Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 189 of 211
Found at i:56066258 original size:21 final size:21
Alignment explanation
Indices: 56066233--56066310 Score: 90
Period size: 21 Copynumber: 3.7 Consensus size: 21
56066223 ATCTTCGAGG
56066233 ATATGTAATCTTAGATATGAT
1 ATATGTAATCTTAGATATGAT
*
56066254 ATATGCAATCTTAGATATG--
1 ATATGTAATCTTAGATATGAT
56066273 ATATGTAATCTTAGAAGATATGAT
1 ATATGTAATCTT---AGATATGAT
*
56066297 -TTTGTAATCTTAGA
1 ATATGTAATCTTAGA
56066311 GATTTAATTT
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
19 11 0.22
20 3 0.06
21 18 0.37
22 7 0.14
23 10 0.20
ACGTcount: A:0.37, C:0.06, G:0.15, T:0.41
Consensus pattern (21 bp):
ATATGTAATCTTAGATATGAT
Found at i:56066306 original size:23 final size:22
Alignment explanation
Indices: 56066232--56066310 Score: 78
Period size: 19 Copynumber: 3.7 Consensus size: 22
56066222 AATCTTCGAG
*
56066232 GATATGTAATCTTAG-ATATGAT
1 GATATGTAATCTTAGAAGAT-AT
*
56066254 -ATATGCAATCTT---AGATAT
1 GATATGTAATCTTAGAAGATAT
56066272 GATATGTAATCTTAGAAGATAT
1 GATATGTAATCTTAGAAGATAT
*
56066294 GATTTTGTAATCTTAGA
1 GA-TATGTAATCTTAGA
56066311 GATTTAATTT
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
18 2 0.04
19 14 0.29
21 11 0.23
22 8 0.17
23 13 0.27
ACGTcount: A:0.37, C:0.06, G:0.16, T:0.41
Consensus pattern (22 bp):
GATATGTAATCTTAGAAGATAT
Found at i:56066322 original size:23 final size:23
Alignment explanation
Indices: 56066276--56066321 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
56066266 AGATATGATA
*
56066276 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
56066299 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
56066321 T
1 T
56066322 TAGATACCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.33, C:0.04, G:0.15, T:0.48
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:56066507 original size:15 final size:16
Alignment explanation
Indices: 56066487--56066520 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
56066477 TAGCTTACTA
*
56066487 TTTTTTTCTTT-CGAT
1 TTTTTTTATTTACGAT
56066502 TTTTTTTATTTACGAT
1 TTTTTTTATTTACGAT
56066518 TTT
1 TTT
56066521 AAAAAAGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.12, C:0.09, G:0.06, T:0.74
Consensus pattern (16 bp):
TTTTTTTATTTACGAT
Found at i:56066934 original size:18 final size:18
Alignment explanation
Indices: 56066913--56066965 Score: 63
Period size: 20 Copynumber: 2.9 Consensus size: 18
56066903 TATATGTACG
*
56066913 TCTATATATATTATACTT
1 TCTATATATATTATAATT
*
56066931 TCTATACATATTTTATAATT
1 TCTAT--ATATATTATAATT
56066951 TCTATATATA-TATAA
1 TCTATATATATTATAA
56066966 AATCATTATC
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
17 5 0.17
18 9 0.30
20 16 0.53
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (18 bp):
TCTATATATATTATAATT
Found at i:56066941 original size:20 final size:20
Alignment explanation
Indices: 56066918--56066963 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
56066908 GTACGTCTAT
*
56066918 ATATATTATACTTTCTATAC
1 ATATATTATAATTTCTATAC
* *
56066938 ATATTTTATAATTTCTATAT
1 ATATATTATAATTTCTATAC
56066958 ATATAT
1 ATATAT
56066964 AAAATCATTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.54
Consensus pattern (20 bp):
ATATATTATAATTTCTATAC
Found at i:56066974 original size:102 final size:104
Alignment explanation
Indices: 56066868--56067067 Score: 323
Period size: 104 Copynumber: 1.9 Consensus size: 104
56066858 ATATGTAATT
* * *
56066868 ATTATTTTTATGATTTATATATTTATT-ACCT-TATATATATGTACGTCTATATATATTATACTT
1 ATTATCTTTATGATCTATATATTTATTAACCTATATATATATGTACGTATATATATATTATACTT
56066931 TCTATACATATTTTATAATTTCTATATATATATAAAATC
66 TCTATACATATTTTATAATTTCTATATATATATAAAATC
* *
56066970 ATTATCTTTATGATCTATATATTTATTAACTTATATATATATGTACGTATATATGTATTATACTT
1 ATTATCTTTATGATCTATATATTTATTAACCTATATATATATGTACGTATATATATATTATACTT
* *
56067035 TCTATCCATATTTTATAATTTCTATATGTATAT
66 TCTATACATATTTTATAATTTCTATATATATAT
56067068 TTTTCTTTAT
Statistics
Matches: 89, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
102 25 0.28
103 3 0.03
104 61 0.69
ACGTcount: A:0.34, C:0.09, G:0.04, T:0.53
Consensus pattern (104 bp):
ATTATCTTTATGATCTATATATTTATTAACCTATATATATATGTACGTATATATATATTATACTT
TCTATACATATTTTATAATTTCTATATATATATAAAATC
Found at i:56078589 original size:48 final size:47
Alignment explanation
Indices: 56078510--56078664 Score: 143
Period size: 47 Copynumber: 3.3 Consensus size: 47
56078500 ACAGCAGCAA
* * * * *
56078510 CAACATTCGGACAGCATTGATTTG-TACAAAAATGAACAGCATTTAAG
1 CAACATTCAGACAACATTAATATGCTA-AAAAATGAACAGCATTTAAC
* ** * *
56078557 CACCAATTTGGACAACATTAATATGCTAAAAAACGGACAGCATTTAAC
1 CAAC-ATTCAGACAACATTAATATGCTAAAAAATGAACAGCATTTAAC
* * *
56078605 CAACATTCAGACAACATTAGTATGCTAAAAAAT-AGACAGCATCTAAA
1 CAACATTCAGACAACATTAATATGCTAAAAAATGA-ACAGCATTTAAC
*
56078652 CAACATTCGGACA
1 CAACATTCAGACA
56078665 GCACCTTGTT
Statistics
Matches: 88, Mismatches: 17, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
47 50 0.57
48 36 0.41
49 2 0.02
ACGTcount: A:0.44, C:0.20, G:0.14, T:0.23
Consensus pattern (47 bp):
CAACATTCAGACAACATTAATATGCTAAAAAATGAACAGCATTTAAC
Found at i:56079322 original size:43 final size:42
Alignment explanation
Indices: 56079246--56079371 Score: 155
Period size: 43 Copynumber: 3.0 Consensus size: 42
56079236 GAAACACATA
* * *
56079246 TATCACATA-CAATGCCATATCCCAGATATGGTCTTACATGT
1 TATCACATATCGATGCCATATCCCAGACATGGTCTTACACGT
* *
56079287 TATCACATATCGATGCCACTATCCTAGACAGGGTCTTACACGT
1 TATCACATATCGATGCCA-TATCCCAGACATGGTCTTACACGT
* * *
56079330 AATCTCATATCGATGCCAATGTCCCAGACATGGTCTTACACG
1 TATCACATATCGATGCC-ATATCCCAGACATGGTCTTACACG
56079372 AAATCATTCC
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
41 9 0.12
42 7 0.10
43 55 0.76
44 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (42 bp):
TATCACATATCGATGCCATATCCCAGACATGGTCTTACACGT
Found at i:56081163 original size:41 final size:41
Alignment explanation
Indices: 56081082--56081227 Score: 204
Period size: 41 Copynumber: 3.5 Consensus size: 41
56081072 TTTAACATAT
* *
56081082 TCACCGGCACTTAGCCTGCTAAGCTTTATAGCCTGATTCAGA
1 TCACCGACACTTAGCCTGCT-AGGTTTATAGCCTGATTCAGA
*
56081124 TCACCGACACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGACACTTAGCCTGCTAGGTTTATAGCCTGATTCAGA
* * *
56081165 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGTTTCAGA
1 TCACCGACACTTAGCCTGCTAGGTTTATAGCCTGATTCAGA
*
56081206 TCACC-AGCACTTAGCCTACTAG
1 TCACCGA-CACTTAGCCTGCTAG
56081228 ACTTAAAGTC
Statistics
Matches: 94, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
41 75 0.80
42 19 0.20
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (41 bp):
TCACCGACACTTAGCCTGCTAGGTTTATAGCCTGATTCAGA
Found at i:56081778 original size:12 final size:12
Alignment explanation
Indices: 56081750--56081782 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
56081740 AACTCATCAA
56081750 ATATACA-ATAG
1 ATATACATATAG
*
56081761 ATATACATATAT
1 ATATACATATAG
56081773 ATATACATAT
1 ATATACATAT
56081783 TCAAACTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 7 0.35
12 13 0.65
ACGTcount: A:0.52, C:0.09, G:0.03, T:0.36
Consensus pattern (12 bp):
ATATACATATAG
Found at i:56081925 original size:222 final size:222
Alignment explanation
Indices: 56081573--56082109 Score: 1011
Period size: 222 Copynumber: 2.4 Consensus size: 222
56081563 ACCTCACACA
* *
56081573 TATGCATATGTATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATC
1 TATGCATATATATAACATTCATACTTAACTAATTTCAATTTATATACTTTTAATTATAGCTCATC
56081638 AAATATACAATAGATATACATATATATACATATTCGAACTTCATTTATGCATATATATAACATTC
66 AAATATACAATAGATATACATATATATACATATTCGAACTTCATTTATGCATATATATAACATTC
* *
56081703 ATGCTTAACTAATTTCAATTCATATACTTTTAATTATAACTCATCAAATATACAATAGATATACA
131 ATACTTAACTAATTTCAATTCATATACTTTTAATTATAACTCATCAAATATACAATACATATACA
*
56081768 TATATATATACATATTCAAACTTTATT
196 TATATATATACATATTCAAACTTCATT
56081795 TATGCATATATATAACATTCATACTTAACTAATTTCAATTTATATACTTTTAATTATAGCTCATC
1 TATGCATATATATAACATTCATACTTAACTAATTTCAATTTATATACTTTTAATTATAGCTCATC
*
56081860 AAATATACAATACATATACATATATATACATATTCGAACTTCATTTATGCATATATATAACATTC
66 AAATATACAATAGATATACATATATATACATATTCGAACTTCATTTATGCATATATATAACATTC
56081925 ATACTTAACTAATTTCAATTCATATACTTTTAATTATAACTCATCAAATATACAATACATATACA
131 ATACTTAACTAATTTCAATTCATATACTTTTAATTATAACTCATCAAATATACAATACATATACA
*
56081990 TATATATATACATATTCGAACTTCATT
196 TATATATATACATATTCAAACTTCATT
56082017 TATGCATATATATAACATTCATACTTAACTAATTTCAATTTATATACTTTTAATTATAGCTCATC
1 TATGCATATATATAACATTCATACTTAACTAATTTCAATTTATATACTTTTAATTATAGCTCATC
56082082 AAATATACAATAGATATACATATATATA
66 AAATATACAATAGATATACATATATATA
56082110 TGTGCTGATT
Statistics
Matches: 307, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
222 307 1.00
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.41
Consensus pattern (222 bp):
TATGCATATATATAACATTCATACTTAACTAATTTCAATTTATATACTTTTAATTATAGCTCATC
AAATATACAATAGATATACATATATATACATATTCGAACTTCATTTATGCATATATATAACATTC
ATACTTAACTAATTTCAATTCATATACTTTTAATTATAACTCATCAAATATACAATACATATACA
TATATATATACATATTCAAACTTCATT
Found at i:56081990 original size:6 final size:6
Alignment explanation
Indices: 56081972--56082004 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
56081962 AACTCATCAA
*
56081972 ATATAC A-ATAC ATATAC ATATAT ATATAC ATAT
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATAT
56082005 TCGAACTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (6 bp):
ATATAC
Found at i:56082110 original size:112 final size:112
Alignment explanation
Indices: 56081573--56082110 Score: 958
Period size: 112 Copynumber: 4.8 Consensus size: 112
56081563 ACCTCACACA
*
56081573 TATGCATATGTATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATC
1 TATGCATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATC
56081638 AAATATACAATAGATATAC--ATATATATACATATTCGAACTTCATT
66 AAATATACAATAGATATACATATATATATACATATTCGAACTTCATT
* *
56081683 TATGCATATATATAACATTCATGCTTAACTAATTTCAATTCATATACTTTTAATTATAACTCATC
1 TATGCATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATC
* *
56081748 AAATATACAATAGATATACATATATATATACATATTCAAACTTTATT
66 AAATATACAATAGATATACATATATATATACATATTCGAACTTCATT
*
56081795 TATGCATATATATAACATTCATACTTAACTAATTTCAATTTATATACTTTTAATTATAGCTCATC
1 TATGCATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATC
*
56081860 AAATATACAATACATATAC--ATATATATACATATTCGAACTTCATT
66 AAATATACAATAGATATACATATATATATACATATTCGAACTTCATT
*
56081905 TATGCATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAACTCATC
1 TATGCATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATC
*
56081970 AAATATACAATACATATACATATATATATACATATTCGAACTTCATT
66 AAATATACAATAGATATACATATATATATACATATTCGAACTTCATT
*
56082017 TATGCATATATATAACATTCATACTTAACTAATTTCAATTTATATACTTTTAATTATAGCTCATC
1 TATGCATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATC
56082082 AAATATACAATAGATATACATATATATAT
66 AAATATACAATAGATATACATATATATAT
56082111 GTGCTGATTT
Statistics
Matches: 408, Mismatches: 16, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
110 187 0.46
112 221 0.54
ACGTcount: A:0.41, C:0.15, G:0.03, T:0.41
Consensus pattern (112 bp):
TATGCATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATC
AAATATACAATAGATATACATATATATATACATATTCGAACTTCATT
Found at i:56088400 original size:41 final size:41
Alignment explanation
Indices: 56088327--56088464 Score: 195
Period size: 41 Copynumber: 3.3 Consensus size: 41
56088317 ATTCACCGGT
*
56088327 ACTTAGCCTGCTAAGCTTTATAGCCTGATTCAGATCACCGAC
1 ACTTAGCCTGCT-AGGTTTATAGCCTGATTCAGATCACCGAC
* *
56088369 ACTTAGCCTGCTAGGTTTATAACCTGATTCAGATCACCGGC
1 ACTTAGCCTGCTAGGTTTATAGCCTGATTCAGATCACCGAC
* * * *
56088410 ACTTAGCCTGCTAGGCTTATAGCCTGTTTTAGATCACCAAC
1 ACTTAGCCTGCTAGGTTTATAGCCTGATTCAGATCACCGAC
*
56088451 ACTTAGCCTACTAG
1 ACTTAGCCTGCTAG
56088465 ACTTAAAGTC
Statistics
Matches: 86, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
41 74 0.86
42 12 0.14
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (41 bp):
ACTTAGCCTGCTAGGTTTATAGCCTGATTCAGATCACCGAC
Found at i:56088903 original size:12 final size:12
Alignment explanation
Indices: 56088875--56088907 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
56088865 AGCTCATCAA
56088875 ATATACA-ATAG
1 ATATACATATAG
*
56088886 ATATACATATAT
1 ATATACATATAG
56088898 ATATACATAT
1 ATATACATAT
56088908 TCGAACTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 7 0.35
12 13 0.65
ACGTcount: A:0.52, C:0.09, G:0.03, T:0.36
Consensus pattern (12 bp):
ATATACATATAG
Found at i:56088927 original size:112 final size:112
Alignment explanation
Indices: 56088808--56089246 Score: 743
Period size: 112 Copynumber: 3.8 Consensus size: 112
56088798 ACCTCACACA
* *
56088808 TATGCATATGTATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATC
1 TATGCATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAACTCATC
*
56088873 AAATATACAATAGATATACATATATATATACATATTCGAACTTCATT
66 AAATATACAATACATATACATATATATATACATATTCGAACTTCATT
56088920 TATGCATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAACTCATC
1 TATGCATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAACTCATC
*
56088985 AAATATACAATAGATATACATATATATATATATATATACATATTCGAACTTCATT
66 AAATATAC-----A-ATAC--ATATACATATATATATACATATTCGAACTTCATT
* *
56089040 TATGCATATATATAACATTCATACTTAACTAATTTCAATTTATATACTTTTAATTATAGCTCATC
1 TATGCATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAACTCATC
*
56089105 AAATATACAATACATATACATATATCTATACATATTCGAACTTCATT
66 AAATATACAATACATATACATATATATATACATATTCGAACTTCATT
56089152 TATGCATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAACTCATC
1 TATGCATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAACTCATC
56089217 AAATATACAATACATATACATATATATATA
66 AAATATACAATACATATACATATATATATA
56089247 TATGTGCTGA
Statistics
Matches: 308, Mismatches: 11, Indels: 16
0.92 0.03 0.05
Matches are distributed among these distances:
112 195 0.63
114 4 0.01
115 1 0.00
117 1 0.00
118 3 0.01
120 104 0.34
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.41
Consensus pattern (112 bp):
TATGCATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAACTCATC
AAATATACAATACATATACATATATATATACATATTCGAACTTCATT
Found at i:56089028 original size:120 final size:119
Alignment explanation
Indices: 56088886--56089249 Score: 616
Period size: 120 Copynumber: 3.1 Consensus size: 119
56088876 TATACAATAG
56088886 ATATACATATATATATACATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAACTA
1 ATATACATATATATATACATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAACTA
56088951 ATTTCAATTCATATACTTTTAATTATAACTCATCAAATATACAATAGATATACAT
66 ATTTCAATTCATATACTTTTAATTATAACTCATCAAATATACAATA-ATATACAT
*
56089006 ATATATATATATATATACATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAACTA
1 ATATACATATATATATACATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAACTA
* *
56089071 ATTTCAATTTATATACTTTTAATTATAGCTCATCAAATATAC----A-ATAC--
66 ATTTCAATTCATATACTTTTAATTATAACTCATCAAATATACAATAATATACAT
*
56089118 ATATACATATATCTATACATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAACTA
1 ATATACATATATATATACATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAACTA
56089183 ATTTCAATTCATATACTTTTAATTATAACTCATCAAATATACAATACATATACAT
66 ATTTCAATTCATATACTTTTAATTATAACTCATCAAATATACAATA-ATATACAT
*
56089238 ATATATATATAT
1 ATATACATATAT
56089250 GTGCTGATTT
Statistics
Matches: 228, Mismatches: 8, Indels: 16
0.90 0.03 0.06
Matches are distributed among these distances:
112 103 0.45
114 4 0.02
115 1 0.00
117 1 0.00
118 4 0.02
120 115 0.50
ACGTcount: A:0.42, C:0.15, G:0.02, T:0.41
Consensus pattern (119 bp):
ATATACATATATATATACATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAACTA
ATTTCAATTCATATACTTTTAATTATAACTCATCAAATATACAATAATATACAT
Found at i:56089056 original size:232 final size:232
Alignment explanation
Indices: 56088808--56089249 Score: 839
Period size: 232 Copynumber: 1.9 Consensus size: 232
56088798 ACCTCACACA
*
56088808 TATGCATATGTATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATC
1 TATGCATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATC
*
56088873 AAATATACAATAGATATACATATATATATACATATTCGAACTTCATTTATGCATATATATAACAT
66 AAATATACAATACATATACATATATATATACATATTCGAACTTCATTTATGCATATATATAACAT
*
56088938 TCATACTTAACTAATTTCAATTCATATACTTTTAATTATAACTCATCAAATATACAATAGATATA
131 TCATACTTAACTAATTTCAATTCATATACTTTTAATTATAACTCATCAAATATACAATACATATA
56089003 CATATATATATATATATATACATATTCGAACTTCATT
196 CATATATATATATATATATACATATTCGAACTTCATT
*
56089040 TATGCATATATATAACATTCATACTTAACTAATTTCAATTTATATACTTTTAATTATAGCTCATC
1 TATGCATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATC
*
56089105 AAATATACAATACATATACATATATCTATACATATTCGAACTTCATTTATGCATATATATAACAT
66 AAATATACAATACATATACATATATATATACATATTCGAACTTCATTTATGCATATATATAACAT
56089170 TCATACTTAACTAATTTCAATTCATATACTTTTAATTATAACTCATCAAATATACAATACATATA
131 TCATACTTAACTAATTTCAATTCATATACTTTTAATTATAACTCATCAAATATACAATACATATA
56089235 CATATATATATATAT
196 CATATATATATATAT
56089250 GTGCTGATTT
Statistics
Matches: 205, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
232 205 1.00
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.41
Consensus pattern (232 bp):
TATGCATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATC
AAATATACAATACATATACATATATATATACATATTCGAACTTCATTTATGCATATATATAACAT
TCATACTTAACTAATTTCAATTCATATACTTTTAATTATAACTCATCAAATATACAATACATATA
CATATATATATATATATATACATATTCGAACTTCATT
Found at i:56089758 original size:14 final size:15
Alignment explanation
Indices: 56089739--56089767 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
56089729 GCACGAAATT
56089739 TTCACAC-TAATAAA
1 TTCACACATAATAAA
56089753 TTCACACATAATAAA
1 TTCACACATAATAAA
56089768 CAAAAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:56102088 original size:9 final size:9
Alignment explanation
Indices: 56102074--56102116 Score: 50
Period size: 9 Copynumber: 4.4 Consensus size: 9
56102064 TCATGAATGG
56102074 AAAAGAAGA
1 AAAAGAAGA
56102083 AAAAGAAGA
1 AAAAGAAGA
*
56102092 AGAAGAAGTA
1 AAAAGAAG-A
56102102 GAAGAAGAAGA
1 -AA-AAGAAGA
56102113 AAAA
1 AAAA
56102117 AAACTAAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
9 18 0.62
10 3 0.10
11 2 0.07
12 6 0.21
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.02
Consensus pattern (9 bp):
AAAAGAAGA
Found at i:56102091 original size:3 final size:3
Alignment explanation
Indices: 56102076--56102113 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
56102066 ATGAATGGAA
* *
56102076 AAG AAG AAA AAG AAG AAG AAG AAG TAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
56102114 AAAAAACTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.03
Consensus pattern (3 bp):
AAG
Found at i:56102523 original size:25 final size:25
Alignment explanation
Indices: 56102493--56102563 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 25
56102483 CTTTTCTTAA
56102493 ACTTTTGATTTTTAATATTTT-AAAT
1 ACTTTT-ATTTTTAATATTTTAAAAT
*
56102518 ACTTTT-TTTTGAATATTTTTAAAAT
1 ACTTTTATTTTTAATA-TTTTAAAAT
* *
56102543 AATTTTATTTCTTAAAATTTT
1 ACTTTTATTT-TTAATATTTT
56102564 GATAATATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
23 8 0.21
24 4 0.11
25 15 0.39
26 7 0.18
27 4 0.11
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.61
Consensus pattern (25 bp):
ACTTTTATTTTTAATATTTTAAAAT
Found at i:56102526 original size:67 final size:65
Alignment explanation
Indices: 56102431--56102566 Score: 157
Period size: 67 Copynumber: 2.0 Consensus size: 65
56102421 TTTTTCTTCA
* * * *
56102431 GATTTTCAAATTTTAAATATTCTATTTTTTAAATTTTTTTGAAATAGTTATACTTTTCTTAAACT
1 GATTTTCAAATTTTAAATA-TCTATTTTTTAAATATTTTTAAAATAATTATA--TTTCTTAAAAT
56102496 TTT
63 TTT
* * * *
56102499 GATTTTTAATATTTTAAATA-CTTTTTTTTGAATATTTTTAAAATAATTTTATTTCTTAAAATTT
1 GATTTTCAA-ATTTTAAATATCTATTTTTTAAATATTTTTAAAATAATTATATTTCTTAAAATTT
56102563 T
65 T
56102564 GAT
1 GAT
56102567 AATATTTTAG
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
65 16 0.27
67 25 0.42
68 8 0.14
69 10 0.17
ACGTcount: A:0.32, C:0.05, G:0.04, T:0.58
Consensus pattern (65 bp):
GATTTTCAAATTTTAAATATCTATTTTTTAAATATTTTTAAAATAATTATATTTCTTAAAATTTT
Found at i:56104919 original size:33 final size:33
Alignment explanation
Indices: 56104870--56104946 Score: 88
Period size: 33 Copynumber: 2.3 Consensus size: 33
56104860 GGCTCCCAAG
56104870 TAGCTTGAGCTTAGTATCATTT-AGCTCAAATGA
1 TAGCTTGAGCTTAGTAT-ATTTCAGCTCAAATGA
* *
56104903 TAGCTTGAG-TTGAGTATTTTTCAGCTCCAATGA
1 TAGCTTGAGCTT-AGTATATTTCAGCTCAAATGA
56104936 TAG-TTCGAGCT
1 TAGCTT-GAGCT
56104947 CAGCTCAACA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
32 7 0.18
33 30 0.79
34 1 0.03
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.38
Consensus pattern (33 bp):
TAGCTTGAGCTTAGTATATTTCAGCTCAAATGA
Found at i:56106690 original size:25 final size:23
Alignment explanation
Indices: 56106662--56106707 Score: 56
Period size: 25 Copynumber: 1.9 Consensus size: 23
56106652 GCATTATTAA
*
56106662 GATAATTAATCCTGTTTTATAATAC
1 GATAATTAAACC--TTTTATAATAC
*
56106687 GATATTTAAACCTTTTATAAT
1 GATAATTAAACCTTTTATAAT
56106708 CAAGGTCTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 9 0.47
25 10 0.53
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.46
Consensus pattern (23 bp):
GATAATTAAACCTTTTATAATAC
Found at i:56108553 original size:40 final size:38
Alignment explanation
Indices: 56108489--56108613 Score: 144
Period size: 40 Copynumber: 3.2 Consensus size: 38
56108479 CGTTTGGATA
56108489 AAAAAAGCCACTAAAAATCAAGCATTAGCGGCGCTTTTAC
1 AAAAAAGCCACTAAAAATC-AGCATTAGCGGCGCTTTT-C
* * *
56108529 AAAAATGCCACTAAAGATCGAGCATTAGCGGCGCATTTTG
1 AAAAAAGCCACTAAAAATC-AGCATTAGCGGCGC-TTTTC
* * *
56108569 GAAAACGCCGCTAAAAATCAGCATTAGCGGCG-TTTTC
1 AAAAAAGCCACTAAAAATCAGCATTAGCGGCGCTTTTC
*
56108606 TAAAAAGC
1 AAAAAAGC
56108614 GACGCAAAAA
Statistics
Matches: 73, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
37 10 0.14
39 13 0.18
40 46 0.63
41 4 0.05
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.21
Consensus pattern (38 bp):
AAAAAAGCCACTAAAAATCAGCATTAGCGGCGCTTTTC
Found at i:56108721 original size:41 final size:41
Alignment explanation
Indices: 56108664--56108818 Score: 231
Period size: 41 Copynumber: 3.8 Consensus size: 41
56108654 TTTGGGGGCA
* **
56108664 TTTAGCGGCTTTTTTGAAAAAGCGCCGCTAGCGCTCGTACC
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGTACC
*
56108705 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATACTCGTACC
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGTACC
* *
56108746 TTTAGCGGCGTTTTGGAAAAAGCGCCGCTAATGCTC-TGGCC
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGT-ACC
*
56108787 TTTAGCGGCGTTTTTGAAAAAGCGGCGCTAAT
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAAT
56108819 AATAAAATCT
Statistics
Matches: 104, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
40 1 0.01
41 103 0.99
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.29
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGTACC
Found at i:56109938 original size:6 final size:7
Alignment explanation
Indices: 56109914--56109973 Score: 59
Period size: 7 Copynumber: 8.7 Consensus size: 7
56109904 ACAGTTTTGA
56109914 GTTTAGG
1 GTTTAGG
56109921 GTTTAGG
1 GTTTAGG
56109928 GTTTA-G
1 GTTTAGG
56109934 GTTTAGG
1 GTTTAGG
* *
56109941 GCTTGGG
1 GTTTAGG
* *
56109948 GATTGGG
1 GTTTAGG
*
56109955 GTTTAAG
1 GTTTAGG
*
56109962 GTTTAGA
1 GTTTAGG
56109969 GTTTA
1 GTTTA
56109974 CATTTTAGTG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
6 6 0.14
7 38 0.86
ACGTcount: A:0.17, C:0.02, G:0.40, T:0.42
Consensus pattern (7 bp):
GTTTAGG
Found at i:56111750 original size:114 final size:113
Alignment explanation
Indices: 56111551--56111763 Score: 311
Period size: 114 Copynumber: 1.9 Consensus size: 113
56111541 AAAAAAAGCA
* * *
56111551 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCTTT
1 TTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAACATAAGCCCAACGACGCCATTTTCTAAGCTTT
* *
56111616 CGGGGATTTTGCGGCGTTTTTAA-GAAAGCGCCGCTAATGCTCGGGGTT
66 CGGGGATCTAGCGGCGTTTTTAAGGAAA-CGCCGCTAATGCTCGGGGTT
* * * * *
56111664 TTAGCGGCATTTTTGGGAAAGCGCCGCAAAAAAACATAAGCCCAACGATGTCGTTTTTTAAGCTT
1 TTAGCGGCATTTTTGAGAAAGCGCCGC-AAAAAACATAAGCCCAACGACGCCATTTTCTAAGCTT
56111729 TCGGGGATCTAGCGGCGTTTTTAAGGAAACGCCGC
65 TCGGGGATCTAGCGGCGTTTTTAAGGAAACGCCGC
56111764 AAAAAATAAT
Statistics
Matches: 88, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
113 25 0.28
114 59 0.67
115 4 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (113 bp):
TTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAACATAAGCCCAACGACGCCATTTTCTAAGCTTT
CGGGGATCTAGCGGCGTTTTTAAGGAAACGCCGCTAATGCTCGGGGTT
Found at i:56111955 original size:146 final size:146
Alignment explanation
Indices: 56111755--56113992 Score: 3440
Period size: 146 Copynumber: 15.2 Consensus size: 146
56111745 GTTTTTAAGG
* *
56111755 AAACGCCGCAAAAAATAATTCAACTTATAAAAAAAATAAAAAAATTTTAGAATAGCAAAACGGAG
1 AAACGCCGCAAAAAATAAATCAACTTAT-AAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCG
* *
56111820 TCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAAGAAGCGCCGCTAAAGATAAGCAAT
65 TCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAAT
56111885 AGCGGCGTTTCCTATAA
130 AGCGGCGTTTCCTATAA
56111902 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCGT
1 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCGT
56111967 CGTTTTGTTCAAAATGAAAAAATTTTGCGGCGC--T-T-A-AAGCGCCGCTAAAGGTAAGCAATA
66 CGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAATA
* * *
56112027 GTGGCGTTT-TTGTAAA
131 GCGGCGTTTCCTAT-AA
* *
56112043 AAATGCTGCAAAAAATAAATCAACTTATAAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCGT
1 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCGT
* *
56112108 CGTTTTGTTCAAAATTAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGAAATA
66 CGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAATA
** *
56112173 GCGGCGTTTTTTTACAA
131 GCGGCG-TTTCCTATAA
56112190 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCGT
1 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCGT
56112255 CGTTTTGTTCAAAATGAAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAAT
66 CGTTTTGTTCAAAATG-AAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAAT
56112320 AGCGGCGTTTCCTATAA
130 AGCGGCGTTTCCTATAA
* * * *
56112337 AAACGGCGCAAAAAATAAATCAAATTATAAAAAAA-ATAAAAATTTTTAGAATAGCAAAACGGCA
1 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAATA-AAAAAATTTTAGAATAGCAAAACGGCG
*
56112401 TCGTTTTGTTCAAAATTAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAAT
65 TCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAAT
*
56112466 AGCGGCGTTT--T-T-G
130 AGCGGCGTTTCCTATAA
* *
56112479 TAA----GCAAAAAATGAATCAACTTATAAAAAAA-ACAATAAAATTTTTAGAATAGCAAAACGG
1 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAATA-AA-AAAA-TTTTAGAATAGCAAAACGG
*
56112539 CGTCGTTTTGTTCAAAATG-AAAAATTTTGCAGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCA
63 CGTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCA
56112603 ATAGCGGCGTTTCCTATAAA
128 ATAGCGGCGTTTCCTAT-AA
* *
56112623 AAACGCAGCAAAAAATAAATCAACTTAT-AAAAAATAAAAAAATTTTAGAATAGCAAAACGGAGT
1 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCGT
*
56112687 CGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAAGAAGCGCCGCTAAAGGTAAGCAATA
66 CGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAATA
56112752 GCGGCGTTTCCTATAA
131 GCGGCGTTTCCTATAA
56112768 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCG
1 AAACGCCGCAAAAAATAAATCAACTTAT-AAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCG
* * *
56112833 TCGTTTTGTTCAAAATGAAAAAATTTTGCAGCACTTTATAAGAAGCGCCGCTAAAGGTAAGCAAT
65 TCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAAT
56112898 AGCGGCGCTTT-CTATAA
130 AGCGGCG-TTTCCTATAA
*
56112915 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAAATAAAAAAATTTTAGAATAGCAAAACAGCG
1 AAACGCCGCAAAAAATAAATCAACTTAT-AAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCG
* *
56112980 TCGTTTTGTTCAAAATTAAAAAATTTTGTGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAAT
65 TCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAAT
** *
56113045 AGCGGCGTTTTTTACAA
130 AGCGGCGTTTCCTATAA
*
56113062 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAAAAAATTTAGAATAGCAAAACGGCGT
1 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCGT
* ** *
56113127 CGTTTTGTTCAAAATTAAAAAATTTTGCGGCGCTTTATAATAAGCGCAACTAAAGGTAAGAAATA
66 CGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAATA
** *
56113192 GCGGCGTTTTTTACAA
131 GCGGCGTTTCCTATAA
56113208 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCGT
1 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCGT
* * *
56113273 CGTTTTGTTCAAAATTAAAAACTTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGAAATA
66 CGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAATA
* * *
56113338 TCGGCGTTT-TTGTAA
131 GCGGCGTTTCCTATAA
56113353 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCGT
1 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCGT
56113418 CGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTCT-T-ATAAAGCGCCGCTAAAGGTAAGCAA
66 CGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTT-TATAAT-AAGCGCCGCTAAAGGTAAGCAA
56113481 TAGCGGCGTTTTTATAGCGGCGCTTTCTATAA
129 TAGCGGCG---TT-T-------C---CTATAA
56113513 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCG
1 AAACGCCGCAAAAAATAAATCAACTTAT-AAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCG
*
56113578 TCGTTTTGTTCAAAATTAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAAT
65 TCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAAT
**
56113643 AGCGGCGTTTTTGTATTTACAA
130 AGCGGCG-TTTCCTA--T--AA
* *
56113665 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAAATATTTTAGAATAGCAAAATGGCGT
1 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCGT
*
56113730 CGTTTTGTTCAAAATTAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAATA
66 CGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAATA
* ** *
56113795 GCGGCTTTTTTTTACAAA
131 GCGGC-GTTTCCTA-TAA
*
56113813 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAGAAAAATTTTAGAATAGCAAAACGGCGT
1 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCGT
* *
56113878 CGTTTTGTTAAAAATGAAAAAATTTTGCGGCGCTTTATAAGAAGCGCCGCTAAAGGTAAGCAATA
66 CGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAATA
56113943 GCGGCGTTTCCTATAA
131 GCGGCGTTTCCTATAA
56113959 AAACGCCGCAAAAAATAAATCAACTTATAAAAAA
1 AAACGCCGCAAAAAATAAATCAACTTATAAAAAA
56113993 TTTCCCAAAA
Statistics
Matches: 1949, Mismatches: 90, Indels: 105
0.91 0.04 0.05
Matches are distributed among these distances:
138 29 0.01
139 59 0.03
140 38 0.02
141 129 0.07
142 4 0.00
143 3 0.00
144 7 0.00
145 198 0.10
146 506 0.26
147 477 0.24
148 215 0.11
149 1 0.00
150 1 0.00
151 111 0.06
152 30 0.02
158 1 0.00
159 3 0.00
160 33 0.02
161 102 0.05
162 2 0.00
ACGTcount: A:0.44, C:0.15, G:0.16, T:0.26
Consensus pattern (146 bp):
AAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCGT
CGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAATA
GCGGCGTTTCCTATAA
Found at i:56112410 original size:294 final size:293
Alignment explanation
Indices: 56111755--56113992 Score: 3457
Period size: 294 Copynumber: 7.6 Consensus size: 293
56111745 GTTTTTAAGG
* *
56111755 AAACGCCGCAAAAAATAATTCAACTTATAAAAAAAATAAAAAAATTTTAGAATAGCAAAACGGAG
1 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCG
* * *
56111820 TCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAAGAAGCGCCGCTAAAGATAAGCAAT
66 TCGTTTTGTTCAAAATTAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAAT
* *
56111885 AGCGGCGTTTCCTATAAAAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAAAAATTTTA
131 AGCGGCGTTTTCTACAAAAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAAAAATTTTA
56111950 GAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGC--T-T-A-AAGCGCC
196 GAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAATAAGCGCC
* * *
56112010 GCTAAAGGTAAGCAATAGTGGCGTTT-TTGTAAA
261 GCTAAAGGTAAGCAATAGCGGCGTTTCCTAT-AA
* *
56112043 AAATGCTGCAAAAAATAAATCAACTTAT-AAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCG
1 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCG
*
56112107 TCGTTTTGTTCAAAATTAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGAAAT
66 TCGTTTTGTTCAAAATTAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAAT
*
56112172 AGCGGCGTTTTTTTACAAAAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAAAAATTTT
131 AGCGGCG-TTTTCTACAAAAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAAAAATTTT
56112237 AGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAAATTTTGCGGCGCTTTATAATAAGCG
195 AGAATAGCAAAACGGCGTCGTTTTGTTCAAAATG-AAAAAATTTTGCGGCGCTTTATAATAAGCG
56112302 CCGCTAAAGGTAAGCAATAGCGGCGTTTCCTATAA
259 CCGCTAAAGGTAAGCAATAGCGGCGTTTCCTATAA
* * * *
56112337 AAACGGCGCAAAAAATAAATCAAATTATAAAAAAAAT-AAAAATTTTTAGAATAGCAAAACGGCA
1 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCG
56112401 TCGTTTTGTTCAAAATTAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAAT
66 TCGTTTTGTTCAAAATTAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAAT
** *
56112466 AGCGGCGTTTT-T---GTAA----GCAAAAAATGAATCAACTTATAAAAAAA-ACAATAAAATTT
131 AGCGGCGTTTTCTACAAAAACGCCGCAAAAAATAAATCAACTTATAAAAAAATA-AA-AAAA-TT
*
56112522 TTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATG-AAAAATTTTGCAGCGCTTTATAATAAGC
193 TTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAATAAGC
56112586 GCCGCTAAAGGTAAGCAATAGCGGCGTTTCCTATAAA
258 GCCGCTAAAGGTAAGCAATAGCGGCGTTTCCTAT-AA
* *
56112623 AAACGCAGCAAAAAATAAATCAACTTAT--AAAAAATAAAAAAATTTTAGAATAGCAAAACGGAG
1 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCG
* *
56112686 TCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAAGAAGCGCCGCTAAAGGTAAGCAAT
66 TCGTTTTGTTCAAAATTAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAAT
* *
56112751 AGCGGCGTTTCCTATAAAAACGCCGCAAAAAATAAATCAACTTATAAAAAAAATAAAAAAATTTT
131 AGCGGCGTTTTCTACAAAAACGCCGCAAAAAATAAATCAACTTAT-AAAAAAATAAAAAAATTTT
* * *
56112816 AGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTTTGCAGCACTTTATAAGAAGCGC
195 AGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAATAAGCGC
56112881 CGCTAAAGGTAAGCAATAGCGGCGCTTT-CTATAA
260 CGCTAAAGGTAAGCAATAGCGGCG-TTTCCTATAA
*
56112915 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAAATAAAAAAATTTTAGAATAGCAAAACAGCG
1 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCG
*
56112980 TCGTTTTGTTCAAAATTAAAAAATTTTGTGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAAT
66 TCGTTTTGTTCAAAATTAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAAT
* *
56113045 AGCGGCGTTTTTTACAAAAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAAAAAATTTA
131 AGCGGCGTTTTCTACAAAAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAAAAATTTTA
* *
56113110 GAATAGCAAAACGGCGTCGTTTTGTTCAAAATTAAAAAATTTTGCGGCGCTTTATAATAAGCGCA
196 GAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAATAAGCGCC
* * ** *
56113175 ACTAAAGGTAAGAAATAGCGGCGTTTTTTACAA
261 GCTAAAGGTAAGCAATAGCGGCGTTTCCTATAA
56113208 AAACGCCGCAAAAAATAAATCAACTTAT-AAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCG
1 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCG
* *
56113272 TCGTTTTGTTCAAAATTAAAAACTTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGAAAT
66 TCGTTTTGTTCAAAATTAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAAT
* **
56113337 ATCGGCGTTTT-TGTAAAAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAAAAATTTTA
131 AGCGGCGTTTTCTACAAAAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAAAAATTTTA
56113401 GAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTCT-T-ATAAAGCG
196 GAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTT-TATAAT-AAGCG
56113464 CCGCTAAAGGTAAGCAATAGCGGCGTTTTTATAGCGGCGCTTTCTATAA
259 CCGCTAAAGGTAAGCAATAGCGGCG---TT-T-------C---CTATAA
56113513 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCG
1 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCG
56113578 TCGTTTTGTTCAAAATTAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAAT
66 TCGTTTTGTTCAAAATTAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAAT
* *
56113643 AGCGGCGTTTTTGTATTTACAAAAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAAATA
131 AGCGGCG---TT-T-TCTACAAAAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAAAAA
* *
56113708 TTTTAGAATAGCAAAATGGCGTCGTTTTGTTCAAAATTAAAAAATTTTGCGGCGCTTTATAATAA
191 TTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAATAA
* ** *
56113773 GCGCCGCTAAAGGTAAGCAATAGCGGCTTTTTTTTACAAA
256 GCGCCGCTAAAGGTAAGCAATAGCGGC-GTTTCCTA-TAA
*
56113813 AAACGCCGCAAAAAATAAATCAACTTAT-AAAAAAATAGAAAAATTTTAGAATAGCAAAACGGCG
1 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCG
* * *
56113877 TCGTTTTGTTAAAAATGAAAAAATTTTGCGGCGCTTTATAAGAAGCGCCGCTAAAGGTAAGCAAT
66 TCGTTTTGTTCAAAATTAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAAT
* *
56113942 AGCGGCGTTTCCTATAAAAACGCCGCAAAAAATAAATCAACTTATAAAAAA
131 AGCGGCGTTTTCTACAAAAACGCCGCAAAAAATAAATCAACTTATAAAAAA
56113993 TTTCCCAAAA
Statistics
Matches: 1802, Mismatches: 92, Indels: 106
0.90 0.05 0.05
Matches are distributed among these distances:
284 8 0.00
285 187 0.10
286 32 0.02
287 141 0.08
288 113 0.06
289 21 0.01
290 2 0.00
291 130 0.07
292 180 0.10
293 217 0.12
294 343 0.19
295 13 0.01
296 2 0.00
299 106 0.06
300 30 0.02
305 32 0.02
306 105 0.06
309 3 0.00
310 3 0.00
311 2 0.00
312 130 0.07
313 2 0.00
ACGTcount: A:0.44, C:0.15, G:0.16, T:0.26
Consensus pattern (293 bp):
AAACGCCGCAAAAAATAAATCAACTTATAAAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCG
TCGTTTTGTTCAAAATTAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAAT
AGCGGCGTTTTCTACAAAAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAAAAATTTTA
GAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAATAAGCGCC
GCTAAAGGTAAGCAATAGCGGCGTTTCCTATAA
Found at i:56113729 original size:151 final size:148
Alignment explanation
Indices: 56113511--56113992 Score: 805
Period size: 148 Copynumber: 3.2 Consensus size: 148
56113501 CGCTTTCTAT
56113511 AAAAACGCCGCAAAAAATAAATCAACTTATAAAAAAAATAAAAAAATTTTAGAATAGCAAAACGG
1 AAAAACGCCGCAAAAAATAAATCAACTTAT-AAAAAAAT-AAAAAATTTTAGAATAGCAAAACGG
56113576 CGTCGTTTTGTTCAAAATTAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCA
64 CGTCGTTTTGTTCAAAATTAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCA
56113641 ATAGCGGCGTTTTTGTATTTAC
129 ATAGCGGCG-TTTT-TATTTAC
*
56113663 AAAAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAAATATTTTAGAATAGCAAAATGGC
1 AAAAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAAA-ATTTTAGAATAGCAAAACGGC
56113728 GTCGTTTTGTTCAAAATTAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAA
65 GTCGTTTTGTTCAAAATTAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAA
56113793 TAGCGGC-TTTTT-TTTAC
130 TAGCGGCGTTTTTATTTAC
56113810 AAAAAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAGAAAAATTTTAGAATAGCAAAACGG
1 -AAAAACGCCGCAAAAAATAAATCAACTTATAAAAAAATA-AAAAATTTTAGAATAGCAAAACGG
* * *
56113875 CGTCGTTTTGTTAAAAATGAAAAAATTTTGCGGCGCTTTATAAGAAGCGCCGCTAAAGGTAAGCA
64 CGTCGTTTTGTTCAAAATTAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCA
*
56113940 ATAGCGGCGTTTCCTA--T--
129 ATAGCGGCGTTT-TTATTTAC
56113957 AAAAACGCCGCAAAAAATAAATCAACTTATAAAAAA
1 AAAAACGCCGCAAAAAATAAATCAACTTATAAAAAA
56113993 TTTCCCAAAA
Statistics
Matches: 318, Mismatches: 6, Indels: 18
0.93 0.02 0.05
Matches are distributed among these distances:
146 36 0.11
147 5 0.02
148 129 0.41
149 12 0.04
150 6 0.02
151 100 0.31
152 30 0.09
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (148 bp):
AAAAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAAAATTTTAGAATAGCAAAACGGCG
TCGTTTTGTTCAAAATTAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAAT
AGCGGCGTTTTTATTTAC
Found at i:56114400 original size:15 final size:17
Alignment explanation
Indices: 56114370--56114401 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
56114360 TTGTAAGAGA
56114370 TAAAATAGTATTAATTT
1 TAAAATAGTATTAATTT
56114387 TAAAATA-T-TTAATTT
1 TAAAATAGTATTAATTT
56114402 AATTATCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
TAAAATAGTATTAATTT
Found at i:56114524 original size:14 final size:14
Alignment explanation
Indices: 56114505--56114536 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
56114495 AAGTTTTATA
56114505 GATTATGAATTAGG
1 GATTATGAATTAGG
*
56114519 GATTATGGATTAGG
1 GATTATGAATTAGG
56114533 GATT
1 GATT
56114537 TCGGTTTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.31, T:0.38
Consensus pattern (14 bp):
GATTATGAATTAGG
Found at i:56114578 original size:14 final size:14
Alignment explanation
Indices: 56114559--56114608 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
56114549 TTAATGTGAT
*
56114559 TTAAGGTTTATGGG
1 TTAAGGGTTATGGG
56114573 TTAAGGGTTATGGG
1 TTAAGGGTTATGGG
*
56114587 TTATGGGTTA--GG
1 TTAAGGGTTATGGG
*
56114599 TTAGGGGTTA
1 TTAAGGGTTA
56114609 GATGTTAAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
12 11 0.33
14 22 0.67
ACGTcount: A:0.20, C:0.00, G:0.40, T:0.40
Consensus pattern (14 bp):
TTAAGGGTTATGGG
Found at i:56114809 original size:81 final size:81
Alignment explanation
Indices: 56114659--56114965 Score: 276
Period size: 82 Copynumber: 3.6 Consensus size: 81
56114649 TTAAGTTAGA
* * *
56114659 GTTTAGGGTTTAGATTAATTAGTGTATTTTAATTATATATTAAA-CAAGATTTAGGGGTTAGGGA
1 GTTTAGGGTTTAGATTAATTAGTATTTTTTAATTATATATTAAATAAAG-TTTAGGGGTTAGGGA
56114723 TTTAGGATTGGGTTATG
65 TTTAGGATTGGGTTATG
*
56114740 GTTTAGGGTTTAGATTAATTATTATTTTTTAATTTATATATTAAATAAAGTTTAGGGGTTAGGG-
1 GTTTAGGGTTTAGATTAATTAGTATTTTTTAA-TTATATATTAAATAAAGTTTAGGGGTTAGGGA
* *
56114804 GTTAGGTATTTGTGGTCGGGTTTTAG
65 TTTAGG-A----T--T-GGGTTAT-G
* *
56114830 GTTTAGGGTTTAGGGTTTAGATTAATTAGTGCTTTTTAATTATATATTAAATAAAGTTTAGGGGT
1 GTTTAGGGTTTA--GATTA-ATT-AGTA-T--TTTTTAATTATATATTAAATAAAGTTTAGGGGT
* * * * *
56114895 TAGGGATTTCGGGTCGAGTTAGG
59 TAGGGATTTAGGATTGGGTTATG
* * * *
56114918 GTTTAAGATTTGGATTAATTAGTACTTTTTAATTTATATATTAAATAA
1 GTTTAGGGTTTAGATTAATTAGTATTTTTTAA-TTATATATTAAATAA
56114966 GTTCTTTATA
Statistics
Matches: 186, Mismatches: 20, Indels: 39
0.76 0.08 0.16
Matches are distributed among these distances:
81 41 0.22
82 42 0.23
83 3 0.02
84 3 0.02
85 3 0.02
86 5 0.03
88 11 0.06
89 10 0.05
90 13 0.07
92 5 0.03
93 3 0.02
94 4 0.02
95 1 0.01
96 31 0.17
97 11 0.06
ACGTcount: A:0.29, C:0.02, G:0.24, T:0.45
Consensus pattern (81 bp):
GTTTAGGGTTTAGATTAATTAGTATTTTTTAATTATATATTAAATAAAGTTTAGGGGTTAGGGAT
TTAGGATTGGGTTATG
Found at i:56115085 original size:10 final size:10
Alignment explanation
Indices: 56115070--56115103 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
56115060 TTAAAATCGC
56115070 AAAATTGTAA
1 AAAATTGTAA
56115080 AAAATTGT-A
1 AAAATTGTAA
*
56115089 AAAATTATAA
1 AAAATTGTAA
56115099 AAAAT
1 AAAAT
56115104 AAAAATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (10 bp):
AAAATTGTAA
Found at i:56115108 original size:16 final size:15
Alignment explanation
Indices: 56115087--56115140 Score: 56
Period size: 17 Copynumber: 3.4 Consensus size: 15
56115077 TAAAAAATTG
56115087 TAAAAATTATAAAAAA
1 TAAAAATTA-AAAAAA
56115103 TAAAAA-TAAAAATAA
1 TAAAAATTAAAAA-AA
*
56115118 AAAAAATTAAAAAGAAA
1 TAAAAATT-AAAA-AAA
56115135 TAAAAA
1 TAAAAA
56115141 CACTAAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
14 4 0.12
15 9 0.28
16 7 0.22
17 11 0.34
18 1 0.03
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.19
Consensus pattern (15 bp):
TAAAAATTAAAAAAA
Found at i:56115115 original size:22 final size:22
Alignment explanation
Indices: 56115087--56115130 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
56115077 TAAAAAATTG
*
56115087 TAAAAATTATAAAAAA-TAAAAA
1 TAAAAA-TAAAAAAAATTAAAAA
56115109 TAAAAATAAAAAAAATTAAAAA
1 TAAAAATAAAAAAAATTAAAAA
56115131 GAAATAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (22 bp):
TAAAAATAAAAAAAATTAAAAA
Found at i:56115128 original size:10 final size:10
Alignment explanation
Indices: 56115088--56115140 Score: 54
Period size: 10 Copynumber: 5.2 Consensus size: 10
56115078 AAAAAATTGT
*
56115088 AAAAATTATA
1 AAAAATTAAA
*
56115098 AAAAATAAAA
1 AAAAATTAAA
*
56115108 ATAAAAATAAA
1 A-AAAATTAAA
56115119 AAAAATTAAA
1 AAAAATTAAA
56115129 AAGAAA-TAAA
1 AA-AAATTAAA
56115139 AA
1 AA
56115141 CACTAAAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
10 25 0.69
11 11 0.31
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (10 bp):
AAAAATTAAA
Found at i:56115194 original size:47 final size:48
Alignment explanation
Indices: 56115135--56115233 Score: 121
Period size: 47 Copynumber: 2.1 Consensus size: 48
56115125 TAAAAAGAAA
* * *
56115135 TAAAAACACTAAAAATT-TTATTTTTACCCAATTTTTATAAATACTACT
1 TAAAAACACT-AAAATTGATAATTTTACCCAATTTTTATAAATACTACC
* * *
56115183 TAAAAA-ACTAAAATTGATAATTTTATCTAATTTTTATAAATATTACC
1 TAAAAACACTAAAATTGATAATTTTACCCAATTTTTATAAATACTACC
56115230 TAAA
1 TAAA
56115234 CAAAATTTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
46 6 0.14
47 32 0.73
48 6 0.14
ACGTcount: A:0.46, C:0.11, G:0.01, T:0.41
Consensus pattern (48 bp):
TAAAAACACTAAAATTGATAATTTTACCCAATTTTTATAAATACTACC
Found at i:56117112 original size:26 final size:26
Alignment explanation
Indices: 56117081--56117131 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
56117071 CATTGAAGTT
* * *
56117081 TGGTTTATCTTTTTACATGCATGAAG
1 TGGTTTATATTTATACACGCATGAAG
56117107 TGGTTTATATTTATACACGCATGAA
1 TGGTTTATATTTATACACGCATGAA
56117132 ATCATAAAGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.43
Consensus pattern (26 bp):
TGGTTTATATTTATACACGCATGAAG
Found at i:56118772 original size:21 final size:21
Alignment explanation
Indices: 56118729--56118775 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
56118719 TTAAATTTGA
* *
56118729 AATTTTACAATTTAATCATCT
1 AATTTTACAATATAATCAACT
* *
56118750 AATTTTACAATATCATTAACT
1 AATTTTACAATATAATCAACT
56118771 AATTT
1 AATTT
56118776 AAATAGTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (21 bp):
AATTTTACAATATAATCAACT
Found at i:56119056 original size:42 final size:40
Alignment explanation
Indices: 56118981--56119158 Score: 169
Period size: 42 Copynumber: 4.3 Consensus size: 40
56118971 CGCCACTAAA
* * *
56118981 TCTTTAGCGACGCTTAAAAAAAATGCTGCTAAAGATAATGT
1 TCTTTAGCGGCGCTT-AAAAAAACGCCGCTAAAGATAATGT
* *
56119022 TCTTTACCGGCGCTTGGAAAAAAACGCCGCTAAAGATCATGT
1 TCTTTAGCGGCGCTT--AAAAAAACGCCGCTAAAGATAATGT
* **
56119064 TCTTTAGCGGCGCTTAAGACAAAACGTCGCTAAAGACCATGT
1 TCTTTAGCGGCGCTTAA-A-AAAACGCCGCTAAAGATAATGT
** * *
56119106 TCTTTATTGGCGCGTAAGAAAAAACGCCGCTAAAGA-ACATGG
1 TCTTTAGCGGCGC-TTA-AAAAAACGCCGCTAAAGATA-ATGT
56119148 TCTTTAGCGGC
1 TCTTTAGCGGC
56119159 AATTTTGTTT
Statistics
Matches: 114, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
40 2 0.02
41 14 0.12
42 94 0.82
43 3 0.03
44 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (40 bp):
TCTTTAGCGGCGCTTAAAAAAACGCCGCTAAAGATAATGT
Found at i:56122051 original size:43 final size:43
Alignment explanation
Indices: 56121961--56122052 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
56121951 AAAAGCGTTG
* * *
56121961 CTAAAGGTCTTGGTCTTTAGCGGTGTTTGTGGGAAATGCACCG
1 CTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAAAGCACCA
* * *
56122004 CTAAATGTCTTGGTCTTTAGGGGCGTTTGTGGGAAAAGCGCCA
1 CTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAAAGCACCA
56122047 CTAAAG
1 CTAAAG
56122053 AGCATGTGGA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.22, C:0.16, G:0.32, T:0.30
Consensus pattern (43 bp):
CTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAAAGCACCA
Found at i:56123441 original size:3 final size:3
Alignment explanation
Indices: 56123433--56123461 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
56123423 AAATTAGTTA
56123433 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
56123462 AAGGATAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:56123817 original size:31 final size:32
Alignment explanation
Indices: 56123753--56123818 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
56123743 AGGCAAATTA
*
56123753 AAAGAGTAATTGAATCCTAATAAAAACTTTTT
1 AAAGAGTAATTGAATCCTAATAAAAACTCTTT
56123785 AAAGAGTAATTGAATCCTAAT-AAAACTCTTT
1 AAAGAGTAATTGAATCCTAATAAAAACTCTTT
56123816 AAA
1 AAA
56123819 ATTATCTAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 12 0.36
32 21 0.64
ACGTcount: A:0.48, C:0.11, G:0.09, T:0.32
Consensus pattern (32 bp):
AAAGAGTAATTGAATCCTAATAAAAACTCTTT
Found at i:56127767 original size:33 final size:33
Alignment explanation
Indices: 56127725--56127800 Score: 152
Period size: 33 Copynumber: 2.3 Consensus size: 33
56127715 TGGCACTAGG
56127725 AGAAGTAGAAGAAGAAGATGGAGCTCGATTAGT
1 AGAAGTAGAAGAAGAAGATGGAGCTCGATTAGT
56127758 AGAAGTAGAAGAAGAAGATGGAGCTCGATTAGT
1 AGAAGTAGAAGAAGAAGATGGAGCTCGATTAGT
56127791 AGAAGTAGAA
1 AGAAGTAGAA
56127801 CCTTTAAATG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.45, C:0.05, G:0.33, T:0.17
Consensus pattern (33 bp):
AGAAGTAGAAGAAGAAGATGGAGCTCGATTAGT
Found at i:56129694 original size:3 final size:3
Alignment explanation
Indices: 56129686--56129732 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
56129676 AAATTAGTTA
56129686 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
56129733 AAGGATAGAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:56130087 original size:31 final size:32
Alignment explanation
Indices: 56130032--56130092 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
56130022 AATTACAAGT
56130032 GTAATTGAATCCTAATAAAAACTCTTTAAAGA
1 GTAATTGAATCCTAATAAAAACTCTTTAAAGA
56130064 GTAATTGAATCCTAAT-AAAACTCTTTAAA
1 GTAATTGAATCCTAATAAAAACTCTTTAAA
56130093 ATTATCTAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.45
32 16 0.55
ACGTcount: A:0.46, C:0.13, G:0.08, T:0.33
Consensus pattern (32 bp):
GTAATTGAATCCTAATAAAAACTCTTTAAAGA
Found at i:56134946 original size:14 final size:14
Alignment explanation
Indices: 56134899--56134946 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
56134889 GTTTTTATAT
*
56134899 TAATTATAAATGTTA
1 TAATTAT-AATATTA
56134914 TAA-TATATATATTA
1 TAATTATA-ATATTA
56134928 T-ATTATAATATTA
1 TAATTATAATATTA
56134941 TAATTA
1 TAATTA
56134947 AACAAATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
13 9 0.31
14 17 0.59
15 3 0.10
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (14 bp):
TAATTATAATATTA
Found at i:56136627 original size:41 final size:41
Alignment explanation
Indices: 56136565--56136684 Score: 150
Period size: 41 Copynumber: 2.9 Consensus size: 41
56136555 TCTGATTGAT
* * * *
56136565 TGCCAGTGAAATAATTCAGACTTTATGTCTAGCAGGCTTTA
1 TGCCGGTGAAATAATTCAGACTATACGTCTAGCAGGCTTAA
*
56136606 TGCCGGTGAAATTATTCAGACTATACGTCTAGCAGGCTTAA
1 TGCCGGTGAAATAATTCAGACTATACGTCTAGCAGGCTTAA
* * * * *
56136647 TGCCGGTGATACATTTCGGACTATAAGTCTAGCAGGCT
1 TGCCGGTGAAATAATTCAGACTATACGTCTAGCAGGCT
56136685 AAAAGCCAGT
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 68 1.00
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.31
Consensus pattern (41 bp):
TGCCGGTGAAATAATTCAGACTATACGTCTAGCAGGCTTAA
Found at i:56136897 original size:13 final size:13
Alignment explanation
Indices: 56136881--56136905 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56136871 ATATTAAATA
56136881 TATATGCATTTGG
1 TATATGCATTTGG
56136894 TATATGCATTTG
1 TATATGCATTTG
56136906 ATAAGCAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.08, G:0.20, T:0.48
Consensus pattern (13 bp):
TATATGCATTTGG
Found at i:56142685 original size:25 final size:25
Alignment explanation
Indices: 56142640--56142688 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
56142630 ATATAGTTTT
*
56142640 TATATTAATTATAAATGTTATAATA
1 TATATTAATTATAAATATTATAATA
*
56142665 TATATTATATTGT-AATATTATAAT
1 TATATTA-ATTATAAATATTATAAT
56142689 TAAACAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (25 bp):
TATATTAATTATAAATATTATAATA
Found at i:56144371 original size:41 final size:41
Alignment explanation
Indices: 56144309--56144428 Score: 150
Period size: 41 Copynumber: 2.9 Consensus size: 41
56144299 TCTGATTGAT
* * * *
56144309 TGCCAGTGAAATAATTCAGACTTTATGTCTAGCAGGCTTTA
1 TGCCGGTGAAATAATTCAGACTATACGTCTAGCAGGCTTAA
*
56144350 TGCCGGTGAAATTATTCAGACTATACGTCTAGCAGGCTTAA
1 TGCCGGTGAAATAATTCAGACTATACGTCTAGCAGGCTTAA
* * * * *
56144391 TGCCGGTGATACATTTCGGACTATAAGTCTAGCAGGCT
1 TGCCGGTGAAATAATTCAGACTATACGTCTAGCAGGCT
56144429 AAAAGCCAGT
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 68 1.00
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.31
Consensus pattern (41 bp):
TGCCGGTGAAATAATTCAGACTATACGTCTAGCAGGCTTAA
Found at i:56144641 original size:13 final size:13
Alignment explanation
Indices: 56144625--56144649 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56144615 ATATTAAATA
56144625 TATATGCATTTGG
1 TATATGCATTTGG
56144638 TATATGCATTTG
1 TATATGCATTTG
56144650 ATAAGCAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.08, G:0.20, T:0.48
Consensus pattern (13 bp):
TATATGCATTTGG
Found at i:56146298 original size:221 final size:220
Alignment explanation
Indices: 56145916--56146354 Score: 713
Period size: 221 Copynumber: 2.0 Consensus size: 220
56145906 TTCTATCTTG
* *
56145916 AGATAACAAGATGTCACGTCCAGTAAGTTAGGATACAACACCTCGAATCCTCGAGAATAAACTTC
1 AGATAACAAGATGCCACATCCAGTAAGTTAGGATACAACACCTCGAATCCTCGAGAATAAACTTC
56145981 TTTTTATTTTTTTATTCCAAAACTCACGTATTTTAATTTTAAAAGGATATTCAGTCATTCAGGTT
66 TTTTTATTTTTTTATTCCAAAACTCACGTATTTTAATTTTAAAAGGATATTCAGTCATTCAGGTT
** *
56146046 CAACGGAAAAAAATTGAAACCCAGTAAGTTAGGGCACAACTTGTCGCATTTCTAAATACCGAACA
131 CAACGGAAAAAAATCAAAACCCAGTAAGTTAGGGCACAACTTCTCGCATTTCTAAATACCGAACA
56146111 TTGCCTTATTTTGGAAATTTTCTCA
196 TTGCCTTATTTTGGAAATTTTCTCA
*
56146136 AGATAACAAGATGCCGCATCCAGTAAGTTAGGATACAACACCTCGAATCCTCGAGAATAAACTT-
1 AGATAACAAGATGCCACATCCAGTAAGTTAGGATACAACACCTCGAATCCTCGAGAATAAACTTC
* * *
56146200 TTCTTTCATTTTTTTATTCCAATACTTACGTATTTTAATTTTAAAAGGATATTTC-GTCATTTAG
66 TT-TTT-ATTTTTTTATTCCAAAACTCACGTATTTTAATTTTAAAAGGATA-TTCAGTCATTCAG
** *
56146264 GTTCAAC-GAGAAAAAATCAAAACTTAGTAAGTTAGGGCACGACTTCTCGCATTTCTAAATACCG
128 GTTCAACGGA-AAAAAATCAAAACCCAGTAAGTTAGGGCACAACTTCTCGCATTTCTAAATACCG
56146328 AACATTGCCTTATTTTGGAAATTTTCT
192 AACATTGCCTTATTTTGGAAATTTTCT
56146355 TTATTATAAA
Statistics
Matches: 203, Mismatches: 12, Indels: 7
0.91 0.05 0.03
Matches are distributed among these distances:
219 2 0.01
220 66 0.33
221 132 0.65
222 3 0.01
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (220 bp):
AGATAACAAGATGCCACATCCAGTAAGTTAGGATACAACACCTCGAATCCTCGAGAATAAACTTC
TTTTTATTTTTTTATTCCAAAACTCACGTATTTTAATTTTAAAAGGATATTCAGTCATTCAGGTT
CAACGGAAAAAAATCAAAACCCAGTAAGTTAGGGCACAACTTCTCGCATTTCTAAATACCGAACA
TTGCCTTATTTTGGAAATTTTCTCA
Found at i:56148527 original size:45 final size:44
Alignment explanation
Indices: 56148370--56148951 Score: 346
Period size: 44 Copynumber: 12.9 Consensus size: 44
56148360 CGTTTTAATT
* * ** *
56148370 TGCTCTACTGCAACTTCAGAGAGAT-AGGATTAATAGCTTCAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGG-TTGGTATCTTCAATC
* * *
56148414 TGCTCCACTGCAACTTCAGGGAGATAAGATTGGTATATTCAACC
1 TGCTCCACTGCAACTTCAGGGAGATAAGGTTGGTATCTTCAATC
*
56148458 TGCTCCACTGCAACTTCAGGGAGATAAGGTTGGTTATCTTCAGTC
1 TGCTCCACTGCAACTTCAGGGAGATAAGGTTGG-TATCTTCAATC
*
56148503 TGCTCCACTGCAACTTC-GGAGAGATAAGACTTGTTATGGTAGACTT-AATC
1 TGCTCCACTGCAACTTCAGG-GAGATAAG----G-T-TGGTA-TCTTCAATC
* * * * * * * *
56148553 CGAC-CTACTGCAACTTTAGAGG-TATATGATT--CATCGTTTTAATC
1 TG-CTCCACTGCAACTTCAG-GGAGATAAGGTTGGTATC--TTCAATC
* ** *
56148597 TGCTCCACTACAACTTCAGGGAGAT-AGGATTAATAGCTTCAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGG-TTGGTATCTTCAATC
* * * *
56148641 TGCTCCACTGCAACTTCAAGAAGATAAGATTGGTATCTTCAACC
1 TGCTCCACTGCAACTTCAGGGAGATAAGGTTGGTATCTTCAATC
* * *
56148685 TGTTCCACTGCAACTTCAGGGAGATAAGGTTGTTTATCTTAAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGGTTG-GTATCTTCAATC
* * *
56148730 TGCTTCACTGCAACTTCAGAGAGATAAGACTTGTTATGGTAGACTT-AATC
1 TGCTCCACTGCAACTTCAGGGAGATAAG----G-T-TGGTA-TCTTCAATC
* * * * * *
56148780 TGAC-CTACTACAACTTTA--GAGGTATAGGATT--CATCGTTTTAATC
1 TG-CTCCACTGCAACTTCAGGGAGATA-AGG-TTGGTATC--TTCAATC
* * * ** *
56148824 CGCTCCACTGCAACTTCAGGGAGATACGATTAATAGCTTCAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGGTTGGTATCTTCAATC
* * * *
56148868 TGCTCCACTACAACTTTAGGGAGATAAGATTGGTATCTTCAACC
1 TGCTCCACTGCAACTTCAGGGAGATAAGGTTGGTATCTTCAATC
* * *
56148912 TGCTCCACTGCAGCTTCAGAGAGATAAGGTTTGTTATCTT
1 TGCTCCACTGCAACTTCAGGGAGATAAGG-TTGGTATCTT
56148952 TAGTCTTGAT
Statistics
Matches: 413, Mismatches: 84, Indels: 81
0.71 0.15 0.14
Matches are distributed among these distances:
41 2 0.00
42 2 0.00
43 9 0.02
44 241 0.58
45 84 0.20
46 9 0.02
48 5 0.01
49 4 0.01
50 41 0.10
51 15 0.04
52 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (44 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGGTTGGTATCTTCAATC
Found at i:56148668 original size:227 final size:227
Alignment explanation
Indices: 56148265--56148957 Score: 1073
Period size: 227 Copynumber: 3.1 Consensus size: 227
56148255 TAAGATCCGC
* * * * * *
56148265 TATCTACAGTCTGCTCCACTACAACTTTAGG-GAGATAAGACTCGATATGGTAGATTTAATCTGA
1 TATCTTCAGTCTGCTCCACTGCAAC-TTCGGAGAGATAAGACTTGTTATGGTAGACTTAATCTGA
* * * * *
56148329 CCTACTGCAACTTCAGGGGTATAAGATTCATCGTTTTAATTTGCTCTACTGCAACTTCAGAGAGA
65 CCTACTGCAACTTTAGAGGTATAAGATTCATCGTTTTAATCTGCTCCACTGCAACTTCAGGGAGA
*
56148394 TAGGATTAATAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTATATTCAACCT
130 TAGGATTAATAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAACCT
56148459 GCTCCACTGCAACTTCAGGGAGATAAGGTTGGT
195 GCTCCACTGCAACTTCAGGGAGATAAGGTTGGT
*
56148492 TATCTTCAGTCTGCTCCACTGCAACTTCGGAGAGATAAGACTTGTTATGGTAGACTTAATCCGAC
1 TATCTTCAGTCTGCTCCACTGCAACTTCGGAGAGATAAGACTTGTTATGGTAGACTTAATCTGAC
* *
56148557 CTACTGCAACTTTAGAGGTATATGATTCATCGTTTTAATCTGCTCCACTACAACTTCAGGGAGAT
66 CTACTGCAACTTTAGAGGTATAAGATTCATCGTTTTAATCTGCTCCACTGCAACTTCAGGGAGAT
* *
56148622 AGGATTAATAGCTTCAATCTGCTCCACTGCAACTTCAAGAAGATAAGATTGGTATCTTCAACCTG
131 AGGATTAATAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAACCTG
* *
56148687 TTCCACTGCAACTTCAGGGAGATAAGGTTGTT
196 CTCCACTGCAACTTCAGGGAGATAAGGTTGGT
* * * *
56148719 TATCTTAAATCTGCTTCACTGCAACTTCAGAGAGATAAGACTTGTTATGGTAGACTTAATCTGAC
1 TATCTTCAGTCTGCTCCACTGCAACTTCGGAGAGATAAGACTTGTTATGGTAGACTTAATCTGAC
* * *
56148784 CTACTACAACTTTAGAGGTATAGGATTCATCGTTTTAATCCGCTCCACTGCAACTTCAGGGAGAT
66 CTACTGCAACTTTAGAGGTATAAGATTCATCGTTTTAATCTGCTCCACTGCAACTTCAGGGAGAT
* * *
56148849 ACGATTAATAGCTTCAATCTGCTCCACTACAACTTTAGGGAGATAAGATTGGTATCTTCAACCTG
131 AGGATTAATAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAACCTG
* * *
56148914 CTCCACTGCAGCTTCAGAGAGATAAGGTTTGT
196 CTCCACTGCAACTTCAGGGAGATAAGGTTGGT
*
56148946 TATCTTTAGTCT
1 TATCTTCAGTCT
56148958 TGATCTGCTC
Statistics
Matches: 425, Mismatches: 40, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
226 4 0.01
227 421 0.99
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (227 bp):
TATCTTCAGTCTGCTCCACTGCAACTTCGGAGAGATAAGACTTGTTATGGTAGACTTAATCTGAC
CTACTGCAACTTTAGAGGTATAAGATTCATCGTTTTAATCTGCTCCACTGCAACTTCAGGGAGAT
AGGATTAATAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAACCTG
CTCCACTGCAACTTCAGGGAGATAAGGTTGGT
Found at i:56148780 original size:183 final size:180
Alignment explanation
Indices: 56148332--56148984 Score: 503
Period size: 183 Copynumber: 3.6 Consensus size: 180
56148322 AATCTGACCT
** ** * *
56148332 ACTGCAACTTCAGGG-GTATAAGATTCATCGTTTTAATTTGC-TCTACTGCAACTTCAGAGAGAT
1 ACTGCAACTTCAGGGAG-ATAAGATTGTTTATCTTAATCTGCTTC-ACTGCAACTTCAGAGAGAT
* * * * ** *
56148395 AGGA---TTA--ATAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTATATTCA
64 AAGATTGTTATCGTAGCTT-AATCTGCTCCACTACAACTTCAGGGAGATAGGATTAATAGATTCA
* * *
56148455 ACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTGGTTATCTTCAGTCTGCTCC
128 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGG-TATCTTCAATCTGCTCC
* * * *
56148509 ACTGCAACTTC-GGAGAGATAAGACTTGTTATGGTAGACTTAATCCGACCT-ACTGCAACTTTAG
1 ACTGCAACTTCAGG-GAGATAAGA-TTG-T-T--TA-TCTTAATCTG-CTTCACTGCAACTTCAG
* * *
56148572 AG-GTATATGA-T-TCATCGT--TTTAATCTGCTCCACTACAACTTCAGGGAGATAGGATTAATA
58 AGAG-ATAAGATTGTTATCGTAGCTTAATCTGCTCCACTACAACTTCAGGGAGATAGGATTAATA
* * * * *
56148632 GCTTCAATCTGCTCCACTGCAACTTCAAGAAGATAAGATTGGTATCTTCAACCTGTTCC
122 GATTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAATCTGCTCC
*
56148691 ACTGCAACTTCAGGGAGATAAGGTTGTTTATCTTAAATCTGCTTCACTGCAACTTCAGAGAGATA
1 ACTGCAACTTCAGGGAGATAAGATTGTTTATCTT-AATCTGCTTCACTGCAACTTCAGAGAGATA
* * * * * * *
56148756 AGACTTGTTATGGTAGACTTAATCTGAC-CTACTACAACTTTAGAGG-TATAGGATTCATCGTTT
65 AGA-TTGTTATCGTAG-CTTAATCTG-CTCCACTACAACTTCAG-GGAGATAGGATTAATAGATT
* * * ** *
56148819 TAATCCGCTCCACTGCAACTTCAGGGAGATACGATTAATAGCTTCAATCTGCTCC
126 CAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAATCTGCTCC
* * * * * *
56148874 ACTACAACTTTAGGGAGATAAGATTG-GTATCTTCAACCTGCTCCACTGCAGCTTCAGAGAGATA
1 ACTGCAACTTCAGGGAGATAAGATTGTTTATCTT-AATCTGCTTCACTGCAACTTCAGAGAGATA
* * * * * *
56148938 AGGTTTGTTATCTTTAGTCTTGATCTGCTCCGCTGCAACGTCAGGGA
65 A-GATTGTTATC-GTAG-CTTAATCTGCTCCACTACAACTTCAGGGA
56148985 AACAAGATTC
Statistics
Matches: 377, Mismatches: 69, Indels: 54
0.75 0.14 0.11
Matches are distributed among these distances:
176 7 0.02
177 44 0.12
178 4 0.01
179 2 0.01
180 7 0.02
181 3 0.01
182 78 0.21
183 222 0.59
184 8 0.02
185 1 0.00
186 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (180 bp):
ACTGCAACTTCAGGGAGATAAGATTGTTTATCTTAATCTGCTTCACTGCAACTTCAGAGAGATAA
GATTGTTATCGTAGCTTAATCTGCTCCACTACAACTTCAGGGAGATAGGATTAATAGATTCAATC
TGCTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAATCTGCTCC
Found at i:56149154 original size:51 final size:51
Alignment explanation
Indices: 56149071--56149168 Score: 151
Period size: 51 Copynumber: 1.9 Consensus size: 51
56149061 ATCCGCTCCA
* *
56149071 CTTTAGCTTTAATCTATTCCACTGTAATGCCAGGGAAACAAGATTCGCTAC
1 CTTTAGCTTTAATCTATTCCACTGCAAAGCCAGGGAAACAAGATTCGCTAC
* * *
56149122 CTTTAGCTTTAATCTGTTCCACTGCAAAGCCAGGGAAATAATATTCG
1 CTTTAGCTTTAATCTATTCCACTGCAAAGCCAGGGAAACAAGATTCG
56149169 TTGTCTTCAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (51 bp):
CTTTAGCTTTAATCTATTCCACTGCAAAGCCAGGGAAACAAGATTCGCTAC
Found at i:56149183 original size:51 final size:51
Alignment explanation
Indices: 56149077--56149184 Score: 126
Period size: 51 Copynumber: 2.1 Consensus size: 51
56149067 TCCACTTTAG
* * * *
56149077 CTTTAATCTATTCCACTGTAATGCCAGGGAAACAAGATTCGCTACCTTTAG
1 CTTTAATCTATTCCACTGCAAAGCCAGGGAAACAAGATTCGCTACCTTCAA
* * * * **
56149128 CTTTAATCTGTTCCACTGCAAAGCCAGGGAAATAATATTCGTTGTCTTCAA
1 CTTTAATCTATTCCACTGCAAAGCCAGGGAAACAAGATTCGCTACCTTCAA
56149179 CTTTAA
1 CTTTAA
56149185 CGCTAGGGAG
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (51 bp):
CTTTAATCTATTCCACTGCAAAGCCAGGGAAACAAGATTCGCTACCTTCAA
Found at i:56149294 original size:261 final size:260
Alignment explanation
Indices: 56148960--56149439 Score: 744
Period size: 261 Copynumber: 1.8 Consensus size: 260
56148950 TTTAGTCTTG
**
56148960 ATCTGCTCCGCTGCAACGTCAGGGAAACAAGATTCACTACCTTTAACTTAATATGTTCCACTGTA
1 ATCTGCTCCGCTGCAACGAAAGGGAAACAAGATTCACTACCTTTAACTTAATATGTTCCACTGTA
** * *
56149025 ACGCCAAGGAGATAGGATTTTCTACCTTCAGCTTTAATCCGCTCCACTTTAGCTTTAATCTATTC
66 ACGCCAAGGAGATAGGATTCGCTACCTTCAGCTTTAATCCGCCCCACTTCAGCTTTAATCTATTC
* * *
56149090 CACTGTAATGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGCAAAGCCAG
131 CACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATATGTTCCACTGCAAAGCCAG
* *
56149155 GGAAATAATATTCGTTGTCTTCAACTTTAACGCTAGGGAGATAAGATTTGCTACCTTCAACTTTA
196 AGAAATAATATTCGTTGCCTTCAACTTTAACGCTAGGGAGATAAGATTTGCTACCTTCAACTTTA
* * * * * *
56149220 ATCTGCTCCGCTGTAACGAAAGGGAAACAAGATTCGCTACTTTTAGCTTTGATATGTTCCAGTGT
1 ATCTGCTCCGCTGCAACGAAAGGGAAACAAGATTCACTACCTTTAAC-TTAATATGTTCCACTGT
* * *
56149285 AACGCCAAGGAGATGGGATTCGCTGCCTTCAGCTTTAATCTGCCCCACTTCAGCTTTAATCTATT
65 AACGCCAAGGAGATAGGATTCGCTACCTTCAGCTTTAATCCGCCCCACTTCAGCTTTAATCTATT
* * *
56149350 CCACTGCAACGCCAGGGAAATAAGATTTGCTACCTTTAGCTTTAATATGTTCCACTGCAACGCCA
130 CCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATATGTTCCACTGCAAAGCCA
56149415 GAGAAATAATATTCGTTGCCTTCAA
195 GAGAAATAATATTCGTTGCCTTCAA
56149440 TCTGCTGCAC
Statistics
Matches: 196, Mismatches: 23, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
260 41 0.21
261 155 0.79
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (260 bp):
ATCTGCTCCGCTGCAACGAAAGGGAAACAAGATTCACTACCTTTAACTTAATATGTTCCACTGTA
ACGCCAAGGAGATAGGATTCGCTACCTTCAGCTTTAATCCGCCCCACTTCAGCTTTAATCTATTC
CACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATATGTTCCACTGCAAAGCCAG
AGAAATAATATTCGTTGCCTTCAACTTTAACGCTAGGGAGATAAGATTTGCTACCTTCAACTTTA
Found at i:56150693 original size:19 final size:19
Alignment explanation
Indices: 56150666--56150711 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
56150656 TCACCTTGGC
*
56150666 TTCTCTTTTTTCTTTTTCTT
1 TTCT-TTTTTTCTTCTTCTT
56150686 TTCTTTTTTTCTTCTTCTT
1 TTCTTTTTTTCTTCTTCTT
56150705 TT-TTTTT
1 TTCTTTTT
56150712 GAAATATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 5 0.20
19 16 0.64
20 4 0.16
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (19 bp):
TTCTTTTTTTCTTCTTCTT
Found at i:56150700 original size:16 final size:16
Alignment explanation
Indices: 56150665--56150711 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
56150655 TTCACCTTGG
56150665 CTTC-TCTTTTTTCTTT
1 CTTCTTCTTTTTT-TTT
56150681 -TTCTT-TTCTTTTTTT
1 CTTCTTCTT-TTTTTTT
56150696 CTTCTTCTTTTTTTTT
1 CTTCTTCTTTTTTTTT
56150712 GAAATATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
15 8 0.30
16 17 0.63
17 2 0.07
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (16 bp):
CTTCTTCTTTTTTTTT
Found at i:56150703 original size:14 final size:13
Alignment explanation
Indices: 56150669--56150709 Score: 57
Period size: 13 Copynumber: 3.1 Consensus size: 13
56150659 CCTTGGCTTC
56150669 TCTTTT-TTCTTTT
1 TCTTTTCTT-TTTT
56150682 TCTTTTCTTTTTT
1 TCTTTTCTTTTTT
56150695 TCTTCTTCTTTTTT
1 TCTT-TTCTTTTTT
56150709 T
1 T
56150710 TTGAAATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 14 0.54
14 12 0.46
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (13 bp):
TCTTTTCTTTTTT
Found at i:56155698 original size:221 final size:219
Alignment explanation
Indices: 56155280--56155719 Score: 729
Period size: 221 Copynumber: 2.0 Consensus size: 219
56155270 CTTCTATCTC
* *
56155280 GAGATAACAAAATATCACATCCAGTAAGTTAGGATACAATACCTCGAATCCTCGAGAATAAACTT
1 GAGATAACAAAATATCACATCCAATAAGTTAGGATACAACACCTCGAATCCTCGAGAATAAACTT
*
56155345 TTTTTTATTTTTTTATTCCAATACTCACGTATTTTAATTTTAAAAGGATATCCAGTCATTCAGGT
66 TTTTTTATTTTTTTATTCCAATACTCACATATTTTAATTTTAAAAGGATATCCAGTCATTCAGGT
*
56155410 TCAACGAAAAAAATCAGAACCCAGTAAGTTAGGGCACGACTTCTCGCATTTCTAAATACCGAACA
131 TCAACGAAAAAAATCAGAACCCAGTAAGTTAGGGCACGACTTCTCGCATTTCTAAATACCAAACA
56155475 TTGCCTTATTTTGGAAATTTTCTT
196 TTGCCTTATTTTGGAAATTTTCTT
* * *
56155499 GAGATAACAAGATGTCACGTCCAATAAGTTAGGATACAACACCTCGAATCCTCGAGAATAAACTT
1 GAGATAACAAAATATCACATCCAATAAGTTAGGATACAACACCTCGAATCCTCGAGAATAAACTT
* * * *
56155564 TTCTTTTATTTTTTTATTCTAATACTCACATATTTTAATTTTAAAAGGATATTCGGTCATTTAGG
66 TT-TTTTATTTTTTTATTCCAATACTCACATATTTTAATTTTAAAAGGATATCCAGTCATTCAGG
* *
56155629 TTCAATGAGAAAAAATC-GAAACCCAGTAAGTTAGGGCACGACTTCTCGCATTTCTAAATATCAA
130 TTCAACGA-AAAAAATCAG-AACCCAGTAAGTTAGGGCACGACTTCTCGCATTTCTAAATACCAA
56155693 ACATTGCCTTATTTTGGAAATTTTCTT
193 ACATTGCCTTATTTTGGAAATTTTCTT
56155720 TATTATAAAA
Statistics
Matches: 205, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
219 62 0.30
220 65 0.32
221 78 0.38
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.35
Consensus pattern (219 bp):
GAGATAACAAAATATCACATCCAATAAGTTAGGATACAACACCTCGAATCCTCGAGAATAAACTT
TTTTTTATTTTTTTATTCCAATACTCACATATTTTAATTTTAAAAGGATATCCAGTCATTCAGGT
TCAACGAAAAAAATCAGAACCCAGTAAGTTAGGGCACGACTTCTCGCATTTCTAAATACCAAACA
TTGCCTTATTTTGGAAATTTTCTT
Found at i:56156752 original size:41 final size:41
Alignment explanation
Indices: 56156654--56156759 Score: 135
Period size: 41 Copynumber: 2.6 Consensus size: 41
56156644 ATTTCCCCCA
* * *
56156654 AAATCGCG-CCACGTCGGAGCGATGTCAGGGGACGGGGCAG
1 AAATCGCGTCCACGTCAGCGCGATGTCAGGGGACGGCGCAG
* *
56156694 AAGGTCGCGTCCACGTCAGCGCGATGTCAGGGTAC-GCGCAGG
1 AA-ATCGCGTCCACGTCAGCGCGATGTCAGGGGACGGCGCA-G
56156736 AAATCGCGTCCACGTCAGCGCGAT
1 AAATCGCGTCCACGTCAGCGCGAT
56156760 TTGCTGACGT
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
40 2 0.04
41 30 0.53
42 25 0.44
ACGTcount: A:0.22, C:0.28, G:0.37, T:0.13
Consensus pattern (41 bp):
AAATCGCGTCCACGTCAGCGCGATGTCAGGGGACGGCGCAG
Found at i:56158666 original size:19 final size:17
Alignment explanation
Indices: 56158624--56158667 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 17
56158614 TAATTATTTC
*
56158624 TTATTATTGTATTCGTT
1 TTATTATTGTATTCATT
*
56158641 ATATTATTGTCATTTCATT
1 TTATTATTGT-A-TTCATT
56158660 TTATTATT
1 TTATTATT
56158668 TATGTTGTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 9 0.41
18 1 0.05
19 12 0.55
ACGTcount: A:0.23, C:0.07, G:0.07, T:0.64
Consensus pattern (17 bp):
TTATTATTGTATTCATT
Found at i:56161386 original size:23 final size:24
Alignment explanation
Indices: 56161345--56161396 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
56161335 TATTATTTTA
56161345 ATTTTAATTTTTAAAATTTTAATC
1 ATTTTAATTTTTAAAATTTTAATC
* *
56161369 ATTTT-ATTTTTCAGATTTTAA--
1 ATTTTAATTTTTAAAATTTTAATC
56161390 ATTTTAA
1 ATTTTAA
56161397 ATTTAACTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 5 0.20
22 1 0.04
23 14 0.56
24 5 0.20
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (24 bp):
ATTTTAATTTTTAAAATTTTAATC
Found at i:56169693 original size:20 final size:21
Alignment explanation
Indices: 56169668--56169708 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
56169658 ATATATGTAC
56169668 ATATATA-AGTTAT-AAAATAA
1 ATATATAGA-TTATGAAAATAA
56169688 ATATATAGATTATGAAAATAA
1 ATATATAGATTATGAAAATAA
56169709 TGATTATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (21 bp):
ATATATAGATTATGAAAATAA
Found at i:56171442 original size:45 final size:45
Alignment explanation
Indices: 56171391--56171511 Score: 145
Period size: 45 Copynumber: 2.7 Consensus size: 45
56171381 TCAGTTTGCC
* *
56171391 CCACTGCAAT-TTCAGGGGGATAAGACTTGCTTTCTTGAGTCTGCT
1 CCACTGC-ATCTTCAGGGAGATAAGACTTGCTTTCTTGAGTCTACT
* * * *
56171436 CCACTGCATCTTCAGGGAAATAAGACTCGTTTTCTTGGGTCTACT
1 CCACTGCATCTTCAGGGAGATAAGACTTGCTTTCTTGAGTCTACT
* * *
56171481 CCACTACATCTTCAAGGAGATAAGACATGCT
1 CCACTGCATCTTCAGGGAGATAAGACTTGCT
56171512 ATGATCTACT
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
44 2 0.03
45 61 0.97
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.31
Consensus pattern (45 bp):
CCACTGCATCTTCAGGGAGATAAGACTTGCTTTCTTGAGTCTACT
Found at i:56171602 original size:44 final size:43
Alignment explanation
Indices: 56171554--56171808 Score: 212
Period size: 44 Copynumber: 5.9 Consensus size: 43
56171544 GATCTATCAT
* * * *
56171554 TTTAATCCGCTCCACTGCAACTTCATGGAGATAGGATTATTGGC
1 TTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTATT-GC
* * *
56171598 TTTAATCTACTCCACTACAACCTCA-GGAGATAAGATT-TTCC
1 TTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTATTGC
** * * *
56171639 ATCTTGGGTCTGCTCCACTGCAACTTCAGGGAGATAAGA--CTTGA
1 -T-TT-AATCTGCTCCACTACAACTTCAGGGAGATAAGATTATTGC
* * ** ** * **
56171683 TATGATCTAATATACTACAACTTCAGAGAGATAAGATTTATCAC
1 TTTAATCTGCTCCACTACAACTTCAGGGAGATAAGA-TTATTGC
* *
56171727 TTTAATCTGCTCCACTATAACTTCAGGGAGATAGGATTATTGGC
1 TTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTATT-GC
*
56171771 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
1 TTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATT
56171809 CGCCATCTTC
Statistics
Matches: 163, Mismatches: 39, Indels: 18
0.74 0.18 0.08
Matches are distributed among these distances:
41 27 0.17
42 4 0.02
43 18 0.11
44 104 0.64
45 10 0.06
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (43 bp):
TTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTATTGC
Found at i:56171741 original size:173 final size:172
Alignment explanation
Indices: 56171468--56171855 Score: 490
Period size: 173 Copynumber: 2.2 Consensus size: 172
56171458 AGACTCGTTT
* * * * * * * * *
56171468 TCTTGGGTCTACTCCACTACATCTTCAAGGAGATAAGACATGCTATGATCTACTCTTTGCAACTT
1 TCTTGGGTCTGCTCCACTGCAACTTC-AGGAGATAAGACTTGATATGATCTAATATCTACAACTT
* * *
56171533 CAAAAAGATAAGATCTATCATTTTAATCCGCTCCACTGCAACTTCATGGAGATAGGATTATTGGC
65 CAAAAAGATAAGATCTATCACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATTGGC
**
56171598 TTTAATCTACTCCACTACAACCTCA-GGAGATAAGATTTTCCA
130 TTTAATCTACTCCACTACAACCTCAGGGAGATAAGATTCGCCA
56171640 TCTTGGGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGATATGATCTAATATACTACAACT
1 TCTTGGGTCTGCTCCACTGCAACTTCA-GGAGATAAGACTTGATATGATCTAATAT-CTACAACT
* * * * *
56171705 TCAGAGAGATAAGATTTATCACTTTAATCTGCTCCACTATAACTTCAGGGAGATAGGATTATTGG
64 TCAAAAAGATAAGATCTATCACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATTGG
* * *
56171770 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCA
129 CTTTAATCTACTCCACTACAACCTCAGGGAGATAAGATTCGCCA
** * * *
56171814 TCTTCAGTCTGCCCCACCGCAACTTCAGAAGGATAAGACTTG
1 TCTTGGGTCTGCTCCACTGCAACTTCAGGA-GATAAGACTTG
56171856 CTTACCTGAG
Statistics
Matches: 185, Mismatches: 27, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
171 1 0.01
172 47 0.25
173 88 0.48
174 49 0.26
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (172 bp):
TCTTGGGTCTGCTCCACTGCAACTTCAGGAGATAAGACTTGATATGATCTAATATCTACAACTTC
AAAAAGATAAGATCTATCACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATTGGCT
TTAATCTACTCCACTACAACCTCAGGGAGATAAGATTCGCCA
Found at i:56171742 original size:85 final size:85
Alignment explanation
Indices: 56171479--56171759 Score: 262
Period size: 85 Copynumber: 3.3 Consensus size: 85
56171469 CTTGGGTCTA
* * * * * * *
56171479 CTCCACTACATCTTCAAGGAGATAAGACATGCTATGATCTACTCT-TTGCAACTTCAAAAAGATA
1 CTCCACTACAACTTCAGGGAGATAAGACTTGCTATGATCTACTCTACTACAACTTCAGAGAGATA
* * *
56171543 AGATCTATCATTTTAATCCG
66 AGATTTATCACTTTAATCTG
* * * * * * * *
56171563 CTCCACTGCAACTTCATGGAGATAGGATTATTGGCTTTAATCTACTCCACTACAACCTCAG-GAG
1 CTCCACTACAACTTCAGGGAGATAAGA--CTT-GCTATGATCTACTCTACTACAACTTCAGAGAG
***
56171627 ATAAGATTT-TCCATCTTGGGTCTG
63 ATAAGATTTAT-CA-CTTTAATCTG
* * * *
56171651 CTCCACTGCAACTTCAGGGAGATAAGACTTGATATGATCTAATATACTACAACTTCAGAGAGATA
1 CTCCACTACAACTTCAGGGAGATAAGACTTGCTATGATCTACTCTACTACAACTTCAGAGAGATA
56171716 AGATTTATCACTTTAATCTG
66 AGATTTATCACTTTAATCTG
*
56171736 CTCCACTATAACTTCAGGGAGATA
1 CTCCACTACAACTTCAGGGAGATA
56171760 GGATTATTGG
Statistics
Matches: 154, Mismatches: 35, Indels: 15
0.75 0.17 0.07
Matches are distributed among these distances:
84 23 0.15
85 50 0.32
86 18 0.12
87 25 0.16
88 38 0.25
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (85 bp):
CTCCACTACAACTTCAGGGAGATAAGACTTGCTATGATCTACTCTACTACAACTTCAGAGAGATA
AGATTTATCACTTTAATCTG
Found at i:56172746 original size:25 final size:26
Alignment explanation
Indices: 56172717--56172765 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
56172707 AGTGTCTTGA
56172717 AAAGAAAAAAATATT-CAAGAACAGC
1 AAAGAAAAAAATATTGCAAGAACAGC
* *
56172742 AAAGAATAAAGTATTGCAAGAACA
1 AAAGAAAAAAATATTGCAAGAACA
56172766 AACAAATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.61, C:0.10, G:0.14, T:0.14
Consensus pattern (26 bp):
AAAGAAAAAAATATTGCAAGAACAGC
Found at i:56184220 original size:12 final size:12
Alignment explanation
Indices: 56184203--56184248 Score: 74
Period size: 12 Copynumber: 3.7 Consensus size: 12
56184193 ATATAGATTA
56184203 TAAAATATGTAT
1 TAAAATATGTAT
56184215 TAAAATATAAGTAT
1 TAAAATAT--GTAT
56184229 TAAAATATGTAT
1 TAAAATATGTAT
56184241 TAAAATAT
1 TAAAATAT
56184249 ATAGATTATG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
12 20 0.62
14 12 0.38
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (12 bp):
TAAAATATGTAT
Found at i:56184256 original size:26 final size:26
Alignment explanation
Indices: 56184191--56184256 Score: 98
Period size: 26 Copynumber: 2.5 Consensus size: 26
56184181 ATATATAGAT
56184191 ATATATAGATTATAAAATATGTATTAAA
1 ATATATAGA-T-TAAAATATGTATTAAA
56184219 ATATA-AGTATTAAAATATGTATTAAA
1 ATATATAG-ATTAAAATATGTATTAAA
56184245 ATATATAGATTA
1 ATATATAGATTA
56184257 TGAAATTAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
26 25 0.69
27 5 0.14
28 6 0.17
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (26 bp):
ATATATAGATTAAAATATGTATTAAA
Found at i:56187742 original size:17 final size:17
Alignment explanation
Indices: 56187720--56187755 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
56187710 ATGAATTAGG
*
56187720 TATTTGATTAATATCAA
1 TATTTGATTAACATCAA
56187737 TATTTGATTAACATCAA
1 TATTTGATTAACATCAA
56187754 TA
1 TA
56187756 AATTTATGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (17 bp):
TATTTGATTAACATCAA
Found at i:56188601 original size:15 final size:16
Alignment explanation
Indices: 56188573--56188610 Score: 69
Period size: 15 Copynumber: 2.4 Consensus size: 16
56188563 TTTCCATCAT
56188573 ATTTGTTGTTAATTTC
1 ATTTGTTGTTAATTTC
56188589 ATTTGTT-TTAATTTC
1 ATTTGTTGTTAATTTC
56188604 ATTTGTT
1 ATTTGTT
56188611 AAAATATCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 15 0.68
16 7 0.32
ACGTcount: A:0.18, C:0.05, G:0.11, T:0.66
Consensus pattern (16 bp):
ATTTGTTGTTAATTTC
Found at i:56192588 original size:90 final size:90
Alignment explanation
Indices: 56192338--56192606 Score: 286
Period size: 90 Copynumber: 3.0 Consensus size: 90
56192328 AACCACGAAA
* * * * * *
56192338 ATTGTAGGTTAATACACTGACAAATGGTTGTGAATGCGCAACTTATTTGGAAATGAAAGCTGCCA
1 ATTGTAGGTTAATACACTGACAGATGGTTGTGAATGCACAACATATTTGCAGATAAAAGCTGCCA
** *
56192403 GAATGTGGGCGGATGAACCACCAGT
66 GAAAATGGGTGGATGAACCACCAGT
* * ** * * ** *
56192428 GTTGCAGGTTAATATGCTGCCAGATGGTTATGAATGCACAATGTATTTGTAGATAAAAGCTGCCA
1 ATTGTAGGTTAATACACTGACAGATGGTTGTGAATGCACAACATATTTGCAGATAAAAGCTGCCA
*
56192493 GAAAATGGGTGGATGAACCACTAGT
66 GAAAATGGGTGGATGAACCACCAGT
* * * **
56192518 ATTGTAGGTTAATACACAGTCAGATAGTTGTGAATGCACAACATATTTGCAGATAAAAGCTATCA
1 ATTGTAGGTTAATACACTGACAGATGGTTGTGAATGCACAACATATTTGCAGATAAAAGCTGCCA
* ** *
56192583 AAAAATCTGTGGATGAACTACCAG
66 GAAAATGGGTGGATGAACCACCAG
56192607 AGTTGCGTAT
Statistics
Matches: 144, Mismatches: 35, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
90 144 1.00
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (90 bp):
ATTGTAGGTTAATACACTGACAGATGGTTGTGAATGCACAACATATTTGCAGATAAAAGCTGCCA
GAAAATGGGTGGATGAACCACCAGT
Found at i:56196412 original size:24 final size:22
Alignment explanation
Indices: 56196368--56196410 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
56196358 ACATGCATAC
*
56196368 ATTTTTATAATATACGTATATT
1 ATTTTTATAATATACATATATT
* *
56196390 ATTTTTATAATTTATATATAT
1 ATTTTTATAATATACATATAT
56196411 ATACACGTAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (22 bp):
ATTTTTATAATATACATATATT
Found at i:56196466 original size:12 final size:12
Alignment explanation
Indices: 56196449--56196483 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
56196439 TTTTATAATT
56196449 TATATACATATC
1 TATATACATATC
*
56196461 TATATATATATC
1 TATATACATATC
56196473 TATATACATAT
1 TATATACATAT
56196484 TTTTAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (12 bp):
TATATACATATC
Found at i:56196561 original size:95 final size:95
Alignment explanation
Indices: 56196403--56196588 Score: 234
Period size: 95 Copynumber: 1.9 Consensus size: 95
56196393 TTTATAATTT
*
56196403 ATATATATATACACGTACTTATATATATATTTTATATTTTATAATTTATATACATATCTATATAT
1 ATATATATATACAC-TACTTATATATATATTTTATATCTTATAATTTATATACATATCTATATAT
56196468 ATATCTATATACATATTTT-TAATTTTCATAA
65 ATATCTATATACAT-TTTTATAATTTTCATAA
* * * * * *
56196499 ATATATATATACA-TGCTTATATTTTTTTTATTATATCTTATAATTTATATATATGTAC-ATATA
1 ATATATATATACACTACTTATATATATATT-TTATATCTTATAATTTATATACATAT-CTATATA
* *
56196562 TATATCTTTTTACATTTTTATAATTTT
64 TATATCTATATACATTTTTATAATTTT
56196589 ATTCATTTTC
Statistics
Matches: 78, Mismatches: 9, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
94 16 0.21
95 48 0.62
96 14 0.18
ACGTcount: A:0.37, C:0.08, G:0.02, T:0.54
Consensus pattern (95 bp):
ATATATATATACACTACTTATATATATATTTTATATCTTATAATTTATATACATATCTATATATA
TATCTATATACATTTTTATAATTTTCATAA
Found at i:56197993 original size:29 final size:30
Alignment explanation
Indices: 56197951--56198020 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 30
56197941 TAGGCCTTTA
*
56197951 GCGGGGCTTTTTA-GCCGCTAAAAGTATTT
1 GCGGGGCTTTTTACGCCGCTAAAAATATTT
56197980 GCGGGGCTTTTTAGCGCCGCTAAAAATATTT
1 GCGGGGCTTTTTA-CGCCGCTAAAAATATTT
*
56198011 GCGGCGCTTT
1 GCGGGGCTTT
56198021 GCTAAATAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
29 13 0.35
31 24 0.65
ACGTcount: A:0.19, C:0.20, G:0.29, T:0.33
Consensus pattern (30 bp):
GCGGGGCTTTTTACGCCGCTAAAAATATTT
Found at i:56198089 original size:43 final size:43
Alignment explanation
Indices: 56198021--56198260 Score: 279
Period size: 43 Copynumber: 5.6 Consensus size: 43
56198011 GCGGCGCTTT
* * * *
56198021 GCTAAATAACAAGACCTTTAACGGCGCTTTTCCCACAAACGCC
1 GCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCACAAACGCC
* * *
56198064 GCTAAAGACCAAGACCATTAGCGGCGCTTCTT-TCACAAATGCC
1 GCTAAAGACCAAGACCTTTAGCGGCGCTT-TTACCACAAACGCC
*
56198107 GTTAAAGA-CAATGACCTTTAGCGGCGCTTTTACCACAAACGCC
1 GCTAAAGACCAA-GACCTTTAGCGGCGCTTTTACCACAAACGCC
* * *
56198150 ACTAAAGACCAAGACCATTAGCGGCGCTTTTATCACAAACGCC
1 GCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCACAAACGCC
* * * *
56198193 ACTAAAGACAAACACCTTTAGCGACGCTTTT-CCTACAAACGCC
1 GCTAAAGACCAAGACCTTTAGCGGCGCTTTTACC-ACAAACGCC
* *
56198236 GCTAAAGACCATGATCTTTAGCGGC
1 GCTAAAGACCAAGACCTTTAGCGGC
56198261 TTTTGTGCGG
Statistics
Matches: 167, Mismatches: 25, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
42 6 0.04
43 156 0.93
44 5 0.03
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.21
Consensus pattern (43 bp):
GCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCACAAACGCC
Found at i:56198170 original size:86 final size:84
Alignment explanation
Indices: 56198029--56198260 Score: 313
Period size: 86 Copynumber: 2.7 Consensus size: 84
56198019 TTGCTAAATA
*
56198029 ACAAGACCTTTAACGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGACCATTAGCGGCGCTTC
1 ACAAGACCTTTAGCGGCGCTTTT-CCACAAACGCCGCTAAAGACCAAGACCATTAGCGGCGCTT-
* **
56198094 TT-TCACAAATGCCGTTAAAG
64 TTATCACAAACGCCACTAAAG
*
56198114 ACAATGACCTTTAGCGGCGCTTTTACCACAAACGCCACTAAAGACCAAGACCATTAGCGGCGCTT
1 ACAA-GACCTTTAGCGGCGCTTTT-CCACAAACGCCGCTAAAGACCAAGACCATTAGCGGCGCTT
56198179 TTATCACAAACGCCACTAAAG
64 TTATCACAAACGCCACTAAAG
* * * * *
56198200 ACAAACACCTTTAGCGACGCTTTTCCTACAAACGCCGCTAAAGACCATGATCTTTAGCGGC
1 AC-AAGACCTTTAGCGGCGCTTTTCC-ACAAACGCCGCTAAAGACCAAGACCATTAGCGGC
56198261 TTTTGTGCGG
Statistics
Matches: 131, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
85 8 0.06
86 121 0.92
87 2 0.02
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.21
Consensus pattern (84 bp):
ACAAGACCTTTAGCGGCGCTTTTCCACAAACGCCGCTAAAGACCAAGACCATTAGCGGCGCTTTT
ATCACAAACGCCACTAAAG
Found at i:56198701 original size:43 final size:43
Alignment explanation
Indices: 56198639--56198724 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
56198629 ACATATGCAA
*
56198639 GGTAATAAAACATACAATACATTT-TCTTAATCAAGTAAATCTT
1 GGTAATAAAACATACAATACATTTAT-TTAATCAAGGAAATCTT
* *
56198682 GGTAATAAAAGATATAATACATTTATTTAATCAAGGAAATCTT
1 GGTAATAAAACATACAATACATTTATTTAATCAAGGAAATCTT
56198725 ATAATGAACT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
43 38 0.97
44 1 0.03
ACGTcount: A:0.45, C:0.10, G:0.09, T:0.35
Consensus pattern (43 bp):
GGTAATAAAACATACAATACATTTATTTAATCAAGGAAATCTT
Found at i:56201929 original size:148 final size:148
Alignment explanation
Indices: 56201660--56202058 Score: 584
Period size: 148 Copynumber: 2.7 Consensus size: 148
56201650 CCGCTATCTG
* ** * *
56201660 TTTTGCTATGTTAAAAGGGCATTA-TTTTTTAAAATAAAATTATTTTTTTGTGGTGTTTTTTTAT
1 TTTTGCTATGCTAAAAGGGCGCTATTTTTTTAAAGTAAAATTA-TTTTTTGTAGTG-TTTTTTAT
* * * * ***
56201724 AAAAACGTCGCTATTGCTTATCTTTTACGGCATTTTTCATAAAAATGTTTCAAAAAATTATTTTA
64 AAAAACGCCGCTATTGCTTATCTTTTGCGGCGTTTTTCATAAAAACGCCGCAAAAAATTATTTTA
*
56201789 TTTGGAATAAAACGATACTA
129 TTTGGAATAAAACGACACTA
56201809 TTTTGCTATGCTAAAAGGGCGCTATTTTTTTAAAGTAAAATTATTTTTTGTAGTGTTTTTTATAA
1 TTTTGCTATGCTAAAAGGGCGCTATTTTTTTAAAGTAAAATTATTTTTTGTAGTGTTTTTTATAA
* *
56201874 AAACGCCGCTATTGCTTACCTTTTGCGGCGTTTTTCATGAAAACGCCGCAAAAAATTATTTTATT
66 AAACGCCGCTATTGCTTATCTTTTGCGGCGTTTTTCATAAAAACGCCGCAAAAAATTATTTTATT
* *
56201939 TGGAATAAAACGACATTG
131 TGGAATAAAACGACACTA
* *
56201957 TTTTGCTATACTAAAAGGGCGCTATTTTTTTAAAGTAAAATTATTTTTTGTGACGTTTTTTTTAT
1 TTTTGCTATGCTAAAAGGGCGCTATTTTTTTAAAGTAAAATTATTTTTTGT-A-GTGTTTTTTAT
56202022 AAAAACGCCGCTATTGCTTATCTTTTGCGGCGTTTTT
64 AAAAACGCCGCTATTGCTTATCTTTTGCGGCGTTTTT
56202059 AAAATTATTT
Statistics
Matches: 227, Mismatches: 20, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
148 131 0.58
149 33 0.15
150 63 0.28
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.45
Consensus pattern (148 bp):
TTTTGCTATGCTAAAAGGGCGCTATTTTTTTAAAGTAAAATTATTTTTTGTAGTGTTTTTTATAA
AAACGCCGCTATTGCTTATCTTTTGCGGCGTTTTTCATAAAAACGCCGCAAAAAATTATTTTATT
TGGAATAAAACGACACTA
Found at i:56202984 original size:28 final size:29
Alignment explanation
Indices: 56202923--56202985 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 29
56202913 CCTCGAATCT
* * *
56202923 CTAAACCCTAAATCACTAACTCTTATCCC
1 CTAAACCCTAAACCACTAACACTTAACCC
*
56202952 C-AAACCCTAAACCCCTAACAC-TAACCC
1 CTAAACCCTAAACCACTAACACTTAACCC
56202979 CTAAACC
1 CTAAACC
56202986 TTATTTAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 6 0.21
28 22 0.76
29 1 0.03
ACGTcount: A:0.38, C:0.43, G:0.00, T:0.19
Consensus pattern (29 bp):
CTAAACCCTAAACCACTAACACTTAACCC
Found at i:56204626 original size:40 final size:39
Alignment explanation
Indices: 56204514--56204636 Score: 131
Period size: 40 Copynumber: 3.1 Consensus size: 39
56204504 TTTGTGGCGC
* * *
56204514 TTTTTAGAAAA-CACCGCTAATGCTTATTTTTAGCAGTG
1 TTTTTAGAAAAGCGCAGCTAATGCTTATTTTTAGCAGCG
* * **
56204552 TTTTTCGAAAAGCGCCGCTAATGCTCTACCTTTAGCAGCG
1 TTTTTAGAAAAGCGCAGCTAATGCT-TATTTTTAGCAGCG
* **
56204592 TTTTTATAAAAGCGCAGCTAATGCTTGATTTTTAGTGGCG
1 TTTTTAGAAAAGCGCAGCTAATGCTT-ATTTTTAGCAGCG
56204632 TTTTT
1 TTTTT
56204637 TGCCCAAACG
Statistics
Matches: 70, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
38 10 0.14
39 13 0.19
40 47 0.67
ACGTcount: A:0.24, C:0.18, G:0.19, T:0.39
Consensus pattern (39 bp):
TTTTTAGAAAAGCGCAGCTAATGCTTATTTTTAGCAGCG
Found at i:56214437 original size:44 final size:45
Alignment explanation
Indices: 56214383--56214505 Score: 203
Period size: 45 Copynumber: 2.8 Consensus size: 45
56214373 AAGAAAGAGG
*
56214383 ACCAAGGTGAAAACCCACAAAGGGCACTTTGAGTTCT-AAAAAAA
1 ACCAAGGTGAAAACCCACAAAGGGCGCTTTGAGTTCTAAAAAAAA
*
56214427 ACCAATGTGAAAACCCACAAAGGGCGCTTTGAGTTCTAAAAAAAA
1 ACCAAGGTGAAAACCCACAAAGGGCGCTTTGAGTTCTAAAAAAAA
* *
56214472 ACCAAGGTGAAAACCCGCAAAGAGCGCTTTGAGT
1 ACCAAGGTGAAAACCCACAAAGGGCGCTTTGAGT
56214506 CCAAAAGATG
Statistics
Matches: 73, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
44 35 0.48
45 38 0.52
ACGTcount: A:0.42, C:0.21, G:0.20, T:0.16
Consensus pattern (45 bp):
ACCAAGGTGAAAACCCACAAAGGGCGCTTTGAGTTCTAAAAAAAA
Found at i:56216368 original size:45 final size:45
Alignment explanation
Indices: 56216271--56216444 Score: 167
Period size: 45 Copynumber: 3.9 Consensus size: 45
56216261 TGAAGAAAGT
* * * * *
56216271 AAGTCTTATCCCCCTGAAGTTGCAGTGGGGCAAATTGAAG-ATGAC
1 AAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGCA-AAC
* *
56216316 AAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGCCAAC
1 AAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGCAAAC
* * *
56216361 AAGTCTTATCTCCCTCAAGATGCAATGGAGCAGACTG-A-CTAAACC
1 AAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGC-AAA-C
* * **
56216406 AA-TCTTATCTCTCTGAAGTTGCAGTATAGCAGATTGAAG
1 AAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAG
56216445 TTACTAATCC
Statistics
Matches: 105, Mismatches: 19, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
43 1 0.01
44 30 0.29
45 74 0.70
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (45 bp):
AAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGCAAAC
Found at i:56216653 original size:51 final size:51
Alignment explanation
Indices: 56216553--56216653 Score: 141
Period size: 51 Copynumber: 2.0 Consensus size: 51
56216543 TATCCCATTG
* * * *
56216553 GCATTACAGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTA
1 GCATTACAGCGGAACAGATTAAAGCTAAAGGCAGCGAATCTTATCTCCCTA
*
56216604 GCATTACAGCGGAGCAGATTAAAGCTGAAA-GCAGCGAATCTTATCTCCCT
1 GCATTACAGCGGAACAGATTAAAGCT-AAAGGCAGCGAATCTTATCTCCCT
56216654 GGCGTTAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
51 41 0.93
52 3 0.07
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.25
Consensus pattern (51 bp):
GCATTACAGCGGAACAGATTAAAGCTAAAGGCAGCGAATCTTATCTCCCTA
Found at i:56216729 original size:45 final size:45
Alignment explanation
Indices: 56216678--56217099 Score: 261
Period size: 44 Copynumber: 9.6 Consensus size: 45
56216668 AGAAAGTAAG
* * *
56216678 TCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGAA-AA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAA-ATGAAACAA
* * *
56216723 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGA-TTAAA-GCCAACAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAATG-AAACAA
* * *
56216767 GTCTTATCTCCCTGAAGTTGCAGAGGAGCAAACT-AACT-AAACCAA
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAATGAAA-CAA
* **
56216812 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-AA-GTTACTAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAATGAAAC-AA
* * * * * * * ***
56216856 TCCTACCTCCCTAAAGTTGTAGTGGAGCGGATTAAAATG-ATGGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAATGAAACAA
* * * * * **
56216900 TATTATCTCTCT-AGAGATGCAGTAGAGCAGA-TCG---CG-TCCAA
1 TCTTATCTCCCTGA-AGTTGCAGTGGAGCAGACT-GAAATGAAACAA
* * *
56216941 TCTTATCCCCCTGAAGTTGCAGTGGAGCAGA-TTAAA-GCCAACAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAATG-AAACAA
* * * * *
56216985 GTCTTATCTTCCTGAAGTTGTAGTAGAGCAGACTG-ACTGAACCAA
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAATGAAACAA
*
56217030 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-AAT-AAACCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAATGAAA-CAA
* *
56217074 TCCTATCTCCCTGAAGTTACAGTGGA
1 TCTTATCTCCCTGAAGTTGCAGTGGA
56217100 ACGAATTAAA
Statistics
Matches: 290, Mismatches: 64, Indels: 47
0.72 0.16 0.12
Matches are distributed among these distances:
41 27 0.09
42 3 0.01
43 8 0.03
44 153 0.53
45 95 0.33
46 4 0.01
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (45 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAATGAAACAA
Found at i:56216851 original size:404 final size:403
Alignment explanation
Indices: 56216147--56216908 Score: 1242
Period size: 404 Copynumber: 1.9 Consensus size: 403
56216137 TCTAATCTCC
* * * * *
56216147 TTGGCGTTACAGTGGAACAGATTAAAGCTAAATGTAGTGAATCTTGTTTCCCTGGCATTGCAGCG
1 TTGGCATTACAGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTAGCATTACAGCG
*
56216212 GAGCCGATTAAAGCTGAAGCACCAAATCTTATCTCCCTGGCATTAAAATTGAAGAAAGTAAGTCT
66 GAGCAGATTAAAGCTGAAGCACCAAATCTTATCTCCCTGGCATTAAAATTGAAGAAAGTAAGTCT
*
56216277 TATCCCCCTGAAGTTGCAGTGGGGCAAATTGAAGATGACAAATCTTATCTCCCTGAAGTTGCAAT
131 TATCCCCCTGAAGTTGCAGTGGGGCAAACTGAAGATGACAAATCTTATCTCCCTGAAGTTGCAAT
* * *
56216342 GGAGCAGATTGAAGCCAACAAGTCTTATCTCCCTCAAGATGCAATGGAGCAGACTGACTAAACCA
196 GGAGCAGATTAAAGCCAACAAGTCTTATCTCCCTCAAGATGCAATGGAGCAAACTAACTAAACCA
* * * *
56216407 ATCTTATCTCTCTGAAGTTGCAGTATAGCAGATTGAAGTTACTAATCCTACCTTCCTGAAGTTGC
261 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGTTACTAATCCTACCTCCCTAAAGTTGC
56216472 AGTGGAACGGATTAAAATGATGGATCA-TATCTCCCTGAAGTTGTAGTGGAGTGGATTGAATACA
326 AGTGGAACGGATTAAAATGATGGAT-ATTATCTCCCTGAAGTTGTAGTGGAGTGGATTGAATACA
56216536 CCAGACTTATCCCA
390 CCAGACTTATCCCA
56216550 TTGGCATTACAGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTAGCATTACAGCG
1 TTGGCATTACAGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTAGCATTACAGCG
* * *
56216615 GAGCAGATTAAAGCTGAAAGCAGCGAATCTTATCTCCCTGGCGTTAAAATTGAAGAAAGTAAGTC
66 GAGCAGATTAAAGCTG-AAGCACCAAATCTTATCTCCCTGGCATTAAAATTGAAGAAAGTAAGTC
* *
56216680 TTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGA-AAATCTTATCTCCCTGAAGTTGTA
130 TTATCCCCCTGAAGTTGCAGTGGGGCAAACTGAAGAT-GACAAATCTTATCTCCCTGAAGTTGCA
* * *
56216744 GTGGAGCAGATTAAAGCCAACAAGTCTTATCTCCCTGAAGTTGCAGA-GGAGCAAACTAACTAAA
194 ATGGAGCAGATTAAAGCCAACAAGTCTTATCTCCCTCAAGATGCA-ATGGAGCAAACTAACTAAA
*
56216808 CCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACTAATCCTACCTCCCTAAAGT
258 CCAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGTTACTAATCCTACCTCCCTAAAGT
* *
56216873 TGTAGTGGAGCGGATTAAAATGATGGATATTATCTC
323 TGCAGTGGAACGGATTAAAATGATGGATATTATCTC
56216909 TCTAGAGATG
Statistics
Matches: 330, Mismatches: 25, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
403 76 0.23
404 251 0.76
405 3 0.01
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (403 bp):
TTGGCATTACAGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTAGCATTACAGCG
GAGCAGATTAAAGCTGAAGCACCAAATCTTATCTCCCTGGCATTAAAATTGAAGAAAGTAAGTCT
TATCCCCCTGAAGTTGCAGTGGGGCAAACTGAAGATGACAAATCTTATCTCCCTGAAGTTGCAAT
GGAGCAGATTAAAGCCAACAAGTCTTATCTCCCTCAAGATGCAATGGAGCAAACTAACTAAACCA
ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGTTACTAATCCTACCTCCCTAAAGTTGC
AGTGGAACGGATTAAAATGATGGATATTATCTCCCTGAAGTTGTAGTGGAGTGGATTGAATACAC
CAGACTTATCCCA
Found at i:56216970 original size:218 final size:218
Alignment explanation
Indices: 56216721--56217152 Score: 636
Period size: 218 Copynumber: 2.0 Consensus size: 218
56216711 GAAGATGGAA
* *
56216721 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCAACAAGTCTTATCTCCCTGAAGTT
1 AATCTTATCCCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAACAAGTCTTATCTCCCTGAAGTT
56216786 GCAG-AGGAGCAAACTAACTAAACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGT
66 GCAGTA-GAGCAAACTAACTAAACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-T
* * ** * * * *
56216850 -TACTAATCCTACCTCCCTAAAGTTGTAGTGGAGCGGATTAAAATGATGGATATTATCTCTCT-A
129 AAACCAATCCTACCTCCCTAAAGTTACAGTGGAACGAATTAAAAAGATGGATATTATCTATCTGA
56216913 GAGATGCAGTAGAGCAGATCGCGTCC
194 -AGATGCAGTAGAGCAGATCGCGTCC
*
56216939 AATCTTATCCCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAACAAGTCTTATCTTCCTGAAGTT
1 AATCTTATCCCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAACAAGTCTTATCTCCCTGAAGTT
* * * *
56217004 GTAGTAGAGCAGACTGACTGAACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAATAA
66 GCAGTAGAGCAAACTAACTAAACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAATAA
* * *
56217069 ACCAATCCTATCTCCCTGAAGTTACAGTGGAACGAATTAAAAAGATGGATTTTATCTATCTGAAG
131 ACCAATCCTACCTCCCTAAAGTTACAGTGGAACGAATTAAAAAGATGGATATTATCTATCTGAAG
* *
56217134 TTGTAGTAGAGCAGATCGC
196 ATGCAGTAGAGCAGATCGC
56217153 ATCAGACTTT
Statistics
Matches: 191, Mismatches: 20, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
217 1 0.01
218 188 0.98
219 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.27
Consensus pattern (218 bp):
AATCTTATCCCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAACAAGTCTTATCTCCCTGAAGTT
GCAGTAGAGCAAACTAACTAAACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAATAA
ACCAATCCTACCTCCCTAAAGTTACAGTGGAACGAATTAAAAAGATGGATATTATCTATCTGAAG
ATGCAGTAGAGCAGATCGCGTCC
Found at i:56221968 original size:32 final size:32
Alignment explanation
Indices: 56221918--56221992 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 32
56221908 ACATGCATAC
* *
56221918 ATTTTTATAATATACGTACAT-TATTTTTATA
1 ATTTATATAATACACGTACATATATTTTTATA
* *
56221949 ATTTATATATATACACGTACTTATATTTTTTTA
1 ATTTATATA-ATACACGTACATATATTTTTATA
56221982 TATTT-TATAAT
1 -ATTTATATAAT
56221993 TTATATACAT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
31 8 0.22
32 12 0.32
33 13 0.35
34 4 0.11
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.56
Consensus pattern (32 bp):
ATTTATATAATACACGTACATATATTTTTATA
Found at i:56226317 original size:30 final size:30
Alignment explanation
Indices: 56226283--56226343 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
56226273 TTATGTTTTC
56226283 ATTAGTGTTTTAAAAGAATGTTTTAACCTT
1 ATTAGTGTTTTAAAAGAATGTTTTAACCTT
56226313 ATTAGTGTTTTAAAAGAATGTTTTAACCTT
1 ATTAGTGTTTTAAAAGAATGTTTTAACCTT
56226343 A
1 A
56226344 CTTGCTCATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.34, C:0.07, G:0.13, T:0.46
Consensus pattern (30 bp):
ATTAGTGTTTTAAAAGAATGTTTTAACCTT
Found at i:56228564 original size:17 final size:17
Alignment explanation
Indices: 56228542--56228574 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
56228532 ATGGTATTGG
56228542 TGTAAAATTGTTCACAA
1 TGTAAAATTGTTCACAA
56228559 TGTAAAATTGTTCACA
1 TGTAAAATTGTTCACA
56228575 TTACTATATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (17 bp):
TGTAAAATTGTTCACAA
Found at i:56233081 original size:24 final size:24
Alignment explanation
Indices: 56233054--56233103 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
56233044 ACCCATTAAA
*
56233054 AACATAACTTTTAACCTTTCATTT
1 AACATAACTCTTAACCTTTCATTT
* *
56233078 AACATAACTCTTGACTTTTCATTT
1 AACATAACTCTTAACCTTTCATTT
56233102 AA
1 AA
56233104 GTTTATTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.34, C:0.20, G:0.02, T:0.44
Consensus pattern (24 bp):
AACATAACTCTTAACCTTTCATTT
Found at i:56235374 original size:2 final size:2
Alignment explanation
Indices: 56235367--56235400 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
56235357 TAATTATTGG
*
56235367 CT CT CT CT CT CT CT CT CT CT CT CT CT CC CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
56235401 ACCTATTCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (2 bp):
CT
Found at i:56243123 original size:5 final size:5
Alignment explanation
Indices: 56243109--56243167 Score: 66
Period size: 5 Copynumber: 11.4 Consensus size: 5
56243099 GCCACCCAAT
*
56243109 TTTTA TTTTTA TTTTA TTTTA TTTTA TTTTA -TTTA CTTTA TTTATTA
1 TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA -TT-TTA
*
56243156 ATTTA TTTTA TT
1 TTTTA TTTTA TT
56243168 ATTTATTACT
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
4 4 0.09
5 33 0.70
6 7 0.15
7 3 0.06
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:56243139 original size:26 final size:28
Alignment explanation
Indices: 56243109--56243174 Score: 77
Period size: 26 Copynumber: 2.5 Consensus size: 28
56243099 GCCACCCAAT
*
56243109 TTTTATTTTTATTTTA-TT-TTATTTTA
1 TTTTATTTTTATTTTATTTATTAATTTA
*
56243135 TTTTA--TTTACTTTATTTATTAATTTA
1 TTTTATTTTTATTTTATTTATTAATTTA
56243161 TTTTATTATTTATT
1 TTTTATT-TTTATT
56243175 ACTTATTTGG
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
24 8 0.25
25 2 0.06
26 17 0.53
29 5 0.16
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.76
Consensus pattern (28 bp):
TTTTATTTTTATTTTATTTATTAATTTA
Found at i:56243171 original size:20 final size:20
Alignment explanation
Indices: 56243116--56243175 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
56243106 AATTTTTATT
* *
56243116 TTTATTTTATT-TTATTTTAT
1 TTTATTTTATTATT-TATTAA
56243136 TTTA-TTTACTTTATTTATTAA
1 TTTATTTTA--TTATTTATTAA
56243157 TTTATTTTATTATTTATTA
1 TTTATTTTATTATTTATTA
56243176 CTTATTTGGA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
19 4 0.12
20 14 0.41
21 10 0.29
22 6 0.18
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTATTTTATTATTTATTAA
Found at i:56244431 original size:20 final size:21
Alignment explanation
Indices: 56244410--56244459 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 21
56244400 CCTAAGGCAT
56244410 AAAAAATATAAAT-AATAAATA
1 AAAAAATA-AAATAAATAAATA
56244431 AATCAAAATCAAAATAAATAAATA
1 AA--AAAAT-AAAATAAATAAATA
56244455 AAAAA
1 AAAAA
56244460 GAAAAAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
21 2 0.08
22 3 0.12
23 9 0.36
24 11 0.44
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (21 bp):
AAAAAATAAAATAAATAAATA
Found at i:56244464 original size:20 final size:20
Alignment explanation
Indices: 56244423--56244469 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
56244413 AAATATAAAT
* *
56244423 AATAAATAAATCAAAATCAA
1 AATAAATAAATAAAAAACAA
*
56244443 AATAAATAAATAAAAAAGAA
1 AATAAATAAATAAAAAACAA
*
56244463 AAAAAAT
1 AATAAAT
56244470 TAGAAAAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.17
Consensus pattern (20 bp):
AATAAATAAATAAAAAACAA
Found at i:56247985 original size:19 final size:18
Alignment explanation
Indices: 56247961--56248015 Score: 58
Period size: 21 Copynumber: 2.8 Consensus size: 18
56247951 GTTTTCCTAC
56247961 AAAAATAAAATAAAATAG
1 AAAAATAAAATAAAATAG
56247979 TAAAAATAAATAATAATAATAG
1 -AAAAAT-AA-AATAA-AATAG
56248001 AAAAATTAAAA-AAAA
1 AAAAA-TAAAATAAAA
56248016 AATTCTTTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
18 2 0.06
19 8 0.25
20 4 0.12
21 12 0.38
22 6 0.19
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (18 bp):
AAAAATAAAATAAAATAG
Found at i:56264506 original size:20 final size:20
Alignment explanation
Indices: 56264472--56264520 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
56264462 AAATTATATC
* *
56264472 GATATAAATAGATTTCTTTTCA
1 GATA-AAATAAATTT-TTGTCA
56264494 -ATAAAATAAATTTTTGTCA
1 GATAAAATAAATTTTTGTCA
56264513 GATAAAAT
1 GATAAAAT
56264521 TAGTAAAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 5 0.21
20 16 0.67
21 3 0.12
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.41
Consensus pattern (20 bp):
GATAAAATAAATTTTTGTCA
Found at i:56283134 original size:31 final size:31
Alignment explanation
Indices: 56283089--56283149 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
56283079 TACCCAACAA
* * *
56283089 TTCGACAACGTATAACCATTCACGAATCAAG
1 TTCGACAACATATAACCATACACAAATCAAG
* *
56283120 TTCGACAATATATAATCATACACAAATCAA
1 TTCGACAACATATAACCATACACAAATCAA
56283150 ATTTGGCATC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.44, C:0.23, G:0.08, T:0.25
Consensus pattern (31 bp):
TTCGACAACATATAACCATACACAAATCAAG
Found at i:56283372 original size:184 final size:184
Alignment explanation
Indices: 56283047--56283592 Score: 756
Period size: 184 Copynumber: 3.0 Consensus size: 184
56283037 ATATATTCAA
* * * * * *
56283047 ATACGAATCCAATTCAGC-AATGAATATCGATATACCCAACAATTCGACAACGTATAACCATTCA
1 ATACGAAT-CAATTCAGCAAAT-TATATCCATATACCAAACAATTCGGCAATGTATAACCATACA
* * * * * * *
56283111 CGAATCAAGTTCGACAATATATAATCATACACAAATCAAATTTGGCATCCTATATTCATAAACAA
64 CGAATCAAGTTCGATAATGTATAATCAAATACAAATCCAATTCGGCATCCTATATACATAAACAA
* * * *
56283176 TTCAATATCGACAATATATAACCATGTACGAA-TTAATTTCAGTAATGTACAACCTT
129 TTCAATATCGACAATATATAACCATGTAC-AATTTAATTTCAGCAAGGTAAAACCAT
* *
56283232 GTACGAATCAATTCAACAAATTATATCCATATACCAAACAATTCGGCAATGTATAACCATACACG
1 ATACGAATCAATTCAGCAAATTATATCCATATACCAAACAATTCGGCAATGTATAACCATACACG
* *
56283297 AATCAAGTTCGATAATGTATAATTAAATACAAATCCAATTCGGCATCCTATATACATAAAAAATT
66 AATCAAGTTCGATAATGTATAATCAAATACAAATCCAATTCGGCATCCTATATACATAAACAATT
* *
56283362 CAAAATCGACAATATAAAACCATGTACAATTTAATTTCAGCAAGGTAAAACCAT
131 CAATATCGACAATATATAACCATGTACAATTTAATTTCAGCAAGGTAAAACCAT
* * * * * * *
56283416 ATATGAATCAATTCGGCAAAATT-TATCCATATGCCAAATAATTCAGTAATATATAACCATACAC
1 ATACGAATCAATTCAGC-AAATTATATCCATATACCAAACAATTCGGCAATGTATAACCATACAC
56283480 GAATCAAGTTCGATAATGTATAATCAAATACAAATCCAATTCGGCATCCTATATACATAAACAAT
65 GAATCAAGTTCGATAATGTATAATCAAATACAAATCCAATTCGGCATCCTATATACATAAACAAT
*
56283545 TCAATATCGACAATATATAACCATGTACAATTTAATTTTAGCAAGGTA
130 TCAATATCGACAATATATAACCATGTACAATTTAATTTCAGCAAGGTA
56283593 TAAAACATTT
Statistics
Matches: 321, Mismatches: 37, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
183 2 0.01
184 304 0.95
185 15 0.05
ACGTcount: A:0.44, C:0.19, G:0.09, T:0.28
Consensus pattern (184 bp):
ATACGAATCAATTCAGCAAATTATATCCATATACCAAACAATTCGGCAATGTATAACCATACACG
AATCAAGTTCGATAATGTATAATCAAATACAAATCCAATTCGGCATCCTATATACATAAACAATT
CAATATCGACAATATATAACCATGTACAATTTAATTTCAGCAAGGTAAAACCAT
Found at i:56285800 original size:16 final size:16
Alignment explanation
Indices: 56285779--56285809 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
56285769 TCTAAGAAGT
56285779 ACTTTTGAGACAAAAC
1 ACTTTTGAGACAAAAC
*
56285795 ACTTTTGAGATAAAA
1 ACTTTTGAGACAAAA
56285810 GCATGGCTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.29
Consensus pattern (16 bp):
ACTTTTGAGACAAAAC
Found at i:56299519 original size:15 final size:15
Alignment explanation
Indices: 56299501--56299545 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
56299491 ACAATACCTG
56299501 TTTAAAGAATTTGGT
1 TTTAAAGAATTTGGT
56299516 TTT-AAG--TTTGGT
1 TTTAAAGAATTTGGT
56299528 TTTATAA-AATTTGGT
1 TTTA-AAGAATTTGGT
56299543 TTT
1 TTT
56299546 GAATTTTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
12 9 0.35
14 5 0.19
15 12 0.46
ACGTcount: A:0.27, C:0.00, G:0.18, T:0.56
Consensus pattern (15 bp):
TTTAAAGAATTTGGT
Found at i:56301874 original size:138 final size:139
Alignment explanation
Indices: 56301626--56301907 Score: 557
Period size: 138 Copynumber: 2.0 Consensus size: 139
56301616 AGAGTAAAAA
56301626 CAACTAACTCTAGGTTGATTAATTGAAATCTCTTTCTAATTAAAACTCTTATCGTCACATTAACT
1 CAACTAACTCTAGGTTGATTAATTGAAATCTCTTTCTAATTAAAACTCTTATCGTCACATTAACT
56301691 CGATCTATGGATTCCCTTATTAGATTTGACTCTAATCCAGTAGATTTATGTCGTTCTATTTCTAG
66 CGATCTATGGATTCCCTTATTAGATTTGACTCTAATCCAGTAGATTTATGTCGTTCTATTTCTAG
56301756 GATTGCAT-
131 GATTGCATG
56301764 CAACTAACTCTAGGTTGATTAATTGAAATCTCTTTCTAATTAAAACTCTTATCGTCACATTAACT
1 CAACTAACTCTAGGTTGATTAATTGAAATCTCTTTCTAATTAAAACTCTTATCGTCACATTAACT
56301829 CGATCTATGGATTCCCTTATTAGATTTGACTCTAATCCAGTAGATTTATGTCGTTCTATTTCTAG
66 CGATCTATGGATTCCCTTATTAGATTTGACTCTAATCCAGTAGATTTATGTCGTTCTATTTCTAG
56301894 GATTGCATG
131 GATTGCATG
56301903 CAACT
1 CAACT
56301908 CCACTCAATT
Statistics
Matches: 143, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
138 138 0.97
139 5 0.03
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.40
Consensus pattern (139 bp):
CAACTAACTCTAGGTTGATTAATTGAAATCTCTTTCTAATTAAAACTCTTATCGTCACATTAACT
CGATCTATGGATTCCCTTATTAGATTTGACTCTAATCCAGTAGATTTATGTCGTTCTATTTCTAG
GATTGCATG
Found at i:56304875 original size:17 final size:17
Alignment explanation
Indices: 56304855--56304890 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
56304845 ATGAGTCTAG
56304855 CAAACCCTAGAGTTCGC
1 CAAACCCTAGAGTTCGC
* *
56304872 CAAACCTTGGAGTTCGC
1 CAAACCCTAGAGTTCGC
56304889 CA
1 CA
56304891 GATGACGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.28, C:0.33, G:0.19, T:0.19
Consensus pattern (17 bp):
CAAACCCTAGAGTTCGC
Found at i:56311360 original size:48 final size:48
Alignment explanation
Indices: 56311275--56312016 Score: 430
Period size: 48 Copynumber: 15.5 Consensus size: 48
56311265 AGGAGTCCCT
* * * ** *
56311275 CCTTGGCTTGAACTCCCAATGAAAAAC-AATGATGGATTTCTATCCATC
1 CCTTGGATTGAACTTCCAGTGAAAAACTGTTG-TGGATTTGTATCCATC
* * * *
56311323 TCTTGGATTGAGCTTCCAGTGAAAAACTGTTGCGGATTTGTATCCATT
1 CCTTGGATTGAACTTCCAGTGAAAAACTGTTGTGGATTTGTATCCATC
* * * *
56311371 CCTTGGCTTG-ACTTCTCAGGGAAAAGCTGTCGTGGATTTGTATCCATC
1 CCTTGGATTGAACTTC-CAGTGAAAAACTGTTGTGGATTTGTATCCATC
56311419 CCTTGGATTGAAC-TCCTAGTGAAAAACTGTTGTGGATTTGTATCCATC
1 CCTTGGATTGAACTTCC-AGTGAAAAACTGTTGTGGATTTGTATCCATC
* * *
56311467 CCTTGGATTGAACTCCCAGTGAAGAACTGTGGTAGATGTTGTGGATTTGTATCCATT
1 CCTTGGATTGAACTTCCAGTGAA-AA-------A-CTGTTGTGGATTTGTATCCATC
* *
56311524 CCTTGGCTTGAAC-TCCTAGTGAAAAATTGTTGTGGATTTGTATCCATC
1 CCTTGGATTGAACTTCC-AGTGAAAAACTGTTGTGGATTTGTATCCATC
* * * *
56311572 CCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGGATGTTGTGGATTTGTCTCCATT
1 CCTTGGATTGAACTTCCAGTGAAAAAC---------TGTTGTGGATTTGTATCCATC
* *
56311629 CCTTGGCTTG-ACTTCTCATTG-AAAA--GTTGTGGATTTGTATCCATC
1 CCTTGGATTGAACTTC-CAGTGAAAAACTGTTGTGGATTTGTATCCATC
56311674 CCTTGGATTGAAC-TCCTAGTG---AAC------GGATTTGTATCCATC
1 CCTTGGATTGAACTTCC-AGTGAAAAACTGTTGTGGATTTGTATCCATC
* * * *
56311713 CCTTGGCTTGAAC-TCCTAGTGAAGAACTGTGGTGGA--TGT-T--GT-
1 CCTTGGATTGAACTTCC-AGTGAAAAACTGTTGTGGATTTGTATCCATC
*** ** *** * **** * *
56311755 -GGGGGAGAGAA-GAACTGTGGTGGA-TGTCGTGGATTTGTATTCATC
1 CCTTGGATTGAACTTCCAGTGAAAAACTGTTGTGGATTTGTATCCATC
* * *
56311800 CCTTGGCTTGAACTCCCAGTGAAAAACTGTTGTGGATTTGTATCCATT
1 CCTTGGATTGAACTTCCAGTGAAAAACTGTTGTGGATTTGTATCCATC
* *
56311848 CCTTGGCTTGAACTTCCAGTGAAAAACTGTTGTGGATTTGTATCCATT
1 CCTTGGATTGAACTTCCAGTGAAAAACTGTTGTGGATTTGTATCCATC
* * * *
56311896 CCTT-GACTTGAACTCCCAG-GAAAAAATTGTTGTCGATTTGTATCCATT
1 CCTTGGA-TTGAACTTCCAGTG-AAAAACTGTTGTGGATTTGTATCCATC
* * * * * * * * *
56311944 TCTT-GACTTGAACTCCCAATGAAAAACTGTTTTGAATTTGTGTTCGTT
1 CCTTGGA-TTGAACTTCCAGTGAAAAACTGTTGTGGATTTGTATCCATC
* * *
56311992 CCTTGGCTTGAACTCCCAGGGAAAA
1 CCTTGGATTGAACTTCCAGTGAAAA
56312017 GCTGCTGGCA
Statistics
Matches: 548, Mismatches: 94, Indels: 104
0.73 0.13 0.14
Matches are distributed among these distances:
39 43 0.08
40 5 0.01
41 9 0.02
42 4 0.01
43 3 0.01
44 2 0.00
45 33 0.06
46 10 0.02
47 12 0.02
48 332 0.61
49 13 0.02
56 12 0.02
57 70 0.13
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (48 bp):
CCTTGGATTGAACTTCCAGTGAAAAACTGTTGTGGATTTGTATCCATC
Found at i:56311440 original size:96 final size:98
Alignment explanation
Indices: 56311307--56311942 Score: 390
Period size: 105 Copynumber: 6.6 Consensus size: 98
56311297 AAAACAATGA
* * * * *
56311307 TGGATTTCTATCCATCTCTTGGATTGAGCTTCC-AGTGAAAAACTGTTGCGGATTTGTATCCATT
1 TGGATTTGTATCCATCCCTTGGATTGAAC-TCCTAGTGAAAAACTGTTGTGGATTTGTATCCATC
* * *
56311371 CCTTGGCTTGACTTCTCAG-G-GAA-AAGCTGTCG
65 CCTTGGATTGAC-TCCCAGTGAGAAGAAGATGTCG
56311403 TGGATTTGTATCCATCCCTTGGATTGAACTCCTAGTGAAAAACTGTTGTGGATTTGTATCCATCC
1 TGGATTTGTATCCATCCCTTGGATTGAACTCCTAGTGAAAAACTGTTGTGGATTTGTATCCATCC
* *
56311468 CTTGGATTGAACTCCCAGTGAAGAACTGTGGTAGATGTTG
66 CTTGGATTG-ACTCCCAGTG-AGAA-----GAAGATGTCG
* * *
56311508 TGGATTTGTATCCATTCCTTGGCTTGAACTCCTAGTGAAAAATTGTTGTGGATTTGTATCCATCC
1 TGGATTTGTATCCATCCCTTGGATTGAACTCCTAGTGAAAAACTGTTGTGGATTTGTATCCATCC
** *
56311573 CTTGGATTGAACTCCCAGTGAAGAACTGTGGTGGATGTTG
66 CTTGGATTG-ACTCCCAGTG-AGAA-----GAAGATGTCG
* * * * *
56311613 TGGATTTGTCTCCATTCCTTGGCTTG-ACTTCTCATTG-AAAA--GTTGTGGATTTGTATCCATC
1 TGGATTTGTATCCATCCCTTGGATTGAACTCCT-AGTGAAAAACTGTTGTGGATTTGTATCCATC
*
56311674 CCTTGGATTGAACT-CC--T-AG-TG-A-A---C-
65 CCTTGGATTG-ACTCCCAGTGAGAAGAAGATGTCG
* * * *
56311698 -GGATTTGTATCCATCCCTTGGCTTGAACTCCTAGTGAAGAACTGTGGTGGA--TGT-T--GT--
1 TGGATTTGTATCCATCCCTTGGATTGAACTCCTAGTGAAAAACTGTTGTGGATTTGTATCCATCC
*** ** **** * *
56311755 GGGGGAGAGAAGAACTGTG-G-TG--GATGTCG
66 CTTGGATTGACTCCCAGTGAGAAGAAGATGTCG
* * * *
56311784 TGGATTTGTATTCATCCCTTGGCTTGAACTCCCAGTGAAAAACTGTTGTGGATTTGTATCCATTC
1 TGGATTTGTATCCATCCCTTGGATTGAACTCCTAGTGAAAAACTGTTGTGGATTTGTATCCATCC
* * * *
56311849 CTTGGCTTGAACTTCCAGTGA-AA-AA-CTGTTG
66 CTTGGATTG-ACTCCCAGTGAGAAGAAGATGTCG
* * * *
56311880 TGGATTTGTATCCATTCCTT-GACTTGAACTCCCAG-GAAAAAATTGTTGTCGATTTGTATCCAT
1 TGGATTTGTATCCATCCCTTGGA-TTGAACTCCTAGTG-AAAAACTGTTGTGGATTTGTATCCAT
56311943 TTCTTGACTT
Statistics
Matches: 441, Mismatches: 59, Indels: 80
0.76 0.10 0.14
Matches are distributed among these distances:
79 1 0.00
80 5 0.01
82 6 0.01
84 27 0.06
85 12 0.03
87 54 0.12
89 4 0.01
90 1 0.00
91 1 0.00
92 1 0.00
94 3 0.01
95 10 0.02
96 127 0.29
97 5 0.01
99 4 0.01
101 2 0.00
102 34 0.08
104 9 0.02
105 135 0.31
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (98 bp):
TGGATTTGTATCCATCCCTTGGATTGAACTCCTAGTGAAAAACTGTTGTGGATTTGTATCCATCC
CTTGGATTGACTCCCAGTGAGAAGAAGATGTCG
Found at i:56311535 original size:57 final size:57
Alignment explanation
Indices: 56311446--56311639 Score: 253
Period size: 57 Copynumber: 3.6 Consensus size: 57
56311436 AGTGAAAAAC
56311446 TGTTGTGGATTTGTATCCATCCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTAGA
1 TGTTGTGGATTTGTATCCATCCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTAGA
* * * *
56311503 TGTTGTGGATTTGTATCCATTCCTTGGCTTGAACTCCTAGTGAA-AA-------A-T
1 TGTTGTGGATTTGTATCCATCCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTAGA
*
56311551 TGTTGTGGATTTGTATCCATCCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGGA
1 TGTTGTGGATTTGTATCCATCCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTAGA
* * *
56311608 TGTTGTGGATTTGTCTCCATTCCTTGGCTTGA
1 TGTTGTGGATTTGTATCCATCCCTTGGATTGA
56311640 CTTCTCATTG
Statistics
Matches: 116, Mismatches: 12, Indels: 18
0.79 0.08 0.12
Matches are distributed among these distances:
48 41 0.35
49 3 0.03
56 2 0.02
57 70 0.60
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (57 bp):
TGTTGTGGATTTGTATCCATCCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTAGA
Found at i:56311584 original size:105 final size:104
Alignment explanation
Indices: 56311402--56311696 Score: 479
Period size: 105 Copynumber: 2.8 Consensus size: 104
56311392 AAAAGCTGTC
* *
56311402 GTGGATTTGTATCCATCCCTTGGATTGAACTCCTAGTGAAAAACTGTTGTGGATTTGTATCCATC
1 GTGGATTTGTATCCATTCCTTGGCTTGAACTCCTAGTGAAAAA-TGTTGTGGATTTGTATCCATC
56311467 CCTTGGATTGAACTCCCAGTGAAGAACTGTGGTAGATGTT
65 CCTTGGATTGAACTCCCAGTGAAGAACTGTGGTAGATGTT
56311507 GTGGATTTGTATCCATTCCTTGGCTTGAACTCCTAGTGAAAAATTGTTGTGGATTTGTATCCATC
1 GTGGATTTGTATCCATTCCTTGGCTTGAACTCCTAGTGAAAAA-TGTTGTGGATTTGTATCCATC
*
56311572 CCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGGATGTT
65 CCTTGGATTGAACTCCCAGTGAAGAACTGTGGTAGATGTT
* * *
56311612 GTGGATTTGTCTCCATTCCTTGGCTTG-ACTTCTCATTG-AAAA-GTTGTGGATTTGTATCCATC
1 GTGGATTTGTATCCATTCCTTGGCTTGAACTCCT-AGTGAAAAATGTTGTGGATTTGTATCCATC
*
56311674 CCTTGGATTGAACTCCTAGTGAA
65 CCTTGGATTGAACTCCCAGTGAA
56311697 CGGATTTGTA
Statistics
Matches: 181, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
102 42 0.23
104 9 0.05
105 130 0.72
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.36
Consensus pattern (104 bp):
GTGGATTTGTATCCATTCCTTGGCTTGAACTCCTAGTGAAAAATGTTGTGGATTTGTATCCATCC
CTTGGATTGAACTCCCAGTGAAGAACTGTGGTAGATGTT
Done.