Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 43 of 163
Found at i:13932661 original size:28 final size:28
Alignment explanation
Indices: 13932630--13932695 Score: 132
Period size: 28 Copynumber: 2.4 Consensus size: 28
13932620 TTTTAATCTT
13932630 TTAGGGTTTAGTTCTTCTTCTCTATAGC
1 TTAGGGTTTAGTTCTTCTTCTCTATAGC
13932658 TTAGGGTTTAGTTCTTCTTCTCTATAGC
1 TTAGGGTTTAGTTCTTCTTCTCTATAGC
13932686 TTAGGGTTTA
1 TTAGGGTTTA
13932696 TTTCCATGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.15, C:0.15, G:0.20, T:0.50
Consensus pattern (28 bp):
TTAGGGTTTAGTTCTTCTTCTCTATAGC
Found at i:13934594 original size:18 final size:18
Alignment explanation
Indices: 13934562--13934607 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 18
13934552 AAATTATTTC
13934562 TAATAATTATTAATT-TTA
1 TAATAATT-TTAATTATTA
13934580 TAATAATTTTAAATTGATTA
1 TAATAATTTT-AATT-ATTA
13934600 -AATAATTT
1 TAATAATTT
13934608 ATTTAAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 2 0.08
18 12 0.48
19 8 0.32
20 3 0.12
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (18 bp):
TAATAATTTTAATTATTA
Found at i:13934634 original size:22 final size:22
Alignment explanation
Indices: 13934585--13934634 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
13934575 TTTTATAATA
13934585 ATTTTAAATTGATTAAATAATTT
1 ATTTTAAATTGATTAAAT-ATTT
*
13934608 A-TTTAAATTTGATTCAAT-TTT
1 ATTTTAAA-TTGATTAAATATTT
13934629 ATTTTA
1 ATTTTA
13934635 TTTTAAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
21 4 0.17
22 10 0.42
23 10 0.42
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (22 bp):
ATTTTAAATTGATTAAATATTT
Found at i:13935346 original size:6 final size:6
Alignment explanation
Indices: 13935335--13935366 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
13935325 TTTATAAGTT
13935335 ATATAA ATATAA ATATAA ATATAA ATATAA AT
1 ATATAA ATATAA ATATAA ATATAA ATATAA AT
13935367 TATTGTTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
ATATAA
Found at i:13942745 original size:518 final size:519
Alignment explanation
Indices: 13941758--13942794 Score: 2067
Period size: 518 Copynumber: 2.0 Consensus size: 519
13941748 ATAAAATTAA
13941758 TAAATTAACAAAAAAATCTAAAATTTTGAAAATTAAATTATTAAAATTTCTAAAATATTTAAAAT
1 TAAATTAACAAAAAAATCTAAAATTTTGAAAATTAAATTATTAAAATTTCTAAAATATTTAAAAT
13941823 AAAAATGAATAATACAAATGTCATAGTTTCAAAAAAAAAATGAATTCCTAATAATTCTTTAATTC
66 AAAAATGAATAATACAAATGTCATAGTTTCAAAAAAAAAATGAATTCCTAATAATTCTTTAATTC
13941888 TTGAGAACCTTTTAGAATTTTCCATAAGATTTTTTTTTGGGGAGTTTGTAAATTTTTATTATTTT
131 TTGAGAACCTTTTAGAATTTTCCATAAGATTTTTTTTTGGGGAGTTTGTAAATTTTTATTATTTT
13941953 GTAATGGATAATTATTTAGTATACATATGGTGGAAAATTTTAACTTTAAGGTTATGAGTTTACCA
196 GTAATGGATAATTATTTAGTATACATATGGTGGAAAATTTTAACTTTAAGGTTATGAGTTTACCA
13942018 TGTGCAAGTTGTATTTAAATAAATAAATAGAACATATGAAAAAATCTCAACTCGTTTGTAGAGTT
261 TGTGCAAGTTGTATTTAAATAAATAAATAGAACATATGAAAAAATCTCAACTCGTTTGTAGAGTT
13942083 AAAAATTTTCACTTCCAGTATAGTAAGTAGTTACCATTTTAAAATTCTTTTATAGCTTTTAATAA
326 AAAAATTTTCACTTCCAGTATAGTAAGTAGTTACCATTTTAAAATTCTTTTATAGCTTTTAATAA
13942148 TTTTTATTTTTATTTTAAATTTTAGGAATTTTTTATCCATAAATTTTAGGAATTTTTAAATGTTA
391 TTTTTATTTTTATTTTAAATTTTAGGAATTTTTTATCCATAAATTTTAGGAATTTTTAAATGTTA
13942213 TATATATAGAAATTCAACTAACTCGTTTGGTGACACAACAAAGAATTTAGATATCGAGAAATTC
456 TATATATAGAAATTCAACTAACTCGTTTGGTGACACAACAAAGAATTTAGATATCGAGAAATTC
13942277 TAAATTAAC-AAAAAATCTAAAATTTTGAAAATTAAATTATTAAAATTTCTAAAATATTTAAAAT
1 TAAATTAACAAAAAAATCTAAAATTTTGAAAATTAAATTATTAAAATTTCTAAAATATTTAAAAT
13942341 AAAAATGAATAATACAAATGTCATAGTTTCAAAAAAAAAATGAATTCCTAATAATTCTTTAATTC
66 AAAAATGAATAATACAAATGTCATAGTTTCAAAAAAAAAATGAATTCCTAATAATTCTTTAATTC
13942406 TTGAGAACCTTTTAGAATTTTCCATAAGATTTTTTTTTGGGGAGTTTGTAAATTTTTATTATTTT
131 TTGAGAACCTTTTAGAATTTTCCATAAGATTTTTTTTTGGGGAGTTTGTAAATTTTTATTATTTT
13942471 GTAATGGATAATTATTTAGTATACATATGGTGGAAAATTTTAACTTTAAGGTTATGAGTTTACCA
196 GTAATGGATAATTATTTAGTATACATATGGTGGAAAATTTTAACTTTAAGGTTATGAGTTTACCA
13942536 TGTGCAAGTTGTATTTAAATAAATAAATAGAACATATGAAAAAATCTCAACTCGTTTGTAGAGTT
261 TGTGCAAGTTGTATTTAAATAAATAAATAGAACATATGAAAAAATCTCAACTCGTTTGTAGAGTT
13942601 AAAAATTTTCACTTCCAGTATAGTAAGTAGTTACCATTTTAAAATTCTTTTATAGCTTTTAATAA
326 AAAAATTTTCACTTCCAGTATAGTAAGTAGTTACCATTTTAAAATTCTTTTATAGCTTTTAATAA
13942666 TTTTTATTTTTATTTTAAATTTTAGGAATTTTTTATCCATAAATTTTAGGAATTTTTAAATGTTA
391 TTTTTATTTTTATTTTAAATTTTAGGAATTTTTTATCCATAAATTTTAGGAATTTTTAAATGTTA
13942731 TATATATAGAAATTCAACTAACTCGTTTGGTGACACAACAAAGAATTTAGATATCGAGAAATTC
456 TATATATAGAAATTCAACTAACTCGTTTGGTGACACAACAAAGAATTTAGATATCGAGAAATTC
13942795 GATGGGATCA
Statistics
Matches: 518, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
518 509 0.98
519 9 0.02
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.41
Consensus pattern (519 bp):
TAAATTAACAAAAAAATCTAAAATTTTGAAAATTAAATTATTAAAATTTCTAAAATATTTAAAAT
AAAAATGAATAATACAAATGTCATAGTTTCAAAAAAAAAATGAATTCCTAATAATTCTTTAATTC
TTGAGAACCTTTTAGAATTTTCCATAAGATTTTTTTTTGGGGAGTTTGTAAATTTTTATTATTTT
GTAATGGATAATTATTTAGTATACATATGGTGGAAAATTTTAACTTTAAGGTTATGAGTTTACCA
TGTGCAAGTTGTATTTAAATAAATAAATAGAACATATGAAAAAATCTCAACTCGTTTGTAGAGTT
AAAAATTTTCACTTCCAGTATAGTAAGTAGTTACCATTTTAAAATTCTTTTATAGCTTTTAATAA
TTTTTATTTTTATTTTAAATTTTAGGAATTTTTTATCCATAAATTTTAGGAATTTTTAAATGTTA
TATATATAGAAATTCAACTAACTCGTTTGGTGACACAACAAAGAATTTAGATATCGAGAAATTC
Found at i:13946904 original size:126 final size:123
Alignment explanation
Indices: 13946682--13946934 Score: 375
Period size: 126 Copynumber: 2.0 Consensus size: 123
13946672 TTTTTTATTA
* *
13946682 TAGGCACTTAAAATAAAAAATTTGTAATTTAAGCACTAACGTTATATAGTTCGATAATTGTTGTC
1 TAGGCACCTAAAATAAAAAATTTGTAATTTAAGCACTAACGTTACATAGTTCGATAATTGTTGTC
*
13946747 ACTCTCGTTAAAATTACAAACAACAAGATAAAGTGACAGTTAAAAGAAT-TGATATAAT
66 ACTCTCGTTAAAATTACAAACAACAAGATAAAGTGACAGTTAAAAGAATCAG-TATAAT
* * *
13946805 TAGGCACCTAAAATAAAAAAAAGTTTGTAATTTAAGCACTCACGTTACATAGTTCGGTCATT-TT
1 TAGGCACCTAAAAT--AAAAAA-TTTGTAATTTAAGCACTAACGTTACATAGTTCGATAATTGTT
**
13946869 GGTCACTCTCGTTAAAATTACAAACAACAAGATAAAGTGGTAGTTAAAAGAATCAGTATAAT
63 -GTCACTCTCGTTAAAATTACAAACAACAAGATAAAGTGACAGTTAAAAGAATCAGTATAAT
13946931 TAGG
1 TAGG
13946935 GGTGAGCATT
Statistics
Matches: 117, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
123 13 0.11
125 8 0.07
126 95 0.81
127 1 0.01
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.30
Consensus pattern (123 bp):
TAGGCACCTAAAATAAAAAATTTGTAATTTAAGCACTAACGTTACATAGTTCGATAATTGTTGTC
ACTCTCGTTAAAATTACAAACAACAAGATAAAGTGACAGTTAAAAGAATCAGTATAAT
Found at i:13947234 original size:35 final size:35
Alignment explanation
Indices: 13947155--13947231 Score: 145
Period size: 35 Copynumber: 2.2 Consensus size: 35
13947145 AAAAAAAAAG
13947155 ATATTTTAGTATGATAAACTTAAATCATTAATTAA
1 ATATTTTAGTATGATAAACTTAAATCATTAATTAA
13947190 ATATTTTAGTATGATAAACTTAAATCATTAATTAA
1 ATATTTTAGTATGATAAACTTAAATCATTAATTAA
13947225 ATTATTT
1 A-TATTT
13947232 AGTTCCCAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
35 36 0.88
36 5 0.12
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.45
Consensus pattern (35 bp):
ATATTTTAGTATGATAAACTTAAATCATTAATTAA
Found at i:13947359 original size:19 final size:19
Alignment explanation
Indices: 13947293--13947436 Score: 76
Period size: 18 Copynumber: 6.8 Consensus size: 19
13947283 TTTTTTATAT
* *
13947293 TTTTTAAAAAAATTTATAA
1 TTTTTAAAAATATTTTTAA
*
13947312 TTTTTTTAAAAGATAAGTTTTAGAA
1 --TTTTTAAAA-AT-A-TTTT-TAA
13947337 TTTTTAAAAATATTTTTAA
1 TTTTTAAAAATATTTTTAA
*
13947356 -TTTTAAAAATTATTTTGATTTATT
1 TTTTTAAAAA-TA--TT--TTTA-A
* *
13947380 TTTTTAAAGATAAGTTTTAGAA
1 TTTTTAAAAAT-A-TTTT-TAA
13947402 TTTTTAAAAATATTTTTAA
1 TTTTTAAAAATATTTTTAA
13947421 -TTTTAAAAATTATTTT
1 TTTTTAAAAA-TATTTT
13947437 GATTTTTTTT
Statistics
Matches: 98, Mismatches: 11, Indels: 30
0.71 0.08 0.22
Matches are distributed among these distances:
18 18 0.18
19 12 0.12
20 8 0.08
21 13 0.13
22 15 0.15
23 15 0.15
24 6 0.06
25 11 0.11
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (19 bp):
TTTTTAAAAATATTTTTAA
Found at i:13947391 original size:65 final size:66
Alignment explanation
Indices: 13947311--13947446 Score: 258
Period size: 65 Copynumber: 2.1 Consensus size: 66
13947301 AAAATTTATA
13947311 ATTTTTTTAAAAGATAAGTTTTAGAATTTTTAAAAATATTTTTAATTTTAAAAATTATTTTGATT
1 ATTTTTTTAAAAGATAAGTTTTAGAATTTTTAAAAATATTTTTAATTTTAAAAATTATTTTGATT
13947376 T
66 T
13947377 ATTTTTTT-AAAGATAAGTTTTAGAATTTTTAAAAATATTTTTAATTTTAAAAATTATTTTGATT
1 ATTTTTTTAAAAGATAAGTTTTAGAATTTTTAAAAATATTTTTAATTTTAAAAATTATTTTGATT
13947441 T
66 T
13947442 -TTTTT
1 ATTTTT
13947447 GTATTTTTTG
Statistics
Matches: 70, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
64 5 0.07
65 57 0.81
66 8 0.11
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.57
Consensus pattern (66 bp):
ATTTTTTTAAAAGATAAGTTTTAGAATTTTTAAAAATATTTTTAATTTTAAAAATTATTTTGATT
T
Found at i:13947408 original size:22 final size:20
Alignment explanation
Indices: 13947380--13947443 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 20
13947370 TTGATTTATT
*
13947380 TTTTTAAAGATAAGTTTTAGAA
1 TTTTTAAAAATAA-TTTT-GAA
*
13947402 TTTTTAAAAAT-ATTTTTAA
1 TTTTTAAAAATAATTTTGAA
*
13947421 -TTTTAAAAATTATTTTG-A
1 TTTTTAAAAATAATTTTGAA
13947439 TTTTT
1 TTTTT
13947444 TTTGTATTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
18 11 0.30
19 11 0.30
20 4 0.11
21 1 0.03
22 10 0.27
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (20 bp):
TTTTTAAAAATAATTTTGAA
Found at i:13947845 original size:48 final size:45
Alignment explanation
Indices: 13947790--13947887 Score: 117
Period size: 48 Copynumber: 2.1 Consensus size: 45
13947780 TAATTCTAAA
* * * *
13947790 AAAATTAAAAA-ATATGTAAATACATAAATATTTTTAAAATATAATAAT
1 AAAATTAAAAATATAT-CAAACAAATAAATATTTTCAAAA-A-AAT-AT
13947838 AAAATTAAAAATATATCAAACAAATAAATATTTTCAAAAAAATAT
1 AAAATTAAAAATATATCAAACAAATAAATATTTTCAAAAAAATAT
13947883 AAAAT
1 AAAAT
13947888 AAATTTAAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
45 7 0.16
46 3 0.07
47 1 0.02
48 30 0.67
49 4 0.09
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.32
Consensus pattern (45 bp):
AAAATTAAAAATATATCAAACAAATAAATATTTTCAAAAAAATAT
Found at i:13957898 original size:18 final size:18
Alignment explanation
Indices: 13957864--13957899 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
13957854 ATTATTGCAT
13957864 TTATTATTATTACTTACC
1 TTATTATTATTACTTACC
*
13957882 TTATTATTATTATTTACC
1 TTATTATTATTACTTACC
13957900 CATTTATACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.28, C:0.14, G:0.00, T:0.58
Consensus pattern (18 bp):
TTATTATTATTACTTACC
Found at i:13957906 original size:21 final size:20
Alignment explanation
Indices: 13957849--13957906 Score: 61
Period size: 18 Copynumber: 3.0 Consensus size: 20
13957839 AGTTTTATTG
*
13957849 TTATTATTA-TT-GCATTTA
1 TTATTATTACTTACCATTTA
13957867 TTATTATTACTTACC--TTA
1 TTATTATTACTTACCATTTA
*
13957885 TTATTATTATTTACCCATTTA
1 TTATTATTACTTA-CCATTTA
13957906 T
1 T
13957907 ACCGTTTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
18 24 0.73
19 4 0.12
20 1 0.03
21 4 0.12
ACGTcount: A:0.28, C:0.12, G:0.02, T:0.59
Consensus pattern (20 bp):
TTATTATTACTTACCATTTA
Found at i:13958392 original size:20 final size:20
Alignment explanation
Indices: 13958360--13958397 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
13958350 TTTTCATTTA
13958360 CATTATCATAATTGTTATTC
1 CATTATCATAATTGTTATTC
*
13958380 CATTA-CATCAATTTTTAT
1 CATTATCAT-AATTGTTAT
13958398 CCAGATTCGT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.32, C:0.16, G:0.03, T:0.50
Consensus pattern (20 bp):
CATTATCATAATTGTTATTC
Found at i:13960007 original size:27 final size:27
Alignment explanation
Indices: 13959975--13960044 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 27
13959965 TTTTTATAAT
* *
13959975 TTTTAAAATTTTAAAATTT-GAAATTT
1 TTTTAAAATTTTAAAATTTAAAAATTA
* * *
13960001 TTATTAATATTTTGAATTTTAAAAATTA
1 TT-TTAAAATTTTAAAATTTAAAAATTA
*
13960029 TTTTAAATTTTTAAAA
1 TTTTAAAATTTTAAAA
13960045 ATTATTTTGA
Statistics
Matches: 33, Mismatches: 9, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
26 2 0.06
27 24 0.73
28 7 0.21
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (27 bp):
TTTTAAAATTTTAAAATTTAAAAATTA
Found at i:13960018 original size:19 final size:20
Alignment explanation
Indices: 13960008--13960059 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
13959998 TTTTTATTAA
13960008 TATTTTGAA-TTTTAAAAAT
1 TATTTTGAATTTTTAAAAAT
*
13960027 TATTTTAAATTTTTAAAAAT
1 TATTTTGAATTTTTAAAAAT
13960047 TATTTTG-ATTTTT
1 TATTTTGAATTTTT
13960060 TTTGTAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.60
Consensus pattern (20 bp):
TATTTTGAATTTTTAAAAAT
Found at i:13960042 original size:8 final size:8
Alignment explanation
Indices: 13959965--13960043 Score: 50
Period size: 8 Copynumber: 9.0 Consensus size: 8
13959955 TTTTATATAT
13959965 TTTTTATAA
1 TTTTTA-AA
13959974 TTTTTAAA
1 TTTTTAAA
*
13959982 ATTTTAAA
1 TTTTTAAA
* *
13959990 ATTTGAAA
1 TTTTTAAA
13959998 TTTTTATTAA
1 TTTTTA--AA
*
13960008 TATTTTGAA
1 T-TTTTAAA
*
13960017 TTTTAAAAA
1 TTTT-TAAA
13960026 TTATTTTAAA
1 -T-TTTTAAA
13960036 TTTTTAAA
1 TTTTTAAA
13960044 AATTATTTTG
Statistics
Matches: 56, Mismatches: 8, Indels: 13
0.73 0.10 0.17
Matches are distributed among these distances:
8 30 0.54
9 12 0.21
10 7 0.12
11 7 0.12
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (8 bp):
TTTTTAAA
Found at i:13960042 original size:20 final size:20
Alignment explanation
Indices: 13959990--13960052 Score: 76
Period size: 20 Copynumber: 3.2 Consensus size: 20
13959980 AAATTTTAAA
* **
13959990 ATTTGAAATTTTTATTAA-T
1 ATTTTAAATTTTTAAAAATT
*
13960009 ATTTTGAA-TTTTAAAAATT
1 ATTTTAAATTTTTAAAAATT
13960028 ATTTTAAATTTTTAAAAATT
1 ATTTTAAATTTTTAAAAATT
13960048 ATTTT
1 ATTTT
13960053 GATTTTTTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
18 7 0.19
19 14 0.38
20 16 0.43
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (20 bp):
ATTTTAAATTTTTAAAAATT
Found at i:13969716 original size:21 final size:21
Alignment explanation
Indices: 13969678--13969717 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
13969668 ATTTTAAAAT
**
13969678 ATTTTTAAAATACTTTTTTTA
1 ATTTTTAAAATAAATTTTTTA
13969699 ATTTTTAAAATAAATTTTT
1 ATTTTTAAAATAAATTTTT
13969718 GGTATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTTAAAATAAATTTTTTA
Found at i:13969724 original size:22 final size:21
Alignment explanation
Indices: 13969677--13969735 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
13969667 AATTTTAAAA
* *
13969677 TATTTTTAAAAT-ACTTTTTT
1 TATTTTTAAAATAAATTTTTG
13969697 TAATTTTTAAAATAAATTTTTGG
1 T-ATTTTTAAAATAAATTTTT-G
13969720 TATTTATTAAAA-AAAT
1 TATTT-TTAAAATAAAT
13969736 GGGCCGGGTC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 1 0.03
21 11 0.33
22 14 0.42
23 7 0.21
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (21 bp):
TATTTTTAAAATAAATTTTTG
Found at i:13970178 original size:24 final size:24
Alignment explanation
Indices: 13970146--13970198 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
13970136 TTTCGGGCTG
13970146 GGCCGGGGCTAGGCCTAGGACCCA
1 GGCCGGGGCTAGGCCTAGGACCCA
*
13970170 GGCCGGGGCTAGGCCTAGGACCCG
1 GGCCGGGGCTAGGCCTAGGACCCA
13970194 GGCCG
1 GGCCG
13970199 AAATTTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.13, C:0.34, G:0.45, T:0.08
Consensus pattern (24 bp):
GGCCGGGGCTAGGCCTAGGACCCA
Found at i:13981023 original size:75 final size:76
Alignment explanation
Indices: 13980924--13981075 Score: 297
Period size: 75 Copynumber: 2.0 Consensus size: 76
13980914 ATTTATGTAT
13980924 ATTATTGTATATTAAATCAAAACTTATATATAAATTTAAGATTTATATTATTATATATCCTTAAC
1 ATTATTGTATATTAAATCAAAACTTATATATAAATTTAAGATTTATATTATTATATATCCTTAAC
13980989 TTGTTCTTAAG
66 TTGTTCTTAAG
13981000 ATTATTGTATA-TAAATCAAAACTTATATATAAATTTAAGATTTATATTATTATATATCCTTAAC
1 ATTATTGTATATTAAATCAAAACTTATATATAAATTTAAGATTTATATTATTATATATCCTTAAC
13981064 TTGTTCTTAAG
66 TTGTTCTTAAG
13981075 A
1 A
13981076 CTGAATAAAT
Statistics
Matches: 76, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
75 65 0.86
76 11 0.14
ACGTcount: A:0.40, C:0.08, G:0.05, T:0.47
Consensus pattern (76 bp):
ATTATTGTATATTAAATCAAAACTTATATATAAATTTAAGATTTATATTATTATATATCCTTAAC
TTGTTCTTAAG
Found at i:13982331 original size:22 final size:21
Alignment explanation
Indices: 13982306--13982347 Score: 75
Period size: 22 Copynumber: 2.0 Consensus size: 21
13982296 GTTTCATTGT
13982306 TATTTTGTTGTTATATTATTAC
1 TATTTTGTTGTTAT-TTATTAC
13982328 TATTTTGTTGTTATTTATTA
1 TATTTTGTTGTTATTTATTA
13982348 GAATTTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.21, C:0.02, G:0.10, T:0.67
Consensus pattern (21 bp):
TATTTTGTTGTTATTTATTAC
Found at i:13982355 original size:22 final size:22
Alignment explanation
Indices: 13982307--13982354 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
13982297 TTTCATTGTT
*
13982307 ATTTTGTTGTTATATTATTACT
1 ATTTTGTTGTTATATTATTACA
*
13982329 ATTTTGTTGTTAT-TTATTAGA
1 ATTTTGTTGTTATATTATTACA
13982350 ATTTT
1 ATTTT
13982355 TTATAACTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 11 0.46
22 13 0.54
ACGTcount: A:0.23, C:0.02, G:0.10, T:0.65
Consensus pattern (22 bp):
ATTTTGTTGTTATATTATTACA
Found at i:13997940 original size:44 final size:43
Alignment explanation
Indices: 13997887--13998009 Score: 153
Period size: 44 Copynumber: 2.9 Consensus size: 43
13997877 TGTGTGTTAT
* *
13997887 CGTGTAAGACCACATCTGGGACGTTGGCATTGATTTGTGATTTA
1 CGTGTAAGACCACATCTGGGACGTTGGCATTGATATGT-AATTA
* *
13997931 CGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATGTAATTA
1 CGTGTAAGACCAC-ATCTGGGAC-GTTGGCATTGATATGTAATTA
*
13997974 CATGTAAGACCACATCTGGGACGTTGGCATTG-TATG
1 CGTGTAAGACCACATCTGGGACGTTGGCATTGATATG
13998010 AGCTTTCCGA
Statistics
Matches: 68, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
42 5 0.07
43 30 0.44
44 32 0.47
45 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (43 bp):
CGTGTAAGACCACATCTGGGACGTTGGCATTGATATGTAATTA
Found at i:14000878 original size:15 final size:15
Alignment explanation
Indices: 14000860--14000897 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
14000850 TCAGCCATGT
14000860 GTGACACACGGCCAG
1 GTGACACACGGCCAG
14000875 GTGACACACGGCCAG
1 GTGACACACGGCCAG
14000890 GTGACACA
1 GTGACACA
14000898 GCCGTGTATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.29, C:0.32, G:0.32, T:0.08
Consensus pattern (15 bp):
GTGACACACGGCCAG
Found at i:14003031 original size:13 final size:13
Alignment explanation
Indices: 14003007--14003038 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
14002997 GTCCAAATTG
14003007 AATAAA-AGACAA
1 AATAAAGAGACAA
14003019 AATAAAGAGACAA
1 AATAAAGAGACAA
14003032 AATAAAG
1 AATAAAG
14003039 TGAAAATAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.72, C:0.06, G:0.12, T:0.09
Consensus pattern (13 bp):
AATAAAGAGACAA
Found at i:14003764 original size:18 final size:17
Alignment explanation
Indices: 14003731--14003769 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
14003721 TTGTATAAAT
14003731 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
14003749 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
14003766 TGTG
1 TGTG
14003770 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:14004012 original size:23 final size:23
Alignment explanation
Indices: 14003981--14004562 Score: 1155
Period size: 23 Copynumber: 25.3 Consensus size: 23
14003971 AGTGTTATTG
14003981 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
14004004 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
14004027 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
14004050 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
14004073 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
14004096 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
14004119 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
14004142 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
14004165 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
14004188 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
14004211 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
14004234 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
14004257 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
14004280 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
14004303 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
14004326 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
14004349 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
14004372 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
14004395 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
14004418 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
14004441 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
14004464 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
14004487 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
14004510 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
14004533 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
14004556 ATCAGTG
1 ATCAGTG
14004563 NNNNNNNNNN
Statistics
Matches: 557, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 557 1.00
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.31
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:14012345 original size:16 final size:16
Alignment explanation
Indices: 14012324--14012359 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
14012314 GTCCTATCTA
14012324 TTTTAGCTCTAAC-TTC
1 TTTTAGCTC-AACTTTC
14012340 TTTTAGCTCAACTTTC
1 TTTTAGCTCAACTTTC
14012356 TTTT
1 TTTT
14012360 TAACTTCCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 3 0.16
16 16 0.84
ACGTcount: A:0.17, C:0.22, G:0.06, T:0.56
Consensus pattern (16 bp):
TTTTAGCTCAACTTTC
Found at i:14012533 original size:16 final size:17
Alignment explanation
Indices: 14012502--14012533 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
14012492 AATACATTAT
14012502 TAAAAATTTTATAAAAA
1 TAAAAATTTTATAAAAA
14012519 TAAAAATTTTA-AAAA
1 TAAAAATTTTATAAAA
14012534 TTATTACAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
TAAAAATTTTATAAAAA
Found at i:14012845 original size:2 final size:2
Alignment explanation
Indices: 14012838--14012863 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14012828 AGTAGGAGAG
14012838 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
14012864 ATAATAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14014517 original size:854 final size:857
Alignment explanation
Indices: 14012847--14014557 Score: 3401
Period size: 854 Copynumber: 2.0 Consensus size: 857
14012837 GTATATATAT
14012847 ATATATATATATATATAATAATAAATAATCTTAATCCCCAAAGTTCCAACATAATCCATATTGAA
1 ATATATATATATATATAATAATAAATAATCTTAATCCCCAAAGTTCCAACATAATCCATATTGAA
14012912 ACAGTTAATTGTCCGCAAAACCAAAAACCAGCGGTCAATGTAATCATTGTCTAGAGTTTATCATT
66 ACAGTTAATTGTCCGCAAAACCAAAAACCAGCGGTCAATGTAATCATTGTCTAGAGTTTATCATT
14012977 GGTCAAATGTAATAGGATAAAGTCTTATTATTATAGAAAATGAAATGCGAAAAAAGGCAGAAACC
131 GGTCAAATGTAATAGGATAAAGTCTTATTATTATAGAAAATGAAATGCGAAAAAAGGCAGAAACC
14013042 CTTGAGAGATGAGATGCCGGCCATGTTTGGGAGATGGGAAAGATGATGATGTTTCTTAAATGAAT
196 CTTGAGAGATGAGATGCCGGCCATGTTTGGGAGATGGGAAAGATGATGATGTTTCTTAAATGAAT
14013107 CAATGCAAATAAAAGCCTGTGAAAGGGTCACTGTCAAATAGTTGTGATGGTGGCAAATAAAGGAT
261 CAATGCAAATAAAAGCCTGTGAAAGGGTCACTGTCAAATAGTTGTGATGGTGGCAAATAAAGGAT
14013172 CTATCAATCCAATTCATTCATCTAAAATATCAAAGCAAAAGCTTTCCAGACAAAGACAATCCCTT
326 CTATCAATCCAATTCATTCATCTAAAATATCAAAGCAAAAGCTTTCCAGACAAAGACAATCCCTT
14013237 AAACCAATAGCCACTTGTTCTTAACATTCGAAATTTAGTACATAACTACAATTTATTACCAGTCC
391 AAACCAATAGCCACTTGTTCTTAACATTCGAAATTTAGTACATAACTACAATTTATTACCAGTCC
14013302 TGGTGAAGTGGGTGGTTACTGTTTTGAAAACCCATTTGGGTGGAATAGAAGAGAAAGAGGCCCAA
456 TGGTGAAGTGGGTGGTTACTGTTTTGAAAACCCATTTGGGTGGAATAGAAGAGAAAGAGGCCCAA
14013367 TTGGGAAAAGCTTTTAGATAGATTGAGAGAGAAAGGAAGGAGAAAGTAAAGAGATGATGGGTTAG
521 TTGGGAAAAGCTTTTAGATAGATTGAGAGAGAAAGGAAGGAGAAAGTAAAGAGATGATGGGTTAG
14013432 GGTGGGGATTTGAAGCTGTGGAAGGGGCCTTATGGTGGAGGGGTCCTTTGTGATAATGGAAACTG
586 GGTGGGGATTTGAAGCTGTGGAAGGGGCCTTATGGTGGAGGGGTCCTTTGTGATAATGGAAACTG
14013497 CAGGGCCGACAGTTTCAGGTTTCAAGGAACAGTGAGTACAGAAGCAATAACCAGTGTCCGCCATA
651 CAGGGCCGACAGTTTCAGGTTTCAAGGAACAGTGAGTACAGAAGCAATAACCAGTGTCCGCCATA
14013562 AAAGCTGCAATACGAAAACCTTCTGGATCCTCAAACCAATCATCTTCACCTTCATATTTCATTTC
716 AAAGCTGCAATACGAAAACCTTCTGGATCCTCAAACCAATCATCTTCACCTTCATATTTCATTTC
14013627 TAAATTCAACCAATTGAATCTCAACTACTTCAACAGCACCTACAAACATCCAAGCTTAACCCAAC
781 TAAATTCAACCAATTGAATCTCAACTACTTCAACAGCACCTACAAACATCCAAGCTTAACCCAAC
14013692 ATGCAAGAAGAA
846 ATGCAAGAAGAA
14013704 ATATATATAT-TA-ATAATAAT-AATAATCTTAATCCCCAAAGTTCCAACATAATCCATATTGAA
1 ATATATATATATATATAATAATAAATAATCTTAATCCCCAAAGTTCCAACATAATCCATATTGAA
14013766 ACAGTTAATTGTCCGCAAAACCAAAAACCAGCGGTCAATGTAATCATTGTCTAGAGTTTATCATT
66 ACAGTTAATTGTCCGCAAAACCAAAAACCAGCGGTCAATGTAATCATTGTCTAGAGTTTATCATT
14013831 GGTCAAATGTAATAGGATAAAGTCTTATTATTATAGAAAATGAAATGCGAAAAAAGGCAGAAACC
131 GGTCAAATGTAATAGGATAAAGTCTTATTATTATAGAAAATGAAATGCGAAAAAAGGCAGAAACC
14013896 CTTGAGAGATGAGATGCCGGCCATGTTTGGGAGATGGGAAAGATGATGATGTTTCTTAAATGAAT
196 CTTGAGAGATGAGATGCCGGCCATGTTTGGGAGATGGGAAAGATGATGATGTTTCTTAAATGAAT
14013961 CAATGCAAATAAAAGCCTGTGAAAGGGTCACTGTCAAATAGTTGTGATGGTGGCAAATAAAGGAT
261 CAATGCAAATAAAAGCCTGTGAAAGGGTCACTGTCAAATAGTTGTGATGGTGGCAAATAAAGGAT
14014026 CTATCAATCCAATTCATTCATCTAAAATATCAAAGCAAAAGCTTTCCAGACAAAGACAATCCCTT
326 CTATCAATCCAATTCATTCATCTAAAATATCAAAGCAAAAGCTTTCCAGACAAAGACAATCCCTT
14014091 AAACCAATAGCCACTTGTTCTTAACATTCGAAATTTAGTACATAACTACAATTTATTACCAGTCC
391 AAACCAATAGCCACTTGTTCTTAACATTCGAAATTTAGTACATAACTACAATTTATTACCAGTCC
14014156 TGGTGAAGTGGGTGGTTACTGTTTTGAAAACCCATTTGGGTGGAATAGAAGAGAAAGAGGCCCAA
456 TGGTGAAGTGGGTGGTTACTGTTTTGAAAACCCATTTGGGTGGAATAGAAGAGAAAGAGGCCCAA
14014221 TTGGGAAAAGCTTTTAGATAGATTGAGAGAGAAAGGAAGGAGAAAGTAAAGAGATGATGGGTTAG
521 TTGGGAAAAGCTTTTAGATAGATTGAGAGAGAAAGGAAGGAGAAAGTAAAGAGATGATGGGTTAG
14014286 GGTGGGGATTTGAAGCTGTGGAAGGGGCCTTATGGTGGAGGGGTCCTTTGTGATAATGGAAACTG
586 GGTGGGGATTTGAAGCTGTGGAAGGGGCCTTATGGTGGAGGGGTCCTTTGTGATAATGGAAACTG
14014351 CAGGGCCGACAGTTTCAGGTTTCAAGGAACAGTGAGTACAGAAGCAATAACCAGTGTCCGCCATA
651 CAGGGCCGACAGTTTCAGGTTTCAAGGAACAGTGAGTACAGAAGCAATAACCAGTGTCCGCCATA
14014416 AAAGCTGCAATACGAAAACCTTCTGGATCCTCAAACCAATCATCTTCACCTTCATATTTCATTTC
716 AAAGCTGCAATACGAAAACCTTCTGGATCCTCAAACCAATCATCTTCACCTTCATATTTCATTTC
14014481 TAAATTCAACCAATTGAATCTCAACTACTTCAACAGCACCTACAAACATCCAAGCTTAACCCAAC
781 TAAATTCAACCAATTGAATCTCAACTACTTCAACAGCACCTACAAACATCCAAGCTTAACCCAAC
14014546 ATGCAAGAAGAA
846 ATGCAAGAAGAA
14014558 TGGGAGAAAG
Statistics
Matches: 854, Mismatches: 0, Indels: 3
1.00 0.00 0.00
Matches are distributed among these distances:
854 834 0.98
855 8 0.01
856 2 0.00
857 10 0.01
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (857 bp):
ATATATATATATATATAATAATAAATAATCTTAATCCCCAAAGTTCCAACATAATCCATATTGAA
ACAGTTAATTGTCCGCAAAACCAAAAACCAGCGGTCAATGTAATCATTGTCTAGAGTTTATCATT
GGTCAAATGTAATAGGATAAAGTCTTATTATTATAGAAAATGAAATGCGAAAAAAGGCAGAAACC
CTTGAGAGATGAGATGCCGGCCATGTTTGGGAGATGGGAAAGATGATGATGTTTCTTAAATGAAT
CAATGCAAATAAAAGCCTGTGAAAGGGTCACTGTCAAATAGTTGTGATGGTGGCAAATAAAGGAT
CTATCAATCCAATTCATTCATCTAAAATATCAAAGCAAAAGCTTTCCAGACAAAGACAATCCCTT
AAACCAATAGCCACTTGTTCTTAACATTCGAAATTTAGTACATAACTACAATTTATTACCAGTCC
TGGTGAAGTGGGTGGTTACTGTTTTGAAAACCCATTTGGGTGGAATAGAAGAGAAAGAGGCCCAA
TTGGGAAAAGCTTTTAGATAGATTGAGAGAGAAAGGAAGGAGAAAGTAAAGAGATGATGGGTTAG
GGTGGGGATTTGAAGCTGTGGAAGGGGCCTTATGGTGGAGGGGTCCTTTGTGATAATGGAAACTG
CAGGGCCGACAGTTTCAGGTTTCAAGGAACAGTGAGTACAGAAGCAATAACCAGTGTCCGCCATA
AAAGCTGCAATACGAAAACCTTCTGGATCCTCAAACCAATCATCTTCACCTTCATATTTCATTTC
TAAATTCAACCAATTGAATCTCAACTACTTCAACAGCACCTACAAACATCCAAGCTTAACCCAAC
ATGCAAGAAGAA
Found at i:14022330 original size:10 final size:10
Alignment explanation
Indices: 14022317--14022373 Score: 53
Period size: 10 Copynumber: 5.7 Consensus size: 10
14022307 TTTTATAAAA
14022317 TTTTAAATTT
1 TTTTAAATTT
*
14022327 TTTTATATATT
1 TTTTAAAT-TT
*
14022338 TTTTAGATTT
1 TTTTAAATTT
*
14022348 TTTTAAA-AT
1 TTTTAAATTT
* *
14022357 TTATAATTTT
1 TTTTAAATTT
14022367 TTTTAAA
1 TTTTAAA
14022374 AATACAATTT
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
9 6 0.17
10 21 0.58
11 9 0.25
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (10 bp):
TTTTAAATTT
Found at i:14022332 original size:20 final size:20
Alignment explanation
Indices: 14022307--14022376 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
14022297 AAAATTATTA
14022307 TTTTATAAAATTTTAAATTT
1 TTTTATAAAATTTTAAATTT
** *
14022327 TTTTATATATTTTTTAGA-TT
1 TTTTATA-AAATTTTAAATTT
*
14022347 TTTT-TAAAATTTATAATTTT
1 TTTTATAAAATTT-TAAATTT
14022367 TTTTA-AAAAT
1 TTTTATAAAAT
14022377 ACAATTTTCA
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
18 4 0.10
19 4 0.10
20 24 0.62
21 7 0.18
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (20 bp):
TTTTATAAAATTTTAAATTT
Found at i:14022338 original size:19 final size:18
Alignment explanation
Indices: 14022307--14022374 Score: 64
Period size: 19 Copynumber: 3.6 Consensus size: 18
14022297 AAAATTATTA
*
14022307 TTTTATAAAATTTTAAAT
1 TTTTTTAAAATTTTAAAT
* *
14022325 TTTTTTATATATTTTTTAGAT
1 TTTTTTA-A-A-ATTTTAAAT
*
14022346 TTTTTTAAAATTTATAATT
1 TTTTTTAAAATTT-TAAAT
14022365 TTTTTTAAAA
1 TTTTTTAAAA
14022375 ATACAATTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
18 9 0.22
19 15 0.38
20 2 0.05
21 14 0.35
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.63
Consensus pattern (18 bp):
TTTTTTAAAATTTTAAAT
Found at i:14022382 original size:18 final size:19
Alignment explanation
Indices: 14022345--14022384 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
14022335 ATTTTTTAGA
* *
14022345 TTTTTTTAAAATTTATAAT
1 TTTTTTTAAAATATACAAT
14022364 TTTTTTTAAAA-ATACAAT
1 TTTTTTTAAAATATACAAT
14022382 TTT
1 TTT
14022385 CAAAAATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTTTTTAAAATATACAAT
Found at i:14024673 original size:7 final size:7
Alignment explanation
Indices: 14024661--14024691 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
14024651 TTAGCATGAA
14024661 AATCACC
1 AATCACC
14024668 AATCACC
1 AATCACC
*
14024675 AATTACC
1 AATCACC
14024682 AATCACC
1 AATCACC
14024689 AAT
1 AAT
14024692 AGCCATCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.45, C:0.35, G:0.00, T:0.19
Consensus pattern (7 bp):
AATCACC
Found at i:14034988 original size:13 final size:13
Alignment explanation
Indices: 14034972--14035022 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 13
14034962 TTTAAACCAA
*
14034972 ACTTTTCAAAAAC
1 ACTTTTCAAAAGC
14034985 ACTTCTT-AAAAGC
1 ACTT-TTCAAAAGC
* * *
14034998 AATTTTCCACAGC
1 ACTTTTCAAAAGC
14035011 ACTTTTCAAAAG
1 ACTTTTCAAAAG
14035023 TATTGCCAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
12 2 0.07
13 25 0.86
14 2 0.07
ACGTcount: A:0.39, C:0.24, G:0.06, T:0.31
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:14036690 original size:42 final size:41
Alignment explanation
Indices: 14036644--14036838 Score: 300
Period size: 42 Copynumber: 4.7 Consensus size: 41
14036634 TAGAGAAAAA
* * *
14036644 CGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTCCTTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTC-TAAG
* *
14036686 CGCCGCTAAAGAACATGGTCTTTAGCGGTGTTTTTTTATAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCG-TTTTTTCTAAG
*
14036728 CGCCTCTAAAGAACATGGTCTTTAGCGGCGTTTTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTCTAAG
*
14036769 AGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTCTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTT-TTTCTAAG
14036811 CGCCGCTAAAGAACATGGTCTTTAGCGG
1 CGCCGCTAAAGAACATGGTCTTTAGCGG
14036839 NNNNNNNNNN
Statistics
Matches: 140, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
41 41 0.29
42 94 0.67
43 5 0.04
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.32
Consensus pattern (41 bp):
CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTCTAAG
Found at i:14036794 original size:83 final size:84
Alignment explanation
Indices: 14036644--14036838 Score: 311
Period size: 83 Copynumber: 2.3 Consensus size: 84
14036634 TAGAGAAAAA
* * *
14036644 CGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTCCTTAAGCGCCGCTAAAGAACATGGTCTTT
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTCCTTAAGAGCCGCTAAAGAACATGGTCTTT
* *
14036709 AGCGGTGTTTTTTTATAAG
66 AGCGGCGTTTCTTTATAAG
* *
14036728 CGCCTCTAAAGAACATGGTCTTTAGCGGCGTTTTTTC-TAAGAGCCGCTAAAGAACATGGTCTTT
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTCCTTAAGAGCCGCTAAAGAACATGGTCTTT
*
14036792 AGCGGCGTTTCTTTCTAAG
66 AGCGGCGTTTCTTTATAAG
14036811 CGCCGCTAAAGAACATGGTCTTTAGCGG
1 CGCCGCTAAAGAACATGGTCTTTAGCGG
14036839 NNNNNNNNNN
Statistics
Matches: 102, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
83 69 0.68
84 33 0.32
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.32
Consensus pattern (84 bp):
CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTCCTTAAGAGCCGCTAAAGAACATGGTCTTT
AGCGGCGTTTCTTTATAAG
Found at i:14058948 original size:9 final size:9
Alignment explanation
Indices: 14058934--14059281 Score: 142
Period size: 9 Copynumber: 38.7 Consensus size: 9
14058924 NNNNNNNNNN
14058934 TAAGTTATG
1 TAAGTTATG
*
14058943 TAAGTTGTG
1 TAAGTTATG
*
14058952 TAAGTTGTG
1 TAAGTTATG
14058961 T-A-TTATG
1 TAAGTTATG
14058968 TAAGTTATG
1 TAAGTTATG
*
14058977 TAAG-TCTG
1 TAAGTTATG
*
14058985 ACAAGTTATG
1 -TAAGTTATG
*
14058995 TTTAG-TAT-
1 -TAAGTTATG
14059003 TAA-TTAAT-
1 TAAGTT-ATG
14059011 TAAGTTATG
1 TAAGTTATG
*
14059020 TAAGTTGTG
1 TAAGTTATG
*
14059029 TAAGTTGTG
1 TAAGTTATG
14059038 T-A-TTATG
1 TAAGTTATG
14059045 TAAGTTATG
1 TAAGTTATG
*
14059054 TAAG-TCTG
1 TAAGTTATG
*
14059062 ACAAGTTATG
1 -TAAGTTATG
*
14059072 TTTAGTATTAAT-
1 -TAAG--TT-ATG
14059084 TAAGTTATG
1 TAAGTTATG
14059093 TAAGTTATG
1 TAAGTTATG
*
14059102 TATAATATTAATG
1 --TAA-GTT-ATG
14059115 TAAGTTATG
1 TAAGTTATG
14059124 T-A-TTATG
1 TAAGTTATG
*
14059131 TAAGTTATT
1 TAAGTTATG
*
14059140 TTAGTTATG
1 TAAGTTATG
*
14059149 TAAGTTGTG
1 TAAGTTATG
14059158 T-A-TTATG
1 TAAGTTATG
*
14059165 TGAGTTATG
1 TAAGTTATG
* * *
14059174 CAATTTACG
1 TAAGTTATG
* * *
14059183 TAGGCTATA
1 TAAGTTATG
14059192 T-AG-TATG
1 TAAGTTATG
*
14059199 TACGTTAT-
1 TAAGTTATG
*
14059207 TATGTTATTATG
1 TAAG---TTATG
14059219 TAAGTTATG
1 TAAGTTATG
* *
14059228 CAAGTTGTTATA
1 TAA---GTTATG
*
14059240 TAAGTTCTATA
1 TAAG-T-TATG
14059251 TAAGTTATG
1 TAAGTTATG
14059260 TAAGTTATG
1 TAAGTTATG
14059269 T-A-TTATG
1 TAAGTTATG
14059276 TAAGTT
1 TAAGTT
14059282 TATATATAAG
Statistics
Matches: 257, Mismatches: 45, Indels: 74
0.68 0.12 0.20
Matches are distributed among these distances:
7 34 0.13
8 30 0.12
9 139 0.54
10 14 0.05
11 21 0.08
12 14 0.05
13 5 0.02
ACGTcount: A:0.31, C:0.03, G:0.20, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:14058977 original size:34 final size:34
Alignment explanation
Indices: 14058934--14059058 Score: 126
Period size: 34 Copynumber: 3.4 Consensus size: 34
14058924 NNNNNNNNNN
14058934 TAAGTTATGTAAGTTGTGTAAGTTGTGTATTATG
1 TAAGTTATGTAAGTTGTGTAAGTTGTGTATTATG
** *
14058968 TAAGTTATGTAAGTCTG-ACAAGTTATGTTTAGTATTAATTAAT
1 TAAGTTATGTAAGT-TGTGTAAG-T-TG--T-GTATT-A-T--G
14059011 TAAGTTATGTAAGTTGTGTAAGTTGTGTATTATG
1 TAAGTTATGTAAGTTGTGTAAGTTGTGTATTATG
14059045 TAAGTTATGTAAGT
1 TAAGTTATGTAAGT
14059059 CTGACAAGTT
Statistics
Matches: 74, Mismatches: 6, Indels: 22
0.73 0.06 0.22
Matches are distributed among these distances:
34 31 0.42
35 3 0.04
36 3 0.04
37 1 0.01
38 6 0.08
39 6 0.08
40 1 0.01
41 3 0.04
42 3 0.04
43 17 0.23
ACGTcount: A:0.30, C:0.02, G:0.22, T:0.46
Consensus pattern (34 bp):
TAAGTTATGTAAGTTGTGTAAGTTGTGTATTATG
Found at i:14059061 original size:77 final size:77
Alignment explanation
Indices: 14058934--14059086 Score: 306
Period size: 77 Copynumber: 2.0 Consensus size: 77
14058924 NNNNNNNNNN
14058934 TAAGTTATGTAAGTTGTGTAAGTTGTGTATTATGTAAGTTATGTAAGTCTGACAAGTTATGTTTA
1 TAAGTTATGTAAGTTGTGTAAGTTGTGTATTATGTAAGTTATGTAAGTCTGACAAGTTATGTTTA
14058999 GTATTAATTAAT
66 GTATTAATTAAT
14059011 TAAGTTATGTAAGTTGTGTAAGTTGTGTATTATGTAAGTTATGTAAGTCTGACAAGTTATGTTTA
1 TAAGTTATGTAAGTTGTGTAAGTTGTGTATTATGTAAGTTATGTAAGTCTGACAAGTTATGTTTA
14059076 GTATTAATTAA
66 GTATTAATTAA
14059087 GTTATGTAAG
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 76 1.00
ACGTcount: A:0.31, C:0.03, G:0.21, T:0.45
Consensus pattern (77 bp):
TAAGTTATGTAAGTTGTGTAAGTTGTGTATTATGTAAGTTATGTAAGTCTGACAAGTTATGTTTA
GTATTAATTAAT
Found at i:14059098 original size:30 final size:31
Alignment explanation
Indices: 14059064--14059132 Score: 99
Period size: 30 Copynumber: 2.3 Consensus size: 31
14059054 TAAGTCTGAC
* *
14059064 AAGTTATGTTTAGTATTAAT-TAAGTTATGT
1 AAGTTATGTATAATATTAATGTAAGTTATGT
14059094 AAGTTATGTATAATATTAATGTAAGTTATGT
1 AAGTTATGTATAATATTAATGTAAGTTATGT
14059125 -A-TTATGTA
1 AAGTTATGTA
14059133 AGTTATTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
29 7 0.19
30 19 0.53
31 10 0.28
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (31 bp):
AAGTTATGTATAATATTAATGTAAGTTATGT
Found at i:14059130 original size:77 final size:75
Alignment explanation
Indices: 14058934--14059135 Score: 250
Period size: 77 Copynumber: 2.6 Consensus size: 75
14058924 NNNNNNNNNN
* * *
14058934 TAAGTTATGTAAGTTGTGTAAGTTGTGTATTATGTAAGTTATGTAAGTCTGACAAGTTATGTTTA
1 TAAGTTATGTAAGTTGTATAAATTATGTATTATGTAAGTTATGTAAGTCTGACAAGTTATGTTTA
14058999 GTATTAATTAAT
66 G--TTAATTAAT
* * *
14059011 TAAGTTATGTAAGTTGTGTAAGTTGTGTATTATGTAAGTTATGTAAGTCTGACAAGTTATGTTTA
1 TAAGTTATGTAAGTTGTATAAATTATGTATTATGTAAGTTATGTAAGTCTGACAAGTTATGTTTA
14059076 G-T-ATTAAT
66 GTTAATTAAT
14059084 TAAGTTATGTAAGTTATGTATAATATTAATGTAAGTTATGT-A-TTATGTAAGT
1 TAAGTTATGTAAG-T-TGTATAA-ATT-ATGT-A-TTATGTAAGTTATGTAAGT
14059136 TATTTTAGTT
Statistics
Matches: 116, Mismatches: 3, Indels: 12
0.89 0.02 0.09
Matches are distributed among these distances:
73 19 0.16
74 2 0.02
75 6 0.05
76 2 0.02
77 79 0.68
78 2 0.02
79 6 0.05
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.46
Consensus pattern (75 bp):
TAAGTTATGTAAGTTGTATAAATTATGTATTATGTAAGTTATGTAAGTCTGACAAGTTATGTTTA
GTTAATTAAT
Found at i:14059149 original size:18 final size:16
Alignment explanation
Indices: 14058934--14059173 Score: 92
Period size: 16 Copynumber: 14.6 Consensus size: 16
14058924 NNNNNNNNNN
*
14058934 TAAGTTATGTAAGTTGTG
1 TAAGTTATGT-A-TTATG
*
14058952 TAAGTTGTGTATTATG
1 TAAGTTATGTATTATG
* *
14058968 TAAGTTATGTAAGTCTG
1 TAAGTTATGT-ATTATG
*
14058985 ACAAGTTATGT-TTA-G
1 -TAAGTTATGTATTATG
14059000 T-A-TTA---ATTAAT-
1 TAAGTTATGTATT-ATG
*
14059011 TAAGTTATGTAAGTTGTG
1 TAAGTTATGT-A-TTATG
*
14059029 TAAGTTGTGTATTATG
1 TAAGTTATGTATTATG
* *
14059045 TAAGTTATGTAAGTCTG
1 TAAGTTATGT-ATTATG
*
14059062 ACAAGTTATGT-TTA-G
1 -TAAGTTATGTATTATG
14059077 T-A-TTAAT-TAAGTTATG
1 TAAGTT-ATGT-A-TTATG
14059093 TAAGTTATGTATAATATTAATG
1 TAAGTTATG-----TATT-ATG
14059115 TAAGTTATGTATTATG
1 TAAGTTATGTATTATG
*
14059131 TAAGTTATTTTAGTTATG
1 TAAGTTA-TGTA-TTATG
*
14059149 TAAGTTGTGTATTATG
1 TAAGTTATGTATTATG
*
14059165 TGAGTTATG
1 TAAGTTATG
14059174 CAATTTACGT
Statistics
Matches: 167, Mismatches: 24, Indels: 64
0.65 0.09 0.25
Matches are distributed among these distances:
10 2 0.01
11 2 0.01
12 7 0.04
13 7 0.04
15 5 0.03
16 52 0.31
17 25 0.15
18 51 0.31
21 2 0.01
22 13 0.08
23 1 0.01
ACGTcount: A:0.31, C:0.02, G:0.21, T:0.47
Consensus pattern (16 bp):
TAAGTTATGTATTATG
Found at i:14060082 original size:13 final size:13
Alignment explanation
Indices: 14060064--14060122 Score: 73
Period size: 13 Copynumber: 4.5 Consensus size: 13
14060054 CAAATTTTAG
*
14060064 TAAGTAATGTATT
1 TAAGTAATATATT
*
14060077 TAAGTAATTTATT
1 TAAGTAATATATT
*
14060090 TAAGTAACATATT
1 TAAGTAATATATT
*
14060103 CAAGTAATATATT
1 TAAGTAATATATT
*
14060116 AAAGTAA
1 TAAGTAA
14060123 ATTTTAGTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 40 1.00
ACGTcount: A:0.46, C:0.03, G:0.10, T:0.41
Consensus pattern (13 bp):
TAAGTAATATATT
Found at i:14060193 original size:13 final size:13
Alignment explanation
Indices: 14060169--14060205 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
14060159 GTCATGTAAA
14060169 ATATACTTAAAAAT
1 ATATA-TTAAAAAT
14060183 ATATATTAAAAAT
1 ATATATTAAAAAT
*
14060196 ATATGTTAAA
1 ATATATTAAA
14060206 GAAAAAGAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 17 0.77
14 5 0.23
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (13 bp):
ATATATTAAAAAT
Found at i:14061522 original size:73 final size:73
Alignment explanation
Indices: 14061435--14061701 Score: 534
Period size: 73 Copynumber: 3.7 Consensus size: 73
14061425 AACTCGTAAT
14061435 AAAAAACGGCACCGTCTTTGTTACACTTAAAGGAAATTTGCGGCGTTTTTTAAATGCGCCACTAA
1 AAAAAACGGCACCGTCTTTGTTACACTTAAAGGAAATTTGCGGCGTTTTTTAAATGCGCCACTAA
14061500 AAGAAAAC
66 AAGAAAAC
14061508 AAAAAACGGCACCGTCTTTGTTACACTTAAAGGAAATTTGCGGCGTTTTTTAAATGCGCCACTAA
1 AAAAAACGGCACCGTCTTTGTTACACTTAAAGGAAATTTGCGGCGTTTTTTAAATGCGCCACTAA
14061573 AAGAAAAC
66 AAGAAAAC
14061581 AAAAAACGGCACCGTCTTTGTTACACTTAAAGGAAATTTGCGGCGTTTTTTAAATGCGCCACTAA
1 AAAAAACGGCACCGTCTTTGTTACACTTAAAGGAAATTTGCGGCGTTTTTTAAATGCGCCACTAA
14061646 AAGAAAAC
66 AAGAAAAC
14061654 AAAAAACGGCACCGTCTTTGTTACACTTAAAGGAAATTTGCGGCGTTT
1 AAAAAACGGCACCGTCTTTGTTACACTTAAAGGAAATTTGCGGCGTTT
14061702 CTTCATAAAA
Statistics
Matches: 194, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 194 1.00
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (73 bp):
AAAAAACGGCACCGTCTTTGTTACACTTAAAGGAAATTTGCGGCGTTTTTTAAATGCGCCACTAA
AAGAAAAC
Found at i:14062564 original size:14 final size:14
Alignment explanation
Indices: 14062540--14062604 Score: 60
Period size: 14 Copynumber: 4.6 Consensus size: 14
14062530 AAAGCGGCCT
*
14062540 AAACCCCAAACACC
1 AAACCCTAAACACC
* *
14062554 AAACCTTAAACCCC
1 AAACCCTAAACACC
*
14062568 AAACTCCT-AACCCC
1 AAAC-CCTAAACACC
14062582 TAAACCCTAAACACC
1 -AAACCCTAAACACC
*
14062597 AAAACCTA
1 AAACCCTA
14062605 CATCATAAAC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
14 31 0.74
15 11 0.26
ACGTcount: A:0.46, C:0.43, G:0.00, T:0.11
Consensus pattern (14 bp):
AAACCCTAAACACC
Found at i:14062565 original size:21 final size:21
Alignment explanation
Indices: 14062537--14062604 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
14062527 ACTAAAGCGG
14062537 CCTAAACCCCAAACACCAAAC
1 CCTAAACCCCAAACACCAAAC
* * *
14062558 CTTAAACCCCAAACTCCTAACC
1 CCTAAACCCCAAACACC-AAAC
* *
14062580 CCTAAACCCTAAACACCAAAA
1 CCTAAACCCCAAACACCAAAC
14062601 CCTA
1 CCTA
14062605 CATCATAAAC
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
21 21 0.55
22 17 0.45
ACGTcount: A:0.44, C:0.44, G:0.00, T:0.12
Consensus pattern (21 bp):
CCTAAACCCCAAACACCAAAC
Found at i:14063316 original size:188 final size:190
Alignment explanation
Indices: 14062955--14063323 Score: 514
Period size: 189 Copynumber: 2.0 Consensus size: 190
14062945 GGTTTCCTCT
* * *
14062955 AAGCGCCACTAATTTTAGTATAAATCAAGACCAAAACGCTGCGTTTTGTTTAAGGTATTTTGCGG
1 AAGCGCCACTAATTTTAGCATAAATCAAGACCAAAACGCTGCGTTTTGGTTAAGATATTTTGCGG
* * * *
14063020 CGATAGCCACAAATCGCCGCTAATACTATGCTTTAGCGGCGTTTCATCGTAAGCGCCACTAAATC
66 CGATAGCCACAAAGCACCGCTAATACTATGCTTTAACGGCGTTTCACCGTAAGCGCCACTAAATC
*
14063085 AAGTATACATCAAGACCAAAACGTTGCGTTTTCGTTCAGATATTTTGCGGCGCTTACAAA
131 AAGTATACATCAAGACCAAAACGTTGCGTTTTCGTTAAGATATTTTGCGGCGCTTACAAA
** *
14063145 AAGCGCCACTAATTCTTA-CATACCTCAAGACC-AAACTCTGCGTTTTGGTTAAGATATTTTGCG
1 AAGCGCCACTAATT-TTAGCATAAATCAAGACCAAAACGCTGCGTTTTGGTTAAGATATTTTGCG
* *** *
14063208 GCGCT-TTTAGCAAAGCACCGCTAATACTATGCTTTAACGGCGTTTC-CCGTAAGCGCCACTAAT
65 GCGATAGCCA-CAAAGCACCGCTAATACTATGCTTTAACGGCGTTTCACCGTAAGCGCCACTAAA
* *
14063271 TCTAGTATACATCAAGACCAAAAC-TATGCGTTTTGGTTAAGATATTTTGCGGC
129 TCAAGTATACATCAAGACCAAAACGT-TGCGTTTTCGTTAAGATATTTTGCGGC
14063324 ACTTCTCACA
Statistics
Matches: 158, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
187 1 0.01
188 64 0.41
189 65 0.41
190 25 0.16
191 3 0.02
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (190 bp):
AAGCGCCACTAATTTTAGCATAAATCAAGACCAAAACGCTGCGTTTTGGTTAAGATATTTTGCGG
CGATAGCCACAAAGCACCGCTAATACTATGCTTTAACGGCGTTTCACCGTAAGCGCCACTAAATC
AAGTATACATCAAGACCAAAACGTTGCGTTTTCGTTAAGATATTTTGCGGCGCTTACAAA
Found at i:14063336 original size:114 final size:112
Alignment explanation
Indices: 14063145--14063656 Score: 614
Period size: 114 Copynumber: 4.5 Consensus size: 112
14063135 CGCTTACAAA
* *
14063145 AAGCGCCACTAATTCTTACATACCTCAAGACC-AAACTCTGCGTTTTGGTTAAGATATTTTGCGG
1 AAGCGCCACTAATTC-TATATACATCAAGACCAAAACTCTGCGTTTTGGTTAAGATATTTTGCGG
** * * *
14063209 CGCTTTTAGCAAAGCACCGCTAATACTATGCTTTAACGGCGTTTCCCGT
65 CGCTTCCA-CAAAGCGCCGCTAATACTATACTTTAGCGGCGTTTCCCGT
*
14063258 AAGCGCCACTAATTCTAGTATACATCAAGACCAAAACTATGCGTTTTGGTTAAGATATTTTGCGG
1 AAGCGCCACTAATTCTA-TATACATCAAGACCAAAACTCTGCGTTTTGGTTAAGATATTTTGCGG
* * * * *
14063323 CACTTCTCACAAAGCGCCGCTATTACCATTCTTTCGCGGCGGTTTCCCGT
65 CGCTTC-CACAAAGCGCCGCTAATACTATACTTTAGCGGC-GTTTCCCGT
* *
14063373 AAGCGCCACTAATTTTATATACATCAAGACCAAAACGCTGCGTTTTGGTTAAGATATTTTGCGGC
1 AAGCGCCACTAATTCTATATACATCAAGACCAAAACTCTGCGTTTTGGTTAAGATATTTTGCGGC
* * * * **
14063438 GCTAGCCACGAATCGCCGCTAATACTATATTTTAGTAGCGTTTCACCGT
66 GCT-TCCACAAAGCGCCGCTAATACTATACTTTAGCGGCGTTTC-CCGT
** *
14063487 AAGCGCCACTAATTCTAGTATACATCAAGACCAAAACGATGCGTTTTGGTTCAGATATTTTGCGG
1 AAGCGCCACTAATTCTA-TATACATCAAGACCAAAACTCTGCGTTTTGGTTAAGATATTTTGCGG
* * * * * *
14063552 CGTTTCCAAAAAGCGCCGCTAATACTGTCCTTTTGCGGCGTTTTCCCAT
65 CGCTTCCACAAAGCGCCGCTAATACTATACTTTAGCGGCG-TTTCCCGT
* * * *
14063601 AAACGGCACTAATTCTAACATACCTCAAGACC-AAACTCTGCGTTTTGGTTAAGATA
1 AAGCGCCACTAATTCT-ATATACATCAAGACCAAAACTCTGCGTTTTGGTTAAGATA
14063657 ACGGCGTTTC
Statistics
Matches: 342, Mismatches: 48, Indels: 18
0.84 0.12 0.04
Matches are distributed among these distances:
112 2 0.01
113 53 0.15
114 207 0.61
115 80 0.23
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (112 bp):
AAGCGCCACTAATTCTATATACATCAAGACCAAAACTCTGCGTTTTGGTTAAGATATTTTGCGGC
GCTTCCACAAAGCGCCGCTAATACTATACTTTAGCGGCGTTTCCCGT
Found at i:14063340 original size:189 final size:190
Alignment explanation
Indices: 14062955--14063327 Score: 513
Period size: 188 Copynumber: 2.0 Consensus size: 190
14062945 GGTTTCCTCT
* * *
14062955 AAGCGCCACTAATTTTAGTATAAATCAAGACCAAAACGCTGCGTTTTGTTTAAGGTATTTTGCGG
1 AAGCGCCACTAATTTTAGCATAAATCAAGACCAAAACGCTGCGTTTTGGTTAAGATATTTTGCGG
* * * *
14063020 CGATAGCCACAAATCGCCGCTAATACTATGCTTTAGCGGCGTTTCATCGTAAGCGCCACTAAATC
66 CGATAGCCACAAAGCACCGCTAATACTATGCTTTAACGGCGTTTCACCGTAAGCGCCACTAAATC
* *
14063085 AAGTATACATCAAGACCAAAACGTTGCGTTTTCGTTCAGATATTTTGCGGCGCTTACAAA
131 AAGTATACATCAAGACCAAAACGTTGCGTTTTCGTTAAGATATTTTGCGGCACTTACAAA
** *
14063145 AAGCGCCACTAATTCTTA-CATACCTCAAGACC-AAACTCTGCGTTTTGGTTAAGATATTTTGCG
1 AAGCGCCACTAATT-TTAGCATAAATCAAGACCAAAACGCTGCGTTTTGGTTAAGATATTTTGCG
* *** *
14063208 GCGCT-TTTAGCAAAGCACCGCTAATACTATGCTTTAACGGCGTTTC-CCGTAAGCGCCACTAAT
65 GCGATAGCCA-CAAAGCACCGCTAATACTATGCTTTAACGGCGTTTCACCGTAAGCGCCACTAAA
* *
14063271 TCTAGTATACATCAAGACCAAAAC-TATGCGTTTTGGTTAAGATATTTTGCGGCACTT
129 TCAAGTATACATCAAGACCAAAACGT-TGCGTTTTCGTTAAGATATTTTGCGGCACTT
14063328 CTCACAAAGC
Statistics
Matches: 161, Mismatches: 19, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
187 1 0.01
188 67 0.42
189 65 0.40
190 25 0.16
191 3 0.02
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (190 bp):
AAGCGCCACTAATTTTAGCATAAATCAAGACCAAAACGCTGCGTTTTGGTTAAGATATTTTGCGG
CGATAGCCACAAAGCACCGCTAATACTATGCTTTAACGGCGTTTCACCGTAAGCGCCACTAAATC
AAGTATACATCAAGACCAAAACGTTGCGTTTTCGTTAAGATATTTTGCGGCACTTACAAA
Found at i:14063567 original size:228 final size:226
Alignment explanation
Indices: 14063145--14063656 Score: 715
Period size: 228 Copynumber: 2.2 Consensus size: 226
14063135 CGCTTACAAA
14063145 AAGCGCCACTAATTCTTACATACCTCAAGACCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGC
1 AAGCGCCACTAATTCTTACATACCTCAAGACCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGC
* *
14063210 GCTTTTAGCAAAGCACCGCTAATACTATGCTTTAACGGCGTTTCCCGTAAGCGCCACTAATTCTA
66 GC--TTAGCAAAGCACCGCTAATACTATACTTTAACAGCGTTTCCCGTAAGCGCCACTAATTCTA
* *
14063275 GTATACATCAAGACCAAAACTATGCGTTTTGGTTAAGATATTTTGCGGCACTTCTCACAAAGCGC
129 GTATACATCAAGACCAAAACGATGCGTTTTGGTTAAGATATTTTGCGGCACTTCTCAAAAAGCGC
* * *
14063340 CGCTATTACCATTCTTTCGCGGCGGTTTCCCGT
194 CGCTAATACCATCCTTTCGCGGCGGTTTCCCAT
* * *
14063373 AAGCGCCACTAATT-TTATATACATCAAGACCAAAACGCTGCGTTTTGGTTAAGATATTTTGCGG
1 AAGCGCCACTAATTCTTACATACCTCAAGACC-AAACTCTGCGTTTTGGTTAAGATATTTTGCGG
* * * **
14063437 CGC-TAGCCACGAATCGCCGCTAATACTATATTTTAGTAGCGTTTCACCGTAAGCGCCACTAATT
65 CGCTTAG-CA--AAGCACCGCTAATACTATACTTTAACAGCGTTTC-CCGTAAGCGCCACTAATT
* **
14063501 CTAGTATACATCAAGACCAAAACGATGCGTTTTGGTTCAGATATTTTGCGGCGTTTC-CAAAAAG
126 CTAGTATACATCAAGACCAAAACGATGCGTTTTGGTTAAGATATTTTGCGGCACTTCTCAAAAAG
** * *
14063565 CGCCGCTAATACTGTCCTTTTGCGGCGTTTTCCCAT
191 CGCCGCTAATACCATCCTTTCGCGGCGGTTTCCCAT
* * *
14063601 AAACGGCACTAATTCTAACATACCTCAAGACCAAACTCTGCGTTTTGGTTAAGATA
1 AAGCGCCACTAATTCTTACATACCTCAAGACCAAACTCTGCGTTTTGGTTAAGATA
14063657 ACGGCGTTTC
Statistics
Matches: 250, Mismatches: 28, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
225 3 0.01
226 2 0.01
227 15 0.06
228 145 0.58
229 85 0.34
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (226 bp):
AAGCGCCACTAATTCTTACATACCTCAAGACCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGC
GCTTAGCAAAGCACCGCTAATACTATACTTTAACAGCGTTTCCCGTAAGCGCCACTAATTCTAGT
ATACATCAAGACCAAAACGATGCGTTTTGGTTAAGATATTTTGCGGCACTTCTCAAAAAGCGCCG
CTAATACCATCCTTTCGCGGCGGTTTCCCAT
Found at i:14063682 original size:71 final size:72
Alignment explanation
Indices: 14063587--14063728 Score: 187
Period size: 71 Copynumber: 2.0 Consensus size: 72
14063577 TGTCCTTTTG
* * * **
14063587 CGGCGTTTTCCCATAAACGGCACTAATTCTAACATACCTCAAGACC-AAACTCTGCGTTTTGGTT
1 CGGCGTTTCCCCATAAACGCCACTAATTCTAACATACATCAAGACCGAAACGATGCGTTTTGGTT
14063651 AAGATAA
66 AAGATAA
* * * **
14063658 CGGCGTTTCCCCGTAAGCGCCACTAATTTTAGGATACATCAAGACCGAAACGATGCGTTTTGGTT
1 CGGCGTTTCCCCATAAACGCCACTAATTCTAACATACATCAAGACCGAAACGATGCGTTTTGGTT
14063723 AAGATA
66 AAGATA
14063729 TTTTGCGGCG
Statistics
Matches: 60, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
71 38 0.63
72 22 0.37
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (72 bp):
CGGCGTTTCCCCATAAACGCCACTAATTCTAACATACATCAAGACCGAAACGATGCGTTTTGGTT
AAGATAA
Found at i:14063869 original size:112 final size:112
Alignment explanation
Indices: 14063658--14063872 Score: 308
Period size: 112 Copynumber: 1.9 Consensus size: 112
14063648 GTTAAGATAA
* *
14063658 CGGCGTTTCCCCGTAAGCGCCACTAATTTTAGGATACATCAAGACCGAAACGATGCGTTTTGGTT
1 CGGCGTTTCCCCATAAGCGCCACTAATTCTAGGATACATCAAGACCGAAACGATGCGTTTTGGTT
* *
14063723 AAGATATTTTGCGGCGCTTATCGGAAAACGCCGCTAATACGATTTAG
66 AAGAGATTTTGCGGCGCTTATCGGAAAACACCGCTAATACGATTTAG
* * * *
14063770 CGGCGTTTTCCCATAATCGCCACTAATTCTAGTATACATCAAGA-CGAAAACGCTGCGTTTTGGT
1 CGGCGTTTCCCCATAAGCGCCACTAATTCTAGGATACATCAAGACCG-AAACGATGCGTTTTGGT
* *
14063834 TAAGAGATTTTGCGGCGCATTGT-GGTAAACACCGCTAAT
65 TAAGAGATTTTGCGGCGC-TTATCGGAAAACACCGCTAAT
14063873 GATGTTCTTT
Statistics
Matches: 91, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
111 2 0.02
112 86 0.95
113 3 0.03
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.28
Consensus pattern (112 bp):
CGGCGTTTCCCCATAAGCGCCACTAATTCTAGGATACATCAAGACCGAAACGATGCGTTTTGGTT
AAGAGATTTTGCGGCGCTTATCGGAAAACACCGCTAATACGATTTAG
Found at i:14073716 original size:30 final size:30
Alignment explanation
Indices: 14073682--14073743 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
14073672 CAACTTAACA
14073682 AATAAATGTCTCTAAAATAATAACAAAATT
1 AATAAATGTCTCTAAAATAATAACAAAATT
* *
14073712 AATAAATTTCTTTAAAATAATAACAAAATT
1 AATAAATGTCTCTAAAATAATAACAAAATT
14073742 AA
1 AA
14073744 CAATAAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.32
Consensus pattern (30 bp):
AATAAATGTCTCTAAAATAATAACAAAATT
Found at i:14075846 original size:30 final size:30
Alignment explanation
Indices: 14075812--14075873 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
14075802 CAACTTAACA
14075812 AATAAATGTCTCTAAAATAATAACAAAATT
1 AATAAATGTCTCTAAAATAATAACAAAATT
* *
14075842 AATAAATTTCTTTAAAATAATAACAAAATT
1 AATAAATGTCTCTAAAATAATAACAAAATT
14075872 AA
1 AA
14075874 CAATAAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.32
Consensus pattern (30 bp):
AATAAATGTCTCTAAAATAATAACAAAATT
Found at i:14076913 original size:19 final size:19
Alignment explanation
Indices: 14076885--14076925 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
14076875 AGTTTAGTAG
14076885 AAGATGGAGAGATCCTGCT
1 AAGATGGAGAGATCCTGCT
*
14076904 AAGATTGAGAGATCCTGCT
1 AAGATGGAGAGATCCTGCT
14076923 AAG
1 AAG
14076926 GTAACGACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.34, C:0.15, G:0.29, T:0.22
Consensus pattern (19 bp):
AAGATGGAGAGATCCTGCT
Found at i:14086289 original size:15 final size:15
Alignment explanation
Indices: 14086234--14086290 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
14086224 TTTATACTAC
14086234 AAAATATTTATTATT
1 AAAATATTTATTATT
* * *
14086249 AATATATTCATAATTGTA
1 AAAATATT--T-ATTATT
14086267 ATAAATATTTATTATT
1 A-AAATATTTATTATT
14086283 AAAATATT
1 AAAATATT
14086291 AATATTGAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
15 14 0.44
16 5 0.16
17 2 0.06
18 5 0.16
19 6 0.19
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (15 bp):
AAAATATTTATTATT
Found at i:14087848 original size:16 final size:18
Alignment explanation
Indices: 14087813--14087855 Score: 63
Period size: 16 Copynumber: 2.5 Consensus size: 18
14087803 CGTAATTATC
*
14087813 TAAAAAAATTTAACTCAA
1 TAAACAAATTTAACTCAA
14087831 TAAACAAATTT-A-TCAA
1 TAAACAAATTTAACTCAA
14087847 TAAACAAAT
1 TAAACAAAT
14087856 GTACGAAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 13 0.54
17 1 0.04
18 10 0.42
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (18 bp):
TAAACAAATTTAACTCAA
Found at i:14093124 original size:3 final size:3
Alignment explanation
Indices: 14093110--14093169 Score: 102
Period size: 3 Copynumber: 20.0 Consensus size: 3
14093100 TCTCTCCCTT
*
14093110 TTA TTT TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
14093158 TTA TTG TTA TTA
1 TTA TTA TTA TTA
14093170 CAATGCCATG
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:14093707 original size:21 final size:22
Alignment explanation
Indices: 14093681--14093721 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
14093671 AACTTACAAT
*
14093681 GCATTTTTGGATGG-GATATAG
1 GCATTTATGGATGGAGATATAG
*
14093702 GCATTTATGGGTGGAGATAT
1 GCATTTATGGATGGAGATAT
14093722 CATTTGACTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.24, C:0.05, G:0.34, T:0.37
Consensus pattern (22 bp):
GCATTTATGGATGGAGATATAG
Found at i:14093865 original size:70 final size:70
Alignment explanation
Indices: 14093728--14093868 Score: 205
Period size: 70 Copynumber: 2.0 Consensus size: 70
14093718 ATATCATTTG
* *
14093728 ACTGATGATAGGTCTATCTCTTAGTTTTGAAATGCACTTTGAATCACCCAATTTCGAGTATGAGA
1 ACTGATGATAGGTCTATCTCTTAGTTTCGAAATGCACTTTGAATCACCCAATTTCGAGTACGAGA
14093793 GCTCA
66 GCTCA
* * *
14093798 ACTGATGATAGAG-CTATCTCTTA-TATTCGAAATGCACTTTGAATCACCCAATTTCGTGTCCGG
1 ACTGATGATAG-GTCTATCTCTTAGT-TTCGAAATGCACTTTGAATCACCCAATTTCGAGTACGA
14093861 GAGCTCA
64 GAGCTCA
14093868 A
1 A
14093869 GTTATGGTTG
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
69 1 0.02
70 62 0.97
71 1 0.02
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (70 bp):
ACTGATGATAGGTCTATCTCTTAGTTTCGAAATGCACTTTGAATCACCCAATTTCGAGTACGAGA
GCTCA
Found at i:14094268 original size:16 final size:16
Alignment explanation
Indices: 14094247--14094277 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14094237 TTTTTGATTT
14094247 AATACAACTATTTGTC
1 AATACAACTATTTGTC
*
14094263 AATACAACTCTTTGT
1 AATACAACTATTTGT
14094278 GTTTTCTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.19, G:0.06, T:0.39
Consensus pattern (16 bp):
AATACAACTATTTGTC
Found at i:14098264 original size:62 final size:61
Alignment explanation
Indices: 14098142--14098266 Score: 196
Period size: 62 Copynumber: 2.0 Consensus size: 61
14098132 CTCCCATTTT
* * * *
14098142 CACTCCCATTATCCCATTTTCATGCCTTTGTCCCTTGTAACAACCCGATTTTTAGTGGTGA
1 CACTCACATTATCCCATTTCCATACCTTTGTCCCTTATAACAACCCGATTTTTAGTGGTGA
*
14098203 CACTCACATTATCCCATTTCCATACCTTTGTCCCCTTATAACAACCTGATTTTTAGTGGTGA
1 CACTCACATTATCCCATTTCCATACCTTTGT-CCCTTATAACAACCCGATTTTTAGTGGTGA
14098265 CA
1 CA
14098267 GAATAGTGGT
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
61 28 0.48
62 30 0.52
ACGTcount: A:0.22, C:0.30, G:0.11, T:0.37
Consensus pattern (61 bp):
CACTCACATTATCCCATTTCCATACCTTTGTCCCTTATAACAACCCGATTTTTAGTGGTGA
Found at i:14099643 original size:36 final size:36
Alignment explanation
Indices: 14099596--14099671 Score: 125
Period size: 36 Copynumber: 2.1 Consensus size: 36
14099586 TGTTATTGGG
* * *
14099596 TGGACTGGCTCTTATGAGCATTTGGTGTGTTTCAGT
1 TGGACTAGCTCTTATGAGCATATGGTGTGTTTCAAT
14099632 TGGACTAGCTCTTATGAGCATATGGTGTGTTTCAAT
1 TGGACTAGCTCTTATGAGCATATGGTGTGTTTCAAT
14099668 TGGA
1 TGGA
14099672 ATATCGATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.18, C:0.13, G:0.29, T:0.39
Consensus pattern (36 bp):
TGGACTAGCTCTTATGAGCATATGGTGTGTTTCAAT
Found at i:14102120 original size:36 final size:35
Alignment explanation
Indices: 14101969--14102132 Score: 184
Period size: 35 Copynumber: 4.6 Consensus size: 35
14101959 ATTGATGTTA
* * *
14101969 TGATTCGCATGTTAAACATGTTAATATTCTGATATTT
1 TGATTCGCATGTTAAGCATGTTATTAATCT-A-ATTT
* * *
14102006 TGATTCGCGTGTTAAGCATGCTATTAATCTGATTT
1 TGATTCGCATGTTAAGCATGTTATTAATCTAATTT
** *
14102041 TGGCTCGCATGTTAAGCATGTTATTAATCTGATTT
1 TGATTCGCATGTTAAGCATGTTATTAATCTAATTT
* ** *
14102076 TGACTCGCATGTTAAGCATGCCATTATTTCTAATTT
1 TGATTCGCATGTTAAGCATGTTATTA-ATCTAATTT
14102112 TGATTCGCATGTTAAGCATGT
1 TGATTCGCATGTTAAGCATGT
14102133 CATTGTGTTA
Statistics
Matches: 109, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
35 58 0.53
36 26 0.24
37 25 0.23
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.43
Consensus pattern (35 bp):
TGATTCGCATGTTAAGCATGTTATTAATCTAATTT
Found at i:14102321 original size:31 final size:31
Alignment explanation
Indices: 14102283--14102366 Score: 123
Period size: 31 Copynumber: 2.7 Consensus size: 31
14102273 ATGAGTAAGC
**
14102283 CATCGTTGTCGGGCAACCCGGGGTGGCGGGT
1 CATCGTTGTCGGGCAACCCGGGGTGGCGAAT
* *
14102314 CATCGTTGTCGAGCAACCCGGGGTGGTGAAT
1 CATCGTTGTCGGGCAACCCGGGGTGGCGAAT
*
14102345 TATCGTTGTCGGGCAACCCGGG
1 CATCGTTGTCGGGCAACCCGGG
14102367 ATAATTTAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.14, C:0.25, G:0.39, T:0.21
Consensus pattern (31 bp):
CATCGTTGTCGGGCAACCCGGGGTGGCGAAT
Found at i:14110847 original size:47 final size:47
Alignment explanation
Indices: 14110778--14110871 Score: 143
Period size: 47 Copynumber: 2.0 Consensus size: 47
14110768 TGCTTCGATT
* *
14110778 CCCCTTCCAAAAGATAATTTAGGGCTTGATTAATGCATATGGAGGTG
1 CCCCTTCCAAAAGATAATTTAGGACTTGATTAATACATATGGAGGTG
* * *
14110825 CCCCTTCTAAAAGATAATTTAGGATTTGATTAATACATGTGGAGGTG
1 CCCCTTCCAAAAGATAATTTAGGACTTGATTAATACATATGGAGGTG
14110872 GTCTAGCGTT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (47 bp):
CCCCTTCCAAAAGATAATTTAGGACTTGATTAATACATATGGAGGTG
Found at i:14113651 original size:35 final size:34
Alignment explanation
Indices: 14113575--14113651 Score: 84
Period size: 34 Copynumber: 2.2 Consensus size: 34
14113565 ACACAAAAAA
** *
14113575 AATATTTTAAAAATAAAAAAATAAAAATATTTTT
1 AATATTTTAAAAATAAAAAAATAAAAATAAATAT
*
14113609 AAGTATTTT-AAAATTAAAAAATAAAAATAAAATAT
1 AA-TATTTTAAAAATAAAAAAATAAAAAT-AAATAT
14113644 ATATATTT
1 A-ATATTT
14113652 ATTATATTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
34 20 0.56
35 15 0.42
36 1 0.03
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (34 bp):
AATATTTTAAAAATAAAAAAATAAAAATAAATAT
Found at i:14113755 original size:17 final size:18
Alignment explanation
Indices: 14113735--14113769 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
14113725 ATTTTAATAG
14113735 ATTTAATA-TTAAATTAA
1 ATTTAATACTTAAATTAA
*
14113752 ATTTAATACTTAATTTAA
1 ATTTAATACTTAAATTAA
14113770 TATTAAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTTAATACTTAAATTAA
Found at i:14114751 original size:19 final size:18
Alignment explanation
Indices: 14114727--14114780 Score: 81
Period size: 19 Copynumber: 2.9 Consensus size: 18
14114717 CAACCCACAA
*
14114727 TTTTTTTTATTTTTTTAT
1 TTTTTTTTAATTTTTTAT
14114745 CTTTTTTTTAATTTTTTAT
1 -TTTTTTTTAATTTTTTAT
14114764 TTTTTTTTCAATTTTTT
1 TTTTTTTT-AATTTTTT
14114781 GGGGAAATAG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
18 8 0.24
19 25 0.76
ACGTcount: A:0.13, C:0.04, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTTTTTAATTTTTTAT
Found at i:14114778 original size:27 final size:27
Alignment explanation
Indices: 14114729--14114780 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
14114719 ACCCACAATT
**
14114729 TTTTTTATTTTTTTATCTTTTTTTTAA
1 TTTTTTATTTTTTTATCAATTTTTTAA
*
14114756 TTTTTTATTTTTTTTTCAATTTTTT
1 TTTTTTATTTTTTTATCAATTTTTT
14114781 GGGGAAATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.13, C:0.04, G:0.00, T:0.83
Consensus pattern (27 bp):
TTTTTTATTTTTTTATCAATTTTTTAA
Found at i:14115147 original size:7 final size:7
Alignment explanation
Indices: 14115120--14115149 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
14115110 GAAATTTGAG
*
14115120 AATAAAG
1 AATAAAT
14115127 AATAAAT
1 AATAAAT
14115134 AATAAAT
1 AATAAAT
14115141 AATAAAT
1 AATAAAT
14115148 AA
1 AA
14115150 AGAAAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (7 bp):
AATAAAT
Found at i:14115410 original size:28 final size:26
Alignment explanation
Indices: 14115345--14115412 Score: 95
Period size: 25 Copynumber: 2.6 Consensus size: 26
14115335 CTCCTTCAAG
*
14115345 AAAAT-CAAGAAGAAAACTTTTTCTA
1 AAAATACAAGAAGAAAACTATTTCTA
14115370 AAAATA-AAGAAGAAAACTATTTCTA
1 AAAATACAAGAAGAAAACTATTTCTA
14115395 AAAATCACAAGAAAGAAA
1 AAAAT-ACAAG-AAGAAA
14115413 TTTTCCACAA
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
25 28 0.74
26 1 0.03
27 3 0.08
28 6 0.16
ACGTcount: A:0.60, C:0.10, G:0.09, T:0.21
Consensus pattern (26 bp):
AAAATACAAGAAGAAAACTATTTCTA
Found at i:14116877 original size:71 final size:70
Alignment explanation
Indices: 14116792--14116966 Score: 190
Period size: 71 Copynumber: 2.5 Consensus size: 70
14116782 TAATCTTTCA
* * *** ** *
14116792 AATTCTCGACAGCTTGAGTGAGCAA-TATCGAATCATTATTTAGTGGTGGTTGAGATCCAACATA
1 AATTCTCGACAGCTTGAGTGAG-AAGCATCAAATCATTATTTAGCAATGACTAAGATCCAACATA
14116856 AGTTGCG
65 AGTTG-G
* * *
14116863 AATTCTCAACAGCTTGAATGAGAAGCATTAAATCATTATTTAGCAATGACTAAGATCCAACATAA
1 AATTCTCGACAGCTTGAGTGAGAAGCATCAAATCATTATTTAGCAATGACTAAGATCCAACATAA
*
14116928 GTTGT
66 GTTGG
**
14116933 AGATTCTCGACAGCTTGAGTGAGTTGCATCAAAT
1 A-ATTCTCGACAGCTTGAGTGAGAAGCATCAAAT
14116967 AAAGCTTGTT
Statistics
Matches: 85, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
70 3 0.04
71 82 0.96
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (70 bp):
AATTCTCGACAGCTTGAGTGAGAAGCATCAAATCATTATTTAGCAATGACTAAGATCCAACATAA
GTTGG
Found at i:14122028 original size:43 final size:41
Alignment explanation
Indices: 14121906--14122055 Score: 160
Period size: 43 Copynumber: 3.5 Consensus size: 41
14121896 NNNNNNNNNN
* * *
14121906 GTCTTACATGTAATCACATATCGATGCC-ACTGTCCCAGACAGG
1 GTCTTACACG-AAACACA-ATCGATGCCAAC-GTCCCAGACATG
* *
14121949 GTCTTACACGAATCA-AATACGATGCCAATGTCCCAGACATG
1 GTCTTACACGAAACACAAT-CGATGCCAACGTCCCAGACATG
*
14121990 GTCTTACACGTAAACACAAGTCGATGCCAACGTCCCAGACGTG
1 GTCTTACACG-AAACACAA-TCGATGCCAACGTCCCAGACATG
14122033 GTCTTACACGATAACACATATCG
1 GTCTTACACGA-AACACA-ATCG
14122056 GAAATCCTAT
Statistics
Matches: 94, Mismatches: 6, Indels: 14
0.82 0.05 0.12
Matches are distributed among these distances:
40 2 0.02
41 29 0.31
42 11 0.12
43 50 0.53
44 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (41 bp):
GTCTTACACGAAACACAATCGATGCCAACGTCCCAGACATG
Found at i:14130197 original size:15 final size:15
Alignment explanation
Indices: 14130155--14130198 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
14130145 ATGATTAAAC
* *
14130155 TTAATCACTTTAATA
1 TTAATCAATATAATA
*
14130170 TTAAATTAATATAATA
1 TT-AATCAATATAATA
14130186 TTAATCAATATAA
1 TTAATCAATATAA
14130199 AAATTAGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (15 bp):
TTAATCAATATAATA
Found at i:14130238 original size:59 final size:62
Alignment explanation
Indices: 14130168--14130284 Score: 168
Period size: 62 Copynumber: 1.9 Consensus size: 62
14130158 ATCACTTTAA
* * *
14130168 TATTAAATTAATATAATA-TTA-AT-CAATATAAAAATTAGATTAAATTTAATATTAAATCT
1 TATTAAATTAATAGAATATTTATATACAAGATAAAAATTAAATTAAATTTAATATTAAATCT
* *
14130227 TATTAAATTAATAGAATATTTATCTACAAGATAAATATTAAATTAAATTTAATATTAA
1 TATTAAATTAATAGAATATTTATATACAAGATAAAAATTAAATTAAATTTAATATTAA
14130285 GATAATCACT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 17 0.34
60 3 0.06
61 1 0.02
62 29 0.58
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (62 bp):
TATTAAATTAATAGAATATTTATATACAAGATAAAAATTAAATTAAATTTAATATTAAATCT
Found at i:14130310 original size:20 final size:18
Alignment explanation
Indices: 14130260--14130370 Score: 66
Period size: 20 Copynumber: 5.9 Consensus size: 18
14130250 CTACAAGATA
14130260 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTT
14130277 AATATTAAGA-TAATCACTTT
1 AATATTAA-ATTAAT-A-TTT
**
14130297 AATATTAAATTAATAAAAT
1 AATATTAAATTAAT-ATTT
* * *
14130316 ACTATTAAGTTAAGTATTA
1 AATATTAAATTAA-TATTT
* *
14130335 AAT-TTAATTTAATATTA
1 AATATTAAATTAATATTT
*
14130352 AATCTATTAAAATAATATT
1 AA--TATTAAATTAATATT
14130371 ATTTTTAGAA
Statistics
Matches: 73, Mismatches: 12, Indels: 15
0.73 0.12 0.15
Matches are distributed among these distances:
17 18 0.25
18 9 0.12
19 18 0.25
20 28 0.38
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:14130346 original size:18 final size:17
Alignment explanation
Indices: 14130320--14130354 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
14130310 TAAAATACTA
14130320 TTAAGTTAAGTATTAAAT
1 TTAAGTTAA-TATTAAAT
*
14130338 TTAATTTAATATTAAAT
1 TTAAGTTAATATTAAAT
14130355 CTATTAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (17 bp):
TTAAGTTAATATTAAAT
Found at i:14144351 original size:5 final size:5
Alignment explanation
Indices: 14144341--14144366 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
14144331 TGAGCATTCG
14144341 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
14144367 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:14145991 original size:13 final size:14
Alignment explanation
Indices: 14145973--14146013 Score: 59
Period size: 13 Copynumber: 3.1 Consensus size: 14
14145963 GGGGTAAGAT
*
14145973 TCTGTATATTTG-A
1 TCTGTATATCTGTA
14145986 TCTGTATATCTGTA
1 TCTGTATATCTGTA
14146000 TCTGT-TATCTGTA
1 TCTGTATATCTGTA
14146013 T
1 T
14146014 TTGAAATGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
13 20 0.77
14 6 0.23
ACGTcount: A:0.20, C:0.12, G:0.15, T:0.54
Consensus pattern (14 bp):
TCTGTATATCTGTA
Found at i:14145997 original size:21 final size:21
Alignment explanation
Indices: 14145973--14146013 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
14145963 GGGGTAAGAT
14145973 TCTGTATAT-TTGATCTGTATA
1 TCTGTATATGTT-ATCTGTATA
*
14145994 TCTGTATCTGTTATCTGTAT
1 TCTGTATATGTTATCTGTAT
14146014 TTGAAATGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.20, C:0.12, G:0.15, T:0.54
Consensus pattern (21 bp):
TCTGTATATGTTATCTGTATA
Found at i:14153382 original size:18 final size:18
Alignment explanation
Indices: 14153348--14153381 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
14153338 GACTGACTTT
14153348 AAATAAAGGTTTATTTTA
1 AAATAAAGGTTTATTTTA
14153366 AAAT-AAGGTTTATTTT
1 AAATAAAGGTTTATTTT
14153382 TGAGAGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (18 bp):
AAATAAAGGTTTATTTTA
Found at i:14158748 original size:31 final size:29
Alignment explanation
Indices: 14158677--14158761 Score: 86
Period size: 31 Copynumber: 2.8 Consensus size: 29
14158667 ATGCATTTGA
*
14158677 ACCATAATCAAAGTTACATGTA-TATAATTC
1 ACCA-AATCAAAGTT-CAAGTATTATAATTC
14158707 ACCAAATCAAAGTTCAAGTATTA-AATTGC
1 ACCAAATCAAAGTTCAAGTATTATAATT-C
14158736 ACACTAAATCAAAGTT-AATGTATTAT
1 AC-C-AAATCAAAGTTCAA-GTATTAT
14158762 TTTGAGATTT
Statistics
Matches: 48, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
28 9 0.19
29 15 0.31
30 7 0.15
31 17 0.35
ACGTcount: A:0.45, C:0.15, G:0.08, T:0.32
Consensus pattern (29 bp):
ACCAAATCAAAGTTCAAGTATTATAATTC
Found at i:14172794 original size:118 final size:118
Alignment explanation
Indices: 14172574--14172794 Score: 277
Period size: 118 Copynumber: 1.9 Consensus size: 118
14172564 GTTTATCGAA
* * * * *
14172574 ATAATTCTCTCCTAAACAAACCATGACAAGGAGTTACAAGCTGGAGAAAACATGGATAAATGCGG
1 ATAATTCTCTCCCAAACAAACCATGACAAGGAGCTACAAGCTGAAGAAAACATGAATAAATGCAG
* * * *
14172639 CCTGATCAAGACCTCCATAAGCAACATAGAGATTTTTCGCATAGGTCAGTGGG
66 CCTAACCAAGACCTCCATAAGCAACAGAGAGACTTTTCGCATAGGTCAGTGGG
* * *
14172692 ATAATTCTCTCCCAAACAAACCATGTCAAGGAGCTA-AGAGCTGAAGAAAACATGAATATATGTA
1 ATAATTCTCTCCCAAACAAACCATGACAAGGAGCTACA-AGCTGAAGAAAACATGAATAAATGCA
*
14172756 GCCTAACCAAGACC-CTCATGAGCAACACGA-AGACTTTTC
65 GCCTAACCAAGACCTC-CATAAGCAACA-GAGAGACTTTTC
14172795 ACACTAATGA
Statistics
Matches: 87, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
117 2 0.02
118 84 0.97
119 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.21
Consensus pattern (118 bp):
ATAATTCTCTCCCAAACAAACCATGACAAGGAGCTACAAGCTGAAGAAAACATGAATAAATGCAG
CCTAACCAAGACCTCCATAAGCAACAGAGAGACTTTTCGCATAGGTCAGTGGG
Found at i:14175782 original size:19 final size:18
Alignment explanation
Indices: 14175746--14175781 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
14175736 TAGAAAATGA
*
14175746 AAAAAATTAAATAATTTT
1 AAAAAATAAAATAATTTT
*
14175764 AAAAAATAAAATTATTTT
1 AAAAAATAAAATAATTTT
14175782 TTCTTGTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
AAAAAATAAAATAATTTT
Found at i:14175937 original size:19 final size:19
Alignment explanation
Indices: 14175913--14175959 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
14175903 GAAATTAAAG
14175913 GTAAATAAAATTTTT-AAT
1 GTAAATAAAATTTTTCAAT
* * *
14175931 GTAAAATCAAGTTTTTCCAT
1 GT-AAATAAAATTTTTCAAT
14175951 GTAAATAAA
1 GTAAATAAA
14175960 CTCAAGTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 2 0.09
19 17 0.74
20 4 0.17
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (19 bp):
GTAAATAAAATTTTTCAAT
Found at i:14176131 original size:43 final size:43
Alignment explanation
Indices: 14176070--14176244 Score: 350
Period size: 43 Copynumber: 4.1 Consensus size: 43
14176060 GAATGTACAA
14176070 TAACATTGAATTAACGACATGTAACTGAAATGAAAATTGACTT
1 TAACATTGAATTAACGACATGTAACTGAAATGAAAATTGACTT
14176113 TAACATTGAATTAACGACATGTAACTGAAATGAAAATTGACTT
1 TAACATTGAATTAACGACATGTAACTGAAATGAAAATTGACTT
14176156 TAACATTGAATTAACGACATGTAACTGAAATGAAAATTGACTT
1 TAACATTGAATTAACGACATGTAACTGAAATGAAAATTGACTT
14176199 TAACATTGAATTAACGACATGTAACTGAAATGAAAATTGACTT
1 TAACATTGAATTAACGACATGTAACTGAAATGAAAATTGACTT
14176242 TAA
1 TAA
14176245 TAGCATAGTA
Statistics
Matches: 132, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 132 1.00
ACGTcount: A:0.45, C:0.11, G:0.14, T:0.30
Consensus pattern (43 bp):
TAACATTGAATTAACGACATGTAACTGAAATGAAAATTGACTT
Found at i:14185148 original size:15 final size:16
Alignment explanation
Indices: 14185117--14185149 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
14185107 TTTTGTTACG
*
14185117 AAACTTTATATTAATT
1 AAACTTTATAGTAATT
14185133 AAACTTTA-AGTAATT
1 AAACTTTATAGTAATT
14185148 AA
1 AA
14185150 TGAGCCATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (16 bp):
AAACTTTATAGTAATT
Found at i:14186855 original size:31 final size:31
Alignment explanation
Indices: 14186820--14186885 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
14186810 CTTAACGCGC
* *
14186820 TTTTGAATGATTATTCAATGTTAATCGTGAA
1 TTTTGAATGATTATCCAATGCTAATCGTGAA
* * *
14186851 TTTTGGATGATTATCCGATGCTAATTGTGAA
1 TTTTGAATGATTATCCAATGCTAATCGTGAA
14186882 TTTT
1 TTTT
14186886 ATACTCTTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.27, C:0.08, G:0.18, T:0.47
Consensus pattern (31 bp):
TTTTGAATGATTATCCAATGCTAATCGTGAA
Found at i:14193482 original size:22 final size:24
Alignment explanation
Indices: 14193430--14193482 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 24
14193420 AAGTTAGGTA
* *
14193430 AAATAAAACTGCAATTTTTAATGC
1 AAATAAAGCTGCAATTTTTAATCC
*
14193454 AGA-AAAGCTGC-A-TTTTAATCC
1 AAATAAAGCTGCAATTTTTAATCC
14193475 AAATAAAG
1 AAATAAAG
14193483 ACAATGTCCC
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
21 10 0.42
22 5 0.21
23 7 0.29
24 2 0.08
ACGTcount: A:0.47, C:0.13, G:0.11, T:0.28
Consensus pattern (24 bp):
AAATAAAGCTGCAATTTTTAATCC
Found at i:14197937 original size:13 final size:13
Alignment explanation
Indices: 14197919--14197943 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14197909 TTTGTAGCTC
14197919 AAAAAATACAAAA
1 AAAAAATACAAAA
14197932 AAAAAATACAAA
1 AAAAAATACAAA
14197944 GCACTTTTGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.08, G:0.00, T:0.08
Consensus pattern (13 bp):
AAAAAATACAAAA
Found at i:14199623 original size:13 final size:13
Alignment explanation
Indices: 14199605--14199629 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14199595 TTTGTAGCTC
14199605 AAAAAATACAAAA
1 AAAAAATACAAAA
14199618 AAAAAATACAAA
1 AAAAAATACAAA
14199630 GCACTTTTGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.08, G:0.00, T:0.08
Consensus pattern (13 bp):
AAAAAATACAAAA
Found at i:14208213 original size:22 final size:20
Alignment explanation
Indices: 14208163--14208215 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 20
14208153 CTTAATACAC
14208163 TTTTTTTTTTAAAATTTTTA
1 TTTTTTTTTTAAAATTTTTA
14208183 TTTTATTTTTTTAAAATCATCTTTA
1 -TTT-TTTTTTTAAAAT--T-TTTA
14208208 TTTTTTTT
1 TTTTTTTT
14208216 AAAGTTACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
21 3 0.11
22 12 0.43
23 5 0.18
24 4 0.14
25 4 0.14
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTTTTTTTTAAAATTTTTA
Found at i:14209649 original size:5 final size:6
Alignment explanation
Indices: 14209631--14209655 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
14209621 TTTTTGAAGG
14209631 AACAAA AACAAA AACAAA AACAAA A
1 AACAAA AACAAA AACAAA AACAAA A
14209656 GGAAGACCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (6 bp):
AACAAA
Found at i:14209678 original size:7 final size:7
Alignment explanation
Indices: 14209666--14209695 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
14209656 GGAAGACCTA
14209666 AGCATGC
1 AGCATGC
14209673 AGCATGC
1 AGCATGC
14209680 AGCATGC
1 AGCATGC
14209687 AGCATGC
1 AGCATGC
14209694 AG
1 AG
14209696 ATTGAAGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.30, C:0.27, G:0.30, T:0.13
Consensus pattern (7 bp):
AGCATGC
Found at i:14214089 original size:974 final size:971
Alignment explanation
Indices: 14211889--14214955 Score: 4999
Period size: 972 Copynumber: 3.2 Consensus size: 971
14211879 AGACTTACAA
* * * * *
14211889 GTATGTTCAAAGCTTGTGGCTAGCAAGGATGTTTGCCTAAGCAGGTGGATTGTCTCTAGAAGCGG
1 GTATGTTCAAAGCTTGTGGCTAGCAAGGATGCTTGCC-AAGCAGGTAGATTGTCTCTAAAAGAGA
* * *
14211954 GAGGTTTAGGTCTTTCAAGAAGACGCATGCAGTCCAAGTCTCTTGCTGAGATAGAGGGTCAAACG
65 GAGGTTTAGGTCTTTCAAGAAGACGCGTGCAGTCCAAGTCCCTTGCTAAGATAGAGGGTCAAACG
* * *
14212019 AAGAGTAAGAAT-CTGGGAGAGACAGCCACCAAGGCGTTCGAGTAGAGTCAAAGGATTGGTTTCG
130 GAGAGTAAGAATAC-GGGAGAGACAGTCACCAAGGCGTTCGAGTAGAGTCAAAGGATTGGTTACG
* * *
14212083 ATTATTTCTCAGATGGCTTGTCACGCTGGCACATGTCCACCTGTACTGGAAGTATAATAATTTAC
194 ATTATTTCTCAGATGGCTTGTCACGCTAGCACGTGTCCACCTGTAGTGGAAGTATAATAATTTAC
* * * * *
14212148 GGTTTATTTTTTTTCTGATTATCTAACCTTTTAATAAATACATATTGATCAGATCGAGTGTTATT
259 GATTTATTTTTTGTCTAATTATCTAACCTTTTAATAAATACATATTAATCAAATCGAGTGTTATT
* * *
14212213 AATGTTATTCAATGGTTATTATTGCAGAAATAAATAACTTGCATTACTTAAAACCTGATTGGTGT
324 AATGCTATTCAATGGTTATTATTGCAGAAATAGATAACTTGCGTTACTTAAAACCTGATTGGTGT
* * *
14212278 TGGATTTCAAGTTTAAGAATTTAATTCGAGTCTAAATTTAATTAATGTTTAATGTAATTATTTTT
389 TGGATTTCGAGTTTAAGAATTTGATTCGAGTCTAAATTTAATTTATGTTTAATGTAATTATTTTT
* * *
14212343 TTGTTGGTAGCTTTCATGTTTATTTCACGGTTCATATTCAACAAACAAAAGATGATTTTTTCTAG
454 TTGTTAGTAGCTTTCATGTTTATTTCACGGTTCATATTCAACAAACAAAAAATGATTTTTTCTAT
14212408 CACCGAAATATCGAAAAAAAATAAGGAGCCTACTTTTTCGTATTTTTGGGCATGACTAGTTTGAA
519 CACCGAAATATCGAAAAAAAATAAGGAGCCTACTTTTTCGTATTTTTGGGCATGACTAGTTTGAA
* * *
14212473 CCATTTTGAACATTTCGCGTTGCCCACGTCGTACAA-TGCACCCCAACCCCGATAGATTTGGACT
584 -CATTCTAAACATTTCGCGTTGCGCACGTCGTACAAGTGCACCCCAACCCCGATAGATTTGGACT
14212537 TGCACCCCGCTATGCAAGAGGTAAGGTTCCAAACTTAGTCATTCAATTATTTTTCAAGAGGGTTC
648 TGCACCCC-CTATGCAAGAGGTAAGGTTCCAAACTTAGTCATTCAATTATTTTTCAAGAGGGTTC
*
14212602 CCATATATAAACACATCTCACACTTGGTGTTTAACCAATGTGGGATCTAAGCTTTTCTTTTCCTC
712 CCATATATAAACACATCTCACACTTGGTATTTAACCAATGTGGGATCTAAGCTTTTCTTTTCCTC
*
14212667 AACAAATATTTTCTACTAGCTTACTTTAAGCATCAATTTCTCATTCATCGCTAAACCATTTTGAG
777 AACAAATATTTTCAACTAGCTTACTTTAAGCATCAATTTCTCATTCATCGCTAAACCATTTTGAG
14212732 CATATAATATACCGTTGTAAAGGTCTCATGGAGTATAATATGAAACCATAATTTTATGATTCAAC
842 CATATAATATACCGTTGTAAAGGTCTCATGGAGTATAATATGAAACCATAATTTTATGATTCAAC
14212797 TCTGTACCTTTACCTATTGAGAATATGCCTCAAAGTTCCGTAAAATGCAATTTTTCCAACAACGG
907 TCTGTACCTTTACCTATTGAGAATATGCCTCAAAGTTCCGTAAAATGCAATTTTTCCAACAACGG
* * * * * *
14212862 GTATGTTCAAAGCTTGTGGATAGCAAGGATGTTTGCCAAGCAGATAAATTGTCTCTAAAAGCGGG
1 GTATGTTCAAAGCTTGTGGCTAGCAAGGATGCTTGCCAAGCAGGTAGATTGTCTCTAAAAGAGAG
*
14212927 AGGTTTAGGTCTTTCAAGAAGACGCGTGCAGTCCAAGTCCCTTGCTGAGATAGAGGGTCAAACGG
66 AGGTTTAGGTCTTTCAAGAAGACGCGTGCAGTCCAAGTCCCTTGCTAAGATAGAGGGTCAAACGG
* * * *
14212992 AGAGTAAGAATATGGGAGAGACAGTCACCAAGGCGTCCGAGTAGAGCCGAAGGATTGGTTACGAT
131 AGAGTAAGAATACGGGAGAGACAGTCACCAAGGCGTTCGAGTAGAGTCAAAGGATTGGTTACGAT
14213057 TATTTCTCAGATGGCTTGTCACGCTAGCACGTGTCCACCTGTAGTGGAAGTATAATAATTTACGA
196 TATTTCTCAGATGGCTTGTCACGCTAGCACGTGTCCACCTGTAGTGGAAGTATAATAATTTACGA
14213122 TTTATTTTTTGTCTAATTATCTAACCTTTTAATAAATACATATTAATCAAATCGAGTGTTATTAA
261 TTTATTTTTTGTCTAATTATCTAACCTTTTAATAAATACATATTAATCAAATCGAGTGTTATTAA
14213187 TGCTATTCAATGGTTATTATTGCAGAAATAGATAACTTGCGTTACTTAAAACCTGATTGGTGTTG
326 TGCTATTCAATGGTTATTATTGCAGAAATAGATAACTTGCGTTACTTAAAACCTGATTGGTGTTG
14213252 GATTTCGAGTTTAAGAATTTGATTCGAGTCTAAATTTAATTTATGTTTAATGTAATTATTTTTTT
391 GATTTCGAGTTTAAGAATTTGATTCGAGTCTAAATTTAATTTATGTTTAATGTAATTATTTTTTT
14213317 GTTAGTAGCTTTCATGTTTATTTCACGGTTCATATTCAACAAACAAAAAATGATTTTTTCTATCA
456 GTTAGTAGCTTTCATGTTTATTTCACGGTTCATATTCAACAAACAAAAAATGATTTTTTCTATCA
**
14213382 CCGAAATATCGAAAAAAAATAAGGAGCCTACTTTTTCAAATTTTTGGGCATTGACTAGTTT-AAC
521 CCGAAATATCGAAAAAAAATAAGGAGCCTACTTTTTCGTATTTTTGGGCA-TGACTAGTTTGAAC
14213446 ATTCTAAACATTTCGCGTTGCGCACGTCGTACAAGTGCACCCCAACCCCGATAGATTTGGACTTG
585 ATTCTAAACATTTCGCGTTGCGCACGTCGTACAAGTGCACCCCAACCCCGATAGATTTGGACTTG
*
14213511 CACCCCCTATGCCAGAGGTAAGGTTCCAAACTTAGTCATTCAATTATTTTTCAAGAGGGTTCCCA
650 CACCCCCTATGCAAGAGGTAAGGTTCCAAACTTAGTCATTCAATTATTTTTCAAGAGGGTTCCCA
14213576 TATATAAACACATCTCACACTTGGTATTTAACCAATGTGGGATCTAAGCTTTTCTTTTCCTCAAC
715 TATATAAACACATCTCACACTTGGTATTTAACCAATGTGGGATCTAAGCTTTTCTTTTCCTCAAC
*****************************************************
14213641 AAATATTTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
780 AAATATTT----TCAACTAGCTTACTTTAAGCATCAATTTCTCATTCATCGCTAAACCATTTTGA
***** *
14213706 NNNNNTAATATACCG-TGTAAAGGTCTCATGGAGTAGAATATGAAACCATAATTTTATGATTCAA
841 GCATATAATATACCGTTGTAAAGGTCTCATGGAGTATAATATGAAACCATAATTTTATGATTCAA
*
14213770 CTCTGTACCTTTACCTATTGAGAATATGCCTTAAAGTTCCGTAAAATGCAATTTTTCCAACAACG
906 CTCTGTACCTTTACCTATTGAGAATATGCCTCAAAGTTCCGTAAAATGCAATTTTTCCAACAACG
14213835 G
971 G
14213836 GTATGTTCAAAGCTTGTGGCTAGCAAGGATGCTTGCCAAGCAGGTAGATTGTCTCTAAAAGAGAG
1 GTATGTTCAAAGCTTGTGGCTAGCAAGGATGCTTGCCAAGCAGGTAGATTGTCTCTAAAAGAGAG
*
14213901 AGGTTTAGGTCTTTCAAGAAGACGCGTGCAGTCCAAGTCCCTTGCTAAGATAGAGGGTCAAATGG
66 AGGTTTAGGTCTTTCAAGAAGACGCGTGCAGTCCAAGTCCCTTGCTAAGATAGAGGGTCAAACGG
*
14213966 AGAGTAAGAATACGGGAGCGACAGTCACCAAGGCGTTCGAGTAGAGTCAAAGGATTGGTTACGAT
131 AGAGTAAGAATACGGGAGAGACAGTCACCAAGGCGTTCGAGTAGAGTCAAAGGATTGGTTACGAT
14214031 TATTTCTCAGATGGCTTGTCACGCTAGCACGTGTCCACCTGTAGTGGAAGTATAATAATTTACGA
196 TATTTCTCAGATGGCTTGTCACGCTAGCACGTGTCCACCTGTAGTGGAAGTATAATAATTTACGA
14214096 TTTATTTTTTGTCTAATTATCTAACCTTTTAATAAATACATATTAATCAAATCGAGTGTTATTAA
261 TTTATTTTTTGTCTAATTATCTAACCTTTTAATAAATACATATTAATCAAATCGAGTGTTATTAA
14214161 TGCTATTCAATGGTTATTATTGCAGAAATAGATAACTTGCGTTACTTAAAACCTGATTGGTGTTG
326 TGCTATTCAATGGTTATTATTGCAGAAATAGATAACTTGCGTTACTTAAAACCTGATTGGTGTTG
14214226 GATTTCGAGTTTAAGAATTTGATTCGAGTCTAAATTTAATTTATGTTTAATGTAATTATTTTTTT
391 GATTTCGAGTTTAAGAATTTGATTCGAGTCTAAATTTAATTTATGTTTAATGTAATTATTTTTTT
*
14214291 GTTAGTAGCTTTCATGTTTATTTCACGGTTCATATTCAACGAACAAAAAATGATTTTTTCTATCA
456 GTTAGTAGCTTTCATGTTTATTTCACGGTTCATATTCAACAAACAAAAAATGATTTTTTCTATCA
14214356 CCGAAATATCGAAAAAAAAATAAGGAGCCTACTTTTTCGTATTTTTGGGCATGACTAGTTTGAAC
521 CCGAAATATCG-AAAAAAAATAAGGAGCCTACTTTTTCGTATTTTTGGGCATGACTAGTTTGAAC
14214421 ATTCTAAACATTTCGCGTTGCGCACGTCGTACAAGTGCACCCCAACCCCGATAGATTTGGACTTG
585 ATTCTAAACATTTCGCGTTGCGCACGTCGTACAAGTGCACCCCAACCCCGATAGATTTGGACTTG
14214486 CACCCCCTATGCAAGAGGTAAGGTTCCAAACTTAGTCATTCAATTATTTTTCAAGAGGGTTCCCA
650 CACCCCCTATGCAAGAGGTAAGGTTCCAAACTTAGTCATTCAATTATTTTTCAAGAGGGTTCCCA
*
14214551 TATATAAACACATCTCACACTTGGTATTTAACCAATGTGAGATCTAAGCTTTTCTTTTCCTCAAC
715 TATATAAACACATCTCACACTTGGTATTTAACCAATGTGGGATCTAAGCTTTTCTTTTCCTCAAC
*
14214616 AAATATTTTCAACTAGCTTACTTTAAGTATCAATTTCTCATTCATCGCTAAACCATTTTGAGCAT
780 AAATATTTTCAACTAGCTTACTTTAAGCATCAATTTCTCATTCATCGCTAAACCATTTTGAGCAT
14214681 ATAATATACCGTTGTAAAGGTCTCATGGAGTATAATATGAAACCATAATTTTATGATTCAACTCT
845 ATAATATACCGTTGTAAAGGTCTCATGGAGTATAATATGAAACCATAATTTTATGATTCAACTCT
14214746 GTACCTTTACCTATTGAGAATATGCCTCAAAGTTCCGTAAAATGCAATTTTTCCAACAACGG
910 GTACCTTTACCTATTGAGAATATGCCTCAAAGTTCCGTAAAATGCAATTTTTCCAACAACGG
14214808 GTATGTTCAAAGCTTGTGGCTAGCAAGGATGCTTGCCAAGCAGGTAGATTGTCTCTAAAAGAGAG
1 GTATGTTCAAAGCTTGTGGCTAGCAAGGATGCTTGCCAAGCAGGTAGATTGTCTCTAAAAGAGAG
*
14214873 AGGTTTAGGTCTTTCAAGAAGACGCGTGCAGTCCAAGTCCCTTGCTAAGATAGAGGGTCAAATGG
66 AGGTTTAGGTCTTTCAAGAAGACGCGTGCAGTCCAAGTCCCTTGCTAAGATAGAGGGTCAAACGG
14214938 AGAGTAAGAATACGGGAG
131 AGAGTAAGAATACGGGAG
14214956 TTAAAACCTG
Statistics
Matches: 1908, Mismatches: 176, Indels: 21
0.91 0.08 0.01
Matches are distributed among these distances:
971 172 0.09
972 799 0.42
973 46 0.02
974 640 0.34
975 251 0.13
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.33
Consensus pattern (971 bp):
GTATGTTCAAAGCTTGTGGCTAGCAAGGATGCTTGCCAAGCAGGTAGATTGTCTCTAAAAGAGAG
AGGTTTAGGTCTTTCAAGAAGACGCGTGCAGTCCAAGTCCCTTGCTAAGATAGAGGGTCAAACGG
AGAGTAAGAATACGGGAGAGACAGTCACCAAGGCGTTCGAGTAGAGTCAAAGGATTGGTTACGAT
TATTTCTCAGATGGCTTGTCACGCTAGCACGTGTCCACCTGTAGTGGAAGTATAATAATTTACGA
TTTATTTTTTGTCTAATTATCTAACCTTTTAATAAATACATATTAATCAAATCGAGTGTTATTAA
TGCTATTCAATGGTTATTATTGCAGAAATAGATAACTTGCGTTACTTAAAACCTGATTGGTGTTG
GATTTCGAGTTTAAGAATTTGATTCGAGTCTAAATTTAATTTATGTTTAATGTAATTATTTTTTT
GTTAGTAGCTTTCATGTTTATTTCACGGTTCATATTCAACAAACAAAAAATGATTTTTTCTATCA
CCGAAATATCGAAAAAAAATAAGGAGCCTACTTTTTCGTATTTTTGGGCATGACTAGTTTGAACA
TTCTAAACATTTCGCGTTGCGCACGTCGTACAAGTGCACCCCAACCCCGATAGATTTGGACTTGC
ACCCCCTATGCAAGAGGTAAGGTTCCAAACTTAGTCATTCAATTATTTTTCAAGAGGGTTCCCAT
ATATAAACACATCTCACACTTGGTATTTAACCAATGTGGGATCTAAGCTTTTCTTTTCCTCAACA
AATATTTTCAACTAGCTTACTTTAAGCATCAATTTCTCATTCATCGCTAAACCATTTTGAGCATA
TAATATACCGTTGTAAAGGTCTCATGGAGTATAATATGAAACCATAATTTTATGATTCAACTCTG
TACCTTTACCTATTGAGAATATGCCTCAAAGTTCCGTAAAATGCAATTTTTCCAACAACGG
Found at i:14215322 original size:88 final size:88
Alignment explanation
Indices: 14215173--14215353 Score: 346
Period size: 88 Copynumber: 2.1 Consensus size: 88
14215163 TTTGAACATT
*
14215173 CTAAACATTTCGCGTTGCGCACGTCGTACAAGTGCACCCCAACCCTGATAGATTTGGACTTGCAC
1 CTAAACATTTCGCGTTGCGCACGTCGTACAAGTGCACCCCAACCCCGATAGATTTGGACTTGCAC
14215238 CCCCTATGCAAGAGGTAAGGTTC
66 CCCCTATGCAAGAGGTAAGGTTC
14215261 CTAAACATTTCGCGTTGCGCACGTCGTACAAGTGCACCCCAACCCCGATAGATTTGGACTTGCAC
1 CTAAACATTTCGCGTTGCGCACGTCGTACAAGTGCACCCCAACCCCGATAGATTTGGACTTGCAC
14215326 CCCCTATGCAAGAGGTAAGGTTC
66 CCCCTATGCAAGAGGTAAGGTTC
14215349 C-AAAC
1 CTAAAC
14215354 TTAGTCATTC
Statistics
Matches: 92, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
87 4 0.04
88 88 0.96
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (88 bp):
CTAAACATTTCGCGTTGCGCACGTCGTACAAGTGCACCCCAACCCCGATAGATTTGGACTTGCAC
CCCCTATGCAAGAGGTAAGGTTC
Found at i:14218679 original size:971 final size:971
Alignment explanation
Indices: 14215264--14220998 Score: 8102
Period size: 971 Copynumber: 5.9 Consensus size: 971
14215254 AAGGTTCCTA
* *
14215264 AACATTTCGCGTTGCGCACGTCGTACAAGTGCACCCCAACCCCGATAGATTTGGACTTGCACCCC
1 AACATTTCGCGTTGCCCACGTTGTACAAGTGCACCCCAACCCCGATAGATTTGGACTTGCACCCC
14215329 CTATGCAAGAGGTAAGGTTCCAAACTTAGTCATTCAATTATTTTTCAAGAGGGTTCCCATATATA
66 CTATGCAAGAGGTAAGGTTCCAAACTTAGTCATTCAATTATTTTTCAAGAGGGTTCCCATATATA
* * *
14215394 AACACATCTCACACTTGGTGTTTAACCAATGTGGGATCTAAGCTTTTCTTTTTCCTCAACAAATA
131 AACACATATCACACTTGGTGTTTAACCAATGTGAGATCTGAGCTTTTC-TTTTCCTCAACAAATA
14215459 TTTTCAACTAGCTTACTTTAAGCATCAATTTCTCATTCATCGCTAAACCATTTTTAGCATATAAT
195 TTTTCAACTAGCTTACTTTAAGCATCAATTTCTCATTCATCGCTAAACCATTTTTAGCATATAAT
*
14215524 ATACCGTTGTAAAGGTCTCATGGAGTAGAATATGAAACCATAATTTTATGATTCAACTCTGTACC
260 ATACCGTTCTAAAGGTCTCATGGAGTAGAATATGAAACCATAATTTTATGATTCAACTCTGTACC
*
14215589 TTTACCTATTGAGAATATGCCTTAAAGTTCCGTAAAATGCAATTTTTCCAACAACGGGTATGTTC
325 TTTACCTATTGAGAATATGCCTCAAAGTTCCGTAAAATGCAATTTTTCCAACAACGGGTATGTTC
*
14215654 AAAGCTTGTGGCTAGCAAGAATGTTTGCCAAGCAGGTAGATTGTCTCTAAAAGCGGGAGGTTTAG
390 AAAGCTTGTGGCTAGCAAGGATGTTTGCCAAGCAGGTAGATTGTCTCTAAAAGCGGGAGGTTTAG
* * *
14215719 GTCTTTCAAGAAGACGCATGCAGTCCAAGTCCCTTGCTGAGATAGAGGGTCAAACAGAGAGTAAG
455 GTCTTTCAAGAAGACGCGTGCAGTCCAAGTCCCTTGCTAAGATAGAGGGTCAAACGGAGAGTAAG
* * *
14215784 AATATGGGAGAGACAGTCACCAAGGCGTTCGAGGAGAGCCGAATGATTGGTTACGGTTATTTCTC
520 AATATGGGAGAGACAGTCACCAAGGCGTTCGAGTAGAGCCGAAGGATTGGTTACGATTATTTCTC
* *
14215849 AGATGGCTTATCACGCTAGCACGTGTCCACCTGTAGTGGAAGTATAATAATTTACGGTTTATTTT
585 AGATGGCTTGTCACGCTGGCACGTGTCCACCTGTAGTGGAAGTATAATAATTTACGGTTTATTTT
14215914 TTGTCTGATTATCTAACCTTTTAATAAATACATATTAATCAAATCGAGTGTTATTAATGCTATTC
650 TTGTCTGATTATCTAACCTTTTAATAAATACATATTAATCAAATCGAGTGTTATTAATGCTATTC
******
14215979 AATGGTTATTATTGCAGAAATAAATAACTTGCGTTACTTAAAAC---------------NNNNNN
715 AATGGTTATTATTGCAGAAATAAATAACTTGCGTTACTTAAAACTTGATTGGTGTTGGATTTCGA
*****************************************************************
14216029 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
780 GTTTAAGAATTTGATTCGAGTCTAAATTTAATTTATGTTTAATGTAATTATTTTTTTGTTGGTAG
*****************************************************************
14216094 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
845 CTTTCATGTTTATTTCACGGTTCATATTCAACAAACAAAAGATGATTTTTTCTATCACCGAAATA
***************
14216159 NNNNNNNNNNNNNNNGAGCCTACTTTTTCGTATTTTTGGGCATGACTAGTTTGAACATTTTG
910 TCGAAAAAAAATTAAGAGCCTACTTTTTCGTATTTTTGGGCATGACTAGTTTGAACATTTTG
*
14216221 AACATTTCGCGTTGCCCACGTTGTACAAGTGCACCCCAACCCCGATAGATTTGGACTTGCACCCT
1 AACATTTCGCGTTGCCCACGTTGTACAAGTGCACCCCAACCCCGATAGATTTGGACTTGCACCCC
*
14216286 CTATGCAAGAGGTAAGGTTCCAAACTTAGTCATTCAATTATCTTTCAAGAGGGTTCCCATATATA
66 CTATGCAAGAGGTAAGGTTCCAAACTTAGTCATTCAATTATTTTTCAAGAGGGTTCCCATATATA
14216351 AACACATATCACACTTGGTGTTTAACCAATGTGAGATCTGAGCTTTTCTTTTCCTCAACAAATAT
131 AACACATATCACACTTGGTGTTTAACCAATGTGAGATCTGAGCTTTTCTTTTCCTCAACAAATAT
*
14216416 TTTCAACTAGCTTACTTTAAGTATCAATTTCTCATTCATCGCTAAACCATTTTTAGCATATAATA
196 TTTCAACTAGCTTACTTTAAGCATCAATTTCTCATTCATCGCTAAACCATTTTTAGCATATAATA
14216481 TACCGTTCTAAAGGTCTCATGGAGTAGAATATGAAACCATAATTTTATGATTCAACTCTGTACCT
261 TACCGTTCTAAAGGTCTCATGGAGTAGAATATGAAACCATAATTTTATGATTCAACTCTGTACCT
*
14216546 TTACCTATTGAGAATATGCCTTAAAGTTCCGTAAAATGCAATTTTTCCAACAACGGGTATGTTCA
326 TTACCTATTGAGAATATGCCTCAAAGTTCCGTAAAATGCAATTTTTCCAACAACGGGTATGTTCA
*
14216611 AAGCTTGTGGCTAGCAAGAATGTTTGCCAAGCAGGTAGATTGTCTCTAAAAGCGGGAGGTTTAGG
391 AAGCTTGTGGCTAGCAAGGATGTTTGCCAAGCAGGTAGATTGTCTCTAAAAGCGGGAGGTTTAGG
14216676 TCTTTCAAGAAGACGCGTGCAGTCCAAGTCCCTTGCTAAGATAGAGGGTCAAACGGAGAGTAAGA
456 TCTTTCAAGAAGACGCGTGCAGTCCAAGTCCCTTGCTAAGATAGAGGGTCAAACGGAGAGTAAGA
* *
14216741 ATATAGGAGAGACAATCACCAAGGCGTTCGAGTAGAGCCGAAGGATTGGTTACGATTATTTCTCA
521 ATATGGGAGAGACAGTCACCAAGGCGTTCGAGTAGAGCCGAAGGATTGGTTACGATTATTTCTCA
*
14216806 GATGGCTTGTCACGCTAGCACGTGTCCACCTGTAGTGGAAGTATAATAATTTACGGTTTATTTTT
586 GATGGCTTGTCACGCTGGCACGTGTCCACCTGTAGTGGAAGTATAATAATTTACGGTTTATTTTT
*
14216871 TGTCTAATTATCTAACCTTTTAATAAATACATATTAATCAAATCGAGTGTTATTAATGCTATTCA
651 TGTCTGATTATCTAACCTTTTAATAAATACATATTAATCAAATCGAGTGTTATTAATGCTATTCA
*
14216936 ATGGTTATTATTGCAGAAATAAATAACTTGCGTTACTTAAAACCTGATTGGTGTTGGATTTCGAG
716 ATGGTTATTATTGCAGAAATAAATAACTTGCGTTACTTAAAACTTGATTGGTGTTGGATTTCGAG
*
14217001 TTTAAGAATTTGATTCGAGTCTAAATTTAATTTATGTTTAATGTAATTATTTTTTTGTTAGTAGC
781 TTTAAGAATTTGATTCGAGTCTAAATTTAATTTATGTTTAATGTAATTATTTTTTTGTTGGTAGC
* *
14217066 TTTCATGTTTATTTCACGGTTCATATTCAACGAACAAAAAATGATTTTTTCTATCACCGAAATAT
846 TTTCATGTTTATTTCACGGTTCATATTCAACAAACAAAAGATGATTTTTTCTATCACCGAAATAT
* * *
14217131 CGAAAAAAAAATAAGGAGCCTACTTTTTCGTATTTTTGGGCATGACTAGTTTGAACATTCTA
911 CGAAAAAAAATTAA-GAGCCTACTTTTTCGTATTTTTGGGCATGACTAGTTTGAACATTTTG
* *
14217193 AACATTTCGCGTTGCGCACGTCGTACAAGTGCACCCCAACCCCGATAGATTTGGACTTGCACCCC
1 AACATTTCGCGTTGCCCACGTTGTACAAGTGCACCCCAACCCCGATAGATTTGGACTTGCACCCC
14217258 CTATGCAAGAGGTAAGGTTCCAAACTTAGTCATTCAATTATTTTTCAAGAGGGTTCCCATATATA
66 CTATGCAAGAGGTAAGGTTCCAAACTTAGTCATTCAATTATTTTTCAAGAGGGTTCCCATATATA
14217323 AACACATATCACACTTGGTGTTTAACCAATGTGAGATCTGAGCTTTTCTTTTCCTCAACAAATAT
131 AACACATATCACACTTGGTGTTTAACCAATGTGAGATCTGAGCTTTTCTTTTCCTCAACAAATAT
14217388 TTTCAACTAGCTTACTTTAAGCATCAATTTCTCATTCATCGCTAAACCATTTTTAGCATATAATA
196 TTTCAACTAGCTTACTTTAAGCATCAATTTCTCATTCATCGCTAAACCATTTTTAGCATATAATA
*
14217453 TACCGTTGTAAAGGTCTCATGGAGTAGAATATGAAACCATAATTTTATGATTCAACTCTGTACCT
261 TACCGTTCTAAAGGTCTCATGGAGTAGAATATGAAACCATAATTTTATGATTCAACTCTGTACCT
*
14217518 TTACCTATTGAGAATATGCCTTAAAGTTCCGTAAAATGCAATTTTTCCAACAACGGGTATGTTCA
326 TTACCTATTGAGAATATGCCTCAAAGTTCCGTAAAATGCAATTTTTCCAACAACGGGTATGTTCA
*
14217583 AAGCTTGTGGCTAGCAAGAATGTTTGCCAAGCAGGTAGATTGTCTCTAAAAGCGGGAGGTTTAGG
391 AAGCTTGTGGCTAGCAAGGATGTTTGCCAAGCAGGTAGATTGTCTCTAAAAGCGGGAGGTTTAGG
*
14217648 TCTTTCAAGAAGACGCGTGCAGTCCAAGTCCCTTGCTAAGATAGAGGGTCAAATGGAGAGTAAGA
456 TCTTTCAAGAAGACGCGTGCAGTCCAAGTCCCTTGCTAAGATAGAGGGTCAAACGGAGAGTAAGA
* * * *
14217713 ATACGGGAGCGACAGTCACCAAGGCGTTCGAGTAGAGTCAAAGGATTGGTTACGATTATTTCTCA
521 ATATGGGAGAGACAGTCACCAAGGCGTTCGAGTAGAGCCGAAGGATTGGTTACGATTATTTCTCA
*
14217778 GATGGCTTGTCACGCTGGCACGTGTCCACCTGCAGTGGAAGTATAATAATTTACGGTTTATTTTT
586 GATGGCTTGTCACGCTGGCACGTGTCCACCTGTAGTGGAAGTATAATAATTTACGGTTTATTTTT
* *
14217843 TGTCTGATTATCTAACCTTTTAACAAAAACATATTAATCAAATCGAGTGTTATTAATGCTATTCA
651 TGTCTGATTATCTAACCTTTTAATAAATACATATTAATCAAATCGAGTGTTATTAATGCTATTCA
14217908 ATGGTTATTATTGCAGAAATAAATAACTTGCGTTACTTAAAACTTGATTGGTGTTGGATTTCGAG
716 ATGGTTATTATTGCAGAAATAAATAACTTGCGTTACTTAAAACTTGATTGGTGTTGGATTTCGAG
14217973 TTTAAGAATTTGATTCGAGTCTAAATTTAATTTATGTTTAATGTAATTATTTTTTTGTTGGTAGC
781 TTTAAGAATTTGATTCGAGTCTAAATTTAATTTATGTTTAATGTAATTATTTTTTTGTTGGTAGC
14218038 TTTCATGTTTATTTCACGGTTCATATTCAACAAACAAAAGATGATTTTTTCTATCACCGAAATAT
846 TTTCATGTTTATTTCACGGTTCATATTCAACAAACAAAAGATGATTTTTTCTATCACCGAAATAT
14218103 CGAAAAAAAATTAAGAGCCTACTTTTTCGTATTTTTGGGCATGACTAGTTTGAACATTTTG
911 CGAAAAAAAATTAAGAGCCTACTTTTTCGTATTTTTGGGCATGACTAGTTTGAACATTTTG
*
14218164 AACATTTCGCGTTGCCCACGTTGTACAAGTGCACCCCAACCCCGATAGATTTGGACTTGCACCCT
1 AACATTTCGCGTTGCCCACGTTGTACAAGTGCACCCCAACCCCGATAGATTTGGACTTGCACCCC
14218229 CTATGCAAGAGGTAAGGTTCCAAACTTAGTCATTCAATTATTTTTCAAGAGGGTTCCCATATATA
66 CTATGCAAGAGGTAAGGTTCCAAACTTAGTCATTCAATTATTTTTCAAGAGGGTTCCCATATATA
* * *
14218294 AACACATCTCACACTTGGTATTTAACCAATGTGAGATCTAAGCTTTTCTTTTCCTCAACAAATAT
131 AACACATATCACACTTGGTGTTTAACCAATGTGAGATCTGAGCTTTTCTTTTCCTCAACAAATAT
* *
14218359 TTTCAACTAGCTTACTTTAAGTATCAATTTCTCATTCATCGCTAAACCATTTTGAGCATATAATA
196 TTTCAACTAGCTTACTTTAAGCATCAATTTCTCATTCATCGCTAAACCATTTTTAGCATATAATA
* *
14218424 TACCGTTGTAAAGGTCTCATGGAGTATAATATGAAACCATAATTTTATGATTCAACTCTGTACCT
261 TACCGTTCTAAAGGTCTCATGGAGTAGAATATGAAACCATAATTTTATGATTCAACTCTGTACCT
* * * *
14218489 TCACCTGTTGAGAATATGCCTCAAATTTCCGTAAAATGTAATTTTTCCAACAACGGGTATGTTCA
326 TTACCTATTGAGAATATGCCTCAAAGTTCCGTAAAATGCAATTTTTCCAACAACGGGTATGTTCA
* * *
14218554 AAGCTTGTGGCTAGCAAGGATGCTTGCCAAGCAGGTAGATTGTCTCTAAAAGAGAGAGGTTTAGG
391 AAGCTTGTGGCTAGCAAGGATGTTTGCCAAGCAGGTAGATTGTCTCTAAAAGCGGGAGGTTTAGG
14218619 TCTTTCAAGAAGACGCGTGCAGTCCAAGTCCCTTGCTAAGATAGAGGGTCAAACGGAGAGTAAGA
456 TCTTTCAAGAAGACGCGTGCAGTCCAAGTCCCTTGCTAAGATAGAGGGTCAAACGGAGAGTAAGA
* *
14218684 ATATAGGAGAGACAATCACCAAGGCGTTCGAGTAGAGCCGAAGGATTGGTTACGATTATTTCTCA
521 ATATGGGAGAGACAGTCACCAAGGCGTTCGAGTAGAGCCGAAGGATTGGTTACGATTATTTCTCA
*
14218749 GATGGCTTGTCATGCTGGCACGTGTCCACCTGTAGTGGAAGTATAATAATTTACGGTTTATTTTT
586 GATGGCTTGTCACGCTGGCACGTGTCCACCTGTAGTGGAAGTATAATAATTTACGGTTTATTTTT
14218814 TGTCTGATTATCTAACCTTTTAATAAATACATATTAATCAAATCGAGTGTTATTAATGCTATTCA
651 TGTCTGATTATCTAACCTTTTAATAAATACATATTAATCAAATCGAGTGTTATTAATGCTATTCA
*
14218879 ATGGTTATTATTGCAGAAATAAATAACTTGCGTTACTTAAAACCTGATTGGTGTTGGATTTCGAG
716 ATGGTTATTATTGCAGAAATAAATAACTTGCGTTACTTAAAACTTGATTGGTGTTGGATTTCGAG
*
14218944 TTTAAGAATTTGATTCGAGTCTAAATTTAATTTATGTTTAATGTAATTATTTTTTTGTTAGTAGC
781 TTTAAGAATTTGATTCGAGTCTAAATTTAATTTATGTTTAATGTAATTATTTTTTTGTTGGTAGC
14219009 TTTCATGTTTATTTCACGGTTCATATTCAACAAACAAAAGATGATTTTTTCTATCACCGAAATAT
846 TTTCATGTTTATTTCACGGTTCATATTCAACAAACAAAAGATGATTTTTTCTATCACCGAAATAT
14219074 CGAAAAAAAATTAAGAGCCTACTTTTTCGTATTTTTGGGCATGACTAGTTTGAACATTTTG
911 CGAAAAAAAATTAAGAGCCTACTTTTTCGTATTTTTGGGCATGACTAGTTTGAACATTTTG
14219135 AACATTTCGCGTTGCCCACGTTGTACAAGTGCACCCCAACCCCGATAGATTTGGACTTGCACCCC
1 AACATTTCGCGTTGCCCACGTTGTACAAGTGCACCCCAACCCCGATAGATTTGGACTTGCACCCC
*
14219200 CTATGCAAGAGGTAAGGTTCCAAACTTAGTCATTCAATTATCTTTCAAGAGGGTTCCCATATATA
66 CTATGCAAGAGGTAAGGTTCCAAACTTAGTCATTCAATTATTTTTCAAGAGGGTTCCCATATATA
14219265 AACACATATCACACTTGGTGTTTAACCAATGTGAGATCTGAGCTTTTCTTTTCCTCAACAAATAT
131 AACACATATCACACTTGGTGTTTAACCAATGTGAGATCTGAGCTTTTCTTTTCCTCAACAAATAT
14219330 TTTCAACTAGCTTACTTTTAAGCATCAA-TTCTCATTCATCGCTAAACCATTTTTAGCATATAAT
196 TTTCAACTAGCTTAC-TTTAAGCATCAATTTCTCATTCATCGCTAAACCATTTTTAGCATATAAT
14219394 ATACCGTTCTAAAGGTCTCATGGAGTAGAATATGAAACCATAATTTTATGATTCAACTCTGTACC
260 ATACCGTTCTAAAGGTCTCATGGAGTAGAATATGAAACCATAATTTTATGATTCAACTCTGTACC
* * *
14219459 TTTACCTATTGAGAATATGCCTCAAAGTTCCGTAAAATGTAATTTTTCTAACAATGGGTATGTTC
325 TTTACCTATTGAGAATATGCCTCAAAGTTCCGTAAAATGCAATTTTTCCAACAACGGGTATGTTC
*
14219524 AAAGCTTGTGGCTAGCAAGGATGTTTGCCAAGCAGGTAGATTGTCTCTAAAAGAGGGAGGTTTAG
390 AAAGCTTGTGGCTAGCAAGGATGTTTGCCAAGCAGGTAGATTGTCTCTAAAAGCGGGAGGTTTAG
* * * *
14219589 GTCTTTCAAGAAAACGCATGCAGTCCAAGTCCCTTGCTGAGATAGAGGGTCAAACAGAGAGTAAG
455 GTCTTTCAAGAAGACGCGTGCAGTCCAAGTCCCTTGCTAAGATAGAGGGTCAAACGGAGAGTAAG
* * *
14219654 AATATGGGAGAGACAGTCACCAAGGCGTTCGAGGAGAGCCGAATGATTGGTTACGGTTATTTCTC
520 AATATGGGAGAGACAGTCACCAAGGCGTTCGAGTAGAGCCGAAGGATTGGTTACGATTATTTCTC
* *
14219719 AGATGGCTTATCACGCTAGCACGTGTCCACCTGTAGTGGAAGTATAATAATTTACGGTTTATTTT
585 AGATGGCTTGTCACGCTGGCACGTGTCCACCTGTAGTGGAAGTATAATAATTTACGGTTTATTTT
* *
14219784 TTGTTTGATTATCTAACCTTTTAATAAATACATATTGATCAAATCGAGTGTTATTAATGCTATTC
650 TTGTCTGATTATCTAACCTTTTAATAAATACATATTAATCAAATCGAGTGTTATTAATGCTATTC
*
14219849 AATGGTTATTATTGCAGAAATAAATAACTTGCGTTACTTAAAA-TCTGATTGGTGTTGGATTTTG
715 AATGGTTATTATTGCAGAAATAAATAACTTGCGTTACTTAAAACT-TGATTGGTGTTGGATTTCG
* * * *
14219913 GGTTTAAGAATTTGATTCGAGTCTATATTTAATTGATGTTTAATGTAATCATTTTTTTGTTGGTA
779 AGTTTAAGAATTTGATTCGAGTCTAAATTTAATTTATGTTTAATGTAATTATTTTTTTGTTGGTA
* * * *
14219978 GCTTTCATGTTTCTTTCACGGTCCATATTCAACGAACAAAA-ATGTTTTTTTCTATCACCGAAAT
844 GCTTTCATGTTTATTTCACGGTTCATATTCAACAAACAAAAGATGATTTTTTCTATCACCGAAAT
* * * * * * * * * *
14220042 GTTGAAAAAAAAGGAGCCCATTTTTTAGTGTTGGGCTAAAATATCTACAAGCCCA-TTTTGAGCA
909 ATCG--AAAAAA--A----A----TTA-AG--AGCCT--ACT-TTTTC--G--TATTTTTGGGCA
* * ***
14220106 TGACCAGTTTAAACATTCCA
952 TGACTAGTTTGAACATTTTG
* ** * * ** *
14220126 AATATTTTTCGCGTTGCAGACGTAGTGCGGGTGCACCCCAA-CCCTA-ACGAGTTTGGACTTGCA
1 AACA--TTTCGCGTTGCCCACGTTGTACAAGTGCACCCCAACCCCGATA-GA-TTTGGACTTGCA
* * * * * * *
14220189 -CCCCTGTGCGCA-AGGCAAGGTTCCAAACTTAGTCATTCAATCATTTTTCAAAAGGATTCACAT
62 CCCCCTATGC-AAGAGGTAAGGTTCCAAACTTAGTCATTCAATTATTTTTCAAGAGGGTTCCCAT
* * * * *
14220252 ATAGAAACACATCTCACACTTGGTATTTAACCAATGTGAGATTTAAGCTTTTCTTTTCCTCAACA
126 ATATAAACACATATCACACTTGGTGTTTAACCAATGTGAGATCTGAGCTTTTCTTTTCCTCAACA
* * * * * *
14220317 AATATTTCCAAGTAGCTTACTTTGAGCATCAATTTCTCATTCATCAG-TCAGCCATTTTGAGCAT
191 AATATTTTCAACTAGCTTACTTTAAGCATCAATTTCTCATTCATC-GCTAAACCATTTTTAGCAT
* * * * *
14220381 ATGATATACCGTTATAAAGGTCTTATGGAGTAGAATATGAAAACATAGTTTTATGATTCAACTCT
255 ATAATATACCGTTCTAAAGGTCTCATGGAGTAGAATATGAAACCATAATTTTATGATTCAACTCT
* * * *
14220446 -TCACCTTTACCTATTGAGATTATGCCTCAAAGTTCCTATAAAATACATTTTTTCCAACAAC-GG
320 GT-ACCTTTACCTATTGAGAATATGCCTCAAAGTTCC-GTAAAATGCAATTTTTCCAACAACGGG
* * * * *
14220509 TATGTTCAAAACTTGTGGCTAGCAAGGATGTTTGCCAAGCAAGTGGATTATCTCTAGAAGCGGGA
383 TATGTTCAAAGCTTGTGGCTAGCAAGGATGTTTGCCAAGCAGGTAGATTGTCTCTAAAAGCGGGA
** * * *
14220574 GGTTTAACTCTTTCAAGAAGACGCATGCAGTCCAAGTCTCTTGCTGAGATAGAGGGTCAAACGGA
448 GGTTTAGGTCTTTCAAGAAGACGCGTGCAGTCCAAGTCCCTTGCTAAGATAGAGGGTCAAACGGA
* * * *
14220639 GAGTAAGAATCTGGGAGAGACAGTCACCAAGGCGTTCTAGTAGAGCCAAATGATTGGTTACGATT
513 GAGTAAGAATATGGGAGAGACAGTCACCAAGGCGTTCGAGTAGAGCCGAAGGATTGGTTACGATT
*
14220704 ATTTCTCAGATGGTTTGTCACGCTGGCACGTGTCCACCTGTAGTGGAAGTATAATAATTTACGGT
578 ATTTCTCAGATGGCTTGTCACGCTGGCACGTGTCCACCTGTAGTGGAAGTATAATAATTTACGGT
* * * * *
14220769 TTATTTTTTGTCCGATTGTCTAACATTCTAATAAATACATATTGATCAAATCGAGTGTTATTAAT
643 TTATTTTTTGTCTGATTATCTAACCTTTTAATAAATACATATTAATCAAATCGAGTGTTATTAAT
* * *
14220834 GCTATTCAATGGTTATTATTGCAGAAGTAAATAACTTGCATTACTTAAAATTTGATTGGTGTTGG
708 GCTATTCAATGGTTATTATTGCAGAAATAAATAACTTGCGTTACTTAAAACTTGATTGGTGTTGG
* * * *
14220899 ATTTCAAGTTTAAGAATTTGATTTGAGTCTAAATTTAATTGATGGTTAATGTAATTATTTTTTTG
773 ATTTCGAGTTTAAGAATTTGATTCGAGTCTAAATTTAATTTATGTTTAATGTAATTATTTTTTTG
* *
14220964 TTGGTAGCTTTCATGTCTATTTAACGGTTCATATT
838 TTGGTAGCTTTCATGTTTATTTCACGGTTCATATT
14220999 TAAGCTTCAT
Statistics
Matches: 4368, Mismatches: 360, Indels: 65
0.91 0.08 0.01
Matches are distributed among these distances:
956 568 0.13
957 171 0.04
970 24 0.01
971 1816 0.42
972 963 0.22
974 1 0.00
978 1 0.00
982 3 0.00
983 1 0.00
985 3 0.00
987 2 0.00
988 3 0.00
990 1 0.00
991 39 0.01
992 710 0.16
993 62 0.01
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.33
Consensus pattern (971 bp):
AACATTTCGCGTTGCCCACGTTGTACAAGTGCACCCCAACCCCGATAGATTTGGACTTGCACCCC
CTATGCAAGAGGTAAGGTTCCAAACTTAGTCATTCAATTATTTTTCAAGAGGGTTCCCATATATA
AACACATATCACACTTGGTGTTTAACCAATGTGAGATCTGAGCTTTTCTTTTCCTCAACAAATAT
TTTCAACTAGCTTACTTTAAGCATCAATTTCTCATTCATCGCTAAACCATTTTTAGCATATAATA
TACCGTTCTAAAGGTCTCATGGAGTAGAATATGAAACCATAATTTTATGATTCAACTCTGTACCT
TTACCTATTGAGAATATGCCTCAAAGTTCCGTAAAATGCAATTTTTCCAACAACGGGTATGTTCA
AAGCTTGTGGCTAGCAAGGATGTTTGCCAAGCAGGTAGATTGTCTCTAAAAGCGGGAGGTTTAGG
TCTTTCAAGAAGACGCGTGCAGTCCAAGTCCCTTGCTAAGATAGAGGGTCAAACGGAGAGTAAGA
ATATGGGAGAGACAGTCACCAAGGCGTTCGAGTAGAGCCGAAGGATTGGTTACGATTATTTCTCA
GATGGCTTGTCACGCTGGCACGTGTCCACCTGTAGTGGAAGTATAATAATTTACGGTTTATTTTT
TGTCTGATTATCTAACCTTTTAATAAATACATATTAATCAAATCGAGTGTTATTAATGCTATTCA
ATGGTTATTATTGCAGAAATAAATAACTTGCGTTACTTAAAACTTGATTGGTGTTGGATTTCGAG
TTTAAGAATTTGATTCGAGTCTAAATTTAATTTATGTTTAATGTAATTATTTTTTTGTTGGTAGC
TTTCATGTTTATTTCACGGTTCATATTCAACAAACAAAAGATGATTTTTTCTATCACCGAAATAT
CGAAAAAAAATTAAGAGCCTACTTTTTCGTATTTTTGGGCATGACTAGTTTGAACATTTTG
Found at i:14221536 original size:5 final size:5
Alignment explanation
Indices: 14221526--14221551 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
14221516 AGTGAGAAAC
14221526 CTGCA CTGCA CTGCA CTGCA CTGCA C
1 CTGCA CTGCA CTGCA CTGCA CTGCA C
14221552 CCTTTTCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.42, G:0.19, T:0.19
Consensus pattern (5 bp):
CTGCA
Found at i:14225464 original size:13 final size:13
Alignment explanation
Indices: 14225446--14225470 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14225436 AGTTCTTTCT
14225446 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
14225459 TGCTTTTGAGAA
1 TGCTTTTGAGAA
14225471 ATTTGAGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.08, G:0.28, T:0.40
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:14227775 original size:18 final size:18
Alignment explanation
Indices: 14227754--14227819 Score: 96
Period size: 18 Copynumber: 3.7 Consensus size: 18
14227744 CCCATCAATT
*
14227754 TGAACATCATTTGACATG
1 TGAACATCATTTGAAATG
14227772 TGAACATCATTTGAAATG
1 TGAACATCATTTGAAATG
* **
14227790 TAAACATCATTCAAAATG
1 TGAACATCATTTGAAATG
14227808 TGAACATCATTT
1 TGAACATCATTT
14227820 CTCATATTCT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 42 1.00
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.33
Consensus pattern (18 bp):
TGAACATCATTTGAAATG
Found at i:14230420 original size:15 final size:15
Alignment explanation
Indices: 14230397--14230440 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
14230387 AAATTTAAGA
14230397 ACAGGTAAATGAAAG
1 ACAGGTAAATGAAAG
* *
14230412 ACAGTTAAA--CAAG
1 ACAGGTAAATGAAAG
14230425 ACAGGTAAATGAAAG
1 ACAGGTAAATGAAAG
14230440 A
1 A
14230441 AACAAAACAT
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
13 11 0.48
15 12 0.52
ACGTcount: A:0.55, C:0.09, G:0.23, T:0.14
Consensus pattern (15 bp):
ACAGGTAAATGAAAG
Found at i:14230897 original size:29 final size:29
Alignment explanation
Indices: 14230840--14230895 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
14230830 CTCCAATTTC
14230840 ACCAGCAGAGGGGAAAGAACATTTGGGGA
1 ACCAGCAGAGGGGAAAGAACATTTGGGGA
*
14230869 ACCAGCAGAGGGGAAA-AACGTTTGGGG
1 ACCAGCAGAGGGGAAAGAACATTTGGGG
14230896 GAGAAGACAG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 10 0.38
29 16 0.62
ACGTcount: A:0.36, C:0.14, G:0.39, T:0.11
Consensus pattern (29 bp):
ACCAGCAGAGGGGAAAGAACATTTGGGGA
Found at i:14240974 original size:5 final size:5
Alignment explanation
Indices: 14240964--14240992 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
14240954 TTTAAGCATA
14240964 TATAT TATAT TATAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATA
14240993 ATAAAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:14241233 original size:39 final size:39
Alignment explanation
Indices: 14241104--14241257 Score: 139
Period size: 40 Copynumber: 3.8 Consensus size: 39
14241094 AGCGGCACTT
** *
14241104 TTAGCGGCGTTTGGACAAAAAACGCCGGTAAAAATCAAGCA
1 TTAGCGGCGTTTTTA-AAAAAACGCCGCTAAAAAT-AAGCA
* ** * * * *
14241145 TTAGCGGCG-CTTTATGGAAATCGCCACTAAAGATTGAGCA
1 TTAGCGGCGTTTTTA-AAAAAACGCCGCTAAA-AATAAGCA
* *
14241185 TTAGTGGCGTTTTTAAAAAAATGCCGCTAAAAATAAGCA
1 TTAGCGGCGTTTTTAAAAAAACGCCGCTAAAAATAAGCA
*
14241224 TTAGCGGCGTTTTTCAAAAAAACGCCGCAAAAAA
1 TTAGCGGCGTTTTT-AAAAAAACGCCGCTAAAAA
14241258 CCTAAGCCCA
Statistics
Matches: 87, Mismatches: 23, Indels: 7
0.74 0.20 0.06
Matches are distributed among these distances:
39 19 0.22
40 53 0.61
41 15 0.17
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (39 bp):
TTAGCGGCGTTTTTAAAAAAACGCCGCTAAAAATAAGCA
Found at i:14241345 original size:41 final size:40
Alignment explanation
Indices: 14241293--14241408 Score: 162
Period size: 41 Copynumber: 2.8 Consensus size: 40
14241283 GACATTTCGT
14241293 GGCTTTAGCGGCGATTTTCGAAAAGCGCCGCTAATGCGT-GG
1 GGCTTTAGCGGCG-TTTTCGAAAAGCGCCGCTAATG-GTAGG
* *
14241334 GTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGGTAGG
1 GGCTTTAGCGGCG-TTTTCGAAAAGCGCCGCTAATGGTAGG
*
14241375 GGCTTTAGCGGCGTTTTTGATAAAGCGCCGCTAA
1 GGCTTTAGCGGCGTTTTCGA-AAAGCGCCGCTAA
14241409 AAACATTTTA
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
40 8 0.12
41 60 0.88
ACGTcount: A:0.20, C:0.20, G:0.33, T:0.28
Consensus pattern (40 bp):
GGCTTTAGCGGCGTTTTCGAAAAGCGCCGCTAATGGTAGG
Found at i:14241651 original size:22 final size:22
Alignment explanation
Indices: 14241626--14241703 Score: 65
Period size: 22 Copynumber: 3.6 Consensus size: 22
14241616 GAGTTACTGT
14241626 TTTAAGGTTTAGGGAGTATGGA
1 TTTAAGGTTTAGGGAGTATGGA
* * * *
14241648 TTTAAGGATTATGGATTAGGGA
1 TTTAAGGTTTAGGGAGTATGGA
*
14241670 TTGT--GGTTTAAGG-GT-TGAGA
1 TT-TAAGGTTTAGGGAGTATG-GA
14241690 TTTAAGGTTTAGGG
1 TTTAAGGTTTAGGG
14241704 GGTTAGTGGT
Statistics
Matches: 43, Mismatches: 9, Indels: 9
0.70 0.15 0.15
Matches are distributed among these distances:
19 2 0.05
20 5 0.12
21 15 0.35
22 20 0.47
23 1 0.02
ACGTcount: A:0.26, C:0.00, G:0.36, T:0.38
Consensus pattern (22 bp):
TTTAAGGTTTAGGGAGTATGGA
Found at i:14241660 original size:15 final size:15
Alignment explanation
Indices: 14241642--14241682 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
14241632 GTTTAGGGAG
14241642 TATGGATTTAAGGAT
1 TATGGATTTAAGGAT
*
14241657 TATGGA-TTAGGGAT
1 TATGGATTTAAGGAT
*
14241671 TGTGG-TTTAAGG
1 TATGGATTTAAGG
14241683 GTTGAGATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 16 0.73
15 6 0.27
ACGTcount: A:0.27, C:0.00, G:0.34, T:0.39
Consensus pattern (15 bp):
TATGGATTTAAGGAT
Found at i:14241718 original size:15 final size:15
Alignment explanation
Indices: 14241698--14241731 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
14241688 GATTTAAGGT
*
14241698 TTAGGGGGTTAGTGG
1 TTAGGGGGTTAGGGG
*
14241713 TTAGGGGTTTAGGGG
1 TTAGGGGGTTAGGGG
14241728 TTAG
1 TTAG
14241732 ATGTTATGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.00, G:0.50, T:0.35
Consensus pattern (15 bp):
TTAGGGGGTTAGGGG
Found at i:14241727 original size:22 final size:24
Alignment explanation
Indices: 14241695--14241744 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
14241685 TGAGATTTAA
14241695 GGTTTAGGGGGTTAG-TGGTTA-GG
1 GGTTTAGGGGGTTAGAT-GTTATGG
14241718 GGTTTA-GGGGTTAGATGTTATGG
1 GGTTTAGGGGGTTAGATGTTATGG
14241741 GGTT
1 GGTT
14241745 AAGAGTTAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 12 0.48
23 13 0.52
ACGTcount: A:0.14, C:0.00, G:0.48, T:0.38
Consensus pattern (24 bp):
GGTTTAGGGGGTTAGATGTTATGG
Found at i:14242231 original size:19 final size:19
Alignment explanation
Indices: 14242209--14242293 Score: 57
Period size: 19 Copynumber: 4.2 Consensus size: 19
14242199 AAATAAAAAA
14242209 CTAAAATTTATAATATTAT
1 CTAAAATTTATAATATTAT
* *
14242228 CT-AATTCTTGTAAATATTA-
1 CTAAAAT-TTAT-AATATTAT
*
14242247 CTTAAAATTTTAATAATTCTTTAT
1 C-TAAAA-TTT-ATAA-T-ATTAT
*
14242271 GTAAAATTTATAATATTAT
1 CTAAAATTTATAATATTAT
14242290 CTAA
1 CTAA
14242294 TTCTTGTAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 18
0.65 0.11 0.24
Matches are distributed among these distances:
18 3 0.06
19 13 0.27
20 9 0.18
21 10 0.20
22 6 0.12
23 8 0.16
ACGTcount: A:0.42, C:0.07, G:0.02, T:0.48
Consensus pattern (19 bp):
CTAAAATTTATAATATTAT
Found at i:14242267 original size:31 final size:31
Alignment explanation
Indices: 14242229--14242329 Score: 114
Period size: 31 Copynumber: 3.3 Consensus size: 31
14242219 TAATATTATC
14242229 TAATTCTTGTAAATATTACTTAAAATTTTAA
1 TAATTCTTGTAAATATTACTTAAAATTTTAA
** ** * * * *
14242260 TAATTCTT-TATGTAAAATTTATAATATTATC
1 TAATTCTTGTAAATATTACTTAAAATTTTA-A
14242291 TAATTCTTGTAAATATTACTTAAAATTTTAA
1 TAATTCTTGTAAATATTACTTAAAATTTTAA
14242322 TAATTCTT
1 TAATTCTT
14242330 TATGTAAAAT
Statistics
Matches: 52, Mismatches: 16, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
30 14 0.27
31 24 0.46
32 14 0.27
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (31 bp):
TAATTCTTGTAAATATTACTTAAAATTTTAA
Found at i:14242276 original size:62 final size:62
Alignment explanation
Indices: 14242210--14242344 Score: 270
Period size: 62 Copynumber: 2.2 Consensus size: 62
14242200 AATAAAAAAC
14242210 TAAAATTTATAATATTATCTAATTCTTGTAAATATTACTTAAAATTTTAATAATTCTTTATG
1 TAAAATTTATAATATTATCTAATTCTTGTAAATATTACTTAAAATTTTAATAATTCTTTATG
14242272 TAAAATTTATAATATTATCTAATTCTTGTAAATATTACTTAAAATTTTAATAATTCTTTATG
1 TAAAATTTATAATATTATCTAATTCTTGTAAATATTACTTAAAATTTTAATAATTCTTTATG
14242334 TAAAATTTATA
1 TAAAATTTATA
14242345 TAAAAGATAC
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 73 1.00
ACGTcount: A:0.41, C:0.06, G:0.03, T:0.50
Consensus pattern (62 bp):
TAAAATTTATAATATTATCTAATTCTTGTAAATATTACTTAAAATTTTAATAATTCTTTATG
Found at i:14246494 original size:43 final size:42
Alignment explanation
Indices: 14246447--14246691 Score: 233
Period size: 42 Copynumber: 5.7 Consensus size: 42
14246437 ATGGCACTTT
* *
14246447 TAGCGGTGTTTGTGAAAAAAGCGTCGCTAAAAGTCATGATCTA
1 TAGCGGCGTTTGTG-AAAAAGCGCCGCTAAAAGTCATGATCTA
* * * *
14246490 TAGCGGCGTTTATAAAAAAAAACGCCGCT-AAAGATCTTGATCTA
1 TAGCGGCGTTTGT--GAAAAAGCGCCGCTAAAAG-TCATGATCTA
* * * * *
14246534 TAACGGCGTTTGTGTAAAAGCACCGCTAAAGGTCTTGATCTA
1 TAGCGGCGTTTGTGAAAAAGCGCCGCTAAAAGTCATGATCTA
* * *
14246576 TAGCGGCGTTTGTGTAAAAGCGCCGCTAAAGGTCCTGATCTA
1 TAGCGGCGTTTGTGAAAAAGCGCCGCTAAAAGTCATGATCTA
* * *
14246618 TAGCGGCGTTTGTGGGAAAAGCGCCGCT-AAAGATCATGGTCTT
1 TAGCGGCGTTTGT-GAAAAAGCGCCGCTAAAAG-TCATGATCTA
* * *
14246661 TAGAGGCGTTTGTGGGAAAAGTGCCGCTAAA
1 TAGCGGCGTTTGT-GAAAAAGCGCCGCTAAA
14246692 GTTAGCGACG
Statistics
Matches: 172, Mismatches: 23, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
42 75 0.44
43 64 0.37
44 33 0.19
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (42 bp):
TAGCGGCGTTTGTGAAAAAGCGCCGCTAAAAGTCATGATCTA
Done.