Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 136 of 205
Found at i:41270434 original size:44 final size:43
Alignment explanation
Indices: 41270390--41270836 Score: 210
Period size: 44 Copynumber: 10.1 Consensus size: 43
41270380 AGAGGCATAG
* * * *
41270390 GATTCATCATTTTAATCCGCTCCACTACAACTTCAGGGAGATAG
1 GATT-ATCACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
* * *
41270434 GATT-TGCAACTTCAATTTGCTCCACTGCAACTTCAGGAAGATAA
1 GATTAT-C-ACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
* *
41270478 GATTCA-CTATCTTTAATCTACTCCATTGCAACTTCAGGGAGATAA
1 GATT-ATC-A-CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
* * * * *
41270523 GACTTGTAACTTCAATCTGCTCCACTACAACTTCAGGGAGATAG
1 GA-TTATCACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
** * *
41270567 GATTATTGGCTTTAATCTACTCCACTGCAACTTCAGAGAGATAA
1 GATTA-TCACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
* **** * * * **
41270611 GA-T-TCGCCAGGATCTACTCTACTACAACTTCAGAAAGATAA
1 GATTATCACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
* * * * * *
41270652 GATCTGTGATTTATAGCTTTAATCTGTTCCACTACAACTTTAGGAAAATAA
1 GA--T-T-A--T-CA-CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
* * *
41270703 GATT-TGCTATCTTCAGTCTACTCCACTGCAACTTCAGGGAGATAA
1 GATTAT-C-A-CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
* ** * *
41270748 GACT-TCA-TTTCAATCCACT-CATTGCAACTTTAGGGAGAT-A
1 GATTATCACTTT-AATCTGCTCCACTGCAACTTCAGGGAGATAA
** * * *
41270788 GTATTATTGGCTTTAATCTACTCTACTACAACTTCAGGGAGATAA
1 G-ATTA-TCACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
41270833 GATT
1 GATT
41270837 TGTCATCTTC
Statistics
Matches: 304, Mismatches: 73, Indels: 52
0.71 0.17 0.12
Matches are distributed among these distances:
40 2 0.01
41 54 0.18
42 7 0.02
43 13 0.04
44 128 0.42
45 68 0.22
46 2 0.01
48 1 0.00
49 2 0.01
51 27 0.09
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.32
Consensus pattern (43 bp):
GATTATCACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
Found at i:41270510 original size:89 final size:88
Alignment explanation
Indices: 41270400--41270836 Score: 293
Period size: 89 Copynumber: 4.9 Consensus size: 88
41270390 GATTCATCAT
** * * * *
41270400 TTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTTGCAACTTCAATTTGCTCCACTGCAAC
1 TTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGCAACTTCAATCTGCTCCACTACAAC
*
41270465 TTCAGGAAGATAAGATTCACTATC
66 TTCAGGAAGATAAGATT-ACTAGC
* * *
41270489 TTTAATCTACTCCATTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCTCCACTACAAC
1 TTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGCAACTTCAATCTGCTCCACTACAAC
* * * *
41270554 TTCAGGGAGATAGGATTATTGGC
66 TTCAGGAAGATAAGATTACTAGC
* * *** * *
41270577 TTTAATCTACTCCACTGCAACTTCAGAGAGATAAGATTCGC--C-AGGATCTACTCTACTACAAC
1 TTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGCAACTTCAATCTGCTCCACTACAAC
* *
41270639 TTCAGAAAGATAAGATCTGTGATTTATAGC
66 TTCAGGAAGATAAGA--T-T-A---CTAGC
** * * * * * * * *
41270669 TTTAATCTGTTCCACTACAACTTTAGGAAAATAAGATTTGCTATCTTCAGTCTACTCCACTGCAA
1 TTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGC-AACTTCAATCTGCTCCACTACAA
*
41270734 CTTCAGGGAGATAAGACTT-C-A--
65 CTTCAGGAAGATAAGA-TTACTAGC
* * * * * * *
41270755 TTTCAATCCACT-CATTGCAACTTTAGGGAGAT-AGTATTATTG--GCTTTAATCTACTCTACTA
1 TTT-AATCTACTCCACTGCAACTTCAGGGAGATAAG-A-T-TTGCAACTTCAATCTGCTCCACTA
*
41270816 CAACTTCAGGGAGATAAGATT
62 CAACTTCAGGAAGATAAGATT
41270837 TGTCATCTTC
Statistics
Matches: 275, Mismatches: 58, Indels: 35
0.75 0.16 0.10
Matches are distributed among these distances:
84 2 0.01
85 62 0.23
86 21 0.08
87 7 0.03
88 44 0.16
89 72 0.26
92 36 0.13
94 1 0.00
95 3 0.01
96 27 0.10
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (88 bp):
TTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGCAACTTCAATCTGCTCCACTACAAC
TTCAGGAAGATAAGATTACTAGC
Found at i:41270559 original size:133 final size:131
Alignment explanation
Indices: 41270400--41270872 Score: 376
Period size: 133 Copynumber: 3.5 Consensus size: 131
41270390 GATTCATCAT
* * * *
41270400 TTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTTGCAACTTCAATTTGCTCCACTGCAAC
1 TTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCAACTTCAATCTACTCCACTGCAAC
*
41270465 TTCAGGAAGATAAGATTCACTATCTTTAATCTACTCCATTGCAACTTCAGGGAGATAAGACTTGT
66 TTCAGGAAGATAAGATTC-C-ATCTTCAATCTACTCCATTGCAACTTCAGGGAGATAAGACTTGT
41270530 AAC
129 AAC
* * * *
41270533 TTCAATCTGCTCCACTACAACTTCAGGGAGATAGGATTATTG--GCTTTAATCTACTCCACTGCA
1 TTTAATCTGCTCCACTACAACTTCAGGGAGATAAGA-T-TTGCAACTTCAATCTACTCCACTGCA
* * * * **
41270596 ACTTCA-GAGAGATAAGATT-C-GC--CAGGATCTACTCTACTACAACTTCAGAAAGATAAGATC
64 ACTTCAGGA-AGATAAGATTCCATCTTCA--ATCTACTCCATTGCAACTTCAGGGAGATAAGA-C
41270656 TGTGATTTATAGC
125 T-TG---TA-A-C
* * * * * *
41270669 TTTAATCTGTTCCACTACAACTTTAGGAAAATAAGATTTGCTATCTTCAGTCTACTCCACTGCAA
1 TTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGC-AACTTCAATCTACTCCACTGCAA
* * *
41270734 CTTCAGGGAGATAAGACTT-CAT-TTCAATCCACT-CATTGCAACTTTAGGGAGAT-AGTA-TTA
65 CTTCAGGAAGATAAGA-TTCCATCTTCAATCTACTCCATTGCAACTTCAGGGAGATAAG-ACTT-
* **
41270794 TTGGC
127 GTAAC
* * * *
41270799 TTTAATCTACTCTACTACAACTTCAGGGAGATAAGATTTGTCATCTTCTTCAATCTATTCCACTG
1 TTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTG-CA---ACTTCAATCTACTCCACTG
*
41270864 CCACTTCAG
62 CAACTTCAG
41270873 TGGTATAGGA
Statistics
Matches: 271, Mismatches: 43, Indels: 52
0.74 0.12 0.14
Matches are distributed among these distances:
127 1 0.00
129 28 0.10
130 38 0.14
131 4 0.01
132 3 0.01
133 92 0.34
134 7 0.03
135 6 0.02
136 33 0.12
137 47 0.17
138 10 0.04
140 2 0.01
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (131 bp):
TTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCAACTTCAATCTACTCCACTGCAAC
TTCAGGAAGATAAGATTCCATCTTCAATCTACTCCATTGCAACTTCAGGGAGATAAGACTTGTAA
C
Found at i:41282085 original size:23 final size:23
Alignment explanation
Indices: 41282017--41282086 Score: 70
Period size: 23 Copynumber: 2.9 Consensus size: 23
41282007 CACTTTTTGA
*
41282017 AATGATAATAAATTAAATAAAAAT
1 AATG-TAATAAATTAAATAATAAT
*
41282041 ATCATGTAAT-AATAAAAATAATAAT
1 A--ATGTAATAAAT-TAAATAATAAT
*
41282066 AATGTAATAAATTAATTAATA
1 AATGTAATAAATTAAATAATA
41282087 GCAAAAATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
23 14 0.37
24 7 0.18
25 14 0.37
26 3 0.08
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.33
Consensus pattern (23 bp):
AATGTAATAAATTAAATAATAAT
Found at i:41282499 original size:33 final size:31
Alignment explanation
Indices: 41282456--41282526 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 31
41282446 AAACTGTTTT
41282456 AAAAAAACATTTTTAGAAGATATTTTTTGTTC
1 AAAAAAACATTTTTAGAAGATA-TTTTTGTTC
*
41282488 AAAAAAGACATTTTTAGAAGCTATTTTTGTTC
1 AAAAAA-ACATTTTTAGAAGATATTTTTGTTC
41282520 AAAAAAA
1 AAAAAAA
41282527 TAGGGGCTCT
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
31 1 0.03
32 21 0.57
33 15 0.41
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.38
Consensus pattern (31 bp):
AAAAAAACATTTTTAGAAGATATTTTTGTTC
Found at i:41293598 original size:8 final size:8
Alignment explanation
Indices: 41293585--41293609 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
41293575 TTTTTAATGA
41293585 TATTTTAT
1 TATTTTAT
41293593 TATTTTAT
1 TATTTTAT
41293601 TATTTTAT
1 TATTTTAT
41293609 T
1 T
41293610 TAGCATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:41300525 original size:44 final size:44
Alignment explanation
Indices: 41300454--41300595 Score: 187
Period size: 44 Copynumber: 3.2 Consensus size: 44
41300444 TATGTGATAT
* * *
41300454 CGTGTAAGACCACGTCTAGGACATTGGCATC-ATATTGAAATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGA-ATTGAGATTTA
* * *
41300498 CATGTAAGATCACGTCTGGGACGTTGGCATCGAATTTAGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGAATTGAGATTTA
* *
41300542 CGTGTAAGACCATGTTTGGGACGTTGGCATCGAATTGAGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGAATTGAGATTTA
*
41300586 TGTGTAAGAC
1 CGTGTAAGAC
41300596 TCTGTCTGGG
Statistics
Matches: 85, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
44 84 0.99
45 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.31
Consensus pattern (44 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGAATTGAGATTTA
Found at i:41300614 original size:44 final size:44
Alignment explanation
Indices: 41300454--41300614 Score: 159
Period size: 44 Copynumber: 3.7 Consensus size: 44
41300444 TATGTGATAT
* * *
41300454 CGTGTAAGACCACGTCTAGGACA-TTGGCATC-ATATTGAAATTTA
1 CGTGTAAGACCATGTCTGGGA-AGTTGGCATCGA-ATTGAGATTTA
* * * * *
41300498 CATGTAAGATCACGTCTGGGACGTTGGCATCGAATTTAGATTTA
1 CGTGTAAGACCATGTCTGGGAAGTTGGCATCGAATTGAGATTTA
* *
41300542 CGTGTAAGACCATGTTTGGGACGTTGGCATCGAATTGAGATTTA
1 CGTGTAAGACCATGTCTGGGAAGTTGGCATCGAATTGAGATTTA
*
41300586 TGTGTAAGACTC-TGTCTGGGATAG-TGGCA
1 CGTGTAAGAC-CATGTCTGGGA-AGTTGGCA
41300615 CCATTATTTG
Statistics
Matches: 99, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
44 96 0.97
45 3 0.03
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.31
Consensus pattern (44 bp):
CGTGTAAGACCATGTCTGGGAAGTTGGCATCGAATTGAGATTTA
Found at i:41303442 original size:33 final size:31
Alignment explanation
Indices: 41303392--41303452 Score: 95
Period size: 33 Copynumber: 1.9 Consensus size: 31
41303382 TAGATATTTG
41303392 AGTTTGAATGTAAATTTGTTTAAGGATTAGA
1 AGTTTGAATGTAAATTTGTTTAAGGATTAGA
*
41303423 AGTTATGAATAGTAGATTTGTTTAAGGATT
1 AGTT-TGAAT-GTAAATTTGTTTAAGGATT
41303453 GGATTATTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 4 0.15
32 5 0.19
33 18 0.67
ACGTcount: A:0.34, C:0.00, G:0.23, T:0.43
Consensus pattern (31 bp):
AGTTTGAATGTAAATTTGTTTAAGGATTAGA
Found at i:41304606 original size:212 final size:212
Alignment explanation
Indices: 41304233--41304659 Score: 793
Period size: 212 Copynumber: 2.0 Consensus size: 212
41304223 TTTTAATTAC
*
41304233 TATCTTATCTATGATGTTTCCTACAAAGTTCAAAATTATAGGGTATGGGTCGATTTCACTTTACA
1 TATCTTATCTATGATGTTTCCTACAAAGTTCAAAATTATAGGGTATGGGTCGATTTCACTTCACA
41304298 AATCTTAAGCAAAAAGTTGGCAACAGTCCCGATAATGTATCCAAGATTCAAGGGTGGTCCACACA
66 AATCTTAAGCAAAAAGTTGGCAACAGTCCCGATAATGTATCCAAGATTCAAGGGTGGTCCACACA
41304363 AGAATCAAAAGTGAATCAGAGCCACCAATTCCCAATCATATGAAATCAGGCCAGACCCTAAATTC
131 AGAATCAAAAGTGAATCAGAGCCACCAATTCCCAATCATATGAAATCAGGCCAGACCCTAAATTC
*
41304428 -AGTTTCTACCGTTGATT
196 GA-TTTCTACCATTGATT
* *
41304445 TATCTTATCTATGATGTTTCCTACGAAGTTCAAAATTATGGGGTATGGGTCGATTTCACTTCACA
1 TATCTTATCTATGATGTTTCCTACAAAGTTCAAAATTATAGGGTATGGGTCGATTTCACTTCACA
41304510 AATCTTAAGCAAAAAGTTGGCAACAGTCCCGATAATGTATCCAAGATTCAAGGGTGGTCCACACA
66 AATCTTAAGCAAAAAGTTGGCAACAGTCCCGATAATGTATCCAAGATTCAAGGGTGGTCCACACA
*
41304575 AGAATCAAAAGTGAATCAGAGCCATCAATTCCCAATCATATGAAATCAGGCCAGACCCTAAATTC
131 AGAATCAAAAGTGAATCAGAGCCACCAATTCCCAATCATATGAAATCAGGCCAGACCCTAAATTC
41304640 GATTTCTACCATTGATT
196 GATTTCTACCATTGATT
41304657 TAT
1 TAT
41304660 ACTGAATTAC
Statistics
Matches: 209, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
212 208 1.00
213 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.29
Consensus pattern (212 bp):
TATCTTATCTATGATGTTTCCTACAAAGTTCAAAATTATAGGGTATGGGTCGATTTCACTTCACA
AATCTTAAGCAAAAAGTTGGCAACAGTCCCGATAATGTATCCAAGATTCAAGGGTGGTCCACACA
AGAATCAAAAGTGAATCAGAGCCACCAATTCCCAATCATATGAAATCAGGCCAGACCCTAAATTC
GATTTCTACCATTGATT
Found at i:41305113 original size:12 final size:14
Alignment explanation
Indices: 41305079--41305115 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
41305069 CCTGCGGTAG
*
41305079 GGTTTTGGGTTATT
1 GGTTTAGGGTTATT
41305093 GGTTTAGGGTTA-T
1 GGTTTAGGGTTATT
41305106 GG-TTAGGGTT
1 GGTTTAGGGTT
41305116 TTAGTGTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 8 0.36
13 3 0.14
14 11 0.50
ACGTcount: A:0.11, C:0.00, G:0.41, T:0.49
Consensus pattern (14 bp):
GGTTTAGGGTTATT
Found at i:41305321 original size:51 final size:51
Alignment explanation
Indices: 41305259--41305420 Score: 144
Period size: 51 Copynumber: 3.3 Consensus size: 51
41305249 AATTAATTAA
* *
41305259 ATTAGGGTTTAGGGTTACTTGAGTAATTTAATTAAAAAATTTTAAAATCAG
1 ATTAGGATTTAGAGTTACTTGAGTAATTTAATTAAAAAATTTTAAAATCAG
* * * ** * * *
41305310 ATTAGGATTTAGAGTTA--AGGGT-TTTTAAGAAAAAAAATCT--AAT-AA
1 ATTAGGATTTAGAGTTACTTGAGTAATTTAATTAAAAAATTTTAAAATCAG
* *
41305355 ACTAGG-TTT-GAGGTTACTTGAGTAATTTAATT-AAAAATTTAAAAATCAG
1 ATTAGGATTTAGA-GTTACTTGAGTAATTTAATTAAAAAATTTTAAAATCAG
41305404 ATTAGGATTTAGAGTTA
1 ATTAGGATTTAGAGTTA
41305421 AGGGTTTTTC
Statistics
Matches: 81, Mismatches: 21, Indels: 19
0.67 0.17 0.16
Matches are distributed among these distances:
43 2 0.02
44 7 0.09
45 6 0.07
46 12 0.15
47 5 0.06
48 16 0.20
49 9 0.11
50 7 0.09
51 17 0.21
ACGTcount: A:0.41, C:0.04, G:0.18, T:0.37
Consensus pattern (51 bp):
ATTAGGATTTAGAGTTACTTGAGTAATTTAATTAAAAAATTTTAAAATCAG
Found at i:41305393 original size:94 final size:92
Alignment explanation
Indices: 41305237--41305557 Score: 364
Period size: 94 Copynumber: 3.4 Consensus size: 92
41305227 TGTTTATTAT
41305237 TTTTTAAGAAAAAAT-TAATTAAATTAGGGTTTAGGGTTACTTGAGTAATTTAATTAAAAAATTT
1 TTTTTAAGAAAAAATCTAA-TAAATTA-GGTTTAGGGTTACTTGAGTAATTTAATT-AAAAATTT
*
41305301 TAAAATCAGATTAGGATTTAGAGTTAAGGG
63 AAAAATCAGATTAGGATTTAGAGTTAAGGG
*
41305331 TTTTTAAGAAAAAAAATCTAATAAACTAGGTTT-GAGGTTACTTGAGTAATTTAATTAAAAATTT
1 TTTTTAAG--AAAAAATCTAATAAATTAGGTTTAG-GGTTACTTGAGTAATTTAATTAAAAATTT
41305395 AAAAATCAGATTAGGATTTAGAGTTAAGGG
63 AAAAATCAGATTAGGATTTAGAGTTAAGGG
* * * * *
41305425 TTTTTCAG-AAAAATCAAATAAATTAGGGTTCAGGGTTACTTGAGTAAATTAATTATAAATTTAT
1 TTTTTAAGAAAAAATCTAATAAATTA-GGTTTAGGGTTACTTGAGTAATTTAATTA-AAAATT-T
* * * *
41305489 AATAAATTAGTTTAGGGTTTAGGGTTTAA-GG
63 AA-AAATCAGATTAGGATTTAGAG-TTAAGGG
* * *
41305520 -TTTTAAGTAAAAACCTAAATAAATTAGGGTTTGGGGTT
1 TTTTTAAGAAAAAATCT-AATAAATTA-GGTTTAGGGTT
41305558 TACGGTTACT
Statistics
Matches: 198, Mismatches: 17, Indels: 22
0.84 0.07 0.09
Matches are distributed among these distances:
91 15 0.08
92 25 0.13
93 6 0.03
94 62 0.31
95 51 0.26
96 36 0.18
97 3 0.02
ACGTcount: A:0.40, C:0.04, G:0.18, T:0.37
Consensus pattern (92 bp):
TTTTTAAGAAAAAATCTAATAAATTAGGTTTAGGGTTACTTGAGTAATTTAATTAAAAATTTAAA
AATCAGATTAGGATTTAGAGTTAAGGG
Found at i:41305819 original size:126 final size:126
Alignment explanation
Indices: 41305594--41306131 Score: 959
Period size: 126 Copynumber: 4.3 Consensus size: 126
41305584 TAATTTAAAG
* * ** * * * *
41305594 AAGCTCCGATGTGGACGCGCTTTTACTACAGTGGCTCCTGAGAAAGTAATTTCGAGTAGACGTTT
1 AAGCTCCCACGTGGACGCGCTTTTGTTACAGTAGCTCCTGAAAAAATAATTTTGAGTAGACGTTT
* *
41305659 CTGAGCAAACAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTGAAAA
66 CTAAGCAAACAATGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTGAAAA
41305720 AAGCTCCCACGTGGACGCGCTTTTGTTACAGTAGCTCCTGAAAAAATAATTTTGAGTAGACGTTT
1 AAGCTCCCACGTGGACGCGCTTTTGTTACAGTAGCTCCTGAAAAAATAATTTTGAGTAGACGTTT
41305785 CTAAGCAAACAATGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTGAAAA
66 CTAAGCAAACAATGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTGAAAA
41305846 AAGCTCCCACGTGGACGCGCTTTTGTTACAGTAGCTCCTGAAAAAATAATTTTGAGTAGACGTTT
1 AAGCTCCCACGTGGACGCGCTTTTGTTACAGTAGCTCCTGAAAAAATAATTTTGAGTAGACGTTT
41305911 CTAAGCAAACAATGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTGAAAA
66 CTAAGCAAACAATGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTGAAAA
41305972 AAGCTCCCACGTGGACGCGCTTTTGTTACAGTAGCTCCTGAAAAAATAATTTTGAGTAGACGTTT
1 AAGCTCCCACGTGGACGCGCTTTTGTTACAGTAGCTCCTGAAAAAATAATTTTGAGTAGACGTTT
41306037 CTAAGCAAACAATGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTGAAAA
66 CTAAGCAAACAATGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTGAAAA
* * *
41306098 AAGCTTCCACGTGGACGTGCTTTTGCTACAGTAG
1 AAGCTCCCACGTGGACGCGCTTTTGTTACAGTAG
41306132 TTGAACGTTA
Statistics
Matches: 399, Mismatches: 13, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
126 399 1.00
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (126 bp):
AAGCTCCCACGTGGACGCGCTTTTGTTACAGTAGCTCCTGAAAAAATAATTTTGAGTAGACGTTT
CTAAGCAAACAATGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTGAAAA
Found at i:41308702 original size:11 final size:10
Alignment explanation
Indices: 41308688--41308791 Score: 63
Period size: 11 Copynumber: 10.0 Consensus size: 10
41308678 AAATAGGGAT
41308688 TTGAGAGAAA
1 TTGAGAGAAA
*
41308698 TTTGAAAGGAAA
1 -TTGAGA-GAAA
41308710 TTGAGAGCAAA
1 TTGAGAG-AAA
*
41308721 TTGAGATTAAA
1 TTGAGA-GAAA
* *
41308732 -T-AG-GGAT
1 TTGAGAGAAA
41308739 TTGAGAGAAA
1 TTGAGAGAAA
*
41308749 TTTGAAAGCAAA
1 -TTGAGAG-AAA
41308761 TTGAGAGGAAA
1 TTGAGA-GAAA
41308772 TTGAGAGGAAA
1 TTGAGA-GAAA
41308783 TT-AGAGAAA
1 TTGAGAGAAA
41308792 GAATGATTTA
Statistics
Matches: 74, Mismatches: 10, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
7 1 0.01
8 1 0.01
9 8 0.11
10 7 0.09
11 49 0.66
12 8 0.11
ACGTcount: A:0.47, C:0.02, G:0.28, T:0.23
Consensus pattern (10 bp):
TTGAGAGAAA
Found at i:41308716 original size:22 final size:22
Alignment explanation
Indices: 41308688--41308791 Score: 77
Period size: 22 Copynumber: 4.5 Consensus size: 22
41308678 AAATAGGGAT
41308688 TTGAGAGAAATTTGAAAGGAAA
1 TTGAGAGAAATTTGAAAGGAAA
* * *
41308710 TTGAGAGCAAATTGAGATTAAATAGGGAT
1 TTGAGAG-AAA-T----TTGAA-AGGAAA
*
41308739 TTGAGAGAAATTTGAAAGCAAA
1 TTGAGAGAAATTTGAAAGGAAA
*
41308761 TTGAGAGGAAA-TTGAGAGGAAA
1 TTGAGA-GAAATTTGAAAGGAAA
41308783 TT-AGAGAAA
1 TTGAGAGAAA
41308792 GAATGATTTA
Statistics
Matches: 65, Mismatches: 9, Indels: 18
0.71 0.10 0.20
Matches are distributed among these distances:
20 4 0.06
21 3 0.05
22 27 0.42
23 11 0.17
24 1 0.02
27 1 0.02
28 7 0.11
29 11 0.17
ACGTcount: A:0.47, C:0.02, G:0.28, T:0.23
Consensus pattern (22 bp):
TTGAGAGAAATTTGAAAGGAAA
Found at i:41308732 original size:51 final size:51
Alignment explanation
Indices: 41308676--41308777 Score: 186
Period size: 51 Copynumber: 2.0 Consensus size: 51
41308666 TAAAGCTCTT
*
41308676 TTAAATAGGGATTTGAGAGAAATTTGAAAGGAAATTGAGAGCAAATTGAGA
1 TTAAATAGGGATTTGAGAGAAATTTGAAAGCAAATTGAGAGCAAATTGAGA
*
41308727 TTAAATAGGGATTTGAGAGAAATTTGAAAGCAAATTGAGAGGAAATTGAGA
1 TTAAATAGGGATTTGAGAGAAATTTGAAAGCAAATTGAGAGCAAATTGAGA
41308778 GGAAATTAGA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.45, C:0.02, G:0.27, T:0.25
Consensus pattern (51 bp):
TTAAATAGGGATTTGAGAGAAATTTGAAAGCAAATTGAGAGCAAATTGAGA
Found at i:41309206 original size:9 final size:9
Alignment explanation
Indices: 41309192--41309240 Score: 57
Period size: 9 Copynumber: 5.6 Consensus size: 9
41309182 TAAAAATTTT
41309192 ATTTTTATA
1 ATTTTTATA
*
41309201 ATTTTTATG
1 ATTTTTATA
*
41309210 ATTTTTATG
1 ATTTTTATA
41309219 ATTTTTA-A
1 ATTTTTATA
41309227 TATTTTTA-A
1 -ATTTTTATA
41309236 ATTTT
1 ATTTT
41309241 AAAAGCGTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
8 5 0.14
9 32 0.86
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (9 bp):
ATTTTTATA
Found at i:41309214 original size:8 final size:9
Alignment explanation
Indices: 41309192--41309234 Score: 61
Period size: 9 Copynumber: 4.8 Consensus size: 9
41309182 TAAAAATTTT
*
41309192 ATTTTTATA
1 ATTTTTATG
41309201 ATTTTTATG
1 ATTTTTATG
41309210 ATTTTTATG
1 ATTTTTATG
41309219 ATTTTTAAT-
1 ATTTTT-ATG
41309228 ATTTTTA
1 ATTTTTA
41309235 AATTTTAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
8 1 0.03
9 29 0.91
10 2 0.06
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (9 bp):
ATTTTTATG
Found at i:41309215 original size:18 final size:18
Alignment explanation
Indices: 41309191--41309240 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
41309181 ATAAAAATTT
41309191 TATTTTTATAATTTTT-A
1 TATTTTTATAATTTTTAA
*
41309208 TGATTTTTATGATTTTTAA
1 T-ATTTTTATAATTTTTAA
41309227 TATTTTTA-AATTTT
1 TATTTTTATAATTTT
41309241 AAAAGCGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 6 0.21
18 21 0.72
19 2 0.07
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (18 bp):
TATTTTTATAATTTTTAA
Found at i:41309780 original size:116 final size:116
Alignment explanation
Indices: 41309576--41309824 Score: 498
Period size: 116 Copynumber: 2.1 Consensus size: 116
41309566 AAATAACTAT
41309576 AAAATAGAATCAAATTAGTCAACATCCTCTAAATCTAATGACAAAAACATTTATGTCGTGACACA
1 AAAATAGAATCAAATTAGTCAACATCCTCTAAATCTAATGACAAAAACATTTATGTCGTGACACA
41309641 AGAGCTTAGGTTAAATTACTAGCAACCCCATCCTTACCCTCAATTATTAAA
66 AGAGCTTAGGTTAAATTACTAGCAACCCCATCCTTACCCTCAATTATTAAA
41309692 AAAATAGAATCAAATTAGTCAACATCCTCTAAATCTAATGACAAAAACATTTATGTCGTGACACA
1 AAAATAGAATCAAATTAGTCAACATCCTCTAAATCTAATGACAAAAACATTTATGTCGTGACACA
41309757 AGAGCTTAGGTTAAATTACTAGCAACCCCATCCTTACCCTCAATTATTAAA
66 AGAGCTTAGGTTAAATTACTAGCAACCCCATCCTTACCCTCAATTATTAAA
41309808 AAAATAGAATCAAATTA
1 AAAATAGAATCAAATTA
41309825 TTTACAGATG
Statistics
Matches: 133, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
116 133 1.00
ACGTcount: A:0.43, C:0.20, G:0.09, T:0.27
Consensus pattern (116 bp):
AAAATAGAATCAAATTAGTCAACATCCTCTAAATCTAATGACAAAAACATTTATGTCGTGACACA
AGAGCTTAGGTTAAATTACTAGCAACCCCATCCTTACCCTCAATTATTAAA
Found at i:41324591 original size:95 final size:95
Alignment explanation
Indices: 41324428--41324618 Score: 382
Period size: 95 Copynumber: 2.0 Consensus size: 95
41324418 TCTCATATTA
41324428 GAAAGGGTGAAAAGTTAAATAAAAGGATAAAATGACTCTTTTTTTTTGGTAATGTTAAAGGATGA
1 GAAAGGGTGAAAAGTTAAATAAAAGGATAAAATGACTCTTTTTTTTTGGTAATGTTAAAGGATGA
41324493 TTATGTGAATTAAAAAAATATTACACCGAT
66 TTATGTGAATTAAAAAAATATTACACCGAT
41324523 GAAAGGGTGAAAAGTTAAATAAAAGGATAAAATGACTCTTTTTTTTTGGTAATGTTAAAGGATGA
1 GAAAGGGTGAAAAGTTAAATAAAAGGATAAAATGACTCTTTTTTTTTGGTAATGTTAAAGGATGA
41324588 TTATGTGAATTAAAAAAATATTACACCGAT
66 TTATGTGAATTAAAAAAATATTACACCGAT
41324618 G
1 G
41324619 TAAAAATTTA
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 96 1.00
ACGTcount: A:0.43, C:0.05, G:0.19, T:0.32
Consensus pattern (95 bp):
GAAAGGGTGAAAAGTTAAATAAAAGGATAAAATGACTCTTTTTTTTTGGTAATGTTAAAGGATGA
TTATGTGAATTAAAAAAATATTACACCGAT
Found at i:41324723 original size:62 final size:62
Alignment explanation
Indices: 41324648--41324774 Score: 245
Period size: 62 Copynumber: 2.0 Consensus size: 62
41324638 TATTCTAAAT
*
41324648 TTTAATTACTATCTTATCTATGATGTTTCCTACAAAGTTCAAAATTATGGGGTATGGGTCGA
1 TTTAATTACTATCTTATCTATGATGTTTCCTACAAAGTTCAAAATTATAGGGTATGGGTCGA
41324710 TTTAATTACTATCTTATCTATGATGTTTCCTACAAAGTTCAAAATTATAGGGTATGGGTCGA
1 TTTAATTACTATCTTATCTATGATGTTTCCTACAAAGTTCAAAATTATAGGGTATGGGTCGA
41324772 TTT
1 TTT
41324775 CACTTTACAA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 64 1.00
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.42
Consensus pattern (62 bp):
TTTAATTACTATCTTATCTATGATGTTTCCTACAAAGTTCAAAATTATAGGGTATGGGTCGA
Found at i:41334089 original size:36 final size:37
Alignment explanation
Indices: 41334042--41334115 Score: 132
Period size: 36 Copynumber: 2.0 Consensus size: 37
41334032 AATAATTAAA
*
41334042 TCAATAACAAGGCAAGAATCCCCTC-TTTTATTTTTC
1 TCAATAACAAGGCAAGAATCCCCCCTTTTTATTTTTC
41334078 TCAATAACAAGGCAAGAATCCCCCCTTTTTATTTTTC
1 TCAATAACAAGGCAAGAATCCCCCCTTTTTATTTTTC
41334115 T
1 T
41334116 GACTCAATCC
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 24 0.67
37 12 0.33
ACGTcount: A:0.30, C:0.26, G:0.08, T:0.36
Consensus pattern (37 bp):
TCAATAACAAGGCAAGAATCCCCCCTTTTTATTTTTC
Found at i:41351710 original size:99 final size:97
Alignment explanation
Indices: 41351607--41351857 Score: 281
Period size: 101 Copynumber: 2.5 Consensus size: 97
41351597 GGTGGAGCCA
* * *
41351607 AAAATATCATTTTTAAAATTTTTAGATTAAAAAAACGACACATTTAAAAAA-A-ATCCATGCAGT
1 AAAATATTATTTTTAAAATTTTTAAATTAAAAAAA--ACACATTTAAAAAATACATACAT--AGT
*
41351670 ACACTGGTGGCGTCATTCTATATGGCTCCACCAAAT
62 ACACTGGTGGCGTCATTCTATATGGATCCACCAAAT
* *
41351706 AAAATATTATTTTTTAAAATTTTAAAATAAAAAAATAACACATTTAAAAATATACTATACATAGT
1 AAAATATTA-TTTTTAAAATTTTTAAATTAAAAAA-AACACATTTAAAAA-ATAC-ATACATAGT
* **
41351771 ATACTGGTGGCGTCATTCTATATGGATCTGCCAAAT
62 ACACTGGTGGCGTCATTCTATATGGATCCACCAAAT
* * * *
41351807 AAAATATTGTTTTTTTTAAATTTTTAAATTTAAAAAAACATATTTAAAAAA
1 AAAATA-T-TATTTTTAAAATTTTTAAATTAAAAAAAACACATTTAAAAAA
41351858 CACTCCTACT
Statistics
Matches: 129, Mismatches: 15, Indels: 15
0.81 0.09 0.09
Matches are distributed among these distances:
99 21 0.16
100 24 0.19
101 56 0.43
102 22 0.17
103 6 0.05
ACGTcount: A:0.45, C:0.12, G:0.08, T:0.35
Consensus pattern (97 bp):
AAAATATTATTTTTAAAATTTTTAAATTAAAAAAAACACATTTAAAAAATACATACATAGTACAC
TGGTGGCGTCATTCTATATGGATCCACCAAAT
Found at i:41365632 original size:21 final size:22
Alignment explanation
Indices: 41365597--41365641 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
41365587 AGCTCTCATA
*
41365597 AATTTTTAGAAAATTATA-AATT
1 AATTGTTAGAAAATT-TAGAATT
41365619 AATTGTTA-AAAATTTAGAATT
1 AATTGTTAGAAAATTTAGAATT
41365640 AA
1 AA
41365642 AATTTTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 2 0.10
21 12 0.57
22 7 0.33
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (22 bp):
AATTGTTAGAAAATTTAGAATT
Found at i:41365777 original size:9 final size:9
Alignment explanation
Indices: 41365763--41365815 Score: 56
Period size: 9 Copynumber: 5.8 Consensus size: 9
41365753 ATAAAAAAAT
41365763 TAATTTTTA
1 TAATTTTTA
41365772 TAATTTGTTTA
1 TAA-TT-TTTA
41365783 TAATTTTTA
1 TAATTTTTA
*
41365792 TGATTTTTA
1 TAATTTTTA
41365801 -ATATTTTTA
1 TA-ATTTTTA
41365810 -AATTTT
1 TAATTTT
41365816 AAAAGTGTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
8 5 0.13
9 23 0.59
10 4 0.10
11 7 0.18
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (9 bp):
TAATTTTTA
Found at i:41365806 original size:18 final size:20
Alignment explanation
Indices: 41365763--41365814 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
41365753 ATAAAAAAAT
*
41365763 TAATTTTTATAATTTGTTTA
1 TAATTTTTATAATTTGTTAA
*
41365783 TAATTTTTATGATTT-TTAA
1 TAATTTTTATAATTTGTTAA
41365802 T-ATTTTTA-AATTT
1 TAATTTTTATAATTT
41365815 TAAAAGTGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
17 4 0.14
18 7 0.24
19 4 0.14
20 14 0.48
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (20 bp):
TAATTTTTATAATTTGTTAA
Found at i:41366381 original size:31 final size:31
Alignment explanation
Indices: 41366346--41366409 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
41366336 CCACGTAAAA
*
41366346 ATATATGGTACACTATTTTTAGAAAAAGTAT
1 ATATATGGTACACTATTTTTAGAAAAAATAT
41366377 ATATATGGTACACTATTTTTAGAAAAAATAT
1 ATATATGGTACACTATTTTTAGAAAAAATAT
41366408 AT
1 AT
41366410 GATAATTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.39
Consensus pattern (31 bp):
ATATATGGTACACTATTTTTAGAAAAAATAT
Found at i:41369876 original size:23 final size:23
Alignment explanation
Indices: 41369850--41369896 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
41369840 AATGATTTTT
*
41369850 ATTTTTTTAAAAAATTAAAAATA
1 ATTTTTATAAAAAATTAAAAATA
*
41369873 ATTTTTATATAAAATTAAAAATA
1 ATTTTTATAAAAAATTAAAAATA
41369896 A
1 A
41369897 AAGAGCATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
ATTTTTATAAAAAATTAAAAATA
Found at i:41374003 original size:22 final size:22
Alignment explanation
Indices: 41373975--41374051 Score: 68
Period size: 22 Copynumber: 3.4 Consensus size: 22
41373965 TTTATTTTAA
41373975 TTAGGAGATTAGATGCTAAAGT
1 TTAGGAGATTAGATGCTAAAGT
** * *
41373997 TTAGGAGATAATATTTTGGTTTAA--
1 TTAGGAGAT--TA-GAT-GCTAAAGT
41374021 TTAGGAGATTAGATGCTAAAGT
1 TTAGGAGATTAGATGCTAAAGT
41374043 TTAGGAGAT
1 TTAGGAGAT
41374052 AATATTTTGG
Statistics
Matches: 41, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
20 4 0.10
21 1 0.02
22 20 0.49
24 11 0.27
25 1 0.02
26 4 0.10
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.36
Consensus pattern (22 bp):
TTAGGAGATTAGATGCTAAAGT
Found at i:41374023 original size:46 final size:46
Alignment explanation
Indices: 41373970--41374065 Score: 192
Period size: 46 Copynumber: 2.1 Consensus size: 46
41373960 ATCTCTTTAT
41373970 TTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATATTTTGG
1 TTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATATTTTGG
41374016 TTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATATTTTGG
1 TTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATATTTTGG
41374062 TTTA
1 TTTA
41374066 TGTCTTTGTA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 50 1.00
ACGTcount: A:0.34, C:0.02, G:0.23, T:0.41
Consensus pattern (46 bp):
TTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATATTTTGG
Found at i:41378574 original size:22 final size:22
Alignment explanation
Indices: 41378546--41378622 Score: 77
Period size: 22 Copynumber: 3.4 Consensus size: 22
41378536 TTTCTTTTAA
41378546 TTAGGAGATTAGATGCTAAAGT
1 TTAGGAGATTAGATGCTAAAGT
* * *
41378568 TTAGGAGATAATAGTTTGGTTCAA--
1 TTAGGAGAT--TAG-AT-GCTAAAGT
41378592 TTAGGAGATTAGATGCTAAAGT
1 TTAGGAGATTAGATGCTAAAGT
41378614 TTAGGAGAT
1 TTAGGAGAT
41378623 AATATTTGGT
Statistics
Matches: 43, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
20 4 0.09
21 1 0.02
22 21 0.49
24 12 0.28
25 1 0.02
26 4 0.09
ACGTcount: A:0.35, C:0.04, G:0.27, T:0.34
Consensus pattern (22 bp):
TTAGGAGATTAGATGCTAAAGT
Found at i:41378597 original size:46 final size:45
Alignment explanation
Indices: 41378544--41378633 Score: 171
Period size: 46 Copynumber: 2.0 Consensus size: 45
41378534 CTTTTCTTTT
41378544 AATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATAGTTTGGTTC
1 AATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATA-TTTGGTTC
41378590 AATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATATTTGGTT
1 AATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATATTTGGTT
41378634 TCTATCTTTG
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 7 0.16
46 37 0.84
ACGTcount: A:0.36, C:0.03, G:0.26, T:0.36
Consensus pattern (45 bp):
AATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATATTTGGTTC
Found at i:41386448 original size:12 final size:13
Alignment explanation
Indices: 41386431--41386490 Score: 50
Period size: 15 Copynumber: 4.3 Consensus size: 13
41386421 AAGTAAAACC
41386431 TAATGT-ATATAA
1 TAATGTAATATAA
41386443 TAATGTACATATAA
1 TAATGTA-ATATAA
*
41386457 TAATAATAATAATAA
1 TAAT-GTAAT-ATAA
*
41386472 TAATAATAATAATAA
1 TAAT-GTAAT-ATAA
41386487 TAAT
1 TAAT
41386491 AATAACCAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
12 6 0.14
14 12 0.28
15 25 0.58
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (13 bp):
TAATGTAATATAA
Found at i:41386459 original size:3 final size:3
Alignment explanation
Indices: 41386453--41386495 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
41386443 TAATGTACAT
41386453 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
41386496 CCAATTAATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:41388323 original size:44 final size:44
Alignment explanation
Indices: 41388275--41388518 Score: 127
Period size: 44 Copynumber: 5.6 Consensus size: 44
41388265 TATCTTTGGA
**
41388275 AGATAAGATTTGCCATCTTCAATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGTAATCTTCAATCTGCTCCACTACTGCTTAGGG
* * * * * * * * * *
41388319 AGATAAGATCTATAATTTTCAACCTACTCTATTGCTACTCAGGG
1 AGATAAGATTTGTAATCTTCAATCTGCTCCACTACTGCTTAGGG
** * * *
41388363 AGATAAGGCTAGTGA-CTTAAATCTGCTTCC-CTACTGCCTT-GGG
1 AGATAAGATTTGTAATCTTCAATCTGC-TCCACTACTG-CTTAGGG
* ***** **
41388406 AAGATAAAATTCACCGTCTTTGATCTGCTCCACTACTGCTTAGGG
1 -AGATAAGATTTGTAATCTTCAATCTGCTCCACTACTGCTTAGGG
* * * * * *
41388451 AGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGGTTAGGG
1 AGATAAGATTTGTAATCTTCAATCTGCTCCACTACTGCTTAGGG
* * *
41388495 AGATAAGGTTGGT-ATCTTCGATCT
1 AGATAAGATTTGTAATCTTCAATCT
41388519 ACTTCGCTAC
Statistics
Matches: 137, Mismatches: 57, Indels: 13
0.66 0.28 0.06
Matches are distributed among these distances:
43 21 0.15
44 98 0.72
45 18 0.13
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (44 bp):
AGATAAGATTTGTAATCTTCAATCTGCTCCACTACTGCTTAGGG
Found at i:41388382 original size:132 final size:132
Alignment explanation
Indices: 41388191--41388502 Score: 435
Period size: 132 Copynumber: 2.4 Consensus size: 132
41388181 ACAGGAACAC
* * * * *
41388191 AAGATCTACAATCTTCGACCTACTCTACTGTTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTA
1 AAGATCTATAATTTTCAACCTACTCTACTGCTGCTCAGGGAGATAAGGCTAGTGACTTAAATCTA
* * * **
41388256 CTTCCCTACTATCTTTGGAAGATAAGATTTGCCATCTTCAATCTGCTCCACTACTGCTTAGGGAG
66 CTTCCCTACTACCTTGGGAAGATAAAATTCACCATCTTCAATCTGCTCCACTACTGCTTAGGGAG
41388321 AT
131 AT
* * *
41388323 AAGATCTATAATTTTCAACCTACTCTATTGCTACTCAGGGAGATAAGGCTAGTGACTTAAATCTG
1 AAGATCTATAATTTTCAACCTACTCTACTGCTGCTCAGGGAGATAAGGCTAGTGACTTAAATCTA
* * **
41388388 CTTCCCTACTGCCTTGGGAAGATAAAATTCACCGTCTTTGATCTGCTCCACTACTGCTTAGGGAG
66 CTTCCCTACTACCTTGGGAAGATAAAATTCACCATCTTCAATCTGCTCCACTACTGCTTAGGGAG
41388453 AT
131 AT
* * * *
41388455 AAGATCTGTAATTTTCAACCTACTCCACTGCTGGTTAGGGAGATAAGG
1 AAGATCTATAATTTTCAACCTACTCTACTGCTGCTCAGGGAGATAAGG
41388503 TTGGTATCTT
Statistics
Matches: 157, Mismatches: 23, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
132 157 1.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.31
Consensus pattern (132 bp):
AAGATCTATAATTTTCAACCTACTCTACTGCTGCTCAGGGAGATAAGGCTAGTGACTTAAATCTA
CTTCCCTACTACCTTGGGAAGATAAAATTCACCATCTTCAATCTGCTCCACTACTGCTTAGGGAG
AT
Found at i:41388558 original size:132 final size:130
Alignment explanation
Indices: 41388191--41388589 Score: 388
Period size: 132 Copynumber: 3.0 Consensus size: 130
41388181 ACAGGAACAC
* * * * * * *
41388191 AAGATCTACAATCTTCGACCTACTCTACTGTTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTA
1 AAGATCTATAATTTTCAACCTACTCCACTGCTACTCAGGGAGATAAGGCTAGTGACTTAAATCTA
* ** *
41388256 CTTCCCTACTATCTTTGGAAGATAAGATTTGCCATCTTCAATCTGCTCCACTACTGCTTAGGGAG
66 CTTCCCTACT-GCTCAGGAAGATAAGA-TTGCCATCTTTAATCTGCTCCACTACTGCTTAGGGAG
41388321 AT
129 AT
* * *
41388323 AAGATCTATAATTTTCAACCTACTCTATTGCTACTCAGGGAGATAAGGCTAGTGACTTAAATCTG
1 AAGATCTATAATTTTCAACCTACTCCACTGCTACTCAGGGAGATAAGGCTAGTGACTTAAATCTA
** * * * *
41388388 CTTCCCTACTGCCTTGGGAAGATAAAATTCACCGTCTTTGATCTGCTCCACTACTGCTTAGGGAG
66 CTTCCCTACTG-CTCAGGAAGATAAGATT-GCCATCTTTAATCTGCTCCACTACTGCTTAGGGAG
41388453 AT
129 AT
* ** * * * **
41388455 AAGATCTGTAATTTTCAACCTACTCCACTGCTGGTTAGGGAGATAAGGTTGGT-ATCTTCGATCT
1 AAGATCTATAATTTTCAACCTACTCCACTGCTACTCAGGGAGATAAGGCTAGTGA-CTTAAATCT
* * * * ** * *
41388519 ACTTCGCTACTAG-TACAGGAAGACAAGATCTGCTATCTTTAACCTATTCCACTGCTGCTCAGGG
65 ACTTCCCTACT-GCT-CAGGAAGATAAGAT-TGCCATCTTTAATCTGCTCCACTACTGCTTAGGG
41388583 AGAT
127 AGAT
41388587 AAG
1 AAG
41388590 GCTGGTTATC
Statistics
Matches: 221, Mismatches: 40, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
131 4 0.02
132 215 0.97
133 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (130 bp):
AAGATCTATAATTTTCAACCTACTCCACTGCTACTCAGGGAGATAAGGCTAGTGACTTAAATCTA
CTTCCCTACTGCTCAGGAAGATAAGATTGCCATCTTTAATCTGCTCCACTACTGCTTAGGGAGAT
Found at i:41389899 original size:10 final size:10
Alignment explanation
Indices: 41389872--41389906 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
41389862 CTCCATTTTC
41389872 TTTTTTATTT
1 TTTTTTATTT
*
41389882 TTGGTTTATTT
1 TT-TTTTATTT
41389893 TTTTTTATTT
1 TTTTTTATTT
41389903 TTTT
1 TTTT
41389907 GGACTCAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.09, C:0.00, G:0.06, T:0.86
Consensus pattern (10 bp):
TTTTTTATTT
Found at i:41389963 original size:47 final size:48
Alignment explanation
Indices: 41389894--41389986 Score: 143
Period size: 47 Copynumber: 2.0 Consensus size: 48
41389884 GGTTTATTTT
* * * *
41389894 TTTTTATTTTTTTGGACTCAAAGTGCCCTTTGTGGGTTTTCACCTTAG
1 TTTTTATTTTTTAGGAATCAAAGCGCCCTTTGCGGGTTTTCACCTTAG
41389942 TTTTT-TTTTTTAGGAATCAAAGCGCCCTTTGCGGGTTTTCACCTT
1 TTTTTATTTTTTAGGAATCAAAGCGCCCTTTGCGGGTTTTCACCTT
41389987 GGTCCCTTCT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 36 0.88
48 5 0.12
ACGTcount: A:0.15, C:0.18, G:0.18, T:0.48
Consensus pattern (48 bp):
TTTTTATTTTTTAGGAATCAAAGCGCCCTTTGCGGGTTTTCACCTTAG
Found at i:41398795 original size:40 final size:39
Alignment explanation
Indices: 41398751--41398855 Score: 122
Period size: 39 Copynumber: 2.6 Consensus size: 39
41398741 AGTGACCATA
*
41398751 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGACTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
* *
41398791 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
41398829 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGACTAAG-CCCGAAGGCATTTG
41398856 AACGAGTAGC
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
38 2 0.03
39 32 0.55
40 24 0.41
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:41398812 original size:39 final size:40
Alignment explanation
Indices: 41398711--41398874 Score: 169
Period size: 40 Copynumber: 4.1 Consensus size: 40
41398701 TTGAATGATG
* *
41398711 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATA
*
41398751 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA
*
41398790 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
* * **
41398830 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATA-CTATA
41398870 TCCGG
1 TCCGG
41398875 TTAAATTCCG
Statistics
Matches: 106, Mismatches: 10, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
39 36 0.34
40 59 0.56
41 10 0.09
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
Found at i:41398874 original size:79 final size:80
Alignment explanation
Indices: 41398711--41398861 Score: 191
Period size: 79 Copynumber: 1.9 Consensus size: 80
41398701 TTGAATGATG
*
41398711 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
41398776 GTGCGAGATACTAAT
66 GAACGAGATACTAAT
* * * * *
41398791 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
41398853 TTGAACGAG
64 TTGAACGAG
41398862 TAGCTATATC
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.02
79 42 0.69
80 18 0.30
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGATACTAAT
Found at i:41406513 original size:79 final size:81
Alignment explanation
Indices: 41406377--41406561 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
41406367 TTGAATGATG
*
41406377 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
41406441 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
41406456 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
41406518 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
41406536 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
41406562 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:41406575 original size:40 final size:40
Alignment explanation
Indices: 41406378--41406561 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
41406368 TGAATGATGT
* * * *
41406378 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
41406418 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
41406458 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
41406496 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
41406537 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
41406562 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:41406583 original size:79 final size:79
Alignment explanation
Indices: 41406430--41406594 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
41406420 GGACTAAGAT
* **
41406430 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
41406495 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
41406509 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
41406572 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
41406588 CCGAAGG
1 CCGAAGG
41406595 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:41412157 original size:18 final size:18
Alignment explanation
Indices: 41412133--41412202 Score: 90
Period size: 18 Copynumber: 3.9 Consensus size: 18
41412123 AGTAAAACCT
*
41412133 AATATAAATAATAAT-GTA
1 AATAT-AATAATAATAATA
*
41412151 CATATAATAATAATAATA
1 AATATAATAATAATAATA
41412169 AATATAATAATAATAAT-
1 AATATAATAATAATAATA
41412186 AATAATAATAATAATAA
1 AAT-ATAATAATAATAA
41412203 ACCAATTAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
17 12 0.26
18 35 0.74
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (18 bp):
AATATAATAATAATAATA
Found at i:41412160 original size:3 final size:3
Alignment explanation
Indices: 41412154--41412202 Score: 82
Period size: 3 Copynumber: 16.3 Consensus size: 3
41412144 TAATGTACAT
41412154 ATA ATA ATA ATA ATA A-A TATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA
41412199 ATA A
1 ATA A
41412203 ACCAATTAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 1 0.02
3 42 0.95
4 1 0.02
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:41413264 original size:16 final size:16
Alignment explanation
Indices: 41413195--41413262 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
41413185 TTTGGTTCGC
41413195 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
41413211 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
41413227 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
41413243 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
41413259 TGTA
1 TGTA
41413263 ATAGCAAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:41413297 original size:45 final size:44
Alignment explanation
Indices: 41413243--41413337 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
41413233 GGATTAGAGG
* *
41413243 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
41413288 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
41413332 TGTAAT
1 TGTAAT
41413338 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:41413520 original size:18 final size:17
Alignment explanation
Indices: 41413499--41413533 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
41413489 TTATTATTTA
*
41413499 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
41413517 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
41413534 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:41413527 original size:28 final size:27
Alignment explanation
Indices: 41413457--41413529 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
41413447 TTTATTATCA
*
41413457 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
41413485 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
41413512 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
41413530 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:41413702 original size:47 final size:46
Alignment explanation
Indices: 41413636--41413802 Score: 146
Period size: 47 Copynumber: 3.6 Consensus size: 46
41413626 TTAATTAAAA
*
41413636 TATATG-ATTTAATAAAATTTAAAATAATTATAACTAATAAATTATCT
1 TATATGAATTT-ATATAATTTAAAATAATTATAA-TAATAAATTATCT
* * * * * *
41413683 TATATGAATTTGTATAATTTAAAATAATTATTATTACATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATAATAATAAATTATCT
* * * *
41413728 TA-AT-AATAATATATAATTTCATAA-AATTCTTAATAATAAATTTTCT
1 TATATGAAT-TTATATAATTT-AAAATAATT-ATAATAATAAATTATCT
*
41413774 TATATGAATTTATACAATTTAAAATAATT
1 TATATGAATTTATATAATTTAAAATAATT
41413803 CGGATCAATC
Statistics
Matches: 92, Mismatches: 20, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
43 3 0.03
44 15 0.16
45 14 0.15
46 13 0.14
47 40 0.43
48 7 0.08
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (46 bp):
TATATGAATTTATATAATTTAAAATAATTATAATAATAAATTATCT
Found at i:41413724 original size:26 final size:28
Alignment explanation
Indices: 41413695--41413766 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
41413685 TATGAATTTG
*
41413695 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
41413721 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
41413749 TAAAATTCTTAATAATAA
1 TATAA-T-TTAATAATAA
41413767 ATTTTCTTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
26 10 0.26
27 6 0.15
28 12 0.31
29 1 0.03
30 10 0.26
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:41413962 original size:22 final size:22
Alignment explanation
Indices: 41413934--41413978 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
41413924 ACTAAGCTTG
41413934 AATTTCATTAAATTACTTTCAA
1 AATTTCATTAAATTACTTTCAA
41413956 AATTTCATTAAATTACTTTCAA
1 AATTTCATTAAATTACTTTCAA
41413978 A
1 A
41413979 GTTAAGGATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.44
Consensus pattern (22 bp):
AATTTCATTAAATTACTTTCAA
Found at i:41429969 original size:156 final size:157
Alignment explanation
Indices: 41429683--41430004 Score: 574
Period size: 156 Copynumber: 2.1 Consensus size: 157
41429673 TCTAAGTCTT
* *
41429683 AGAAATTAGAAATCATGCATGTTGGTAAGTTTTGCAATTTCTCTGCATTAGTAAATTCAAAAAAA
1 AGAAATTAGAAATCATGCATGTTGGTAAGTTTTGCAATTTCTCTACATTAGCAAATTC-AAAAAA
41429748 AAAGAAGGTAGTTAAGGATTTCAGTTAATTATTGGTCCTGTTTTGTTTTAAGGTAAAGTGGTAGA
65 AAAGAAGGTAGTTAAGGATTTCAGTTAATTATTGGTCCTGTTTTGTTTTAAGGTAAAGTGGTAGA
41429813 TAATCATTCAAATGGTCTTTGCATGCAA
130 TAATCATTCAAATGGTCTTTGCATGCAA
* * *
41429841 AGAAATTAGAAATCATGCATGTTGGTAAGTTTTGTAATTTTTCTACATTAGCAAATTC-AAGAAA
1 AGAAATTAGAAATCATGCATGTTGGTAAGTTTTGCAATTTCTCTACATTAGCAAATTCAAAAAAA
41429905 AAGAAGGTAGTTAAGGATTTCAGTTAATTATTGGTCCTGTTTTGTTTTAAGGTAAAGTGGTAGAT
66 AAGAAGGTAGTTAAGGATTTCAGTTAATTATTGGTCCTGTTTTGTTTTAAGGTAAAGTGGTAGAT
*
41429970 AATTATTCAAATGGTCTTTGCATGCAA
131 AATCATTCAAATGGTCTTTGCATGCAA
41429997 AGAAATTA
1 AGAAATTA
41430005 TGGTTTTTAT
Statistics
Matches: 158, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
156 104 0.66
158 54 0.34
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.37
Consensus pattern (157 bp):
AGAAATTAGAAATCATGCATGTTGGTAAGTTTTGCAATTTCTCTACATTAGCAAATTCAAAAAAA
AAGAAGGTAGTTAAGGATTTCAGTTAATTATTGGTCCTGTTTTGTTTTAAGGTAAAGTGGTAGAT
AATCATTCAAATGGTCTTTGCATGCAA
Found at i:41430821 original size:55 final size:53
Alignment explanation
Indices: 41430760--41430950 Score: 168
Period size: 55 Copynumber: 3.5 Consensus size: 53
41430750 TGTAACTGTG
* * * *
41430760 GAAGTCCGTCAAGACAATCTTAA-ATGTGGGAAGTCCACCAGGATTATCTTATGT
1 GAAGTCCGT-AAGACTATC-TAATATGTGGGAAGTCCACCAAGACTATCTTATAT
* **
41430814 CGAAGTCCGTAAGGACTATCTAATATGTAGGAAGTCTGCCAAGACTATCTTATAT
1 -GAAGTCCGTAA-GACTATCTAATATGTGGGAAGTCCACCAAGACTATCTTATAT
* ** * * *
41430869 GAAATCCTGTAAAGACTATCTAATATGTGGGAAGTCTGCCAATACTATCGTATGT
1 GAAGTCC-GT-AAGACTATCTAATATGTGGGAAGTCCACCAAGACTATCTTATAT
* *
41430924 GGAAATTCGTAAGGACTATCTAATATG
1 -GAAGTCCGTAA-GACTATCTAATATG
41430951 GCGAAGTTCG
Statistics
Matches: 117, Mismatches: 13, Indels: 12
0.82 0.09 0.08
Matches are distributed among these distances:
54 13 0.11
55 96 0.82
56 8 0.07
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (53 bp):
GAAGTCCGTAAGACTATCTAATATGTGGGAAGTCCACCAAGACTATCTTATAT
Found at i:41430859 original size:29 final size:29
Alignment explanation
Indices: 41430827--41430917 Score: 100
Period size: 29 Copynumber: 3.2 Consensus size: 29
41430817 AGTCCGTAAG
41430827 GACTATCTAATATGTAGGAAGTCTGCCAA
1 GACTATCTAATATGTAGGAAGTCTGCCAA
* **
41430856 GACTATCTTATATG-A--AA-TCCTGTAAA
1 GACTATCTAATATGTAGGAAGT-CTGCCAA
*
41430882 GACTATCTAATATGTGGGAAGTCTGCCAA
1 GACTATCTAATATGTAGGAAGTCTGCCAA
*
41430911 TACTATC
1 GACTATC
41430918 GTATGTGGAA
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
25 1 0.02
26 20 0.41
28 1 0.02
29 26 0.53
30 1 0.02
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.31
Consensus pattern (29 bp):
GACTATCTAATATGTAGGAAGTCTGCCAA
Found at i:41433933 original size:26 final size:26
Alignment explanation
Indices: 41433906--41433956 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
41433896 GTTGTAAATA
41433906 AAAAAAATATCTCTAG-AAATTTTCT
1 AAAAAAATATCTCTAGAAAATTTTCT
* * *
41433931 AAAATAATTTCTTTAGAAAATTTTCT
1 AAAAAAATATCTCTAGAAAATTTTCT
41433957 CTCTACACCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.45, C:0.10, G:0.04, T:0.41
Consensus pattern (26 bp):
AAAAAAATATCTCTAGAAAATTTTCT
Found at i:41434106 original size:17 final size:17
Alignment explanation
Indices: 41434062--41434119 Score: 68
Period size: 17 Copynumber: 3.6 Consensus size: 17
41434052 TAATCACTTT
*
41434062 AATATTAAATT-AATAA
1 AATATTAAATTAAATTA
*
41434078 AATACT--ATTAAATTA
1 AATATTAAATTAAATTA
*
41434093 AGTATTAAATTAAATTA
1 AATATTAAATTAAATTA
41434110 AATATTAAAT
1 AATATTAAAT
41434120 CTATTAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
14 3 0.09
15 8 0.24
16 5 0.15
17 18 0.53
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (17 bp):
AATATTAAATTAAATTA
Found at i:41440117 original size:23 final size:21
Alignment explanation
Indices: 41440086--41440131 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
41440076 AATTTTAAAA
*
41440086 ATTTAGAAAAGTATATAAAAATT
1 ATTTAGAAAA-AAT-TAAAAATT
*
41440109 ATTTTGAAAAAATTAAAAATT
1 ATTTAGAAAAAATTAAAAATT
41440130 AT
1 AT
41440132 ATAAAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 10 0.48
22 2 0.10
23 9 0.43
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (21 bp):
ATTTAGAAAAAATTAAAAATT
Found at i:41440133 original size:32 final size:32
Alignment explanation
Indices: 41440077--41440137 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
41440067 ACTTTTTAAA
*
41440077 ATTTTAAAAATTTAGAAAAGTATATAAAAATT
1 ATTTTAAAAAATTAGAAAAGTATATAAAAATT
*
41440109 ATTTTGAAAAAATTA-AAAATTATATAAAA
1 ATTTT-AAAAAATTAGAAAAGTATATAAAA
41440138 TATAAAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
32 18 0.69
33 8 0.31
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (32 bp):
ATTTTAAAAAATTAGAAAAGTATATAAAAATT
Found at i:41445223 original size:5 final size:5
Alignment explanation
Indices: 41445213--41445237 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
41445203 ACGAAGAAGG
41445213 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
41445238 TCTAAAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:41446115 original size:44 final size:44
Alignment explanation
Indices: 41446018--41446740 Score: 364
Period size: 44 Copynumber: 16.7 Consensus size: 44
41446008 TCTGATGCGA
* * * **
41446018 TCTGCTCTACTGCAACTTCAGAGAGATGAGATTCATCG-TTT-TG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGT-GTTTTCTG
* * *
41446061 ATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTTTTCTG
1 -TCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTGTTTTCTG
* * * * *
41446106 TCTGTTCCACTGTAACTTTAGAGAGATAAGACTGGATG----C-G
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTGG-TGTTTTCTG
* * * **
41446146 ATCTGCTCTACTGTAACTTCAGAGAGATAAGATAT-GTGGTTTT-AA
1 -TCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGGT-GTTTTCTG
* * *
41446191 TCTACTCCACTGCAATTTTAGGGAGATAAGATTGGT-TTCTTCTG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTGTT-TTCTG
* * * * **
41446235 TCTTCTCCACTGTAACTTCAGAGAGATAAGACTGGATGTAATCTG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTGG-TGTTTTCTG
* * * * **
41446280 -CT-AT--ACCGCAACTTCAGAGAGATAATATCT-GTGGTTTT-AA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGGT-GTTTTCTG
* * *
41446320 TCTGCTCCACTGTAACTTCAGGCAGATAGGATTGGT-TTCTTCTG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTGTT-TTCTG
* * *
41446364 TCTGCTCCACTGCAACTTTAGGGGGATAAGACTGGATG----C-G
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTGG-TGTTTTCTG
* * * * *
41446404 ATCTGCTCTACTGCAACTTCAGAGAGGTAAGGTCT-GTGGTTT-TG
1 -TCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGGTGTTTTCTG
* * * *
41446448 ATCCGTTCCACTGCAACTTCAGGGAGATAGGATTGAT-TTCTTCTG
1 -TCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTGTT-TTCTG
* * *
41446493 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-CGG-G-ATGC-G
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTGTTTTCTG
* ** * **
41446533 ATCTGCTCTACTGCAACTTCAAAGAGGTAAGATCT-GTGGTTTT-AA
1 -TCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGGT-GTTTTCTG
* * * *
41446578 TCTGCTCCACTGTAACTTCAAGGAGATAGGATTGGT-TTCTTCTA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTGTT-TTCTG
* * * **
41446622 TCTGCTCCACTGCAACTTTAGAGAAATAAGATCT-GTGGTTTT-AA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGGT-GTTTTCTG
** *
41446666 TCCACTCCACTGCAACTTCAGGGAGATAGGATTGGT-TTCTTCTG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTGTT-TTCTG
*
41446710 TCTGCTCCACTGTAACTTCAGGGAGATAAGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA
41446741 CTGGATGTGA
Statistics
Matches: 508, Mismatches: 117, Indels: 108
0.69 0.16 0.15
Matches are distributed among these distances:
40 7 0.01
41 113 0.22
42 13 0.03
43 16 0.03
44 341 0.67
45 15 0.03
46 3 0.01
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTGTTTTCTG
Found at i:41446173 original size:129 final size:130
Alignment explanation
Indices: 41446001--41446652 Score: 884
Period size: 129 Copynumber: 5.1 Consensus size: 130
41445991 TGTAACTTAA
* * * * *
41446001 AGATAAGTCT-GATGCGATCTGCTCTACTGCAACTTCAGAGAGATGAGATTC-ATCGTTTTGATC
1 AGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATTCTGTGGTTTTAATC
* * * *
41446064 CGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTTTTCTGTCTGTTCCACTGTAACTTTAGAG
66 TGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTTAGAG
* *
41446129 AGATAAGACTGGATGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGA-TATGTGGTTTTAATC
1 AGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATTCTGTGGTTTTAATC
* * * * * * *
41446193 TACTCCACTGCAATTTTAGGGAGATAAGATTGGTTTCTTCTGTCTTCTCCACTGTAACTTCAGAG
66 TGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTTAGAG
** * * *
41446258 AGATAAGACTGGATGTAATCTGCTATACCGCAACTTCAGAGAGATAATA-TCTGTGGTTTTAATC
1 AGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATTCTGTGGTTTTAATC
* * *
41446322 TGCTCCACTGTAACTTCAGGCAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTTAGGG
66 TGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTTAGAG
* * * *
41446387 GGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGGTAAG-GTCTGTGGTTTTGATC
1 AGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATTCTGTGGTTTTAATC
* * * * *
41446451 CGTTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTCCACTGCAACTTCAGGG
66 TGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTTAGAG
* * *
41446516 AGATAAGACGGGATGCGATCTGCTCTACTGCAACTTCAAAGAGGTAAGA-TCTGTGGTTTTAATC
1 AGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATTCTGTGGTTTTAATC
* * *
41446580 TGCTCCACTGTAACTTCAAGGAGATAGGATTGGTTTCTTCTATCTGCTCCACTGCAACTTTAGAG
66 TGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTTAGAG
*
41446645 AAATAAGA
1 AGATAAGA
41446653 TCTGTGGTTT
Statistics
Matches: 460, Mismatches: 60, Indels: 7
0.87 0.11 0.01
Matches are distributed among these distances:
128 10 0.02
129 450 0.98
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (130 bp):
AGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATTCTGTGGTTTTAATC
TGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTTAGAG
Found at i:41446201 original size:85 final size:85
Alignment explanation
Indices: 41446106--41446476 Score: 270
Period size: 85 Copynumber: 4.3 Consensus size: 85
41446096 GTTTTTTCTG
* *
41446106 TCTGTTCCACTGTAACTTTAGAGAGATAAGACTGGATGCGATCTGCTCTACTGTAACTTCAGAGA
1 TCTGCTCCACTGCAACTTTAGAGAGATAAGACTGGATGCGATCTGCTCTACTGTAACTTCAGAGA
41446171 GATAAGATATGTGGTTTTAA
66 GATAAGATATGTGGTTTTAA
* * * * * * *
41446191 TCTACTCCACTGCAATTTTAGGGAGATAAGATTGGTTTC-TTCTGTCTTCTCCACTGTAACTTCA
1 TCTGCTCCACTGCAACTTTAGAGAGATAAGACTGGATGCGATCTG-C-TCT--ACTGTAACTTCA
* * *
41446255 GAGAGATAAG--A-CTGGATGTAA
62 GAGAGATAAGATATGTGGTTTTAA
** * * * * *** *
41446276 TCTGCTATACCGCAACTTCAGAGAGATAATATCTGTGGTTTTAATCTGCTCCACTGTAACTTCAG
1 TCTGCTCCACTGCAACTTTAGAGAGATAAGA-C--TGGATGCGATCTGCTCTACTGTAACTTCAG
* * **
41446341 -GCAGATAGGAT-TG-GTTTCTTCTG
63 AG-AGATAAGATATGTGGTT-TT-AA
* * *
41446364 TCTGCTCCACTGCAACTTTAGGGGGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGA
1 TCTGCTCCACTGCAACTTTAGAGAGATAAGACTGGATGCGATCTGCTCTACTGTAACTTCAGAGA
* * * *
41446429 GGTAAGGTCTGTGGTTTTGA
66 GATAAGATATGTGGTTTTAA
* * * *
41446449 TCCGTTCCACTGCAACTTCAGGGAGATA
1 TCTGCTCCACTGCAACTTTAGAGAGATA
41446477 GGATTGATTT
Statistics
Matches: 215, Mismatches: 54, Indels: 34
0.71 0.18 0.11
Matches are distributed among these distances:
84 5 0.02
85 135 0.63
86 11 0.05
87 7 0.03
88 53 0.25
89 4 0.02
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (85 bp):
TCTGCTCCACTGCAACTTTAGAGAGATAAGACTGGATGCGATCTGCTCTACTGTAACTTCAGAGA
GATAAGATATGTGGTTTTAA
Found at i:41446702 original size:129 final size:127
Alignment explanation
Indices: 41446001--41446737 Score: 814
Period size: 129 Copynumber: 5.7 Consensus size: 127
41445991 TGTAACTTAA
* * * *
41446001 AGATAAGTCT-GATGCGATCTGCTCTACTGCAACTTCAGAGAGAT-GAGATTCATCGTTTTGATC
1 AGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAG-GA-T-GTGGTTTTAATC
* * * *
41446064 CGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTTTTCTGTCTGTTCCACTGTAACTTTAGAG
63 TGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTTAGAG
* *
41446129 AGATAAGACTGGATGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATATGTGGTTTTAATCT
1 AGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGAT-AG-GATGTGGTTTTAATCT
* * * * * * *
41446194 ACTCCACTGCAATTTTAGGGAGATAAGATTGGTTTCTTCTGTCTTCTCCACTGTAACTTCAGAG
64 GCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTTAGAG
** * * **
41446258 AGATAAGACTGGATGTAATCTGCTATACCGCAACTTCAGAGAGATAATATCTGTGGTTTTAATCT
1 AGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAGGA--TGTGGTTTTAATCT
* * *
41446323 GCTCCACTGTAACTTCAGGCAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTTAGGG
64 GCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTTAGAG
* * * * *
41446387 GGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGGTAAGGTCTGTGGTTTTGATCC
1 AGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGAT-AGG-ATGTGGTTTTAATCT
* * * *
41446452 GTTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTCCACTGCAACTTCAGGG
64 GCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTTAGAG
* * * *
41446516 AGATAAGACGGGATGCGATCTGCTCTACTGCAACTTCAAAGAGGTAAGATCTGTGGTTTTAATCT
1 AGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAGGA--TGTGGTTTTAATCT
* * *
41446581 GCTCCACTGTAACTTCAAGGAGATAGGATTGGTTTCTTCTATCTGCTCCACTGCAACTTTAGAG
64 GCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTTAGAG
* * *** ** * * *
41446645 AAATAAGATCTGTGGTTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGAT-TGGTTTCTTCT
1 AGATAAGA-C--TGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAGGATGTGG-TT-TT-A
* *
41446709 GTCTGCTCCACTGTAACTTCAGGGAGATA
60 ATCTGCTCCACTGCAACTTCAGGGAGATA
41446738 AGACTGGATG
Statistics
Matches: 517, Mismatches: 77, Indels: 26
0.83 0.12 0.04
Matches are distributed among these distances:
127 2 0.00
128 12 0.02
129 437 0.85
130 6 0.01
131 5 0.01
132 55 0.11
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (127 bp):
AGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAGGATGTGGTTTTAATCTGC
TCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTTAGAG
Found at i:41446994 original size:44 final size:44
Alignment explanation
Indices: 41446946--41447102 Score: 194
Period size: 44 Copynumber: 3.6 Consensus size: 44
41446936 TTTGATCTGC
* *
41446946 TCCACTACTG-CTTAGGGTGACAGGA-TCTACAA-CTTTCAACCTAT
1 TCCACTACTGTC-TAGGGAGATAGGACT-TACAATC-TTCAACCTAT
* * *
41446990 TCCACTGCTGTCCAGGGAGATATGACTTACAATCTTCAACCTAT
1 TCCACTACTGTCTAGGGAGATAGGACTTACAATCTTCAACCTAT
*
41447034 TCCACTACTATCTAGGGAGATAGGACTTACAATCTTCAACCTAT
1 TCCACTACTGTCTAGGGAGATAGGACTTACAATCTTCAACCTAT
* *
41447078 TCCACTGCTGTCCAGGGAGATAGGA
1 TCCACTACTGTCTAGGGAGATAGGA
41447103 TTTATGGTTT
Statistics
Matches: 98, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
44 95 0.97
45 3 0.03
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (44 bp):
TCCACTACTGTCTAGGGAGATAGGACTTACAATCTTCAACCTAT
Found at i:41454698 original size:20 final size:22
Alignment explanation
Indices: 41454668--41454711 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
41454658 TTTGGTGTTT
41454668 AGGGCTTAGGTG-ATTTGGGCC
1 AGGGCTTAGGTGAATTTGGGCC
41454689 AGGG-TTAGGTGATATTTGGGCC
1 AGGGCTTAGGTGA-ATTTGGGCC
41454711 A
1 A
41454712 AATTTTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.33
21 4 0.19
22 10 0.48
ACGTcount: A:0.18, C:0.11, G:0.41, T:0.30
Consensus pattern (22 bp):
AGGGCTTAGGTGAATTTGGGCC
Found at i:41469595 original size:20 final size:21
Alignment explanation
Indices: 41469560--41469598 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
41469550 TTTATGGTTT
*
41469560 TAAATAATTTTTGGGTAAAAA
1 TAAATAATTTTGGGGTAAAAA
41469581 TAAAT-ATTTTGGGGTAAA
1 TAAATAATTTTGGGGTAAA
41469599 TTGAAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.44, C:0.00, G:0.18, T:0.38
Consensus pattern (21 bp):
TAAATAATTTTGGGGTAAAAA
Found at i:41473626 original size:49 final size:49
Alignment explanation
Indices: 41473448--41473639 Score: 131
Period size: 49 Copynumber: 3.9 Consensus size: 49
41473438 TTGGTGTCCA
* * * * *
41473448 GAATGATGGATCACTGGTAGGGTATGTTAGTTGCTAACCAGAATGGCA-
1 GAATGATGGATCACTAGTAAGGCATCTTAGTTGCTAACCAGATTGGCAG
* * * * *
41473496 G-ATGTACTGGATGACTGGTAAGGCCTGC-TAGTTGCTAACCAG-GTGGGAG
1 GAATG-A-TGGATCACTAGTAAGGCAT-CTTAGTTGCTAACCAGATTGGCAG
* ** * *
41473545 GATAAGATGGGCCAGTAGTAAGGCATGTTAGTTGCTAACCAGATTGGCAG
1 GA-ATGATGGATCACTAGTAAGGCATCTTAGTTGCTAACCAGATTGGCAG
* * * * * *
41473595 GAATGATGGGTCACTAGTAGGGTATCATAGTTACTAACTAGATTG
1 GAATGATGGATCACTAGTAAGGCATCTTAGTTGCTAACCAGATTG
41473640 ACGTGAGTGC
Statistics
Matches: 110, Mismatches: 26, Indels: 15
0.73 0.17 0.10
Matches are distributed among these distances:
47 3 0.03
48 6 0.05
49 91 0.83
50 8 0.07
51 2 0.02
ACGTcount: A:0.28, C:0.14, G:0.32, T:0.27
Consensus pattern (49 bp):
GAATGATGGATCACTAGTAAGGCATCTTAGTTGCTAACCAGATTGGCAG
Found at i:41474811 original size:14 final size:15
Alignment explanation
Indices: 41474789--41474817 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
41474779 TTCTTATTGG
41474789 TTATCTTTTATTTTT
1 TTATCTTTTATTTTT
41474804 TTAT-TTTTATTTTT
1 TTATCTTTTATTTTT
41474818 GCATACTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (15 bp):
TTATCTTTTATTTTT
Found at i:41475637 original size:26 final size:26
Alignment explanation
Indices: 41475608--41475661 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
41475598 TATTAGATTG
* * *
41475608 TTTTATATTATTTTAGATATTATGTA
1 TTTTAAATCATTTCAGATATTATGTA
* *
41475634 TTTTAAATCATTTCATATATTATTTA
1 TTTTAAATCATTTCAGATATTATGTA
41475660 TT
1 TT
41475662 ATGAATGGCC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (26 bp):
TTTTAAATCATTTCAGATATTATGTA
Found at i:41481968 original size:44 final size:44
Alignment explanation
Indices: 41481910--41482263 Score: 161
Period size: 44 Copynumber: 7.5 Consensus size: 44
41481900 TATCTTCTTG
*
41481910 AAGTTGTAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTA
1 AAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTA
* * * ** * *
41481954 AAGTTGCAGCGGAGCAGATTGAAGACAACGAATCTTATTTCCCTG
1 AAGTTGCAGTGGAGCAGATTGAAG-CCACCAGCCTTATCTCCCTA
** ** * ** *
41481999 GCGTTGCAGTGGAATAGATTAAAGCTACAAATTATGGCGGATCTTATCTTCCTA
1 AAGTTGCAGTGGAGCAGATTGAAGC--C--ACCA--GC----CTTATCTCCCTA
* *
41482053 AAGTTGCAGTCGAGCAAATTGAAGCCACCAGCCTTATCTCCCTA
1 AAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTA
* * * * * * * * *
41482097 AAGTTACAGCGGAGCAGACTGAAGACAGCAGATCTTATTTCCTTGG
1 AAGTTGCAGTGGAGCAGATTGAAGCCACCAG-CCTTATCTCCCT-A
* * * ** *
41482143 CA-TTGCAGTGGAACAGATTAAAGCTACAAATTATGGCTGATCTTATCTTCCTA
1 AAGTTGCAGTGGAGCAGATTGAAGC--C--ACCA--GC----CTTATCTCCCTA
* *
41482196 AAGTTGCAGTAGAGGAGATTGAAGCCACCAGCCTTATCTCCCTA
1 AAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTA
* *
41482240 AAGTTGCAGTAGAGCAGACTGAAG
1 AAGTTGCAGTGGAGCAGATTGAAG
41482264 ACAGCGAATC
Statistics
Matches: 219, Mismatches: 67, Indels: 48
0.66 0.20 0.14
Matches are distributed among these distances:
44 91 0.42
45 57 0.26
46 1 0.00
47 1 0.00
48 6 0.03
49 2 0.01
50 4 0.02
51 1 0.00
52 2 0.01
53 1 0.00
54 53 0.24
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.26
Consensus pattern (44 bp):
AAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTA
Found at i:41482149 original size:143 final size:143
Alignment explanation
Indices: 41481884--41483222 Score: 1802
Period size: 143 Copynumber: 9.4 Consensus size: 143
41481874 GATGGATTGA
* *
41481884 AAATTATGGCAGATCTTATCTTCTTGAAGTTGTAGTGGAGCAGATTGAAGCCACCAGCCTTATCT
1 AAATTATGGCAGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCT
* * * * *
41481949 CCCTAAAGTTGCAGCGGAGCAGATTGAAGACAACGAATCTTATTTCCCTGGCGTTGCAGTGGAAT
66 CCCTGAAGTTGCAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAAC
41482014 AGATTAAAGCTAC
131 AGATTAAAGCTAC
* * * *
41482027 AAATTATGGCGGATCTTATCTTCCTAAAGTTGCAGTCGAGCAAATTGAAGCCACCAGCCTTATCT
1 AAATTATGGCAGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCT
* * * * *
41482092 CCCTAAAGTTACAGCGGAGCAGACTGAAGACAGC-AGATCTTATTTCCTTGGCATTGCAGTGGAA
66 CCCTGAAGTTGCAGCGGAGCAGACTAAAGACAGCGA-ATCTTATTTCCCTGGCGTTGCAGTGGAA
41482156 CAGATTAAAGCTAC
130 CAGATTAAAGCTAC
* * * *
41482170 AAATTATGGCTGATCTTATCTTCCTAAAGTTGCAGTAGAGGAGATTGAAGCCACCAGCCTTATCT
1 AAATTATGGCAGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCT
* ** * * * *
41482235 CCCTAAAGTTGCAGTAGAGCAGACTGAAGACAGCGAATCTTATTTCTCTGGCGTTGTAGTGGAAT
66 CCCTGAAGTTGCAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAAC
41482300 AGATTAAAGCTAC
131 AGATTAAAGCTAC
* * * *
41482313 AAATTATGACGGATCTTATCTTCCTGAAGTTACAGTGGAGCAGATTGAAGCTACCAGCCTTATCT
1 AAATTATGGCAGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCT
* * * * *
41482378 CCTTGAAGTTGCAGCGGAGCAGACTAAAGACAACAAATCTTATTTCCTTGGCATTGCAGTGGAAC
66 CCCTGAAGTTGCAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAAC
41482443 AGATTAAAGCTAC
131 AGATTAAAGCTAC
* *
41482456 AAATTATGGCGGATATTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCT
1 AAATTATGGCAGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCT
* * * * *
41482521 CCCTGAAGTTGTAGCAGAGCAGACTAAAGACAGCGAATCTTATTTCCCTGGCGTTGTACTGGAAT
66 CCCTGAAGTTGCAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAAC
41482586 AGATTAAAGCTAC
131 AGATTAAAGCTAC
41482599 AAATTATGGCAGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCT
1 AAATTATGGCAGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCT
* * ** * * *
41482664 CCTTGACGTTATAGCGGAGCTGACTAAAGACAGTGAATCTTATTTCCCTGGCGTTGTAGTGGAAC
66 CCCTGAAGTTGCAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAAC
*
41482729 AGATTAAAGTTAC
131 AGATTAAAGCTAC
* * * *
41482742 AAACTATGGTAGATCTTATCTTCCTGCAGTTGTAGTGGAGCAGATTGAAGCCACCAGCCTTATCT
1 AAATTATGGCAGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCT
* * * *
41482807 CCCTGAAGTTGCAGCGGAGCAGACTAAAGACAACGAATCTTATTTCCCTAGCGTTGCAGTGAAAT
66 CCCTGAAGTTGCAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAAC
*
41482872 AGATTAAAACTAC
131 AGATTAAAGCTAC
* * * * * * *
41482885 AAATTATGGAAAATCTTATCTTCCTAAAGTTGCAATGGAGCATATTGAAGCCACCAGCCTAATTT
1 AAATTATGGCAGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCT
* * * * * * *
41482950 CCCTAAAGTTGCAGCAGAGCAGACAAAAGACAGCAAATCTTATTTCCCTAGCATTACAGTGGAAC
66 CCCTGAAGTTGCAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAAC
*
41483015 AGATTAAGGCTAC
131 AGATTAAAGCTAC
* *
41483028 AAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAGCCTTATCT
1 AAATTATGGCAGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCT
* * ** * ** * *
41483093 CCCTGAACTTGTAGATGAGCAGACTGAAGACAATGAATCTTATTTCTCTGGCGCTGCAGTGGAAC
66 CCCTGAAGTTGCAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAAC
41483158 AGATTAAAGCTAC
131 AGATTAAAGCTAC
* * * * *
41483171 CAATTATGGCCA-ATTTTTATC-TCCTTGAAGTTACAGTGGAGTAGATCGAAGC
1 AAATTATGG-CAGA-TCTTATCTTCC-TGAAGTTGCAGTGGAGCAGATTGAAGC
41483223 TACAAATCTC
Statistics
Matches: 1054, Mismatches: 137, Indels: 9
0.88 0.11 0.01
Matches are distributed among these distances:
142 1 0.00
143 1021 0.97
144 32 0.03
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (143 bp):
AAATTATGGCAGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCT
CCCTGAAGTTGCAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAAC
AGATTAAAGCTAC
Found at i:41483255 original size:44 final size:44
Alignment explanation
Indices: 41483187--41483301 Score: 135
Period size: 44 Copynumber: 2.6 Consensus size: 44
41483177 TGGCCAATTT
* * * * *
41483187 TTATCTCCTTGAAGTTACAGTGGAGTAGATCGAAGCTACAAAT-C
1 TTATCTCCCTAAAATTACAGTGGAGCAGATCGAAGCCAC-AATCC
*
41483231 TCT-TCTCCCTAAAATTACATTGGAGCAGATCGAAGCCACAATCC
1 T-TATCTCCCTAAAATTACAGTGGAGCAGATCGAAGCCACAATCC
*
41483275 TTATCTCCCTAAAGTTACAGTGGAGCA
1 TTATCTCCCTAAAATTACAGTGGAGCA
41483302 TGATAAAAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
43 4 0.07
44 55 0.92
45 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.28
Consensus pattern (44 bp):
TTATCTCCCTAAAATTACAGTGGAGCAGATCGAAGCCACAATCC
Found at i:41484083 original size:30 final size:31
Alignment explanation
Indices: 41484059--41484117 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
41484049 GTAAATACTC
* **
41484059 AAAATTTGAGGGATTAA-AGTGTAAATATGA
1 AAAATTTGAAGGACCAATAGTGTAAATATGA
41484089 AAAATTTGAAGGACCAATAGTGTAAATAT
1 AAAATTTGAAGGACCAATAGTGTAAATAT
41484118 TTTAAGGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.47, C:0.03, G:0.20, T:0.29
Consensus pattern (31 bp):
AAAATTTGAAGGACCAATAGTGTAAATATGA
Found at i:41486168 original size:143 final size:143
Alignment explanation
Indices: 41485905--41486695 Score: 1057
Period size: 143 Copynumber: 5.5 Consensus size: 143
41485895 NNNNNNNNNN
* *
41485905 TGCAGTGGAACAGATTAAAGCTACAAATTATGGCGGATATTATCTTCCTGAAGTTGCAGTGGAGC
1 TGCAGTGGAACAGATTAAAGCTACAAATTATGGCAGATCTTATCTTCCTGAAGTTGCAGTGGAGC
41485970 AGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGTAGCAGAGCAGACTAAAGACAGCGAATCTT
66 AGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGTAGCAGAGCAGACTAAAGACAGCGAATCTT
41486035 ATTTCCCTGGCGT
131 ATTTCCCTGGCGT
* * *
41486048 TGTACTGGAATAGATTAAAGCTACAAATTATGGCAGATCTTATCTTCCTGAAGTTGCAGTGGAGC
1 TGCAGTGGAACAGATTAAAGCTACAAATTATGGCAGATCTTATCTTCCTGAAGTTGCAGTGGAGC
* * * * * *
41486113 AGATTGAAGCCACCAGCCTTATCTCCTTGACGTTATAGCGGAGCTGACTAAAGACAGTGAATCTT
66 AGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGTAGCAGAGCAGACTAAAGACAGCGAATCTT
41486178 ATTTCCCTGGCGT
131 ATTTCCCTGGCGT
* * * * * *
41486191 TGTAGTGGAACAGATTAAAGTTACAAACTATGGTAGATCTTATCTTCCTGCAGTTGTAGTGGAGC
1 TGCAGTGGAACAGATTAAAGCTACAAATTATGGCAGATCTTATCTTCCTGAAGTTGCAGTGGAGC
* * *
41486256 AGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTAAAGACAACGAATCTT
66 AGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGTAGCAGAGCAGACTAAAGACAGCGAATCTT
*
41486321 ATTTCCCTAGCGT
131 ATTTCCCTGGCGT
* * * * * * *
41486334 TGCAGTGAAATAGATTAAAACTACAAATTATGGAAAATCTTATCTTCCTAAAGTTGCAATGGAGC
1 TGCAGTGGAACAGATTAAAGCTACAAATTATGGCAGATCTTATCTTCCTGAAGTTGCAGTGGAGC
* * * * * * *
41486399 ATATTGAAGCCACCAGCCTAATTTCCCTAAAGTTGCAGCAGAGCAGACAAAAGACAGCAAATCTT
66 AGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGTAGCAGAGCAGACTAAAGACAGCGAATCTT
* *
41486464 ATTTCCCTAGCAT
131 ATTTCCCTGGCGT
* * *
41486477 TACAGTGGAACAGATTAAGGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGC
1 TGCAGTGGAACAGATTAAAGCTACAAATTATGGCAGATCTTATCTTCCTGAAGTTGCAGTGGAGC
* * * **
41486542 AGATTGAAGCCACTAGCCTTATCTCCCTGAACTTGTAG-ATGAGCAGACTGAAGACAATGAATCT
66 AGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGTAGCA-GAGCAGACTAAAGACAGCGAATCT
* *
41486606 TATTTCTCTGGCGC
130 TATTTCCCTGGCGT
* * *
41486620 TGCAGTGGAACAGATTAAAGCTACCAATTATGGCCA-ATTTTTATC-TCCTTGAAGTTACAGTGG
1 TGCAGTGGAACAGATTAAAGCTACAAATTATGG-CAGA-TCTTATCTTCC-TGAAGTTGCAGTGG
* *
41486683 AGTAGATCGAAGC
63 AGCAGATTGAAGC
41486696 TACAAATCTC
Statistics
Matches: 563, Mismatches: 81, Indels: 7
0.86 0.12 0.01
Matches are distributed among these distances:
142 1 0.00
143 531 0.94
144 31 0.06
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (143 bp):
TGCAGTGGAACAGATTAAAGCTACAAATTATGGCAGATCTTATCTTCCTGAAGTTGCAGTGGAGC
AGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGTAGCAGAGCAGACTAAAGACAGCGAATCTT
ATTTCCCTGGCGT
Found at i:41486728 original size:44 final size:44
Alignment explanation
Indices: 41486660--41486774 Score: 135
Period size: 44 Copynumber: 2.6 Consensus size: 44
41486650 TGGCCAATTT
* * * * *
41486660 TTATCTCCTTGAAGTTACAGTGGAGTAGATCGAAGCTACAAAT-C
1 TTATCTCCCTAAAATTACAGTGGAGCAGATCGAAGCCAC-AATCC
*
41486704 TCT-TCTCCCTAAAATTACATTGGAGCAGATCGAAGCCACAATCC
1 T-TATCTCCCTAAAATTACAGTGGAGCAGATCGAAGCCACAATCC
*
41486748 TTATCTCCCTAAAGTTACAGTGGAGCA
1 TTATCTCCCTAAAATTACAGTGGAGCA
41486775 TGATAAAAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
43 4 0.07
44 55 0.92
45 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.28
Consensus pattern (44 bp):
TTATCTCCCTAAAATTACAGTGGAGCAGATCGAAGCCACAATCC
Found at i:41487556 original size:30 final size:31
Alignment explanation
Indices: 41487532--41487590 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
41487522 GTAAATACTC
* **
41487532 AAAATTTGAGGGATTAA-AGTGTAAATATGA
1 AAAATTTGAAGGACCAATAGTGTAAATATGA
41487562 AAAATTTGAAGGACCAATAGTGTAAATAT
1 AAAATTTGAAGGACCAATAGTGTAAATAT
41487591 TTTAAGGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.47, C:0.03, G:0.20, T:0.29
Consensus pattern (31 bp):
AAAATTTGAAGGACCAATAGTGTAAATATGA
Found at i:41490626 original size:13 final size:14
Alignment explanation
Indices: 41490610--41490639 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
41490600 ATAATGTTAT
41490610 ATTTTAA-TAATTC
1 ATTTTAAGTAATTC
41490623 ATTTTAAGTAATTC
1 ATTTTAAGTAATTC
41490637 ATT
1 ATT
41490640 AATAAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.37, C:0.07, G:0.03, T:0.53
Consensus pattern (14 bp):
ATTTTAAGTAATTC
Found at i:41492563 original size:24 final size:23
Alignment explanation
Indices: 41492503--41492565 Score: 72
Period size: 24 Copynumber: 2.7 Consensus size: 23
41492493 TTTTTAGCAG
* *
41492503 TTTTATATTTTTATTTATTTTAAA
1 TTTTATA-TATTATTTATATTAAA
*
41492527 TTTTATATATTATTTATATTAGA
1 TTTTATATATTATTTATATTAAA
*
41492550 TTGTTTTATATTATTT
1 TT-TTATATATTATTT
41492566 TAGATATTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 15 0.44
24 19 0.56
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (23 bp):
TTTTATATATTATTTATATTAAA
Found at i:41498881 original size:26 final size:26
Alignment explanation
Indices: 41498807--41498882 Score: 66
Period size: 26 Copynumber: 2.9 Consensus size: 26
41498797 CCTAAAATTT
*
41498807 TATACTAATAATTTTATACATTTTTTAA
1 TATA-TAATAATTTTATACA-ATTTTAA
* * **
41498835 TATAT-CT-ATATTATATTATTTTAA
1 TATATAATAATTTTATACAATTTTAA
*
41498859 TATTTAATAATTTTATACAATTTT
1 TATATAATAATTTTATACAATTTT
41498883 TATTGAATTT
Statistics
Matches: 36, Mismatches: 10, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
24 10 0.28
25 8 0.22
26 13 0.36
27 1 0.03
28 4 0.11
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (26 bp):
TATATAATAATTTTATACAATTTTAA
Found at i:41500999 original size:17 final size:17
Alignment explanation
Indices: 41500977--41501013 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
41500967 TACTACAATA
41500977 ATAATAATAAT-ATAATC
1 ATAATAATAATCAT-ATC
41500994 ATAATAATAATCATATC
1 ATAATAATAATCATATC
41501011 ATA
1 ATA
41501014 GGAATAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.89
18 2 0.11
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (17 bp):
ATAATAATAATCATATC
Found at i:41501118 original size:19 final size:20
Alignment explanation
Indices: 41501096--41501140 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 20
41501086 AATAGTAAAA
41501096 AATAAAAAATAACAATG-G-C
1 AATAAAAAATAA-AATGTGCC
*
41501115 AAT-AATAATAAAATGTGCC
1 AATAAAAAATAAAATGTGCC
41501134 AATAAAA
1 AATAAAA
41501141 GCATGTGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 5
0.75 0.07 0.18
Matches are distributed among these distances:
17 4 0.19
18 8 0.38
19 7 0.33
20 2 0.10
ACGTcount: A:0.62, C:0.09, G:0.09, T:0.20
Consensus pattern (20 bp):
AATAAAAAATAAAATGTGCC
Found at i:41501200 original size:3 final size:3
Alignment explanation
Indices: 41501194--41501227 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
41501184 ATGATAATCA
*
41501194 AAT AAT AAT AAT AAT AAT AAT -AT AAT AGT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
41501228 AGGCAAAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:41502824 original size:44 final size:44
Alignment explanation
Indices: 41502743--41503171 Score: 299
Period size: 44 Copynumber: 9.5 Consensus size: 44
41502733 TCGTTCTAAC
* * * * * *
41502743 CCACTGCGACTTCAGGGATATAGGAATTGTTGCTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGTTTCAATCTGCT
* * *
41502787 CCACTGCAACTTTAGGGAGATAAAATTAGTAGTTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGTTTCAATCTGCT
** * *
41502831 CCACTGCAACTTCAAAGAGATAAGATTTATAACTCGTAGCTTT-AATTTGTT
1 CCACTGCAACTTCAGGGAGATAAGA--T-T---T-GTAG-TTTCAATCTGCT
* * * * *
41502882 CCATTACAACTTCAGGGAAATAAGATTCTCTA-TCTTCCATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATT-TGTAGT-TTCAATCTGCT
* * * * *
41502927 CCACTGCAACTTCAGGAAGATAAGATATGTGGCTTCAATGTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGTTTCAATCTGCT
* * * **
41502971 CTACTACAACTTCAGAGAGATAAGATTTGTAACTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGTTTCAATCTGCT
* * * * **
41503015 CTACTGTAACTTCAGAGAGATAAGATTTGTAGCTTCAATCTATT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGTTTCAATCTGCT
** ** * *
41503059 TTACTGCAACTTCAAAGAGATAAAATTTGTTA-TCTTCAATCTGTT
1 CCACTGCAACTTCAGGGAGATAAGATTTG-TAGT-TTCAATCTGCT
* * * *
41503104 CTACTGTAACTTTAGGGAGATAATATTTGTAGCTTT-AATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAG-TTTCAATCTGCT
* *
41503148 CCTCTGCAACTTCAGGGAGTTAAG
1 CCACTGCAACTTCAGGGAGATAAG
41503172 GTTCGCCACG
Statistics
Matches: 303, Mismatches: 67, Indels: 30
0.76 0.17 0.08
Matches are distributed among these distances:
43 1 0.00
44 196 0.65
45 66 0.22
46 4 0.01
47 1 0.00
48 1 0.00
49 1 0.00
51 30 0.10
52 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (44 bp):
CCACTGCAACTTCAGGGAGATAAGATTTGTAGTTTCAATCTGCT
Found at i:41504008 original size:27 final size:27
Alignment explanation
Indices: 41503946--41504009 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 27
41503936 AAAAAATATT
*
41503946 ATAAAAATTATTAAATTTTAATAAAAA
1 ATAAAAATTATTAAAATTTAATAAAAA
* *
41503973 ATAAAAAATATTTAAAATTTATTAAAAA
1 ATAAAAATTA-TTAAAATTTAATAAAAA
41504001 ATAAAAATT
1 ATAAAAATT
41504010 TGTATAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 9 0.28
28 23 0.72
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (27 bp):
ATAAAAATTATTAAAATTTAATAAAAA
Found at i:41505816 original size:24 final size:23
Alignment explanation
Indices: 41505788--41505840 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
41505778 GTACACATAT
41505788 ATATTTTTTTAAACGAATATTTTC
1 ATATTTTTTT-AACGAATATTTTC
* *
41505812 CTATTTTTTTAATGAATATTTTC
1 ATATTTTTTTAACGAATATTTTC
41505835 ATATTT
1 ATATTT
41505841 ATATGTATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 17 0.65
24 9 0.35
ACGTcount: A:0.30, C:0.08, G:0.04, T:0.58
Consensus pattern (23 bp):
ATATTTTTTTAACGAATATTTTC
Found at i:41509883 original size:30 final size:30
Alignment explanation
Indices: 41509849--41509910 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
41509839 TTTTTTAAGC
41509849 TAATATTCTTTCATTCTTTTCGAATAATTA
1 TAATATTCTTTCATTCTTTTCGAATAATTA
41509879 TAATATTCTTTCATTCTTTTCGAATAATTA
1 TAATATTCTTTCATTCTTTTCGAATAATTA
41509909 TA
1 TA
41509911 CTTTCATTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.31, C:0.13, G:0.03, T:0.53
Consensus pattern (30 bp):
TAATATTCTTTCATTCTTTTCGAATAATTA
Found at i:41510632 original size:8 final size:8
Alignment explanation
Indices: 41510619--41510662 Score: 65
Period size: 8 Copynumber: 5.8 Consensus size: 8
41510609 GTTCAGATTA
41510619 AAAAAAAC
1 AAAAAAAC
41510627 AAAAAAAC
1 AAAAAAAC
41510635 AAAAAAA-
1 AAAAAAAC
*
41510642 AAACAAA-
1 AAAAAAAC
41510649 AAAAAAAC
1 AAAAAAAC
41510657 AAAAAA
1 AAAAAA
41510663 TGAAAAATGA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
7 12 0.36
8 21 0.64
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:41510641 original size:11 final size:11
Alignment explanation
Indices: 41510618--41510662 Score: 74
Period size: 11 Copynumber: 4.2 Consensus size: 11
41510608 AGTTCAGATT
*
41510618 AAAAAA-AACA
1 AAAAAACAAAA
41510628 AAAAAACAAAA
1 AAAAAACAAAA
41510639 AAAAAACAAAA
1 AAAAAACAAAA
41510650 AAAAAACAAAA
1 AAAAAACAAAA
41510661 AA
1 AA
41510663 TGAAAAATGA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
10 6 0.18
11 27 0.82
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAACAAAA
Found at i:41510642 original size:19 final size:18
Alignment explanation
Indices: 41510618--41510662 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 18
41510608 AGTTCAGATT
41510618 AAAAAAAACAAAAAAACAA
1 AAAAAAAACAAAAAAA-AA
41510637 AAAAAAAACAAAAAAAAA
1 AAAAAAAACAAAAAAAAA
41510655 ACAAAAAA
1 A-AAAAAA
41510663 TGAAAAATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 3 0.12
19 22 0.88
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (18 bp):
AAAAAAAACAAAAAAAAA
Found at i:41510669 original size:19 final size:17
Alignment explanation
Indices: 41510618--41510662 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 17
41510608 AGTTCAGATT
41510618 AAAAAAAACAAAAAAACAA
1 AAAAAAAAC-AAAAAA-AA
41510637 AAAAAAAACAAAAAAAA
1 AAAAAAAACAAAAAAAA
41510654 AACAAAAAA
1 AA-AAAAAA
41510663 TGAAAAATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.16
18 12 0.48
19 9 0.36
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (17 bp):
AAAAAAAACAAAAAAAA
Found at i:41510675 original size:22 final size:21
Alignment explanation
Indices: 41510628--41510693 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 21
41510618 AAAAAAAACA
* **
41510628 AAAAAACAAAAAAAAAACAAAA
1 AAAAAACAAAAAAGAAA-AATG
41510650 AAAAAACAAAAAATGAAAAATG
1 AAAAAACAAAAAA-GAAAAATG
41510672 AAAAAA-AATAAAAGGAAAAATG
1 AAAAAACAA-AAAA-GAAAAATG
41510694 GAGAGGCCAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
21 2 0.05
22 33 0.87
23 3 0.08
ACGTcount: A:0.82, C:0.05, G:0.08, T:0.06
Consensus pattern (21 bp):
AAAAAACAAAAAAGAAAAATG
Found at i:41510678 original size:10 final size:9
Alignment explanation
Indices: 41510617--41510684 Score: 52
Period size: 9 Copynumber: 7.6 Consensus size: 9
41510607 GAGTTCAGAT
41510617 TAAAAAAAA
1 TAAAAAAAA
*
41510626 CAAAAAAACA
1 TAAAAAAA-A
*
41510636 AAAAAAAAA
1 TAAAAAAAA
*
41510645 CAAAAAAAA
1 TAAAAAAAA
41510654 -AACAAAAAA
1 TAA-AAAAAA
*
41510663 T--GAAAAA
1 TAAAAAAAA
41510670 TGAAAAAAAA
1 T-AAAAAAAA
41510680 TAAAA
1 TAAAA
41510685 GGAAAAATGG
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
7 6 0.12
8 2 0.04
9 26 0.54
10 14 0.29
ACGTcount: A:0.85, C:0.06, G:0.03, T:0.06
Consensus pattern (9 bp):
TAAAAAAAA
Found at i:41510679 original size:1 final size:1
Alignment explanation
Indices: 41510618--41510662 Score: 54
Period size: 1 Copynumber: 45.0 Consensus size: 1
41510608 AGTTCAGATT
* * * *
41510618 AAAAAAAACAAAAAAACAAAAAAAAAACAAAAAAAAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
41510663 TGAAAAATGA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:41512387 original size:41 final size:42
Alignment explanation
Indices: 41512280--41512387 Score: 139
Period size: 44 Copynumber: 2.5 Consensus size: 42
41512270 AAGATGGCAA
*
41512280 ATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCCAATG
1 ATCTTATCTCTCTGAAGTTGCAGTGGAACAGATTAAAGCC-A-G
* * *
41512324 ATCCTATCTCTCTGAAGCTGCAGTGGAGC-GAATTAAAGCC-G
1 ATCTTATCTCTCTGAAGTTGCAGTGGAACAG-ATTAAAGCCAG
41512365 ATCTTATCTCTCTGAAGTTGCAG
1 ATCTTATCTCTCTGAAGTTGCAG
41512388 AGAGCAGATC
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
41 22 0.39
43 1 0.02
44 34 0.60
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (42 bp):
ATCTTATCTCTCTGAAGTTGCAGTGGAACAGATTAAAGCCAG
Found at i:41512745 original size:132 final size:132
Alignment explanation
Indices: 41512578--41513119 Score: 820
Period size: 132 Copynumber: 4.1 Consensus size: 132
41512568 GGTTAAAACC
*
41512578 GATCTTATCTCCCTAAGCAGTAGTAGG-GCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTT
1 GATCTTATCTCCCTAAGCAGTAGT-GGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTT
* * * *
41512642 ATAGTGGAGTACATTAAAGCCAGTAATTCTATTTCCCTGGACAACAGTGGAATAGATTGAAGATT
65 ACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATT
41512707 TCA
130 TCA
* *
41512710 GATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGCAGATTTTACCTCCTTGTGGTTA
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTA
*
41512775 CAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTT
66 CAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTT
41512840 CA
131 CA
*
41512842 GATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTA
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTA
* *
41512907 CAATGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAATATTT
66 CAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTT
41512972 CA
131 CA
* * * * *
41512974 GATCTTATATCCCTAAGCAGTAGTGGAACAGATCAAAGATGGCGGATTTTACCTCCTTGTGGTTA
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTA
* * * * * *
41513039 CAGTGGAGTACATTGAAGCTAGTAATCCTA-TCTCCCTAGTCAGCAGTGGAATAGGTTGAAGATT
66 CAGTGGAGTACATTGAAGCCAGTAATTCTACT-TCCCTGGGCAACAGTGGAATAGATTGAAGATT
*
41513103 GTAA
130 -TCA
*
41513107 G-TTTTATCTCCCT
1 GATCTTATCTCCCT
41513120 GCAGTTGCAG
Statistics
Matches: 376, Mismatches: 31, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
131 3 0.01
132 370 0.98
133 3 0.01
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (132 bp):
GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTA
CAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTT
CA
Found at i:41512966 original size:43 final size:44
Alignment explanation
Indices: 41512644--41512966 Score: 119
Period size: 44 Copynumber: 7.4 Consensus size: 44
41512634 CTGTGGTTAT
* * * *
41512644 AGTGGAGTACATTAAAGCCAGTA-ATTCTATTTCCCTGGACAAC
1 AGTGGAGTAGATTGAAGCCAGTAGATTCTACTTCCCTGGGCAAC
* * ** **
41512687 AGTGGAATAGATTGAAG--ATTTCAGA-TCTTA-TCTCCCTAAGCAGT
1 AGTGGAGTAGATTGAAGCCA-GT-AGATTC-TACT-TCCCTGGGCAAC
* *** * * * * **
41512731 AGTGGAGTAGATCGAAGATGGCAGATTTTACCTCCTTGTGGTTAC
1 AGTGGAGTAGATTGAAGCCAGTAGATTCTACTTCCCTG-GGCAAC
* *
41512776 AGTGGAGTACATTGAAGCCAGTA-ATTCTACTTCCCTGGGCAGC
1 AGTGGAGTAGATTGAAGCCAGTAGATTCTACTTCCCTGGGCAAC
* * ** *
41512819 AGTGGAATAGATTGAAG--ATTTCAGA-TCTTA-TCTCCCTAAGCAAT
1 AGTGGAGTAGATTGAAGCCA-GT-AGATTC-TACT-TCCCTGGGCAAC
* * *** * * * **
41512863 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTAC
1 AGTGGAGTAGATTGAAGCCAGTAGATTCTACTTCCCTG-GGCAAC
* *
41512908 AATGGAGTACATTGAAGCCAGTA-ATTCTACTTCCCTGGGCAAC
1 AGTGGAGTAGATTGAAGCCAGTAGATTCTACTTCCCTGGGCAAC
*
41512951 AGTGGAATAGATTGAA
1 AGTGGAGTAGATTGAA
41512967 TATTTCAGAT
Statistics
Matches: 190, Mismatches: 70, Indels: 40
0.63 0.23 0.13
Matches are distributed among these distances:
41 2 0.01
42 2 0.01
43 57 0.30
44 92 0.48
45 37 0.19
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (44 bp):
AGTGGAGTAGATTGAAGCCAGTAGATTCTACTTCCCTGGGCAAC
Found at i:41514556 original size:22 final size:23
Alignment explanation
Indices: 41514521--41514568 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
41514511 AAATATATAT
*
41514521 TTTTTTAAACGAATATTTTCCTA
1 TTTTTTAAACGAATATTTTCATA
*
41514544 TTTTTT-AATGAATATTTTCATA
1 TTTTTTAAACGAATATTTTCATA
41514566 TTT
1 TTT
41514569 ATATGTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.74
23 6 0.26
ACGTcount: A:0.29, C:0.08, G:0.04, T:0.58
Consensus pattern (23 bp):
TTTTTTAAACGAATATTTTCATA
Found at i:41516087 original size:199 final size:199
Alignment explanation
Indices: 41515741--41516140 Score: 755
Period size: 199 Copynumber: 2.0 Consensus size: 199
41515731 AATTTCACTG
41515741 TTATTGTTATTTTTATATTAACCTTAAATAAATGCACTGCCCATCCAAAACCTTATTAAAGTAAA
1 TTATTGTTATTTTTATATTAACCTTAAATAAATGCACTGCCCATCCAAAACCTTATTAAAGTAAA
* *
41515806 AAGTTAGTCACCAAATGTGTTTTGTTTTCATGAGTAGGAATTCAACTTTTAACTTAGTGATTAAA
66 AAGTTAGTCACCAAATATGTTTTATTTTCATGAGTAGGAATTCAACTTTTAACTTAGTGATTAAA
*
41515871 GGATGATATGAATAACAGTCACAACACATTTTCTATTAAATTTATTAAAGGAATTATGATAAATT
131 GGATGATATGAATAACAGTCACAACACATTTTCTATTAAATTTATTAAAAGAATTATGATAAATT
41515936 TAAT
196 TAAT
* *
41515940 TTATTTTTATTTTTATATTAACCTTAAATATATGCACTGCCCATCCAAAACCTTATTAAAGTAAA
1 TTATTGTTATTTTTATATTAACCTTAAATAAATGCACTGCCCATCCAAAACCTTATTAAAGTAAA
41516005 AAGTTAGTCACCAAATATGTTTTATTTTCATGAGTAGGAATTCAACTTTTAACTTAGTGATTAAA
66 AAGTTAGTCACCAAATATGTTTTATTTTCATGAGTAGGAATTCAACTTTTAACTTAGTGATTAAA
41516070 GGATGATATGAATAACAGTCACAACACATTTTCTATTAAATTTATTAAAAGAATTATGATAAATT
131 GGATGATATGAATAACAGTCACAACACATTTTCTATTAAATTTATTAAAAGAATTATGATAAATT
41516135 TAAT
196 TAAT
41516139 TT
1 TT
41516141 TCAACGTTTA
Statistics
Matches: 196, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
199 196 1.00
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (199 bp):
TTATTGTTATTTTTATATTAACCTTAAATAAATGCACTGCCCATCCAAAACCTTATTAAAGTAAA
AAGTTAGTCACCAAATATGTTTTATTTTCATGAGTAGGAATTCAACTTTTAACTTAGTGATTAAA
GGATGATATGAATAACAGTCACAACACATTTTCTATTAAATTTATTAAAAGAATTATGATAAATT
TAAT
Found at i:41520980 original size:40 final size:40
Alignment explanation
Indices: 41520949--41521039 Score: 148
Period size: 40 Copynumber: 2.3 Consensus size: 40
41520939 GGACTAAGAT
* *
41520949 CCGAAGGCATTTGTGCGAGTTATT-AATTCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTT-TTAAAATCCGGGTTAAGTC
41520989 CCGAAGGCATTCGTGCGAGTTTTAAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTTTAAAATCCGGGTTAAGTC
41521029 CCGAAGGCATT
1 CCGAAGGCATT
41521040 GTATGAGTTA
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
39 2 0.04
40 46 0.96
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTTTAAAATCCGGGTTAAGTC
Found at i:41521060 original size:39 final size:40
Alignment explanation
Indices: 41520949--41521076 Score: 134
Period size: 40 Copynumber: 3.2 Consensus size: 40
41520939 GGACTAAGAT
* * * * *
41520949 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
1 CCGAAGGCATTCGTACGAGTTCTAAAATCCGGGTTAAGTC
* *
41520989 CCGAAGGCATTCGTGCGAGTTTTAAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTACGAGTTCTAAAATCCGGGTTAAGTC
* * * *
41521029 CCGAAGGCATT-GTATGAGTTACTATAA-CCGGGCTATGTC
1 CCGAAGGCATTCGTACGAGTT-CTAAAATCCGGGTTAAGTC
41521068 CCGAAGGCA
1 CCGAAGGCA
41521077 CTTGAACGAG
Statistics
Matches: 77, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
39 26 0.34
40 51 0.66
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTACGAGTTCTAAAATCCGGGTTAAGTC
Found at i:41523679 original size:141 final size:141
Alignment explanation
Indices: 41523421--41523704 Score: 498
Period size: 141 Copynumber: 2.0 Consensus size: 141
41523411 TCAAATGATG
41523421 AATGAATGGTTTACAGAATTTGTAAAAACAAATCCGGCAGTACAACAACCTCTACCCCCTCCTAT
1 AATGAATGGTTTACAGAATTTGTAAAAACAAATCCGGCAGTACAACAACCTCTACCCCCTCCTAT
* *
41523486 TTCTTAACCGATTCCCGATATGCCTCAAGGTATATAACTTGTTAGAATTGGTAAACCTCCTT-TA
66 TTCTTAACCGATTCCCGATATGCCTCAAGGTATAGAACTTGTTAGAACTGGTAAACCT-CTTGTA
41523550 GATAAAATTCAT
130 GATAAAATTCAT
* * *
41523562 AATGAATGGTTTACAGAATTTGTAAAAACAAATTCGGCTGTACAACAACCTCTACCTCCTCCTAT
1 AATGAATGGTTTACAGAATTTGTAAAAACAAATCCGGCAGTACAACAACCTCTACCCCCTCCTAT
*
41523627 TTCTTAACCGATTCCCGATATGCCTCAAGGTATAGAACTTGTTAGAACTGGTAAGCCTCTTGTAG
66 TTCTTAACCGATTCCCGATATGCCTCAAGGTATAGAACTTGTTAGAACTGGTAAACCTCTTGTAG
41523692 ATAAAATTCAT
131 ATAAAATTCAT
41523703 AA
1 AA
41523705 ATATGGGGCA
Statistics
Matches: 136, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
140 3 0.02
141 133 0.98
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.31
Consensus pattern (141 bp):
AATGAATGGTTTACAGAATTTGTAAAAACAAATCCGGCAGTACAACAACCTCTACCCCCTCCTAT
TTCTTAACCGATTCCCGATATGCCTCAAGGTATAGAACTTGTTAGAACTGGTAAACCTCTTGTAG
ATAAAATTCAT
Found at i:41530531 original size:27 final size:25
Alignment explanation
Indices: 41530491--41530558 Score: 91
Period size: 27 Copynumber: 2.6 Consensus size: 25
41530481 TGATATATGT
41530491 CTCTTTAGAGCTTCCCAATTAAAGG
1 CTCTTTAGAGCTTCCCAATTAAAGG
* *
41530516 CTCTTTAATGAGCTTCCTAATTAATGG
1 CTCTTT-A-GAGCTTCCCAATTAAAGG
*
41530543 CTCTCTAGAGCTTCCC
1 CTCTTTAGAGCTTCCC
41530559 TGATATTGGC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
25 14 0.38
26 2 0.05
27 21 0.57
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (25 bp):
CTCTTTAGAGCTTCCCAATTAAAGG
Found at i:41536534 original size:41 final size:41
Alignment explanation
Indices: 41536489--41536763 Score: 469
Period size: 41 Copynumber: 6.7 Consensus size: 41
41536479 GGTTTTAAAA
41536489 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
41536530 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
*
41536571 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
41536612 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
* *
41536653 CCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGTTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
* *
41536694 CCTAGCAGGCTAAGTGTCGGTGATCTGAATCAGGCTTTAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
* *
41536735 CCTAACAGGGCTAAGTGCCAGTGAATCTG
1 CCTAGCA-GGCTAAGTGCCGGTG-ATCTG
41536764 TTTAAATTAA
Statistics
Matches: 221, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
41 203 0.92
42 13 0.06
43 5 0.02
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (41 bp):
CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
Found at i:41543597 original size:41 final size:41
Alignment explanation
Indices: 41543552--41543903 Score: 598
Period size: 41 Copynumber: 8.6 Consensus size: 41
41543542 GGTTTTAAAA
* *
41543552 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGTTATAAG
41543593 CCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGTTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGTTATAAG
41543634 CCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGTTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGTTATAAG
41543675 CCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGTTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGTTATAAG
41543716 CCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGTTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGTTATAAG
* * *
41543757 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGTTATAAG
41543798 CCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGTTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGTTATAAG
* *
41543839 CCTAGCAGGCTAAGTGTCGGTGATCTGAATCAGGCTT-TAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGG-TTATAAG
* *
41543880 CCTAACAGGGCTAAGTGCCAGTGA
1 CCTAGCA-GGCTAAGTGCCGGTGA
41543904 GTTTGTTTAA
Statistics
Matches: 296, Mismatches: 13, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
41 280 0.95
42 16 0.05
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.23
Consensus pattern (41 bp):
CCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGTTATAAG
Found at i:41545092 original size:17 final size:16
Alignment explanation
Indices: 41545070--41545123 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 16
41545060 AATCGCCACC
41545070 AATATTATTTGGTTTGT
1 AATATTATTTGGTTT-T
41545087 AATATTCCATTT-GTTTT
1 AATATT--ATTTGGTTTT
*
41545104 TATATTATTTGGTATTT
1 AATATTATTTGGT-TTT
41545121 AAT
1 AAT
41545124 CGTCACTATC
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
15 4 0.13
16 2 0.06
17 17 0.55
18 4 0.13
19 4 0.13
ACGTcount: A:0.26, C:0.04, G:0.11, T:0.59
Consensus pattern (16 bp):
AATATTATTTGGTTTT
Found at i:41548401 original size:18 final size:19
Alignment explanation
Indices: 41548378--41548420 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
41548368 GAAAATATTA
41548378 ATAAAAAATAGAA-TTTAG
1 ATAAAAAATAGAATTTTAG
41548396 AT-AAAAATAGAATTTTAG
1 ATAAAAAATAGAATTTTAG
41548414 -TAAAAAA
1 ATAAAAAA
41548421 ATTAATAGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 11 0.48
18 12 0.52
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.28
Consensus pattern (19 bp):
ATAAAAAATAGAATTTTAG
Found at i:41548403 original size:17 final size:17
Alignment explanation
Indices: 41548381--41548419 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
41548371 AATATTAATA
41548381 AAAAATAGAA-TTTAGAT
1 AAAAATAGAATTTTAG-T
41548398 AAAAATAGAATTTTAGT
1 AAAAATAGAATTTTAGT
41548415 AAAAA
1 AAAAA
41548420 AATTAATAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (17 bp):
AAAAATAGAATTTTAGT
Found at i:41554089 original size:29 final size:29
Alignment explanation
Indices: 41554057--41554121 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 29
41554047 CAAAATTATA
41554057 TATATATAAAT-TTAAAAAAACTT-AAATAT
1 TATATA-AAATATTAAAAAAACTTGAAA-AT
*
41554086 TATATAAAATATTAAAAAATCTTGAAAAT
1 TATATAAAATATTAAAAAAACTTGAAAAT
41554115 TATATAA
1 TATATAA
41554122 TAATGCTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
28 4 0.12
29 26 0.79
30 3 0.09
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (29 bp):
TATATAAAATATTAAAAAAACTTGAAAAT
Found at i:41554269 original size:669 final size:663
Alignment explanation
Indices: 41552744--41554371 Score: 1714
Period size: 669 Copynumber: 2.4 Consensus size: 663
41552734 AAATTAAATA
* *
41552744 AAAATTATTAAAAATATTGAAAATTATGTAATAATGCTAAATT-ATTGTTTAAAA---AAATG-T
1 AAAATTATTAAAAATATTGAAAATTATATAATAATGCTAAATTAATTTTTTAAAATTCAAATGAT
** *
41552804 ACAATTATGTAATCTTAAATAAGTAAACTATCAATTCAAGTCTATCATTCTAATTATCTTGG-TT
66 A-AATT-TGTAGCCTTAAACAAGTAAACTATCAATTCAAGTCTATCATTCTAATTATCTTGGTTT
* * * * *
41552868 TTTACTCTTATTTTGTTTTCGAAAGAGTTGTTAAATTTATATGGTATTTATATTAATTAACTTGG
129 TTTTCTCTTATTTTGTTTT-AAAAGAGTTCTTAAATTT-TATGGTATTTATGTTATTTAACTTGG
* ** ** *
41552933 AATTTAGTC--CTTGCCAACAAGATGATT--ATATGACTGGTTT-TTTTTTTTAATTTGACTCAA
192 AATTTAGTCATATTGTAAACAAGAT--TTCAATATGACCAGTTTAATTTTTTT-ATTTGACTCAA
* * **
41552993 ACAAATTTATTTGATTATACTTT-TGGATTCTATTAATTAGAGGTAAAGTAATTATCTTATCCCC
254 ACAAATTTATTCGATTATA-TTTGTGGATTCTATTAATTAAAGGTAAAGTAACAATCTTATCCCC
** *** * *
41553057 ATTTTTAGATTTCTAAGTAATCAATTCATCATAAGCTACATACTTTTGGCTAGAGGAGAGCAAAA
318 ATTTAAAGAAAACTAAGTAATCAACTCATCAGAAGCTACATACTTTTGGCTAGAGGAGAGCAAAA
* * *
41553122 CTCAATTTGATTTGAAGAATAGAAATTTTCTTCGAATTTTAAGTTAATGATTTTTTTTGAATCAA
383 CTCAATTTGATTTGAAGAATAGAAAATTTCTTCAAATTTTAAGTTAATGATTTTTTTTAAATCAA
* *
41553187 CTTGATTCAGTTTTTCGAGTTTCAAGTTGAGTTGAATTTCACAACTTGAATAATAAATTGATGTA
448 CTTGATTCAGTTTTTCGAGTTTCAAGTTGAGTTGAATTTCACAACTTGAATAACAAATTGAGGTA
** * * * *
41553252 CGTAATCATTAGGTCCCTGGCAGTTTGAAAAATGTACAAATTAGTCCCTCTCAAAAAATTTCCAA
513 AATAACCATTAGGTCCCTGACAGTTTGAAAAATGTACAAATAAG--CCTCTC-----ATGT-C-A
* *
41553317 AAAAAATTCAAATAATCTTCTAAAATTCAAAATATTTATAATGTTTTCCCCAAAATTTATAAATA
569 AAAAAATTCAAATAATCTTCAAAAATTCAAAATATTTATAATGTTTTCCACAAAATTTAT-AATA
*
41553382 CATATAAATGAAAACAATTAAATATCATATT
633 CATATAAATGAAAAAAATTAAATATCATATT
41553413 AAAATTATTAAAAATATTGAAAATTATATAATAATGCTAAATTATTATTATTTTTTTAAAAAAAT
1 AAAATTATTAAAAATATTGAAAATTATATAATAATGCT-AA--ATTA--A-TTTTTT---AAAAT
** * * * *
41553478 TCTAAAACAATAAATTTGAAGCCTTAAACAAGTAAACTATCCATTTAAGTCTATCATT-TGATTT
57 TC--AAATGATAAATTTGTAGCCTTAAACAAGTAAACTATCAATTCAAGTCTATCATTCT-AATT
** * * *
41553542 ATCTTTATTTTTTTCTCTTATTTTGTTTTATAAAAAGTTCTTAGACTTTTATGGTATTTATGTTC
119 ATCTTGGTTTTTTTCTCTTATTTTGTTTTA-AAAGAGTTCTTA-AATTTTATGGTATTTATGTTA
* * * *
41553607 TTTAACTTAGAATTTAATCATATTGTTAACAAAATTTCAATATGACCAGTTTAATTTCTTTTATT
182 TTTAACTTGGAATTTAGTCATATTGTAAACAAGATTTCAATATGACCAGTTTAATTT-TTTTATT
* * * * *
41553672 CGACTCTAACAAATTT-TTCGATTATATTTGTGGATTTTGTTAATTAAAGGTAAAGTAGCAATCT
246 TGACTCAAACAAATTTATTCGATTATATTTGTGGATTCTATTAATTAAAGGTAAAGTAACAATCT
* * * * *
41553736 TATTCCCATTTAAAGAAAAC-ATAGTAATCAACTCATC-GAAGCTACATTCTTTTGGTTAGTGGT
311 TATCCCCATTTAAAGAAAACTA-AGTAATCAACTCATCAGAAGCTACATACTTTTGGCTAGAGGA
* *
41553799 GAGCAAAACTCAATTTGATTTGAAGAATGGAAAATTTCTTTAAATTTCT-AGTTAATCGATTTTT
375 GAGCAAAACTCAATTTGATTTGAAGAATAGAAAATTTCTTCAAATTT-TAAGTTAAT-GATTTTT
* *
41553863 TTGAATAAACTCGAA-TAAGTGATTCATTTTTTCGAGTTT-GAGTT-AGTTGAATTTCACAACTT
438 TT---TAAA-TC-AACT---TGATTCAGTTTTTCGAGTTTCAAGTTGAGTTGAATTTCACAACTT
* * * ** * *
41553925 GAATAACAAATTGAGGTAAATACCCCTTGGGTTGCTGATAGTTTTG-AAAATGTGCAAATAAG-C
495 GAATAACAAATTGAGGTAAATAACCATTAGGTCCCTGACAG-TTTGAAAAATGTACAAATAAGCC
* *
41553988 -CTC-TGT-AAAAAAATTCAAATAATCTTCAAAAATTCAAAATTTTTATAAAATGTTTTTCACAA
559 TCTCATGTCAAAAAAATTCAAATAATCTTCAAAAATTCAAAATATTTAT--AATGTTTTCCACAA
* * *
41554050 AA-TTAT-ATATATATAAATTTAAAAAAACTTAAATATTATA-T
622 AATTTATAATACATATAAA-TGAAAAAAA-TTAAATATCATATT
*
41554091 AAAA-TATTAAAAAATCTTGAAAATTATATAATAATGCTAAATTAATTTTTTAAAATTTCAGAAT
1 AAAATTATT-AAAAATATTGAAAATTATATAATAATGCTAAATTAATTTTTTAAAA-TTCA-AAT
* * *
41554155 GATAAATTTGTAGCCTTAAACAAGTAAACCATCAATTCAAGTTTACCATTCTAATTATCTTGGTT
63 GATAAATTTGTAGCCTTAAACAAGTAAACTATCAATTCAAGTCTATCATTCTAATTATCTTGGTT
41554220 TTTTTCTCTTATTTTGTTTTAAAATGAGTTCTTAAATTCTTATGGTATTTATGTTATTTAACTTG
128 TTTTTCTCTTATTTTGTTTTAAAA-GAGTTCTTAAATT-TTATGGTATTTATGTTATTTAACTTG
* * * * *
41554285 GAA-TTAGTCATATTGTAAACAAGTTTTCAATAGGGCCAGTTTAATTTTTTAAATTTGACTCGAA
191 GAATTTAGTCATATTGTAAACAAGATTTCAATATGACCAGTTTAATTTTTT-TATTTGACTCAAA
* *
41554349 TAAATTTATTCAATTATATTTGT
255 CAAATTTATTCGATTATATTTGT
41554372 TGTAACAACC
Statistics
Matches: 800, Mismatches: 108, Indels: 102
0.79 0.11 0.10
Matches are distributed among these distances:
667 3 0.00
668 61 0.08
669 166 0.21
670 6 0.01
672 9 0.01
673 1 0.00
675 5 0.01
676 5 0.01
677 16 0.02
678 78 0.10
679 19 0.02
680 14 0.02
681 2 0.00
682 1 0.00
683 44 0.05
684 69 0.09
685 81 0.10
686 96 0.12
687 23 0.03
688 5 0.01
689 3 0.00
690 3 0.00
691 63 0.08
692 8 0.01
693 19 0.02
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (663 bp):
AAAATTATTAAAAATATTGAAAATTATATAATAATGCTAAATTAATTTTTTAAAATTCAAATGAT
AAATTTGTAGCCTTAAACAAGTAAACTATCAATTCAAGTCTATCATTCTAATTATCTTGGTTTTT
TTCTCTTATTTTGTTTTAAAAGAGTTCTTAAATTTTATGGTATTTATGTTATTTAACTTGGAATT
TAGTCATATTGTAAACAAGATTTCAATATGACCAGTTTAATTTTTTTATTTGACTCAAACAAATT
TATTCGATTATATTTGTGGATTCTATTAATTAAAGGTAAAGTAACAATCTTATCCCCATTTAAAG
AAAACTAAGTAATCAACTCATCAGAAGCTACATACTTTTGGCTAGAGGAGAGCAAAACTCAATTT
GATTTGAAGAATAGAAAATTTCTTCAAATTTTAAGTTAATGATTTTTTTTAAATCAACTTGATTC
AGTTTTTCGAGTTTCAAGTTGAGTTGAATTTCACAACTTGAATAACAAATTGAGGTAAATAACCA
TTAGGTCCCTGACAGTTTGAAAAATGTACAAATAAGCCTCTCATGTCAAAAAAATTCAAATAATC
TTCAAAAATTCAAAATATTTATAATGTTTTCCACAAAATTTATAATACATATAAATGAAAAAAAT
TAAATATCATATT
Found at i:41558468 original size:53 final size:53
Alignment explanation
Indices: 41558384--41558489 Score: 140
Period size: 53 Copynumber: 2.0 Consensus size: 53
41558374 TTTTATAGTG
* * * ** ** *
41558384 CCAATTACTTGAATAAAAGAGATTTTTTGTAGAATTTATTTGCTCCATTTGAT
1 CCAATCACATGAATAAAAGAGAGTTCATGTAGAATTTAACTACTCCATTTGAT
41558437 CCAATCACATGAATAAAAGAGAGTTCATGTAGAATTTAACTACTCCATTTGAT
1 CCAATCACATGAATAAAAGAGAGTTCATGTAGAATTTAACTACTCCATTTGAT
41558490 TGTTCTAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
53 45 1.00
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (53 bp):
CCAATCACATGAATAAAAGAGAGTTCATGTAGAATTTAACTACTCCATTTGAT
Found at i:41559604 original size:18 final size:19
Alignment explanation
Indices: 41559554--41559606 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 19
41559544 TTAGAAGAGC
*
41559554 TTATCTTTATTTATTTCACT
1 TTATTTTTATTT-TTTCACT
*
41559574 TGATTTTGT-TTTTTTC-CT
1 TTATTTT-TATTTTTTCACT
41559592 TTATTTTTATTTTTT
1 TTATTTTTATTTTTT
41559607 ATTTTAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
17 1 0.04
18 14 0.50
19 4 0.14
20 8 0.29
21 1 0.04
ACGTcount: A:0.13, C:0.09, G:0.04, T:0.74
Consensus pattern (19 bp):
TTATTTTTATTTTTTCACT
Found at i:41564357 original size:30 final size:30
Alignment explanation
Indices: 41564323--41564412 Score: 171
Period size: 30 Copynumber: 3.0 Consensus size: 30
41564313 CATATTATGG
41564323 AAAGTCAAAGATATGGGTATCAAATATTGA
1 AAAGTCAAAGATATGGGTATCAAATATTGA
41564353 AAAGTCAAAGATATGGGTATCAAATATTGA
1 AAAGTCAAAGATATGGGTATCAAATATTGA
41564383 AAAGTCAAAGATATGGGTATCGAAATATTG
1 AAAGTCAAAGATATGGGTATC-AAATATTG
41564413 GCATAAGAAA
Statistics
Matches: 59, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
30 51 0.86
31 8 0.14
ACGTcount: A:0.46, C:0.07, G:0.21, T:0.27
Consensus pattern (30 bp):
AAAGTCAAAGATATGGGTATCAAATATTGA
Found at i:41565240 original size:258 final size:258
Alignment explanation
Indices: 41564783--41565299 Score: 1034
Period size: 258 Copynumber: 2.0 Consensus size: 258
41564773 AACTTAGTGT
41564783 AATTTTTTAGTACAAATTTTACTCTTTTACACGCTTTCGCACAACAATTGGTATCAGAGCTAGAT
1 AATTTTTTAGTACAAATTTTACTCTTTTACACGCTTTCGCACAACAATTGGTATCAGAGCTAGAT
41564848 TCGTACTTAGAGAATACGATCGTTCACGGTATTGTTCAAGTACAGTAGTTGAGATTGAGGAGAAA
66 TCGTACTTAGAGAATACGATCGTTCACGGTATTGTTCAAGTACAGTAGTTGAGATTGAGGAGAAA
41564913 AATGGAAAAGGCATCGTCATCAGCAAAGACTACTATGACTAATGCAAAATTTGAAGTAGAGAAAT
131 AATGGAAAAGGCATCGTCATCAGCAAAGACTACTATGACTAATGCAAAATTTGAAGTAGAGAAAT
41564978 TTGATGGCACCAATAATTTTGGTATGTGGCAATGTGAGATCCTGGATGTCTTATGTCAGCAAG
196 TTGATGGCACCAATAATTTTGGTATGTGGCAATGTGAGATCCTGGATGTCTTATGTCAGCAAG
41565041 AATTTTTTAGTACAAATTTTACTCTTTTACACGCTTTCGCACAACAATTGGTATCAGAGCTAGAT
1 AATTTTTTAGTACAAATTTTACTCTTTTACACGCTTTCGCACAACAATTGGTATCAGAGCTAGAT
41565106 TCGTACTTAGAGAATACGATCGTTCACGGTATTGTTCAAGTACAGTAGTTGAGATTGAGGAGAAA
66 TCGTACTTAGAGAATACGATCGTTCACGGTATTGTTCAAGTACAGTAGTTGAGATTGAGGAGAAA
41565171 AATGGAAAAGGCATCGTCATCAGCAAAGACTACTATGACTAATGCAAAATTTGAAGTAGAGAAAT
131 AATGGAAAAGGCATCGTCATCAGCAAAGACTACTATGACTAATGCAAAATTTGAAGTAGAGAAAT
41565236 TTGATGGCACCAATAATTTTGGTATGTGGCAATGTGAGATCCTGGATGTCTTATGTCAGCAAG
196 TTGATGGCACCAATAATTTTGGTATGTGGCAATGTGAGATCCTGGATGTCTTATGTCAGCAAG
41565299 A
1 A
41565300 GCTAGATATT
Statistics
Matches: 259, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
258 259 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (258 bp):
AATTTTTTAGTACAAATTTTACTCTTTTACACGCTTTCGCACAACAATTGGTATCAGAGCTAGAT
TCGTACTTAGAGAATACGATCGTTCACGGTATTGTTCAAGTACAGTAGTTGAGATTGAGGAGAAA
AATGGAAAAGGCATCGTCATCAGCAAAGACTACTATGACTAATGCAAAATTTGAAGTAGAGAAAT
TTGATGGCACCAATAATTTTGGTATGTGGCAATGTGAGATCCTGGATGTCTTATGTCAGCAAG
Found at i:41569238 original size:30 final size:30
Alignment explanation
Indices: 41569204--41569297 Score: 170
Period size: 30 Copynumber: 3.1 Consensus size: 30
41569194 ATCCATATTA
41569204 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
41569234 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
41569264 TGGAAAGTCAAAGATATGGGTATTGAAATAT
1 TGGAAAGTCAAAGATATGGGTA-TCAAATAT
41569295 TGG
1 TGG
41569298 CATAAGAAAT
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
30 52 0.84
31 10 0.16
ACGTcount: A:0.41, C:0.05, G:0.26, T:0.28
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:41569244 original size:15 final size:16
Alignment explanation
Indices: 41569202--41569282 Score: 80
Period size: 15 Copynumber: 5.3 Consensus size: 16
41569192 GCATCCATAT
41569202 TATGGAAAGTCAAAGA
1 TATGGAAAGTCAAAGA
** *
41569218 TATGGGTA-TCAAATA
1 TATGGAAAGTCAAAGA
41569233 T-TGGAAAGTCAAAGA
1 TATGGAAAGTCAAAGA
** *
41569248 TATGGGTA-TCAAATA
1 TATGGAAAGTCAAAGA
41569263 T-TGGAAAGTCAAAGA
1 TATGGAAAGTCAAAGA
41569278 TATGG
1 TATGG
41569283 GTATTGAAAT
Statistics
Matches: 49, Mismatches: 12, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
14 8 0.16
15 28 0.57
16 13 0.27
ACGTcount: A:0.43, C:0.06, G:0.25, T:0.26
Consensus pattern (16 bp):
TATGGAAAGTCAAAGA
Done.