Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 160 of 343
Found at i:53019257 original size:13 final size:13
Alignment explanation
Indices: 53019223--53019264 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
53019213 TGCTGAAATA
*
53019223 AAAATAAATAATG
1 AAAATAAATAATC
53019236 AAAATAAATAATC
1 AAAATAAATAATC
*
53019249 AAGAA-AAATAAAC
1 AA-AATAAATAATC
53019262 AAA
1 AAA
53019265 CAAATTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 1 0.04
13 23 0.88
14 2 0.08
ACGTcount: A:0.74, C:0.05, G:0.05, T:0.17
Consensus pattern (13 bp):
AAAATAAATAATC
Found at i:53021608 original size:18 final size:18
Alignment explanation
Indices: 53021585--53021622 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
53021575 TGTTCTTAGG
*
53021585 AAAACC-TCTATTTGCATA
1 AAAACCGTCAATTT-CATA
53021603 AAAACCGTCAATTTCATA
1 AAAACCGTCAATTTCATA
53021621 AA
1 AA
53021623 TTAATTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.45, C:0.21, G:0.05, T:0.29
Consensus pattern (18 bp):
AAAACCGTCAATTTCATA
Found at i:53021959 original size:18 final size:18
Alignment explanation
Indices: 53021938--53021972 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
53021928 GATATAGTTT
53021938 CAAATTCAGATTCAGATC
1 CAAATTCAGATTCAGATC
53021956 CAAATTCAGATTCAGAT
1 CAAATTCAGATTCAGAT
53021973 TATAGAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (18 bp):
CAAATTCAGATTCAGATC
Found at i:53023262 original size:55 final size:55
Alignment explanation
Indices: 53023198--53023328 Score: 217
Period size: 55 Copynumber: 2.4 Consensus size: 55
53023188 CCCTTAGCCC
*
53023198 GTGTGCAACACTGACTTTAAAACACGACCATGACACACGCCCGTGTGGCCTGCCA
1 GTGTACAACACTGACTTTAAAACACGACCATGACACACGCCCGTGTGGCCTGCCA
* * *
53023253 GTGTACAACACTGACTTTAAAACACGACCATGACACACTCCCGTGTGGTCTGCCC
1 GTGTACAACACTGACTTTAAAACACGACCATGACACACGCCCGTGTGGCCTGCCA
*
53023308 GTGTTCAACACTGACTTTAAA
1 GTGTACAACACTGACTTTAAA
53023329 TTTTAAGTGC
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 71 1.00
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (55 bp):
GTGTACAACACTGACTTTAAAACACGACCATGACACACGCCCGTGTGGCCTGCCA
Found at i:53024161 original size:49 final size:48
Alignment explanation
Indices: 53024089--53024407 Score: 221
Period size: 49 Copynumber: 6.7 Consensus size: 48
53024079 GGGATATGTT
*
53024089 GCCGATGCCATGT-CCTGAACATGGTCTTACACTGGCTATCATCATCGAG
1 GCCGATG-CATGTCCCAG-ACATGGTCTTACACTGGCTATCATCATCGAG
* * * * *
53024138 GCCGATGCCATGTCCTAGACATGGTCTTATACTAGCTCTCATCTATACG-T
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTATCATC-AT-CGAG
** * * * * * * * **
53024188 GCTAATGCGTATCCCAGACA-CGTCTTACACTAG--AACAGCTTTTA-
1 GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTATCATCATCGAG
* * * *
53024232 GCTGATGCATGTCTCAGACA-CGTCTTACACTGGCTATCATCGTCGAG
1 GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTATCATCATCGAG
* * * * *
53024279 GTCGACGCATGTCCCAGACAT-GTCTTACACTGG-TGCTCATTC-TCTAC
1 GCCGATGCATGTCCCAGACATGGTCTTACACTGGCT-ATCA-TCATCGAG
* * *
53024326 ACCGATGTCATGTCCCAGACATGGTCTTACACTGGCTATCAT-ATTGTG
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTATCATCATCGAG
53024374 GCCGATGCATGTCCCAGACAT-GTCTTACACTGGC
1 GCCGATGCATGTCCCAGACATGGTCTTACACTGGC
53024408 ACACAAATAA
Statistics
Matches: 211, Mismatches: 45, Indels: 31
0.74 0.16 0.11
Matches are distributed among these distances:
44 28 0.13
45 1 0.00
46 23 0.11
47 52 0.25
48 35 0.17
49 60 0.28
50 10 0.05
51 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (48 bp):
GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTATCATCATCGAG
Found at i:53024345 original size:48 final size:46
Alignment explanation
Indices: 53024235--53024407 Score: 163
Period size: 47 Copynumber: 3.7 Consensus size: 46
53024225 GCTTTTAGCT
* * ** * *
53024235 GATGCATGTCTCAGACACGTCTTACACTGGCTATCATCGTC-GAGGTC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTATCATATTCTCA--CC
* *
53024282 GACGCATGTCCCAGACATGTCTTACACTGG-TGCTCAT-TCTCTACACC
1 GATGCATGTCCCAGACATGTCTTACACTGGCT-ATCATAT-TCT-CACC
* **
53024329 GATGTCATGTCCCAGACATGGTCTTACACTGGCTATCATATTGTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATATTCTCACC
53024377 GATGCATGTCCCAGACATGTCTTACACTGGC
1 GATGCATGTCCCAGACATGTCTTACACTGGC
53024408 ACACAAATAA
Statistics
Matches: 106, Mismatches: 12, Indels: 17
0.79 0.09 0.13
Matches are distributed among these distances:
46 14 0.13
47 51 0.48
48 20 0.19
49 19 0.18
50 2 0.02
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.28
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTATCATATTCTCACC
Found at i:53024386 original size:95 final size:94
Alignment explanation
Indices: 53024235--53024406 Score: 256
Period size: 95 Copynumber: 1.8 Consensus size: 94
53024225 GCTTTTAGCT
* * *
53024235 GATGCATGTCTCAGACACGTCTTACACTGGCTATCATCGTCGAGGTCGACGCATGTCCCAGACAT
1 GATGCATGTCCCAGACACGTCTTACACTGGCTATCATCATCGAGGCCGACGCATGTCCCAGACAT
53024300 GTCTTACACTGGTGCTCATTCTCTACACC
66 GTCTTACACTGGTGCTCATTCTCTACACC
* * * *
53024329 GATGTCATGTCCCAGACATGGTCTTACACTGGCTATCAT-ATTGTGGCCGATGCATGTCCCAGAC
1 GATG-CATGTCCCAGACA-CGTCTTACACTGGCTATCATCATCGAGGCCGACGCATGTCCCAGAC
53024393 ATGTCTTACACTGG
64 ATGTCTTACACTGG
53024407 CACACAAATA
Statistics
Matches: 69, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
94 4 0.06
95 46 0.67
96 19 0.28
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (94 bp):
GATGCATGTCCCAGACACGTCTTACACTGGCTATCATCATCGAGGCCGACGCATGTCCCAGACAT
GTCTTACACTGGTGCTCATTCTCTACACC
Found at i:53032360 original size:40 final size:40
Alignment explanation
Indices: 53032305--53032522 Score: 359
Period size: 40 Copynumber: 5.5 Consensus size: 40
53032295 CGGATGATAA
53032305 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
53032345 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
53032385 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
53032425 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
53032465 TCGGGCTAAGTCCCGAAGGCAGTTGAGTGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
53032505 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
53032523 TACTTGGTTT
Statistics
Matches: 169, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 17 0.10
40 152 0.90
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:53033631 original size:49 final size:49
Alignment explanation
Indices: 53033550--53033726 Score: 171
Period size: 49 Copynumber: 3.6 Consensus size: 49
53033540 TGTTGTGTGT
* * * *
53033550 CAGTGTAATACCTGTTTGGGACATGGCATCGACAATGATAGATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACACGGCATCGACAATGATAGATGAAAGC
* ** * *
53033599 CACG-GTAAGACCTGTCTGGGATACGGCATCGACCTTGATATATGAAAGT
1 CA-GTGTAAGACCTGTCTGGGACACGGCATCGACAATGATAGATGAAAGC
* * ** **
53033648 CAGTGTAAGACCTGTCTGGGACATGACATCGACTTTGAT-G-TGCTAGC
1 CAGTGTAAGACCTGTCTGGGACACGGCATCGACAATGATAGATGAAAGC
*
53033695 CAGTGTAAGACCATGTCTGGGACATGGCATCG
1 CAGTGTAAGACC-TGTCTGGGACACGGCATCG
53033727 GCATCTTATC
Statistics
Matches: 107, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
47 16 0.15
48 19 0.18
49 71 0.66
50 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACACGGCATCGACAATGATAGATGAAAGC
Found at i:53040275 original size:16 final size:15
Alignment explanation
Indices: 53040236--53040298 Score: 56
Period size: 15 Copynumber: 4.2 Consensus size: 15
53040226 TTTGATAATG
*
53040236 TATCTTGGATTTCTA
1 TATCTTGGATTTCTT
* *
53040251 AATCATGGAATTTCTT
1 TATCTTGG-ATTTCTT
*
53040267 TATCTTGGATATCTT
1 TATCTTGGATTTCTT
* *
53040282 TGTCTT-GACTTCTT
1 TATCTTGGATTTCTT
53040296 TAT
1 TAT
53040299 ATGGATTTTT
Statistics
Matches: 37, Mismatches: 10, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
14 8 0.22
15 17 0.46
16 12 0.32
ACGTcount: A:0.21, C:0.14, G:0.13, T:0.52
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:53042327 original size:30 final size:31
Alignment explanation
Indices: 53042278--53042341 Score: 121
Period size: 30 Copynumber: 2.1 Consensus size: 31
53042268 AAGTAAGTGA
53042278 TTTAGATGCCTATTTTTGATAATTTTTGTAC
1 TTTAGATGCCTATTTTTGATAATTTTTGTAC
53042309 TTTAGATGCCTA-TTTTGATAATTTTTGTAC
1 TTTAGATGCCTATTTTTGATAATTTTTGTAC
53042339 TTT
1 TTT
53042342 TGGAACCTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 21 0.64
31 12 0.36
ACGTcount: A:0.22, C:0.09, G:0.12, T:0.56
Consensus pattern (31 bp):
TTTAGATGCCTATTTTTGATAATTTTTGTAC
Found at i:53043324 original size:49 final size:49
Alignment explanation
Indices: 53043218--53043440 Score: 161
Period size: 49 Copynumber: 4.6 Consensus size: 49
53043208 TATGTGTGCT
* * ** * *
53043218 AGTGTAAAACATGTCTGGGACAT-GCATC-AGCCTCGGGATAT-ACAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGA-CCTCGATAGATGA-AAGCC
* *
53043266 AGTGTAAGACCTATCTGGGACATGGCATCGACAC-CGATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATAGATGAAAGCC
* * * * * * * *
53043315 AGTTTAAGACATGTCTGGGATACGGCATTGGCCTCGATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
* * * * **
53043364 AGTGTAAGACCTGTCTGGGACATGACATCGGCTTTGAT-G-TGCTAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
*
53043411 AGTGCAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGACC-TGTCTGGGACATGGCATC
53043441 AGCATCTTAT
Statistics
Matches: 137, Mismatches: 32, Indels: 12
0.76 0.18 0.07
Matches are distributed among these distances:
47 15 0.11
48 38 0.28
49 81 0.59
50 3 0.02
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
Found at i:53045447 original size:13 final size:13
Alignment explanation
Indices: 53045429--53045454 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
53045419 TTTTGGTTTA
53045429 GTTTTGAATCAAT
1 GTTTTGAATCAAT
53045442 GTTTTGAATCAAT
1 GTTTTGAATCAAT
53045455 CCCGATGTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
GTTTTGAATCAAT
Found at i:53059209 original size:43 final size:42
Alignment explanation
Indices: 53059151--53059260 Score: 114
Period size: 42 Copynumber: 2.6 Consensus size: 42
53059141 CAATGCCAAC
** * *
53059151 GTCCCAGACGTGGTCTTACATGTCATCAAACATCGATGCC-ACT
1 GTCCCAGACAAGGTCTTACATGTAATCAAACA-CGACGCCGA-T
* * * *
53059194 GTCCTAGACAAGGTCTTACACGAAATCAAATACGACGCCGAT
1 GTCCCAGACAAGGTCTTACATGTAATCAAACACGACGCCGAT
*
53059236 GTCCCAGACATGGTCTTACATGTAA
1 GTCCCAGACAAGGTCTTACATGTAA
53059261 AACAGAAGTC
Statistics
Matches: 54, Mismatches: 12, Indels: 3
0.78 0.17 0.04
Matches are distributed among these distances:
42 28 0.52
43 26 0.48
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (42 bp):
GTCCCAGACAAGGTCTTACATGTAATCAAACACGACGCCGAT
Found at i:53059251 original size:42 final size:43
Alignment explanation
Indices: 53059151--53059255 Score: 115
Period size: 43 Copynumber: 2.5 Consensus size: 43
53059141 CAATGCCAAC
* * ** *
53059151 GTCCCAGACGTGGTCTTACATGTCATCAAACATCGATGCCACT
1 GTCCCAGACATGGTCTTACACGAAATCAAACATCGACGCCACT
* * *
53059194 GTCCTAGACAAGGTCTTACACGAAATCAAATA-CGACGCCGA-T
1 GTCCCAGACATGGTCTTACACGAAATCAAACATCGACGCC-ACT
53059236 GTCCCAGACATGGTCTTACA
1 GTCCCAGACATGGTCTTACA
53059256 TGTAAAACAG
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
42 25 0.49
43 26 0.51
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.23
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGAAATCAAACATCGACGCCACT
Found at i:53060646 original size:23 final size:23
Alignment explanation
Indices: 53060620--53060679 Score: 93
Period size: 23 Copynumber: 2.6 Consensus size: 23
53060610 GGTCAAGCCT
*
53060620 CACACACCCGTGTGAAGGCAAGG
1 CACACGCCCGTGTGAAGGCAAGG
*
53060643 CACACGCCCGTATGAAGGCAAGG
1 CACACGCCCGTGTGAAGGCAAGG
*
53060666 CACATGCCCGTGTG
1 CACACGCCCGTGTG
53060680 CTTGGGGACA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.27, C:0.32, G:0.30, T:0.12
Consensus pattern (23 bp):
CACACGCCCGTGTGAAGGCAAGG
Found at i:53062977 original size:41 final size:41
Alignment explanation
Indices: 53062932--53063062 Score: 101
Period size: 39 Copynumber: 3.1 Consensus size: 41
53062922 AAAACATGTC
53062932 ATAAACATGTTGGGGTAGTGCATTATGTAAGGATTAATAAA
1 ATAAACATGTTGGGGTAGTGCATTATGTAAGGATTAATAAA
* * * * * *
53062973 ATAAAGA-GCAT-GGGT-G-GACAATATGTTATGG-CTAAAAACA
1 ATAAACATG-TTGGGGTAGTG-CATTATG-TAAGGATTAATAA-A
53063013 TGTCATAAACATGTTGGGGTAGTGCATTATGTAAGGATTAATAAA
1 ----ATAAACATGTTGGGGTAGTGCATTATGTAAGGATTAATAAA
53063058 ATAAA
1 ATAAA
53063063 GGGCATGGGC
Statistics
Matches: 65, Mismatches: 12, Indels: 26
0.63 0.12 0.25
Matches are distributed among these distances:
38 1 0.02
39 12 0.18
40 10 0.15
41 12 0.18
44 7 0.11
45 10 0.15
46 12 0.18
47 1 0.02
ACGTcount: A:0.40, C:0.07, G:0.24, T:0.29
Consensus pattern (41 bp):
ATAAACATGTTGGGGTAGTGCATTATGTAAGGATTAATAAA
Found at i:53063036 original size:85 final size:85
Alignment explanation
Indices: 53062893--53063071 Score: 340
Period size: 85 Copynumber: 2.1 Consensus size: 85
53062883 GGCCGGCCAT
53062893 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
53062958 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
53062978 GAGCATGGGTGGACAATATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
53063043 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
53063063 GGGCATGGG
1 GAGCATGGG
53063072 CAAAAAAATA
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 92 1.00
ACGTcount: A:0.37, C:0.08, G:0.27, T:0.27
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:53065305 original size:47 final size:47
Alignment explanation
Indices: 53065254--53065787 Score: 676
Period size: 47 Copynumber: 11.1 Consensus size: 47
53065244 TTAGGATTTT
* * *
53065254 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAGTGGGCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*** *
53065301 ATGTGATGAATGTGAACCCATATATATATATGTATGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C----ATGCGTATGTGTGATAAGGCCGAATGGCCA
53065354 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* * *
53065401 CTGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGACCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
***
53065448 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCGTATGTGTGATAAGGCCGAATGGCCA
53065499 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*** *
53065546 ATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C-----ATGCGTATGTGTGATAAGGCCGAATGGCCA
53065599 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
53065646 AT-TGATGAATGTGAACATGCGTATGTGTGATAAGGCCG-ATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* * *
53065691 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* ** * * *
53065738 ATATGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
53065785 ATG
1 ATG
53065788 CGAAACGTGT
Statistics
Matches: 429, Mismatches: 40, Indels: 36
0.85 0.08 0.07
Matches are distributed among these distances:
45 9 0.02
46 69 0.16
47 221 0.52
48 1 0.00
49 3 0.01
51 43 0.10
52 1 0.00
53 82 0.19
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
Found at i:53065373 original size:147 final size:144
Alignment explanation
Indices: 53065255--53065787 Score: 656
Period size: 145 Copynumber: 3.7 Consensus size: 144
53065245 TAGGATTTTA
* **
53065255 TGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAGTGGGCAATGTGATGAATGTGAACCC
1 TGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGACCAATGTGATGAATGTGAACCC
53065320 ATATATATATATGTATGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGA
66 --ATATATATATGTATGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGA
53065385 TAAGGCCGAATGGCCAC
129 TAAGG-CGAATGGCCAC
53065402 TGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGACCAATGTGATGAATGTGAACCC
1 TGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGACCAATGTGATGAATGTGAACCC
* *
53065467 GTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATA
66 ATATATATATGTATGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATA
*
53065532 AGGCCGAATGGCCAA
131 AGG-CGAATGGCCAC
* *** * *
53065547 TGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGT
1 TGTGATGGATGTGAA-C-----ATGCGTATGTGTGATAAGGCCGAATGACCAATGTGATGAATGT
*** *
53065612 GAA--C--ATGCGTATGTGTGATAAGGCCGAATGGCCAAT-TGATGAATGTGAACATGCGTATGT
60 GAACCCATATATATATGTATGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGT
*
53065672 GTGATAAGGCCG-ATGGCCAA
125 GTGATAAGG-CGAATGGCCAC
* * * * * *
53065692 TGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATATGATGAATGTGAA--C
1 TGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGACCAATGTGATGAATGTGAACCC
* *
53065755 ATGA-ATATATG--TGGTAAGGCCGAATGGCTAATG
66 AT-ATATATATGTATGATAAGGCCGAATGGCCAATG
53065788 CGAAACGTGT
Statistics
Matches: 350, Mismatches: 26, Indels: 27
0.87 0.06 0.07
Matches are distributed among these distances:
139 60 0.17
141 4 0.01
142 1 0.00
144 1 0.00
145 114 0.33
146 37 0.11
147 91 0.26
149 1 0.00
151 41 0.12
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.26
Consensus pattern (144 bp):
TGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGACCAATGTGATGAATGTGAACCC
ATATATATATGTATGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATA
AGGCGAATGGCCAC
Found at i:53065374 original size:100 final size:94
Alignment explanation
Indices: 53065254--53065787 Score: 676
Period size: 100 Copynumber: 5.5 Consensus size: 94
53065244 TTAGGATTTT
* * * *
53065254 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAGTGGGCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA--
*** *
53065319 CATATATATATATGTATGATAAGGCCGAATGGCCA
64 C----ATGCGTATGTGTGATAAGGCCGAATGGCCA
* * *
53065354 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCACTGTGATGGATGTGAACA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
*
53065419 TGCGTATGTGTGATAAGGCCGAATGACCA
66 TGCGTATGTGTGATAAGGCCGAATGGCCA
**
53065448 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
1 ATGTGATGAATGTGAA--C--ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
53065513 AACATGCGTATGTGTGATAAGGCCGAATGGCCA
62 AACATGCGTATGTGTGATAAGGCCGAATGGCCA
** *
53065546 ATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATG
1 ATGTGATGAATGTGAA-C-----ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATG
53065611 TGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
60 TGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*
53065646 AT-TGATGAATGTGAACATGCGTATGTGTGATAAGGCCG-ATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* * *
53065709 TGCATATATGAGATAAGGCCGAATGGCCA
66 TGCGTATGTGTGATAAGGCCGAATGGCCA
* * * * *
53065738 ATATGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTAATG
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATG
53065788 CGAAACGTGT
Statistics
Matches: 395, Mismatches: 30, Indels: 24
0.88 0.07 0.05
Matches are distributed among these distances:
92 53 0.13
93 50 0.13
94 50 0.13
96 1 0.00
97 2 0.01
98 89 0.23
99 13 0.03
100 137 0.35
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.26
Consensus pattern (94 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TGCGTATGTGTGATAAGGCCGAATGGCCA
Found at i:53065503 original size:24 final size:24
Alignment explanation
Indices: 53065475--53065550 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
53065465 CCGTATATAT
53065475 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
* * **
53065499 ATGTGATGA-ATGTG--AACAT-GCGT
1 ATGTG-TGATAAG-GCCGA-ATGGCCA
53065522 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
53065546 ATGTG
1 ATGTG
53065551 ATGAATGTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
22 4 0.11
23 12 0.32
24 17 0.46
25 4 0.11
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.25
Consensus pattern (24 bp):
ATGTGTGATAAGGCCGAATGGCCA
Found at i:53065850 original size:46 final size:46
Alignment explanation
Indices: 53065761--53065851 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
53065751 GAACATGAAT
* * * *
53065761 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
* * *
53065807 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTACGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATG
53065852 TGTATATATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.33, C:0.10, G:0.32, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
Found at i:53066104 original size:37 final size:37
Alignment explanation
Indices: 53065996--53066104 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
53065986 GGAAATATAT
*
53065996 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
53066033 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
53066070 TCCGGGTAAGACCCGATAACTTCATGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
53066105 CGTCTGAGCT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:53067799 original size:40 final size:40
Alignment explanation
Indices: 53067358--53067787 Score: 675
Period size: 40 Copynumber: 10.8 Consensus size: 40
53067348 GAGAATTGAG
*
53067358 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* *
53067398 AGTGATGTATCCGGGCTAAGTCTCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
53067438 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* *
53067478 AGTGATCTATCCGAGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* *
53067518 AGTGGTATATCCGAGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
53067558 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
53067598 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
53067638 AGTG--ATATCTGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * *
53067676 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* ** *
53067716 AGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * * *
53067756 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCA
53067788 ATCATGCTGG
Statistics
Matches: 361, Mismatches: 27, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
38 37 0.10
40 324 0.90
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.25
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
Found at i:53068063 original size:29 final size:28
Alignment explanation
Indices: 53068031--53068105 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 28
53068021 TTTTAACCGA
* *
53068031 GCACTATGTGTGTGAAATCGGTAATTGAG
1 GCACTATGTGTGTGAAATCGATAAGTG-G
* * *
53068060 GCACTATGTGTGCGAGATCGATCAGTGG
1 GCACTATGTGTGTGAAATCGATAAGTGG
*
53068088 GCACTAAGTGTGTGAAAT
1 GCACTATGTGTGTGAAAT
53068106 GAGATTCATG
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
28 16 0.42
29 22 0.58
ACGTcount: A:0.27, C:0.13, G:0.32, T:0.28
Consensus pattern (28 bp):
GCACTATGTGTGTGAAATCGATAAGTGG
Found at i:53069669 original size:85 final size:85
Alignment explanation
Indices: 53069526--53069704 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
53069516 GGCCGGCCAT
53069526 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
53069591 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
53069611 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
53069676 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
53069696 GGGCATGGG
1 GAGCATGGG
53069705 CAATAAAATA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.37, C:0.08, G:0.28, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:53071932 original size:47 final size:47
Alignment explanation
Indices: 53071881--53072704 Score: 1126
Period size: 47 Copynumber: 17.1 Consensus size: 47
53071871 TTAGGATTTT
*
53071881 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
***
53071928 ATGTGATGAATGTGAACCCATATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCGTATGTGTGATAAGGCCGAATGGCCA
53071979 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* * *
53072026 CTGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGACCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* ***
53072073 ATGTGATGAATGTGAACCCGTATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--CATGCGTATGTGTGATAAGGCCGAATGGCCA
53072122 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*** *
53072169 ATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C-----ATGCGTATGTGTGATAAGGCCGAATGGCCA
53072222 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
53072269 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* * * * *
53072316 CTGTGATGGATTTGAACATGCATATGTGTGATAAGGCCGAATGACCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
***
53072363 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCGTATGTGTGATAAGGCCGAATGGCCA
53072414 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*** *
53072461 ATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C-----ATGCGTATGTGTGATAAGGCCGAATGGCCA
53072514 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*
53072561 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGGATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* * *
53072608 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
** * * *
53072655 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCGA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
53072702 ATG
1 ATG
53072705 CGAAACGTGT
Statistics
Matches: 695, Mismatches: 60, Indels: 44
0.87 0.08 0.06
Matches are distributed among these distances:
47 475 0.68
48 2 0.00
49 46 0.07
51 86 0.12
52 2 0.00
53 84 0.12
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
Found at i:53072249 original size:23 final size:23
Alignment explanation
Indices: 53072222--53072296 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
53072212 CGAATGGCCA
53072222 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
* * **
53072245 ATGTG-TGATAAG-G-CCGAATGGCCA
1 ATGTGATGA-ATGTGAAC--AT-GCGT
53072269 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
53072292 ATGTG
1 ATGTG
53072297 TGATAAGGCC
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
21 1 0.03
22 4 0.11
23 16 0.43
24 11 0.30
25 4 0.11
26 1 0.03
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.28
Consensus pattern (23 bp):
ATGTGATGAATGTGAACATGCGT
Found at i:53072418 original size:24 final size:24
Alignment explanation
Indices: 53072390--53072465 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
53072380 CCGTATATAT
53072390 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
* * **
53072414 ATGTGATGA-ATGTG--AACAT-GCGT
1 ATGTG-TGATAAG-GCCGA-ATGGCCA
53072437 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
53072461 ATGTG
1 ATGTG
53072466 ATGAATGTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
22 4 0.11
23 12 0.32
24 17 0.46
25 4 0.11
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.25
Consensus pattern (24 bp):
ATGTGTGATAAGGCCGAATGGCCA
Found at i:53072537 original size:292 final size:291
Alignment explanation
Indices: 53071903--53072704 Score: 1396
Period size: 292 Copynumber: 2.8 Consensus size: 291
53071893 TGAACATGCG
* ***
53071903 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCATATATATATGTGTGATAAGG
1 TATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA--C--ATGCGTATGTGTGATAAGG
53071968 CCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCACTGTGAT
62 CCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCACTGTGAT
*
53072033 GGATGTGAACATGCGTATGTGTGATAAGGCCGAATGACCAATGTGATGAATGTGAACCCG-TATA
127 GGATGTGAACATGCATATGTGTGATAAGGCCGAATGACCAATGTGATGAATGTGAACCCGATATA
53072097 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGA
192 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGA
53072162 ATGGCCAATGTGATGAATGTGAACCTGTATATATA
257 ATGGCCAATGTGATGAATGTGAACCTGTATATATA
53072197 TATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGA
1 TATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGA
53072262 ATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCACTGTGATGGAT
66 ATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCACTGTGATGGAT
*
53072327 TTGAACATGCATATGTGTGATAAGGCCGAATGACCAATGTGATGAATGTGAACCCGTATATATAT
131 GTGAACATGCATATGTGTGATAAGGCCGAATGACCAATGTGATGAATGTGAACCCG-ATATATAT
53072392 GTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATG
195 GTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATG
53072457 GCCAATGTGATGAATGTGAACCTGTATATATA
260 GCCAATGTGATGAATGTGAACCTGTATATATA
53072489 TATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGA
1 TATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGA
* * *
53072554 ATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGGATGGCCAATGTGATGAAT
66 ATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCACTGTGATGGAT
* * * **
53072619 GTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGA-ATATATG
131 GTGAACATGCATATGTGTGATAAGGCCGAATGACCAATGTGATGAATGTGAACCCGATATATATG
*
53072683 TG-G-TAAGGCCGAATGGCGAATG
196 TGTGATAAGGCCGAATGGCCAATG
53072705 CGAAACGTGT
Statistics
Matches: 490, Mismatches: 16, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
288 18 0.04
289 1 0.00
290 148 0.30
291 1 0.00
292 282 0.58
294 40 0.08
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.26
Consensus pattern (291 bp):
TATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGA
ATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCACTGTGATGGAT
GTGAACATGCATATGTGTGATAAGGCCGAATGACCAATGTGATGAATGTGAACCCGATATATATG
TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGG
CCAATGTGATGAATGTGAACCTGTATATATA
Found at i:53072541 original size:23 final size:23
Alignment explanation
Indices: 53072514--53072588 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
53072504 CGAATGGCCA
53072514 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
* * **
53072537 ATGTG-TGATAAG-G-CCGAATGGCCA
1 ATGTGATGA-ATGTGAAC--AT-GCGT
53072561 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
53072584 ATGTG
1 ATGTG
53072589 TGATAAGGCC
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
21 1 0.03
22 4 0.11
23 16 0.43
24 11 0.30
25 4 0.11
26 1 0.03
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.28
Consensus pattern (23 bp):
ATGTGATGAATGTGAACATGCGT
Found at i:53073058 original size:37 final size:37
Alignment explanation
Indices: 53072913--53073057 Score: 236
Period size: 37 Copynumber: 3.9 Consensus size: 37
53072903 GGAAATATAT
53072913 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
53072950 TCCGGGTAAGACCCGATGACTACGTGTCGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
53072987 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * * *
53073024 TCCGGGTAAGACCCAATAACTTCATGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
53073058 TCGTCTGAGC
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 101 1.00
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:53077428 original size:12 final size:12
Alignment explanation
Indices: 53077413--53077471 Score: 73
Period size: 12 Copynumber: 4.9 Consensus size: 12
53077403 ATATAATTTT
*
53077413 AGATTCAGATTC
1 AGATTTAGATTC
* *
53077425 AGATTCAGATCC
1 AGATTTAGATTC
*
53077437 AGATTTAGATTT
1 AGATTTAGATTC
*
53077449 AGATTTAGATCC
1 AGATTTAGATTC
53077461 AGATTTAGATT
1 AGATTTAGATT
53077472 TACATAAATC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 40 1.00
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (12 bp):
AGATTTAGATTC
Found at i:53077472 original size:6 final size:6
Alignment explanation
Indices: 53077410--53077473 Score: 65
Period size: 6 Copynumber: 10.7 Consensus size: 6
53077400 TAGATATAAT
* * * **
53077410 TTTAGA TTCAGA TTCAGA TTCAGA TCCAGA TTTAGA TTTAGA TTTAGA
1 TTTAGA TTTAGA TTTAGA TTTAGA TTTAGA TTTAGA TTTAGA TTTAGA
**
53077458 TCCAGA TTTAGA TTTA
1 TTTAGA TTTAGA TTTA
53077474 CATAAATCCT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 50 1.00
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.41
Consensus pattern (6 bp):
TTTAGA
Found at i:53077472 original size:24 final size:24
Alignment explanation
Indices: 53077413--53077473 Score: 95
Period size: 24 Copynumber: 2.5 Consensus size: 24
53077403 ATATAATTTT
* *
53077413 AGATTCAGATTCAGATTCAGATCC
1 AGATTTAGATTTAGATTCAGATCC
*
53077437 AGATTTAGATTTAGATTTAGATCC
1 AGATTTAGATTTAGATTCAGATCC
53077461 AGATTTAGATTTA
1 AGATTTAGATTTA
53077474 CATAAATCCT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.38
Consensus pattern (24 bp):
AGATTTAGATTTAGATTCAGATCC
Found at i:53077473 original size:18 final size:18
Alignment explanation
Indices: 53077410--53077471 Score: 79
Period size: 18 Copynumber: 3.4 Consensus size: 18
53077400 TAGATATAAT
53077410 TTTAGATTCAGATTCAGA
1 TTTAGATTCAGATTCAGA
* * *
53077428 TTCAGATCCAGATTTAGA
1 TTTAGATTCAGATTCAGA
* *
53077446 TTTAGATTTAGATCCAGA
1 TTTAGATTCAGATTCAGA
53077464 TTTAGATT
1 TTTAGATT
53077472 TACATAAATC
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.40
Consensus pattern (18 bp):
TTTAGATTCAGATTCAGA
Found at i:53079645 original size:19 final size:19
Alignment explanation
Indices: 53079588--53079646 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
53079578 TCATAGATGC
53079588 GTAACAGAGGCACCAAAGT
1 GTAACAGAGGCACCAAAGT
* * * *
53079607 GCAAATAGAGACACCGAAGT
1 G-TAACAGAGGCACCAAAGT
*
53079627 GTAACAGAGGCACTAAAGT
1 GTAACAGAGGCACCAAAGT
53079646 G
1 G
53079647 AAATCTCGTA
Statistics
Matches: 30, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.42, C:0.19, G:0.27, T:0.12
Consensus pattern (19 bp):
GTAACAGAGGCACCAAAGT
Found at i:53082857 original size:14 final size:14
Alignment explanation
Indices: 53082825--53082864 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
53082815 ATAAAGATGT
53082825 TCATGATTA-CTGA
1 TCATGATTATCTGA
*
53082838 TGATGATTATCTGA
1 TCATGATTATCTGA
53082852 TCATGATGTATCT
1 TCATGAT-TATCT
53082865 ATGCGGCGCG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 8 0.35
14 10 0.43
15 5 0.22
ACGTcount: A:0.28, C:0.12, G:0.17, T:0.42
Consensus pattern (14 bp):
TCATGATTATCTGA
Found at i:53083095 original size:40 final size:40
Alignment explanation
Indices: 53082888--53083100 Score: 292
Period size: 40 Copynumber: 5.4 Consensus size: 40
53082878 GTATTCGTGT
*
53082888 AGTGA-TATA-CCGGGCTAAGTCCCGAAGGCATTTGTGCT
1 AGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCG
*
53082926 AGTGAC-AAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCG
1 AGTGACTATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCG
* *
53082966 AGTTACTA-ATTCCGGGCTAAGTCTCGAAGGCATTTGTGCG
1 AGTGACTATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCG
*
53083006 AGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCG
1 AGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCG
* *
53083046 AACT-ACTATATCCGGGCTAAGTCCCGAAGGCATTTGAGCG
1 -AGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCG
*
53083086 AGTGGCTATATCCGG
1 AGTGACTATATCCGG
53083101 TTAAAGCCGA
Statistics
Matches: 159, Mismatches: 9, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
38 7 0.04
39 2 0.01
40 146 0.92
41 4 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
AGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCG
Found at i:53091004 original size:40 final size:40
Alignment explanation
Indices: 53090949--53091151 Score: 304
Period size: 40 Copynumber: 5.1 Consensus size: 40
53090939 CGGATGATAA
* *
53090949 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
53090989 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
53091029 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
**
53091068 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* **
53091108 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
53091148 CCGG
1 CCGG
53091152 TTAAAGCCCG
Statistics
Matches: 152, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
39 37 0.24
40 115 0.76
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:53091163 original size:119 final size:119
Alignment explanation
Indices: 53090949--53091165 Score: 307
Period size: 119 Copynumber: 1.8 Consensus size: 119
53090939 CGGATGATAA
* *
53090949 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAACTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTG
* * *
53091014 TGCGAGTTACTAATTCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATAT
66 AGCGAGTGACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTATAT
53091068 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACT-ACT-ATATCCGGGCTAAGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-AACTGACTAAT-TCCGGGCTAAGTCCCGAAGGCATT
* *
53091131 TGAGCGAGTGGCT-ATATCC-GGTTAAAGCCCGAAGG
64 TGAGCGAGTGACTAAT-TCCGGGCT-AAGCCCGAAGG
53091166 TACTTGGTTT
Statistics
Matches: 87, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
118 7 0.08
119 78 0.90
120 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.25
Consensus pattern (119 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAACTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTG
AGCGAGTGACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:53091165 original size:79 final size:80
Alignment explanation
Indices: 53090949--53091151 Score: 313
Period size: 79 Copynumber: 2.5 Consensus size: 80
53090939 CGGATGATAA
*
53090949 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-TCCGGGCTAAGTCCCGAAGGCATTT
**
53091013 GTGCGAGTTACTAATT
65 GTGCGAACTACTAATT
*
53091029 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTG
53091093 TGCGAACTACT-ATAT
66 TGCGAACTACTAAT-T
* *
53091108 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGGCTATATCCGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGG
53091152 TTAAAGCCCG
Statistics
Matches: 113, Mismatches: 7, Indels: 6
0.90 0.06 0.05
Matches are distributed among these distances:
78 2 0.02
79 70 0.62
80 41 0.36
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAACTACTAATT
Found at i:53092571 original size:18 final size:18
Alignment explanation
Indices: 53092548--53092582 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
53092538 TATTATACAC
*
53092548 ATATACATATACATATAG
1 ATATACAAATACATATAG
*
53092566 ATATACAAATATATATA
1 ATATACAAATACATATA
53092583 ACTATGATTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.09, G:0.03, T:0.34
Consensus pattern (18 bp):
ATATACAAATACATATAG
Found at i:53096154 original size:14 final size:14
Alignment explanation
Indices: 53096135--53096162 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
53096125 TAACATGATG
53096135 TTTAACATTTTCAA
1 TTTAACATTTTCAA
53096149 TTTAACATTTTCAA
1 TTTAACATTTTCAA
53096163 ACAATTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.00, T:0.50
Consensus pattern (14 bp):
TTTAACATTTTCAA
Found at i:53097696 original size:27 final size:27
Alignment explanation
Indices: 53097666--53097851 Score: 273
Period size: 27 Copynumber: 6.8 Consensus size: 27
53097656 ATTACCAAAG
*
53097666 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
53097693 TACCCTCGATTTATACAGAATTACCGTTT
1 TACCCTCGA-TT-TACAGAATTACCATTT
*
53097722 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
53097749 TACCCTCAATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
53097776 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
53097803 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
53097830 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
53097852 TAAAATACCC
Statistics
Matches: 148, Mismatches: 9, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
27 121 0.82
28 4 0.03
29 23 0.16
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.38
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:53097831 original size:81 final size:83
Alignment explanation
Indices: 53097666--53097851 Score: 304
Period size: 81 Copynumber: 2.3 Consensus size: 83
53097656 ATTACCAAAG
53097666 TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTATACAGAATTACCGTTTTACCCTCGA
1 TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTATACAGAATTACCGTTTTACCCTCGA
*
53097731 TTTATAGAATTACCATTT
66 TTTACAGAATTACCATTT
* * * *
53097749 TACCCTCAATTTATAGAATTACCGTTTTACCCTCGA-TT-TACAGAATTACCGTTTTACCCTCGA
1 TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTATACAGAATTACCGTTTTACCCTCGA
*
53097812 TTTACAGAATTACCGTTT
66 TTTACAGAATTACCATTT
53097830 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAAAATTAC
53097852 TAAAATACCC
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
81 60 0.64
82 2 0.02
83 32 0.34
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.38
Consensus pattern (83 bp):
TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTATACAGAATTACCGTTTTACCCTCGA
TTTACAGAATTACCATTT
Found at i:53097860 original size:27 final size:27
Alignment explanation
Indices: 53097620--53097997 Score: 190
Period size: 27 Copynumber: 13.9 Consensus size: 27
53097610 GAATACTTTA
* * ** *
53097620 ATTTACCAAATTACTAAAATGTCCTCA
1 ATTTACAAAATTACCAAAATACCCTCG
** *
53097647 ATTTGTAAAATTACCAAAGTACCCTCG
1 ATTTACAAAATTACCAAAATACCCTCG
***
53097674 ATTTACAAAATTACCATTTTACCCTCG
1 ATTTACAAAATTACCAAAATACCCTCG
* ****
53097701 ATTTATACAGAATTACCGTTTTACCCTCG
1 A-TT-TACAAAATTACCAAAATACCCTCG
* * *** *
53097730 ATTTATAGAATTACCATTTTACCCTCA
1 ATTTACAAAATTACCAAAATACCCTCG
* * ****
53097757 ATTTATAGAATTACCGTTTTACCCTCG
1 ATTTACAAAATTACCAAAATACCCTCG
* ****
53097784 ATTTACAGAATTACCGTTTTACCCTCG
1 ATTTACAAAATTACCAAAATACCCTCG
* ****
53097811 ATTTACAGAATTACCGTTTTACCCTCG
1 ATTTACAAAATTACCAAAATACCCTCG
* *
53097838 ATTTACAAAATTACTAAAATACCCTTG
1 ATTTACAAAATTACCAAAATACCCTCG
* *
53097865 GTTTACAAAATTACCAAAATATCCCTAG
1 ATTTACAAAATTACCAAAATA-CCCTCG
*
53097893 CTTGT--AAAATTACCAAAATACCACT-G
1 ATT-TACAAAATTACCAAAATACC-CTCG
* *** * *
53097919 GTTTGTGAAATTACCGAAATACCCTCA
1 ATTTACAAAATTACCAAAATACCCTCG
**
53097946 ATTTGTAAAATTACCAAAATACCC-CTG
1 ATTTACAAAATTACCAAAATACCCTC-G
*
53097973 ATTTAGAAAATTA-CAGAAATACCCT
1 ATTTACAAAATTACCA-AAATACCCT
53097998 TGACTTTCTA
Statistics
Matches: 298, Mismatches: 42, Indels: 21
0.83 0.12 0.06
Matches are distributed among these distances:
25 1 0.00
26 10 0.03
27 252 0.85
28 11 0.04
29 24 0.08
ACGTcount: A:0.36, C:0.22, G:0.08, T:0.34
Consensus pattern (27 bp):
ATTTACAAAATTACCAAAATACCCTCG
Found at i:53097902 original size:54 final size:53
Alignment explanation
Indices: 53097844--53098082 Score: 187
Period size: 54 Copynumber: 4.4 Consensus size: 53
53097834 CTCGATTTAC
*
53097844 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATATCCCTAGCTTGT
1 AAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATA-CCCTAGCTTGT
*** * **
53097898 AAAATTACCAAAATACCAC-TGGTTTGTGAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACCAAAATACC-CTTGGTTTACAAAATTACCAAAATACCCT-AGCTTGT
* * * * *
53097952 AAAATTACCAAAATACCCCTGATTTAGAAAATTA-CAGAAATACCCTTGACTTTCT
1 AAAATTACCAAAATACCCTTGGTTTACAAAATTACCA-AAATACCCTAG-C-TTGT
* * ** * *
53098007 AAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAATACCCTTGGTTTGT
1 -AAAATTACCA-AAATACCCTTGGTTTACAAAATTACCAAAATACCC-TAGCTTGT
* * *
53098062 AGATTTACCAAAACACCCTTG
1 AAAATTACCAAAATACCCTTG
53098083 TAGGATGAAA
Statistics
Matches: 143, Mismatches: 31, Indels: 22
0.73 0.16 0.11
Matches are distributed among these distances:
53 6 0.04
54 91 0.64
55 9 0.06
56 35 0.24
57 2 0.01
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.31
Consensus pattern (53 bp):
AAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTAGCTTGT
Found at i:53098047 original size:27 final size:27
Alignment explanation
Indices: 53097830--53098082 Score: 149
Period size: 27 Copynumber: 9.3 Consensus size: 27
53097820 ATTACCGTTT
* * *
53097830 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
53097857 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
* *
53097884 TATCCCTAGCTTGT--AAAATTACCAAAA
1 TA-CCCTTGGTT-TACAAAATTACCAAAA
*** *
53097911 TACCAC-TGGTTTGTGAAATTACCGAAA
1 TACC-CTTGGTTTACAAAATTACCAAAA
*** **
53097938 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
* * *
53097965 TACCCCTGATTTAGAAAATTA-CAGAAA
1 TACCCTTGGTTTACAAAATTACCA-AAA
* *
53097992 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTG-GTTTAC--AAAATTACCA-AAA
* **
53098021 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
** * *
53098048 TACCCTTGGTTTGTAGATTTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
*
53098075 CACCCTTG
1 TACCCTTG
53098083 TAGGATGAAA
Statistics
Matches: 180, Mismatches: 34, Indels: 24
0.76 0.14 0.10
Matches are distributed among these distances:
25 1 0.01
26 8 0.04
27 136 0.76
28 14 0.08
29 21 0.12
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
TACCCTTGGTTTACAAAATTACCAAAA
Found at i:53098062 original size:110 final size:108
Alignment explanation
Indices: 53097812--53098053 Score: 247
Period size: 108 Copynumber: 2.2 Consensus size: 108
53097802 TTACCCTCGA
* *** * ** * * *
53097812 TTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATT
1 TTTACAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATT
*
53097877 ACCAAAATATCCCTAGCTTGTAAAATTACCAAAATACCACTGG
66 ACCAAAATATCCCTAGCTTCTAAAATTACCAAAATACCACTGG
*** *
53097920 TTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTAGAAAATT
1 TTTACAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATT
* * *
53097985 A-CAGAAATA-CCCTTGACTTTCTAAAAATTA-TAGAAATACCATTGG
66 ACCA-AAATATCCCTAG-C-TTCT-AAAATTACCA-AAATACCACTGG
*
53098030 TTTACAAAATTACTGAAATACCCT
1 TTTACAAAATTACCGAAATACCCT
53098054 TGGTTTGTAG
Statistics
Matches: 107, Mismatches: 22, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
107 7 0.07
108 58 0.54
109 4 0.04
110 38 0.36
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (108 bp):
TTTACAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATT
ACCAAAATATCCCTAGCTTCTAAAATTACCAAAATACCACTGG
Found at i:53099058 original size:24 final size:25
Alignment explanation
Indices: 53098987--53099056 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
53098977 AGGAAGTGCT
* * *
53098987 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
53099012 AAAAGGGCTTTTCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
53099037 AAAAGGGCTTTGCCCTAGTT
1 AAAAGGGCTTTGCCCCAGTT
53099057 ATTAAAGGAG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:53099327 original size:31 final size:30
Alignment explanation
Indices: 53099276--53099358 Score: 132
Period size: 31 Copynumber: 2.7 Consensus size: 30
53099266 CGCTTACAGT
53099276 AAAGGCTTCGGCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCAGTGATATGATTTATGA
*
53099306 AAAGGCTTTGGCCTAGTGATATGATTTATGA
1 AAAGGCTTCGGCC-AGTGATATGATTTATGA
53099337 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGG-CCAGTGATATG
53099359 TCGAGACTGA
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
30 17 0.35
31 30 0.61
32 2 0.04
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (30 bp):
AAAGGCTTCGGCCAGTGATATGATTTATGA
Found at i:53103086 original size:17 final size:17
Alignment explanation
Indices: 53103066--53103102 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
53103056 TTATCGTTTG
53103066 TTTATTTTTCTTATTTA
1 TTTATTTTTCTTATTTA
*
53103083 TTTATTTTTGTTATTTA
1 TTTATTTTTCTTATTTA
53103100 TTT
1 TTT
53103103 GTATCTCATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.78
Consensus pattern (17 bp):
TTTATTTTTCTTATTTA
Found at i:53105272 original size:22 final size:22
Alignment explanation
Indices: 53105244--53105288 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
53105234 ATCAAAATTA
53105244 TAACATAAACAGTGTCTGTGGC
1 TAACATAAACAGTGTCTGTGGC
*
53105266 TAACATAAACAGTGTGTGTGGC
1 TAACATAAACAGTGTCTGTGGC
53105288 T
1 T
53105289 TTCTCTGAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (22 bp):
TAACATAAACAGTGTCTGTGGC
Found at i:53105673 original size:27 final size:26
Alignment explanation
Indices: 53105625--53105684 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
53105615 ACGAGGCTAC
*
53105625 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
53105652 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
53105678 CATATAT
1 CAGATAT
53105685 ATATATGTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:53105771 original size:27 final size:26
Alignment explanation
Indices: 53105723--53105774 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
53105713 GCGAGGCTGC
*
53105723 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
53105749 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
53105775 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:53106447 original size:27 final size:27
Alignment explanation
Indices: 53106417--53106517 Score: 123
Period size: 27 Copynumber: 3.7 Consensus size: 27
53106407 TACTCCACAA
*
53106417 GGGTATCTCAGTAATTCTACCTTACAG
1 GGGTATTTCAGTAATTCTACCTTACAG
* * * *
53106444 GGGTATTTCGGTATTTCTACCCTACAA
1 GGGTATTTCAGTAATTCTACCTTACAG
*
53106471 GGGTATTT-AGATAATTCTACCTTGCAG
1 GGGTATTTCAG-TAATTCTACCTTACAG
*
53106498 GGGTATTTCGGTAATTCTAC
1 GGGTATTTCAGTAATTCTAC
53106518 AACTTATCCA
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
26 1 0.02
27 59 0.97
28 1 0.02
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.37
Consensus pattern (27 bp):
GGGTATTTCAGTAATTCTACCTTACAG
Found at i:53106486 original size:54 final size:54
Alignment explanation
Indices: 53106399--53106517 Score: 170
Period size: 54 Copynumber: 2.2 Consensus size: 54
53106389 GGGGCAAAAT
*
53106399 GGTAATTTTACTCC-ACAAGGGTATCTCAGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTAC-CCTACAAGGGTATCTCAGTAATTCTACCTTACAGGGGTATTTC
* * *
53106453 GGTATTTCTACCCTACAAGGGTAT-TTAGATAATTCTACCTTGCAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATCTCAG-TAATTCTACCTTACAGGGGTATTTC
53106507 GGTAATTCTAC
1 GGTAATTCTAC
53106518 AACTTATCCA
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
53 5 0.09
54 53 0.91
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.36
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATCTCAGTAATTCTACCTTACAGGGGTATTTC
Found at i:53106757 original size:54 final size:54
Alignment explanation
Indices: 53106679--53106942 Score: 381
Period size: 54 Copynumber: 4.9 Consensus size: 54
53106669 GACGCCACCC
* * * *
53106679 TACAGGGGTATTTCAGTATTTCTACCTTACAAGGGTATTTCGGTAATTCTACCC
1 TACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCT
*
53106733 TACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCT
1 TACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCT
*
53106787 TACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCT
1 TACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCT
*
53106841 TATAGGGGTA-TTCTAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCT
1 TACAGGGGTATTTC-AGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCT
* ** *
53106895 TACAGGGGTATTTC-GATAATTGTA-CAAATCAGGGGTATTTTGGTAATT
1 TACAGGGGTATTTCAG-TAATTCTACCCTA-CAGGGGTATTTCGGTAATT
53106943 TTACAAACTA
Statistics
Matches: 192, Mismatches: 14, Indels: 8
0.90 0.07 0.04
Matches are distributed among these distances:
53 6 0.03
54 183 0.95
55 3 0.02
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (54 bp):
TACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCT
Found at i:53106915 original size:27 final size:27
Alignment explanation
Indices: 53106675--53106908 Score: 355
Period size: 27 Copynumber: 8.7 Consensus size: 27
53106665 AGCTGACGCC
*
53106675 ACCCTACAGGGGTATTTCAGTATTTCT
1 ACCCTACAGGGGTATTTCAGTAATTCT
* * *
53106702 ACCTTACAAGGGTATTTCGGTAATTCT
1 ACCCTACAGGGGTATTTCAGTAATTCT
53106729 ACCCTACAGGGGTATTTCAGTAATTCT
1 ACCCTACAGGGGTATTTCAGTAATTCT
53106756 ACCCTACAGGGGTATTTC-GATAATTCT
1 ACCCTACAGGGGTATTTCAG-TAATTCT
*
53106783 ACCTTACAGGGGTATTTCAGTAATTCT
1 ACCCTACAGGGGTATTTCAGTAATTCT
53106810 ACCCTACAGGGGTATTTCAGTAATTCT
1 ACCCTACAGGGGTATTTCAGTAATTCT
* *
53106837 ACCTTATAGGGGTA-TTCTAGTAATTCT
1 ACCCTACAGGGGTATTTC-AGTAATTCT
*
53106864 ACCCTACAGGGGTATTTCGGTAATTCT
1 ACCCTACAGGGGTATTTCAGTAATTCT
*
53106891 ACCTTACAGGGGTATTTC
1 ACCCTACAGGGGTATTTC
53106909 GATAATTGTA
Statistics
Matches: 188, Mismatches: 15, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
26 4 0.02
27 180 0.96
28 4 0.02
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
ACCCTACAGGGGTATTTCAGTAATTCT
Found at i:53106927 original size:27 final size:28
Alignment explanation
Indices: 53106679--53106949 Score: 202
Period size: 27 Copynumber: 10.0 Consensus size: 28
53106669 GACGCCACCC
* * **
53106679 TACAGGGGTATTTCAGTATTTCTAC-CT
1 TACAGGGGTATTTCGGTAATTCTACAAA
* **
53106706 TACAAGGGTATTTCGGTAATTCTAC-CC
1 TACAGGGGTATTTCGGTAATTCTACAAA
* **
53106733 TACAGGGGTATTTCAGTAATTCTAC-CC
1 TACAGGGGTATTTCGGTAATTCTACAAA
* **
53106760 TACAGGGGTATTTCGATAATTCTAC-CT
1 TACAGGGGTATTTCGGTAATTCTACAAA
* **
53106787 TACAGGGGTATTTCAGTAATTCTAC-CC
1 TACAGGGGTATTTCGGTAATTCTACAAA
* **
53106814 TACAGGGGTATTTCAGTAATTCTAC-CT
1 TACAGGGGTATTTCGGTAATTCTACAAA
* * **
53106841 TATAGGGGTA-TTCTAGTAATTCTAC-CC
1 TACAGGGGTATTTC-GGTAATTCTACAAA
**
53106868 TACAGGGGTATTTCGGTAATTCTAC-CT
1 TACAGGGGTATTTCGGTAATTCTACAAA
* *
53106895 TACAGGGGTATTTCGATAATTGTACAAA
1 TACAGGGGTATTTCGGTAATTCTACAAA
* *
53106923 T-CAGGGGTATTTTGGTAATTTTACAAA
1 TACAGGGGTATTTCGGTAATTCTACAAA
53106950 CTAGGAGTAT
Statistics
Matches: 216, Mismatches: 25, Indels: 6
0.87 0.10 0.02
Matches are distributed among these distances:
26 3 0.01
27 209 0.97
28 4 0.02
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.36
Consensus pattern (28 bp):
TACAGGGGTATTTCGGTAATTCTACAAA
Found at i:53106942 original size:81 final size:80
Alignment explanation
Indices: 53106681--53106934 Score: 336
Period size: 81 Copynumber: 3.1 Consensus size: 80
53106671 CGCCACCCTA
* *
53106681 CAGGGGTATTTCAGTATTTCTACCTTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
1 CAGGGGTATTTCAGTAATTCTACCTTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
**
53106746 CAGTAATTCTACCCT
66 CAGTAATTCTACAAT
*
53106761 ACAGGGGTATTTC-GATAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTAT
1 -CAGGGGTATTTCAG-TAATTCTACCTTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTAT
*
53106825 TTCAGTAATTCTACCTTAT
64 TTCAGTAATTCTA-C-AAT
* *
53106844 -AGGGGTA-TTCTAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATT
1 CAGGGGTATTTC-AGTAATTCTACCTTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATT
*
53106907 TC-GATAATTGTACAAAT
65 TCAG-TAATTCTAC-AAT
53106924 CAGGGGTATTT
1 CAGGGGTATTT
53106935 TGGTAATTTT
Statistics
Matches: 154, Mismatches: 11, Indels: 15
0.86 0.06 0.08
Matches are distributed among these distances:
80 8 0.05
81 141 0.92
82 4 0.03
83 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.36
Consensus pattern (80 bp):
CAGGGGTATTTCAGTAATTCTACCTTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
CAGTAATTCTACAAT
Found at i:53106959 original size:27 final size:27
Alignment explanation
Indices: 53106900--53107024 Score: 121
Period size: 27 Copynumber: 4.6 Consensus size: 27
53106890 TACCTTACAG
* * *
53106900 GGGTATTTCGATAATTGTACAAA-TCA
1 GGGTATTTTGGTAATTTTACAAACTCA
53106926 GGGGTATTTTGGTAATTTTACAAACT-A
1 -GGGTATTTTGGTAATTTTACAAACTCA
* *
53106953 GGAGTATTTTGGTAATTTTGCTAA-TCGA
1 GG-GTATTTTGGTAATTTTACAAACTC-A
* * * *
53106981 GGGTATTTTGGTAATTTTGCTAATTGA
1 GGGTATTTTGGTAATTTTACAAACTCA
53107008 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
53107025 GGTAAACTAA
Statistics
Matches: 87, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
26 3 0.03
27 79 0.91
28 5 0.06
ACGTcount: A:0.26, C:0.06, G:0.24, T:0.43
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTCA
Found at i:53106960 original size:54 final size:54
Alignment explanation
Indices: 53106870--53106998 Score: 136
Period size: 54 Copynumber: 2.4 Consensus size: 54
53106860 TTCTACCCTA
* * ** *
53106870 CAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCGATAATTGTACAAAT
1 CAGGGGTATTTTGGTAATTTTACCAAACAGGAGTATTTCGATAATTGTACAAAT
* * * * *
53106924 CAGGGGTATTTTGGTAATTTTA-CAAACTAGGAGTATTTTGGTAATTTTGCTAAT
1 CAGGGGTATTTTGGTAATTTTACCAAAC-AGGAGTATTTCGATAATTGTACAAAT
53106978 C-GAGGGTATTTTGGTAATTTT
1 CAG-GGGTATTTTGGTAATTTT
53106999 GCTAATTGAG
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
53 4 0.06
54 59 0.94
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.40
Consensus pattern (54 bp):
CAGGGGTATTTTGGTAATTTTACCAAACAGGAGTATTTCGATAATTGTACAAAT
Found at i:53106960 original size:81 final size:80
Alignment explanation
Indices: 53106681--53106969 Score: 314
Period size: 81 Copynumber: 3.6 Consensus size: 80
53106671 CGCCACCCTA
** * * *
53106681 CAGGGGTATTTCAGTATTTCTACCTTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
1 CAGGGGTATTTTGGTAATTCTACCATACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
**
53106746 CAGTAATTCTACCCT
66 CAGTAATTCTACAAT
* * * *
53106761 ACAGGGGTATTTCGATAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATT
1 -CAGGGGTATTTTGGTAATTCTACCATACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATT
*
53106826 TCAGTAATTCTACCTTAT
65 TCAGTAATTCTA-C-AAT
* * * *
53106844 -AGGGGTATTCTAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTT
1 CAGGGGTATTTTGGTAATTCTACCATACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
*
53106908 C-GATAATTGTACAAAT
66 CAG-TAATTCTAC-AAT
* * * *
53106924 CAGGGGTATTTTGGTAATTTTA-CAAACTAGGAGTATTTTGGTAATT
1 CAGGGGTATTTTGGTAATTCTACCATAC-AGGGGTATTTCGGTAATT
53106970 TTGCTAATCG
Statistics
Matches: 179, Mismatches: 24, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
80 7 0.04
81 170 0.95
82 1 0.01
83 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (80 bp):
CAGGGGTATTTTGGTAATTCTACCATACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
CAGTAATTCTACAAT
Found at i:53110907 original size:13 final size:13
Alignment explanation
Indices: 53110871--53110907 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
53110861 GAAAAATGAA
*
53110871 TATATGAAAAGGT
1 TATATGAAATGGT
*
53110884 TATATGGAATGGT
1 TATATGAAATGGT
53110897 TATATGAAATG
1 TATATGAAATG
53110908 AATATTTGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (13 bp):
TATATGAAATGGT
Found at i:53113236 original size:3 final size:3
Alignment explanation
Indices: 53113228--53113260 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
53113218 GGTTGGAGAA
53113228 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
53113261 TTGGTGTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:53113900 original size:20 final size:19
Alignment explanation
Indices: 53113864--53113914 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
53113854 ACGGGCTATT
*
53113864 TTGTAAA-GTTGTAAAATAA
1 TTGTAAATG-TGTGAAATAA
53113883 GTTGTAAATGTGTGAAATAA
1 -TTGTAAATGTGTGAAATAA
53113903 TTG-AAAT-TGTGA
1 TTGTAAATGTGTGA
53113915 GTTACTATAG
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 3 0.10
20 16 0.55
21 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (19 bp):
TTGTAAATGTGTGAAATAA
Found at i:53114725 original size:48 final size:48
Alignment explanation
Indices: 53114657--53114831 Score: 136
Period size: 49 Copynumber: 3.6 Consensus size: 48
53114647 AGACGAGAGC
* * * *
53114657 CAGTGTAAAACATGTTTGGGACATGG-ATCGGCCTCGAGATATGCAAGT
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGACATATG-AAGT
**** * *
53114705 CAGTGTAAGACCTGTCTGGGACATGGCATCGATAACGACAGATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGACATATGA-AGT
* * * ** *
53114754 CACTGTAAGACCTGTCTAGGACATGGTATTAGCCTCGATATATGGAAGT
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGACATAT-GAAGT
* * * *
53114803 CAATGTAAGACCTCTGTGAGACATGGCAT
1 CAGTGTAAGACCTGTCTGGGACATGGCAT
53114832 TGACTTAGAT
Statistics
Matches: 96, Mismatches: 28, Indels: 5
0.74 0.22 0.04
Matches are distributed among these distances:
48 24 0.25
49 70 0.73
50 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (48 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGACATATGAAGT
Found at i:53114778 original size:97 final size:98
Alignment explanation
Indices: 53114651--53114831 Score: 238
Period size: 98 Copynumber: 1.9 Consensus size: 98
53114641 GCAGTGAGAC
* * * * *
53114651 GAGAGCCAGTGTAAAACATGTTTGGGACATGG-ATCGGCCTCGAGATATGCAAGTCAGTGTAAGA
1 GAGAGCCACTGTAAAACATGTCTAGGACATGGTATCAGCCTCGAGATATGCAAGTCAATGTAAGA
* *
53114715 CCTGTCTGGGACATGGCATCGATAACGACAGAT
66 CCTCTCTGAGACATGGCATCGATAACGACAGAT
* * * * *
53114748 GAGAGCCACTGTAAGACCTGTCTAGGACATGGTATTAGCCTCGATATATGGAAGTCAATGTAAGA
1 GAGAGCCACTGTAAAACATGTCTAGGACATGGTATCAGCCTCGAGATATGCAAGTCAATGTAAGA
*
53114813 CCTCTGTGAGACATGGCAT
66 CCTCTCTGAGACATGGCAT
53114832 TGACTTAGAT
Statistics
Matches: 70, Mismatches: 13, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
97 27 0.39
98 43 0.61
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (98 bp):
GAGAGCCACTGTAAAACATGTCTAGGACATGGTATCAGCCTCGAGATATGCAAGTCAATGTAAGA
CCTCTCTGAGACATGGCATCGATAACGACAGAT
Found at i:53119112 original size:54 final size:54
Alignment explanation
Indices: 53119054--53119156 Score: 118
Period size: 54 Copynumber: 1.9 Consensus size: 54
53119044 TTAACACCCT
*
53119054 AGGGGCAAAATGGTAATTT-TACCCCAGAAGGGTATCTCGATAATTCTACCCTAC
1 AGGGGCAAAATGGT-ATTTCTACCCCACAAGGGTATCTCGATAATTCTACCCTAC
* *** * * *
53119108 AGGGGTATTTTGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTAC
1 AGGGGCAAAATGGTATTTCTACCCCACAAGGGTATCTCGATAATTCTAC
53119157 AACTTGGGCC
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
53 4 0.10
54 36 0.90
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.32
Consensus pattern (54 bp):
AGGGGCAAAATGGTATTTCTACCCCACAAGGGTATCTCGATAATTCTACCCTAC
Found at i:53119113 original size:27 final size:27
Alignment explanation
Indices: 53119065--53119156 Score: 112
Period size: 27 Copynumber: 3.4 Consensus size: 27
53119055 GGGGCAAAAT
* * * *
53119065 GGTAATTTTACCCCAGAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
53119092 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
53119119 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
53119146 GGTAATTCTAC
1 GGTAATTCTAC
53119157 AACTTGGGCC
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:53125145 original size:40 final size:40
Alignment explanation
Indices: 53125122--53125304 Score: 273
Period size: 40 Copynumber: 4.6 Consensus size: 40
53125112 CACTGGCTCG
**
53125122 AATGCCTTCGGGACTTAGCCCGGATATAGTAGTTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
*
53125162 AATGCCTTCGGGACTTAGCTCGGATATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
53125202 AATGCCTTCGGGACTTAGCCCGGA-ATTAGTAACTCGCA-A
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACA
* *
53125241 CAATGCCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACA
1 -AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACA
53125282 AATGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
53125305 TTATCATCCG
Statistics
Matches: 134, Mismatches: 6, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
39 2 0.01
40 131 0.98
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.23
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
Found at i:53135854 original size:10 final size:10
Alignment explanation
Indices: 53135839--53135873 Score: 61
Period size: 10 Copynumber: 3.4 Consensus size: 10
53135829 TTTGTACATA
53135839 ATATGCCATG
1 ATATGCCATG
53135849 ATATGCACATG
1 ATATGC-CATG
53135860 ATATGCCATG
1 ATATGCCATG
53135870 ATAT
1 ATAT
53135874 ATACATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (10 bp):
ATATGCCATG
Found at i:53135858 original size:21 final size:21
Alignment explanation
Indices: 53135834--53135873 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
53135824 ACTGATTTGT
53135834 ACATAATATGCCATGATATGC
1 ACATAATATGCCATGATATGC
*
53135855 ACATGATATGCCATGATAT
1 ACATAATATGCCATGATAT
53135874 ATACATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (21 bp):
ACATAATATGCCATGATATGC
Found at i:53135879 original size:21 final size:20
Alignment explanation
Indices: 53135833--53135885 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 20
53135823 TACTGATTTG
*
53135833 TACATAATATGCCATGATATG
1 TACAT-ATATGCCATGATATA
*
53135854 CACATGATATGCCATGATATA
1 TACAT-ATATGCCATGATATA
53135875 TACATATATGC
1 TACATATATGC
53135886 ACGGGTTGGG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 6 0.21
21 22 0.79
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (20 bp):
TACATATATGCCATGATATA
Found at i:53138985 original size:56 final size:56
Alignment explanation
Indices: 53138899--53139018 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
53138889 ACAAGGGATG
53138899 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
53138955 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
53139011 ATGTGCAA
1 ATGGGCAA
53139019 TAAACTAATA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:53140774 original size:47 final size:48
Alignment explanation
Indices: 53140652--53141236 Score: 861
Period size: 47 Copynumber: 12.4 Consensus size: 48
53140642 AACAGCTCGT
* *
53140652 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA-
1 AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
* *
53140699 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA-
1 AGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
* *
53140748 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA-
1 AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
53140795 AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-
1 AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
53140842 AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
1 AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
* *
53140890 A-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
1 AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
* * *
53140937 A-TGCATATATGAGGTAAGGCCGAATGGCCAATGTGATGAATGTGAAC
1 AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
* *
53140984 A-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
1 AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
* *
53141031 A-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
1 AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
* *
53141078 A-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
1 AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
* *
53141125 A-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-
1 AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
* * *
53141171 AGTGTATATATGTGGTAAGGCCGAATGGCCAATGTGATGGATGTGGA-
1 AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
*
53141218 AGTGTATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
53141237 TCCCGAAGGG
Statistics
Matches: 501, Mismatches: 33, Indels: 8
0.92 0.06 0.01
Matches are distributed among these distances:
46 1 0.00
47 452 0.90
48 1 0.00
49 47 0.09
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.27
Consensus pattern (48 bp):
AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
Found at i:53140832 original size:22 final size:22
Alignment explanation
Indices: 53140804--53140879 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
53140794 AAGTGTATAT
53140804 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * ***
53140826 ATGTGATGAATG-TGAAAGTGTATA
1 ATGTGAT-AAGGCCG-AA-TGGCCA
53140850 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
53140873 ATGTGAT
1 ATGTGAT
53140880 GAATGTGAAC
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 15 0.38
23 8 0.21
24 8 0.21
25 8 0.21
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:53146802 original size:40 final size:40
Alignment explanation
Indices: 53146749--53146900 Score: 225
Period size: 40 Copynumber: 3.8 Consensus size: 40
53146739 GGATATAGCT
* * * *
53146749 ACTCGCTCGAATGCCTTCGGGGCATAGCCCGG-TTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* *
53146789 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATTTGGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
53146829 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
*
53146869 GCTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
53146901 TTATCATCCG
Statistics
Matches: 102, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
40 100 0.98
41 2 0.02
ACGTcount: A:0.22, C:0.28, G:0.26, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:53149428 original size:93 final size:93
Alignment explanation
Indices: 53149316--53149487 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
53149306 CGCCCATAAG
* *
53149316 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
53149381 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
53149409 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
53149474 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
53149488 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:53149484 original size:46 final size:46
Alignment explanation
Indices: 53149309--53149484 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
53149299 TGTAACCCGC
* * *
53149309 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
53149355 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
53149405 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
53149448 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
53149485 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:53156755 original size:93 final size:93
Alignment explanation
Indices: 53156626--53156797 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
53156616 CGCCCATAAG
* * *
53156626 CGAACTCAGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
53156691 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
53156719 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
53156784 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
53156798 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:53156794 original size:46 final size:46
Alignment explanation
Indices: 53156619--53156794 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
53156609 TGTAACCCGC
* * * * *
53156619 CCATAAGCGAACTCAGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
53156665 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
53156715 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
53156758 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
53156795 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:53156813 original size:46 final size:44
Alignment explanation
Indices: 53156670--53156813 Score: 141
Period size: 46 Copynumber: 3.1 Consensus size: 44
53156660 CGCATCCATA
53156670 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT
* * * *
53156717 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCT
53156763 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CT
53156809 AGTGA
1 AGTGA
53156814 CATGTCACTT
Statistics
Matches: 80, Mismatches: 9, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
44 9 0.11
45 1 0.01
46 33 0.41
47 31 0.39
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCT
Found at i:53158013 original size:11 final size:12
Alignment explanation
Indices: 53157988--53158018 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
53157978 CAATCATATC
53157988 ATAATTATCAAA
1 ATAATTATCAAA
53158000 ATAATTAT-AAA
1 ATAATTATCAAA
53158011 ATAATTAT
1 ATAATTAT
53158019 TTCTATCTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.58
12 8 0.42
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (12 bp):
ATAATTATCAAA
Found at i:53160563 original size:10 final size:10
Alignment explanation
Indices: 53160548--53160582 Score: 61
Period size: 10 Copynumber: 3.4 Consensus size: 10
53160538 TTTGTACATA
53160548 ATATGCCATG
1 ATATGCCATG
53160558 ATATGCACATG
1 ATATGC-CATG
53160569 ATATGCCATG
1 ATATGCCATG
53160579 ATAT
1 ATAT
53160583 ATACATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (10 bp):
ATATGCCATG
Found at i:53160567 original size:21 final size:21
Alignment explanation
Indices: 53160543--53160582 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
53160533 ACTGATTTGT
53160543 ACATAATATGCCATGATATGC
1 ACATAATATGCCATGATATGC
*
53160564 ACATGATATGCCATGATAT
1 ACATAATATGCCATGATAT
53160583 ATACATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (21 bp):
ACATAATATGCCATGATATGC
Found at i:53160588 original size:21 final size:20
Alignment explanation
Indices: 53160542--53160594 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 20
53160532 TACTGATTTG
*
53160542 TACATAATATGCCATGATATG
1 TACAT-ATATGCCATGATATA
*
53160563 CACATGATATGCCATGATATA
1 TACAT-ATATGCCATGATATA
53160584 TACATATATGC
1 TACATATATGC
53160595 ACGGGTTGGG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 6 0.21
21 22 0.79
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (20 bp):
TACATATATGCCATGATATA
Found at i:53168458 original size:10 final size:10
Alignment explanation
Indices: 53168437--53168470 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
53168427 TTTGTACATA
53168437 ATATGCCATG
1 ATATGCCATG
53168447 ATA-GCACATG
1 ATATGC-CATG
53168457 ATATGCCATG
1 ATATGCCATG
53168467 ATAT
1 ATAT
53168471 ATACATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 2 0.09
10 18 0.82
11 2 0.09
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (10 bp):
ATATGCCATG
Found at i:53168460 original size:20 final size:20
Alignment explanation
Indices: 53168432--53168469 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
53168422 ACTGATTTGT
53168432 ACATAATATGCCATGATAGC
1 ACATAATATGCCATGATAGC
*
53168452 ACATGATATGCCATGATA
1 ACATAATATGCCATGATA
53168470 TATACATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.26
Consensus pattern (20 bp):
ACATAATATGCCATGATAGC
Found at i:53168480 original size:20 final size:20
Alignment explanation
Indices: 53168431--53168482 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
53168421 TACTGATTTG
*
53168431 TACATAATATGCCATGATAG
1 TACATAATATGCCATGATAA
* *
53168451 CACATGATATGCCATGATATA
1 TACATAATATGCCATGATA-A
53168472 TACAT-ATATGC
1 TACATAATATGC
53168483 ACGGGTTGGG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 23 0.85
21 4 0.15
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.31
Consensus pattern (20 bp):
TACATAATATGCCATGATAA
Found at i:53172136 original size:25 final size:25
Alignment explanation
Indices: 53172090--53172140 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
53172080 CCCTTATTAT
* *
53172090 GTGAAAATGACCTTTTTGCCCCTAG
1 GTGAAAATGACCTTTATACCCCTAG
53172115 GTGAAAATGA-CTATTATACCCCTAG
1 GTGAAAATGACCT-TTATACCCCTAG
53172140 G
1 G
53172141 GTTATGTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 2 0.09
25 21 0.91
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (25 bp):
GTGAAAATGACCTTTATACCCCTAG
Found at i:53172200 original size:21 final size:21
Alignment explanation
Indices: 53172171--53172218 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
53172161 CATGTGATAC
*
53172171 TGATTTGCACATAATATGCCA
1 TGATATGCACATAATATGCCA
*
53172192 TGATATGCACATGATATGCCA
1 TGATATGCACATAATATGCCA
53172213 TGATAT
1 TGATAT
53172219 ATTAATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (21 bp):
TGATATGCACATAATATGCCA
Found at i:53172206 original size:11 final size:10
Alignment explanation
Indices: 53172184--53172218 Score: 61
Period size: 10 Copynumber: 3.4 Consensus size: 10
53172174 TTTGCACATA
53172184 ATATGCCATG
1 ATATGCCATG
53172194 ATATGCACATG
1 ATATGC-CATG
53172205 ATATGCCATG
1 ATATGCCATG
53172215 ATAT
1 ATAT
53172219 ATTAATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (10 bp):
ATATGCCATG
Found at i:53177555 original size:27 final size:27
Alignment explanation
Indices: 53177525--53177631 Score: 110
Period size: 27 Copynumber: 3.9 Consensus size: 27
53177515 GGCTGCTAGA
* * *
53177525 ACAGATAATGTGACAGAGTCACCAAAT
1 ACAGATAATGTGGCAGAGCCACCAGAT
*
53177552 ACAGATAATCCTGGCAGAGCCACCAGA-
1 ACAGATAAT-GTGGCAGAGCCACCAGAT
*
53177579 ACAGATATATGTGGCAAAGCCACCAGAT
1 ACAGATA-ATGTGGCAGAGCCACCAGAT
* *
53177607 -CAGATAATTATGGCATAGCCACCAG
1 ACAGATAA-TGTGGCAGAGCCACCAG
53177632 GACTCTTCCT
Statistics
Matches: 68, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
26 1 0.01
27 52 0.76
28 15 0.22
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.17
Consensus pattern (27 bp):
ACAGATAATGTGGCAGAGCCACCAGAT
Found at i:53177611 original size:54 final size:54
Alignment explanation
Indices: 53177522--53177631 Score: 141
Period size: 54 Copynumber: 2.0 Consensus size: 54
53177512 CATGGCTGCT
* * *
53177522 AGAACAGATAATGTGACAGAGTCACCAAATACAGATAATCCTGGCAGAGCCACC
1 AGAACAGATAATGTGACAAAGCCACCAAATACAGATAATCATGGCAGAGCCACC
* * * *
53177576 AGAACAGATATATGTGGCAAAGCCACCAGAT-CAGATAATTATGGCATAGCCACC
1 AGAACAGATA-ATGTGACAAAGCCACCAAATACAGATAATCATGGCAGAGCCACC
53177630 AG
1 AG
53177632 GACTCTTCCT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
54 32 0.67
55 16 0.33
ACGTcount: A:0.40, C:0.23, G:0.21, T:0.16
Consensus pattern (54 bp):
AGAACAGATAATGTGACAAAGCCACCAAATACAGATAATCATGGCAGAGCCACC
Found at i:53177799 original size:28 final size:26
Alignment explanation
Indices: 53177737--53177799 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
53177727 AAAGTAACCT
** * *
53177737 TAGGGGTATAATGGTAATTTTGCACT
1 TAGGGGTATAACAGTAATTTTCCACA
53177763 TAGGGGTATAACAGTAATTTTCCATACA
1 TAGGGGTATAACAGTAATTTTCC--ACA
53177791 TAGGGGTAT
1 TAGGGGTAT
53177800 TCAAGTAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 20 0.65
28 11 0.35
ACGTcount: A:0.30, C:0.10, G:0.25, T:0.35
Consensus pattern (26 bp):
TAGGGGTATAACAGTAATTTTCCACA
Found at i:53178068 original size:16 final size:15
Alignment explanation
Indices: 53178047--53178080 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
53178037 TCTCAAAATA
53178047 TTGGCTTTTCGGCATT
1 TTGGCTTTTCGGC-TT
53178063 TTGGCTTTTCGGCTT
1 TTGGCTTTTCGGCTT
53178078 TTG
1 TTG
53178081 CCGATCTATC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.03, C:0.18, G:0.26, T:0.53
Consensus pattern (15 bp):
TTGGCTTTTCGGCTT
Found at i:53183567 original size:24 final size:25
Alignment explanation
Indices: 53183514--53183587 Score: 91
Period size: 24 Copynumber: 3.1 Consensus size: 25
53183504 TCCGGGCTAT
*
53183514 ATAATCG-GAAGCTCA-TAAGAGCC
1 ATAATCGAGAAGCTCACAAAGAGCC
* * *
53183537 ATAATCGGGAAGTTCACAAAGAACC
1 ATAATCGAGAAGCTCACAAAGAGCC
53183562 AT-ATCGAGAAGCTCACAAAGAGCC
1 ATAATCGAGAAGCTCACAAAGAGCC
53183586 AT
1 AT
53183588 GTAATAGAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
23 7 0.16
24 28 0.65
25 8 0.19
ACGTcount: A:0.42, C:0.22, G:0.20, T:0.16
Consensus pattern (25 bp):
ATAATCGAGAAGCTCACAAAGAGCC
Found at i:53198044 original size:20 final size:20
Alignment explanation
Indices: 53198011--53198076 Score: 78
Period size: 20 Copynumber: 3.3 Consensus size: 20
53198001 TCCTTCGGCA
*
53198011 CCTCTAATTGCATTTTGATG
1 CCTCTGATTGCATTTTGATG
* *
53198031 CCTCTGATTTCATTTTGGTG
1 CCTCTGATTGCATTTTGATG
** *
53198051 CCTCTGATTGCGCTTTGGTG
1 CCTCTGATTGCATTTTGATG
53198071 CCTCTG
1 CCTCTG
53198077 TTTGTACTTC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.11, C:0.24, G:0.21, T:0.44
Consensus pattern (20 bp):
CCTCTGATTGCATTTTGATG
Found at i:53198090 original size:20 final size:20
Alignment explanation
Indices: 53198029--53198091 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
53198019 TGCATTTTGA
* * *
53198029 TGCCTCTGATTTCATTTTGG
1 TGCCTCTGATTGCACTTCGG
* *
53198049 TGCCTCTGATTGCGCTTTGG
1 TGCCTCTGATTGCACTTCGG
* *
53198069 TGCCTCTGTTTGTACTTCGG
1 TGCCTCTGATTGCACTTCGG
53198089 TGC
1 TGC
53198092 TTTTGTTAGC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.06, C:0.24, G:0.25, T:0.44
Consensus pattern (20 bp):
TGCCTCTGATTGCACTTCGG
Found at i:53206426 original size:21 final size:23
Alignment explanation
Indices: 53206397--53206439 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
53206387 TTAATGCACA
*
53206397 CACCTATACAA-CATA-ACATAG
1 CACCAATACAAGCATATACATAG
53206418 CACCAATACAAGCATATACATA
1 CACCAATACAAGCATATACATA
53206440 CAACTAACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
22 4 0.21
23 5 0.26
ACGTcount: A:0.49, C:0.28, G:0.05, T:0.19
Consensus pattern (23 bp):
CACCAATACAAGCATATACATAG
Found at i:53219035 original size:18 final size:18
Alignment explanation
Indices: 53219001--53219050 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
53218991 ACAAAAAGAA
*
53219001 TCAAAATAATTTTTAAAAT
1 TCAAAAT-ATTTATAAAAT
53219020 TCAAAATATTTATAAAAT
1 TCAAAATATTTATAAAAT
*
53219038 TCCAAAT-TTTATA
1 TCAAAATATTTATA
53219051 TTTTTTCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.21
18 16 0.55
19 7 0.24
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (18 bp):
TCAAAATATTTATAAAAT
Found at i:53219623 original size:44 final size:46
Alignment explanation
Indices: 53219537--53219623 Score: 126
Period size: 46 Copynumber: 1.9 Consensus size: 46
53219527 AGAAGTGTAA
*
53219537 ATTAAATTATAATATTTTTAAACATGTACTAATTATCACAACTCTG
1 ATTAAATTATAATATTTTTAAACATATACTAATTATCACAACTCTG
*
53219583 ATTAAATTATAATTATTTTT-AA-ATATA-TAATTATCTCAACT
1 ATTAAATTATAA-TATTTTTAAACATATACTAATTATCACAACT
53219624 TCTATTTTAC
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
44 13 0.34
45 4 0.11
46 14 0.37
47 7 0.18
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.45
Consensus pattern (46 bp):
ATTAAATTATAATATTTTTAAACATATACTAATTATCACAACTCTG
Found at i:53219927 original size:13 final size:13
Alignment explanation
Indices: 53219909--53219934 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
53219899 AGAATAATTT
53219909 TTTGAAAATTTAG
1 TTTGAAAATTTAG
53219922 TTTGAAAATTTAG
1 TTTGAAAATTTAG
53219935 ACGTTTGGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (13 bp):
TTTGAAAATTTAG
Found at i:53221051 original size:42 final size:42
Alignment explanation
Indices: 53220977--53221135 Score: 146
Period size: 42 Copynumber: 3.8 Consensus size: 42
53220967 ATTAGGATTA
* * * *
53220977 ATGAGATTACATATAAGACCATA-CTTAAGATATTGCAT-TATT
1 ATGAGATTTCGTATAAGACCATATC-TAGGATATTGCATCGA-T
* *
53221019 ATGATATTTCGTATAAGACCATATCTAGGATATGGCATCGAT
1 ATGAGATTTCGTATAAGACCATATCTAGGATATTGCATCGAT
* * *
53221061 ATGAGA-ATCGTGTAAGACCATAGT-TAGGTTATTGGCATCGAT
1 ATGAGATTTCGTATAAGACCATA-TCTAGGATATT-GCATCGAT
* * *
53221103 ATGAGATTTCATGTAAGACCATATCTGGGATAT
1 ATGAGATTTCGTATAAGACCATATCTAGGATAT
53221136 GACATTGATA
Statistics
Matches: 96, Mismatches: 15, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
41 21 0.22
42 53 0.55
43 22 0.23
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (42 bp):
ATGAGATTTCGTATAAGACCATATCTAGGATATTGCATCGAT
Found at i:53225049 original size:15 final size:15
Alignment explanation
Indices: 53225029--53225060 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
53225019 AATTTCGCTA
53225029 TTATATCTTTTATAT
1 TTATATCTTTTATAT
53225044 TTATATCTTTTATAT
1 TTATATCTTTTATAT
53225059 TT
1 TT
53225061 TGCATGCATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (15 bp):
TTATATCTTTTATAT
Found at i:53226941 original size:38 final size:38
Alignment explanation
Indices: 53226885--53227006 Score: 208
Period size: 38 Copynumber: 3.2 Consensus size: 38
53226875 ATACATACGT
* *
53226885 CATGACATAGGATTCCGATATATGTGTACGAGTAAGAC
1 CATGGCATAGGATTCCGATATATGTGTGCGAGTAAGAC
53226923 CATGGCATAGGATTCCGATATATGTGTGCGAGTAAGAC
1 CATGGCATAGGATTCCGATATATGTGTGCGAGTAAGAC
**
53226961 CATGGCATAGGATTCTAATATATGTGTGCGAGTAAGAC
1 CATGGCATAGGATTCCGATATATGTGTGCGAGTAAGAC
53226999 CATGGCAT
1 CATGGCAT
53227007 CGATATGTGA
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 80 1.00
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (38 bp):
CATGGCATAGGATTCCGATATATGTGTGCGAGTAAGAC
Found at i:53235943 original size:46 final size:46
Alignment explanation
Indices: 53235893--53236068 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
53235883 TGGTTGAGCA
53235893 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
53235939 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
53235984 CATCCGAACTCGTTGAGTTGACTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
53236032 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
53236069 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 63 0.58
47 28 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:53236049 original size:93 final size:93
Alignment explanation
Indices: 53235890--53236060 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
53235880 GGATGGTTGA
* * *
53235890 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGACTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
53235955 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
53235983 GCATCCGAACTCGTTGAGTTGACTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGACTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
53236048 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
53236061 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGACTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:53236327 original size:19 final size:20
Alignment explanation
Indices: 53236290--53236327 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
53236280 ATAAGGTGGT
53236290 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
53236310 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
53236328 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:53243265 original size:46 final size:45
Alignment explanation
Indices: 53243215--53243390 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 45
53243205 TGGTTGAGCA
53243215 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * * * *
53243261 TCCGAACTCATTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
* *
53243306 CATCCGAACTCGTTGAGTTGACTCCGAGTTCACTTATGGATGAGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* *
53243354 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
53243391 GCGGGTTACA
Statistics
Matches: 106, 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 62 0.58
47 27 0.25
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:53243371 original size:93 final size:93
Alignment explanation
Indices: 53243212--53243382 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
53243202 GGATGGTTGA
* * * *
53243212 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGACTCCGAGTTCACTTATGGATGAGAACGCCCGAACTCATTGAGT
53243277 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
53243305 GCATCCGAACTCGTTGAGTTGACTCCGAGTTCACTTATGGATGAGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGACTCCGAGTTCACTTATGGATGAGAACGCCCGAACTCATTGAGT
53243370 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
53243383 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGACTCCGAGTTCACTTATGGATGAGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:53245481 original size:62 final size:59
Alignment explanation
Indices: 53245406--53245522 Score: 146
Period size: 62 Copynumber: 1.9 Consensus size: 59
53245396 AGTGATTATC
* * * *
53245406 TTAATATTTAATTTAATTTAATGTTTATCTTGTAGATAAACATTCTATTATTTTAATAAGAT
1 TTAATATTTAATTTAATCTAATATTTATC-T-TA-ATAAACATTATATTAATTTAATAAGAT
*
53245468 TTAAT-TTTAAATTTAATCTAATATTTATCTTAATAAATATTATATTAATTTAATA
1 TTAATATTT-AATTTAATCTAATATTTATCTTAATAAACATTATATTAATTTAATA
53245523 TTAAAGTGAT
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
59 20 0.41
60 2 0.04
61 4 0.08
62 23 0.47
ACGTcount: A:0.40, C:0.04, G:0.03, T:0.52
Consensus pattern (59 bp):
TTAATATTTAATTTAATCTAATATTTATCTTAATAAACATTATATTAATTTAATAAGAT
Found at i:53249889 original size:43 final size:43
Alignment explanation
Indices: 53249823--53249977 Score: 267
Period size: 43 Copynumber: 3.6 Consensus size: 43
53249813 CCGGCATTAT
53249823 GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACGAA
* *
53249866 GCCTGCTAGGCACGAAGGGCCGAATACACATCA-TCAGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACT-GGCACGAA
*
53249909 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACGAA
53249952 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
53249978 TAATACCAGC
Statistics
Matches: 105, Mismatches: 5, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
42 1 0.01
43 104 0.99
ACGTcount: A:0.30, C:0.32, G:0.26, T:0.11
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACGAA
Found at i:53250191 original size:113 final size:113
Alignment explanation
Indices: 53249970--53250225 Score: 363
Period size: 113 Copynumber: 2.2 Consensus size: 113
53249960 GGCACGAAGG
* * * *
53249970 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAACCCGGATATATTACCAGCACGAAGCCT
1 CCCGGATATATTACCAGCA-TAAGCCTGCGGGATTTAACCCGGACATATTACCAGCACGAAGCCT
** * * *
53250035 GTGGGATTTAACCGGGATATATTACTAGCACGAAGGCTGCGGGATTTAA
65 ACGGGATTTAACCGGGATATATTACCAGCACGAAGCCTACGGGATTTAA
53250084 CCCGGATATATTACCAGCATGAAGCCTGCGGGATTTAACCCGGACATATTA-CAGCACGAAGCCT
1 CCCGGATATATTACCAGCAT-AAGCCTGCGGGATTTAACCCGGACATATTACCAGCACGAAGCCT
* *
53250148 ACGGGATTTAACCTGGATATGTTACCAGCACGAAGCCTACGGGATTTAA
65 ACGGGATTTAACCGGGATATATTACCAGCACGAAGCCTACGGGATTTAA
53250197 CCCGGATATAATT-CCAGCATATAGCCTGC
1 CCCGGATAT-ATTACCAGCATA-AGCCTGC
53250226 AGGCCTTTAG
Statistics
Matches: 128, Mismatches: 11, Indels: 7
0.88 0.08 0.05
Matches are distributed among these distances:
112 1 0.01
113 79 0.62
114 48 0.38
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.23
Consensus pattern (113 bp):
CCCGGATATATTACCAGCATAAGCCTGCGGGATTTAACCCGGACATATTACCAGCACGAAGCCTA
CGGGATTTAACCGGGATATATTACCAGCACGAAGCCTACGGGATTTAA
Found at i:53250223 original size:38 final size:38
Alignment explanation
Indices: 53249970--53250215 Score: 343
Period size: 38 Copynumber: 6.5 Consensus size: 38
53249960 GGCACGAAGG
* * * *
53249970 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
*
53250008 CCCGGATATATTACCAGCACGAAGCCTGTGGGATTTAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
* * *
53250046 CCGGGATATATTACTAGCACGAAGGCTGCGGGATTTAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
*
53250084 CCCGGATATATTACCAGCATGAAGCCTGCGGGATTTAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
* *
53250122 CCCGGACATATTA-CAGCACGAAGCCTACGGGATTTAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
* * *
53250159 CCTGGATATGTTACCAGCACGAAGCCTACGGGATTTAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
53250197 CCCGGATATAATT-CCAGCA
1 CCCGGATAT-ATTACCAGCA
53250216 TATAGCCTGC
Statistics
Matches: 185, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
37 32 0.17
38 151 0.82
39 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.22
Consensus pattern (38 bp):
CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
Found at i:53252988 original size:17 final size:17
Alignment explanation
Indices: 53252966--53252998 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
53252956 GAATACAAAT
*
53252966 AAATAACTAAAGAAAAG
1 AAATAAATAAAGAAAAG
53252983 AAATAAATAAAGAAAA
1 AAATAAATAAAGAAAA
53252999 ATAAACAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.03, G:0.09, T:0.12
Consensus pattern (17 bp):
AAATAAATAAAGAAAAG
Done.