Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 91 of 230
Found at i:25416063 original size:120 final size:121
Alignment explanation
Indices: 25415927--25416229 Score: 501
Period size: 120 Copynumber: 2.5 Consensus size: 121
25415917 ATCATATTTA
25415927 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
25415992 TATTCTTATACGAATTTACTCAAATCATAATATATGATACTGTAAAAT-ATAAA-TT-
66 TATTCTTATACGAATTTACTCAAATCATAATATATGATACTGT-AAATGA-AAACTTG
25416047 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
25416112 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAATGAAAACTTG
66 TATTCTTATACGAATTTACTCAAATCATAATATATGATACTGTAAATGAAAACTTG
* * *
25416168 AA-ATAATTAATATTAAATATATTTTAATTAAAATATATAATTTAA-AATAATT-TAAATAATTA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAA-AATTCTTAATAATTA
25416230 TAACTAATAA
Statistics
Matches: 175, Mismatches: 4, Indels: 9
0.93 0.02 0.05
Matches are distributed among these distances:
119 18 0.10
120 155 0.89
121 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (121 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATACGAATTTACTCAAATCATAATATATGATACTGTAAATGAAAACTTG
Found at i:25416092 original size:14 final size:15
Alignment explanation
Indices: 25416043--25416094 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
25416033 GTAAAATATA
25416043 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
25416058 TATTAAATATATTAT
1 AATTAAATATATTAT
25416073 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
25416086 AATTTAATA
1 AATTAAATA
25416095 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:25416305 original size:24 final size:25
Alignment explanation
Indices: 25416259--25416306 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
25416249 TATGAATTTG
25416259 TATAATTTAAAATAATAATTATTACA
1 TATAATTTAAAAT-ATAATTATTACA
25416285 TATAATTTAATAAT-TAA-TATTA
1 TATAATTTAA-AATATAATTATTA
25416307 AATTTCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.24
25 3 0.14
26 10 0.48
27 3 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TATAATTTAAAATATAATTATTACA
Found at i:25416345 original size:92 final size:90
Alignment explanation
Indices: 25416234--25416442 Score: 271
Period size: 92 Copynumber: 2.3 Consensus size: 90
25416224 TAATTATAAC
* * *
25416234 TAATAAATTATATTT-TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATTTAATA
1 TAATAAATT-T-TTTATATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTTAAT-
* *
25416297 ATTAATAT-TAAATTTCATAAAATTCTTGA
62 AGTAATATAT-AATTTCATAAAATTCTTAA
25416326 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAGT
1 TAATAAATTTT-TTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAGT
*
25416391 GATATATAATTTCATAAAATTCTTAA
65 AATATATAATTTCATAAAATTCTTAA
25416417 TAATAAAATGTTTTTATATGAATTTA
1 TAAT-AAAT-TTTTTATATGAATTTA
25416443 CTAAAATCAA
Statistics
Matches: 105, Mismatches: 6, Indels: 12
0.85 0.05 0.10
Matches are distributed among these distances:
90 1 0.01
91 31 0.30
92 67 0.64
93 6 0.06
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (90 bp):
TAATAAATTTTTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAGTA
ATATATAATTTCATAAAATTCTTAA
Found at i:25419776 original size:97 final size:97
Alignment explanation
Indices: 25419666--25419998 Score: 639
Period size: 97 Copynumber: 3.4 Consensus size: 97
25419656 TTTAATAACA
*
25419666 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACTGAATTATATTTTAAT
1 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
25419731 TAAAATATGCAGATTTAATCTTAAATTTGGAC
66 TAAAATATGCAGATTTAATCTTAAATTTGGAC
*
25419763 ATTATATAGGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
1 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
25419828 TAAAATATGCAGATTTAATCTTAAATTTGGAC
66 TAAAATATGCAGATTTAATCTTAAATTTGGAC
*
25419860 ATTATATAGGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
1 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
25419925 TAAAATATGCAGATTTAATCTTAAATTTGGAC
66 TAAAATATGCAGATTTAATCTTAAATTTGGAC
25419957 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATA
1 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATA
25419999 CATAATTTAA
Statistics
Matches: 233, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
97 233 1.00
ACGTcount: A:0.37, C:0.08, G:0.14, T:0.41
Consensus pattern (97 bp):
ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
TAAAATATGCAGATTTAATCTTAAATTTGGAC
Found at i:25420101 original size:13 final size:13
Alignment explanation
Indices: 25420083--25420109 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
25420073 TAGAAACAAC
25420083 TATATTGTTTAAA
1 TATATTGTTTAAA
25420096 TATATTGTTTAAA
1 TATATTGTTTAAA
25420109 T
1 T
25420110 TAAACCGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (13 bp):
TATATTGTTTAAA
Found at i:25423315 original size:13 final size:13
Alignment explanation
Indices: 25423294--25423349 Score: 53
Period size: 13 Copynumber: 4.2 Consensus size: 13
25423284 GGTCCCTGAC
*
25423294 TTCTTTTTATTAT
1 TTCTCTTTATTAT
25423307 TTCTCTTTATTAT
1 TTCTCTTTATTAT
*
25423320 TT-TGTTTATTTAT
1 TTCTCTTTA-TTAT
25423333 TGT-TCTTTTATTAT
1 T-TCTC-TTTATTAT
25423347 TTC
1 TTC
25423350 CATTTATATT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
12 5 0.14
13 20 0.56
14 7 0.19
15 4 0.11
ACGTcount: A:0.14, C:0.09, G:0.04, T:0.73
Consensus pattern (13 bp):
TTCTCTTTATTAT
Found at i:25428391 original size:18 final size:18
Alignment explanation
Indices: 25428368--25428408 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
25428358 CTTCACTTGA
*
25428368 AAAAAAAGAAAATTAATG
1 AAAAAAAGAAAATGAATG
*
25428386 AAAAAAAGAAAATGAGTG
1 AAAAAAAGAAAATGAATG
25428404 AAAAA
1 AAAAA
25428409 GAAAAAGGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.73, C:0.00, G:0.15, T:0.12
Consensus pattern (18 bp):
AAAAAAAGAAAATGAATG
Found at i:25429581 original size:44 final size:44
Alignment explanation
Indices: 25429533--25429995 Score: 206
Period size: 44 Copynumber: 10.5 Consensus size: 44
25429523 CCGGTAGTTC
* * *
25429533 TATCTCCCTGGGCAGCAGAGGAATAGATTGAAGATTACAGATCT
1 TATCTCCCTGAGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
* * * * * ** * *
25429577 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGCGGATTT
1 TATCTCCCTGAGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
* * * * * * *
25429621 TACCTCCCTGAG-ATTACAGTGGAGTACATTAAAG-CTAGTAGTTC-
1 TATCTCCCTGAGCA--GCAGTGGAGTAGATTGAAGATTA-CAGATCT
* * *
25429665 TATCTCCCTGGGTAGCAGTGGAATAGATTGAAGATTACAGATCT
1 TATCTCCCTGAGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
* * * * * ** *
25429709 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATGGCAGATTT
1 TATCTCCCTGAGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
* * * * * ** * *
25429753 TACCTCCTTGAG-ATTACGGTGGAGTACATTGAA-ACCAGTAGTTC-
1 TATCTCCCTGAGCA--GCAGTGGAGTAGATTGAAGATTA-CAGATCT
* * *
25429797 TATCTCCCTGGGCAGCAGAGGAATAGATTGAAGATTACAGATCT
1 TATCTCCCTGAGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
* * * * ** *
25429841 TATCTCCCTAAGCAGTAGTGGAGTAGGTCGAAGATGGCAGATTT
1 TATCTCCCTGAGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
* * * * * * * *
25429885 TACCTCCTTGAG-ATTACAGTGGAGTACATTAAAG-TCGATAGTTC-
1 TATCTCCCTGAGCA--GCAGTGGAGTAGATTGAAGAT-TACAGATCT
* * *
25429929 TATCTCCTTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCT
1 TATCTCCCTGAGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
* * * *
25429973 GATCTCTCTAAGCAGTAGTGGAG
1 TATCTCCCTGAGCAGCAGTGGAG
25429996 CAGACAGAAA
Statistics
Matches: 287, Mismatches: 114, Indels: 36
0.66 0.26 0.08
Matches are distributed among these distances:
43 59 0.21
44 179 0.62
45 49 0.17
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (44 bp):
TATCTCCCTGAGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
Found at i:25429640 original size:132 final size:132
Alignment explanation
Indices: 25429483--25429998 Score: 847
Period size: 132 Copynumber: 3.9 Consensus size: 132
25429473 AGTCGATAGT
* *
25429483 AGATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCGGTAGTTCTATCTCCCTGGGCAG
1 AGATTTTACCTCCCTGAGATTACAGTGGAGTACATTAAAGCCAGTAGTTCTATCTCCCTGGGCAG
25429548 CAGAGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATG
66 CAGAGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATG
25429613 GC
131 GC
* * *
25429615 GGATTTTACCTCCCTGAGATTACAGTGGAGTACATTAAAGCTAGTAGTTCTATCTCCCTGGGTAG
1 AGATTTTACCTCCCTGAGATTACAGTGGAGTACATTAAAGCCAGTAGTTCTATCTCCCTGGGCAG
* * *
25429680 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATG
66 CAGAGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATG
25429745 GC
131 GC
* *
25429747 AGATTTTACCTCCTTGAGATTACGGTGGAGTACATTGAAA-CCAGTAGTTCTATCTCCCTGGGCA
1 AGATTTTACCTCCCTGAGATTACAGTGGAGTACATT-AAAGCCAGTAGTTCTATCTCCCTGGGCA
*
25429811 GCAGAGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGGTCGAAGAT
65 GCAGAGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGAT
25429876 GGC
130 GGC
* * *
25429879 AGATTTTACCTCCTTGAGATTACAGTGGAGTACATTAAAGTC-GATAGTTCTATCTCCTTGGGCA
1 AGATTTTACCTCCCTGAGATTACAGTGGAGTACATTAAAGCCAG-TAGTTCTATCTCCCTGGGCA
* * *
25429943 GCAGTGGAATAGATTGAAGATTACAGATCTGATCTCTCTAAGCAGTAGTGGAGCAG
65 GCAGAGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAG
25429999 ACAGAAAAAA
Statistics
Matches: 357, Mismatches: 24, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
131 4 0.01
132 350 0.98
133 3 0.01
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (132 bp):
AGATTTTACCTCCCTGAGATTACAGTGGAGTACATTAAAGCCAGTAGTTCTATCTCCCTGGGCAG
CAGAGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATG
GC
Found at i:25430037 original size:132 final size:130
Alignment explanation
Indices: 25429485--25430135 Score: 715
Period size: 132 Copynumber: 5.0 Consensus size: 130
25429475 TCGATAGTAG
* *
25429485 ATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCGGTAGTTCTATCTCCCTGGGCAGCA
1 ATTTTACCTCCCTGAGATTACAGTGGAGTACATTAAAGCC-ATAGTTCTATCTCCCTGGGCAGCA
* * * **
25429550 GAGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGC
65 GTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCA-GACGAAAAAAGC
**
25429615 GG
129 CA
* *
25429617 ATTTTACCTCCCTGAGATTACAGTGGAGTACATTAAAGCTAGTAGTTCTATCTCCCTGGGTAGCA
1 ATTTTACCTCCCTGAGATTACAGTGGAGTACATTAAAGCCA-TAGTTCTATCTCCCTGGGCAGCA
* *
25429682 GTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG-AAAATGG
65 GTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAAAAGC
25429746 CA
129 CA
* *
25429748 GATTTTACCTCCTTGAGATTACGGTGGAGTACATTGAAA-CCAGTAGTTCTATCTCCCTGGGCAG
1 -ATTTTACCTCCCTGAGATTACAGTGGAGTACATT-AAAGCCA-TAGTTCTATCTCCCTGGGCAG
* * * * *
25429812 CAGAGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGGTCG-AAGAT
63 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCA-GACGAAAAAA
*
25429876 GGCA
127 GCCA
* * *
25429880 GATTTTACCTCCTTGAGATTACAGTGGAGTACATTAAAGTCGATAGTTCTATCTCCTTGGGCAGC
1 -ATTTTACCTCCCTGAGATTACAGTGGAGTACATTAAAG-CCATAGTTCTATCTCCCTGGGCAGC
* * *
25429945 AGTGGAATAGATTGAAGATTACAGATCTGATCTCTCTAAGCAGTAGTGGAGCAGACAGAAAAAAA
64 AGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAC-GAAAAAAG
25430010 CCA
128 CCA
** * * *** * * ** * * *
25430013 ATCCTATCTCCCTGA-AGTTGCAGTGGAGCGGATTAAAACCACAAATCTTATCTCCCTAGACAGT
1 ATTTTACCTCCCTGAGA-TTACAGTGGAGTACATTAAAGCCATAGTTC-TATCTCCCTGGGCAGC
** * * *
25430077 AGTGGAGCAGATTG--CATCA-AG-TCTTATCTCCCTAAGCAGTAGTAGAGCAGACGAAAAAA
64 AGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAAAA
25430136 AAACCAATCC
Statistics
Matches: 452, Mismatches: 56, Indels: 27
0.84 0.10 0.05
Matches are distributed among these distances:
127 7 0.02
128 28 0.06
129 2 0.00
130 3 0.01
131 15 0.03
132 386 0.85
133 11 0.02
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (130 bp):
ATTTTACCTCCCTGAGATTACAGTGGAGTACATTAAAGCCATAGTTCTATCTCCCTGGGCAGCAG
TGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAAAAGCCA
Found at i:25430067 original size:264 final size:264
Alignment explanation
Indices: 25429489--25430126 Score: 808
Period size: 264 Copynumber: 2.4 Consensus size: 264
25429479 TAGTAGATTT
* * * *** *
25429489 TACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCGGTAGTTCTATCTCCCTGGGCAGCAGAGG
1 TACCTCCCTGAGATTACAGTGGAGCACATTAAAACCACAAATTCTATCTCCCTGGGCAGCAGAGG
*
25429554 AATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGCGGAT
66 AATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGCAGAT
* *
25429619 TTTACCTCCCTGAGATTACAGTGGAGTACATTAAAGCTAGTAGTTCTATCTCCCTGGGTAGCAGT
131 TTTACCTCCCTGAGATTACAGTGGAGTACATTAAAGCGAGTAGTTCTATCTCCCTGGGCAGCAGT
* ***
25429684 GGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATGGCAG
196 GGAATAGATTGAAGATTACAGATCTGATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAAAACCAG
**
25429749 ATTT
261 ATCC
* * * * ** *
25429753 TACCTCCTTGAGATTACGGTGGAGTACATTGAAACCAGTAGTTCTATCTCCCTGGGCAGCAGAGG
1 TACCTCCCTGAGATTACAGTGGAGCACATTAAAACCACAAATTCTATCTCCCTGGGCAGCAGAGG
*
25429818 AATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGGTCGAAGATGGCAGAT
66 AATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGCAGAT
* *
25429883 TTTACCTCCTTGAGATTACAGTGGAGTACATTAAAGTCGA-TAGTTCTATCTCCTTGGGCAGCAG
131 TTTACCTCCCTGAGATTACAGTGGAGTACATTAAAG-CGAGTAGTTCTATCTCCCTGGGCAGCAG
*
25429947 TGGAATAGATTGAAGATTACAGATCTGATCTCTCTAAGCAGTAGTGGAGCAGA-CAGAAAAAAAC
195 TGGAATAGATTGAAGATTACAGATCTGATCTCCCTAAGCAGTAGTGGAGCAGATC-G-AAAAAAC
25430011 CA-ATCC
258 CAGATCC
* * ** * * * *
25430017 TATCTCCCTGA-AGTTGCAGTGGAGCGGATTAAAACCACAAA-TCTTATCTCCCTAGACAGTAGT
1 TACCTCCCTGAGA-TTACAGTGGAGCACATTAAAACCACAAATTC-TATCTCCCTGGGCAGCAGA
** * * *
25430080 GGAGCAGATTG--CATCA-AG-TCTTATCTCCCTAAGCAGTAGTAGAGCAG
64 GGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAG
25430127 ACGAAAAAAA
Statistics
Matches: 331, Mismatches: 38, Indels: 14
0.86 0.10 0.04
Matches are distributed among these distances:
260 27 0.08
261 2 0.01
262 3 0.01
263 4 0.01
264 287 0.87
265 8 0.02
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.26
Consensus pattern (264 bp):
TACCTCCCTGAGATTACAGTGGAGCACATTAAAACCACAAATTCTATCTCCCTGGGCAGCAGAGG
AATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGCAGAT
TTTACCTCCCTGAGATTACAGTGGAGTACATTAAAGCGAGTAGTTCTATCTCCCTGGGCAGCAGT
GGAATAGATTGAAGATTACAGATCTGATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAAAACCAG
ATCC
Found at i:25430164 original size:129 final size:128
Alignment explanation
Indices: 25429974--25430263 Score: 447
Period size: 129 Copynumber: 2.2 Consensus size: 128
25429964 TACAGATCTG
* * *
25429974 ATCTCTCTAAGCAGTAGTGGAGCAGACAGAAAAAAACCAATCCTATCTCCCTGAAGTTGCAGTGG
1 ATCTCCCTAAGCAGTAGTAGAGCAGACAAAAAAAAACCAATCCTATCTCCCTGAAGTTGCAGTGG
*
25430039 AGCGGATTAAAACCACAAATCTTATCTCCCT-AGACAGTAGTGGAGCAGATTGCATCAAGTCTT
66 AGCGGATTAAAACCACAAATCTTATCTCCCTAAG-CAGTAGTGGAGCAGATCGCATCAAGTCTT
25430102 ATCTCCCTAAGCAGTAGTAGAGCAGACGAAAAAAAAACCAATCCTATCTCCCTGAAGTTGCAGTG
1 ATCTCCCTAAGCAGTAGTAGAGCAGAC-AAAAAAAAACCAATCCTATCTCCCTGAAGTTGCAGTG
* * *
25430167 GAGCGGATTAAAACTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGCATCAAGTCTT
65 GAGCGGATTAAAACCACAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTT
** * *
25430231 ATCTCCCTGAAGTTGCAGTAGAGCAGACTAAAA
1 ATCTCCCT-AAGCAGTAGTAGAGCAGACAAAAA
25430264 CCACAAATCC
Statistics
Matches: 148, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
128 25 0.17
129 105 0.71
130 18 0.12
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.23
Consensus pattern (128 bp):
ATCTCCCTAAGCAGTAGTAGAGCAGACAAAAAAAAACCAATCCTATCTCCCTGAAGTTGCAGTGG
AGCGGATTAAAACCACAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTT
Found at i:25430210 original size:43 final size:43
Alignment explanation
Indices: 25429965--25430212 Score: 150
Period size: 44 Copynumber: 5.7 Consensus size: 43
25429955 ATTGAAGATT
* * * ** *
25429965 ACAGATCTGATCTCTCTAAGCAGTAGTGGAGCAGACAGAAAAAA
1 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCGGA-TTAAAACA
* ** * *
25430009 ACCA-ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACC
1 A-CAGATCTTATCTCCCT-AAGCAGTAGTGGAGCGGATTAAAACA
* * ** *
25430053 ACAAATCTTATCTCCCT-AGACAGTAGTGGAGCAGATTGCATC-
1 ACAGATCTTATCTCCCTAAG-CAGTAGTGGAGCGGATTAAAACA
* * *
25430095 A-AG-TCTTATCTCCCTAAGCAGTAGTAGAGCAGACGA-AAAAAAA
1 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGC-G--GATTAAAACA
* ** * *
25430138 ACCA-ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACT
1 A-CAGATCTTATCTCCCT-AAGCAGTAGTGGAGCGGATTAAAACA
25430182 ACAGATCTTATCTCCCTAAGCAGTAGTGGAG
1 ACAGATCTTATCTCCCTAAGCAGTAGTGGAG
25430213 TAGATCGCAT
Statistics
Matches: 150, Mismatches: 39, Indels: 31
0.68 0.18 0.14
Matches are distributed among these distances:
40 23 0.15
41 3 0.02
42 4 0.03
43 35 0.23
44 45 0.30
45 29 0.19
46 11 0.07
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.23
Consensus pattern (43 bp):
ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCGGATTAAAACA
Found at i:25431643 original size:13 final size:13
Alignment explanation
Indices: 25431622--25431677 Score: 53
Period size: 13 Copynumber: 4.2 Consensus size: 13
25431612 GGTCCCTGAC
*
25431622 TTCTTTTTATTAT
1 TTCTCTTTATTAT
25431635 TTCTCTTTATTAT
1 TTCTCTTTATTAT
*
25431648 TT-TGTTTATTTAT
1 TTCTCTTTA-TTAT
25431661 TGT-TCTTTTATTAT
1 T-TCTC-TTTATTAT
25431675 TTC
1 TTC
25431678 CATTTATATT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
12 5 0.14
13 20 0.56
14 7 0.19
15 4 0.11
ACGTcount: A:0.14, C:0.09, G:0.04, T:0.73
Consensus pattern (13 bp):
TTCTCTTTATTAT
Found at i:25439634 original size:8 final size:9
Alignment explanation
Indices: 25439613--25439644 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
25439603 ATTATTTAAA
25439613 AAAAATTAT
1 AAAAATTAT
25439622 AAAAATTAT
1 AAAAATTAT
*
25439631 AAAAAATAT
1 AAAAATTAT
25439640 AAAAA
1 AAAAA
25439645 CTTTCAGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (9 bp):
AAAAATTAT
Found at i:25448062 original size:25 final size:25
Alignment explanation
Indices: 25448026--25448079 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
25448016 GACATTACGT
* * *
25448026 CACATAGCCTTTACAGGTAACTTTC
1 CACATAGACTTTACAGATAACTTGC
25448051 CACATAGACTTTACAGATAACTTGC
1 CACATAGACTTTACAGATAACTTGC
25448076 CACA
1 CACA
25448080 AAGGCTTCCC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.33, C:0.28, G:0.11, T:0.28
Consensus pattern (25 bp):
CACATAGACTTTACAGATAACTTGC
Found at i:25448128 original size:26 final size:25
Alignment explanation
Indices: 25448074--25448142 Score: 102
Period size: 26 Copynumber: 2.7 Consensus size: 25
25448064 CAGATAACTT
25448074 GCCACAAAGGCTTCCCAAATAAATA
1 GCCACAAAGGCTTCCCAAATAAATA
*
25448099 GCCACAAAGGCTTCCACAAATAAATC
1 GCCACAAAGGCTTCC-CAAATAAATA
* *
25448125 GCCATAAAGGCTTTCCAA
1 GCCACAAAGGCTTCCCAA
25448143 CCAATTCGCC
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
25 18 0.45
26 22 0.55
ACGTcount: A:0.41, C:0.29, G:0.13, T:0.17
Consensus pattern (25 bp):
GCCACAAAGGCTTCCCAAATAAATA
Found at i:25450220 original size:26 final size:25
Alignment explanation
Indices: 25450185--25450250 Score: 69
Period size: 26 Copynumber: 2.6 Consensus size: 25
25450175 GCAGCTCTTA
* **
25450185 TGAGCGTCCCGTTATATTGCTCTTCG
1 TGAGCTTCCCGTTA-AAGGCTCTTCG
*
25450211 TGAGCTTCCCGATTAAAGGCTCTTTG
1 TGAGCTTCCCG-TTAAAGGCTCTTCG
*
25450237 TAAGCTTCCCGTTA
1 TGAGCTTCCCGTTA
25450251 GTGCTCACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
25 3 0.09
26 28 0.82
27 3 0.09
ACGTcount: A:0.17, C:0.26, G:0.21, T:0.36
Consensus pattern (25 bp):
TGAGCTTCCCGTTAAAGGCTCTTCG
Found at i:25450319 original size:24 final size:24
Alignment explanation
Indices: 25450292--25450345 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
25450282 TCTGGTGCTT
25450292 CCGTTAATTACTCTTCAGAGCTAC
1 CCGTTAATTACTCTTCAGAGCTAC
* **
25450316 CCGTTAATTGCTCTTTGGAGCTAC
1 CCGTTAATTACTCTTCAGAGCTAC
25450340 CCGTTA
1 CCGTTA
25450346 TATTGCCCGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.35
Consensus pattern (24 bp):
CCGTTAATTACTCTTCAGAGCTAC
Found at i:25453094 original size:67 final size:67
Alignment explanation
Indices: 25452986--25453117 Score: 221
Period size: 67 Copynumber: 2.0 Consensus size: 67
25452976 TTTTCAATTC
25452986 AGAGAGCACACTCCCGCAAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTG
1 AGAGAGCACACTCCCGCAAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTG
25453051 CA
66 CA
* * *
25453053 AGAGAGCATACTCTCG-AGAACCTCATTTCTTACAGCGGGATTACTAGTCCAGGCTAAATCCCCT
1 AGAGAGCACACTCCCGCA-AACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCT
25453117 G
65 G
25453118 TAATATAAAC
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
66 1 0.02
67 60 0.98
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (67 bp):
AGAGAGCACACTCCCGCAAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTG
CA
Found at i:25453337 original size:57 final size:57
Alignment explanation
Indices: 25453244--25453352 Score: 157
Period size: 57 Copynumber: 1.9 Consensus size: 57
25453234 AATTCGGATT
* * *
25453244 ACCCGTCCGGGCTAAATCCATTTTCCATATATTCTTCGGGAGGGCTATATCAAGATC
1 ACCCATCCGGGCTAAATCCATTTTCCACATATTCTTCGGGAGGACTATATCAAGATC
* *
25453301 ACCCATCCGGGCTAGAT-CTTTTTCACACATATTCTTCGGGAGGACTATATCA
1 ACCCATCCGGGCTAAATCCATTTTC-CACATATTCTTCGGGAGGACTATATCA
25453353 GGATAGGATC
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
56 6 0.13
57 40 0.87
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (57 bp):
ACCCATCCGGGCTAAATCCATTTTCCACATATTCTTCGGGAGGACTATATCAAGATC
Found at i:25455557 original size:109 final size:109
Alignment explanation
Indices: 25455426--25455646 Score: 424
Period size: 109 Copynumber: 2.0 Consensus size: 109
25455416 AAAATTTTCG
25455426 AGGTATTACATATGGTGTGGTCTTAAAGATAATCAATTCTCCTACAACTTTCTCATGCACTTAAT
1 AGGTATTACATATGGTGTGGTCTTAAAGATAATCAATTCTCCTACAACTTTCTCATGCACTTAAT
25455491 AGGCTCTTAGTGCTCAACCAAAATTCTGGGCCGTACTCTTTCTT
66 AGGCTCTTAGTGCTCAACCAAAATTCTGGGCCGTACTCTTTCTT
25455535 AGGTATTACATATGGTGTGGTCTTAAAGATAATCAATTCTCCTACAACTTTCTCATGCACTTAAT
1 AGGTATTACATATGGTGTGGTCTTAAAGATAATCAATTCTCCTACAACTTTCTCATGCACTTAAT
**
25455600 AGGCTCTTAGTGCTCAACCAAAATTCTGGGGTGTACTCTTTCTT
66 AGGCTCTTAGTGCTCAACCAAAATTCTGGGCCGTACTCTTTCTT
25455644 AGG
1 AGG
25455647 CGTGCTCTTC
Statistics
Matches: 110, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
109 110 1.00
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.36
Consensus pattern (109 bp):
AGGTATTACATATGGTGTGGTCTTAAAGATAATCAATTCTCCTACAACTTTCTCATGCACTTAAT
AGGCTCTTAGTGCTCAACCAAAATTCTGGGCCGTACTCTTTCTT
Found at i:25457729 original size:22 final size:22
Alignment explanation
Indices: 25457645--25457739 Score: 66
Period size: 22 Copynumber: 4.3 Consensus size: 22
25457635 GGGAAAATAG
* *
25457645 AGAGCAAAAAAGTGCTAATCAC
1 AGAGCACAAAAGTGCTAATCAA
* * *
25457667 AGAGCACCTAAA-TGCTGAGCAA
1 AGAGCA-CAAAAGTGCTAATCAA
* * * *
25457689 AGCGTACAAAACTGCTAATCAT
1 AGAGCACAAAAGTGCTAATCAA
* * *
25457711 AGAGCACATAAGTGCTAATTAG
1 AGAGCACAAAAGTGCTAATCAA
25457733 AGAGCAC
1 AGAGCAC
25457740 TGATGTGCTG
Statistics
Matches: 54, Mismatches: 17, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
21 4 0.07
22 47 0.87
23 3 0.06
ACGTcount: A:0.43, C:0.20, G:0.20, T:0.17
Consensus pattern (22 bp):
AGAGCACAAAAGTGCTAATCAA
Found at i:25460667 original size:79 final size:78
Alignment explanation
Indices: 25460567--25460789 Score: 265
Period size: 79 Copynumber: 2.8 Consensus size: 78
25460557 GCTCCTCGTT
* *
25460567 CAAATGCCTTCAGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTC-GGACTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
25460632 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* *
25460647 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGACTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
*
25460710 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
* * * *
25460725 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGA-CTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
25460788 GA
63 GA
25460790 CATCATTCAA
Statistics
Matches: 124, Mismatches: 12, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
78 47 0.38
79 59 0.48
80 17 0.14
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGACTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:25460684 original size:39 final size:39
Alignment explanation
Indices: 25460567--25460789 Score: 242
Period size: 39 Copynumber: 5.6 Consensus size: 39
25460557 GCTCCTCGTT
* * *
25460567 CAAATGCCTTCAGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTC-GGGCTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
25460607 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
25460647 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
25460686 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* * *
25460725 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TCGCA
25460766 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
25460790 CATCATTCAA
Statistics
Matches: 163, Mismatches: 12, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
39 95 0.58
40 57 0.35
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:25468655 original size:79 final size:78
Alignment explanation
Indices: 25468553--25468775 Score: 265
Period size: 79 Copynumber: 2.8 Consensus size: 78
25468543 GCTCCTCGTT
* *
25468553 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
25468618 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
*
25468633 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
*
25468696 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
* * * * *
25468711 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
25468774 GA
63 GA
25468776 CATCATTCAA
Statistics
Matches: 125, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
78 47 0.38
79 57 0.46
80 20 0.16
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:25468670 original size:39 final size:40
Alignment explanation
Indices: 25468553--25468775 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
25468543 GCTCCTCGTT
* *
25468553 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
25468593 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
25468633 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
25468672 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
25468711 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
25468752 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
25468776 CATCATTCAA
Statistics
Matches: 166, Mismatches: 9, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
38 2 0.01
39 89 0.54
40 64 0.39
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:25471038 original size:17 final size:17
Alignment explanation
Indices: 25470988--25471038 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 17
25470978 AAATAATTGA
*
25470988 GATAAAAATAAATAAAT
1 GATAAAAATAAATAAAC
* * *
25471005 AAGAAAAATAAACAAAC
1 GATAAAAATAAATAAAC
*
25471022 GATAAAAATCAATAAAC
1 GATAAAAATAAATAAAC
25471039 CAATAAGGAA
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.71, C:0.08, G:0.06, T:0.16
Consensus pattern (17 bp):
GATAAAAATAAATAAAC
Found at i:25486533 original size:427 final size:427
Alignment explanation
Indices: 25485711--25486565 Score: 1595
Period size: 427 Copynumber: 2.0 Consensus size: 427
25485701 TTCTTCAGAT
*
25485711 TCCACCATGAAGGCGTTCCCTTACAAAGATAGCCACAAAGACTTTCCTTTCAGAGTCTCACTACA
1 TCCACCATGAAGGCGTTCCCTTACAAAGATAGCCACAAAGACTTTCCTTTCAGAGTCTCACCACA
25485776 AAGGTGTCCTTCTAACAAAGGGAGCCATAAAGGCATTCTTTTTATCAAAGATCGCCACTGATGGA
66 AAGGTGTCCTTCTAACAAAGGGAGCCATAAAGGCATTCTTTTTATCAAAGATCGCCACTGATGGA
25485841 CGTCGAAACCACCAAATATAAATTCCTACGACAAATATAACAGTAAATTGAAATATATAGCAGTA
131 CGTCGAAACCACCAAATATAAATTCCTACGACAAATATAACAGTAAATTGAAATATATAGCAGTA
*
25485906 GGGTCGAATCCATAGGGACTGGTTATCTAATTTCACATTTTCTTATGACCAGATTCGTTGTCGCA
196 GGGTCGAATCCATAGGGACTGGTTATCTAATTTCACATTTTCTTATGACCAGATTCGCTGTCGCA
*
25485971 GTCACAGTCGTGCCCACGACCTTTGCGTAGTAATGCTAAAATAAATAAATAAAAATGGGATATCT
261 GTCACAGTCGTGCCCACGACCTTTGCGTAGTAATGCTAAAATAAATAAATAAAAATGGGAGATCT
* *
25486036 AAATTGATTAAGATAATAAAATAAGGAAATATGAAGTGTAATAAAATAAAATAAAAACATATTTA
326 AAATTGATTAAGATAATAAAAAAAGGAAATATGAAGTGTAATAAAATAAAATAAAAACAGATTTA
25486101 AAATGCAAAAATAAATTTAAGAAAATGAAATAAATTG
391 AAATGCAAAAATAAATTTAAGAAAATGAAATAAATTG
*
25486138 TCCACCATGAAGGCGTTCCCTTACAAAGATAGCCACAGAGACTTTCCTTTCAGAGTCTCACCACA
1 TCCACCATGAAGGCGTTCCCTTACAAAGATAGCCACAAAGACTTTCCTTTCAGAGTCTCACCACA
* *
25486203 AAGGTGTCCTTCTAACAGAGGGAGCCATAAAGGCATTCTTTTTATCAAAGATCGCCACTGATGGG
66 AAGGTGTCCTTCTAACAAAGGGAGCCATAAAGGCATTCTTTTTATCAAAGATCGCCACTGATGGA
*
25486268 CGTCGAAACCACCAAATATAAATTCCTACGGCAAATATAACAGTAAATTGAAATATATAGCAGTA
131 CGTCGAAACCACCAAATATAAATTCCTACGACAAATATAACAGTAAATTGAAATATATAGCAGTA
* *
25486333 GGGTCGAATCCATAGGGACTGGTTATCTAATTTCACATTTTCTTGTGACCAGGTTCGCTGTCGCA
196 GGGTCGAATCCATAGGGACTGGTTATCTAATTTCACATTTTCTTATGACCAGATTCGCTGTCGCA
25486398 GTCACAGTCGTGCCCACGACCTTTGCGTAGTAATGCTAAAATAAATAAATAAAAATGGGAGATCT
261 GTCACAGTCGTGCCCACGACCTTTGCGTAGTAATGCTAAAATAAATAAATAAAAATGGGAGATCT
25486463 AAATTGATTAAGATAA-AAAAAAAGGAAATATGAAGTGTAATAAAATAAAATAAAAACAGATTTA
326 AAATTGATTAAGATAATAAAAAAAGGAAATATGAAGTGTAATAAAATAAAATAAAAACAGATTT-
25486527 AAAATGCAAAAATAAATTTAAGAAAATGAAATAAATTG
390 AAAATGCAAAAATAAATTTAAGAAAATGAAATAAATTG
25486565 T
1 T
25486566 TAAATAAAAT
Statistics
Matches: 416, Mismatches: 11, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
426 45 0.11
427 371 0.89
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (427 bp):
TCCACCATGAAGGCGTTCCCTTACAAAGATAGCCACAAAGACTTTCCTTTCAGAGTCTCACCACA
AAGGTGTCCTTCTAACAAAGGGAGCCATAAAGGCATTCTTTTTATCAAAGATCGCCACTGATGGA
CGTCGAAACCACCAAATATAAATTCCTACGACAAATATAACAGTAAATTGAAATATATAGCAGTA
GGGTCGAATCCATAGGGACTGGTTATCTAATTTCACATTTTCTTATGACCAGATTCGCTGTCGCA
GTCACAGTCGTGCCCACGACCTTTGCGTAGTAATGCTAAAATAAATAAATAAAAATGGGAGATCT
AAATTGATTAAGATAATAAAAAAAGGAAATATGAAGTGTAATAAAATAAAATAAAAACAGATTTA
AAATGCAAAAATAAATTTAAGAAAATGAAATAAATTG
Found at i:25487430 original size:13 final size:13
Alignment explanation
Indices: 25487412--25487477 Score: 81
Period size: 13 Copynumber: 5.5 Consensus size: 13
25487402 TAGATTTTTT
25487412 CTAAATATTATCA
1 CTAAATATTATCA
25487425 CTAAATA--ATC-
1 CTAAATATTATCA
25487435 CTAAATATTATCA
1 CTAAATATTATCA
*
25487448 CTAAATA--AT-T
1 CTAAATATTATCA
25487458 CTAAATATTATCA
1 CTAAATATTATCA
25487471 CTAAATA
1 CTAAATA
25487478 ATTCAACATT
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
10 14 0.31
11 5 0.11
12 5 0.11
13 21 0.47
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.36
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:25487440 original size:10 final size:11
Alignment explanation
Indices: 25487421--25487479 Score: 59
Period size: 10 Copynumber: 5.2 Consensus size: 11
25487411 TCTAAATATT
25487421 ATCACTAAATA
1 ATCACTAAATA
25487432 ATC-CTAAATA
1 ATCACTAAATA
25487442 TTATCACTAAATA
1 --ATCACTAAATA
*
25487455 AT-TCTAAATA
1 ATCACTAAATA
25487465 TTATCACTAAATA
1 --ATCACTAAATA
25487478 AT
1 AT
25487480 TCAACATTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
10 14 0.35
11 7 0.17
12 5 0.12
13 14 0.35
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (11 bp):
ATCACTAAATA
Found at i:25487480 original size:23 final size:23
Alignment explanation
Indices: 25487410--25487481 Score: 135
Period size: 23 Copynumber: 3.1 Consensus size: 23
25487400 GCTAGATTTT
25487410 TTCTAAATATTATCACTAAATAA
1 TTCTAAATATTATCACTAAATAA
*
25487433 TCCTAAATATTATCACTAAATAA
1 TTCTAAATATTATCACTAAATAA
25487456 TTCTAAATATTATCACTAAATAA
1 TTCTAAATATTATCACTAAATAA
25487479 TTC
1 TTC
25487482 AACATTTAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.39
Consensus pattern (23 bp):
TTCTAAATATTATCACTAAATAA
Found at i:25487988 original size:15 final size:16
Alignment explanation
Indices: 25487965--25487997 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
25487955 AGGCTCTTAG
25487965 TAAACAAATA-AAAAA
1 TAAACAAATAGAAAAA
*
25487980 TAAATAAATAGAAAAA
1 TAAACAAATAGAAAAA
25487996 TA
1 TA
25487998 GGGTCCAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (16 bp):
TAAACAAATAGAAAAA
Found at i:25501349 original size:84 final size:85
Alignment explanation
Indices: 25501242--25501404 Score: 233
Period size: 84 Copynumber: 1.9 Consensus size: 85
25501232 TAAAGTCGGC
* * *
25501242 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACC-TTAGATCTTATCT-CTCTGAAGT
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCGATA-ATCCTATCTCCT-TGAAGT
25501305 TGCAG-AGAGCAGATCGCATCT
64 TGCAGTAGAGCAGATCGCATCT
* *
25501326 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCTTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCGATAATCCTATCTCCTTGAAGTTG
*
25501391 CAGTGGAGCAGATC
66 CAGTAGAGCAGATC
25501405 AAAACCTTAG
Statistics
Matches: 70, Mismatches: 6, Indels: 5
0.86 0.07 0.06
Matches are distributed among these distances:
84 57 0.81
85 13 0.19
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (85 bp):
AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCGATAATCCTATCTCCTTGAAGTTG
CAGTAGAGCAGATCGCATCT
Found at i:25501438 original size:128 final size:128
Alignment explanation
Indices: 25501203--25501526 Score: 533
Period size: 128 Copynumber: 2.5 Consensus size: 128
25501193 CTGACAGTCC
* * **
25501203 TATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGTCGGCAATCCTATCTCCCTGAAGTTGCAGTG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTG
* *
25501268 GAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAATCT
66 GAGCAGATCAAAACCTTAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAATCT
*
25501331 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCTTGAAGTTGCAGTG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTG
*
25501396 GAGCAGATCAAAACCTTAGATCTTATCTCTCTGAA-TTCGCAGAGAGCAGATCGCATCTAGTCT
66 GAGCAGATCAAAACCTTAGATCTTATCTCTCTGAAGTT-GCAGAGAGCAGATCGCATCTAATCT
* * *
25501459 TATCTCCCTAAAGTTGCAGTGGAGCTGATTAAAGCCGATAATCCTATCTCCCTAAAGTTGCAGTG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTG
25501524 GAG
66 GAG
25501527 TGGATTAAAG
Statistics
Matches: 183, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
127 2 0.01
128 181 0.99
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (128 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTG
GAGCAGATCAAAACCTTAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAATCT
Found at i:25501536 original size:44 final size:44
Alignment explanation
Indices: 25501200--25501537 Score: 275
Period size: 44 Copynumber: 7.9 Consensus size: 44
25501190 TAGCTGACAG
* * **
25501200 TCCTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGTCGGCAA
1 TCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAA
* * *
25501244 TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACC-TTAGA
1 TCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATA-A
* * * * ***
25501288 TCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T--CGCATCTAA
1 TCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAA
*
25501328 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAA
1 TCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAA
* * * *
25501372 TCCTATCTCCTTGAAGTTGCAGTGGAGCAGATCAAAACC-TTAGA
1 TCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATA-A
* * * * *** *
25501416 TCTTATCTCTCTGAA-TTCGCAG-AGAGCAGA-T--CGCATCTAG
1 TCCTATCTCCCTGAAGTT-GCAGTGGAGCAGATTAAAGCCGATAA
* * *
25501456 TCTTATCTCCCTAAAGTTGCAGTGGAGCTGATTAAAGCCGATAA
1 TCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAA
* **
25501500 TCCTATCTCCCTAAAGTTGCAGTGGAGTGGATTAAAGC
1 TCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC
25501538 ACCAAATTCC
Statistics
Matches: 233, Mismatches: 47, Indels: 28
0.76 0.15 0.09
Matches are distributed among these distances:
40 41 0.18
41 19 0.08
42 3 0.01
43 18 0.08
44 152 0.65
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (44 bp):
TCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAA
Found at i:25501751 original size:15 final size:16
Alignment explanation
Indices: 25501728--25501760 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
25501718 AGGCTCTTAG
25501728 TAAACAAATA-AAAAA
1 TAAACAAATAGAAAAA
*
25501743 TAAATAAATAGAAAAA
1 TAAACAAATAGAAAAA
25501759 TA
1 TA
25501761 GGGTCCAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (16 bp):
TAAACAAATAGAAAAA
Found at i:25509413 original size:30 final size:31
Alignment explanation
Indices: 25509358--25509425 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
25509348 ACTCTTAAAA
** * **
25509358 TATTTACACTATTGGTCCTTCAAATTTTTTG
1 TATTTACACTATTAATCCCTCAAATTTTGAG
25509389 TATTTACACT-TTAATCCCTCAAATTTTGAG
1 TATTTACACTATTAATCCCTCAAATTTTGAG
25509419 TATTTAC
1 TATTTAC
25509426 TCTTGGGCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 22 0.69
31 10 0.31
ACGTcount: A:0.26, C:0.18, G:0.07, T:0.49
Consensus pattern (31 bp):
TATTTACACTATTAATCCCTCAAATTTTGAG
Found at i:25517019 original size:28 final size:28
Alignment explanation
Indices: 25516953--25517019 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
25516943 AATAAACACC
25516953 AAAA-ATTTATTTTAAAAATAAAAAACA
1 AAAACATTTATTTTAAAAATAAAAAACA
**
25516980 AAAACAAGTATTTTAAAAATAAAAAA-A
1 AAAACATTTATTTTAAAAATAAAAAACA
*
25517007 ATAAATATTTATT
1 A-AAACATTTATT
25517020 ATATATCCGG
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
27 6 0.18
28 27 0.82
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.31
Consensus pattern (28 bp):
AAAACATTTATTTTAAAAATAAAAAACA
Found at i:25520521 original size:21 final size:21
Alignment explanation
Indices: 25520495--25520534 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
25520485 TAACTTTGAT
25520495 AAATAATTATAAATTGTAAAA
1 AAATAATTATAAATTGTAAAA
* *
25520516 AAATAATTTTAATTTGTAA
1 AAATAATTATAAATTGTAA
25520535 TTTATATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (21 bp):
AAATAATTATAAATTGTAAAA
Found at i:25522774 original size:8 final size:8
Alignment explanation
Indices: 25522726--25522783 Score: 59
Period size: 8 Copynumber: 7.4 Consensus size: 8
25522716 AAAAATTATA
25522726 AATTTAAT
1 AATTTAAT
*
25522734 AATGTTAAC
1 AAT-TTAAT
*
25522743 AATATAAT
1 AATTTAAT
25522751 AA-TTAACT
1 AATTTAA-T
25522759 AA-TT-AT
1 AATTTAAT
25522765 AATTTAAT
1 AATTTAAT
25522773 AATTTAAT
1 AATTTAAT
25522781 AAT
1 AAT
25522784 ATTTTCTTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
6 3 0.07
7 6 0.14
8 26 0.62
9 7 0.17
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (8 bp):
AATTTAAT
Found at i:25523315 original size:21 final size:21
Alignment explanation
Indices: 25523289--25523340 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
25523279 GCGGTGGCGG
* * *
25523289 TGAGATTAGTTACTGTAGCGA
1 TGAGATTAGATACTATAACGA
* *
25523310 TGAGATTGGATACTATAACGG
1 TGAGATTAGATACTATAACGA
25523331 TGAGATTAGA
1 TGAGATTAGA
25523341 AACAATGGCG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.31
Consensus pattern (21 bp):
TGAGATTAGATACTATAACGA
Found at i:25529170 original size:269 final size:269
Alignment explanation
Indices: 25528691--25529227 Score: 1020
Period size: 269 Copynumber: 2.0 Consensus size: 269
25528681 AAAAAGTGGT
*
25528691 TACCATCAAATAAGAACGAAACAATATGATGAATGGAAAACTGCTTTTAAGACTAAGTATGGCCT
1 TACCATCAAATAAGAACGAAACAAGATGATGAATGGAAAACTGCTTTTAAGACTAAGTATGGCCT
*
25528756 GTATGAGTGGTTAGTCATGCCATTTGGCTTAACTAATGCTCCTAGCACATTCATGAGATTAATGA
66 GTATGAGTGGTTAGTCATGCCATTTGGCTTAACTAATGCTCCTAGCACATTCATGAGATTAATAA
*
25528821 ACCACATACTTAGACATTTTTTAGGAAAATTTGTCGTTGTGTATTTTGATGACATACTGATTTAT
131 ACCACATACTTAGACATTTTTTAGGAAAATTTGTCGTTGTGTATTTTGATGACATACTAATTTAT
25528886 AGCAAAACTTTGAATGATCATGTTGGGCATGTTAAATTAGTATTGGATGTGTTAAGGCATGAACG
196 AGCAAAACTTTGAATGATCATGTTGGGCATGTTAAATTAGTATTGGATGTGTTAAGGCATGAACG
25528951 ACTCTTTGC
261 ACTCTTTGC
*
25528960 TACCATCAAATAAGAATGAAACAAGATGATGAATGGAAAACTGCTTTTAAGACTAAGTATGGCCT
1 TACCATCAAATAAGAACGAAACAAGATGATGAATGGAAAACTGCTTTTAAGACTAAGTATGGCCT
*
25529025 GTATGAGTGGTTAGTCATGTCATTTGGCTTAACTAATGCTCCTAGCACATTCATGAGATTAATAA
66 GTATGAGTGGTTAGTCATGCCATTTGGCTTAACTAATGCTCCTAGCACATTCATGAGATTAATAA
*
25529090 ACCACATACTTAGACCTTTTTTAGGAAAATTTGTCGTTGTGTATTTTGATGACATACTAATTTAT
131 ACCACATACTTAGACATTTTTTAGGAAAATTTGTCGTTGTGTATTTTGATGACATACTAATTTAT
25529155 AGCAAAACTTTGAATGATCATGTTGGGCATGTTAAATTAGTATTGGATGTGTTAAGGCATGAACG
196 AGCAAAACTTTGAATGATCATGTTGGGCATGTTAAATTAGTATTGGATGTGTTAAGGCATGAACG
25529220 ACTCTTTG
261 ACTCTTTG
25529228 GTAATCTTGT
Statistics
Matches: 262, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
269 262 1.00
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.34
Consensus pattern (269 bp):
TACCATCAAATAAGAACGAAACAAGATGATGAATGGAAAACTGCTTTTAAGACTAAGTATGGCCT
GTATGAGTGGTTAGTCATGCCATTTGGCTTAACTAATGCTCCTAGCACATTCATGAGATTAATAA
ACCACATACTTAGACATTTTTTAGGAAAATTTGTCGTTGTGTATTTTGATGACATACTAATTTAT
AGCAAAACTTTGAATGATCATGTTGGGCATGTTAAATTAGTATTGGATGTGTTAAGGCATGAACG
ACTCTTTGC
Found at i:25531787 original size:27 final size:27
Alignment explanation
Indices: 25531749--25531807 Score: 109
Period size: 27 Copynumber: 2.2 Consensus size: 27
25531739 GGTAATGGAA
*
25531749 TGGCGACACCGGTGGTGCCATTCTCAT
1 TGGCGACACCGGTGGTGCCATTCCCAT
25531776 TGGCGACACCGGTGGTGCCATTCCCAT
1 TGGCGACACCGGTGGTGCCATTCCCAT
25531803 TGGCG
1 TGGCG
25531808 GCACAGGACT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.14, C:0.31, G:0.32, T:0.24
Consensus pattern (27 bp):
TGGCGACACCGGTGGTGCCATTCCCAT
Found at i:25533616 original size:19 final size:21
Alignment explanation
Indices: 25533574--25533622 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
25533564 TTAGTAAATA
*
25533574 ATTTTTTTATATTATTTTGGT
1 ATTTTTTTATATTATTTTGAT
*
25533595 ATTTTTTTAT-TTCTTTT-AT
1 ATTTTTTTATATTATTTTGAT
*
25533614 ATTATTTTA
1 ATTTTTTTA
25533623 GTAAAAAAGC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 9 0.36
20 6 0.24
21 10 0.40
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.73
Consensus pattern (21 bp):
ATTTTTTTATATTATTTTGAT
Found at i:25533810 original size:2 final size:2
Alignment explanation
Indices: 25533805--25533832 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
25533795 AAAAAAAAAA
25533805 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
25533833 GGAAAGCTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25534548 original size:42 final size:42
Alignment explanation
Indices: 25534489--25534573 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
25534479 TAGTCCTTTG
25534489 ACTCAATTACTTATTTTGTAGTCCTTCTATATGATAAAAACT
1 ACTCAATTACTTATTTTGTAGTCCTTCTATATGATAAAAACT
25534531 ACTCAATTACTTATTTTGTAGTCCTTCTATATGATAAAAACT
1 ACTCAATTACTTATTTTGTAGTCCTTCTATATGATAAAAACT
25534573 A
1 A
25534574 GGCCGCATTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.34, C:0.16, G:0.07, T:0.42
Consensus pattern (42 bp):
ACTCAATTACTTATTTTGTAGTCCTTCTATATGATAAAAACT
Found at i:25540623 original size:16 final size:16
Alignment explanation
Indices: 25540583--25540633 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
25540573 AAAAATTATG
* *
25540583 TTTTCCAT-CTTCTAG
1 TTTTCCATCCTTCCAA
*
25540598 TTTTCTATCCCTT-CAA
1 TTTTCCAT-CCTTCCAA
25540614 TTTTCCATCCTTCCAA
1 TTTTCCATCCTTCCAA
25540630 TTTT
1 TTTT
25540634 TTTTTCACTC
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
15 11 0.38
16 15 0.52
17 3 0.10
ACGTcount: A:0.16, C:0.29, G:0.02, T:0.53
Consensus pattern (16 bp):
TTTTCCATCCTTCCAA
Found at i:25542647 original size:22 final size:19
Alignment explanation
Indices: 25542598--25542638 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
25542588 ATAAAAGATA
*
25542598 TAAAATGATAAATTTATTT
1 TAAAATAATAAATTTATTT
*
25542617 TTAAATAATATAATTTATTT
1 TAAAATAATA-AATTTATTT
25542637 TA
1 TA
25542639 CAAAATAATG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (19 bp):
TAAAATAATAAATTTATTT
Found at i:25542958 original size:29 final size:31
Alignment explanation
Indices: 25542896--25542958 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 31
25542886 CACTTATAAA
* ** *
25542896 TTTTAATTCTTTATATAATTTTTTTTTTATT
1 TTTTAATTCTTTATATAATATTTTTTAAAAT
25542927 TTTTAA-T-TTTATATAATATTTTTTAAAAT
1 TTTTAATTCTTTATATAATATTTTTTAAAAT
25542956 TTT
1 TTT
25542959 GAAATGATGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 21 0.75
30 1 0.04
31 6 0.21
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.70
Consensus pattern (31 bp):
TTTTAATTCTTTATATAATATTTTTTAAAAT
Found at i:25543501 original size:22 final size:23
Alignment explanation
Indices: 25543474--25543518 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
25543464 TTAAGTGTTT
25543474 AATTAGGATTTAAGG-TTTATTA
1 AATTAGGATTTAAGGTTTTATTA
*
25543496 AATTAGGATTTTAGGTTTTATTA
1 AATTAGGATTTAAGGTTTTATTA
25543519 TTTTCAAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (23 bp):
AATTAGGATTTAAGGTTTTATTA
Found at i:25546944 original size:48 final size:48
Alignment explanation
Indices: 25546851--25546944 Score: 109
Period size: 48 Copynumber: 2.0 Consensus size: 48
25546841 CGAACTATCA
* ** * **
25546851 TTTTTTGCTAATATGTTGTATATAAATTGTTAAACTTTTGCTTTTTTT
1 TTTTTTGCTAATATCTTACATATAAATTGCTAAACTTTTAATTTTTTT
*
25546899 TTTTTTGCTAATCTCTTACATATAAATTGCTAAA-TTGTTAATTTTT
1 TTTTTTGCTAATATCTTACATATAAATTGCTAAACTT-TTAATTTTT
25546945 AGGATAGTGA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
47 2 0.05
48 36 0.95
ACGTcount: A:0.26, C:0.09, G:0.09, T:0.57
Consensus pattern (48 bp):
TTTTTTGCTAATATCTTACATATAAATTGCTAAACTTTTAATTTTTTT
Found at i:25551994 original size:18 final size:19
Alignment explanation
Indices: 25551961--25551996 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
25551951 ATGTTTTAGT
25551961 TATTTATTTAAGTAAAATA
1 TATTTATTTAAGTAAAATA
*
25551980 TATTTA-TTAATTAAAAT
1 TATTTATTTAAGTAAAAT
25551997 TAAAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (19 bp):
TATTTATTTAAGTAAAATA
Found at i:25555022 original size:47 final size:47
Alignment explanation
Indices: 25554912--25555010 Score: 153
Period size: 47 Copynumber: 2.1 Consensus size: 47
25554902 AAAGTGGAAG
* * *
25554912 TTATTGGCAGTTTATCTATAATTTTGATGGCTTGTCCACGATTTTGA
1 TTATTAGCAGTTTATCTACAATTTTGATGGCTTGTCCACAATTTTGA
* *
25554959 TTATTAGCAGTTTATCTACGATTTTGGTGGCTTGTCCACAATTTTGA
1 TTATTAGCAGTTTATCTACAATTTTGATGGCTTGTCCACAATTTTGA
25555006 TTATT
1 TTATT
25555011 GATAGTTTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.21, C:0.13, G:0.18, T:0.47
Consensus pattern (47 bp):
TTATTAGCAGTTTATCTACAATTTTGATGGCTTGTCCACAATTTTGA
Found at i:25555407 original size:8 final size:8
Alignment explanation
Indices: 25555394--25555424 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
25555384 AATTAAATTT
25555394 TATTTTGA
1 TATTTTGA
25555402 TATTTTGA
1 TATTTTGA
*
25555410 TATTTTAA
1 TATTTTGA
25555418 TATTTTG
1 TATTTTG
25555425 GGTTTGTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.26, C:0.00, G:0.10, T:0.65
Consensus pattern (8 bp):
TATTTTGA
Found at i:25559854 original size:57 final size:57
Alignment explanation
Indices: 25559782--25559895 Score: 183
Period size: 57 Copynumber: 2.0 Consensus size: 57
25559772 AGGTATCATT
* * *
25559782 TTTAAAATACGAATATCGATACCTCTGCTCCAGACCACAAAAATTCAACAGTTTAAG
1 TTTAAAATAAGAATATCGATACCTCTACTCCAGACCACAAAAATTCAACAATTTAAG
* *
25559839 TTTAAAATAATAATATCGATACCTCTACTCCAGACCACAAAAATTCGACAATTTAAG
1 TTTAAAATAAGAATATCGATACCTCTACTCCAGACCACAAAAATTCAACAATTTAAG
25559896 GCATATAATC
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 52 1.00
ACGTcount: A:0.42, C:0.22, G:0.09, T:0.27
Consensus pattern (57 bp):
TTTAAAATAAGAATATCGATACCTCTACTCCAGACCACAAAAATTCAACAATTTAAG
Found at i:25584380 original size:12 final size:12
Alignment explanation
Indices: 25584339--25584387 Score: 55
Period size: 12 Copynumber: 4.1 Consensus size: 12
25584329 AAAATGTTCG
25584339 ATAAAAAT-TAT
1 ATAAAAATATAT
* * *
25584350 ATATAAATTACAA
1 ATA-AAAATATAT
25584363 ATAAAAATATAT
1 ATAAAAATATAT
25584375 ATAAAAATATAT
1 ATAAAAATATAT
25584387 A
1 A
25584388 CAAATTTATA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
11 3 0.10
12 23 0.77
13 4 0.13
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (12 bp):
ATAAAAATATAT
Found at i:25584486 original size:23 final size:23
Alignment explanation
Indices: 25584460--25584510 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
25584450 ATATAGAAAC
25584460 AATATTATAAAATAATACATAAG
1 AATATTATAAAATAATACATAAG
25584483 AATATTATAAAATAATACATAAG
1 AATATTATAAAATAATACATAAG
25584506 AATAT
1 AATAT
25584511 ACATAGAGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (23 bp):
AATATTATAAAATAATACATAAG
Found at i:25584512 original size:12 final size:11
Alignment explanation
Indices: 25584466--25584565 Score: 80
Period size: 12 Copynumber: 8.7 Consensus size: 11
25584456 AAACAATATT
25584466 ATAAAATAATAC
1 ATAAAAT-ATAC
*
25584478 ATAAGAATAT-T
1 ATAA-AATATAC
25584489 ATAAAATAATAC
1 ATAAAAT-ATAC
25584501 ATAAGAATATAC
1 ATAA-AATATAC
** *
25584513 ATAGAGTTATGC
1 ATA-AAATATAC
25584525 ATAAATATATAC
1 ATAAA-ATATAC
25584537 A-AAAA-ATAC
1 ATAAAATATAC
25584546 ATAAAGATATAC
1 ATAAA-ATATAC
25584558 ATAAAATA
1 ATAAAATA
25584566 ATATTAACCC
Statistics
Matches: 71, Mismatches: 8, Indels: 19
0.72 0.08 0.19
Matches are distributed among these distances:
9 5 0.07
10 7 0.10
11 14 0.20
12 38 0.54
13 7 0.10
ACGTcount: A:0.60, C:0.07, G:0.06, T:0.27
Consensus pattern (11 bp):
ATAAAATATAC
Found at i:25584550 original size:21 final size:21
Alignment explanation
Indices: 25584524--25584565 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
25584514 TAGAGTTATG
*
25584524 CATAAATATATACAAAAAATA
1 CATAAAGATATACAAAAAATA
*
25584545 CATAAAGATATACATAAAATA
1 CATAAAGATATACAAAAAATA
25584566 ATATTAACCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.64, C:0.10, G:0.02, T:0.24
Consensus pattern (21 bp):
CATAAAGATATACAAAAAATA
Found at i:25584563 original size:23 final size:23
Alignment explanation
Indices: 25584466--25584568 Score: 95
Period size: 23 Copynumber: 4.5 Consensus size: 23
25584456 AAACAATATT
*
25584466 ATAAAATAATACATAAGA-ATATT
1 ATAAAATAATACATAAGATATA-C
25584489 ATAAAATAATACATAAGAATATAC
1 ATAAAATAATACATAAG-ATATAC
* * * * *
25584513 ATAGAGTTATGCATAA-ATATAT
1 ATAAAATAATACATAAGATATAC
*
25584535 ACAAAA-AATACATAAAGATATAC
1 ATAAAATAATACAT-AAGATATAC
25584558 ATAAAATAATA
1 ATAAAATAATA
25584569 TTAACCCCAA
Statistics
Matches: 62, Mismatches: 13, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
21 5 0.08
22 10 0.16
23 27 0.44
24 17 0.27
25 3 0.05
ACGTcount: A:0.60, C:0.07, G:0.06, T:0.27
Consensus pattern (23 bp):
ATAAAATAATACATAAGATATAC
Found at i:25585318 original size:4 final size:4
Alignment explanation
Indices: 25585302--25585335 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
25585292 TAATAGTAAT
* *
25585302 AATA AATA GATA AATA AATA AATT AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AATA AA
25585336 ATATAAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (4 bp):
AATA
Found at i:25587049 original size:27 final size:26
Alignment explanation
Indices: 25587019--25587096 Score: 102
Period size: 27 Copynumber: 2.9 Consensus size: 26
25587009 AACACGTTAG
*
25587019 GAAAGAAATGCCTTTGTGGAGAAATAT
1 GAAAGAAAAGCCTTTGTGG-GAAATAT
25587046 GAAAGAAAAGCCTTTGTGGCGAAATAT
1 GAAAGAAAAGCCTTTGTGG-GAAATAT
* * *
25587073 AAAAGAAAAGCCATTGTGGCAAAT
1 GAAAGAAAAGCCTTTGTGGGAAAT
25587097 TTCGTATGAA
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
26 4 0.09
27 42 0.91
ACGTcount: A:0.44, C:0.10, G:0.24, T:0.22
Consensus pattern (26 bp):
GAAAGAAAAGCCTTTGTGGGAAATAT
Found at i:25595867 original size:19 final size:19
Alignment explanation
Indices: 25595845--25595881 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
25595835 CTTCAAAAAG
*
25595845 AATATATATAAATTGAAAT
1 AATATATATAAAATGAAAT
25595864 AATATATATAAAATGAAA
1 AATATATATAAAATGAAA
25595882 ATAAAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.32
Consensus pattern (19 bp):
AATATATATAAAATGAAAT
Found at i:25596236 original size:23 final size:22
Alignment explanation
Indices: 25596193--25596249 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 22
25596183 TAGACTAATT
*
25596193 TTTTTTATTTT-TTTGTATATA
1 TTTTTAATTTTATTTGTATATA
*
25596214 TTTTTAATTTTATTTGTTTTATA
1 TTTTTAATTTTATTTG-TATATA
25596237 TTTTTATATTTTA
1 TTTTTA-ATTTTA
25596250 AAAATTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 10 0.32
22 4 0.13
23 11 0.35
24 6 0.19
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.75
Consensus pattern (22 bp):
TTTTTAATTTTATTTGTATATA
Found at i:25597661 original size:18 final size:18
Alignment explanation
Indices: 25597620--25597662 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
25597610 TAATTTAGCC
25597620 ATTTCTTATTTTTATTATA
1 ATTT-TTATTTTTATTATA
*
25597639 TTTTTTATTTTTAGTT-TA
1 ATTTTTATTTTTA-TTATA
25597657 ATTTTT
1 ATTTTT
25597663 TCATTCTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (18 bp):
ATTTTTATTTTTATTATA
Found at i:25600714 original size:25 final size:25
Alignment explanation
Indices: 25600676--25600744 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
25600666 CCATATGAAC
25600676 ATATAATCGGGAAGCTCTTCTGAGCT
1 ATATAAT-GGGAAGCTCTTCTGAGCT
* * *
25600702 ATGTAATGGGAAGCTCATGTGAGCT
1 ATATAATGGGAAGCTCTTCTGAGCT
* * *
25600727 GTATGACGGGAAGCTCTT
1 ATATAATGGGAAGCTCTT
25600745 GCGAGCCAAT
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
25 29 0.83
26 6 0.17
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (25 bp):
ATATAATGGGAAGCTCTTCTGAGCT
Found at i:25604133 original size:41 final size:42
Alignment explanation
Indices: 25604087--25604256 Score: 218
Period size: 41 Copynumber: 4.1 Consensus size: 42
25604077 AAGCTAAGAA
* *
25604087 GAAACCCATAAGGGTTGAACAGAAGCTCATAAGAGC-AAACG
1 GAAACCCATAAGGGTTAAACAGAAGCTCAAAAGAGCTAAACG
* * **
25604128 GAAACCCGTAAGGGTTAAATAGAAGCTCAAAAGAATTAAACG
1 GAAACCCATAAGGGTTAAACAGAAGCTCAAAAGAGCTAAACG
* *
25604170 GAAACCCATAAGTGTTAAA-AAAAGCTCAAAAGAGCTAAACG
1 GAAACCCATAAGGGTTAAACAGAAGCTCAAAAGAGCTAAACG
* * * *
25604211 GAAACTCATATGAGTTAAACAGAAGCTCAAGAGAGCTAAACG
1 GAAACCCATAAGGGTTAAACAGAAGCTCAAAAGAGCTAAACG
25604253 GAAA
1 GAAA
25604257 GTAAACGCGA
Statistics
Matches: 111, Mismatches: 16, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
41 65 0.59
42 46 0.41
ACGTcount: A:0.48, C:0.16, G:0.21, T:0.15
Consensus pattern (42 bp):
GAAACCCATAAGGGTTAAACAGAAGCTCAAAAGAGCTAAACG
Found at i:25604187 original size:21 final size:21
Alignment explanation
Indices: 25604086--25604234 Score: 79
Period size: 21 Copynumber: 7.2 Consensus size: 21
25604076 AAAGCTAAGA
* *
25604086 AGAAACCCATAAGGGTTGAAC
1 AGAAACCCATAAGAGTTAAAC
* * *
25604107 AGAAGCTCATAAGAG-CAAAC
1 AGAAACCCATAAGAGTTAAAC
* * * *
25604127 GGAAACCCGTAAGGGTTAAAT
1 AGAAACCCATAAGAGTTAAAC
* * * *
25604148 AGAAGCTCAAAAGAATTAAAC
1 AGAAACCCATAAGAGTTAAAC
* *
25604169 GGAAACCCATAAGTGTTAAA-
1 AGAAACCCATAAGAGTTAAAC
* * *
25604189 A-AAAGCTCAAAAGAGCTAAAC
1 AGAAA-CCCATAAGAGTTAAAC
* * *
25604210 GGAAACTCATATGAGTTAAAC
1 AGAAACCCATAAGAGTTAAAC
25604231 AGAA
1 AGAA
25604235 GCTCAAGAGA
Statistics
Matches: 88, Mismatches: 36, Indels: 8
0.67 0.27 0.06
Matches are distributed among these distances:
19 3 0.03
20 24 0.27
21 58 0.66
22 3 0.03
ACGTcount: A:0.48, C:0.16, G:0.20, T:0.15
Consensus pattern (21 bp):
AGAAACCCATAAGAGTTAAAC
Found at i:25604210 original size:83 final size:83
Alignment explanation
Indices: 25604087--25604256 Score: 216
Period size: 83 Copynumber: 2.0 Consensus size: 83
25604077 AAGCTAAGAA
* * * * * *
25604087 GAAACCCATAAGGGTTGAACAGAAGCTCATAAGAGCAAACGGAAACCCGTAAGGGTTAAATAGAA
1 GAAACCCATAAGGGTTGAAAAAAAGCTCAAAAGAGCAAACGGAAACCCATAAGAGTTAAACAGAA
*
25604152 GCTCAAAAGAATTAAACG
66 GCTCAAAAGAACTAAACG
* * *
25604170 GAAACCCATAAGTGTT-AAAAAAAGCTCAAAAGAGCTAAACGGAAACTCATATGAGTTAAACAGA
1 GAAACCCATAAGGGTTGAAAAAAAGCTCAAAAGAGC-AAACGGAAACCCATAAGAGTTAAACAGA
* *
25604234 AGCTCAAGAGAGCTAAACG
65 AGCTCAAAAGAACTAAACG
25604253 GAAA
1 GAAA
25604257 GTAAACGCGA
Statistics
Matches: 74, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
82 16 0.22
83 58 0.78
ACGTcount: A:0.48, C:0.16, G:0.21, T:0.15
Consensus pattern (83 bp):
GAAACCCATAAGGGTTGAAAAAAAGCTCAAAAGAGCAAACGGAAACCCATAAGAGTTAAACAGAA
GCTCAAAAGAACTAAACG
Found at i:25604239 original size:21 final size:21
Alignment explanation
Indices: 25604141--25604251 Score: 80
Period size: 21 Copynumber: 5.3 Consensus size: 21
25604131 ACCCGTAAGG
*
25604141 GTTAAATAGAAGCTCAAAAGA
1 GTTAAACAGAAGCTCAAAAGA
* * * * * *
25604162 ATTAAACGGAAACCCATAAGT
1 GTTAAACAGAAGCTCAAAAGA
*
25604183 GTTAAA-AAAAGCTCAAAAGA
1 GTTAAACAGAAGCTCAAAAGA
* * * * *
25604203 GCTAAACGGAAACTCATATGA
1 GTTAAACAGAAGCTCAAAAGA
*
25604224 GTTAAACAGAAGCTCAAGAGA
1 GTTAAACAGAAGCTCAAAAGA
*
25604245 GCTAAAC
1 GTTAAAC
25604252 GGAAAGTAAA
Statistics
Matches: 62, Mismatches: 27, Indels: 2
0.68 0.30 0.02
Matches are distributed among these distances:
20 13 0.21
21 49 0.79
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.17
Consensus pattern (21 bp):
GTTAAACAGAAGCTCAAAAGA
Found at i:25613934 original size:18 final size:19
Alignment explanation
Indices: 25613879--25613934 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 19
25613869 TTTCAATCTC
25613879 ATCACTCATTTCTTTTCTTTTGA
1 ATCACTCA--TCTTTT-TTTT-A
25613902 ATCACTC-TCTCTTTTTTT-
1 ATCACTCATCT-TTTTTTTA
25613920 ATCACTCATCTTTTT
1 ATCACTCATCTTTTT
25613935 GTTTTTCTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
18 11 0.35
19 3 0.10
20 7 0.23
21 3 0.10
23 7 0.23
ACGTcount: A:0.16, C:0.25, G:0.02, T:0.57
Consensus pattern (19 bp):
ATCACTCATCTTTTTTTTA
Found at i:25616218 original size:10 final size:11
Alignment explanation
Indices: 25616167--25616218 Score: 70
Period size: 11 Copynumber: 4.7 Consensus size: 11
25616157 CGTATGCAAT
25616167 TTTTTTTTCAAA
1 TTTTTTTTC-AA
25616179 TTTTTTTTCAA
1 TTTTTTTTCAA
*
25616190 TTTTTTTTCGA
1 TTTTTTTTCAA
*
25616201 TTTTTTTT-TA
1 TTTTTTTTCAA
25616211 TTTTTTTT
1 TTTTTTTT
25616219 GAATCTACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
10 9 0.24
11 20 0.53
12 9 0.24
ACGTcount: A:0.13, C:0.06, G:0.02, T:0.79
Consensus pattern (11 bp):
TTTTTTTTCAA
Found at i:25622807 original size:11 final size:11
Alignment explanation
Indices: 25622791--25622843 Score: 70
Period size: 11 Copynumber: 4.7 Consensus size: 11
25622781 GTATGCAATT
*
25622791 TTTTTTTTAAA
1 TTTTTTTTCAA
25622802 TTTTTTTTTCAA
1 -TTTTTTTTCAA
*
25622814 TTTTTTTTCGA
1 TTTTTTTTCAA
*
25622825 TTTTTTTTCGA
1 TTTTTTTTCAA
25622836 TTTTTTTT
1 TTTTTTTT
25622844 TGAATCTACA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
11 29 0.74
12 10 0.26
ACGTcount: A:0.13, C:0.06, G:0.04, T:0.77
Consensus pattern (11 bp):
TTTTTTTTCAA
Found at i:25622807 original size:12 final size:12
Alignment explanation
Indices: 25622790--25622821 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
25622780 CGTATGCAAT
25622790 TTTTTTTTTAAA
1 TTTTTTTTTAAA
*
25622802 TTTTTTTTTCAA
1 TTTTTTTTTAAA
25622814 TTTTTTTT
1 TTTTTTTT
25622822 CGATTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (12 bp):
TTTTTTTTTAAA
Found at i:25627563 original size:27 final size:27
Alignment explanation
Indices: 25627533--25627710 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
25627523 ATATTGAGTC
* * * *
25627533 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
25627560 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
25627587 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
25627615 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
25627642 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
25627669 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
25627696 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
25627711 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:25627672 original size:82 final size:81
Alignment explanation
Indices: 25627554--25627709 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
25627544 TGCTATATAA
* *
25627554 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
25627619 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
25627636 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
25627700 CACTTAGTGC
65 CACTTAGTGC
25627710 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:25646225 original size:13 final size:12
Alignment explanation
Indices: 25646206--25646262 Score: 82
Period size: 11 Copynumber: 4.8 Consensus size: 12
25646196 AGACCGTATG
25646206 CAATTTTTTTTT
1 CAATTTTTTTTT
25646218 CAAATTTTTTTTT
1 C-AATTTTTTTTT
25646231 CAA-TTTTTTTT
1 CAATTTTTTTTT
*
25646242 CGA-TTTTTTTT
1 CAATTTTTTTTT
25646253 CAATTTTTTT
1 CAATTTTTTT
25646263 GAATCTACAA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
11 20 0.49
12 9 0.22
13 12 0.29
ACGTcount: A:0.18, C:0.09, G:0.02, T:0.72
Consensus pattern (12 bp):
CAATTTTTTTTT
Found at i:25648625 original size:29 final size:29
Alignment explanation
Indices: 25648585--25648647 Score: 126
Period size: 29 Copynumber: 2.2 Consensus size: 29
25648575 ACGGCCAAAC
25648585 CACACGACCATGTGCTAGGCCGTGTGTCA
1 CACACGACCATGTGCTAGGCCGTGTGTCA
25648614 CACACGACCATGTGCTAGGCCGTGTGTCA
1 CACACGACCATGTGCTAGGCCGTGTGTCA
25648643 CACAC
1 CACAC
25648648 AGCTGAGCCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.22, C:0.33, G:0.25, T:0.19
Consensus pattern (29 bp):
CACACGACCATGTGCTAGGCCGTGTGTCA
Found at i:25649510 original size:21 final size:21
Alignment explanation
Indices: 25649450--25649557 Score: 67
Period size: 21 Copynumber: 5.2 Consensus size: 21
25649440 AGAGCTAAGC
* *
25649450 AGAAACCTATAAGGGTTGAAT
1 AGAAACCCATAAGGGTTAAAT
* * * *
25649471 AG-AGCTCATAAGAGCTAAAT
1 AGAAACCCATAAGGGTTAAAT
* *
25649491 GGAAACCCATAAGGGTTAAAC
1 AGAAACCCATAAGGGTTAAAT
* * *
25649512 AGAAGCTCGAT-AGAGTTAAAT
1 AGAAAC-CCATAAGGGTTAAAT
* * *
25649533 GGAAACGCATAAGGGTTAAAC
1 AGAAACCCATAAGGGTTAAAT
25649554 AGAA
1 AGAA
25649558 GCTCAAAAGA
Statistics
Matches: 60, Mismatches: 24, Indels: 6
0.67 0.27 0.07
Matches are distributed among these distances:
20 15 0.25
21 42 0.70
22 3 0.05
ACGTcount: A:0.44, C:0.13, G:0.24, T:0.19
Consensus pattern (21 bp):
AGAAACCCATAAGGGTTAAAT
Found at i:25649575 original size:21 final size:21
Alignment explanation
Indices: 25649549--25649620 Score: 90
Period size: 21 Copynumber: 3.4 Consensus size: 21
25649539 GCATAAGGGT
25649549 TAAACAGAAGCTCAAAAGAGC
1 TAAACAGAAGCTCAAAAGAGC
* * * *
25649570 TAAACAGAAACTCATATGAGT
1 TAAACAGAAGCTCAAAAGAGC
* *
25649591 TAAACAGAAGCTCGAGAGAGC
1 TAAACAGAAGCTCAAAAGAGC
25649612 TAAACAGAA
1 TAAACAGAA
25649621 AGTAAACACG
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.50, C:0.17, G:0.19, T:0.14
Consensus pattern (21 bp):
TAAACAGAAGCTCAAAAGAGC
Found at i:25649580 original size:84 final size:83
Alignment explanation
Indices: 25649458--25649615 Score: 217
Period size: 84 Copynumber: 1.9 Consensus size: 83
25649448 GCAGAAACCT
* * * ** * *
25649458 ATAAGGGTTGAATAGAGCTCATAAGAGCTAAATGGAAACCCATAAGGGTTAAACAGAAGCTCGAT
1 ATAAGGGTTAAACAGAGCTCAAAAGAGCTAAACAGAAACCCATAAGAGTTAAACAGAAGCTCGAG
*
25649523 AGAGTTAAATGGAAACGC
66 AGAGCTAAATGGAAACGC
* *
25649541 ATAAGGGTTAAACAGAAGCTCAAAAGAGCTAAACAGAAACTCATATGAGTTAAACAGAAGCTCGA
1 ATAAGGGTTAAACAG-AGCTCAAAAGAGCTAAACAGAAACCCATAAGAGTTAAACAGAAGCTCGA
25649606 GAGAGCTAAA
65 GAGAGCTAAA
25649616 CAGAAAGTAA
Statistics
Matches: 64, Mismatches: 10, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
83 13 0.20
84 51 0.80
ACGTcount: A:0.45, C:0.14, G:0.23, T:0.18
Consensus pattern (83 bp):
ATAAGGGTTAAACAGAGCTCAAAAGAGCTAAACAGAAACCCATAAGAGTTAAACAGAAGCTCGAG
AGAGCTAAATGGAAACGC
Found at i:25649616 original size:42 final size:42
Alignment explanation
Indices: 25649440--25649621 Score: 197
Period size: 42 Copynumber: 4.4 Consensus size: 42
25649430 AAAGCTCATG
* * * *
25649440 AGAGCTAAGCAGAAACCTATAAGGGTTGAATAG-AGCTC-ATA
1 AGAGCTAAACAGAAACCCATAAGGGTTAAACAGAAGCTCGA-A
** *
25649481 AGAGCTAAATGGAAACCCATAAGGGTTAAACAGAAGCTCGAT
1 AGAGCTAAACAGAAACCCATAAGGGTTAAACAGAAGCTCGAA
* ** * *
25649523 AGAGTTAAATGGAAACGCATAAGGGTTAAACAGAAGCTCAAA
1 AGAGCTAAACAGAAACCCATAAGGGTTAAACAGAAGCTCGAA
* * * *
25649565 AGAGCTAAACAGAAACTCATATGAGTTAAACAGAAGCTCGAG
1 AGAGCTAAACAGAAACCCATAAGGGTTAAACAGAAGCTCGAA
25649607 AGAGCTAAACAGAAA
1 AGAGCTAAACAGAAA
25649622 GTAAACACGA
Statistics
Matches: 120, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
41 27 0.22
42 92 0.77
43 1 0.01
ACGTcount: A:0.46, C:0.15, G:0.23, T:0.16
Consensus pattern (42 bp):
AGAGCTAAACAGAAACCCATAAGGGTTAAACAGAAGCTCGAA
Found at i:25658271 original size:22 final size:21
Alignment explanation
Indices: 25658239--25658302 Score: 71
Period size: 22 Copynumber: 3.1 Consensus size: 21
25658229 ACCCATTTTA
*
25658239 TTTTATTTTATTTATTATTAT
1 TTTTATATTATTTATTATTAT
*
25658260 TTGTTATATTATTTATTTTTA-
1 TT-TTATATTATTTATTATTAT
25658281 TTTTACTATT-TTTA-TATTAT
1 TTTTA-TATTATTTATTATTAT
25658301 TT
1 TT
25658303 ATTTATCATT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
19 4 0.11
20 9 0.24
21 8 0.22
22 16 0.43
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (21 bp):
TTTTATATTATTTATTATTAT
Found at i:25658305 original size:15 final size:15
Alignment explanation
Indices: 25658240--25658306 Score: 75
Period size: 15 Copynumber: 4.5 Consensus size: 15
25658230 CCCATTTTAT
*
25658240 TTTATTTTATTTATTA
1 TTTATTTT-TATATTA
25658256 -TTATTTGTTATATTA
1 TTTATTT-TTATATTA
*
25658271 TTTATTTTTATTTTA
1 TTTATTTTTATATTA
*
25658286 -CTATTTTTATATTA
1 TTTATTTTTATATTA
25658300 TTTATTT
1 TTTATTT
25658307 ATCATTCTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
14 12 0.28
15 24 0.56
16 7 0.16
ACGTcount: A:0.24, C:0.01, G:0.01, T:0.73
Consensus pattern (15 bp):
TTTATTTTTATATTA
Found at i:25658463 original size:13 final size:13
Alignment explanation
Indices: 25658430--25658468 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
25658420 AAGTTTATTA
25658430 TTATTATTATTATTT
1 TTATT-TTATT-TTT
*
25658445 TCATTTTATTTTT
1 TTATTTTATTTTT
25658458 TTATTTTATTT
1 TTATTTTATTT
25658469 ATCTTTCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 13 0.59
14 5 0.23
15 4 0.18
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.77
Consensus pattern (13 bp):
TTATTTTATTTTT
Found at i:25658470 original size:28 final size:29
Alignment explanation
Indices: 25658430--25658486 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
25658420 AAGTTTATTA
*
25658430 TTATTATTATTAT-TTTCATTTTATTTTT
1 TTATTATTATTATCTTTCATTTTAATTTT
*
25658458 TTATT-TTATTTATCTTTCTTTTTAATTTT
1 TTATTATTA-TTATCTTTCATTTTAATTTT
25658487 GTTTTAGTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 3 0.12
28 9 0.36
29 13 0.52
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.75
Consensus pattern (29 bp):
TTATTATTATTATCTTTCATTTTAATTTT
Found at i:25659505 original size:12 final size:14
Alignment explanation
Indices: 25659473--25659519 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
25659463 TCTTATTGAA
*
25659473 AAAAAAGATATAAAG
1 AAAAAAGAT-CAAAG
25659488 AAAAAAGA-CAAA-
1 AAAAAAGATCAAAG
*
25659500 AAAAAATATCAAAG
1 AAAAAAGATCAAAG
25659514 AAAAAA
1 AAAAAA
25659520 TATTGATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
12 7 0.25
13 7 0.25
14 6 0.21
15 8 0.29
ACGTcount: A:0.79, C:0.04, G:0.09, T:0.09
Consensus pattern (14 bp):
AAAAAAGATCAAAG
Found at i:25659517 original size:14 final size:14
Alignment explanation
Indices: 25659474--25659522 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
25659464 CTTATTGAAA
25659474 AAAAAGATAT-AAAG
1 AAAAA-ATATCAAAG
*
25659488 AAAAAAGA-CAAA-
1 AAAAAATATCAAAG
25659500 AAAAAATATCAAAG
1 AAAAAATATCAAAG
25659514 AAAAAATAT
1 AAAAAATAT
25659523 TGATTATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
12 7 0.23
13 9 0.30
14 14 0.47
ACGTcount: A:0.76, C:0.04, G:0.08, T:0.12
Consensus pattern (14 bp):
AAAAAATATCAAAG
Found at i:25663016 original size:22 final size:22
Alignment explanation
Indices: 25662991--25663040 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
25662981 CCGATAGCTG
*
25662991 GTAAAAGGTATTGATACTTTTT
1 GTAAAAGGTATCGATACTTTTT
*
25663013 GT-AAAGGTATCGATATTTTTT
1 GTAAAAGGTATCGATACTTTTT
25663034 GTGAAAA
1 GT-AAAA
25663041 ATGAAAACAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 19 0.79
22 2 0.08
23 3 0.12
ACGTcount: A:0.34, C:0.04, G:0.20, T:0.42
Consensus pattern (22 bp):
GTAAAAGGTATCGATACTTTTT
Found at i:25669136 original size:21 final size:20
Alignment explanation
Indices: 25669091--25669136 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
25669081 TTTTTGGAAT
25669091 GGTT-AATTTAATCAATTTA
1 GGTTGAATTTAATCAATTTA
*
25669110 GCTTGAATTTAATTC-ATGTTA
1 GGTTGAATTTAA-TCAAT-TTA
25669131 GGTTGA
1 GGTTGA
25669137 TTGCATTTCG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.46
Consensus pattern (20 bp):
GGTTGAATTTAATCAATTTA
Found at i:25674699 original size:21 final size:21
Alignment explanation
Indices: 25674675--25674717 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
25674665 CCACTACTCG
25674675 ACTAACTATCAAATCCCACCA
1 ACTAACTATCAAATCCCACCA
25674696 ACTAACTATCAAATCCCACCA
1 ACTAACTATCAAATCCCACCA
25674717 A
1 A
25674718 AACTGACCGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.44, C:0.37, G:0.00, T:0.19
Consensus pattern (21 bp):
ACTAACTATCAAATCCCACCA
Found at i:25680851 original size:36 final size:36
Alignment explanation
Indices: 25680804--25680885 Score: 137
Period size: 36 Copynumber: 2.3 Consensus size: 36
25680794 ATTCCAACCA
* * *
25680804 AAACACACCAGATGCTCATAAGATCTAATCCATTCG
1 AAACACACCAGATGCCCATAAGAGCTAATCCATCCG
25680840 AAACACACCAGATGCCCATAAGAGCTAATCCATCCG
1 AAACACACCAGATGCCCATAAGAGCTAATCCATCCG
25680876 AAACACACCA
1 AAACACACCA
25680886 ATGGCTCCGA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 43 1.00
ACGTcount: A:0.41, C:0.32, G:0.11, T:0.16
Consensus pattern (36 bp):
AAACACACCAGATGCCCATAAGAGCTAATCCATCCG
Found at i:25680899 original size:36 final size:36
Alignment explanation
Indices: 25680804--25680907 Score: 124
Period size: 36 Copynumber: 2.9 Consensus size: 36
25680794 ATTCCAACCA
* * *
25680804 AAACACACCAGATGCTCATAAGATCTAATCCATTCG
1 AAACACACCAGATGCTCCTAAGAGCTAATCCATCCG
25680840 AAACACACCAGATGC-CCATAAGAGCTAATCCATCCG
1 AAACACACCAGATGCTCC-TAAGAGCTAATCCATCCG
*
25680876 AAACACACCA-ATGGCTCCGAAGAG-TAAGTCCA
1 AAACACACCAGAT-GCTCCTAAGAGCTAA-TCCA
25680908 ATTGAAACAC
Statistics
Matches: 60, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
35 6 0.10
36 52 0.87
37 2 0.03
ACGTcount: A:0.39, C:0.30, G:0.14, T:0.16
Consensus pattern (36 bp):
AAACACACCAGATGCTCCTAAGAGCTAATCCATCCG
Found at i:25686399 original size:15 final size:13
Alignment explanation
Indices: 25686368--25686402 Score: 52
Period size: 15 Copynumber: 2.5 Consensus size: 13
25686358 TTTATACTTA
25686368 AATTAACTTAACT
1 AATTAACTTAACT
25686381 AATTAACATTAACCT
1 AATTAAC-TTAA-CT
25686396 AATTAAC
1 AATTAAC
25686403 CTTTAATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 7 0.35
14 4 0.20
15 9 0.45
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.34
Consensus pattern (13 bp):
AATTAACTTAACT
Found at i:25686997 original size:15 final size:15
Alignment explanation
Indices: 25686977--25687012 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
25686967 AGGCCCCGAA
25686977 ACCACTAATTCCAAC
1 ACCACTAATTCCAAC
25686992 ACCACTAATTCCAAC
1 ACCACTAATTCCAAC
25687007 ACCACT
1 ACCACT
25687013 GAAAAACGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.39, C:0.42, G:0.00, T:0.19
Consensus pattern (15 bp):
ACCACTAATTCCAAC
Found at i:25687656 original size:12 final size:10
Alignment explanation
Indices: 25687631--25687670 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
25687621 AAACATGATG
25687631 AATTTTAATT
1 AATTTTAATT
25687641 AATTTTATAGTT
1 AATTTTA-A-TT
*
25687653 AATTTTGATT
1 AATTTTAATT
25687663 AATTTTAA
1 AATTTTAA
25687671 CTATTTTCGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
10 16 0.62
11 2 0.08
12 8 0.31
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (10 bp):
AATTTTAATT
Found at i:25695983 original size:18 final size:18
Alignment explanation
Indices: 25695960--25695996 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
25695950 GCAAACAAGA
25695960 CACCGTTAGGGATGTCAC
1 CACCGTTAGGGATGTCAC
25695978 CACCGTTAGGGATGTCAC
1 CACCGTTAGGGATGTCAC
25695996 C
1 C
25695997 CTATAGGTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.30, G:0.27, T:0.22
Consensus pattern (18 bp):
CACCGTTAGGGATGTCAC
Found at i:25696863 original size:15 final size:16
Alignment explanation
Indices: 25696845--25696877 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
25696835 TGATAAACTT
25696845 TAATATATAA-TTATA
1 TAATATATAATTTATA
*
25696860 TAATTTATAATTTATA
1 TAATATATAATTTATA
25696876 TA
1 TA
25696878 TTAATTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TAATATATAATTTATA
Found at i:25696873 original size:27 final size:28
Alignment explanation
Indices: 25696815--25696883 Score: 76
Period size: 27 Copynumber: 2.5 Consensus size: 28
25696805 GAATAAATAT
25696815 ATTTAATAT-T-ATTAATAATTTGATAA
1 ATTTAATATATAATTAATAATTTGATAA
25696841 ACTTTAATATATAATTATATAATTT-AT-A
1 A-TTTAATATATAATTA-ATAATTTGATAA
25696869 ATTT-ATATATTAATT
1 ATTTAATATA-TAATT
25696884 TTTACCAACT
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
26 6 0.16
27 16 0.42
28 3 0.08
29 6 0.16
30 7 0.18
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (28 bp):
ATTTAATATATAATTAATAATTTGATAA
Found at i:25698451 original size:12 final size:11
Alignment explanation
Indices: 25698426--25698463 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
25698416 GAACATGATG
25698426 AATTTTA-ATT
1 AATTTTATATT
25698436 AATTTTATAGTT
1 AATTTTATA-TT
25698448 AATTTT-TATT
1 AATTTTATATT
25698458 AATTTT
1 AATTTT
25698464 GACTATTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 15 0.58
11 3 0.12
12 8 0.31
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (11 bp):
AATTTTATATT
Found at i:25701766 original size:46 final size:46
Alignment explanation
Indices: 25701716--25701847 Score: 160
Period size: 46 Copynumber: 2.9 Consensus size: 46
25701706 CACATGCATA
*
25701716 ATAGAATATGCCACAAAAGCTACACGAAATATGCCACAAAGGCTTT
1 ATAGAATATGCCACAAAAGCAACACGAAATATGCCACAAAGGCTTT
* * *
25701762 ATAGAATATGGCACATAGGCAACACGAAATATGCCACAAAGGCTTT
1 ATAGAATATGCCACAAAAGCAACACGAAATATGCCACAAAGGCTTT
* * * *
25701808 ACATAATATGTCAC-ACAGACAACAC-AGAATATGCCACAAA
1 ATAGAATATGCCACAAAAG-CAACACGA-AATATGCCACAAA
25701848 ATTTTTACAG
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
45 2 0.03
46 72 0.97
ACGTcount: A:0.45, C:0.22, G:0.15, T:0.18
Consensus pattern (46 bp):
ATAGAATATGCCACAAAAGCAACACGAAATATGCCACAAAGGCTTT
Found at i:25701817 original size:23 final size:23
Alignment explanation
Indices: 25701720--25701805 Score: 95
Period size: 23 Copynumber: 3.7 Consensus size: 23
25701710 TGCATAATAG
*
25701720 AATATGCCACAAAAGCTACACGA
1 AATATGCCACAAAGGCTACACGA
*
25701743 AATATGCCACAAAGGCTTTATA-G-
1 AATATGCCACAAAGGC--TACACGA
* * *
25701766 AATATGGCACATAGGCAACACGA
1 AATATGCCACAAAGGCTACACGA
25701789 AATATGCCACAAAGGCT
1 AATATGCCACAAAGGCT
25701806 TTACATAATA
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
21 2 0.04
22 1 0.02
23 43 0.86
24 1 0.02
25 3 0.06
ACGTcount: A:0.43, C:0.22, G:0.17, T:0.17
Consensus pattern (23 bp):
AATATGCCACAAAGGCTACACGA
Found at i:25701822 original size:23 final size:22
Alignment explanation
Indices: 25701720--25701822 Score: 80
Period size: 23 Copynumber: 4.5 Consensus size: 22
25701710 TGCATAATAG
* **
25701720 AATATGCCACAAAAGCTACACGA
1 AATATGCCACAAAGGCTTTAC-A
*
25701743 AATATGCCACAAAGGCTTTATA
1 AATATGCCACAAAGGCTTTACA
* * ***
25701765 GAATATGGCACATAGGCAACACGA
1 -AATATGCCACAAAGGCTTTAC-A
25701789 AATATGCCACAAAGGCTTTACA
1 AATATGCCACAAAGGCTTTACA
*
25701811 TAATATGTCACA
1 -AATATGCCACA
25701823 CAGACAACAC
Statistics
Matches: 61, Mismatches: 16, Indels: 6
0.73 0.19 0.07
Matches are distributed among these distances:
22 2 0.03
23 58 0.95
24 1 0.02
ACGTcount: A:0.43, C:0.21, G:0.16, T:0.20
Consensus pattern (22 bp):
AATATGCCACAAAGGCTTTACA
Found at i:25701856 original size:46 final size:46
Alignment explanation
Indices: 25701737--25701847 Score: 161
Period size: 46 Copynumber: 2.4 Consensus size: 46
25701727 CACAAAAGCT
* * *
25701737 ACACGAAATATGCCACAAAGGCTTTATAGAATATGGCACATAGGCA
1 ACACGAAATATGCCACAAAGGCTTTACAGAATATGGCACACAGACA
* *
25701783 ACACGAAATATGCCACAAAGGCTTTACATAATATGTCACACAGACA
1 ACACGAAATATGCCACAAAGGCTTTACAGAATATGGCACACAGACA
25701829 ACAC-AGAATATGCCACAAA
1 ACACGA-AATATGCCACAAA
25701848 ATTTTTACAG
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
45 1 0.02
46 58 0.98
ACGTcount: A:0.44, C:0.23, G:0.15, T:0.18
Consensus pattern (46 bp):
ACACGAAATATGCCACAAAGGCTTTACAGAATATGGCACACAGACA
Found at i:25711512 original size:17 final size:18
Alignment explanation
Indices: 25711490--25711530 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
25711480 AAACGAAAGA
25711490 AATTTTGTTTA-AAAT-C
1 AATTTTGTTTACAAATAC
25711506 TAATTTT-TTTACAAATAC
1 -AATTTTGTTTACAAATAC
25711524 AATTTTG
1 AATTTTG
25711531 AACCCAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 4 0.19
17 16 0.76
18 1 0.05
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.51
Consensus pattern (18 bp):
AATTTTGTTTACAAATAC
Found at i:25711924 original size:12 final size:12
Alignment explanation
Indices: 25711907--25711932 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
25711897 CCCAAATTTC
25711907 AAAAATCTCAAA
1 AAAAATCTCAAA
25711919 AAAAATCTCAAA
1 AAAAATCTCAAA
25711931 AA
1 AA
25711933 TTGAATAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.15, G:0.00, T:0.15
Consensus pattern (12 bp):
AAAAATCTCAAA
Found at i:25717003 original size:16 final size:17
Alignment explanation
Indices: 25716982--25717013 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
25716972 AATTTTCAGA
25716982 AAATTTTCCT-AATTTC
1 AAATTTTCCTCAATTTC
25716998 AAATTTTCCTCAATTT
1 AAATTTTCCTCAATTT
25717014 AGTCCCTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.31, C:0.19, G:0.00, T:0.50
Consensus pattern (17 bp):
AAATTTTCCTCAATTTC
Found at i:25717403 original size:22 final size:21
Alignment explanation
Indices: 25717367--25717412 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
25717357 ATATAGAGTT
*
25717367 AATAATAATAAATATCTAACA
1 AATAATAATAAATATATAACA
* *
25717388 AATAACTAATACATATATTACA
1 AATAA-TAATAAATATATAACA
25717410 AAT
1 AAT
25717413 GTATACAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (21 bp):
AATAATAATAAATATATAACA
Found at i:25717577 original size:32 final size:32
Alignment explanation
Indices: 25717515--25717579 Score: 80
Period size: 32 Copynumber: 2.0 Consensus size: 32
25717505 ATTATTTATC
**
25717515 AAATAAATATCTTTTACATAATGATAATAAAT
1 AAATAAATATCTTTTACATAACAATAATAAAT
25717547 AAATAAATATCTATTTA-ATAAACAAT-ATAAAT
1 AAATAAATATCT-TTTACAT-AACAATAATAAAT
25717579 A
1 A
25717580 TTACACTTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 21 0.72
33 8 0.28
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.35
Consensus pattern (32 bp):
AAATAAATATCTTTTACATAACAATAATAAAT
Found at i:25717683 original size:3 final size:3
Alignment explanation
Indices: 25717656--25717705 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
25717646 AATTTATTTC
* * * *
25717656 ATA AT- ATA ATA ACA ACA ATA TTA ATA ATA AAA ATA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
25717702 ATA A
1 ATA A
25717706 AATGTCATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 4 0.10
3 35 0.90
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:25721644 original size:21 final size:21
Alignment explanation
Indices: 25721599--25721645 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
25721589 GAATTGAGAG
* **
25721599 TTCTACTGATACAACTCTAGG
1 TTCTACTGATACAACTCGAAC
25721620 TTCTACTGATACAACTCGAAC
1 TTCTACTGATACAACTCGAAC
25721641 TTCTA
1 TTCTA
25721646 TCAGTAGAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.34
Consensus pattern (21 bp):
TTCTACTGATACAACTCGAAC
Found at i:25725631 original size:18 final size:18
Alignment explanation
Indices: 25725608--25725642 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
25725598 CTTGGACATC
25725608 ATTAAA-ACATGTAATAAA
1 ATTAAACACAT-TAATAAA
25725626 ATTAAACACATTAATAA
1 ATTAAACACATTAATAA
25725643 GATGCTTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.60, C:0.09, G:0.03, T:0.29
Consensus pattern (18 bp):
ATTAAACACATTAATAAA
Found at i:25751709 original size:20 final size:18
Alignment explanation
Indices: 25751684--25751723 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 18
25751674 ATGAAATGAA
25751684 ATATTTAATATAAATAATAT
1 ATATTT-ATAT-AATAATAT
25751704 ATATTTATATAATAATAT
1 ATATTTATATAATAATAT
25751722 AT
1 AT
25751724 GTAAAAAAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 10 0.50
19 4 0.20
20 6 0.30
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATATTTATATAATAATAT
Found at i:25753905 original size:128 final size:128
Alignment explanation
Indices: 25753613--25754584 Score: 1193
Period size: 128 Copynumber: 7.6 Consensus size: 128
25753603 ACTGCAACTT
* * * *
25753613 CAGGGAGAAAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTTGTCGTCTTT
1 CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTTGCCGTCTTC
* * * * * * * ** * *
25753678 GATCTG-TCC-C-ACTGCAACTTCAGGGGGATAATACCTGCTTACTT--AGCCTGCTCCACTGCA
66 GATCTGCTCCGCTACTG---CTT-AGGGAGACAAGATCTG-TAATTTCCAACCTATTCCACTACT
*
25753738 ACC
126 GCC
* * * * * * *
25753741 TCAGAGAGAAAGGACTTGTGGCTTAAATTTGCTTCCTTACACATGAAGATAAGATTCGCCATCTT
1 -CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTTGCCGTCTT
* * * * * *
25753806 CGGTCTGCTCCGCTACTACTTAGGGAGACGAGATCTGTAATTTCCAACTTATTCTACTACAGCC
65 CGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTACTGCC
*
25753870 CAGGGATATAGGACTTGTGGCTTAAATATGCTTCCTTACACTTGAAGATAAGATTTGCCGTCTTC
1 CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTTGCCGTCTTC
* * *
25753935 GATCTGCTCCTCTATTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGCC
66 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTACTGCC
* ** * * * *
25753998 TAGGGATATAGGACTTACGGCTTAAATCTGCTTCCTTACACTTGACGATCAGATTCGCTGTCTTC
1 CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTTGCCGTCTTC
* * * *
25754063 GATCTGCTTCGCTACTGCTTAGGGAGACAAGATCTATAATTTCCAACCTATTCCACTGCTACC
66 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTACTGCC
* ** * *
25754126 CAGGGATATAGGACTTGCGGCTTAAATCTTATTCCTTTCACTTGAAGATAAGATTTGTCGTCTTC
1 CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTTGCCGTCTTC
* * * *
25754191 GATCTGCT-CGCTATTGCTTAGAGAGACAAGATCTATAATTTCCAACCTATTCCACTGCTGCC
66 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTACTGCC
* * * *
25754253 TAGGGATATAGGACTTGTGGCTTAAATCTACTTCCTTACACGTGAAGATAAGATTTGTCGTCTTC
1 CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTTGCCGTCTTC
*
25754318 GATCTGCTCCGCTACTGCTTAGGGAGAAAAGATCTGTAATTTCCAACCTATTCCACTACTGCC
66 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTACTGCC
* * *
25754381 CAGGGATATAGGACTTGCGGCTTAAATCTGCTTCCTTACACTTGAAGACAACATTTGCCGTCTTC
1 CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTTGCCGTCTTC
*
25754446 GATCTGCTCCGCTATTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCAC-AGCTGCC
66 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTA-CTGCC
* * * * * *
25754509 CAGGGATATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGTCGTC
1 CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTAC-ACT--TGAAGATAAGATTTGCCGTC
25754574 TTCGATCTGCT
63 TTCGATCTGCT
25754585 TTGCCGTCAG
Statistics
Matches: 739, Mismatches: 94, Indels: 18
0.87 0.11 0.02
Matches are distributed among these distances:
127 123 0.17
128 503 0.68
129 80 0.11
130 3 0.00
131 27 0.04
132 3 0.00
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.32
Consensus pattern (128 bp):
CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTTGCCGTCTTC
GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTACTGCC
Found at i:25754301 original size:383 final size:383
Alignment explanation
Indices: 25753751--25754584 Score: 1217
Period size: 383 Copynumber: 2.2 Consensus size: 383
25753741 TCAGAGAGAA
* * * * *
25753751 AGGACTTGTGGCTTAAAT-TTGCTTCCTTACACATGAAGATAAGATTCGCCATCTTCGGTCTGCT
1 AGGACTTGTGGCTTAAATCTT--TTCCTTTCACTTGAAGATAAGATTCGTCGTCTTCGATCTGCT
* * * * *
25753815 CCGCTACTACTTAGGGAGACGAGATCTGTAATTTCCAACTTATTCTACTACAGCCCAGGGATATA
64 CCGCTACTACTTAGAGAGACAAGATCTATAATTTCCAACCTATTCCACTACAGCCCAGGGATATA
* *
25753880 GGACTTGTGGCTTAAATATGCTTCCTTACACTTGAAGATAAGATTTGCCGTCTTCGATCTGCTCC
129 GGACTTGTGGCTTAAATATACTTCCTTACACGTGAAGATAAGATTTGCCGTCTTCGATCTGCTCC
* * * * *
25753945 TCTATTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGCCTAGGGATATAGG
194 GCTACTGCTTAGGGAGAAAAGATCTGTAATTTCCAACCTATTCCACTACTGCCCAGGGATATAGG
* * * *
25754010 ACTTACGGCTTAAATCTGCTTCCTTACACTTGACGATC-AGATTCGCTGTCTTCGATCTGCTTCG
259 ACTTACGGCTTAAATCTGCTTCCTTACACTTGAAGA-CAACATTCGCCGTCTTCGATCTGCTCCG
*
25754074 CTACTGCTTAGGGAGACAAGATCTATAATTTCCAACCTATTCCACTGCTACCCAGGGATAT
323 CTACTGCTTAGGGAGACAAGATCTATAATTTCCAACCTATTCCACAGCTACCCAGGGATAT
* *
25754135 AGGACTTGCGGCTTAAATCTTATTCCTTTCACTTGAAGATAAGATTTGTCGTCTTCGATCTGCT-
1 AGGACTTGTGGCTTAAATCTT-TTCCTTTCACTTGAAGATAAGATTCGTCGTCTTCGATCTGCTC
* * * * *
25754199 CGCTATTGCTTAGAGAGACAAGATCTATAATTTCCAACCTATTCCACTGCTGCCTAGGGATATAG
65 CGCTACTACTTAGAGAGACAAGATCTATAATTTCCAACCTATTCCACTACAGCCCAGGGATATAG
* *
25754264 GACTTGTGGCTTAAATCTACTTCCTTACACGTGAAGATAAGATTTGTCGTCTTCGATCTGCTCCG
130 GACTTGTGGCTTAAATATACTTCCTTACACGTGAAGATAAGATTTGCCGTCTTCGATCTGCTCCG
25754329 CTACTGCTTAGGGAGAAAAGATCTGTAATTTCCAACCTATTCCACTACTGCCCAGGGATATAGGA
195 CTACTGCTTAGGGAGAAAAGATCTGTAATTTCCAACCTATTCCACTACTGCCCAGGGATATAGGA
* *
25754394 CTTGCGGCTTAAATCTGCTTCCTTACACTTGAAGACAACATTTGCCGTCTTCGATCTGCTCCGCT
260 CTTACGGCTTAAATCTGCTTCCTTACACTTGAAGACAACATTCGCCGTCTTCGATCTGCTCCGCT
* * *
25754459 ATTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACAGCTGCCCAGGGATAT
325 ACTGCTTAGGGAGACAAGATCTATAATTTCCAACCTATTCCACAGCTACCCAGGGATAT
* *
25754518 AGGACTTGTGGCTTAAATCTGTTTCCCTACTC-CTGGGGAAGATAAGATTCGTCGTCTTCGATCT
1 AGGACTTGTGGCTTAAATCT-TTT-CCT-TTCACT--TGAAGATAAGATTCGTCGTCTTCGATCT
25754582 GCT
61 GCT
25754585 TTGCCGTCAG
Statistics
Matches: 402, Mismatches: 41, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
382 1 0.00
383 309 0.77
384 59 0.15
385 4 0.01
386 29 0.07
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.32
Consensus pattern (383 bp):
AGGACTTGTGGCTTAAATCTTTTCCTTTCACTTGAAGATAAGATTCGTCGTCTTCGATCTGCTCC
GCTACTACTTAGAGAGACAAGATCTATAATTTCCAACCTATTCCACTACAGCCCAGGGATATAGG
ACTTGTGGCTTAAATATACTTCCTTACACGTGAAGATAAGATTTGCCGTCTTCGATCTGCTCCGC
TACTGCTTAGGGAGAAAAGATCTGTAATTTCCAACCTATTCCACTACTGCCCAGGGATATAGGAC
TTACGGCTTAAATCTGCTTCCTTACACTTGAAGACAACATTCGCCGTCTTCGATCTGCTCCGCTA
CTGCTTAGGGAGACAAGATCTATAATTTCCAACCTATTCCACAGCTACCCAGGGATAT
Found at i:25754893 original size:45 final size:45
Alignment explanation
Indices: 25754765--25754899 Score: 141
Period size: 45 Copynumber: 3.0 Consensus size: 45
25754755 TCTGCTTCGT
25754765 TGTCTACGCAGGAAGGCAAGATCTGCTATTTTCAACCTGCTCCAC
1 TGTCTACGCAGGAAGGCAAGATCTGCTATTTTCAACCTGCTCCAC
** * * * * * * * * *
25754810 TG-AAACCGAAGG-AGGCGAG-GCTGGTGTCTTCGATCTGCTTCAC
1 TGTCTA-CGCAGGAAGGCAAGATCTGCTATTTTCAACCTGCTCCAC
25754853 TGTCTACGCAGGAAGGCAAGATCTGCTATTTTCAACCTGCTCCAC
1 TGTCTACGCAGGAAGGCAAGATCTGCTATTTTCAACCTGCTCCAC
25754898 TG
1 TG
25754900 CAACCGAGGG
Statistics
Matches: 64, Mismatches: 22, Indels: 8
0.68 0.23 0.09
Matches are distributed among these distances:
43 24 0.38
44 14 0.22
45 26 0.41
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (45 bp):
TGTCTACGCAGGAAGGCAAGATCTGCTATTTTCAACCTGCTCCAC
Found at i:25754917 original size:45 final size:44
Alignment explanation
Indices: 25754778--25754909 Score: 124
Period size: 43 Copynumber: 3.0 Consensus size: 44
25754768 CTACGCAGGA
* *
25754778 AGGCAAGATCTGCTATTTTCAACCTGCTCCACTGAAACCGAAGG
1 AGGCAAGATCTGCTATTTTCAACCTGCTCCACTGCAACCGAGGG
* * * * * * * * * *
25754822 AGGCGAG-GCTGGTGTCTTCGATCTGCTTCACTGTCTA-CGCAGGA
1 AGGCAAGATCTGCTATTTTCAACCTGCTCCACTG-CAACCG-AGGG
25754866 AGGCAAGATCTGCTATTTTCAACCTGCTCCACTGCAACCGAGGG
1 AGGCAAGATCTGCTATTTTCAACCTGCTCCACTGCAACCGAGGG
25754910 GGGGCAAGGC
Statistics
Matches: 62, Mismatches: 22, Indels: 8
0.67 0.24 0.09
Matches are distributed among these distances:
43 21 0.34
44 20 0.32
45 21 0.34
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.24
Consensus pattern (44 bp):
AGGCAAGATCTGCTATTTTCAACCTGCTCCACTGCAACCGAGGG
Found at i:25755057 original size:87 final size:88
Alignment explanation
Indices: 25754571--25755147 Score: 648
Period size: 88 Copynumber: 6.6 Consensus size: 88
25754561 AAGATTCGTC
* * *
25754571 GTCTTCGATCTGCTTTGCCGTC-A-GTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCAC
1 GTCTTCGATCTGCTTCGCTGTCTACG--CAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCAC
* *
25754634 T-AACACCGAGGGAGGCGAGGCTGGT
64 TGCA-ACCGAGGGAGGCAAGGCTGGT
* *** **
25754659 GTCTTCGATCTGCTTCGCTGTCTACGCAAGAAGGCAAGATCTGCTATCTTTAACCTGCTATGCCA
1 GTCTTCGATCTGCTTCGCTGTCTACGCAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTG
*
25754724 CAACCGAGGGAGGAAAGGCTGGT
66 CAACCGAGGGAGGCAAGGCTGGT
*
25754747 GTCTTCGATCTGCTTCGTTGTCTACGCAGGAAGGCAAGATCTGCTAT-TTTCAACCTGCTCCACT
1 GTCTTCGATCTGCTTCGCTGTCTACGCAGGAAGGCAAGATCTGCTATCTTT-AACCTGCTCCACT
* * *
25754811 GAAACCGAAGGAGGCGAGGCTGGT
65 GCAACCGAGGGAGGCAAGGCTGGT
*
25754835 GTCTTCGATCTGCTTCACTGTCTACGCAGGAAGGCAAGATCTGCTAT-TTTCAACCTGCTCCACT
1 GTCTTCGATCTGCTTCGCTGTCTACGCAGGAAGGCAAGATCTGCTATCTTT-AACCTGCTCCACT
* *
25754899 GCAACCGAGGGGGGGCAAGGCTGGG
65 GCAACCGA-GGGAGGCAAGGCTGGT
* * * *
25754924 GTCTTCGATCTGCTTCGCTGTCTATGCAGGAAGGCAAGATCGGCTATCTTTAACCCGCTCCATTG
1 GTCTTCGATCTGCTTCGCTGTCTACGCAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTG
*
25754989 CAACCGAGGGAGGCAAGGCT-TT
66 CAACCGAGGGAGGCAAGGCTGGT
* * ** * * * * * * *
25755011 ATTTTTTATCTACTTCGCTGTCAATGTAGGAAGGTAAGATCTGCTATCTTTAACCCGCTCCACTT
1 GTCTTCGATCTGCTTCGCTGTCTACGCAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTG
* * **
25755076 CAACCGATGGAGGCAA-GATTTT
66 CAACCGAGGGAGGCAAGGCTGGT
* * * *
25755098 G-CTTTCGATCTGCTTCGCTATCGATGTAGGAAGGCAAGATCTGCTATCTT
1 GTC-TTCGATCTGCTTCGCTGTCTACGCAGGAAGGCAAGATCTGCTATCTT
25755148 CACTAATCTG
Statistics
Matches: 423, Mismatches: 58, Indels: 17
0.85 0.12 0.03
Matches are distributed among these distances:
86 2 0.00
87 115 0.27
88 225 0.53
89 77 0.18
90 4 0.01
ACGTcount: A:0.22, C:0.25, G:0.26, T:0.27
Consensus pattern (88 bp):
GTCTTCGATCTGCTTCGCTGTCTACGCAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTG
CAACCGAGGGAGGCAAGGCTGGT
Done.