Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 333 of 433
Found at i:104141754 original size:93 final size:96
Alignment explanation
Indices: 104141568--104141781 Score: 267
Period size: 93 Copynumber: 2.3 Consensus size: 96
104141558 ATGGGATAAG
* * * * * * *
104141568 ATGCCATGTCCCAGATAGGTCTTACACTGACTAGCACATCAAAGTTGATGCCATGTCCCAGATAG
1 ATGCCATGTCCCAGACAGGTCTTACACTAACTAGCACAACAAAGCTGACGCCATGTCACAGACAG
*
104141633 GTCTTACACTGACTTCCATATATCGAGGCTA
66 GTCTTACACTGACTTCCATATATCGAGGCCA
104141664 ATGCCATGTCCCAGACAGGTCTTACACTAAC-A-CACAAC-AAGCTGACGCCATGTCACAGACAG
1 ATGCCATGTCCCAGACAGGTCTTACACTAACTAGCACAACAAAGCTGACGCCATGTCACAGACAG
** * *
104141726 GTCTTACACT-AGCTTGTATATCTCGAGGCCG
66 GTCTTACACTGA-CTTCCATATATCGAGGCCA
*
104141757 ATG-CATGTCCCAGACATGTCTTACA
1 ATGCCATGTCCCAGACAGGTCTTACA
104141782 TTGGCTTGTA
Statistics
Matches: 104, Mismatches: 13, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
92 22 0.21
93 47 0.45
94 5 0.05
95 1 0.01
96 29 0.28
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.25
Consensus pattern (96 bp):
ATGCCATGTCCCAGACAGGTCTTACACTAACTAGCACAACAAAGCTGACGCCATGTCACAGACAG
GTCTTACACTGACTTCCATATATCGAGGCCA
Found at i:104141779 original size:48 final size:47
Alignment explanation
Indices: 104141712--104141880 Score: 225
Period size: 48 Copynumber: 3.6 Consensus size: 47
104141702 AAGCTGACGC
* *
104141712 CATGTCACAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCT-GAGGCCGATG
* *
104141760 CATGTCCCAGACATGTCTTACATTGGCTTGTATATCTTGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATC-TGAGGCCGATG
* * * *
104141808 CATGTCCCAGACATGTCTTACACTGGCTCT-CATA-ATGTGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCT-TGTATATCTGAGGCCGATG
104141854 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
104141881 ACACATATCA
Statistics
Matches: 110, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
46 36 0.33
48 72 0.65
49 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTGAGGCCGATG
Found at i:104144389 original size:15 final size:15
Alignment explanation
Indices: 104144347--104144390 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
104144337 GTTATGTAAC
104144347 AAGAAAACCAAG-TA
1 AAGAAAACCAAGATA
*
104144361 AAGAAATCCAAGATA
1 AAGAAAACCAAGATA
* *
104144376 GAGAAAACCCAGATA
1 AAGAAAACCAAGATA
104144391 CGATACTATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
14 11 0.44
15 14 0.56
ACGTcount: A:0.59, C:0.16, G:0.16, T:0.09
Consensus pattern (15 bp):
AAGAAAACCAAGATA
Found at i:104145514 original size:40 final size:40
Alignment explanation
Indices: 104145469--104145554 Score: 118
Period size: 40 Copynumber: 2.1 Consensus size: 40
104145459 AAAAAGGTCG
*
104145469 CTATAGATAGAGCATTAGTGGCGCTTTTTGAAAAACACCA
1 CTATAGATAGAGCATTAGCGGCGCTTTTTGAAAAACACCA
* * * * *
104145509 CTATAGATCGAGCATTAGCGGTGCTTTTTGAAGAACGCCG
1 CTATAGATAGAGCATTAGCGGCGCTTTTTGAAAAACACCA
104145549 CTATAG
1 CTATAG
104145555 GTCAACCATT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (40 bp):
CTATAGATAGAGCATTAGCGGCGCTTTTTGAAAAACACCA
Found at i:104145565 original size:40 final size:40
Alignment explanation
Indices: 104145481--104145572 Score: 103
Period size: 40 Copynumber: 2.3 Consensus size: 40
104145471 ATAGATAGAG
* * *
104145481 CATTAGTGGCGCTTTTTGAAAAACACCACTATAGATCGAG
1 CATTAGCGGCGCTTTTTGAAAAACACCACTATAGATCAAC
* * * * *
104145521 CATTAGCGGTGCTTTTTGAAGAACGCCGCTATAGGTCAAC
1 CATTAGCGGCGCTTTTTGAAAAACACCACTATAGATCAAC
*
104145561 CATTAGCTGCGC
1 CATTAGCGGCGC
104145573 ATTCATAAAA
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (40 bp):
CATTAGCGGCGCTTTTTGAAAAACACCACTATAGATCAAC
Found at i:104145692 original size:40 final size:40
Alignment explanation
Indices: 104145635--104145846 Score: 142
Period size: 40 Copynumber: 5.2 Consensus size: 40
104145625 AGCTTTAGTG
*
104145635 GCATTAGCGGTGCTTTTTGAAAAACACCGCTATAGATCGA
1 GCATTAGCGGTGCTTTTTGAAAAACGCCGCTATAGATCGA
* *
104145675 GCATTAGCGGTGATTTTTGGAAAACGCCAAACGCCGCTATAGATCAA
1 GCATTAGCGGTGCTTTTT-G--AA----AAACGCCGCTATAGATCGA
* ** * * * *
104145722 GAATTAGCGACGCTTTTT---AAATGCTGCTATAGGTTGA
1 GCATTAGCGGTGCTTTTTGAAAAACGCCGCTATAGATCGA
* * * * * *
104145759 CCATTAGCGGTGTTTTTTGAAAAATGCCACTATAGGTTGA
1 GCATTAGCGGTGCTTTTTGAAAAACGCCGCTATAGATCGA
* * * **
104145799 GCATTAGTGGTGCTTTTTGAAAAGCACTACTATAGATCGA
1 GCATTAGCGGTGCTTTTTGAAAAACGCCGCTATAGATCGA
*
104145839 GCTTTAGC
1 GCATTAGC
104145847 AAAGCTGTTT
Statistics
Matches: 132, Mismatches: 30, Indels: 20
0.73 0.16 0.11
Matches are distributed among these distances:
37 27 0.20
40 71 0.54
41 1 0.01
43 2 0.02
47 31 0.23
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (40 bp):
GCATTAGCGGTGCTTTTTGAAAAACGCCGCTATAGATCGA
Found at i:104146290 original size:14 final size:14
Alignment explanation
Indices: 104146273--104146354 Score: 103
Period size: 14 Copynumber: 5.9 Consensus size: 14
104146263 TATGGTTTAT
104146273 GGTTTAAGGGTTAG
1 GGTTTAAGGGTTAG
104146287 GGTTTAAGGGTTAG
1 GGTTTAAGGGTTAG
* *
104146301 AGTTTAAGGTTTAG
1 GGTTTAAGGGTTAG
*
104146315 GGATTAAGGGTTAG
1 GGTTTAAGGGTTAG
* *
104146329 GGGTTAAGTGTTAGG
1 GGTTTAAGGGTTA-G
104146344 GGTTT-AGGGTT
1 GGTTTAAGGGTT
104146355 TATGTTTTAT
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
14 53 0.91
15 5 0.09
ACGTcount: A:0.22, C:0.00, G:0.41, T:0.37
Consensus pattern (14 bp):
GGTTTAAGGGTTAG
Found at i:104146353 original size:7 final size:7
Alignment explanation
Indices: 104146248--104146407 Score: 71
Period size: 7 Copynumber: 22.7 Consensus size: 7
104146238 GTTTATGTAT
104146248 TTTA-GG
1 TTTAGGG
*
104146254 TTTAGGA
1 TTTAGGG
* *
104146261 ATTATGG
1 TTTAGGG
*
104146268 TTTATGG
1 TTTAGGG
104146275 TTTAAGGG
1 TTT-AGGG
104146283 -TTAGGG
1 TTTAGGG
104146289 TTTAAGGG
1 TTT-AGGG
*
104146297 -TTAGAG
1 TTTAGGG
*
104146303 TTTAAGG
1 TTTAGGG
104146310 TTTAGGG
1 TTTAGGG
*
104146317 ATTAAGGG
1 -TTTAGGG
104146325 -TTAGGG
1 TTTAGGG
* *
104146331 GTTA-AG
1 TTTAGGG
104146337 TGTTAGGGG
1 T-TTA-GGG
104146346 TTTAGGG
1 TTTAGGG
* *
104146353 TTTATGT
1 TTTAGGG
* *
104146360 TTTATGA
1 TTTAGGG
104146367 TTTAGGG
1 TTTAGGG
104146374 TTTAAGGG
1 TTT-AGGG
* *
104146382 ATAAGGG
1 TTTAGGG
104146389 -TTAGGGG
1 TTTA-GGG
*
104146396 TTTAAGG
1 TTTAGGG
104146403 TTTAG
1 TTTAG
104146408 ATTAATTAGT
Statistics
Matches: 116, Mismatches: 25, Indels: 25
0.70 0.15 0.15
Matches are distributed among these distances:
6 19 0.16
7 71 0.61
8 24 0.21
9 2 0.02
ACGTcount: A:0.23, C:0.00, G:0.36, T:0.41
Consensus pattern (7 bp):
TTTAGGG
Found at i:104147131 original size:17 final size:18
Alignment explanation
Indices: 104147109--104147142 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
104147099 AGATAATTTT
104147109 AATATA-TTAAAATTATC
1 AATATAGTTAAAATTATC
*
104147126 AATATAGTTTAAATTAT
1 AATATAGTTAAAATTAT
104147143 TTAAGAGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (18 bp):
AATATAGTTAAAATTATC
Found at i:104148032 original size:61 final size:63
Alignment explanation
Indices: 104147955--104148078 Score: 162
Period size: 64 Copynumber: 2.0 Consensus size: 63
104147945 CTTCCTTTTA
104147955 TTTTCAATCGTCTTAAAA-TTTTAGA-AATTTTAATTTGGGTTTCTTATTTCTATTATATTAG
1 TTTTCAATCGTCTTAAAATTTTTAGAGAATTTTAATTTGGGTTTCTTATTTCTATTATATTAG
* * * ** **
104148016 TTTTCAATTGTTTTAAAATTTTTTGATGTTTTTTTGTTTGGGTTTCTTATTTCTATTATATTA
1 TTTTCAATCGTCTTAAAATTTTTAGA-GAATTTTAATTTGGGTTTCTTATTTCTATTATATTA
104148079 ATTCAAATGT
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
61 16 0.30
62 6 0.11
64 31 0.58
ACGTcount: A:0.23, C:0.06, G:0.10, T:0.60
Consensus pattern (63 bp):
TTTTCAATCGTCTTAAAATTTTTAGAGAATTTTAATTTGGGTTTCTTATTTCTATTATATTAG
Found at i:104154500 original size:3 final size:3
Alignment explanation
Indices: 104154486--104154596 Score: 75
Period size: 3 Copynumber: 36.7 Consensus size: 3
104154476 GGAAAACAAT
* * * *
104154486 ATA ATG ATA ATA ATA ATA GTA ATA CGATA GTA ATA ATA ATA ATA ACA
1 ATA ATA ATA ATA ATA ATA ATA ATA --ATA ATA ATA ATA ATA ATA ATA
* * * * *
104154533 A-A ATA GA-A ATA ATA ATA GTG GTGA A-A ATA ATA ATA ATA GTA ATG
1 ATA ATA -ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA
*
104154577 ATA ATG ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA AT
104154597 GTAAGTAAAT
Statistics
Matches: 84, Mismatches: 17, Indels: 14
0.73 0.15 0.12
Matches are distributed among these distances:
2 5 0.06
3 75 0.89
4 1 0.01
5 3 0.04
ACGTcount: A:0.58, C:0.02, G:0.11, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:104154519 original size:20 final size:20
Alignment explanation
Indices: 104154491--104154641 Score: 68
Period size: 20 Copynumber: 7.7 Consensus size: 20
104154481 ACAATATAAT
*
104154491 GATAATAATAATAGTAATAC
1 GATAATAATAATAATAATAC
*
104154511 GATAGTAATAATAATAATAAC
1 GATAATAATAATAATAAT-AC
* *
104154532 -AAAATAGA-AATAATAATAGT
1 GATAATA-ATAATAATAATA-C
*
104154552 GGTGAA-AATAATAATAATA-
1 GAT-AATAATAATAATAATAC
* *
104154571 G-TAATGATAATGATAATA-
1 GATAATAATAATAATAATAC
*
104154589 -ATAATAAT-GTAAGTAAATAC
1 GATAATAATAATAA-T-AATAC
* **
104154609 GAAAATAA-AATATATAATGT
1 GATAATAATAATA-ATAATAC
*
104154629 GATAATAACAATA
1 GATAATAATAATA
104154642 TAAAATTAAT
Statistics
Matches: 99, Mismatches: 17, Indels: 29
0.68 0.12 0.20
Matches are distributed among these distances:
17 4 0.04
18 19 0.19
19 6 0.06
20 40 0.40
21 27 0.27
22 3 0.03
ACGTcount: A:0.58, C:0.03, G:0.11, T:0.28
Consensus pattern (20 bp):
GATAATAATAATAATAATAC
Found at i:104154519 original size:23 final size:23
Alignment explanation
Indices: 104154493--104154551 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 23
104154483 AATATAATGA
* **
104154493 TAATAATAATAGTAATACGATAG
1 TAATAATAATAGTAACAAAATAG
*
104154516 TAATAATAATAATAACAAAATAG
1 TAATAATAATAGTAACAAAATAG
*
104154539 AAATAATAATAGT
1 TAATAATAATAGT
104154552 GGTGAAAATA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.59, C:0.03, G:0.08, T:0.29
Consensus pattern (23 bp):
TAATAATAATAGTAACAAAATAG
Found at i:104154971 original size:3 final size:3
Alignment explanation
Indices: 104154963--104155056 Score: 99
Period size: 3 Copynumber: 32.7 Consensus size: 3
104154953 AATGAGATAC
*
104154963 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
104155011 AAT -AT GAA- ATT AAT GAT -AT AAT AAT -AT AAT AAT -GT AAC AAT
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
104155052 AAT AA
1 AAT AA
104155057 GCATAAAAGG
Statistics
Matches: 76, Mismatches: 9, Indels: 12
0.78 0.09 0.12
Matches are distributed among these distances:
2 8 0.11
3 67 0.88
4 1 0.01
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:104155888 original size:17 final size:17
Alignment explanation
Indices: 104155843--104155886 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 17
104155833 ATATGTTTAT
*
104155843 AAAAAATAAAAA--CAA
1 AAAAAACAAAAATGCAA
104155858 AAAAAACAAAAATGCAA
1 AAAAAACAAAAATGCAA
104155875 AAAAGAACAAAA
1 AAAA-AACAAAA
104155887 TGAACACGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 11 0.44
17 7 0.28
18 7 0.28
ACGTcount: A:0.82, C:0.09, G:0.05, T:0.05
Consensus pattern (17 bp):
AAAAAACAAAAATGCAA
Found at i:104156772 original size:88 final size:88
Alignment explanation
Indices: 104156667--104157679 Score: 1420
Period size: 88 Copynumber: 11.5 Consensus size: 88
104156657 TCAGTCTGCC
* * * * *
104156667 CCAATGCCATTACAGGGAGAAGAGATTTGTAGCCTTGATTTACTCCGTTGAAACTACAAGGAGAT
1 CCAATGCCATTTCAGGGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGGAGAT
* *
104156732 ACAAACTGTGGCTTCGAGCTGTT
66 ACAAACTGTGGCTTCGAGCCGCT
* * * * *
104156755 CCAATGCCATTTTAGGGAGAAGAGATTTGTAGTCTCGATCTACTCCACTGGAACTTCAAGGCGAT
1 CCAATGCCATTTCAGGGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGGAGAT
* * * *
104156820 ACGAAGTGTGGCTTCGAGTCGCC
66 ACAAACTGTGGCTTCGAGCCGCT
* *
104156843 CCAATGCCATTAT-AGGGAGAAGAGATTTGTAGCTTCGATCTACTCTGCT-AGAACTTCAAGGAG
1 CCAATGCCATT-TCAGGGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTGA-AACTTCAAGGAG
* * * *
104156906 ATACGAATTGTAGCTTCGAGCTGCT
64 ATACAAACTGTGGCTTCGAGCCGCT
* *
104156931 CCAATGCCATTTCAGGGAGAAGAGATTTGTATCCTCGATCTACTCTGCTGAAACTTCAAGGAGAT
1 CCAATGCCATTTCAGGGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGGAGAT
* * *
104156996 AAAAATTATGGCTTCGAGCCGCT
66 ACAAACTGTGGCTTCGAGCCGCT
* * * *
104157019 CCACTGCCATTTCAAGGAGAAGAGATTTGTAGCCTCGATCTACTCCGTTGAAACTTCAAGAAGAT
1 CCAATGCCATTTCAGGGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGGAGAT
104157084 ACAAACTGTGGCTTCGAGCCGCT
66 ACAAACTGTGGCTTCGAGCCGCT
* * *
104157107 CCAATGCCTTTTCAGGGAGAAGAGATTTGTAGCCTCGAACTACTCTGCTGAAACTTCAAGGAGAT
1 CCAATGCCATTTCAGGGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGGAGAT
* *
104157172 ACGAACTGTGGCTTCGAGCCCCT
66 ACAAACTGTGGCTTCGAGCCGCT
** * * * * *
104157195 TTAATGCCATTTTAGGGAGAAGAGATTTGTAGCTTCGAACTACTCCACTGATACTTCAAGGAGAT
1 CCAATGCCATTTCAGGGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGGAGAT
*
104157260 ACAAACTATGGCTTCGAGCCGCT
66 ACAAACTGTGGCTTCGAGCCGCT
* *
104157283 CCAATGCCATTTCAAGGAGAAGAGATTTGTAGCCTCGATCTACTCCACTGAAACTTCAAGGAGAT
1 CCAATGCCATTTCAGGGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGGAGAT
*
104157348 ACGAACTGTGGCTTCGAGCCGCT
66 ACAAACTGTGGCTTCGAGCCGCT
* * * *
104157371 CCAATGCCATTAT-AGGGAGAAGAGATTTGTAGCTTCGATCTACTCTGCTGGAACTTTAAGGAGA
1 CCAATGCCATT-TCAGGGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGGAGA
* * *
104157435 TACGAATTGTGGCTTCGAGCCACT
65 TACAAACTGTGGCTTCGAGCCGCT
*
104157459 CCAATGCCATTTCAGGGAGAAGAGATTCGTAGCCTCGATCTACTCCGCTGAAACTTCAAGGAGAT
1 CCAATGCCATTTCAGGGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGGAGAT
104157524 ACAAACTGTGGCTTCGAGCCGCT
66 ACAAACTGTGGCTTCGAGCCGCT
* *
104157547 CCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCTGCTGAAACTTCAAGGAGAT
1 CCAATGCCATTTCAGGGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGGAGAT
* * *
104157612 ACAAATTGTGGCTTCAAGCCGTT
66 ACAAACTGTGGCTTCGAGCCGCT
* *
104157635 CCAATGCCATTTCAGGAAGAAGAGATTTGTAGCTTCGATCTACTC
1 CCAATGCCATTTCAGGGAGAAGAGATTTGTAGCCTCGATCTACTC
104157680 TACAAGAACT
Statistics
Matches: 824, Mismatches: 95, Indels: 12
0.89 0.10 0.01
Matches are distributed among these distances:
87 2 0.00
88 819 0.99
89 3 0.00
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (88 bp):
CCAATGCCATTTCAGGGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGGAGAT
ACAAACTGTGGCTTCGAGCCGCT
Found at i:104156906 original size:44 final size:44
Alignment explanation
Indices: 104156858--104157610 Score: 228
Period size: 44 Copynumber: 17.1 Consensus size: 44
104156848 GCCATTATAG
104156858 GGAGAAGAGATTTGTAGCTTCGATCTACTCTGCTAG-AACTTCAA
1 GGAGAAGAGATTTGTAGCTTCGATCTACTCTGCT-GCAACTTCAA
* * *** * * *
104156902 GGAGATACGA-A-TTGTAGCTTCGAGCTGCTCCAATGCCATTTCAG
1 GGAGA-A-GAGATTTGTAGCTTCGATCTACTCTGCTGCAACTTCAA
* * *
104156946 GGAGAAGAGATTTGTATCCTCGATCTACTCTGCTGAAACTTCAA
1 GGAGAAGAGATTTGTAGCTTCGATCTACTCTGCTGCAACTTCAA
* * * ** ** * *
104156990 GGAGATAAAAATTATG--GCTTCGAGCCGCTCCACTGCCATTTCAA
1 GGAGA-AGAGATT-TGTAGCTTCGATCTACTCTGCTGCAACTTCAA
* * * *
104157034 GGAGAAGAGATTTGTAGCCTCGATCTACTCCGTTGAAACTTCAA
1 GGAGAAGAGATTTGTAGCTTCGATCTACTCTGCTGCAACTTCAA
* * ** * * ** *** *** *
104157078 GAAGATACA-AACTGTGGCTTCGAGCCGCTCCAATGCCTTTTCAG
1 GGAGA-AGAGATTTGTAGCTTCGATCTACTCTGCTGCAACTTCAA
* * *
104157122 GGAGAAGAGATTTGTAGCCTCGAACTACTCTGCTGAAACTTCAA
1 GGAGAAGAGATTTGTAGCTTCGATCTACTCTGCTGCAACTTCAA
* * * ** * ** * * * *
104157166 GGAGATACGA-A-CTGTGGCTTCGAGCCCCTTTAATGCCATTTTAG
1 GGAGA-A-GAGATTTGTAGCTTCGATCTACTCTGCTGCAACTTCAA
* **
104157210 GGAGAAGAGATTTGTAGCTTCGAACTACTCCACTG-ATACTTCAA
1 GGAGAAGAGATTTGTAGCTTCGATCTACTCTGCTGCA-ACTTCAA
* * * * ** *** * *
104157254 GGAGATACAAACTATG--GCTTCGAGCCGCTCCAATGCCATTTCAA
1 GGAGA-AGAGA-TTTGTAGCTTCGATCTACTCTGCTGCAACTTCAA
* ** *
104157298 GGAGAAGAGATTTGTAGCCTCGATCTACTCCACTGAAACTTCAA
1 GGAGAAGAGATTTGTAGCTTCGATCTACTCTGCTGCAACTTCAA
* * * ** *** *
104157342 GGAGATACGA-A-CTGTGGCTTCGAGCCGCTCCAATGCCA-TT-ATA
1 GGAGA-A-GAGATTTGTAGCTTCGATCTACTCTGCTGCAACTTCA-A
* *
104157385 GGGAGAAGAGATTTGTAGCTTCGATCTACTCTGCTGGAACTTTAA
1 -GGAGAAGAGATTTGTAGCTTCGATCTACTCTGCTGCAACTTCAA
* * * *** * * *
104157430 GGAGATACGA-A-TTGTGGCTTCGAGCCACTCCAATGCCATTTCAG
1 GGAGA-A-GAGATTTGTAGCTTCGATCTACTCTGCTGCAACTTCAA
* * * *
104157474 GGAGAAGAGATTCGTAGCCTCGATCTACTCCGCTGAAACTTCAA
1 GGAGAAGAGATTTGTAGCTTCGATCTACTCTGCTGCAACTTCAA
* ** * * ** *** * * *
104157518 GGAGATACA-AACTGTGGCTTCGAGCCGCTCCAATGCCATTTCAG
1 GGAGA-AGAGATTTGTAGCTTCGATCTACTCTGCTGCAACTTCAA
*
104157562 GGAGAAGAGATTTGTAGCTTCGATCTACTCTGCTGAAACTTCAA
1 GGAGAAGAGATTTGTAGCTTCGATCTACTCTGCTGCAACTTCAA
104157606 GGAGA
1 GGAGA
104157611 TACAAATTGT
Statistics
Matches: 483, Mismatches: 191, Indels: 70
0.65 0.26 0.09
Matches are distributed among these distances:
42 14 0.03
43 24 0.05
44 408 0.84
45 23 0.05
46 14 0.03
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.26
Consensus pattern (44 bp):
GGAGAAGAGATTTGTAGCTTCGATCTACTCTGCTGCAACTTCAA
Found at i:104157767 original size:42 final size:43
Alignment explanation
Indices: 104157719--104157920 Score: 176
Period size: 44 Copynumber: 4.7 Consensus size: 43
104157709 TGATTTCAAC
*
104157719 CTACTCCACTACTGCTTAGGGAGATAGGAT-GGTGGCTTAAAT
1 CTACTCCACTACTGCTTAGGGAGATAAGATCGGTGGCTTAAAT
*** * **
104157761 CTACTCCACTACTGCTTAGGGAG-TCAAGATTCACCGTCTTTGAT
1 CTACTCCACTACTGCTTAGGGAGAT-AAGA-TCGGTGGCTTAAAT
* * * * ** * **
104157805 TTGCTCCACTACTGCTTTGGGAGATAAGATCTGTAATCTTTAGC
1 CTACTCCACTACTGCTTAGGGAGATAAGATCGGT-GGCTTAAAT
*
104157849 CTACTCCACTATTGCTTAGGGAGATAAGAT-GGTGGCTTAAAT
1 CTACTCCACTACTGCTTAGGGAGATAAGATCGGTGGCTTAAAT
* * *
104157891 CTACTCGACAACTGCTTAGGGAGACAAGAT
1 CTACTCCACTACTGCTTAGGGAGATAAGAT
104157921 TCGTCATCTT
Statistics
Matches: 124, Mismatches: 31, Indels: 10
0.75 0.19 0.06
Matches are distributed among these distances:
41 1 0.01
42 56 0.45
43 5 0.04
44 61 0.49
45 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.30
Consensus pattern (43 bp):
CTACTCCACTACTGCTTAGGGAGATAAGATCGGTGGCTTAAAT
Found at i:104157890 original size:130 final size:130
Alignment explanation
Indices: 104157718--104157970 Score: 380
Period size: 130 Copynumber: 1.9 Consensus size: 130
104157708 TTGATTTCAA
* *
104157718 CCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTACTCCACTACTGCTTAGGGA
1 CCTACTCCACTACTGCTTAGGGAGATAAGATGGTGGCTTAAATCTACTCCACAACTGCTTAGGGA
* * * * * **
104157783 GTCAAGATTCACCGTCTTTGATTTGCTCCACTACTGCTTTGGGAGATAAGATCTGTAATCTTTAG
66 GACAAGATTCACCATCTTCGATCTGCTCCACTACTGCATAAGGAGATAAGATCTGTAATCTTTAG
* *
104157848 CCTACTCCACTATTGCTTAGGGAGATAAGATGGTGGCTTAAATCTACTCGACAACTGCTTAGGGA
1 CCTACTCCACTACTGCTTAGGGAGATAAGATGGTGGCTTAAATCTACTCCACAACTGCTTAGGGA
** *
104157913 GACAAGATTCGTCATCTTCGATCTGCTCCACTACTGGATAAGGAGATAAGATCTGTAA
66 GACAAGATTCACCATCTTCGATCTGCTCCACTACTGCATAAGGAGATAAGATCTGTAA
104157971 ATTCACCGAT
Statistics
Matches: 109, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
130 109 1.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (130 bp):
CCTACTCCACTACTGCTTAGGGAGATAAGATGGTGGCTTAAATCTACTCCACAACTGCTTAGGGA
GACAAGATTCACCATCTTCGATCTGCTCCACTACTGCATAAGGAGATAAGATCTGTAATCTTTAG
Found at i:104164655 original size:3 final size:3
Alignment explanation
Indices: 104164635--104164715 Score: 60
Period size: 3 Copynumber: 27.3 Consensus size: 3
104164625 CAAAGACGAG
* * * * * * *
104164635 ATA AAA ATA ATG ATA ATA ATA ATG ATA ATA ATA AGA GTG ATT AT- ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
104164682 TATGA A-A ATA ATA ATA ATA ATA ATA ATA A-A ATA A
1 -AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
104164716 ATGTGTTAAA
Statistics
Matches: 61, Mismatches: 12, Indels: 10
0.73 0.14 0.12
Matches are distributed among these distances:
2 6 0.10
3 51 0.84
4 3 0.05
5 1 0.02
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:104164655 original size:12 final size:12
Alignment explanation
Indices: 104164634--104164708 Score: 71
Period size: 12 Copynumber: 6.0 Consensus size: 12
104164624 GCAAAGACGA
*
104164634 GATAAAAATAAT
1 GATAATAATAAT
104164646 GATAATAATAAT
1 GATAATAATAAT
104164658 GATAATAATAA-
1 GATAATAATAAT
*
104164669 GAGTGATTATATATAT
1 GA-T-AATA-ATA-AT
*
104164685 GAAAATAATAAT
1 GATAATAATAAT
*
104164697 AATAATAATAAT
1 GATAATAATAAT
104164709 AAAATAAATG
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
11 2 0.04
12 35 0.67
13 6 0.12
14 6 0.12
15 1 0.02
16 2 0.04
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.32
Consensus pattern (12 bp):
GATAATAATAAT
Found at i:104164799 original size:3 final size:3
Alignment explanation
Indices: 104164791--104164901 Score: 57
Period size: 3 Copynumber: 36.7 Consensus size: 3
104164781 AGGAAACAAT
* * * * *
104164791 ATA ATA ATA ATA ATA GTA GTA ATA CGATA GTA CTA ATA ATA ATA ACA
1 ATA ATA ATA ATA ATA ATA ATA ATA --ATA ATA ATA ATA ATA ATA ATA
* * * * * *
104164838 A-A AT- ATAA ATA ATA ATA GTG GTGA A-A ATA AAA ATA ATA GTA ATG
1 ATA ATA AT-A ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA
*
104164882 ATA ATG ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA AT
104164902 GTAAGTAAAT
Statistics
Matches: 83, Mismatches: 18, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
2 6 0.07
3 72 0.87
4 2 0.02
5 3 0.04
ACGTcount: A:0.58, C:0.03, G:0.10, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:104164960 original size:21 final size:20
Alignment explanation
Indices: 104164917--104164956 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
104164907 TAAATACGAA
*
104164917 AATAAAATATAAAATGTGAT
1 AATAAAATATAAAATGTAAT
104164937 AATAACAATATAAAAT-TAAT
1 AATAA-AATATAAAATGTAAT
104164957 TAATTTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (20 bp):
AATAAAATATAAAATGTAAT
Found at i:104165276 original size:3 final size:3
Alignment explanation
Indices: 104165268--104165358 Score: 102
Period size: 3 Copynumber: 31.7 Consensus size: 3
104165258 AAGGAGATAC
104165268 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
104165316 -AT GAA- ATT AAT AAT -AT AAC AAT -AT AAT AAT -GT AAC AAT AAT
1 AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
104165357 AA
1 AA
104165359 GCATAAAAGG
Statistics
Matches: 74, Mismatches: 8, Indels: 12
0.79 0.09 0.13
Matches are distributed among these distances:
2 8 0.11
3 65 0.88
4 1 0.01
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:104169992 original size:26 final size:28
Alignment explanation
Indices: 104169962--104170030 Score: 115
Period size: 28 Copynumber: 2.5 Consensus size: 28
104169952 TATAGGAGTC
104169962 CGCACACTTAGT-CTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
104169988 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
104170016 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
104170031 GTACAAGTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
26 12 0.30
27 9 0.22
28 19 0.47
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:104180000 original size:85 final size:86
Alignment explanation
Indices: 104179881--104180192 Score: 352
Period size: 85 Copynumber: 3.7 Consensus size: 86
104179871 AAATATTTTT
* * * * * *
104179881 TAAAGGTCATGTTTTTTATCAGTGTTTGTGAGAAAAGCACCGCTAAAGGTCAAT-TT-TATAATA
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGAGAAAAGCACCGCTAAAGGTC-ATGTTCTTTAGTA
104179944 G-GGTTTGTGGGAAAAGCGCCGC
65 GCGGTTT-TGGGAAAAGCGCCGC
* *
104179966 TAAAGGTCATGTTCTTTAGCGGCGTTTGTAAGAAAAGCACTGCTAAAGGTCATGTTCTTTAGT-G
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGAGAAAAGCACCGCTAAAGGTCATGTTCTTTAGTAG
* * *
104180030 CTGTTTTGGGAAAAGCGTCAC
66 CGGTTTTGGGAAAAGCGCCGC
* * * *
104180051 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCCAAAGGTCATGTTCTTTAGCAG
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGAGAAAAGCACCGCTAAAGGTCATGTTCTTTAGTAG
*
104180116 CGGTTTTAGGAGAAA-CGCCGC
66 CGGTTTTGGGA-AAAGCGCCGC
* * * *
104180137 TAAAGGT-TTGTTCTTTAGCGGCATTTGTG-GGAAAG-AGCCGCTAAAGATCATGTTCT
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGAGAAAAGCA-CCGCTAAAGGTCATGTTCT
104180193 ATAGCGGCGT
Statistics
Matches: 194, Mismatches: 27, Indels: 13
0.83 0.12 0.06
Matches are distributed among these distances:
84 24 0.12
85 138 0.71
86 29 0.15
87 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (86 bp):
TAAAGGTCATGTTCTTTAGCGGCGTTTGTGAGAAAAGCACCGCTAAAGGTCATGTTCTTTAGTAG
CGGTTTTGGGAAAAGCGCCGC
Found at i:104180003 original size:43 final size:43
Alignment explanation
Indices: 104179881--104180204 Score: 324
Period size: 43 Copynumber: 7.6 Consensus size: 43
104179871 AAATATTTTT
* * * * * *
104179881 TAAAGGTCATGTTTTTTATCAGTGTTTGTGAGAAAAGCACCGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
* **
104179924 TAAAGGTCAAT-TT-TATAATAGG-GTTTGTGGGAAAAGCGCCGC
1 TAAAGGTC-ATGTTCT-TTAGCGGCGTTTGTGGGAAAAGCGCCGC
** * *
104179966 TAAAGGTCATGTTCTTTAGCGGCGTTTGTAAGAAAAGCACTGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
* * *
104180009 TAAAGGTCATGTTCTTTAG-TGCTGTTT-TGGGAAAAGCGTCAC
1 TAAAGGTCATGTTCTTTAGCGGC-GTTTGTGGGAAAAGCGCCGC
104180051 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
* * *
104180094 CAAAGGTCATGTTCTTTAGCAGCGGTTT-TAGGAGAAA-CGCCGC
1 TAAAGGTCATGTTCTTTAGCGGC-GTTTGTGGGA-AAAGCGCCGC
* * *
104180137 TAAAGGT-TTGTTCTTTAGCGGCATTTGTGGG-AAAGAGCCGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
* *
104180178 TAAAGATCATGTTCTATAGCGGCGTTT
1 TAAAGGTCATGTTCTTTAGCGGCGTTT
104180205 TTTTCATAAA
Statistics
Matches: 233, Mismatches: 35, Indels: 27
0.79 0.12 0.09
Matches are distributed among these distances:
40 3 0.01
41 16 0.07
42 99 0.42
43 106 0.45
44 9 0.04
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (43 bp):
TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
Found at i:104183278 original size:95 final size:95
Alignment explanation
Indices: 104183081--104183310 Score: 257
Period size: 95 Copynumber: 2.4 Consensus size: 95
104183071 GGATAAGATT
* **
104183081 CCGATGCCATGTCCCAGACATGGTCTTACATTGGCTAGCACATAAAAGTTGAGACCATGTCCCAG
1 CCGATGCCATGTCCCAGACA-GGTCTTACACTGGCTCTCACATAAAAGTTGAGA-CATGTCCCAG
*
104183146 AAAGGTCTTACACTGACTTCCATATATCGTGG
64 AAAGGTCTTACACTGACTTCCATATATCGAGG
* * * * *
104183178 CCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCGCCTCAATGTTGATG-CATGTCTCAGA
1 CCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCACATAAAAGTTGA-GACATGTCCCAGA
* * * ** *
104183242 TATGTCTTACACTGGCTTGTATATCTCGAGG
65 AAGGTCTTACACTGACTTCCATATATCGAGG
* * *
104183273 TCGATG-CATGTCCCAGACATGTCTTACACTAGCTCTCA
1 CCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCA
104183311 TAATATGGCC
Statistics
Matches: 113, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
94 29 0.26
95 39 0.35
96 24 0.21
97 21 0.19
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.28
Consensus pattern (95 bp):
CCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCACATAAAAGTTGAGACATGTCCCAGAA
AGGTCTTACACTGACTTCCATATATCGAGG
Found at i:104183295 original size:48 final size:48
Alignment explanation
Indices: 104183136--104183302 Score: 158
Period size: 48 Copynumber: 3.5 Consensus size: 48
104183126 AAGTTGAGAC
* * * * * *
104183136 CATGTCCCAGAAAGGTCTTACACTGACTTCCATATATCGTGGCCGATG
1 CATGTCCCAGACAGGTCTTACACTGGCTTCTATATCTCGAGGTCGATG
*** * * *
104183184 CCATGTCCCAGACAGGTCTTACACTGGC-TCT-CGCCTCAATGTTGATG
1 -CATGTCCCAGACAGGTCTTACACTGGCTTCTATATCTCGAGGTCGATG
* * * *
104183231 CATGTCTCAGATATGTCTTACACTGGCTTGTATATCTCGAGGTCGATG
1 CATGTCCCAGACAGGTCTTACACTGGCTTCTATATCTCGAGGTCGATG
*
104183279 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACAGGTCTTACACT
104183303 AGCTCTCATA
Statistics
Matches: 92, Mismatches: 24, Indels: 5
0.76 0.20 0.04
Matches are distributed among these distances:
46 24 0.26
47 9 0.10
48 34 0.37
49 25 0.27
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (48 bp):
CATGTCCCAGACAGGTCTTACACTGGCTTCTATATCTCGAGGTCGATG
Found at i:104183325 original size:94 final size:93
Alignment explanation
Indices: 104183081--104183348 Score: 218
Period size: 94 Copynumber: 2.8 Consensus size: 93
104183071 GGATAAGATT
* * ** * **
104183081 CCGATGCCATGTCCCAGACATGGTCTTACATTGGCTAGCACATAAAAGTTGA-GACCATGTCCCA
1 CCGATGCCATGTCCCAGACA-GGTCTTACACTAGCTCTC-CATAAATGCCGATG--CATGT-CCA
* *
104183145 GAAAGGTCTTACACTGACTTCCATATATCGTGG
61 GAAATGTCTTACACTGACTTCCATATATCGAGG
* * * ** *
104183178 CCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCGCCTCAATGTTGATGCATGTCTCAGAT
1 CCGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTC-CATAAATGCCGATGCATGTC-CAGAA
* ** *
104183243 ATGTCTTACACTGGCTTGTATATCTCGAGG
64 ATGTCTTACACTGACTTCCATATATCGAGG
* * *
104183273 TCGATG-CATGTCCCAGACATGTCTTACACTAGCTCT-CATAATATGGCCGATGCATGTCCTAGG
1 CCGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCCATAA-AT-GCCGATGCATGTCC-AGA
*
104183336 CATGTCTTACACT
63 AATGTCTTACACT
104183349 AGCACACATA
Statistics
Matches: 143, Mismatches: 23, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
92 3 0.02
93 3 0.02
94 54 0.38
95 38 0.27
96 24 0.17
97 21 0.15
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.29
Consensus pattern (93 bp):
CCGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCCATAAATGCCGATGCATGTCCAGAAAT
GTCTTACACTGACTTCCATATATCGAGG
Found at i:104183967 original size:20 final size:18
Alignment explanation
Indices: 104183930--104183980 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
104183920 CTATAGCAAC
104183930 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
104183947 TCACACATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
104183967 TTACAACTTTACAA
1 TCACAA-TTTACAA
104183981 AATAGCCCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:104187253 original size:40 final size:40
Alignment explanation
Indices: 104187201--104187462 Score: 389
Period size: 40 Copynumber: 6.5 Consensus size: 40
104187191 CTCAAAATCG
*
104187201 CGCACACTAAGTGCCATACATAGCCAAAGCTATCACGAAT
1 CGCACACTAAGTGCCATACATAGCCAAAGCTATCTCGAAT
* ** *
104187241 CGCACACTAAGTGCTATACATAGCTGAAGCTATCTTGAAT
1 CGCACACTAAGTGCCATACATAGCCAAAGCTATCTCGAAT
* * *
104187281 CGCACACTAAGTTCCACACATAGCCGAAGCTATCTCGAAT
1 CGCACACTAAGTGCCATACATAGCCAAAGCTATCTCGAAT
*
104187321 CGCACACTAAGTGCCATACATAGCCAAAACTATCTCGAAT
1 CGCACACTAAGTGCCATACATAGCCAAAGCTATCTCGAAT
* * *
104187361 CGCACACTAAGTGTCATACATAGCCGAAGCTATGTCGAAT
1 CGCACACTAAGTGCCATACATAGCCAAAGCTATCTCGAAT
* *
104187401 CGTACACTAAGTGCCATACATAGCCAAAACTATCTCGAAT
1 CGCACACTAAGTGCCATACATAGCCAAAGCTATCTCGAAT
*
104187441 CGCACACTAAGTTCCATACATA
1 CGCACACTAAGTGCCATACATA
104187463 AACAATTTGT
Statistics
Matches: 197, Mismatches: 25, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 197 1.00
ACGTcount: A:0.35, C:0.28, G:0.15, T:0.22
Consensus pattern (40 bp):
CGCACACTAAGTGCCATACATAGCCAAAGCTATCTCGAAT
Found at i:104188992 original size:18 final size:19
Alignment explanation
Indices: 104188935--104188994 Score: 95
Period size: 19 Copynumber: 3.2 Consensus size: 19
104188925 TCAAACTTTT
104188935 AAAATAATTTTTAAAATTC
1 AAAATAATTTTTAAAATTC
104188954 AAAATAATTTTTAAAATTC
1 AAAATAATTTTTAAAATTC
* *
104188973 AAAATAA-TTATAAAAATC
1 AAAATAATTTTTAAAATTC
104188991 AAAA
1 AAAA
104188995 CTTATATTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
18 13 0.33
19 26 0.67
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAATAATTTTTAAAATTC
Found at i:104192249 original size:18 final size:18
Alignment explanation
Indices: 104192217--104192254 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
104192207 TCCTCGACCT
104192217 TTTTTTTAAAGGTTAAAGG
1 TTTTTTTAAAGGTT-AAGG
*
104192236 TTTTTTTAGA-GTTAAGG
1 TTTTTTTAAAGGTTAAGG
104192253 TT
1 TT
104192255 GGAAAATTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 3 0.17
19 9 0.50
ACGTcount: A:0.26, C:0.00, G:0.21, T:0.53
Consensus pattern (18 bp):
TTTTTTTAAAGGTTAAGG
Found at i:104195856 original size:37 final size:37
Alignment explanation
Indices: 104195800--104195905 Score: 185
Period size: 37 Copynumber: 2.9 Consensus size: 37
104195790 GCTCGAATAG
* *
104195800 TCTCCACACCTAGTTATCGGGTCTTACCCGGACAAAA
1 TCTCCACACGTAGTCATCGGGTCTTACCCGGACAAAA
*
104195837 TCTCCACACGTAGTCATCGGGTCTTACCCGGACATAA
1 TCTCCACACGTAGTCATCGGGTCTTACCCGGACAAAA
104195874 TCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 TCTCCACACGTAGTCATCGGGTCTTACCCGGA
104195906 ATATATTTCC
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.25
Consensus pattern (37 bp):
TCTCCACACGTAGTCATCGGGTCTTACCCGGACAAAA
Found at i:104196609 original size:32 final size:32
Alignment explanation
Indices: 104196530--104196596 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
104196520 TCTCACACAA
104196530 CTTTAAATATCTCTTTATAGGAAATTTCTTTG
1 CTTTAAATATCTCTTTATAGGAAATTTCTTTG
104196562 CTTTAAATATCTCTTTATAGGAAATTTCTTTG
1 CTTTAAATATCTCTTTATAGGAAATTTCTTTG
104196594 CTT
1 CTT
104196597 ACATGGTCTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.27, C:0.13, G:0.09, T:0.51
Consensus pattern (32 bp):
CTTTAAATATCTCTTTATAGGAAATTTCTTTG
Found at i:104199560 original size:40 final size:40
Alignment explanation
Indices: 104199516--104199994 Score: 814
Period size: 40 Copynumber: 12.0 Consensus size: 40
104199506 GAATGCACAT
* * *
104199516 CACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
104199556 CACCAGCACGAATGCTCTTCCGGACTTAGCCCAGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
104199596 CACCAGCACGAATGCTCTTCGGGACTTAACCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
104199636 CATCAGCACGAATGCTCTTCGGGACTTAGCCTGGACATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
104199676 CACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
104199716 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
104199756 CACCAGCACGAATGCTCTTCAGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
104199796 CATCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
104199836 CACGAGCATGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
104199876 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
104199916 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
104199956 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
104199995 TAACTCTCAA
Statistics
Matches: 411, Mismatches: 28, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 411 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:104201370 original size:37 final size:37
Alignment explanation
Indices: 104201270--104201372 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
104201260 CGAATAGTCC
* *
104201270 CCACACGTAGTTATCGGGTCTTACCCAGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
104201307 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
104201344 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
104201373 ATATATTTCC
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:104204835 original size:28 final size:28
Alignment explanation
Indices: 104204789--104204857 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
104204779 TTTAAAACCC
*
104204789 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
104204816 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
104204844 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
104204858 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:104206506 original size:20 final size:20
Alignment explanation
Indices: 104206483--104206520 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
104206473 CACATCCAAA
*
104206483 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
104206503 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
104206521 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:104212840 original size:28 final size:28
Alignment explanation
Indices: 104212794--104212862 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
104212784 TTTAAAACCC
*
104212794 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
104212821 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
104212849 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
104212863 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:104213958 original size:12 final size:12
Alignment explanation
Indices: 104213941--104213965 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
104213931 AGTTTCGGCT
104213941 AGAGAGGAAAAA
1 AGAGAGGAAAAA
104213953 AGAGAGGAAAAA
1 AGAGAGGAAAAA
104213965 A
1 A
104213966 ACCCTAAGNA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (12 bp):
AGAGAGGAAAAA
Found at i:104219079 original size:28 final size:27
Alignment explanation
Indices: 104218991--104219068 Score: 102
Period size: 28 Copynumber: 2.8 Consensus size: 27
104218981 GCAATAAGCC
*
104218991 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTT-ATAATCGAACT
*
104219019 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCT-TATAATCGAACT
*
104219047 TGCACACTTAGTGCTGTATAAT
1 CGCACACTTAGTGCT-TATAAT
104219069 TTGAACCGCA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
28 44 0.98
29 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (27 bp):
CGCACACTTAGTGCTTATAATCGAACT
Found at i:104220678 original size:43 final size:43
Alignment explanation
Indices: 104220609--104220764 Score: 147
Period size: 43 Copynumber: 3.6 Consensus size: 43
104220599 GTGTTCTCAT
* * * *
104220609 GTAAGACCACGTCTGGCACGTTGGCATCGATATGTGGTTTTGA
1 GTAAGACCACGTCTGGGACATTGGCATCGATATGTGGATTAGA
* * * *
104220652 GTAAGACCATGTCTGGGACATCGGCATCG-TAAT-TGTGATTCGT
1 GTAAGACCACGTCTGGGACATTGGCATCGAT-ATGTG-GATTAGA
** * * *
104220695 GTAAGACCTTGTCTGGGACAGTGGCATCGACATGT-GATTACA
1 GTAAGACCACGTCTGGGACATTGGCATCGATATGTGGATTAGA
104220737 TGTAAGACCACGTCTGGGACATTGGCAT
1 -GTAAGACCACGTCTGGGACATTGGCAT
104220765 TGTACAATAT
Statistics
Matches: 91, Mismatches: 17, Indels: 10
0.77 0.14 0.08
Matches are distributed among these distances:
42 7 0.08
43 83 0.91
44 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (43 bp):
GTAAGACCACGTCTGGGACATTGGCATCGATATGTGGATTAGA
Found at i:104222668 original size:31 final size:31
Alignment explanation
Indices: 104222630--104222693 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
104222620 CCTTTTCATA
*
104222630 TTTCATATTTCATAACACTGGGCTGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
104222661 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
104222692 TT
1 TT
104222694 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:104222962 original size:23 final size:23
Alignment explanation
Indices: 104222908--104223026 Score: 175
Period size: 23 Copynumber: 5.1 Consensus size: 23
104222898 CCTAGCCTCT
* * *
104222908 TTTAATAACTGGGGAAAAAACCC
1 TTTAATAACTGGGGCATAAGCCC
*
104222931 TTTTAATAACTGAGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
104222955 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
104222978 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
* *
104223001 TTCAATAACTGGGGCGTAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
104223024 TTT
1 TTT
104223027 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
23 68 0.78
24 19 0.22
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:104223102 original size:20 final size:20
Alignment explanation
Indices: 104223077--104223123 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
104223067 TTATGATTAC
104223077 ATCATGTGCATAACATACAT
1 ATCATGTGCATAACATACAT
*
104223097 ATCATGTGCATATCATACAT
1 ATCATGTGCATAACATACAT
*
104223117 GTCATGT
1 ATCATGT
104223124 TTATCAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATAACATACAT
Found at i:104236225 original size:47 final size:47
Alignment explanation
Indices: 104235996--104236312 Score: 195
Period size: 47 Copynumber: 6.7 Consensus size: 47
104235986 GGATAAGTTA
* * * * * *
104235996 CCGATGCCATGTCCTAGACATGGTGTTACACTGGCTA-GCATCATCGAGG
1 CCGATG-CATGTCCCAGACAT-GTCTTATACTGGC-ACTCATCATCTACG
* * * *
104236045 TCGATGCCATGTCCCATACATGGTCTTATACTAGCTCTCAT-ATAC-ACGTG
1 CCGATG-CATGTCCCAGACAT-GTCTTATACTGGCACTCATCAT-CTAC--G
* * * * * * *
104236095 CTGATGCATGTCCAAAACATGTCGTACACTAGCA--CAAC-TCTTA-G
1 CCGATGCATGTCCCAGACATGTCTTATACTGGCACTCATCATC-TACG
* ** * * * *
104236139 CCGATGCGTGTCCCAGACACATCTTACATTGGCTA-TCATCATCGAGG
1 CCGATGCATGTCCCAGACATGTCTTATACTGGC-ACTCATCATCTACG
* * *
104236186 CCAATGCATGCCCCAGACATGTCTTATACTGGCACTCATC-TCTATG
1 CCGATGCATGTCCCAGACATGTCTTATACTGGCACTCATCATCTACG
104236232 CCGATGCCATGTCCCAGACATGGTCTTATACTGGCACTCAT-ATCTACG
1 CCGATG-CATGTCCCAGACAT-GTCTTATACTGGCACTCATCATCTACG
* *
104236280 CCGATGCATGTCCCAAACATGTCTTACACTGGC
1 CCGATGCATGTCCCAGACATGTCTTATACTGGC
104236313 GTACAAGTAA
Statistics
Matches: 211, Mismatches: 42, Indels: 33
0.74 0.15 0.12
Matches are distributed among these distances:
44 25 0.12
45 2 0.01
46 29 0.14
47 61 0.29
48 44 0.21
49 45 0.21
50 5 0.02
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (47 bp):
CCGATGCATGTCCCAGACATGTCTTATACTGGCACTCATCATCTACG
Found at i:104236287 original size:94 final size:91
Alignment explanation
Indices: 104236046--104236312 Score: 254
Period size: 94 Copynumber: 2.9 Consensus size: 91
104236036 TCATCGAGGT
* * * * *
104236046 CGATGCCATGTCCCATACATGGTCTTATACTAGCTCTCATATACACGTGCTGATGCATGTCCAAA
1 CGATGCCATGTCCCAGACATGGTCTTATACTGGCACTCATAT-CAC--GCCGATGCATGTCCCAA
* *
104236111 ACATGTCGTACACTAGCACAACTCTTAGC
63 ACATGTCTTACACTGGCACAACTCTTAGC
* ** * * * * * *
104236140 CGATG-CGTGTCCCAGACA-CATCTTACATTGGCTA-TCATCATCGAGGCCAATGCATGCCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTATACTGGC-ACTCAT-ATC-ACGCCGATGCATGTCCCAA
* *
104236202 ACATGTCTTATACTGGCAC-TCATCTCTATGC
63 ACATGTCTTACACTGGCACAAC-TCT-TA-GC
104236233 CGATGCCATGTCCCAGACATGGTCTTATACTGGCACTCATATCTACGCCGATGCATGTCCCAAAC
1 CGATGCCATGTCCCAGACATGGTCTTATACTGGCACTCATATC-ACGCCGATGCATGTCCCAAAC
104236298 ATGTCTTACACTGGC
65 ATGTCTTACACTGGC
104236313 GTACAAGTAA
Statistics
Matches: 135, Mismatches: 29, Indels: 18
0.74 0.16 0.10
Matches are distributed among these distances:
90 1 0.01
91 31 0.23
92 16 0.12
93 21 0.16
94 52 0.39
95 14 0.10
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (91 bp):
CGATGCCATGTCCCAGACATGGTCTTATACTGGCACTCATATCACGCCGATGCATGTCCCAAACA
TGTCTTACACTGGCACAACTCTTAGC
Found at i:104237778 original size:40 final size:40
Alignment explanation
Indices: 104237713--104237956 Score: 276
Period size: 40 Copynumber: 6.1 Consensus size: 40
104237703 CGGAATACAA
* ** * * *
104237713 CCGGATATAACCACACGCACGAATGCCCTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
* *
104237753 CCGGATATAACGACTTGCACAAATGCCTTTGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
*
104237793 CCGAATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
*
104237833 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAAC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
* * * * *
104237873 CCGGATATAGTC-ACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACAACTTGCACAAATGCCTTCGGGTATTAGC
** * * *
104237913 CCGGATATAATTACTAGCATAAATGTCTTCGGG-ACTTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTA-TTAGC
104237953 CCGG
1 CCGG
104237957 GTATCATTCA
Statistics
Matches: 178, Mismatches: 23, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
40 177 0.99
41 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
Found at i:104239602 original size:29 final size:29
Alignment explanation
Indices: 104239569--104239642 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
104239559 CCTTCGAGCT
104239569 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
104239598 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
104239627 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
104239643 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:104239603 original size:58 final size:58
Alignment explanation
Indices: 104239510--104239642 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
104239500 ATACTCGATT
* * * * *
104239510 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
104239568 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
104239626 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
104239643 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:104248271 original size:40 final size:39
Alignment explanation
Indices: 104248206--104248409 Score: 230
Period size: 40 Copynumber: 5.1 Consensus size: 39
104248196 CGGAATACAA
* *
104248206 CCGGATATAACCAC-ACGCACGAATGCCCTCGGGTCTTAGC
1 CCGGATATAA-CACTA-GCACAAATGCCTTCGGGTCTTAGC
* *
104248246 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAGC
* *
104248286 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
104248326 CCGGATATAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
104248366 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAGC
104248406 CCGG
1 CCGG
104248410 GTATCATTCA
Statistics
Matches: 143, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
CCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:104248564 original size:64 final size:64
Alignment explanation
Indices: 104248496--104248684 Score: 142
Period size: 64 Copynumber: 3.0 Consensus size: 64
104248486 GAACACAAAC
104248496 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
* * * * *** * *** * ** * *
104248560 ATATCAATA--ATCATTACACATCCATATTTCATTTTC-GTTA-C--T--AAGGCTCAAACACAA
1 ATATCACTAGCATAATTGC-CTTCGGGACTT-A-GCCCGGGTACCATTCAAATACTCATACACAC
*
104248617 AC
63 AT
104248619 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
104248683 AT
1 AT
104248685 GTCAATAATC
Statistics
Matches: 80, Mismatches: 34, Indels: 22
0.59 0.25 0.16
Matches are distributed among these distances:
58 1 0.01
59 24 0.30
60 7 0.09
61 7 0.09
62 7 0.09
63 7 0.09
64 26 0.32
65 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (64 bp):
ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
Found at i:104248597 original size:123 final size:123
Alignment explanation
Indices: 104248378--104248716 Score: 597
Period size: 123 Copynumber: 2.8 Consensus size: 123
104248368 GGATATAATT
* * * * * * *
104248378 ACTAGCATAAATGTCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATAAATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
*
104248443 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
104248501 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
104248566 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
*
104248624 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATGTCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
104248689 ATAATCATTACACATCCATATTTCATTT
66 ATAATCATTACACATCCATATTTCATTT
104248717 CACATAATTC
Statistics
Matches: 207, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 207 1.00
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (123 bp):
ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
Found at i:104255093 original size:41 final size:41
Alignment explanation
Indices: 104255048--104255149 Score: 161
Period size: 41 Copynumber: 2.5 Consensus size: 41
104255038 ACTCACAGGC
* *
104255048 CTGCTTACACAAGCTGTTAGTC-AGAACGTAGCTACACAGTG
1 CTGCTCACACAAGCTGTCAGTCAAG-ACGTAGCTACACAGTG
104255089 CTGCTCACACAAGCTGTCAGTCAAGACGTAGCTACACAGTG
1 CTGCTCACACAAGCTGTCAGTCAAGACGTAGCTACACAGTG
*
104255130 TTGCTCACACAAGCTGTCAG
1 CTGCTCACACAAGCTGTCAG
104255150 GTATCCGCAA
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
41 55 0.96
42 2 0.04
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (41 bp):
CTGCTCACACAAGCTGTCAGTCAAGACGTAGCTACACAGTG
Found at i:104258191 original size:37 final size:37
Alignment explanation
Indices: 104258137--104258276 Score: 244
Period size: 37 Copynumber: 3.8 Consensus size: 37
104258127 CGAATAGTCC
* * *
104258137 CCACACGTAGTTATCGGGTCTTACCTGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
*
104258174 CCATACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
104258211 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
104258248 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
104258277 ATATATTTCC
Statistics
Matches: 98, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 98 1.00
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
Found at i:104258475 original size:48 final size:48
Alignment explanation
Indices: 104258417--104258946 Score: 970
Period size: 48 Copynumber: 11.0 Consensus size: 48
104258407 ATATACACAC
* *
104258417 ATCTCCTACATATTTCACACTAGCCATTCGGCTTCACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
104258465 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
104258513 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
104258561 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
104258609 ATCTCATACATATTTCACATTAGCCATTCGGATTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
104258657 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
104258705 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
104258753 ATCTAATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
104258801 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
104258849 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
104258897 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
104258945 AT
1 AT
104258947 ATTTATCTTG
Statistics
Matches: 468, Mismatches: 14, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 468 1.00
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:104274459 original size:29 final size:29
Alignment explanation
Indices: 104274427--104274499 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
104274417 TGAAAAGTAT
* * *
104274427 GGCACTAAGTGTGCGAATTTAAATTATAC
1 GGCACTAAGTGTGCGAACTTAAATCACAC
* * *
104274456 GGCACTATGTGTGCGAGCTTAAATCACAT
1 GGCACTAAGTGTGCGAACTTAAATCACAC
104274485 GGCACTAAGTGTGCG
1 GGCACTAAGTGTGCG
104274500 TGATCGATTA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (29 bp):
GGCACTAAGTGTGCGAACTTAAATCACAC
Found at i:104278234 original size:46 final size:45
Alignment explanation
Indices: 104278184--104278356 Score: 172
Period size: 46 Copynumber: 3.8 Consensus size: 45
104278174 TGGTTGAGCA
104278184 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * * *
104278230 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
* *
104278275 CATCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGTGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * * *
104278323 CCCGATCTCATTGAGTTGAGTCCGAGATCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
104278357 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 58 0.56
47 28 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:104283347 original size:30 final size:30
Alignment explanation
Indices: 104283311--104283371 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
104283301 CTTTCATAAG
104283311 TATGTTTTAATAAAGGAATGTTTAGCGATT
1 TATGTTTTAATAAAGGAATGTTTAGCGATT
*
104283341 TATGTTTTAATAAATGAATGTTTAGCGATT
1 TATGTTTTAATAAAGGAATGTTTAGCGATT
104283371 T
1 T
104283372 TTTTTTGTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.03, G:0.18, T:0.46
Consensus pattern (30 bp):
TATGTTTTAATAAAGGAATGTTTAGCGATT
Found at i:104292357 original size:10 final size:10
Alignment explanation
Indices: 104292342--104292372 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
104292332 AGCAAATCTG
104292342 TCAAAAATAA
1 TCAAAAATAA
104292352 TCAAAAATAA
1 TCAAAAATAA
*
104292362 TCAAAATTAA
1 TCAAAAATAA
104292372 T
1 T
104292373 TATAAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.65, C:0.10, G:0.00, T:0.26
Consensus pattern (10 bp):
TCAAAAATAA
Found at i:104293837 original size:45 final size:45
Alignment explanation
Indices: 104293760--104294022 Score: 185
Period size: 45 Copynumber: 5.8 Consensus size: 45
104293750 AATTGTTCAA
* * * * * *
104293760 GATGCCATAGCGTCTTTCAGCCATTGTCTTATTTATTTCTGACAT
1 GATGCCATAGTGCCTTTCAACTATGGTCTTATTCATTTCTGACAT
* * * *
104293805 GATGCCATAGTGCCTTTCAACTGTGGTATTATTCATTTCCGTCAT
1 GATGCCATAGTGCCTTTCAACTATGGTCTTATTCATTTCTGACAT
* * ** * * *
104293850 GTTGCCATAGCGTTTTTCAACTCTAGTCTTATTCATTTCCGGTACA-
1 GATGCCATAGTGCCTTTCAACTATGGTCTTATTCATTT-CTG-ACAT
* * *
104293896 G-TGTCATAGTGTCTTTCAACTATGGTCTTATTCATTTCTCG-TAT
1 GATGCCATAGTGCCTTTCAACTATGGTCTTATTCATTTCT-GACAT
* * * **
104293940 -AGTGCCATAGTGCCTTTC-ACTTATGGTCTTATTAATTCCCGGTAT
1 GA-TGCCATAGTGCCTTTCAAC-TATGGTCTTATTCATTTCTGACAT
* * * *
104293985 GGTGCTATTGTGTCTTTCAACTATGGTCTTATTCATTT
1 GATGCCATAGTGCCTTTCAACTATGGTCTTATTCATTT
104294023 TTCAAGCCAA
Statistics
Matches: 171, Mismatches: 37, Indels: 20
0.75 0.16 0.09
Matches are distributed among these distances:
43 1 0.01
44 4 0.02
45 159 0.93
46 5 0.03
47 2 0.01
ACGTcount: A:0.19, C:0.21, G:0.17, T:0.43
Consensus pattern (45 bp):
GATGCCATAGTGCCTTTCAACTATGGTCTTATTCATTTCTGACAT
Found at i:104293915 original size:90 final size:88
Alignment explanation
Indices: 104293810--104294022 Score: 243
Period size: 90 Copynumber: 2.4 Consensus size: 88
104293800 GACATGATGC
* * * **
104293810 CATAGTGCCTTTCAACTGTGGTATTATTCATTTC-CGTCAT-GTTGCCATAGCGTTTTTCAACTC
1 CATAGTGTCTTTCAACTATGGTCTTATTCATTTCTCGT-ATAG-TGCCATAGCGCCTTTC-ACT-
* *
104293873 TA-GTCTTATTCATTTCCGGTACAGTG
62 TAGGTCTTATTAATTCCCGGTACAGTG
*
104293899 TCATAGTGTCTTTCAACTATGGTCTTATTCATTTCTCGTATAGTGCCATAGTGCCTTTCACTTAT
1 -CATAGTGTCTTTCAACTATGGTCTTATTCATTTCTCGTATAGTGCCATAGCGCCTTTCACTTA-
**
104293964 GGTCTTATTAATTCCCGGTATGGTG
64 GGTCTTATTAATTCCCGGTACAGTG
*
104293989 CTATTGTGTCTTTCAACTATGGTCTTATTCATTT
1 C-ATAGTGTCTTTCAACTATGGTCTTATTCATTT
104294023 TTCAAGCCAA
Statistics
Matches: 107, Mismatches: 11, Indels: 10
0.84 0.09 0.08
Matches are distributed among these distances:
88 2 0.02
89 4 0.04
90 97 0.91
91 4 0.04
ACGTcount: A:0.19, C:0.21, G:0.16, T:0.44
Consensus pattern (88 bp):
CATAGTGTCTTTCAACTATGGTCTTATTCATTTCTCGTATAGTGCCATAGCGCCTTTCACTTAGG
TCTTATTAATTCCCGGTACAGTG
Found at i:104296893 original size:33 final size:33
Alignment explanation
Indices: 104296840--104296914 Score: 84
Period size: 33 Copynumber: 2.3 Consensus size: 33
104296830 GGCCCTGCCG
*
104296840 TGGTCTT-TCATTCACATGCCATAAACC-ACTTA
1 TGGTCTTATTATTCACATGCCATAAACCGAC-TA
**
104296872 TGGTCTTATTATTCA-ATTGCCATAGCCCGACTA
1 TGGTCTTATTATTCACA-TGCCATAAACCGACTA
104296905 TGGTCTTATT
1 TGGTCTTATT
104296915 CGGCAACTTG
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
32 8 0.22
33 27 0.73
34 2 0.05
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.39
Consensus pattern (33 bp):
TGGTCTTATTATTCACATGCCATAAACCGACTA
Found at i:104300096 original size:12 final size:12
Alignment explanation
Indices: 104300079--104300122 Score: 70
Period size: 12 Copynumber: 3.7 Consensus size: 12
104300069 ACTGACTTGG
104300079 GTCACACGACCA
1 GTCACACGACCA
*
104300091 GTCACACCACCA
1 GTCACACGACCA
*
104300103 GTCATACGACCA
1 GTCACACGACCA
104300115 GTCACACG
1 GTCACACG
104300123 CCTGTATATC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.32, C:0.41, G:0.16, T:0.11
Consensus pattern (12 bp):
GTCACACGACCA
Found at i:104300253 original size:18 final size:18
Alignment explanation
Indices: 104300230--104300267 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
104300220 TGGCCATTGA
104300230 ACAACACGACTGAGACAC
1 ACAACACGACTGAGACAC
*
104300248 ACAACACGGCTGAGACAC
1 ACAACACGACTGAGACAC
104300266 AC
1 AC
104300268 GCCCATGTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.34, G:0.18, T:0.05
Consensus pattern (18 bp):
ACAACACGACTGAGACAC
Found at i:104301281 original size:42 final size:41
Alignment explanation
Indices: 104301187--104301340 Score: 150
Period size: 43 Copynumber: 3.6 Consensus size: 41
104301177 CAATGCCAAC
* * * * *
104301187 GTCCCAGACGTGGTCTTACATGTAATCATATATCGATGCCACT
1 GTCCCAGACATGGTCTTACACGAAATCAAATA-CGATG-CAAT
* * *
104301230 GTCCTAGACAAGGTCTTACACGAAATCAAATACGATGTCGAT
1 GTCCCAGACATGGTCTTACACGAAATCAAATACGATG-CAAT
104301272 GTCCCAGACATGGTCTTACACGTAAATCATAAGT-CGATGCCAAT
1 GTCCCAGACATGGTCTTACACG-AAATCA-AA-TACGATG-CAAT
*
104301316 GTCCCAGACGTGGTCTTACAC-AAAT
1 GTCCCAGACATGGTCTTACACGAAAT
104301341 ACACATATTG
Statistics
Matches: 94, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
42 31 0.33
43 32 0.34
44 30 0.32
45 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.26
Consensus pattern (41 bp):
GTCCCAGACATGGTCTTACACGAAATCAAATACGATGCAAT
Found at i:104305167 original size:40 final size:40
Alignment explanation
Indices: 104305112--104305315 Score: 257
Period size: 40 Copynumber: 5.1 Consensus size: 40
104305102 TGAATGATAC
* *
104305112 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
104305152 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
104305192 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
104305232 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
104305272 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
104305312 CCGG
1 CCGG
104305316 TTAAATTCCG
Statistics
Matches: 143, Mismatches: 19, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
39 1 0.01
40 140 0.98
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:104313292 original size:40 final size:40
Alignment explanation
Indices: 104313237--104313440 Score: 257
Period size: 40 Copynumber: 5.1 Consensus size: 40
104313227 TGAATGATAC
* *
104313237 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
104313277 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
104313317 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
104313357 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
104313397 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
104313437 CCGG
1 CCGG
104313441 TTAAATTCCG
Statistics
Matches: 143, Mismatches: 19, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
39 1 0.01
40 140 0.98
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:104315423 original size:17 final size:17
Alignment explanation
Indices: 104315398--104315433 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
104315388 TAATGAGATA
* *
104315398 TTTTCTTATTTTATTAT
1 TTTTATTATATTATTAT
104315415 TTTTATTATATTATTAT
1 TTTTATTATATTATTAT
104315432 TT
1 TT
104315434 ATTTAGTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTATTATATTATTAT
Found at i:104315426 original size:14 final size:15
Alignment explanation
Indices: 104315403--104315436 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
104315393 AGATATTTTC
*
104315403 TTATTTTATTATT-T
1 TTATTATATTATTAT
104315417 TTATTATATTATTAT
1 TTATTATATTATTAT
104315432 TTATT
1 TTATT
104315437 TAGTATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
TTATTATATTATTAT
Found at i:104322306 original size:42 final size:43
Alignment explanation
Indices: 104322223--104322315 Score: 109
Period size: 42 Copynumber: 2.2 Consensus size: 43
104322213 CAATGCCCGT
* * *
104322223 GGTCTTACATGTAATCATATATCGATGCCACTATCCCAGACAG
1 GGTCTTACACGAAATCAAATATCGATGCCACTATCCCAGACAG
* * *
104322266 GGTCTTACACGAAATCAAATAT-GATGCCGA-TGTCCTAGACAT
1 GGTCTTACACGAAATCAAATATCGATGCC-ACTATCCCAGACAG
104322308 GGTCTTAC
1 GGTCTTAC
104322316 GTGTAAATCA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
42 23 0.53
43 20 0.47
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (43 bp):
GGTCTTACACGAAATCAAATATCGATGCCACTATCCCAGACAG
Found at i:104322347 original size:44 final size:42
Alignment explanation
Indices: 104322222--104322362 Score: 135
Period size: 44 Copynumber: 3.3 Consensus size: 42
104322212 CCAATGCCCG
* *
104322222 TGGTCTTACATGT-AATCATATATCGATGCCACTATCCCAGACA
1 TGGTCTTACATGTAAATCATA-ATCGATGCCAC-GTCCTAGACA
* * * *
104322265 GGGTCTTACACG-AAATCA-AATATGATGCCGATGTCCTAGACA
1 TGGTCTTACATGTAAATCATAAT-CGATGCC-ACGTCCTAGACA
* *
104322307 TGGTCTTACGTGTAAATCATAAGTCGATGCCAACGTCCTAGACG
1 TGGTCTTACATGTAAATCATAA-TCGATGCC-ACGTCCTAGACA
104322351 TGGTCTTACATG
1 TGGTCTTACATG
104322363 AATACATATA
Statistics
Matches: 78, Mismatches: 14, Indels: 11
0.76 0.14 0.11
Matches are distributed among these distances:
41 2 0.03
42 24 0.31
43 22 0.28
44 29 0.37
45 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (42 bp):
TGGTCTTACATGTAAATCATAATCGATGCCACGTCCTAGACA
Found at i:104323115 original size:41 final size:41
Alignment explanation
Indices: 104323058--104323140 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
104323048 GACATGGGCT
104323058 TGGTAGATTACTAAACAACGATTACAAAAACATAGAAATTA
1 TGGTAGATTACTAAACAACGATTACAAAAACATAGAAATTA
* *
104323099 TGGTATATTACTAAACAACGATTACAAAAACGTAGAAATTA
1 TGGTAGATTACTAAACAACGATTACAAAAACATAGAAATTA
104323140 T
1 T
104323141 CAAAAACCAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.49, C:0.12, G:0.12, T:0.27
Consensus pattern (41 bp):
TGGTAGATTACTAAACAACGATTACAAAAACATAGAAATTA
Found at i:104335072 original size:2 final size:2
Alignment explanation
Indices: 104335065--104335102 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
104335055 TATAAGTTGT
104335065 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
104335103 ATGGTTGATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:104337106 original size:40 final size:39
Alignment explanation
Indices: 104337061--104337268 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 39
104337051 CGGAATACAA
*
104337061 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
104337101 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
104337141 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
104337181 CCGGATTTAGTCACTAGCATAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
* * * * *
104337221 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
104337261 CCGGATAT
1 CCGGATAT
104337269 CATTTAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:104337208 original size:80 final size:81
Alignment explanation
Indices: 104337061--104337266 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
104337051 CGGAATACAA
* * * *
104337061 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
104337125 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
104337141 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAG-TC-ACTAGCATAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGA-TTAGAACGACTAGCACAAA
*
104337204 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
* * ** * *
104337221 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
104337267 ATCATTTAAT
Statistics
Matches: 109, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
79 1 0.01
80 104 0.95
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (81 bp):
CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:104342805 original size:17 final size:17
Alignment explanation
Indices: 104342785--104342846 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 17
104342775 TGAGCATGAT
*
104342785 TAAATAATTTAATAATA
1 TAAATAATTAAATAATA
* * *
104342802 TAAATAATAAAAAAATG
1 TAAATAATTAAATAATA
*
104342819 TGAAATTTAATTCAATAATA
1 T-AAA--TAATTAAATAATA
104342839 TAAATAAT
1 TAAATAAT
104342847 AGACATCACT
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
17 18 0.53
18 3 0.09
19 3 0.09
20 10 0.29
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (17 bp):
TAAATAATTAAATAATA
Found at i:104344935 original size:23 final size:24
Alignment explanation
Indices: 104344909--104344953 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
104344899 TTTAGAATAT
*
104344909 TTATTATTTTT-ATTTATAAAAAG
1 TTATAATTTTTAATTTATAAAAAG
*
104344932 TTATAATTTTTAATTTTTAAAA
1 TTATAATTTTTAATTTATAAAA
104344954 TATTTGTAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (24 bp):
TTATAATTTTTAATTTATAAAAAG
Found at i:104345468 original size:23 final size:22
Alignment explanation
Indices: 104345429--104345488 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 22
104345419 GAGTGAACTA
104345429 ATTAT-CTT-AAATAAAATGACT
1 ATTATGCTTAAAAT-AAATGACT
104345450 ACTTATGCTTAAAATAAATGA--
1 A-TTATGCTTAAAATAAATGACT
104345471 A--ATGCTTAAAATAAATGA
1 ATTATGCTTAAAATAAATGA
104345489 AAGTGTAACA
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
18 17 0.47
21 2 0.06
22 4 0.11
23 9 0.25
24 4 0.11
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.33
Consensus pattern (22 bp):
ATTATGCTTAAAATAAATGACT
Found at i:104345477 original size:18 final size:18
Alignment explanation
Indices: 104345454--104345490 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
104345444 ATGACTACTT
104345454 ATGCTTAAAATAAATGAA
1 ATGCTTAAAATAAATGAA
104345472 ATGCTTAAAATAAATGAA
1 ATGCTTAAAATAAATGAA
104345490 A
1 A
104345491 GTGTAACACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.57, C:0.05, G:0.11, T:0.27
Consensus pattern (18 bp):
ATGCTTAAAATAAATGAA
Found at i:104346570 original size:23 final size:22
Alignment explanation
Indices: 104346544--104346593 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
104346534 ACAAGTCTTT
* *
104346544 ATGGACAGTTTTGGGCACCTCTA
1 ATGGACAGGTTT-GCCACCTCTA
*
104346567 ATGGA-TGGTTTGCCACCTCTA
1 ATGGACAGGTTTGCCACCTCTA
104346588 ATGGAC
1 ATGGAC
104346594 GATTATCTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 14 0.61
22 4 0.17
23 5 0.22
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (22 bp):
ATGGACAGGTTTGCCACCTCTA
Found at i:104366795 original size:13 final size:13
Alignment explanation
Indices: 104366774--104366813 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
104366764 GAAGTAATCG
104366774 CACACGGGCGTGT
1 CACACGGGCGTGT
* *
104366787 CACATGGGCATGT
1 CACACGGGCGTGT
104366800 CACACGGGCGTGT
1 CACACGGGCGTGT
104366813 C
1 C
104366814 CTTGCCGAGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.17, C:0.30, G:0.35, T:0.17
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:104372229 original size:45 final size:45
Alignment explanation
Indices: 104372160--104372289 Score: 183
Period size: 45 Copynumber: 2.9 Consensus size: 45
104372150 GTTGTACAGT
* * *
104372160 ATTATTCGGGCCTTGGAGCTTAGCAGGCTATAATGCTGGTGAGAC
1 ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGAC
* *
104372205 ATTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGAT
1 ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGAC
* *
104372250 ATTTTTCGGGCC-TCGAGCCTAGCAGGC-AAAATGCCGGTGA
1 ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
104372290 ATAAATTCGG
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
43 12 0.15
44 14 0.18
45 52 0.67
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (45 bp):
ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGAC
Found at i:104380277 original size:45 final size:45
Alignment explanation
Indices: 104380208--104380337 Score: 183
Period size: 45 Copynumber: 2.9 Consensus size: 45
104380198 GTTGTACAGT
* * *
104380208 ATTATTCGGGCCTTGGAGCTTAGCAGGCTATAATGCTGGTGAGAC
1 ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGAC
* *
104380253 ATTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGAT
1 ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGAC
* *
104380298 ATTTTTCGGGCC-TCGAGCCTAGCAGGC-AAAATGCCGGTGA
1 ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
104380338 ATAAATTCGG
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
43 12 0.15
44 14 0.18
45 52 0.67
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (45 bp):
ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGAC
Found at i:104392709 original size:28 final size:28
Alignment explanation
Indices: 104392667--104392758 Score: 112
Period size: 28 Copynumber: 3.3 Consensus size: 28
104392657 CATGTCATTG
*
104392667 GCCCGTGTCCTTCACACGGCTACGACAC
1 GCCCGTGTCCTTCACACGGCCACGACAC
* *
104392695 GCCCGTGTCCCTCACACTGCCACGACAC
1 GCCCGTGTCCTTCACACGGCCACGACAC
* * * *
104392723 ACCCGTATCCTTCACATGGCCATGACAC
1 GCCCGTGTCCTTCACACGGCCACGACAC
*
104392751 GTCCGTGT
1 GCCCGTGT
104392759 TCTAGCCCGT
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 52 1.00
ACGTcount: A:0.18, C:0.42, G:0.20, T:0.20
Consensus pattern (28 bp):
GCCCGTGTCCTTCACACGGCCACGACAC
Found at i:104393784 original size:47 final size:47
Alignment explanation
Indices: 104393711--104393885 Score: 180
Period size: 47 Copynumber: 3.7 Consensus size: 47
104393701 TAAAGTTCCA
* *
104393711 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCATATCTCAAGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAAGTCG
* * *
104393758 ATGCCATGTCCCAGACATGGTATTACACT-GACT-ATTATCTCGTAGTTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAG-CTCA-TATCTC-AAGTCG
* * *
104393806 ATG-CATATCCCAGACAT-GTCTTACACTAGCTCTTGTCTCAA-TACCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAAGT--CG
* *
104393852 ATACCATTTCCCAGACATGGTCTTACACTAGCTC
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTC
104393886 TCGTAATGTG
Statistics
Matches: 107, Mismatches: 12, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 21 0.20
47 62 0.58
48 22 0.21
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.30
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAAGTCG
Found at i:104393911 original size:47 final size:45
Alignment explanation
Indices: 104393805--104393931 Score: 123
Period size: 47 Copynumber: 2.7 Consensus size: 45
104393795 TCTCGTAGTT
*
104393805 GATGCATATCCCAGACATGTCTTACACTAGCTCTTGTCTCAATACC
1 GATGCATATCCCAGACATGTCTTACACTAGCTCTCG-CTCAATACC
* * *
104393851 GATACCATTTCCCAGACATGGTCTTACACTAGCTCTCG-T-AATGTGGCC
1 GAT-GCATATCCCAGACAT-GTCTTACACTAGCTCTCGCTCAA--T-ACC
* * *
104393899 GATGCATGTCCCAAACATGTCTTATACTAGCTC
1 GATGCATATCCCAGACATGTCTTACACTAGCTC
104393932 ACAAACAAAT
Statistics
Matches: 68, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
45 2 0.03
46 18 0.26
47 26 0.38
48 22 0.32
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (45 bp):
GATGCATATCCCAGACATGTCTTACACTAGCTCTCGCTCAATACC
Found at i:104397218 original size:50 final size:50
Alignment explanation
Indices: 104397138--104397238 Score: 166
Period size: 50 Copynumber: 2.0 Consensus size: 50
104397128 AGTAATAACC
*
104397138 TTCACGCAAACCAAGTAACCTAATCCAAACAACCTGTGACTCAATACCAT
1 TTCACGCAAACCAAGTAACCTAATCCAAACAACCTGCGACTCAATACCAT
* * *
104397188 TTCAGGCAAACCAGGTAATCTAATCCAAACAACCTGCGACTCAATACCAT
1 TTCACGCAAACCAAGTAACCTAATCCAAACAACCTGCGACTCAATACCAT
104397238 T
1 T
104397239 CTAACTTGTT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.39, C:0.31, G:0.10, T:0.21
Consensus pattern (50 bp):
TTCACGCAAACCAAGTAACCTAATCCAAACAACCTGCGACTCAATACCAT
Found at i:104399074 original size:24 final size:24
Alignment explanation
Indices: 104399044--104399098 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
104399034 TTAATTTTCA
*
104399044 TAATATA-AATTCACCATAATTAGT
1 TAATATATAATT-ACCATAATTAAT
*
104399068 TAATATATAATTATCATAATTAAT
1 TAATATATAATTACCATAATTAAT
104399092 TAATATA
1 TAATATA
104399099 GGTAATAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 24 0.86
25 4 0.14
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (24 bp):
TAATATATAATTACCATAATTAAT
Found at i:104413875 original size:12 final size:12
Alignment explanation
Indices: 104413860--104413890 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
104413850 TTCTCTTTTA
104413860 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
104413872 TTTTTCTTTCTC
1 TTTTTCTTTCCC
104413884 TTTTTCT
1 TTTTTCT
104413891 CCCCTGTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:104413991 original size:16 final size:16
Alignment explanation
Indices: 104413970--104414000 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
104413960 TTTATTATTT
104413970 TATTAACATAATATAA
1 TATTAACATAATATAA
*
104413986 TATTAATATAATATA
1 TATTAACATAATATA
104414001 TTAAAATATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TATTAACATAATATAA
Found at i:104414440 original size:36 final size:35
Alignment explanation
Indices: 104414399--104414488 Score: 137
Period size: 36 Copynumber: 2.5 Consensus size: 35
104414389 GCTTAATTTC
104414399 CATTTTAATCCTTTTTATTTTCTATTG-CTTTATAAT
1 CATTTTAATCCTTTTTATTTTCTATTGCCTTTAT--T
*
104414435 TATTTTAATCCTTTTTATTTTCTATTGCCTTTATT
1 CATTTTAATCCTTTTTATTTTCTATTGCCTTTATT
*
104414470 CAATTTAATCCTTTTTATT
1 CATTTTAATCCTTTTTATT
104414489 ACTTACTCTA
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
35 18 0.36
36 26 0.52
37 6 0.12
ACGTcount: A:0.21, C:0.14, G:0.02, T:0.62
Consensus pattern (35 bp):
CATTTTAATCCTTTTTATTTTCTATTGCCTTTATT
Found at i:104415831 original size:23 final size:23
Alignment explanation
Indices: 104415803--104415876 Score: 68
Period size: 23 Copynumber: 3.3 Consensus size: 23
104415793 GAATACCACA
104415803 AAATACACTTACCCAGTAAAAAC
1 AAATACACTTACCCAGTAAAAAC
*
104415826 AAAT--ACTT---CACTAAATACCAC
1 AAATACACTTACCCAGTAAA-A--AC
104415847 AGAATACACTTACCCAGTAAAAAC
1 A-AATACACTTACCCAGTAAAAAC
104415871 AAATAC
1 AAATAC
104415877 TTCACTAACT
Statistics
Matches: 40, Mismatches: 2, Indels: 18
0.67 0.03 0.30
Matches are distributed among these distances:
18 6 0.15
19 1 0.03
21 7 0.17
22 3 0.08
23 9 0.22
24 7 0.17
26 1 0.03
27 6 0.15
ACGTcount: A:0.51, C:0.26, G:0.04, T:0.19
Consensus pattern (23 bp):
AAATACACTTACCCAGTAAAAAC
Found at i:104415858 original size:45 final size:45
Alignment explanation
Indices: 104415794--104415884 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
104415784 TCAAATGGAG
104415794 AATACCACAAAATACACTTACCCAGTAAAAACAAATACTTCACTA
1 AATACCACAAAATACACTTACCCAGTAAAAACAAATACTTCACTA
*
104415839 AATACCACAGAATACACTTACCCAGTAAAAACAAATACTTCACTA
1 AATACCACAAAATACACTTACCCAGTAAAAACAAATACTTCACTA
104415884 A
1 A
104415885 CTTAATCATT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.51, C:0.26, G:0.03, T:0.20
Consensus pattern (45 bp):
AATACCACAAAATACACTTACCCAGTAAAAACAAATACTTCACTA
Found at i:104420709 original size:29 final size:29
Alignment explanation
Indices: 104420677--104420811 Score: 155
Period size: 29 Copynumber: 4.7 Consensus size: 29
104420667 ATACCCTCCG
** * *
104420677 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
104420706 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
104420735 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
104420764 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
104420793 AGCACGCACACTTAGTGCC
1 AGCTCGCACACTTAGTGCC
104420812 GATCTCGTCA
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 92 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:104420744 original size:58 final size:58
Alignment explanation
Indices: 104420623--104420812 Score: 179
Period size: 58 Copynumber: 3.3 Consensus size: 58
104420613 TACTCGATTT
* * * *** *
104420623 CGCACACTTAGTGCCACGTA-ATTT-AAGCCCGCACACACAGTGCCATA-CCCTCCGAGCT
1 CGCACACTTAGTG-C-CGTATATTTCCAGCACGCACACATAGTGCCATATATTTCC-AGCA
** * ** * *
104420681 CGCACACCCAGTGCCGTATTTTTCCAGCTTGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
* * *
104420739 TGCACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
104420797 CGCACACTTAGTGCCG
1 CGCACACTTAGTGCCG
104420813 ATCTCGTCAC
Statistics
Matches: 105, Mismatches: 24, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
56 4 0.04
57 4 0.04
58 94 0.90
59 3 0.03
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
Found at i:104428811 original size:29 final size:29
Alignment explanation
Indices: 104428779--104428913 Score: 155
Period size: 29 Copynumber: 4.7 Consensus size: 29
104428769 ATACCCTCCG
** * *
104428779 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
104428808 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
104428837 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
104428866 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
104428895 AGCACGCACACTTAGTGCC
1 AGCTCGCACACTTAGTGCC
104428914 GATCTCGTCA
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 92 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:104428846 original size:58 final size:58
Alignment explanation
Indices: 104428725--104428914 Score: 179
Period size: 58 Copynumber: 3.3 Consensus size: 58
104428715 TACTCGATTT
* * * *** *
104428725 CGCACACTTAGTGCCACGTA-ATTT-AAGCCCGCACACACAGTGCCATA-CCCTCCGAGCT
1 CGCACACTTAGTG-C-CGTATATTTCCAGCACGCACACATAGTGCCATATATTTCC-AGCA
** * ** * *
104428783 CGCACACCCAGTGCCGTATTTTTCCAGCTTGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
* * *
104428841 TGCACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
104428899 CGCACACTTAGTGCCG
1 CGCACACTTAGTGCCG
104428915 ATCTCGTCAC
Statistics
Matches: 105, Mismatches: 24, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
56 4 0.04
57 4 0.04
58 94 0.90
59 3 0.03
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
Found at i:104432288 original size:40 final size:40
Alignment explanation
Indices: 104432214--104432367 Score: 157
Period size: 40 Copynumber: 3.9 Consensus size: 40
104432204 CCGCACCAAG
* * * * * *
104432214 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
104432254 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
** * *
104432294 GCCTTCGGGTCTTAGCCCGGATATAATTACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * *
104432334 GTCC-TCGGGACTTAGCCCGGATATCACAATTTGC
1 G-CCTTCGGGTCTTAGCCCGGATATAACAACTTGC
104432368 TCATGCACAC
Statistics
Matches: 93, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
40 91 0.98
41 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:104440401 original size:40 final size:40
Alignment explanation
Indices: 104440327--104440480 Score: 157
Period size: 40 Copynumber: 3.9 Consensus size: 40
104440317 CCGCACCAAG
* * * * * *
104440327 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
104440367 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
** * *
104440407 GCCTTCGGGTCTTAGCCCGGATATAATTACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * *
104440447 GTCC-TCGGGACTTAGCCCGGATATCACAATTTGC
1 G-CCTTCGGGTCTTAGCCCGGATATAACAACTTGC
104440481 TCATGCACAC
Statistics
Matches: 93, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
40 91 0.98
41 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:104445454 original size:15 final size:16
Alignment explanation
Indices: 104445434--104445470 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
104445424 ATTTTCATAT
104445434 TTTAAAAAT-ACAAAA
1 TTTAAAAATGACAAAA
*
104445449 TTTAAAAATGACTAAA
1 TTTAAAAATGACAAAA
104445465 -TTAAAA
1 TTTAAAA
104445471 TATAAATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 15 0.75
16 5 0.25
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (16 bp):
TTTAAAAATGACAAAA
Found at i:104459149 original size:14 final size:15
Alignment explanation
Indices: 104459130--104459168 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
104459120 TATTTTATTG
104459130 AAAATGATTTCTG-A
1 AAAATGATTTCTGAA
*
104459144 AAAATGATTTTTGAA
1 AAAATGATTTCTGAA
104459159 AAAATGATTT
1 AAAATGATTT
104459169 ATTTTTTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.46, C:0.03, G:0.13, T:0.38
Consensus pattern (15 bp):
AAAATGATTTCTGAA
Found at i:104459197 original size:21 final size:21
Alignment explanation
Indices: 104459151--104459196 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
104459141 TGAAAAATGA
*
104459151 TTTTTGAAAAAATGATTTATT
1 TTTTTGAAAAAATGATATATT
104459172 TTTTTGAAAAAATGA-ATATT
1 TTTTTGAAAAAATGATATATT
104459192 TTTTT
1 TTTTT
104459197 TTGTATTTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (21 bp):
TTTTTGAAAAAATGATATATT
Found at i:104460151 original size:13 final size:14
Alignment explanation
Indices: 104460109--104460155 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 14
104460099 AATAATACAT
*
104460109 AAATAATATTATTTA
1 AAATATTATTA-TTA
* *
104460124 AATTATTATTTTTA
1 AAATATTATTATTA
104460138 AAAT-TTATTATTA
1 AAATATTATTATTA
104460151 AAATA
1 AAATA
104460156 ATAAATTATA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
13 12 0.46
14 6 0.23
15 8 0.31
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
AAATATTATTATTA
Found at i:104461706 original size:19 final size:20
Alignment explanation
Indices: 104461672--104461712 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
104461662 TTACAAAAAT
* *
104461672 AAATTTAAAATAATTTTTAA
1 AAATTAAAAATAATTTATAA
104461692 AAATTAAAAAT-ATTTATAA
1 AAATTAAAAATAATTTATAA
104461711 AA
1 AA
104461713 TTTTAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
AAATTAAAAATAATTTATAA
Found at i:104461720 original size:19 final size:19
Alignment explanation
Indices: 104461672--104461727 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
104461662 TTACAAAAAT
*
104461672 AAATTTAAAATAATTTTTAA
1 AAATTTAAAAT-ATTTATAA
*
104461692 AAATTAAAAATATTTATAA
1 AAATTTAAAATATTTATAA
*
104461711 AATTTTAAAAT-TTTATA
1 AAATTTAAAATATTTATA
104461728 TTTTTTAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
18 6 0.19
19 16 0.50
20 10 0.31
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
AAATTTAAAATATTTATAA
Found at i:104461723 original size:17 final size:17
Alignment explanation
Indices: 104461686--104461754 Score: 59
Period size: 17 Copynumber: 4.0 Consensus size: 17
104461676 TTAAAATAAT
104461686 TTTTAAAAATTA-AAAA
1 TTTTAAAAATTATAAAA
*
104461702 TATTTATAAAATTTTAAAA
1 T-TTTA-AAAATTATAAAA
* ** *
104461721 TTTTATATTTTTTAAAA
1 TTTTAAAAATTATAAAA
*
104461738 TTATAAAAATTATAAAA
1 TTTTAAAAATTATAAAA
104461755 AATTCTAAAG
Statistics
Matches: 41, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
16 1 0.02
17 25 0.61
18 10 0.24
19 5 0.12
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TTTTAAAAATTATAAAA
Found at i:104464879 original size:29 final size:29
Alignment explanation
Indices: 104464840--104464918 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
104464830 CTTAATAATC
*
104464840 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
104464870 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
104464899 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
104464919 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:104465576 original size:8 final size:8
Alignment explanation
Indices: 104465563--104465597 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
104465553 GCCGAATATG
104465563 TATATCTA
1 TATATCTA
104465571 TATATCTA
1 TATATCTA
104465579 TATATCTA
1 TATATCTA
*
104465587 TATATATA
1 TATATCTA
104465595 TAT
1 TAT
104465598 CAACTATACT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (8 bp):
TATATCTA
Found at i:104465584 original size:16 final size:16
Alignment explanation
Indices: 104465558--104465597 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
104465548 TGATGGCCGA
*
104465558 ATATGTATATCTATAT
1 ATATATATATCTATAT
*
104465574 ATCTATATATCTATAT
1 ATATATATATCTATAT
104465590 ATATATAT
1 ATATATAT
104465598 CAACTATACT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (16 bp):
ATATATATATCTATAT
Found at i:104466822 original size:14 final size:14
Alignment explanation
Indices: 104466803--104466833 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
104466793 TTTTTTATAA
104466803 GTGTTGTCTGGTTC
1 GTGTTGTCTGGTTC
104466817 GTGTTGTCTGGTTC
1 GTGTTGTCTGGTTC
104466831 GTG
1 GTG
104466834 AATTAAAGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.00, C:0.13, G:0.39, T:0.48
Consensus pattern (14 bp):
GTGTTGTCTGGTTC
Found at i:104466917 original size:29 final size:29
Alignment explanation
Indices: 104466885--104466944 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
104466875 GTGGAAAAGG
104466885 TTGTGTTGATTGAAAGCTCGGAACATTCT
1 TTGTGTTGATTGAAAGCTCGGAACATTCT
*
104466914 TTGTGTTGGTTGAAAGCTCGGAACATTCT
1 TTGTGTTGATTGAAAGCTCGGAACATTCT
104466943 TT
1 TT
104466945 ACTGCCTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.22, C:0.13, G:0.25, T:0.40
Consensus pattern (29 bp):
TTGTGTTGATTGAAAGCTCGGAACATTCT
Found at i:104467103 original size:2 final size:2
Alignment explanation
Indices: 104467096--104467135 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
104467086 TGAAGGATAA
104467096 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
104467136 GAATTTGAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:104467661 original size:24 final size:24
Alignment explanation
Indices: 104467646--104467697 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
104467636 AATCAAAGTC
104467646 AAATATATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATGCT
* * *
104467670 AAATATATTATACTCATAAATACT
1 AAATATATTATGCTAATAAATGCT
104467694 AAAT
1 AAAT
104467698 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATGCT
Found at i:104473160 original size:29 final size:29
Alignment explanation
Indices: 104473103--104473234 Score: 131
Period size: 29 Copynumber: 4.6 Consensus size: 29
104473093 AATTTAAGCC
*** *
104473103 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACATAGTGCCATATATTTCCAGCT
** * *
104473132 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACATAGTGCCATATATTTCCAGCT
* *
104473161 TGCACACATAGTGTCATATATTTCCAGCAT
1 CGCACACATAGTGCCATATATTTCCAGC-T
* *
104473191 -GCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACATAGTGCCATATATTTCCAGCT
*
104473219 CGCACACTTAGTGCCA
1 CGCACACATAGTGCCA
104473235 ATCTCGTCAC
Statistics
Matches: 85, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
29 84 0.99
30 1 0.01
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACATAGTGCCATATATTTCCAGCT
Found at i:104480925 original size:29 final size:29
Alignment explanation
Indices: 104480893--104481024 Score: 138
Period size: 29 Copynumber: 4.6 Consensus size: 29
104480883 AATTTAAGCC
*** * *
104480893 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACATAGTGCCATATATTTCCAGCA
** * * *
104480922 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACATAGTGCCATATATTTCCAGCA
* *
104480951 TGCACACATAGTGTCATATATTTCCAGCA
1 CGCACACATAGTGCCATATATTTCCAGCA
*
104480980 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACATAGTGCCATATATTTCCAGCA
*
104481009 CGCACACTTAGTGCCA
1 CGCACACATAGTGCCA
104481025 ATCTCGTCAC
Statistics
Matches: 86, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 86 1.00
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACATAGTGCCATATATTTCCAGCA
Found at i:104482597 original size:47 final size:47
Alignment explanation
Indices: 104482528--104482699 Score: 218
Period size: 47 Copynumber: 3.6 Consensus size: 47
104482518 CTTCGGGACT
* * * *
104482528 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATTGGCCACTAGGCCC
* *
104482575 TATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATTGGCCACTAGGCCC
* * * *
104482622 TATCACATATATACACTTTCACATTCATCGCATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATTGGCCACTAGGCCC
* *
104482669 TATCTCATATTTATACACATTCACATTCATC
1 TATCACATA--TATACACTTTCACATTCATC
104482700 GCGTAGAATC
Statistics
Matches: 113, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
47 94 0.83
49 19 0.17
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.34
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATTGGCCACTAGGCCC
Found at i:104485636 original size:40 final size:41
Alignment explanation
Indices: 104485579--104485764 Score: 179
Period size: 40 Copynumber: 4.6 Consensus size: 41
104485569 TCGAATGATG
* * *
104485579 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCTGAGTTACTAAA
*
104485619 TCCGGACTAAGAT-CCGAAGGCATTTGTAC-GAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCTGAGTTACTAAA
*
104485659 TCTGGACTAAGAT-CCGAAGGCATTTGTG-TGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCTGAGTTACTAAA
* ** * *
104485699 TCTGGGTTAAGTCCCGAAGGCCTTTGTGC-GAGCTACTATAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCTGAGTTACTA-AA
* * *
104485740 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGACTAAGTCCCGAAGGCATTTG
104485765 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
39 1 0.01
40 115 0.92
41 9 0.07
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.27
Consensus pattern (41 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCTGAGTTACTAAA
Done.