Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr4
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: 31929104
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1434590 characters in sequence are not A, C, G, or T
File 69 of 82
Found at i:25075874 original size:11 final size:11
Alignment explanation
Indices: 25075851--25075888 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
25075841 TTCGAACCCG
25075851 ATTAATA-TTT
1 ATTAATATTTT
25075861 ATTAATATTTT
1 ATTAATATTTT
*
25075872 ATTATTATTTT
1 ATTAATATTTT
*
25075883 AATAAT
1 ATTAAT
25075889 TAAATTAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
10 7 0.29
11 17 0.71
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
ATTAATATTTT
Found at i:25076477 original size:21 final size:21
Alignment explanation
Indices: 25076447--25076486 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
25076437 GTGTGTGTAT
*
25076447 ATATATATATATATACTTTAA
1 ATATAAATATATATACTTTAA
*
25076468 ATATAAATATATTTACTTT
1 ATATAAATATATATACTTT
25076487 TTATTCTGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (21 bp):
ATATAAATATATATACTTTAA
Found at i:25077050 original size:12 final size:13
Alignment explanation
Indices: 25077029--25077085 Score: 55
Period size: 12 Copynumber: 4.4 Consensus size: 13
25077019 AAAAAACTAA
*
25077029 ATTAATTATATAT
1 ATTAAATATATAT
25077042 -TTAAATATATAT
1 ATTAAATATATAT
25077054 ATTAATATATATAAT
1 ATTAA-ATATAT-AT
* *
25077069 ATT-TATAGATAT
1 ATTAAATATATAT
25077081 ATTAA
1 ATTAA
25077086 GAAAAATTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
12 16 0.44
13 9 0.25
14 6 0.17
15 5 0.14
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (13 bp):
ATTAAATATATAT
Found at i:25077054 original size:14 final size:15
Alignment explanation
Indices: 25077035--25077082 Score: 57
Period size: 14 Copynumber: 3.3 Consensus size: 15
25077025 CTAAATTAAT
25077035 TATATATTTAA-ATA
1 TATATATTTAATATA
25077049 TATATA-TTAATATA
1 TATATATTTAATATA
*
25077063 TATAATATTT-ATAGA
1 TAT-ATATTTAATATA
25077078 TATAT
1 TATAT
25077083 TAAGAAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
13 4 0.13
14 14 0.47
15 10 0.33
16 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (15 bp):
TATATATTTAATATA
Found at i:25077122 original size:11 final size:11
Alignment explanation
Indices: 25077029--25077129 Score: 63
Period size: 11 Copynumber: 9.5 Consensus size: 11
25077019 AAAAAACTAA
*
25077029 ATTAATTATAT
1 ATTAATAATAT
*
25077040 ATTTA-AATAT
1 ATTAATAATAT
*
25077050 ATATATTAATAT
1 AT-TAATAATAT
25077062 A-T-ATAATAT
1 ATTAATAATAT
25077071 -TT-ATAGATAT
1 ATTAATA-ATAT
* *
25077081 ATTAAGAA-AA
1 ATTAATAATAT
* *
25077091 ATTAATAGTAA
1 ATTAATAATAT
25077102 ATTAATAATAT
1 ATTAATAATAT
25077113 ACTTAA-AATAT
1 A-TTAATAATAT
25077124 ATTAAT
1 ATTAAT
25077130 TTATTATATA
Statistics
Matches: 70, Mismatches: 11, Indels: 18
0.71 0.11 0.18
Matches are distributed among these distances:
9 10 0.14
10 22 0.31
11 26 0.37
12 12 0.17
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.44
Consensus pattern (11 bp):
ATTAATAATAT
Found at i:25077378 original size:2 final size:2
Alignment explanation
Indices: 25077371--25077405 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
25077361 GTATAAACAT
25077371 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
25077406 TCAATTTATC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:25077864 original size:17 final size:17
Alignment explanation
Indices: 25077817--25077864 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
25077807 TAATAAAATA
*
25077817 ATATTATATATATACAT
1 ATATTTTATATATACAT
* *
25077834 ATATTTAATTTATACAT
1 ATATTTTATATATACAT
25077851 A-ATTTGTATATATA
1 ATATTT-TATATATA
25077865 TTTTATAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
16 4 0.16
17 21 0.84
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (17 bp):
ATATTTTATATATACAT
Found at i:25077909 original size:223 final size:215
Alignment explanation
Indices: 25077382--25077851 Score: 531
Period size: 216 Copynumber: 2.2 Consensus size: 215
25077372 ATATATATAT
* * * * * * *
25077382 ATATATATATATATATATATATATTCAATTTATCCATAAGCATTACTATAACTTATAAT---ATT
1 ATAT-TATATATATATACATATATTTAATTTATACATATGTAATACTATAACTTATAATAAAATA
* * * * * * * *
25077444 TATTTATATGATTACACTTAATAACTTTATTAATTATCACTTGAGTTTTTATAATATATTGTTTA
65 AACTTATAAGATTATACTTAATAATTTTATTAATTATCACTTGAATTTTTATAACATATTATTTA
* * * *
25077509 TAATTAGTTGTTGTTTATACAAATTTTAATATAAAACGTTATAACATATAAGTTGTATCATTAAT
130 TAATTAATTATTATTTATACAAATTTTAATATAAAACATTATAACATATAAGTTGTATCATTAAT
25077574 TTCATATATACATAATAAAATA
195 TTCATATATA-ATAATAAAATA
* * * **
25077596 ATATTATATATATATACATATATTTAATTTATACATATGTAATACTGTAACTTATAATAGACTTT
1 ATATTATATATATATACATATATTTAATTTATACATATGTAATACTATAACTTATAATAAAATAA
* * *
25077661 ATTTATATGATTATACTTAATAATTTTATTAGTTATCATCTT-AATTTTTATAACATATTATTTA
66 ACTTATAAGATTATACTTAATAATTTTATTAATTATCA-CTTGAATTTTTATAACATATTATTTA
* *
25077725 TAATTAATTATTATTTATACAAATTTTGATATAACAATTAAAATATTATAACATATAAGTTGTTT
130 TAATTAATTATTATTTATACAAATTTT-A-AT----A-TAAAACATTATAACATATAAGTTGTAT
*
25077790 TATTAATTTCATATAT-ATAATAAAATA
188 CATTAATTTCATATATAATAATAAAATA
25077817 ATA-T-TATATATATACATATATTTAATTTATACATA
1 ATATTATATATATATACATATATTTAATTTATACATA
25077852 ATTTGTATAT
Statistics
Matches: 224, Mismatches: 21, Indels: 17
0.85 0.08 0.06
Matches are distributed among these distances:
213 47 0.21
214 4 0.02
216 81 0.36
217 4 0.02
218 2 0.01
219 31 0.14
220 1 0.00
221 14 0.06
222 1 0.00
223 39 0.17
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.47
Consensus pattern (215 bp):
ATATTATATATATATACATATATTTAATTTATACATATGTAATACTATAACTTATAATAAAATAA
ACTTATAAGATTATACTTAATAATTTTATTAATTATCACTTGAATTTTTATAACATATTATTTAT
AATTAATTATTATTTATACAAATTTTAATATAAAACATTATAACATATAAGTTGTATCATTAATT
TCATATATAATAATAAAATA
Found at i:25081154 original size:14 final size:14
Alignment explanation
Indices: 25081130--25081163 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
25081120 AGAAGAGACA
25081130 AAGAGAAAGGAAAGG
1 AAGA-AAAGGAAAGG
*
25081145 GAGAAAAGGAAAGG
1 AAGAAAAGGAAAGG
25081159 AAGAA
1 AAGAA
25081164 GAGAAGGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 14 0.82
15 3 0.18
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (14 bp):
AAGAAAAGGAAAGG
Found at i:25081167 original size:19 final size:20
Alignment explanation
Indices: 25081119--25081168 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
25081109 AAAAGTCTAA
25081119 AAGAAGAGACAAAGAGAAAGG
1 AAGAAGAGA-AAAGAGAAAGG
*
25081140 AA-AGGGAGAAAAG-GAAAGG
1 AAGA-AGAGAAAAGAGAAAGG
25081159 AAGAAGAGAA
1 AAGAAGAGAA
25081169 GGTTTTAGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 13 0.52
20 6 0.24
21 6 0.24
ACGTcount: A:0.62, C:0.02, G:0.36, T:0.00
Consensus pattern (20 bp):
AAGAAGAGAAAAGAGAAAGG
Found at i:25081295 original size:133 final size:134
Alignment explanation
Indices: 25081117--25081382 Score: 381
Period size: 133 Copynumber: 2.0 Consensus size: 134
25081107 TGAAAAGTCT
* * * * * *
25081117 AAAAGAAGAGACAAAGAGAAAGGAAAGGGAGAAAAGGAAAGGAAGAAGAGAAGGTTTTAGACGGG
1 AAAAGAAGACACAAAGAGAAAGGAAAGGGAGAAAAAGAAAAGAAGAAGAAAAAGTTCTAGACGGG
* ** *
25081182 AGAAACTTTTCGAGTTTGGATTTGGGTACCGACCTTTTCAAGCATGAGACGGCAAGCATGACGAA
66 AGAAACTTCTCGAGTTTGGATTTGGGTACCGACCACTTCAAGCATGAGACGGCAAGCACGACGAA
25081247 AAGG
131 AAGG
* *
25081251 AAAA-AAGACACAAATAGGAAGGAAAGGGAGAAAAAGAAAAGAAGAAGAAAAAGTTCTAGACGGG
1 AAAAGAAGACACAAAGAGAAAGGAAAGGGAGAAAAAGAAAAGAAGAAGAAAAAGTTCTAGACGGG
* * * *
25081315 AGAAACTTCTCGAGTTTGGATTTGGGTACCGACCACTTCTAGCATGAGATGGTAAGCACGATGAA
66 AGAAACTTCTCGAGTTTGGATTTGGGTACCGACCACTTCAAGCATGAGACGGCAAGCACGACGAA
25081380 AAG
131 AAG
25081383 AGCAATGCAA
Statistics
Matches: 116, Mismatches: 16, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
133 112 0.97
134 4 0.03
ACGTcount: A:0.43, C:0.11, G:0.30, T:0.16
Consensus pattern (134 bp):
AAAAGAAGACACAAAGAGAAAGGAAAGGGAGAAAAAGAAAAGAAGAAGAAAAAGTTCTAGACGGG
AGAAACTTCTCGAGTTTGGATTTGGGTACCGACCACTTCAAGCATGAGACGGCAAGCACGACGAA
AAGG
Found at i:25081888 original size:114 final size:114
Alignment explanation
Indices: 25081638--25081926 Score: 294
Period size: 114 Copynumber: 2.5 Consensus size: 114
25081628 ACACGCCATG
* * * *
25081638 ATATTACACGTTATGTACAAAAATATATTACATGTCATGATTAGGTTATTACATGTCATATATAA
1 ATATTACACGTCATGTACAAAAATATATGACATGTCATGATTAGGTTATTACATATCATATACAA
* *
25081703 AAACATGAGACACGTCATAGTTAGGTCGTTACACGTCATGTAAAAAAAC
66 AAACATGAGACACGTCATAGTTAGATCGCTACACGTCATGTAAAAAAAC
* * * * * * *
25081752 ATATTACAC-ACGATGTATAAAAATATGTGACAT-TATATGATTAGGTTGTTATATATCATGTAC
1 ATATTACACGTC-ATGTACAAAAATATATGACATGT-CATGATTAGGTTATTACATATCATATAC
* * * * * *
25081815 AAAAATATGTGACACGTCATGGTTAGATTGCTACATGTCATGTATAAAAAC
64 AAAAACATGAGACACGTCATAGTTAGATCGCTACACGTCATGTAAAAAAAC
* * * * *** * *
25081866 ATGTTATACGTCATGTACAAAAACATATAACACACCATGATTAGGTTGTTACATACCATAT
1 ATATTACACGTCATGTACAAAAATATATGACATGTCATGATTAGGTTATTACATATCATAT
25081927 TTAAAACAAA
Statistics
Matches: 139, Mismatches: 32, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
113 1 0.01
114 137 0.99
115 1 0.01
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (114 bp):
ATATTACACGTCATGTACAAAAATATATGACATGTCATGATTAGGTTATTACATATCATATACAA
AAACATGAGACACGTCATAGTTAGATCGCTACACGTCATGTAAAAAAAC
Found at i:25081984 original size:29 final size:29
Alignment explanation
Indices: 25081933--25081996 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
25081923 ATATTTAAAA
* * **
25081933 CAAAAAATATTGTTGTTGTACGTCATATT
1 CAAAAAATATTATTATTACACGTCATATT
* *
25081962 GAAAAAATATTATTATTACACGTTATATT
1 CAAAAAATATTATTATTACACGTCATATT
25081991 CAAAAA
1 CAAAAA
25081997 CATTTTGTTA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.38
Consensus pattern (29 bp):
CAAAAAATATTATTATTACACGTCATATT
Found at i:25083324 original size:12 final size:12
Alignment explanation
Indices: 25083297--25083328 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
25083287 AATTTAAAAA
25083297 TAATATA-ATAT
1 TAATATATATAT
25083308 T-ATATATATAT
1 TAATATATATAT
25083319 TAATATATAT
1 TAATATATAT
25083329 GTAATTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 5 0.26
11 6 0.32
12 8 0.42
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TAATATATATAT
Found at i:25088057 original size:6 final size:6
Alignment explanation
Indices: 25088046--25088139 Score: 134
Period size: 6 Copynumber: 15.7 Consensus size: 6
25088036 GTTTTGGTTA
* * * * * *
25088046 ATATAG ATATAG ATATAT AGATAT AGATAT ATAGAT ATAGAT ATATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
25088094 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATAT
25088140 CTGCACTTCA
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 83 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (6 bp):
ATATAT
Found at i:25088065 original size:8 final size:8
Alignment explanation
Indices: 25088046--25088139 Score: 134
Period size: 8 Copynumber: 11.8 Consensus size: 8
25088036 GTTTTGGTTA
*
25088046 ATATAGAT
1 ATATATAT
*
25088054 ATAGATAT
1 ATATATAT
*
25088062 ATAGATAT
1 ATATATAT
*
25088070 AGATATAT
1 ATATATAT
* *
25088078 AGATATAG
1 ATATATAT
25088086 ATATATAT
1 ATATATAT
25088094 ATATATAT
1 ATATATAT
25088102 ATATATAT
1 ATATATAT
25088110 ATATATAT
1 ATATATAT
25088118 ATATATAT
1 ATATATAT
25088126 ATATATAT
1 ATATATAT
25088134 ATATAT
1 ATATAT
25088140 CTGCACTTCA
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 79 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (8 bp):
ATATATAT
Found at i:25088065 original size:14 final size:14
Alignment explanation
Indices: 25088046--25088139 Score: 134
Period size: 14 Copynumber: 6.7 Consensus size: 14
25088036 GTTTTGGTTA
*
25088046 ATATAGATATAGAT
1 ATATATATATAGAT
*
25088060 ATATAGATATAGAT
1 ATATATATATAGAT
*
25088074 ATATAGATATAGAT
1 ATATATATATAGAT
*
25088088 ATATATATATATAT
1 ATATATATATAGAT
*
25088102 ATATATATATATAT
1 ATATATATATAGAT
*
25088116 ATATATATATATAT
1 ATATATATATAGAT
25088130 ATATATATAT
1 ATATATATAT
25088140 CTGCACTTCA
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
14 78 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (14 bp):
ATATATATATAGAT
Found at i:25099009 original size:36 final size:36
Alignment explanation
Indices: 25098968--25099040 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
25098958 CACTGCACGA
25098968 ATTTTCTTTGTTTAGATTTCAATGGTTTCAAGATTG
1 ATTTTCTTTGTTTAGATTTCAATGGTTTCAAGATTG
* *
25099004 ATTTTCTTTGTTTAGGTTTCGATGGTTTCAAGATTG
1 ATTTTCTTTGTTTAGATTTCAATGGTTTCAAGATTG
25099040 A
1 A
25099041 AGCATGACAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.21, C:0.08, G:0.19, T:0.52
Consensus pattern (36 bp):
ATTTTCTTTGTTTAGATTTCAATGGTTTCAAGATTG
Found at i:25100585 original size:6 final size:6
Alignment explanation
Indices: 25100574--25100610 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
25100564 ACTGTTGAAG
*
25100574 GCTCCA GCTCCA GCTCCA GCTCCA GCTCCA GCACCA G
1 GCTCCA GCTCCA GCTCCA GCTCCA GCTCCA GCTCCA G
25100611 AGACTTAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.19, C:0.49, G:0.19, T:0.14
Consensus pattern (6 bp):
GCTCCA
Found at i:25115986 original size:21 final size:21
Alignment explanation
Indices: 25115938--25115986 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
25115928 ACATGATGTT
*
25115938 TTAATTATCATAATCTTTGTC
1 TTAATTTTCATAATCTTTGTC
25115959 TTAATTTTCATAATCTTTGTC
1 TTAATTTTCATAATCTTTGTC
25115980 TTAATTT
1 TTAATTT
25115987 ATTGACCCTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.27, C:0.12, G:0.04, T:0.57
Consensus pattern (21 bp):
TTAATTTTCATAATCTTTGTC
Found at i:25134444 original size:2 final size:2
Alignment explanation
Indices: 25134437--25134465 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
25134427 CAGCAGTAAG
25134437 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
25134466 GTAGCTGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:25135581 original size:30 final size:29
Alignment explanation
Indices: 25135540--25135605 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 29
25135530 TACTTTAGTT
25135540 TTTTTTATT-AAAAATCAAAATAATTTAAA
1 TTTTTTATTAAAAAATCAAAATAATTT-AA
* **
25135569 TTTTTTATTTAAAAAATTAATTTAATTTAA
1 TTTTTTA-TTAAAAAATCAAAATAATTTAA
25135599 TTTTTTA
1 TTTTTTA
25135606 ATGATATTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 7 0.22
30 11 0.34
31 14 0.44
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (29 bp):
TTTTTTATTAAAAAATCAAAATAATTTAA
Found at i:25136002 original size:83 final size:84
Alignment explanation
Indices: 25135908--25136075 Score: 311
Period size: 84 Copynumber: 2.0 Consensus size: 84
25135898 GTTAAATTTA
*
25135908 AATTTAACTTATTAATATGGATCTACAAAAAATT-TTAAATACAAAATAAAATGGTATAAATATT
1 AATTTAACTTATTAATATGGATCTACAAAAAATTAATAAATACAAAATAAAATGGTATAAATATT
*
25135972 TAGAATTATATTTAACTCT
66 TAGAATTATATTCAACTCT
25135991 AATTTAACTTATTAATATGGATCTACAAAAAATTAATAAATACAAAATAAAATGGTATAAATATT
1 AATTTAACTTATTAATATGGATCTACAAAAAATTAATAAATACAAAATAAAATGGTATAAATATT
25136056 TAGAATTATATTCAACTCT
66 TAGAATTATATTCAACTCT
25136075 A
1 A
25136076 TCAACTATAA
Statistics
Matches: 82, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
83 34 0.41
84 48 0.59
ACGTcount: A:0.49, C:0.08, G:0.06, T:0.37
Consensus pattern (84 bp):
AATTTAACTTATTAATATGGATCTACAAAAAATTAATAAATACAAAATAAAATGGTATAAATATT
TAGAATTATATTCAACTCT
Found at i:25136375 original size:8 final size:8
Alignment explanation
Indices: 25136362--25136389 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
25136352 TATATATTCT
25136362 ATAATCAA
1 ATAATCAA
25136370 ATAATCAA
1 ATAATCAA
25136378 ATAATCAA
1 ATAATCAA
25136386 ATAA
1 ATAA
25136390 AAATTATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.64, C:0.11, G:0.00, T:0.25
Consensus pattern (8 bp):
ATAATCAA
Found at i:25147474 original size:26 final size:26
Alignment explanation
Indices: 25147445--25147539 Score: 77
Period size: 26 Copynumber: 3.6 Consensus size: 26
25147435 AATAATGTTT
*
25147445 AAATTTTAAATAAAATATTAATATTC
1 AAATTATAAATAAAATATTAATATTC
* * *
25147471 AAATTATAAATTAATTATTAATATTTT
1 AAATTATAAATAAAATATTAATA-TTC
* *
25147498 AAA-TA-AATTATAAATTATTAATATTA
1 AAATTATAA--ATAAAATATTAATATTC
*
25147524 AAAATATAAAATAAAA
1 AAATTAT-AAATAAAA
25147540 ATCAGATATT
Statistics
Matches: 56, Mismatches: 7, Indels: 11
0.76 0.09 0.15
Matches are distributed among these distances:
25 2 0.04
26 27 0.48
27 25 0.45
29 2 0.04
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (26 bp):
AAATTATAAATAAAATATTAATATTC
Found at i:25147528 original size:27 final size:26
Alignment explanation
Indices: 25147451--25147538 Score: 76
Period size: 27 Copynumber: 3.4 Consensus size: 26
25147441 GTTTAAATTT
*
25147451 TAAATA-AAA-TATTAATATTCAAATTA
1 TAAATATAAATTATTAATATT-AAA-AA
**
25147477 TAAAT-T-AATTATTAATATTTTAAA
1 TAAATATAAATTATTAATATTAAAAA
25147501 TAAATTATAAATTATTAATATTAAAAA
1 TAAA-TATAAATTATTAATATTAAAAA
*
25147528 TATAAAATAAA
1 TA-AATATAAA
25147539 AATCAGATAT
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
24 5 0.10
25 4 0.08
26 16 0.32
27 23 0.46
28 2 0.04
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (26 bp):
TAAATATAAATTATTAATATTAAAAA
Found at i:25147556 original size:53 final size:53
Alignment explanation
Indices: 25147454--25147557 Score: 120
Period size: 53 Copynumber: 2.0 Consensus size: 53
25147444 TAAATTTTAA
* * * ** * *
25147454 ATAAAATATTAATATTCAAATTATAAATTAATTATTAATATTTTAAATAAATT
1 ATAAAATATTAATATTAAAAATATAAAATAAAAATCAATATTGTAAATAAATT
*
25147507 ATAAATTATTAATATTAAAAATATAAAATAAAAATCAGATATTGT-AATAAA
1 ATAAAATATTAATATTAAAAATATAAAATAAAAATCA-ATATTGTAAATAAA
25147558 AGATATTTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
53 36 0.86
54 6 0.14
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (53 bp):
ATAAAATATTAATATTAAAAATATAAAATAAAAATCAATATTGTAAATAAATT
Found at i:25150446 original size:30 final size:26
Alignment explanation
Indices: 25150364--25150464 Score: 79
Period size: 27 Copynumber: 3.9 Consensus size: 26
25150354 CGTCAATATC
*
25150364 ATATAATATTTTTATTAATAATTTAAATT
1 ATATAAAATTTTTA--AATAA-TTAAATT
* *
25150393 -TATTAAA-TTTAAAATAA--AAA-T
1 ATATAAAATTTTTAAATAATTAAATT
25150414 ATA-AAAATTTAATTAAATATATTAAATT
1 ATATAAAATTT--TTAAATA-ATTAAATT
25150442 ATATAAAATTTTTAAATAATTAA
1 ATATAAAATTTTTAAATAATTAA
25150465 TAAATTTTTA
Statistics
Matches: 58, Mismatches: 5, Indels: 21
0.69 0.06 0.25
Matches are distributed among these distances:
21 4 0.07
22 7 0.12
24 6 0.10
25 6 0.10
26 5 0.09
27 14 0.24
28 9 0.16
29 7 0.12
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (26 bp):
ATATAAAATTTTTAAATAATTAAATT
Found at i:25150488 original size:19 final size:20
Alignment explanation
Indices: 25150438--25150490 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 20
25150428 AAATATATTA
25150438 AATTATATAAAATTTTTAAAT
1 AATTAT-TAAAATTTTTAAAT
* **
25150459 AATTAAT-AAATTTTTATGT
1 AATTATTAAAATTTTTAAAT
25150478 -ATTATTAAAATTT
1 AATTATTAAAATTT
25150491 GTTGTGCTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
18 5 0.19
19 16 0.59
20 1 0.04
21 5 0.19
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (20 bp):
AATTATTAAAATTTTTAAAT
Found at i:25168467 original size:25 final size:23
Alignment explanation
Indices: 25168439--25168495 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 23
25168429 AATTCTTATG
25168439 TATAAATTAAATATATGTATATATA
1 TATAAATT-AATATAT-TATATATA
* * *
25168464 TATATATTACTTTA-T-TATATA
1 TATAAATTAATATATTATATATA
25168485 TATAAATTAAT
1 TATAAATTAAT
25168496 GATACAAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
21 15 0.56
22 1 0.04
24 4 0.15
25 7 0.26
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (23 bp):
TATAAATTAATATATTATATATA
Found at i:25168541 original size:216 final size:214
Alignment explanation
Indices: 25168262--25168680 Score: 628
Period size: 216 Copynumber: 1.9 Consensus size: 214
25168252 TTCATCCATA
* * *
25168262 ATTATATATATATAATTAATGATATAACTTATATAGTTATAATGTTTTTATATCAAAGTTTGTAT
1 ATTATATATATATAATTAATGATACAAATTATATAGTTAAAATGTTTTTATATCAAAGTTTGTAT
* * ** *
25168327 AAATATTAACTAATTATAAATAATATGTTATAAAATCTAA-GATGATAGTTAATAAATTTATTAA
66 AAATAATAACTAATTATAAACAATATGTTATAAAAT-TAAGGATGATAACTAATAAAATTATTAA
* * * *
25168391 GTGTAATCATATAAATAATGTTTATTATAAGTTATAGTAATTCTTATGTATAAATTAAATATATG
130 GCGTAATCATATAAATAAAGTCTATTATAAGTTATAGTAATGCTTATGTATAAATTAAATATATG
25168456 TATATATATATATATTACTTT
195 TATAT-TATATATATTACTTT
*
25168477 ATTATATATATA-AATTAATGATACAAATTATAT-GTTAAAATATTTTATATATATCAAAGTTTG
1 ATTATATATATATAATTAATGATACAAATTATATAGTTAAAAT-GTTT-T-TATATCAAAGTTTG
* *
25168540 TATAAATAATAATTAATTATAAACAATATGTTATAAAATTAAGGGTGATAACTAATAAAATTATT
63 TATAAATAATAACTAATTATAAACAATATGTTATAAAATTAAGGATGATAACTAATAAAATTATT
*
25168605 AAGCGTAATCATGTAAATAAAGTCTATTATAAGTTATAGTAATGCTTATGTATAAATTAAATATA
128 AAGCGTAATCATATAAATAAAGTCTATTATAAGTTATAGTAATGCTTATGTATAAATTAAATATA
25168670 TGTATATTATA
193 TGTATATTATA
25168681 ANNNNNNNNN
Statistics
Matches: 184, Mismatches: 16, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
213 7 0.04
214 22 0.12
215 20 0.11
216 135 0.73
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.43
Consensus pattern (214 bp):
ATTATATATATATAATTAATGATACAAATTATATAGTTAAAATGTTTTTATATCAAAGTTTGTAT
AAATAATAACTAATTATAAACAATATGTTATAAAATTAAGGATGATAACTAATAAAATTATTAAG
CGTAATCATATAAATAAAGTCTATTATAAGTTATAGTAATGCTTATGTATAAATTAAATATATGT
ATATTATATATATTACTTT
Found at i:25171702 original size:97 final size:97
Alignment explanation
Indices: 25171519--25171709 Score: 303
Period size: 97 Copynumber: 2.0 Consensus size: 97
25171509 TTGGCTGGCC
*
25171519 GGGGTAGACCAAAACAGAGGGAAGGAGACTTTAAGGACGTTATAGTTGAACCATGGCCAGCTGCA
1 GGGGTAGACCAAAACAGAGGGAAGGAGACTTTAAGGACGGTATAGTTGAACCATGGCCAGCTGCA
* * *
25171584 AACCCATGCTGTCTGTTAAATATGCAGCATCT
66 AACCCATCCTGTCTGTAAAATATACAGCATCT
** *
25171616 GGGGTAGACCAAAACAGAGGGAAGGAGACTTTAAGGGGGGTATAGTTGAACCATGGCCAGTTGCA
1 GGGGTAGACCAAAACAGAGGGAAGGAGACTTTAAGGACGGTATAGTTGAACCATGGCCAGCTGCA
25171681 AA-CCATCCTGTCTGTGAAAATATACAGCA
66 AACCCATCCTGTCTGT-AAAATATACAGCA
25171710 AAAATCCAGA
Statistics
Matches: 86, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
96 12 0.14
97 74 0.86
ACGTcount: A:0.33, C:0.18, G:0.28, T:0.20
Consensus pattern (97 bp):
GGGGTAGACCAAAACAGAGGGAAGGAGACTTTAAGGACGGTATAGTTGAACCATGGCCAGCTGCA
AACCCATCCTGTCTGTAAAATATACAGCATCT
Found at i:25172629 original size:27 final size:28
Alignment explanation
Indices: 25172599--25172691 Score: 107
Period size: 29 Copynumber: 3.3 Consensus size: 28
25172589 AAACATTAAA
* *
25172599 GTGTAACAA-AATATTTTTGAATATGGC
1 GTGTAACAACAATATTTTTCAACATGGC
* * *
25172626 GTGTAACAATAATATTTTCTCAACATAGA
1 GTGTAACAACAATATTTT-TCAACATGGC
*
25172655 GTGTAATAACAATATTTTTCCAACATGGC
1 GTGTAACAACAATATTTTT-CAACATGGC
25172684 GTGTAACA
1 GTGTAACA
25172692 TGATTTTGTA
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
27 9 0.17
28 9 0.17
29 36 0.67
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.34
Consensus pattern (28 bp):
GTGTAACAACAATATTTTTCAACATGGC
Found at i:25172668 original size:29 final size:29
Alignment explanation
Indices: 25172573--25172691 Score: 86
Period size: 29 Copynumber: 4.2 Consensus size: 29
25172563 TGGTTTGTAA
* * *
25172573 GTAACAACAACA-TTTT-AAACATTAAAGT
1 GTAACAACAATATTTTTCCAACA-TAGAGT
* * * *
25172601 GTAACAA-AATATTTTT-GAATATGGCGT
1 GTAACAACAATATTTTTCCAACATAGAGT
*
25172628 GTAACAATAATA-TTTTCTCAACATAGAGT
1 GTAACAACAATATTTTTC-CAACATAGAGT
* * *
25172657 GTAATAACAATATTTTTCCAACATGGCGT
1 GTAACAACAATATTTTTCCAACATAGAGT
25172686 GTAACA
1 GTAACA
25172692 TGATTTTGTA
Statistics
Matches: 71, Mismatches: 15, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
27 17 0.24
28 18 0.25
29 31 0.44
30 5 0.07
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (29 bp):
GTAACAACAATATTTTTCCAACATAGAGT
Found at i:25172794 original size:24 final size:26
Alignment explanation
Indices: 25172736--25172796 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
25172726 TTTTTTCAAT
*
25172736 ATGACGTGTAACAACTTTTTTTAACC
1 ATGACGTGTAACAACTTTTTGTAACC
*
25172762 ATTGA-GTGTAACAAGTTTTTGT-A-C
1 A-TGACGTGTAACAACTTTTTGTAACC
25172786 ATGACGTGTAA
1 ATGACGTGTAA
25172797 TAATAATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
23 3 0.10
24 8 0.26
25 1 0.03
26 16 0.52
27 3 0.10
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (26 bp):
ATGACGTGTAACAACTTTTTGTAACC
Found at i:25172826 original size:54 final size:54
Alignment explanation
Indices: 25172751--25172884 Score: 126
Period size: 54 Copynumber: 2.4 Consensus size: 54
25172741 GTGTAACAAC
* * *
25172751 TTTTTTTAACCATTG-AGTGTAACAAGTTTTTGTACATGACGTGTAATAATAATAT
1 TTTTTTTAA-CATAGCA-TGTAACAAGTTTTTATACATGACGTGTAATAATAACAT
* * * ** *
25172806 TTTTTTTAACATAGCATGTAATATGTTTTTATTCATGGTGTGTAATAATAGCAT
1 TTTTTTTAACATAGCATGTAACAAGTTTTTATACATGACGTGTAATAATAACAT
* * *
25172860 TTTTTTTCAATATAGCGTATAACAA
1 TTTTTTT-AACATAGCATGTAACAA
25172885 CTTAACAATG
Statistics
Matches: 63, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
54 41 0.65
55 22 0.35
ACGTcount: A:0.32, C:0.09, G:0.13, T:0.46
Consensus pattern (54 bp):
TTTTTTTAACATAGCATGTAACAAGTTTTTATACATGACGTGTAATAATAACAT
Found at i:25172980 original size:76 final size:76
Alignment explanation
Indices: 25172846--25172987 Score: 185
Period size: 76 Copynumber: 1.9 Consensus size: 76
25172836 ATTCATGGTG
* * *
25172846 TGTAATAATAGCATTTTTTTTCAATATAGCGTATAACAACTTAACAATGACGTGTAACATATTTT
1 TGTAATAATAGCATTTTTTTTCAACATAGCGTATAACAACTTAACAATGACATATAACATATTTT
25172911 TGTTCATAACA
66 TGTTCATAACA
* * * * * ** *
25172922 TGTAATAATAGTATTTTTTTTCAACATGGCTTGTAACAACTTAACCATGGTATATAACATGTTTT
1 TGTAATAATAGCATTTTTTTTCAACATAGCGTATAACAACTTAACAATGACATATAACATATTTT
25172987 T
66 T
25172988 CACATGAAGT
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
76 55 1.00
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.42
Consensus pattern (76 bp):
TGTAATAATAGCATTTTTTTTCAACATAGCGTATAACAACTTAACAATGACATATAACATATTTT
TGTTCATAACA
Found at i:25173763 original size:2 final size:2
Alignment explanation
Indices: 25173758--25173792 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
25173748 TTTGTTTGGG
*
25173758 TA TA TA TA TA TA TA TA TA T- TA TA TA TA TA GA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
25173793 GAGAGAGAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:25173782 original size:17 final size:17
Alignment explanation
Indices: 25173760--25173792 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
25173750 TGTTTGGGTA
*
25173760 TATATATATATATATAT
1 TATATATATAGATATAT
25173777 TATATATATAGATATA
1 TATATATATAGATATA
25173793 GAGAGAGAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (17 bp):
TATATATATAGATATAT
Found at i:25173797 original size:2 final size:2
Alignment explanation
Indices: 25173792--25173824 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
25173782 ATATAGATAT
25173792 AG AG AG AG AG -G AG AG AG AG AG AG AG -G AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
25173825 AAAGAGGTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 27 0.93
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
AG
Found at i:25173810 original size:13 final size:12
Alignment explanation
Indices: 25173792--25173824 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
25173782 ATATAGATAT
25173792 AGAGAGAGAG-G
1 AGAGAGAGAGAG
25173803 AGAGAGAGAGAG
1 AGAGAGAGAGAG
25173815 AG-GAGAGAGA
1 AGAGAGAGAGA
25173825 AAAGAGGTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 18 0.86
12 3 0.14
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (12 bp):
AGAGAGAGAGAG
Found at i:25173810 original size:15 final size:15
Alignment explanation
Indices: 25173792--25173824 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
25173782 ATATAGATAT
25173792 AGAGAGAGAGGAGAG
1 AGAGAGAGAGGAGAG
25173807 AGAGAGAGAGGAGAG
1 AGAGAGAGAGGAGAG
25173822 AGA
1 AGA
25173825 AAAGAGGTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (15 bp):
AGAGAGAGAGGAGAG
Found at i:25173859 original size:2 final size:2
Alignment explanation
Indices: 25173848--25173888 Score: 54
Period size: 2 Copynumber: 22.5 Consensus size: 2
25173838 GACAGAAAGN
25173848 AT AT AT -T AT AT AT AT -T AT AT AT AT -T AT AT A- AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
25173886 AT A
1 AT A
25173889 GAGAGAGAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
1 4 0.11
2 31 0.89
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:25173862 original size:9 final size:9
Alignment explanation
Indices: 25173848--25173887 Score: 66
Period size: 9 Copynumber: 4.7 Consensus size: 9
25173838 GACAGAAAGN
25173848 ATATATTAT
1 ATATATTAT
25173857 ATATATTAT
1 ATATATTAT
25173866 ATATATTAT
1 ATATATTAT
25173875 ATA-A-TAT
1 ATATATTAT
25173882 ATATAT
1 ATATAT
25173888 AGAGAGAGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 6 0.21
8 2 0.07
9 21 0.72
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (9 bp):
ATATATTAT
Found at i:25173893 original size:2 final size:2
Alignment explanation
Indices: 25173888--25173920 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
25173878 ATATATATAT
25173888 AG AG AG AG AG AG AG AG A- AG AG AG AG A- AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
25173921 AAAGTGAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 27 0.93
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (2 bp):
AG
Found at i:25173910 original size:9 final size:9
Alignment explanation
Indices: 25173888--25173920 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
25173878 ATATATATAT
25173888 AGAGAGAG-
1 AGAGAGAGA
25173896 AGAGAGAGA
1 AGAGAGAGA
25173905 AGAGAGAGA
1 AGAGAGAGA
25173914 AGAGAGA
1 AGAGAGA
25173921 AAAGTGAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (9 bp):
AGAGAGAGA
Found at i:25181040 original size:30 final size:30
Alignment explanation
Indices: 25181006--25181106 Score: 89
Period size: 30 Copynumber: 3.4 Consensus size: 30
25180996 AATCATTATT
* *
25181006 TATAAAAATTTATTTGACTCAAAATTAAAA
1 TATAAAAACTTATTTGACTCAAAATAAAAA
** * ** *
25181036 TATAATGACTTATTAGGTTTAAAATAAAAA
1 TATAAAAACTTATTTGACTCAAAATAAAAA
*
25181066 TATAAAAACTTATTTGAATGC--AATAAAAA
1 TATAAAAACTTATTTGACT-CAAAATAAAAA
*
25181095 TATAAGAACTTA
1 TATAAAAACTTA
25181107 CTTAAATTTT
Statistics
Matches: 55, Mismatches: 15, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
29 19 0.35
30 36 0.65
ACGTcount: A:0.52, C:0.06, G:0.07, T:0.35
Consensus pattern (30 bp):
TATAAAAACTTATTTGACTCAAAATAAAAA
Found at i:25183906 original size:23 final size:23
Alignment explanation
Indices: 25183874--25183918 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
25183864 AAATAATAAA
*
25183874 ACTAAATAAATAATAATTATTAT
1 ACTAAATAAATAATAATCATTAT
* *
25183897 ACTAACTAAATATTAATCATTA
1 ACTAAATAAATAATAATCATTA
25183919 AATAATAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (23 bp):
ACTAAATAAATAATAATCATTAT
Found at i:25187820 original size:21 final size:20
Alignment explanation
Indices: 25187761--25187822 Score: 58
Period size: 20 Copynumber: 3.0 Consensus size: 20
25187751 TTAGCTTAAC
*
25187761 TATTCTGTTCTTTATTTTTA
1 TATTTTGTTCTTTATTTTTA
25187781 T-TTCTAT-TTCTTTGA-TTTTA
1 TATT-T-TGTTCTTT-ATTTTTA
25187801 GTATTTTGTTCTTTATTTTTA
1 -TATTTTGTTCTTTATTTTTA
25187822 T
1 T
25187823 TTCAATTTGG
Statistics
Matches: 34, Mismatches: 1, Indels: 14
0.69 0.02 0.29
Matches are distributed among these distances:
19 2 0.06
20 15 0.44
21 15 0.44
22 2 0.06
ACGTcount: A:0.15, C:0.08, G:0.06, T:0.71
Consensus pattern (20 bp):
TATTTTGTTCTTTATTTTTA
Found at i:25188252 original size:3 final size:3
Alignment explanation
Indices: 25188244--25188286 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
25188234 AGGGTAAAGG
25188244 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
25188287 AGAAGCTATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:25193951 original size:2 final size:2
Alignment explanation
Indices: 25193944--25194035 Score: 67
Period size: 2 Copynumber: 49.5 Consensus size: 2
25193934 CAAGTATAAT
* *
25193944 TA TA TA TA TA TA TA TA TA -A TA TA TA TA -A AA TA TA TA -A AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
25193983 TA TA TNA -A T- TT TA GTA T- TA TT TA T- TA TA TA -A T- TA TA TA
1 TA TA T-A TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
25194021 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
25194036 TGAGTTGAAA
Statistics
Matches: 74, Mismatches: 5, Indels: 22
0.73 0.05 0.22
Matches are distributed among these distances:
1 9 0.12
2 62 0.84
3 3 0.04
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (2 bp):
TA
Found at i:25193955 original size:8 final size:8
Alignment explanation
Indices: 25193944--25194035 Score: 67
Period size: 7 Copynumber: 12.4 Consensus size: 8
25193934 CAAGTATAAT
25193944 TATATATA
1 TATATATA
25193952 TATATATA
1 TATATATA
25193960 TA-ATATA
1 TATATATA
*
25193967 TATA-AAA
1 TATATATA
25193974 TATATA-A
1 TATATATA
*
25193981 AATATATNA
1 TATATAT-A
*
25193990 -AT-TTTA
1 TATATATA
*
25193996 GTAT-TATT
1 -TATATATA
25194004 TAT-TATA
1 TATATATA
25194011 TA-AT-TA
1 TATATATA
25194017 TATATATA
1 TATATATA
25194025 TATATATA
1 TATATATA
25194033 TAT
1 TAT
25194036 TGAGTTGAAA
Statistics
Matches: 69, Mismatches: 6, Indels: 18
0.74 0.06 0.19
Matches are distributed among these distances:
6 5 0.07
7 32 0.46
8 31 0.45
9 1 0.01
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (8 bp):
TATATATA
Found at i:25197771 original size:18 final size:18
Alignment explanation
Indices: 25197750--25197784 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
25197740 TCATGTTGAT
25197750 ACGATTAATATACGAAAA
1 ACGATTAATATACGAAAA
*
25197768 ACGATTAATATATGAAA
1 ACGATTAATATACGAAA
25197785 CACAATTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.09, G:0.11, T:0.26
Consensus pattern (18 bp):
ACGATTAATATACGAAAA
Found at i:25197792 original size:18 final size:18
Alignment explanation
Indices: 25197753--25197792 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
25197743 TGTTGATACG
*
25197753 ATTAATATACGAAAAACG
1 ATTAATATACGAAAAACA
* *
25197771 ATTAATATATGAAACACA
1 ATTAATATACGAAAAACA
25197789 ATTA
1 ATTA
25197793 TCTTAAATTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.55, C:0.10, G:0.07, T:0.28
Consensus pattern (18 bp):
ATTAATATACGAAAAACA
Found at i:25201037 original size:69 final size:69
Alignment explanation
Indices: 25200859--25201071 Score: 273
Period size: 69 Copynumber: 3.0 Consensus size: 69
25200849 TTTTGTCTTC
* * * *
25200859 TTTGCAATTTCTTCTCTACTTCCTTCTCTCTTTATAAAGACCCATTTTTACTCTACAACACTTCA
1 TTTGCATTTTATTCTCTACTTCCTTCTCTCTTTATAAAGAGCCATTTTTACT-T--TACAC--CA
25200924 TTTCATAGA
61 TTTCATAGA
* * *
25200933 TTTGCATTTAATTCTCTACTTCCTTCTCTCCTTATAAAGAGCCATTTTTACTTTACACCATATCA
1 TTTGCATTTTATTCTCTACTTCCTTCTCTCTTTATAAAGAGCCATTTTTACTTTACACCATTTCA
25200998 TAGA
66 TAGA
* * * *
25201002 TTTGCATTTTTTTCTCTACTTCCTTCTTTCTTTATAAAGAGCCATCTTTACTCTACACCATTTCA
1 TTTGCATTTTATTCTCTACTTCCTTCTCTCTTTATAAAGAGCCATTTTTACTTTACACCATTTCA
*
25201067 GAGA
66 TAGA
25201071 T
1 T
25201072 ATCTAATTTG
Statistics
Matches: 124, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
69 72 0.58
71 4 0.03
73 1 0.01
74 47 0.38
ACGTcount: A:0.24, C:0.25, G:0.06, T:0.45
Consensus pattern (69 bp):
TTTGCATTTTATTCTCTACTTCCTTCTCTCTTTATAAAGAGCCATTTTTACTTTACACCATTTCA
TAGA
Found at i:25207614 original size:25 final size:25
Alignment explanation
Indices: 25207584--25207674 Score: 112
Period size: 25 Copynumber: 3.6 Consensus size: 25
25207574 ACAACTTGAT
* *
25207584 CTTGATCACGAACTTTGCTTGATGA
1 CTTGATCACGAACTTCGCTTAATGA
* *
25207609 CTTGATCACAAACTTCGCTTAAGGA
1 CTTGATCACGAACTTCGCTTAATGA
*
25207634 CTTGATCACGAACTTCGCTTCAT-A
1 CTTGATCACGAACTTCGCTTAATGA
*
25207658 CCTTGGTCACGAACTTC
1 -CTTGATCACGAACTTC
25207675 TCTGTCACTT
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
24 1 0.02
25 56 0.98
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.32
Consensus pattern (25 bp):
CTTGATCACGAACTTCGCTTAATGA
Found at i:25208088 original size:57 final size:57
Alignment explanation
Indices: 25207974--25208088 Score: 128
Period size: 57 Copynumber: 2.0 Consensus size: 57
25207964 AAGTTAGGCA
* * * **
25207974 TTATCTCTAAATTATCTTAATTTATTTAGAAATAAATTACATAATCAAATTTGATTT
1 TTATCTCTAAATTATCATAATTTATTTAGAAATAAATTAAATAACCAAATTAAATTT
*
25208031 TTATCTCTAAATTATCATAA-TTA-TTA-AAGATAAATTAAATGACCAATAATTAAATTT
1 TTATCTCTAAATTATCATAATTTATTTAGAA-ATAAATTAAATAACC-A-AATTAAATTT
25208088 T
1 T
25208089 GATTGGTCAA
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
54 2 0.04
55 15 0.31
56 4 0.08
57 28 0.57
ACGTcount: A:0.43, C:0.09, G:0.03, T:0.44
Consensus pattern (57 bp):
TTATCTCTAAATTATCATAATTTATTTAGAAATAAATTAAATAACCAAATTAAATTT
Found at i:25208317 original size:2 final size:2
Alignment explanation
Indices: 25208310--25208352 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
25208300 TCCCTTCTAC
25208310 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
25208352 A
1 A
25208353 ATTCTTCAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:25209922 original size:24 final size:25
Alignment explanation
Indices: 25209873--25209922 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 25
25209863 CACCTCTTTC
25209873 TCTCTCTTTCTTTTTTTTTTTCTAT
1 TCTCTCTTTCTTTTTTTTTTTCTAT
*
25209898 TCTCT-TTTGTTTTTTTATTTT-TAT
1 TCTCTCTTTCTTTTTTT-TTTTCTAT
25209922 T
1 T
25209923 TTATTCTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.06, C:0.14, G:0.02, T:0.78
Consensus pattern (25 bp):
TCTCTCTTTCTTTTTTTTTTTCTAT
Found at i:25210181 original size:14 final size:14
Alignment explanation
Indices: 25210141--25210188 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
25210131 TATTTAACTT
*
25210141 TTTAAAATTTTATA
1 TTTAATATTTTATA
25210155 TATT-ATAATTTTATA
1 T-TTAAT-ATTTTATA
*
25210170 TTTAATATTTTAAA
1 TTTAATATTTTATA
25210184 TTTAA
1 TTTAA
25210189 ATAAAAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
14 16 0.55
15 13 0.45
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
TTTAATATTTTATA
Found at i:25210187 original size:20 final size:21
Alignment explanation
Indices: 25210149--25210187 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
25210139 TTTTTAAAAT
*
25210149 TTTATATATTATAATTTTATA
1 TTTATATATTATAAATTTATA
*
25210170 TTTA-ATATTTTAAATTTA
1 TTTATATATTATAAATTTA
25210188 AATAAAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTATATATTATAAATTTATA
Found at i:25210892 original size:14 final size:15
Alignment explanation
Indices: 25210866--25210895 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
25210856 AACCTTTACG
25210866 ATTAATAATTAATTA
1 ATTAATAATTAATTA
25210881 ATTAAT-ATTAATTA
1 ATTAATAATTAATTA
25210895 A
1 A
25210896 AATATCACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTAATAATTAATTA
Found at i:25218842 original size:2 final size:2
Alignment explanation
Indices: 25218835--25218875 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
25218825 ATAATAATTG
* *
25218835 TA TA TA TA TG TA TA TA TA TA TA TA TA -A AA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
25218876 ATTCCTCAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (2 bp):
TA
Found at i:25224614 original size:63 final size:63
Alignment explanation
Indices: 25224527--25224654 Score: 193
Period size: 63 Copynumber: 2.0 Consensus size: 63
25224517 ACCAAAATCA
* * * **
25224527 ACTTCAAATGGTCATTGAATATCCATGTCACATTCATGTTTAAAGCGCATAAAGAACATTTGT
1 ACTTAAAATGGTCATTGAACATCCATGTCACATTCATGTTCAAAGAACATAAAGAACATTTGT
* *
25224590 ACTTAAAATGTTCATTGAACATCCATGTCATATTCATGTTCAAAGAACATAAAGAACATTTGT
1 ACTTAAAATGGTCATTGAACATCCATGTCACATTCATGTTCAAAGAACATAAAGAACATTTGT
25224653 AC
1 AC
25224655 AAGGAAATAT
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
63 58 1.00
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (63 bp):
ACTTAAAATGGTCATTGAACATCCATGTCACATTCATGTTCAAAGAACATAAAGAACATTTGT
Found at i:25227349 original size:26 final size:23
Alignment explanation
Indices: 25227320--25227379 Score: 57
Period size: 26 Copynumber: 2.5 Consensus size: 23
25227310 ATATTGTGTC
*
25227320 ATAAAATTTATATTAGTAAAAAATAT
1 ATAAAATTTATATT--TAAAAAA-AA
* *
25227346 ATAAATTTTAGATTTAAAAAAAA
1 ATAAAATTTATATTTAAAAAAAA
*
25227369 ATAATATTTAT
1 ATAAAATTTAT
25227380 TAAATATATT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
23 9 0.32
24 7 0.25
26 12 0.43
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (23 bp):
ATAAAATTTATATTTAAAAAAAA
Found at i:25228014 original size:29 final size:29
Alignment explanation
Indices: 25227950--25228021 Score: 99
Period size: 29 Copynumber: 2.4 Consensus size: 29
25227940 TAAATGTGTA
* * *
25227950 AAAATAATAAAAATCATAATATATAATGT
1 AAAATAGTTAAAACCATAATATATAATGT
*
25227979 AAAATAGTTAAAACCATAATATATGATGT
1 AAAATAGTTAAAACCATAATATATAATGT
25228008 AAAATAGTTGAAAA
1 AAAATAGTT-AAAA
25228022 TCGATATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
29 34 0.89
30 4 0.11
ACGTcount: A:0.58, C:0.04, G:0.08, T:0.29
Consensus pattern (29 bp):
AAAATAGTTAAAACCATAATATATAATGT
Found at i:25236143 original size:25 final size:25
Alignment explanation
Indices: 25236068--25236136 Score: 111
Period size: 25 Copynumber: 2.8 Consensus size: 25
25236058 ATATCAACTT
* *
25236068 CTGGAATTTTTTTCAGCCCTTAGTA
1 CTGGAAATTTTTTCAGCACTTAGTA
*
25236093 CCGGAAATTTTTTCAGCACTTAGTA
1 CTGGAAATTTTTTCAGCACTTAGTA
25236118 CTGGAAATTTTTTCAGCAC
1 CTGGAAATTTTTTCAGCAC
25236137 ATGGTACATA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (25 bp):
CTGGAAATTTTTTCAGCACTTAGTA
Found at i:25241391 original size:20 final size:19
Alignment explanation
Indices: 25241339--25241391 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 19
25241329 CCTAAAGGGT
*
25241339 TTCCTTTTTGTTTCCTTCTC
1 TTCCTTTTT-TTTTCTTCTC
*
25241359 TTCCTTTTTTTTTNTTCTTC
1 TTCCTTTTTTTTTCTTC-TC
25241379 TTCCTTTTTTTTT
1 TTCCTTTTTTTTT
25241392 TTTGGTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 6 0.20
20 24 0.80
ACGTcount: A:0.00, C:0.23, G:0.02, T:0.74
Consensus pattern (19 bp):
TTCCTTTTTTTTTCTTCTC
Found at i:25241402 original size:14 final size:14
Alignment explanation
Indices: 25241383--25241415 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
25241373 TTCTTCTTCC
25241383 TTTTTTTT-TTTTGG
1 TTTTTTTTGTTTT-G
25241397 TTTTTTTTGTTTTG
1 TTTTTTTTGTTTTG
25241411 TTTTT
1 TTTTT
25241416 CTTTCTCTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (14 bp):
TTTTTTTTGTTTTG
Found at i:25246459 original size:16 final size:16
Alignment explanation
Indices: 25246438--25246474 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
25246428 GATGTTCCAA
*
25246438 CAAGATCTATTACTTG
1 CAAGATCTATAACTTG
25246454 CAAGATCTATAACTTG
1 CAAGATCTATAACTTG
25246470 CAAGA
1 CAAGA
25246475 AAGGCCAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.30
Consensus pattern (16 bp):
CAAGATCTATAACTTG
Found at i:25262243 original size:23 final size:23
Alignment explanation
Indices: 25262217--25262265 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
25262207 GGTATAATGT
25262217 TTTAAAAA-AATATATGAATTTTA
1 TTTAAAAATAAT-TATGAATTTTA
**
25262240 TTTAAAAATAATTATTTATTTTA
1 TTTAAAAATAATTATGAATTTTA
25262263 TTT
1 TTT
25262266 TATTACCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 20 0.87
24 3 0.13
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (23 bp):
TTTAAAAATAATTATGAATTTTA
Found at i:25262498 original size:4 final size:4
Alignment explanation
Indices: 25262491--25262517 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
25262481 ATATATAGAT
25262491 ATAG ATAG ATAG ATAG ATAG ATAG ATA
1 ATAG ATAG ATAG ATAG ATAG ATAG ATA
25262518 AAGAAAAGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.22, T:0.26
Consensus pattern (4 bp):
ATAG
Found at i:25266719 original size:2 final size:2
Alignment explanation
Indices: 25266712--25266744 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
25266702 ATTTGGGAGA
25266712 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
25266745 AGGCTTTGAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:25272672 original size:2 final size:2
Alignment explanation
Indices: 25272665--25272691 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
25272655 TCCCTCCGTG
25272665 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
25272692 AGACACACAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:25274332 original size:26 final size:26
Alignment explanation
Indices: 25274293--25274346 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
25274283 ATTAGAGTTT
* *
25274293 TTGTTGAACGTGATGTTGGAATATGG
1 TTGTTGAACATGATGTGGGAATATGG
25274319 TTGTTGAACATGATGTGGGAATATGG
1 TTGTTGAACATGATGTGGGAATATGG
25274345 TT
1 TT
25274347 TGAGAGTGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.24, C:0.04, G:0.33, T:0.39
Consensus pattern (26 bp):
TTGTTGAACATGATGTGGGAATATGG
Found at i:25277311 original size:18 final size:18
Alignment explanation
Indices: 25277288--25277322 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
25277278 TACACCTCCA
* *
25277288 TTTCTTTGTTTGTTTCTC
1 TTTCTTTCTTTCTTTCTC
25277306 TTTCTTTCTTTCTTTCT
1 TTTCTTTCTTTCTTTCT
25277323 TTTTTTTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.00, C:0.20, G:0.06, T:0.74
Consensus pattern (18 bp):
TTTCTTTCTTTCTTTCTC
Found at i:25306686 original size:175 final size:174
Alignment explanation
Indices: 25306375--25306724 Score: 504
Period size: 175 Copynumber: 2.0 Consensus size: 174
25306365 TACCATATTG
* * * *
25306375 ATACAATCTTCATGTGAGGTAACACCTTGTATTGTGTTTTAAAATCATAAGTCTCTCCACTTTGT
1 ATACAATCTTCATGTGAGGCAACACCTTGGATTGTGTTTTAAAATCACAAGTCTCTCCACTATGT
* * * * * *
25306440 ATTATGAGAGTAAGTGTTCTGTCACAAGTACAACGGGTTTTGTGGTAATAGATTGTAGCTGTCGA
66 ATTACGAGAATAAATATTCTGTCACAAGTACAACGGGTCTTGTGGTAATAGATTGTAGCTATCGA
25306505 AGTGTGTCATGTTAAGATTGTCTGTTCCTAA-GTAATTAAGCAAA
131 AGTGTGTCATGTTAAGATTGTCTGTTCC-AAGGTAATTAAGCAAA
* * * *
25306549 ATACAATTTTTATGATGAGGCAACACCTTGGATTGTGTTTTAAAATCACGAGTCTCTCTACTATG
1 ATACAATCTTCATG-TGAGGCAACACCTTGGATTGTGTTTTAAAATCACAAGTCTCTCCACTATG
* * * *
25306614 TATTCCGAGAATAAATATTCTGTCAGAAGTACAACGGGTCTTGTGGTGATAGATTGTAGCTATCT
65 TATTACGAGAATAAATATTCTGTCACAAGTACAACGGGTCTTGTGGTAATAGATTGTAGCTATCG
*
25306679 AAGTGTGTCATGTTCAGATTGTCTGTTCCAAGGTAATTAAGCAAA
130 AAGTGTGTCATGTTAAGATTGTCTGTTCCAAGGTAATTAAGCAAA
25306724 A
1 A
25306725 GTTTGTCAGA
Statistics
Matches: 155, Mismatches: 19, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
174 14 0.09
175 141 0.91
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (174 bp):
ATACAATCTTCATGTGAGGCAACACCTTGGATTGTGTTTTAAAATCACAAGTCTCTCCACTATGT
ATTACGAGAATAAATATTCTGTCACAAGTACAACGGGTCTTGTGGTAATAGATTGTAGCTATCGA
AGTGTGTCATGTTAAGATTGTCTGTTCCAAGGTAATTAAGCAAA
Found at i:25314876 original size:12 final size:12
Alignment explanation
Indices: 25314859--25314884 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
25314849 CTTTTCTTTC
25314859 TTTTGTTTTTTA
1 TTTTGTTTTTTA
25314871 TTTTGTTTTTTA
1 TTTTGTTTTTTA
25314883 TT
1 TT
25314885 GTTTTCTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.85
Consensus pattern (12 bp):
TTTTGTTTTTTA
Found at i:25323155 original size:27 final size:27
Alignment explanation
Indices: 25323117--25323182 Score: 123
Period size: 27 Copynumber: 2.4 Consensus size: 27
25323107 CCTTAGCATG
25323117 TTTTTACTAAGGATCAATTGGCAGACA
1 TTTTTACTAAGGATCAATTGGCAGACA
*
25323144 TTTTTACTAAGGATCAATTGGTAGACA
1 TTTTTACTAAGGATCAATTGGCAGACA
25323171 TTTTTACTAAGG
1 TTTTTACTAAGG
25323183 CGCTACCACT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (27 bp):
TTTTTACTAAGGATCAATTGGCAGACA
Found at i:25323518 original size:53 final size:54
Alignment explanation
Indices: 25323433--25323534 Score: 179
Period size: 53 Copynumber: 1.9 Consensus size: 54
25323423 TCCATCTCTT
* *
25323433 AACTTTTTCTAGATTTTTTTTCAGATTCTTCGTCTCTTTCTCAATAATCGACAA
1 AACTTTCTCTAGATTTTTTTTCAGATTCTTCGTCTCTTCCTCAATAATCGACAA
25323487 AACTTTCTCTAGA-TTTTTTTCAGATTCTTCGTCTCTTCCTCAATAATC
1 AACTTTCTCTAGATTTTTTTTCAGATTCTTCGTCTCTTCCTCAATAATC
25323535 AACAGGATTG
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
53 34 0.74
54 12 0.26
ACGTcount: A:0.23, C:0.23, G:0.07, T:0.48
Consensus pattern (54 bp):
AACTTTCTCTAGATTTTTTTTCAGATTCTTCGTCTCTTCCTCAATAATCGACAA
Found at i:25325618 original size:2 final size:2
Alignment explanation
Indices: 25325611--25325636 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
25325601 TATGGTGTTA
25325611 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
25325637 TTACTTGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25327176 original size:18 final size:19
Alignment explanation
Indices: 25327148--25327187 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
25327138 AAAATGGATA
*
25327148 TTATATTTTAATTATTTGT
1 TTATATTTTAATCATTTGT
*
25327167 TTAT-TTTTAATCATTTTT
1 TTATATTTTAATCATTTGT
25327185 TTA
1 TTA
25327188 AATGCATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.70
Consensus pattern (19 bp):
TTATATTTTAATCATTTGT
Found at i:25334587 original size:45 final size:45
Alignment explanation
Indices: 25334536--25334631 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
25334526 TTTTTCAACG
*
25334536 TGGCGTGCCACATATTTTTGTACATGACGTACAACAACCTAACCA
1 TGGCGTGCCACATATTTTTGTACATGACGTACAACAACCTAACAA
* * * **
25334581 TGGCGTGTCACATGTTTTTGTACATGGCGTGTAACAACCTAACAA
1 TGGCGTGCCACATATTTTTGTACATGACGTACAACAACCTAACAA
25334626 TGGCGT
1 TGGCGT
25334632 ATAACAACTT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (45 bp):
TGGCGTGCCACATATTTTTGTACATGACGTACAACAACCTAACAA
Found at i:25334630 original size:21 final size:21
Alignment explanation
Indices: 25334604--25334644 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
25334594 GTTTTTGTAC
*
25334604 ATGGCGTGTAACAACCTAACA
1 ATGGCGTATAACAACCTAACA
*
25334625 ATGGCGTATAACAACTTAAC
1 ATGGCGTATAACAACCTAAC
25334645 CATATTGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.22
Consensus pattern (21 bp):
ATGGCGTATAACAACCTAACA
Found at i:25334744 original size:111 final size:109
Alignment explanation
Indices: 25334544--25334848 Score: 373
Period size: 111 Copynumber: 2.8 Consensus size: 109
25334534 CGTGGCGTGC
* * *
25334544 CACATATTTTTGTACATGACGTACAACAACCTAACCATGGCGTGTCACATGTTTTTGTACATGGC
1 CACATATTTTTGTACATGACGTATAACAA-CTAACCATGACGTGTCACATGTTTTTGTACATGAC
* *
25334609 GTGTAACAACCTAACAATGGCGTATAACAACTTAACCAT-ATTGTTT
65 GTGTAACAACCTAACCATGGCGTATAACAACTTAA-CATGA-TGTAT
* * * * * * *
25334655 TACATGTTTTTGTACATAACGTGTAACAATCTAGCCATGACATATCACATGTTTTTGTACATGAC
1 CACATATTTTTGTACATGACGTATAACAA-CTAACCATGACGTGTCACATGTTTTTGTACATGAC
*
25334720 GTGTAACAATCTAACCATGGCGTATAACAACTTAACATGATGTAT
65 GTGTAACAACCTAACCATGGCGTATAACAACTTAACATGATGTAT
* * *
25334765 CACATATTTTTGTACATG--GTATCTAACAACTTAACCATGACGTGTCACATGTTTTTATATACG
1 CACATATTTTTGTACATGACGTA--TAACAAC-TAACCATGACGTGTCACATGTTTTTGTACATG
*
25334828 ACGTGTAATAACCTAACCATG
63 ACGTGTAACAACCTAACCATG
25334849 ACATGTAATT
Statistics
Matches: 164, Mismatches: 26, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
108 2 0.01
109 1 0.01
110 73 0.45
111 88 0.54
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.33
Consensus pattern (109 bp):
CACATATTTTTGTACATGACGTATAACAACTAACCATGACGTGTCACATGTTTTTGTACATGACG
TGTAACAACCTAACCATGGCGTATAACAACTTAACATGATGTAT
Found at i:25335579 original size:20 final size:20
Alignment explanation
Indices: 25335538--25335579 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
25335528 AATAATACTT
*
25335538 TTTATTATAATATATAATTA
1 TTTATTATAATATATAAATA
*
25335558 TTTATTAATAAT-TTTAAATA
1 TTTATT-ATAATATATAAATA
25335578 TT
1 TT
25335580 AATATTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TTTATTATAATATATAAATA
Found at i:25335589 original size:27 final size:27
Alignment explanation
Indices: 25335558--25335633 Score: 136
Period size: 27 Copynumber: 2.9 Consensus size: 27
25335548 TATATAATTA
25335558 TTTATTAATAATTTTAAATATTAATAT
1 TTTATTAATAATTTTAAATATTAATAT
25335585 TTTATTAATAATTTTAAATATTAATAT
1 TTTATTAATAATTTTAAATATTAATAT
*
25335612 TTTATTTATAA-TTTAAATATTA
1 TTTATTAATAATTTTAAATATTA
25335634 TTATGATTAA
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
26 11 0.23
27 37 0.77
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (27 bp):
TTTATTAATAATTTTAAATATTAATAT
Found at i:25335662 original size:20 final size:20
Alignment explanation
Indices: 25335600--25335663 Score: 67
Period size: 20 Copynumber: 3.0 Consensus size: 20
25335590 TAATAATTTT
*
25335600 AAATATTAATATTTTATTTA
1 AAATATTAATATTTTAATTA
*
25335620 TAAT-TTAAATATTATTATGATTA
1 AAATATT-AATATT-TTA--ATTA
25335643 AAATATTAATATTTTAATTA
1 AAATATTAATATTTTAATTA
25335663 A
1 A
25335664 TTTTTTAAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
19 2 0.06
20 14 0.39
21 3 0.08
22 3 0.08
23 12 0.33
24 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (20 bp):
AAATATTAATATTTTAATTA
Found at i:25345556 original size:42 final size:42
Alignment explanation
Indices: 25345487--25345572 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 42
25345477 TTAATATAAC
*
25345487 TGCTGGTGAAATTGGGTGGTGGAGCAATAGTTTCATTAGTTT
1 TGCTAGTGAAATTGGGTGGTGGAGCAATAGTTTCATTAGTTT
*
25345529 TGCTAGTGAAATTGGGTGGTGGGGCAATAGTTTCATTAGTTT
1 TGCTAGTGAAATTGGGTGGTGGAGCAATAGTTTCATTAGTTT
25345571 TG
1 TG
25345573 TCCACGGGAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.21, C:0.07, G:0.34, T:0.38
Consensus pattern (42 bp):
TGCTAGTGAAATTGGGTGGTGGAGCAATAGTTTCATTAGTTT
Found at i:25351649 original size:61 final size:60
Alignment explanation
Indices: 25351535--25351655 Score: 145
Period size: 60 Copynumber: 2.0 Consensus size: 60
25351525 AAGAAAAACG
* * *
25351535 TTTAAGCATTTTGGAGTAGTTTTTAATATACAAAGAAAATCTTTGAGCGTTTTGAACATT
1 TTTAAGCATTTTGAAGTAGTTTTTAATATACAAAGAAAATCTTTGAACATTTTGAACATT
* ** * *
25351595 TTTAAGCATTTTGAAGT-GATTTTTTATATATGAAGAAAAATTTTTGAACATTTTGAGCATT
1 TTTAAGCATTTTGAAGTAG-TTTTTAATATACAAAG-AAAATCTTTGAACATTTTGAACATT
25351656 ATTTGTCAAG
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
59 1 0.02
60 29 0.57
61 21 0.41
ACGTcount: A:0.34, C:0.07, G:0.16, T:0.44
Consensus pattern (60 bp):
TTTAAGCATTTTGAAGTAGTTTTTAATATACAAAGAAAATCTTTGAACATTTTGAACATT
Found at i:25351827 original size:22 final size:21
Alignment explanation
Indices: 25351758--25351814 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 21
25351748 GTTTTGATGA
25351758 TTTTTGGGCATTAGTTGACTAG
1 TTTTTGGGCATTAG-TGACTAG
25351780 TTTTTGGGCATTAAGTGACTAG
1 TTTTTGGGCATT-AGTGACTAG
*
25351802 TTTTTGAGCATTA
1 TTTTTGGGCATTA
25351815 CGTGGCTGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
21 1 0.03
22 30 0.91
23 2 0.06
ACGTcount: A:0.21, C:0.09, G:0.25, T:0.46
Consensus pattern (21 bp):
TTTTTGGGCATTAGTGACTAG
Found at i:25351857 original size:21 final size:21
Alignment explanation
Indices: 25351759--25351869 Score: 80
Period size: 21 Copynumber: 5.2 Consensus size: 21
25351749 TTTTGATGAT
*
25351759 TTTTGGGCATTA-GTTGACTAGT
1 TTTTGGGCATTACG-TGACTA-A
* *
25351781 TTTTGGGCATTAAGTGACTAGT
1 TTTTGGGCATTACGTGACTA-A
* * *
25351803 TTTTGAGCATTACGTGGCTGA
1 TTTTGGGCATTACGTGACTAA
****
25351824 TTTTGAATGTTACGTGACTAA
1 TTTTGGGCATTACGTGACTAA
* *
25351845 TTTTGGGTATTACGTGACTAG
1 TTTTGGGCATTACGTGACTAA
25351866 TTTT
1 TTTT
25351870 TAAATATTAT
Statistics
Matches: 74, Mismatches: 14, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
21 37 0.50
22 36 0.49
23 1 0.01
ACGTcount: A:0.21, C:0.10, G:0.25, T:0.44
Consensus pattern (21 bp):
TTTTGGGCATTACGTGACTAA
Found at i:25351877 original size:22 final size:22
Alignment explanation
Indices: 25351773--25351907 Score: 94
Period size: 22 Copynumber: 6.2 Consensus size: 22
25351763 GGGCATTAGT
* * *
25351773 TGACTAGTTTTTGGGCATTAAG
1 TGACTAGTTTTTGAGTATTACG
*
25351795 TGACTAGTTTTTGAGCATTACG
1 TGACTAGTTTTTGAGTATTACG
* * * *
25351817 TGGCT-GATTTTGAATGTTACG
1 TGACTAGTTTTTGAGTATTACG
* *
25351838 TGACTA-ATTTTGGGTATTACG
1 TGACTAGTTTTTGAGTATTACG
* * **
25351859 TGACTAGTTTTTAAATATTATA
1 TGACTAGTTTTTGAGTATTACG
* * * *
25351881 TGATTAATTTTTAAGTATTGCG
1 TGACTAGTTTTTGAGTATTACG
25351903 TGACT
1 TGACT
25351908 GGCTTTGGAC
Statistics
Matches: 87, Mismatches: 24, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
21 34 0.39
22 53 0.61
ACGTcount: A:0.25, C:0.09, G:0.21, T:0.44
Consensus pattern (22 bp):
TGACTAGTTTTTGAGTATTACG
Found at i:25351995 original size:22 final size:23
Alignment explanation
Indices: 25351917--25351996 Score: 81
Period size: 23 Copynumber: 3.5 Consensus size: 23
25351907 TGGCTTTGGA
* * * *
25351917 CATTACGTGATTACTTGATATGA
1 CATTGCGTGACTAATTGATATGG
* *
25351940 CATTGCGTGACTAGTTGATATAG
1 CATTGCGTGACTAATTGATATGG
*
25351963 TATTGCGTGACTAATTGATA-GG
1 CATTGCGTGACTAATTGATATGG
*
25351985 CATTGCATGACT
1 CATTGCGTGACT
25351997 TGTTAGTAAA
Statistics
Matches: 47, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
22 11 0.23
23 36 0.77
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.36
Consensus pattern (23 bp):
CATTGCGTGACTAATTGATATGG
Found at i:25352012 original size:23 final size:24
Alignment explanation
Indices: 25351985--25352029 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
25351975 AATTGATAGG
25351985 CATTGC-ATGACTTGTTAGTAAAA
1 CATTGCGATGACTTGTTAGTAAAA
* *
25352008 CATTGCGTTGATTTGTTAGTAA
1 CATTGCGATGACTTGTTAGTAA
25352030 GTCATTGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (24 bp):
CATTGCGATGACTTGTTAGTAAAA
Found at i:25352152 original size:22 final size:22
Alignment explanation
Indices: 25352122--25352163 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
25352112 GTAGTGATTA
25352122 AGTCACGTAATACTTAAAAATC
1 AGTCACGTAATACTTAAAAATC
*
25352144 AGTCTCGTAATACTTAAAAA
1 AGTCACGTAATACTTAAAAA
25352164 CCAATCTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.45, C:0.17, G:0.10, T:0.29
Consensus pattern (22 bp):
AGTCACGTAATACTTAAAAATC
Found at i:25352878 original size:10 final size:10
Alignment explanation
Indices: 25352858--25352892 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
25352848 TAGAAAAAAA
25352858 TAAAATTATT
1 TAAAATTATT
* *
25352868 TTAATTTATT
1 TAAAATTATT
25352878 TAAAATTATT
1 TAAAATTATT
25352888 TAAAA
1 TAAAA
25352893 GATATTGTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (10 bp):
TAAAATTATT
Found at i:25352934 original size:10 final size:11
Alignment explanation
Indices: 25352905--25352953 Score: 52
Period size: 9 Copynumber: 4.7 Consensus size: 11
25352895 TATTGTTATC
*
25352905 AAATTATATAAA
1 AAATTA-ATTAA
25352917 AAATTAATTAA
1 AAATTAATTAA
25352928 AAA-TAATT-A
1 AAATTAATTAA
25352937 AAATT-A-TAA
1 AAATTAATTAA
25352946 AAATTAAT
1 AAATTAAT
25352954 ACTTTTAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
8 1 0.03
9 11 0.34
10 7 0.22
11 7 0.22
12 6 0.19
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
AAATTAATTAA
Found at i:25358179 original size:18 final size:19
Alignment explanation
Indices: 25358146--25358181 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
25358136 TAGATTGTTA
*
25358146 ATTTGTTGCTCATGGTTTC
1 ATTTATTGCTCATGGTTTC
25358165 ATTTATTGC-CATGGTTT
1 ATTTATTGCTCATGGTTT
25358182 TGTAGTAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.14, C:0.14, G:0.19, T:0.53
Consensus pattern (19 bp):
ATTTATTGCTCATGGTTTC
Found at i:25360639 original size:169 final size:169
Alignment explanation
Indices: 25360360--25360675 Score: 499
Period size: 169 Copynumber: 1.9 Consensus size: 169
25360350 TTGTCAGCCT
* * *
25360360 CTTGGTGTTGTATGTCACTTTTCTATATTCTTTTCCTTGAAGAATTGGTAGTAGGCATCTGCATT
1 CTTGGTGTTATATATCACTTATCTATATTCTTTTCCTTGAAGAATTGGTAGTAGGCATCTGCATT
* * **
25360425 ACTCTTAACATAGGGAAGTTCTATAAAAGATTCTGTTTATGATATCAAGAATTCATGTTAATAGG
66 ACTCTTAACATAGGGAAGTTCTATAAAAGATACTATTTATGATATCAAGAATTCACATTAATAGG
25360490 ATGGAATGATGTCATATTAATGTGTTTTTGTGAATGCAG
131 ATGGAATGATGTCATATTAATGTGTTTTTGTGAATGCAG
* * **
25360529 CTTGGTGTTATATATCACTTATCTATATTCTTTTCCTTGAAGAATTTGTATTAGGCATCTGTGTT
1 CTTGGTGTTATATATCACTTATCTATATTCTTTTCCTTGAAGAATTGGTAGTAGGCATCTGCATT
* *
25360594 ACTCTTAAGATTGGGAAGCTT-TATAAAAGATACTATTTATGATATCAAGAATTCACATTAATAG
66 ACTCTTAACATAGGGAAG-TTCTATAAAAGATACTATTTATGATATCAAGAATTCACATTAATAG
25360658 GATGGAATGATGTCATAT
130 GATGGAATGATGTCATAT
25360676 GTGTTTTTGG
Statistics
Matches: 133, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
169 131 0.98
170 2 0.02
ACGTcount: A:0.29, C:0.11, G:0.18, T:0.41
Consensus pattern (169 bp):
CTTGGTGTTATATATCACTTATCTATATTCTTTTCCTTGAAGAATTGGTAGTAGGCATCTGCATT
ACTCTTAACATAGGGAAGTTCTATAAAAGATACTATTTATGATATCAAGAATTCACATTAATAGG
ATGGAATGATGTCATATTAATGTGTTTTTGTGAATGCAG
Found at i:25378004 original size:32 final size:32
Alignment explanation
Indices: 25377963--25378060 Score: 153
Period size: 32 Copynumber: 3.1 Consensus size: 32
25377953 TGAGCCCGAA
25377963 GCTAAACTACATTTAAATCCAAACCTGGATAG
1 GCTAAACTACATTTAAATCCAAACCTGGATAG
25377995 GCTAAACTACA-TTAAATCCAAACCTGGATAG
1 GCTAAACTACATTTAAATCCAAACCTGGATAG
* * * *
25378026 GCTAAACTATATTAAAATCCAAACTTCGATAG
1 GCTAAACTACATTTAAATCCAAACCTGGATAG
25378058 GCT
1 GCT
25378061 TCCTTAAATT
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
31 30 0.49
32 31 0.51
ACGTcount: A:0.41, C:0.21, G:0.12, T:0.26
Consensus pattern (32 bp):
GCTAAACTACATTTAAATCCAAACCTGGATAG
Found at i:25378013 original size:31 final size:31
Alignment explanation
Indices: 25377963--25378060 Score: 151
Period size: 31 Copynumber: 3.1 Consensus size: 31
25377953 TGAGCCCGAA
25377963 GCTAAACTACATTTAAATCCAAACCTGGATAG
1 GCTAAACTACA-TTAAATCCAAACCTGGATAG
25377995 GCTAAACTACATTAAATCCAAACCTGGATAG
1 GCTAAACTACATTAAATCCAAACCTGGATAG
* * *
25378026 GCTAAACTATATTAAAATCCAAACTTCGATAG
1 GCTAAACTACATT-AAATCCAAACCTGGATAG
25378058 GCT
1 GCT
25378061 TCCTTAAATT
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
31 32 0.52
32 30 0.48
ACGTcount: A:0.41, C:0.21, G:0.12, T:0.26
Consensus pattern (31 bp):
GCTAAACTACATTAAATCCAAACCTGGATAG
Found at i:25389052 original size:17 final size:16
Alignment explanation
Indices: 25389002--25389056 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 16
25388992 CTTTGGGGTA
*
25389002 TTTT-AAAA-AATAAT
1 TTTTAAAAATAATATT
* *
25389016 TTTTAGAAATAAGATGT
1 TTTTAAAAATAATAT-T
25389033 TTTTAAAAGATAATATT
1 TTTTAAAA-ATAATATT
25389050 TTTTAAA
1 TTTTAAA
25389057 TTTTTAATTA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
14 4 0.12
15 3 0.09
16 3 0.09
17 16 0.50
18 6 0.19
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.45
Consensus pattern (16 bp):
TTTTAAAAATAATATT
Found at i:25389179 original size:24 final size:24
Alignment explanation
Indices: 25389152--25389221 Score: 88
Period size: 24 Copynumber: 2.9 Consensus size: 24
25389142 AAAATATTAT
*
25389152 TGTTACACATTATATATAAAAATA
1 TGTTACACATCATATATAAAAATA
*
25389176 TGTTACACATCATATATAAAAAAA
1 TGTTACACATCATATATAAAAATA
* *
25389200 TTATTACACGTCATAT-TAAAAA
1 -TGTTACACATCATATATAAAAA
25389222 AATATTATTA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
24 28 0.68
25 13 0.32
ACGTcount: A:0.50, C:0.11, G:0.04, T:0.34
Consensus pattern (24 bp):
TGTTACACATCATATATAAAAATA
Found at i:25389229 original size:26 final size:25
Alignment explanation
Indices: 25389123--25389231 Score: 98
Period size: 25 Copynumber: 4.2 Consensus size: 25
25389113 ATGCACATAA
25389123 TATTACACA-CTATATTAAAAAAATAT
1 TATTACACATC-ATA-TAAAAAAATAT
* *
25389149 TATTGTTACACATTATATATAAAAATA-
1 TA---TTACACATCATATAAAAAAATAT
*
25389176 TGTTACACATCATATATAAAAAA-AT
1 TATTACACATCATATA-AAAAAATAT
*
25389201 TATTACACGTCATATTAAAAAAATAT
1 TATTACACATCATA-TAAAAAAATAT
25389227 TATTA
1 TATTA
25389232 GTATAAGTCA
Statistics
Matches: 68, Mismatches: 7, Indels: 16
0.75 0.08 0.18
Matches are distributed among these distances:
24 14 0.21
25 23 0.34
26 11 0.16
27 1 0.01
28 9 0.13
29 10 0.15
ACGTcount: A:0.50, C:0.10, G:0.03, T:0.37
Consensus pattern (25 bp):
TATTACACATCATATAAAAAAATAT
Found at i:25389345 original size:30 final size:28
Alignment explanation
Indices: 25389309--25389394 Score: 84
Period size: 29 Copynumber: 2.9 Consensus size: 28
25389299 TATATAAACA
25389309 TGTTACACGTTATATTAAAAAAAATGTTAT
1 TGTTACAC-TTATATTAAAAAAAAT-TTAT
* *
25389339 TGTTACACTCCATGTTAAAAAAACA-TTAT
1 TGTTACACT-TATATTAAAAAAA-ATTTAT
* *
25389368 TGTTACACACTATATTCAAAAAAATTT
1 TGTTACAC-TTATATTAAAAAAAATTT
25389395 TGTTTTAGTC
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
28 1 0.02
29 25 0.54
30 19 0.41
31 1 0.02
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (28 bp):
TGTTACACTTATATTAAAAAAAATTTAT
Found at i:25390214 original size:18 final size:18
Alignment explanation
Indices: 25390155--25390219 Score: 55
Period size: 19 Copynumber: 3.6 Consensus size: 18
25390145 TATTAAAAAT
*
25390155 TTTATTTATAATTA-ATAA
1 TTTATTTAAAATTATAT-A
* *
25390173 ATTATTTTGAAA-TATATA
1 TTTA-TTTAAAATTATATA
25390191 TCTTATTTAAAATTATATA
1 T-TTATTTAAAATTATATA
25390210 TTTA-TTAAAA
1 TTTATTTAAAA
25390220 AGCATGTTGA
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
17 6 0.16
18 15 0.39
19 17 0.45
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (18 bp):
TTTATTTAAAATTATATA
Found at i:25390217 original size:17 final size:19
Alignment explanation
Indices: 25390185--25390219 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
25390175 TATTTTGAAA
25390185 TATATATCTTATTTAAAAT
1 TATATATCTTATTTAAAAT
25390204 TATATAT-TTA-TTAAAA
1 TATATATCTTATTTAAAA
25390220 AGCATGTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 3 0.19
19 7 0.44
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (19 bp):
TATATATCTTATTTAAAAT
Found at i:25392375 original size:132 final size:130
Alignment explanation
Indices: 25392138--25392399 Score: 506
Period size: 132 Copynumber: 2.0 Consensus size: 130
25392128 CCTTCTAGCC
25392138 CGACCCTGGCTCTGATTTTGGGTGCTGCTATAGAAGTAGAAATGAGGTTAAATATATACATGAGA
1 CGACCCTGGCTCTGATTTTGGGTGCTGCTATAGAAGTAGAAATGAGGTTAAATATATACATGAGA
25392203 TTAAAAGAATAGAAACATCACAAAAATATCAACATTATTACCTGCAAAATATATATATATATATA
66 TTAAAAGAATAGAAACATCACAAAAATATCAACATTATTACC-GCAAAATATATATATATATATA
25392268 T
130 T
25392269 NCGACCCTGGCTCTGATTTTGGGTGCTGCTATAGAAGTAGAAATGAGGTTAAATATATACATGAG
1 -CGACCCTGGCTCTGATTTTGGGTGCTGCTATAGAAGTAGAAATGAGGTTAAATATATACATGAG
25392334 ATTAAAAGAATAGAAACATCACAAAAATATCAACATTATTACCGCAAAATATATATATATATATA
65 ATTAAAAGAATAGAAACATCACAAAAATATCAACATTATTACCGCAAAATATATATATATATATA
25392399 T
130 T
25392400 ATATATATTA
Statistics
Matches: 130, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
131 23 0.18
132 107 0.82
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.29
Consensus pattern (130 bp):
CGACCCTGGCTCTGATTTTGGGTGCTGCTATAGAAGTAGAAATGAGGTTAAATATATACATGAGA
TTAAAAGAATAGAAACATCACAAAAATATCAACATTATTACCGCAAAATATATATATATATATAT
Found at i:25392389 original size:2 final size:2
Alignment explanation
Indices: 25392382--25392435 Score: 101
Period size: 2 Copynumber: 27.5 Consensus size: 2
25392372 TTACCGCAAA
25392382 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
25392423 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
25392436 GAAAGAGAAT
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 50 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25397999 original size:2 final size:2
Alignment explanation
Indices: 25397992--25398036 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
25397982 TAAGTTTTAT
25397992 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
25398034 TA T
1 TA T
25398037 CAATTTGGTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:25401432 original size:34 final size:33
Alignment explanation
Indices: 25401379--25401465 Score: 113
Period size: 34 Copynumber: 2.6 Consensus size: 33
25401369 AAAAGAAATT
*
25401379 AAAAT-AAAATATATAATATAAAAAATTATATTAA
1 AAAATGAAAATA-A-AATATAAAAAATTATAATAA
* *
25401413 AGAAATGAAAATAAAATATATAAGATTATAATAA
1 A-AAATGAAAATAAAATATAAAAAATTATAATAA
25401447 AAAATGAAAATAAAATATA
1 AAAATGAAAATAAAATATA
25401466 TGACATTAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
33 18 0.38
34 19 0.40
35 5 0.10
36 6 0.12
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.28
Consensus pattern (33 bp):
AAAATGAAAATAAAATATAAAAAATTATAATAA
Found at i:25401705 original size:15 final size:15
Alignment explanation
Indices: 25401682--25401723 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
25401672 TTATTTTCTC
25401682 TGCAATCACATTACT
1 TGCAATCACATTACT
* *
25401697 TGCACTCACATTACC
1 TGCAATCACATTACT
*
25401712 TGTAATCACATT
1 TGCAATCACATT
25401724 GCATTGTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.31, C:0.29, G:0.07, T:0.33
Consensus pattern (15 bp):
TGCAATCACATTACT
Found at i:25403000 original size:29 final size:29
Alignment explanation
Indices: 25402961--25403065 Score: 149
Period size: 29 Copynumber: 3.6 Consensus size: 29
25402951 TCTTACCTTG
*
25402961 TTCTCGTATACCTATTCAT-GTATAGCTTC
1 TTCTCTTATACCTATTC-TCGTATAGCTTC
*
25402990 TTCTCCTATACCTATTCTCGTATAGCTTC
1 TTCTCTTATACCTATTCTCGTATAGCTTC
* *
25403019 TTCTCTTGTACCTATTCTCGTACAGCTTC
1 TTCTCTTATACCTATTCTCGTATAGCTTC
*
25403048 TTCTCTTGTACCTATTCT
1 TTCTCTTATACCTATTCT
25403066 TGTACACCTA
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 1 0.01
29 70 0.99
ACGTcount: A:0.16, C:0.29, G:0.09, T:0.47
Consensus pattern (29 bp):
TTCTCTTATACCTATTCTCGTATAGCTTC
Found at i:25403013 original size:14 final size:14
Alignment explanation
Indices: 25402961--25403077 Score: 65
Period size: 14 Copynumber: 8.1 Consensus size: 14
25402951 TCTTACCTTG
25402961 TTCTCGTATACCTA
1 TTCTCGTATACCTA
* *
25402975 TTCAT-GTATAGCTTC
1 TTC-TCGTATA-CCTA
*
25402990 TTCTCCTATACCTA
1 TTCTCGTATACCTA
* *
25403004 TTCTCGTATAGCTTC
1 TTCTCGTATA-CCTA
* *
25403019 TTCTCTTGTACCTA
1 TTCTCGTATACCTA
* * *
25403033 TTCTCGTACAGCTTC
1 TTCTCGTATA-CCTA
* *
25403048 TTCTCTTGTACCTA
1 TTCTCGTATACCTA
* *
25403062 TTCTTGTACACCTA
1 TTCTCGTATACCTA
25403076 TT
1 TT
25403078 TTCTGTTATT
Statistics
Matches: 72, Mismatches: 26, Indels: 10
0.67 0.24 0.09
Matches are distributed among these distances:
14 43 0.60
15 29 0.40
ACGTcount: A:0.17, C:0.28, G:0.09, T:0.46
Consensus pattern (14 bp):
TTCTCGTATACCTA
Found at i:25403544 original size:29 final size:29
Alignment explanation
Indices: 25403505--25403613 Score: 139
Period size: 29 Copynumber: 3.8 Consensus size: 29
25403495 TCTTACCTTG
*
25403505 TTCTCGTATACCTATTCATGTATAGCTTC
1 TTCTCTTATACCTATTCATGTATAGCTTC
*
25403534 TTCTCCTATACCTATTC-TCGTATAGCTTC
1 TTCTCTTATACCTATTCAT-GTATAGCTTC
* *
25403563 TTCTCTTATACCTATTCATATACAGCTTC
1 TTCTCTTATACCTATTCATGTATAGCTTC
* * *
25403592 CTCTCTTGTACCTATTCTTGTA
1 TTCTCTTATACCTATTCATGTA
25403614 CACCTATTTT
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
28 1 0.01
29 68 0.97
30 1 0.01
ACGTcount: A:0.19, C:0.28, G:0.07, T:0.46
Consensus pattern (29 bp):
TTCTCTTATACCTATTCATGTATAGCTTC
Found at i:25403557 original size:14 final size:14
Alignment explanation
Indices: 25403505--25403579 Score: 62
Period size: 14 Copynumber: 5.2 Consensus size: 14
25403495 TCTTACCTTG
25403505 TTCTCGTATACCTA
1 TTCTCGTATACCTA
* *
25403519 TTCAT-GTATAGCTTC
1 TTC-TCGTATA-CCTA
*
25403534 TTCTCCTATACCTA
1 TTCTCGTATACCTA
* *
25403548 TTCTCGTATAGCTTC
1 TTCTCGTATA-CCTA
*
25403563 TTCTCTTATACCTA
1 TTCTCGTATACCTA
25403577 TTC
1 TTC
25403580 ATATACAGCT
Statistics
Matches: 46, Mismatches: 11, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
14 25 0.54
15 21 0.46
ACGTcount: A:0.19, C:0.28, G:0.07, T:0.47
Consensus pattern (14 bp):
TTCTCGTATACCTA
Found at i:25403572 original size:15 final size:15
Alignment explanation
Indices: 25403525--25403572 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
25403515 CCTATTCATG
25403525 TATAGCTTCTTCTCC
1 TATAGCTTCTTCTCC
* * *
25403540 TATA-CCTATTCTCG
1 TATAGCTTCTTCTCC
*
25403554 TATAGCTTCTTCTCT
1 TATAGCTTCTTCTCC
25403569 TATA
1 TATA
25403573 CCTATTCATA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
14 11 0.42
15 15 0.58
ACGTcount: A:0.19, C:0.27, G:0.06, T:0.48
Consensus pattern (15 bp):
TATAGCTTCTTCTCC
Found at i:25403944 original size:544 final size:543
Alignment explanation
Indices: 25402916--25404001 Score: 2102
Period size: 544 Copynumber: 2.0 Consensus size: 543
25402906 AGAGGTCTTC
25402916 CTCTTAACCCTTACCTGAAGTATTGGTGTTCACCTTCTTACCTTGTTCTCGTATACCTATTCATG
1 CTCTTAACCCTTACCTGAAGTATTGGTGTTCACCTTCTTACCTTGTTCTCGTATACCTATTCATG
* *
25402981 TATAGCTTCTTCTCCTATACCTATTCTCGTATAGCTTCTTCTCTTGTACCTATTCTCGTACAGCT
66 TATAGCTTCTTCTCCTATACCTATTCTCGTATAGCTTCTTCTCTTATACCTATTCTCATACAGCT
*
25403046 TCTTCTCTTGTACCTATTCTTGTACACCTATTTTCTGTTATTTTTTACTTGAGAACAAATCTTAT
131 TCCTCTCTTGTACCTATTCTTGTACACCTATTTTCTGTTATTTTTTACTTGAGAACAAATCTTAT
25403111 TACATTCAATTACAGTAACAGTTGCTCACATTAATGTTTTTCATAATAATGTCATTCATTAGGCT
196 TACATTCAATTACAGTAACAGTTGCTCACATTAATGTTTTTCATAATAATGTCATTCATTAGGCT
* *
25403176 CATTAAAGCCTATTTTTGAGTAACCGCCACTTTTAGCTCTATATATAGAGCCTCACAATTCATTT
261 CATTAAAGCCTATTTTTGAGTAACCGCCACTTTTAGCACTATATATAAAGCCTCACAATTCATTT
25403241 AGAGGACTTTTCTCTCACAATTCATTAAAGCTTCTCACTCTAAATTCTCTCTCTAATTCTTTTCT
326 AGAGGACTTTTCTCTCACAATTCATTAAAGCTTCTCACTCTAAATTCTCTCTCTAATTCTTTTCT
25403306 ACTCTTTAATCCTTTTTTTACTTTATTCTACCTGTCATTACACTCAGTATTTCAGGAACTGCTCC
391 ACTCTTTAATCCTTTTTTTACTTTATTCTACCTGTCATTACACTCAGTATTTCAGGAACTGCTCC
25403371 AATCTTCCTCTTTGCCGCCTCTGACGCATCTTTTTACTTGTTTGCAATGTTTTCTCTCCCTATCA
456 AATCTTCCTCTTTGCCGCCTCTGACGCATCTTTTTACTTGTTTGCAATGTTTTCTCTCCCTATCA
25403436 CAAGAACCCTTTTACAAGGACANT
521 CAAGAACCCTTTTACAAGGACA-T
25403460 CTCTTAACCCTTACCTGAAGTATTGGTGTTCACCTTCTTACCTTGTTCTCGTATACCTATTCATG
1 CTCTTAACCCTTACCTGAAGTATTGGTGTTCACCTTCTTACCTTGTTCTCGTATACCTATTCATG
25403525 TATAGCTTCTTCTCCTATACCTATTCTCGTATAGCTTCTTCTCTTATACCTATTCAT-ATACAGC
66 TATAGCTTCTTCTCCTATACCTATTCTCGTATAGCTTCTTCTCTTATACCTATTC-TCATACAGC
25403589 TTCCTCTCTTGTACCTATTCTTGTACACCTATTTTCTGTTATTTTTTACTTGAGAACAAATCTTA
130 TTCCTCTCTTGTACCTATTCTTGTACACCTATTTTCTGTTATTTTTTACTTGAGAACAAATCTTA
25403654 TTACATTCAATTACAGTAACAGTTGCTCACATTAATGTTTTTCATAATAATGTCATTCATTAGGC
195 TTACATTCAATTACAGTAACAGTTGCTCACATTAATGTTTTTCATAATAATGTCATTCATTAGGC
25403719 TCATTAAAGCCTATTTTTGAGTAACCGCCACTTTTAGCACTATATATAAAGCCTCACAATTCATT
260 TCATTAAAGCCTATTTTTGAGTAACCGCCACTTTTAGCACTATATATAAAGCCTCACAATTCATT
25403784 TAGAGGACTTTTCTCTCACAATTCATTAAAGCTTCTCACTCTAAATTCTCTCTCTAATTCTTTTC
325 TAGAGGACTTTTCTCTCACAATTCATTAAAGCTTCTCACTCTAAATTCTCTCTCTAATTCTTTTC
25403849 TACTCTTTAATCCTTTTTTTACTTTATTCTACCTGTCATTACACTCAGTATTTCAGGAACTGCTC
390 TACTCTTTAATCCTTTTTTTACTTTATTCTACCTGTCATTACACTCAGTATTTCAGGAACTGCTC
25403914 CAATCTTCCTCTTTGCCGCCTCTGACGCATCTTTTTACTTGTTTGCAATGTTTTCTCTCCCTATC
455 CAATCTTCCTCTTTGCCGCCTCTGACGCATCTTTTTACTTGTTTGCAATGTTTTCTCTCCCTATC
25403979 ACAAGAACCCTTTTACAAGGACA
520 ACAAGAACCCTTTTACAAGGACA
25404002 AACTCGTACA
Statistics
Matches: 536, Mismatches: 5, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
544 535 1.00
545 1 0.00
ACGTcount: A:0.23, C:0.25, G:0.09, T:0.42
Consensus pattern (543 bp):
CTCTTAACCCTTACCTGAAGTATTGGTGTTCACCTTCTTACCTTGTTCTCGTATACCTATTCATG
TATAGCTTCTTCTCCTATACCTATTCTCGTATAGCTTCTTCTCTTATACCTATTCTCATACAGCT
TCCTCTCTTGTACCTATTCTTGTACACCTATTTTCTGTTATTTTTTACTTGAGAACAAATCTTAT
TACATTCAATTACAGTAACAGTTGCTCACATTAATGTTTTTCATAATAATGTCATTCATTAGGCT
CATTAAAGCCTATTTTTGAGTAACCGCCACTTTTAGCACTATATATAAAGCCTCACAATTCATTT
AGAGGACTTTTCTCTCACAATTCATTAAAGCTTCTCACTCTAAATTCTCTCTCTAATTCTTTTCT
ACTCTTTAATCCTTTTTTTACTTTATTCTACCTGTCATTACACTCAGTATTTCAGGAACTGCTCC
AATCTTCCTCTTTGCCGCCTCTGACGCATCTTTTTACTTGTTTGCAATGTTTTCTCTCCCTATCA
CAAGAACCCTTTTACAAGGACAT
Found at i:25408172 original size:22 final size:22
Alignment explanation
Indices: 25408141--25408182 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
25408131 GTTTTGATGA
*
25408141 TTTTTGGGCATTACGTGACTAG
1 TTTTTAGGCATTACGTGACTAG
25408163 TTTTTAGGCATTACGTGACT
1 TTTTTAGGCATTACGTGACT
25408183 GACTTTGGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.19, C:0.14, G:0.24, T:0.43
Consensus pattern (22 bp):
TTTTTAGGCATTACGTGACTAG
Done.