Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, whole genome shotgun sequence
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: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 89 of 129
Found at i:15977778 original size:18 final size:20
Alignment explanation
Indices: 15977755--15977801 Score: 62
Period size: 18 Copynumber: 2.4 Consensus size: 20
15977745 ATTCTTTCTT
*
15977755 TTCAAGAAT-TCCAAGAA-A
1 TTCAAGAATCACCAAGAATA
15977773 TTCAAGAATCACCAAGAATA
1 TTCAAGAATCACCAAGAATA
15977793 TATCAAGAA
1 T-TCAAGAA
15977802 CATTCCAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 9 0.36
19 7 0.28
20 2 0.08
21 7 0.28
ACGTcount: A:0.51, C:0.17, G:0.11, T:0.21
Consensus pattern (20 bp):
TTCAAGAATCACCAAGAATA
Found at i:15977997 original size:23 final size:22
Alignment explanation
Indices: 15977950--15978009 Score: 111
Period size: 22 Copynumber: 2.7 Consensus size: 22
15977940 AAAAATAAGC
15977950 AAAAATAACTCATTTAAGTATA
1 AAAAATAACTCATTTAAGTATA
15977972 AAAAATAACTCATTTAAGTATA
1 AAAAATAACTCATTTAAGTATA
15977994 AAAAATAACTCTATTT
1 AAAAATAACTC-ATTT
15978010 CATAAAGTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 33 0.89
23 4 0.11
ACGTcount: A:0.53, C:0.10, G:0.03, T:0.33
Consensus pattern (22 bp):
AAAAATAACTCATTTAAGTATA
Found at i:15978975 original size:48 final size:48
Alignment explanation
Indices: 15978923--15979023 Score: 123
Period size: 48 Copynumber: 2.1 Consensus size: 48
15978913 CTAAAAACAA
*
15978923 TAAAATCCTCTAA-CATTTGGGCAAGATTTTATTCTCAAAAATTTATTT
1 TAAAATCCTCTAATC-TTTGGGCAAGATGTTATTCTCAAAAATTTATTT
* * * * *
15978971 TAAAATCCTTTAATCTTTTGGCAGGATGTTATTTTCAAAATTTTATTT
1 TAAAATCCTCTAATCTTTGGGCAAGATGTTATTCTCAAAAATTTATTT
*
15979019 AAAAA
1 TAAAA
15979024 AAAAACTATG
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
48 44 0.98
49 1 0.02
ACGTcount: A:0.36, C:0.12, G:0.09, T:0.44
Consensus pattern (48 bp):
TAAAATCCTCTAATCTTTGGGCAAGATGTTATTCTCAAAAATTTATTT
Found at i:15980885 original size:20 final size:19
Alignment explanation
Indices: 15980848--15980900 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
15980838 AGTGTTCTCA
15980848 AAAGAG-TCCAAAGATTTGTG
1 AAAGAGTTCC-AAGATTTG-G
*
15980868 AAAGAGTTCCAAGGTTTGG
1 AAAGAGTTCCAAGATTTGG
15980887 AAA-AGTTCCAAGAT
1 AAAGAGTTCCAAGAT
15980901 GCTTAAAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 10 0.33
19 4 0.13
20 13 0.43
21 3 0.10
ACGTcount: A:0.40, C:0.11, G:0.25, T:0.25
Consensus pattern (19 bp):
AAAGAGTTCCAAGATTTGG
Found at i:15980938 original size:20 final size:20
Alignment explanation
Indices: 15980915--15981054 Score: 87
Period size: 20 Copynumber: 7.2 Consensus size: 20
15980905 AAAAGTTTTG
*
15980915 AGATTCACATAATAGTTTC-A
1 AGATTCACAAAATAG-TTCAA
* * *
15980935 AGATTCACAAAAGAGCTCTA
1 AGATTCACAAAATAGTTCAA
*
15980955 AGGTTCACAAAAGT-GTTCAA
1 AGATTCACAAAA-TAGTTCAA
*
15980975 TGATTCACAAAATAGTTCAA
1 AGATTCACAAAATAGTTCAA
** *
15980995 AGATT--CGTAAGAGTTCAA
1 AGATTCACAAAATAGTTCAA
* *
15981013 AGATT-A-GAAAGAGTTCAA
1 AGATTCACAAAATAGTTCAA
* * *
15981031 AGATCCACAAGAGA-TTCAA
1 AGATTCACAAAATAGTTCAA
15981050 AGATT
1 AGATT
15981055 TGCAAGATTT
Statistics
Matches: 96, Mismatches: 18, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
18 30 0.31
19 13 0.14
20 53 0.55
ACGTcount: A:0.44, C:0.14, G:0.16, T:0.26
Consensus pattern (20 bp):
AGATTCACAAAATAGTTCAA
Found at i:15981011 original size:18 final size:18
Alignment explanation
Indices: 15980988--15981296 Score: 142
Period size: 18 Copynumber: 17.0 Consensus size: 18
15980978 TTCACAAAAT
*
15980988 AGTTCAAAGATTCGTAAG
1 AGTTCAAAGATTCGCAAG
* *
15981006 AGTTCAAAGATTAGAAAG
1 AGTTCAAAGATTCGCAAG
* *
15981024 AGTTCAAAGATCCACAAG
1 AGTTCAAAGATTCGCAAG
*
15981042 AGATTCAAAGATTTGCAAG
1 AG-TTCAAAGATTCGCAAG
* * **
15981061 ATTTCAAATATTCATAAG
1 AGTTCAAAGATTCGCAAG
*
15981079 AGATTCAAAGATTTGCAA-
1 AG-TTCAAAGATTCGCAAG
* * ** *
15981097 AGGT-AAATATTCTTAAA
1 AGTTCAAAGATTCGCAAG
* *
15981114 AGTTCAATGATTTGCAAG
1 AGTTCAAAGATTCGCAAG
* * *
15981132 AGTTTAAAAATCCGCATA-
1 AGTTCAAAGATTCGCA-AG
** * *
15981150 AGCGCCAAAGAATT-GTAGG
1 AG-TTCAAAG-ATTCGCAAG
* *
15981169 AGTTCAAAGATTCACAAA
1 AGTTCAAAGATTCGCAAG
*
15981187 AGTTCAAAGATTTGCAAG
1 AGTTCAAAGATTCGCAAG
* **
15981205 ACTTCAAAGATTCAAAAG
1 AGTTCAAAGATTCGCAAG
*
15981223 AGATTCAAAGATTCACAAG
1 AG-TTCAAAGATTCGCAAG
* * * *
15981242 ACTTTAAATATTCACAAG
1 AGTTCAAAGATTCGCAAG
* * *
15981260 GGATTAAAAGATTTGCAAG
1 AG-TTCAAAGATTCGCAAG
* *
15981279 -GCTTCAAATAGTCGCAAG
1 AG-TTCAAAGATTCGCAAG
15981297 TGTAAAGATT
Statistics
Matches: 208, Mismatches: 72, Indels: 22
0.69 0.24 0.07
Matches are distributed among these distances:
16 8 0.04
17 7 0.03
18 130 0.62
19 61 0.29
20 2 0.01
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.26
Consensus pattern (18 bp):
AGTTCAAAGATTCGCAAG
Found at i:15981015 original size:9 final size:9
Alignment explanation
Indices: 15980988--15981089 Score: 52
Period size: 9 Copynumber: 11.1 Consensus size: 9
15980978 TTCACAAAAT
15980988 AGTTCAAAG
1 AGTTCAAAG
*
15980997 A-TTCGTAAG
1 AGTTC-AAAG
15981006 AGTTCAAAG
1 AGTTCAAAG
*
15981015 A-TTAGAAAG
1 AGTT-CAAAG
15981024 AGTTCAAAG
1 AGTTCAAAG
*
15981033 A-TCCACAAG
1 AGTTCA-AAG
15981042 AGATTCAAAG
1 AG-TTCAAAG
*
15981052 ATTTGC-AAG
1 AGTT-CAAAG
* *
15981061 ATTTCAAAT
1 AGTTCAAAG
15981070 A-TTCATAAG
1 AGTTCA-AAG
15981079 AGATTCAAAG
1 AG-TTCAAAG
15981089 A
1 A
15981090 TTTGCAAAGG
Statistics
Matches: 72, Mismatches: 9, Indels: 23
0.69 0.09 0.22
Matches are distributed among these distances:
8 13 0.18
9 38 0.53
10 14 0.19
11 7 0.10
ACGTcount: A:0.45, C:0.12, G:0.18, T:0.25
Consensus pattern (9 bp):
AGTTCAAAG
Found at i:15981050 original size:19 final size:19
Alignment explanation
Indices: 15980970--15981091 Score: 90
Period size: 18 Copynumber: 6.5 Consensus size: 19
15980960 CACAAAAGTG
* * *
15980970 TTCAATGATTCACAAAATA
1 TTCAAAGATTCACAAGAGA
**
15980989 GTTCAAAGATTCGTAAGAG-
1 -TTCAAAGATTCACAAGAGA
*
15981008 TTCAAAGATT-AGAA-AGA
1 TTCAAAGATTCACAAGAGA
*
15981025 GTTCAAAGATCCACAAGAGA
1 -TTCAAAGATTCACAAGAGA
** *
15981045 TTCAAAGATTTGCAAGA-T
1 TTCAAAGATTCACAAGAGA
* *
15981063 TTCAAATATTCATAAGAGA
1 TTCAAAGATTCACAAGAGA
15981082 TTCAAAGATT
1 TTCAAAGATT
15981092 TGCAAAGGTA
Statistics
Matches: 78, Mismatches: 19, Indels: 11
0.72 0.18 0.10
Matches are distributed among these distances:
16 2 0.03
17 2 0.03
18 32 0.41
19 26 0.33
20 16 0.21
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.28
Consensus pattern (19 bp):
TTCAAAGATTCACAAGAGA
Found at i:15981067 original size:37 final size:37
Alignment explanation
Indices: 15980988--15981286 Score: 225
Period size: 37 Copynumber: 8.2 Consensus size: 37
15980978 TTCACAAAAT
** * *
15980988 AGTTCAAAGATTCGTAAGAG-TTCAAAGATTAGAAAG
1 AGTTCAAAGATTCACAAGAGATTCAAAGATTTGCAAG
*
15981024 AGTTCAAAGATCCACAAGAGATTCAAAGATTTGCAAG
1 AGTTCAAAGATTCACAAGAGATTCAAAGATTTGCAAG
* * *
15981061 ATTTCAAATATTCATAAGAGATTCAAAGATTTGCAA-
1 AGTTCAAAGATTCACAAGAGATTCAAAGATTTGCAAG
* * ** * *
15981097 AGGT-AAATATTCTTAAAAG-TTCAATGATTTGCAAG
1 AGTTCAAAGATTCACAAGAGATTCAAAGATTTGCAAG
* * * * *** * * *
15981132 AGTTTAAAAATCCGCATA-AGCGCCAAAGAATTGTAGG
1 AGTTCAAAGATTCACA-AGAGATTCAAAGATTTGCAAG
*
15981169 AGTTCAAAGATTCACAAAAG-TTCAAAGATTTGCAAG
1 AGTTCAAAGATTCACAAGAGATTCAAAGATTTGCAAG
* * **
15981205 ACTTCAAAGATTCAAAAGAGATTCAAAGATTCACAAG
1 AGTTCAAAGATTCACAAGAGATTCAAAGATTTGCAAG
* * * * *
15981242 ACTTTAAATATTCACAAGGGATTAAAAGATTTGCAAG
1 AGTTCAAAGATTCACAAGAGATTCAAAGATTTGCAAG
15981279 -GCTTCAAA
1 AG-TTCAAA
15981287 TAGTCGCAAG
Statistics
Matches: 207, Mismatches: 48, Indels: 15
0.77 0.18 0.06
Matches are distributed among these distances:
34 14 0.07
35 16 0.08
36 57 0.28
37 120 0.58
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.26
Consensus pattern (37 bp):
AGTTCAAAGATTCACAAGAGATTCAAAGATTTGCAAG
Found at i:15981360 original size:20 final size:20
Alignment explanation
Indices: 15981330--15981431 Score: 95
Period size: 20 Copynumber: 5.2 Consensus size: 20
15981320 TTAAAGTTTC
*
15981330 ATAATTGTAAAGATTTACAA
1 ATAATTTTAAAGATTTACAA
* *
15981350 ACAATTTTAAAGATTCACAA
1 ATAATTTTAAAGATTTACAA
* *
15981370 ATGAAATTTCAAAG-TTT---T
1 AT--AATTTTAAAGATTTACAA
*
15981388 ATAATTGTAAAGATTTACAA
1 ATAATTTTAAAGATTTACAA
*
15981408 ATAATTTTAAAGATTCACAA
1 ATAATTTTAAAGATTTACAA
15981428 ATAA
1 ATAA
15981432 AATGTCAAAT
Statistics
Matches: 64, Mismatches: 12, Indels: 12
0.73 0.14 0.14
Matches are distributed among these distances:
16 8 0.12
17 3 0.05
18 2 0.03
20 40 0.62
21 2 0.03
22 9 0.14
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.35
Consensus pattern (20 bp):
ATAATTTTAAAGATTTACAA
Found at i:15981369 original size:58 final size:59
Alignment explanation
Indices: 15981299--15981446 Score: 239
Period size: 58 Copynumber: 2.6 Consensus size: 59
15981289 GTCGCAAGTG
15981299 TAAAGATTCACAAATGAAAATTT-AAAGTTTCATAATTGTAAAGATTTACAAACAATTT
1 TAAAGATTCACAAATGAAAATTTCAAAGTTTCATAATTGTAAAGATTTACAAACAATTT
* *
15981357 TAAAGATTCACAAATG-AAATTTCAAAGTTTTATAATTGTAAAGATTTACAAATAATTT
1 TAAAGATTCACAAATGAAAATTTCAAAGTTTCATAATTGTAAAGATTTACAAACAATTT
* *
15981415 TAAAGATTCACAAAT-AAAATGTCAAATTTTCA
1 TAAAGATTCACAAATGAAAATTTCAAAGTTTCA
15981447 ATTAAATTCA
Statistics
Matches: 83, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
57 6 0.07
58 77 0.93
ACGTcount: A:0.48, C:0.09, G:0.08, T:0.35
Consensus pattern (59 bp):
TAAAGATTCACAAATGAAAATTTCAAAGTTTCATAATTGTAAAGATTTACAAACAATTT
Found at i:15981683 original size:40 final size:40
Alignment explanation
Indices: 15981628--15981721 Score: 143
Period size: 40 Copynumber: 2.4 Consensus size: 40
15981618 TAATATGCTA
* * *
15981628 AATACACTTAAAATTTCATATTGAACATATAGTCCTTTAT
1 AATACGCTTAAAATTTCATATTAAACATATAGTCCGTTAT
*
15981668 AATACGCTTAAAATTTCATATTAAACATGTAGTCCGTTAT
1 AATACGCTTAAAATTTCATATTAAACATATAGTCCGTTAT
*
15981708 AATATGCTTAAAAT
1 AATACGCTTAAAAT
15981722 CATTATAGTC
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.38
Consensus pattern (40 bp):
AATACGCTTAAAATTTCATATTAAACATATAGTCCGTTAT
Found at i:15987417 original size:26 final size:26
Alignment explanation
Indices: 15987381--15987441 Score: 113
Period size: 26 Copynumber: 2.3 Consensus size: 26
15987371 GGAAGGAAGA
*
15987381 AATTCAACTACCACACACTTCATGAC
1 AATTCATCTACCACACACTTCATGAC
15987407 AATTCATCTACCACACACTTCATGAC
1 AATTCATCTACCACACACTTCATGAC
15987433 AATTCATCT
1 AATTCATCT
15987442 TTGTTTCATG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.36, C:0.33, G:0.03, T:0.28
Consensus pattern (26 bp):
AATTCATCTACCACACACTTCATGAC
Found at i:15991335 original size:20 final size:19
Alignment explanation
Indices: 15991297--15991344 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
15991287 TAAAACTAAT
*
15991297 AAATAAAAGAAAGTAGATA
1 AAATAAAAGAAAATAGATA
*
15991316 AAATAAATATAAAATAGATA
1 AAATAAA-AGAAAATAGATA
15991336 AAATTAAAA
1 AAA-TAAAA
15991345 AAGAAAAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 7 0.28
20 14 0.56
21 4 0.16
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.21
Consensus pattern (19 bp):
AAATAAAAGAAAATAGATA
Found at i:15994239 original size:17 final size:19
Alignment explanation
Indices: 15994214--15994252 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
15994204 TCATATTTAA
*
15994214 TTATTATTTTA-TA-ATTT
1 TTATCATTTTATTATATTT
15994231 TTATCATTTTATTATATTT
1 TTATCATTTTATTATATTT
15994250 TTA
1 TTA
15994253 AAATTATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 10 0.53
18 2 0.11
19 7 0.37
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (19 bp):
TTATCATTTTATTATATTT
Found at i:15994262 original size:20 final size:21
Alignment explanation
Indices: 15994216--15994264 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
15994206 ATATTTAATT
**
15994216 ATTATT-TTATAATTTTTATC
1 ATTATTATTATAATTTTTAAA
15994236 ATT-TTATTAT-ATTTTTAAA
1 ATTATTATTATAATTTTTAAA
15994255 ATTATTATTA
1 ATTATTATTA
15994265 AAGTAATGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (21 bp):
ATTATTATTATAATTTTTAAA
Found at i:15994867 original size:14 final size:14
Alignment explanation
Indices: 15994848--15994874 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15994838 TATTACCAAT
15994848 AAAAAAAAAGAAAA
1 AAAAAAAAAGAAAA
15994862 AAAAAAAAAGAAA
1 AAAAAAAAAGAAA
15994875 GAAGCAAGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAGAAAA
Found at i:15998213 original size:68 final size:68
Alignment explanation
Indices: 15998132--15998279 Score: 287
Period size: 68 Copynumber: 2.2 Consensus size: 68
15998122 ATGATTCAAC
*
15998132 AAGGAAAAACATTACAATATAAAAATAGTCTAACCAATAGTAAATGGAAGGTTACTTATATAGTC
1 AAGGAAAACCATTACAATATAAAAATAGTCTAACCAATAGTAAATGGAAGGTTACTTATATAGTC
15998197 CAA
66 CAA
15998200 AAGGAAAACCATTACAATATAAAAATAGTCTAACCAATAGTAAATGGAAGGTTACTTATATAGTC
1 AAGGAAAACCATTACAATATAAAAATAGTCTAACCAATAGTAAATGGAAGGTTACTTATATAGTC
15998265 CAA
66 CAA
15998268 AAGGAAAACCAT
1 AAGGAAAACCAT
15998280 AAGTCACGAA
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 79 1.00
ACGTcount: A:0.50, C:0.13, G:0.14, T:0.24
Consensus pattern (68 bp):
AAGGAAAACCATTACAATATAAAAATAGTCTAACCAATAGTAAATGGAAGGTTACTTATATAGTC
CAA
Found at i:16000383 original size:17 final size:16
Alignment explanation
Indices: 16000348--16000386 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
16000338 AGATCATGAT
**
16000348 TAAAAATAAAAAATTA
1 TAAAAATAAAAAACAA
16000364 TAAAAATACAAAAACAA
1 TAAAAATA-AAAAACAA
16000381 TAAAAA
1 TAAAAA
16000387 AATAAAACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (16 bp):
TAAAAATAAAAAACAA
Found at i:16000743 original size:23 final size:25
Alignment explanation
Indices: 16000717--16000768 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 25
16000707 TAATTATAAA
*
16000717 AAATAATATTTTAAA-ATTTAA-TT
1 AAATAATATTTTAAATATTAAATTT
**
16000740 AAATCTTATTTTAAATATTAAATTT
1 AAATAATATTTTAAATATTAAATTT
16000765 AAAT
1 AAAT
16000769 TAAACTAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 13 0.54
24 5 0.21
25 6 0.25
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (25 bp):
AAATAATATTTTAAATATTAAATTT
Found at i:16002149 original size:29 final size:30
Alignment explanation
Indices: 16002100--16002166 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 30
16002090 AATAACCGTT
* **
16002100 ATAAATAA-ATATTTGAAAAATATTTATAA
1 ATAAATAATACATTTGAAAAATAAATATAA
* *
16002129 ATAAATAATACATTT-ATAAATAAATATTA
1 ATAAATAATACATTTGAAAAATAAATATAA
16002158 ATAAATAAT
1 ATAAATAAT
16002167 TAAAAATTAC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 27 0.84
30 5 0.16
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (30 bp):
ATAAATAATACATTTGAAAAATAAATATAA
Found at i:16014141 original size:18 final size:18
Alignment explanation
Indices: 16014118--16014172 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
16014108 GGATAAAAGT
16014118 AAAGAAGAAGAAAAAGAA
1 AAAGAAGAAGAAAAAGAA
*
16014136 AAAGAAGGAA-AGAAAGAA
1 AAAGAA-GAAGAAAAAGAA
*
16014154 AGAG-AGAGAGAAAAA-AA
1 AAAGAAGA-AGAAAAAGAA
16014171 AA
1 AA
16014173 GAAAAAAAGG
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
16 2 0.07
17 5 0.17
18 20 0.67
19 3 0.10
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (18 bp):
AAAGAAGAAGAAAAAGAA
Found at i:16014156 original size:34 final size:35
Alignment explanation
Indices: 16014103--16014172 Score: 92
Period size: 34 Copynumber: 2.0 Consensus size: 35
16014093 ATGAGAAGCG
*
16014103 AAGAAGGATAAAAGTAAAGA-AGA-AGAAAAAGAAA
1 AAGAAGGAAAAAAGTAAAGAGAGAGAGAAAAA-AAA
16014137 AAGAAGGAAAGAAAG-AAAGAGAGAGAGAAAAAAAA
1 AAGAAGGAAA-AAAGTAAAGAGAGAGAGAAAAAAAA
16014172 A
1 A
16014173 GAAAAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
34 14 0.44
35 11 0.34
36 7 0.22
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.03
Consensus pattern (35 bp):
AAGAAGGAAAAAAGTAAAGAGAGAGAGAAAAAAAA
Found at i:16014173 original size:18 final size:18
Alignment explanation
Indices: 16014118--16014174 Score: 52
Period size: 17 Copynumber: 3.3 Consensus size: 18
16014108 GGATAAAAGT
16014118 AAAGA-AGA-AGAAAAAGA
1 AAAGAGAGAGAGAAAAA-A
16014135 AAA-AGA-AG-GAAAGAAA
1 AAAGAGAGAGAGAAA-AAA
16014151 GAAAGAGAGAGAGAAAAAA
1 -AAAGAGAGAGAGAAAAAA
16014170 AAAGA
1 AAAGA
16014175 AAAAAAGGGA
Statistics
Matches: 33, Mismatches: 0, Indels: 13
0.72 0.00 0.28
Matches are distributed among these distances:
16 7 0.21
17 9 0.27
18 8 0.24
19 5 0.15
20 4 0.12
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (18 bp):
AAAGAGAGAGAGAAAAAA
Found at i:16014173 original size:22 final size:22
Alignment explanation
Indices: 16014148--16014191 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
16014138 AGAAGGAAAG
* *
16014148 AAAGAAAGAGAGAGAGAAAAAA
1 AAAGAAAAAAAGAGAGAAAAAA
*
16014170 AAAGAAAAAAAGGGAGAAAAAA
1 AAAGAAAAAAAGAGAGAAAAAA
16014192 GATTTGAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (22 bp):
AAAGAAAAAAAGAGAGAAAAAA
Found at i:16014289 original size:24 final size:22
Alignment explanation
Indices: 16014262--16014315 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
16014252 AAAAATGAGC
16014262 TTTTGAAAAATCAAAACAAAAAA
1 TTTTGAAAAAT-AAAACAAAAAA
* *
16014285 GTTTTGAAAAGTAAAAGAAAAAA
1 -TTTTGAAAAATAAAACAAAAAA
16014308 -TTTGAAAA
1 TTTTGAAAA
16014316 GTAGAAGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 8 0.29
23 10 0.36
24 10 0.36
ACGTcount: A:0.61, C:0.04, G:0.11, T:0.24
Consensus pattern (22 bp):
TTTTGAAAAATAAAACAAAAAA
Found at i:16014294 original size:23 final size:22
Alignment explanation
Indices: 16014262--16014339 Score: 77
Period size: 21 Copynumber: 3.5 Consensus size: 22
16014252 AAAAATGAGC
*
16014262 TTTTGAAAAATCAAAACAAAAAA
1 TTTTGAAAAGT-AAAACAAAAAA
*
16014285 GTTTTGAAAAGTAAAAGAAAAAA
1 -TTTTGAAAAGTAAAACAAAAAA
* **
16014308 -TTTGAAAAGTAGAAGGAAAAA
1 TTTTGAAAAGTAAAACAAAAAA
*
16014329 CTTTGAAAAGT
1 TTTTGAAAAGT
16014340 CAAATCGTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
21 19 0.39
22 10 0.20
23 10 0.20
24 10 0.20
ACGTcount: A:0.58, C:0.04, G:0.15, T:0.23
Consensus pattern (22 bp):
TTTTGAAAAGTAAAACAAAAAA
Found at i:16014326 original size:22 final size:21
Alignment explanation
Indices: 16014263--16014339 Score: 82
Period size: 22 Copynumber: 3.5 Consensus size: 21
16014253 AAAATGAGCT
* *
16014263 TTTGAAAAATCAAAACAAAAAA
1 TTTGAAAAGT-AAAAGAAAAAA
16014285 GTTTTGAAAAGTAAAAGAAAAAA
1 --TTTGAAAAGTAAAAGAAAAAA
* *
16014308 TTTGAAAAGTAGAAGGAAAAAC
1 TTTGAAAAGTA-AAAGAAAAAA
16014330 TTTGAAAAGT
1 TTTGAAAAGT
16014340 CAAATCGTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
21 11 0.23
22 18 0.38
23 10 0.21
24 9 0.19
ACGTcount: A:0.58, C:0.04, G:0.16, T:0.22
Consensus pattern (21 bp):
TTTGAAAAGTAAAAGAAAAAA
Found at i:16014391 original size:28 final size:25
Alignment explanation
Indices: 16014355--16014443 Score: 78
Period size: 23 Copynumber: 3.5 Consensus size: 25
16014345 CGTTTTAAAA
16014355 AATAAAAAAAAAAAGCTTTGAAAAGT
1 AATAAAAAAAAAAA-CTTTGAAAAGT
* *
16014381 CAATAGAAAAAAGGAAACTTTGGAAAGT
1 -AATA-AAAAAA-AAAACTTTGAAAAGT
*
16014409 AA-AAAAAAAAAAA-TTT-AACCAGT
1 AATAAAAAAAAAAACTTTGAA-AAGT
16014432 AA-AAAAAAAAAA
1 AATAAAAAAAAAA
16014444 GGTGTGCTTT
Statistics
Matches: 54, Mismatches: 5, Indels: 10
0.78 0.07 0.14
Matches are distributed among these distances:
22 1 0.02
23 18 0.33
24 3 0.06
25 6 0.11
26 1 0.02
27 6 0.11
28 16 0.30
29 3 0.06
ACGTcount: A:0.67, C:0.06, G:0.11, T:0.16
Consensus pattern (25 bp):
AATAAAAAAAAAAACTTTGAAAAGT
Found at i:16014391 original size:29 final size:25
Alignment explanation
Indices: 16014358--16014443 Score: 70
Period size: 24 Copynumber: 3.4 Consensus size: 25
16014348 TTTAAAAAAT
*
16014358 AAAAAAAAAAAGCTTTGAAAAGTCAA
1 AAAAAAAAAAAACTTTGAAAAGT-AA
** *
16014384 TAGAAAAAAGGAAACTTTGGAAAGT-A
1 -A-AAAAAAAAAAACTTTGAAAAGTAA
*
16014410 AAAAAAAAAAAA-TTT-AACCAGTAA
1 AAAAAAAAAAAACTTTGAA-AAGTAA
16014434 AAAAAAAAAA
1 AAAAAAAAAA
16014444 GGTGTGCTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
22 1 0.02
23 6 0.12
24 20 0.42
25 1 0.02
26 1 0.02
27 1 0.02
28 18 0.38
ACGTcount: A:0.67, C:0.06, G:0.12, T:0.15
Consensus pattern (25 bp):
AAAAAAAAAAAACTTTGAAAAGTAA
Found at i:16018707 original size:3 final size:3
Alignment explanation
Indices: 16018699--16018730 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
16018689 ATTTCATTCA
16018699 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
16018731 CTATATATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:16021349 original size:145 final size:143
Alignment explanation
Indices: 16020982--16021392 Score: 443
Period size: 145 Copynumber: 2.8 Consensus size: 143
16020972 TTTTTTTTGG
* *
16020982 GATTTTAAA-GCACCAAAAATCATGAAATATTATAAAATTAAGATCTGAAGAGTTTCATGAAAAT
1 GATTTCAAATGCACCAAAAATCATGAAATATTATAAAATTAAGATCTGAAAAGTTTCATG-AAAT
*** * * ** * * *
16021046 CTGGGCTCTT-GAAGGTCAAATTAAAAAAATACCCCAATATGGGTATTTTGGTAATTTCATACTT
65 -T-CAATCTTGGAAGGCCAAATTACAAAAATACCCTTATAAGGGTATTTTAGTAATTTCACACTT
* *
16021110 TTTAGGGTACTGCTGT
128 CTTAAGGTACTGCTGT
* * * *
16021126 GATTTCAAATTCATCAAAAATCATAAAATATTATAAAATTAAGATCTGAAAAGTTTCATTAAAAT
1 GATTTCAAATGCACCAAAAATCATGAAATATTATAAAATTAAGATCTGAAAAGTTTCA-TGAAAT
* * * * * *
16021191 CCATGATC-AGGAAGGCCAAACTACAAAAGTACTCTTATAGGGGTATTTTAGTAATTTCACACTT
65 TCA--ATCTTGGAAGGCCAAATTACAAAAATACCCTTATAAGGGTATTTTAGTAATTTCACACTT
*
16021255 CTTAAGGTATTGCTGT
128 CTTAAGGTACTGCTGT
* * *
16021271 GATTTCAAATGCACCAAAAATTCATGAAATATAATGAAATTAAGATCTGAAAAGTTTTATGAAAT
1 GATTTCAAATGCACCAAAAA-TCATGAAATATTATAAAATTAAGATCTGAAAAGTTTCATGAAAT
* *
16021336 TCAATCTTGGGAAGGCTAAATTACAAAAATACCCCTTA-AAGGGCATTTTAGTAATTT
65 TCAATCTT-GGAAGGCCAAATTACAAAAATA-CCCTTATAAGGGTATTTTAGTAATTT
16021393 TGTACTTCCC
Statistics
Matches: 219, Mismatches: 39, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
143 3 0.01
144 8 0.04
145 168 0.77
146 40 0.18
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.33
Consensus pattern (143 bp):
GATTTCAAATGCACCAAAAATCATGAAATATTATAAAATTAAGATCTGAAAAGTTTCATGAAATT
CAATCTTGGAAGGCCAAATTACAAAAATACCCTTATAAGGGTATTTTAGTAATTTCACACTTCTT
AAGGTACTGCTGT
Found at i:16021690 original size:53 final size:53
Alignment explanation
Indices: 16021610--16021716 Score: 142
Period size: 53 Copynumber: 2.0 Consensus size: 53
16021600 ATGTATCATC
* ** * *
16021610 CATATAAATTTCATGTGAAAGAGTTTGACAGTAATTATACAGATCTCTTTTTT
1 CATATAAATTCCATGCAAAAGAGTTTGACAGTAATCATACAGATATCTTTTTT
* * *
16021663 CATATAAATTCCATGCAAAAGAGTTTGATAGTAATCATACGGGTATCTTTTTT
1 CATATAAATTCCATGCAAAAGAGTTTGACAGTAATCATACAGATATCTTTTTT
16021716 C
1 C
16021717 TTTATTTATT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
53 46 1.00
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.39
Consensus pattern (53 bp):
CATATAAATTCCATGCAAAAGAGTTTGACAGTAATCATACAGATATCTTTTTT
Found at i:16022169 original size:50 final size:48
Alignment explanation
Indices: 16022028--16022288 Score: 173
Period size: 50 Copynumber: 5.4 Consensus size: 48
16022018 CTATAATCAA
* * * * *
16022028 AGGCATTGAAGCTTTAAAAGTTCTTGTTTGAAAATGGCT-TGCCCTAAATA-
1 AGGCTTTGAAACTTTAAAA-ATCTT-ATTGAAAATGGCTCT--CCTAAACAG
* *
16022078 AGGGCTTTGAAAATCTTTTAAAAATCATATTTGAAAATGGCTCCTTCTAAACAG
1 A-GGCTTTG-AAA-C-TTTAAAAATCTTA-TTGAAAATGGCT-CTCCTAAACAG
***
16022132 AGGCTTTGAAACTTTAAAAATCTTATTAGAAAATGGCTCTCCCTATGTAG
1 AGGCTTTGAAACTTTAAAAATCTTATT-GAAAATGGCTCT-CCTAAACAG
* *
16022182 AGGCTTTGTAACTTTAAAAATCTTA--G----T--TTCTCCTAAACAG
1 AGGCTTTGAAACTTTAAAAATCTTATTGAAAATGGCTCTCCTAAACAG
* * * *
16022222 AGGCTTTGTAACTTTAAAAATCTTATTCGCAAATAGCTTCTCCTAAATAG
1 AGGCTTTGAAACTTTAAAAATCTTATT-GAAAATGGC-TCTCCTAAACAG
*
16022272 AGGCTTTGAAACATTAA
1 AGGCTTTGAAACTTTAA
16022289 TTGAAAATGG
Statistics
Matches: 170, Mismatches: 21, Indels: 40
0.74 0.09 0.17
Matches are distributed among these distances:
40 31 0.18
41 3 0.02
43 2 0.01
47 2 0.01
49 4 0.02
50 78 0.46
51 7 0.04
52 5 0.03
53 29 0.17
54 8 0.05
55 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.34
Consensus pattern (48 bp):
AGGCTTTGAAACTTTAAAAATCTTATTGAAAATGGCTCTCCTAAACAG
Found at i:16022320 original size:90 final size:91
Alignment explanation
Indices: 16022108--16022335 Score: 259
Period size: 90 Copynumber: 2.5 Consensus size: 91
16022098 AAAATCATAT
* * *
16022108 TTGAAAATGGCTCCTTCTAAACAGAGGCTTTGAAACTTTAAAAATCTTATTAGAAAATGGCTCTC
1 TTGAAAATGGCTCCTCCTAAACAGAGGCTTTGTAACTTTAAAAATCTTATTAGAAAATAGCTCTC
** * *
16022173 CCTATGTAGAGGCTTTGTAACTTTAA
66 CCTAAATAGAGGCTTTGAAACATTAA
* * * * * *
16022199 ---AAATCTTAGTTTCTCCTAAACAGAGGCTTTGTAACTTTAAAAATCTTATTCGCAAATAGCT-
1 TTGAAA--ATGGCTCCTCCTAAACAGAGGCTTTGTAACTTTAAAAATCTTATTAGAAAATAGCTC
16022260 TCTCCTAAATAGAGGCTTTGAAACATTAA
64 TC-CCTAAATAGAGGCTTTGAAACATTAA
* *
16022289 TTGAAAATGGCTCCCCCTAAACAGAGG-TTTGTAACTTTAAAAGTCTT
1 TTGAAAATGGCTCCTCCTAAACAGAGGCTTTGTAACTTTAAAAATCTT
16022336 GTTTTTCTTT
Statistics
Matches: 112, Mismatches: 19, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
88 3 0.03
89 2 0.02
90 88 0.79
91 16 0.14
93 3 0.03
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.34
Consensus pattern (91 bp):
TTGAAAATGGCTCCTCCTAAACAGAGGCTTTGTAACTTTAAAAATCTTATTAGAAAATAGCTCTC
CCTAAATAGAGGCTTTGAAACATTAA
Found at i:16022354 original size:12 final size:13
Alignment explanation
Indices: 16022337--16022366 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
16022327 AAAAGTCTTG
16022337 TTTTTCT-TTTTT
1 TTTTTCTCTTTTT
16022349 TTTTTCTCTTTTT
1 TTTTTCTCTTTTT
16022362 TTTTT
1 TTTTT
16022367 TTAAATTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (13 bp):
TTTTTCTCTTTTT
Found at i:16022360 original size:14 final size:13
Alignment explanation
Indices: 16022337--16022368 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
16022327 AAAAGTCTTG
16022337 TTTTTCTTTTTTT
1 TTTTTCTTTTTTT
16022350 TTTTCTCTTTTTTT
1 TTTT-TCTTTTTTT
16022364 TTTTT
1 TTTTT
16022369 AAATTTTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (13 bp):
TTTTTCTTTTTTT
Found at i:16023344 original size:19 final size:19
Alignment explanation
Indices: 16023319--16023358 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
16023309 TTTTGATTCT
16023319 TTTTTTTTGCTTTTTTTTTG
1 TTTTTTTTG-TTTTTTTTTG
16023339 TTTTTTTTGTTTTTTTTTG
1 TTTTTTTTGTTTTTTTTTG
16023358 T
1 T
16023359 CTCCTTCTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.00, C:0.03, G:0.10, T:0.88
Consensus pattern (19 bp):
TTTTTTTTGTTTTTTTTTG
Found at i:16023355 original size:9 final size:9
Alignment explanation
Indices: 16023319--16023355 Score: 56
Period size: 9 Copynumber: 3.9 Consensus size: 9
16023309 TTTTGATTCT
16023319 TTTTTTTTG
1 TTTTTTTTG
16023328 CTTTTTTTTTG
1 --TTTTTTTTG
16023339 TTTTTTTTG
1 TTTTTTTTG
16023348 TTTTTTTT
1 TTTTTTTT
16023356 TGTCTCCTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 17 0.65
11 9 0.35
ACGTcount: A:0.00, C:0.03, G:0.08, T:0.89
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:16023356 original size:10 final size:10
Alignment explanation
Indices: 16023318--16023358 Score: 66
Period size: 10 Copynumber: 4.1 Consensus size: 10
16023308 TTTTTGATTC
16023318 TTTTTTTTTG
1 TTTTTTTTTG
16023328 CTTTTTTTTTG
1 -TTTTTTTTTG
16023339 -TTTTTTTTG
1 TTTTTTTTTG
16023348 TTTTTTTTTG
1 TTTTTTTTTG
16023358 T
1 T
16023359 CTCCTTCTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.31
10 10 0.34
11 10 0.34
ACGTcount: A:0.00, C:0.02, G:0.10, T:0.88
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:16024295 original size:20 final size:20
Alignment explanation
Indices: 16024270--16024307 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
16024260 AGATCATGAA
*
16024270 TTTTATCTGTATAAATCTAG
1 TTTTATCTATATAAATCTAG
16024290 TTTTATCTATATAAATCT
1 TTTTATCTATATAAATCT
16024308 GGCATTTATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.11, G:0.05, T:0.53
Consensus pattern (20 bp):
TTTTATCTATATAAATCTAG
Found at i:16028419 original size:15 final size:17
Alignment explanation
Indices: 16028384--16028423 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
16028374 CTCCTAACAT
*
16028384 CTTTTCTCTTTCTTTAG
1 CTTTTCTCTTTCTTGAG
16028401 CTTTT-TCTTT-TTGAG
1 CTTTTCTCTTTCTTGAG
16028416 C-TTTCTCT
1 CTTTTCTCT
16028424 ATCATTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 3 0.14
15 8 0.38
16 5 0.24
17 5 0.24
ACGTcount: A:0.05, C:0.23, G:0.07, T:0.65
Consensus pattern (17 bp):
CTTTTCTCTTTCTTGAG
Found at i:16036046 original size:2 final size:2
Alignment explanation
Indices: 16036030--16036069 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
16036020 TTATTATTAC
* *
16036030 TA TA TA TT TA CA 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
16036070 CTGAAGCCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:16038705 original size:145 final size:144
Alignment explanation
Indices: 16038356--16038705 Score: 382
Period size: 145 Copynumber: 2.4 Consensus size: 144
16038346 TCATTGAATC
* * * **
16038356 CCAAAAATCATGAAATATTGTAAAATTAAGATCTGAAAAATTTCATG-AAAGTCCAATCTTTAGA
1 CCAAAAATCATGAAATATTATGAAATTAAGATCT-AAAAATTTCATGAAAAG-CCAAGCTCGAGA
* * * * * * *
16038420 AGGTCAAATTATGAAAATACCCCTATAAATGTATTTTGGTAATTTTACACTTCTTGAGGTATTAC
64 AGGCCAAATTATGAAAATACCACTATAAAGGTATTATAGTAATTTCACACTTCTTGAGGTACTAC
*
16038485 TGTGATTTCAAATGCA
129 TGTGATTTCAAATACA
* * * * * *
16038501 CCAAAAATAATGAAATATTATGAAATTATGATCTAAAAATTTTGATAAAAATCCTAGCTCGAGAA
1 CCAAAAATCATGAAATATTATGAAATTAAGATCTAAAAA-TTTCATGAAAAGCCAAGCTCGAGAA
* * * * * *
16038566 GGCCAAATTATGAAAATACCATTAT-AGGGATATTATAGTAATTTCACACTTTTTTG-TGTGCTG
65 GGCCAAATTATGAAAATACCACTATAAAGG-TATTATAGTAATTTCACAC-TTCTTGAGGTACTA
*
16038629 TTGTGATTTCAAATACA
128 CTGTGATTTCAAATACA
*
16038646 CCAGAAATCATGAAATATTATGAAATTAAGATCTAAAAAGTTTCATGAAAAGCCAAGCTC
1 CCAAAAATCATGAAATATTATGAAATTAAGATCTAAAAA-TTTCATGAAAAGCCAAGCTC
16038706 AAAAATGCTA
Statistics
Matches: 167, Mismatches: 34, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
144 7 0.04
145 152 0.91
146 8 0.05
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (144 bp):
CCAAAAATCATGAAATATTATGAAATTAAGATCTAAAAATTTCATGAAAAGCCAAGCTCGAGAAG
GCCAAATTATGAAAATACCACTATAAAGGTATTATAGTAATTTCACACTTCTTGAGGTACTACTG
TGATTTCAAATACA
Found at i:16047275 original size:35 final size:35
Alignment explanation
Indices: 16047163--16047535 Score: 246
Period size: 35 Copynumber: 10.7 Consensus size: 35
16047153 TCAGTGTCGA
* * *
16047163 TCATCTTTATT-TTTGACTTACGGCTTAATCCT-G
1 TCATCTTTATTCTTTGACTTGCAGTTTAATCCTAG
** * *
16047196 ATCATCTTTATTCTTTGACTTGTGGTTTAGTTCC-AA
1 -TCATCTTTATTCTTTGACTTGCAGTTTA-ATCCTAG
*
16047232 TCA-CTTTTATTCTTTGACTTGCAGTTTAATCCTGG
1 TCATC-TTTATTCTTTGACTTGCAGTTTAATCCTAG
* * * * **
16047267 TCATTTTTATT-TCATGAGTTGCAGTTCAATCCCGG
1 TCATCTTTATTCT-TTGACTTGCAGTTTAATCCTAG
* * ** *
16047302 TTATCTTTATTCCTTGACTTGTGGTTCAATCCTAG
1 TCATCTTTATTCTTTGACTTGCAGTTTAATCCTAG
* * * * * *
16047337 TCATTTTTATTCTCTAACTCGCATTTTAGTCCTAG
1 TCATCTTTATTCTTTGACTTGCAGTTTAATCCTAG
* * * *
16047372 TCATTTTTATT-TTTGACTTG-AGGCTCAAT-CTCG
1 TCATCTTTATTCTTTGACTTGCA-GTTTAATCCTAG
** ** *
16047405 ATCATCTTTATTCTTCAACTTGTGGTTTAGTCCTAG
1 -TCATCTTTATTCTTTGACTTGCAGTTTAATCCTAG
* *
16047441 TCATCTTTATTCTCTGACTTGCAGTTTAATCCCAG
1 TCATCTTTATTCTTTGACTTGCAGTTTAATCCTAG
* *
16047476 TCATCTTTATTCTTTGACTTAC-GATTTAGTTCC-AG
1 TCATCTTTATTCTTTGACTTGCAG-TTTA-ATCCTAG
16047511 TCA-CTTTTATTCTTTGACTTGCAGT
1 TCATC-TTTATTCTTTGACTTGCAGT
16047536 CCTGGTCATT
Statistics
Matches: 260, Mismatches: 62, Indels: 33
0.73 0.17 0.09
Matches are distributed among these distances:
33 4 0.02
34 37 0.14
35 209 0.80
36 10 0.04
ACGTcount: A:0.19, C:0.20, G:0.13, T:0.48
Consensus pattern (35 bp):
TCATCTTTATTCTTTGACTTGCAGTTTAATCCTAG
Found at i:16047820 original size:35 final size:35
Alignment explanation
Indices: 16047750--16047839 Score: 103
Period size: 35 Copynumber: 2.6 Consensus size: 35
16047740 TTAGTCCATG
*
16047750 TCATCTTTATTTTTTGACTTAAGATTCAATCTCGA
1 TCATCTTTATTCTTTGACTTAAGATTCAATCTCGA
* *
16047785 TCATCTTTATTCTTTGACTTACA-ACTT-AGTTTCGA
1 TCATCTTTATTCTTTGACTTA-AGA-TTCAATCTCGA
* *
16047820 TCATTTTTATTCTTTAACTT
1 TCATCTTTATTCTTTGACTT
16047840 TCAATTGAGT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
35 45 0.94
36 3 0.06
ACGTcount: A:0.23, C:0.18, G:0.07, T:0.52
Consensus pattern (35 bp):
TCATCTTTATTCTTTGACTTAAGATTCAATCTCGA
Found at i:16047861 original size:35 final size:35
Alignment explanation
Indices: 16047782--16047873 Score: 98
Period size: 35 Copynumber: 2.6 Consensus size: 35
16047772 GATTCAATCT
* * **
16047782 CGATCATCTTTATTCTTTGACTTACAACTTAGTTT
1 CGATCATTTTTATTCTTTAACTTACAACTTAGTCC
*
16047817 CGATCATTTTTATTCTTTAACTTTCAA-TTGAGTCC
1 CGATCATTTTTATTCTTTAACTTACAACTT-AGTCC
*
16047852 CGATTATTTTTATT-TCTTAACT
1 CGATCATTTTTATTCT-TTAACT
16047874 CACTGTTTAA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
34 3 0.06
35 46 0.94
ACGTcount: A:0.23, C:0.18, G:0.08, T:0.51
Consensus pattern (35 bp):
CGATCATTTTTATTCTTTAACTTACAACTTAGTCC
Found at i:16048069 original size:35 final size:35
Alignment explanation
Indices: 16048029--16048112 Score: 107
Period size: 35 Copynumber: 2.4 Consensus size: 35
16048019 CGATCCCAAC
* * *
16048029 CATCTTTATTCTTTGACTGGTGGTTTAGT-CTCAGT
1 CATCTTTATTCTTTGACTGGCGATTTAGTCCT-AAT
* *
16048064 TATCTTTATTCTTTGACTTGCGATTTAGTCCTAAT
1 CATCTTTATTCTTTGACTGGCGATTTAGTCCTAAT
16048099 CATCTTTATTCTTT
1 CATCTTTATTCTTT
16048113 AAATCACAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
35 40 0.95
36 2 0.05
ACGTcount: A:0.17, C:0.18, G:0.13, T:0.52
Consensus pattern (35 bp):
CATCTTTATTCTTTGACTGGCGATTTAGTCCTAAT
Found at i:16048221 original size:35 final size:35
Alignment explanation
Indices: 16048172--16048247 Score: 116
Period size: 35 Copynumber: 2.2 Consensus size: 35
16048162 TTTAATCATC
*
16048172 TTTATTCTTCGACTTGCAATTTAATCCCAGTTGTT
1 TTTATTCTTCGACTTGCAATTTAATCCCAGTCGTT
* * *
16048207 TTTATTCTTTGACTTGCAATTTAATCTCGGTCGTT
1 TTTATTCTTCGACTTGCAATTTAATCCCAGTCGTT
16048242 TTTATT
1 TTTATT
16048248 TCTTAACTCA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.18, C:0.17, G:0.12, T:0.53
Consensus pattern (35 bp):
TTTATTCTTCGACTTGCAATTTAATCCCAGTCGTT
Found at i:16049961 original size:10 final size:11
Alignment explanation
Indices: 16049946--16049975 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
16049936 GAAGATGGAG
16049946 AAAAAAAAG-A
1 AAAAAAAAGCA
16049956 AAAAAAAAGCA
1 AAAAAAAAGCA
16049967 AAAAAAAAG
1 AAAAAAAAG
16049976 GGTGTGTTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.87, C:0.03, G:0.10, T:0.00
Consensus pattern (11 bp):
AAAAAAAAGCA
Found at i:16050016 original size:7 final size:7
Alignment explanation
Indices: 16050001--16050071 Score: 53
Period size: 7 Copynumber: 10.4 Consensus size: 7
16049991 AGAAGTAGGG
16050001 AAAGAGA
1 AAAGAGA
*
16050008 AAAGTGAA
1 AAAGAG-A
16050016 AAAGAAGA
1 AAAG-AGA
16050024 AAA-A-A
1 AAAGAGA
16050029 AAA-AGA
1 AAAGAGA
16050035 AAAGAGA
1 AAAGAGA
16050042 AAAGAGA
1 AAAGAGA
*
16050049 GAAGA-A
1 AAAGAGA
*
16050055 GAAGA-A
1 AAAGAGA
16050061 GAAAGAGA
1 -AAAGAGA
16050069 AAA
1 AAA
16050072 ACAAGAGGGG
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
5 5 0.09
6 12 0.22
7 26 0.48
8 10 0.19
9 1 0.02
ACGTcount: A:0.73, C:0.00, G:0.25, T:0.01
Consensus pattern (7 bp):
AAAGAGA
Found at i:16050051 original size:27 final size:28
Alignment explanation
Indices: 16050005--16050077 Score: 80
Period size: 27 Copynumber: 2.7 Consensus size: 28
16049995 GTAGGGAAAG
*
16050005 AGAAAAGTGAAAAAGAAGAA-AAAAAAA
1 AGAAAAGAGAAAAAGAAGAAGAAAAAAA
* *
16050032 AGAAAAGAG-AAAAGAGAGAAGAAGAAGA
1 AGAAAAGAGAAAAAGA-AGAAGAAAAAAA
*
16050060 AG-AAAGAGAAAAACAAGA
1 AGAAAAGAGAAAAAGAAGA
16050078 GGGGAGAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
26 6 0.15
27 21 0.54
28 12 0.31
ACGTcount: A:0.73, C:0.01, G:0.25, T:0.01
Consensus pattern (28 bp):
AGAAAAGAGAAAAAGAAGAAGAAAAAAA
Found at i:16050170 original size:30 final size:30
Alignment explanation
Indices: 16050120--16050191 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 30
16050110 GAATTTAAAA
*
16050120 AAAAAAAAAAGAAAAGGCTTT-GAAAGGCC
1 AAAAAAAAAAGAAAAGGCTTTGGAAAAGCC
* *
16050149 AAAAAAAAAAGAAGTTA-GCTTTGGAAAAGTC
1 AAAAAAAAAAGAA--AAGGCTTTGGAAAAGCC
16050180 AAAACAAAAAAG
1 AAAA-AAAAAAG
16050192 TTTTGAAAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
29 13 0.36
30 5 0.14
31 11 0.31
32 7 0.19
ACGTcount: A:0.61, C:0.08, G:0.18, T:0.12
Consensus pattern (30 bp):
AAAAAAAAAAGAAAAGGCTTTGGAAAAGCC
Found at i:16051101 original size:23 final size:23
Alignment explanation
Indices: 16051075--16051118 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
16051065 GAAAAACATT
*
16051075 TCAAAACCTTAAAACACTAAACC
1 TCAAAACCCTAAAACACTAAACC
*
16051098 TCAAAACCCTAAAACCCTAAA
1 TCAAAACCCTAAAACACTAAA
16051119 ATCTTTAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.52, C:0.32, G:0.00, T:0.16
Consensus pattern (23 bp):
TCAAAACCCTAAAACACTAAACC
Found at i:16052623 original size:21 final size:21
Alignment explanation
Indices: 16052598--16052653 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
16052588 TTGTTCAAGG
16052598 GGGTGATCGATCCCCTACATA
1 GGGTGATCGATCCCCTACATA
*
16052619 GGGTGATCGATCCCCTATATA
1 GGGTGATCGATCCCCTACATA
16052640 GGGTGATCGATCCC
1 GGGTGATCGATCCC
16052654 TTCTTCAACC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.21, C:0.27, G:0.27, T:0.25
Consensus pattern (21 bp):
GGGTGATCGATCCCCTACATA
Found at i:16053334 original size:26 final size:26
Alignment explanation
Indices: 16053276--16053324 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
16053266 TCACAAGTTT
*
16053276 TTTTTTTCTTTTTATTTTTTGATTGA
1 TTTTTTTATTTTTATTTTTTGATTGA
*
16053302 ATTTTTTATTTTTA-TTTTTGATT
1 TTTTTTTATTTTTATTTTTTGATT
16053325 TTCTTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.14, C:0.02, G:0.06, T:0.78
Consensus pattern (26 bp):
TTTTTTTATTTTTATTTTTTGATTGA
Found at i:16053349 original size:24 final size:24
Alignment explanation
Indices: 16053304--16053350 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
16053294 TTGATTGAAT
*
16053304 TTTTTATTTTTATTTTTGATTTTC
1 TTTTTATTTTTATTTTAGATTTTC
*
16053328 TTTTT-TTTTTGTTTTAGTATTTT
1 TTTTTATTTTTATTTTAG-ATTTT
16053351 TAATTGTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.11, C:0.02, G:0.06, T:0.81
Consensus pattern (24 bp):
TTTTTATTTTTATTTTAGATTTTC
Found at i:16053537 original size:15 final size:15
Alignment explanation
Indices: 16053517--16053550 Score: 61
Period size: 14 Copynumber: 2.3 Consensus size: 15
16053507 ATTATTTATT
16053517 ATGATTTATTTTTGC
1 ATGATTTATTTTTGC
16053532 ATGA-TTATTTTTGC
1 ATGATTTATTTTTGC
16053546 ATGAT
1 ATGAT
16053551 CTTTGCATGT
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:0.24, C:0.06, G:0.15, T:0.56
Consensus pattern (15 bp):
ATGATTTATTTTTGC
Found at i:16058216 original size:20 final size:20
Alignment explanation
Indices: 16058173--16058219 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
16058163 AAAGTGAAAG
* * *
16058173 AGAAAATATGAAGAAAAGAT
1 AGAAAAAATGAAGAAAAAAA
16058193 AGAAAAAATGAAGAAAAAAA
1 AGAAAAAATGAAGAAAAAAA
16058213 AGAAAAA
1 AGAAAAA
16058220 TTGATTAGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.74, C:0.00, G:0.17, T:0.09
Consensus pattern (20 bp):
AGAAAAAATGAAGAAAAAAA
Found at i:16059571 original size:23 final size:22
Alignment explanation
Indices: 16059539--16059589 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 22
16059529 GAATGTCTAA
*
16059539 AATTTTCAAATGAT-AATCTTTG
1 AATTTTCAAAT-ATGAATATTTG
16059561 AACTTTTCAAATATGAATATTTG
1 AA-TTTTCAAATATGAATATTTG
16059584 AATTTT
1 AATTTT
16059590 GAAAGTGAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 8 0.31
23 18 0.69
ACGTcount: A:0.37, C:0.08, G:0.08, T:0.47
Consensus pattern (22 bp):
AATTTTCAAATATGAATATTTG
Found at i:16059616 original size:47 final size:47
Alignment explanation
Indices: 16059564--16059658 Score: 120
Period size: 47 Copynumber: 2.0 Consensus size: 47
16059554 ATCTTTGAAC
* *
16059564 TTTTCAAATATGAATATT-TGAATTTTGAAAGTGAATCTCTAAAATTT
1 TTTTCAAATATGAATATTCT-AATCTTGAAAGTGAATCTATAAAATTT
* * * *
16059611 TTTTCAAATGTGAATCTTCTAATCTTGGATGTGAATCTATAAAATTT
1 TTTTCAAATATGAATATTCTAATCTTGAAAGTGAATCTATAAAATTT
16059658 T
1 T
16059659 CAAATGAGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
47 40 0.98
48 1 0.02
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.45
Consensus pattern (47 bp):
TTTTCAAATATGAATATTCTAATCTTGAAAGTGAATCTATAAAATTT
Found at i:16059639 original size:114 final size:112
Alignment explanation
Indices: 16059517--16059901 Score: 415
Period size: 114 Copynumber: 3.4 Consensus size: 112
16059507 CAAATCTTTC
* *
16059517 AATTTTGGATGTGAATGTCTAAAATTTTCAAATGATAATCTTTGAACTTTTCAAATATGAATATT
1 AATTTTGGATGTGAATCTCTAAAATTTTCAAATGAGAATCTTTGAAC-TTTCAAATATGAATATT
* * *
16059582 TGAATTTTGAAAGTGAATCTCTAAAATTTTTTTCAAATGTGAATCTTCT-
65 TGAAATTTG-ATGTGAATCTCTAAAATTTTTTTCAAATGTGAAT-TTATA
* *
16059631 AATCTTGGATGTGAATCTATAAAATTTTCAAATGAGAATCTTTGAAACTTTCAAATATGAATATT
1 AATTTTGGATGTGAATCTCTAAAATTTTCAAATGAGAATCTTTG-AACTTTCAAATATGAATATT
* * * * *
16059696 TGAAATTTGGATGTGAAT-TTTTAAATTTATTTCAAATGTGAATTTTTG
65 TGAAATTT-GATGTGAATCTCTAAAATTTTTTTCAAATGTGAATTTATA
* * * * * *
16059744 AATTTTAGATATAAATCTCTAAAATTTTTAAATGAGAATCTTTGAGA--TTCAAATGTGAATCTT
1 AATTTTGGATGTGAATCTCTAAAATTTTCAAATGAGAATCTTTGA-ACTTTCAAATATGAATATT
* *
16059807 TGAAACGTTTGATGTCAATCTCTAAAA---TTTTCAAATATGAATATTATA
65 TGAAA--TTTGATGTGAATCTCTAAAATTTTTTTCAAATGTGAAT-TTATA
* * * *
16059855 AATTTTGGATGTGAGTCCCTAAAATTTTTCAAATGGGAATATTTGAA
1 AATTTTGGATGTGAATCTCTAAAA-TTTTCAAATGAGAATCTTTGAA
16059902 TTTTATATGT
Statistics
Matches: 229, Mismatches: 33, Indels: 21
0.81 0.12 0.07
Matches are distributed among these distances:
110 13 0.06
111 42 0.18
112 30 0.13
113 69 0.30
114 71 0.31
115 4 0.02
ACGTcount: A:0.37, C:0.08, G:0.13, T:0.42
Consensus pattern (112 bp):
AATTTTGGATGTGAATCTCTAAAATTTTCAAATGAGAATCTTTGAACTTTCAAATATGAATATTT
GAAATTTGATGTGAATCTCTAAAATTTTTTTCAAATGTGAATTTATA
Found at i:16059682 original size:23 final size:23
Alignment explanation
Indices: 16059656--16059700 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
16059646 TCTATAAAAT
*
16059656 TTTCAAATGA-GAATCTTTGAAAC
1 TTTCAAAT-ATGAATATTTGAAAC
16059679 TTTCAAATATGAATATTTGAAA
1 TTTCAAATATGAATATTTGAAA
16059701 TTTGGATGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.42, C:0.09, G:0.11, T:0.38
Consensus pattern (23 bp):
TTTCAAATATGAATATTTGAAAC
Found at i:16059692 original size:67 final size:68
Alignment explanation
Indices: 16059612--16059745 Score: 157
Period size: 67 Copynumber: 2.0 Consensus size: 68
16059602 CTAAAATTTT
* *
16059612 TTTCAAATGTGAATCTTCT-AATCTTGGATGTGAATCTATAAA-AT-TTTCAAATGAGAATCTTT
1 TTTCAAATATGAATATT-TAAAT-TTGGATGTGAATCTATAAATATATTTCAAATGAGAATCTTT
16059674 GAAAC
64 GAAAC
* * * * *
16059679 TTTCAAATATGAATATTTGAAATTTGGATGTGAATTTTTAAATTTATTTCAAATGTGAATTTTTG
1 TTTCAAATATGAATATTT-AAATTTGGATGTGAATCTATAAATATATTTCAAATGAGAATCTTTG
16059744 AA
65 AA
16059746 TTTTAGATAT
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
66 1 0.02
67 32 0.57
68 4 0.07
69 19 0.34
ACGTcount: A:0.36, C:0.07, G:0.13, T:0.43
Consensus pattern (68 bp):
TTTCAAATATGAATATTTAAATTTGGATGTGAATCTATAAATATATTTCAAATGAGAATCTTTGA
AAC
Found at i:16059779 original size:113 final size:114
Alignment explanation
Indices: 16059534--16059836 Score: 357
Period size: 113 Copynumber: 2.7 Consensus size: 114
16059524 GATGTGAATG
* *
16059534 TCTAAAATTTTCAAATGATAATCTTTG-AACTTTTCAAATATGAATATTTGAATTTTGAAAGTGA
1 TCTAAAATTTTCAAATGAGAATCTTTGAAAC-TTTCAAATATGAATATTTGAAATTTGAAAGTGA
* * * *
16059598 ATCTCTAAAATTTTTTTCAAATGTGAATCTTCTAATCTTGGATGTGAATC
65 ATCTCTAAAATTTATTTCAAATGTGAATCTTCTAATCTTAGATATAAATC
* * *
16059648 TATAAAATTTTCAAATGAGAATCTTTGAAACTTTCAAATATGAATATTTGAAATTTGGATGTGAA
1 TCTAAAATTTTCAAATGAGAATCTTTGAAACTTTCAAATATGAATATTTGAAATTTGAAAGTGAA
* * * *
16059713 T-TTTTAAATTTATTTCAAATGTGAAT-TTTTGAATTTTAGATATAAATC
66 TCTCTAAAATTTATTTCAAATGTGAATCTTCT-AATCTTAGATATAAATC
* * * * * *
16059761 TCTAAAATTTTTAAATGAGAATCTTTGAGA--TTCAAATGTGAATCTTTGAAACGTTTG-ATGTC
1 TCTAAAATTTTCAAATGAGAATCTTTGAAACTTTCAAATATGAATATTTGAAA--TTTGAAAGTG
16059823 AATCTCTAAAATTT
64 AATCTCTAAAATTT
16059837 TCAAATATGA
Statistics
Matches: 163, Mismatches: 21, Indels: 11
0.84 0.11 0.06
Matches are distributed among these distances:
111 19 0.12
112 10 0.06
113 74 0.45
114 57 0.35
115 3 0.02
ACGTcount: A:0.37, C:0.09, G:0.12, T:0.43
Consensus pattern (114 bp):
TCTAAAATTTTCAAATGAGAATCTTTGAAACTTTCAAATATGAATATTTGAAATTTGAAAGTGAA
TCTCTAAAATTTATTTCAAATGTGAATCTTCTAATCTTAGATATAAATC
Found at i:16059840 original size:45 final size:46
Alignment explanation
Indices: 16059791--16059901 Score: 120
Period size: 45 Copynumber: 2.4 Consensus size: 46
16059781 ATCTTTGAGA
* *
16059791 TTCAAATGTGAATCTTTGAAACGTTT-GATGTCAATCTCTAAAA-TT
1 TTCAAATGTGAATATTTGAAA-GTTTGGATGTCAATCCCTAAAATTT
* * * *
16059836 TTCAAATATGAATATTAT-AAATTTTGGATGTGAGTCCCTAAAATTT
1 TTCAAATGTGAATATT-TGAAAGTTTGGATGTCAATCCCTAAAATTT
*
16059882 TTCAAATGGGAATATTTGAA
1 TTCAAATGTGAATATTTGAA
16059902 TTTTATATGT
Statistics
Matches: 54, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
44 3 0.06
45 32 0.59
46 19 0.35
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.40
Consensus pattern (46 bp):
TTCAAATGTGAATATTTGAAAGTTTGGATGTCAATCCCTAAAATTT
Found at i:16059912 original size:45 final size:45
Alignment explanation
Indices: 16059828--16059913 Score: 111
Period size: 45 Copynumber: 1.9 Consensus size: 45
16059818 ATGTCAATCT
* *
16059828 CTAAAATTTTCAAATATGAATATTATAAATTTTGGATGTGAGTCC
1 CTAAAATTTTCAAATAGGAATATTATAAATTTTAGATGTGAGTCC
* * *
16059873 CTAAAATTTTTCAAATGGGAATATT-TGAATTTTATATGTGA
1 CTAAAA-TTTTCAAATAGGAATATTATAAATTTTAGATGTGA
16059914 ATATCTACAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
45 19 0.54
46 16 0.46
ACGTcount: A:0.37, C:0.07, G:0.14, T:0.42
Consensus pattern (45 bp):
CTAAAATTTTCAAATAGGAATATTATAAATTTTAGATGTGAGTCC
Found at i:16059986 original size:45 final size:46
Alignment explanation
Indices: 16059937--16060042 Score: 106
Period size: 47 Copynumber: 2.3 Consensus size: 46
16059927 TTTGAACAAA
* * *
16059937 AATCTTTGAATTTTTTAATGTAAATCTC-TATGATTTTCAAATGTG
1 AATCTTTGAATTTTTGAATGCAAATCTCAAATGATTTTCAAATGTG
* * * * **
16059982 AATCTTTAAAATTTTGGATGCGAATCTCAAAATTTTTTTCAAATGTG
1 AATCTTTGAATTTTTGAATGCAAATCTC-AAATGATTTTCAAATGTG
*
16060029 AATTTTTGAATTTT
1 AATCTTTGAATTTT
16060043 AGAAGTTTCA
Statistics
Matches: 47, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
45 22 0.47
47 25 0.53
ACGTcount: A:0.32, C:0.08, G:0.11, T:0.48
Consensus pattern (46 bp):
AATCTTTGAATTTTTGAATGCAAATCTCAAATGATTTTCAAATGTG
Found at i:16060136 original size:19 final size:19
Alignment explanation
Indices: 16060079--16060138 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 19
16060069 ATCATGTTTA
* *
16060079 AATCATTTGTGAACCTTTG
1 AATCTTTTGTGAAACTTTG
** *
16060098 AATC-TTTACGAATC-TTG
1 AATCTTTTGTGAAACTTTG
16060115 AATCTTTTGTGAAACTTTG
1 AATCTTTTGTGAAACTTTG
16060134 AATCT
1 AATCT
16060139 CTCTTTGCTG
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
17 7 0.21
18 14 0.42
19 12 0.36
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.43
Consensus pattern (19 bp):
AATCTTTTGTGAAACTTTG
Found at i:16061759 original size:15 final size:15
Alignment explanation
Indices: 16061739--16061769 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
16061729 GAATAGTTTC
16061739 TTAGAAGAAAGCTAG
1 TTAGAAGAAAGCTAG
*
16061754 TTAGAAGAAAGGTAG
1 TTAGAAGAAAGCTAG
16061769 T
1 T
16061770 GGCAATCATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.03, G:0.29, T:0.23
Consensus pattern (15 bp):
TTAGAAGAAAGCTAG
Found at i:16064114 original size:3 final size:3
Alignment explanation
Indices: 16064108--16064160 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
16064098 ATAATAATAA
16064108 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
16064156 TAG TA
1 TAG TA
16064161 ATAATAACAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (3 bp):
TAG
Found at i:16064827 original size:21 final size:21
Alignment explanation
Indices: 16064801--16064842 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
16064791 AGAATAATAT
*
16064801 AGTGAGGTATCTGCTCTTAGA
1 AGTGAGGTATCTGCTCCTAGA
*
16064822 AGTGAGGTATTTGCTCCTAGA
1 AGTGAGGTATCTGCTCCTAGA
16064843 CATCTTTTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.33
Consensus pattern (21 bp):
AGTGAGGTATCTGCTCCTAGA
Found at i:16075296 original size:20 final size:20
Alignment explanation
Indices: 16075268--16075306 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
16075258 CAAAGTTGAA
*
16075268 AAAAAAAAACAACAACAAAC
1 AAAAAAAAACAAAAACAAAC
*
16075288 AAAACAAAACAAAAACAAA
1 AAAAAAAAACAAAAACAAA
16075307 AACCAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (20 bp):
AAAAAAAAACAAAAACAAAC
Found at i:16075296 original size:27 final size:25
Alignment explanation
Indices: 16075266--16075336 Score: 63
Period size: 26 Copynumber: 2.7 Consensus size: 25
16075256 AACAAAGTTG
16075266 AAAAAAAAAAACAACAACAAACAAAAC
1 AAAAAAAAAAACAA-AACAAA-AAAAC
* * *
16075293 -AAAACAAAAACAAAAACCAAAAAAG
1 AAAAAAAAAAAC-AAAACAAAAAAAC
*
16075318 ATAAAAAAACAACAAAACA
1 A-AAAAAAAAAACAAAACA
16075337 GGATAAAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
25 4 0.11
26 20 0.57
27 11 0.31
ACGTcount: A:0.80, C:0.17, G:0.01, T:0.01
Consensus pattern (25 bp):
AAAAAAAAAAACAAAACAAAAAAAC
Found at i:16075371 original size:29 final size:28
Alignment explanation
Indices: 16075312--16075375 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
16075302 ACAAAAACCA
**
16075312 AAAAAGATAAAAAAACAACAAAACAGGAT
1 AAAAA-ATAAAAAAACAACAAAACAAAAT
*
16075341 AAAAAATTAAAAAACAACAAAACCAAAAT
1 AAAAAATAAAAAAACAACAAAA-CAAAAT
16075370 AAAAAA
1 AAAAAA
16075376 AGGAAGATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
28 16 0.52
29 15 0.48
ACGTcount: A:0.77, C:0.11, G:0.05, T:0.08
Consensus pattern (28 bp):
AAAAAATAAAAAAACAACAAAACAAAAT
Found at i:16075373 original size:28 final size:28
Alignment explanation
Indices: 16075288--16075374 Score: 74
Period size: 28 Copynumber: 3.1 Consensus size: 28
16075278 AACAACAAAC
*
16075288 AAAACAAAACAAA-AACAAAAACC-AAA-A
1 AAAATAAAA-AAACAAC-AAAACCAAAATA
* **
16075315 AAGATAAAAAAACAACAAAA-CAGGATAA
1 AAAATAAAAAAACAACAAAACCAAAAT-A
*
16075343 AAAATTAAAAAACAACAAAACCAAAATA
1 AAAATAAAAAAACAACAAAACCAAAATA
16075371 AAAA
1 AAAA
16075375 AAGGAAGATT
Statistics
Matches: 47, Mismatches: 8, Indels: 9
0.73 0.12 0.14
Matches are distributed among these distances:
25 1 0.02
26 8 0.17
27 10 0.21
28 24 0.51
29 4 0.09
ACGTcount: A:0.77, C:0.14, G:0.03, T:0.06
Consensus pattern (28 bp):
AAAATAAAAAAACAACAAAACCAAAATA
Found at i:16075889 original size:41 final size:41
Alignment explanation
Indices: 16075844--16075925 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 41
16075834 GATTTTAAAG
16075844 TTTCAAAGCCTCTATTCAAGAGGAACCATTTTCAAACAAGA
1 TTTCAAAGCCTCTATTCAAGAGGAACCATTTTCAAACAAGA
** * * * *
16075885 TTTCAAAGTTTCTATTTAGGATGAGCCATTTTCAAACAAGA
1 TTTCAAAGCCTCTATTCAAGAGGAACCATTTTCAAACAAGA
16075926 CTTTTAGAGA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (41 bp):
TTTCAAAGCCTCTATTCAAGAGGAACCATTTTCAAACAAGA
Found at i:16076169 original size:22 final size:22
Alignment explanation
Indices: 16076141--16076182 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
16076131 GATTTTTAAG
16076141 ATTTGTAAGACCTCTAGGCATA
1 ATTTGTAAGACCTCTAGGCATA
* *
16076163 ATTTGTAAGTCTTCTAGGCA
1 ATTTGTAAGACCTCTAGGCA
16076183 AGATTCATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (22 bp):
ATTTGTAAGACCTCTAGGCATA
Found at i:16076406 original size:37 final size:37
Alignment explanation
Indices: 16076356--16076570 Score: 274
Period size: 37 Copynumber: 5.8 Consensus size: 37
16076346 CAGAAACAAG
* *
16076356 ATTTTCAAAGTTTCAAAGCCTCTATTTAGGGGGAGCT
1 ATTTTCAAAGTTTCAAAGCCTCTGTTTAGGGGGAGCC
* *
16076393 ATTTTTAAAGTTTCACAA-CCTTTGTTTAGGGGGAGCC
1 ATTTTCAAAGTTTCA-AAGCCTCTGTTTAGGGGGAGCC
16076430 ATTTT-AAAGTTTCAAAGCCTCTGTTT-GGAGGGAGCC
1 ATTTTCAAAGTTTCAAAGCCTCTGTTTAGG-GGGAGCC
* * *
16076466 ATATTCAAAATTTCAAAGCCTCTGTTTAGGGGGAGCT
1 ATTTTCAAAGTTTCAAAGCCTCTGTTTAGGGGGAGCC
* * * *
16076503 ATCTTCAAAGTTTCAAAGCTTCTATTTATGGGGAGCC
1 ATTTTCAAAGTTTCAAAGCCTCTGTTTAGGGGGAGCC
* *
16076540 ATTTTCAAAGTTTTAAAGGCTCTGTTTAGGG
1 ATTTTCAAAGTTTCAAAGCCTCTGTTTAGGG
16076571 AGAAATTTTC
Statistics
Matches: 153, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
35 4 0.03
36 28 0.18
37 117 0.76
38 4 0.03
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.36
Consensus pattern (37 bp):
ATTTTCAAAGTTTCAAAGCCTCTGTTTAGGGGGAGCC
Found at i:16080462 original size:37 final size:37
Alignment explanation
Indices: 16080412--16080533 Score: 151
Period size: 36 Copynumber: 3.3 Consensus size: 37
16080402 TGTTATGACA
16080412 TTTACGAATCTTGAATCTTTTTGTGAACCTTTGAATC
1 TTTACGAATCTTGAATCTTTTTGTGAACCTTTGAATC
*
16080449 TTTACGAATCTTGAATC-TTTTGTGAACGTTTGAATC
1 TTTACGAATCTTGAATCTTTTTGTGAACCTTTGAATC
* ** *
16080485 CTTGTGAATCTTGAA-CATTTTT-TGAATCTTTGAATC
1 TTTACGAATCTTGAATC-TTTTTGTGAACCTTTGAATC
*
16080521 TTTTGCGAATCTT
1 -TTTACGAATCTT
16080534 TACGAATCTT
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
35 1 0.01
36 42 0.57
37 31 0.42
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.47
Consensus pattern (37 bp):
TTTACGAATCTTGAATCTTTTTGTGAACCTTTGAATC
Found at i:16080464 original size:17 final size:17
Alignment explanation
Indices: 16080412--16080468 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
16080402 TGTTATGACA
16080412 TTTACGAATCTTGAATC
1 TTTACGAATCTTGAATC
** *
16080429 TTTTTGTGAACCTTTGAATC
1 --TTTACGAATC-TTGAATC
16080449 TTTACGAATCTTGAATC
1 TTTACGAATCTTGAATC
16080466 TTT
1 TTT
16080469 TGTGAACGTT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
17 10 0.32
18 7 0.23
19 7 0.23
20 7 0.23
ACGTcount: A:0.25, C:0.16, G:0.12, T:0.47
Consensus pattern (17 bp):
TTTACGAATCTTGAATC
Found at i:16080530 original size:19 final size:19
Alignment explanation
Indices: 16080417--16080534 Score: 106
Period size: 19 Copynumber: 6.4 Consensus size: 19
16080407 TGACATTTAC
16080417 GAATC-TTGAATCTTTTTGT
1 GAATCTTTGAATC-TTTTGT
* **
16080436 GAACCTTTGAATC-TTTAC
1 GAATCTTTGAATCTTTTGT
16080454 GAATC-TTGAATCTTTTGT
1 GAATCTTTGAATCTTTTGT
*
16080472 GAA-CGTTTGAATC-CTTGT
1 GAATC-TTTGAATCTTTTGT
*
16080490 GAATC-TTGAA-CATTTTTT
1 GAATCTTTGAATC-TTTTGT
*
16080508 GAATCTTTGAATCTTTTGC
1 GAATCTTTGAATCTTTTGT
16080527 GAATCTTT
1 GAATCTTT
16080535 ACGAATCTTG
Statistics
Matches: 79, Mismatches: 11, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
16 1 0.01
17 13 0.16
18 28 0.35
19 29 0.37
20 8 0.10
ACGTcount: A:0.24, C:0.14, G:0.15, T:0.47
Consensus pattern (19 bp):
GAATCTTTGAATCTTTTGT
Found at i:16080560 original size:26 final size:28
Alignment explanation
Indices: 16080508--16080560 Score: 74
Period size: 26 Copynumber: 1.9 Consensus size: 28
16080498 AACATTTTTT
*
16080508 GAATCTTTGAATCTTTTGCGAATCTTTAC
1 GAATCTTTGAATC-TTTGCGAACCTTTAC
16080537 GAATC-TTGAATC-TTGCGAACCTTT
1 GAATCTTTGAATCTTTGCGAACCTTT
16080561 GACTTTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 11 0.48
28 7 0.30
29 5 0.22
ACGTcount: A:0.25, C:0.19, G:0.15, T:0.42
Consensus pattern (28 bp):
GAATCTTTGAATCTTTGCGAACCTTTAC
Found at i:16080682 original size:22 final size:22
Alignment explanation
Indices: 16080640--16080712 Score: 64
Period size: 22 Copynumber: 3.5 Consensus size: 22
16080630 AATCTTGCAA
16080640 AACT-TTGAATTT--AATTATG
1 AACTCTTGAATTTCAAATTATG
*
16080659 AA-TCCTTGAATTTCAAATTGTG
1 AACT-CTTGAATTTCAAATTATG
* * *
16080681 AACTTTTGAATTTCAAGTTACG
1 AACTCTTGAATTTCAAATTATG
*
16080703 AACTTTTGAA
1 AACTCTTGAA
16080713 AAGTGTGCAA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
18 1 0.02
19 2 0.05
20 8 0.18
22 32 0.73
23 1 0.02
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.42
Consensus pattern (22 bp):
AACTCTTGAATTTCAAATTATG
Found at i:16083336 original size:13 final size:12
Alignment explanation
Indices: 16083314--16083340 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
16083304 TGAAGTTCTC
16083314 CATCTTTTTTTT
1 CATCTTTTTTTT
16083326 CATCTTTTTTTT
1 CATCTTTTTTTT
16083338 CAT
1 CAT
16083341 TGTTTCCAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.11, C:0.19, G:0.00, T:0.70
Consensus pattern (12 bp):
CATCTTTTTTTT
Found at i:16083606 original size:1 final size:1
Alignment explanation
Indices: 16083552--16083589 Score: 76
Period size: 1 Copynumber: 38.0 Consensus size: 1
16083542 TTATTGTCTG
16083552 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
16083590 CAACCCATTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:16084571 original size:18 final size:18
Alignment explanation
Indices: 16084456--16084571 Score: 54
Period size: 18 Copynumber: 5.8 Consensus size: 18
16084446 TAAATATAAA
16084456 ATTTTTATTCAAATAATT
1 ATTTTTATTCAAATAATT
* * *
16084474 ATTATTATTTACATAATT
1 ATTTTTATTCAAATAATT
** *
16084492 ATAACTTATAT-GAATAATCAT
1 AT-TTTTAT-TCAAATAAT--T
*
16084513 ATATTTATATTCAAATTATTATA
1 AT-TTT-TATTCAAA-TA--ATT
16084536 ATTATTTATTACATAATAATT
1 ATT-TTTATT-CA-AATAATT
16084557 ATTTTTATTCAAATA
1 ATTTTTATTCAAATA
16084572 TAATTATTTA
Statistics
Matches: 74, Mismatches: 12, Indels: 24
0.67 0.11 0.22
Matches are distributed among these distances:
18 21 0.28
19 11 0.15
20 7 0.09
21 11 0.15
22 10 0.14
23 10 0.14
24 2 0.03
25 2 0.03
ACGTcount: A:0.42, C:0.06, G:0.01, T:0.51
Consensus pattern (18 bp):
ATTTTTATTCAAATAATT
Found at i:16084574 original size:20 final size:20
Alignment explanation
Indices: 16084514--16084580 Score: 64
Period size: 20 Copynumber: 3.2 Consensus size: 20
16084504 AATAATCATA
* *
16084514 TATTTATATTCAAATTATTAT
1 TATTTTTATTCAAA-TATAAT
* *
16084535 AATTATTTATT-ACATAATAAT
1 TATT-TTTATTCAAAT-ATAAT
16084556 TATTTTTATTCAAATATAAT
1 TATTTTTATTCAAATATAAT
16084576 TATTT
1 TATTT
16084581 AAAATATAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
20 17 0.46
21 15 0.41
22 5 0.14
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.55
Consensus pattern (20 bp):
TATTTTTATTCAAATATAAT
Found at i:16084581 original size:18 final size:17
Alignment explanation
Indices: 16084532--16084589 Score: 57
Period size: 20 Copynumber: 3.3 Consensus size: 17
16084522 TTCAAATTAT
*
16084532 TATAATTATTTATTACA
1 TATAATTATTTATTAAA
16084549 TAATAATTATTTTTATTCAAA
1 T-ATAATTA--TTTATT-AAA
16084570 TATAATTATTTA--AAA
1 TATAATTATTTATTAAA
16084585 TATAA
1 TATAA
16084590 ATAAAATTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
15 8 0.22
17 1 0.03
18 11 0.31
20 13 0.36
21 3 0.08
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
TATAATTATTTATTAAA
Found at i:16086461 original size:23 final size:23
Alignment explanation
Indices: 16086413--16086475 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
16086403 ATGAAACAAT
*
16086413 AATATAATATAAAAATAATAATA
1 AATATAATATTAAAATAATAATA
**
16086436 AATATAAT-TTAAAATTTTAATAA
1 AATATAATATTAAAATAATAAT-A
16086459 AATTATATATATTAAAA
1 AA-TATA-ATATTAAAA
16086476 AAATTAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
22 10 0.30
23 11 0.33
24 4 0.12
25 2 0.06
26 6 0.18
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
AATATAATATTAAAATAATAATA
Found at i:16086468 original size:28 final size:29
Alignment explanation
Indices: 16086422--16086502 Score: 76
Period size: 27 Copynumber: 2.8 Consensus size: 29
16086412 TAATATAATA
* * **
16086422 TAAAAATAATAATAAATATAATTTAAAATTT
1 TAAAAA-AAT-ATATATATAATTAAAAAAAT
*
16086453 TAATAAAAT-TATATAT-ATTAAAAAAAT
1 TAAAAAAATATATATATAATTAAAAAAAT
*
16086480 TAAAAAAATATATTTATAATTAA
1 TAAAAAAATATATATATAATTAA
16086503 CATATTAATT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
27 16 0.39
28 12 0.29
29 5 0.12
30 3 0.07
31 5 0.12
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (29 bp):
TAAAAAAATATATATATAATTAAAAAAAT
Found at i:16087278 original size:19 final size:18
Alignment explanation
Indices: 16087232--16087280 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
16087222 TAATTTTTAT
* *
16087232 AAAATATTAATATAATTA
1 AAAATATAAATATAAGTA
16087250 AAAATAATAAATATAAGTA
1 AAAAT-ATAAATATAAGTA
*
16087269 CATAATATAAAT
1 -AAAATATAAAT
16087281 TGATATAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 5 0.19
19 17 0.65
20 4 0.15
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (18 bp):
AAAATATAAATATAAGTA
Found at i:16090451 original size:26 final size:26
Alignment explanation
Indices: 16090415--16090467 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
16090405 GCATTTTCAA
16090415 AGCTATATTAAGTCTTATTATAAGGT
1 AGCTATATTAAGTCTTATTATAAGGT
16090441 AGCTATATTAAGTCTTATTATAAGGT
1 AGCTATATTAAGTCTTATTATAAGGT
16090467 A
1 A
16090468 TCTTTCTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.42
Consensus pattern (26 bp):
AGCTATATTAAGTCTTATTATAAGGT
Found at i:16091732 original size:23 final size:23
Alignment explanation
Indices: 16091706--16091758 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
16091696 ACTGGGAATC
* *
16091706 ATGGACTGGAATGATGAATATTT
1 ATGGACCGGAATGATGAATAGTT
16091729 ATGGACCGGAATGATGAATAGTT
1 ATGGACCGGAATGATGAATAGTT
16091752 ATGGACC
1 ATGGACC
16091759 CTCCACGACA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.28
Consensus pattern (23 bp):
ATGGACCGGAATGATGAATAGTT
Found at i:16093846 original size:18 final size:18
Alignment explanation
Indices: 16093818--16093869 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
16093808 ATAAATCTTA
*
16093818 ATATATTAATATATACAT
1 ATATATAAATATATACAT
* *
16093836 ATATTTAAATATATATAT
1 ATATATAAATATATACAT
16093854 ATATATAAATATATAC
1 ATATATAAATATATAC
16093870 TTTTCTTTGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (18 bp):
ATATATAAATATATACAT
Found at i:16093868 original size:8 final size:8
Alignment explanation
Indices: 16093817--16093868 Score: 50
Period size: 8 Copynumber: 6.0 Consensus size: 8
16093807 TATAAATCTT
*
16093817 AATATATT
1 AATATATA
16093825 AATATATA
1 AATATATA
*
16093833 CATATATTTA
1 -A-ATATATA
16093843 AATATATA
1 AATATATA
16093851 TATATATATA
1 -A-ATATATA
16093861 AATATATA
1 AATATATA
16093869 CTTTTCTTTG
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
8 20 0.54
9 4 0.11
10 13 0.35
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (8 bp):
AATATATA
Found at i:16094821 original size:71 final size:72
Alignment explanation
Indices: 16094719--16094887 Score: 175
Period size: 71 Copynumber: 2.3 Consensus size: 72
16094709 AGTTATGATT
* * * * * *
16094719 AAAAACATGATCTTTATTGAAAAGAAAAAAAATTATTTTTCATAATTTAATAAAAATAACGTTTC
1 AAAAACATGATTTTTGTTGAAAAAAAAAAAAATT-TTTTTCAGAATTTAATAAAAACAACATTT-
16094784 TAAA-AT-A
64 TAAAGATAA
* * * *
16094791 AAAAACATGATTTTTGTT-AAAAATACAAAAAATTTTTTTCGGAATTTAGTAAAGACAACATTTT
1 AAAAACATGATTTTTGTTGAAAAA-AAAAAAAATTTTTTTCAGAATTTAATAAAAACAACATTTT
16094855 AAAGATAA
65 AAAGATAA
16094863 AAGAAACAT-AGTTTTTGTTGAAAAA
1 AA-AAACATGA-TTTTTGTTGAAAAA
16094888 GATAACATTT
Statistics
Matches: 81, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
70 4 0.05
71 29 0.36
72 29 0.36
73 14 0.17
74 5 0.06
ACGTcount: A:0.50, C:0.07, G:0.09, T:0.34
Consensus pattern (72 bp):
AAAAACATGATTTTTGTTGAAAAAAAAAAAAATTTTTTTCAGAATTTAATAAAAACAACATTTTA
AAGATAA
Found at i:16094909 original size:115 final size:116
Alignment explanation
Indices: 16094770--16095023 Score: 267
Period size: 117 Copynumber: 2.2 Consensus size: 116
16094760 ATAATTTAAT
* * *
16094770 AAAA-ATAACGTTTCTAAAATAAAAAACATG-A-TTTTTG-T-TAAAAAT-ACAAAAAA-TTTTT
1 AAAAGATAACATTTCTAAGATAAAAAA-ATGTAGTTTTAGTTGTAAAAATGA-AAAAAATTTTTT
** ** * *
16094828 TTCGGAATTTAGTAAAGACAACATTT-TAAAGATAAAAGAAACATAGTTTTTGTTG
64 TTCAAAATTTAACAAAGACAACATTTCT-AAGAT-AAA-AAACACAGTTTTTATTG
*
16094883 AAAAAGATAACATTTCTAAGAT--AAAAATGTAGTTTTAGTTGTAAACATGAAAAAAATTTTTTT
1 -AAAAGATAACATTTCTAAGATAAAAAAATGTAGTTTTAGTTGTAAAAATGAAAAAAATTTTTTT
*
16094946 TCAAAATTTAACAAAGACAACATTTCTAAGATAGAAAACACAGTTTTTATTG
65 TCAAAATTTAACAAAGACAACATTTCTAAGATAAAAAACACAGTTTTTATTG
* *
16094998 AAAAGATGATATTTCTAAGATAAAAA
1 AAAAGATAACATTTCTAAGATAAAAA
16095024 CATAGTTTAT
Statistics
Matches: 117, Mismatches: 13, Indels: 18
0.79 0.09 0.12
Matches are distributed among these distances:
112 3 0.03
113 5 0.04
114 28 0.24
115 30 0.26
116 17 0.15
117 33 0.28
118 1 0.01
ACGTcount: A:0.48, C:0.07, G:0.11, T:0.33
Consensus pattern (116 bp):
AAAAGATAACATTTCTAAGATAAAAAAATGTAGTTTTAGTTGTAAAAATGAAAAAAATTTTTTTT
CAAAATTTAACAAAGACAACATTTCTAAGATAAAAAACACAGTTTTTATTG
Found at i:16094969 original size:117 final size:113
Alignment explanation
Indices: 16094770--16095181 Score: 308
Period size: 114 Copynumber: 3.6 Consensus size: 113
16094760 ATAATTTAAT
* * *
16094770 AAAA-ATAACGTTTCTAAAATAAAAAACAT-GATTTTTGTT-AAAA-AT-ACAAAAAATTTTTTT
1 AAAAGATAACATTTCTAAGAT-AAAAACATAG-TTTATGTTGAAAACATGA-AAAAAATTTTTTT
** ** * *
16094830 CGGAATTTAGTAAAGACAACATTT-TAAAGATAAAAGAAACATAGTTTTTGTTG
63 CAAAATTTAACAAAGACAACATTTCT-AAGAT-AAA-AAACACAGTTTTTATTG
** *
16094883 AAAAAGATAACATTTCTAAGATAAAAATGTAGTTT-TAGTTGTAAACATGAAAAAAATTTTTTTT
1 -AAAAGATAACATTTCTAAGATAAAAACATAGTTTAT-GTTGAAAACATGAAAAAAA-TTTTTTT
*
16094947 CAAAATTTAACAAAGACAACATTTCTAAGATAGAAAACACAGTTTTTATTG
63 CAAAATTTAACAAAGACAACATTTCTAAGATAAAAAACACAGTTTTTATTG
* * * *
16094998 AAAAGATGATATTTCTAAGATAAAAACATAGTTTATGTTGAAAACATG-AAAAAGTATATTTTCT
1 AAAAGATAACATTTCTAAGATAAAAACATAGTTTATGTTGAAAACATGAAAAAAAT-TTTTTTC-
* * * * ** *
16095062 ATAATTGAACAAAGAGAACGTCTT-TAAGATAGAAATGCA-A-TCTTTTGTTG
64 AAAATTTAACAAAGACAACAT-TTCTAAGATA-AAAAACACAGT-TTTTATTG
* ** * * * * *
16095112 AAAAGATGATGTTTTTAAGATAAAAATATAGTTTTTGTTGAAAATATAAAACAAAATATTTTTT-
1 AAAAGATAACATTTCTAAGATAAAAACATAGTTTATGTTGAAAACATGAAA-AAAAT-TTTTTTC
16095176 AAAATT
64 AAAATT
16095182 CAATAAAAAG
Statistics
Matches: 246, Mismatches: 36, Indels: 32
0.78 0.11 0.10
Matches are distributed among these distances:
112 1 0.00
113 13 0.05
114 136 0.55
115 42 0.17
116 20 0.08
117 33 0.13
118 1 0.00
ACGTcount: A:0.47, C:0.07, G:0.12, T:0.35
Consensus pattern (113 bp):
AAAAGATAACATTTCTAAGATAAAAACATAGTTTATGTTGAAAACATGAAAAAAATTTTTTTCAA
AATTTAACAAAGACAACATTTCTAAGATAAAAAACACAGTTTTTATTG
Found at i:16095003 original size:41 final size:40
Alignment explanation
Indices: 16094958--16095041 Score: 105
Period size: 40 Copynumber: 2.1 Consensus size: 40
16094948 AAAATTTAAC
*
16094958 AAAGACAACATTTCTAAGATAGAAAACACAGTTTTTATTGA
1 AAAGACAACATTTCTAAGATA-AAAACACAGTTTATATTGA
** * * *
16094999 AAAGATGATATTTCTAAGATAAAAACATAGTTTATGTTGA
1 AAAGACAACATTTCTAAGATAAAAACACAGTTTATATTGA
16095039 AAA
1 AAA
16095042 CATGAAAAAG
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
40 19 0.51
41 18 0.49
ACGTcount: A:0.48, C:0.08, G:0.13, T:0.31
Consensus pattern (40 bp):
AAAGACAACATTTCTAAGATAAAAACACAGTTTATATTGA
Found at i:16095018 original size:114 final size:112
Alignment explanation
Indices: 16094817--16095181 Score: 362
Period size: 114 Copynumber: 3.2 Consensus size: 112
16094807 TTAAAAATAC
** ** *
16094817 AAAAAAT-TTTTTTCGGAATTTAGTAAAGACAACATTTTAAAGATAAAAGAAACATAGTTTTTGT
1 AAAAAATATTTTTTCAAAATTTAACAAAGACAACATTTT-AAGAT-AGA-AAACA-AGTTTTTGT
* * * *
16094881 TGAAAAAGATAACATTTCTAAGATAAAAATGTAGTTTTAGTTGTAAACATGA
62 TG-AAAAGATGATATTTCTAAGATAAAAATATAGTTTTAGTTGAAAACATGA
* *
16094933 AAAAAATTTTTTTTCAAAATTTAACAAAGACAACATTTCTAAGATAGAAAACACAGTTTTTATTG
1 AAAAAATATTTTTTCAAAATTTAACAAAGACAACATTT-TAAGATAGAAAACA-AGTTTTTGTTG
*
16094998 AAAAGATGATATTTCTAAGATAAAAACATAG-TTTATGTTGAAAACATG-
64 AAAAGATGATATTTCTAAGATAAAAATATAGTTTTA-GTTGAAAACATGA
* * * * * * *
16095046 AAAAAGTATATTTTCTATAATTGAACAAAGAGAACGTCTTTAAGATAGAAATGCAA-TCTTTTGT
1 AAAAAATATTTTTTC-AAAATTTAACAAAGACAACAT-TTTAAGATAGAAA-ACAAGT-TTTTGT
* * * * *
16095110 TGAAAAGATGATGTTTTTAAGATAAAAATATAGTTTTTGTTGAAAATATAA
62 TGAAAAGATGATATTTCTAAGATAAAAATATAGTTTTAGTTGAAAACATGA
16095161 AACAAAATATTTTTT-AAAATT
1 AA-AAAATATTTTTTCAAAATT
16095182 CAATAAAAAG
Statistics
Matches: 209, Mismatches: 30, Indels: 22
0.80 0.11 0.08
Matches are distributed among these distances:
113 17 0.08
114 117 0.56
115 24 0.11
116 19 0.09
117 31 0.15
118 1 0.00
ACGTcount: A:0.46, C:0.07, G:0.12, T:0.35
Consensus pattern (112 bp):
AAAAAATATTTTTTCAAAATTTAACAAAGACAACATTTTAAGATAGAAAACAAGTTTTTGTTGAA
AAGATGATATTTCTAAGATAAAAATATAGTTTTAGTTGAAAACATGA
Found at i:16095039 original size:40 final size:41
Alignment explanation
Indices: 16094967--16095046 Score: 117
Period size: 40 Copynumber: 2.0 Consensus size: 41
16094957 CAAAGACAAC
* *
16094967 ATTTCTAAGATAGAAAACACAGTTTTTATTGAAAAGATGAT
1 ATTTCTAAGATAGAAAACACAGTTTATATTGAAAACATGAT
* *
16095008 ATTTCTAAGATA-AAAACATAGTTTATGTTGAAAACATGA
1 ATTTCTAAGATAGAAAACACAGTTTATATTGAAAACATGA
16095047 AAAAGTATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
40 23 0.66
41 12 0.34
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.34
Consensus pattern (41 bp):
ATTTCTAAGATAGAAAACACAGTTTATATTGAAAACATGAT
Found at i:16095204 original size:114 final size:113
Alignment explanation
Indices: 16094875--16095233 Score: 375
Period size: 114 Copynumber: 3.2 Consensus size: 113
16094865 GAAACATAGT
* * * * * *
16094875 TTTTGTTGAAAAAGATAACATTTCTAAGATAAAAATGTAGTTTTAGTTGTAAACATGAAAAAAAT
1 TTTTGTTG-AAAAGATGATATTTCTAAGATAAAAATATAGTTTTTGTTGAAAACATAAAAAAAAT
* * * *
16094940 TTTTTTTCAAAATTTAACAAAGACAACATTTCTAAGATAGAAA-ACACAGT-
65 ATTTTTT-AAAATTCAACAAAGAGAACGTTTCTAAGATAGAAATACA-A-TC
* * * **
16094990 TTTTATTGAAAAGATGATATTTCTAAGATAAAAACATAGTTTATGTTGAAAACATGAAAAAGTAT
1 TTTTGTTGAAAAGATGATATTTCTAAGATAAAAATATAGTTTTTGTTGAAAACAT-AAAAAAAAT
* * * *
16095055 ATTTTCTATAATTGAACAAAGAGAACGTCTT-TAAGATAGAAATGCAATC
65 ATTTTTTAAAATTCAACAAAGAGAACGT-TTCTAAGATAGAAATACAATC
* * *
16095104 TTTTGTTGAAAAGATGATGTTTTTAAGATAAAAATATAGTTTTTGTTGAAAATATAAAACAAAAT
1 TTTTGTTGAAAAGATGATATTTCTAAGATAAAAATATAGTTTTTGTTGAAAACATAAAA-AAAAT
* * * * *
16095169 ATTTTTTAAAATTCAATAAAAAGGATGTTTCTAAGATAAAAATACAATC
65 ATTTTTTAAAATTCAACAAAGAGAACGTTTCTAAGATAGAAATACAATC
*
16095218 -TTTGTTGAAAACATGA
1 TTTTGTTGAAAAGATGA
16095234 CAAATTATAT
Statistics
Matches: 202, Mismatches: 36, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
113 22 0.11
114 158 0.78
115 22 0.11
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.35
Consensus pattern (113 bp):
TTTTGTTGAAAAGATGATATTTCTAAGATAAAAATATAGTTTTTGTTGAAAACATAAAAAAAATA
TTTTTTAAAATTCAACAAAGAGAACGTTTCTAAGATAGAAATACAATC
Found at i:16095294 original size:72 final size:71
Alignment explanation
Indices: 16095127--16095305 Score: 196
Period size: 72 Copynumber: 2.5 Consensus size: 71
16095117 ATGATGTTTT
* * * * *
16095127 TAAGATAAAAATATAGTTTTTGTTGAAAATATAAAACAAAATATTTTTTAAAATTCAATAAAAAG
1 TAAGATAAAAATATAATTTTTGTTGAAAACAT--GACAAAATATTTTTGAAAATTCAATAAAAAC
* **
16095192 GATGTTTC
64 AACATTTC
* * * * *
16095200 TAAGATAAAAATACAATCTTTGTTGAAAACATGACAAATTATATTTTGAGAATTCAGTAAAAACA
1 TAAGATAAAAATATAATTTTTGTTGAAAACATGACAAAATAT-TTTTGAAAATTCAATAAAAACA
16095265 ACATTTC
65 ACATTTC
* *
16095272 TAAGATAAAAACATAATTTTTGTTGAAAAGATGA
1 TAAGATAAAAATATAATTTTTGTTGAAAACATGA
16095306 TTTTTGAAAG
Statistics
Matches: 88, Mismatches: 17, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
71 8 0.09
72 52 0.59
73 28 0.32
ACGTcount: A:0.49, C:0.07, G:0.11, T:0.34
Consensus pattern (71 bp):
TAAGATAAAAATATAATTTTTGTTGAAAACATGACAAAATATTTTTGAAAATTCAATAAAAACAA
CATTTC
Found at i:16096007 original size:21 final size:21
Alignment explanation
Indices: 16095981--16096022 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
16095971 TCTATAATAT
16095981 TTTTAAAAAATT-ATTTTAACA
1 TTTT-AAAAATTAATTTTAACA
16096002 TTTTAAAAATTAATTTTAACA
1 TTTTAAAAATTAATTTTAACA
16096023 ATTATTTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (21 bp):
TTTTAAAAATTAATTTTAACA
Found at i:16098675 original size:24 final size:22
Alignment explanation
Indices: 16098628--16098671 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
16098618 TTTATGTGCC
16098628 ATCCCTATGTTCATATATTATA
1 ATCCCTATGTTCATATATTATA
16098650 ATCCCTATGTTCATATATTATA
1 ATCCCTATGTTCATATATTATA
16098672 TAATGTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.18, G:0.05, T:0.45
Consensus pattern (22 bp):
ATCCCTATGTTCATATATTATA
Found at i:16101121 original size:37 final size:36
Alignment explanation
Indices: 16101038--16101133 Score: 92
Period size: 37 Copynumber: 2.6 Consensus size: 36
16101028 ATGATTTGGG
* * *
16101038 TTTTGTTTTCTTCTTTCCTTGTGTTTAAGTTTTTTGG
1 TTTTCTTTCCTTCTTTCCTTGT-TTTAAGTTTTTTGA
16101075 TTTTCTTTCCCTT-TTTCCTTGTTTTAAGCTTTGCTTT-A
1 TTTTCTTT-CCTTCTTTCCTTGTTTTAAG-TTT--TTTGA
16101113 TTTT-TTTCCTTCTTT-CTTGTT
1 TTTTCTTTCCTTCTTTCCTTGTT
16101134 AACGTTAATG
Statistics
Matches: 51, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
36 16 0.31
37 25 0.49
38 7 0.14
39 3 0.06
ACGTcount: A:0.05, C:0.17, G:0.10, T:0.68
Consensus pattern (36 bp):
TTTTCTTTCCTTCTTTCCTTGTTTTAAGTTTTTTGA
Found at i:16101132 original size:36 final size:35
Alignment explanation
Indices: 16101043--16101133 Score: 91
Period size: 36 Copynumber: 2.5 Consensus size: 35
16101033 TTGGGTTTTG
*
16101043 TTTT-CTTCTTTCCTTGTGTTTAAGTTTTTTGGTTT
1 TTTTCCTTCTTTCCTTGT-TTTAAGTTTTTTGATTT
16101078 TCTTTCCCTT-TTTCCTTGTTTTAAGCTTTGCTTT-ATTT
1 T-TTT-CCTTCTTTCCTTGTTTTAAG-TTT--TTTGATTT
16101116 TTTTCCTTCTTT-CTTGTT
1 TTTTCCTTCTTTCCTTGTT
16101134 AACGTTAATG
Statistics
Matches: 48, Mismatches: 1, Indels: 13
0.77 0.02 0.21
Matches are distributed among these distances:
35 1 0.02
36 19 0.40
37 18 0.38
38 7 0.15
39 3 0.06
ACGTcount: A:0.05, C:0.18, G:0.10, T:0.67
Consensus pattern (35 bp):
TTTTCCTTCTTTCCTTGTTTTAAGTTTTTTGATTT
Found at i:16104028 original size:14 final size:14
Alignment explanation
Indices: 16104009--16104059 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
16103999 ATTCTTAATC
16104009 CTAAACCCTAAA-A
1 CTAAACCCTAAACA
*
16104022 TCTAAACCTTAAACA
1 -CTAAACCCTAAACA
*
16104037 CTAAAGCCTAAAC-
1 CTAAACCCTAAACA
*
16104050 CAAAACCCTA
1 CTAAACCCTA
16104060 CCTTTAAACC
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
13 8 0.26
14 22 0.71
15 1 0.03
ACGTcount: A:0.49, C:0.31, G:0.02, T:0.18
Consensus pattern (14 bp):
CTAAACCCTAAACA
Found at i:16104040 original size:21 final size:21
Alignment explanation
Indices: 16104010--16104050 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
16104000 TTCTTAATCC
* *
16104010 TAAACCCTAAAATCTAAACCT
1 TAAACACTAAAACCTAAACCT
*
16104031 TAAACACTAAAGCCTAAACC
1 TAAACACTAAAACCTAAACC
16104051 AAAACCCTAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.49, C:0.29, G:0.02, T:0.20
Consensus pattern (21 bp):
TAAACACTAAAACCTAAACCT
Found at i:16104129 original size:19 final size:20
Alignment explanation
Indices: 16104105--16104145 Score: 75
Period size: 19 Copynumber: 2.1 Consensus size: 20
16104095 CCTAAATTAG
16104105 CCCAAAACCCTAA-ACCAAC
1 CCCAAAACCCTAAGACCAAC
16104124 CCCAAAACCCTAAGACCAAC
1 CCCAAAACCCTAAGACCAAC
16104144 CC
1 CC
16104146 TTAACCCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.44, C:0.49, G:0.02, T:0.05
Consensus pattern (20 bp):
CCCAAAACCCTAAGACCAAC
Found at i:16104271 original size:27 final size:28
Alignment explanation
Indices: 16104241--16104293 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 28
16104231 TGTTTAATTG
16104241 TCATGAATT-CAT-CATATATTATTATGT
1 TCATGAATTCCATGCATATATT-TTATGT
*
16104268 TCATGCATTCCATGCATATATTTTAT
1 TCATGAATTCCATGCATATATTTTAT
16104294 AAATGAGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 8 0.35
28 7 0.30
29 8 0.35
ACGTcount: A:0.30, C:0.15, G:0.08, T:0.47
Consensus pattern (28 bp):
TCATGAATTCCATGCATATATTTTATGT
Found at i:16105828 original size:19 final size:19
Alignment explanation
Indices: 16105804--16105865 Score: 69
Period size: 19 Copynumber: 3.4 Consensus size: 19
16105794 CTTTGTGTTT
16105804 AAAAAATAAGAAAAAAATG
1 AAAAAATAAGAAAAAAATG
*
16105823 AAAAAATGAA-AAAAAATTG
1 AAAAAAT-AAGAAAAAAATG
16105842 AAAAAA-AATG-AAAAAA-G
1 AAAAAATAA-GAAAAAAATG
16105859 AAAAAAT
1 AAAAAAT
16105866 TGCTTAAAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
17 9 0.24
18 5 0.14
19 21 0.57
20 2 0.05
ACGTcount: A:0.79, C:0.00, G:0.10, T:0.11
Consensus pattern (19 bp):
AAAAAATAAGAAAAAAATG
Found at i:16105834 original size:7 final size:8
Alignment explanation
Indices: 16105815--16105865 Score: 50
Period size: 8 Copynumber: 5.9 Consensus size: 8
16105805 AAAAATAAGA
16105815 AAAAAATG
1 AAAAAATG
16105823 AAAAAATG
1 AAAAAATG
16105831 AAAAAAAATTG
1 --AAAAAA-TG
16105842 AAAAAAAATG
1 --AAAAAATG
16105852 AAAAAA-G
1 AAAAAATG
16105859 AAAAAAT
1 AAAAAAT
16105866 TGCTTAAAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
7 7 0.18
8 14 0.36
10 8 0.21
11 10 0.26
ACGTcount: A:0.78, C:0.00, G:0.10, T:0.12
Consensus pattern (8 bp):
AAAAAATG
Found at i:16116935 original size:99 final size:101
Alignment explanation
Indices: 16116762--16117060 Score: 383
Period size: 99 Copynumber: 3.0 Consensus size: 101
16116752 TTTCAAAAAT
* * * * * *
16116762 GAGATTTTCTAAGTTTCAAAACCTCTATTTAGGATGAGCTTTTCAAAG-CGAGGATTTTTAAAGT
1 GAGATTTTTTAAATTTCAAAGCCTCTATTTAGGAGGAGCTTTTTAAAGATGA-GATTTTTAAAGT
16116826 TTCAAAGCC-TTGTTTAGGAAGAGCTTTTTAAAGATG
65 TTCAAAGCCTTTGTTTAGGAAGAGCTTTTTAAAGATG
*
16116862 G-GATTTTTTAAATTTTAAAGCCTCTATTTAGGAGGAGCTTTTTAAAGATGAGATTTTTAAAGTT
1 GAGATTTTTTAAATTTCAAAGCCTCTATTTAGGAGGAGCTTTTTAAAGATGAGATTTTTAAAGTT
* * * *
16116926 TTAAAGCCTTTGTTTTGGAGGAGCTTTTTAATG-TG
66 TCAAAGCCTTTGTTTAGGAAGAGCTTTTTAAAGATG
* * * * * *
16116961 GAGATTTTTAAAATTTCAAAGCCTTTATTTTGG-GGAGCCTTTTAAAGATGGGATTTTTAAGGTT
1 GAGATTTTTTAAATTTCAAAGCCTCTATTTAGGAGGAGCTTTTTAAAGATGAGATTTTTAAAGTT
* *
16117025 TCAAAACCTTTGTTTAGGAAAAGCTTTTTAAAGATG
66 TCAAAGCCTTTGTTTAGGAAGAGCTTTTTAAAGATG
16117061 AAAAATTTAA
Statistics
Matches: 171, Mismatches: 24, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
99 118 0.69
100 53 0.31
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.40
Consensus pattern (101 bp):
GAGATTTTTTAAATTTCAAAGCCTCTATTTAGGAGGAGCTTTTTAAAGATGAGATTTTTAAAGTT
TCAAAGCCTTTGTTTAGGAAGAGCTTTTTAAAGATG
Found at i:16117041 original size:149 final size:149
Alignment explanation
Indices: 16116814--16117089 Score: 376
Period size: 149 Copynumber: 1.9 Consensus size: 149
16116804 TCAAAGCGAG
* * * *
16116814 GATTTTTAAAGTTTCAAAGCCTTGTTTAGGAAGAGCTTTTTAAAGATGGGATTTTTTAAATTTTA
1 GATTTTTAAAATTTCAAAGCCTTATTTAGGAAGAGCCTTTTAAAGATGGGATTTTTTAAATTTCA
* ** * **
16116879 AAGCCTCTATTTAGGAGGAGCTTTTTAAAGATGAGATTTTTAAAGTTTTAAAGCCTTTGTTTTGG
66 AAACCTCTATTTAGGAAAAGCTTTTTAAAGATGAAAAATTTAAAGTTTTAAAGCCTTTGTTTTGG
16116944 AGGAGCTTTTTAATGTGGA
131 AGGAGCTTTTTAATGTGGA
* * *
16116963 GATTTTTAAAATTTCAAAGCCTTTATTTTGG-GGAGCCTTTTAAAGATGGGA-TTTTTAAGGTTT
1 GATTTTTAAAATTTCAAAGCC-TTATTTAGGAAGAGCCTTTTAAAGATGGGATTTTTTAA-ATTT
* * *
16117026 CAAAACCTTTGTTTAGGAAAAGCTTTTTAAAGATGAAAAATTTAAAGTTTTAAAGCTTTTGTTT
64 CAAAACCTCTATTTAGGAAAAGCTTTTTAAAGATGAAAAATTTAAAGTTTTAAAGCCTTTGTTT
16117090 AGGTGAAACT
Statistics
Matches: 109, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
148 7 0.06
149 95 0.87
150 7 0.06
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (149 bp):
GATTTTTAAAATTTCAAAGCCTTATTTAGGAAGAGCCTTTTAAAGATGGGATTTTTTAAATTTCA
AAACCTCTATTTAGGAAAAGCTTTTTAAAGATGAAAAATTTAAAGTTTTAAAGCCTTTGTTTTGG
AGGAGCTTTTTAATGTGGA
Found at i:16117087 original size:50 final size:50
Alignment explanation
Indices: 16116751--16117092 Score: 336
Period size: 50 Copynumber: 6.9 Consensus size: 50
16116741 GCTTTTAAAG
* * * * * *
16116751 TTTTCAAAAATGAGATTTTCT-AAGTTTCAAAACCTCTATTTAGGATGAGC
1 TTTTTAAAGATGAGATTTT-TAAAGTTTCAAAGCCTTTGTTTAGGAGGAGC
* * *
16116801 TTTTCAAAG-CGAGGATTTTTAAAGTTTCAAAGCC-TTGTTTAGGAAGAGC
1 TTTTTAAAGATGA-GATTTTTAAAGTTTCAAAGCCTTTGTTTAGGAGGAGC
* * * *
16116850 TTTTTAAAGATGGGATTTTTTAAA-TTTTAAAGCCTCTATTTAGGAGGAGC
1 TTTTTAAAGATGAGA-TTTTTAAAGTTTCAAAGCCTTTGTTTAGGAGGAGC
* *
16116900 TTTTTAAAGATGAGATTTTTAAAGTTTTAAAGCCTTTGTTTTGGAGGAGC
1 TTTTTAAAGATGAGATTTTTAAAGTTTCAAAGCCTTTGTTTAGGAGGAGC
* * * *
16116950 TTTTTAATG-TGGAGATTTTTAAAATTTCAAAGCCTTTATTTTGG-GGAGC
1 TTTTTAAAGAT-GAGATTTTTAAAGTTTCAAAGCCTTTGTTTAGGAGGAGC
* * * * **
16116999 CTTTTAAAGATGGGATTTTTAAGGTTTCAAAACCTTTGTTTAGGAAAAGC
1 TTTTTAAAGATGAGATTTTTAAAGTTTCAAAGCCTTTGTTTAGGAGGAGC
* ** * *
16117049 TTTTTAAAGATGAAAAATTTAAAGTTTTAAAGCTTTTGTTTAGG
1 TTTTTAAAGATGAGATTTTTAAAGTTTCAAAGCCTTTGTTTAGG
16117093 TGAAACTTTT
Statistics
Matches: 243, Mismatches: 40, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
49 82 0.34
50 161 0.66
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (50 bp):
TTTTTAAAGATGAGATTTTTAAAGTTTCAAAGCCTTTGTTTAGGAGGAGC
Found at i:16117102 original size:99 final size:99
Alignment explanation
Indices: 16116813--16117102 Score: 316
Period size: 99 Copynumber: 2.9 Consensus size: 99
16116803 TTCAAAGCGA
* *
16116813 GGATTTTTAAAGTTTCAAAGCC-TTGTTTAGGAAGAGCTTTTTAAAGATGGGATTTTTTAAATTT
1 GGATTTTTAAAGTTTCAAAGCCTTTGTTTAGGAAGAGCTTTTTAAAGATGGAAATTTTTAAATTT
* * *
16116877 TAAAGCCTCTATTTAGGAGGAGCTTTTTAAAGATG
66 TAAAGCCTTTATTTAGGAGAAAC-TTTTAAAGATG
* * * * * *
16116912 AGATTTTTAAAGTTTTAAAGCCTTTGTTTTGGAGGAGCTTTTTAATG-TGGAGATTTTTAAAATT
1 GGATTTTTAAAGTTTCAAAGCCTTTGTTTAGGAAGAGCTTTTTAAAGATGGAAATTTTT-AAATT
* * * **
16116976 TCAAAGCCTTTATTTTGGGGAGCCTTTTAAAGATG
65 TTAAAGCCTTTATTTAGGAGAAACTTTTAAAGATG
* * * **
16117011 GGATTTTTAAGGTTTCAAAACCTTTGTTTAGGAAAAGCTTTTTAAAGAT-GAAAAATTTAAAGTT
1 GGATTTTTAAAGTTTCAAAGCCTTTGTTTAGGAAGAGCTTTTTAAAGATGGAAATTTTTAAA-TT
* * *
16117075 TTAAAGCTTTTGTTTAGGTGAAACTTTT
65 TTAAAGCCTTTATTTAGGAGAAACTTTT
16117103 CAAAATTCAA
Statistics
Matches: 154, Mismatches: 33, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
98 3 0.02
99 107 0.69
100 44 0.29
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (99 bp):
GGATTTTTAAAGTTTCAAAGCCTTTGTTTAGGAAGAGCTTTTTAAAGATGGAAATTTTTAAATTT
TAAAGCCTTTATTTAGGAGAAACTTTTAAAGATG
Found at i:16119287 original size:13 final size:13
Alignment explanation
Indices: 16119265--16119360 Score: 65
Period size: 13 Copynumber: 7.2 Consensus size: 13
16119255 TCATAAATCC
16119265 AAACCTTAAACTTT
1 AAACC-TAAACTTT
*
16119279 AAACCTAAACCTT
1 AAACCTAAACTTT
16119292 AAACTCTAAAC-TT
1 AAAC-CTAAACTTT
*
16119305 AAACACCAAA-TTGT
1 AAAC-CTAAACTT-T
*
16119319 AAACCTCAA-TTGT
1 AAACCTAAACTT-T
16119332 AAACCTTAAA-TCTT
1 AAACC-TAAACT-TT
*
16119346 AAACCTAAACCTT
1 AAACCTAAACTTT
16119359 AA
1 AA
16119361 TTCTTATCCC
Statistics
Matches: 69, Mismatches: 7, Indels: 13
0.78 0.08 0.15
Matches are distributed among these distances:
13 42 0.61
14 26 0.38
15 1 0.01
ACGTcount: A:0.46, C:0.24, G:0.02, T:0.28
Consensus pattern (13 bp):
AAACCTAAACTTT
Found at i:16119288 original size:20 final size:20
Alignment explanation
Indices: 16119265--16119308 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
16119255 TCATAAATCC
*
16119265 AAACCTTAAACTTTAAACCT
1 AAACCTTAAACTCTAAACCT
*
16119285 AAACCTTAAACTCTAAACTT
1 AAACCTTAAACTCTAAACCT
16119305 AAAC
1 AAAC
16119309 ACCAAATTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.27
Consensus pattern (20 bp):
AAACCTTAAACTCTAAACCT
Done.