Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 221 of 444
Found at i:62055326 original size:54 final size:54
Alignment explanation
Indices: 62055124--62055341 Score: 199
Period size: 54 Copynumber: 4.0 Consensus size: 54
62055114 TCGGGAACCT
* * * * * *
62055124 TTTCCTTTTTGAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGA-ATCC
1 TTTCCTTATAGAACTCACCAATGCCATGCCTTGACATGGTCTTACAT-GATATCC
** * * **
62055178 TTGACTTAT-GAACTCACCAATGCCATGCCTTGGCATGGTATTACATGGGA-CC
1 TTTCCTTATAGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCC
* * ** *
62055230 TTTGTCTTATAGTAACTCATCAATGCCATGTATTGACATGGTCTTACATGATTTCC
1 TTT-CCTTATAG-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCC
* * * *
62055286 TTTCCTTATAGAACTTATCAATGCCGTGCCTTGGCATGGTCTTACATGATATCC
1 TTTCCTTATAGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCC
62055340 TT
1 TT
62055342 ATCTTACCAA
Statistics
Matches: 132, Mismatches: 27, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
52 5 0.04
53 37 0.28
54 46 0.35
55 39 0.30
56 5 0.04
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (54 bp):
TTTCCTTATAGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCC
Found at i:62055347 original size:109 final size:108
Alignment explanation
Indices: 62055145--62055347 Score: 257
Period size: 109 Copynumber: 1.9 Consensus size: 108
62055135 AACTTACCAT
* *
62055145 TGCCATGTCTTGACATGGTCTTACGTGGAATCCTTGACTTATGAACTCACCAATGCCATGCCTTG
1 TGCCATGTATTGACATGGTCTTACATGGAATCCTTGACTTATGAACTCACCAATGCCATGCCTTG
* *
62055210 GCATGGTATTACATGGGACCTTTGTCTTATAGTAACTCATCAA
66 GCATGGTATTACATGAGACCTTTATCTTATAGTAACTCATCAA
* ** * * *
62055253 TGCCATGTATTGACATGGTCTTACAT-GATTTCCTTTCCTTATAGAACTTATCAATGCCGTGCCT
1 TGCCATGTATTGACATGGTCTTACATGGA-ATCCTTGACTTAT-GAACTCACCAATGCCATGCCT
* *
62055317 TGGCATGGTCTTACATGATATCC-TTATCTTA
64 TGGCATGGTATTACATGAGA-CCTTTATCTTA
62055348 CCAAATGTCA
Statistics
Matches: 80, Mismatches: 12, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
107 2 0.03
108 34 0.43
109 42 0.52
110 2 0.03
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (108 bp):
TGCCATGTATTGACATGGTCTTACATGGAATCCTTGACTTATGAACTCACCAATGCCATGCCTTG
GCATGGTATTACATGAGACCTTTATCTTATAGTAACTCATCAA
Found at i:62055600 original size:44 final size:44
Alignment explanation
Indices: 62055531--62055617 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 44
62055521 GTATCCTTAA
* *
62055531 CCGTCAATTCCTCCTTAAATGCCATGTTATGAA-CATGGACTTTT
1 CCGTCAATTCCTCCTTAAATGCCATGGTA-CAACCATGGACTTTT
* * *
62055575 CCGTCAATTCTTCCTTAATTTCCATGGTACAACCATGGACTTT
1 CCGTCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTT
62055618 GAGATATCGA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
43 2 0.05
44 35 0.95
ACGTcount: A:0.24, C:0.26, G:0.13, T:0.37
Consensus pattern (44 bp):
CCGTCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTTT
Found at i:62065927 original size:9 final size:9
Alignment explanation
Indices: 62065915--62065945 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
62065905 CTGAGGAATC
62065915 GGAGGAGGT
1 GGAGGAGGT
62065924 GGAGGAGGT
1 GGAGGAGGT
62065933 GGAGGAGGT
1 GGAGGAGGT
62065942 GGAG
1 GGAG
62065946 TGTTCCGGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.68, T:0.10
Consensus pattern (9 bp):
GGAGGAGGT
Found at i:62067817 original size:46 final size:45
Alignment explanation
Indices: 62067766--62067932 Score: 156
Period size: 46 Copynumber: 3.6 Consensus size: 45
62067756 CTCGTAGCCG
*
62067766 ATGCATGTCCCAGACATGTCTTATACTGGCTTACGTCTTGAGGCCA
1 ATGCATGTCCCAGACATGTCTTACACTGGCTT-CGTCTTGAGGCCA
* * * ** *
62067812 ATGCATGTCCCAAACATGTCTTACACTAGCCCTCGTCTCAATG-CA
1 ATGCATGTCCCAGACATGTCTTACACT-GGCTTCGTCTTGAGGCCA
* ** * **
62067857 GATGCTATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCTG
1 -ATGC-ATGTCCCAGACAT-GTCTTACACTGGCT-TCGTCTTGAGGCCA
62067906 ATGCATGTCCCAGACATGTCTTACACT
1 ATGCATGTCCCAGACATGTCTTACACT
62067933 AGCTCACACA
Statistics
Matches: 96, Mismatches: 19, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
45 2 0.02
46 46 0.48
47 30 0.31
48 18 0.19
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.29
Consensus pattern (45 bp):
ATGCATGTCCCAGACATGTCTTACACTGGCTTCGTCTTGAGGCCA
Found at i:62067912 original size:94 final size:92
Alignment explanation
Indices: 62067765--62067935 Score: 236
Period size: 94 Copynumber: 1.8 Consensus size: 92
62067755 TCTCGTAGCC
* * **
62067765 GATGCATGTCCCAGACATGTCTTATACTGGCTTACGTCTTGAGGCCAATGCATGTCCCAAACATG
1 GATGCATGTCCCAGACATGTCTTACACTGGCTTACATAATGAGGCCAATGCATGTCCCAAACATG
62067830 TCTTACACTAGCCCTCGTCTCAATGCA
66 TCTTACACTAGCCCTCGTCTCAATGCA
* ** *
62067857 GATGCTATGTCCCAGACATGGTCTTACACTGGCTCT-CATAATGTGGCTGATGCATGTCCCAGAC
1 GATGC-ATGTCCCAGACAT-GTCTTACACTGGCT-TACATAATGAGGCCAATGCATGTCCCAAAC
62067921 ATGTCTTACACTAGC
63 ATGTCTTACACTAGC
62067936 TCACACACGA
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
92 5 0.07
93 13 0.19
94 49 0.72
95 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (92 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTTACATAATGAGGCCAATGCATGTCCCAAACATG
TCTTACACTAGCCCTCGTCTCAATGCA
Found at i:62070270 original size:2 final size:2
Alignment explanation
Indices: 62070263--62070346 Score: 114
Period size: 2 Copynumber: 42.0 Consensus size: 2
62070253 CACACGGCCA
*
62070263 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * *
62070305 GT GT GT GT AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
62070347 TTCCTTATCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 78 1.00
ACGTcount: A:0.44, C:0.01, G:0.06, T:0.49
Consensus pattern (2 bp):
AT
Found at i:62075409 original size:40 final size:40
Alignment explanation
Indices: 62075354--62075545 Score: 305
Period size: 40 Copynumber: 4.8 Consensus size: 40
62075344 CGGATAATAA
62075354 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
* *
62075394 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
*
62075434 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
* *
62075474 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCA-AAT
* *
62075514 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
62075546 AGCTATATCC
Statistics
Matches: 140, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 138 0.99
41 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
Found at i:62082207 original size:44 final size:44
Alignment explanation
Indices: 62082144--62082232 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
62082134 GACCATCTAA
*
62082144 GTCAACCAACAACTACTTTATGTTTAAATTTTGTTTCTGATTTT
1 GTCAACCAACAACTACTTTATGTTTAAATTCTGTTTCTGATTTT
62082188 GTCAACCAACAACTACTTTATGTTTAAATTCTGTTTCTGATTTT
1 GTCAACCAACAACTACTTTATGTTTAAATTCTGTTTCTGATTTT
62082232 G
1 G
62082233 ATAAGGTTAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.27, C:0.17, G:0.10, T:0.46
Consensus pattern (44 bp):
GTCAACCAACAACTACTTTATGTTTAAATTCTGTTTCTGATTTT
Found at i:62085183 original size:19 final size:19
Alignment explanation
Indices: 62085137--62085184 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
62085127 GTATATATTT
62085137 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
62085155 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
62085174 TAAATTTTATT
1 TAAATTTTATT
62085185 CATATTTTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 4 0.15
19 23 0.85
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:62085266 original size:42 final size:42
Alignment explanation
Indices: 62085208--62085291 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
62085198 TATTTTTATT
62085208 TTATCTTTTAGTAGTTTATTAGAATAAGGGAACTATTTTCCC
1 TTATCTTTTAGTAGTTTATTAGAATAAGGGAACTATTTTCCC
*
62085250 TTATGTTTTAGTAGTTTATTAGAATAAGGGAACTATTTTCCC
1 TTATCTTTTAGTAGTTTATTAGAATAAGGGAACTATTTTCCC
62085292 AATTAGGATT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.29, C:0.11, G:0.15, T:0.45
Consensus pattern (42 bp):
TTATCTTTTAGTAGTTTATTAGAATAAGGGAACTATTTTCCC
Found at i:62085875 original size:7 final size:7
Alignment explanation
Indices: 62085863--62085887 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
62085853 TGATTATTAT
62085863 AAAAGAA
1 AAAAGAA
62085870 AAAAGAA
1 AAAAGAA
62085877 AAAAGAA
1 AAAAGAA
62085884 AAAA
1 AAAA
62085888 AAATAGTGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:62089258 original size:15 final size:15
Alignment explanation
Indices: 62089238--62089267 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
62089228 GCGTACAAAG
62089238 ATTAATTTATCTATT
1 ATTAATTTATCTATT
62089253 ATTAATTTATCTATT
1 ATTAATTTATCTATT
62089268 TTTTGAGTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (15 bp):
ATTAATTTATCTATT
Found at i:62091180 original size:2 final size:2
Alignment explanation
Indices: 62091173--62091202 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
62091163 GATCTTTACG
62091173 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
62091203 GCACAATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:62092999 original size:35 final size:35
Alignment explanation
Indices: 62092960--62093129 Score: 216
Period size: 35 Copynumber: 4.9 Consensus size: 35
62092950 AAAGGTGACT
* **
62092960 TTAAAAAGGTTGGGATAGATTCGTCTAAGGCAACC
1 TTAAAAAGGTTGAGATAGACACGTCTAAGGCAACC
* *
62092995 TTAAAAACGTTGAGATAGACCCGTCTAAGGCAACC
1 TTAAAAAGGTTGAGATAGACACGTCTAAGGCAACC
* * *
62093030 TTTAAAAGGCTGAGATAGACACGTCTATGGCAACC
1 TTAAAAAGGTTGAGATAGACACGTCTAAGGCAACC
*
62093065 TTAAAAAGGTTG-GAATAGACACATCTAAGGCAACC
1 TTAAAAAGGTTGAG-ATAGACACGTCTAAGGCAACC
* * *
62093100 TTAAAAAAGTTGAGATAAACATGTCTAAGG
1 TTAAAAAGGTTGAGATAGACACGTCTAAGG
62093130 TAATTTTTTT
Statistics
Matches: 116, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
34 1 0.01
35 114 0.98
36 1 0.01
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (35 bp):
TTAAAAAGGTTGAGATAGACACGTCTAAGGCAACC
Found at i:62093630 original size:19 final size:19
Alignment explanation
Indices: 62093606--62093666 Score: 99
Period size: 19 Copynumber: 3.3 Consensus size: 19
62093596 AATCTTTAAG
62093606 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
62093625 GATATGCAATCTTATATAT
1 GATATGCAATCTTAGATAT
62093644 GATAT--AATCTTAGATAT
1 GATATGCAATCTTAGATAT
62093661 GATATG
1 GATATG
62093667 ATATGATATA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
17 16 0.41
19 23 0.59
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.39
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:62093636 original size:36 final size:36
Alignment explanation
Indices: 62093596--62093666 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
62093586 ATGGAAATAT
62093596 AATCTT-TA-AGGATATGCAATCTTAGATATGATATGC
1 AATCTTATATAGGATAT--AATCTTAGATATGATATGC
*
62093632 AATCTTATATATGATATAATCTTAGATATGATATG
1 AATCTTATATAGGATATAATCTTAGATATGATATG
62093667 ATATGATATA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
36 24 0.75
37 2 0.06
38 6 0.19
ACGTcount: A:0.38, C:0.08, G:0.14, T:0.39
Consensus pattern (36 bp):
AATCTTATATAGGATATAATCTTAGATATGATATGC
Found at i:62100455 original size:7 final size:7
Alignment explanation
Indices: 62100439--62100499 Score: 52
Period size: 7 Copynumber: 8.4 Consensus size: 7
62100429 CTTCTATTTC
62100439 AAAA-AA
1 AAAAGAA
62100445 AAAAGAA
1 AAAAGAA
62100452 AAAAGAAAA
1 AAAAG--AA
62100461 AAAAGAA
1 AAAAGAA
*
62100468 AAAATAA
1 AAAAGAA
* *
62100475 TAATGATA
1 AAAAGA-A
*
62100483 AAGAGAA
1 AAAAGAA
62100490 AAAAGAA
1 AAAAGAA
62100497 AAA
1 AAA
62100500 TGGAGAGGCC
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
6 4 0.09
7 28 0.65
8 4 0.09
9 7 0.16
ACGTcount: A:0.82, C:0.00, G:0.11, T:0.07
Consensus pattern (7 bp):
AAAAGAA
Found at i:62100462 original size:16 final size:16
Alignment explanation
Indices: 62100441--62100471 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
62100431 TCTATTTCAA
62100441 AAAAAAAAGAAAAAAG
1 AAAAAAAAGAAAAAAG
62100457 AAAAAAAAGAAAAAA
1 AAAAAAAAGAAAAAA
62100472 TAATAATGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (16 bp):
AAAAAAAAGAAAAAAG
Found at i:62101419 original size:44 final size:44
Alignment explanation
Indices: 62101368--62101832 Score: 288
Period size: 44 Copynumber: 10.6 Consensus size: 44
62101358 GGGACAATGT
*
62101368 AGATCAAAGA-AACAAGATTTGGCATCCCTGTGTTTATAGGGAAC
1 AGATCGAAGATAAC-AGATTTGGCATCCCTGTGTTTATAGGGAAC
* * * * * * * **
62101412 AGATCAAAGATAGCAGATCTGACATTCCTGTGCTTACAACGAAGC
1 AGATCGAAGATAACAGATTTGGCATCCCTGTGTTTATAGGGAA-C
** *
62101457 AGATCGAAGATTTCAGCA--TGGCATCCCTATGTTTATAGGGAAC
1 AGATCGAAGATAACAG-ATTTGGCATCCCTGTGTTTATAGGGAAC
** * * *
62101500 A-AGTTAAAGACAGCAGATTTGGCATCCGTGTGTTTATAGGGAAC
1 AGA-TCGAAGATAACAGATTTGGCATCCCTGTGTTTATAGGGAAC
* * * * * * *
62101544 AGATCGAAGATAATAGATCTGACACCCCTGTGCTTACAGCGAAGC
1 AGATCGAAGATAACAGATTTGGCATCCCTGTGTTTATAGGGAA-C
* ** *
62101589 AGATCGAGGATTTCAGCA--TGGCATCCCTATGTTTATAGGGAAC
1 AGATCGAAGATAACAG-ATTTGGCATCCCTGTGTTTATAGGGAAC
* * *
62101632 A-AGTTGAAGATAGCAGATTTGGCATCCCTATGTTTATAGGGAAC
1 AGA-TCGAAGATAACAGATTTGGCATCCCTGTGTTTATAGGGAAC
* * * * * *
62101676 AGATCGAAGATAACAGATCTGACA-CTCCTGTGCTTACAGCGAAGT
1 AGATCGAAGATAACAGATTTGGCATC-CCTGTGTTTATAGGGAA-C
* * ** *
62101721 AAATCGAGGATTTCAGCA--TGGCATCCCTGTGTTTATAGGGAAA
1 AGATCGAAGATAACAG-ATTTGGCATCCCTGTGTTTATAGGGAAC
* * * * * * *
62101764 AG-TTGAAGATAGCAGATTTGGCATCTCTGTATTGT-CAGAGAGC
1 AGATCGAAGATAACAGATTTGGCATCCCTGTGTT-TATAGGGAAC
*
62101807 AGATCGAAGATACCAGATTTGGCATC
1 AGATCGAAGATAACAGATTTGGCATC
62101833 TCTATATTGA
Statistics
Matches: 318, Mismatches: 82, Indels: 42
0.72 0.19 0.10
Matches are distributed among these distances:
41 1 0.00
42 13 0.04
43 42 0.13
44 215 0.68
45 44 0.14
46 3 0.01
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (44 bp):
AGATCGAAGATAACAGATTTGGCATCCCTGTGTTTATAGGGAAC
Found at i:62101610 original size:132 final size:132
Alignment explanation
Indices: 62101382--62101824 Score: 683
Period size: 132 Copynumber: 3.4 Consensus size: 132
62101372 CAAAGAAACA
* * *
62101382 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCAAAGATAGCAGATCTGACATTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTGACACTCCTGTGCTT
* * * *
62101447 ACAACGAAGCAGATCGAAGATTTCAGCATGGCATCCCTATGTTTATAGGGAACAAGTTAAAGACA
66 ACAGCGAAGCAGATCGAGGATTTCAGCATGGCATCCCTATGTTTATAGGGAACAAGTTGAAGATA
62101512 GC
131 GC
* * *
62101514 AGATTTGGCATCCGTGTGTTTATAGGGAACAGATCGAAGATAATAGATCTGACACCCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTGACACTCCTGTGCTT
62101579 ACAGCGAAGCAGATCGAGGATTTCAGCATGGCATCCCTATGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAGGATTTCAGCATGGCATCCCTATGTTTATAGGGAACAAGTTGAAGATA
62101644 GC
131 GC
*
62101646 AGATTTGGCATCCCTATGTTTATAGGGAACAGATCGAAGATAACAGATCTGACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTGACACTCCTGTGCTT
* * *
62101711 ACAGCGAAGTAAATCGAGGATTTCAGCATGGCATCCCTGTGTTTATAGGGAA-AAGTTGAAGATA
66 ACAGCGAAGCAGATCGAGGATTTCAGCATGGCATCCCTATGTTTATAGGGAACAAGTTGAAGATA
62101775 GC
131 GC
* * * * * *
62101777 AGATTTGGCATCTCTGTATTGT-CAGAGAGCAGATCGAAGATACCAGAT
1 AGATTTGGCATCCCTGTGTT-TATAGGGAACAGATCGAAGATAACAGAT
62101825 TTGGCATCTC
Statistics
Matches: 286, Mismatches: 24, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
131 53 0.19
132 233 0.81
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.26
Consensus pattern (132 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTGACACTCCTGTGCTT
ACAGCGAAGCAGATCGAGGATTTCAGCATGGCATCCCTATGTTTATAGGGAACAAGTTGAAGATA
GC
Found at i:62101833 original size:44 final size:44
Alignment explanation
Indices: 62101768--62101860 Score: 150
Period size: 44 Copynumber: 2.1 Consensus size: 44
62101758 GGGAAAAGTT
* * * *
62101768 GAAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATC
1 GAAGATACCAGATTTGGCATCTCTATATTGACAGAGAGCAAATC
62101812 GAAGATACCAGATTTGGCATCTCTATATTGACAGAGAGCAAATC
1 GAAGATACCAGATTTGGCATCTCTATATTGACAGAGAGCAAATC
62101856 GAAGA
1 GAAGA
62101861 CATAGCTGAT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (44 bp):
GAAGATACCAGATTTGGCATCTCTATATTGACAGAGAGCAAATC
Found at i:62102180 original size:205 final size:205
Alignment explanation
Indices: 62101846--62102561 Score: 1193
Period size: 205 Copynumber: 3.5 Consensus size: 205
62101836 ATATTGACAG
* *
62101846 AGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGA
1 AGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAACAAATCTAAGATGA
62101911 TTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGGAGGGCAG
66 TTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGGAGGGCAG
* *
62101976 ACACATAGCAAATCCAACCTTCAGATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTT
131 ACACATAGCAGATCCAAACTTCAGATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTT
62102041 GTGCTTACAA
196 GTGCTTACAA
*
62102051 AGAGCAAATCAAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAACAAATCTAAGATGA
1 AGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAACAAATCTAAGATGA
* *
62102116 TTTGGCATTTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGAAGGGCAG
66 TTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGGAGGGCAG
* *
62102181 ACACATAGCAGATCCAAACTTCAGATGTTTATACTGAAGTAGATCCAAGATGGTTTGACATTCTT
131 ACACATAGCAGATCCAAACTTCAGATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTT
62102246 GTGCTTACAA
196 GTGCTTACAA
* * *
62102256 GGAGCAAATCGAAGACATAGCTGATTTGGTTTTC-CTGTGCTTACGTTGAAGCAAATCTAAGATG
1 AGAGCAAATCGAAGACATAGCTGATTTGGCTTTCAC-GTGCTTACGTTGAAACAAATCTAAGATG
62102320 ATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGGAGGGCA
65 ATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGGAGGGCA
* * * ** *
62102385 GACATATAGTAGATCTAAACTTCAGATGTTTATACTGAAACAGGTCCAAGATGGTTTGGCATCCT
130 GACACATAGCAGATCCAAACTTCAGATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCT
62102450 TGTGCTTACAA
195 TGTGCTTACAA
* * *
62102461 GGAGCAAATCGAAGACATAGCTGATTTGGCTCTCACGTGCTTACGTT-AAAGCAAATATAAGATG
1 AGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAA-CAAATCTAAGATG
* *
62102525 ATTTGGCATCTCTGTATTGTTAGGGAACAAATCGAAG
65 ATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAG
62102562 AAGCAGATTT
Statistics
Matches: 479, Mismatches: 29, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
204 3 0.01
205 475 0.99
206 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (205 bp):
AGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAACAAATCTAAGATGA
TTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGGAGGGCAG
ACACATAGCAGATCCAAACTTCAGATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTT
GTGCTTACAA
Found at i:62102686 original size:44 final size:45
Alignment explanation
Indices: 62102635--62102740 Score: 119
Period size: 45 Copynumber: 2.4 Consensus size: 45
62102625 GAGTTTGCAA
*
62102635 GGAGCAGATTGAAGA-AGA-AAATTT-AGCGTCTCTGTATTAGACGG
1 GGAGCAGATCGAAGATA-ACAAATTTGA-CGTCTCTGTATTAGACGG
* * * *
62102679 GGAGCAGATCGAAGATAACAGATTTGATGTGTCTGTATTAGATGG
1 GGAGCAGATCGAAGATAACAAATTTGACGTCTCTGTATTAGACGG
*
62102724 GGAGCAGATCAAAGATA
1 GGAGCAGATCGAAGATA
62102741 GCAGATATCG
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
44 15 0.28
45 37 0.70
46 1 0.02
ACGTcount: A:0.35, C:0.10, G:0.30, T:0.25
Consensus pattern (45 bp):
GGAGCAGATCGAAGATAACAAATTTGACGTCTCTGTATTAGACGG
Found at i:62103125 original size:19 final size:19
Alignment explanation
Indices: 62103101--62103161 Score: 108
Period size: 19 Copynumber: 3.3 Consensus size: 19
62103091 AATCTTTAAG
62103101 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
62103120 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
62103139 GATAT--AATCTTAGATAT
1 GATATGCAATCTTAGATAT
62103156 GATATG
1 GATATG
62103162 ATATGATATG
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.41
19 24 0.59
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:62104169 original size:25 final size:25
Alignment explanation
Indices: 62104136--62104185 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
62104126 CAATTATTTC
62104136 GAGATTTCAAAACATAGTGTCCTAA
1 GAGATTTCAAAACATAGTGTCCTAA
62104161 GAGATTTCAAAACATAGTGTCCTAA
1 GAGATTTCAAAACATAGTGTCCTAA
62104186 CTTACTGGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (25 bp):
GAGATTTCAAAACATAGTGTCCTAA
Found at i:62104667 original size:21 final size:21
Alignment explanation
Indices: 62104641--62104686 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
62104631 GATCCAATAC
62104641 AACATTTAAAGGAAAACAGAA
1 AACATTTAAAGGAAAACAGAA
62104662 AACATTTAAAGGAAAACAGAA
1 AACATTTAAAGGAAAACAGAA
62104683 AACA
1 AACA
62104687 AGGGAAGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.63, C:0.11, G:0.13, T:0.13
Consensus pattern (21 bp):
AACATTTAAAGGAAAACAGAA
Found at i:62104694 original size:21 final size:21
Alignment explanation
Indices: 62104648--62104696 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
62104638 TACAACATTT
***
62104648 AAAGGAAAACAGAAAACATTT
1 AAAGGAAAACAGAAAACAAGG
62104669 AAAGGAAAACAGAAAACAAGG
1 AAAGGAAAACAGAAAACAAGG
*
62104690 GAAGGAA
1 AAAGGAA
62104697 GGGCAGGGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.63, C:0.08, G:0.22, T:0.06
Consensus pattern (21 bp):
AAAGGAAAACAGAAAACAAGG
Found at i:62106679 original size:19 final size:19
Alignment explanation
Indices: 62106657--62106693 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
62106647 AATAATATAT
*
62106657 ATATAGTAAAATATATAAC
1 ATATAATAAAATATATAAC
*
62106676 ATATAATAAAATTTATAA
1 ATATAATAAAATATATAA
62106694 ATAAAATGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (19 bp):
ATATAATAAAATATATAAC
Found at i:62106713 original size:21 final size:23
Alignment explanation
Indices: 62106689--62106743 Score: 71
Period size: 21 Copynumber: 2.5 Consensus size: 23
62106679 TAATAAAATT
62106689 TATAAATAAAATG-T--ATAATAA
1 TATAAATAAAATGATAAATAAT-A
*
62106710 TATAAATAATATGATAAATAATA
1 TATAAATAAAATGATAAATAATA
62106733 TATAAATAAAA
1 TATAAATAAAA
62106744 ATAATATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 12 0.41
22 1 0.03
23 11 0.38
24 5 0.17
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.33
Consensus pattern (23 bp):
TATAAATAAAATGATAAATAATA
Found at i:62106718 original size:12 final size:11
Alignment explanation
Indices: 62106703--62106741 Score: 60
Period size: 12 Copynumber: 3.4 Consensus size: 11
62106693 AATAAAATGT
62106703 ATAATAATATAA
1 ATAAT-ATATAA
62106715 ATAATATGATAA
1 ATAATAT-ATAA
62106727 ATAATATATAA
1 ATAATATATAA
62106738 ATAA
1 ATAA
62106742 AAATAATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 10 0.38
12 16 0.62
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (11 bp):
ATAATATATAA
Found at i:62106726 original size:17 final size:16
Alignment explanation
Indices: 62106706--62106753 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 16
62106696 AAAATGTATA
62106706 ATAATATAAATAATAT
1 ATAATATAAATAATAT
62106722 GATAA-AT-AAT-ATAT
1 -ATAATATAAATAATAT
*
62106736 A-AATAAAAATAATAT
1 ATAATATAAATAATAT
62106751 ATA
1 ATA
62106754 TACTATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 9
0.72 0.03 0.25
Matches are distributed among these distances:
12 2 0.08
13 2 0.08
14 7 0.27
15 8 0.31
16 3 0.12
17 4 0.15
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (16 bp):
ATAATATAAATAATAT
Found at i:62106747 original size:21 final size:20
Alignment explanation
Indices: 62106666--62106755 Score: 62
Period size: 19 Copynumber: 4.4 Consensus size: 20
62106656 TATATAGTAA
*
62106666 AATATATAACAT-ATAATAA-
1 AATATATAA-ATAAAAATAAT
* *
62106685 AATTTATAAAT-AAAATGTAT
1 AATATATAAATAAAAAT-AAT
*
62106705 AATAATATAAATAATATGATAAAT
1 AAT-ATATAAATAA-A-AAT-AAT
62106729 AATATATAAATAAAAATAAT
1 AATATATAAATAAAAATAAT
62106749 -ATATATA
1 AATATATA
62106756 CTATTTTTAC
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
18 6 0.11
19 16 0.28
20 6 0.11
21 9 0.16
22 2 0.04
23 11 0.19
24 7 0.12
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.34
Consensus pattern (20 bp):
AATATATAAATAAAAATAAT
Found at i:62112883 original size:45 final size:46
Alignment explanation
Indices: 62112819--62112993 Score: 225
Period size: 45 Copynumber: 3.8 Consensus size: 46
62112809 TGTAACCCGC
*
62112819 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
*
62112864 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C--GTTCGCAT
* * *
62112914 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
62112957 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
62112994 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 8, Indels: 19
0.81 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 37 0.33
46 29 0.26
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:62112985 original size:93 final size:92
Alignment explanation
Indices: 62112827--62112997 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 92
62112817 GCCCATAAGT
*
62112827 GAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGCGCTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
62112892 GAGTTCGGATGCCTAGTTACATCTCAC
66 GAGTTCGGATGCCTAGTTACATCTCAC
*
62112919 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGG-CGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
62112984 CGAGTTCGGATGCC
65 CGAGTTCGGATGCC
62112998 CAAATATCCC
Statistics
Matches: 76, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
92 27 0.36
93 49 0.64
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGCGCTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:62113012 original size:46 final size:45
Alignment explanation
Indices: 62112824--62113012 Score: 152
Period size: 46 Copynumber: 4.1 Consensus size: 45
62112814 CCCGCCCATA
* * ** * *
62112824 AGTGAACTCGGACTCAACTCAACGAGCTCGG-CGTTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
* *
62112869 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * * *
62112917 A-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
*
62112962 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
62113008 AGTGA
1 AGTGA
62113013 CATGTCACTT
Statistics
Matches: 113, Mismatches: 21, Indels: 19
0.74 0.14 0.12
Matches are distributed among these distances:
43 4 0.04
45 31 0.27
46 38 0.34
47 31 0.27
48 5 0.04
50 4 0.04
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:62114509 original size:30 final size:30
Alignment explanation
Indices: 62114465--62114657 Score: 201
Period size: 30 Copynumber: 6.4 Consensus size: 30
62114455 TTGTGTTTTC
*
62114465 ACCATCCCTTTTCATAATTTGATAGCCGAA
1 ACCATCCCTTTTCATAATTCGATAGCCGAA
* *
62114495 ACTATCCCTCTTCATAATTCGATAGCC-AGA
1 ACCATCCCTTTTCATAATTCGATAGCCGA-A
* *
62114525 GCCATCCCTTTTCATAATTTGATAGCC-AA
1 ACCATCCCTTTTCATAATTCGATAGCCGAA
* * * **
62114554 AGCCATCCCTTTTCATAATTCAATGGTCGTC
1 A-CCATCCCTTTTCATAATTCGATAGCCGAA
62114585 ACCATCCCTTTTTCATAATTCGATAGCCGAA
1 ACCATCCC-TTTTCATAATTCGATAGCCGAA
* * * * *
62114616 GCTATCCCTTTCCATATTTTGATAGCCGAA
1 ACCATCCCTTTTCATAATTCGATAGCCGAA
*
62114646 GCCATCCCTTTT
1 ACCATCCCTTTT
62114658 TATTGGTCGA
Statistics
Matches: 133, Mismatches: 26, Indels: 8
0.80 0.16 0.05
Matches are distributed among these distances:
29 2 0.02
30 107 0.80
31 24 0.18
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (30 bp):
ACCATCCCTTTTCATAATTCGATAGCCGAA
Found at i:62115045 original size:31 final size:31
Alignment explanation
Indices: 62115010--62115071 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
62115000 CATGCAATTT
62115010 CACCCCTACCCAAGCCTAGCCGAATTTTATA
1 CACCCCTACCCAAGCCTAGCCGAATTTTATA
*
62115041 CACCCCTACCCAAGCCTAGCTGAATTTTATA
1 CACCCCTACCCAAGCCTAGCCGAATTTTATA
62115072 AAAACTCATA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.29, C:0.37, G:0.10, T:0.24
Consensus pattern (31 bp):
CACCCCTACCCAAGCCTAGCCGAATTTTATA
Found at i:62120040 original size:84 final size:83
Alignment explanation
Indices: 62119791--62120096 Score: 434
Period size: 84 Copynumber: 3.7 Consensus size: 83
62119781 ACAAACCAAT
* *
62119791 ATCAAATAAAATCTAGTTAAACGGCGGGAATAAATCCCGAAACAGATTTTATTTAATTTAATTCT
1 ATCAAATAAAATCTTGTTAAACGGCGGGAATAAATCCCAAAACAGATTTTATTTAATTTAATTCT
* * *
62119856 AATTTAGAAATAAATATA
66 AATTTGGAAAAAAATAAA
* * ** * *
62119874 ATCAAACAAAATCTTGTTAAACGACGGGAATAAAT-CTGAAATATATTTTATTTAATTTAATTCT
1 ATCAAATAAAATCTTGTTAAACGGCGGGAATAAATCCCAAAACAGATTTTATTTAATTTAATTCT
*
62119938 AATTTGGAAACAACATAAA
66 AATTTGGAAA-AAAATAAA
* *
62119957 ATCAAATAAAATCTTGTTAAACGGCGGAAATAAATCTCAAAACAGATTTTATTTAATTTAATTCT
1 ATCAAATAAAATCTTGTTAAACGGCGGGAATAAATCCCAAAACAGATTTTATTTAATTTAATTCT
62120022 AATTTGGAATAAAAATAAA
66 AATTTGGAA-AAAAATAAA
* * *
62120041 ATCAAATAAAATCTTGTTAAATGGCAGGAATAAATCCCAAAACAAATTTTATTTAA
1 ATCAAATAAAATCTTGTTAAACGGCGGGAATAAATCCCAAAACAGATTTTATTTAA
62120097 CTTTGATTTC
Statistics
Matches: 196, Mismatches: 24, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
82 35 0.18
83 69 0.35
84 91 0.46
85 1 0.01
ACGTcount: A:0.47, C:0.11, G:0.10, T:0.33
Consensus pattern (83 bp):
ATCAAATAAAATCTTGTTAAACGGCGGGAATAAATCCCAAAACAGATTTTATTTAATTTAATTCT
AATTTGGAAAAAAATAAA
Found at i:62120171 original size:87 final size:87
Alignment explanation
Indices: 62120068--62120297 Score: 223
Period size: 88 Copynumber: 2.6 Consensus size: 87
62120058 TAAATGGCAG
* * * * *
62120068 GAATAAATCCCAAAACAAATTTTATTTAACTTTGATTTCTCTTTTTTGGCAACAAA-ATCAAAA-
1 GAATAAATCCCGAAACAAATTTTATTTAA-TTTGAGTACT-TGTTTTGG-AAAAAACATCAAAAT
* * *
62120131 TGTAAT-AAATTCGTTGATCAACGA
63 TGGAATAAAATCCGTTGAACAACGA
* * *
62120155 GAATAAATCCCGAAACAGATTTTAATTTAATTTTAGTAGTTGTTTTGGAAAAAACATCAAAATTG
1 GAATAAATCCCGAAACAAATTTT-ATTTAATTTGAGTACTTGTTTTGGAAAAAACATCAAAATTG
** *
62120220 GAATAAAATCCGTTGAACGGCGG
65 GAATAAAATCCGTTGAACAACGA
* * * *
62120243 GAATAAATCCCGAAATAAATTTTATTTTTATTTTAATACTTGTTTTGGAATAAAA
1 GAATAAATCCCGAAACAAATTTTA-TTTAATTTGAGTACTTGTTTTGGAA-AAAA
62120298 TCGTTGAATA
Statistics
Matches: 118, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
85 5 0.04
86 14 0.12
87 33 0.28
88 62 0.53
89 4 0.03
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.36
Consensus pattern (87 bp):
GAATAAATCCCGAAACAAATTTTATTTAATTTGAGTACTTGTTTTGGAAAAAACATCAAAATTGG
AATAAAATCCGTTGAACAACGA
Found at i:62120181 original size:167 final size:163
Alignment explanation
Indices: 62119773--62120186 Score: 395
Period size: 166 Copynumber: 2.5 Consensus size: 163
62119763 CTTCTTCTTT
* ** * * * *
62119773 ATTTAGAAACAAACCAATATCAAATAAAATCTAGTTAAACGGCGGGAATAAATCCCGAAACAGAT
1 ATTTGGAAACAAAATAAAATCAAATAAAATCTTGATAAACGGC-AGAATAAATCCCGAAACAGA-
* * *
62119838 TTTATTTAATTTAATTCTAATTTAGAAATAAATATAATCAAACAAAATCTTGTTAAACGACGGGA
64 -TTATTTAATTTAATTCTAATTTAGAAAAAAATAAAATCAAACAAAATCTTGTTAAACGACAGGA
** * *
62119903 ATAAATCTGAAATATATTTTATTTAATTTAATTCTA
128 ATAAATCCAAAACAAATTTTATTTAATTTAATTCTA
* * * * *
62119939 ATTTGGAAACAACATAAAATCAAATAAAATCTTGTTAAACGGCGGAAATAAATCTCAAAACAGAT
1 ATTTGGAAACAAAATAAAATCAAATAAAATCTTGATAAACGGCAG-AATAAATCCCGAAACAGA-
* * * *
62120004 TTTATTTAATTTAATTCTAATTTGGAATAAAAATAAAATCAAATAAAATCTTGTTAAATGGCAGG
64 -TTATTTAATTTAATTCTAATTTAGAA-AAAAATAAAATCAAACAAAATCTTGTTAAACGACAGG
* *
62120069 AATAAATCCCAAAACAAATTTTATTTAACTTTGATTTCTCTT
127 AATAAAT-CCAAAACAAATTTTATTTAA-TTT-A-AT-TCTA
* * ** * *
62120111 TTTTGGCAACAAAATCAAAATGTAATAAATTCGTTGATCAAC-G-AGAATAAATCCCGAAACAGA
1 ATTTGGAAACAAAAT-AAAATCAAATAAAATC-TTGATAAACGGCAGAATAAATCCCGAAACAGA
62120174 -T-TTTAATTTAATT
64 TTATTTAATTTAATT
62120187 TTAGTAGTTG
Statistics
Matches: 207, Mismatches: 32, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
165 2 0.01
166 80 0.39
167 50 0.24
168 17 0.08
169 3 0.01
170 1 0.00
171 17 0.08
172 16 0.08
173 14 0.07
174 7 0.03
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (163 bp):
ATTTGGAAACAAAATAAAATCAAATAAAATCTTGATAAACGGCAGAATAAATCCCGAAACAGATT
ATTTAATTTAATTCTAATTTAGAAAAAAATAAAATCAAACAAAATCTTGTTAAACGACAGGAATA
AATCCAAAACAAATTTTATTTAATTTAATTCTA
Found at i:62120492 original size:88 final size:87
Alignment explanation
Indices: 62120352--62120518 Score: 239
Period size: 88 Copynumber: 1.9 Consensus size: 87
62120342 TCATTTTTTG
* * *
62120352 GAAATAAAATAAAAAAATTGAATAAAATCGTTGAACGGCAGGAATCAATCCTGAAACAGATTTTA
1 GAAATAAAATAAAAAAATGGAATAAAATCGTTAAACGGCAGGAATAAATCCTGAAACAGATTTTA
62120417 TTTACCTTTAATTTTCCATTTA
66 TTTACCTTTAATTTTCCATTTA
* *
62120439 GAAAT-AAATAAAAATAATGGAATAAAATATGTTAAACGG-AGGGAATAAATCCTGAAACGGATT
1 GAAATAAAATAAAAA-AATGGAATAAAAT-CGTTAAACGGCA-GGAATAAATCCTGAAACAGATT
*
62120502 TTATTTACTTTTAATTT
63 TTATTTACCTTTAATTT
62120519 GGAAACAAAA
Statistics
Matches: 71, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
86 9 0.13
87 18 0.25
88 44 0.62
ACGTcount: A:0.45, C:0.10, G:0.13, T:0.32
Consensus pattern (87 bp):
GAAATAAAATAAAAAAATGGAATAAAATCGTTAAACGGCAGGAATAAATCCTGAAACAGATTTTA
TTTACCTTTAATTTTCCATTTA
Found at i:62121270 original size:20 final size:21
Alignment explanation
Indices: 62121242--62121282 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
62121232 TTAAAGGGGT
*
62121242 AATTGAATCA-ATTTGATTGA
1 AATTAAATCAGATTTGATTGA
62121262 AATTAAATCAGATTTGATTGA
1 AATTAAATCAGATTTGATTGA
62121283 GGAAAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.41, C:0.05, G:0.15, T:0.39
Consensus pattern (21 bp):
AATTAAATCAGATTTGATTGA
Found at i:62123369 original size:30 final size:30
Alignment explanation
Indices: 62123335--62123395 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
62123325 TCCGCCTCAC
62123335 CTCTTCTCTTACTCATACACCCACCACCAT
1 CTCTTCTCTTACTCATACACCCACCACCAT
* *
62123365 CTCTTCTCTTACTCTTACACCCACCGCCAT
1 CTCTTCTCTTACTCATACACCCACCACCAT
62123395 C
1 C
62123396 CAATCTCCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.20, C:0.48, G:0.02, T:0.31
Consensus pattern (30 bp):
CTCTTCTCTTACTCATACACCCACCACCAT
Found at i:62124768 original size:31 final size:31
Alignment explanation
Indices: 62124733--62124797 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
62124723 TCATTCATAA
62124733 AACTCAAATCAACAATCATAATCAATTAAAC
1 AACTCAAATCAACAATCATAATCAATTAAAC
* * ** *
62124764 AACTCAAATCGACAATTATCTTCGATTAAAC
1 AACTCAAATCAACAATCATAATCAATTAAAC
62124795 AAC
1 AAC
62124798 ATAGAAACTA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.49, C:0.23, G:0.03, T:0.25
Consensus pattern (31 bp):
AACTCAAATCAACAATCATAATCAATTAAAC
Found at i:62134074 original size:26 final size:27
Alignment explanation
Indices: 62134022--62134074 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
62134012 TTTCTATTTG
*
62134022 ATTTAAATTTTATTATATATGACTTTTT
1 ATTTAAATTTTA-TATATATGAATTTTT
62134050 ATTTAAATTTTA-ATATATGAATTTT
1 ATTTAAATTTTATATATATGAATTTT
62134075 GTTAAAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 12 0.50
28 12 0.50
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (27 bp):
ATTTAAATTTTATATATATGAATTTTT
Found at i:62134079 original size:24 final size:27
Alignment explanation
Indices: 62134024--62134080 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 27
62134014 TCTATTTGAT
* *
62134024 TTAAATTTTATTATATATGACTTTTTAT
1 TTAAATTTTA-TATATATGACATTTTAG
62134052 TTAAATTTTA-ATATATGA-ATTTT-G
1 TTAAATTTTATATATATGACATTTTAG
62134076 TTAAA
1 TTAAA
62134081 AATAATTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 5 0.19
25 4 0.15
26 8 0.30
28 10 0.37
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (27 bp):
TTAAATTTTATATATATGACATTTTAG
Found at i:62134933 original size:2 final size:2
Alignment explanation
Indices: 62134921--62134950 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
62134911 CAAAACCTTT
*
62134921 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
62134951 ATCCTTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:62141874 original size:50 final size:50
Alignment explanation
Indices: 62141751--62141934 Score: 226
Period size: 50 Copynumber: 3.7 Consensus size: 50
62141741 CTGGTACGCA
* * * *
62141751 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATCAGGTACACG
** * *
62141800 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATCAGGTACACG
* * * *
62141850 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-TTATCAGGTACACG
* *
62141901 TAGTAGCCTGCACTTAATACTACACAAGTGACCT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT
62141935 CACAATAGAT
Statistics
Matches: 114, Mismatches: 19, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
49 31 0.27
50 45 0.39
51 38 0.33
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATCAGGTACACG
Found at i:62141922 original size:101 final size:99
Alignment explanation
Indices: 62141751--62141934 Score: 269
Period size: 101 Copynumber: 1.8 Consensus size: 99
62141741 CTGGTACGCA
* * **
62141751 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCAGGTACACATAGTAGCCTGCACTTA
* *
62141816 GTACTACACACGTGACCTAACCATCTGATACACG
66 ATACTACACAAGTGACCTAACCATCTGATACACG
* * *
62141850 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCAGGTACACATAGTAGCCTGCACT
62141915 TAATACTACACAAGTGACCT
64 TAATACTACACAAGTGACCT
62141935 CACAATAGAT
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
99 29 0.39
100 3 0.04
101 42 0.57
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCAGGTACACATAGTAGCCTGCACTTA
ATACTACACAAGTGACCTAACCATCTGATACACG
Found at i:62142210 original size:27 final size:27
Alignment explanation
Indices: 62142180--62142233 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
62142170 TCATACAACC
* *
62142180 CATGTACTAGTAATTTAACATTCAATT
1 CATGTAATAATAATTTAACATTCAATT
**
62142207 CATGTAATAATAATTTGCCATTCAATT
1 CATGTAATAATAATTTAACATTCAATT
62142234 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (27 bp):
CATGTAATAATAATTTAACATTCAATT
Found at i:62144853 original size:26 final size:26
Alignment explanation
Indices: 62144824--62144932 Score: 191
Period size: 26 Copynumber: 4.2 Consensus size: 26
62144814 TGATACAAAT
62144824 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
62144850 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
62144876 TGATAATGAGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
62144902 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
62144928 CGATA
1 TGATA
62144933 GGAATTTCAT
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.32, C:0.07, G:0.26, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:62150652 original size:26 final size:26
Alignment explanation
Indices: 62150611--62150711 Score: 186
Period size: 26 Copynumber: 3.9 Consensus size: 26
62150601 TGATACAAAT
62150611 TGATAAT-GGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
62150636 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
62150662 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
62150688 TGATAATGGGTTAGGTAAATGTTC
1 TGATAATGGGTTAGGTAAATGTTC
62150712 ACGATGGGAA
Statistics
Matches: 73, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
25 7 0.10
26 66 0.90
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:62156349 original size:25 final size:26
Alignment explanation
Indices: 62156320--62156424 Score: 180
Period size: 25 Copynumber: 4.2 Consensus size: 26
62156310 TGATACAAAT
*
62156320 TGATAAT-GGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
62156345 TGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
62156370 TGATAATGGGTTAGGTAAATG-TTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
62156395 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
62156421 TGAT
1 TGAT
62156425 GAATTTCATG
Statistics
Matches: 77, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
25 56 0.73
26 21 0.27
ACGTcount: A:0.31, C:0.05, G:0.26, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:62156382 original size:51 final size:50
Alignment explanation
Indices: 62156320--62156424 Score: 185
Period size: 51 Copynumber: 2.1 Consensus size: 50
62156310 TGATACAAAT
62156320 TGATAATGGTTAGGTAAATGTTCCATGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATGGTTAGGTAAATGTT-CATGATAATGGGTTAGGTAAATGTTTCA
62156370 TGATAATGGGTTAGGTAAATGTTCATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAAT-GGTTAGGTAAATGTTCATGATAATGGGTTAGGTAAATGTTTCA
62156421 TGAT
1 TGAT
62156425 GAATTTCATG
Statistics
Matches: 53, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
50 16 0.30
51 37 0.70
ACGTcount: A:0.31, C:0.05, G:0.26, T:0.38
Consensus pattern (50 bp):
TGATAATGGTTAGGTAAATGTTCATGATAATGGGTTAGGTAAATGTTTCA
Found at i:62160129 original size:20 final size:21
Alignment explanation
Indices: 62160104--62160146 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
62160094 TCCAACATAG
*
62160104 GGGGAT-TCGTACTGATACTT
1 GGGGATCTCGTACCGATACTT
*
62160124 GGGGATCTTGTACCGATACTT
1 GGGGATCTCGTACCGATACTT
62160145 GG
1 GG
62160147 ACCTTAACAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.19, C:0.16, G:0.33, T:0.33
Consensus pattern (21 bp):
GGGGATCTCGTACCGATACTT
Found at i:62162846 original size:42 final size:42
Alignment explanation
Indices: 62162787--62162940 Score: 175
Period size: 42 Copynumber: 3.6 Consensus size: 42
62162777 TTAGTTTACG
* * *
62162787 TGTAAGACCATATTTGGGATATGGAATCGATATGAGATTTCA
1 TGTAAGACCATGTTTGGGATATGGCATCGATAAGAGATTTCA
* *
62162829 TGTAAGACCATGTTTGGGATATGGCATCAATAAGAGATTTCC
1 TGTAAGACCATGTTTGGGATATGGCATCGATAAGAGATTTCA
* * * *
62162871 TGTAAGACCATAG-CTGGGCTATTGGCATCGATACGAGATTACA
1 TGTAAGACCAT-GTTTGGGATA-TGGCATCGATAAGAGATTTCA
* * *
62162914 TGTAAGACCATATCTAGGATATGGCAT
1 TGTAAGACCATGTTTGGGATATGGCAT
62162941 TGGTACTGTA
Statistics
Matches: 95, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
42 60 0.63
43 35 0.37
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATGTTTGGGATATGGCATCGATAAGAGATTTCA
Found at i:62169795 original size:18 final size:19
Alignment explanation
Indices: 62169760--62169797 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
62169750 AAACTATTCA
62169760 AATAACCTATGGCAAATCC
1 AATAACCTATGGCAAATCC
*
62169779 AATAACCTAT-TCAAATCC
1 AATAACCTATGGCAAATCC
62169797 A
1 A
62169798 TACCAAAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.45, C:0.26, G:0.05, T:0.24
Consensus pattern (19 bp):
AATAACCTATGGCAAATCC
Found at i:62170643 original size:42 final size:43
Alignment explanation
Indices: 62170566--62170667 Score: 127
Period size: 42 Copynumber: 2.4 Consensus size: 43
62170556 ACCCGGACGT
* * **
62170566 GGTCTTACATGTAATTCAGTATCGATGCCTCTGTCCCAAACAG
1 GGTCTTACACGTAAATCAGTATCGATGCCGATGTCCCAAACAG
* *
62170609 GGTCTTACACG-AAATCAG-ATACGATGCCGATGTCCCAGACAT
1 GGTCTTACACGTAAATCAGTAT-CGATGCCGATGTCCCAAACAG
62170651 GGTCTTACACGTAAATC
1 GGTCTTACACGTAAATC
62170668 TCAAATCGAG
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
41 2 0.04
42 34 0.67
43 15 0.29
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.26
Consensus pattern (43 bp):
GGTCTTACACGTAAATCAGTATCGATGCCGATGTCCCAAACAG
Found at i:62181955 original size:42 final size:43
Alignment explanation
Indices: 62181872--62181973 Score: 127
Period size: 42 Copynumber: 2.4 Consensus size: 43
62181862 TCTCAGACGT
* * *
62181872 GGTCTTACATGTAATTCAGTATCGATACCACTGTCCCAGACAG
1 GGTCTTACACGTAAATCAGTATCGATACCAATGTCCCAGACAG
* *
62181915 GGTCTTACACG-AAATCAG-ATACGATGCCAATGTCCCAGACAT
1 GGTCTTACACGTAAATCAGTAT-CGATACCAATGTCCCAGACAG
*
62181957 GGTCTTACATGTAAATC
1 GGTCTTACACGTAAATC
62181974 TCAAATCGAG
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
41 2 0.04
42 34 0.67
43 15 0.29
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (43 bp):
GGTCTTACACGTAAATCAGTATCGATACCAATGTCCCAGACAG
Found at i:62186998 original size:40 final size:40
Alignment explanation
Indices: 62186932--62187098 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
62186922 AAATTGAATG
* * *
62186932 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
62186971 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
62187011 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
62187051 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
62187091 ATATCCGG
1 ATATCCGG
62187099 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:62188707 original size:40 final size:40
Alignment explanation
Indices: 62188641--62188807 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
62188631 AAATTGAATG
* * *
62188641 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
62188680 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
62188720 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
62188760 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
62188800 ATATCCGG
1 ATATCCGG
62188808 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:62196611 original size:40 final size:40
Alignment explanation
Indices: 62196545--62196711 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
62196535 AAATTGAATG
* * *
62196545 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
62196584 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
62196624 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
62196664 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
62196704 ATATCCGG
1 ATATCCGG
62196712 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:62204767 original size:2 final size:2
Alignment explanation
Indices: 62204760--62204790 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
62204750 ACTTAACATA
62204760 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
62204791 TATATATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:62204795 original size:2 final size:2
Alignment explanation
Indices: 62204790--62204817 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
62204780 ACACACACAC
62204790 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
62204818 CATGATAACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:62234846 original size:20 final size:20
Alignment explanation
Indices: 62234821--62234859 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
62234811 TTAAAAAGAT
* *
62234821 AAATAAAGATAAAAGTAAAC
1 AAATAAAAATAAAAATAAAC
62234841 AAATAAAAATAAAAATAAA
1 AAATAAAAATAAAAATAAA
62234860 GTAAAGTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.77, C:0.03, G:0.05, T:0.15
Consensus pattern (20 bp):
AAATAAAAATAAAAATAAAC
Found at i:62242578 original size:28 final size:28
Alignment explanation
Indices: 62242517--62242571 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
62242507 TTAATATACT
62242517 CAAATAGTCAGGTGAGTATTCGGCCAAA
1 CAAATAGTCAGGTGAGTATTCGGCCAAA
62242545 CAAATAGTCAGGTGAGTATTCGGCCAA
1 CAAATAGTCAGGTGAGTATTCGGCCAA
62242572 GTAAATAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (28 bp):
CAAATAGTCAGGTGAGTATTCGGCCAAA
Found at i:62242600 original size:2 final size:2
Alignment explanation
Indices: 62242593--62242631 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
62242583 TGCAATTACG
62242593 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
62242632 GTGTGTGTGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:62242636 original size:2 final size:2
Alignment explanation
Indices: 62242631--62242688 Score: 107
Period size: 2 Copynumber: 29.0 Consensus size: 2
62242621 TATATATATA
*
62242631 TG TG TG TG TG TG TA TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
62242673 TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG
62242689 CATTCGGCAT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.02, C:0.00, G:0.48, T:0.50
Consensus pattern (2 bp):
TG
Found at i:62243628 original size:42 final size:42
Alignment explanation
Indices: 62243500--62243612 Score: 190
Period size: 42 Copynumber: 2.7 Consensus size: 42
62243490 CTCGATATAT
62243500 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
1 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
** *
62243542 TATATATCCGGGTTAAATTTCGTAGGCTTCGTGCTGGTAATA
1 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
*
62243584 TATATATACGGGTTAAATCCCGCAGGCTT
1 TATATATCCGGGTTAAATCCCGCAGGCTT
62243613 AGTACCGGTA
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.34
Consensus pattern (42 bp):
TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
Found at i:62245762 original size:17 final size:17
Alignment explanation
Indices: 62245740--62245778 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
62245730 TTTGAAAAGG
62245740 AAAACAAATGAATCTTA
1 AAAACAAATGAATCTTA
*
62245757 AAAACAATTGAATCTTA
1 AAAACAAATGAATCTTA
62245774 AAAAC
1 AAAAC
62245779 TTAATGAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.59, C:0.13, G:0.05, T:0.23
Consensus pattern (17 bp):
AAAACAAATGAATCTTA
Found at i:62252732 original size:40 final size:40
Alignment explanation
Indices: 62252669--62252769 Score: 103
Period size: 40 Copynumber: 2.5 Consensus size: 40
62252659 TGAATGATAC
* * * * * *
62252669 CCGGGCTAAGCCCCAAAGACAATTATGCTGGAAATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTATGCTAGAAACTACAT
* * ***
62252709 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACAT
1 CCGGGCTAAGACCCGAAGGCAATTATGCTAGAAACTACAT
62252749 CCGGGCTAAGACCCGAAGGCA
1 CCGGGCTAAGACCCGAAGGCA
62252770 TTCGTACGAG
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.30, C:0.25, G:0.27, T:0.19
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTATGCTAGAAACTACAT
Found at i:62252830 original size:40 final size:40
Alignment explanation
Indices: 62252703--62252832 Score: 147
Period size: 40 Copynumber: 3.2 Consensus size: 40
62252693 ATGCTGGAAA
* *
62252703 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * * **
62252743 CTACATCCGGGCTAAGACCCGAAGGCATTCGTACGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
* *
62252783 TTCTATCCGGGCTAAGACCCAAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
62252823 TTATATCCGG
1 TTATATCCGG
62252833 TTGTATTCCG
Statistics
Matches: 73, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
39 4 0.05
40 69 0.95
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:62255214 original size:40 final size:40
Alignment explanation
Indices: 62255155--62255296 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
62255145 AAATTGAATG
* * *
62255155 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
62255195 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
62255235 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
62255275 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
62255297 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:62255297 original size:40 final size:39
Alignment explanation
Indices: 62255194--62255322 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
62255184 TGCTGGAAAT
* * *
62255194 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
62255234 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
62255274 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
62255314 TATATCCGG
1 TATATCCGG
62255323 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:62270466 original size:40 final size:40
Alignment explanation
Indices: 62270339--62270468 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
62270329 ATGCTGGAAA
* * *
62270339 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
62270379 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
62270419 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
62270459 TTATATCCGG
1 TTATATCCGG
62270469 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:62271911 original size:40 final size:40
Alignment explanation
Indices: 62271843--62272019 Score: 275
Period size: 40 Copynumber: 4.4 Consensus size: 40
62271833 GTGTTACAGC
* * *
62271843 CCCGAAGGCATTTATGCTAG-TGATTATATCCGGGTTAAGA
1 CCCGAAGGCATTTGTGCGAGTTG-CTATATCCGGGTTAAGA
62271883 CCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGTTAAGA
1 CCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGTTAAGA
* *
62271923 CCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGA
1 CCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGTTAAGA
*
62271963 CCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGA
1 CCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGTTAAGA
*
62272003 CCCGAAGGCAATTGTGC
1 CCCGAAGGCATTTGTGC
62272020 TTGTGGTTAT
Statistics
Matches: 127, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 125 0.98
41 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGTTAAGA
Found at i:62271976 original size:80 final size:80
Alignment explanation
Indices: 62271843--62272039 Score: 308
Period size: 80 Copynumber: 2.5 Consensus size: 80
62271833 GTGTTACAGC
* *
62271843 CCCGAAGGCATTTATGCTAG-TGATTATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGC
1 CCCGAAGGCATTTGTGCTAGTTG-TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGC
*
62271907 TATATCCGGGTTAAGA
65 TATACCCGGGTTAAGA
*
62271923 CCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 CCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
62271988 ATACCCGGGTTAAGA
66 ATACCCGGGTTAAGA
* * *
62272003 CCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 CCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAA
62272040 ATTCCGAAGA
Statistics
Matches: 108, Mismatches: 8, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
79 6 0.06
80 100 0.93
81 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (80 bp):
CCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
ATACCCGGGTTAAGA
Found at i:62273519 original size:24 final size:24
Alignment explanation
Indices: 62273492--62273629 Score: 251
Period size: 24 Copynumber: 5.8 Consensus size: 24
62273482 CTTATTATGT
**
62273492 TCGCACACATAGTGCCATAGCGAA
1 TCGCACACATAGTGCCATAGTAAA
62273516 TCGCAC-CATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
62273539 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
62273563 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
62273587 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
62273611 TCGCACACATAGTGCCATA
1 TCGCACACATAGTGCCATA
62273630 TATTTCCAGC
Statistics
Matches: 111, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
23 21 0.19
24 90 0.81
ACGTcount: A:0.36, C:0.27, G:0.17, T:0.20
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:62273654 original size:29 final size:29
Alignment explanation
Indices: 62273612--62273685 Score: 130
Period size: 29 Copynumber: 2.6 Consensus size: 29
62273602 CATAGTAAAT
*
62273612 CGCACACATAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
62273641 CGCACACTTAGTGCCATATATTTCCAGTA
1 CGCACACTTAGTGCCATATATTTCCAGCA
62273670 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
62273686 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:62276932 original size:27 final size:26
Alignment explanation
Indices: 62276866--62276920 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 26
62276856 AAAACAATCA
62276866 TACATACATAAGGGCATAACAGTCATTT
1 TACAT-CAT-AGGGCATAACAGTCATTT
*
62276894 TACCTCATAGGGACATAACAGTCATTT
1 TACATCATAGGG-CATAACAGTCATTT
62276921 ATCAATCTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 4 0.16
27 17 0.68
28 4 0.16
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (26 bp):
TACATCATAGGGCATAACAGTCATTT
Found at i:62284880 original size:50 final size:50
Alignment explanation
Indices: 62284828--62284959 Score: 151
Period size: 50 Copynumber: 2.6 Consensus size: 50
62284818 ATGAACAAAT
* *
62284828 GAGTTACTTAATGCATGACTTAATTTAATCATGCAAGCTTTAACTAACATGA
1 GAGTTACATAATGCATGACTTAATTTAATCATGCAAAC-TTAACTAACAT-A
* * *
62284880 GAGTTACATAATGCATGTA-ATAAATT-ATGATGCAAACTTAACTAACATGA
1 GAGTTACATAATGCATG-ACTTAATTTAATCATGCAAACTTAACTAACAT-A
* *
62284930 GAGTTACATAATGCATGACTTTATTAAATC
1 GAGTTACATAATGCATGACTTAATTTAATC
62284960 CAAAACACAT
Statistics
Matches: 67, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
49 1 0.01
50 33 0.49
51 11 0.16
52 21 0.31
53 1 0.01
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (50 bp):
GAGTTACATAATGCATGACTTAATTTAATCATGCAAACTTAACTAACATA
Found at i:62289017 original size:93 final size:93
Alignment explanation
Indices: 62288905--62289076 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
62288895 GCCCATAAGT
* *
62288905 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
62288970 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
62288998 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
62289063 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
62289077 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:62289072 original size:46 final size:46
Alignment explanation
Indices: 62288897--62289072 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
62288887 TGTAACCCGC
* * *
62288897 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
62288943 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
62288993 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
62289036 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
62289073 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:62290271 original size:33 final size:34
Alignment explanation
Indices: 62290234--62290299 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 34
62290224 TAAGCCCTTT
* * * *
62290234 CAGTATCAGT-TAGGCCTTAGCCTATTTCAGTAA
1 CAGTAGCAGTCTAGGCCTGAACCCATTTCAGTAA
*
62290267 CAGTAGCAGTCTGGGCCTGAACCCATTTCAGTA
1 CAGTAGCAGTCTAGGCCTGAACCCATTTCAGTA
62290300 TTAGTAGTAG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
33 9 0.33
34 18 0.67
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (34 bp):
CAGTAGCAGTCTAGGCCTGAACCCATTTCAGTAA
Found at i:62290894 original size:19 final size:19
Alignment explanation
Indices: 62290870--62290917 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
62290860 CCGTGCGAGA
62290870 CACACAGGCCCATTGGGCC
1 CACACAGGCCCATTGGGCC
* *
62290889 CACACA-GCCAATTTGGCC
1 CACACAGGCCCATTGGGCC
*
62290907 CA-AAAGGCCCA
1 CACACAGGCCCA
62290918 ATATCGTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 2 0.08
18 16 0.67
19 6 0.25
ACGTcount: A:0.29, C:0.40, G:0.21, T:0.10
Consensus pattern (19 bp):
CACACAGGCCCATTGGGCC
Found at i:62293458 original size:43 final size:43
Alignment explanation
Indices: 62293374--62293459 Score: 106
Period size: 43 Copynumber: 2.0 Consensus size: 43
62293364 TATGTGACTC
*
62293374 CGATATATGTGTACAAGTAAGACCCTGTCTGGGACAGTGGCAT
1 CGATATATGTGTACAAGTAAGACCCTGTCTAGGACAGTGGCAT
*
62293417 CGATATATGAT-TACAGGTAAGACCAC-GTCTAGGAC-GTTGGCAT
1 CGATATATG-TGTACAAGTAAGACC-CTGTCTAGGACAG-TGGCAT
62293460 TGTACGATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
42 1 0.03
43 35 0.92
44 2 0.05
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.26
Consensus pattern (43 bp):
CGATATATGTGTACAAGTAAGACCCTGTCTAGGACAGTGGCAT
Found at i:62300009 original size:79 final size:79
Alignment explanation
Indices: 62299913--62300066 Score: 184
Period size: 79 Copynumber: 1.9 Consensus size: 79
62299903 GTTCAAAACA
** **
62299913 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAACGCCTTCGGGACTTAACCCGGATATCA
1 CCTTCGGGACATAGCCCGAATATCATAACCCGCACAAACGCCTTCGGG-CTTAACCCGGATATCA
62299978 CAACTCGCACAATTG
65 CAACTCGCACAATTG
* * * ** * *
62299993 CCTTCGGG-CTTAGCCCGAATATCATAGCTCGCACAATTGCCTTCGGGCTTAGCCCGGATATTAC
1 CCTTCGGGACATAGCCCGAATATCATAACCCGCACAAACGCCTTCGGGCTTAACCCGGATATCAC
*
62300057 AATTCGCACA
66 AACTCGCACA
62300067 TTCATTCACA
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
78 24 0.39
79 30 0.48
80 8 0.13
ACGTcount: A:0.25, C:0.32, G:0.21, T:0.23
Consensus pattern (79 bp):
CCTTCGGGACATAGCCCGAATATCATAACCCGCACAAACGCCTTCGGGCTTAACCCGGATATCAC
AACTCGCACAATTG
Found at i:62300026 original size:39 final size:39
Alignment explanation
Indices: 62299943--62300066 Score: 167
Period size: 39 Copynumber: 3.2 Consensus size: 39
62299933 TATGGTAACC
** *
62299943 CGCACAAACGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* * *
62299983 CGCACAATTGCCTTCGGGCTTAGCCCGAATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
62300022 CGCACAATTGCCTTCGGGCTTAGCCCGGATATTACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
62300061 CGCACA
1 CGCACA
62300067 TTCATTCACA
Statistics
Matches: 73, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 57 0.78
40 16 0.22
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:62306461 original size:38 final size:35
Alignment explanation
Indices: 62306404--62306521 Score: 126
Period size: 31 Copynumber: 3.5 Consensus size: 35
62306394 TCAATCATGC
*
62306404 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTT-AT--T
*
62306443 ATTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
62306474 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
62306505 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
62306522 ACTGTAAACG
Statistics
Matches: 76, Mismatches: 3, Indels: 8
0.87 0.03 0.09
Matches are distributed among these distances:
31 48 0.63
33 2 0.03
34 1 0.01
36 1 0.01
38 14 0.18
39 10 0.13
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (35 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
Found at i:62306465 original size:31 final size:31
Alignment explanation
Indices: 62306427--62306521 Score: 172
Period size: 31 Copynumber: 3.1 Consensus size: 31
62306417 CCTTTTCATA
* *
62306427 TTTCATATTTCATAATATTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
62306458 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
62306489 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
62306520 TT
1 TT
62306522 ACTGTAAACG
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.40
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:62306764 original size:24 final size:24
Alignment explanation
Indices: 62306713--62306855 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
62306703 GCTTTATCAT
*
62306713 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
62306738 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
62306762 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
62306785 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
62306809 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
62306833 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
62306856 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:62306792 original size:47 final size:48
Alignment explanation
Indices: 62306713--62306854 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
62306703 GCTTTATCAT
* *
62306713 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
62306762 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
62306809 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
62306855 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 44 0.51
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:62306813 original size:71 final size:72
Alignment explanation
Indices: 62306712--62306855 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
62306702 TGCTTTATCA
*
62306712 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
62306777 GCCCTTT
66 GCCCTTT
* * **
62306784 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
62306847 AGCCCTTT
65 AGCCCTTT
62306855 T
1 T
62306856 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:62306931 original size:20 final size:20
Alignment explanation
Indices: 62306906--62306965 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
62306896 TATGATTACC
62306906 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
62306926 TCATGTGCATAGCATACATT
1 TCATGTGCATATCATACATA
62306946 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
62306966 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:62307040 original size:25 final size:25
Alignment explanation
Indices: 62307008--62307055 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
62306998 ATACATAAAC
* * *
62307008 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
62307033 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
62307056 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:62308597 original size:27 final size:27
Alignment explanation
Indices: 62308295--62308586 Score: 320
Period size: 27 Copynumber: 10.8 Consensus size: 27
62308285 AGGTATTTTA
* * *
62308295 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * *
62308322 GTAATTTTGTAAATCAAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * **
62308349 GTAATTTTGTAAATCAAGGGTAAAATA
1 GTAATTCTATAAATCGAGGGTAAAACG
62308376 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * *
62308403 ATAATTATGTAAATCTG-GGGTAAAATG
1 GTAATTCTATAAATC-GAGGGTAAAACG
* * *
62308430 GTAATTATGTAAAT-TAGGGGTAAAACG
1 GTAATTCTATAAATCGA-GGGTAAAACG
**
62308457 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTATAAATCGAGGGTAAAACG
*
62308484 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTATAAATC-GAGGGTAAAACG
62308511 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
62308538 GTAATTTTACAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
62308565 GTAATTCTATAAATCGAGGGTA
1 GTAATTCTATAAATCGAGGGTA
62308587 CTTTGGTAAT
Statistics
Matches: 232, Mismatches: 27, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
26 1 0.00
27 228 0.98
28 3 0.01
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:62308608 original size:27 final size:27
Alignment explanation
Indices: 62308510--62308814 Score: 242
Period size: 27 Copynumber: 11.3 Consensus size: 27
62308500 AGGGTAAAAC
* * ****
62308510 GGTAATTCTATAAATCGAGGGTAAAAC
1 GGTAATTTTACAAATCGAGGGTATTTT
****
62308537 GGTAATTTTACAAATCGAGGGTAAAAC
1 GGTAATTTTACAAATCGAGGGTATTTT
* * *
62308564 GGTAATTCTATAAATCGAGGGTACTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
* *
62308591 GGTAATTTTACAAGTCGAGGGTATTTC
1 GGTAATTTTACAAATCGAGGGTATTTT
** ** *
62308618 AATAATTTTACAGGTCGAGGGTATTTC
1 GGTAATTTTACAAATCGAGGGTATTTT
* * *
62308645 AGTAATTTCACAAAT-TAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
*
62308672 GGTAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
* *
62308699 GATAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
*
62308726 GGTAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
* * * *
62308753 GGTAATTTTATAAACCAATGGTATTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
* *
62308780 AGTAATTTTACAAAGC-AGGGTATTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
62308806 GGTAATTTT
1 GGTAATTTT
62308815 GTAAACCAAA
Statistics
Matches: 241, Mismatches: 34, Indels: 7
0.85 0.12 0.02
Matches are distributed among these distances:
26 18 0.07
27 221 0.92
28 2 0.01
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (27 bp):
GGTAATTTTACAAATCGAGGGTATTTT
Found at i:62308828 original size:26 final size:26
Alignment explanation
Indices: 62308664--62308831 Score: 174
Period size: 27 Copynumber: 6.3 Consensus size: 26
62308654 ACAAATTAGG
* *
62308664 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCA-A
* * *
62308691 GGTATTTTGATAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCA-A
* *
62308718 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCA-A
*
62308745 GGTATTTTGGTAATTTTATAAACCAA
1 GGTATTTTGGTAATTTTACAAACCAA
* * *
62308771 TGGTATTTTAGTAATTTTACAAAGCAG
1 -GGTATTTTGGTAATTTTACAAACCAA
**
62308798 GGTATTTTGGTAATTTTGTAAACCAA
1 GGTATTTTGGTAATTTTACAAACCAA
*
62308824 AGTATTTT
1 GGTATTTT
62308832 AAACATGGAT
Statistics
Matches: 125, Mismatches: 15, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
26 28 0.22
27 97 0.78
ACGTcount: A:0.32, C:0.07, G:0.19, T:0.42
Consensus pattern (26 bp):
GGTATTTTGGTAATTTTACAAACCAA
Found at i:62317270 original size:39 final size:39
Alignment explanation
Indices: 62317189--62317351 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
62317179 TATGGTAACC
** *
62317189 CGCACAAACGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
62317229 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
62317268 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
62317307 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
62317346 CGCACA
1 CGCACA
62317352 TTCATTCACA
Statistics
Matches: 115, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 99 0.86
40 16 0.14
ACGTcount: A:0.25, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:62325403 original size:8 final size:8
Alignment explanation
Indices: 62325376--62325411 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
62325366 GTAGCCCAAC
62325376 TTTCAGCT
1 TTTCAGCT
* *
62325384 TTTCGGCA
1 TTTCAGCT
62325392 TTTCAGCT
1 TTTCAGCT
62325400 TTTCAGCT
1 TTTCAGCT
62325408 TTTC
1 TTTC
62325412 GGGTATTTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.11, C:0.25, G:0.14, T:0.50
Consensus pattern (8 bp):
TTTCAGCT
Found at i:62325406 original size:24 final size:25
Alignment explanation
Indices: 62325376--62325427 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
62325366 GTAGCCCAAC
62325376 TTTCAGCTTTTC-GGCATTTCAGCT
1 TTTCAGCTTTTCGGGCATTTCAGCT
* *
62325400 TTTCAGCTTTTCGGGTATTTCTGCT
1 TTTCAGCTTTTCGGGCATTTCAGCT
62325425 TTT
1 TTT
62325428 GTCGAATCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 12 0.48
25 13 0.52
ACGTcount: A:0.10, C:0.21, G:0.17, T:0.52
Consensus pattern (25 bp):
TTTCAGCTTTTCGGGCATTTCAGCT
Found at i:62328194 original size:16 final size:15
Alignment explanation
Indices: 62328173--62328202 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
62328163 CGACAGTCCA
62328173 CTTTTCGGCTTTTTGG
1 CTTTTCGG-TTTTTGG
62328189 CTTTTCGGTTTTTG
1 CTTTTCGGTTTTTG
62328203 TTGTTTCACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.00, C:0.17, G:0.23, T:0.60
Consensus pattern (15 bp):
CTTTTCGGTTTTTGG
Found at i:62328966 original size:13 final size:13
Alignment explanation
Indices: 62328948--62328972 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
62328938 TCCCATACTT
62328948 ACACACATTATAG
1 ACACACATTATAG
62328961 ACACACATTATA
1 ACACACATTATA
62328973 ACATCAATTT
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:0.48, C:0.24, G:0.04, T:0.24
Consensus pattern (13 bp):
ACACACATTATAG
Found at i:62330680 original size:50 final size:50
Alignment explanation
Indices: 62330620--62330898 Score: 274
Period size: 50 Copynumber: 5.6 Consensus size: 50
62330610 TAAGCATAAG
* *
62330620 AGCCTACACTTAGTACTACACATGCGACCTATCAATCTGGTACATGTAGT
1 AGCCTACACTTAGTACTACACATGTGACCTATCAATCTGGTACACGTAGT
* * * * *
62330670 AGCCTACACTTAGTACTACACATGTGACTTAACCATCTGATACACGCAGT
1 AGCCTACACTTAGTACTACACATGTGACCTATCAATCTGGTACACGTAGT
* * ** * *
62330720 AGCCTGCACTTAGTACTACACACGTGATCAAAGTTAA-C-GTGTACACATAGT
1 AGCCTACACTTAGTACTACACATGTGA-CCTA-TCAATCTG-GTACACGTAGT
* *
62330771 AGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGT
1 AGCCTACACTTAGTACTACACATGTGACCTATCAATCTGGTACACGTAGT
* * ** * * * * * * *
62330821 GGTCTGTACTTAGTACTACAGACGTGGCTTAACCATCTGATACACGTAGT
1 AGCCTACACTTAGTACTACACATGTGACCTATCAATCTGGTACACGTAGT
*
62330871 AGCCTACACTTAGTACTACACACGTGAC
1 AGCCTACACTTAGTACTACACATGTGAC
62330899 TCACAACGGA
Statistics
Matches: 184, Mismatches: 40, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
49 3 0.02
50 143 0.78
51 37 0.20
52 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (50 bp):
AGCCTACACTTAGTACTACACATGTGACCTATCAATCTGGTACACGTAGT
Found at i:62330894 original size:151 final size:151
Alignment explanation
Indices: 62330620--62330897 Score: 457
Period size: 151 Copynumber: 1.8 Consensus size: 151
62330610 TAAGCATAAG
*
62330620 AGCCTACACTTAGTACTACACATGCGACCTATCAATCTGGTACATGTAGTAGCCTACACTTAGTA
1 AGCCTACACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCTACACTTAGTA
* *
62330685 CTACACATGTGACTTAACCATCTGATACACGCAGTAGCCTGCACTTAGTACTACACACGTGATCA
66 CTACACACGTGACTTAACCATCTGATACACGCAGTAGCCTACACTTAGTACTACACACGTGATCA
62330750 AAGTTAACGTGTACACATAGT
131 AAGTTAACGTGTACACATAGT
* * * **
62330771 AGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTGGTCTGTACTTAGTA
1 AGCCTACACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCTACACTTAGTA
* * *
62330836 CTACAGACGTGGCTTAACCATCTGATACACGTAGTAGCCTACACTTAGTACTACACACGTGA
66 CTACACACGTGACTTAACCATCTGATACACGCAGTAGCCTACACTTAGTACTACACACGTGA
62330898 CTCACAACGG
Statistics
Matches: 116, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
151 116 1.00
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (151 bp):
AGCCTACACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCTACACTTAGTA
CTACACACGTGACTTAACCATCTGATACACGCAGTAGCCTACACTTAGTACTACACACGTGATCA
AAGTTAACGTGTACACATAGT
Found at i:62335336 original size:38 final size:38
Alignment explanation
Indices: 62335293--62335404 Score: 127
Period size: 39 Copynumber: 2.9 Consensus size: 38
62335283 AAAATTTATG
62335293 TGGTATTATATCCGGGTTAAATCCCGCAGGCTTAATGC
1 TGGTATTATATCCGGGTTAAATCCCGCAGGCTTAATGC
* * * * *
62335331 TGGTATTATATCCGGACTTATAGT-CTGCAGGCCTAGTGC
1 TGGTATTATATCCGG-GTTA-AATCCCGCAGGCTTAATGC
*
62335370 TGGTAATAGATATCCGGGTTAAATCCCGCAGGCTT
1 TGGT-AT-TATATCCGGGTTAAATCCCGCAGGCTT
62335405 TGTGCTAGAA
Statistics
Matches: 59, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
38 15 0.25
39 21 0.36
40 15 0.25
41 8 0.14
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (38 bp):
TGGTATTATATCCGGGTTAAATCCCGCAGGCTTAATGC
Found at i:62342973 original size:27 final size:27
Alignment explanation
Indices: 62342943--62342994 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
62342933 TAGGCATAAA
62342943 ATAATAACAACAATCGTAGCCTATTCT
1 ATAATAACAACAATCGTAGCCTATTCT
62342970 ATAATAACAACAATCGTAGCCTATT
1 ATAATAACAACAATCGTAGCCTATT
62342995 TCGAAGTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (27 bp):
ATAATAACAACAATCGTAGCCTATTCT
Found at i:62344726 original size:40 final size:40
Alignment explanation
Indices: 62344681--62344810 Score: 156
Period size: 40 Copynumber: 3.2 Consensus size: 40
62344671 CGGAATACAA
62344681 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * * *
62344721 CCGGATAGAACAACTCGCAGGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * * *
62344761 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
62344801 CCGGATATAA
1 CCGGATATAA
62344811 TTTCCAGCAA
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.04
40 72 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:62346941 original size:40 final size:37
Alignment explanation
Indices: 62346824--62346941 Score: 103
Period size: 39 Copynumber: 3.0 Consensus size: 37
62346814 AAAATTTATG
* * *
62346824 TGGTATTATATCCGGGTTAAATCCCGTAGGCTTAATGC
1 TGGTATGATATCC-GGTTAAATCCCGCAGGCTTAGTGC
* * *
62346862 TGGTATTATATCCGGACTTATAGT-CCGCAGGCCTAGTGC
1 TGGTATGATATCCGG--TTA-AATCCCGCAGGCTTAGTGC
*
62346901 TGGTAATAGATATCCAGGTTAAATCCCGCAGGCTTTGTGC
1 TGGT-AT-GATATCC-GGTTAAATCCCGCAGGCTTAGTGC
62346941 T
1 T
62346942 AGAAATTGGA
Statistics
Matches: 65, Mismatches: 8, Indels: 12
0.76 0.09 0.14
Matches are distributed among these distances:
37 2 0.03
38 13 0.20
39 21 0.32
40 21 0.32
41 6 0.09
42 2 0.03
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (37 bp):
TGGTATGATATCCGGTTAAATCCCGCAGGCTTAGTGC
Found at i:62348761 original size:20 final size:20
Alignment explanation
Indices: 62348736--62348780 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
62348726 AGAACTATTA
62348736 GCGGCGTTTTCACAAGCGCT
1 GCGGCGTTTTCACAAGCGCT
62348756 GCGGCGTTTTCACAAGCGCT
1 GCGGCGTTTTCACAAGCGCT
62348776 GCGGC
1 GCGGC
62348781 ATTTATTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.13, C:0.31, G:0.33, T:0.22
Consensus pattern (20 bp):
GCGGCGTTTTCACAAGCGCT
Found at i:62348935 original size:43 final size:43
Alignment explanation
Indices: 62348793--62348940 Score: 170
Period size: 43 Copynumber: 3.4 Consensus size: 43
62348783 TTATTTAAAA
* * * *
62348793 AAACGCCGCTAAAGACCATGACTTTTAGCGGCGCTTTTTTCAC
1 AAACGCCGCTAAAAATCATGACATTTAGCGGCGCTTTTCTCAC
* * * * *
62348836 AAACGCCGCTAAAGAGCATGACCTTTAGCGACGCTTTTCCCAC
1 AAACGCCGCTAAAAATCATGACATTTAGCGGCGCTTTTCTCAC
* * *
62348879 AAACGCCACTAAAAATCTTGACATTTAGCGGCACTTTTCTCAC
1 AAACGCCGCTAAAAATCATGACATTTAGCGGCGCTTTTCTCAC
* *
62348922 AAATGTCGCTAAAAATCAT
1 AAACGCCGCTAAAAATCAT
62348941 AACCTTTAAA
Statistics
Matches: 88, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 88 1.00
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTAAAAATCATGACATTTAGCGGCGCTTTTCTCAC
Found at i:62350430 original size:15 final size:16
Alignment explanation
Indices: 62350404--62350434 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
62350394 TCTCTCTTGC
62350404 TTTTAGATCATATATA
1 TTTTAGATCATATATA
62350420 TTTTA-ATCATATATA
1 TTTTAGATCATATATA
62350435 AGACAAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (16 bp):
TTTTAGATCATATATA
Found at i:62355473 original size:18 final size:19
Alignment explanation
Indices: 62355447--62355490 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
62355437 CTAATCTCTA
62355447 TTTTATATTT-ATTTTTAT
1 TTTTATATTTCATTTTTAT
*
62355465 TTTTGTATTTCATTTTTAT
1 TTTTATATTTCATTTTTAT
62355484 TTGTTAT
1 TT-TTAT
62355491 CAATGTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 9 0.41
19 10 0.45
20 3 0.14
ACGTcount: A:0.18, C:0.02, G:0.05, T:0.75
Consensus pattern (19 bp):
TTTTATATTTCATTTTTAT
Found at i:62355500 original size:20 final size:20
Alignment explanation
Indices: 62355477--62355520 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
62355467 TTGTATTTCA
62355477 TTTTTATTT-GTTATCAATG
1 TTTTTATTTAGTTATCAATG
*
62355496 TTTTTATTTATTTATCAATG
1 TTTTTATTTAGTTATCAATG
62355516 TTTTT
1 TTTTT
62355521 TAAATCTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.20, C:0.05, G:0.07, T:0.68
Consensus pattern (20 bp):
TTTTTATTTAGTTATCAATG
Found at i:62356086 original size:7 final size:7
Alignment explanation
Indices: 62356074--62356223 Score: 88
Period size: 7 Copynumber: 21.1 Consensus size: 7
62356064 CACTAATTAA
62356074 CTAAACC
1 CTAAACC
62356081 CTAAACTC
1 CTAAAC-C
*
62356089 CTAATCC
1 CTAAACC
* *
62356096 TTAACCC
1 CTAAACC
62356103 CTAAACC
1 CTAAACC
*
62356110 ATAAACC
1 CTAAACC
*
62356117 CTAAATC
1 CTAAACC
*
62356124 CTAAAAC
1 CTAAACC
* *
62356131 ATAAACT
1 CTAAACC
* *
62356138 CTTAATC
1 CTAAACC
*
62356145 CTAGACCC
1 CTA-AACC
62356153 CT-AACC
1 CTAAACC
*
62356159 CTTAACC
1 CTAAACC
*
62356166 CTTAACC
1 CTAAACC
*
62356173 CATAACCC
1 C-TAAACC
62356181 CTAAACC
1 CTAAACC
*
62356188 TTAAACC
1 CTAAACC
62356195 CT-AACTC
1 CTAAAC-C
*
62356202 TTAAACC
1 CTAAACC
* *
62356209 ATAATCC
1 CTAAACC
62356216 CTAAACC
1 CTAAACC
62356223 C
1 C
62356224 ATAATCCATA
Statistics
Matches: 107, Mismatches: 30, Indels: 12
0.72 0.20 0.08
Matches are distributed among these distances:
6 8 0.07
7 81 0.76
8 18 0.17
ACGTcount: A:0.39, C:0.38, G:0.01, T:0.23
Consensus pattern (7 bp):
CTAAACC
Found at i:62356118 original size:14 final size:14
Alignment explanation
Indices: 62356075--62356305 Score: 58
Period size: 14 Copynumber: 16.2 Consensus size: 14
62356065 ACTAATTAAC
*
62356075 TAAACCCTAAACTCC
1 TAAACCCTAAAC-CA
* * * *
62356090 TAATCCTTAACCCC
1 TAAACCCTAAACCA
* *
62356104 TAAACCATAAACCC
1 TAAACCCTAAACCA
* *
62356118 TAAATCCTAAAACA
1 TAAACCCTAAACCA
* *
62356132 TAAACTCTTAATCC-
1 TAAAC-CCTAAACCA
* *
62356146 TAGACCCCT-AACCC
1 TA-AACCCTAAACCA
* *
62356160 TTAACCCTTAACCCA
1 TAAACCC-TAAACCA
* *
62356175 TAACCCCTAAACCT
1 TAAACCCTAAACCA
*
62356189 TAAACCCT-AACTCT
1 TAAACCCTAAAC-CA
* * *
62356203 TAAACCATAATCCC
1 TAAACCCTAAACCA
*
62356217 TAAACCCATAATCCA
1 TAAACCC-TAAACCA
* *
62356232 TAAAACTTAAA--A
1 TAAACCCTAAACCA
* * *
62356244 TAGTTACTCATAAACCT
1 TA--AAC-CCTAAACCA
*
62356261 TAAACCCTTAACCA
1 TAAACCCTAAACCA
** *
62356275 TATGCCCTAAACCG
1 TAAACCCTAAACCA
*
62356289 TAAACCCTAAACTA
1 TAAACCCTAAACCA
62356303 TAA
1 TAA
62356306 TGATAATTAA
Statistics
Matches: 153, Mismatches: 50, Indels: 27
0.67 0.22 0.12
Matches are distributed among these distances:
12 3 0.02
13 10 0.07
14 94 0.61
15 44 0.29
17 2 0.01
ACGTcount: A:0.41, C:0.33, G:0.02, T:0.24
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:62356276 original size:21 final size:21
Alignment explanation
Indices: 62356094--62356287 Score: 65
Period size: 21 Copynumber: 9.0 Consensus size: 21
62356084 AACTCCTAAT
* *
62356094 CCTTAACCCCTAAACCATAAAC
1 CCTTAA-CCATAAACCCTAAAC
* * *
62356116 CCTAAATCC-TAAAACATAAAC
1 CCTTAA-CCATAAACCCTAAAC
* *
62356137 TCTTAATCC-TAGACCCCT-AAC
1 CCTTAA-CCATA-AACCCTAAAC
* * *
62356158 CCTTAACCCTTAACCCATAACC
1 CCTTAACCATAAACCC-TAAAC
* *
62356180 CCTAAACCTTAAACCCT-AAC
1 CCTTAACCATAAACCCTAAAC
* *
62356200 TCTTAAACCATAATCCCTAAAC
1 CCTT-AACCATAAACCCTAAAC
* * * *
62356222 CCATAATCCATAAAACTTAAAAT
1 CCTTAA-CCATAAACCCT-AAAC
** *
62356245 AGTT-ACTCATAAACCTTAAAC
1 CCTTAAC-CATAAACCCTAAAC
**
62356266 CCTTAACCATATGCCCTAAAC
1 CCTTAACCATAAACCCTAAAC
62356287 C
1 C
62356288 GTAAACCCTA
Statistics
Matches: 126, Mismatches: 36, Indels: 21
0.69 0.20 0.11
Matches are distributed among these distances:
20 10 0.08
21 62 0.49
22 50 0.40
23 4 0.03
ACGTcount: A:0.40, C:0.35, G:0.02, T:0.24
Consensus pattern (21 bp):
CCTTAACCATAAACCCTAAAC
Found at i:62356699 original size:41 final size:41
Alignment explanation
Indices: 62356538--62356715 Score: 207
Period size: 41 Copynumber: 4.4 Consensus size: 41
62356528 GTTATATGAC
* * *
62356538 TTTTAGCGGCATTTTACAGAAAGTGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTAGT
** * *
62356579 TTTTAATGGCGTTTTACAGAAAGTGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTAGT
** * *
62356620 TTTTAATGGCGTTTTACCGAAAGCGCTGCTAATGCTCTAGT
1 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTAGT
* *
62356661 TTTTAGCGGTGTTTTATC-GAAAGCGCCGCTATTGCTCTA-T
1 TTTTAGCGGCGTTTTA-CAGAAAGCGCCGCTAATGCTCTAGT
*
62356701 TTTTAGCGGTGTTTT
1 TTTTAGCGGCGTTTT
62356716 TTTTGCTAAA
Statistics
Matches: 124, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
40 16 0.13
41 107 0.86
42 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.39
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTAGT
Found at i:62357053 original size:15 final size:15
Alignment explanation
Indices: 62357033--62357071 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
62357023 AACTAGGATC
*
62357033 TCCAAGATAGGGAAA
1 TCCAAGATAAGGAAA
62357048 TCCAAGATAAGGAAA
1 TCCAAGATAAGGAAA
62357063 TCCAAGATA
1 TCCAAGATA
62357072 CAATATTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.49, C:0.15, G:0.21, T:0.15
Consensus pattern (15 bp):
TCCAAGATAAGGAAA
Done.