Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 48 of 320
Found at i:13805888 original size:14 final size:14
Alignment explanation
Indices: 13805869--13805896 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
13805859 TTGGAACAGA
13805869 AGTAAGGCTTCTTT
1 AGTAAGGCTTCTTT
13805883 AGTAAGGCTTCTTT
1 AGTAAGGCTTCTTT
13805897 CCACAGTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.14, G:0.21, T:0.43
Consensus pattern (14 bp):
AGTAAGGCTTCTTT
Found at i:13807293 original size:30 final size:30
Alignment explanation
Indices: 13807257--13807342 Score: 102
Period size: 30 Copynumber: 2.9 Consensus size: 30
13807247 AAGAGCAGTA
* *
13807257 ATAAAGGAGCTGTTGTTGCATGGAACAGCC
1 ATAAAGGAGCTGCTGGTGCATGGAACAGCC
**
13807287 ATAAAGGAGCTGCTGGTGCATGGAACA-AA
1 ATAAAGGAGCTGCTGGTGCATGGAACAGCC
* *
13807316 ATTAAAGGGGCTGCTAGTGCATGGAAC
1 A-TAAAGGAGCTGCTGGTGCATGGAAC
13807343 GACATTTAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
29 1 0.02
30 48 0.98
ACGTcount: A:0.33, C:0.15, G:0.31, T:0.21
Consensus pattern (30 bp):
ATAAAGGAGCTGCTGGTGCATGGAACAGCC
Found at i:13809613 original size:12 final size:11
Alignment explanation
Indices: 13809598--13809658 Score: 50
Period size: 12 Copynumber: 5.0 Consensus size: 11
13809588 AAAAGCATTT
13809598 GAAAGAAGAAAA
1 GAAA-AAGAAAA
*
13809610 GAAAAAGAAATT
1 GAAAAAGAAA-A
13809622 GAAAAAGAAAA
1 GAAAAAGAAAA
*
13809633 TAAGAATGAGAAAAA
1 GAA-AA--AG-AAAA
13809648 GAAAAAGAAAA
1 GAAAAAGAAAA
13809659 ATGAGATTGA
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
11 12 0.30
12 18 0.45
14 4 0.10
15 6 0.15
ACGTcount: A:0.74, C:0.00, G:0.20, T:0.07
Consensus pattern (11 bp):
GAAAAAGAAAA
Found at i:13809614 original size:24 final size:23
Alignment explanation
Indices: 13809586--13809677 Score: 75
Period size: 24 Copynumber: 4.0 Consensus size: 23
13809576 TAATAAAATC
* *
13809586 GAAAAAGCATTTGAAAGAAGAAAA
1 GAAAAAGAAATTGAAA-AAGAAAA
13809610 GAAAAAGAAATTGAAAAAG--AA
1 GAAAAAGAAATTGAAAAAGAAAA
* *
13809631 -AATAAG-AATGAGAAAAAGAAAAA
1 GAAAAAGAAAT-TGAAAAAG-AAAA
*
13809654 GAAAAATGAGATTGAAAAAGAAAA
1 GAAAAA-GAAATTGAAAAAGAAAA
13809678 AGAACTTGAT
Statistics
Matches: 54, Mismatches: 7, Indels: 14
0.72 0.09 0.19
Matches are distributed among these distances:
19 3 0.06
20 12 0.22
21 2 0.04
23 5 0.09
24 22 0.41
25 8 0.15
26 2 0.04
ACGTcount: A:0.68, C:0.01, G:0.20, T:0.11
Consensus pattern (23 bp):
GAAAAAGAAATTGAAAAAGAAAA
Found at i:13809628 original size:26 final size:26
Alignment explanation
Indices: 13809608--13809681 Score: 69
Period size: 26 Copynumber: 2.9 Consensus size: 26
13809598 GAAAGAAGAA
**
13809608 AAGAAAAAGAAATTGAAAAAGAAAAT
1 AAGAAAAAGAAAAAGAAAAAGAAAAT
**
13809634 AAGAATGAGAAAAAGAAAAAGAAAA-
1 AAGAAAAAGAAAAAGAAAAAGAAAAT
* * **
13809659 ATGAGATTGAAAAAGAAAAAGAA
1 AAGAAAAAGAAAAAGAAAAAGAA
13809682 CTTGATCAAG
Statistics
Matches: 39, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
25 18 0.46
26 21 0.54
ACGTcount: A:0.72, C:0.00, G:0.19, T:0.09
Consensus pattern (26 bp):
AAGAAAAAGAAAAAGAAAAAGAAAAT
Found at i:13809653 original size:21 final size:20
Alignment explanation
Indices: 13809622--13809664 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
13809612 AAAAGAAATT
* *
13809622 GAAAAAGAAAATAAGAATGA
1 GAAAAAGAAAAGAAAAATGA
13809642 GAAAAAGAAAAAGAAAAATGA
1 GAAAAAG-AAAAGAAAAATGA
13809663 GA
1 GA
13809665 TTGAAAAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.72, C:0.00, G:0.21, T:0.07
Consensus pattern (20 bp):
GAAAAAGAAAAGAAAAATGA
Found at i:13809658 original size:5 final size:6
Alignment explanation
Indices: 13809606--13809681 Score: 62
Period size: 6 Copynumber: 12.2 Consensus size: 6
13809596 TTGAAAGAAG
** **
13809606 AAAAGA AAAAGA AATTGA AAAAGAA AATAAGA ATGAGA AAAAGA AAAAGA
1 AAAAGA AAAAGA AAAAGA AAAAG-A AA-AAGA AAAAGA AAAAGA AAAAGA
* **
13809656 AAAATGA GATTGA AAAAGA AAAAGA A
1 AAAA-GA AAAAGA AAAAGA AAAAGA A
13809682 CTTGATCAAG
Statistics
Matches: 53, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
6 42 0.79
7 8 0.15
8 3 0.06
ACGTcount: A:0.72, C:0.00, G:0.18, T:0.09
Consensus pattern (6 bp):
AAAAGA
Found at i:13817926 original size:20 final size:21
Alignment explanation
Indices: 13817883--13817928 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
13817873 ACTGTTTTGT
13817883 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
*
13817903 -ATGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
13817922 TATGGGC
1 TATGGGC
13817929 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:13822062 original size:3 final size:3
Alignment explanation
Indices: 13822054--13822097 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
13822044 GAAAAGATTC
*
13822054 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ACT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
13822098 CAATTTGTTC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:13824666 original size:20 final size:20
Alignment explanation
Indices: 13824629--13824667 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
13824619 TCTTATCTGA
*
13824629 ATCTGTTATCTGATCTGTAC
1 ATCTGTTATCTGAGCTGTAC
13824649 ATCTGTT-TCTGTAGCTGTA
1 ATCTGTTATCTG-AGCTGTA
13824668 TTTGAGAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.46
Consensus pattern (20 bp):
ATCTGTTATCTGAGCTGTAC
Found at i:13825336 original size:3 final size:3
Alignment explanation
Indices: 13825328--13825358 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
13825318 AGAAATAGTA
*
13825328 TAT TAT TAT TGT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
13825359 GAGTTTGAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:13829159 original size:20 final size:19
Alignment explanation
Indices: 13829136--13829252 Score: 101
Period size: 20 Copynumber: 5.8 Consensus size: 19
13829126 AGTTCGTTCA
*
13829136 TATAACTAGTAGTTCATCTG
1 TATAAC-AGTAATTCATCTG
* *
13829156 TATAACCAGTAATTCAACCG
1 TATAA-CAGTAATTCATCTG
* *
13829176 TAATAACAGTAATTTATCTA
1 T-ATAACAGTAATTCATCTG
*
13829196 TATCAACAATAATTCATCTG
1 TAT-AACAGTAATTCATCTG
13829216 TATCAACAGTAATTCATTCAT-
1 TAT-AACAGTAATTCA-TC-TG
*
13829237 TTTAACAGTAATTCAT
1 TATAACAGTAATTCAT
13829253 TCATTTCAAT
Statistics
Matches: 80, Mismatches: 12, Indels: 11
0.78 0.12 0.11
Matches are distributed among these distances:
19 3 0.04
20 67 0.84
21 9 0.11
22 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.37
Consensus pattern (19 bp):
TATAACAGTAATTCATCTG
Found at i:13829253 original size:20 final size:20
Alignment explanation
Indices: 13829180--13829283 Score: 115
Period size: 20 Copynumber: 5.2 Consensus size: 20
13829170 CAACCGTAAT
* *
13829180 AACAGTAATTTA-TCTATATC
1 AACAGTAATTCATTC-ATTTC
*
13829200 AACAATAATTCA-TC-TGTATC
1 AACAGTAATTCATTCAT-T-TC
*
13829220 AACAGTAATTCATTCATTTT
1 AACAGTAATTCATTCATTTC
13829240 AACAGTAATTCATTCATTTC
1 AACAGTAATTCATTCATTTC
*
13829260 AATAGTAATTCATTCATTTC
1 AACAGTAATTCATTCATTTC
13829280 AACA
1 AACA
13829284 TAGCTTATTC
Statistics
Matches: 72, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
18 1 0.01
20 67 0.93
21 3 0.04
22 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.05, T:0.39
Consensus pattern (20 bp):
AACAGTAATTCATTCATTTC
Found at i:13829269 original size:60 final size:60
Alignment explanation
Indices: 13829142--13829272 Score: 140
Period size: 60 Copynumber: 2.2 Consensus size: 60
13829132 TTCATATAAC
* * *
13829142 TAGTAGTTCATCTGTATAACCAGTAATTCAACCGTAATAACAGTAATTTATCTATATCAA
1 TAGTAATTCATCTGTATAACCAGTAATTCAACCATAATAACAGTAATTCATCTATATCAA
* * ** ** *
13829202 CAATAATTCATCTGTATCAA-CAGTAATTCATTCATTTTAACAGTAATTCAT-TCATTTCAA
1 TAGTAATTCATCTGTAT-AACCAGTAATTCAACCATAATAACAGTAATTCATCT-ATATCAA
13829262 TAGTAATTCAT
1 TAGTAATTCAT
13829273 TCATTTCAAC
Statistics
Matches: 57, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
59 1 0.02
60 54 0.95
61 2 0.04
ACGTcount: A:0.37, C:0.17, G:0.08, T:0.38
Consensus pattern (60 bp):
TAGTAATTCATCTGTATAACCAGTAATTCAACCATAATAACAGTAATTCATCTATATCAA
Found at i:13829479 original size:23 final size:22
Alignment explanation
Indices: 13829447--13829533 Score: 77
Period size: 23 Copynumber: 3.7 Consensus size: 22
13829437 CCTAAGCTGA
*
13829447 TAAACAGTAAGCTCTATTGAGC
1 TAAACAGTAAGCTCTATCGAGC
* *
13829469 TGAAACGGTAAGCCCTATCGAGC
1 T-AAACAGTAAGCTCTATCGAGC
*
13829492 TAAACAATAAGCTCT-TACGAGC
1 TAAACAGTAAGCTCTAT-CGAGC
13829514 TGAAATATCAGTAAGCTCTA
1 T--AA-A-CAGTAAGCTCTA
13829534 CAAACTATGG
Statistics
Matches: 51, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
21 1 0.02
22 18 0.35
23 19 0.37
24 2 0.04
25 1 0.02
26 10 0.20
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (22 bp):
TAAACAGTAAGCTCTATCGAGC
Found at i:13833408 original size:22 final size:23
Alignment explanation
Indices: 13833367--13833437 Score: 65
Period size: 26 Copynumber: 3.0 Consensus size: 23
13833357 TTAAGCTGAT
*
13833367 AAACAATAAGCTC-TATCGAGCTG
1 AAACAGTAAGCTCATA-CGAGCTG
*
13833390 -AACAGTAAGCTCATACGAGTTG
1 AAACAGTAAGCTCATACGAGCTG
*
13833412 AAATATCAGTAAGCTCATACAAGCTG
1 -AA-A-CAGTAAGCTCATACGAGCTG
13833438 TGGTGAGTCC
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
22 17 0.44
23 2 0.05
24 1 0.03
25 1 0.03
26 18 0.46
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.23
Consensus pattern (23 bp):
AAACAGTAAGCTCATACGAGCTG
Found at i:13834271 original size:29 final size:29
Alignment explanation
Indices: 13834238--13834295 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
13834228 ACAAAATCAC
13834238 TTTGTAAAATATGTAAAACTATCATCTAA
1 TTTGTAAAATATGTAAAACTATCATCTAA
13834267 TTTGTAAAATATGTAAAACTATCATCTAA
1 TTTGTAAAATATGTAAAACTATCATCTAA
13834296 CTTCCATATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.45, C:0.10, G:0.07, T:0.38
Consensus pattern (29 bp):
TTTGTAAAATATGTAAAACTATCATCTAA
Found at i:13839561 original size:20 final size:21
Alignment explanation
Indices: 13839533--13839704 Score: 123
Period size: 20 Copynumber: 8.6 Consensus size: 21
13839523 ATTCAATTTT
* *
13839533 ATTCGTATAAACT-GTAATTC
1 ATTCATATCAACTAGTAATTC
*
13839553 ATTCATAT-AACTAGTAGTTC
1 ATTCATATCAACTAGTAATTC
*
13839573 A-TCTGTAT-AACTAGTAATTC
1 ATTC-ATATCAACTAGTAATTC
* * *
13839593 ATCCGTAAT-AAC-AGTAATTT
1 ATTCAT-ATCAACTAGTAATTC
*
13839613 A-TCTATATCAAC-AATAATTC
1 ATTC-ATATCAACTAGTAATTC
*
13839633 ATTCGTATCAA-TAGTAATTC
1 ATTCATATCAACTAGTAATTC
* *
13839653 ATTCATTTCAAC-AATAATTC
1 ATTCATATCAACTAGTAATTC
*
13839673 ATTCATTTCAA-TAGTAATTC
1 ATTCATATCAACTAGTAATTC
*
13839693 ATTCATTTCAAC
1 ATTCATATCAAC
13839705 ATAGCTTATT
Statistics
Matches: 125, Mismatches: 16, Indels: 21
0.77 0.10 0.13
Matches are distributed among these distances:
19 9 0.07
20 108 0.86
21 8 0.06
ACGTcount: A:0.37, C:0.17, G:0.06, T:0.40
Consensus pattern (21 bp):
ATTCATATCAACTAGTAATTC
Found at i:13839664 original size:40 final size:40
Alignment explanation
Indices: 13839620--13839705 Score: 154
Period size: 40 Copynumber: 2.1 Consensus size: 40
13839610 TTTATCTATA
*
13839620 TCAACAATAATTCATTCGTATCAATAGTAATTCATTCATT
1 TCAACAATAATTCATTCATATCAATAGTAATTCATTCATT
*
13839660 TCAACAATAATTCATTCATTTCAATAGTAATTCATTCATT
1 TCAACAATAATTCATTCATATCAATAGTAATTCATTCATT
13839700 TCAACA
1 TCAACA
13839706 TAGCTTATTC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.38, C:0.19, G:0.03, T:0.40
Consensus pattern (40 bp):
TCAACAATAATTCATTCATATCAATAGTAATTCATTCATT
Found at i:13839901 original size:22 final size:22
Alignment explanation
Indices: 13839871--13839916 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
13839861 TAAGCTGATA
13839871 AACAATAAGCTCTATCGAGCTG
1 AACAATAAGCTCTATCGAGCTG
*
13839893 AACAGTAAGCTCTATCGAGCTG
1 AACAATAAGCTCTATCGAGCTG
13839915 AA
1 AA
13839917 ATATCAGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.22
Consensus pattern (22 bp):
AACAATAAGCTCTATCGAGCTG
Found at i:13847616 original size:93 final size:93
Alignment explanation
Indices: 13847488--13847659 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
13847478 GCCCATAAGT
* *
13847488 GAACTCAGACTCAACTCAACAAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
13847553 TGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * *
13847581 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
13847646 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
13847660 CAAATATCCT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:13847655 original size:46 final size:46
Alignment explanation
Indices: 13847480--13847655 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
13847470 TGTAACCCGC
* * * *
13847480 CCATAAGTGAACTCAGACTCAACTCAACAAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
13847526 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
13847572 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
13847619 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
13847656 TGCCCAAATA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 67 0.63
47 31 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:13847674 original size:46 final size:44
Alignment explanation
Indices: 13847531--13847674 Score: 107
Period size: 46 Copynumber: 3.1 Consensus size: 44
13847521 CGCATCCATA
* * *
13847531 AGTGAACTCGGACTCAACTCAATGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---A-ATC-CT
* * *
13847580 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCAAATCC-T
13847623 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AA-ATCCT
13847670 AGTGA
1 AGTGA
13847675 TATGTCACTT
Statistics
Matches: 76, Mismatches: 9, Indels: 23
0.70 0.08 0.21
Matches are distributed among these distances:
42 1 0.01
43 4 0.05
44 4 0.05
46 33 0.43
47 27 0.36
48 4 0.05
49 3 0.04
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCCT
Found at i:13853395 original size:20 final size:22
Alignment explanation
Indices: 13853356--13853396 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
13853346 TGATTTAATA
*
13853356 TATTAAATTTATTGAATTTAAC
1 TATTAAATTTATTAAATTTAAC
13853378 TATT-AATTT-TTAAATTTAA
1 TATTAAATTTATTAAATTTAA
13853397 TGCTAAAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 5 0.28
22 4 0.22
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (22 bp):
TATTAAATTTATTAAATTTAAC
Found at i:13853888 original size:23 final size:23
Alignment explanation
Indices: 13853846--13853890 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
13853836 CAATTATAAA
**
13853846 ATAATAATAATAATTTTTTGTTT
1 ATAATAATAATAATAATTTGTTT
13853869 ATAATAATAATAATAATTTGTT
1 ATAATAATAATAATAATTTGTT
13853891 GTTGTAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (23 bp):
ATAATAATAATAATAATTTGTTT
Found at i:13856633 original size:29 final size:28
Alignment explanation
Indices: 13856588--13856667 Score: 97
Period size: 30 Copynumber: 2.7 Consensus size: 28
13856578 GATAAAAAAA
13856588 TAAAAATCAATAAAAATATTAAATTTTAAT
1 TAAAAAT--ATAAAAATATTAAATTTTAAT
*
13856618 TAAAAATATAAGAAATATTTAAATTTTTAT
1 TAAAAATATAA-AAATA-TTAAATTTTAAT
*
13856648 TAAAAATTAGAAAAATATTA
1 TAAAAA-TATAAAAATATTA
13856668 GAAAAATCAT
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
28 4 0.09
29 8 0.18
30 29 0.64
31 4 0.09
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.38
Consensus pattern (28 bp):
TAAAAATATAAAAATATTAAATTTTAAT
Found at i:13856706 original size:18 final size:16
Alignment explanation
Indices: 13856680--13856719 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 16
13856670 AAAATCATAA
*
13856680 AAAATTAAAAATATAT
1 AAAATTAAAAAAATAT
13856696 AGAAATATAAAAAAATAT
1 A-AAAT-TAAAAAAATAT
13856714 AAAATT
1 AAAATT
13856720 TTATAAAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 2 0.10
17 8 0.38
18 11 0.52
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.28
Consensus pattern (16 bp):
AAAATTAAAAAAATAT
Found at i:13857061 original size:29 final size:29
Alignment explanation
Indices: 13857021--13857087 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
13857011 TTTTCTTCTA
* *
13857021 ATTTTTAGTAAAATTTAAATATTTTTTA-T
1 ATTTTTATTAAAATTT-AATAATTTTTATT
*
13857050 ATTTTTATTAAAGTTTAATAATTTTTATT
1 ATTTTTATTAAAATTTAATAATTTTTATT
*
13857079 ACTTTTATT
1 ATTTTTATT
13857088 GATTTTAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 10 0.30
29 23 0.70
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.61
Consensus pattern (29 bp):
ATTTTTATTAAAATTTAATAATTTTTATT
Found at i:13879941 original size:2 final size:2
Alignment explanation
Indices: 13879934--13879966 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
13879924 CAATCTAGAT
*
13879934 TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13879967 TTTTTGTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:13882054 original size:25 final size:23
Alignment explanation
Indices: 13882004--13882054 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
13881994 TTTTGAACTT
**
13882004 AATAATTTTAAAATTTATATTAA
1 AATAATTTTAAAATAAATATTAA
*
13882027 AATAATTTTTAAAATCAAATATTCA
1 AATAA-TTTTAAAAT-AAATATTAA
13882052 AAT
1 AAT
13882055 TGTAAATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 5 0.22
24 9 0.39
25 9 0.39
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (23 bp):
AATAATTTTAAAATAAATATTAA
Found at i:13882291 original size:31 final size:29
Alignment explanation
Indices: 13882256--13882325 Score: 95
Period size: 29 Copynumber: 2.3 Consensus size: 29
13882246 TTTTTTTAGC
* *
13882256 TAAATTTAACCCTCAACCTTTTAAAAAAAAT
1 TAAATTTAACCATCAA-C-ATTAAAAAAAAT
*
13882287 TAAATTTAACTATCAACATTAAAAAAAAT
1 TAAATTTAACCATCAACATTAAAAAAAAT
13882316 TAAATTTAAC
1 TAAATTTAAC
13882326 TAAAATGTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 21 0.58
30 1 0.03
31 14 0.39
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (29 bp):
TAAATTTAACCATCAACATTAAAAAAAAT
Found at i:13885931 original size:19 final size:18
Alignment explanation
Indices: 13885894--13885932 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
13885884 AAATTTCTCC
*
13885894 TCTTTCTTTTCTACTTTT
1 TCTTTCTTTTCTACATTT
*
13885912 TCTTTCCTTTTCTTCATTT
1 TCTTT-CTTTTCTACATTT
13885931 TC
1 TC
13885933 CATCTCCCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.05, C:0.26, G:0.00, T:0.69
Consensus pattern (18 bp):
TCTTTCTTTTCTACATTT
Found at i:13889762 original size:5 final size:5
Alignment explanation
Indices: 13889752--13889926 Score: 106
Period size: 5 Copynumber: 35.2 Consensus size: 5
13889742 ACATAATAGT
*
13889752 ACATA ACATA ACAT- ACATA CAAATA TACA-A ACATA ACAGTAA ACATA
1 ACATA ACATA ACATA ACATA -ACATA -ACATA ACATA ACA-T-A ACATA
*
13889799 ACAT- ACAT- ACATA ACA-A TACATA ACATA ACATA CAAATA TACA-A
1 ACATA ACATA ACATA ACATA -ACATA ACATA ACATA -ACATA -ACATA
*
13889843 ACATA ACATTAA ACATA ACAT- ACAT- GCATA ACAGT- ACATA ACAT-
1 ACATA ACA-T-A ACATA ACATA ACATA ACATA ACA-TA ACATA ACATA
* *
13889887 ACATA AAATA ATAGTAA ACATA ACAT- ACAT- ACAT- ACATA A
1 ACATA ACATA ACA-T-A ACATA ACATA ACATA ACATA ACATA A
13889927 ACAGTAAAGA
Statistics
Matches: 140, Mismatches: 11, Indels: 38
0.74 0.06 0.20
Matches are distributed among these distances:
4 43 0.31
5 66 0.47
6 20 0.14
7 11 0.08
ACGTcount: A:0.58, C:0.19, G:0.02, T:0.21
Consensus pattern (5 bp):
ACATA
Found at i:13889798 original size:61 final size:59
Alignment explanation
Indices: 13889733--13889926 Score: 222
Period size: 61 Copynumber: 3.3 Consensus size: 59
13889723 TGACAAACAT
*
13889733 ACATAATATACATAATAGTACATAACATAACATACATACAAATATACAAACATAACAGTAA
1 ACATAACATACATAATA--ACATAACATAACATACATACAAATATACAAACATAACAGTAA
*
13889794 ACATAACATACATACATAACA-ATACATAACATAACATACAAATATACAAACATAACATTAA
1 ACATAACATACATA-ATAACATA-ACATAACAT-ACATACAAATATACAAACATAACAGTAA
* *
13889855 ACATAACATACATGCATAACAGT-ACATAACATACATA-AAATAATAGTAAACATAACA-T--
1 ACATAACATACAT-AATAACA-TAACATAACATACATACAAAT-ATA-CAAACATAACAGTAA
13889913 ACAT-ACATACATAA
1 ACATAACATACATAA
13889927 ACAGTAAAGA
Statistics
Matches: 120, Mismatches: 5, Indels: 21
0.82 0.03 0.14
Matches are distributed among these distances:
56 1 0.01
57 8 0.07
58 4 0.03
59 5 0.04
60 21 0.17
61 78 0.65
62 3 0.03
ACGTcount: A:0.57, C:0.18, G:0.03, T:0.22
Consensus pattern (59 bp):
ACATAACATACATAATAACATAACATAACATACATACAAATATACAAACATAACAGTAA
Found at i:13889820 original size:65 final size:64
Alignment explanation
Indices: 13889727--13889891 Score: 239
Period size: 61 Copynumber: 2.6 Consensus size: 64
13889717 AACACATGAC
* *
13889727 AAACAT-ACATAATATACATAATAGTACATAACATAACATACATACAAATATACAAACATAACAG
1 AAACATAACAT-ACATACATAACAGTACATAACAT-ACATACATACAAATATACAAACATAACAG
13889791 T
64 T
* *
13889792 AAACATAACATACATACATAACAATACATAACAT--A-ACATACAAATATACAAACATAACATT
1 AAACATAACATACATACATAACAGTACATAACATACATACATACAAATATACAAACATAACAGT
*
13889853 AAACATAACATACATGCATAACAGTACATAACATACATA
1 AAACATAACATACATACATAACAGTACATAACATACATA
13889892 AAATAATAGT
Statistics
Matches: 90, Mismatches: 6, Indels: 9
0.86 0.06 0.09
Matches are distributed among these distances:
61 57 0.63
62 1 0.01
63 1 0.01
64 1 0.01
65 26 0.29
66 4 0.04
ACGTcount: A:0.57, C:0.19, G:0.02, T:0.22
Consensus pattern (64 bp):
AAACATAACATACATACATAACAGTACATAACATACATACATACAAATATACAAACATAACAGT
Found at i:13889884 original size:10 final size:9
Alignment explanation
Indices: 13889728--13889955 Score: 129
Period size: 9 Copynumber: 25.1 Consensus size: 9
13889718 ACACATGACA
13889728 AACATACAT
1 AACATACAT
*
13889737 AATATACAT
1 AACATACAT
*
13889746 AATAGTACAT
1 AACA-TACAT
13889756 AACATAACAT
1 AACAT-ACAT
13889766 -ACATACA-
1 AACATACAT
*
13889773 AATATACA-
1 AACATACAT
13889781 AACATAACAGT
1 AACAT-ACA-T
13889792 AAACATAACAT
1 -AACAT-ACAT
13889803 -ACATACAT
1 AACATACAT
13889811 AACAATACAT
1 AAC-ATACAT
13889821 AACATAACAT
1 AACAT-ACAT
13889831 -ACA-A-AT
1 AACATACAT
*
13889837 ATACAAACAT
1 A-ACATACAT
*
13889847 AACAT-TA-
1 AACATACAT
13889854 AACATAACAT
1 AACAT-ACAT
*
13889864 -ACATGCAT
1 AACATACAT
13889872 AACAGTACAT
1 AACA-TACAT
13889882 AACATACAT
1 AACATACAT
*
13889891 AAAATA-AT
1 AACATACAT
** *
13889899 AGTAAACAT
1 AACATACAT
13889908 AACATACAT
1 AACATACAT
13889917 -ACATACAT
1 AACATACAT
* *
13889925 AAACAGTAAAGA
1 -AACA-TACA-T
13889937 AACATACAT
1 AACATACAT
*
13889946 AACAGACAT
1 AACATACAT
13889955 A
1 A
13889956 CATTTCACCC
Statistics
Matches: 174, Mismatches: 21, Indels: 48
0.72 0.09 0.20
Matches are distributed among these distances:
6 2 0.01
7 6 0.03
8 37 0.21
9 70 0.40
10 42 0.24
11 8 0.05
12 9 0.05
ACGTcount: A:0.57, C:0.18, G:0.04, T:0.21
Consensus pattern (9 bp):
AACATACAT
Found at i:13889942 original size:34 final size:34
Alignment explanation
Indices: 13889711--13889872 Score: 56
Period size: 33 Copynumber: 4.8 Consensus size: 34
13889701 AATATAACAG
* * *
13889711 TAATA-TAACACATGACAAACATACATA-ATATACA
1 TAATAGTAA-ACATAACATACATACATACATA-AAA
*
13889745 TAATAGT--ACATAACATAACATACATACA-AATA
1 TAATAGTAAACATAACAT-ACATACATACATAAAA
**
13889777 TACA-AACATAACAGTAAACATAACATACATACATAACAA
1 TA-ATAGTA-AACA-T-AACAT-ACATACATACATAA-AA
* * * *
13889816 T-ACA-T-AACATAACATACAAATATACA-AACA
1 TAATAGTAAACATAACATACATACATACATAAAA
* * *
13889846 TAACATTAAACATAACATACATGCATA
1 TAATAGTAAACATAACATACATACATA
13889873 ACAGTACATA
Statistics
Matches: 100, Mismatches: 13, Indels: 31
0.69 0.09 0.22
Matches are distributed among these distances:
30 2 0.02
31 5 0.05
32 22 0.22
33 32 0.32
34 7 0.07
35 8 0.08
36 1 0.01
37 18 0.18
38 3 0.03
39 2 0.02
ACGTcount: A:0.57, C:0.19, G:0.02, T:0.22
Consensus pattern (34 bp):
TAATAGTAAACATAACATACATACATACATAAAA
Found at i:13889955 original size:34 final size:34
Alignment explanation
Indices: 13889869--13889958 Score: 96
Period size: 34 Copynumber: 2.6 Consensus size: 34
13889859 AACATACATG
*
13889869 CATAACAGTACATAACATACATAAAATAATAGTAAA
1 CATAACA-TACA-GACATACATAAAATAATAGTAAA
*
13889905 CATAACATACATACATACATAAACAGTAA-AG-AAA
1 CATAACATACAGACATACATAAA-A-TAATAGTAAA
13889939 CAT-ACATAACAGACATACAT
1 CATAACAT-ACAGACATACAT
13889959 TTCACCCTCA
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
33 4 0.08
34 28 0.57
35 7 0.14
36 10 0.20
ACGTcount: A:0.57, C:0.18, G:0.06, T:0.20
Consensus pattern (34 bp):
CATAACATACAGACATACATAAAATAATAGTAAA
Found at i:13890836 original size:27 final size:27
Alignment explanation
Indices: 13890806--13890868 Score: 72
Period size: 29 Copynumber: 2.3 Consensus size: 27
13890796 ACTAGTAGAC
* * * *
13890806 GGGAAAAAAAAGTTTGGGTACCACTCT
1 GGGAAAAAAAACTATAGGTACCAATCT
13890833 GGGATAAAAAAAACTATAGGTACCAATCT
1 GGG--AAAAAAAACTATAGGTACCAATCT
13890862 GGGAAAA
1 GGGAAAA
13890869 GTGGAAAAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
27 7 0.23
29 23 0.77
ACGTcount: A:0.44, C:0.13, G:0.24, T:0.19
Consensus pattern (27 bp):
GGGAAAAAAAACTATAGGTACCAATCT
Found at i:13894620 original size:43 final size:43
Alignment explanation
Indices: 13894559--13894717 Score: 139
Period size: 43 Copynumber: 3.7 Consensus size: 43
13894549 AAAGATCGTA
* *
13894559 CAATGCCAACGTTCCAGACGTGGTCCTACATGTAATCAAATAT
1 CAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATAT
* *
13894602 CAATGCC-ACTGTCCCAGACAG-GGTCTTACATGAAATCATATA-
1 CAATGCCAAC-GTCCCAGAC-GTGGTCTTACATGTAATCAAATAT
* * * * * *
13894644 CGATGCCGATGTCCCAAACATGGTCTTACACT-TAAATCTCAA-AT
1 CAATGCCAACGTCCCAGACGTGGTCTTACA-TGT-AATC-AAATAT
*
13894688 CGATGCCAACGTCCCAGACGTGGTCTTACA
1 CAATGCCAACGTCCCAGACGTGGTCTTACA
13894718 CGATAACACA
Statistics
Matches: 93, Mismatches: 15, Indels: 15
0.76 0.12 0.12
Matches are distributed among these distances:
42 25 0.27
43 40 0.43
44 28 0.30
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.25
Consensus pattern (43 bp):
CAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATAT
Found at i:13895984 original size:17 final size:18
Alignment explanation
Indices: 13895947--13895986 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
13895937 CTCTTTTTAA
*
13895947 TTTTTTTCAGTCTTTTCT
1 TTTTTTTCAATCTTTTCT
*
13895965 TTTTTTTCAATGTTTT-T
1 TTTTTTTCAATCTTTTCT
13895982 TTTTT
1 TTTTT
13895987 CATTTGACTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.07, C:0.10, G:0.05, T:0.78
Consensus pattern (18 bp):
TTTTTTTCAATCTTTTCT
Found at i:13896763 original size:31 final size:29
Alignment explanation
Indices: 13896694--13896767 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
13896684 ACAAAATAAT
**
13896694 AACATAAGTGACTAAAATGTAACATTTCA
1 AACATAAGTGACTAAAATGTAACATAACA
*
13896723 AACATAAGTGACTAAAATGTAACCTGAAACA
1 AACATAAGTGACTAAAATGTAACAT--AACA
*
13896754 AACAAAAGTGACTA
1 AACATAAGTGACTA
13896768 TTTTTGTAGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 24 0.62
31 15 0.38
ACGTcount: A:0.51, C:0.15, G:0.12, T:0.22
Consensus pattern (29 bp):
AACATAAGTGACTAAAATGTAACATAACA
Found at i:13897901 original size:20 final size:20
Alignment explanation
Indices: 13897873--13897920 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
13897863 AATTTTCTAA
13897873 TAAGAGTAATTTGATTTACC
1 TAAGAGTAATTTGATTTACC
*
13897893 TAGGAGTAATTTGATTTACC
1 TAAGAGTAATTTGATTTACC
13897913 TAAGAGTA
1 TAAGAGTA
13897921 GTGGTTGGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.38
Consensus pattern (20 bp):
TAAGAGTAATTTGATTTACC
Found at i:13898652 original size:17 final size:16
Alignment explanation
Indices: 13898632--13898667 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
13898622 TAGGAGGATT
*
13898632 CATGAACTTGAAGGATA
1 CATGTACTTGAA-GATA
13898649 CATGTACTTGAAGATA
1 CATGTACTTGAAGATA
13898665 CAT
1 CAT
13898668 CGCATGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (16 bp):
CATGTACTTGAAGATA
Found at i:13900733 original size:33 final size:33
Alignment explanation
Indices: 13900691--13900762 Score: 128
Period size: 33 Copynumber: 2.2 Consensus size: 33
13900681 TAGTAAGTAT
*
13900691 TTTCTAACAAATCATCTAAAATAATAATTTATC
1 TTTCTAACAAAGCATCTAAAATAATAATTTATC
13900724 TTTCTAACAAAGCATCTAAAATAATAATTTATC
1 TTTCTAACAAAGCATCTAAAATAATAATTTATC
13900757 -TTCTAA
1 TTTCTAA
13900763 TAAAAAAGTG
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 6 0.16
33 32 0.84
ACGTcount: A:0.44, C:0.15, G:0.01, T:0.39
Consensus pattern (33 bp):
TTTCTAACAAAGCATCTAAAATAATAATTTATC
Found at i:13905161 original size:27 final size:27
Alignment explanation
Indices: 13905130--13905182 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
13905120 AAAATTCATG
13905130 AAAAACGAGTGAAAATAGACTTCGATT
1 AAAAACGAGTGAAAATAGACTTCGATT
13905157 AAAAACGAGTGAAAATAGACTTCGAT
1 AAAAACGAGTGAAAATAGACTTCGAT
13905183 GCAAGTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.49, C:0.11, G:0.19, T:0.21
Consensus pattern (27 bp):
AAAAACGAGTGAAAATAGACTTCGATT
Found at i:13910741 original size:13 final size:13
Alignment explanation
Indices: 13910723--13910770 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
13910713 TTACACACAT
13910723 TTCATTATTTTAA
1 TTCATTATTTTAA
13910736 TTCATTA-TTT-A
1 TTCATTATTTTAA
13910747 -T-ATTATTTTTACA
1 TTCATTA-TTTTA-A
13910760 TTCATTATTTT
1 TTCATTATTTT
13910771 TAAAAAATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 11
0.73 0.00 0.28
Matches are distributed among these distances:
9 4 0.14
10 1 0.03
11 4 0.14
12 3 0.10
13 8 0.28
14 5 0.17
15 4 0.14
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (13 bp):
TTCATTATTTTAA
Found at i:13910766 original size:24 final size:22
Alignment explanation
Indices: 13910726--13910769 Score: 70
Period size: 24 Copynumber: 1.9 Consensus size: 22
13910716 CACACATTTC
13910726 ATTATTTTAATTCATTATTTAT
1 ATTATTTTAATTCATTATTTAT
13910748 ATTATTTTTACATTCATTATTT
1 ATTA-TTTTA-ATTCATTATTT
13910770 TTAAAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 4 0.20
23 5 0.25
24 11 0.55
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.64
Consensus pattern (22 bp):
ATTATTTTAATTCATTATTTAT
Found at i:13914695 original size:19 final size:19
Alignment explanation
Indices: 13914671--13914707 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
13914661 ATTATTTCCC
13914671 ATCAAAACAACACCTTCAG
1 ATCAAAACAACACCTTCAG
*
13914690 ATCAAAATAACACCTTCA
1 ATCAAAACAACACCTTCA
13914708 AACACTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.49, C:0.30, G:0.03, T:0.19
Consensus pattern (19 bp):
ATCAAAACAACACCTTCAG
Found at i:13925732 original size:12 final size:11
Alignment explanation
Indices: 13925709--13925791 Score: 55
Period size: 12 Copynumber: 7.3 Consensus size: 11
13925699 ATTATTTTTC
13925709 TTTATATATTA
1 TTTATATATTA
13925720 TTTATATTATTA
1 TTTATA-TATTA
* *
13925732 TATACCATA-TA
1 TTTA-TATATTA
13925743 TATTATAT-TATA
1 T-TTATATAT-TA
*
13925755 TATTATACATT-
1 T-TTATATATTA
13925766 TTTATATATTA
1 TTTATATATTA
*
13925777 TTCCATATATTA
1 TT-TATATATTA
13925789 TTT
1 TTT
13925792 TTATTTTATC
Statistics
Matches: 56, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
10 8 0.14
11 14 0.25
12 32 0.57
13 2 0.04
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (11 bp):
TTTATATATTA
Found at i:13925732 original size:19 final size:19
Alignment explanation
Indices: 13925694--13925778 Score: 63
Period size: 19 Copynumber: 4.6 Consensus size: 19
13925684 TGTAAAATAG
13925694 TATATATTATTT-T-TCT-T
1 TATATATTATTTATAT-TAT
13925711 TATATATTATTTATATTAT
1 TATATATTATTTATATTAT
** *
13925730 TATATACCATATATATTA-
1 TATATATTATTTATATTAT
* *
13925748 TAT-TATATATTATACATTTT
1 TATATAT-TATT-TATATTAT
13925768 TATATATTATT
1 TATATATTATT
13925779 CCATATATTA
Statistics
Matches: 53, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
17 14 0.26
18 7 0.13
19 22 0.42
20 7 0.13
21 3 0.06
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (19 bp):
TATATATTATTTATATTAT
Found at i:13925735 original size:21 final size:21
Alignment explanation
Indices: 13925711--13925810 Score: 67
Period size: 24 Copynumber: 4.5 Consensus size: 21
13925701 TATTTTTCTT
*
13925711 TATATATTATTTATATTATTA
1 TATACATTATTTATATTATTA
13925732 TATACCATATATATTATATTATATA
1 TATA-CAT-TAT-TTATATTAT-TA
* *
13925757 TTATACATTTTTATATATTATTC
1 -TATACATTATT-TATATTATTA
* * *
13925780 CATATATTATTTTTATT-TTA
1 TATACATTATTTATATTATTA
*
13925800 TCATAAATTAT
1 T-ATACATTAT
13925811 GTATTATTTT
Statistics
Matches: 62, Mismatches: 10, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
20 2 0.03
21 17 0.27
22 10 0.16
23 5 0.08
24 19 0.31
25 5 0.08
26 4 0.06
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (21 bp):
TATACATTATTTATATTATTA
Found at i:13937882 original size:44 final size:44
Alignment explanation
Indices: 13937823--13938266 Score: 638
Period size: 44 Copynumber: 10.1 Consensus size: 44
13937813 ATAGATCACC
* * *
13937823 GATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
1 GATAACAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAA
* * *
13937867 GATAACAGGTTTGGCGTCTCTATATTGACAGAGAGCAGATCGAA
1 GATAACAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAA
*
13937911 GATAACAGATTTGGCATCTCTGTATTGACTGAGAGCAGATCGAA
1 GATAACAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAA
* * *
13937955 GATGACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCAAA
1 GATAACAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAA
* * *
13937999 TATGACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATC-AGA
1 GATAACAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGA-A
* * * *
13938043 GATGACAGATTTGGCTTTTCTGTATTGAAAGAGAGCAGATCGAA
1 GATAACAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAA
* *
13938087 GATGACAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAA
1 GATAACAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAA
* * *
13938131 GATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATTGAA
1 GATAACAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAA
* * * *
13938175 GATAGCGGATTTGGCATCTCTGTATTGTCAGAGAGCAGATAGAA
1 GATAACAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAA
13938219 GATAACAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAA
1 GATAACAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAA
13938263 GATA
1 GATA
13938267 GCATATCTAA
Statistics
Matches: 368, Mismatches: 30, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
43 1 0.00
44 366 0.99
45 1 0.00
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (44 bp):
GATAACAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAA
Found at i:13939879 original size:19 final size:17
Alignment explanation
Indices: 13939839--13939883 Score: 90
Period size: 17 Copynumber: 2.6 Consensus size: 17
13939829 TTTTATACCA
13939839 TTATATATTATACATTT
1 TTATATATTATACATTT
13939856 TTATATATTATACATTT
1 TTATATATTATACATTT
13939873 TTATATATTAT
1 TTATATATTAT
13939884 TCCATATATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (17 bp):
TTATATATTATACATTT
Found at i:13939943 original size:26 final size:28
Alignment explanation
Indices: 13939890--13939945 Score: 80
Period size: 26 Copynumber: 2.1 Consensus size: 28
13939880 TTATTCCATA
* *
13939890 TATTATTTTTATTTTATCATAAATTATG
1 TATTATTTTTATTATATCATAAACTATG
13939918 TATTA-TTTTATTAT-TCATAAACTATG
1 TATTATTTTTATTATATCATAAACTATG
13939944 TA
1 TA
13939946 ATTTAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 13 0.50
27 8 0.31
28 5 0.19
ACGTcount: A:0.34, C:0.05, G:0.04, T:0.57
Consensus pattern (28 bp):
TATTATTTTTATTATATCATAAACTATG
Found at i:13943034 original size:41 final size:41
Alignment explanation
Indices: 13942921--13943089 Score: 200
Period size: 41 Copynumber: 4.1 Consensus size: 41
13942911 GCAAAAATTG
* * ***
13942921 TAAAACACAGAGCAATAGCGGCG-TTTTACCAAAAACGCCGC
1 TAAAAGACAGAGCATTAGCGGCGCTTTT-GGTAAAACGCCGC
* * *
13942962 TAAAA-ACTA-AGAAATAGCGGCGCTTTTGGTAAAACGCCGT
1 TAAAAGAC-AGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
* *
13943002 TAAAAGACAGAGCTTTAGTGGCGCTTTTGGTAAAACGCCGC
1 TAAAAGACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
*
13943043 TAAAAGACAGAGCATTAGCGGCGCTTTTGGTAAAACGCTGC
1 TAAAAGACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
13943084 TAAAAG
1 TAAAAG
13943090 TCATATAACT
Statistics
Matches: 111, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
40 29 0.26
41 82 0.74
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.21
Consensus pattern (41 bp):
TAAAAGACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
Found at i:13943721 original size:24 final size:24
Alignment explanation
Indices: 13943694--13943742 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
13943684 CGTATATTTA
*
13943694 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTCTATATAAAAATTAAT
13943718 TTAAAAGTCTATATAAAAATTAAT
1 TTAAAAGTCTATATAAAAATTAAT
13943742 T
1 T
13943743 GTTATTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (24 bp):
TTAAAAGTCTATATAAAAATTAAT
Found at i:13944127 original size:14 final size:14
Alignment explanation
Indices: 13944108--13944139 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
13944098 AGGTTTAGGT
13944108 GTTAGGGGTTATGG
1 GTTAGGGGTTATGG
13944122 GTTAGGGGTTATGG
1 GTTAGGGGTTATGG
13944136 GTTA
1 GTTA
13944140 TGGATTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.47, T:0.38
Consensus pattern (14 bp):
GTTAGGGGTTATGG
Found at i:13944132 original size:21 final size:21
Alignment explanation
Indices: 13944074--13944154 Score: 83
Period size: 21 Copynumber: 3.8 Consensus size: 21
13944064 GGTTTACAGC
*
13944074 TTATGGTTTAAGGGTT-GGGG
1 TTATGGTTTAGGGGTTAGGGG
* *
13944094 TTTAAGGTTTAGGTGTTAGGGG
1 -TTATGGTTTAGGGGTTAGGGG
* *
13944116 TTATGGGTTAGGGGTTATGGG
1 TTATGGTTTAGGGGTTAGGGG
*
13944137 TTATGGATTTAAGGGTTA
1 TTATGG-TTTAGGGGTTA
13944155 TGCTGTATGA
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
21 36 0.73
22 13 0.27
ACGTcount: A:0.19, C:0.00, G:0.41, T:0.41
Consensus pattern (21 bp):
TTATGGTTTAGGGGTTAGGGG
Found at i:13944140 original size:7 final size:7
Alignment explanation
Indices: 13944031--13944156 Score: 58
Period size: 7 Copynumber: 17.7 Consensus size: 7
13944021 ATTTTAAGGT
*
13944031 TTATGGA
1 TTATGGG
*
13944038 TTATGGA
1 TTATGGG
13944045 TTATGGG
1 TTATGGG
*
13944052 TTTATGGA
1 -TTATGGG
*
13944060 TTATGGT
1 TTATGGG
** *
13944067 TTACAGC
1 TTATGGG
*
13944074 TTATGGT
1 TTATGGG
*
13944081 TTAAGGG
1 TTATGGG
*
13944088 TT-GGGG
1 TTATGGG
* *
13944094 TTTAAGGT
1 -TTATGGG
13944102 TTA-GGTG
1 TTATGG-G
*
13944109 TTAGGGG
1 TTATGGG
13944116 TTATGGG
1 TTATGGG
*
13944123 TTAGGGG
1 TTATGGG
13944130 TTATGGG
1 TTATGGG
*
13944137 TTATGGAT
1 TTATGG-G
*
13944145 TTAAGGG
1 TTATGGG
13944152 TTATG
1 TTATG
13944157 CTGTATGATT
Statistics
Matches: 91, Mismatches: 22, Indels: 12
0.73 0.18 0.10
Matches are distributed among these distances:
6 5 0.05
7 71 0.78
8 15 0.16
ACGTcount: A:0.20, C:0.02, G:0.37, T:0.42
Consensus pattern (7 bp):
TTATGGG
Found at i:13944316 original size:14 final size:14
Alignment explanation
Indices: 13944297--13944363 Score: 71
Period size: 14 Copynumber: 4.7 Consensus size: 14
13944287 GTTTGCAGGT
*
13944297 AAAATGTTTTCTGG
1 AAAATGATTTCTGG
13944311 AAAATGATTTCTGG
1 AAAATGATTTCTGG
* * **
13944325 AAAATAATTTTTTAA
1 AAAATGA-TTTCTGG
*
13944340 AAAATGATTTATGG
1 AAAATGATTTCTGG
13944354 AAAATGATTT
1 AAAATGATTT
13944364 ACTTTTCTGG
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
14 33 0.77
15 10 0.23
ACGTcount: A:0.42, C:0.03, G:0.15, T:0.40
Consensus pattern (14 bp):
AAAATGATTTCTGG
Found at i:13944959 original size:22 final size:21
Alignment explanation
Indices: 13944917--13944974 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 21
13944907 ATTTTTTTTA
*
13944917 AAAAATTATTTAAAATTAATAT
1 AAAAATTA-TAAAAATTAATAT
13944939 AAAAGA-TATAAAAATTCAATAT
1 AAAA-ATTATAAAAATT-AATAT
13944961 AAAAATTATAAAAA
1 AAAAATTATAAAAA
13944975 AGTCAAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
21 8 0.25
22 23 0.72
23 1 0.03
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (21 bp):
AAAAATTATAAAAATTAATAT
Found at i:13945053 original size:38 final size:40
Alignment explanation
Indices: 13944985--13945093 Score: 177
Period size: 38 Copynumber: 2.8 Consensus size: 40
13944975 AGTCAAAAAT
*
13944985 TAGCGGCGTTTATGATAAAAACACCGCAAAAGACAAGCAA
1 TAGCGGCGTTTATGATAAAAACGCCGCAAAAGACAAGCAA
* *
13945025 TAGCGGCGTTTAT-AT-AAAACGCCGCAAAAGGCAATCAA
1 TAGCGGCGTTTATGATAAAAACGCCGCAAAAGACAAGCAA
13945063 TAGCGGCGTTTATGATAAAAACGCCGCAAAA
1 TAGCGGCGTTTATGATAAAAACGCCGCAAAA
13945094 AGTAATTTAT
Statistics
Matches: 64, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
38 33 0.52
39 4 0.06
40 27 0.42
ACGTcount: A:0.41, C:0.20, G:0.21, T:0.17
Consensus pattern (40 bp):
TAGCGGCGTTTATGATAAAAACGCCGCAAAAGACAAGCAA
Found at i:13945402 original size:35 final size:36
Alignment explanation
Indices: 13945320--13945403 Score: 109
Period size: 35 Copynumber: 2.4 Consensus size: 36
13945310 TGACTAAGCC
* * **
13945320 ATTTGCCTAAATCATAGTTCCCCCGAAACCCTCATT
1 ATTTCCCTAAATCATAGTTCCCCCAAAACCCTCAAA
*
13945356 TTTTCCC-AAATCATAGTTCCCCCAAAACCCT-AAA
1 ATTTCCCTAAATCATAGTTCCCCCAAAACCCTCAAA
13945390 ATTTCCCTAAATCA
1 ATTTCCCTAAATCA
13945404 AACCCATTTG
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
34 7 0.17
35 29 0.71
36 5 0.12
ACGTcount: A:0.32, C:0.33, G:0.05, T:0.30
Consensus pattern (36 bp):
ATTTCCCTAAATCATAGTTCCCCCAAAACCCTCAAA
Found at i:13948102 original size:240 final size:241
Alignment explanation
Indices: 13947673--13948105 Score: 814
Period size: 240 Copynumber: 1.8 Consensus size: 241
13947663 GTATGAATTA
13947673 ATTTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACC
1 ATTTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACC
*
13947738 TTTTTTTAAATATTTTAAAGATTCAAAGTATTTAGGCTGGAAACCTGACGGGTTGCCTTATATCG
66 TTTTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCG
13947803 AGCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAATT
131 AGCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAATT
13947868 CAAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAAT
196 CAAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAAT
*
13947914 ATTTT-TTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGTTGACCTTCTCTCCAACC
1 ATTTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACC
*
13947978 TTTTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGATGGGTTGCCTTATATCG
66 TTTTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCG
* *
13948043 AGCTGTAAGATATAATGGATCTTCCTTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAA
131 AGCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAA
13948106 ATAACTTACA
Statistics
Matches: 187, Mismatches: 5, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
240 182 0.97
241 5 0.03
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34
Consensus pattern (241 bp):
ATTTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACC
TTTTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCG
AGCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAATT
CAAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAAT
Found at i:13948120 original size:9 final size:9
Alignment explanation
Indices: 13948106--13948164 Score: 82
Period size: 9 Copynumber: 6.6 Consensus size: 9
13948096 ATCTTAAAAA
13948106 ATAACTTAC
1 ATAACTTAC
*
13948115 ATAACTCAC
1 ATAACTTAC
13948124 ATAACTTAC
1 ATAACTTAC
*
13948133 ATAATTTAC
1 ATAACTTAC
*
13948142 ATAACTCAC
1 ATAACTTAC
*
13948151 ATAACGTAC
1 ATAACTTAC
13948160 ATAAC
1 ATAAC
13948165 AACTTACGGA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 43 1.00
ACGTcount: A:0.46, C:0.24, G:0.02, T:0.29
Consensus pattern (9 bp):
ATAACTTAC
Found at i:13948144 original size:27 final size:27
Alignment explanation
Indices: 13948106--13948164 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
13948096 ATCTTAAAAA
*
13948106 ATAACTTACATAACTCACATAACTTAC
1 ATAACTTACATAACTCACATAACGTAC
*
13948133 ATAATTTACATAACTCACATAACGTAC
1 ATAACTTACATAACTCACATAACGTAC
13948160 ATAAC
1 ATAAC
13948165 AACTTACGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.46, C:0.24, G:0.02, T:0.29
Consensus pattern (27 bp):
ATAACTTACATAACTCACATAACGTAC
Found at i:13948722 original size:40 final size:40
Alignment explanation
Indices: 13948677--13948757 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
13948667 CATGGAAGGT
13948677 ATGTTGCGGGATGCATTTAATATGCACAGTCATGGTAAGC
1 ATGTTGCGGGATGCATTTAATATGCACAGTCATGGTAAGC
*
13948717 ATGTTGCGGGATGCATTTAATATGCACAGTCATGGTGAGC
1 ATGTTGCGGGATGCATTTAATATGCACAGTCATGGTAAGC
13948757 A
1 A
13948758 ATCGTTTCCA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (40 bp):
ATGTTGCGGGATGCATTTAATATGCACAGTCATGGTAAGC
Found at i:13953405 original size:46 final size:46
Alignment explanation
Indices: 13953338--13953432 Score: 172
Period size: 46 Copynumber: 2.1 Consensus size: 46
13953328 ACTTAATAAT
*
13953338 ATTTGATTTATTCTAAATATTTATAATCTTTAATGATAATTTTTTA
1 ATTTGATTTATTCTAAATATTTATAATCTTTAATGATAATTGTTTA
*
13953384 ATTTGATTTATTCTAAATATTTATAATCTTTAATTATAATTGTTTA
1 ATTTGATTTATTCTAAATATTTATAATCTTTAATGATAATTGTTTA
13953430 ATT
1 ATT
13953433 CAATTCATCA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (46 bp):
ATTTGATTTATTCTAAATATTTATAATCTTTAATGATAATTGTTTA
Found at i:13954354 original size:43 final size:43
Alignment explanation
Indices: 13954293--13954396 Score: 190
Period size: 43 Copynumber: 2.4 Consensus size: 43
13954283 TAAAAGCGCC
**
13954293 GTCAAGGCTTTTAGCGGCGCTTTTCCCACAAACGTCGCTAAAA
1 GTCAAGGCTTTTAGCGGCGCTTTTCCCACAAACACCGCTAAAA
13954336 GTCAAGGCTTTTAGCGGCGCTTTTCCCACAAACACCGCTAAAA
1 GTCAAGGCTTTTAGCGGCGCTTTTCCCACAAACACCGCTAAAA
13954379 GTCAAGGCTTTTAGCGGC
1 GTCAAGGCTTTTAGCGGC
13954397 ATTTTTTTCA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (43 bp):
GTCAAGGCTTTTAGCGGCGCTTTTCCCACAAACACCGCTAAAA
Found at i:13962179 original size:17 final size:17
Alignment explanation
Indices: 13962157--13962190 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
13962147 TAAATGTCTT
*
13962157 AGTTTTTAATAACTTAC
1 AGTTTTCAATAACTTAC
13962174 AGTTTTCAATAACTTAC
1 AGTTTTCAATAACTTAC
13962191 TGGTTTAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.35, C:0.15, G:0.06, T:0.44
Consensus pattern (17 bp):
AGTTTTCAATAACTTAC
Found at i:13965516 original size:26 final size:24
Alignment explanation
Indices: 13965462--13965529 Score: 70
Period size: 26 Copynumber: 2.8 Consensus size: 24
13965452 ACATATTTTC
* *
13965462 CTTTTTCTTTTTATTTCTTTTTTA
1 CTTTTTCTTTTTAATTCTTTCTTA
13965486 CTTTTTCTTTCCTTAATTCTTTCTT-
1 CTTTTTCTTT--TTAATTCTTTCTTA
13965511 CATTTTT-TTTTT-ATTCTTT
1 C-TTTTTCTTTTTAATTCTTT
13965530 TTCCTCATCC
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
22 7 0.18
23 2 0.05
24 10 0.26
25 4 0.10
26 16 0.41
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.75
Consensus pattern (24 bp):
CTTTTTCTTTTTAATTCTTTCTTA
Found at i:13970748 original size:32 final size:32
Alignment explanation
Indices: 13970712--13970776 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
13970702 AGCACATGTT
13970712 TGAATTATCTAAAAATGTTCTGAAAGTTCTTA
1 TGAATTATCTAAAAATGTTCTGAAAGTTCTTA
13970744 TGAATTATCTAAAAATGTTCTGAAAGTTCTTA
1 TGAATTATCTAAAAATGTTCTGAAAGTTCTTA
13970776 T
1 T
13970777 AATGCTCTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.37, C:0.09, G:0.12, T:0.42
Consensus pattern (32 bp):
TGAATTATCTAAAAATGTTCTGAAAGTTCTTA
Found at i:13983848 original size:29 final size:29
Alignment explanation
Indices: 13983755--13983856 Score: 107
Period size: 29 Copynumber: 3.5 Consensus size: 29
13983745 TCTAATCTGT
* *
13983755 TAATGCACTTCGATGCCACTCTATTTTGA
1 TAATGCACTTCGATGCCACTCTATTCTAA
* ****
13983784 TAAAGCACTTCGATGTTGTTCTATTCTAA
1 TAATGCACTTCGATGCCACTCTATTCTAA
*
13983813 TATTGCACTTCGATGCCACTCTATTCT-A
1 TAATGCACTTCGATGCCACTCTATTCTAA
*
13983841 TGAATGCACCTCGATG
1 T-AATGCACTTCGATG
13983857 AAACTTTGTA
Statistics
Matches: 57, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
28 2 0.04
29 55 0.96
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.37
Consensus pattern (29 bp):
TAATGCACTTCGATGCCACTCTATTCTAA
Found at i:13990064 original size:24 final size:24
Alignment explanation
Indices: 13990036--13990087 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
13990026 TTAGCAAGTC
* *
13990036 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
***
13990060 AAATATGTTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
13990084 AAAT
1 AAAT
13990088 CTTCTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.52, C:0.10, G:0.06, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:13992331 original size:6 final size:6
Alignment explanation
Indices: 13992320--13992348 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
13992310 TTTATTAGAT
13992320 TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
13992349 CTAAAATTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTA
Found at i:14007159 original size:3 final size:3
Alignment explanation
Indices: 14007151--14007258 Score: 73
Period size: 3 Copynumber: 36.7 Consensus size: 3
14007141 ATAGTTTAAA
* * * * *
14007151 AAT AAT AAT AAC AAT GAT AAT AAT ATT AA- CAT AA- AAT AAAG AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
* * *
14007195 AAT AAT AAT AGT AA- AAC AAT AAT AAT AAT AAT AGT AAT AAT AA- AATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T
*
14007242 AATT AAT -TT AAT AAT AA
1 AA-T AAT AAT AAT AAT AA
14007259 AGTAGCCAAA
Statistics
Matches: 81, Mismatches: 17, Indels: 14
0.72 0.15 0.12
Matches are distributed among these distances:
2 8 0.10
3 65 0.80
4 8 0.10
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:14007238 original size:29 final size:29
Alignment explanation
Indices: 14007151--14007239 Score: 81
Period size: 29 Copynumber: 3.0 Consensus size: 29
14007141 ATAGTTTAAA
* *
14007151 AATAATAATAACAAT-GATAATAATATTAAC
1 AATAATAATAATAATAG-TAATAATA-AAAC
* * * *
14007181 ATAAAATAAAGAATAATAATAATAGTAAAAC
1 A-ATAAT-AATAATAATAGTAATAATAAAAC
14007212 AATAATAATAATAATAGTAATAATAAAA
1 AATAATAATAATAATAGTAATAATAAAA
14007240 TTAATTAATT
Statistics
Matches: 46, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
29 19 0.41
30 5 0.11
31 8 0.17
32 14 0.30
ACGTcount: A:0.65, C:0.03, G:0.04, T:0.27
Consensus pattern (29 bp):
AATAATAATAATAATAGTAATAATAAAAC
Found at i:14008880 original size:143 final size:143
Alignment explanation
Indices: 14008621--14009040 Score: 491
Period size: 143 Copynumber: 2.9 Consensus size: 143
14008611 GAGTTGTAAC
* * * * * * *
14008621 TTGTAGCTTCAATCTACTCCACTACAACTTCAGGGAGATAAGATCCACTATCTTCAGGCTGCTCC
1 TTGTAACTTTAATCTATTCCACTACAACATCAGGGAAATAAGATTCACTATCTTCAGTCTGCTCC
** * * *
14008686 TATTGCAACTTTAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGAAAAATA
66 -GCTGCAACTTCAAGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGAAAGATA
* *
14008751 AGATTAGCTATAAT
130 AGATTAGCCAAAAT
* ** ** *
14008765 TTGTAACTTTAATCTATTCTACTACAATGTCAGGGAAATAAGATTTGCTATCTTCAGTCTGTTCC
1 TTGTAACTTTAATCTATTCCACTACAACATCAGGGAAATAAGATTCACTATCTTCAGTCTGCTCC
*
14008830 GCTGTAACTTCAAGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCA-AGAAGATA
66 GCTGCAACTTCAAGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGA-AAGATA
*
14008894 AGATTTGCCAAAAT
130 AGATTAGCCAAAAT
* * * * ** * *
14008908 TTGTAGCTTTAATTTGTTCCATTGTAACATCATGGAAATAAGATTCACTGTCTTCAGTCTGCTCC
1 TTGTAACTTTAATCTATTCCACTACAACATCAGGGAAATAAGATTCACTATCTTCAGTCTGCTCC
* * ** * *
14008973 GCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTACTTTACTACAACTTCAGGAAGATAA
66 GCTGCAACTTCAAGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGAAAGATAA
14009038 GAT
131 GAT
14009041 CCGCCATCTT
Statistics
Matches: 232, Mismatches: 42, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
142 1 0.00
143 178 0.77
144 53 0.23
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (143 bp):
TTGTAACTTTAATCTATTCCACTACAACATCAGGGAAATAAGATTCACTATCTTCAGTCTGCTCC
GCTGCAACTTCAAGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGAAAGATAA
GATTAGCCAAAAT
Found at i:14016097 original size:16 final size:17
Alignment explanation
Indices: 14016076--14016109 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
14016066 GTAATGTGAT
*
14016076 TCTGTCAGGT-GCCATA
1 TCTGTCACGTGGCCATA
14016092 TCTGTCACGTGGCCATA
1 TCTGTCACGTGGCCATA
14016109 T
1 T
14016110 TATTTCATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.18, C:0.26, G:0.24, T:0.32
Consensus pattern (17 bp):
TCTGTCACGTGGCCATA
Found at i:14020752 original size:3 final size:3
Alignment explanation
Indices: 14020744--14020930 Score: 134
Period size: 3 Copynumber: 62.0 Consensus size: 3
14020734 TAAAATAGTT
* * * * *
14020744 TAA TAA TAA TAA CAA TGA TAA TAA TAT TAA -CA TAA -AA TAAA GAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA
* *
14020788 TAA TAA TAA TACA TTAA TAA TAA TAA TAA TAG TAA -AGA CAA TAA TAA
1 TAA TAA TAA TA-A -TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
* * * *
14020835 TAA GAA TGA TAG TAA TAA TACA -AA TAA TAA TAA TAA TAA TAA TAG
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
14020880 TAA TAG TAA TAG TAA TAG TAA TAA TAA TAA -AA TTAA TTAA T-T TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA -TAA TAA TAA
14020925 TAA TAA
1 TAA TAA
14020931 AGTAGCCAAA
Statistics
Matches: 143, Mismatches: 29, Indels: 24
0.73 0.15 0.12
Matches are distributed among these distances:
2 8 0.06
3 121 0.85
4 12 0.08
5 2 0.01
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:14021600 original size:11 final size:12
Alignment explanation
Indices: 14021572--14021605 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
14021562 TTCGAACAAG
14021572 GAAAATAAAAGA
1 GAAAATAAAAGA
*
14021584 GAAAATAAAA-T
1 GAAAATAAAAGA
14021595 GAAAATAAAAG
1 GAAAATAAAAG
14021606 GACCTTGGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.12
Consensus pattern (12 bp):
GAAAATAAAAGA
Found at i:14023726 original size:100 final size:100
Alignment explanation
Indices: 14023553--14023754 Score: 368
Period size: 100 Copynumber: 2.0 Consensus size: 100
14023543 TTAGAAGAGT
14023553 TTTAACAATTTTTTTAGATTGTAGGAATCATCTTCAAACTTTTTCTTGCCAAGGTTTCTATCTTG
1 TTTAACAATTTTTTTAGATTGTAGGAATCATCTTCAAACTTTTTCTTGCCAAGGTTTCTATCTTG
* *
14023618 GAAGGGAAATTAGAGCCGCTTGAAGGGGTTGTGGA
66 AAAAGGAAATTAGAGCCGCTTGAAGGGGTTGTGGA
* *
14023653 TTTAACAATTTTTTTAGATTGTAGGGATCATCTTCAAACTTTTTCTTGCCAATGTTTCTATCTTG
1 TTTAACAATTTTTTTAGATTGTAGGAATCATCTTCAAACTTTTTCTTGCCAAGGTTTCTATCTTG
14023718 AAAAGGAAATTAGAGCCGCTTGAAGGGGTTGTGGA
66 AAAAGGAAATTAGAGCCGCTTGAAGGGGTTGTGGA
14023753 TT
1 TT
14023755 CTTCGTGTCT
Statistics
Matches: 98, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
100 98 1.00
ACGTcount: A:0.26, C:0.13, G:0.22, T:0.39
Consensus pattern (100 bp):
TTTAACAATTTTTTTAGATTGTAGGAATCATCTTCAAACTTTTTCTTGCCAAGGTTTCTATCTTG
AAAAGGAAATTAGAGCCGCTTGAAGGGGTTGTGGA
Found at i:14023866 original size:13 final size:13
Alignment explanation
Indices: 14023845--14023878 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
14023835 TATTTGATTT
14023845 ATTATTTTATTTTA
1 ATTA-TTTATTTTA
*
14023859 GTTATTTATTTTA
1 ATTATTTATTTTA
14023872 ATTATTT
1 ATTATTT
14023879 TATCTGACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 15 0.83
14 3 0.17
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (13 bp):
ATTATTTATTTTA
Found at i:14024083 original size:19 final size:19
Alignment explanation
Indices: 14024061--14024099 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
14024051 ACTTGAATCT
*
14024061 AAAAAAACCTAAACTTAAA
1 AAAAAAACCTAAACTCAAA
*
14024080 AAAAAAATCTAAACTCAAA
1 AAAAAAACCTAAACTCAAA
14024099 A
1 A
14024100 TAATCTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.69, C:0.15, G:0.00, T:0.15
Consensus pattern (19 bp):
AAAAAAACCTAAACTCAAA
Found at i:14030392 original size:46 final size:44
Alignment explanation
Indices: 14030323--14030419 Score: 124
Period size: 46 Copynumber: 2.2 Consensus size: 44
14030313 GGAGCTAAAA
* *
14030323 AAGAGAAACAAATCCGTAAAAACTAGCCTAAGGAAATGTTGCTGGCT
1 AAGA-AAACAAATCCCTAAAAACTAGCCTAA--AAATGTTGATGGCT
* *
14030370 AAGAAAACAAATCCCTAAAAACTAGCTTAAATATGTTGATGGCT
1 AAGAAAACAAATCCCTAAAAACTAGCCTAAAAATGTTGATGGCT
14030414 AA-AAAA
1 AAGAAAA
14030420 GGTAACTCTT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
43 4 0.09
44 14 0.30
46 24 0.52
47 4 0.09
ACGTcount: A:0.47, C:0.15, G:0.16, T:0.21
Consensus pattern (44 bp):
AAGAAAACAAATCCCTAAAAACTAGCCTAAAAATGTTGATGGCT
Found at i:14034174 original size:27 final size:27
Alignment explanation
Indices: 14034135--14034232 Score: 108
Period size: 27 Copynumber: 3.6 Consensus size: 27
14034125 GGAATCGTCT
*
14034135 TGGTGGCTATGCCACAAATATCTTATC
1 TGGTGGCTCTGCCACAAATATCTTATC
* *
14034162 TGGTGGCTCTGCCACATATAT-TTGTTC
1 TGGTGGCTCTGCCACAAATATCTT-ATC
* *
14034189 TGGTGGCTCTGCCACGATTATCTATATC
1 TGGTGGCTCTGCCACAAATATCT-TATC
* *
14034217 TGGTGACTCTGTCACA
1 TGGTGGCTCTGCCACA
14034233 TGATCTGTTC
Statistics
Matches: 58, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
26 2 0.03
27 39 0.67
28 16 0.28
29 1 0.02
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.36
Consensus pattern (27 bp):
TGGTGGCTCTGCCACAAATATCTTATC
Found at i:14034242 original size:54 final size:54
Alignment explanation
Indices: 14034135--14034245 Score: 143
Period size: 54 Copynumber: 2.1 Consensus size: 54
14034125 GGAATCGTCT
* * *
14034135 TGGTGGCTATGCCACAAATATCTTATCTGGTGGCTCTGCCACATATATTTGTTC
1 TGGTGGCTATGCCACAAATATCTTATCTGGTGACTCTGCCACATAGATCTGTTC
* * * *
14034189 TGGTGGCTCTGCCACGATTATCTATATCTGGTGACTCTGTCACAT-GATCTGTTC
1 TGGTGGCTATGCCACAAATATCT-TATCTGGTGACTCTGCCACATAGATCTGTTC
14034243 TGG
1 TGG
14034246 CAGCCATGCT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
54 30 0.61
55 19 0.39
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
TGGTGGCTATGCCACAAATATCTTATCTGGTGACTCTGCCACATAGATCTGTTC
Found at i:14037199 original size:21 final size:21
Alignment explanation
Indices: 14037174--14037219 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
14037164 GAAGCTTAGC
14037174 AAGTTCATTGGCTTTAAAAGT
1 AAGTTCATTGGCTTTAAAAGT
14037195 AAGTTCATTGGCTTTAAAAGT
1 AAGTTCATTGGCTTTAAAAGT
14037216 AAGT
1 AAGT
14037220 CTTGTCGAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.37
Consensus pattern (21 bp):
AAGTTCATTGGCTTTAAAAGT
Found at i:14044571 original size:23 final size:23
Alignment explanation
Indices: 14044545--14044592 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
14044535 TCAGATAAAT
*
14044545 AAAAAATACAAATATTAAATTAA
1 AAAAAATACAAATATCAAATTAA
** *
14044568 AAAATGTTCAAATATCAAATTAA
1 AAAAAATACAAATATCAAATTAA
14044591 AA
1 AA
14044593 TAACAAAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.65, C:0.06, G:0.02, T:0.27
Consensus pattern (23 bp):
AAAAAATACAAATATCAAATTAA
Found at i:14045497 original size:74 final size:75
Alignment explanation
Indices: 14045386--14045531 Score: 251
Period size: 74 Copynumber: 2.0 Consensus size: 75
14045376 TTAGTTGATT
* *
14045386 TTTTTTAATTTGTTACTAAGGTCTTTTTGACTCTTTAACCTCTATTAGTTTAAAATA-TTTTAAT
1 TTTTTTAATTTGTTACTAAGGCCTTTTTGACCCTTTAACCT-TATTAGTTTAAAATATTTTTAAT
14045450 TTACTTCCTGA
65 TTACTTCCTGA
14045461 TTTTTTAATTTGTTACTAA-GCCTTTTTGACCCTTTAACCTTATTAGTTTAAAATATTTTTAATT
1 TTTTTTAATTTGTTACTAAGGCCTTTTTGACCCTTTAACCTTATTAGTTTAAAATATTTTTAATT
14045525 TACTTCC
66 TACTTCC
14045532 AATAAAAGTG
Statistics
Matches: 68, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
73 15 0.22
74 34 0.50
75 19 0.28
ACGTcount: A:0.25, C:0.14, G:0.07, T:0.53
Consensus pattern (75 bp):
TTTTTTAATTTGTTACTAAGGCCTTTTTGACCCTTTAACCTTATTAGTTTAAAATATTTTTAATT
TACTTCCTGA
Found at i:14048034 original size:30 final size:30
Alignment explanation
Indices: 14048000--14048103 Score: 86
Period size: 30 Copynumber: 3.4 Consensus size: 30
14047990 TATCTATAAT
14048000 TAAATTTGAGGATCAAATTGATTGAATTTG
1 TAAATTTGAGGATCAAATTGATTGAATTTG
* * * * *
14048030 TAAATGTGAAGGGTTAAATTTATTGAATTATT
1 TAAATTTG-AGGATCAAATTGATTGAATT-TG
* *
14048062 TAGAA-TTG-GGATCAAATTGATAGAATATG
1 TA-AATTTGAGGATCAAATTGATTGAATTTG
*
14048091 TAAGTATTGAGGA
1 TAAAT-TTGAGGA
14048104 CTAAATCTAT
Statistics
Matches: 55, Mismatches: 13, Indels: 11
0.70 0.16 0.14
Matches are distributed among these distances:
28 1 0.02
29 3 0.05
30 24 0.44
31 20 0.36
32 5 0.09
33 2 0.04
ACGTcount: A:0.38, C:0.02, G:0.22, T:0.38
Consensus pattern (30 bp):
TAAATTTGAGGATCAAATTGATTGAATTTG
Found at i:14049614 original size:40 final size:40
Alignment explanation
Indices: 14049546--14049626 Score: 128
Period size: 40 Copynumber: 2.0 Consensus size: 40
14049536 TTGTACACCA
*
14049546 AATGGGAGATTTGCACGTATAGTCCTCCCTGTTTGCACATT
1 AATGGGAGATTTGCAC-TATAGTCCTCCCCGTTTGCACATT
14049587 AATGGGAGATTTCGCA-TATAGTCCTCCCCGTTTGCACATT
1 AATGGGAGATTT-GCACTATAGTCCTCCCCGTTTGCACATT
14049627 CTTTTTAATT
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
40 23 0.61
41 12 0.32
42 3 0.08
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.33
Consensus pattern (40 bp):
AATGGGAGATTTGCACTATAGTCCTCCCCGTTTGCACATT
Found at i:14053312 original size:9 final size:9
Alignment explanation
Indices: 14053291--14053331 Score: 52
Period size: 8 Copynumber: 4.8 Consensus size: 9
14053281 TTAATTTGTA
14053291 AAAAATAAC-
1 AAAAA-AACT
14053300 AAAAAAACT
1 AAAAAAACT
14053309 -AAAAAACT
1 AAAAAAACT
14053317 AAAAAAA-T
1 AAAAAAACT
14053325 AAAAAAA
1 AAAAAAA
14053332 AATTATATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
8 19 0.63
9 11 0.37
ACGTcount: A:0.83, C:0.07, G:0.00, T:0.10
Consensus pattern (9 bp):
AAAAAAACT
Found at i:14055131 original size:3 final size:3
Alignment explanation
Indices: 14055125--14055160 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
14055115 ACTATGAGGG
14055125 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
14055161 TGATGATGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:14056446 original size:16 final size:16
Alignment explanation
Indices: 14056420--14056473 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
14056410 TTTGGTTCAT
*
14056420 TGTAATGGAATAGAGC
1 TGTAATTGAATAGAGC
* * *
14056436 TATAATTGAATAGGGT
1 TGTAATTGAATAGAGC
*
14056452 TGTAATTAAATAGAGC
1 TGTAATTGAATAGAGC
14056468 TGTAAT
1 TGTAAT
14056474 CAGTAATTCA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.39, C:0.04, G:0.24, T:0.33
Consensus pattern (16 bp):
TGTAATTGAATAGAGC
Found at i:14057292 original size:16 final size:16
Alignment explanation
Indices: 14057267--14057301 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
14057257 TATTTCAATT
14057267 ATTTGATGAATAAATA
1 ATTTGATGAATAAATA
*
14057283 ATTTGGTGAATAAATA
1 ATTTGATGAATAAATA
14057299 ATT
1 ATT
14057302 ATTTCATCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.14, T:0.40
Consensus pattern (16 bp):
ATTTGATGAATAAATA
Found at i:14057938 original size:13 final size:13
Alignment explanation
Indices: 14057920--14057955 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
14057910 ATACTTAAGT
14057920 ATATAATATAATA
1 ATATAATATAATA
14057933 ATATAATATAATA
1 ATATAATATAATA
*
14057946 AAATAA-ATAA
1 ATATAATATAA
14057956 ACAAAGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 4 0.18
13 18 0.82
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
ATATAATATAATA
Found at i:14057997 original size:23 final size:22
Alignment explanation
Indices: 14057961--14058003 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
14057951 AATAAACAAA
14057961 GAAAAAGAACAAAGAAAGAAAC
1 GAAAAAGAACAAAGAAAGAAAC
*
14057983 GAAAAAGAGAGAAAGAAAGAA
1 GAAAAAGA-ACAAAGAAAGAA
14058004 GGAAAGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.72, C:0.05, G:0.23, T:0.00
Consensus pattern (22 bp):
GAAAAAGAACAAAGAAAGAAAC
Found at i:14058025 original size:5 final size:6
Alignment explanation
Indices: 14057958--14058026 Score: 59
Period size: 6 Copynumber: 10.5 Consensus size: 6
14057948 ATAAATAAAC
*
14057958 AAAGAA AAAGAA CAAAGAAA GAAACGAA AAAGAGA GAAAGAA AGAAG-G
1 AAAGAA AAAGAA -AAAG-AA -AAA-GAA AAAGA-A -AAAGAA A-AAGAA
14058006 AAAGAA AAAGAA AAAGAA AAA
1 AAAGAA AAAGAA AAAGAA AAA
14058027 TTAGGGTTTT
Statistics
Matches: 53, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
5 3 0.06
6 25 0.47
7 12 0.23
8 12 0.23
9 1 0.02
ACGTcount: A:0.75, C:0.03, G:0.22, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:14070607 original size:45 final size:45
Alignment explanation
Indices: 14070518--14070679 Score: 229
Period size: 45 Copynumber: 3.6 Consensus size: 45
14070508 CTGGTATTTC
* * * * *
14070518 GCCTACTAGGCTCGAA-GCCCGAATAGCATCT-ATCGGCATTATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGAATTATA
* * *
14070561 GCCTGCTAGGCTCAAAGGCCCGAGTGGTATTTCACCGGAATTATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGAATTATA
*
14070606 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGCATTATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGAATTATA
14070651 GCCTGCTAGGCTCAAAGGCCCGAATAGTA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTA
14070680 CTGTGCGATA
Statistics
Matches: 105, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
43 14 0.13
44 11 0.10
45 80 0.76
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.22
Consensus pattern (45 bp):
GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGAATTATA
Found at i:14078326 original size:45 final size:45
Alignment explanation
Indices: 14078228--14078402 Score: 266
Period size: 44 Copynumber: 4.0 Consensus size: 45
14078218 CCAAATTCAT
* *
14078228 TCACCGGCATT-TCGCCTGCTAGGCTCGAA-GCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* * * *
14078271 TCACCAGCATTATAGCCTGCTAGGCTCAAAGGCCCGAGTTGTATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
*
14078316 TCACCGGCATTATAGCCT-CTAGGCTTAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
14078360 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
14078403 CTATGCGATA
Statistics
Matches: 117, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
43 10 0.09
44 56 0.48
45 51 0.44
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:14078364 original size:89 final size:88
Alignment explanation
Indices: 14078227--14078396 Score: 279
Period size: 89 Copynumber: 1.9 Consensus size: 88
14078217 CCCAAATTCA
* *
14078227 TTCACCGGCATTTCGCCTGCTAGGCTCGAAGCCCGAATAGTATCTCACCAGCATTATAGCCTGCT
1 TTCACCGGCATTTAGCCTGCTAGGCTCAAAGCCCGAATAGTATCTCACCAGCATTATAGCCTGCT
14078292 AGGCTCAAAGGCCCGAGTTGTAT
66 AGGCTCAAAGGCCCGAGTTGTAT
* *
14078315 TTCACCGGCATTATAGCCT-CTAGGCTTAAAGGCCCGAATAGTATCTCACCGGCATTATAGCCTG
1 TTCACCGGCATT-TAGCCTGCTAGGCTCAAA-GCCCGAATAGTATCTCACCAGCATTATAGCCTG
14078379 CTAGGCTCAAAGGCCCGA
64 CTAGGCTCAAAGGCCCGA
14078397 ATAGTACTAT
Statistics
Matches: 76, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
88 21 0.28
89 55 0.72
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.24
Consensus pattern (88 bp):
TTCACCGGCATTTAGCCTGCTAGGCTCAAAGCCCGAATAGTATCTCACCAGCATTATAGCCTGCT
AGGCTCAAAGGCCCGAGTTGTAT
Found at i:14085798 original size:26 final size:26
Alignment explanation
Indices: 14085762--14085871 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
14085752 TGATACAAAT
14085762 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
*
14085788 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
14085814 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
14085840 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
14085866 TGATAA
1 TGATAA
14085872 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 78 0.98
27 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:14087259 original size:26 final size:26
Alignment explanation
Indices: 14087194--14087269 Score: 98
Period size: 26 Copynumber: 2.8 Consensus size: 26
14087184 AAAAGTAGCT
* * *
14087194 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTATTATACCCCTA-G-GTGCA
14087222 AAATTACTATTATACCCCTAGGTGCA
1 AAATTACTATTATACCCCTAGGTGCA
*
14087248 AAATTACCATTATACCCCTAGG
1 AAATTACTATTATACCCCTAGG
14087270 GTTAATTTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 24 0.55
27 1 0.02
28 19 0.43
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.30
Consensus pattern (26 bp):
AAATTACTATTATACCCCTAGGTGCA
Found at i:14087474 original size:27 final size:27
Alignment explanation
Indices: 14087372--14087479 Score: 121
Period size: 27 Copynumber: 4.0 Consensus size: 27
14087362 GAAGAAGCGT
* * *
14087372 TCTGGTGGCTATGCCGCAAATATCTG-A
1 TCTGGTGGCTCTGCCAC-ATTATCTGTA
*
14087399 TCTGGTGGCTCTGCCATATATATCTGT-
1 TCTGGTGGCTCTGCCACAT-TATCTGTA
14087426 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCAC-ATTATCTGTA
* *
14087454 TCTGGTGACTCTGTCACATTATCTGT
1 TCTGGTGGCTCTGCCACATTATCTGT
14087480 TCCGGCAGCC
Statistics
Matches: 70, Mismatches: 7, Indels: 8
0.82 0.08 0.09
Matches are distributed among these distances:
26 1 0.01
27 52 0.74
28 17 0.24
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACATTATCTGTA
Found at i:14087477 original size:54 final size:54
Alignment explanation
Indices: 14087370--14087481 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
14087360 TGGAAGAAGC
* * *
14087370 GTTCTGGTGGCTATGCCGCAAATATCTGATCTGGTGGCTCTGCCATATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * *
14087424 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
14087478 GTTC
1 GTTC
14087482 CGGCAGCCAT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 33 0.66
55 17 0.34
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:14087570 original size:19 final size:22
Alignment explanation
Indices: 14087546--14087585 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
14087536 CTCCCCACAC
14087546 GGTGTA-A-GGTTGG-TATGGG
1 GGTGTATACGGTTGGATATGGG
14087565 GGTGTATACGGTTGGATATGG
1 GGTGTATACGGTTGGATATGG
14087586 TTGGGTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.17, C:0.03, G:0.47, T:0.33
Consensus pattern (22 bp):
GGTGTATACGGTTGGATATGGG
Found at i:14089447 original size:21 final size:23
Alignment explanation
Indices: 14089407--14089448 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
14089397 TCGTTTGTGT
14089407 TAAACATTTAGAACAAATAAATA
1 TAAACATTTAGAACAAATAAATA
*
14089430 TAAAC-TTTA-AACACATAAA
1 TAAACATTTAGAACAAATAAA
14089449 GGTTTTCAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 4 0.22
23 5 0.28
ACGTcount: A:0.60, C:0.12, G:0.02, T:0.26
Consensus pattern (23 bp):
TAAACATTTAGAACAAATAAATA
Found at i:14094146 original size:18 final size:18
Alignment explanation
Indices: 14094123--14094174 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
14094113 TCCTAGACCA
14094123 TTTTTAAGGGTTTAGGGT
1 TTTTTAAGGGTTTAGGGT
* *
14094141 TTTTTAAGAGTTTAAGGT
1 TTTTTAAGGGTTTAGGGT
14094159 TTTTGT-AGGGTTTAGG
1 TTTT-TAAGGGTTTAGG
14094175 AATTTTGTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 28 0.97
19 1 0.03
ACGTcount: A:0.19, C:0.00, G:0.31, T:0.50
Consensus pattern (18 bp):
TTTTTAAGGGTTTAGGGT
Found at i:14094172 original size:26 final size:25
Alignment explanation
Indices: 14094143--14094197 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
14094133 TTTAGGGTTT
*
14094143 TTTAAGAGTTTAAGGTTTTTGTAGGG
1 TTTAAGAATTT-AGGTTTTTGTAGGG
* * *
14094169 TTTAGGAATTTTGTTTTTTGTAGGG
1 TTTAAGAATTTAGGTTTTTGTAGGG
14094194 TTTA
1 TTTA
14094198 GGTTTGGAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 16 0.64
26 9 0.36
ACGTcount: A:0.20, C:0.00, G:0.27, T:0.53
Consensus pattern (25 bp):
TTTAAGAATTTAGGTTTTTGTAGGG
Found at i:14102833 original size:21 final size:21
Alignment explanation
Indices: 14102807--14102859 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
14102797 AGTGGTGGCG
*
14102807 GTGAGATTAGTTACTGTAGCA
1 GTGAGATTAGATACTGTAGCA
*
14102828 GTGAGATTGGATACTGTAGCA
1 GTGAGATTAGATACTGTAGCA
14102849 GTGAGATTAGA
1 GTGAGATTAGA
14102860 AACAGCGGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.30, C:0.08, G:0.32, T:0.30
Consensus pattern (21 bp):
GTGAGATTAGATACTGTAGCA
Found at i:14102995 original size:19 final size:18
Alignment explanation
Indices: 14102971--14103017 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
14102961 AGAAGTTTTT
*
14102971 AAAATTATTTAATAATTA
1 AAAATTATTAAATAATTA
* *
14102989 CAAAATTAATAAATGATTA
1 -AAAATTATTAAATAATTA
14103008 AAAATTATTA
1 AAAATTATTA
14103018 CAATTATATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 9 0.38
19 15 0.62
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (18 bp):
AAAATTATTAAATAATTA
Found at i:14103318 original size:46 final size:46
Alignment explanation
Indices: 14103251--14103343 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
14103241 CAACTGTTGG
14103251 CTAGTAACTGAAATAGCCTATGGCCACCATGTAGAACGTGCAATGT
1 CTAGTAACTGAAATAGCCTATGGCCACCATGTAGAACGTGCAATGT
14103297 CTAGTAACTGAAATAGCCTATGGCCACCATGTAGAACGTGCAATGT
1 CTAGTAACTGAAATAGCCTATGGCCACCATGTAGAACGTGCAATGT
14103343 C
1 C
14103344 GAGCCTTGAG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.24
Consensus pattern (46 bp):
CTAGTAACTGAAATAGCCTATGGCCACCATGTAGAACGTGCAATGT
Found at i:14107041 original size:17 final size:19
Alignment explanation
Indices: 14107021--14107055 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
14107011 GATGAAGAAC
14107021 TGAAGAA-GAAA-AAGGAA
1 TGAAGAACGAAAGAAGGAA
14107038 TGAAGAACGAAAGAAGGA
1 TGAAGAACGAAAGAAGGA
14107056 GAAGGAGCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 4 0.25
19 5 0.31
ACGTcount: A:0.60, C:0.03, G:0.31, T:0.06
Consensus pattern (19 bp):
TGAAGAACGAAAGAAGGAA
Found at i:14108170 original size:22 final size:24
Alignment explanation
Indices: 14108114--14108170 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 24
14108104 ACCCAAATTC
* *
14108114 AGTTTAAGTATTTGAAAACATTTT
1 AGTTTAAATATTTGAAAACATTAT
14108138 AGTTTAAATATTTG-AAACA-TAT
1 AGTTTAAATATTTGAAAACATTAT
* *
14108160 ATTTTATATAT
1 AGTTTAAATAT
14108171 ATTAAAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 11 0.38
23 5 0.17
24 13 0.45
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (24 bp):
AGTTTAAATATTTGAAAACATTAT
Found at i:14110132 original size:66 final size:66
Alignment explanation
Indices: 14110026--14110156 Score: 253
Period size: 66 Copynumber: 2.0 Consensus size: 66
14110016 CAAAACTTAG
14110026 TAAGAATGGATGATAATACACTGAAGTTTGATAAGAAACAATGCTTTAATTATATATACCAGTTA
1 TAAGAATGGATGATAATACACTGAAGTTTGATAAGAAACAATGCTTTAATTATATATACCAGTTA
14110091 C
66 C
*
14110092 TAAGAATGGATGATAATACACTGAAGTTTGATAAGAAACAATGTTTTAATTATATATACCAGTTA
1 TAAGAATGGATGATAATACACTGAAGTTTGATAAGAAACAATGCTTTAATTATATATACCAGTTA
14110157 GGTTTCTTTT
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.43, C:0.09, G:0.15, T:0.33
Consensus pattern (66 bp):
TAAGAATGGATGATAATACACTGAAGTTTGATAAGAAACAATGCTTTAATTATATATACCAGTTA
C
Found at i:14113341 original size:25 final size:25
Alignment explanation
Indices: 14113278--14113342 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 25
14113268 CATGTATCAG
* *
14113278 GAAGCTCAAAAGAGCCAAATATAGG
1 GAAGCTCATAAGAGCCAAATATAGA
** * *
14113303 GAAGCTTGTGAGAGCCAAATATTGA
1 GAAGCTCATAAGAGCCAAATATAGA
*
14113328 GATGCTCATAAGAGC
1 GAAGCTCATAAGAGC
14113343 TAAAAAACAG
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.26, T:0.18
Consensus pattern (25 bp):
GAAGCTCATAAGAGCCAAATATAGA
Found at i:14116988 original size:20 final size:18
Alignment explanation
Indices: 14116957--14116993 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
14116947 TAATTAAAGT
14116957 TTAATTAAGTTAATTAGC
1 TTAATTAAGTTAATTAGC
14116975 TTAATTTAAGGTTAATTAG
1 TTAA-TTAA-GTTAATTAG
14116994 GTATAAGGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 4 0.24
20 9 0.53
ACGTcount: A:0.38, C:0.03, G:0.14, T:0.46
Consensus pattern (18 bp):
TTAATTAAGTTAATTAGC
Found at i:14117267 original size:19 final size:19
Alignment explanation
Indices: 14117239--14117277 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
14117229 TGATATATAG
*
14117239 ATACATATGTACT-AATAAT
1 ATACACATGTA-TAAATAAT
14117258 ATACACATGTATAAATAAT
1 ATACACATGTATAAATAAT
14117277 A
1 A
14117278 AATAAGTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 1 0.06
19 17 0.94
ACGTcount: A:0.51, C:0.10, G:0.05, T:0.33
Consensus pattern (19 bp):
ATACACATGTATAAATAAT
Done.