Alignment explanation
Indices: 89151344--89151451 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
89151334 TGGTACAAAT
*
89151344 TGATAATGGGTTTGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
89151370 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
89151396 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
89151422 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
89151448 TGAT
1 TGAT
89151452 GGGAATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:89163172 original size:16 final size:16
Alignment explanation
Indices: 89163151--89163181 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
89163141 CATTTTATTT
*
89163151 ATATTAGGATAATTAA
1 ATATTAAGATAATTAA
89163167 ATATTAAGATAATTA
1 ATATTAAGATAATTA
89163182 TTAGGATTAT
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:0.52, C:0.00, G:0.10, T:0.39
Consensus pattern (16 bp):
ATATTAAGATAATTAA
Found at i:89163970 original size:18 final size:18
Alignment explanation
Indices: 89163941--89163975 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
89163931 TATTTTTTCT
89163941 TATTTCAATTTCTGCAATC
1 TATTTCAATTTC-GCAATC
89163960 TATTT-AATTTCGCAAT
1 TATTTCAATTTCGCAAT
89163976 TTCAATTCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 6 0.38
19 5 0.31
ACGTcount: A:0.29, C:0.17, G:0.06, T:0.49
Consensus pattern (18 bp):
TATTTCAATTTCGCAATC
Found at i:89170624 original size:27 final size:27
Alignment explanation
Indices: 89170594--89170771 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
89170584 ATATTGAGCC
* *
89170594 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
89170621 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
89170648 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
89170676 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
89170703 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
89170730 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
89170757 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
89170772 GTACAATTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 104 0.81
28 25 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:89170733 original size:82 final size:81
Alignment explanation
Indices: 89170615--89170770 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
89170605 TGCTATATAA
* *
89170615 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
89170680 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
89170697 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
89170761 CACTTAGTGC
65 CACTTAGTGC
89170771 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:89171335 original size:13 final size:13
Alignment explanation
Indices: 89171317--89171341 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
89171307 TACTAAATTT
89171317 TCATGGATTCAAG
1 TCATGGATTCAAG
89171330 TCATGGATTCAA
1 TCATGGATTCAA
89171342 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:89178888 original size:27 final size:27
Alignment explanation
Indices: 89178858--89179035 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
89178848 ATATTGAGCC
* *
89178858 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
89178885 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
89178912 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
89178940 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
89178967 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
89178994 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
89179021 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
89179036 GTACAATTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 104 0.81
28 25 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:89178997 original size:82 final size:81
Alignment explanation
Indices: 89178879--89179034 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
89178869 TGCTATATAA
* *
89178879 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
89178944 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
89178961 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
89179025 CACTTAGTGC
65 CACTTAGTGC
89179035 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:89179601 original size:13 final size:13
Alignment explanation
Indices: 89179583--89179607 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
89179573 TACTAAATTT
89179583 TCATGGATTCAAG
1 TCATGGATTCAAG
89179596 TCATGGATTCAA
1 TCATGGATTCAA
89179608 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:89189581 original size:42 final size:42
Alignment explanation
Indices: 89189535--89189688 Score: 173
Period size: 42 Copynumber: 3.5 Consensus size: 42
89189525 GTTATCATGT
89189535 AAGACCATATCTGGGATATGGCGTTGATATGAGATTTCGTGCAAGACC
1 AAGACCATATCTGGGATATGGCGTTGATATGAGATTTCGT----G--C
89189583 AAGACCATATCTGGGATATGGCGTTGATATGAGATTTCGTGC
1 AAGACCATATCTGGGATATGGCGTTGATATGAGATTTCGTGC
** * * * * **
89189625 AAGACCACGTCTGGGACATGGCGTAGAAATGAGAATTCGTAT
1 AAGACCATATCTGGGATATGGCGTTGATATGAGATTTCGTGC
*
89189667 AAGACTATATCTGGGATATGGC
1 AAGACCATATCTGGGATATGGC
89189689 ATCGATGTGA
Statistics
Matches: 94, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
42 53 0.56
44 1 0.01
48 40 0.43
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.27
Consensus pattern (42 bp):
AAGACCATATCTGGGATATGGCGTTGATATGAGATTTCGTGC
Found at i:89189587 original size:48 final size:48
Alignment explanation
Indices: 89189535--89189631 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
89189525 GTTATCATGT
89189535 AAGACCATATCTGGGATATGGCGTTGATATGAGATTTCGTGCAAGACC
1 AAGACCATATCTGGGATATGGCGTTGATATGAGATTTCGTGCAAGACC
89189583 AAGACCATATCTGGGATATGGCGTTGATATGAGATTTCGTGCAAGACC
1 AAGACCATATCTGGGATATGGCGTTGATATGAGATTTCGTGCAAGACC
89189631 A
1 A
89189632 CGTCTGGGAC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (48 bp):
AAGACCATATCTGGGATATGGCGTTGATATGAGATTTCGTGCAAGACC
Found at i:89194077 original size:47 final size:46
Alignment explanation
Indices: 89193965--89194236 Score: 218
Period size: 47 Copynumber: 5.8 Consensus size: 46
89193955 ATTCGTGTGT
* *
89193965 GAGCTAGTGTAAGA-CATGTCTGGGACATGCATCGGCCAAATT-ATA-A
1 GAGCCAGTGTAAGACCATGTCTGGGACATGCATCGG-C--ATTGAGATA
*
89194011 GAGCCAGTATAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCATTGAGAT-A
* * * * * *
89194059 GGGCTAGTGTAAGA-CATGTCTAGGACATGCATCGACCTCGAGACATA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCATTGAG--ATA
*
89194106 -AGCCAGTGTAAGA-CATGTCAGGGACATGCATCGGC-TATGAGATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCAT-TGAGAT-A
* * * *
89194151 TAGTCAATGTAAGACCATGTCTGGGACATGGCATTGGC-TTGAGATA
1 GAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCATTGAGATA
* * * *
89194197 TGAGCCAGTGTAAGACCGTTTCTAGGACATGGCATAGGCA
1 -GAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCA
89194237 CCTTACCTTA
Statistics
Matches: 185, Mismatches: 27, Indels: 26
0.78 0.11 0.11
Matches are distributed among these distances:
44 2 0.01
45 5 0.03
46 70 0.38
47 79 0.43
48 29 0.16
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (46 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCATTGAGATA
Found at i:89194162 original size:46 final size:47
Alignment explanation
Indices: 89193970--89194212 Score: 191
Period size: 46 Copynumber: 5.2 Consensus size: 47
89193960 TGTGTGAGCT
* * * *
89193970 AGTGTAAGACATGTCTGGGACAT-GCATCGGC--CAAATTATAAGAGCC
1 AGTGTAAGACATGTCAGGGACATGGCATCGGCTTGAGATGAT-A-AGCC
* * ** *
89194016 AGTATAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGA-GGGCT
1 AGTGTAAGA-CATGTCAGGGACATGGCATCGGC-TTGAGATGATAAGCC
* * *
89194064 AGTGTAAGACATGTCTA-GGACAT-GCATCGACCTCGAGA-CATAAGCC
1 AGTGTAAGACATGTC-AGGGACATGGCATCG-GCTTGAGATGATAAGCC
*
89194110 AGTGTAAGACATGTCAGGGACAT-GCATCGGCTATGAGATGAT-AGTC
1 AGTGTAAGACATGTCAGGGACATGGCATCGGCT-TGAGATGATAAGCC
* * * *
89194156 AATGTAAGACCATGTCTGGGACATGGCATTGGCTTGAGAT-ATGAGCC
1 AGTGTAAGA-CATGTCAGGGACATGGCATCGGCTTGAGATGATAAGCC
89194203 AGTGTAAGAC
1 AGTGTAAGAC
89194213 CGTTTCTAGG
Statistics
Matches: 159, Mismatches: 24, Indels: 28
0.75 0.11 0.13
Matches are distributed among these distances:
45 4 0.03
46 66 0.42
47 59 0.37
48 26 0.16
51 4 0.03
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACATGTCAGGGACATGGCATCGGCTTGAGATGATAAGCC
Found at i:89194178 original size:93 final size:93
Alignment explanation
Indices: 89194012--89194212 Score: 230
Period size: 93 Copynumber: 2.2 Consensus size: 93
89194002 AAATTATAAG
* * * *
89194012 AGCCAGTATAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGAGGGCTAGTGTAAGACATG
1 AGCCAGTGTAAGA-CATGTCAGGGACATGGCATCGGCATTGAGATGAAGGCTAATGTAAGACATG
89194077 TCTAGGACAT-GCATCGACCTCGAGACATA
65 TCTAGGACATGGCATCG-CCTCGAGACATA
*
89194106 AGCCAGTGTAAGACATGTCAGGGACAT-GCATCGGC-TATGAGATGATAGTC-AATGTAAGACCA
1 AGCCAGTGTAAGACATGTCAGGGACATGGCATCGGCAT-TGAGATGA-AGGCTAATGTAAGA-CA
* * * * * *
89194168 TGTCTGGGACATGGCATTGGCTTGAGATATG
63 TGTCTAGGACATGGCATCGCCTCGAGACATA
89194199 AGCCAGTGTAAGAC
1 AGCCAGTGTAAGAC
89194213 CGTTTCTAGG
Statistics
Matches: 92, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
91 1 0.01
92 24 0.26
93 50 0.54
94 17 0.18
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.22
Consensus pattern (93 bp):
AGCCAGTGTAAGACATGTCAGGGACATGGCATCGGCATTGAGATGAAGGCTAATGTAAGACATGT
CTAGGACATGGCATCGCCTCGAGACATA
Found at i:89194221 original size:140 final size:140
Alignment explanation
Indices: 89193970--89194227 Score: 342
Period size: 140 Copynumber: 1.8 Consensus size: 140
89193960 TGTGTGAGCT
* * *
89193970 AGTGTAAGACATGTCTGGGACATGCATCGGCCAAATTATAAGAGCCAGTATAAGACCATGTCTGG
1 AGTGTAAGACATGTCAGGGACATGCATCGGCCAAATGATAAGAGCCAATATAAGACCATGTCTGG
* *
89194035 GACATGGCATCGGCATTGAGATGAGGGCTAGTGTAAGACATGTCTAGGACATGCATCGACCTCGA
66 GACATGGCATCGGCATTGAGATGAGAGCCAGTGTAAGACATGTCTAGGACATGCATCGACCTCGA
89194100 GACATAAGCC
131 GACATAAGCC
* * * * * *
89194110 AGTGTAAGACATGTCAGGGACATGCATCGGCTATGA-GATGATAGTCAATGTAAGACCATGTCTG
1 AGTGTAAGACATGTCAGGGACATGCATCGGCCA-AATGATAAGAGCCAATATAAGACCATGTCTG
* * *
89194174 GGACATGGCATTGGC-TTGAGAT-ATGAGCCAGTGTAAGACCGTTTCTAGGACATG
65 GGACATGGCATCGGCATTGAGATGA-GAGCCAGTGTAAGA-CATGTCTAGGACATG
89194228 GCATAGGCAC
Statistics
Matches: 101, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
138 1 0.01
139 19 0.19
140 80 0.79
141 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (140 bp):
AGTGTAAGACATGTCAGGGACATGCATCGGCCAAATGATAAGAGCCAATATAAGACCATGTCTGG
GACATGGCATCGGCATTGAGATGAGAGCCAGTGTAAGACATGTCTAGGACATGCATCGACCTCGA
GACATAAGCC
Found at i:89195795 original size:46 final size:47
Alignment explanation
Indices: 89195681--89195808 Score: 152
Period size: 47 Copynumber: 2.7 Consensus size: 47
89195671 TGTGTGTGCT
* * *
89195681 AGTGTAAGACATGTCTGAGACATGCATCGGCTACATTATGAAATGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACATGACGAAATGCC
* * ** *
89195728 AGTGTAAGACAAGTCTAGGACATGCATCGGCATTGA-GACGAGA-GCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC-TACATGACGAAATGCC
*
89195774 AGTGTAAGACATGTCTGGGACATGCATCGACTACA
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACA
89195809 AGATGTGTTA
Statistics
Matches: 67, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
45 2 0.03
46 31 0.46
47 32 0.48
48 2 0.03
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACATGACGAAATGCC
Found at i:89205579 original size:25 final size:24
Alignment explanation
Indices: 89205550--89205624 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 24
89205540 GATTTGTCAG
89205550 CACCTCTACATCTCATCGCTAGTCC
1 CACCTC-ACATCTCATCGCTAGTCC
* *
89205575 CACCTCGCGAAC-CATC-C-A-T--
1 CACCTCAC-ATCTCATCGCTAGTCC
89205594 CACCTCCACATCTCATCGCTAGTCC
1 CACCT-CACATCTCATCGCTAGTCC
89205619 CACCTC
1 CACCTC
89205625 GTGAACCATC
Statistics
Matches: 38, Mismatches: 4, Indels: 17
0.64 0.07 0.29
Matches are distributed among these distances:
19 7 0.18
20 6 0.16
21 2 0.05
22 2 0.05
23 2 0.05
24 6 0.16
25 13 0.34
ACGTcount: A:0.21, C:0.48, G:0.08, T:0.23
Consensus pattern (24 bp):
CACCTCACATCTCATCGCTAGTCC
Found at i:89205613 original size:44 final size:44
Alignment explanation
Indices: 89205550--89205638 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
89205540 GATTTGTCAG
*
89205550 CACCTCTACATCTCATCGCTAGTCCCACCTCGCGAACCATCCAT
1 CACCTCCACATCTCATCGCTAGTCCCACCTCGCGAACCATCCAT
*
89205594 CACCTCCACATCTCATCGCTAGTCCCACCTCGTGAACCATCCAT
1 CACCTCCACATCTCATCGCTAGTCCCACCTCGCGAACCATCCAT
89205638 C
1 C
89205639 GATGAAGATG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.22, C:0.46, G:0.09, T:0.22
Consensus pattern (44 bp):
CACCTCCACATCTCATCGCTAGTCCCACCTCGCGAACCATCCAT
Found at i:89221607 original size:47 final size:48
Alignment explanation
Indices: 89221542--89221666 Score: 145
Period size: 47 Copynumber: 2.6 Consensus size: 48
89221532 TGTGTGAACT
89221542 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATT-ATGA-GA-G-CC
1 AGTGTAAGACATGTCTGGGACATGCATCAG-CACATTGA-GACGAGGTCC
**
89221588 AGTGTAAGACCATGTCTGGGACATGGCATC-G-ACATTGAGACGAGGTGT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCACATTGAGACGAGGTCC
*
89221636 AGTGTAAAACATGTCTGGGACATGCATCAGC
1 AGTGTAAGACATGTCTGGGACATGCATCAGC
89221667 TATGAGATGA
Statistics
Matches: 68, Mismatches: 3, Indels: 14
0.80 0.04 0.16
Matches are distributed among these distances:
45 7 0.10
46 17 0.25
47 31 0.46
48 13 0.19
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.22
Consensus pattern (48 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCACATTGAGACGAGGTCC
Found at i:89221696 original size:47 final size:45
Alignment explanation
Indices: 89221541--89221706 Score: 142
Period size: 47 Copynumber: 3.6 Consensus size: 45
89221531 GTGTGTGAAC
* * *
89221541 TAGTGTAAGA-CATGTCTGGGACATGCATCAGCCA-CATTATGAGAGC
1 TAGTGTAAGACCATGTCTGGGACATGCATCAG-CATGA-GATGA-AGT
* * *
89221587 CAGTGTAAGACCATGTCTGGGACATGGCATC-GACATTGAGACGAGGT
1 TAGTGTAAGACCATGTCTGGGACAT-GCATCAG-CA-TGAGATGAAGT
*
89221634 GTAGTGTAA-AACATGTCTGGGACATGCATCAGCTATGAGATGACAGT
1 -TAGTGTAAGACCATGTCTGGGACATGCATCAGC-ATGAGATGA-AGT
* *
89221681 TAATGTAAGACCATGTTTGGGACATG
1 TAGTGTAAGACCATGTCTGGGACATG
89221707 GCATTGACTT
Statistics
Matches: 97, Mismatches: 14, Indels: 17
0.76 0.11 0.13
Matches are distributed among these distances:
46 29 0.30
47 52 0.54
48 15 0.15
49 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (45 bp):
TAGTGTAAGACCATGTCTGGGACATGCATCAGCATGAGATGAAGT
Found at i:89221702 original size:94 final size:93
Alignment explanation
Indices: 89221541--89221720 Score: 245
Period size: 94 Copynumber: 1.9 Consensus size: 93
89221531 GTGTGTGAAC
* * * *
89221541 TAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTCTG
1 TAGTGTAAAACATGTCTGGGACATGCATCAGCCACATGATGACAGCCAATGTAAGACCATGTCTG
89221606 GGACATGGCATCGACATTGAGACGAGGTG
66 GGACATGGCATCGAC-TTGAGACGAGGTG
* * ** *
89221635 TAGTGTAAAACATGTCTGGGACATGCATCAGCTATGA-GATGACAGTTAATGTAAGACCATGTTT
1 TAGTGTAAAACATGTCTGGGACATGCATCAGCCA-CATGATGACAGCCAATGTAAGACCATGTCT
*
89221699 GGGACATGGCATTGACTTGAGA
65 GGGACATGGCATCGACTTGAGA
89221721 TATGAGCCAG
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
93 6 0.08
94 68 0.91
95 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (93 bp):
TAGTGTAAAACATGTCTGGGACATGCATCAGCCACATGATGACAGCCAATGTAAGACCATGTCTG
GGACATGGCATCGACTTGAGACGAGGTG
Found at i:89221720 original size:47 final size:47
Alignment explanation
Indices: 89221590--89221721 Score: 137
Period size: 47 Copynumber: 2.8 Consensus size: 47
89221580 TGAGAGCCAG
* * * *
89221590 TGTAAGACCATGTCTGGGACATGGCATCGACATTGAGACGAGGTGTAG
1 TGTAAGACCATGTCTGGGACATGGCATTGAC-TTGAGATGAAGTGTAA
* *
89221638 TGTAA-AACATGTCTGGGACAT-GCA-TCAGCTATGAGATGACAGT-TAA
1 TGTAAGACCATGTCTGGGACATGGCATTGA-CT-TGAGATGA-AGTGTAA
*
89221684 TGTAAGACCATGTTTGGGACATGGCATTGACTTGAGAT
1 TGTAAGACCATGTCTGGGACATGGCATTGACTTGAGAT
89221722 ATGAGCCAGT
Statistics
Matches: 69, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
45 2 0.03
46 18 0.26
47 37 0.54
48 10 0.14
49 2 0.03
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.27
Consensus pattern (47 bp):
TGTAAGACCATGTCTGGGACATGGCATTGACTTGAGATGAAGTGTAA
Found at i:89221735 original size:47 final size:46
Alignment explanation
Indices: 89221582--89221754 Score: 129
Period size: 47 Copynumber: 3.7 Consensus size: 46
89221572 CCACATTATG
*
89221582 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGA-
1 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGAC-TTGAGAT
* ** * *
89221628 CGAGGTGTAGTGTAA-AACATGTCTGGGACAT-GCA-TCAGCTATGAGAT
1 AGA-G-CCAGTGTAAGACCATGTCTGGGACATGGCATTGA-CT-TGAGAT
* ** * *
89221675 GACAGTTAATGTAAGACCATGTTTGGGACATGGCATTGACTTGAGAT
1 -AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGACTTGAGAT
* * *
89221722 ATGAGCCAGTGTAAGACCGTGTCTAGGATATGG
1 A-GAGCCAGTGTAAGACCATGTCTGGGACATGG
89221755 TATCGGCACC
Statistics
Matches: 96, Mismatches: 21, Indels: 19
0.71 0.15 0.14
Matches are distributed among these distances:
45 2 0.02
46 19 0.20
47 60 0.62
48 13 0.14
49 2 0.02
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.25
Consensus pattern (46 bp):
AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGACTTGAGAT
Found at i:89233322 original size:46 final size:47
Alignment explanation
Indices: 89233225--89233328 Score: 124
Period size: 46 Copynumber: 2.2 Consensus size: 47
89233215 TATGAGAGCC
* *
89233225 AGTGTAAGACCATGTCTAGGACATGGCATTGGCATCGAGACGAGTGCT
1 AGTGTAAGACCATCTCTAGGACATGGCATCGGCATCGAGACGAGT-CT
* *
89233273 AGTGTAAGA-TATCTCTAGGACAT-GCATCGGCCTCGAGACGTAAGT-T
1 AGTGTAAGACCATCTCTAGGACATGGCATCGGCATCGAGACG--AGTCT
89233319 AGTGTAAGAC
1 AGTGTAAGAC
89233329 TGTGTTTGGA
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
46 25 0.51
47 12 0.24
48 12 0.24
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACCATCTCTAGGACATGGCATCGGCATCGAGACGAGTCT
Found at i:89238482 original size:42 final size:42
Alignment explanation
Indices: 89238435--89238549 Score: 158
Period size: 42 Copynumber: 2.7 Consensus size: 42
89238425 TGAGTTATCA
*
89238435 TGTAAGACCATATCTGGGATATGGCGTTGATATGAGATTTTG
1 TGTAAGACCATATCTGGGATATGGCGTTGATATGAGAATTTG
* * * *
89238477 TGTAAGACCATGTCTGGGACATGGCGTCGAAATGAGAATTTG
1 TGTAAGACCATATCTGGGATATGGCGTTGATATGAGAATTTG
* * *
89238519 TATAAAACCATATCTGGGATATGGCATTGAT
1 TGTAAGACCATATCTGGGATATGGCGTTGAT
89238550 GTGGGATATG
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 61 1.00
ACGTcount: A:0.30, C:0.12, G:0.27, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCGTTGATATGAGAATTTG
Found at i:89265780 original size:16 final size:17
Alignment explanation
Indices: 89265759--89265790 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
89265749 TCCATCTAAA
89265759 ATACAAGA-AAATGATG
1 ATACAAGACAAATGATG
89265775 ATACAAGACAAATGAT
1 ATACAAGACAAATGAT
89265791 ATATGGAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.56, C:0.09, G:0.16, T:0.19
Consensus pattern (17 bp):
ATACAAGACAAATGATG
Found at i:89268224 original size:40 final size:40
Alignment explanation
Indices: 89268130--89268274 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
89268120 TACTCGAATG
*
89268130 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAA-CGACT
* * *
89268171 ACATCTGGACTAAGAT-CCGAAGGCATTTGTGCTAACGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAACGACT
* ** *
89268211 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAACGACT
* *
89268251 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
89268275 CTAGTGCGAG
Statistics
Matches: 89, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
39 1 0.01
40 58 0.65
41 29 0.33
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAACGACT
Found at i:89271423 original size:20 final size:20
Alignment explanation
Indices: 89271398--89271438 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
89271388 AAGAAGTAAG
89271398 GCTTTATATAATGGTTATCT
1 GCTTTATATAATGGTTATCT
89271418 GCTTTATATAATGGTTATCT
1 GCTTTATATAATGGTTATCT
89271438 G
1 G
89271439 GGTTTGTGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.10, G:0.17, T:0.49
Consensus pattern (20 bp):
GCTTTATATAATGGTTATCT
Found at i:89281922 original size:20 final size:18
Alignment explanation
Indices: 89281875--89281923 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
89281865 TTGACCCCTG
* *
89281875 TTTTCAAAAATTTTTGTT
1 TTTTCAAAATTTTTTATT
89281893 TTTTCTAAAATTTTTTAATT
1 TTTTC-AAAATTTTTT-ATT
89281913 TGTTTCAAAAT
1 T-TTTCAAAAT
89281924 GATCCCCGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 5 0.19
19 9 0.35
20 8 0.31
21 4 0.15
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.59
Consensus pattern (18 bp):
TTTTCAAAATTTTTTATT
Found at i:89283089 original size:14 final size:15
Alignment explanation
Indices: 89283061--89283089 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
89283051 ACTAATACAA
89283061 ACTTACACTAAAATT
1 ACTTACACTAAAATT
89283076 ACTTACAC-AAAATT
1 ACTTACACTAAAATT
89283090 TTCAACATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (15 bp):
ACTTACACTAAAATT
Found at i:89284683 original size:27 final size:27
Alignment explanation
Indices: 89284630--89284684 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
89284620 CCCAACGAGT
** * * *
89284630 TAGGGTTTGCCAAAGGGCTTGGTAAGC
1 TAGGGTTCACCAAAGGGCGTAGCAAGC
89284657 TAGGGTTCACCAAAGGGCGTAGCAAGC
1 TAGGGTTCACCAAAGGGCGTAGCAAGC
89284684 T
1 T
89284685 GAGGTTCGCC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.25, C:0.18, G:0.35, T:0.22
Consensus pattern (27 bp):
TAGGGTTCACCAAAGGGCGTAGCAAGC
Found at i:89290923 original size:12 final size:13
Alignment explanation
Indices: 89290906--89290943 Score: 62
Period size: 12 Copynumber: 3.1 Consensus size: 13
89290896 CTACTTTAAT
89290906 ATAAAATAAA-AA
1 ATAAAATAAATAA
89290918 ATAAAATAAATAA
1 ATAAAATAAATAA
89290931 AT-AAATAAATAA
1 ATAAAATAAATAA
89290943 A
1 A
89290944 ATAAGATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 21 0.84
13 4 0.16
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
ATAAAATAAATAA
Found at i:89290930 original size:4 final size:4
Alignment explanation
Indices: 89290909--89290943 Score: 54
Period size: 4 Copynumber: 8.8 Consensus size: 4
89290899 CTTTAATATA
89290909 AAAT AAA- AAAT AAAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT -AAAT AAAT AAAT AAAT AAAT AAA
89290944 ATAAGATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 3 0.10
4 22 0.76
5 4 0.14
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (4 bp):
AAAT
Found at i:89292972 original size:20 final size:20
Alignment explanation
Indices: 89292947--89292984 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
89292937 AACGAGATCT
89292947 AGCCTTGTTGAAGATTCTCG
1 AGCCTTGTTGAAGATTCTCG
*
89292967 AGCCTTGTTGCAGATTCT
1 AGCCTTGTTGAAGATTCT
89292985 TTGGTCTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.37
Consensus pattern (20 bp):
AGCCTTGTTGAAGATTCTCG
Found at i:89295132 original size:24 final size:24
Alignment explanation
Indices: 89295105--89295152 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
89295095 GTGAAACTAT
89295105 AAAGGCTGAAAAGCCGAAAAGTAG
1 AAAGGCTGAAAAGCCGAAAAGTAG
*
89295129 AAAGGCTGAAAAGCCGGAAAGTAG
1 AAAGGCTGAAAAGCCGAAAAGTAG
89295153 GTTGTCGACA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.48, C:0.12, G:0.31, T:0.08
Consensus pattern (24 bp):
AAAGGCTGAAAAGCCGAAAAGTAG
Found at i:89295599 original size:27 final size:27
Alignment explanation
Indices: 89295559--89295632 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
89295549 AAAATGACCG
**
89295559 AATACCCCAATAGGGTAAAATGACTAT
1 AATACCCCTGTAGGGTAAAATGACTAT
* * *
89295586 AATACCCTTGTAGGGTAAAATGATTGT
1 AATACCCCTGTAGGGTAAAATGACTAT
*
89295613 AATACCCCTGTAAGGTAAAA
1 AATACCCCTGTAGGGTAAAA
89295633 GGATAGTTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.26
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAATGACTAT
Found at i:89295659 original size:27 final size:27
Alignment explanation
Indices: 89295629--89295869 Score: 177
Period size: 27 Copynumber: 8.9 Consensus size: 27
89295619 CCTGTAAGGT
*
89295629 AAAAGGATAGTTTTGCCCTTATGTGGC
1 AAAATGATAGTTTTGCCCTTATGTGGC
* * **
89295656 AAAATGATTGTTTTGCCCTTATATGTT
1 AAAATGATAGTTTTGCCCTTATGTGGC
* * **
89295683 AAAATGACAATTTTGCCCTTATGTGAT
1 AAAATGATAGTTTTGCCCTTATGTGGC
* *
89295710 AAAATGACAGTTTTACCCTTATGTGGC
1 AAAATGATAGTTTTGCCCTTATGTGGC
**
89295737 AAAATGACT-GTTTTGCCCTTATGTGTT
1 AAAATGA-TAGTTTTGCCCTTATGTGGC
* * * * *
89295764 AAAATAACGAATTTT-CCCTTATGAGGT
1 AAAATGA-TAGTTTTGCCCTTATGTGGC
* *
89295791 AAAATGAT-GATTTTGCCCTTATGAGGT
1 AAAATGATAG-TTTTGCCCTTATGTGGC
* *
89295818 AAAATGATTA-TTTTGTCCTTATGTGGT
1 AAAATGA-TAGTTTTGCCCTTATGTGGC
** *
89295845 AGGATGACTA-TTTTGCCCCTATGTG
1 AAAATGA-TAGTTTTGCCCTTATGTG
89295870 ATGTTTGTTT
Statistics
Matches: 175, Mismatches: 33, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
26 4 0.02
27 166 0.95
28 5 0.03
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (27 bp):
AAAATGATAGTTTTGCCCTTATGTGGC
Found at i:89295686 original size:54 final size:53
Alignment explanation
Indices: 89295599--89295869 Score: 197
Period size: 54 Copynumber: 5.0 Consensus size: 53
89295589 ACCCTTGTAG
** * * * * *
89295599 GGTAAAATGATTGTAATACCCCTGTAAGGTAAAAGGATAGTTTTGCCCTTATGT
1 GGTAAAATGATTGTTTTGCCCTTATATGGTAAAATGAT-GTTTTGCCCTTATGT
* * **
89295653 GGCAAAATGATTGTTTTGCCCTTATATGTTAAAATGACAATTTTGCCCTTATGT
1 GGTAAAATGATTGTTTTGCCCTTATATGGTAAAATGA-TGTTTTGCCCTTATGT
* ** * * *
89295707 GATAAAATGACAGTTTTACCCTTATGTGGCAAAATGACTGTTTTGCCCTTATGT
1 GGTAAAATGATTGTTTTGCCCTTATATGGTAAAATGA-TGTTTTGCCCTTATGT
* ** *
89295761 GTTAAAAT-AACGAATTTT-CCCTTATGA-GGTAAAATGATGATTTTGCCCTTATGA
1 GGTAAAATGATTG--TTTTGCCCTTAT-ATGGTAAAATGATG-TTTTGCCCTTATGT
* * * ** * *
89295815 GGTAAAATGATTATTTTGTCCTTATGTGGTAGGATGACTATTTTGCCCCTATGT
1 GGTAAAATGATTGTTTTGCCCTTATATGGTAAAATGA-TGTTTTGCCCTTATGT
89295869 G
1 G
89295870 ATGTTTGTTT
Statistics
Matches: 170, Mismatches: 38, Indels: 18
0.75 0.17 0.08
Matches are distributed among these distances:
53 8 0.05
54 156 0.92
55 6 0.04
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (53 bp):
GGTAAAATGATTGTTTTGCCCTTATATGGTAAAATGATGTTTTGCCCTTATGT
Found at i:89295722 original size:81 final size:80
Alignment explanation
Indices: 89295628--89295871 Score: 292
Period size: 81 Copynumber: 3.0 Consensus size: 80
89295618 CCCTGTAAGG
* *
89295628 TAAAAGGATAGTTTTGCCCTTATGTGGCAAAATGATTGTTTTGCCCTTATATGTTAAAATGACAA
1 TAAAATGA-AGTTTTGCCCTTATGTGGCAAAATGATTGTTTTGCCCTTATGTGTTAAAATGACAA
89295693 TTTTGCCCTTATGTGA
65 TTTTGCCCTTATGTGA
* * *
89295709 TAAAATGACAGTTTTACCCTTATGTGGCAAAATGACTGTTTTGCCCTTATGTGTTAAAATAACGA
1 TAAAATGA-AGTTTTGCCCTTATGTGGCAAAATGATTGTTTTGCCCTTATGTGTTAAAATGAC-A
* *
89295774 ATTTT-CCCTTATGAGG
64 ATTTTGCCCTTATGTGA
* * * * * * ** *
89295790 TAAAATGATGATTTTGCCCTTATGAGGTAAAATGATTATTTTGTCCTTATGTGGTAGGATGACTA
1 TAAAATGAAG-TTTTGCCCTTATGTGGCAAAATGATTGTTTTGCCCTTATGTGTTAAAATGACAA
*
89295855 TTTTGCCCCTATGTGA
65 TTTTGCCCTTATGTGA
89295871 T
1 T
89295872 GTTTGTTTAT
Statistics
Matches: 137, Mismatches: 23, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
80 6 0.04
81 125 0.91
82 6 0.04
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (80 bp):
TAAAATGAAGTTTTGCCCTTATGTGGCAAAATGATTGTTTTGCCCTTATGTGTTAAAATGACAAT
TTTGCCCTTATGTGA
Found at i:89296267 original size:18 final size:18
Alignment explanation
Indices: 89296193--89296267 Score: 71
Period size: 18 Copynumber: 4.1 Consensus size: 18
89296183 AGGACTTGCA
*
89296193 TACTATTTACTGTTACTG
1 TACTGTTTACTGTTACTG
* *
89296211 CATACTG-TTACTGCTACTA
1 --TACTGTTTACTGTTACTG
* * *
89296230 CACTGTTTACTATTATTG
1 TACTGTTTACTGTTACTG
89296248 TACTGTTTACTGTTACTG
1 TACTGTTTACTGTTACTG
89296266 TA
1 TA
89296268 ATGAGCCAAG
Statistics
Matches: 43, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
17 4 0.09
18 25 0.58
19 10 0.23
20 4 0.09
ACGTcount: A:0.23, C:0.19, G:0.12, T:0.47
Consensus pattern (18 bp):
TACTGTTTACTGTTACTG
Found at i:89298248 original size:21 final size:22
Alignment explanation
Indices: 89298222--89298270 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
89298212 TATTATTTTT
89298222 TATATTAATC-AAAATAAATAA
1 TATATTAATCAAAAATAAATAA
*
89298243 TATATTATTCAAAAATAAATAA
1 TATATTAATCAAAAATAAATAA
89298265 TATATT
1 TATATT
89298271 GTATATAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 9 0.35
22 17 0.65
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (22 bp):
TATATTAATCAAAAATAAATAA
Found at i:89308034 original size:30 final size:30
Alignment explanation
Indices: 89307998--89308056 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
89307988 ACTTAACAAG
89307998 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
* *
89308028 CAAATGTCTTTAAATTAATAACAAAATTA
1 CAAATGTCTCTAAAATAATAACAAAATTA
89308057 GCAATAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.54, C:0.12, G:0.03, T:0.31
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAATTAA
Found at i:89326568 original size:24 final size:23
Alignment explanation
Indices: 89326524--89326568 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
89326514 TTTATTTTAA
89326524 TTATTTATTTCTTTATTTCTATT
1 TTATTTATTTCTTTATTTCTATT
*
89326547 TTATTTATTTTTATTATTTCTA
1 TTATTTATTTCT-TTATTTCTA
89326569 GACGTTTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (23 bp):
TTATTTATTTCTTTATTTCTATT
Found at i:89327790 original size:16 final size:16
Alignment explanation
Indices: 89327769--89327799 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
89327759 TTCTTCTGCA
89327769 ATTTATTCATACAGTG
1 ATTTATTCATACAGTG
*
89327785 ATTTATTCGTACAGT
1 ATTTATTCATACAGT
89327800 TCTTCTGCAT
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:0.29, C:0.13, G:0.13, T:0.45
Consensus pattern (16 bp):
ATTTATTCATACAGTG
Found at i:89338984 original size:51 final size:50
Alignment explanation
Indices: 89338809--89338983 Score: 230
Period size: 51 Copynumber: 3.5 Consensus size: 50
89338799 CTAGTGACTT
* *
89338809 AAGTGTGGTACTATGTGAAGGCCACTTTGAGAAG-AGATAGCTTGGTCAC
1 AAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGTCAC
*
89338858 AAGTGTGGTACTAT-TGAAGGCCACGTTGTGAAGAAAGATAGCTTTCGTCAC
1 AAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGATAGCTTT-GTCAC
* * *
89338909 AAGTGTGGTACTATGTGAAGGCCATTTTGTGAAGAAGGTAGCTTTGACTAC
1 AAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGTC-AC
*
89338960 AA-TGGTGGTACTATGTGCAGGCCA
1 AAGT-GTGGTACTATGTGAAGGCCA
89338984 TCCGGTATTT
Statistics
Matches: 112, Mismatches: 8, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
48 17 0.15
49 14 0.12
50 12 0.11
51 52 0.46
52 17 0.15
ACGTcount: A:0.28, C:0.14, G:0.30, T:0.28
Consensus pattern (50 bp):
AAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGTCAC
Done.