Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 166 of 295
Found at i:56799551 original size:82 final size:81
Alignment explanation
Indices: 56799438--56799593 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
56799428 AAATTGTACA
* *
56799438 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
56799502 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
56799519 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
56799584 TGCGAGTTGA
65 TGCGAATTGA
56799594 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:56804111 original size:39 final size:39
Alignment explanation
Indices: 56804085--56804241 Score: 271
Period size: 39 Copynumber: 4.1 Consensus size: 39
56804075 GTCCAGCACG
*
56804085 TAGCCTGCGGACCTAAAGTCCGGATATAATTCTCGCATA
1 TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
*
56804124 TAGCCTGCGGACATGAAGTCCGGATATAATTCTCGCATA
1 TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
*
56804163 TAGCCTGCGGA-CTGAAGTCCGGATATAATTCTCGCTTA
1 TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
*
56804201 TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCGTA
1 TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
56804240 TA
1 TA
56804242 TATATTCACA
Statistics
Matches: 112, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
38 36 0.32
39 76 0.68
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (39 bp):
TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
Found at i:56804194 original size:77 final size:78
Alignment explanation
Indices: 56804085--56804241 Score: 271
Period size: 77 Copynumber: 2.0 Consensus size: 78
56804075 GTCCAGCACG
56804085 TAGCCTGCGGACCTAAAGTCCGGATATAATTCTCGCATATAGCCTGCGGACATGAAGTCCGGATA
1 TAGCCTGCGGACCTAAAGTCCGGATATAATTCTCGCATATAGCCTGCGGACATGAAGTCCGGATA
56804150 TAATTCTCGCATA
66 TAATTCTCGCATA
* * *
56804163 TAGCCTGCGGA-CTGAAGTCCGGATATAATTCTCGCTTATAGCCTGCGGACCTGAAGTCCGGATA
1 TAGCCTGCGGACCTAAAGTCCGGATATAATTCTCGCATATAGCCTGCGGACATGAAGTCCGGATA
*
56804227 TAATTCTCGCGTA
66 TAATTCTCGCATA
56804240 TA
1 TA
56804242 TATATTCACA
Statistics
Matches: 75, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
77 64 0.85
78 11 0.15
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (78 bp):
TAGCCTGCGGACCTAAAGTCCGGATATAATTCTCGCATATAGCCTGCGGACATGAAGTCCGGATA
TAATTCTCGCATA
Found at i:56812280 original size:39 final size:39
Alignment explanation
Indices: 56812254--56812411 Score: 280
Period size: 39 Copynumber: 4.1 Consensus size: 39
56812244 GTCCAGCACG
*
56812254 TAGCCTGCGGACCTAAAGTCCGGATATAATTCTCGCATA
1 TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
*
56812293 TAGCCTGCGGACATGAAGTCCGGATATAATTCTCGCATA
1 TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
*
56812332 TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCTTA
1 TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
*
56812371 TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCGTA
1 TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
56812410 TA
1 TA
56812412 TATATTCACA
Statistics
Matches: 114, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 114 1.00
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.27
Consensus pattern (39 bp):
TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
Found at i:56820030 original size:39 final size:39
Alignment explanation
Indices: 56819987--56820092 Score: 194
Period size: 39 Copynumber: 2.7 Consensus size: 39
56819977 ATTTGACATA
56819987 TGAAGTCCGGATATAATTCTCGCATATAGCCTGCGGACC
1 TGAAGTCCGGATATAATTCTCGCATATAGCCTGCGGACC
*
56820026 TGAAGTCCGGATATAATTCTCGCTTATAGCCTGCGGACC
1 TGAAGTCCGGATATAATTCTCGCATATAGCCTGCGGACC
*
56820065 TGAAGTCCGGATATAATTCTCGCGTATA
1 TGAAGTCCGGATATAATTCTCGCATATA
56820093 TATATTCACA
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 65 1.00
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (39 bp):
TGAAGTCCGGATATAATTCTCGCATATAGCCTGCGGACC
Found at i:56824960 original size:47 final size:45
Alignment explanation
Indices: 56824887--56825204 Score: 212
Period size: 47 Copynumber: 6.8 Consensus size: 45
56824877 TAATTTGAGT
*
56824887 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCTAGACGAGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCTAGA-GAGA
* * * * *
56824935 GCTAGTGTAAGACATGTCTGGGACATGCTTCAGCCATATTA-TGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATC-GGCAT-CTAGAGAGA
* *
56824981 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCA-CATAGATGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATC-TAGA-GAGA
* * * *
56825029 GCCAGAGTAAGACGTGTCTGGGACATGCATCGGCCTCGATAGAGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATC--TAGAGAGA
* * * * * * *
56825076 GCCCGTGTAAGACGTGTCTGGAACACGCATCGGC-T-AAGAGTTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCTAGAG-AGA
* ** * * *
56825120 GCTAGTGTAAGACATGTCTGGGACATGCATCAACACGCACATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCA-TC-TAGA-GAGA
* *
56825168 GCCAATGCAAGACCATGTCTGGGACATGGCATCGGCA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCA
56825205 ACCTATCCCA
Statistics
Matches: 209, Mismatches: 44, Indels: 32
0.73 0.15 0.11
Matches are distributed among these distances:
43 4 0.02
44 27 0.13
46 28 0.13
47 80 0.38
48 48 0.23
49 15 0.07
50 7 0.03
ACGTcount: A:0.28, C:0.22, G:0.30, T:0.21
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCTAGAGAGA
Found at i:56825048 original size:94 final size:92
Alignment explanation
Indices: 56824882--56825204 Score: 327
Period size: 94 Copynumber: 3.5 Consensus size: 92
56824872 TTGGGTAATT
* *
56824882 TGAGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATC-TAGACGAGGGCTAGTGTAAG
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-CATAGA-GAGTGCTAGTGTAAG
*
56824946 ACATGTCTGGGACATGCTTCAGCCATATTA
64 ACATGTCTGGGACATGCATCAGCCATA-TA
* * *
56824976 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCACATAGATGAGTGCCAGAGTAAGA
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACATAGA-GAGTGCTAGTGTAAGA
* *
56825041 CGTGTCTGGGACATGCATCGGCC-TCGATA
65 CATGTCTGGGACATGCATCAGCCAT--ATA
* * * * * *
56825070 -GAGATAGCCCGTGTAAGA-CGTGTCTGGAACA-CGCATCGGC-TA-AGAGTTGTGCTAGTGTAA
1 TGAG--AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACATAGAG-AGTGCTAGTGTAA
* *
56825130 GACATGTCTGGGACATGCATCAACACGCACATA
63 GACATGTCTGGGACATGCATC-A-GC-CATATA
* *
56825163 TGAGAGCCAATGCAAGACCATGTCTGGGACATGGCATCGGCA
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
56825205 ACCTATCCCA
Statistics
Matches: 187, Mismatches: 28, Indels: 27
0.77 0.12 0.11
Matches are distributed among these distances:
90 1 0.01
91 33 0.18
92 11 0.06
93 27 0.14
94 102 0.55
95 13 0.07
ACGTcount: A:0.28, C:0.21, G:0.30, T:0.21
Consensus pattern (92 bp):
TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACATAGAGAGTGCTAGTGTAAGAC
ATGTCTGGGACATGCATCAGCCATATA
Found at i:56828377 original size:67 final size:67
Alignment explanation
Indices: 56828248--56828455 Score: 254
Period size: 75 Copynumber: 3.0 Consensus size: 67
56828238 CCAGACATAT
* * * * **
56828248 ATATTGTGGCTAGGCCACCAAAACAGATATATATGTGGCAAACCCACCAGATTGCAGCGAGGCTG
1 ATATTGTGGCGAAGTCACCAAAACAG--ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTG
56828313 CCAG
64 CCAG
56828317 ATATTGTGGCGAAGTCACCAAAACAGATATATGTGGCGAGGCCACCAGATTGCAGTGAGGCAGCG
1 ATATTGTGGCGAAGTCACCAAAACAGATATATGTGGCGAGGCCACCAGA-T----T---GCAGCG
56828382 AGGCTGCCAG
58 AGGCTGCCAG
* *
56828392 ATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGC
1 ATATTGTGGCGAAGTCACCAAAACAGATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGC
56828456 TAGAACGCTT
Statistics
Matches: 123, Mismatches: 8, Indels: 18
0.83 0.05 0.12
Matches are distributed among these distances:
67 33 0.27
68 1 0.01
69 23 0.19
70 1 0.01
72 1 0.01
74 1 0.01
75 63 0.51
ACGTcount: A:0.30, C:0.23, G:0.29, T:0.18
Consensus pattern (67 bp):
ATATTGTGGCGAAGTCACCAAAACAGATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCC
AG
Found at i:56828395 original size:75 final size:75
Alignment explanation
Indices: 56828301--56828452 Score: 277
Period size: 75 Copynumber: 2.0 Consensus size: 75
56828291 CCACCAGATT
*
56828301 GCAGCGAGGCTGCCAGATATTGTGGCGAAGTCACCAAAACAGATATATGTGGCGAGGCCACCAGA
1 GCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAAAACAGATATATGTGGCGAGGCCACCAGA
*
56828366 TTGCAGTGAG
66 TTGCAGCGAG
*
56828376 GCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCACCAGA
1 GCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAAAACAGATATATGTGGCGAGGCCACCAGA
56828441 TTGCAGCGAG
66 TTGCAGCGAG
56828451 GC
1 GC
56828453 TGCTAGAACG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.29, C:0.22, G:0.32, T:0.16
Consensus pattern (75 bp):
GCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAAAACAGATATATGTGGCGAGGCCACCAGA
TTGCAGCGAG
Found at i:56828418 original size:26 final size:27
Alignment explanation
Indices: 56828389--56828440 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
56828379 GCGAGGCTGC
*
56828389 CAGATAT-TGTGACGAAGTCACCAGAA
1 CAGATATATGTGACGAAGCCACCAGAA
* *
56828415 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATATATGTGACGAAGCCACCAGA
56828441 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 (27 bp):
CAGATATATGTGACGAAGCCACCAGAA
Found at i:56828705 original size:27 final size:27
Alignment explanation
Indices: 56828643--56828705 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 27
56828633 CAGCCACTTG
*
56828643 CCCACAAGGGCAAAATAGTCATTTAAC
1 CCCACAAGGGCAAAATAGTAATTTAAC
* ** * * *
56828670 ACCTTAAGGGTAAAATGGTAATTTTAC
1 CCCACAAGGGCAAAATAGTAATTTAAC
56828697 CCCACAAGG
1 CCCACAAGG
56828706 TTATCTCGGT
Statistics
Matches: 26, Mismatches: 10, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.38, C:0.22, G:0.17, T:0.22
Consensus pattern (27 bp):
CCCACAAGGGCAAAATAGTAATTTAAC
Found at i:56828744 original size:27 final size:27
Alignment explanation
Indices: 56828687--56828873 Score: 223
Period size: 27 Copynumber: 6.9 Consensus size: 27
56828677 GGGTAAAATG
* * * * * *
56828687 GTAATTTTACCCCACAAGGTTATCTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
56828714 GTAATTCTACCTTACAGGAGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
56828741 GTAATTCTACCCTACAGGGGTATTT-A
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
56828767 CGTATTTCTACCCTACAAGGGTATTTCG
1 -GTAATTCTACCCTACAGGGGTATTTCA
*
56828795 GTAATTCTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
56828822 GTAATTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
56828849 GTATTTCTACCCTACAGGGGTATTT
1 GTAATTCTACCCTACAGGGGTATTT
56828874 TGATAATTTT
Statistics
Matches: 136, Mismatches: 22, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
26 1 0.01
27 135 0.99
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:56828812 original size:81 final size:81
Alignment explanation
Indices: 56828690--56828873 Score: 273
Period size: 81 Copynumber: 2.3 Consensus size: 81
56828680 TAAAATGGTA
* * * *
56828690 ATTT-TACCCCACAAGGTTATCTCGGTAATTCTACCTTACAGGAGTATTTCAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGAGTATTTCAGTAATTCTACCCT
*
56828754 ACAGGGGTATTTAC-GT
66 ACAAGGGTATTT-CGGT
* *
56828770 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGAGTATTTCAGTAATTCTACCCT
56828835 ACAAGGGTATTTCGGT
66 ACAAGGGTATTTCGGT
*
56828851 ATTTCTACCCTACAGGGGTATTT
1 ATTTCTACCCTACAAGGGTATTT
56828874 TGATAATTTT
Statistics
Matches: 94, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
80 5 0.05
81 89 0.95
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (81 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGAGTATTTCAGTAATTCTACCCT
ACAAGGGTATTTCGGT
Found at i:56828874 original size:54 final size:55
Alignment explanation
Indices: 56828714--56828874 Score: 256
Period size: 54 Copynumber: 3.0 Consensus size: 55
56828704 GGTTATCTCG
* *
56828714 GTAATTCTACCTTAC-AGGAGTATTTCAGTAATTCTACCCTACAGGGGTA-TTTAC
1 GTAATTCTACCCTACAAGG-GTATTTCGGTAATTCTACCCTACAGGGGTATTTTAC
*
56828768 GTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTA-
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAC
*
56828822 GTAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAGGGGTATTTT
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTT
56828875 GATAATTTTA
Statistics
Matches: 100, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
54 93 0.93
55 7 0.07
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (55 bp):
GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAC
Found at i:56828881 original size:81 final size:81
Alignment explanation
Indices: 56828690--56828908 Score: 264
Period size: 81 Copynumber: 2.7 Consensus size: 81
56828680 TAAAATGGTA
* * * * * * *
56828690 ATTT-TACCCCACAAGGTTATCTCGGTAATTCTACCTTACAGGAGTATTTCAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCATACAGGGGTATTTTAGTAATTCTACCCT
*
56828754 ACAGGGGTATTTACGT
66 ACAAGGGTATTTACGT
* *
56828770 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCATACAGGGGTATTTTAGTAATTCTACCCT
56828835 ACAAGGGTATTT-CGGT
66 ACAAGGGTATTTAC-GT
* * * * *
56828851 ATTTCTACCCTACAGGGGTATTTTGATAATTTTA-CAAACCAGGGGTATTTTGGTAATT
1 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCATA-CAGGGGTATTTTAGTAATT
56828909 TTGTAAACCA
Statistics
Matches: 122, Mismatches: 14, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
80 7 0.06
81 115 0.94
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.37
Consensus pattern (81 bp):
ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCATACAGGGGTATTTTAGTAATTCTACCCT
ACAAGGGTATTTACGT
Found at i:56834923 original size:94 final size:94
Alignment explanation
Indices: 56834752--56834926 Score: 226
Period size: 94 Copynumber: 1.9 Consensus size: 94
56834742 TTGGGTAATT
* * * * *
56834752 TGAGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGTATCCAGACGAGGGCTAGTGTAAGA
1 TGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATCCAGACGAGGGCCAGAGTAAAA
56834817 CATGTCTAGGACATGCTTCAGCCATATTA
66 CATGTCTAGGACATGCTTCAGCCATATTA
* * * * *
56834846 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCGTCGGCA-CAGAGATGAGTGCCAGAGTAAA
1 TGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATC-CAGACGAGGGCCAGAGTAAA
* *
56834910 ACGTGTCTGGGACATGC
65 ACATGTCTAGGACATGC
56834927 ATTGGCCTCG
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
93 1 0.01
94 67 0.99
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (94 bp):
TGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATCCAGACGAGGGCCAGAGTAAAA
CATGTCTAGGACATGCTTCAGCCATATTA
Found at i:56847526 original size:6 final size:6
Alignment explanation
Indices: 56847515--56847548 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
56847505 AATAATTATT
56847515 TATTTA TATTTA TATTTA TATTTA TATTTA TATT
1 TATTTA TATTTA TATTTA TATTTA TATTTA TATT
56847549 AAATCAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TATTTA
Found at i:56871489 original size:15 final size:15
Alignment explanation
Indices: 56871457--56871485 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
56871447 ATTTTCTGTG
56871457 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
56871472 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
56871486 ATTTTCATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:56872646 original size:45 final size:45
Alignment explanation
Indices: 56872581--56872781 Score: 234
Period size: 45 Copynumber: 4.6 Consensus size: 45
56872571 ATAGGATTTT
*
56872581 GATATATGTGTTTTCGTGTAAGACCACT-TCTGGGACGTTGGCATT
1 GATATATGTGTTTTCGTGTAAGACCA-TGTCTGGGACGTTGGCATC
* * * **
56872626 AATATATGTGTTTTTGTGTAAAACCACATCTGGGACGTTGGCATC
1 GATATATGTGTTTTCGTGTAAGACCATGTCTGGGACGTTGGCATC
* *
56872671 GATATTTGTGTTTTCGTGTAAGACCATGTCTGGGACATTGGCATC
1 GATATATGTGTTTTCGTGTAAGACCATGTCTGGGACGTTGGCATC
* * *
56872716 GATATATGTAG-TTACGTGTAAGACCATGTCTGGGACATCGGCATC
1 GATATATGT-GTTTTCGTGTAAGACCATGTCTGGGACGTTGGCATC
*
56872761 G-TAT-T-TGATTT-GTGTAAGACC
1 GATATATGTGTTTTCGTGTAAGACC
56872782 CTATTTAGCA
Statistics
Matches: 137, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
41 11 0.08
42 3 0.02
43 1 0.01
44 3 0.02
45 118 0.86
46 1 0.01
ACGTcount: A:0.23, C:0.15, G:0.25, T:0.36
Consensus pattern (45 bp):
GATATATGTGTTTTCGTGTAAGACCATGTCTGGGACGTTGGCATC
Found at i:56884812 original size:24 final size:23
Alignment explanation
Indices: 56884785--56884841 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 23
56884775 TAAAAATAAT
56884785 TATATTAAAAATTTTATTAAATTA
1 TATATT-AAAATTTTATTAAATTA
*
56884809 TATATT--ATTTTTATTAAATTA
1 TATATTAAAATTTTATTAAATTA
56884830 TAT-TTAATAATT
1 TATATTAA-AATT
56884842 ATCTTATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 2 0.07
21 17 0.61
23 3 0.11
24 6 0.21
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
TATATTAAAATTTTATTAAATTA
Found at i:56885041 original size:16 final size:16
Alignment explanation
Indices: 56885022--56885065 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
56885012 CTGATTATAG
*
56885022 CTCTATTTCATTACAA
1 CTCTATTCCATTACAA
*
56885038 CTCTATTCCATTACAT
1 CTCTATTCCATTACAA
*
56885054 CCCTATTCCATT
1 CTCTATTCCATT
56885066 CTAGTGAACC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.25, C:0.32, G:0.00, T:0.43
Consensus pattern (16 bp):
CTCTATTCCATTACAA
Found at i:56885886 original size:67 final size:67
Alignment explanation
Indices: 56885775--56885912 Score: 213
Period size: 67 Copynumber: 2.1 Consensus size: 67
56885765 TAATGTGTAA
* * * ** *
56885775 GACATTAAACATTGGGTATGATGTGTAAGACCATAGCTCGACTATGGTAACATAGAGAGTCCACT
1 GACATTAAACATGGGGTATAATGTGTAAGACCATAGCTCAACTATGACAACATAGAGAGTCCACC
56885840 AG
66 AG
*
56885842 GACATTAAACATGGGGTATAATGTGTAAGACCATAGCTCAACTATGACAACATAGAGAGTCTACC
1 GACATTAAACATGGGGTATAATGTGTAAGACCATAGCTCAACTATGACAACATAGAGAGTCCACC
56885907 AG
66 AG
56885909 GACA
1 GACA
56885913 ATATGAAGTA
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
67 64 1.00
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.23
Consensus pattern (67 bp):
GACATTAAACATGGGGTATAATGTGTAAGACCATAGCTCAACTATGACAACATAGAGAGTCCACC
AG
Found at i:56891869 original size:46 final size:46
Alignment explanation
Indices: 56891800--56891926 Score: 148
Period size: 46 Copynumber: 2.8 Consensus size: 46
56891790 CTATTTGTTG
* * * * *
56891800 TGTAGGTTCAACCCTAGTAGGTGACTAGGCACTATTCTCTGGTTCA
1 TGTAGGTTCAACCTTAATGGGTGACTAGGCACTATTATCTGATTCA
* *
56891846 TGTAGGTTTAACCTTAATGGGTGACTAGGCACTATTATCTTATTCA
1 TGTAGGTTCAACCTTAATGGGTGACTAGGCACTATTATCTGATTCA
* * *
56891892 TGTAGGTTCAATCCTT-ACGGGTGACCAGACACTAT
1 TGTAGGTTCAA-CCTTAATGGGTGACTAGGCACTAT
56891927 GATTCATTAT
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
46 65 0.94
47 4 0.06
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (46 bp):
TGTAGGTTCAACCTTAATGGGTGACTAGGCACTATTATCTGATTCA
Found at i:56891960 original size:48 final size:46
Alignment explanation
Indices: 56891842--56891973 Score: 129
Period size: 46 Copynumber: 2.8 Consensus size: 46
56891832 TATTCTCTGG
* * * * *
56891842 TTCATGTAGGTTTAACCTTAATGGGTGACTAGGCACTATTATCTTA
1 TTCATGTAGGTTTAACCCTAACGGGTGACCAGACACTATGATCTTA
* * *
56891888 TTCATGTAGGTTCAATCCTTACGGGTGACCAGACACTATGATTCATTA
1 TTCATGTAGGTTTAACCCTAACGGGTGACCAGACACTATGA-TC-TTA
** * * *
56891936 TTTGTGTAGGTTTAACCCAAACGGGTAACCAAACACTA
1 TTCATGTAGGTTTAACCCTAACGGGTGACCAGACACTA
56891974 CTATTTTCAC
Statistics
Matches: 68, Mismatches: 16, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
46 33 0.49
47 2 0.03
48 33 0.49
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (46 bp):
TTCATGTAGGTTTAACCCTAACGGGTGACCAGACACTATGATCTTA
Found at i:56898816 original size:25 final size:25
Alignment explanation
Indices: 56898783--56898882 Score: 85
Period size: 25 Copynumber: 3.8 Consensus size: 25
56898773 ATCAAAATGA
*
56898783 GAATTAGAATCAGAATCAGTTGACT
1 GAATCAGAATCAGAATCAGTTGACT
*
56898808 GAATCAGAATCAGAATCAGAATTAGATGACA
1 GAATCAGAATCAGAATCAG---T---TGACT
* * *
56898839 GAATCAGAATCAGTATCAGGT-AAT
1 GAATCAGAATCAGAATCAGTTGACT
56898863 AGAATCAGAATCAGAATCAG
1 -GAATCAGAATCAGAATCAG
56898883 AATCAGAATT
Statistics
Matches: 61, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
24 1 0.02
25 37 0.61
28 1 0.02
31 22 0.36
ACGTcount: A:0.45, C:0.13, G:0.20, T:0.22
Consensus pattern (25 bp):
GAATCAGAATCAGAATCAGTTGACT
Found at i:56898823 original size:31 final size:30
Alignment explanation
Indices: 56898782--56898913 Score: 142
Period size: 31 Copynumber: 4.3 Consensus size: 30
56898772 AATCAAAATG
* * *
56898782 AGAATTAGAATCAGAATCAGTTGACTGAATC
1 AGAATCAGAATCAGAATTAG-TGACAGAATC
56898813 AGAATCAGAATCAGAATTAGATGACAGAATC
1 AGAATCAGAATCAGAATTAG-TGACAGAATC
* *
56898844 AGAATCAGTATCAGGTAA-TAG-AATCAGAATC
1 AGAATCAGAATCA-G-AATTAGTGA-CAGAATC
*
56898875 AGAATCAGAATCAGAATTAGGTGACAGAGTC
1 AGAATCAGAATCAGAATTA-GTGACAGAATC
56898906 AGAATCAG
1 AGAATCAG
56898914 GATTAGGTAA
Statistics
Matches: 86, Mismatches: 9, Indels: 12
0.80 0.08 0.11
Matches are distributed among these distances:
29 2 0.02
30 4 0.05
31 73 0.85
32 5 0.06
33 2 0.02
ACGTcount: A:0.45, C:0.13, G:0.21, T:0.21
Consensus pattern (30 bp):
AGAATCAGAATCAGAATTAGTGACAGAATC
Found at i:56898874 original size:62 final size:62
Alignment explanation
Indices: 56898808--56898941 Score: 214
Period size: 62 Copynumber: 2.2 Consensus size: 62
56898798 TCAGTTGACT
* *
56898808 GAATCAGAATCAGAATCAGAATTAGATGACAGAATCAGAATCAGTATCAGGTAATAGAATCA
1 GAATCAGAATCAGAATCAGAATTAGATGACAGAATCAGAATCAGGATCAGGTAACAGAATCA
* * * *
56898870 GAATCAGAATCAGAATCAGAATTAGGTGACAGAGTCAGAATCAGGATTAGGTAACATAATCA
1 GAATCAGAATCAGAATCAGAATTAGATGACAGAATCAGAATCAGGATCAGGTAACAGAATCA
56898932 GAATCAGAAT
1 GAATCAGAAT
56898942 GTGAATGCAA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 66 1.00
ACGTcount: A:0.46, C:0.13, G:0.21, T:0.21
Consensus pattern (62 bp):
GAATCAGAATCAGAATCAGAATTAGATGACAGAATCAGAATCAGGATCAGGTAACAGAATCA
Found at i:56898902 original size:25 final size:25
Alignment explanation
Indices: 56898874--56898941 Score: 100
Period size: 25 Copynumber: 2.7 Consensus size: 25
56898864 GAATCAGAAT
*
56898874 CAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATTAGGTAA
* *
56898899 CAGAGTCAGAATCAGGATTAGGTAA
1 CAGAATCAGAATCAGAATTAGGTAA
*
56898924 CATAATCAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
56898942 GTGAATGCAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.44, C:0.13, G:0.22, T:0.21
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATTAGGTAA
Found at i:56898908 original size:6 final size:6
Alignment explanation
Indices: 56898761--56898891 Score: 108
Period size: 6 Copynumber: 21.3 Consensus size: 6
56898751 AAGAAACATT
* * * * *
56898761 ATCAGA A-CTAGA ATCAAA ATGAGA ATTAGA ATCAGA ATCAG- TTGACTGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* *
56898810 ATCAGA ATCAGA ATCAGA ATTAG- ATGACAGA ATCAGA ATCAGT ATCAGGTA
1 ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA ATCA-G-A
56898861 AT-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT
56898892 TAGGTGACAG
Statistics
Matches: 101, Mismatches: 13, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
5 7 0.07
6 82 0.81
7 7 0.07
8 5 0.05
ACGTcount: A:0.47, C:0.13, G:0.18, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:56898913 original size:37 final size:37
Alignment explanation
Indices: 56898809--56898891 Score: 82
Period size: 37 Copynumber: 2.2 Consensus size: 37
56898799 CAGTTGACTG
* * *
56898809 AATCAGAATCAGAATCAGAATTAGATGACAGAATCAG
1 AATCAGAATCAGAATCAGAATCAGGTAACAGAATCAG
*
56898846 AATCAGTATCAGGTAAT-AGAATCA-G-AATCAGAATCAG
1 AATCAGAATCA-G-AATCAGAATCAGGTAA-CAGAATCAG
56898883 AATCAGAAT
1 AATCAGAAT
56898892 TAGGTGACAG
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
36 1 0.03
37 27 0.71
38 7 0.18
39 3 0.08
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.20
Consensus pattern (37 bp):
AATCAGAATCAGAATCAGAATCAGGTAACAGAATCAG
Found at i:56899096 original size:27 final size:26
Alignment explanation
Indices: 56899059--56899151 Score: 96
Period size: 27 Copynumber: 3.5 Consensus size: 26
56899049 AGCATGGCTG
*
56899059 CCAGAACAGATATTGTAACAGAGTCA
1 CCAGAACAGATATTGTAACAGAGCCA
***
56899085 CCAGATACAGATATTGTTGTAGAGCCA
1 CCAGA-ACAGATATTGTAACAGAGCCA
** *
56899112 CCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTAACAGAGCCA
56899139 CCAGAAACAGATA
1 CCAG-AACAGATA
56899152 ATATGGCAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
26 12 0.21
27 37 0.65
28 8 0.14
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.20
Consensus pattern (26 bp):
CCAGAACAGATATTGTAACAGAGCCA
Found at i:56899158 original size:27 final size:27
Alignment explanation
Indices: 56899107--56899174 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 27
56899097 ATTGTTGTAG
* * *
56899107 AGCCACCAGAACAGATATTTGTGGCAT
1 AGCCACCAGAACAGATATATATGGCAA
56899134 AGCCACCAGAAACAGATA-ATATGGCAA
1 AGCCACCAG-AACAGATATATATGGCAA
*
56899161 AGCCACTA-AACAGA
1 AGCCACCAGAACAGA
56899175 ATACGTGGCA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
25 6 0.17
27 22 0.61
28 8 0.22
ACGTcount: A:0.43, C:0.24, G:0.19, T:0.15
Consensus pattern (27 bp):
AGCCACCAGAACAGATATATATGGCAA
Found at i:56899778 original size:27 final size:27
Alignment explanation
Indices: 56899730--56899979 Score: 241
Period size: 27 Copynumber: 9.3 Consensus size: 27
56899720 GGGGAAAAAT
* * **
56899730 GGTAATTTTACCCCAC-GAGGGTATCAC
1 GGTAATTCTACCCTACAG-GGGTATTTC
*
56899757 GGTAGTTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * **
56899784 AGTATTTCTACCCTACAAAGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
56899811 GGTAATTCTACCCTATAGAGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
56899838 AGTAATTCAATCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
56899865 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * **
56899892 AGTAATTCTGCCCTGTAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
56899919 GATAATTCTACCTTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
56899946 AGTAATTCTACCCTAAAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
56899973 GGTAATT
1 GGTAATT
56899980 TTACAATCGA
Statistics
Matches: 182, Mismatches: 40, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
27 181 0.99
28 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:56899796 original size:54 final size:54
Alignment explanation
Indices: 56899731--56899979 Score: 266
Period size: 54 Copynumber: 4.6 Consensus size: 54
56899721 GGGAAAAATG
* * * ** *
56899731 GTAATTTTACCCCACGAGGGTATCACGGTAGTTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* * * *
56899785 GTATTTCTACCCTACAAAGGTATTTCGGTAATTCTACCCTATAGAGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* * * * *
56899839 GTAATTCAATCCTATAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* ** * * * * *
56899893 GTAATTCTGCCCTGTAGGGGTATTTCGATAATTCTACCTTATAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
*
56899947 GTAATTCTACCCTA-AAGGGGTATTTTGGTAATT
1 GTAATTCTACCCTACAA-GGGTATTTCGGTAATT
56899980 TTACAATCGA
Statistics
Matches: 163, Mismatches: 31, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
53 1 0.01
54 162 0.99
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (54 bp):
GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
Found at i:56899874 original size:81 final size:80
Alignment explanation
Indices: 56899768--56900005 Score: 259
Period size: 81 Copynumber: 3.0 Consensus size: 80
56899758 GTAGTTCTAC
* * *
56899768 CCTACAGGGGTATTTCAGTATTTCTACCCTACAAAGGTATTTCGGTAATTCTACCCTATAGAGGT
1 CCTATAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGAGGT
56899833 ATTTC-AGTAATTCAA
66 ATTTCGA-TAATTCAA
* * * * * * *
56899848 TCCTATAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTGCCCTGTAGGGG
1 -CCTATAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGAGG
*
56899913 TATTTCGATAATTCTA
65 TATTTCGATAATTCAA
* * * * *
56899929 CCTTATAAGGGTATTTCAGTAATTCTACCCTA-AAGGGGTATTTTGGTAATTTTA--CAATCGAC
1 CC-TATAGGGGTATTTCAGTAATTCTACCCTACAA-GGGTATTTCGGTAATTCTACCCTATAGA-
56899991 GGTATTTCGATAATT
63 GGTATTTCGATAATT
56900006 TTACAAATCG
Statistics
Matches: 130, Mismatches: 23, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
79 3 0.02
80 18 0.14
81 108 0.83
82 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.37
Consensus pattern (80 bp):
CCTATAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGAGGT
ATTTCGATAATTCAA
Found at i:56900056 original size:27 final size:26
Alignment explanation
Indices: 56899964--56900086 Score: 97
Period size: 27 Copynumber: 4.7 Consensus size: 26
56899954 TACCCTAAAG
* *
56899964 GGGTATTTTGGTAATTTTACAATCGA
1 GGGTATTTCGGTAATTTTAAAATCGA
* *
56899990 CGGTATTTCGATAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTA-AAATCGA
** * *
56900017 GAATATTTGGGTAATTTTATAAATCGG
1 GGGTATTTCGGTAATTTTA-AAATCGA
* *
56900044 GGGTACTTT-GGTAATTTTACAA-CTGG
1 GGGTA-TTTCGGTAATTTTAAAATC-GA
*
56900070 GGGTATTTCAGTAATTT
1 GGGTATTTCGGTAATTT
56900087 GGTAAACTAA
Statistics
Matches: 78, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
25 4 0.05
26 32 0.41
27 39 0.50
28 3 0.04
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.41
Consensus pattern (26 bp):
GGGTATTTCGGTAATTTTAAAATCGA
Found at i:56902571 original size:14 final size:14
Alignment explanation
Indices: 56902554--56902587 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
56902544 ATATGTTATA
56902554 ATAATAAAATGTAT
1 ATAATAAAATGTAT
* *
56902568 ATAATTATATGTAT
1 ATAATAAAATGTAT
56902582 ATAATA
1 ATAATA
56902588 TAAGTTATGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (14 bp):
ATAATAAAATGTAT
Found at i:56903903 original size:13 final size:13
Alignment explanation
Indices: 56903887--56903911 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56903877 TAGAAAAAAA
56903887 ATATGTGTATTTG
1 ATATGTGTATTTG
56903900 ATATGTGTATTT
1 ATATGTGTATTT
56903912 ATTTGTGATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.20, T:0.56
Consensus pattern (13 bp):
ATATGTGTATTTG
Found at i:56909655 original size:46 final size:46
Alignment explanation
Indices: 56909603--56909913 Score: 291
Period size: 46 Copynumber: 6.7 Consensus size: 46
56909593 TCAGCATTCA
56909603 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCG
** * * *
56909649 AACTCGTTGAGTTGAGTCTAAGTTC-GTGA--GATG-TAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G--TCCG
* * *
56909696 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCG
* * *
56909742 AACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCG
* *
56909788 AACTCGTTGAGTTGAGTCTGAGTT--C-T-TGAGATG-TAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAAC---G--TCCG
* *
56909835 AACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAACG-CCC
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCG
* *
56909880 AAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 AA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56909914 CGGGTTACAT
Statistics
Matches: 219, Mismatches: 25, Indels: 42
0.77 0.09 0.15
Matches are distributed among these distances:
42 7 0.03
43 9 0.04
44 1 0.00
45 8 0.04
46 122 0.56
47 51 0.23
48 4 0.02
49 1 0.00
50 9 0.04
51 7 0.03
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCG
Found at i:56909772 original size:139 final size:138
Alignment explanation
Indices: 56909603--56909913 Score: 514
Period size: 139 Copynumber: 2.2 Consensus size: 138
56909593 TCAGCATTCA
*
56909603 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTGAGTCT
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTGAGTCT
* *
56909668 AAGTTCGTGAGATGTAACTAGGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
66 AAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGC
*
56909733 GAATGCCC
131 GAACGCCC
* *
56909741 GAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGTTGAGTC
1 -AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTGAGTC
* *
56909806 TGAGTTCTTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATG
65 TAAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATG
56909871 CGAACGCCC
130 CGAACGCCC
* *
56909880 AAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 AA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56909914 CGGGTTACAT
Statistics
Matches: 160, Mismatches: 11, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
138 2 0.01
139 158 0.99
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (138 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTGAGTCT
AAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGC
GAACGCCC
Found at i:56911321 original size:294 final size:294
Alignment explanation
Indices: 56910786--56911380 Score: 1109
Period size: 294 Copynumber: 2.0 Consensus size: 294
56910776 AAATCACCAT
*
56910786 AATTTGTGTAAAAATAATTTGGACTCAAAATTTATATGTATGGATTCCTTATTGAGTCTATTTTT
1 AATTTTTGTAAAAATAATTTGGACTCAAAATTTATATGTATGGATTCCTTATTGAGTCTATTTTT
56910851 AAGTGAAACAAACTACATAGTCATTGGATTTCTGTACAGAAAGAAATTTGATTCATAGTGCACAG
66 AAGTGAAACAAACTACATAGTCATTGGATTTCTGTACAGAAAGAAATTTGATTCATAGTGCACAG
* *
56910916 GGGTCAGAATAGCCTAACCCTAAAATAGGGGAGACTTTAACTAATAAACTATACTAATTGGCCCA
131 GAGTCAGAATAGCCTAACCCTAAAACAGGGGAGACTTTAACTAATAAACTATACTAATTGGCCCA
56910981 ACCAAAAATTGTAGAAAAAAATTTAGTAGATAGATATATTAGTCTAGTTTCAGGAAAAAATTACG
196 ACCAAAAATTGTAGAAAAAAATTTAGTAGATAGATATATTAGTCTAGTTTCAGGAAAAAATTACG
**
56911046 GATCTTAATTTTTACTTTTGGAACTCGAGATATG
261 GATCTTAATTTCGACTTTTGGAACTCGAGATATG
*
56911080 AATTTTTGTAAAAATAATTTGGGCTCAAAATTTATATGTATGGATTCCTTATTGAGTCTATTTTT
1 AATTTTTGTAAAAATAATTTGGACTCAAAATTTATATGTATGGATTCCTTATTGAGTCTATTTTT
56911145 AAGTGAAACAAACTACATAGTCATTGGATTTCTGTACAGAAAGAAATTTGATTCATAGTGCACAG
66 AAGTGAAACAAACTACATAGTCATTGGATTTCTGTACAGAAAGAAATTTGATTCATAGTGCACAG
*
56911210 GAGTCAGAATAGCCTAACCTTAAAACAGGGGAGACTTTAACTAATAAACTATACTAATTGGCCCA
131 GAGTCAGAATAGCCTAACCCTAAAACAGGGGAGACTTTAACTAATAAACTATACTAATTGGCCCA
*
56911275 ACCAAAAATTGTAGAAAAAAATTTAGTAGATAGATATATTAGTCTAGTTTCAGGAAAAATTTACG
196 ACCAAAAATTGTAGAAAAAAATTTAGTAGATAGATATATTAGTCTAGTTTCAGGAAAAAATTACG
*
56911340 GATCTTAATTTCGAGTTTTGGAACTCGAGATATG
261 GATCTTAATTTCGACTTTTGGAACTCGAGATATG
56911374 AATTTTT
1 AATTTTT
56911381 AAGCGACTGT
Statistics
Matches: 292, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
294 292 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (294 bp):
AATTTTTGTAAAAATAATTTGGACTCAAAATTTATATGTATGGATTCCTTATTGAGTCTATTTTT
AAGTGAAACAAACTACATAGTCATTGGATTTCTGTACAGAAAGAAATTTGATTCATAGTGCACAG
GAGTCAGAATAGCCTAACCCTAAAACAGGGGAGACTTTAACTAATAAACTATACTAATTGGCCCA
ACCAAAAATTGTAGAAAAAAATTTAGTAGATAGATATATTAGTCTAGTTTCAGGAAAAAATTACG
GATCTTAATTTCGACTTTTGGAACTCGAGATATG
Found at i:56913102 original size:43 final size:43
Alignment explanation
Indices: 56913049--56913178 Score: 188
Period size: 43 Copynumber: 3.0 Consensus size: 43
56913039 CCGGCATTAC
* *
56913049 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTACTAGGCACGAAGGCCCGAATATACATCACCGGCACGAA
* * * *
56913092 GCCTATTAGGCACGAAAGCCCGAATATACATCACTGACACGAA
1 GCCTACTAGGCACGAAGGCCCGAATATACATCACCGGCACGAA
* *
56913135 GCCTGCTAGGAACGAAGGCCCGAATATACATCACCGGCACGAA
1 GCCTACTAGGCACGAAGGCCCGAATATACATCACCGGCACGAA
56913178 G
1 G
56913179 GCCCGAATAC
Statistics
Matches: 75, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 75 1.00
ACGTcount: A:0.33, C:0.31, G:0.24, T:0.12
Consensus pattern (43 bp):
GCCTACTAGGCACGAAGGCCCGAATATACATCACCGGCACGAA
Found at i:56913176 original size:27 final size:27
Alignment explanation
Indices: 56913146--56913205 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
56913136 CCTGCTAGGA
* *
56913146 ACGAAGGCCCGAATATACATCACCGGC
1 ACGAAGGCCCGAATACACATCACCAGC
56913173 ACGAAGGCCCGAATACACATCACCAGC
1 ACGAAGGCCCGAATACACATCACCAGC
56913200 ACGAAG
1 ACGAAG
56913206 CCTGCTAGGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.37, C:0.33, G:0.22, T:0.08
Consensus pattern (27 bp):
ACGAAGGCCCGAATACACATCACCAGC
Found at i:56913187 original size:70 final size:70
Alignment explanation
Indices: 56913100--56913248 Score: 246
Period size: 70 Copynumber: 2.1 Consensus size: 70
56913090 AAGCCTATTA
* * *
56913100 GGCACGAAAGCCCGAATATACATCA-CTGACACGAAGCCTGCTAGGAACGAAGGCCCGAATATAC
1 GGCACGAAGGCCCGAATACACATCACCAG-CACGAAGCCTGCTAGGAACGAAGGCCCGAATATAC
56913164 ATCACC
65 ATCACC
*
56913170 GGCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTGCTAGGCACGAAGGCCCGAATATACA
1 GGCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTGCTAGGAACGAAGGCCCGAATATACA
56913235 TCACC
66 TCACC
56913240 GGCACGAAG
1 GGCACGAAG
56913249 CCTGCGGGAT
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
70 72 0.97
71 2 0.03
ACGTcount: A:0.34, C:0.32, G:0.23, T:0.11
Consensus pattern (70 bp):
GGCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTGCTAGGAACGAAGGCCCGAATATACA
TCACC
Found at i:56913217 original size:43 final size:43
Alignment explanation
Indices: 56913170--56913253 Score: 150
Period size: 43 Copynumber: 2.0 Consensus size: 43
56913160 ATACATCACC
56913170 GGCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTGCTA
1 GGCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTGCTA
* *
56913213 GGCACGAAGGCCCGAATATACATCACCGGCACGAAGCCTGC
1 GGCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTGC
56913254 GGGATTTAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.31, C:0.35, G:0.25, T:0.10
Consensus pattern (43 bp):
GGCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTGCTA
Found at i:56918670 original size:42 final size:42
Alignment explanation
Indices: 56918623--56918747 Score: 227
Period size: 42 Copynumber: 3.0 Consensus size: 42
56918613 CCGGCATTAC
56918623 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGCACGAA
56918665 GCCTGCTAGGCACGAAGGCCCGAATACACATCA-C-CACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGCACGAA
*
56918705 GCCTGCTAGGCACGAAGGCCCGAATATACATCACCGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGCACGAA
56918747 G
1 G
56918748 GCCCGATACA
Statistics
Matches: 80, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
40 38 0.47
41 2 0.03
42 40 0.50
ACGTcount: A:0.31, C:0.34, G:0.24, T:0.10
Consensus pattern (42 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGCACGAA
Found at i:56918714 original size:40 final size:40
Alignment explanation
Indices: 56918623--56918739 Score: 207
Period size: 40 Copynumber: 2.9 Consensus size: 40
56918613 CCGGCATTAC
56918623 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCA-C-CACGAA
56918665 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCACGAA
*
56918705 GCCTGCTAGGCACGAAGGCCCGAATATACATCACC
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACC
56918740 GCACGAAGGC
Statistics
Matches: 74, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
40 40 0.54
41 1 0.01
42 33 0.45
ACGTcount: A:0.31, C:0.35, G:0.23, T:0.11
Consensus pattern (40 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCACGAA
Found at i:56918767 original size:23 final size:26
Alignment explanation
Indices: 56918714--56918769 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
56918704 AGCCTGCTAG
*
56918714 GCACGAAGGCCCGAATATACATCACC
1 GCACGAAGGCCCGAATACACATCACC
56918740 GCACGAAGGCCCG-ATACACAT-ACC
1 GCACGAAGGCCCGAATACACATCACC
56918764 -CACGAA
1 GCACGAA
56918770 TATTATAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 6 0.21
24 3 0.10
25 7 0.24
26 13 0.45
ACGTcount: A:0.36, C:0.36, G:0.20, T:0.09
Consensus pattern (26 bp):
GCACGAAGGCCCGAATACACATCACC
Found at i:56918823 original size:38 final size:40
Alignment explanation
Indices: 56918778--56918852 Score: 127
Period size: 38 Copynumber: 1.9 Consensus size: 40
56918768 AATATTATAA
56918778 TACCAGCACGAAGCCTGCGGG-ATTTAA-CCCGGATATTT
1 TACCAGCACGAAGCCTGCGGGTATTTAAGCCCGGATATTT
*
56918816 TACCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATA
1 TACCAGCACGAAGCCTGCGGGTATTTAAGCCCGGATA
56918853 CACATCAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
38 21 0.62
39 5 0.15
40 8 0.24
ACGTcount: A:0.25, C:0.28, G:0.25, T:0.21
Consensus pattern (40 bp):
TACCAGCACGAAGCCTGCGGGTATTTAAGCCCGGATATTT
Found at i:56924179 original size:43 final size:43
Alignment explanation
Indices: 56924113--56924457 Score: 556
Period size: 43 Copynumber: 8.1 Consensus size: 43
56924103 CCGGCATTAC
*
56924113 GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
56924156 GCCTCCTAGGCACGAAGGCCCGAATACACATCACCAGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* * *
56924199 G-CT--TAGGCA-GAAGACCCGAATATACATCACCGACACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
56924238 GCCTGCTAGGCACGAAGGCCCGAATATACATCACCGGTACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
56924281 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
56924324 GCCTGCTAGGCACGAAGGCCTGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
56924367 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
56924410 GCCTGCTAGGCACGAAGGCCCGAATATACATCA-CTGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
56924452 GCCTGC
1 GCCTGC
56924458 GGGATTTAAC
Statistics
Matches: 282, Mismatches: 16, Indels: 9
0.92 0.05 0.03
Matches are distributed among these distances:
39 27 0.10
40 8 0.03
42 22 0.08
43 225 0.80
ACGTcount: A:0.31, C:0.33, G:0.24, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:56930219 original size:13 final size:13
Alignment explanation
Indices: 56930201--56930225 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56930191 AGAAAAAAAA
56930201 ATATGTGTATTTG
1 ATATGTGTATTTG
56930214 ATATGTGTATTT
1 ATATGTGTATTT
56930226 ATTTGTGATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.20, T:0.56
Consensus pattern (13 bp):
ATATGTGTATTTG
Found at i:56943189 original size:43 final size:42
Alignment explanation
Indices: 56943142--56943234 Score: 114
Period size: 43 Copynumber: 2.2 Consensus size: 42
56943132 GATTAACGAG
* * * *
56943142 ATGTGATTATACGTACGACCATGTCTGGGACATTGGCATCGTT
1 ATGTGATTACACGTAAGACCATGTCTGAGACATT-GAATCGTT
* *
56943185 ATGTGATTACATGTAAGACCATGTTTGAGACATTGAATCGTT
1 ATGTGATTACACGTAAGACCATGTCTGAGACATTGAATCGTT
*
56943227 ATTTGATT
1 ATGTGATT
56943235 TCGTGTAAAC
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 14 0.33
43 29 0.67
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.37
Consensus pattern (42 bp):
ATGTGATTACACGTAAGACCATGTCTGAGACATTGAATCGTT
Found at i:56943242 original size:42 final size:43
Alignment explanation
Indices: 56943142--56943295 Score: 118
Period size: 42 Copynumber: 3.6 Consensus size: 43
56943132 GATTAACGAG
* * * * *
56943142 ATGTGATTATACGTACGACCATGTCTGGGACATTGGCATCGTT
1 ATGTGATTACATGTAAGACCATGTCTGAGACATTGGAATCGTT
*
56943185 ATGTGATTACATGTAAGACCATGTTTGAGACATT-GAATCGTT
1 ATGTGATTACATGTAAGACCATGTCTGAGACATTGGAATCGTT
* * * ** * *
56943227 ATTTGATTTCGTGTAA-ACCATAG-CTGAG-CTATTGCCATTGAT
1 ATGTGATTACATGTAAGACCAT-GTCTGAGAC-ATTGGAATCGTT
* * *
56943269 ATGTGATAACATGTAAGAGCATATCTG
1 ATGTGATTACATGTAAGACCATGTCTG
56943296 GGATATGGCA
Statistics
Matches: 86, Mismatches: 20, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
40 1 0.01
41 12 0.14
42 37 0.43
43 36 0.42
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (43 bp):
ATGTGATTACATGTAAGACCATGTCTGAGACATTGGAATCGTT
Found at i:56946094 original size:12 final size:12
Alignment explanation
Indices: 56946077--56946109 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
56946067 CAGCCCGCCC
56946077 ATATTAATTTTT
1 ATATTAATTTTT
56946089 ATATT-ATTTTT
1 ATATTAATTTTT
56946100 ATA-TAATTTT
1 ATATTAATTTT
56946110 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:56946274 original size:28 final size:30
Alignment explanation
Indices: 56946233--56946293 Score: 90
Period size: 28 Copynumber: 2.1 Consensus size: 30
56946223 ACTTAACAAG
*
56946233 CAAATGTCTCTAAAATAA-AA-TAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
*
56946261 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
56946291 CAA
1 CAA
56946294 TAAAATAAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 17 0.59
29 2 0.07
30 10 0.34
ACGTcount: A:0.57, C:0.11, G:0.03, T:0.28
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAATTAA
Found at i:56956118 original size:19 final size:19
Alignment explanation
Indices: 56956081--56956118 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
56956071 ATCTATCAGA
*
56956081 AGAAAATAAATGAAGAATT
1 AGAAAATAAATGAAAAATT
56956100 AGAAAATAAAAT-AAAAATT
1 AGAAAAT-AAATGAAAAATT
56956119 TAAATTGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.21
Consensus pattern (19 bp):
AGAAAATAAATGAAAAATT
Found at i:56969792 original size:43 final size:42
Alignment explanation
Indices: 56969724--56969843 Score: 134
Period size: 43 Copynumber: 2.8 Consensus size: 42
56969714 TGTTACATGT
* * * *
56969724 GATTACATGTAAGACCATGTTTGGGACATTGGCATCGTTAAT-C
1 GATTACATGTAAGACCATATCTGGGATA-TGGCATCGAT-ATGC
* * *
56969767 GATTTCATGTAAGACCCTATCTGGGATAGTGGCATCGATATGT
1 GATTACATGTAAGACCATATCTGGGATA-TGGCATCGATATGC
*
56969810 GATAACATGTAAGACCATATCTGGGATATGGCAT
1 GATTACATGTAAGACCATATCTGGGATATGGCAT
56969844 TATATGAGCT
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
42 8 0.12
43 57 0.88
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (42 bp):
GATTACATGTAAGACCATATCTGGGATATGGCATCGATATGC
Found at i:56971827 original size:20 final size:21
Alignment explanation
Indices: 56971786--56971828 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
56971776 TTAATGCAAG
*
56971786 TTTGAGAGTTTGAAAGAGGGT
1 TTTGAGAGTTTGAAAGAAGGT
56971807 TTTGAGAGTTTGAAA-AAGGT
1 TTTGAGAGTTTGAAAGAAGGT
56971827 TT
1 TT
56971829 ACTGAACTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.37
Consensus pattern (21 bp):
TTTGAGAGTTTGAAAGAAGGT
Found at i:56974719 original size:32 final size:32
Alignment explanation
Indices: 56974680--56974742 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
56974670 GTAGCAATCT
56974680 GGGCCTAAGCCCATT-CAGTAACAATATCAGTG
1 GGGCCTAAGCCCATTACAGTAACAATA-CAGTG
56974712 GGGCCTAAGCCCATTACAGTAACAATACAGT
1 GGGCCTAAGCCCATTACAGTAACAATACAGT
56974743 ATGCAATCAG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 19 0.63
33 11 0.37
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.21
Consensus pattern (32 bp):
GGGCCTAAGCCCATTACAGTAACAATACAGTG
Found at i:56977765 original size:25 final size:25
Alignment explanation
Indices: 56977736--56977786 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
56977726 ATGTTACTTG
56977736 ATTGATATGGAGATTTTTGTGACTA
1 ATTGATATGGAGATTTTTGTGACTA
56977761 ATTGATATGGAGATTTTTGTGACTA
1 ATTGATATGGAGATTTTTGTGACTA
56977786 A
1 A
56977787 CATGTTTGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.29, C:0.04, G:0.24, T:0.43
Consensus pattern (25 bp):
ATTGATATGGAGATTTTTGTGACTA
Found at i:56981098 original size:27 final size:27
Alignment explanation
Indices: 56981067--56981243 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
56981057 TAAATTGTAC
56981067 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
56981094 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
56981120 ATGCACTAAGTGTGCGAATTGACCATG-
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
56981147 CGGACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
56981175 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
56981202 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
56981229 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
56981244 GACTCAATAT
Statistics
Matches: 127, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
26 14 0.11
27 99 0.78
28 14 0.11
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:56981180 original size:81 final size:80
Alignment explanation
Indices: 56981070--56981222 Score: 227
Period size: 81 Copynumber: 1.9 Consensus size: 80
56981060 ATTGTACAGC
* *
56981070 ACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTGTG
1 ACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTGTG
56981134 CGAATTGACCATGCGG
65 CGAATTGACCATGCGG
** *
56981150 ACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTG
1 ACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGTG
*
56981215 CGAGTTGA
65 CGAATTGA
56981223 TTATATAGCA
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
80 13 0.20
81 51 0.78
82 1 0.02
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.30
Consensus pattern (80 bp):
ACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGTGC
GAATTGACCATGCGG
Found at i:56984076 original size:39 final size:40
Alignment explanation
Indices: 56984031--56984198 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
56984021 CGGGGTTTAG
* * *
56984031 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
56984070 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
56984110 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
56984150 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
56984191 CCGGATAT
1 CCGGATAT
56984199 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:56984181 original size:41 final size:40
Alignment explanation
Indices: 56984054--56984198 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
56984044 CTCGCACAAG
* * * * *
56984054 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
56984094 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
56984134 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
56984175 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
56984199 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:56985431 original size:38 final size:38
Alignment explanation
Indices: 56985389--56985463 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
56985379 AAGAACTCCA
56985389 TCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAAT
1 TCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAAT
56985427 TCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
56985464 AAAGGATGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.31
Consensus pattern (38 bp):
TCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAAT
Found at i:56995420 original size:40 final size:41
Alignment explanation
Indices: 56995365--56995460 Score: 117
Period size: 40 Copynumber: 2.4 Consensus size: 41
56995355 TATCTCAGTA
*
56995365 TCGCACACTTGGTGCC-TCTTATAGCCGAAGCTA-TTCCAAC
1 TCGCACACTTAGTGCCAT-TTATAGCCGAAGCTATTTCCAAC
* * * *
56995405 TCGCACAATTAGTGCCATTTGTAGCTGAAGCTATTTCGAAC
1 TCGCACACTTAGTGCCATTTATAGCCGAAGCTATTTCCAAC
56995446 -CGCACACTTAGTGCC
1 TCGCACACTTAGTGCC
56995461 GAACATAGTC
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
40 41 0.85
41 7 0.15
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (41 bp):
TCGCACACTTAGTGCCATTTATAGCCGAAGCTATTTCCAAC
Found at i:57007256 original size:14 final size:13
Alignment explanation
Indices: 57007234--57007264 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
57007224 TGAATACTCA
57007234 TTTTTTTTGTTTG
1 TTTTTTTTGTTTG
57007247 TTTTTGTTTGTTTG
1 TTTTT-TTTGTTTG
57007261 TTTT
1 TTTT
57007265 CTATTGAGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (13 bp):
TTTTTTTTGTTTG
Found at i:57009510 original size:69 final size:69
Alignment explanation
Indices: 57009399--57009537 Score: 269
Period size: 69 Copynumber: 2.0 Consensus size: 69
57009389 CTTCAGTTGC
57009399 TAGTGTAGGTAACAATCGCCAAGAAAAACCTGAATGTCCACAATGTGGAAGACGACACGTAGGTG
1 TAGTGTAGGTAACAATCGCCAAGAAAAACCTGAATGTCCACAATGTGGAAGACGACACGTAGGTG
57009464 AATG
66 AATG
*
57009468 TAGTGTGGGTAACAATCGCCAAGAAAAACCTGAATGTCCACAATGTGGAAGACGACACGTAGGTG
1 TAGTGTAGGTAACAATCGCCAAGAAAAACCTGAATGTCCACAATGTGGAAGACGACACGTAGGTG
57009533 AATG
66 AATG
57009537 T
1 T
57009538 TGGGGTAAGT
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.37, C:0.17, G:0.27, T:0.19
Consensus pattern (69 bp):
TAGTGTAGGTAACAATCGCCAAGAAAAACCTGAATGTCCACAATGTGGAAGACGACACGTAGGTG
AATG
Found at i:57023330 original size:15 final size:16
Alignment explanation
Indices: 57023296--57023333 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
57023286 GTGGCTTCAT
*
57023296 TTATTAATTGAATTAAA
1 TTATT-ATTGAATCAAA
57023313 TTATTATT-AATCAAA
1 TTATTATTGAATCAAA
57023328 TTATTA
1 TTATTA
57023334 AAAATATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 12 0.60
16 3 0.15
17 5 0.25
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (16 bp):
TTATTATTGAATCAAA
Found at i:57028607 original size:27 final size:28
Alignment explanation
Indices: 57028521--57028618 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
57028511 CATGAGATTG
* * *
57028521 GCACTAAGTGTGCGGGTTTAAGTTGTACA
1 GCACTAAGTGTGCGAGTTTGA-TTATACA
57028550 GCACTAAGTGTGCGAGTTTGATTATACA
1 GCACTAAGTGTGCGAGTTTGATTATACA
*
57028578 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATACA
*
57028605 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
57028619 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 23 0.36
28 22 0.34
29 19 0.30
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATACA
Found at i:57028629 original size:27 final size:27
Alignment explanation
Indices: 57028549--57028631 Score: 87
Period size: 27 Copynumber: 3.0 Consensus size: 27
57028539 TAAGTTGTAC
* * *
57028549 AGCACTAAGTGTGCGAGTTTGATTATAC
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
57028577 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
57028604 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
57028631 A
1 A
57028632 TTTTTGAATC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
27 29 0.59
28 20 0.41
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:57028632 original size:29 final size:27
Alignment explanation
Indices: 57028521--57028632 Score: 89
Period size: 28 Copynumber: 4.0 Consensus size: 27
57028511 CATGAGATTG
** * *
57028521 GCACTAAGTGTGCGGGTTTAAGTTGTACA
1 GCACTAAGTGTGC-GACTTAA-TTATATA
* * *
57028550 GCACTAAGTGTGCGAGTTTGATTATACA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
57028578 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
57028605 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
57028633 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 22 0.31
28 28 0.39
29 22 0.31
ACGTcount: A:0.28, C:0.13, G:0.27, T:0.32
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:57036686 original size:28 final size:28
Alignment explanation
Indices: 57036618--57036714 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
57036608 CATGAGATTG
* * * *
57036618 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
57036647 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
57036675 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
57036702 GCACT-AGTGTGCG
1 GCACTAAGTGTGCG
57036715 GACTTAATAT
Statistics
Matches: 64, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
26 8 0.12
27 16 0.25
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:57036725 original size:26 final size:27
Alignment explanation
Indices: 57036646--57036727 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
57036636 TAAATTGTAC
* *
57036646 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
57036674 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
57036701 AGCACT-AGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
57036727 A
1 A
57036728 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
26 14 0.28
27 20 0.40
28 16 0.32
ACGTcount: A:0.30, C:0.12, G:0.24, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:57047814 original size:46 final size:46
Alignment explanation
Indices: 57047764--57047887 Score: 160
Period size: 46 Copynumber: 2.7 Consensus size: 46
57047754 TCCACATTAT
* * * *
57047764 GAGAGCCAGTGTAAGACATGTCTGGGATATGCATCGGCATTGAGAC
1 GAGAGCTAGTGTAAGACATGTTTGGGACATGCATCGGCATGGAGAC
** * *
57047810 GAGAGCTAGTGTAAGACATGTTTGTAACATGCATTGGCCTGGAGAC
1 GAGAGCTAGTGTAAGACATGTTTGGGACATGCATCGGCATGGAGAC
57047856 GTA-AGCTAGTGTAAGACATGTTTGGGACATGC
1 G-AGAGCTAGTGTAAGACATGTTTGGGACATGC
57047888 TTCAGCTACG
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
46 66 0.99
47 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.25
Consensus pattern (46 bp):
GAGAGCTAGTGTAAGACATGTTTGGGACATGCATCGGCATGGAGAC
Found at i:57057346 original size:53 final size:53
Alignment explanation
Indices: 57057289--57057397 Score: 209
Period size: 53 Copynumber: 2.1 Consensus size: 53
57057279 ATTCTGGTGG
*
57057289 CTAAGCCACATATAAATCTGATTTTGGCAAAATATCAATTTGTCCTCTGGAAA
1 CTAAGCCACATATAAATCTGATTTTGGCAAAATATCAATTTGTCCTCTAGAAA
57057342 CTAAGCCACATATAAATCTGATTTTGGCAAAATATCAATTTGTCCTCTAGAAA
1 CTAAGCCACATATAAATCTGATTTTGGCAAAATATCAATTTGTCCTCTAGAAA
57057395 CTA
1 CTA
57057398 GTCTGCAAAT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.32
Consensus pattern (53 bp):
CTAAGCCACATATAAATCTGATTTTGGCAAAATATCAATTTGTCCTCTAGAAA
Found at i:57062383 original size:22 final size:22
Alignment explanation
Indices: 57062358--57062401 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
57062348 TTTGAGTCAG
57062358 GATTTATCACACTATCACAGGT
1 GATTTATCACACTATCACAGGT
57062380 GATTTATCACACTATCACAGGT
1 GATTTATCACACTATCACAGGT
57062402 TATATAATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.32
Consensus pattern (22 bp):
GATTTATCACACTATCACAGGT
Found at i:57067559 original size:18 final size:20
Alignment explanation
Indices: 57067536--57067577 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
57067526 CATTTTTGGT
*
57067536 ATCTA-TTAA-TTGAGTATG
1 ATCTATTTAATTTGAATATG
57067554 ATCTATTTAATTTGAATATG
1 ATCTATTTAATTTGAATATG
57067574 ATCT
1 ATCT
57067578 GAATATGAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.24
19 4 0.19
20 12 0.57
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.48
Consensus pattern (20 bp):
ATCTATTTAATTTGAATATG
Found at i:57072480 original size:43 final size:43
Alignment explanation
Indices: 57072419--57072530 Score: 215
Period size: 43 Copynumber: 2.6 Consensus size: 43
57072409 GCTGGTATTA
57072419 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTACCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTACCGGTGATGTG
*
57072462 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTACCGGTGATGTG
57072505 TATTCGGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
57072531 GTAATACCAG
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
43 68 1.00
ACGTcount: A:0.11, C:0.27, G:0.33, T:0.29
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTACCGGTGATGTG
Found at i:57076382 original size:12 final size:12
Alignment explanation
Indices: 57076361--57076390 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
57076351 ATTAGAATAG
57076361 AATC-GGGACTT
1 AATCTGGGACTT
57076372 AATCTGGGACTT
1 AATCTGGGACTT
57076384 AATCTGG
1 AATCTGG
57076391 AACTCCAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.22
12 14 0.78
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.30
Consensus pattern (12 bp):
AATCTGGGACTT
Found at i:57080778 original size:40 final size:40
Alignment explanation
Indices: 57080718--57080901 Score: 221
Period size: 40 Copynumber: 4.6 Consensus size: 40
57080708 TATTCGAATG
* *
57080718 ATATCCGGGCTAAG-TCCCAAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * * *
57080758 ATATCCGGACTAAGATCCAAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * *
57080798 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
57080838 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
57080878 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
57080902 CTTGTGCGAG
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 1 0.01
40 121 0.97
41 3 0.02
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:57080851 original size:80 final size:80
Alignment explanation
Indices: 57080718--57080901 Score: 246
Period size: 80 Copynumber: 2.3 Consensus size: 80
57080708 TATTCGAATG
* * * *
57080718 ATATCCGGGCTAAGTCCCAAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGAT-CCAAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAG-TCCCAAAGGC
* *
57080782 ATTTGTGCGAGTTG-CT
65 ATTTATGCGAG-TGACC
* * *
57080798 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCAAAGGCA
*
57080863 TTTATGCTAGTGACC
66 TTTATGCGAGTGACC
57080878 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
57080902 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
79 3 0.03
80 89 0.97
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCAAAGGCA
TTTATGCGAGTGACC
Found at i:57086740 original size:28 final size:28
Alignment explanation
Indices: 57086708--57086835 Score: 175
Period size: 29 Copynumber: 4.5 Consensus size: 28
57086698 ATAGTAAGTC
*
57086708 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
57086736 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGC-TATATAATCAAACT
57086765 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* ** * *
57086793 TGCACACTTAGTGCTATGCAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
57086822 CGCACACTTAGTGC
1 CGCACACTTAGTGC
57086836 CAATCTCATG
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 44 0.49
29 45 0.51
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:57086798 original size:57 final size:57
Alignment explanation
Indices: 57086707--57086835 Score: 188
Period size: 57 Copynumber: 2.3 Consensus size: 57
57086697 TATAGTAAGT
*
57086707 CCGCACACTTAGTGTTATATAATCAAACTCGCACACTTAGTGCT-TACATAATCAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACA-AATCAAAC
* * * * *
57086764 TCGCACACTTAGTGCTATATAATCAAACTTGCACACTTAGTGCTATGCAATTTAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
57086821 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
57086836 CAATCTCATG
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
57 61 0.95
58 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (57 bp):
CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
Found at i:57092116 original size:40 final size:40
Alignment explanation
Indices: 57092053--57092236 Score: 235
Period size: 40 Copynumber: 4.6 Consensus size: 40
57092043 TATTCGAATG
* *
57092053 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* * * * * *
57092093 ATATCCAGACTAAGATCCAAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGACT
* *
57092133 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* * *
57092173 ACATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
57092213 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
57092237 CTTGTGCGAG
Statistics
Matches: 121, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
39 1 0.01
40 118 0.98
41 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
Found at i:57108287 original size:17 final size:17
Alignment explanation
Indices: 57108257--57108293 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
57108247 TAAACACTTT
* *
57108257 TAAAATATCCTAAACCC
1 TAAAAAATCATAAACCC
57108274 TAAAAAATCATAAACCC
1 TAAAAAATCATAAACCC
57108291 TAA
1 TAA
57108294 CCTTAAAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.54, C:0.24, G:0.00, T:0.22
Consensus pattern (17 bp):
TAAAAAATCATAAACCC
Found at i:57110402 original size:20 final size:22
Alignment explanation
Indices: 57110363--57110403 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
57110353 ACTAATTTTA
57110363 ATTTTATGATATAGAAATAATT
1 ATTTTATGATATAGAAATAATT
*
57110385 ATTTTAT-ATTTA-AAATAAT
1 ATTTTATGATATAGAAATAAT
57110404 AAAAATAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 4 0.22
22 7 0.39
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (22 bp):
ATTTTATGATATAGAAATAATT
Found at i:57114971 original size:26 final size:27
Alignment explanation
Indices: 57114932--57114982 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
57114922 TGCCATATAA
57114932 CAGGAAGCTCACAAAGAG-CTATTAAT
1 CAGGAAGCTCACAAAGAGCCTATTAAT
*
57114958 CAGGAAGCTTACAAAGAGCCTATTA
1 CAGGAAGCTCACAAAGAGCCTATTA
57114983 GGAAGCTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.20
Consensus pattern (27 bp):
CAGGAAGCTCACAAAGAGCCTATTAAT
Found at i:57121298 original size:18 final size:20
Alignment explanation
Indices: 57121262--57121308 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
57121252 AGTTGTAAGT
57121262 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
57121282 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
57121301 ATGATATA
1 AT-ATATA
57121309 ACATGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:57121832 original size:50 final size:50
Alignment explanation
Indices: 57121656--57122001 Score: 306
Period size: 50 Copynumber: 6.9 Consensus size: 50
57121646 ATCCGTTGTG
57121656 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA-TA
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TGATTA
* ** * * * ** * * *
57121706 GGTTGCATGTATAGTACTAAGTGTAGGCTACTACGCATACCCGTTAACTT-
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGA-TTA
* * * * *
57121756 CGATCACATGTGTAGTACTAAATGCAGGCTACTATGTGTATCAGATGATTA
1 AG-TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGATTA
* * * *
57121807 AGTCATGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCA-TTAACTT-
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATGA-TTA
* * *
57121857 TGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTA
1 AG-TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGATTA
* * * *
57121908 AGTCACGTGTGTGGTACTAAGTGCAAGCTACTACATGTACCAAATTGA-TA
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TGATTA
* * * * *
57121958 GGTCACATGTGTAGTACTAATTGCAGGCTACTATGCGTACCAGA
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
57122002 GAGCTTCGGT
Statistics
Matches: 230, Mismatches: 56, Indels: 20
0.75 0.18 0.07
Matches are distributed among these distances:
49 2 0.01
50 150 0.65
51 78 0.34
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (50 bp):
AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGATTA
Found at i:57121948 original size:101 final size:101
Alignment explanation
Indices: 57121658--57121990 Score: 400
Period size: 101 Copynumber: 3.3 Consensus size: 101
57121648 CCGTTGTGAG
* * * * * ** * *
57121658 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTTGCATGTATAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTCACGTGTGTAGTAC
* * * *
57121723 TAAGTGTAGGCTACTACGCATACCCGTTAACTTCGA
66 TAAGTGCAGGCTACTACGCGTACCCATTAACTTAGA
* * * *
57121759 TCACATGTGTAGTACTAAATGCAGGCTACTATGTGTATCAGATGATTAAGTCATGTGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTCACGTGTGTAGTAC
*
57121824 TAAGTGCAGGCTACTACGCGTACCCATTAACTTTGA
66 TAAGTGCAGGCTACTACGCGTACCCATTAACTTAGA
* *
57121860 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTCACGTGTGTGGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTCACGTGTGTAGTAC
* ** * * *
57121925 TAAGTGCAAGCTACTACATGTACCAAATTGA--TAGG
66 TAAGTGCAGGCTACTACGCGTACC-CATTAACTTAGA
*
57121960 TCACATGTGTAGTACTAATTGCAGGCTACTA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTA
57121991 TGCGTACCAG
Statistics
Matches: 199, Mismatches: 32, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
100 31 0.16
101 164 0.82
102 4 0.02
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.30
Consensus pattern (101 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTCACGTGTGTAGTAC
TAAGTGCAGGCTACTACGCGTACCCATTAACTTAGA
Found at i:57122750 original size:180 final size:180
Alignment explanation
Indices: 57122558--57122897 Score: 502
Period size: 180 Copynumber: 1.9 Consensus size: 180
57122548 CATACAGGAG
* * * *
57122558 CTGTACCATGAGATAAATAATTTTTAGTGAAGAGAGGTCAGAACTGTCAGATAGTGAAATAGAGG
1 CTGTACCATGAGATAAATAATTTTTACTAAAGAGAGGTCAGAACTGTCAGACAATGAAATAG-GG
* * *
57122623 -TATCTTTAATGAATAAAATGTACTAATTGGATAAACCAAAAATTATGAAAATTTTATTGTAAGA
65 ATAACTTCAATGAATAAAATGTACTAATTGGATAAACCAAAAATTATGAAAATTTTATGGTAAGA
* * *
57122687 ATATATGTGAGTCTAGTTTCTGGGAAAATTAGCGGTTCTCAATTTGAAGTC
130 ATATATATGAGTCTAGTTTCAGAGAAAATTAGCGGTTCTCAATTTGAAGTC
* *
57122738 CTGTACCATGAGATAAATAATTTTTACTAAAGAGAGGTCGGAATTGTCAGACAATGAAATAGGGA
1 CTGTACCATGAGATAAATAATTTTTACTAAAGAGAGGTCAGAACTGTCAGACAATGAAATAGGGA
* * * ** *
57122803 TAACTTCAGTGAATAAAATGTACTTATTGGCTGGACCAAAAATTCTGAAAATTTTATGGTAAGAA
66 TAACTTCAATGAATAAAATGTACTAATTGGATAAACCAAAAATTATGAAAATTTTATGGTAAGAA
57122868 TATATATGAGTCTAGTTTCAGAGAAAATTA
131 TATATATGAGTCTAGTTTCAGAGAAAATTA
57122898 ACAAATCTTA
Statistics
Matches: 141, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
179 2 0.01
180 139 0.99
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.32
Consensus pattern (180 bp):
CTGTACCATGAGATAAATAATTTTTACTAAAGAGAGGTCAGAACTGTCAGACAATGAAATAGGGA
TAACTTCAATGAATAAAATGTACTAATTGGATAAACCAAAAATTATGAAAATTTTATGGTAAGAA
TATATATGAGTCTAGTTTCAGAGAAAATTAGCGGTTCTCAATTTGAAGTC
Found at i:57123696 original size:43 final size:43
Alignment explanation
Indices: 57123648--57123735 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
57123638 TGTGTATAAG
57123648 TATGAGAGAGAATTAAGGACAACATAAGGCTTGGAAAATAGCC
1 TATGAGAGAGAATTAAGGACAACATAAGGCTTGGAAAATAGCC
57123691 TATGAGAGAGAATTAAGGACAACATAAGGCTTGGAAAATAGCC
1 TATGAGAGAGAATTAAGGACAACATAAGGCTTGGAAAATAGCC
57123734 TA
1 TA
57123736 AGTGTTAGCT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.44, C:0.11, G:0.25, T:0.19
Consensus pattern (43 bp):
TATGAGAGAGAATTAAGGACAACATAAGGCTTGGAAAATAGCC
Found at i:57134438 original size:15 final size:15
Alignment explanation
Indices: 57134418--57134451 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
57134408 AGTATATACA
*
57134418 CACAACCAATTCAAC
1 CACAACCAAGTCAAC
*
57134433 CACAACCAAGTCATC
1 CACAACCAAGTCAAC
57134448 CACA
1 CACA
57134452 CATCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.41, G:0.03, T:0.12
Consensus pattern (15 bp):
CACAACCAAGTCAAC
Found at i:57137350 original size:20 final size:21
Alignment explanation
Indices: 57137317--57137360 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
57137307 CTCTCTTTCT
* *
57137317 TTTCTATTTCTTTTGC-TTTG
1 TTTCTATTTATTTTACTTTTG
*
57137337 TTTCTTTTTATTTTACTTTTG
1 TTTCTATTTATTTTACTTTTG
57137358 TTT
1 TTT
57137361 ATTATTTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.07, C:0.11, G:0.07, T:0.75
Consensus pattern (21 bp):
TTTCTATTTATTTTACTTTTG
Found at i:57137778 original size:141 final size:145
Alignment explanation
Indices: 57137556--57137824 Score: 325
Period size: 143 Copynumber: 1.9 Consensus size: 145
57137546 TAAATATGTA
* * * *
57137556 TTTAATACACAAATACATATATTACAAATGTACACTTATAAATATTTTTACATTTGTATATTATC
1 TTTAATACACAAATACAAATACTACAAATGTACAC-TATAAATATTTTTACATTTGTACAATATC
* * * * * *
57137621 ATGACCATCCACTTGTCTTTCTTTT-ATTTATTTA-TCATAAAAAAATATTATAATATAATTAAT
65 ATGACCATACAATTGTCATACTTTTAATTTATTTACTAATAAAAAAATATCATAATATAATTAAT
57137684 ATAAATTATAATTTAT
130 ATAAATTATAATTTAT
* * * *
57137700 TTTAATA-ACAAGTACAAATACTACAATTGTACAC-ATATAT-TTTTGTACATTTGTGCAATATC
1 TTTAATACACAAATACAAATACTACAAATGTACACTATAAATATTTT-TACATTTGTACAATATC
* *
57137762 AAT-ACCATACAATTGTCATACTTTTAATTTATTTACTAATAAAAAAATCTCCTAATATAATTA
65 -ATGACCATACAATTGTCATACTTTTAATTTATTTACTAATAAAAAAATATCATAATATAATTA
57137825 TTTAATTAGT
Statistics
Matches: 105, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
140 4 0.04
141 37 0.35
142 11 0.10
143 46 0.44
144 7 0.07
ACGTcount: A:0.41, C:0.13, G:0.04, T:0.42
Consensus pattern (145 bp):
TTTAATACACAAATACAAATACTACAAATGTACACTATAAATATTTTTACATTTGTACAATATCA
TGACCATACAATTGTCATACTTTTAATTTATTTACTAATAAAAAAATATCATAATATAATTAATA
TAAATTATAATTTAT
Found at i:57138888 original size:22 final size:24
Alignment explanation
Indices: 57138811--57138897 Score: 83
Period size: 22 Copynumber: 3.8 Consensus size: 24
57138801 AGATGTATAT
* *
57138811 AATATATACAT-ATGT-ATGAAAA
1 AATATATACATAATATAATGTAAA
* *
57138833 AATATGTACATAATATAGTGTAAAA
1 AATATATACATAATATAATGT-AAA
*
57138858 AATACATACATAATATAAT-T-AA
1 AATATATACATAATATAATGTAAA
*
57138880 AATATATACATAAGATAA
1 AATATATACATAATATAA
57138898 CATGTAGAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
22 28 0.53
23 3 0.06
24 3 0.06
25 19 0.36
ACGTcount: A:0.56, C:0.06, G:0.07, T:0.31
Consensus pattern (24 bp):
AATATATACATAATATAATGTAAA
Found at i:57138943 original size:25 final size:25
Alignment explanation
Indices: 57138913--57139046 Score: 102
Period size: 25 Copynumber: 5.6 Consensus size: 25
57138903 AGAAAAAAAA
*
57138913 ATATATAAATAATATAGTATTAAAG
1 ATATATACATAATATAGTATTAAAG
* *
57138938 ATATATACATAAAATAGTA-TAATAT
1 ATATATACATAATATAGTATTAA-AG
* * *
57138963 ATATATACGTAATATAGAATT-TAG
1 ATATATACATAATATAGTATTAAAG
* *
57138987 A-ATATACTTAATATA-T-TAAAAG
1 ATATATACATAATATAGTATTAAAG
* *
57139009 AATATATATATAATATAATATTAAA-
1 -ATATATACATAATATAGTATTAAAG
*
57139034 AAATATA-ATAATA
1 ATATATACATAATA
57139047 ACAAAAAAAG
Statistics
Matches: 86, Mismatches: 16, Indels: 16
0.73 0.14 0.14
Matches are distributed among these distances:
21 1 0.01
22 2 0.02
23 20 0.23
24 23 0.27
25 35 0.41
26 5 0.06
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (25 bp):
ATATATACATAATATAGTATTAAAG
Found at i:57139367 original size:16 final size:16
Alignment explanation
Indices: 57139329--57139367 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
57139319 ATCTCCAAAA
*
57139329 AAAAACTAGCCTCTCC
1 AAAAACTAGCCTCTAC
*
57139345 AAAAACTAGCCTTTAC
1 AAAAACTAGCCTCTAC
*
57139361 AATAACT
1 AAAAACT
57139368 CATCTCCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAAACTAGCCTCTAC
Found at i:57139550 original size:30 final size:30
Alignment explanation
Indices: 57139513--57139611 Score: 162
Period size: 30 Copynumber: 3.3 Consensus size: 30
57139503 TAGGTACAAG
* *
57139513 TGGTGGTGGAGCAAGTATGGCTAATGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* *
57139543 AGGTGGTGGAGCAAGTGTGGCTAGTAGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
57139573 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
57139603 TGGTGGTGG
1 TGGTGGTGG
57139612 CAAAGGTTAG
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 63 1.00
ACGTcount: A:0.19, C:0.06, G:0.48, T:0.26
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:57139601 original size:18 final size:18
Alignment explanation
Indices: 57139548--57139601 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
57139538 GGAGTAGGTG
57139548 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
*
57139566 GT--AG--AGT-TGG-TG
1 GTGGAGCAAGTGTGGCTA
57139578 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
57139596 GTGGAG
1 GTGGAG
57139602 TTGGTGGTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 3 0.11
13 3 0.11
14 5 0.18
16 5 0.18
17 3 0.11
18 9 0.32
ACGTcount: A:0.20, C:0.07, G:0.48, T:0.24
Consensus pattern (18 bp):
GTGGAGCAAGTGTGGCTA
Found at i:57140024 original size:23 final size:24
Alignment explanation
Indices: 57139998--57140056 Score: 72
Period size: 23 Copynumber: 2.5 Consensus size: 24
57139988 TTTATTTCCT
57139998 TTAATATAATATCT-TAA-TTTTAA
1 TTAATATAATAT-TATAAGTTTTAA
57140021 TTAATATAAT-TTATAATGTTTTAA
1 TTAATATAATATTATAA-GTTTTAA
57140045 TTAA-ATAATATT
1 TTAATATAATATT
57140057 TTATAATATA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
21 1 0.03
22 4 0.12
23 15 0.47
24 12 0.38
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (24 bp):
TTAATATAATATTATAAGTTTTAA
Found at i:57140047 original size:24 final size:26
Alignment explanation
Indices: 57140015--57140063 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
57140005 AATATCTTAA
57140015 TTTTAATT-AAT-ATAATTTATAATG
1 TTTTAATTAAATAATAATTTATAATG
*
57140039 TTTTAATTAAATAATATTTTATAAT
1 TTTTAATTAAATAATAATTTATAAT
57140064 ATAAATCAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 8 0.36
25 3 0.14
26 11 0.50
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (26 bp):
TTTTAATTAAATAATAATTTATAATG
Found at i:57140411 original size:20 final size:20
Alignment explanation
Indices: 57140388--57140425 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
57140378 CTTGCAACTC
57140388 ACCATAATCTTTCACAACAT
1 ACCATAATCTTTCACAACAT
* *
57140408 ACCATAGTCTTTCCCAAC
1 ACCATAATCTTTCACAAC
57140426 TTTAACATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.34, G:0.03, T:0.29
Consensus pattern (20 bp):
ACCATAATCTTTCACAACAT
Found at i:57143498 original size:14 final size:15
Alignment explanation
Indices: 57143467--57143508 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
57143457 AATACAAAAC
*
57143467 TATTAAAAATTATAAAT
1 TATTAAAAA-AAT-AAT
57143484 TA-TAAAAAAATAAT
1 TATTAAAAAAATAAT
57143498 TATTAAAAAAA
1 TATTAAAAAAA
57143509 CACCCTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 5 0.22
15 10 0.43
16 6 0.26
17 2 0.09
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
TATTAAAAAAATAAT
Found at i:57145528 original size:17 final size:16
Alignment explanation
Indices: 57145506--57145557 Score: 61
Period size: 17 Copynumber: 3.2 Consensus size: 16
57145496 GAGGATTAAG
57145506 AAATTTTTAATATTTAT
1 AAATTTTTAATATTT-T
*
57145523 AAATTTTTTATGATTTT
1 AAATTTTTAAT-ATTTT
*
57145540 TAA-TTTTAATATTTT
1 AAATTTTTAATATTTT
57145555 AAA
1 AAA
57145558 AAAATTAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
15 7 0.23
16 6 0.20
17 13 0.43
18 4 0.13
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (16 bp):
AAATTTTTAATATTTT
Found at i:57146019 original size:23 final size:23
Alignment explanation
Indices: 57145993--57146086 Score: 125
Period size: 23 Copynumber: 4.1 Consensus size: 23
57145983 AAGTTAGAAG
*
57145993 AGTGAAGAGACTTGAATACGAAA
1 AGTGAAGAGACTTGAATATGAAA
* * *
57146016 AGTGAAAAAACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAA
*
57146039 AGTGAAGAGACTTGAAGATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* *
57146062 AGTTAAGAGGCTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
57146085 AG
1 AG
57146087 ATACACACAT
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 60 1.00
ACGTcount: A:0.48, C:0.05, G:0.26, T:0.21
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:57150525 original size:23 final size:23
Alignment explanation
Indices: 57150499--57150592 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
57150489 AAGTTAGAAG
57150499 AGTGAAGAGACTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* * *
57150522 AGTGAAAAAACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAA
*
57150545 AGTGAAGAGACTTGAAGATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* *
57150568 AGTTAAGAGGCTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
57150591 AG
1 AG
57150593 ATACACACAT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.48, C:0.04, G:0.26, T:0.22
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:57152143 original size:32 final size:30
Alignment explanation
Indices: 57152097--57152175 Score: 97
Period size: 32 Copynumber: 2.6 Consensus size: 30
57152087 TGAGGGTTCT
57152097 ATTAAAATTTTCAAAAAAATTTAGGAAGCTTA
1 ATTAAAATTTTCAAAAAAATTTAGGAA--TTA
* **
57152129 A-TAGAAATGTTCAAAAATTTTTAGGAATTA
1 ATTA-AAATTTTCAAAAAAATTTAGGAATTA
57152159 ATTAAAATTTTCAAAAA
1 ATTAAAATTTTCAAAAA
57152176 TTTATAAACA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
30 16 0.39
31 4 0.10
32 21 0.51
ACGTcount: A:0.51, C:0.05, G:0.09, T:0.35
Consensus pattern (30 bp):
ATTAAAATTTTCAAAAAAATTTAGGAATTA
Found at i:57152147 original size:30 final size:28
Alignment explanation
Indices: 57152097--57152179 Score: 78
Period size: 30 Copynumber: 2.8 Consensus size: 28
57152087 TGAGGGTTCT
*
57152097 ATTAAAATTTTCAAAAAAATTTAGGAAGCTTA
1 ATTAAAATGTTC--AAAAATTTAGGAA--TTA
57152129 A-TAGAAATGTTCAAAAATTTTTAGGAATTA
1 ATTA-AAATGTTCAAAAA--TTTAGGAATTA
*
57152159 ATTAAAATTTTCAAAAATTTA
1 ATTAAAATGTTCAAAAATTTA
57152180 TAAACATTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
28 4 0.09
30 21 0.47
31 4 0.09
32 16 0.36
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.37
Consensus pattern (28 bp):
ATTAAAATGTTCAAAAATTTAGGAATTA
Found at i:57152761 original size:26 final size:26
Alignment explanation
Indices: 57152732--57152782 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
57152722 TAAGAAAATG
57152732 CTGACAAAA-AAAGAAAAAAAAAAAGA
1 CTGA-AAAAGAAAGAAAAAAAAAAAGA
* *
57152758 CTGAAAAAGAGAGGAAAAAAAAAAG
1 CTGAAAAAGAAAGAAAAAAAAAAAG
57152783 GCTGGTCCCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.73, C:0.06, G:0.18, T:0.04
Consensus pattern (26 bp):
CTGAAAAAGAAAGAAAAAAAAAAAGA
Found at i:57158122 original size:42 final size:44
Alignment explanation
Indices: 57158066--57158168 Score: 120
Period size: 44 Copynumber: 2.4 Consensus size: 44
57158056 CTACTATCCG
* * * * *
57158066 AGACAGGGTCTTACAC-CAAATCGCATA-CGATGCCAATGTCCT
1 AGACATGGTCTTACACGCAAATCACAAATCGATGCCAACGTCCC
* *
57158108 AGACATGGTTTTACACGTAAATCACAAATCGATGCCAACGTCCC
1 AGACATGGTCTTACACGCAAATCACAAATCGATGCCAACGTCCC
*
57158152 AGACGTGGTCTTACACG
1 AGACATGGTCTTACACG
57158169 ATAACACATA
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 14 0.28
43 8 0.16
44 28 0.56
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.22
Consensus pattern (44 bp):
AGACATGGTCTTACACGCAAATCACAAATCGATGCCAACGTCCC
Found at i:57161322 original size:22 final size:22
Alignment explanation
Indices: 57161287--57161351 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
57161277 GCAAATACGT
**
57161287 TTGGCACACCGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* * *
57161309 TTGGCACAGAGCCAT-ATGTATG
1 TTGGCACAAAGCCATAAT-CAGG
*
57161331 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
57161352 AAATTGGCTT
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
21 2 0.06
22 29 0.88
23 2 0.06
ACGTcount: A:0.32, C:0.25, G:0.22, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:57161800 original size:27 final size:27
Alignment explanation
Indices: 57161770--57161838 Score: 84
Period size: 27 Copynumber: 2.6 Consensus size: 27
57161760 TTCACCCTAC
*
57161770 AGGGTGTTTTGGTAAATCTACAAACCA
1 AGGGTATTTTGGTAAATCTACAAACCA
* * *
57161797 AGGGTATTTCGGTAAATTTTCAAACCA
1 AGGGTATTTTGGTAAATCTACAAACCA
* *
57161824 ATGGTATTTTTGTAA
1 AGGGTATTTTGGTAA
57161839 TTTTTGAAAG
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (27 bp):
AGGGTATTTTGGTAAATCTACAAACCA
Found at i:57161924 original size:107 final size:108
Alignment explanation
Indices: 57161796--57162154 Score: 282
Period size: 107 Copynumber: 3.3 Consensus size: 108
57161786 TCTACAAACC
* * ** ** *
57161796 AAGGGTATTTCGGTAAATTTTCAAACCAATGGTATTTTTGTAATTTTTGAAAGTCAATGGTATTT
1 AAGGGTATTTCGGTAATTTTTCAAACCAAGGGTATTTGGGTAATTTTACAAA-TCAAGGGTA-TT
* ** *
57161861 TTG-TAATTTTGTAAATT-AGGGTATTTCTG-TAATTTC-CAAATT
64 TAGATAATTTTACAAATTGAGGGCATTT-TGATAATTTCACAAATT
** *
57161903 AAGGGTATTTCGGTAATTTTTCAAATTAAGGGTATTTGGGTAATTTTACAAATCGAGGGTATTTA
1 AAGGGTATTTCGGTAATTTTTCAAACCAAGGGTATTTGGGTAATTTTACAAATCAAGGGTATTTA
*
57161968 GATAATTTTACAAGTTGAGGGCATTTTGATAATTTCACAAATT
66 GATAATTTTACAAATTGAGGGCATTTTGATAATTTCACAAATT
* * ** ** * * * * *
57162011 AGGGGTATTTCAGTAATTTCACAAATTAGGGGTATTTCGATAATTTCACAAAT-TAGTGGTATTT
1 AAGGGTATTTCGGTAATTTTTCAAACCAAGGGTATTTGGGTAATTTTACAAATCAAG-GGTATTT
* * * * ** * * *
57162075 CGGTAATTTCACAAA-TCAGGGTGTTTTGGTAATTTTACAAA-C
65 AGATAATTTTACAAATTGAGGGCATTTTGATAATTTCACAAATT
* * *
57162117 CAGAGGTATTTTGGTAATTTTTTAAACCAAGGGTATTT
1 AAG-GGTATTTCGGTAATTTTTCAAACCAAGGGTATTT
57162155 CAGTAATTCT
Statistics
Matches: 202, Mismatches: 44, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
105 4 0.02
106 21 0.10
107 108 0.53
108 69 0.34
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (108 bp):
AAGGGTATTTCGGTAATTTTTCAAACCAAGGGTATTTGGGTAATTTTACAAATCAAGGGTATTTA
GATAATTTTACAAATTGAGGGCATTTTGATAATTTCACAAATT
Found at i:57161935 original size:27 final size:27
Alignment explanation
Indices: 57161796--57162162 Score: 251
Period size: 27 Copynumber: 13.7 Consensus size: 27
57161786 TCTACAAACC
**
57161796 AAGGGTATTTCGGTAAATTTT-CAAACC
1 AAGGGTATTTCGGT-AATTTTACAAATT
* ** ** *
57161823 AATGGTATTTTTGTAATTTTTGAAAGTC
1 AAGGGTATTTCGGTAATTTTACAAA-TT
* ** **
57161851 AATGGTATTTTTGTAATTTTGTAAATT
1 AAGGGTATTTCGGTAATTTTACAAATT
* *
57161878 -AGGGTATTTCTGTAA-TTTCCAAATT
1 AAGGGTATTTCGGTAATTTTACAAATT
*
57161903 AAGGGTATTTCGGTAATTTTTCAAATT
1 AAGGGTATTTCGGTAATTTTACAAATT
* *
57161930 AAGGGTATTTGGGTAATTTTACAAATC
1 AAGGGTATTTCGGTAATTTTACAAATT
* * * *
57161957 GAGGGTATTTAGATAATTTTACAAGTT
1 AAGGGTATTTCGGTAATTTTACAAATT
* * * * *
57161984 GAGGGCATTTTGATAATTTCACAAATT
1 AAGGGTATTTCGGTAATTTTACAAATT
* * *
57162011 AGGGGTATTTCAGTAATTTCACAAATT
1 AAGGGTATTTCGGTAATTTTACAAATT
* * *
57162038 AGGGGTATTTCGATAATTTCACAAATT
1 AAGGGTATTTCGGTAATTTTACAAATT
*
57162065 -AGTGGTATTTCGGTAATTTCACAAA-T
1 AAG-GGTATTTCGGTAATTTTACAAATT
* * * *
57162091 CAGGGTGTTTTGGTAATTTTACAAA-C
1 AAGGGTATTTCGGTAATTTTACAAATT
* * ** **
57162117 CAGAGGTATTTTGGTAATTTTTTAAACC
1 AAG-GGTATTTCGGTAATTTTACAAATT
*
57162145 AAGGGTATTTCAGTAATT
1 AAGGGTATTTCGGTAATT
57162163 CTACCCTACA
Statistics
Matches: 286, Mismatches: 46, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
25 8 0.03
26 57 0.20
27 194 0.68
28 27 0.09
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (27 bp):
AAGGGTATTTCGGTAATTTTACAAATT
Found at i:57165536 original size:52 final size:51
Alignment explanation
Indices: 57165465--57165673 Score: 284
Period size: 52 Copynumber: 4.1 Consensus size: 51
57165455 ATCAAGTGAC
*
57165465 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGT-G
* *
57165517 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
* * *
57165568 AAAAGTGATAAGTGATATCTTCGGCTATACTTATCTGATCAAGAGAC-----
1 -AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
*
57165615 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGAC-AAGTG
57165667 ATAAGTG
1 A-AAGTG
57165674 GCTACACTTA
Statistics
Matches: 141, Mismatches: 8, Indels: 15
0.86 0.05 0.09
Matches are distributed among these distances:
46 42 0.30
51 1 0.01
52 93 0.66
53 5 0.04
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
Found at i:57165629 original size:98 final size:99
Alignment explanation
Indices: 57165457--57165673 Score: 292
Period size: 98 Copynumber: 2.1 Consensus size: 99
57165447 CTTATCTGAT
*
57165457 CAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGT
1 CAAGTGA-AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGAC-----GAAAGT
* *
57165522 GATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
60 GATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGA
* * *
57165562 CAAGTGAAAAGTGATAAGTGATATCTTCGGCTATACTTATCTGATCAAGAGAC-AAAGTGATAAG
1 CAAGTGAAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACGAAAGTGATAAG
*
57165626 TGATAGCTTTAGCTACACTTATCTGATCAAGAGA
66 TGATAGCTTCAGCTACACTTATCTGATCAAGAGA
*
57165660 CAAAGTGATAAGTG
1 C-AAGTGAAAAGTG
57165674 GCTACACTTA
Statistics
Matches: 103, Mismatches: 8, Indels: 8
0.87 0.07 0.07
Matches are distributed among these distances:
98 43 0.42
99 11 0.11
104 42 0.41
105 7 0.07
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (99 bp):
CAAGTGAAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACGAAAGTGATAAG
TGATAGCTTCAGCTACACTTATCTGATCAAGAGA
Found at i:57165646 original size:46 final size:44
Alignment explanation
Indices: 57165569--57165784 Score: 190
Period size: 37 Copynumber: 5.3 Consensus size: 44
57165559 TGACAAGTGA
* *
57165569 AAAGTGATAAGTGATATCTTCGGCTATACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTT--GCTACACTTATCTGATCAAGAGAC
57165615 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGC-TT-GCTACACTTATCTGATCAAGAGAC
*
57165661 AAAGTGATAA--G-T-G---GCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
*
57165698 AAAGTGATAA--G-T-G---GCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
*
57165735 AAAGTGAT-AG-G-T-G---GCTACACTTATCTGATCAGGA-AC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
57165771 -AAGTGATAAGTGAT
1 AAAGTGATAAGTGAT
57165785 CATACGTAAG
Statistics
Matches: 160, Mismatches: 5, Indels: 18
0.87 0.03 0.10
Matches are distributed among these distances:
35 7 0.04
36 5 0.03
37 92 0.57
38 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
46 50 0.31
47 2 0.01
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.27
Consensus pattern (44 bp):
AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
Found at i:57165681 original size:37 final size:37
Alignment explanation
Indices: 57165637--57165782 Score: 251
Period size: 37 Copynumber: 4.0 Consensus size: 37
57165627 GATAGCTTTA
*
57165637 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
57165674 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
57165711 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
57165748 GCTACACTTATCTGATC-AGGAAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
57165783 ATCATACGTA
Statistics
Matches: 105, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
35 11 0.10
36 5 0.05
37 89 0.85
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Done.