Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 129 of 333
Found at i:41690049 original size:24 final size:24
Alignment explanation
Indices: 41689984--41690050 Score: 63
Period size: 24 Copynumber: 3.0 Consensus size: 24
41689974 CCAAAACATG
41689984 TGTCACATATATCATGAACTC-GA
1 TGTCACATATATCATGAACTCAGA
* * **
41690007 --CCACA-A-CTCATGAGTTCAGA
1 TGTCACATATATCATGAACTCAGA
41690027 TGTCACATATATCATGAACTCAGA
1 TGTCACATATATCATGAACTCAGA
41690051 CAACAACTCA
Statistics
Matches: 31, Mismatches: 8, Indels: 9
0.65 0.17 0.19
Matches are distributed among these distances:
19 8 0.26
20 3 0.10
21 4 0.13
22 4 0.13
23 1 0.03
24 11 0.35
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (24 bp):
TGTCACATATATCATGAACTCAGA
Found at i:41711263 original size:25 final size:25
Alignment explanation
Indices: 41711229--41711279 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
41711219 TGAGTGGCTC
*
41711229 AATGAGAAAATGTTACATGATAACT
1 AATGAGAAAACGTTACATGATAACT
41711254 AATGAGAAAACGTTACATGATAACT
1 AATGAGAAAACGTTACATGATAACT
41711279 A
1 A
41711280 TGGGGTCCGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.49, C:0.10, G:0.16, T:0.25
Consensus pattern (25 bp):
AATGAGAAAACGTTACATGATAACT
Found at i:41712529 original size:21 final size:22
Alignment explanation
Indices: 41712490--41712530 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
41712480 GTTGAAATGT
41712490 CACACGGGCATGTTGCCCCTCC
1 CACACGGGCATGTTGCCCCTCC
*
41712512 CACACGGGCGTG-TGCCCCT
1 CACACGGGCATGTTGCCCCT
41712531 GTGTTAAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.12, C:0.44, G:0.27, T:0.17
Consensus pattern (22 bp):
CACACGGGCATGTTGCCCCTCC
Found at i:41714777 original size:73 final size:73
Alignment explanation
Indices: 41714640--41714787 Score: 233
Period size: 73 Copynumber: 2.0 Consensus size: 73
41714630 AGAATGTTGG
**
41714640 AGGACTTTGGGCACATCCTTAAGATATGGATCTTTGGAGCACAAGATCAAAGATTGTCTGTTTCA
1 AGGACTTTGGGCACATCCTTAAGATATGGATCTTTGGAGCACAAGATCAAAGATTGTCCATTTCA
*
41714705 TAACAAGA
66 AAACAAGA
** *
41714713 AGGACTTTGGGTGCATCCTTAGGATATGGATCTTTGGAGCACAAGATCAAAGATTGTCCATTTCA
1 AGGACTTTGGGCACATCCTTAAGATATGGATCTTTGGAGCACAAGATCAAAGATTGTCCATTTCA
*
41714778 AAACGAGA
66 AAACAAGA
41714786 AG
1 AG
41714788 TTGCCAGCAC
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
73 68 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (73 bp):
AGGACTTTGGGCACATCCTTAAGATATGGATCTTTGGAGCACAAGATCAAAGATTGTCCATTTCA
AAACAAGA
Found at i:41717393 original size:20 final size:21
Alignment explanation
Indices: 41717368--41717407 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
41717358 ACTTTGAAAC
41717368 AGGGC-ACACGCCCGTGTAGA
1 AGGGCAACACGCCCGTGTAGA
* *
41717388 AGGGCAACTCGCTCGTGTAG
1 AGGGCAACACGCCCGTGTAG
41717408 CCATTTCAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.23, C:0.28, G:0.35, T:0.15
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTAGA
Found at i:41730226 original size:60 final size:61
Alignment explanation
Indices: 41730132--41730253 Score: 219
Period size: 60 Copynumber: 2.0 Consensus size: 61
41730122 TACAAAGAAA
*
41730132 AAAATGCAAGAAAAGTAGAAAAGACAAGAGAAGCCATAGTAAATGCTAAGTAATTTCTATT
1 AAAATGCAAGAAAAGTAGAAAAGACAAGAGAAGCCAAAGTAAATGCTAAGTAATTTCTATT
*
41730193 AAAATGCAAGAACAGTA-AAAAGACAAGAGAAGCCAAAGTAAATGCTAAGTAATTTCTATT
1 AAAATGCAAGAAAAGTAGAAAAGACAAGAGAAGCCAAAGTAAATGCTAAGTAATTTCTATT
41730253 A
1 A
41730254 CTCAAGAATG
Statistics
Matches: 59, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
60 43 0.73
61 16 0.27
ACGTcount: A:0.52, C:0.11, G:0.17, T:0.20
Consensus pattern (61 bp):
AAAATGCAAGAAAAGTAGAAAAGACAAGAGAAGCCAAAGTAAATGCTAAGTAATTTCTATT
Found at i:41732791 original size:46 final size:49
Alignment explanation
Indices: 41732644--41733006 Score: 278
Period size: 46 Copynumber: 7.7 Consensus size: 49
41732634 TTTGTGCGCT
* *
41732644 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCAC-ATTATG-AGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-GATGTAGAGCC
* * * * * * * *
41732690 AGTGTAAGATCATGTATGGGACATAGCATCGACATTGAGACG-AGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTAGAGCC
*
41732738 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCGAGATGTA-AGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTAGAGCC
** * *
41732784 AGTGTAAGA-CATGTCTGGGACAT-GCATTAG-CTACGAGA---AGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGAGATGTAGAGCC
* * * *
41732828 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-GAATATATGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCG-AGATGT-AGAGCC
* * * * **
41732878 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGA-TTTTGATAGTA
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGT-AGAGCC
* * * *
41732927 AGTGTAAGACCATGTCTAGGACATGGCATC-GACT--TGATGGATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTA-GAGCC
41732974 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
41733007 ATTACACCCT
Statistics
Matches: 255, Mismatches: 44, Indels: 34
0.77 0.13 0.10
Matches are distributed among these distances:
43 1 0.00
44 11 0.04
45 17 0.07
46 66 0.26
47 60 0.24
48 27 0.11
49 35 0.14
50 37 0.15
51 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTAGAGCC
Found at i:41732882 original size:94 final size:93
Alignment explanation
Indices: 41732641--41732998 Score: 272
Period size: 94 Copynumber: 3.8 Consensus size: 93
41732631 TCATTTGTGC
* *
41732641 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCA-CAT-TATGAGAGCCAGTGTAAGATCATG
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGG-CATGATATATGAGAGCCAGTGTAAGACCATG
* * *
41732704 TATGGGACATAGCATCGACATTGAGACGAGA
65 TCTGGGACAT-GCATAGACATCGAGAC-AGA
* * * *
41732735 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATGT-A-AGCCAGTGTAAGA-CATG
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCAT-GATATATGAGAGCCAGTGTAAGACCATG
*
41732797 TCTGGGACATGCATTAG-C-TACGAGA-AGT
65 TCTGGGACATGCA-TAGACAT-CGAGACAGA
*
41732825 G-TCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGAATATATGAGAGCTAGTGTAAGACC
1 GCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATG-ATATATGAGAGCCAGTGTAAGACC
* * * * *** *
41732889 ATGTCTGGGACATGGCGTCGGCCTCGATTTTGATA
62 ATGTCTGGGACAT-GCATAGACATCGA--GACAGA
* * * **
41732924 G-TAAGTGTAAGACCATGTCTAGGACATGGCATCGACTTGATGGAT--GAGCCAGTGTAAGACCA
1 GCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATGATATATGAGAGCCAGTGTAAGACCA
41732986 TGTCTGGGACATG
63 TGTCTGGGACATG
41732999 GCATCGGCAT
Statistics
Matches: 219, Mismatches: 27, Indels: 35
0.78 0.10 0.12
Matches are distributed among these distances:
89 1 0.00
90 12 0.05
91 16 0.07
92 20 0.09
93 17 0.08
94 57 0.26
95 19 0.09
96 36 0.16
97 1 0.00
98 4 0.02
99 36 0.16
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (93 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATGATATATGAGAGCCAGTGTAAGACCATGT
CTGGGACATGCATAGACATCGAGACAGA
Found at i:41733006 original size:96 final size:98
Alignment explanation
Indices: 41732828--41733006 Score: 272
Period size: 96 Copynumber: 1.8 Consensus size: 98
41732818 GAGAAGTGTC
* * * *
41732828 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATGAATATATGAGAGCTAGTGTAAGACCATGT
1 AGTGTAAGACCATGTCTAGGACATGGCATCGACATGAATAGAT-AGAGCCAGTGTAAGACCATGT
*
41732893 CTGGGACATGGCGTCGGCCTCGATTTTGATAGTA
65 CTGGGACATGGCATCGGCCTCGATTTTGATAGTA
* *
41732927 AGTGTAAGACCATGTCTAGGACATGGCATCGACTTG-ATGGAT-GAGCCAGTGTAAGACCATGTC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGACATGAATAGATAGAGCCAGTGTAAGACCATGTC
41732990 TGGGACATGGCATCGGC
66 TGGGACATGGCATCGGC
41733007 ATTACACCCT
Statistics
Matches: 73, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
96 36 0.49
98 4 0.05
99 33 0.45
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (98 bp):
AGTGTAAGACCATGTCTAGGACATGGCATCGACATGAATAGATAGAGCCAGTGTAAGACCATGTC
TGGGACATGGCATCGGCCTCGATTTTGATAGTA
Found at i:41738282 original size:49 final size:49
Alignment explanation
Indices: 41738165--41738307 Score: 178
Period size: 49 Copynumber: 2.9 Consensus size: 49
41738155 ATACATGTAT
* * * **
41738165 GCTCATATGAGCTATGAATCGGTATGCTCTCACGAGCTGTAAATTGGTAA
1 GCTCATATGAGCTAAGAATCGGTAAGCTCTCACGAGTTG-AAATCAGTAA
* * * *
41738215 GCTCATATGAGCTGAGAATCAGTAAGCTCTTACAAGTTGAAATCAGTAA
1 GCTCATATGAGCTAAGAATCGGTAAGCTCTCACGAGTTGAAATCAGTAA
* *
41738264 GCTCATACGAGCTAAGAATTGGTAAGCTCTCACGAGTTGAAATC
1 GCTCATATGAGCTAAGAATCGGTAAGCTCTCACGAGTTGAAATC
41738308 GATAATCCTT
Statistics
Matches: 78, Mismatches: 15, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
49 46 0.59
50 32 0.41
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.27
Consensus pattern (49 bp):
GCTCATATGAGCTAAGAATCGGTAAGCTCTCACGAGTTGAAATCAGTAA
Found at i:41738298 original size:25 final size:24
Alignment explanation
Indices: 41738173--41738299 Score: 78
Period size: 25 Copynumber: 5.1 Consensus size: 24
41738163 ATGCTCATAT
* *
41738173 GAGCTATGAATCGGTATGCTCTCAC
1 GAGCTAAGAATCGGTAAGCTCT-AC
* * *
41738198 GAGCTGTA-AATTGGTAAGCTCATAT
1 GAGCT-AAGAATCGGTAAGCTC-TAC
* *
41738223 GAGCTGAGAATCAGTAAGCTCTTAC
1 GAGCTAAGAATCGGTAAGCTC-TAC
* * * *
41738248 AAGTTGA-AATCAGTAAGCTCATAC
1 GAGCTAAGAATCGGTAAGCTC-TAC
*
41738272 GAGCTAAGAATTGGTAAGCTCTCAC
1 GAGCTAAGAATCGGTAAGCTCT-AC
41738297 GAG
1 GAG
41738300 TTGAAATCGA
Statistics
Matches: 79, Mismatches: 18, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
24 22 0.28
25 56 0.71
26 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (24 bp):
GAGCTAAGAATCGGTAAGCTCTAC
Found at i:41739681 original size:3 final size:3
Alignment explanation
Indices: 41739668--41740113 Score: 184
Period size: 3 Copynumber: 150.3 Consensus size: 3
41739658 ATTAGTTTAT
* * * *
41739668 TTA TAA TTA TTA TT- TTA CTA TTA CTTA -TA TTTA TTA TCA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA -TTA TTA TTA TTA TTA
* * * *
41739713 TTA TTA CTA TTA -TA TTA CTA CTA TTA TT- TTCA CTA TT- TTCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TT-A TTA
* * * * *
41739757 TTA TTA TTA CTA TTA TTA TTT TTA TTT TTA TT- TT- TTA CTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
** ** * * * *
41739803 TTTA TTA TCG TTA TTA CCA TTA TTA TTG CTA CTA TTC TTA TTA TCT-
1 -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
* * * * *
41739849 TTT TTA CTA TTA TTA TTA TT- TTA TTTA TTA TCA TTA TTA TTC CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
* * * * * * *
41739894 CTA TTA TTA TT- TTT TTA CTA TTG TTA TTTA TTG TCA TTA TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
* * * * * *
41739939 TTA TGA CTA TCA TTA TTA TTA TT- TTA TTTA TTA TCA TTA TTT TTC
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
* * * * * * *
41739984 CTA TTA TTA TTA TT- TTT TTA CTG CTA ATA TTTA TTA TCA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
* * * * *** *
41740029 TTA CTA TTA -TA TTT TTA TTA CTA CTA TTA CGG TTA TTA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
41740076 TTA TTA TTG TTA TTA TTA -TC TTA TT- TTA TTA CTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
41740114 CATTTTTGCA
Statistics
Matches: 322, Mismatches: 97, Indels: 48
0.69 0.21 0.10
Matches are distributed among these distances:
2 28 0.09
3 271 0.84
4 23 0.07
ACGTcount: A:0.28, C:0.09, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:41740015 original size:93 final size:93
Alignment explanation
Indices: 41739857--41740031 Score: 278
Period size: 93 Copynumber: 1.9 Consensus size: 93
41739847 CTTTTTTACT
* **
41739857 ATTATTATTATTTTATTTATTATCATTATTATTCCTACTATTATTATTTTTTTACTATTGTTATT
1 ATTATTATTATTTTATTTATTATCATTATTATTCCTACTATTATTATTTTTTTACTACTAATATT
*
41739922 TATTGTCATTATCATTATTATGACTATC
66 TATTATCATTATCATTATTATGACTATC
* * *
41739950 ATTATTATTATTTTATTTATTATCATTATTTTTCCTATTATTATTATTTTTTTACTGCTAATATT
1 ATTATTATTATTTTATTTATTATCATTATTATTCCTACTATTATTATTTTTTTACTACTAATATT
*
41740015 TATTATCATTATTATTA
66 TATTATCATTATCATTA
41740032 CTATTATATT
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.09, G:0.02, T:0.62
Consensus pattern (93 bp):
ATTATTATTATTTTATTTATTATCATTATTATTCCTACTATTATTATTTTTTTACTACTAATATT
TATTATCATTATCATTATTATGACTATC
Found at i:41740048 original size:17 final size:17
Alignment explanation
Indices: 41740015--41740236 Score: 83
Period size: 18 Copynumber: 11.6 Consensus size: 17
41740005 TGCTAATATT
*
41740015 TATTATCATTATTATTAC
1 TATTAT-ATTTTTATTAC
41740033 TATTATATTTTTATTAC
1 TATTATATTTTTATTAC
* *
41740050 TACTATTACGGTTATTAATATTAT
1 TATTA-TA---TT-TT--TATTAC
* *
41740074 TATTATTATTGTTATTAT
1 TATTA-TATTTTTATTAC
41740092 TATCT-TA-TTTTATTAC
1 TAT-TATATTTTTATTAC
41740108 TATTATCATTTTTGCAATTAC
1 TATTAT-ATTTTT---ATTAC
41740129 TATTACTATTGTATTATTAC
1 TATTA-TATT-T-TTATTAC
41740149 TATTATTATATTTTCATCTA-
1 TATTA-TAT-TTTT-AT-TAC
41740169 TATT-TATTTTTTATTAC
1 TATTATA-TTTTTATTAC
* *
41740186 TTATCTACTTATATTTCTTATC
1 -TAT-TA--TATTTTTATTA-C
* *
41740208 TATTTATATTTTCATTAT
1 TA-TTATATTTTTATTAC
41740226 TATTATATTTT
1 TATTATATTTT
41740237 AGGTATTATA
Statistics
Matches: 161, Mismatches: 14, Indels: 59
0.69 0.06 0.25
Matches are distributed among these distances:
15 1 0.01
16 13 0.08
17 28 0.17
18 32 0.20
19 13 0.08
20 21 0.13
21 31 0.19
22 8 0.05
23 2 0.01
24 12 0.07
ACGTcount: A:0.28, C:0.09, G:0.02, T:0.60
Consensus pattern (17 bp):
TATTATATTTTTATTAC
Found at i:41740243 original size:26 final size:26
Alignment explanation
Indices: 41740214--41740310 Score: 64
Period size: 25 Copynumber: 3.7 Consensus size: 26
41740204 TATCTATTTA
41740214 TATTTTCATTATTATTATATTTTAGG
1 TATTTTCATTATTATTATATTTTAGG
*
41740240 TATTAT-ATCTA-TATT-TATATTTAGG
1 TATTTTCAT-TATTATTATAT-TTTAGG
41740265 TATTAATATCATTATT-TTACTATTGTTA--
1 TATT--T-TCATTATTATTA-TATT-TTAGG
41740293 TATTTTTCA-TATTATTAT
1 TA-TTTTCATTATTATTAT
41740311 TATTATCATC
Statistics
Matches: 57, Mismatches: 2, Indels: 25
0.68 0.02 0.30
Matches are distributed among these distances:
24 3 0.05
25 21 0.37
26 13 0.23
27 1 0.02
28 7 0.12
29 6 0.11
30 6 0.11
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (26 bp):
TATTTTCATTATTATTATATTTTAGG
Found at i:41746573 original size:49 final size:49
Alignment explanation
Indices: 41746517--41747121 Score: 955
Period size: 49 Copynumber: 12.6 Consensus size: 49
41746507 TATTTGAATA
*
41746517 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
41746566 AATGTGAAAGTGTATATATATCTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
41746615 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
41746664 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
41746711 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
41746760 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
41746809 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
41746856 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
41746905 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
41746954 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
41747001 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * * *
41747048 AATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
41747095 GATGTGAAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
41747122 TCCCGAAGGG
Statistics
Matches: 526, Mismatches: 24, Indels: 14
0.93 0.04 0.02
Matches are distributed among these distances:
47 231 0.44
48 1 0.00
49 294 0.56
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (49 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:41746782 original size:145 final size:145
Alignment explanation
Indices: 41746517--41747121 Score: 1020
Period size: 145 Copynumber: 4.2 Consensus size: 145
41746507 TATTTGAATA
*
41746517 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
*
41746582 TATATCTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
64 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
41746647 TAATGGCCGATGTGATG
129 TAATGGCCGATGTGATG
*
41746664 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
41746729 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
66 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
41746794 ATGGCCGATGTGATG
131 ATGGCCGATGTGATG
41746809 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
41746874 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
66 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
41746939 ATGGCCGATGTGATG
131 ATGGCCGATGTGATG
* * *
41746954 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
* * * * *
41747017 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCCGA
66 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
* * *
41747080 GTGGCCAACGTGATG
131 ATGGCCGATGTGATG
* *
41747095 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
41747122 TCCCGAAGGG
Statistics
Matches: 441, Mismatches: 17, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
141 54 0.12
143 45 0.10
145 330 0.75
147 12 0.03
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (145 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
ATGGCCGATGTGATG
Found at i:41749347 original size:38 final size:39
Alignment explanation
Indices: 41749256--41749330 Score: 109
Period size: 38 Copynumber: 2.0 Consensus size: 39
41749246 AATCCGAGTT
* * *
41749256 TAAAGACCCGCTGACTATATGA-AGAGATTATGTCCGGG
1 TAAAGACCCGATGGCTATGTGACAGAGATTATGTCCGGG
41749294 TAAAGACCCGATGGCTATGT-ACAGAGATTATGTCCGG
1 TAAAGACCCGATGGCTATGTGACAGAGATTATGTCCGG
41749331 ATTAAAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.24
Consensus pattern (39 bp):
TAAAGACCCGATGGCTATGTGACAGAGATTATGTCCGGG
Found at i:41751368 original size:40 final size:40
Alignment explanation
Indices: 41751313--41751535 Score: 365
Period size: 40 Copynumber: 5.6 Consensus size: 40
41751303 ATTTGAATAC
41751313 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
*
41751353 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* *
41751393 ATACGGGCTAAGACCCGAAGGCATTTGTTCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
*
41751433 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* * *
41751473 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* *
41751513 ACCCGGGTTAAGACCCGAAGGCA
1 ATCCGGGCTAAGACCCGAAGGCA
41751536 ATTGAGCTTG
Statistics
Matches: 170, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 170 1.00
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
Found at i:41751554 original size:120 final size:120
Alignment explanation
Indices: 41751313--41751562 Score: 376
Period size: 120 Copynumber: 2.1 Consensus size: 120
41751303 ATTTGAATAC
*
41751313 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
* * * ** *
41751378 TGTGCGAGTTGATATATACGGGCTAAGACCCGAAGGCATTTGTTCAAGTTGATAT
66 CGTGCGAGTTGATATACACGGGCTAAGACCCGAAGGCAATTGAGCAAGTGGATAT
41751433 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
* * * ** *
41751498 CGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGAGCTTGTGGTTAT
66 CGTGCGAGTTGATATACACGGGCTAAGACCCGAAGGCAATTGAGCAAGTGGATAT
41751553 ATCC-GGCTAA
1 ATCCGGGCTAA
41751563 ATTCCAAAGA
Statistics
Matches: 117, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
119 6 0.05
120 111 0.95
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (120 bp):
ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
CGTGCGAGTTGATATACACGGGCTAAGACCCGAAGGCAATTGAGCAAGTGGATAT
Found at i:41751861 original size:32 final size:32
Alignment explanation
Indices: 41751824--41751888 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
41751814 TAGCTATGTG
41751824 AATGTAATACTTTAGTCAAAGCCGATTTCATT
1 AATGTAATACTTTAGTCAAAGCCGATTTCATT
41751856 AATGTAATACTTTAGTCAAAGCCGATTTCATT
1 AATGTAATACTTTAGTCAAAGCCGATTTCATT
41751888 A
1 A
41751889 CTTGAAACTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.37
Consensus pattern (32 bp):
AATGTAATACTTTAGTCAAAGCCGATTTCATT
Found at i:41753078 original size:40 final size:40
Alignment explanation
Indices: 41753016--41753296 Score: 402
Period size: 40 Copynumber: 7.0 Consensus size: 40
41753006 AGGTCTCGAC
*
41753016 GATG-ATCCGGGCTAAGTACCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
41753055 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* *
41753095 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
41753135 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* *
41753175 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * ** * *
41753215 GATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * * * *
41753255 GTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
41753295 GA
1 GA
41753297 CGTGTATTCG
Statistics
Matches: 221, Mismatches: 20, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
39 4 0.02
40 217 0.98
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
Found at i:41756783 original size:49 final size:49
Alignment explanation
Indices: 41756727--41757235 Score: 822
Period size: 49 Copynumber: 10.6 Consensus size: 49
41756717 TATTTGAATA
*
41756727 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
41756776 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
41756825 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
41756874 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
41756921 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
41756970 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
41757019 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
41757068 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
41757115 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
41757162 AATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
41757209 GATGTGAAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
41757236 TCCCGAAGGG
Statistics
Matches: 438, Mismatches: 18, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
47 186 0.42
48 1 0.00
49 251 0.57
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (49 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:41757056 original size:194 final size:194
Alignment explanation
Indices: 41756727--41757235 Score: 877
Period size: 194 Copynumber: 2.7 Consensus size: 194
41756717 TATTTGAATA
41756727 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATA
41756792 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
66 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
*
41756857 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATG
131 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATAGCCGATGTGATG
*
41756921 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATA
* *
41756986 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
66 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
*
41757051 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
131 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATAGCCGATGTGATG
*
41757115 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATA
* * * * *
41757176 TATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
66 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
41757236 TCCCGAAGGG
Statistics
Matches: 301, Mismatches: 14, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
188 10 0.03
189 1 0.00
190 44 0.15
192 45 0.15
194 201 0.67
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (194 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATA
TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATAGCCGATGTGATG
Found at i:41759926 original size:3 final size:3
Alignment explanation
Indices: 41759920--41759954 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
41759910 AAAAAAAACA
* *
41759920 AAC AAC AAC AAC AAC AAC AAC GAC AAA AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
41759955 AAATCGTGGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.69, C:0.29, G:0.03, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:41759955 original size:9 final size:9
Alignment explanation
Indices: 41759919--41759957 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
41759909 AAAAAAAAAC
41759919 AAACAACAA
1 AAACAACAA
*
41759928 CAACAACAA
1 AAACAACAA
* *
41759937 CAACGACAA
1 AAACAACAA
41759946 AAACAACAA
1 AAACAACAA
41759955 AAA
1 AAA
41759958 TCGTGGAATG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.72, C:0.26, G:0.03, T:0.00
Consensus pattern (9 bp):
AAACAACAA
Found at i:41761596 original size:64 final size:64
Alignment explanation
Indices: 41761527--41761647 Score: 224
Period size: 64 Copynumber: 1.9 Consensus size: 64
41761517 TAACACATCT
41761527 AGTTAGGAGAATTTGATTCATTTCGATCATAGCATCCTAATTATTTGGCATAAGCATCACATTC
1 AGTTAGGAGAATTTGATTCATTTCGATCATAGCATCCTAATTATTTGGCATAAGCATCACATTC
* *
41761591 AGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTATTTATTTGGCATAAGCAT
1 AGTTAGGAGAATTTGATTCATTTCGATCATAGCATCCTAATTATTTGGCATAAGCAT
41761648 AGATACATGA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
64 55 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.37
Consensus pattern (64 bp):
AGTTAGGAGAATTTGATTCATTTCGATCATAGCATCCTAATTATTTGGCATAAGCATCACATTC
Found at i:41761766 original size:44 final size:43
Alignment explanation
Indices: 41761718--41762327 Score: 278
Period size: 44 Copynumber: 13.8 Consensus size: 43
41761708 AATTCACAGC
* *
41761718 CTTATC-TCTCTAAGGTAGCAAGAGAGCAGGTTAAAGATTGAAGT
1 CTTATCTTC-CTAAGGTAGCAAG-GAGCAGATTGAAGATTGAAGT
* * *
41761762 CTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAGGATTGAAGAT
1 CTTATCTTCCTAAGGTAGCAAGG-AGCAGATTGAAGATTGAAG-T
* * * * *
41761807 CTTATCTCCCTAAGCAGTAG--TGGAGCTA-ATCGAAGATGGCAAAT
1 CTTATCTTCCTAAG--GTAGCAAGGAGC-AGATTGAAGATTG-AAGT
** *
41761851 CTTATCTTCCCGAGGTAGCAAGAGAGCAGGTTGAAGATTGAAGT
1 CTTATCTTCCTAAGGTAGCAAG-GAGCAGATTGAAGATTGAAGT
* *
41761895 CTTATCTTCCTGAGGTAGCAAGGAAGCAGACT-AAGGATTGAAGAT
1 CTTATCTTCCTAAGGTAGCAAGG-AGCAGATTGAA-GATTGAAG-T
* * * * *
41761940 CTTATCTCCCTAAGCAGTAG--TGGAGAAGATCGAAGATGGCGAA-T
1 CTTATCTTCCTAAG--GTAGCAAGGAGCAGATTGAAGAT--TGAAGT
** * ** *****
41761984 CTTATCTTCCCGAGGTAGCAGGGGAGCAGATTTTAGCCACCAGT
1 CTTATCTTCCTAAGGTAGCA-AGGAGCAGATTGAAGATTGAAGT
* *
41762028 CTTATC-TCCTAAGGTAGCAAAAGAGCAGGTTGAAGATTGAAGT
1 CTTATCTTCCTAAGGTAGC-AAGGAGCAGATTGAAGATTGAAGT
* * *
41762071 CTTATCTTCCTGAGGTAGCAATGAAGCAGACTGAAGATTGAAGAT
1 CTTATCTTCCTAAGGTAGCAA-GGAGCAGATTGAAGATTGAAG-T
* ** * * * *
41762116 CTTATCTCCCTAAACAATAG--TGGAGCAGATCGAAGATGGCAAAT
1 CTTATCTTCCT-AA-GGTAGCAAGGAGCAGATTGAAGATTG-AAGT
* * * ** ***** *
41762160 CTTATCTT-CTGAGGTAGCAGGGGAGCAAATTTTAGCCACCAGC
1 CTTATCTTCCTAAGGTAGCA-AGGAGCAGATTGAAGATTGAAGT
* * *
41762203 CTTATC-TCTCTGAGGTAGCAAGAGAGCAGGTTGAAGACTGAAGT
1 CTTATCTTC-CTAAGGTAGCAAG-GAGCAGATTGAAGATTGAAGT
* * * *
41762247 CTTATCTTCCTGAGGTAGCAAGGAAGTAGGTT-AATGATTGTAGAT
1 CTTATCTTCCTAAGGTAGCAAGG-AGCAGATTGAA-GATTGAAG-T
* * *
41762292 CTTATCTCCCTAA-GTAGTATTGGAGCAGATTGAAGA
1 CTTATCTTCCTAAGGTAGCA-AGGAGCAGATTGAAGA
41762328 CGACGAATCT
Statistics
Matches: 418, Mismatches: 106, Indels: 84
0.69 0.17 0.14
Matches are distributed among these distances:
41 3 0.01
42 10 0.02
43 49 0.12
44 251 0.60
45 90 0.22
46 4 0.01
47 11 0.03
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (43 bp):
CTTATCTTCCTAAGGTAGCAAGGAGCAGATTGAAGATTGAAGT
Found at i:41761908 original size:133 final size:133
Alignment explanation
Indices: 41761730--41762012 Score: 496
Period size: 133 Copynumber: 2.1 Consensus size: 133
41761720 TATCTCTCTA
*
41761730 AGGTAGCAAGAGAGCAGGTTAAAGATTGAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTG
1 AGGTAGCAAGAGAGCAGGTTAAAGATTGAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTA
*
41761795 AGGATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCTA-ATCGAAGATGGCAAATCTTATCTT
66 AGGATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAG-AAGATCGAAGATGGCAAATCTTATCTT
41761859 CCCG
130 CCCG
*
41761863 AGGTAGCAAGAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTA
1 AGGTAGCAAGAGAGCAGGTTAAAGATTGAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTA
*
41761928 AGGATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGAAGATCGAAGATGGCGAATCTTATCTTC
66 AGGATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGAAGATCGAAGATGGCAAATCTTATCTTC
41761993 CCG
131 CCG
* *
41761996 AGGTAGCAGGGGAGCAG
1 AGGTAGCAAGAGAGCAG
41762013 ATTTTAGCCA
Statistics
Matches: 143, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
132 1 0.01
133 142 0.99
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (133 bp):
AGGTAGCAAGAGAGCAGGTTAAAGATTGAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTA
AGGATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGAAGATCGAAGATGGCAAATCTTATCTTC
CCG
Found at i:41762029 original size:133 final size:133
Alignment explanation
Indices: 41761730--41762047 Score: 442
Period size: 133 Copynumber: 2.4 Consensus size: 133
41761720 TATCTCTCTA
* * *** *
41761730 AGGTAGCAAGAGAGCAGGTTAAAGATTGAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTG
1 AGGTAGCAAGAGAGCAGATTGAAGACACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTA
*
41761795 AGGATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCTAATCGAAGATGGCAAATCTTATCTTC
66 AGGATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGATGGCAAATCTTATCTTC
41761860 CCG
131 CCG
* ***
41761863 AGGTAGCAAGAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTA
1 AGGTAGCAAGAGAGCAGATTGAAGACACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTA
*
41761928 AGGATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAG-AAGATCGAAGATGGCGAATCTTATCTT
66 AGGATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAA-ATCGAAGATGGCAAATCTTATCTT
41761992 CCCG
130 CCCG
* * ** * * *
41761996 AGGTAGCAGGGGAGCAGATTTTAGCCACCAGTCTTATC-TCCTAAGGTAGCAA
1 AGGTAGCAAGAGAGCAGATTGAAGACACAAGTCTTATCTTCCTGAGGTAGCAA
41762048 AAGAGCAGGT
Statistics
Matches: 169, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
132 14 0.08
133 155 0.92
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (133 bp):
AGGTAGCAAGAGAGCAGATTGAAGACACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTA
AGGATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGATGGCAAATCTTATCTTC
CCG
Found at i:41762078 original size:176 final size:175
Alignment explanation
Indices: 41761863--41762338 Score: 729
Period size: 176 Copynumber: 2.7 Consensus size: 175
41761853 TATCTTCCCG
41761863 AGGTAGCAAGAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTA
1 AGGTAGCAAGAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTA
*
41761928 AGGATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGAAGATCGAAGATGGCGAATCTTATCTTC
66 A-GATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTT-
* *
41761993 CCGAGGTAGCAGGGGAGCAGATTTTAGCCACCAGTCTTATCTC-CTA
129 CCGAGGTAGCAGGGGAGCAAATTTTAGCCACCAGCCTTATCTCTCTA
* *
41762039 AGGTAGCAAAAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTGAGGTAGCAATGAAGCAGACTG
1 AGGTAGCAAGAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACT-
* * *
41762104 AAGATTGAAGATCTTATCTCCCTAAACAATAGTGGAGCAGATCGAAGATGGCAAATCTTATCTTC
65 AAGATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTC
* *
41762169 TGAGGTAGCAGGGGAGCAAATTTTAGCCACCAGCCTTATCTCTCTG
130 CGAGGTAGCAGGGGAGCAAATTTTAGCCACCAGCCTTATCTCTCTA
* * **
41762215 AGGTAGCAAGAGAGCAGGTTGAAGACTGAAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGGTTA
1 AGGTAGCAAGAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTA
* * * * * *
41762280 ATGATTGTAGATCTTATCTCCCTAAGTAGTATTGGAGCAGATTGAAGACGACGAATCTT
66 A-GATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTT
41762339 GTCTCCCTAA
Statistics
Matches: 272, Mismatches: 25, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
175 42 0.15
176 228 0.84
177 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (175 bp):
AGGTAGCAAGAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTA
AGATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCC
GAGGTAGCAGGGGAGCAAATTTTAGCCACCAGCCTTATCTCTCTA
Found at i:41762537 original size:130 final size:130
Alignment explanation
Indices: 41762288--41762834 Score: 774
Period size: 130 Copynumber: 4.2 Consensus size: 130
41762278 TAATGATTGT
* * * * * *
41762288 AGATCTTATCTCCCTAAGTAGTATTGGAGCAGATTGAAGACGACGAATCTTGTCTCCCTAAGTAG
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGCGAATCTTGTCTCCCTAAGCAG
* * * * *
41762353 TAGTGGAGC-TATTTAAGACACCATCCTATCTCCCTAAGCAGTAGTGAAGAAGGCT-ATAGACTA
66 TAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGA-AGATTA
*
41762416 T
130 C
* * * * ** **
41762417 AGATCTTATCTCCCTAAGCTGTAGTGGAATAGATCGAATATGGAAAATCTTGTCTCTTTAAGCAG
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGCGAATCTTGTCTCCCTAAGCAG
* * * *
41762482 TAGTGGAGTATATTTAAGCCACCATCCTATCTCCCTAAGCAATAGTGGAGTAGGCTGAAGATTAT
66 TAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTAC
* *
41762547 AGATCTTTTCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGCGAATCTTGTCTCCTTAAGCAG
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGCGAATCTTGTCTCCCTAAGCAG
*
41762612 TAGTGGAGCAGATTTATGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTAC
66 TAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTAC
* * ** *
41762677 AGATCTTATTTCTCTAAATAGTAGTGGAGCAGATCGAAGACGGCGAATCTTGTCTCCCTAAGCAG
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGCGAATCTTGTCTCCCTAAGCAG
*
41762742 TAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTAAAGATTAC
66 TAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTAC
41762807 AGATCTTATCTCCCTAAGCAGTAGTGGA
1 AGATCTTATCTCCCTAAGCAGTAGTGGA
41762835 CCAAATTGAA
Statistics
Matches: 370, Mismatches: 46, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
129 59 0.16
130 310 0.84
131 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (130 bp):
AGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGCGAATCTTGTCTCCCTAAGCAG
TAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTAC
Found at i:41762656 original size:42 final size:44
Alignment explanation
Indices: 41762294--41762845 Score: 268
Period size: 44 Copynumber: 12.8 Consensus size: 44
41762284 TTGTAGATCT
* * * *
41762294 TATCTCCCTAAGTAGTATTGGAGCAGATTGAAGACGACGA-ATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCAC-ACATCC
* * * *
41762338 TGTCTCCCTAAGTAGTAGTGGAGC-TATTTAAGA-CAC-CATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCACACATCC
* * ** * * * *
41762379 TATCTCCCTAAGCAGTAGTGAAGAAGGCT-ATAGACTATAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATTGA-AGACCACACATCC
* ** * * ** * *
41762423 TATCTCCCTAAGCTGTAGTGGAATAGATCGAATATGGA-AAATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-CCACACATCC
* ** * * *
41762467 TGTCTCTTTAAGCAGTAGTGGAGTATATTTAAG-CCAC-CATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCACACATCC
* * ** ** * * *
41762509 TATCTCCCTAAGCAATAGTGGAGTAGGCTGAAGATTATAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCACACATCC
* * * ** *
41762553 TTTCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGCGA-ATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCAC-ACATCC
* * * *
41762597 TGTCTCCTTAAGCAGTAGTGGAGCAGATTTATG-CCAC-CATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCACACATCC
* ** ** * *
41762639 TATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTACAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCACACATCC
* * ** * ** *
41762683 TATTTCTCTAAATAGTAGTGGAGCAGATCGAAGACGGCGA-ATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCAC-ACATCC
* *
41762727 TGTCTCCCTAAGCAGTAGTGGAGCAGATTTAAG-CCAC-CATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCACACATCC
* ** * ** * *
41762769 TATCTCCCTAAGCAGTAGTGGAGTAGGCTAAAGATTACAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCACACATCC
* *
41762813 TATCTCCCTAAGCAGTAGTGGACCAAATTGAAG
1 TATCTCCCTAAGCAGTAGTGGAGCAGATTGAAG
41762846 TTACGAATCT
Statistics
Matches: 371, Mismatches: 119, Indels: 36
0.71 0.23 0.07
Matches are distributed among these distances:
41 24 0.06
42 95 0.26
43 17 0.05
44 231 0.62
45 4 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (44 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCACACATCC
Found at i:41762787 original size:86 final size:87
Alignment explanation
Indices: 41762290--41762791 Score: 249
Period size: 86 Copynumber: 5.8 Consensus size: 87
41762280 ATGATTGTAG
* * * * * * * *
41762290 ATCTTATCTCCCTAAGTAGTATTGGAGCAGATTGAAGACGACGA-ATCTTGTCTCCCTAAGTAGT
1 ATCTTGTCTCCCTAAGCAGTAGTGGAGTAGATTGAAGACCAC-ACATCCTATCTCCCTAAGCAGT
* ** *
41762354 AGTGGAGC-TATTTAAGAC--ACC
65 AGTGGAGCAGATCGAAGACGGA-A
* * * * ** * * * * *
41762375 ATCCTATCTCCCTAAGCAGTAGTGAAGAAGGCT-ATAGACTATAGATCTTATCTCCCTAAGCTGT
1 ATCTTGTCTCCCTAAGCAGTAGTGGAGTAGATTGA-AGACCACACATCCTATCTCCCTAAGCAGT
** * *
41762439 AGTGGAATAGATCGAATATGGAAA
65 AGTGGAGCAGATCGAAGACGG-AA
** * * *
41762463 ATCTTGTCTCTTTAAGCAGTAGTGGAGTATATTTAAG-CCAC-CATCCTATCTCCCTAAGCAATA
1 ATCTTGTCTCCCTAAGCAGTAGTGGAGTAGATTGAAGACCACACATCCTATCTCCCTAAGCAGTA
* * **
41762526 GTGGAGTAG-GCTGAAGA-TTATA
66 GTGGAGCAGATC-GAAGACGGA-A
* * ** * * *
41762548 GATCTTTTCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGCGA-ATCTTGTCTCCTTAAGCAG
1 -ATCTTGTCTCCCTAAGCAGTAGTGGAGTAGATTGAAGACCAC-ACATCCTATCTCCCTAAGCAG
** * * *
41762612 TAGTGGAGCAGATTTATG-C-CACC
64 TAGTGGAGCAGATCGAAGACGGA-A
* * ** ** * * * * **
41762635 ATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTACAGATCTTATTTCTCTAAATAGTA
1 ATCTTGTCTCCCTAAGCAGTAGTGGAGTAGATTGAAGACCACACATCCTATCTCCCTAAGCAGTA
*
41762700 GTGGAGCAGATCGAAGACGGCGA
66 GTGGAGCAGATCGAAGACGG-AA
* *
41762723 ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATTTAAG-CCAC-CATCCTATCTCCCTAAGCAGTA
1 ATCTTGTCTCCCTAAGCAGTAGTGGAGTAGATTGAAGACCACACATCCTATCTCCCTAAGCAGTA
41762786 GTGGAG
66 GTGGAG
41762792 TAGGCTAAAG
Statistics
Matches: 304, Mismatches: 94, Indels: 37
0.70 0.22 0.09
Matches are distributed among these distances:
84 3 0.01
85 57 0.19
86 150 0.49
87 8 0.03
88 84 0.28
89 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.28
Consensus pattern (87 bp):
ATCTTGTCTCCCTAAGCAGTAGTGGAGTAGATTGAAGACCACACATCCTATCTCCCTAAGCAGTA
GTGGAGCAGATCGAAGACGGAA
Found at i:41763330 original size:182 final size:182
Alignment explanation
Indices: 41763125--41763457 Score: 494
Period size: 182 Copynumber: 1.8 Consensus size: 182
41763115 ATAGTAAACT
* *
41763125 TTATCTCCCTGAAGTAGCAGTAGAACAGGTTGAAG-T-TCAAGTCTTATCTCCCTGAAGTTACAG
1 TTATCTCCCTGAAGTAGCAGTAGAACAGATTGAAGATACCAA-TCTTATCTCCCTGAAGTTACAG
* * * * * *
41763188 TGGAGTAGACTGAAGACAACTAATCCTATCTCTATGAAGTTGTAGTGGAGCAGATTAAAGCAACA
65 CGGAGCAAACTGAAG-CAACTAATCCTATCTCCATGAAGTTGCAGTAGAGCAGATTAAAGCAACA
41763253 A-TCCCTATACCTCTGAAGTTGCAGTAGGTCGGATAAAATCTACCACTACAAGTC
129 AGT-CCTATACCTCTGAAGTTGCAGTAGGTCGGATAAAATCTACCACTACAAGTC
*
41763307 TTATCTCCCTGAAGATA-CAGTAGAGCAGATTGAAGATACCAATCTTATCTCCCTGAAGTTACAG
1 TTATCTCCCTGAAG-TAGCAGTAGAACAGATTGAAGATACCAATCTTATCTCCCTGAAGTTACAG
* * *
41763371 CGGAGCAAATTGAAGCTACTAATCCTATCTCCATGAAGTTGCAGTAGAGTAGATTAAAGCAACAA
65 CGGAGCAAACTGAAGCAACTAATCCTATCTCCATGAAGTTGCAGTAGAGCAGATTAAAGCAACAA
41763436 GTCCTATACCTCTGAAGTTGCA
130 GTCCTATACCTCTGAAGTTGCA
41763458 TGAAGTGGAT
Statistics
Matches: 135, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
182 95 0.70
183 37 0.27
184 3 0.02
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.27
Consensus pattern (182 bp):
TTATCTCCCTGAAGTAGCAGTAGAACAGATTGAAGATACCAATCTTATCTCCCTGAAGTTACAGC
GGAGCAAACTGAAGCAACTAATCCTATCTCCATGAAGTTGCAGTAGAGCAGATTAAAGCAACAAG
TCCTATACCTCTGAAGTTGCAGTAGGTCGGATAAAATCTACCACTACAAGTC
Found at i:41763370 original size:44 final size:44
Alignment explanation
Indices: 41763305--41763425 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 44
41763295 CCACTACAAG
*
41763305 TCTTATCTCCCTGAAGATACAGTAGAGCAGATTGAAGATACCAA
1 TCTTATCTCCCTGAAGTTACAGTAGAGCAGATTGAAGATACCAA
** * * *
41763349 TCTTATCTCCCTGAAGTTACAGCGGAGCAAATTGAAGCTACTAA
1 TCTTATCTCCCTGAAGTTACAGTAGAGCAGATTGAAGATACCAA
* * * *
41763393 TCCTATCTCCATGAAGTTGCAGTAGAGTAGATT
1 TCTTATCTCCCTGAAGTTACAGTAGAGCAGATT
41763426 AAAGCAACAA
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 64 1.00
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTACAGTAGAGCAGATTGAAGATACCAA
Found at i:41763411 original size:138 final size:139
Alignment explanation
Indices: 41763162--41763417 Score: 322
Period size: 138 Copynumber: 1.8 Consensus size: 139
41763152 GGTTGAAGTT
* * * * *
41763162 CAAGTCTTATCTCCCTGAAGTTACAGTGGAGTAGACTGAAGACAACTAATCCTATCTCTATGAAG
1 CAAGTCTTATCTCCCTGAAGATACAGTAGAGCAGACTGAAGACAACCAATCCTATCTCCATGAAG
** * *
41763227 TTGTAGTGGAGCAGATTAAAGCAACAATCCCTATACCTCTGAAGTTGCAGTAGGTCGGATAAAAT
66 TTACAGCGGAGCAAATTAAAGCAACAATCCCTATACCTCTGAAGTTGCAGTAGGTCGGATAAAAT
41763292 CTACCACTA
131 CTACCACTA
* * * *
41763301 CAAGTCTTATCTCCCTGAAGATACAGTAGAGCAGATTGAAGA-TACCAATCTTATCTCCCTGAAG
1 CAAGTCTTATCTCCCTGAAGATACAGTAGAGCAGACTGAAGACAACCAATCCTATCTCCATGAAG
* *
41763365 TTACAGCGGAGCAAATTGAAGCTACTAAT-CCTAT--CTCCATGAAGTTGCAGTAG
66 TTACAGCGGAGCAAATTAAAGCAAC-AATCCCTATACCT-C-TGAAGTTGCAGTAG
41763418 AGTAGATTAA
Statistics
Matches: 99, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
136 2 0.02
137 1 0.01
138 55 0.56
139 41 0.41
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (139 bp):
CAAGTCTTATCTCCCTGAAGATACAGTAGAGCAGACTGAAGACAACCAATCCTATCTCCATGAAG
TTACAGCGGAGCAAATTAAAGCAACAATCCCTATACCTCTGAAGTTGCAGTAGGTCGGATAAAAT
CTACCACTA
Found at i:41763416 original size:88 final size:87
Alignment explanation
Indices: 41763126--41763425 Score: 207
Period size: 88 Copynumber: 3.3 Consensus size: 87
41763116 TAGTAAACTT
* * * * * *
41763126 TATCTCCCTGAAGTAGCAGTAGAACAGGTTGAAG-TTCAAGTCTTATCTCCCTGAAGTTACAGTG
1 TATCTCCATGAAGTTGCAGTAGAGCAGATTGAAGATACAA-TCTTATCTCCCTGAAGTTACAGCG
* * * *
41763190 GAGTAGACTGAAGACAACTAATCC
65 GAGAAAATTGAAG-CTACTAATCC
* * * * * *
41763214 TATCTCTATGAAGTTGTAGTGGAGCAGATTAAAGCA-ACAATCCCTATAC-CTCTGAAGTTGCAG
1 TATCTCCATGAAGTTGCAGTAGAGCAGATTGAAG-ATACAAT-CTTAT-CTCCCTGAAGTT--A-
* * *
41763277 TAGGTCGGATAAAATCT-ACCA-CTAC-AAGTCT
60 CA-G-CGGAGAAAAT-TGA--AGCTACTAA-TCC
* * *
41763308 TATCTCCCTGAAGATACAGTAGAGCAGATTGAAGATACCAATCTTATCTCCCTGAAGTTACAGCG
1 TATCTCCATGAAGTTGCAGTAGAGCAGATTGAAGATA-CAATCTTATCTCCCTGAAGTTACAGCG
*
41763373 GAGCAAATTGAAGCTACTAATCC
65 GAGAAAATTGAAGCTACTAATCC
*
41763396 TATCTCCATGAAGTTGCAGTAGAGTAGATT
1 TATCTCCATGAAGTTGCAGTAGAGCAGATT
41763426 AAAGCAACAA
Statistics
Matches: 157, Mismatches: 36, Indels: 38
0.68 0.16 0.16
Matches are distributed among these distances:
87 1 0.01
88 60 0.38
89 27 0.17
90 2 0.01
91 2 0.01
92 2 0.01
93 5 0.03
94 52 0.33
95 5 0.03
96 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (87 bp):
TATCTCCATGAAGTTGCAGTAGAGCAGATTGAAGATACAATCTTATCTCCCTGAAGTTACAGCGG
AGAAAATTGAAGCTACTAATCC
Found at i:41763441 original size:44 final size:43
Alignment explanation
Indices: 41763126--41763442 Score: 149
Period size: 44 Copynumber: 7.1 Consensus size: 43
41763116 TAGTAAACTT
* * * ** *
41763126 TATCTCCCTGAAG-TAGCAGTAGAACAGGTTGAAG-TTCAAGTCT
1 TATCTCCCTGAAGTTA-CAGTAGAGCAGATTAAAGCAACAA-TCC
* * * *
41763169 TATCTCCCTGAAGTTACAGTGGAGTAGACTGAAGACAACTAATCC
1 TATCTCCCTGAAGTTACAGTAGAGCAGATTAAAG-CAAC-AATCC
** ** *
41763214 TATCTCTATGAAGTTGTAGTGGAGCAGATTAAAGCAACAATCCC
1 TATCTCCCTGAAGTTACAGTAGAGCAGATTAAAGCAACAAT-CC
* * * * * *
41763258 TATAC-CTCTGAAGTTGCAGTAG-GTCGGATAAAATCTACCACTACAAGTCT
1 TAT-CTCCCTGAAGTTACAGTAGAG-CAGAT-TAA---AGCA--ACAA-TCC
* * *
41763308 TATCTCCCTGAAGATACAGTAGAGCAGATTGAAG-ATACCAATCT
1 TATCTCCCTGAAGTTACAGTAGAGCAGATTAAAGCA-A-CAATCC
** * * *
41763352 TATCTCCCTGAAGTTACAGCGGAGCAAATTGAAGCTACTAATCC
1 TATCTCCCTGAAGTTACAGTAGAGCAGATTAAAGCAAC-AATCC
* * *
41763396 TATCTCCATGAAGTTGCAGTAGAGTAGATTAAAGCAACAAGTCC
1 TATCTCCCTGAAGTTACAGTAGAGCAGATTAAAGCAACAA-TCC
41763440 TAT
1 TAT
41763443 ACCTCTGAAG
Statistics
Matches: 211, Mismatches: 43, Indels: 39
0.72 0.15 0.13
Matches are distributed among these distances:
43 33 0.16
44 105 0.50
45 37 0.18
46 3 0.01
48 3 0.01
49 2 0.01
50 26 0.12
51 2 0.01
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (43 bp):
TATCTCCCTGAAGTTACAGTAGAGCAGATTAAAGCAACAATCC
Found at i:41763522 original size:28 final size:28
Alignment explanation
Indices: 41763463--41763522 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
41763453 TTGCATGAAG
* *
41763463 TGGATCGAAGCAACAAGACGCAGAGGAG
1 TGGATCGAAGCAACAAGACACAGAGGAC
*
41763491 TGGATCGAAGCAACAAGACACAGTGGAC
1 TGGATCGAAGCAACAAGACACAGAGGAC
41763519 TGGA
1 TGGA
41763523 ATGAGGCTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.38, C:0.18, G:0.33, T:0.10
Consensus pattern (28 bp):
TGGATCGAAGCAACAAGACACAGAGGAC
Found at i:41763692 original size:11 final size:11
Alignment explanation
Indices: 41763673--41763719 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 11
41763663 GGTCCAGGCT
41763673 AAAACAAACCC
1 AAAACAAACCC
*
41763684 AATACAAACCC
1 AAAACAAACCC
*
41763695 AAAACCAACCC
1 AAAACAAACCC
*
41763706 AAACCTAAACCC
1 AAAAC-AAACCC
41763718 AA
1 AA
41763720 CTATCAGCTC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
11 23 0.77
12 7 0.23
ACGTcount: A:0.57, C:0.38, G:0.00, T:0.04
Consensus pattern (11 bp):
AAAACAAACCC
Found at i:41764827 original size:3 final size:3
Alignment explanation
Indices: 41764819--41765248 Score: 170
Period size: 3 Copynumber: 143.7 Consensus size: 3
41764809 ATTAGTTTAT
* * *
41764819 TTA TTA TTA TT- TTA CTA TTA CTTA -TA TTTA TTA TCA TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA -TTA TTA TTA TTA TTA TTA
* * * * *
41764864 CTA CTA TTA -TA TTA CTA TTA TTA TT- TTCA CTA TTT TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA
* * * * **
41764908 TTA CTA TTA TTA TTT TTA TTA TTTA CTA CTA TTA TTTA TTA TCG TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA -TTA TTA TTA TTA
** * * * * * * * *
41764955 TTA CCA TTA CTA TTG CTA CTA TTC TAA TTA TCT- TTT TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
* * * *
41765000 TTA TTA TT- TTA TATA TTA TCA TTA TTA TTC CTA CTA TTA TTA TT-
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * ** * *
41765044 TT- TTA CTA TTA TTA TTTA TTG TCA TTA TCA TTA TTA CGA CTA TCA
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
41765089 TTA TTA TTA TT- TTA TTTA TTA TCA TTA TTA TTC CTA TTA TTA TTA
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
41765134 TT- TT- TTA CTG CTA ATA TTTA TTA TTA TTA TTA TTA TTA TTG TAA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
41765178 TTA CTA TTA ATA TT- GTA TTA TTA CTA TTA TTA -TA TTT TTA TCTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
*
41765222 -TA TTTA TT- TTT TTA TTA CTTA TCTA TT
1 TTA -TTA TTA TTA TTA TTA -TTA T-TA TT
41765249 TATATTTCTT
Statistics
Matches: 313, Mismatches: 87, Indels: 54
0.69 0.19 0.12
Matches are distributed among these distances:
2 28 0.09
3 251 0.80
4 34 0.11
ACGTcount: A:0.29, C:0.10, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:41765109 original size:92 final size:92
Alignment explanation
Indices: 41764996--41765171 Score: 280
Period size: 92 Copynumber: 1.9 Consensus size: 92
41764986 CTTTTTTACT
* *
41764996 ATTATTATTATTTTATATATTATCATTATTATTCCTACTATTATTATTTTTTACTATTATTATTT
1 ATTATTATTATTTTATATATTATCATTATTATTCCTACTATTATTATTTTTTACTACTAATATTT
*
41765061 ATTGTCATTATCATTATTACGACTATC
66 ATTATCATTATCATTATTACGACTATC
* * *
41765088 ATTATTATTATTTTATTTATTATCATTATTATTCCTATTATTATTATTTTTTACTGCTAATATTT
1 ATTATTATTATTTTATATATTATCATTATTATTCCTACTATTATTATTTTTTACTACTAATATTT
* *
41765153 ATTATTATTATTATTATTA
66 ATTATCATTATCATTATTA
41765172 TTGTAATTAC
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
92 76 1.00
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.60
Consensus pattern (92 bp):
ATTATTATTATTTTATATATTATCATTATTATTCCTACTATTATTATTTTTTACTACTAATATTT
ATTATCATTATCATTATTACGACTATC
Found at i:41765155 original size:38 final size:38
Alignment explanation
Indices: 41765113--41765216 Score: 129
Period size: 38 Copynumber: 2.7 Consensus size: 38
41765103 TTTATTATCA
* *
41765113 TTATTATTCCTATTATTATTATTTTTTACTGCTAATAT
1 TTATTATTACTATTATTATTATTTTTTACTACTAATAT
* * *
41765151 TTATTATTATTATTATTATTATTGTAATTACTATTAATAT
1 TTATTATTACTATTATTATTATT-T-TTTACTACTAATAT
41765191 TGTATTATTACTATTATTA-TATTTTT
1 T-TATTATTACTATTATTATTATTTTT
41765217 ATCTATATTT
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
38 22 0.39
39 2 0.04
40 16 0.29
41 16 0.29
ACGTcount: A:0.30, C:0.06, G:0.03, T:0.62
Consensus pattern (38 bp):
TTATTATTACTATTATTATTATTTTTTACTACTAATAT
Found at i:41765225 original size:17 final size:18
Alignment explanation
Indices: 41764988--41765290 Score: 82
Period size: 18 Copynumber: 16.2 Consensus size: 18
41764978 CTAATTATCT
41764988 TTTTTA-CTATTATTAT-
1 TTTTTATCTATTATTATA
* *
41765004 TATTTTATATATTATCATTA
1 T-TTTTATCTATTATTA-TA
41765024 TTATTCCTA-CTATTATTAT-
1 TT-TT--TATCTATTATTATA
41765043 TTTTTA-CTATTATTATTTA
1 TTTTTATCTATTATTA--TA
*
41765062 TTGTCATTATC-ATTATTACGA
1 TT-T--TTATCTATTATTA-TA
* * * *
41765083 CTATCAT-TATTATTATT
1 TTTTTATCTATTATTATA
*
41765100 TTATTTAT-TATCATTATTA
1 TT-TTTATCTATTATTA-TA
**
41765119 TTCCTAT-TATTATTAT-
1 TTTTTATCTATTATTATA
*
41765135 TTTTTACTGCTAATATT-TA
1 TTTTTA-T-CTATTATTATA
*
41765154 TTATTAT-TATTATTATTA
1 TTTTTATCTATTATTA-TA
* * *
41765172 TTGTAAT-TACTATTAATA
1 TTTTTATCTATTATT-ATA
41765190 TTGTATTATTACTATTATTATA
1 TT-T-TTA-T-CTATTATTATA
*
41765212 TTTTTATCTA-TATTTATT
1 TTTTTATCTATTA-TTATA
41765230 TTTTTATTACTTATCTATTTATA
1 TTTTTA-T-C-TAT-TA-TTATA
41765253 TTTCTTATCTA-T-TTATA
1 TTT-TTATCTATTATTATA
*
41765270 TTTTCAT-TATTATTATA
1 TTTTTATCTATTATTATA
41765287 TTTT
1 TTTT
41765291 AGGTATTATA
Statistics
Matches: 216, Mismatches: 33, Indels: 75
0.67 0.10 0.23
Matches are distributed among these distances:
15 2 0.01
16 26 0.12
17 27 0.12
18 72 0.33
19 24 0.11
20 11 0.05
21 15 0.07
22 18 0.08
23 18 0.08
24 3 0.01
ACGTcount: A:0.28, C:0.08, G:0.02, T:0.62
Consensus pattern (18 bp):
TTTTTATCTATTATTATA
Found at i:41765238 original size:41 final size:41
Alignment explanation
Indices: 41765193--41765311 Score: 115
Period size: 41 Copynumber: 2.9 Consensus size: 41
41765183 ATTAATATTG
41765193 TATTATTACTATTATTA-TATTTTTATCTATATTTATTTTTT
1 TATTATTACTATT-TTAGTATTTTTATCTATATTTATTTTTT
*
41765234 TATTACTTATCTA-TTTA-TATTTCTTATCTAT-TTATATTTTCAT
1 TATTA-TTA-CTATTTTAGTATTT-TTATCTATATT-TATTTT-TT
*
41765277 TATTATTA-TATTTTAGGTA-TTATATCTATATTTAT
1 TATTATTACTATTTTA-GTATTTTTATCTATATTTAT
41765312 ATTTAGGTAT
Statistics
Matches: 67, Mismatches: 2, Indels: 18
0.77 0.02 0.21
Matches are distributed among these distances:
40 2 0.03
41 29 0.43
42 25 0.37
43 11 0.16
ACGTcount: A:0.28, C:0.07, G:0.02, T:0.64
Consensus pattern (41 bp):
TATTATTACTATTTTAGTATTTTTATCTATATTTATTTTTT
Found at i:41765272 original size:23 final size:23
Alignment explanation
Indices: 41765220--41765270 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
41765210 TATTTTTATC
*
41765220 TATATTTATTTTTTTATTACTTA
1 TATATTTATTTTCTTATTACTTA
* *
41765243 TCTATTTATATTTCTTATCTATTTA
1 TATATTTAT-TTTCTTAT-TACTTA
41765268 TAT
1 TAT
41765271 TTTCATTATT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
23 8 0.36
24 7 0.32
25 7 0.32
ACGTcount: A:0.25, C:0.08, G:0.00, T:0.67
Consensus pattern (23 bp):
TATATTTATTTTCTTATTACTTA
Found at i:41765289 original size:40 final size:38
Alignment explanation
Indices: 41765150--41765289 Score: 108
Period size: 41 Copynumber: 3.5 Consensus size: 38
41765140 ACTGCTAATA
*
41765150 TTTATTATTATTAT-TATTATTATTGTAATTA-CTATTAATAT
1 TTTATTATTATTATAT-TTA-TATT-T--TTATCTATTTATAT
* *
41765191 TGTATTATTACTAT-TATTATATTTTTATCTATATT-TAT
1 TTTATTATTATTATAT-TTATATTTTTATCTAT-TTATAT
*
41765229 TTTTTTATTACTTATCTATTTATATTTCTTATCTATTTATAT
1 TTTATTATTA-TTA--TATTTATATTT-TTATCTATTTATAT
41765271 TTTCATTATTATTATATTT
1 TTT-ATTATTATTATATTT
41765290 TAGGTATTAT
Statistics
Matches: 83, Mismatches: 7, Indels: 19
0.76 0.06 0.17
Matches are distributed among these distances:
37 3 0.04
38 15 0.18
39 4 0.05
40 9 0.11
41 28 0.34
42 18 0.22
43 6 0.07
ACGTcount: A:0.29, C:0.06, G:0.01, T:0.64
Consensus pattern (38 bp):
TTTATTATTATTATATTTATATTTTTATCTATTTATAT
Found at i:41765297 original size:26 final size:26
Alignment explanation
Indices: 41765268--41765364 Score: 64
Period size: 25 Copynumber: 3.7 Consensus size: 26
41765258 TATCTATTTA
41765268 TATTTTCATTATTATTATATTTTAGG
1 TATTTTCATTATTATTATATTTTAGG
*
41765294 TATTAT-ATCTA-TATT-TATATTTAGG
1 TATTTTCAT-TATTATTATAT-TTTAGG
41765319 TATTAATATCATTATT-TTACTATTGTTA--
1 TATT--T-TCATTATTATTA-TATT-TTAGG
41765347 TATTTTTCA-TATTATTAT
1 TA-TTTTCATTATTATTAT
41765365 TATTATCATC
Statistics
Matches: 57, Mismatches: 2, Indels: 25
0.68 0.02 0.30
Matches are distributed among these distances:
24 3 0.05
25 21 0.37
26 13 0.23
27 1 0.02
28 7 0.12
29 6 0.11
30 6 0.11
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (26 bp):
TATTTTCATTATTATTATATTTTAGG
Found at i:41770345 original size:46 final size:45
Alignment explanation
Indices: 41770275--41770449 Score: 163
Period size: 46 Copynumber: 3.8 Consensus size: 45
41770265 TGTAACCCGC
* *
41770275 CCATAAGTGAACTCAGACTTAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
* * * *
41770321 CCATAAGTGAACTTGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCTTCGCAT
* *** * ***
41770367 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCAAACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
*
41770414 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
41770450 ATGCTCAACC
Statistics
Matches: 100, Mismatches: 24, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
45 1 0.01
46 66 0.66
47 31 0.31
48 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTCGCAT
Found at i:41770469 original size:46 final size:45
Alignment explanation
Indices: 41770326--41770469 Score: 102
Period size: 46 Copynumber: 3.1 Consensus size: 45
41770316 CGCATCCATA
* *
41770326 AGTGAACTTGGACTCAACTCAACGAGCTCGGATGCCTAGTTA-CATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATC-CT
* ** *
41770375 --CGAACTCGGACTCAACTCAACGAGTTC--A-AACATTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCA-AC-CATCC-T
41770418 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCATCCT
41770465 AGTGA
1 AGTGA
41770470 CATGTCACTT
Statistics
Matches: 75, Mismatches: 10, Indels: 23
0.69 0.09 0.21
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 6 0.08
44 1 0.01
45 1 0.01
46 31 0.41
47 25 0.33
48 6 0.08
49 1 0.01
50 2 0.03
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCCT
Found at i:41770910 original size:30 final size:29
Alignment explanation
Indices: 41770876--41770933 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
41770866 AAAATCTTAT
*
41770876 TTTTGCAAAATTACAGTTTTGCCCCTAAAC
1 TTTTGCAAAATTACACTTTTG-CCCTAAAC
* *
41770906 TTTTGCATATTTACACTTTTGCCCTAAA
1 TTTTGCAAAATTACACTTTTGCCCTAAA
41770934 GCTCATAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 7 0.28
30 18 0.72
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (29 bp):
TTTTGCAAAATTACACTTTTGCCCTAAAC
Found at i:41775869 original size:46 final size:46
Alignment explanation
Indices: 41775802--41775976 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 46
41775792 TGTAACCCGC
41775802 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
* *
41775848 CCATAAGTGAACTTGGACTCAACTCAACGAGCTC-GG-ATGC-CTAATT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGC--A-T
* *** * ***
41775894 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCAAACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
*
41775941 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
41775977 ATGCTCAACC
Statistics
Matches: 105, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 3 0.03
46 64 0.61
47 29 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
Found at i:41775922 original size:93 final size:93
Alignment explanation
Indices: 41775810--41775980 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
41775800 GCCCATAAGT
*** *
41775810 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
41775875 CGAGCTCGGATGCCTAATTACATCTCTC
66 CGAGCTCGGATGCCTAATTACATCTCTC
*
41775903 GAACTCGGACTCAACTCAACGAGTTCAAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
41775968 CGAGTTCGGATGC
66 CGAGCTCGGATGC
41775981 TCAACCGTCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAATTACATCTCTC
Found at i:41780676 original size:14 final size:15
Alignment explanation
Indices: 41780652--41780692 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
41780642 TCATTTTGTA
41780652 AATGTATTAAATATC
1 AATGTATTAAATATC
*
41780667 AATG-ATTAAATATT
1 AATGTATTAAATATC
41780681 AAT-TAATTAAAT
1 AATGT-ATTAAAT
41780693 CTATAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.41
Consensus pattern (15 bp):
AATGTATTAAATATC
Found at i:41782800 original size:32 final size:32
Alignment explanation
Indices: 41782713--41782809 Score: 99
Period size: 32 Copynumber: 3.1 Consensus size: 32
41782703 TTTAAAGGTC
* *
41782713 AATTTTTTTTACCAACTTTGAAGGTGCCCAAAA
1 AATTTCTTTTACCAACTTTTAAGG-GCCCAAAA
* * * **
41782746 AATTTGTTTT--TAGCTTTTAAGGGCTTAAAA
1 AATTTCTTTTACCAACTTTTAAGGGCCCAAAA
*
41782776 AATTTCTTTTACCAACTTTTAAGGGACCAAAA
1 AATTTCTTTTACCAACTTTTAAGGGCCCAAAA
41782808 AA
1 AA
41782810 AATTTTCTCC
Statistics
Matches: 50, Mismatches: 12, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
30 15 0.30
31 9 0.18
32 17 0.34
33 9 0.18
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.38
Consensus pattern (32 bp):
AATTTCTTTTACCAACTTTTAAGGGCCCAAAA
Found at i:41789131 original size:19 final size:18
Alignment explanation
Indices: 41789104--41789142 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
41789094 ATTTTCCTCA
*
41789104 TTCTCATTTTTCTTTTATT
1 TTCTCA-TTTTATTTTATT
*
41789123 TTCTTATTTTATTTTATT
1 TTCTCATTTTATTTTATT
41789141 TT
1 TT
41789143 TTGTTTTGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (18 bp):
TTCTCATTTTATTTTATT
Found at i:41790004 original size:20 final size:20
Alignment explanation
Indices: 41789979--41790016 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
41789969 CATATCCAAC
41789979 AAAAGAAAA-ATAAAAAGAAA
1 AAAAGAAAAGA-AAAAAGAAA
41789999 AAAAGAAAAGAAAAAAGA
1 AAAAGAAAAGAAAAAAGA
41790017 TAGAGGTGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.03
Consensus pattern (20 bp):
AAAAGAAAAGAAAAAAGAAA
Found at i:41790007 original size:14 final size:13
Alignment explanation
Indices: 41789979--41790014 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
41789969 CATATCCAAC
*
41789979 AAAAGAAAAATA-
1 AAAAGAAAAAAAG
41789991 AAAAGAAAAAAAG
1 AAAAGAAAAAAAG
41790004 AAAAGAAAAAA
1 AAAAGAAAAAA
41790015 GATAGAGGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (13 bp):
AAAAGAAAAAAAG
Found at i:41790045 original size:16 final size:17
Alignment explanation
Indices: 41790026--41790063 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
41790016 ATAGAGGTGG
41790026 GAAAATAAAAA-AAAAA
1 GAAAATAAAAACAAAAA
*
41790042 GAAAATAAAAACAATAA
1 GAAAATAAAAACAAAAA
41790059 GAAAA
1 GAAAA
41790064 AAGGAGGAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.82, C:0.03, G:0.08, T:0.08
Consensus pattern (17 bp):
GAAAATAAAAACAAAAA
Found at i:41791038 original size:38 final size:38
Alignment explanation
Indices: 41790986--41791084 Score: 164
Period size: 38 Copynumber: 2.6 Consensus size: 38
41790976 TATTTTAAGT
*
41790986 AATTAA-TGTTTAAATAAACTAAAACATAACTAAATTA
1 AATTAATTATTTAAATAAACTAAAACATAACTAAATTA
41791023 AATTAATTATTTAAATAAACTAAAACATAACTAAATTA
1 AATTAATTATTTAAATAAACTAAAACATAACTAAATTA
41791061 AATTAATTATCTTATAATAAACTA
1 AATTAATTAT-TTA-AATAAACTA
41791085 TATATATGAA
Statistics
Matches: 58, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
37 6 0.10
38 40 0.69
39 3 0.05
40 9 0.16
ACGTcount: A:0.56, C:0.08, G:0.01, T:0.35
Consensus pattern (38 bp):
AATTAATTATTTAAATAAACTAAAACATAACTAAATTA
Found at i:41794276 original size:21 final size:20
Alignment explanation
Indices: 41794235--41794278 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
41794225 CTTTACTACG
* * *
41794235 ACACTATTCCTTTGGAGCAT
1 ACACTATGCCCTTGCAGCAT
41794255 ACACTATGCCCTTGCAGCCAT
1 ACACTATGCCCTTGCAG-CAT
41794276 ACA
1 ACA
41794279 GACAACCTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.27, C:0.32, G:0.14, T:0.27
Consensus pattern (20 bp):
ACACTATGCCCTTGCAGCAT
Found at i:41797772 original size:27 final size:27
Alignment explanation
Indices: 41797714--41797773 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
41797704 TTAGTTTACC
* *
41797714 AAATTACTAAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGACTTATA
* * *
41797741 AAATTACCAAAGTACCTTCGATTTATA
1 AAATTACCAAAATACCCTCGACTTATA
*
41797768 GAATTA
1 AAATTA
41797774 TCGTTTTACC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGACTTATA
Found at i:41797783 original size:27 final size:27
Alignment explanation
Indices: 41797753--41797844 Score: 114
Period size: 27 Copynumber: 3.4 Consensus size: 27
41797743 ATTACCAAAG
* * * *
41797753 TACCTTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
*
41797780 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCGTTT
41797807 TACCCTC-AGTTTACAAAATTACCGTTT
1 TACCCTCGA-TTTACAAAATTACCGTTT
*
41797834 TACCATCGATT
1 TACCCTCGATT
41797845 GTGAAATTAC
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
26 1 0.02
27 54 0.96
28 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCGTTT
Found at i:41797952 original size:27 final size:26
Alignment explanation
Indices: 41797876--41797972 Score: 90
Period size: 27 Copynumber: 3.6 Consensus size: 26
41797866 TGTAGGATAG
* *
41797876 AATTACCAAAATACCACTGGTTTGAGA
1 AATTACCAAAATACCCCTGATTTGA-A
* *
41797903 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-GATTTG-AA
*
41797930 AATTACCAAAATACCCCTGATTTACAA
1 AATTACCAAAATACCCCTGATTT-GAA
41797957 AATTA-CAGAAATACCC
1 AATTACCA-AAATACCC
41797973 TTGACTTTTT
Statistics
Matches: 58, Mismatches: 7, Indels: 10
0.77 0.09 0.13
Matches are distributed among these distances:
26 5 0.09
27 48 0.83
28 5 0.09
ACGTcount: A:0.43, C:0.23, G:0.08, T:0.26
Consensus pattern (26 bp):
AATTACCAAAATACCCCTGATTTGAA
Found at i:41798036 original size:27 final size:28
Alignment explanation
Indices: 41797981--41798036 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 28
41797971 CCTTGACTTT
* * *
41797981 TTTA-AAAATTA-TAGGAATACCATTGG
1 TTTACAAAATTACTAGAAATACCCTTAG
41798007 TTTACAAAATTACTA-AAATACCCTTAG
1 TTTACAAAATTACTAGAAATACCCTTAG
41798034 TTT
1 TTT
41798037 GTAGATTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
26 4 0.16
27 19 0.76
28 2 0.08
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.38
Consensus pattern (28 bp):
TTTACAAAATTACTAGAAATACCCTTAG
Found at i:41798989 original size:25 final size:24
Alignment explanation
Indices: 41798955--41799024 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 24
41798945 AGGAAGTGCT
41798955 AAAAGGGCTTTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
*
41798979 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
41799004 AGAAAGGGCTTTGCCCCAGTT
1 A-AAAGGGCTTTGCCCCAGTT
41799025 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
24 1 0.02
25 42 0.98
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:41799037 original size:24 final size:24
Alignment explanation
Indices: 41798954--41799037 Score: 107
Period size: 25 Copynumber: 3.4 Consensus size: 24
41798944 GAGGAAGTGC
*
41798954 TAAAAGGGCTTTGCCCCAGTTTACC
1 TAAAAGGGCTTTGCCCCAGTTTA-T
*
41798979 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
*
41799003 CAGAAAGGGCTTTGCCCCAG-TTAT
1 TA-AAAGGGCTTTGCCCCAGTTTAT
41799027 TAAAAGAGGCT
1 TAAAAG-GGCT
41799038 AAGCCTCCAG
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
23 4 0.08
24 10 0.19
25 39 0.74
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (24 bp):
TAAAAGGGCTTTGCCCCAGTTTAT
Found at i:41799237 original size:42 final size:42
Alignment explanation
Indices: 41799172--41799263 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
41799162 TAGTCTCCCC
* *
41799172 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCGTGCATACATCCATTGACATTACATGTGATATTG
*
41799214 AAATGGGCGTGCATATATCCATTGACATTACATGTGATATTG
1 AAATGGGCGTGCATACATCCATTGACATTACATGTGATATTG
41799256 AAATGGGC
1 AAATGGGC
41799264 CTAAGGGCCA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.33
Consensus pattern (42 bp):
AAATGGGCGTGCATACATCCATTGACATTACATGTGATATTG
Found at i:41799322 original size:31 final size:29
Alignment explanation
Indices: 41799287--41799369 Score: 96
Period size: 29 Copynumber: 2.8 Consensus size: 29
41799277 CGTTTACAGT
* **
41799287 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGT-ATATG-TTAAACA
*
41799318 AAAGGCTTCGGCTCAGTA-ATCGTTAAACA
1 AAAGGCTTCGGCCCAGTATAT-GTTAAACA
41799347 AAAGGCTTCGGCCCAGTATATGT
1 AAAGGCTTCGGCCCAGTATATGT
41799370 CAAGACTAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
29 25 0.56
30 4 0.09
31 16 0.36
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (29 bp):
AAAGGCTTCGGCCCAGTATATGTTAAACA
Found at i:41802801 original size:8 final size:9
Alignment explanation
Indices: 41802774--41802804 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
41802764 GTCATTTTGG
41802774 TGATAGTTTT
1 TGAT-GTTTT
41802784 TGATGTTTT
1 TGATGTTTT
41802793 TGATGTTTT
1 TGATGTTTT
41802802 TGA
1 TGA
41802805 GATCCTTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 17 0.81
10 4 0.19
ACGTcount: A:0.16, C:0.00, G:0.23, T:0.61
Consensus pattern (9 bp):
TGATGTTTT
Found at i:41803648 original size:49 final size:50
Alignment explanation
Indices: 41803583--41803766 Score: 248
Period size: 49 Copynumber: 3.7 Consensus size: 50
41803573 TATGGCGTTG
*
41803583 ATATGAGATCCCATGTAAGGCCATGTCTGGGACATGGCATTAGCATCGAA
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTAGCATCGAA
* * *
41803633 ATATGAGA-CCCATGTAAGACCATTTCTGGGACATGGCATTGGCATCGAC
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTAGCATCGAA
* *
41803682 ATATGAGATCCCATGTAAGACCATGTCTAGGACATGGCATTAGCATTG-A
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTAGCATCGAA
* * * * *
41803731 GT-GGTGATCCCATGTAAGACCATATCTGGGATATGG
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGG
41803767 TGTTGGTATC
Statistics
Matches: 118, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
48 29 0.25
49 46 0.39
50 43 0.36
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.26
Consensus pattern (50 bp):
ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTAGCATCGAA
Found at i:41805393 original size:13 final size:13
Alignment explanation
Indices: 41805375--41805400 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
41805365 TTATTAAAAG
41805375 TTTAATTCAAACA
1 TTTAATTCAAACA
41805388 TTTAATTCAAACA
1 TTTAATTCAAACA
41805401 CTAAGGTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (13 bp):
TTTAATTCAAACA
Found at i:41827494 original size:13 final size:13
Alignment explanation
Indices: 41827476--41827501 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
41827466 TTGTTCACCA
41827476 AAGCATCATCAAT
1 AAGCATCATCAAT
41827489 AAGCATCATCAAT
1 AAGCATCATCAAT
41827502 TCCAAATTGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.23, G:0.08, T:0.23
Consensus pattern (13 bp):
AAGCATCATCAAT
Found at i:41831064 original size:30 final size:30
Alignment explanation
Indices: 41831030--41831095 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
41831020 TAATAAATAA
*
41831030 AATAAAGCATAATTTAAGGTGATAAAAATT
1 AATAAAGCATAAATTAAGGTGATAAAAATT
*
41831060 AATAAAGCATAAATTAAGGTGATAAAATTT
1 AATAAAGCATAAATTAAGGTGATAAAAATT
41831090 AATAAA
1 AATAAA
41831096 TAAAATAAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.56, C:0.03, G:0.12, T:0.29
Consensus pattern (30 bp):
AATAAAGCATAAATTAAGGTGATAAAAATT
Found at i:41832148 original size:38 final size:38
Alignment explanation
Indices: 41832068--41832151 Score: 98
Period size: 39 Copynumber: 2.2 Consensus size: 38
41832058 GACTACGAGT
* *
41832068 CGATGAGGTACTGAGTGCCAAATTTACTTCGGCATTGTC
1 CGATGAGGCACTGAGTGCCAAATTTACTTCGG-ATTATC
* * *
41832107 CGATGAGGCACTGGGTGCCAATTTTACTTTGG-TTATAC
1 CGATGAGGCACTGAGTGCCAAATTTACTTCGGATTAT-C
41832145 CGATGAG
1 CGATGAG
41832152 TGTTAGGTGC
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
37 3 0.08
38 8 0.21
39 28 0.72
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (38 bp):
CGATGAGGCACTGAGTGCCAAATTTACTTCGGATTATC
Found at i:41838101 original size:20 final size:21
Alignment explanation
Indices: 41838060--41838103 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
41838050 AAACAATAAT
*
41838060 AATCGAAATTATAGTATAAAA
1 AATCAAAATTATAGTATAAAA
41838081 AATCAAAATTA-AGTA-AGAAA
1 AATCAAAATTATAGTATA-AAA
41838101 AAT
1 AAT
41838104 AACATAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 10 0.48
21 10 0.48
ACGTcount: A:0.61, C:0.05, G:0.09, T:0.25
Consensus pattern (21 bp):
AATCAAAATTATAGTATAAAA
Found at i:41843518 original size:55 final size:55
Alignment explanation
Indices: 41843429--41843558 Score: 138
Period size: 55 Copynumber: 2.4 Consensus size: 55
41843419 GCGTCCTCAC
* *
41843429 CCGTGTAACTCTCTGAG-TACGATCACACGGTTGTGTCACACATCTGTGTGCCAGG
1 CCGTGTAACTCTCTGAGTTGCGACCACACGGTTGTGTCACACATC-GTGTGCCAGG
* * * ** **
41843484 CCGTGTAACTCTCTGAGTTGC-CCCACACGTTTGTGTCCCAGGTCGTGTGTTAGG
1 CCGTGTAACTCTCTGAGTTGCGACCACACGGTTGTGTCACACATCGTGTGCCAGG
* *
41843538 CCGTGTAACTCACTGACTTGC
1 CCGTGTAACTCTCTGAGTTGC
41843559 ATACAAAAGA
Statistics
Matches: 63, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
54 27 0.43
55 34 0.54
56 2 0.03
ACGTcount: A:0.17, C:0.28, G:0.25, T:0.29
Consensus pattern (55 bp):
CCGTGTAACTCTCTGAGTTGCGACCACACGGTTGTGTCACACATCGTGTGCCAGG
Found at i:41845282 original size:22 final size:22
Alignment explanation
Indices: 41845237--41845278 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
41845227 TTCAACTTTC
*
41845237 TTAATTAAGCTTTAATAAATCA
1 TTAATTAAGCTCTAATAAATCA
*
41845259 TTAATTAAGC-CTAATTAATC
1 TTAATTAAGCTCTAATAAATC
41845279 CATTTTATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.43, C:0.12, G:0.05, T:0.40
Consensus pattern (22 bp):
TTAATTAAGCTCTAATAAATCA
Found at i:41849808 original size:12 final size:12
Alignment explanation
Indices: 41849791--41849835 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
41849781 GTTTGCTCCA
41849791 AAATCTTGATGT
1 AAATCTTGATGT
*
41849803 AAATCTTGATCT
1 AAATCTTGATGT
**
41849815 AAATCTCAATGT
1 AAATCTTGATGT
41849827 AAATCTTGA
1 AAATCTTGA
41849836 ATCTCGATCT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (12 bp):
AAATCTTGATGT
Found at i:41851634 original size:23 final size:23
Alignment explanation
Indices: 41851577--41851623 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
41851567 GTAATCTATA
41851577 CATAATTTCAAAGAGTTGTCTTT
1 CATAATTTCAAAGAGTTGTCTTT
41851600 CATAATTTCAAAGAGTTGTCTTT
1 CATAATTTCAAAGAGTTGTCTTT
41851623 C
1 C
41851624 TTTTTCACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.43
Consensus pattern (23 bp):
CATAATTTCAAAGAGTTGTCTTT
Found at i:41855544 original size:28 final size:28
Alignment explanation
Indices: 41855506--41855573 Score: 93
Period size: 28 Copynumber: 2.4 Consensus size: 28
41855496 AGTAAGTCCG
*
41855506 CACACTTAGTGCT-TAATAATCAAACTCA
1 CACACTTAGTGCTAT-ACAATCAAACTCA
* *
41855534 CACACTTAGTGCTATACAATTAAACTCG
1 CACACTTAGTGCTATACAATCAAACTCA
41855562 CACACTTAGTGC
1 CACACTTAGTGC
41855574 CAATCTCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 35 0.97
29 1 0.03
ACGTcount: A:0.35, C:0.26, G:0.10, T:0.28
Consensus pattern (28 bp):
CACACTTAGTGCTATACAATCAAACTCA
Found at i:41856214 original size:109 final size:107
Alignment explanation
Indices: 41855940--41856251 Score: 475
Period size: 101 Copynumber: 3.0 Consensus size: 107
41855930 GAAAGATGAA
* *
41855940 TACTTTCCTCTCTTCTTAAACATAATATATTAACATATATTAAAG---A--ATAATGCCATAAAA
1 TACTTTCATCT-TT-TTAAATATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAA
* *
41856000 TATAATAAACAATTCAAGTCATTAATCCATGCATATTGGTCGGC
64 CATAATAAATAATTCAAGTCATTAATCCATGCATATTGGTCGGC
41856044 TACTTTCATC--TTT---TATAATATATTAACATATATT-AAGTATACCATAATGCCATAAAACA
1 TACTTTCATCTTTTTAAATATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAACA
41856103 TAATAAATAATTCAAGTCATTAATCCATGCATATTGGTCGGC
66 TAATAAATAATTCAAGTCATTAATCCATGCATATTGGTCGGC
41856145 TACTTTCATCTTTTATTAAATATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAA
1 TACTTTCATC-TTT-TTAAATATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAA
41856210 CATAATAAATAATTCAAGTCATTAATCCATGCATATTGGTCG
64 CATAATAAATAATTCAAGTCATTAATCCATGCATATTGGTCG
41856252 ACCGTTAATT
Statistics
Matches: 191, Mismatches: 4, Indels: 21
0.88 0.02 0.10
Matches are distributed among these distances:
96 3 0.02
97 20 0.10
99 1 0.01
100 2 0.01
101 67 0.35
104 10 0.05
105 2 0.01
108 21 0.11
109 65 0.34
ACGTcount: A:0.41, C:0.16, G:0.07, T:0.36
Consensus pattern (107 bp):
TACTTTCATCTTTTTAAATATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAACA
TAATAAATAATTCAAGTCATTAATCCATGCATATTGGTCGGC
Found at i:41860019 original size:28 final size:28
Alignment explanation
Indices: 41859981--41860048 Score: 93
Period size: 28 Copynumber: 2.4 Consensus size: 28
41859971 AGTAAGTCCG
41859981 CACACTTAGTGCT-TAATAATCAAACTCA
1 CACACTTAGTGCTAT-ATAATCAAACTCA
* * *
41860009 CACACTTAGTGCTATATAGTTAAACTCG
1 CACACTTAGTGCTATATAATCAAACTCA
41860037 CACACTTAGTGC
1 CACACTTAGTGC
41860049 CAATCTCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 35 0.97
29 1 0.03
ACGTcount: A:0.34, C:0.25, G:0.12, T:0.29
Consensus pattern (28 bp):
CACACTTAGTGCTATATAATCAAACTCA
Found at i:41860693 original size:109 final size:105
Alignment explanation
Indices: 41860428--41860727 Score: 473
Period size: 101 Copynumber: 2.9 Consensus size: 105
41860418 TCCTCTCTTC
* * *
41860428 TTAAACATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAATATAATAAACAATTC
1 TTAAATATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAACATAATAAATAATTC
41860493 AAGTCATTAATCCATGCATATTGGTCGGCTACTTTCATCT
66 AAGTCATTAATCCATGCATATTGGTCGGCTACTTTCATCT
*
41860533 TT---TATAATATATTAACATATATT-AAGTATATCATAATGCCATAAAACATAATAAATAATTC
1 TTAAATATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAACATAATAAATAATTC
* *
41860594 AAGCCATTAATCCATGCATATTGGTCGGCTACTTTTATCTTTT
66 AAGTCATTAATCCATGCATATTGGTCGGCTACTTTCATC---T
41860637 ATTAAATATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAACATAATAAATAATT
1 -TTAAATATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAACATAATAAATAATT
*
41860702 CAAGTCATTAATCCATGAATATTGGT
65 CAAGTCATTAATCCATGCATATTGGT
41860728 TGGCCGTTAA
Statistics
Matches: 178, Mismatches: 9, Indels: 12
0.89 0.05 0.06
Matches are distributed among these distances:
101 72 0.40
102 20 0.11
104 1 0.01
105 4 0.02
108 21 0.12
109 60 0.34
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (105 bp):
TTAAATATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAACATAATAAATAATTC
AAGTCATTAATCCATGCATATTGGTCGGCTACTTTCATCT
Found at i:41865388 original size:47 final size:46
Alignment explanation
Indices: 41865313--41865486 Score: 164
Period size: 46 Copynumber: 3.7 Consensus size: 46
41865303 TCACTTGTGT
* * * *
41865313 GAGCTAGTGTAAGACATGTCTGGGACATGCATTGGCCACATT-ATTA-
1 GAGCCAGTGTAAGACATGTCTGGAACATGCATCGGCC-CATTGA-GAC
41865359 GAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGG--CATTGAGAC
1 GAGCCAGTGTAAGA-CATGTCTGGAACAT-GCATCGGCCCATTGAGAC
*
41865405 GAGCGCTAGTGTAAGACATGTCTGGAACATGCATCGG-CC-TCGAGAC
1 GAGC-C-AGTGTAAGACATGTCTGGAACATGCATCGGCCCATTGAGAC
*
41865451 GTAAGCCAGTGTAAGACACGTCTAGG-ACATGCATCG
1 G--AGCCAGTGTAAGACATGTCT-GGAACATGCATCG
41865487 ACTATGAGAT
Statistics
Matches: 112, Mismatches: 6, Indels: 20
0.81 0.04 0.14
Matches are distributed among these distances:
45 5 0.04
46 57 0.51
47 32 0.29
48 18 0.16
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGAACATGCATCGGCCCATTGAGAC
Found at i:41865531 original size:46 final size:44
Alignment explanation
Indices: 41865363--41865533 Score: 141
Period size: 46 Copynumber: 3.7 Consensus size: 44
41865353 TTATTAGAGC
* *
41865363 CAGTGTAAGACCATGTCTGGAACATGGCATCGGC-ATTGAGACGAGCG
1 CAGTGTAAGA-CATGTCTGGAACAT-GCATCGACTA-TGAGACGTG-G
* * *
41865410 CTAGTGTAAGACATGTCTGGAACATGCATCGGCCT-CGAGACGTAAGC
1 C-AGTGTAAGACATGTCTGGAACATGCATC-GACTATGAGACGT--GG
* *
41865457 CAGTGTAAGACACGTCTAGG-ACATGCATCGACTATGAGATGTGG
1 CAGTGTAAGACATGTCT-GGAACATGCATCGACTATGAGACGTGG
* *
41865501 CAGTGTAAGACCATGCCTGGGACATGGCATCGA
1 CAGTGTAAGA-CATGTCTGGAACAT-GCATCGA
41865534 TACAGATATA
Statistics
Matches: 103, Mismatches: 11, Indels: 21
0.76 0.08 0.16
Matches are distributed among these distances:
44 13 0.13
45 12 0.12
46 48 0.47
47 20 0.19
48 10 0.10
ACGTcount: A:0.28, C:0.22, G:0.30, T:0.20
Consensus pattern (44 bp):
CAGTGTAAGACATGTCTGGAACATGCATCGACTATGAGACGTGG
Found at i:41877095 original size:15 final size:15
Alignment explanation
Indices: 41877075--41877112 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
41877065 ATTTTTAAAA
41877075 AAAAATTATATTTTT
1 AAAAATTATATTTTT
41877090 AAAAA-TATATTTTT
1 AAAAATTATATTTTT
*
41877104 GAAAATTAT
1 AAAAATTAT
41877113 TTTGAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (15 bp):
AAAAATTATATTTTT
Found at i:41878251 original size:14 final size:15
Alignment explanation
Indices: 41878220--41878253 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
41878210 TATAGAAGTT
41878220 AAATGGTTATTAAAG
1 AAATGGTTATTAAAG
*
41878235 AAATGGTT-TTAAGG
1 AAATGGTTATTAAAG
41878249 AAATG
1 AAATG
41878254 AACCATGTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.44, C:0.00, G:0.24, T:0.32
Consensus pattern (15 bp):
AAATGGTTATTAAAG
Found at i:41878410 original size:24 final size:24
Alignment explanation
Indices: 41878356--41878410 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
41878346 AAATGTATTG
*
41878356 TAGAATTACTGTGAACTGCATTTA
1 TAGAAATACTGTGAACTGCATTTA
* * * *
41878380 CAAAAATATTGTGAACTGTATTTA
1 TAGAAATACTGTGAACTGCATTTA
41878404 TAGAAAT
1 TAGAAAT
41878411 GTCACAAAAT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.40, C:0.09, G:0.15, T:0.36
Consensus pattern (24 bp):
TAGAAATACTGTGAACTGCATTTA
Found at i:41878650 original size:54 final size:54
Alignment explanation
Indices: 41878468--41878633 Score: 226
Period size: 54 Copynumber: 3.1 Consensus size: 54
41878458 AAGACTGTAG
* * * * **
41878468 AAGGTTGTGATCGT-AATCAGCAGACTGTGAGATTTGTAAAATCCTGTAAGTAA
1 AAGGTCGTGATCATAAATCAGCGGACTGCGAGATTCATAAAATCCTGTAAGTAA
* * *
41878521 AAGGTCGTGATCATAAATCAGTGGACTGCGAGATTCTTAAAATCCCGTAAGTAA
1 AAGGTCGTGATCATAAATCAGCGGACTGCGAGATTCATAAAATCCTGTAAGTAA
* *
41878575 AAGGTCGTGATCATAAATCAGCGGACTGCGAGATTCATAAAATCTTGTAAGTAG
1 AAGGTCGTGATCATAAATCAGCGGACTGCGAGATTCATAAAATCCTGTAAGTAA
41878629 AAGGT
1 AAGGT
41878634 TGTGGCTGTA
Statistics
Matches: 99, Mismatches: 13, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
53 12 0.12
54 87 0.88
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (54 bp):
AAGGTCGTGATCATAAATCAGCGGACTGCGAGATTCATAAAATCCTGTAAGTAA
Found at i:41878685 original size:39 final size:39
Alignment explanation
Indices: 41878641--41879116 Score: 287
Period size: 39 Copynumber: 12.2 Consensus size: 39
41878631 GGTTGTGGCT
*
41878641 GTAAATCAGCAAACCGTAAGAAAGTCGAAGGTCGTGATC
1 GTAAATCAGCAAACCATAAGAAAGTCGAAGGTCGTGATC
* * * ** *
41878680 ATAAATCAGTAGACTGTAAGAAAG-CTAAAGGTCGTGATC
1 GTAAATCAGCAAACCATAAGAAAGTC-GAAGGTCGTGATC
* * * * *
41878719 GTAAACCAGCAAACCATAAGAAAGCCGATGAAT-GTGACC
1 GTAAATCAGCAAACCATAAGAAAGTCGAAG-GTCGTGATC
* * * * *
41878758 GTAAATCAACAAACCATAAGAAAGCCAAAGTTTGTGATC
1 GTAAATCAGCAAACCATAAGAAAGTCGAAGGTCGTGATC
****** * *
41878797 GTAAATCAATGGGTCATGAGAAAGCCGAAGGTCGTGATC
1 GTAAATCAGCAAACCATAAGAAAGTCGAAGGTCGTGATC
** *
41878836 GTAAATCAGCAAACTTTAAGAAAGTCGAAGGTCATGATC
1 GTAAATCAGCAAACCATAAGAAAGTCGAAGGTCGTGATC
* * * * *
41878875 GTAAATCAGCAGACCCTAAGTAAGTCGAAGGTCATGATA
1 GTAAATCAGCAAACCATAAGAAAGTCGAAGGTCGTGATC
*** * * * *
41878914 GTAAATCAGCAAATTGTAAGAAAGTCAAAAGTCATGATT
1 GTAAATCAGCAAACCATAAGAAAGTCGAAGGTCGTGATC
* * * * *
41878953 GTAAATCA-CAGACTATAAGGAAGCCAAAGGTCGTGATC
1 GTAAATCAGCAAACCATAAGAAAGTCGAAGGTCGTGATC
** * * * * *
41878991 GTAAA-CTAGCGGACTATAAGAAAG-CCAATGACTGTGACC
1 GTAAATC-AGCAAACCATAAGAAAGTCGAAGGTC-GTGATC
* * * * * *
41879030 GTAAATCAACAGACTATAAGAAAGTCAAAGTTTGTGATC
1 GTAAATCAGCAAACCATAAGAAAGTCGAAGGTCGTGATC
* ***** * *
41879069 GTAAATCAACGGGTAATAAGAAAGCCGAAGGTCGTGGTC
1 GTAAATCAGCAAACCATAAGAAAGTCGAAGGTCGTGATC
41879108 GTAAATCAG
1 GTAAATCAG
41879117 TAGACCACGA
Statistics
Matches: 342, Mismatches: 86, Indels: 18
0.77 0.19 0.04
Matches are distributed among these distances:
37 1 0.00
38 35 0.10
39 300 0.88
40 6 0.02
ACGTcount: A:0.41, C:0.16, G:0.23, T:0.20
Consensus pattern (39 bp):
GTAAATCAGCAAACCATAAGAAAGTCGAAGGTCGTGATC
Found at i:41878905 original size:78 final size:78
Alignment explanation
Indices: 41878641--41879076 Score: 326
Period size: 78 Copynumber: 5.6 Consensus size: 78
41878631 GGTTGTGGCT
* * * * * * *
41878641 GTAAATCAGCAAACCGTAAGAAAGTCGAAGGTCGTGATCATAAATCAGTAGACTGTAAGAAAG-C
1 GTAAATCAGCAGACCATAAGAAAGCCGAAGGTCGTGATCGTAAATCAGCAAACTTTAAGAAAGTC
*
41878705 TAAAGGTCGTGATC
66 -AAAGGTCATGATC
* * * * * * ** *
41878719 GTAAACCAGCAAACCATAAGAAAGCCGATGAAT-GTGACCGTAAATCAACAAACCATAAGAAAGC
1 GTAAATCAGCAGACCATAAGAAAGCCGAAG-GTCGTGATCGTAAATCAGCAAACTTTAAGAAAGT
* **
41878783 CAAAGTTTGTGATC
65 CAAAGGTCATGATC
*** ** *
41878797 GTAAATCAATGGGTCATGAGAAAGCCGAAGGTCGTGATCGTAAATCAGCAAACTTTAAGAAAGTC
1 GTAAATCAGCAGACCATAAGAAAGCCGAAGGTCGTGATCGTAAATCAGCAAACTTTAAGAAAGTC
*
41878862 GAAGGTCATGATC
66 AAAGGTCATGATC
* * * * *
41878875 GTAAATCAGCAGACCCTAAGTAAGTCGAAGGTCATGATAGTAAATCAGCAAA-TTGTAAGAAAGT
1 GTAAATCAGCAGACCATAAGAAAGCCGAAGGTCGTGATCGTAAATCAGCAAACTT-TAAGAAAGT
* *
41878939 CAAAAGTCATGATT
65 CAAAGGTCATGATC
* * * ** *
41878953 GTAAATCA-CAGACTATAAGGAAGCCAAAGGTCGTGATCGTAAA-CTAGCGGACTATAAGAAAG-
1 GTAAATCAGCAGACCATAAGAAAGCCGAAGGTCGTGATCGTAAATC-AGCAAACTTTAAGAAAGT
* * * * *
41879015 CCAATGACTGTGACC
65 CAAAGGTC-ATGATC
* * * * * *
41879030 GTAAATCAACAGACTATAAGAAAGTCAAAGTTTGTGATCGTAAATCA
1 GTAAATCAGCAGACCATAAGAAAGCCGAAGGTCGTGATCGTAAATCA
41879077 ACGGGTAATA
Statistics
Matches: 282, Mismatches: 67, Indels: 18
0.77 0.18 0.05
Matches are distributed among these distances:
76 6 0.02
77 54 0.19
78 219 0.78
79 3 0.01
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.21
Consensus pattern (78 bp):
GTAAATCAGCAGACCATAAGAAAGCCGAAGGTCGTGATCGTAAATCAGCAAACTTTAAGAAAGTC
AAAGGTCATGATC
Found at i:41878936 original size:117 final size:117
Alignment explanation
Indices: 41878641--41879116 Score: 352
Period size: 117 Copynumber: 4.1 Consensus size: 117
41878631 GGTTGTGGCT
* *
41878641 GTAAATCAGCAAACCGTAAGAAAGTCGAAGGTCGTGATCA-TAAATCAGTAGACTGTAAGAAAGC
1 GTAAATCAGCAAACCATAAGAAAGTCGAAGGTCGTGAT-AGTAAATCAGTAGATTGTAAGAAAGC
* * * * * *
41878705 TAAAGGTCGTGATCGTAAACCAGCAAACCATAAGAAAGCCGATGAAT-GTGACC
65 CAAAGGTCGTGATCGTAAATCAGCAAACTATAAGAAAGCCGAAG-GTCGTGATC
* * * * * * * * * ** *
41878758 GTAAATCAACAAACCATAAGAAAGCCAAAGTTTGTGATCGTAAATCAATGGGTCATGAGAAAGCC
1 GTAAATCAGCAAACCATAAGAAAGTCGAAGGTCGTGATAGTAAATCAGTAGATTGTAAGAAAGCC
* * * *
41878823 GAAGGTCGTGATCGTAAATCAGCAAACTTTAAGAAAGTCGAAGGTCATGATC
66 AAAGGTCGTGATCGTAAATCAGCAAACTATAAGAAAGCCGAAGGTCGTGATC
* * * * * * *
41878875 GTAAATCAGCAGACCCTAAGTAAGTCGAAGGTCATGATAGTAAATCAGCAAATTGTAAGAAAGTC
1 GTAAATCAGCAAACCATAAGAAAGTCGAAGGTCGTGATAGTAAATCAGTAGATTGTAAGAAAGCC
* * * * * *
41878940 AAAAGTCATGATTGTAAATCA-CAGACTATAAGGAAGCCAAAGGTCGTGATC
66 AAAGGTCGTGATCGTAAATCAGCAAACTATAAGAAAGCCGAAGGTCGTGATC
** * * * * ** ** * *
41878991 GTAAA-CTAGCGGACTATAAGAAAG-CCAATGACTGTGACCGTAAATCAACAGACTATAAGAAAG
1 GTAAATC-AGCAAACCATAAGAAAGTCGAAGGTC-GTGATAGTAAATCAGTAGATTGTAAGAAAG
* * * * *** *
41879054 TCAAAGTTTGTGATCGTAAATCAAC-GGGTAATAAGAAAGCCGAAGGTCGTGGTC
64 CCAAAGGTCGTGATCGTAAATCAGCAAACT-ATAAGAAAGCCGAAGGTCGTGATC
41879108 GTAAATCAG
1 GTAAATCAG
41879117 TAGACCACGA
Statistics
Matches: 275, Mismatches: 77, Indels: 14
0.75 0.21 0.04
Matches are distributed among these distances:
115 6 0.02
116 86 0.31
117 182 0.66
118 1 0.00
ACGTcount: A:0.41, C:0.16, G:0.23, T:0.20
Consensus pattern (117 bp):
GTAAATCAGCAAACCATAAGAAAGTCGAAGGTCGTGATAGTAAATCAGTAGATTGTAAGAAAGCC
AAAGGTCGTGATCGTAAATCAGCAAACTATAAGAAAGCCGAAGGTCGTGATC
Found at i:41879178 original size:54 final size:54
Alignment explanation
Indices: 41879096--41879329 Score: 290
Period size: 54 Copynumber: 4.3 Consensus size: 54
41879086 AAGAAAGCCG
* * *
41879096 AAGGTCGTGGTCGTAAATCAGTAGACCACGAGATTCGTAGAATCTCGTAAGTAA
1 AAGGTCGTGATCATAAATCAGTAGACCACGAGATTCGTAAAATCTCGTAAGTAA
* *
41879150 AAGGTCGTGATCATAAATCAGTAGACCACGAGATTAGTAAAATCCCGTAAGTAA
1 AAGGTCGTGATCATAAATCAGTAGACCACGAGATTCGTAAAATCTCGTAAGTAA
* * ** * * *
41879204 AAGGTCATGATCATGAATCAACAAACCGCGAGATTCGTAAAATCTTGTAAGTAA
1 AAGGTCGTGATCATAAATCAGTAGACCACGAGATTCGTAAAATCTCGTAAGTAA
* * * * *
41879258 AAGGTTGTGATCGTAAATCAGTGGA-CAGCGAGATTCGTAAAATCTTGTAAGTAG
1 AAGGTCGTGATCATAAATCAGTAGACCA-CGAGATTCGTAAAATCTCGTAAGTAA
*
41879312 AAGGTCGTGATTATAAAT
1 AAGGTCGTGATCATAAAT
41879330 TAGTGAACTG
Statistics
Matches: 152, Mismatches: 27, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
53 1 0.01
54 151 0.99
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (54 bp):
AAGGTCGTGATCATAAATCAGTAGACCACGAGATTCGTAAAATCTCGTAAGTAA
Found at i:41879355 original size:39 final size:39
Alignment explanation
Indices: 41879306--41879661 Score: 243
Period size: 39 Copynumber: 9.1 Consensus size: 39
41879296 AAAATCTTGT
* ** * **
41879306 AAGTAGAAGGTCGTGATTATAAATTAGTGAACTGTAAGA
1 AAGTCGAAGGTCGTGATCGTAAATCAGTGAACCATAAGA
* * * *
41879345 AAGTCGAAGGTCGT-AACTGTAAATCAATGAATCGTAAGA
1 AAGTCGAAGGTCGTGATC-GTAAATCAGTGAACCATAAGA
* * ** * * *
41879384 AAGCCGAAAGTTATGGTTGTAAATCAGCGAACCATAAGA
1 AAGTCGAAGGTCGTGATCGTAAATCAGTGAACCATAAGA
* * *
41879423 AAGTCAAAAGTCGTGATCGTAAATCAGTGGACCATAAGA
1 AAGTCGAAGGTCGTGATCGTAAATCAGTGAACCATAAGA
* * * *
41879462 AAGTCAAAGGTCATGATCTTAAATCAGTGTACCATAAGA
1 AAGTCGAAGGTCGTGATCGTAAATCAGTGAACCATAAGA
* * * * *
41879501 AAGTCGAAGGTTGCGATCGTAAATTAG-CAGACTATAAGA
1 AAGTCGAAGGTCGTGATCGTAAATCAGTGA-ACCATAAGA
* * * * *
41879540 AAGTTGAAGGTCGTGATCATAAATCAGTGGACCGTAAAA
1 AAGTCGAAGGTCGTGATCGTAAATCAGTGAACCATAAGA
* ** * *
41879579 AAATCGAAGCCCGTGATCATAAATAAGTGGAACC-TAAGA
1 AAGTCGAAGGTCGTGATCGTAAATCAGT-GAACCATAAGA
* * * * * *
41879618 AA-ACTGGAGGTCATGATCGTAAATCAGCGGACCATAAAA
1 AAGTC-GAAGGTCGTGATCGTAAATCAGTGAACCATAAGA
41879657 AAGTC
1 AAGTC
41879662 AAAAATTATT
Statistics
Matches: 241, Mismatches: 68, Indels: 15
0.74 0.21 0.05
Matches are distributed among these distances:
38 6 0.02
39 230 0.95
40 5 0.02
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (39 bp):
AAGTCGAAGGTCGTGATCGTAAATCAGTGAACCATAAGA
Found at i:41879523 original size:117 final size:117
Alignment explanation
Indices: 41879402--41879665 Score: 273
Period size: 117 Copynumber: 2.3 Consensus size: 117
41879392 AGTTATGGTT
* * *
41879402 GTAAATCAGCGAACCATAAGAAAGTCAAAAGTCGTGATCGTAAATCAGTGGACCATAAGAAAGTC
1 GTAAATCAGCGAACCATAAGAAAGTCAAAAGTCGTGATCATAAATCAGTGGACCATAAAAAAATC
** * * * * **
41879467 AAAGGTCATGATCTTAAATCAGT-GTACCATAAG-AAAGTCGAAGGTTGCGATC
66 AAAGCCCATGATCATAAATAAGTGGAACC-TAAGAAAACT-GAAGGTCACGATC
* * ** * *
41879519 GTAAATTAGC-AGACTATAAGAAAGTTGAAGGTCGTGATCATAAATCAGTGGACCGTAAAAAAAT
1 GTAAATCAGCGA-ACCATAAGAAAGTCAAAAGTCGTGATCATAAATCAGTGGACCATAAAAAAAT
* * * *
41879583 CGAAGCCCGTGATCATAAATAAGTGGAACCTAAGAAAACTGGAGGTCATGATC
65 CAAAGCCCATGATCATAAATAAGTGGAACCTAAGAAAACTGAAGGTCACGATC
* *
41879636 GTAAATCAGCGGACCATAAAAAAGTCAAAA
1 GTAAATCAGCGAACCATAAGAAAGTCAAAA
41879666 ATTATTATCA
Statistics
Matches: 115, Mismatches: 28, Indels: 8
0.76 0.19 0.05
Matches are distributed among these distances:
116 1 0.01
117 106 0.92
118 8 0.07
ACGTcount: A:0.42, C:0.16, G:0.22, T:0.20
Consensus pattern (117 bp):
GTAAATCAGCGAACCATAAGAAAGTCAAAAGTCGTGATCATAAATCAGTGGACCATAAAAAAATC
AAAGCCCATGATCATAAATAAGTGGAACCTAAGAAAACTGAAGGTCACGATC
Found at i:41885363 original size:46 final size:50
Alignment explanation
Indices: 41885182--41885452 Score: 227
Period size: 46 Copynumber: 5.7 Consensus size: 50
41885172 CATCAAGTCA
* * * ** *
41885182 ATGCCATGTCCCAGACATCGTCTTACACTGACTAT-CGAAATCG-AGGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTAC-ATCTCGTAGGCCG
* *
41885231 ACT-CCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGT--GCCG
1 A-TGCCATGTCCCAGACATGGTCTTACACTGGCTCT-ACATCT-CGTAGGCCG
*
41885281 ATGCCATGTCCCA-ACCATGGTCTTACACT-G-AC-ACATCTCGTA-GCCG
1 ATGCCATGTCCCAGA-CATGGTCTTACACTGGCTCTACATCTCGTAGGCCG
* *
41885327 ATG-CATGTCCCAAACAT-GTCTTACACTGGCT-TACATCTCG-AGGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCGTAGGCCG
* * * *
41885373 ATG-CATGTCCCAGACAT-GTCTTACACTAGCTCT-CGTCTC-AATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCGTAGGCCG
*
41885419 ATGCCATGTCCCAGACCTGGTCTTACACTGGCTC
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTC
41885453 ACAAATAACC
Statistics
Matches: 188, Mismatches: 17, Indels: 35
0.78 0.07 0.15
Matches are distributed among these distances:
44 10 0.05
45 17 0.09
46 65 0.35
47 14 0.07
48 15 0.08
49 32 0.17
50 32 0.17
51 3 0.02
ACGTcount: A:0.23, C:0.33, G:0.18, T:0.26
Consensus pattern (50 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCGTAGGCCG
Found at i:41894018 original size:18 final size:18
Alignment explanation
Indices: 41893995--41894031 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
41893985 GTCGTTAACC
41893995 TATGATGTTTTTTGAAGT
1 TATGATGTTTTTTGAAGT
41894013 TATGATGTTTTTTGAAGT
1 TATGATGTTTTTTGAAGT
41894031 T
1 T
41894032 GTCATATAAA
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:0.00, G:0.22, T:0.57
Consensus pattern (18 bp):
TATGATGTTTTTTGAAGT
Found at i:41894347 original size:22 final size:21
Alignment explanation
Indices: 41894310--41894369 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
41894300 TTAAATGAAT
* *
41894310 AAAAATTCTATTTTTTAACAA
1 AAAAAATCTATTTTTTAAAAA
41894331 AAAAAATCTATTATTTTAAAAA
1 AAAAAATCTATT-TTTTAAAAA
41894353 ATAAAAA-CT-TTTTTTAA
1 A-AAAAATCTATTTTTTAA
41894370 TATCAACTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
20 6 0.17
21 13 0.37
22 11 0.31
23 5 0.14
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.42
Consensus pattern (21 bp):
AAAAAATCTATTTTTTAAAAA
Found at i:41894541 original size:24 final size:25
Alignment explanation
Indices: 41894495--41894541 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
41894485 CTACGTGCTT
*
41894495 ATTTTTAATTATTTTTAAATAATGC
1 ATTTTTAATTATTTGTAAATAATGC
*
41894520 ATTTTTAATTA-TTGTAATTAAT
1 ATTTTTAATTATTTGTAAATAAT
41894542 TTTTTAATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.57
Consensus pattern (25 bp):
ATTTTTAATTATTTGTAAATAATGC
Found at i:41904113 original size:43 final size:43
Alignment explanation
Indices: 41904049--41904321 Score: 429
Period size: 43 Copynumber: 6.6 Consensus size: 43
41904039 GACATTACGT
*
41904049 CTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACGAAGC
1 CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGC
* *
41904092 CTACTAGGCACGAAGGCCCGAATACACATCACCAGCACGAAGC
1 CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGC
41904135 CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGC
1 CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGC
* *
41904178 CTGCTAGGCACGAAGGCCCGAATATACATCACCGGTACGAAGC
1 CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGC
41904221 CTGCTAGGCACGAAGGCCCGAATACACATCA----C-CG--G-
1 CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGC
41904256 C-GCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGC
1 CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGC
*
41904298 CTGCTAGGCATGAAGGCCCGAATA
1 CTGCTAGGCACGAAGGCCCGAATA
41904322 TAATACCAGC
Statistics
Matches: 211, Mismatches: 10, Indels: 18
0.88 0.04 0.08
Matches are distributed among these distances:
34 29 0.14
35 1 0.00
36 1 0.00
38 3 0.01
39 2 0.01
41 1 0.00
42 1 0.00
43 173 0.82
ACGTcount: A:0.31, C:0.33, G:0.25, T:0.11
Consensus pattern (43 bp):
CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGC
Found at i:41904266 original size:34 final size:34
Alignment explanation
Indices: 41904223--41904290 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
41904213 TACGAAGCCT
41904223 GCTAGGCACGAAGGCCCGAATACACATCACCGGC
1 GCTAGGCACGAAGGCCCGAATACACATCACCGGC
41904257 GCTAGGCACGAAGGCCCGAATACACATCACCGGC
1 GCTAGGCACGAAGGCCCGAATACACATCACCGGC
41904291 ACGAAGCCTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.35, G:0.26, T:0.09
Consensus pattern (34 bp):
GCTAGGCACGAAGGCCCGAATACACATCACCGGC
Found at i:41904362 original size:38 final size:38
Alignment explanation
Indices: 41904314--41904437 Score: 131
Period size: 38 Copynumber: 3.2 Consensus size: 38
41904304 GGCATGAAGG
* * * *
41904314 CCCGAATATAATACCAGCACTAGGCCTGCGAGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGAGATTTAA
* * *
41904352 CCCTGATATAATACCAGCACGAAACCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGAGATTTAA
** * *
41904390 CCCGGATATTTTACCAGCACGAAGCCTGCGGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGAG-ATTTAA
41904429 GCCCGGATA
1 -CCCGGATA
41904438 CACATCAAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
38 59 0.82
39 5 0.07
40 8 0.11
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGAGATTTAA
Found at i:41909737 original size:43 final size:43
Alignment explanation
Indices: 41909687--41909999 Score: 482
Period size: 43 Copynumber: 7.5 Consensus size: 43
41909677 ATTACGTCTA
* *
41909687 CTAGGCACGAAGGCCCAAATACACATCACCAGCACGAAGCCTG
1 CTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTG
* * *
41909730 CAAGGCACGAAGGCTCGAATACACATCACCAGCACGAAGCCTG
1 CTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTG
*
41909773 CTAGGCACGAAGGCCCAAATACACATCACCGGCACGAAGCCTG
1 CTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTG
*
41909816 CTAGGCACGAAGGCCCGAATATACATCACCGGCACGAAGCCTG
1 CTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTG
*
41909859 CTAGGCACGAAGGCTCGAATACACATCACC-G---G--G---G
1 CTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTG
41909893 CTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTG
1 CTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTG
*
41909936 CTAGGAACGAAGGCCCGAATACACATCACCGGCACGAAGCCTG
1 CTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTG
41909979 CTAGGCACGAAGGCCCGAATA
1 CTAGGCACGAAGGCCCGAATA
41910000 TAATACCAGC
Statistics
Matches: 247, Mismatches: 14, Indels: 18
0.89 0.05 0.06
Matches are distributed among these distances:
34 30 0.12
35 1 0.00
37 1 0.00
38 1 0.00
39 1 0.00
40 1 0.00
42 1 0.00
43 211 0.85
ACGTcount: A:0.32, C:0.33, G:0.25, T:0.10
Consensus pattern (43 bp):
CTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTG
Found at i:41909901 original size:34 final size:34
Alignment explanation
Indices: 41909858--41909924 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
41909848 CACGAAGCCT
*
41909858 GCTAGGCACGAAGGCTCGAATACACATCACCGGG
1 GCTAGGCACGAAGGCCCGAATACACATCACCGGG
41909892 GCTAGGCACGAAGGCCCGAATACACATCACCGG
1 GCTAGGCACGAAGGCCCGAATACACATCACCGG
41909925 CACGAAGCCT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.30, C:0.31, G:0.28, T:0.10
Consensus pattern (34 bp):
GCTAGGCACGAAGGCCCGAATACACATCACCGGG
Found at i:41909923 original size:120 final size:120
Alignment explanation
Indices: 41909772--41909999 Score: 420
Period size: 120 Copynumber: 1.9 Consensus size: 120
41909762 CACGAAGCCT
*
41909772 GCTAGGCACGAAGGCCCAAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATA
1 GCTAGGCACGAAGGCCCAAATACACATCACCGGCACGAAGCCTGCTAGGAACGAAGGCCCGAATA
* *
41909837 TACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCTCGAATACACATCACCGGG
66 CACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGG
*
41909892 GCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGAACGAAGGCCCGAATA
1 GCTAGGCACGAAGGCCCAAATACACATCACCGGCACGAAGCCTGCTAGGAACGAAGGCCCGAATA
41909957 CACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATA
66 CACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATA
41910000 TAATACCAGC
Statistics
Matches: 104, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
120 104 1.00
ACGTcount: A:0.31, C:0.32, G:0.26, T:0.10
Consensus pattern (120 bp):
GCTAGGCACGAAGGCCCAAATACACATCACCGGCACGAAGCCTGCTAGGAACGAAGGCCCGAATA
CACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGG
Found at i:41909946 original size:77 final size:77
Alignment explanation
Indices: 41909815--41909967 Score: 279
Period size: 77 Copynumber: 2.0 Consensus size: 77
41909805 CACGAAGCCT
* * *
41909815 GCTAGGCACGAAGGCCCGAATATACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCTCGAATA
1 GCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGAACGAAGGCCCGAATA
41909880 CACATCACCGGG
66 CACATCACCGGG
41909892 GCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGAACGAAGGCCCGAATA
1 GCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGAACGAAGGCCCGAATA
41909957 CACATCACCGG
66 CACATCACCGG
41909968 CACGAAGCCT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 73 1.00
ACGTcount: A:0.31, C:0.32, G:0.27, T:0.10
Consensus pattern (77 bp):
GCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGAACGAAGGCCCGAATA
CACATCACCGGG
Found at i:41910083 original size:38 final size:40
Alignment explanation
Indices: 41910041--41910116 Score: 120
Period size: 38 Copynumber: 1.9 Consensus size: 40
41910031 CCTAATATAA
*
41910041 TACCAGCACGAAGCCTGCGGG-ATTTAA-CCCGGATATTT
1 TACCAGCACAAAGCCTGCGGGTATTTAAGCCCGGATATTT
*
41910079 TACCAGCACAAAGCCTGCGGGTCTTTAAGCCCGGATAT
1 TACCAGCACAAAGCCTGCGGGTATTTAAGCCCGGATAT
41910117 ACATCAAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
38 20 0.59
39 5 0.15
40 9 0.26
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.22
Consensus pattern (40 bp):
TACCAGCACAAAGCCTGCGGGTATTTAAGCCCGGATATTT
Found at i:41914918 original size:19 final size:21
Alignment explanation
Indices: 41914882--41914921 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 21
41914872 TGATCCATGT
41914882 AATTGAAATGTATGGTATATG
1 AATTGAAATGTATGGTATATG
41914903 AATT-AAATGT-TGGTATATG
1 AATTGAAATGTATGGTATATG
41914922 GCATGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.47
20 6 0.32
21 4 0.21
ACGTcount: A:0.38, C:0.00, G:0.23, T:0.40
Consensus pattern (21 bp):
AATTGAAATGTATGGTATATG
Found at i:41915904 original size:89 final size:89
Alignment explanation
Indices: 41915788--41915959 Score: 283
Period size: 89 Copynumber: 1.9 Consensus size: 89
41915778 ATAACCCAGG
*
41915788 TTTGAACAATTAATGTTATTAGAAGTTTT-ATAACTCAAAATTTTTTGCATGATTTATCTTTTGA
1 TTTGAACAATTAATGTTATTAGAAGTTTTAAAAACTC-AAATTTTTTGCATGATTTATCTTTTGA
41915852 ATATTGAAATGAAATTGTACCCGGA
65 ATATTGAAATGAAATTGTACCCGGA
** * *
41915877 TTTGAACAATTAATGTTATTAGAAGTTTTAAAAACTCATTTTTTTTGCATGATTTGTCTTTTGGA
1 TTTGAACAATTAATGTTATTAGAAGTTTTAAAAACTCAAATTTTTTGCATGATTTATCTTTTGAA
41915942 TATTGAAATGAAATTGTA
66 TATTGAAATGAAATTGTA
41915960 ATTGCTTCGG
Statistics
Matches: 77, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
89 71 0.92
90 6 0.08
ACGTcount: A:0.34, C:0.08, G:0.14, T:0.45
Consensus pattern (89 bp):
TTTGAACAATTAATGTTATTAGAAGTTTTAAAAACTCAAATTTTTTGCATGATTTATCTTTTGAA
TATTGAAATGAAATTGTACCCGGA
Found at i:41916084 original size:13 final size:13
Alignment explanation
Indices: 41916066--41916090 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41916056 AAATAATAAA
41916066 TAATAAATATTAT
1 TAATAAATATTAT
41916079 TAATAAATATTA
1 TAATAAATATTA
41916091 ATTATTTTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TAATAAATATTAT
Found at i:41916313 original size:27 final size:26
Alignment explanation
Indices: 41916281--41916334 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 26
41916271 TTTAATGTTT
*
41916281 TAAAAACTTTTTAAATGATTGTAATTA
1 TAAAAACTTTTTAAAT-ATTATAATTA
*
41916308 TAAAAACTTTTTTAATATTATAATTA
1 TAAAAACTTTTTAAATATTATAATTA
41916334 T
1 T
41916335 TTTTAAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 10 0.40
27 15 0.60
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (26 bp):
TAAAAACTTTTTAAATATTATAATTA
Found at i:41920246 original size:67 final size:66
Alignment explanation
Indices: 41920090--41920241 Score: 161
Period size: 67 Copynumber: 2.3 Consensus size: 66
41920080 CACTCAGTAC
* * * * * * *
41920090 CACCCATGTGACCTAGCCA-AT-TTATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTGG
1 CACCCATGCGACCTAGCTACATAATATCCCGTAGCTCTCTTGTCTACATGGTG--CTACACATGA
41920153 AAT
64 AAT
* *
41920156 CACGCATGTGACCTAGCTACATAA-ATCCCGTAGCTCTCTTGTCTACATGGTG-TACACAT-AAT
1 CACCCATGCGACCTAGCTACATAATATCCCGTAGCTCTCTTGTCTACATGGTGCTACACATGAA-
41920218 AT
65 AT
41920220 CACCCATGCGACCTAGCTACAT
1 CACCCATGCGACCTAGCTACAT
41920242 CATAATGTCT
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
63 1 0.01
64 27 0.36
66 17 0.23
67 29 0.39
ACGTcount: A:0.24, C:0.30, G:0.16, T:0.30
Consensus pattern (66 bp):
CACCCATGCGACCTAGCTACATAATATCCCGTAGCTCTCTTGTCTACATGGTGCTACACATGAAA
T
Found at i:41921000 original size:30 final size:30
Alignment explanation
Indices: 41920966--41921026 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
41920956 TCCTTAACTC
*
41920966 AAACTTTTGTAAAATTACAATTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
* * *
41920996 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
41921026 A
1 A
41921027 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.41
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTGCCCCT
Found at i:41923181 original size:20 final size:20
Alignment explanation
Indices: 41923144--41923182 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
41923134 AAAAAAACTC
* **
41923144 ATTGACCGTTAACTTTAACA
1 ATTGACCATTAAAGTTAACA
41923164 ATTGACCATTAAAGTTAAC
1 ATTGACCATTAAAGTTAAC
41923183 TGCTCTTAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.33
Consensus pattern (20 bp):
ATTGACCATTAAAGTTAACA
Found at i:41923301 original size:32 final size:31
Alignment explanation
Indices: 41923242--41923332 Score: 85
Period size: 32 Copynumber: 2.8 Consensus size: 31
41923232 TGACATGTGG
** * *
41923242 TAAAAAATTATAAAAAATAAATCAAAAAAA-GT
1 TAAAAAATTAT-AAATTTTAAT-AAAAAAATAT
*
41923274 TATAAAATTATTAAATTTTAATAAAAAAATTAT
1 TAAAAAATTA-TAAATTTTAATAAAAAAA-TAT
*
41923307 TAAAAAATTATAAATTTTTATAAAAA
1 TAAAAAATTATAAATTTTAATAAAAA
41923333 TCATAAAATA
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
31 7 0.14
32 31 0.63
33 11 0.22
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (31 bp):
TAAAAAATTATAAATTTTAATAAAAAAATAT
Found at i:41923319 original size:22 final size:22
Alignment explanation
Indices: 41923277--41923320 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
41923267 AAAAAGTTAT
**
41923277 AAAATTATTAAATTTTAATAAA
1 AAAATTATTAAAAATTAATAAA
41923299 AAAATTATTAAAAAATT-ATAAA
1 AAAATTATT-AAAAATTAATAAA
41923321 TTTTTATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
AAAATTATTAAAAATTAATAAA
Found at i:41923333 original size:19 final size:18
Alignment explanation
Indices: 41923300--41923339 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
41923290 TTTAATAAAA
*
41923300 AAATTATTAAAAAATTAT
1 AAATTATTAAAAAATCAT
*
41923318 AAATTTTTATAAAAATCAT
1 AAATTATTA-AAAAATCAT
41923337 AAA
1 AAA
41923340 ATATAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (18 bp):
AAATTATTAAAAAATCAT
Found at i:41923638 original size:29 final size:26
Alignment explanation
Indices: 41923606--41923668 Score: 72
Period size: 29 Copynumber: 2.3 Consensus size: 26
41923596 ACATTTTATA
41923606 AATTTTTAATGATTTTTATAAAATTTTAC
1 AATTTTTAAT-ATTTTTAT--AATTTTAC
* *
41923635 AATTTTTTTATATTTTTATAATTTTAT
1 AA-TTTTTAATATTTTTATAATTTTAC
41923662 AATTTTT
1 AATTTTT
41923669 TTCTAATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
26 5 0.16
27 9 0.29
29 10 0.32
30 7 0.23
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (26 bp):
AATTTTTAATATTTTTATAATTTTAC
Done.