Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 24 of 290
Found at i:8005870 original size:6 final size:6
Alignment explanation
Indices: 8005859--8005933 Score: 150
Period size: 6 Copynumber: 12.5 Consensus size: 6
8005849 AAAAGTCTTC
8005859 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
8005907 AAAGAA AAAGAA AAAGAA AAAGAA AAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAA
8005934 AATAATAAAA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 69 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:8007561 original size:23 final size:23
Alignment explanation
Indices: 8007529--8007574 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
8007519 AGAGACAAAG
*
8007529 AGAAATAAAATAAAATAA-AATAA
1 AGAAACAAAATAAAA-AATAATAA
8007552 AGAAACAAAATAAAAAATAATAA
1 AGAAACAAAATAAAAAATAATAA
8007575 TTAAACTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 2 0.10
23 19 0.90
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.15
Consensus pattern (23 bp):
AGAAACAAAATAAAAAATAATAA
Found at i:8011252 original size:15 final size:14
Alignment explanation
Indices: 8011235--8011261 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8011225 AAGCAATTTA
8011235 AAAAGAAAAATTAG
1 AAAAGAAAAATTAG
8011249 AAAAGAAAAATTA
1 AAAAGAAAAATTA
8011262 AGCTAAAAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.15
Consensus pattern (14 bp):
AAAAGAAAAATTAG
Found at i:8017180 original size:16 final size:16
Alignment explanation
Indices: 8017159--8017189 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8017149 CTGAAACTAG
*
8017159 ACTCATATATCTACTT
1 ACTCATATAGCTACTT
8017175 ACTCATATAGCTACT
1 ACTCATATAGCTACT
8017190 CTGACCCCTG
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:0.32, C:0.26, G:0.03, T:0.39
Consensus pattern (16 bp):
ACTCATATAGCTACTT
Found at i:8025391 original size:30 final size:29
Alignment explanation
Indices: 8025334--8025412 Score: 83
Period size: 30 Copynumber: 2.8 Consensus size: 29
8025324 TATAAGAAGC
* *
8025334 TCAATTAATCAA--TATGAGTTATCAAAT
1 TCAAATAATCAATTTATAAGTTATCAAAT
* *
8025361 T-AAATTAATTAATTTTATAAGTTATTAAAT
1 TCAAA-TAATCAA-TTTATAAGTTATCAAAT
8025391 TCAAATAATCAATTTATAAGTT
1 TCAAATAATCAATTTATAAGTT
8025413 TATGATATTC
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
26 2 0.05
27 7 0.17
29 10 0.24
30 20 0.48
31 3 0.07
ACGTcount: A:0.46, C:0.06, G:0.05, T:0.43
Consensus pattern (29 bp):
TCAAATAATCAATTTATAAGTTATCAAAT
Found at i:8032724 original size:42 final size:42
Alignment explanation
Indices: 8032665--8032753 Score: 160
Period size: 42 Copynumber: 2.1 Consensus size: 42
8032655 TCCTAATTGG
8032665 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
*
8032707 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
*
8032749 TAAAA
1 GAAAA
8032754 ATATTCCTAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.52, C:0.15, G:0.06, T:0.28
Consensus pattern (42 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
Found at i:8032774 original size:43 final size:42
Alignment explanation
Indices: 8032666--8032775 Score: 107
Period size: 42 Copynumber: 2.6 Consensus size: 42
8032656 CCTAATTGGG
* * * *
8032666 AAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAAG
1 AAAATAGTTCCCTGAATATAATAAACTACTAAAACATAAAAA
* * * *
8032708 AAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAATA
1 AAAATAGTTCCCTGAATATAATAAACTACTAAAACATAAAA-A
8032751 AAAATA-TT-CCTAGAATATGAATAAA
1 AAAATAGTTCCCT-GAATAT-AATAAA
8032776 ACTTATCTAC
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
41 3 0.05
42 45 0.75
43 12 0.20
ACGTcount: A:0.52, C:0.14, G:0.05, T:0.29
Consensus pattern (42 bp):
AAAATAGTTCCCTGAATATAATAAACTACTAAAACATAAAAA
Found at i:8045434 original size:43 final size:43
Alignment explanation
Indices: 8045383--8045469 Score: 108
Period size: 43 Copynumber: 2.0 Consensus size: 43
8045373 ATATGTGATT
**
8045383 TCGATATGTGTTTACGA-GTAAGACC-CTGTCTGGGACAG-TGGCA
1 TCGATATGTGACTAC-ATGTAAGACCAC-GTCTGGGAC-GTTGGCA
8045426 TCGATATGTGACTACATGTAAGACCACGTCTGGGACGTTGGCA
1 TCGATATGTGACTACATGTAAGACCACGTCTGGGACGTTGGCA
8045469 T
1 T
8045470 TGTACGACTT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
42 2 0.05
43 36 0.92
44 1 0.03
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.28
Consensus pattern (43 bp):
TCGATATGTGACTACATGTAAGACCACGTCTGGGACGTTGGCA
Found at i:8047015 original size:50 final size:50
Alignment explanation
Indices: 8046891--8047132 Score: 292
Period size: 50 Copynumber: 4.8 Consensus size: 50
8046881 AGCCGAAGCT
* * * *
8046891 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACATGCGACC-AACA
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
* *
8046940 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACC
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
* * *
8046990 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTC
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CC
* * * * *
8047041 AT-TGAGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTTAA-C
1 ATCTGA-TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
* *
8047090 AGTATGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTG
1 A-TCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTG
8047133 TACTCACAAT
Statistics
Matches: 165, Mismatches: 23, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
49 43 0.26
50 82 0.50
51 40 0.24
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.25
Consensus pattern (50 bp):
ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
Found at i:8047101 original size:101 final size:99
Alignment explanation
Indices: 8046894--8047132 Score: 304
Period size: 101 Copynumber: 2.4 Consensus size: 99
8046884 CGAAGCTATC
* * * *
8046894 TGATACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCTGGTACACGTAGTAGC
1 TGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAACAATCTGGTACACATAGTAGC
* * *
8046959 CTGCACTTAGTACTACACACGTGACCTCACCATC
66 CTGCACTTAGTACTACACACGCGACCTCAACATA
* *
8046993 TGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTC-AT-TGAGTACGCATAG
1 TGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA--CAATCTG-GTACACATAG
* *
8047056 TAGCCTGCACTTAGTACTACACATGCGA-CTTAACAGTA
62 TAGCCTGCACTTAGTACTACACACGCGACCTCAACA-TA
*
8047094 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTG
1 TGATACACGTAGTAGCCTGCACTTAGTACTACACACGTG
8047133 TACTCACAAT
Statistics
Matches: 123, Mismatches: 12, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
99 37 0.30
100 10 0.08
101 75 0.61
102 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.25
Consensus pattern (99 bp):
TGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAACAATCTGGTACACATAGTAGC
CTGCACTTAGTACTACACACGCGACCTCAACATA
Found at i:8062007 original size:14 final size:14
Alignment explanation
Indices: 8061988--8062018 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
8061978 AAACCTTATC
8061988 TACTAACACATATT
1 TACTAACACATATT
8062002 TACTAACACATATT
1 TACTAACACATATT
8062016 TAC
1 TAC
8062019 CTAAAGGGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (14 bp):
TACTAACACATATT
Found at i:8065248 original size:16 final size:16
Alignment explanation
Indices: 8065202--8065248 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
8065192 ACAACTTTAC
*
8065202 ATGGCTCGCATTTTTG
1 ATGGCTCGCATCTTTG
*
8065218 CTGAGCTCGC-TCTTTG
1 ATG-GCTCGCATCTTTG
*
8065234 ATGGCTCGCAACTTT
1 ATGGCTCGCATCTTT
8065249 ACAACTAGCG
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 6 0.24
16 13 0.52
17 6 0.24
ACGTcount: A:0.13, C:0.26, G:0.23, T:0.38
Consensus pattern (16 bp):
ATGGCTCGCATCTTTG
Found at i:8066043 original size:66 final size:66
Alignment explanation
Indices: 8065923--8066054 Score: 178
Period size: 66 Copynumber: 2.0 Consensus size: 66
8065913 TCTGAAGATA
* * * * * *
8065923 TAGCTGGAGTTCATCATATTTTCTTGTTGCCTCTGCTTTCCTTGTTGCTGCCTCCGCTTTAAGTT
1 TAGCTGGAGTTCATCATATTTTCTTGTAGCCTCTACTTTCCTCGATGCTACCTCCACTTTAAGTT
8065988 G
66 G
8065989 TAGCTGGAGTTCATCATATTTTCTT-TAAGCCTCTAC-TTCTCTCGATGCTACCTCCACTTTAAG
1 TAGCTGGAGTTCATCATATTTTCTTGT-AGCCTCTACTTTC-CTCGATGCTACCTCCACTTTAAG
8066052 TTG
64 TTG
8066055 AGCAATTTGC
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
65 4 0.07
66 54 0.93
ACGTcount: A:0.15, C:0.25, G:0.17, T:0.43
Consensus pattern (66 bp):
TAGCTGGAGTTCATCATATTTTCTTGTAGCCTCTACTTTCCTCGATGCTACCTCCACTTTAAGTT
G
Found at i:8069999 original size:22 final size:21
Alignment explanation
Indices: 8069943--8070024 Score: 60
Period size: 22 Copynumber: 3.7 Consensus size: 21
8069933 TCCGAGCTGA
*
8069943 TGAACAGTAAGCTCTATTGAGC
1 TGAACAGTAAGCTCT-TCGAGC
*
8069965 T-AAAATGGT-AGCTCTGTCGAGC
1 TGAACA--GTAAGCTCT-TCGAGC
*
8069987 TGAACAGTAAGCTCATACGAGC
1 TGAACAGTAAGCTC-TTCGAGC
*
8070009 TGAAACGGTAAGCTCT
1 TG-AACAGTAAGCTCT
8070025 AACAATCTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
21 5 0.10
22 26 0.54
23 17 0.35
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (21 bp):
TGAACAGTAAGCTCTTCGAGC
Found at i:8076918 original size:13 final size:13
Alignment explanation
Indices: 8076900--8076924 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8076890 GTTTATTAAA
8076900 CTAATTAACTAAG
1 CTAATTAACTAAG
8076913 CTAATTAACTAA
1 CTAATTAACTAA
8076925 TTAAACTAAA
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:0.48, C:0.16, G:0.04, T:0.32
Consensus pattern (13 bp):
CTAATTAACTAAG
Found at i:8084041 original size:35 final size:35
Alignment explanation
Indices: 8083993--8084063 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
8083983 TAATTACTAG
8083993 TACTTTTACTCCTCGTGGATACAATATTCCCGATC
1 TACTTTTACTCCTCGTGGATACAATATTCCCGATC
*
8084028 TACTTTTAGTCCTCGTGGATACAATATTCCCGATC
1 TACTTTTACTCCTCGTGGATACAATATTCCCGATC
8084063 T
1 T
8084064 CACCATAACT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.23, C:0.27, G:0.13, T:0.38
Consensus pattern (35 bp):
TACTTTTACTCCTCGTGGATACAATATTCCCGATC
Found at i:8084227 original size:28 final size:28
Alignment explanation
Indices: 8084196--8084251 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
8084186 TTTATTACTT
8084196 TAGCCATTTTTACTTTTATTGCAATTTA
1 TAGCCATTTTTACTTTTATTGCAATTTA
8084224 TAGCCATTTTTACTTTTATTGCAATTTA
1 TAGCCATTTTTACTTTTATTGCAATTTA
8084252 CTTTTTGCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.14, G:0.07, T:0.54
Consensus pattern (28 bp):
TAGCCATTTTTACTTTTATTGCAATTTA
Found at i:8086105 original size:49 final size:49
Alignment explanation
Indices: 8086052--8086226 Score: 235
Period size: 49 Copynumber: 3.5 Consensus size: 49
8086042 TTGGTACGCA
8086052 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATG
** * * ***
8086101 TAGTAGCCTATACTTAGTACTACACACGTGACCGAAGTTAT-CGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AA-TTATCCG-GTACATG
* *
8086152 TAGTAGCCTGCACTTAGTACTACACATACGACCAATTATCTGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATG
8086201 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
8086227 CGTGACCTCA
Statistics
Matches: 106, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
49 63 0.59
50 7 0.07
51 36 0.34
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATG
Found at i:8086216 original size:100 final size:100
Alignment explanation
Indices: 8086045--8086233 Score: 342
Period size: 100 Copynumber: 1.9 Consensus size: 100
8086035 AGGTTATTTG
*
8086045 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATGTAGTAGCCT
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATACGACCAATTATCCGGTACATGTAGTAGCCT
*
8086110 ATACTTAGTACTACACACGTGACCGAAGTTATCGA
66 ACACTTAGTACTACACACGTGACCGAAGTTATCGA
*
8086145 GTACGCATAGTAGCCTGCACTTAGTACTACACATACGACCAATTATCTGGTACATGTAGTAGCCT
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATACGACCAATTATCCGGTACATGTAGTAGCCT
*
8086210 GCACTTAGTACTACACACGTGACC
66 ACACTTAGTACTACACACGTGACC
8086234 TCACAATAGA
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
100 85 1.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (100 bp):
GTACGCATAGTAGCCTGCACTTAGTACTACACATACGACCAATTATCCGGTACATGTAGTAGCCT
ACACTTAGTACTACACACGTGACCGAAGTTATCGA
Found at i:8086863 original size:30 final size:30
Alignment explanation
Indices: 8086829--8086887 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
8086819 CCAAAATCAT
8086829 ATTTTGGAAAAATTACAATTTTGCCCCTAA
1 ATTTTGGAAAAATTACAATTTTGCCCCTAA
** *
8086859 ATTTTGTCAAAATTACAGTTTTGCCCCTA
1 ATTTTGGAAAAATTACAATTTTGCCCCTA
8086888 GGCTCGTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.19, G:0.10, T:0.39
Consensus pattern (30 bp):
ATTTTGGAAAAATTACAATTTTGCCCCTAA
Found at i:8092018 original size:49 final size:48
Alignment explanation
Indices: 8091940--8092128 Score: 216
Period size: 49 Copynumber: 3.8 Consensus size: 48
8091930 GTAGACAAGG
* * *
8091940 TTATCTGGTACGCATAGCAGCCTGCACTTAGTACTACACATGCGACCAA
1 TTATC-GGTACACATAGTAGCCTGTACTTAGTACTACACATGCGACCAA
** * * * *
8091989 TTATTCGGTACATGTAGTAGCATGTACTTAGTACTACACACGTGATCGAA
1 TTA-TCGGTACACATAGTAGCCTGTACTTAGTACTACACATGCGA-CCAA
* *
8092039 GTTATCGAGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 -TTATCG-GTACACATAGTAGCCTGTACTTAGTACTACACATGCGACCAA
*
8092089 TTATCTGGTACACATAGTAGCCTATACTTAGTACTACACA
1 TTATC-GGTACACATAGTAGCCTGTACTTAGTACTACACA
8092129 CGTGACCTCA
Statistics
Matches: 115, Mismatches: 20, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
49 69 0.60
50 12 0.10
51 34 0.30
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (48 bp):
TTATCGGTACACATAGTAGCCTGTACTTAGTACTACACATGCGACCAA
Found at i:8092117 original size:100 final size:100
Alignment explanation
Indices: 8091939--8092133 Score: 313
Period size: 100 Copynumber: 1.9 Consensus size: 100
8091929 TGTAGACAAG
**
8091939 GTTATCTGGTACGCATAGCAGCCTGCACTTAGTACTACACATGCGACCAATTATTCGGTACATGT
1 GTTATCTGGTACGCATAGCAGCCTGCACTTAGTACTACACATGCGACCAATTATTCGGTACACAT
*
8092004 AGTAGCATGTACTTAGTACTACACACGTGATCGAA
66 AGTAGCATATACTTAGTACTACACACGTGATCGAA
*
8092039 GTTATC-GAGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTA-TCTGGTACAC
1 GTTATCTG-GTACGCATAGCAGCCTGCACTTAGTACTACACATGCGACCAATTATTC-GGTACAC
*
8092102 ATAGTAGCCTATACTTAGTACTACACACGTGA
64 ATAGTAGCATATACTTAGTACTACACACGTGA
8092134 CCTCACAATA
Statistics
Matches: 88, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
99 3 0.03
100 85 0.97
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.28
Consensus pattern (100 bp):
GTTATCTGGTACGCATAGCAGCCTGCACTTAGTACTACACATGCGACCAATTATTCGGTACACAT
AGTAGCATATACTTAGTACTACACACGTGATCGAA
Found at i:8092765 original size:30 final size:30
Alignment explanation
Indices: 8092731--8092789 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
8092721 CCAAAATCAT
8092731 ATTTTGGAAAAATTACAATTTTGCCCCTAA
1 ATTTTGGAAAAATTACAATTTTGCCCCTAA
** *
8092761 ATTTTGTCAAAATTACATTTTTGCCCCTA
1 ATTTTGGAAAAATTACAATTTTGCCCCTA
8092790 GGCTCGTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.19, G:0.08, T:0.41
Consensus pattern (30 bp):
ATTTTGGAAAAATTACAATTTTGCCCCTAA
Found at i:8116639 original size:19 final size:20
Alignment explanation
Indices: 8116604--8116649 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 20
8116594 CGGAAAGTAA
*
8116604 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATAATTTACT
8116624 TTTCTGG-AAATAATTTACT
1 TTTCTGGAAAATAATTTACT
8116643 TTTCTGG
1 TTTCTGG
8116650 TGTTTGGACG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.26, C:0.11, G:0.15, T:0.48
Consensus pattern (20 bp):
TTTCTGGAAAATAATTTACT
Found at i:8117195 original size:21 final size:22
Alignment explanation
Indices: 8117170--8117216 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
8117160 TTGTTCCATA
*
8117170 TTTTCTGAAATGACTTAAA-GT
1 TTTTCTAAAATGACTTAAAGGT
8117191 TTTTCTAAAATGACTTAAAGGT
1 TTTTCTAAAATGACTTAAAGGT
8117213 TTTT
1 TTTT
8117217 GTCTCACTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 18 0.75
22 6 0.25
ACGTcount: A:0.32, C:0.09, G:0.13, T:0.47
Consensus pattern (22 bp):
TTTTCTAAAATGACTTAAAGGT
Found at i:8117580 original size:17 final size:18
Alignment explanation
Indices: 8117554--8117589 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
8117544 GGGGTTGAGT
*
8117554 TTGCATCTTTG-ATAAGC
1 TTGCAACTTTGAATAAGC
8117571 TTGCAACTTTGAATAAGC
1 TTGCAACTTTGAATAAGC
8117589 T
1 T
8117590 CATAACTGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.39
Consensus pattern (18 bp):
TTGCAACTTTGAATAAGC
Found at i:8117596 original size:18 final size:17
Alignment explanation
Indices: 8117575--8117624 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
8117565 ATAAGCTTGC
8117575 AACTTTGAATAAGCTCAT
1 AACTTTGAATAAG-TCAT
* *
8117593 AACTGTGGATGAAGTCAT
1 AACTTTGAAT-AAGTCAT
*
8117611 AAATTTGAATAAGT
1 AACTTTGAATAAGT
8117625 TCGTAGGTAC
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
17 4 0.15
18 19 0.73
19 3 0.12
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.32
Consensus pattern (17 bp):
AACTTTGAATAAGTCAT
Found at i:8118206 original size:20 final size:20
Alignment explanation
Indices: 8118181--8118233 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
8118171 TCAGCCTTGT
8118181 TCCAATTCAAGAACAATATC
1 TCCAATTCAAGAACAATATC
*
8118201 TCCAATTCAAGAACAATATG
1 TCCAATTCAAGAACAATATC
8118221 TCCAATTCAAGAA
1 TCCAATTCAAGAA
8118234 AATTTTTGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.45, C:0.23, G:0.08, T:0.25
Consensus pattern (20 bp):
TCCAATTCAAGAACAATATC
Found at i:8121802 original size:435 final size:433
Alignment explanation
Indices: 8120954--8121819 Score: 1538
Period size: 435 Copynumber: 2.0 Consensus size: 433
8120944 AACAGGACAA
8120954 GAAAACTTACCCAATTAGGCCTTGAAAGCTTCTTTTCTCTCTCCTATGGTTTCCATGTATTTTTA
1 GAAAACTTACCCAATTAGGCCTTGAAAGCTTCTTTTCTCTCTCCTATGGTTTCCATGTATTTTTA
8121019 GGTTAAAGATGATGAAAATAAAATGATATAATTTCTTTTCATCTTTCAATTAATTAAGTATTTTG
66 GGTTAAAGATGATGAAAATAAAATGATATAATTTCTTTTCATCTTTCAATTAATTAAGTATTTTG
8121084 GTATTTCCAATTTAGTCCCTTGTCTTTTTCTATAATTCCATGGATGAGTCACCATAAAAATCTAC
131 GTATTTCCAATTTAGTCCCTTGTCTTTTTCTATAATTCCATGGATGAGTCACCATAAAAATCTAC
* * *
8121149 ATACTCTTATTACTGGTATAATTACCATATAAGGACCTTAAGTTTTGAATTCCATAGCTATTTGA
196 ATACTCTTATTAATGGTATAATTACCAGATAAAGACCTTAAGTTTTGAATTCCATAGCTATTTGA
* *
8121214 TCTTCATAGCTACTAGAATTCAACTTTTGCATTTTATGCGATTTAGTTCTTCTCGTAATTAGGCA
261 TCTTCATAGCTACTAGAATTCAACTTTCGCATTTTATGCGATTTAGTCCTTCTCGTAATTAGGCA
* *
8121279 CTAAATCGATAAAATTTTCATATCAAAAATTTCGCATGTCATTTCTATCATATTATGGGCCATAT
326 CTAAATCGATAAAATTTTCATATCAAAAATTTCGCATGTCATTTCTATCATATTACGAGCCATAT
8121344 GGTAAAATAAAAATAAAATATTTTTTGGATCGTATTTGTGGTCTT
391 GGTAAAATAAAAATAAAATA--TTTTGGATCGTATTTGTGGTCTT
*
8121389 GAAAGCTTACCCAATTAGGCCTTGAAAGCTTCTTTTCTCTCTCCTATGGTTTCCATGTATTTTTA
1 GAAAACTTACCCAATTAGGCCTTGAAAGCTTCTTTTCTCTCTCCTATGGTTTCCATGTATTTTTA
*
8121454 GGTTGAAGATGATGAAAATAAAATGATATAATTTCTTTTCATCTTTCAATTAATTAAGTATTTTG
66 GGTTAAAGATGATGAAAATAAAATGATATAATTTCTTTTCATCTTTCAATTAATTAAGTATTTTG
*
8121519 GTATTTCCAATTTAGTCCCTTGT-TTTTTCTATAATTCCATGGATGAGTTACCATAAAAATCTAC
131 GTATTTCCAATTTAGTCCCTTGTCTTTTTCTATAATTCCATGGATGAGTCACCATAAAAATCTAC
* *
8121583 ATACTTTTATTAATGGTATAATTACCAGATAAAGATCTTAAGTTTTGAATTCCATAGCTATTTGA
196 ATACTCTTATTAATGGTATAATTACCAGATAAAGACCTTAAGTTTTGAATTCCATAGCTATTTGA
*
8121648 TCTTCATAGCTACTAGAATTC-ACTTTCGCATTTTATGTGATTTAGTCCTTCTCGTAATTAGGCA
261 TCTTCATAGCTACTAGAATTCAACTTTCGCATTTTATGCGATTTAGTCCTTCTCGTAATTAGGCA
* *
8121712 CTAAATTGATAAAATTTTCATATCAAAAATTTTGCATGTCATTTCTATCATATTACGAGCCATAT
326 CTAAATCGATAAAATTTTCATATCAAAAATTTCGCATGTCATTTCTATCATATTACGAGCCATAT
*
8121777 GGTAAAATAAAAATAAAATATATTTTGGATTGTATTTGTGGTC
391 GGTAAAATAAAAAT-AAA-ATATTTTGGATCGTATTTGTGGTC
8121820 CCGAAACCAC
Statistics
Matches: 413, Mismatches: 16, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
433 135 0.33
434 124 0.30
435 154 0.37
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (433 bp):
GAAAACTTACCCAATTAGGCCTTGAAAGCTTCTTTTCTCTCTCCTATGGTTTCCATGTATTTTTA
GGTTAAAGATGATGAAAATAAAATGATATAATTTCTTTTCATCTTTCAATTAATTAAGTATTTTG
GTATTTCCAATTTAGTCCCTTGTCTTTTTCTATAATTCCATGGATGAGTCACCATAAAAATCTAC
ATACTCTTATTAATGGTATAATTACCAGATAAAGACCTTAAGTTTTGAATTCCATAGCTATTTGA
TCTTCATAGCTACTAGAATTCAACTTTCGCATTTTATGCGATTTAGTCCTTCTCGTAATTAGGCA
CTAAATCGATAAAATTTTCATATCAAAAATTTCGCATGTCATTTCTATCATATTACGAGCCATAT
GGTAAAATAAAAATAAAATATTTTGGATCGTATTTGTGGTCTT
Found at i:8128926 original size:12 final size:12
Alignment explanation
Indices: 8128909--8128935 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
8128899 CCTTCTTCTC
8128909 CCCTTTCCCCTT
1 CCCTTTCCCCTT
8128921 CCCTTTCCCCTT
1 CCCTTTCCCCTT
8128933 CCC
1 CCC
8128936 CTTGGGTTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.63, G:0.00, T:0.37
Consensus pattern (12 bp):
CCCTTTCCCCTT
Found at i:8129057 original size:25 final size:27
Alignment explanation
Indices: 8128997--8129057 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 27
8128987 CCAGGTAAGG
*
8128997 CTTCTTCTCCTTCATCCGTTCTTCATTC
1 CTTC-TCTTCTTCATCCGTTCTTCATTC
*
8129025 CTT-T-TTCTTCTTCCGTTCTTCA-T-
1 CTTCTCTTCTTCATCCGTTCTTCATTC
8129048 CTTCTCTTCT
1 CTTCTCTTCT
8129058 CAGCATATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
23 3 0.10
24 2 0.07
25 20 0.69
26 1 0.03
28 3 0.10
ACGTcount: A:0.05, C:0.36, G:0.03, T:0.56
Consensus pattern (27 bp):
CTTCTCTTCTTCATCCGTTCTTCATTC
Found at i:8129231 original size:15 final size:12
Alignment explanation
Indices: 8129196--8129227 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
8129186 CGTTCTCACT
*
8129196 AAAATTGGTAAA
1 AAAATCGGTAAA
8129208 AAAATCGGTAAA
1 AAAATCGGTAAA
8129220 AAAATCGG
1 AAAATCGG
8129228 CGGTTCCAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.56, C:0.06, G:0.19, T:0.19
Consensus pattern (12 bp):
AAAATCGGTAAA
Found at i:8129573 original size:12 final size:13
Alignment explanation
Indices: 8129550--8129575 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8129540 TCAATGAACC
8129550 CTTAATTTTTTTG
1 CTTAATTTTTTTG
8129563 CTTAATTTTTTTG
1 CTTAATTTTTTTG
8129576 GTACTCAATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.08, G:0.08, T:0.69
Consensus pattern (13 bp):
CTTAATTTTTTTG
Found at i:8132986 original size:21 final size:21
Alignment explanation
Indices: 8132960--8133012 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
8132950 CGCTGTTTCT
* *
8132960 AATCTCACCTCTACAATATCC
1 AATCTCACCGCTACAATAACC
* *
8132981 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAATAACC
8133002 AATCTCACCGC
1 AATCTCACCGC
8133013 CACCGCTGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.32, C:0.38, G:0.06, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAATAACC
Found at i:8152710 original size:27 final size:27
Alignment explanation
Indices: 8152670--8152723 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
8152660 AGCCTATCGA
8152670 TTTGCGAGAGATTGGCAAGAGCAAAAC
1 TTTGCGAGAGATTGGCAAGAGCAAAAC
*
8152697 TTTGCGAGATATTGGCAAGAGCAAAAC
1 TTTGCGAGAGATTGGCAAGAGCAAAAC
8152724 AATTTGGCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.37, C:0.15, G:0.28, T:0.20
Consensus pattern (27 bp):
TTTGCGAGAGATTGGCAAGAGCAAAAC
Found at i:8153474 original size:22 final size:20
Alignment explanation
Indices: 8153448--8153501 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 20
8153438 AATCGTAGAT
*
8153448 TTGATATGTAATCTTAGGAGA
1 TTGATTTGTAATCTTA-GAGA
8153469 TATGATTTTGTAAATCTTAGAGA
1 T-TGA-TTTGT-AATCTTAGAGA
8153492 TTGATTTGTA
1 TTGATTTGTA
8153502 GATACCATTC
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
20 1 0.03
21 6 0.21
22 6 0.21
23 9 0.31
24 7 0.24
ACGTcount: A:0.31, C:0.04, G:0.20, T:0.44
Consensus pattern (20 bp):
TTGATTTGTAATCTTAGAGA
Found at i:8155411 original size:81 final size:79
Alignment explanation
Indices: 8155222--8155437 Score: 249
Period size: 81 Copynumber: 2.7 Consensus size: 79
8155212 TGAACCCTTA
* * *
8155222 TGCAAACCCTTGCATGAAATCCCCATAGGAGAAGCCCTTTGATGCATGCGAACCCTTATGTGCAC
1 TGCAAACCCTTGCATGAAATCCCTATAGGAGAAGCCCTTTGATGCATGCGAACCCTTATGCGAAC
8155287 CCCCTATTTACATG
66 CCCCTATTTACATG
* * * *
8155301 TGCGAACCCTTGCATGAAAACCCTCATAGGCA-AA-TCCTCTTGATGCATGCGAACCTTTATGCG
1 TGCAAACCCTTGCATGAAATCCCT-ATAGG-AGAAGCCCT-TTGATGCATGCGAACCCTTATGCG
* *
8155364 AACCCCCATGTTTGCATG
63 AACCCCC-TATTTACATG
* * *
8155382 TGCAAACCCTTGCATGAAATCCACTATAGGTA-AACCCCTTTGATGTATGCAAACCC
1 TGCAAACCCTTGCATGAAATCC-CTATAGG-AGAAGCCCTTTGATGCATGCGAACCC
8155438 CAAAAATGAA
Statistics
Matches: 115, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
79 24 0.21
80 35 0.30
81 51 0.44
82 5 0.04
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (79 bp):
TGCAAACCCTTGCATGAAATCCCTATAGGAGAAGCCCTTTGATGCATGCGAACCCTTATGCGAAC
CCCCTATTTACATG
Found at i:8158848 original size:4 final size:4
Alignment explanation
Indices: 8158835--8158869 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
8158825 TCAAATTTCC
8158835 CTTT -TTT CTTT CTTT CTTT CTTT C-TT CTTT CTTT C
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT C
8158870 ACGTTTGCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 6 0.21
4 23 0.79
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (4 bp):
CTTT
Found at i:8162863 original size:27 final size:27
Alignment explanation
Indices: 8162833--8162892 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
8162823 TAAGTGACAT
8162833 AAACTCTTCACTATACTTATTACTTAA
1 AAACTCTTCACTATACTTATTACTTAA
8162860 AAACTCTTCACTATACTTATTACTTAA
1 AAACTCTTCACTATACTTATTACTTAA
*
8162887 GAACTC
1 AAACTC
8162893 AATATGTCGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.37, C:0.23, G:0.02, T:0.38
Consensus pattern (27 bp):
AAACTCTTCACTATACTTATTACTTAA
Found at i:8163657 original size:24 final size:24
Alignment explanation
Indices: 8163621--8163666 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
8163611 AATAGCAAGT
8163621 GTTAATATATTAT-TTAATATTTGA
1 GTTAATATATTATGTTAA-ATTTGA
8163645 GTTAGATAT-TTATGTTAAATTT
1 GTTA-ATATATTATGTTAAATTT
8163667 TATTTTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (24 bp):
GTTAATATATTATGTTAAATTTGA
Found at i:8163785 original size:18 final size:20
Alignment explanation
Indices: 8163754--8163790 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
8163744 TTCATAATTT
8163754 TGTTAATATAATAAATTTGG
1 TGTTAATATAATAAATTTGG
8163774 TGTTAAT-T-ATAAATTTG
1 TGTTAATATAATAAATTTG
8163791 TTTAATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 1 0.06
20 7 0.41
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.49
Consensus pattern (20 bp):
TGTTAATATAATAAATTTGG
Found at i:8165113 original size:23 final size:23
Alignment explanation
Indices: 8165053--8165140 Score: 79
Period size: 23 Copynumber: 3.8 Consensus size: 23
8165043 TTATTAACAT
* *
8165053 TGTTCATGAACATGTTCAATTATA
1 TGTTAATGAACATGTTCGATTA-A
* * *
8165077 TGTTCATGAGCATGTTCGTTTAA
1 TGTTAATGAACATGTTCGATTAA
** *
8165100 TGTTTGTGAACATGTACGATTAA
1 TGTTAATGAACATGTTCGATTAA
8165123 -GTTAAATGAACATGTTCG
1 TGTT-AATGAACATGTTCG
8165141 GTGAACACTA
Statistics
Matches: 52, Mismatches: 11, Indels: 3
0.79 0.17 0.05
Matches are distributed among these distances:
22 3 0.06
23 30 0.58
24 19 0.37
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.40
Consensus pattern (23 bp):
TGTTAATGAACATGTTCGATTAA
Found at i:8165202 original size:27 final size:27
Alignment explanation
Indices: 8165149--8165207 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 27
8165139 CGGTGAACAC
* * *
8165149 TAAACAAACGAAAATAAACACATATTT
1 TAAATAAACGAAAATAAACAAAAATTT
* *
8165176 TAAATAAACGAACATGAACAAAAATTT
1 TAAATAAACGAAAATAAACAAAAATTT
*
8165203 AAAAT
1 TAAAT
8165208 TCTAAATGGA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.61, C:0.12, G:0.05, T:0.22
Consensus pattern (27 bp):
TAAATAAACGAAAATAAACAAAAATTT
Found at i:8166541 original size:10 final size:10
Alignment explanation
Indices: 8166528--8166562 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
8166518 TAAAGAATAT
8166528 ATTATATTAA
1 ATTATATTAA
*
8166538 ATTAAATTAA
1 ATTATATTAA
8166548 ATTATATTATA
1 ATTATATTA-A
8166559 ATTA
1 ATTA
8166563 AATAAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 17 0.77
11 5 0.23
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (10 bp):
ATTATATTAA
Found at i:8166553 original size:20 final size:20
Alignment explanation
Indices: 8166523--8166569 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
8166513 AATACTAAAG
*
8166523 AATATATTATATTA-AATTA
1 AATAAATTATATTATAATTA
8166542 AATTAAATTATATTATAATTA
1 AA-TAAATTATATTATAATTA
8166563 AATAAAT
1 AATAAAT
8166570 AAACAAAACA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 2 0.08
20 16 0.64
21 7 0.28
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AATAAATTATATTATAATTA
Found at i:8166619 original size:17 final size:17
Alignment explanation
Indices: 8166583--8166641 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
8166573 CAAAACAAAT
*
8166583 AAAAGAAA-AAGAATAGA
1 AAAAGAAACAA-AGTAGA
8166600 AAAAGAAACAAAGTTA-A
1 AAAAGAAACAAAG-TAGA
* *
8166617 AAATGAAACAGAGTAGA
1 AAAAGAAACAAAGTAGA
8166634 AAAAGAAA
1 AAAAGAAA
8166642 GAAAAGAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
16 2 0.06
17 29 0.83
18 4 0.11
ACGTcount: A:0.71, C:0.03, G:0.17, T:0.08
Consensus pattern (17 bp):
AAAAGAAACAAAGTAGA
Found at i:8166653 original size:34 final size:33
Alignment explanation
Indices: 8166583--8166654 Score: 83
Period size: 34 Copynumber: 2.2 Consensus size: 33
8166573 CAAAACAAAT
*
8166583 AAAAGAAAAAGAATAGAAAAAGAAACAAAGTTAA
1 AAAAGAAAAAGAATAGAAAAAGAAAAAAAG-TAA
* * *
8166617 AAATGAAACAGAGTAGAAAAAGAAAGAAAAG-AA
1 AAAAGAAAAAGAATAGAAAAAGAAA-AAAAGTAA
8166650 AAAAG
1 AAAAG
8166655 GAAAGAAAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
33 6 0.19
34 22 0.69
35 4 0.12
ACGTcount: A:0.72, C:0.03, G:0.18, T:0.07
Consensus pattern (33 bp):
AAAAGAAAAAGAATAGAAAAAGAAAAAAAGTAA
Found at i:8167608 original size:40 final size:40
Alignment explanation
Indices: 8167485--8167625 Score: 103
Period size: 40 Copynumber: 3.6 Consensus size: 40
8167475 CGACCTCAAG
*
8167485 TCGATGAGACACTGGGTGT-TAATCTATTACTTC-AGATTAAT
1 TCGATGAGACACTGGGTGTCAAAT-TATTACTTCGA-ATT-AT
** * * * ** *
8167526 TCGATGAGGTACTGGGT-ACCAA-T-TTACTTTGGTTTAA
1 TCGATGAGACACTGGGTGTCAAATTATTACTTCGAATTAT
*
8167563 CCGATGAGACACTGGGTGTCAAATTATTACTTCGAATTAT
1 TCGATGAGACACTGGGTGTCAAATTATTACTTCGAATTAT
* **
8167603 TCGATGAGGCAAAGGGTGTCAAA
1 TCGATGAGACACTGGGTGTCAAA
8167626 CTGGTGTGTT
Statistics
Matches: 74, Mismatches: 21, Indels: 11
0.70 0.20 0.10
Matches are distributed among these distances:
37 15 0.20
38 11 0.15
39 2 0.03
40 29 0.39
41 17 0.23
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (40 bp):
TCGATGAGACACTGGGTGTCAAATTATTACTTCGAATTAT
Found at i:8176584 original size:11 final size:11
Alignment explanation
Indices: 8176568--8176601 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
8176558 ATGTCAAATC
*
8176568 ATCAAGAATAA
1 ATCAAGAACAA
8176579 ATCAAGAACAA
1 ATCAAGAACAA
8176590 ATCAAGAACAA
1 ATCAAGAACAA
8176601 A
1 A
8176602 ACTAGATGCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.65, C:0.15, G:0.09, T:0.12
Consensus pattern (11 bp):
ATCAAGAACAA
Found at i:8180898 original size:56 final size:56
Alignment explanation
Indices: 8180812--8181043 Score: 446
Period size: 56 Copynumber: 4.1 Consensus size: 56
8180802 ACAAGGGATG
8180812 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
8180868 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
8180924 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
* *
8180980 ATGGGCAAAACATGTCATCAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
8181036 ATGGGCAA
1 ATGGGCAA
8181044 TAAACTAATA
Statistics
Matches: 174, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 174 1.00
ACGTcount: A:0.46, C:0.09, G:0.22, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:8197968 original size:13 final size:13
Alignment explanation
Indices: 8197950--8197975 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8197940 AAATAATCGT
8197950 ACACGGGCGTGTC
1 ACACGGGCGTGTC
8197963 ACACGGGCGTGTC
1 ACACGGGCGTGTC
8197976 CCTGCCGAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.38, T:0.15
Consensus pattern (13 bp):
ACACGGGCGTGTC
Found at i:8199126 original size:10 final size:10
Alignment explanation
Indices: 8199111--8199136 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
8199101 ATTGAAATGA
8199111 ATAAATGTGC
1 ATAAATGTGC
8199121 ATAAATGTGC
1 ATAAATGTGC
8199131 ATAAAT
1 ATAAAT
8199137 ATTACAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (10 bp):
ATAAATGTGC
Found at i:8199429 original size:50 final size:50
Alignment explanation
Indices: 8199288--8199431 Score: 173
Period size: 50 Copynumber: 2.9 Consensus size: 50
8199278 TGCTAGGGAG
**
8199288 ATATGAGAGCTAGTGTAAAACCATGTCTGGGACATGGCATCAACACCGAT
1 ATATGAGAGCTAGTGTAAAACCATGTCTGGGACATGGCATTGACACCGAT
* * * * * *
8199338 AGATGAGAGCCAGTGTAATACCATATCTGGGACATGACATTGGC-CTCGAT
1 ATATGAGAGCTAGTGTAAAACCATGTCTGGGACATGGCATTGACAC-CGAT
* * *
8199388 ATATGAGAGTTAGTGTAAGACCATGCCTGGGACATGGCATTGAC
1 ATATGAGAGCTAGTGTAAAACCATGTCTGGGACATGGCATTGAC
8199432 TTTGATGTGT
Statistics
Matches: 77, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
49 1 0.01
50 76 0.99
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (50 bp):
ATATGAGAGCTAGTGTAAAACCATGTCTGGGACATGGCATTGACACCGAT
Found at i:8209771 original size:94 final size:94
Alignment explanation
Indices: 8209614--8210023 Score: 811
Period size: 94 Copynumber: 4.4 Consensus size: 94
8209604 CTATCTTCAT
8209614 AATTAAAAACATAAAATAAGAAATAAATATTTCTTATTGATAATTAAAAATAAAATTCTAAAATC
1 AATTAAAAACATAAAATAAGAAATAAATATTTCTTATTGATAATTAAAAATAAAATTCTAAAATC
8209679 TAATAAAAATAAAAAATAGTTTTAATAAA
66 TAATAAAAATAAAAAATAGTTTTAATAAA
8209708 AATTAAAAACATAAAATAAGAAATAAATATTTCTTATTGATAATTAAAAATAAAATTCTAAAATC
1 AATTAAAAACATAAAATAAGAAATAAATATTTCTTATTGATAATTAAAAATAAAATTCTAAAATC
8209773 TAATAAAAATAAAAAATAGTTTTAATAAA
66 TAATAAAAATAAAAAATAGTTTTAATAAA
8209802 AATTAAAAACATAAAATAAGAAATAAATATTTCTTATTGATAATTAAAAATAAAATTCTAAAATC
1 AATTAAAAACATAAAATAAGAAATAAATATTTCTTATTGATAATTAAAAATAAAATTCTAAAATC
8209867 TAATAAAAATAAAAAATAGTTTTAATAAA
66 TAATAAAAATAAAAAATAGTTTTAATAAA
8209896 AATTAAAAACATAAAATAAGAAATAAATATTTCTTATTGATAATTAAAAATAAAATTCTAAAATC
1 AATTAAAAACATAAAATAAGAAATAAATATTTCTTATTGATAATTAAAAATAAAATTCTAAAATC
8209961 TAATAAAAATAAAAAATAGTTTTAATAAA
66 TAATAAAAATAAAAAATAGTTTTAATAAA
*
8209990 AATTAAAAACATAAAATAAGAAATAAATAATTCT
1 AATTAAAAACATAAAATAAGAAATAAATATTTCT
8210024 AAACATCTTC
Statistics
Matches: 315, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
94 315 1.00
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.31
Consensus pattern (94 bp):
AATTAAAAACATAAAATAAGAAATAAATATTTCTTATTGATAATTAAAAATAAAATTCTAAAATC
TAATAAAAATAAAAAATAGTTTTAATAAA
Found at i:8210005 original size:47 final size:47
Alignment explanation
Indices: 8209672--8210006 Score: 220
Period size: 47 Copynumber: 7.1 Consensus size: 47
8209662 AATAAAATTC
8209672 TAAAATCTAATAAAAATAAAAAATAGTTTTAATAAAAATTAAAAACA
1 TAAAATCTAATAAAAATAAAAAATAGTTTTAATAAAAATTAAAAACA
* ** ** *
8209719 TAAAA--T-A-AGAAATAAATATTTCTTATTGATAATTAAAAA-TAAAATTC-
1 TAAAATCTAATAAAAATAAA-AAATAGT-TT--TAA-TAAAAATTAAAA-ACA
8209766 TAAAATCTAATAAAAATAAAAAATAGTTTTAATAAAAATTAAAAACA
1 TAAAATCTAATAAAAATAAAAAATAGTTTTAATAAAAATTAAAAACA
* ** ** *
8209813 TAAAA--T-A-AGAAATAAATATTTCTTATTGATAATTAAAAA-TAAAATTC-
1 TAAAATCTAATAAAAATAAA-AAATAGT-TT--TAA-TAAAAATTAAAA-ACA
8209860 TAAAATCTAATAAAAATAAAAAATAGTTTTAATAAAAATTAAAAACA
1 TAAAATCTAATAAAAATAAAAAATAGTTTTAATAAAAATTAAAAACA
* ** ** *
8209907 TAAAA--T-A-AGAAATAAATATTTCTTATTGATAATTAAAAA-TAAAATTC-
1 TAAAATCTAATAAAAATAAA-AAATAGT-TT--TAA-TAAAAATTAAAA-ACA
8209954 TAAAATCTAATAAAAATAAAAAATAGTTTTAATAAAAATTAAAAACA
1 TAAAATCTAATAAAAATAAAAAATAGTTTTAATAAAAATTAAAAACA
8210001 TAAAAT
1 TAAAAT
8210007 AAGAAATAAA
Statistics
Matches: 216, Mismatches: 36, Indels: 72
0.67 0.11 0.22
Matches are distributed among these distances:
43 24 0.11
44 12 0.06
45 9 0.04
46 21 0.10
47 84 0.39
48 21 0.10
49 9 0.04
50 12 0.06
51 24 0.11
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.31
Consensus pattern (47 bp):
TAAAATCTAATAAAAATAAAAAATAGTTTTAATAAAAATTAAAAACA
Found at i:8222827 original size:24 final size:24
Alignment explanation
Indices: 8222795--8222844 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
8222785 CTTGTGTCAC
8222795 ATTTTAATAGAAACAAAAATAATA
1 ATTTTAATAGAAACAAAAATAATA
8222819 ATTTTAATAGAAACAAAAATAATA
1 ATTTTAATAGAAACAAAAATAATA
8222843 AT
1 AT
8222845 CATTTAGCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (24 bp):
ATTTTAATAGAAACAAAAATAATA
Found at i:8230383 original size:23 final size:24
Alignment explanation
Indices: 8230337--8230383 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
8230327 ATACACGGAT
*
8230337 TCCAACCCAAACACACCAGTAATA
1 TCCAACCAAAACACACCAGTAATA
*
8230361 TCCAACCAAAACACATCAG-AATA
1 TCCAACCAAAACACACCAGTAATA
8230384 ATCATGTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.49, C:0.34, G:0.04, T:0.13
Consensus pattern (24 bp):
TCCAACCAAAACACACCAGTAATA
Found at i:8231017 original size:46 final size:46
Alignment explanation
Indices: 8230854--8231262 Score: 439
Period size: 46 Copynumber: 8.9 Consensus size: 46
8230844 TTATCTTCGA
* * * * * *
8230854 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
* * * * ** ***
8230900 TAGGTTTCCATGGTATCTTCCAACCATGGTCTTATTCATTTCCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT-CATAT
** *
8230947 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
8230993 CACGTTGCCATGGTATCTTTCAACCATGGTATTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
8231039 CATGTTGCCATGGTATCTTTCAACCATGGTCTTCCACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
8231085 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
8231131 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTGA-AT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* * * * * * * *
8231176 CATGATGCCATAGCATCTTTCAGCTATGGTCTTACTCGTTTGA-AT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* * * * * *
8231221 CCTGATGCCATAGCT-TCTTTCAGCTATGGTCTTACTCATTTC
1 CATGTTGCCAT-GGTATCTTTCAACCATGGTCTTACACATTTC
8231263 TGGTATGATG
Statistics
Matches: 321, Mismatches: 39, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
45 78 0.24
46 204 0.64
47 39 0.12
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:8231323 original size:33 final size:33
Alignment explanation
Indices: 8231271--8231426 Score: 113
Period size: 33 Copynumber: 4.7 Consensus size: 33
8231261 TCTGGTATGA
* * *
8231271 TGCCATAGTCCAACTATGGTCTTACACGTGTAT
1 TGCCATAGCCCAGCCATGGTCTTACACGTGTAT
* * **
8231304 TGCCATGGCCTAGCCATGGTCTTACAC-TCGTGG
1 TGCCATAGCCCAGCCATGGTCTTACACGT-GTAT
* **
8231337 TGCCATATCCCAGATATGGTCTTATCAGCAG-G-A-
1 TGCCATAGCCCAGCCATGGTCTTA-CA-C-GTGTAT
* * * *
8231370 TGCCATAGCCTAGCTATGGTCTTACACATATAT
1 TGCCATAGCCCAGCCATGGTCTTACACGTGTAT
*
8231403 TGCCATGGCCCAGCCATGGTCTTA
1 TGCCATAGCCCAGCCATGGTCTTA
8231427 TCCGTCAATT
Statistics
Matches: 94, Mismatches: 21, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
31 1 0.01
32 4 0.04
33 85 0.90
34 2 0.02
35 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.29
Consensus pattern (33 bp):
TGCCATAGCCCAGCCATGGTCTTACACGTGTAT
Found at i:8231407 original size:66 final size:66
Alignment explanation
Indices: 8231304--8231428 Score: 153
Period size: 66 Copynumber: 1.9 Consensus size: 66
8231294 ACACGTGTAT
* * * * *
8231304 TGCCATGGCCTAGCCATGGTCTTACACTCGTGGTGCCATATCCCAGATATGGTCTTATCAGCAGG
1 TGCCATAGCCTAGCCATGGTCTTACACTCATAGTGCCATAGCCCAGACATGGTCTTATCAGCAGG
8231369 A
66 A
* * * *
8231370 TGCCATAGCCTAGCTATGGTCTTACACAT-ATATTGCCATGGCCCAGCCATGGTCTTATC
1 TGCCATAGCCTAGCCATGGTCTTACAC-TCATAGTGCCATAGCCCAGACATGGTCTTATC
8231429 CGTCAATTCA
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
66 48 0.98
67 1 0.02
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.29
Consensus pattern (66 bp):
TGCCATAGCCTAGCCATGGTCTTACACTCATAGTGCCATAGCCCAGACATGGTCTTATCAGCAGG
A
Found at i:8234482 original size:29 final size:30
Alignment explanation
Indices: 8234424--8234492 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
8234414 CCACCCTTAA
* * * *
8234424 AATATTTGCACTATTAGTCCTTCAACTTTT
1 AATATTTACACTATTAATCCCTCAAATTTT
*
8234454 TATATTTACACT-TTAATCCCTCAAATTTT
1 AATATTTACACTATTAATCCCTCAAATTTT
8234483 AAGTATTTAC
1 AA-TATTTAC
8234493 TCTTGGGCCA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.30, C:0.19, G:0.04, T:0.46
Consensus pattern (30 bp):
AATATTTACACTATTAATCCCTCAAATTTT
Found at i:8237385 original size:32 final size:33
Alignment explanation
Indices: 8237343--8237406 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
8237333 ATTTGAGTTA
8237343 AAAAAGTATTTAAAAAATATTTTCTGTATTTAG
1 AAAAAGTATTTAAAAAATATTTTCTGTATTTAG
* *
8237376 AAAAA-TATTTAAAAATTATTTTCTGTTTTTA
1 AAAAAGTATTTAAAAAATATTTTCTGTATTTA
8237407 TTTTGTGTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 24 0.83
33 5 0.17
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (33 bp):
AAAAAGTATTTAAAAAATATTTTCTGTATTTAG
Found at i:8237876 original size:7 final size:7
Alignment explanation
Indices: 8237864--8237888 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
8237854 AGACCCATGC
8237864 TTGAATT
1 TTGAATT
8237871 TTGAATT
1 TTGAATT
8237878 TTGAATT
1 TTGAATT
8237885 TTGA
1 TTGA
8237889 TGAATATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (7 bp):
TTGAATT
Found at i:8247791 original size:49 final size:47
Alignment explanation
Indices: 8247668--8247846 Score: 164
Period size: 47 Copynumber: 3.7 Consensus size: 47
8247658 AGGGTATAGT
* *
8247668 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCATCCATCAA
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGACTCATCAATCAA
* * * *
8247715 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCAAAATTGAG
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGACTCATC--AA-TCAA
* * * **
8247764 GCCGACGCCATGTCCTAGGCATGGTCTTACACTAGCTCTCA-CATATCCGT
1 GCCGATGCCATGTCCTAGACATGGTCTTACACT-G-ACTCATCA-AT-CAA
* *
8247814 GCCGATGCCATGTCCTAGACACGGACTTACACT
1 GCCGATGCCATGTCCTAGACATGGTCTTACACT
8247847 AACACCTCTA
Statistics
Matches: 106, Mismatches: 18, Indels: 13
0.77 0.13 0.09
Matches are distributed among these distances:
46 3 0.03
47 34 0.32
48 1 0.01
49 33 0.31
50 31 0.29
51 3 0.03
52 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (47 bp):
GCCGATGCCATGTCCTAGACATGGTCTTACACTGACTCATCAATCAA
Found at i:8247917 original size:39 final size:40
Alignment explanation
Indices: 8247870--8247966 Score: 106
Period size: 46 Copynumber: 2.3 Consensus size: 40
8247860 GTGTCGATAC
* *
8247870 CATGTCCCAAACTTACACTGAC-ACATCTCGTAGCTGATG
1 CATGTCCCAAACTTACACTGACTACATCTCGAAGCCGATG
*
8247909 CATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAAGCCGATG
1 CATGTCCCA-A-A---CTTACACTGAC-TACATCTCGAAGCCGATG
8247955 CATGTCCCAAAC
1 CATGTCCCAAAC
8247967 ATGTCTTACA
Statistics
Matches: 48, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
39 9 0.19
40 1 0.02
41 2 0.04
44 11 0.23
45 1 0.02
46 24 0.50
ACGTcount: A:0.27, C:0.32, G:0.16, T:0.25
Consensus pattern (40 bp):
CATGTCCCAAACTTACACTGACTACATCTCGAAGCCGATG
Found at i:8247955 original size:46 final size:47
Alignment explanation
Indices: 8247892--8248057 Score: 180
Period size: 46 Copynumber: 3.6 Consensus size: 47
8247882 TTACACTGAC
* *
8247892 ACATCTCGTAGCTGATGCATGTCCCAGACATGTCTTACACTGGCT-T
1 ACATCTCGAAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT
* *
8247938 ACATCTCGAAGCCGATGCATGTCCCAAACATGTCTTACACTAGCTCT
1 ACATCTCGAAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT
**
8247985 -CATCTC-AATATCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT
1 ACATCTCGAA-GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCT
* **
8248033 -CATAAT-GTGGCCGATGCATGTCCCA
1 ACAT-CTCGAAGCCGATGCATGTCCCA
8248058 AACTTGTTTT
Statistics
Matches: 101, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
45 2 0.02
46 52 0.51
47 23 0.23
48 23 0.23
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (47 bp):
ACATCTCGAAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT
Found at i:8248046 original size:94 final size:92
Alignment explanation
Indices: 8247905--8248075 Score: 238
Period size: 94 Copynumber: 1.8 Consensus size: 92
8247895 TCTCGTAGCT
*
8247905 GATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAAGCCGATGCATGTCCCAAACATG
1 GATGCATGTCCCAGACATGTCTTACACTGGCTTACATATCGAAGCCGATGCATGTCCCAAACATG
8247970 TCTTACACTAGCTCTCATCTCAATATC
66 TCTTACACTAGCTCTCATCTCAATATC
**
8247997 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGCCGATGCATGTCCCAAA
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACAT-ATCGAAGCCGATGCATGTCCCAAA
* * *
8248060 CTTGTTTTACGCTAGC
62 CATGTCTTACACTAGC
8248076 ACACAAATAA
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
92 4 0.06
93 14 0.20
94 49 0.71
95 2 0.03
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (92 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTTACATATCGAAGCCGATGCATGTCCCAAACATG
TCTTACACTAGCTCTCATCTCAATATC
Found at i:8249572 original size:68 final size:69
Alignment explanation
Indices: 8249500--8249657 Score: 178
Period size: 68 Copynumber: 2.3 Consensus size: 69
8249490 CATCATGTGT
* ** * * * *
8249500 ACAAGAGAGCTACGAGATA-CTATGTAGTAGCTAGGTCACATGTGTGAT-ACGGGATGTATC-CC
1 ACAAGAGAGCTACGAGATAGATAAAT-GTAGCTAGGTCACATATGTGATCAAGGGAAGGA-CACC
8249562 ATGTAG
64 ATGTAG
* *
8249568 ACAAGAGAGCTACGAGAGAGATAAATGTAGCTAGGTCACATATGTGATCCCAAGTGAAGGACACC
1 ACAAGAGAGCTACGAGATAGATAAATGTAGCTAGGTCACATATGTGAT--CAAGGGAAGGACACC
8249633 ATGTAG
64 ATGTAG
8249639 ACAAGAGAGCTACGAGATA
1 ACAAGAGAGCTACGAGATA
8249658 AATTGGCTAG
Statistics
Matches: 75, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
68 39 0.52
69 3 0.04
70 1 0.01
71 32 0.43
ACGTcount: A:0.36, C:0.16, G:0.27, T:0.20
Consensus pattern (69 bp):
ACAAGAGAGCTACGAGATAGATAAATGTAGCTAGGTCACATATGTGATCAAGGGAAGGACACCAT
GTAG
Found at i:8255186 original size:48 final size:48
Alignment explanation
Indices: 8255134--8255471 Score: 428
Period size: 48 Copynumber: 7.0 Consensus size: 48
8255124 TACATGAATC
*
8255134 CACATATCATCATCGATGCCATGTCCCAGACATGGTCTTACACTGGCA
1 CACATATCATCATCGATGCCATGTCCCAGACATGGTCTTACACAGGCA
* * **
8255182 CACATATCATCACCGATGCCATGTCCCCA-ACATGGTCTTACATGAATC-
1 CACATATCATCATCGATGCCATGT-CCCAGACATGGTCTTACA-CAGGCA
* * * **
8255230 CACATATCATCGTCAATGCCATGTCCCATACATGGTCTTACATTGGCA
1 CACATATCATCATCGATGCCATGTCCCAGACATGGTCTTACACAGGCA
* **
8255278 CACATATCTTCCCCGATGCCATGTCCCAGACATGGTCTTACACAGGCA
1 CACATATCATCATCGATGCCATGTCCCAGACATGGTCTTACACAGGCA
* ** * *
8255326 CATATATCATCGCCGATGCCATGTCCTAGACATGGTTTTACACAGGCA
1 CACATATCATCATCGATGCCATGTCCCAGACATGGTCTTACACAGGCA
* * * *
8255374 CATATATCATCGTCGATGCCATGTCCAAGACATGGTTTTACACAGGCA
1 CACATATCATCATCGATGCCATGTCCCAGACATGGTCTTACACAGGCA
* *
8255422 CATATATCATCATCGATGCCATGTCCTAGACATGGTCTTACACAGGCA
1 CACATATCATCATCGATGCCATGTCCCAGACATGGTCTTACACAGGCA
8255470 CA
1 CA
8255472 TTTAGCACGG
Statistics
Matches: 257, Mismatches: 29, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
47 5 0.02
48 247 0.96
49 5 0.02
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (48 bp):
CACATATCATCATCGATGCCATGTCCCAGACATGGTCTTACACAGGCA
Found at i:8262531 original size:48 final size:47
Alignment explanation
Indices: 8262462--8262678 Score: 247
Period size: 48 Copynumber: 4.5 Consensus size: 47
8262452 TAAAGTACCA
* * * * *
8262462 ATGCAATGTCCCCGACATGGTCTTACAT-GAATCCACATATCATCGTCA
1 ATGCCATGTCCCAGACATGGTCTTACATAGCA--CACATATCATCGCCG
* * *
8262510 ATGTCATGTCCCAAACATGGTCTTACACTGGCACACATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACA-TAGCACACATATCATCGCCG
* * * **
8262558 ATGCCATGTCCCAAACATGGTCTTACATAGGCACATAAATCATCATCG
1 ATGCCATGTCCCAGACATGGTCTTACATA-GCACACATATCATCGCCG
* *
8262606 ATGCCATGTCCCAGACATGGTTTTACATAGGCACATATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACATA-GCACACATATCATCGCCG
8262654 ATGCCATGTCCCAGACATGGTCTTA
1 ATGCCATGTCCCAGACATGGTCTTA
8262679 TACAGGCACA
Statistics
Matches: 147, Mismatches: 19, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
47 1 0.01
48 143 0.97
49 1 0.01
50 2 0.01
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACATAGCACACATATCATCGCCG
Found at i:8262686 original size:48 final size:48
Alignment explanation
Indices: 8262498--8262689 Score: 258
Period size: 48 Copynumber: 4.0 Consensus size: 48
8262488 ATGAATCCAC
* * * * *
8262498 ATATCATCGTCAATGTCATGTCCCAAACATGGTCTTACACTGGCACAC
1 ATATCATCGCCGATGCCATGTCCCAAACATGGTCTTACACAGGCACAT
*
8262546 ATATCATCGCCGATGCCATGTCCCAAACATGGTCTTACATAGGCACAT
1 ATATCATCGCCGATGCCATGTCCCAAACATGGTCTTACACAGGCACAT
* ** * * *
8262594 AAATCATCATCGATGCCATGTCCCAGACATGGTTTTACATAGGCACAT
1 ATATCATCGCCGATGCCATGTCCCAAACATGGTCTTACACAGGCACAT
* *
8262642 ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTATACAGGCACAT
1 ATATCATCGCCGATGCCATGTCCCAAACATGGTCTTACACAGGCACAT
8262690 TTAGCACGGT
Statistics
Matches: 127, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 127 1.00
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (48 bp):
ATATCATCGCCGATGCCATGTCCCAAACATGGTCTTACACAGGCACAT
Found at i:8270375 original size:44 final size:42
Alignment explanation
Indices: 8270301--8270382 Score: 110
Period size: 44 Copynumber: 1.9 Consensus size: 42
8270291 TATTCTATTT
* * *
8270301 AACCAAATAATTAATATTATTACTTGTCTATTCCATTCAACC
1 AACCAAACAATTAATATTATTACCTCTCTATTCCATTCAACC
*
8270343 AACCAAACAATGTAATATCTATTACCTCTCTATTTCATTC
1 AACCAAACAAT-TAATAT-TATTACCTCTCTATTCCATTC
8270383 CCATCGAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 10 0.29
43 6 0.18
44 18 0.53
ACGTcount: A:0.37, C:0.23, G:0.02, T:0.38
Consensus pattern (42 bp):
AACCAAACAATTAATATTATTACCTCTCTATTCCATTCAACC
Found at i:8271901 original size:13 final size:14
Alignment explanation
Indices: 8271878--8271920 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
8271868 AAGGTTTAAA
8271878 AATATTTAAATATT
1 AATATTTAAATATT
8271892 AATA-TTAAATATT
1 AATATTTAAATATT
* *
8271905 ATTACTTTCAATATT
1 AATA-TTTAAATATT
8271920 A
1 A
8271921 TCACAGGTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 12 0.48
14 4 0.16
15 9 0.36
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (14 bp):
AATATTTAAATATT
Found at i:8272224 original size:3 final size:3
Alignment explanation
Indices: 8272213--8272267 Score: 101
Period size: 3 Copynumber: 18.0 Consensus size: 3
8272203 TGTTTTTTTC
8272213 CTT CTTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT C-TT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
8272259 CTT CTT CTT
1 CTT CTT CTT
8272268 TCTCCTTCAA
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 48 0.94
4 3 0.06
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:8273550 original size:32 final size:32
Alignment explanation
Indices: 8273504--8273569 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
8273494 AGATGAAGCG
*
8273504 TAGAAGTACGACCAGAAAAAGAAAAAGGAAAA
1 TAGAAATACGACCAGAAAAAGAAAAAGGAAAA
*
8273536 TAGAAATACTACCAGAAAAAGAAAAAGGAAAA
1 TAGAAATACGACCAGAAAAAGAAAAAGGAAAA
8273568 TA
1 TA
8273570 AAAAAAGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.64, C:0.09, G:0.18, T:0.09
Consensus pattern (32 bp):
TAGAAATACGACCAGAAAAAGAAAAAGGAAAA
Found at i:8273573 original size:13 final size:13
Alignment explanation
Indices: 8273557--8273624 Score: 59
Period size: 13 Copynumber: 5.3 Consensus size: 13
8273547 CCAGAAAAAG
8273557 AAAAAGGAAAATA
1 AAAAAGGAAAATA
* *
8273570 AAAAAAGAAAAGA
1 AAAAAGGAAAATA
*
8273583 AAAAGGGAAGAA-A
1 AAAAAGGAA-AATA
** *
8273596 ATGAGGGAAAATA
1 AAAAAGGAAAATA
8273609 AAAAA-GAAAATA
1 AAAAAGGAAAATA
8273621 AAAA
1 AAAA
8273625 GAGGTACAAG
Statistics
Matches: 44, Mismatches: 9, Indels: 5
0.76 0.16 0.09
Matches are distributed among these distances:
12 13 0.30
13 29 0.66
14 2 0.05
ACGTcount: A:0.75, C:0.00, G:0.19, T:0.06
Consensus pattern (13 bp):
AAAAAGGAAAATA
Found at i:8273578 original size:26 final size:30
Alignment explanation
Indices: 8273516--8273588 Score: 93
Period size: 32 Copynumber: 2.5 Consensus size: 30
8273506 GAAGTACGAC
8273516 CAGAAAAAGAAAAAGGAAAATAGAAATACTA
1 CAGAAAAAGAAAAAGGAAAATAGAAATAC-A
8273547 CCAGAAAAAGAAAAAGGAAAATA-AAA-A-A
1 -CAGAAAAAGAAAAAGGAAAATAGAAATACA
8273575 -AG-AAAAGAAAAAGG
1 CAGAAAAAGAAAAAGG
8273589 GAAGAAAATG
Statistics
Matches: 41, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
25 12 0.29
26 2 0.05
28 1 0.02
30 1 0.02
31 3 0.07
32 22 0.54
ACGTcount: A:0.71, C:0.05, G:0.18, T:0.05
Consensus pattern (30 bp):
CAGAAAAAGAAAAAGGAAAATAGAAATACA
Found at i:8273891 original size:31 final size:32
Alignment explanation
Indices: 8273823--8273895 Score: 93
Period size: 31 Copynumber: 2.4 Consensus size: 32
8273813 TTAACCTTAC
*
8273823 AATAAATTATTAATATTATATATTGTTTTAAT
1 AATAAATTATTAATATTACATATTGTTTTAAT
8273855 -A-AAATTATCTAATATTACAT-TT-TTTTAAT
1 AATAAATTAT-TAATATTACATATTGTTTTAAT
8273884 AATAAATT-TTAA
1 AATAAATTATTAA
8273896 CTTTGACCAT
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
29 10 0.27
30 11 0.30
31 16 0.43
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (32 bp):
AATAAATTATTAATATTACATATTGTTTTAAT
Found at i:8276331 original size:27 final size:26
Alignment explanation
Indices: 8276294--8276344 Score: 93
Period size: 27 Copynumber: 1.9 Consensus size: 26
8276284 GCTTGGATCA
8276294 ATGAAATGTTGGAATAGATGAACTTT
1 ATGAAATGTTGGAATAGATGAACTTT
8276320 ATGAATATGTTGGAATAGATGAACT
1 ATGAA-ATGTTGGAATAGATGAACT
8276345 AAAATTCACT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.39, C:0.04, G:0.24, T:0.33
Consensus pattern (26 bp):
ATGAAATGTTGGAATAGATGAACTTT
Found at i:8278583 original size:30 final size:28
Alignment explanation
Indices: 8278527--8278584 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
8278517 TTAAATTACC
*
8278527 AACTATATATATATATATATATTTTAAA
1 AACTATATATATATATATATAATTTAAA
8278555 AACT-TATCATATATATATACTCAATTTAAA
1 AACTATAT-ATATATATATA-T-AATTTAAA
8278585 TTTATTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 3 0.12
28 15 0.58
29 1 0.04
30 7 0.27
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (28 bp):
AACTATATATATATATATATAATTTAAA
Found at i:8281391 original size:30 final size:30
Alignment explanation
Indices: 8281355--8281428 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 30
8281345 CTTAGGAGGA
8281355 CATTTAGGAACTTGAGAAGACCCGATATCT
1 CATTTAGGAACTTGAGAAGACCCGATATCT
* * *
8281385 CATTTA-GAAGCTTGGGAAGTCTCGATATCT
1 CATTTAGGAA-CTTGAGAAGACCCGATATCT
* *
8281415 CATTCAGGATCTTG
1 CATTTAGGAACTTG
8281429 GGATTGAGAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 3 0.08
30 32 0.86
31 2 0.05
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (30 bp):
CATTTAGGAACTTGAGAAGACCCGATATCT
Found at i:8281544 original size:66 final size:65
Alignment explanation
Indices: 8281366--8281544 Score: 207
Period size: 66 Copynumber: 2.7 Consensus size: 65
8281356 ATTTAGGAAC
* * * * * *
8281366 TTGAGAAGACCCGATATCTCATTTAGAAGCTTGGGAAGTCTCGATATCTCATTCAGGATCTTGGG
1 TTGAGAAGACCTGATATCTCGTTTAGGAGCTTGGGAAG-ATCGATATCGCATTCAGGATCTTAGG
8281431 A
65 A
* * * * *
8281432 TTGAGAAGACCTGATACCTTGTTCAAGAGCTTGGGAAGATTCGATATCGCATTTAGG-TGCTTAG
1 TTGAGAAGACCTGATATCTCGTTTAGGAGCTTGGGAAGA-TCGATATCGCATTCAGGAT-CTTAG
8281496 GA
64 GA
*
8281498 TTGAGAAGACTTGATATCTCGTTTAGGAGCTTGGGAAGATCAGATAT
1 TTGAGAAGACCTGATATCTCGTTTAGGAGCTTGGGAAGATC-GATAT
8281545 TTGATTTTTC
Statistics
Matches: 94, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
65 3 0.03
66 91 0.97
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (65 bp):
TTGAGAAGACCTGATATCTCGTTTAGGAGCTTGGGAAGATCGATATCGCATTCAGGATCTTAGGA
Found at i:8293389 original size:48 final size:46
Alignment explanation
Indices: 8293172--8293531 Score: 249
Period size: 47 Copynumber: 7.7 Consensus size: 46
8293162 ATATATTGCC
* *
8293172 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATACGTGTGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATCT-C-TGTGCT
* *
8293222 GATGCATGTCCCAGACATGTCTTACACTAGCA--CAACTCT-TAG-T
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGT-GCT
* * * *
8293265 CGATACGTGTCCCAGACATGCCTTACACTAG--CT-ATCTCTGTCGAGACT
1 -GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGT---G-CT
*
8293313 GATGCATGTCCTAGACATGTCTTACACTGGCACTCATCTCTGTGCT
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGTGCT
* * * *
8293359 GATGACATGTCTCAAACATGGTCTTACACTGGCTA-TCATAGTATG-GCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGC-ACTCAT-CTCTGTGCT
* * * * * *
8293407 AATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTC-GATACC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTG-TGCT
* * * *
8293453 GATGCCATGTTCCAGACATGGTCTTACACTGGCTCTCATAATATG-G-T
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCAT-CTCTGTGCT
*
8293500 CGAAGCATGTCCCAGACATGTCTTACACTGGC
1 -GATGCATGTCCCAGACATGTCTTACACTGGC
8293532 GCACAAATCA
Statistics
Matches: 247, Mismatches: 39, Indels: 52
0.73 0.12 0.15
Matches are distributed among these distances:
43 7 0.03
44 31 0.13
45 2 0.01
46 43 0.17
47 75 0.30
48 55 0.22
49 21 0.09
50 13 0.05
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGTGCT
Found at i:8293423 original size:94 final size:94
Alignment explanation
Indices: 8293172--8293528 Score: 340
Period size: 94 Copynumber: 3.8 Consensus size: 94
8293162 ATATATTGCC
* * *
8293172 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-TACGTGTGCTGATGCATGTCCCAG
1 GATGACATGTCCCAGACATGGTCTTACACTGGCTATCATAGTA--TG-GCTAATGCATGTCCCAG
*
8293236 ACATGTCTTACACTAGCA--CAACTCT-TAG-T
63 ACATGTCTTACACTAGCACTCATCTCTGT-GCT
* * * * * * *
8293265 CGAT-ACGTGTCCCAGACAT-GCCTTACACTAGCTATC-TCTGTCGA-GACTGATGCATGTCCTA
1 -GATGACATGTCCCAGACATGGTCTTACACTGGCTATCAT-AGT--ATGGCTAATGCATGTCCCA
*
8293326 GACATGTCTTACACTGGCACTCATCTCTGTGCT
62 GACATGTCTTACACTAGCACTCATCTCTGTGCT
* *
8293359 GATGACATGTCTCAAACATGGTCTTACACTGGCTATCATAGTATGGCTAATGCATGTCCCAGACA
1 GATGACATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCTAATGCATGTCCCAGACA
* * * *
8293424 TGTCTTACACTAGCCCTCGTCTC-GATACC
66 TGTCTTACACTAGCACTCATCTCTG-TGCT
* * * * *
8293453 GATGCCATGTTCCAGACATGGTCTTACACTGGCTCTCATAATATGGTCGAA-GCATGTCCCAGAC
1 GATGACATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGG-CTAATGCATGTCCCAGAC
8293517 ATGTCTTACACT
65 ATGTCTTACACT
8293529 GGCGCACAAA
Statistics
Matches: 218, Mismatches: 31, Indels: 28
0.79 0.11 0.10
Matches are distributed among these distances:
91 33 0.15
92 15 0.07
93 26 0.12
94 122 0.56
95 21 0.10
96 1 0.00
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (94 bp):
GATGACATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCTAATGCATGTCCCAGACA
TGTCTTACACTAGCACTCATCTCTGTGCT
Found at i:8296932 original size:46 final size:44
Alignment explanation
Indices: 8296828--8296935 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
8296818 TGTCTTTGAC
** * * *
8296828 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
8296872 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
8296918 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
8296936 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:8300863 original size:19 final size:19
Alignment explanation
Indices: 8300814--8300864 Score: 50
Period size: 19 Copynumber: 2.6 Consensus size: 19
8300804 ATCTTTATAC
*
8300814 CTAATTAATCTTAATTAAGCT
1 CTAATTAATC--AATTAAACT
*
8300835 -AAATTCAATCAATTAAACT
1 CTAATT-AATCAATTAAACT
8300854 CTAATTAATCA
1 CTAATTAATCA
8300865 CTCAATTCGC
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
19 13 0.52
20 8 0.32
21 4 0.16
ACGTcount: A:0.45, C:0.16, G:0.02, T:0.37
Consensus pattern (19 bp):
CTAATTAATCAATTAAACT
Found at i:8305199 original size:16 final size:17
Alignment explanation
Indices: 8305178--8305213 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
8305168 GAGTCGAGAG
8305178 AAAATTGGAAGGGT-GA
1 AAAATTGGAAGGGTAGA
*
8305194 AAAATTGGAGGGGTAGA
1 AAAATTGGAAGGGTAGA
8305211 AAA
1 AAA
8305214 CTAGAAGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.47, C:0.00, G:0.36, T:0.17
Consensus pattern (17 bp):
AAAATTGGAAGGGTAGA
Found at i:8317778 original size:16 final size:16
Alignment explanation
Indices: 8317707--8317776 Score: 104
Period size: 16 Copynumber: 4.4 Consensus size: 16
8317697 TTTGGTTCAA
*
8317707 TGTAATGGAATAGGAC
1 TGTAATGGAATAGAAC
8317723 TGTAATGGAATAGAAC
1 TGTAATGGAATAGAAC
**
8317739 TGTAATGGAATAGAGT
1 TGTAATGGAATAGAAC
*
8317755 TGTAATAGAATAGAAC
1 TGTAATGGAATAGAAC
8317771 TGTAAT
1 TGTAAT
8317777 AGCAATTCAA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.41, C:0.04, G:0.26, T:0.29
Consensus pattern (16 bp):
TGTAATGGAATAGAAC
Found at i:8317848 original size:44 final size:45
Alignment explanation
Indices: 8317763--8317849 Score: 124
Period size: 44 Copynumber: 2.0 Consensus size: 45
8317753 GTTGTAATAG
8317763 AATAGAACTGTAATAGCAATTCAATTGTTTGGCTGAATGGAATGT
1 AATAGAACTGTAATAGCAATTCAATTGTTTGGCTGAATGGAATGT
* * *
8317808 AATAGAACTGTAATAG-TATT-ATTGTGTTTGGTTGAATGGAAT
1 AATAGAACTGTAATAGCAATTCAAT-TGTTTGGCTGAATGGAAT
8317850 AGAGTTGTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
43 2 0.05
44 20 0.53
45 16 0.42
ACGTcount: A:0.34, C:0.06, G:0.23, T:0.37
Consensus pattern (45 bp):
AATAGAACTGTAATAGCAATTCAATTGTTTGGCTGAATGGAATGT
Found at i:8318258 original size:12 final size:12
Alignment explanation
Indices: 8318228--8318262 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
8318218 TCTATGTTAC
8318228 TTAAAGAATAAT
1 TTAAAGAATAAT
*
8318240 TTAAAAGAGTAAT
1 TT-AAAGAATAAT
8318253 TTAAAGAATA
1 TTAAAGAATA
8318263 TCTTGTCTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.31
Consensus pattern (12 bp):
TTAAAGAATAAT
Found at i:8318343 original size:8 final size:8
Alignment explanation
Indices: 8318330--8318385 Score: 67
Period size: 8 Copynumber: 7.0 Consensus size: 8
8318320 TGTTATGCCG
*
8318330 TATATATA
1 TATATTTA
*
8318338 TATATATA
1 TATATTTA
8318346 TATATTTA
1 TATATTTA
*
8318354 TTTATTTA
1 TATATTTA
*
8318362 TTTATTTA
1 TATATTTA
*
8318370 TTTATTTA
1 TATATTTA
8318378 TATATTTA
1 TATATTTA
8318386 ACATATTTTC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
8 45 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TATATTTA
Found at i:8318347 original size:4 final size:4
Alignment explanation
Indices: 8318348--8318385 Score: 67
Period size: 4 Copynumber: 9.5 Consensus size: 4
8318338 TATATATATA
*
8318348 TATT TATT TATT TATT TATT TATT TATT TATA TATT TA
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TA
8318386 ACATATTTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (4 bp):
TATT
Found at i:8318383 original size:12 final size:12
Alignment explanation
Indices: 8318330--8318385 Score: 67
Period size: 12 Copynumber: 4.7 Consensus size: 12
8318320 TGTTATGCCG
* *
8318330 TATATATATATA
1 TATATTTATTTA
*
8318342 TATATATATTTA
1 TATATTTATTTA
*
8318354 TTTATTTATTTA
1 TATATTTATTTA
*
8318366 TTTATTTATTTA
1 TATATTTATTTA
8318378 TATATTTA
1 TATATTTA
8318386 ACATATTTTC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 40 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
TATATTTATTTA
Found at i:8325621 original size:14 final size:14
Alignment explanation
Indices: 8325592--8325632 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
8325582 AAGTCCTGAC
8325592 CCTCAAACCC-AAA
1 CCTCAAACCCTAAA
8325605 CCTCAAACCCTAAA
1 CCTCAAACCCTAAA
* *
8325619 CCTTAAACCTTAAA
1 CCTCAAACCCTAAA
8325633 TCTTGAACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.44, C:0.39, G:0.00, T:0.17
Consensus pattern (14 bp):
CCTCAAACCCTAAA
Found at i:8325731 original size:27 final size:25
Alignment explanation
Indices: 8325692--8325742 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
8325682 TTATGGTTCA
8325692 AGGTTCAAATTAAGAGTTTAGGGTTTG
1 AGGTTCAAATT-A-AGTTTAGGGTTTG
**
8325719 AGGTTCATGTTAAGTTTAGGGTTT
1 AGGTTCAAATTAAGTTTAGGGTTT
8325743 ATGGTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 12 0.55
26 1 0.05
27 9 0.41
ACGTcount: A:0.25, C:0.04, G:0.29, T:0.41
Consensus pattern (25 bp):
AGGTTCAAATTAAGTTTAGGGTTTG
Found at i:8329702 original size:52 final size:52
Alignment explanation
Indices: 8329617--8329716 Score: 173
Period size: 52 Copynumber: 1.9 Consensus size: 52
8329607 CTCTTGTCAT
* *
8329617 TGTAATAACTCCTTCCATCGTTGCTTCCTCAAATAGAATACTATCATCAGCA
1 TGTAATAACTCCTTCCATCGTTGCTTCCCCAAATAGAATACCATCATCAGCA
*
8329669 TGTATTAACTCCTTCCATCGTTGCTTCCCCAAATAGAATACCATCATC
1 TGTAATAACTCCTTCCATCGTTGCTTCCCCAAATAGAATACCATCATC
8329717 TGCAAAGAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (52 bp):
TGTAATAACTCCTTCCATCGTTGCTTCCCCAAATAGAATACCATCATCAGCA
Found at i:8332924 original size:70 final size:70
Alignment explanation
Indices: 8332832--8333114 Score: 264
Period size: 70 Copynumber: 4.0 Consensus size: 70
8332822 AGATCCTTGG
* * * * * * *
8332832 TGTGGCTAGCACTAGTCAAACGAGTCGAAAAATTATTGTGCCAAGTGCTAGCCGGATAATCGACG
1 TGTGCCTAGCACTAGTCGAACGAATCGAAAAATTATTGTGCCAAGCGCTAGTCGGATAAACAACG
8332897 ATAGT
66 ATAGT
* * *
8332902 TGTGCCTAGCACTAGTCCAACGAA-CTGATAAATTATTGTGCCCAA-CGCTAATCGGATAAACAA
1 TGTGCCTAGCACTAGTCGAACGAATC-GAAAAATTATTGTG-CCAAGCGCTAGTCGGATAAACAA
*
8332965 CGGTAGT
64 CGATAGT
* * * * * ** *
8332972 TGTGCCCATCACTAGTTGAACGAATCGAAAAATTATTATGCCCAGCGCTAGTCAAATAACCAACG
1 TGTGCCTAGCACTAGTCGAACGAATCGAAAAATTATTGTGCCAAGCGCTAGTCGGATAAACAACG
8333037 ATAGT
66 ATAGT
* * * * * * * * * *
8333042 TGTGCCTAACATTAGTCGAACGAATCGACAAATTGTTGCGTCTAGCGCTGGTCGGATAACCTACG
1 TGTGCCTAGCACTAGTCGAACGAATCGAAAAATTATTGTGCCAAGCGCTAGTCGGATAAACAACG
*
8333107 ATGGT
66 ATAGT
8333112 TGT
1 TGT
8333115 CATCCGCAAT
Statistics
Matches: 172, Mismatches: 37, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
69 4 0.02
70 163 0.95
71 5 0.03
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.25
Consensus pattern (70 bp):
TGTGCCTAGCACTAGTCGAACGAATCGAAAAATTATTGTGCCAAGCGCTAGTCGGATAAACAACG
ATAGT
Found at i:8338623 original size:18 final size:19
Alignment explanation
Indices: 8338597--8338641 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
8338587 AAACGGCGAG
8338597 ATTAAATCATGAAA-CAAA
1 ATTAAATCATGAAATCAAA
* *
8338615 ATTATATCATTAAATCAAA
1 ATTAAATCATGAAATCAAA
*
8338634 ATAAAATC
1 ATTAAATC
8338642 TATTAAACAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.58, C:0.11, G:0.02, T:0.29
Consensus pattern (19 bp):
ATTAAATCATGAAATCAAA
Found at i:8338861 original size:78 final size:78
Alignment explanation
Indices: 8338775--8339234 Score: 515
Period size: 78 Copynumber: 5.8 Consensus size: 78
8338765 TTAATTTCTT
* *
8338775 GTTTTTGGAAATAAACCAAATTTGGAATGAAATCGTTGAACGGCAGGAATCAATCCCGAAACGAT
1 GTTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGCAGGAATCAATCCCGAAACGAT
8338840 TTTTATTTTACTC
66 TTTTATTTTACTC
* * *
8338853 ATTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAATGGCTA-GAATCAATCTCGAAACGA
1 GTTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGC-AGGAATCAATCCCGAAACGA
*
8338917 TTTTTATATTACTC
65 TTTTTATTTTACTC
* * *
8338931 GTTTTTTGAAATAAAACAAATTTGGAATAAAATCATTGAACGGC-GAGAATCGATCCCGAAACGA
1 GTTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGCAG-GAATCAATCCCGAAACGA
8338995 --TTT-TTTTACTC
65 TTTTTATTTTACTC
* * * * * *
8339006 GTTTTTGGAAATAGAATAAATTTGGAATAAAATCGCTGAACGGCAGAAATCAATCCTGAAAC-AA
1 GTTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGCAGGAATCAATCCCGAAACGAT
8339070 TTTTATTTTACTC
66 TTTTATTTTACTC
* * * * *
8339083 GTTTTTGGAAATAAAACAATTTTAGAATAAAATCGTTGAATGG-TGAGAATCAATCCGGAAACGA
1 GTTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGCAG-GAATCAATCCCGAAACGA
8339147 TTTTTATTTTACTTTTAAC
65 TTTTTATTTTAC---T--C
*
8339166 -TTCCCATTTGGAAATAAAATCAAATTAATGGAATAAAATCCGTTGAATGGC-GAGAATCAATCC
1 GTT----TTTGGAAATAAAA-CAAATT--TGGAATAAAAT-CGTTGAACGGCAG-GAATCAATCC
8339229 CGAAAC
57 CGAAAC
8339235 AAATTTTACC
Statistics
Matches: 325, Mismatches: 34, Indels: 34
0.83 0.09 0.09
Matches are distributed among these distances:
74 1 0.00
75 59 0.18
76 8 0.02
77 59 0.18
78 138 0.42
79 1 0.00
81 1 0.00
82 2 0.01
83 1 0.00
86 13 0.04
87 5 0.02
89 10 0.03
90 27 0.08
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.32
Consensus pattern (78 bp):
GTTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGCAGGAATCAATCCCGAAACGAT
TTTTATTTTACTC
Found at i:8339144 original size:152 final size:152
Alignment explanation
Indices: 8338775--8339151 Score: 508
Period size: 152 Copynumber: 2.4 Consensus size: 152
8338765 TTAATTTCTT
* * *
8338775 GTTTTTGGAAATAAACCAAATTTGGAATGAAATCGTTGAACGGCAGGAATCAATCCCGAAACGAT
1 GTTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGGA-GAATCAATCCCGAAACGA-
* *
8338840 TTTTATTTTACTCATTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAATGGCTAGAATCA
64 -TTT-TTTTACTCATTTTTGGAAATAAAACAAATTTGGAATAAAATCGCTGAACGGCTAGAATCA
*
8338905 ATCTCGAAACGATTTTTATATTACTC
127 ATCTCGAAACGAATTTTATATTACTC
* * *
8338931 GTTTTTTGAAATAAAACAAATTTGGAATAAAATCATTGAACGGCGAGAATCGATCCCGAAACGAT
1 GTTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGG-GAGAATCAATCCCGAAACGAT
* * *
8338996 TTTTTTACTCGTTTTTGGAAATAGAATAAATTTGGAATAAAATCGCTGAACGGC-AGAAATCAAT
65 TTTTTTACTCATTTTTGGAAATAAAACAAATTTGGAATAAAATCGCTGAACGGCTAG-AATCAAT
*
8339060 C-CTGAAAC-AATTTTATTTTACTC
129 CTC-GAAACGAATTTTATATTACTC
* * * *
8339083 GTTTTTGGAAATAAAACAATTTTAGAATAAAATCGTTGAATGGTGAGAATCAATCCGGAAACGAT
1 GTTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGG-GAGAATCAATCCCGAAACGAT
8339148 TTTT
65 TTTT
8339152 ATTTTACTTT
Statistics
Matches: 197, Mismatches: 21, Indels: 10
0.86 0.09 0.04
Matches are distributed among these distances:
152 77 0.39
153 60 0.30
154 3 0.02
156 56 0.28
157 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (152 bp):
GTTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGGAGAATCAATCCCGAAACGATT
TTTTTACTCATTTTTGGAAATAAAACAAATTTGGAATAAAATCGCTGAACGGCTAGAATCAATCT
CGAAACGAATTTTATATTACTC
Found at i:8341245 original size:21 final size:21
Alignment explanation
Indices: 8341220--8341262 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
8341210 CTTTATATAT
*
8341220 TTTTTAGAATTTTTTTTGAAA
1 TTTTTAGAATTTTTTTTAAAA
*
8341241 TTTTTATAATTTTTTTTAAAA
1 TTTTTAGAATTTTTTTTAAAA
8341262 T
1 T
8341263 ATAAATTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (21 bp):
TTTTTAGAATTTTTTTTAAAA
Found at i:8341299 original size:20 final size:20
Alignment explanation
Indices: 8341252--8341321 Score: 54
Period size: 20 Copynumber: 3.3 Consensus size: 20
8341242 TTTTATAATT
8341252 TTTTTTAAAATATAAATTTTGGAA
1 TTTTTTAAAAT-T--ATTTT-GAA
*
8341276 -TTTTTATAAA-TATTTTTAA
1 TTTTTTA-AAATTATTTTGAA
*
8341295 TTTTTGAAAATTATTTTGAA
1 TTTTTTAAAATTATTTTGAA
8341315 TTATTTT
1 TT-TTTT
8341322 GTAATTTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 11
0.72 0.08 0.21
Matches are distributed among these distances:
19 5 0.13
20 20 0.53
21 3 0.08
22 1 0.03
23 6 0.16
24 3 0.08
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.59
Consensus pattern (20 bp):
TTTTTTAAAATTATTTTGAA
Found at i:8341305 original size:19 final size:20
Alignment explanation
Indices: 8341267--8341316 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
8341257 TAAAATATAA
8341267 ATTTTGGAATTTTTATAAA-T
1 ATTTT-GAATTTTTATAAATT
*
8341287 ATTTTTAATTTTTGA-AAATT
1 ATTTTGAATTTTT-ATAAATT
8341307 ATTTTGAATT
1 ATTTTGAATT
8341317 ATTTTGTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (20 bp):
ATTTTGAATTTTTATAAATT
Found at i:8344420 original size:4 final size:4
Alignment explanation
Indices: 8344411--8344442 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
8344401 AGCTAATACA
*
8344411 AAAG AAAG AAAG AAAG AAAG AAAG AAAA AAAG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG
8344443 GTTATTTTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:8349095 original size:15 final size:16
Alignment explanation
Indices: 8349058--8349101 Score: 63
Period size: 15 Copynumber: 2.8 Consensus size: 16
8349048 TGAAATAGAG
8349058 TTGTAATAGAATATAA
1 TTGTAATAGAATATAA
*
8349074 CTGTAATAGAATA-AA
1 TTGTAATAGAATATAA
*
8349089 TTGTAATATAATA
1 TTGTAATAGAATA
8349102 GAGTTATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
15 13 0.52
16 12 0.48
ACGTcount: A:0.50, C:0.02, G:0.11, T:0.36
Consensus pattern (16 bp):
TTGTAATAGAATATAA
Found at i:8349356 original size:15 final size:15
Alignment explanation
Indices: 8349336--8349364 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
8349326 TTATTATTAA
8349336 ATATAATTTAATAAT
1 ATATAATTTAATAAT
8349351 ATATAATTTAATAA
1 ATATAATTTAATAA
8349365 CATTTTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATATAATTTAATAAT
Found at i:8354326 original size:30 final size:30
Alignment explanation
Indices: 8354292--8354352 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
8354282 TCCTTAACTC
8354292 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
8354322 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
8354352 A
1 A
8354353 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:8358977 original size:6 final size:6
Alignment explanation
Indices: 8358965--8359014 Score: 55
Period size: 6 Copynumber: 8.2 Consensus size: 6
8358955 TAGGTTTTCA
* * * *
8358965 AAAATG GAAATG GAAATG AAAATG AAAATG AATATA AAAATG AGAAATG
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG A-AAATG
8359014 A
1 A
8359015 TTCATTTGCA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
6 31 0.84
7 6 0.16
ACGTcount: A:0.62, C:0.00, G:0.20, T:0.18
Consensus pattern (6 bp):
AAAATG
Found at i:8360738 original size:352 final size:352
Alignment explanation
Indices: 8360094--8361152 Score: 2028
Period size: 352 Copynumber: 3.0 Consensus size: 352
8360084 AATGACTTAG
8360094 TTGGTATGCTTGAATAACATTGAAATGGATAAGTATGATTGATGAATTTGAATTGAATATCTTAT
1 TTGGTATGCTTGAATAACATTGAAATGGATAAGTATGATTGATGAATTTGAATTGAATATCTTAT
*
8360159 AAGAAAGTTAAGTTGAATGTTTAAGCTTATTTGGTACGGTTTGGATATGTTTTCGAACCATTTGA
66 AAGAAAGTTAAGTTGAATGTTTAAGCTTATTTGGTACGGTTTGGATATGTTTTCAAACCATTTGA
*
8360224 AATTGATGTTTGATGTATAAAATGTTAGGTGTGATGGAAGCATTAAAATTGGTATAAAATGACTT
131 AATTGATGTTTGATGTATAAAATGTTAGGTGTGATGGAAGCATTGAAATTGGTATAAAATGACTT
*
8360289 AAATTGTACCAAAAACAGAGTCCATGTCACGACATTGAGCAATGGTCGTTGCTATCAGCTTTGGG
196 AAATTGTACCAAAAACAGAGTCCACGTCACGACATTGAGCAATGGTCGTTGCTATCAGCTTTGGG
8360354 CTTCAGGCCACGGTATGACAAGAAACCCTGTTGCCACAACGAGACCAAATCAGTATGTCACGTTA
261 CTTCAGGCCACGGTATGACAAGAAACCCTGTTGCCACAACGAGACCAAATCAGTATGTCACGTTA
*
8360419 CGACGAGGAAATCCTTATGCCATGACA
326 CGACGAGGAAATCCTTATGCCGTGACA
8360446 TTGGTATGCTTGAATAACATTGAAATGGATAAGTATGATTGATGAATTTGAATTGAATATCTTAT
1 TTGGTATGCTTGAATAACATTGAAATGGATAAGTATGATTGATGAATTTGAATTGAATATCTTAT
8360511 AAGAAAGTTAAGTTGAATGTTTAAGCTTATTTGGTACGGTTTGGATATGTTTTCAAACCATTTGA
66 AAGAAAGTTAAGTTGAATGTTTAAGCTTATTTGGTACGGTTTGGATATGTTTTCAAACCATTTGA
*
8360576 AATTGATGTTTGATGTATAAAATGTTAGGTGTGATGGAAGCATTGAAATTGGTATAAAATAACTT
131 AATTGATGTTTGATGTATAAAATGTTAGGTGTGATGGAAGCATTGAAATTGGTATAAAATGACTT
8360641 AAATTGTACCAAAAACAGAGTCCACGTCACGACATTGAGCAATGGTCGTTGCTATCAGCTTTGGG
196 AAATTGTACCAAAAACAGAGTCCACGTCACGACATTGAGCAATGGTCGTTGCTATCAGCTTTGGG
*
8360706 CTTCAGGCCACGGTATGACAAGAAACCCTGTTGCCACAACGAGACCAAATTAGTATGTCACGTTA
261 CTTCAGGCCACGGTATGACAAGAAACCCTGTTGCCACAACGAGACCAAATCAGTATGTCACGTTA
8360771 CGACGAGGAAATCCTTATGCCGTGACA
326 CGACGAGGAAATCCTTATGCCGTGACA
8360798 TTGGTATGCTTGAATAACATTGAAATGGATAAGTATGATTGATGAATTTGAATTGAATATCTTAT
1 TTGGTATGCTTGAATAACATTGAAATGGATAAGTATGATTGATGAATTTGAATTGAATATCTTAT
8360863 AAGAAAGTTAAGTTGAATGTTTAAGCTTATTTGGTACGGTTTGGATATGTTTTCAAACCATTTGA
66 AAGAAAGTTAAGTTGAATGTTTAAGCTTATTTGGTACGGTTTGGATATGTTTTCAAACCATTTGA
8360928 AATTGATGTTTGATGTATAAAATGTTAGGTGTGATGGAAGCATTGAAATTGGTATAAAATGACTT
131 AATTGATGTTTGATGTATAAAATGTTAGGTGTGATGGAAGCATTGAAATTGGTATAAAATGACTT
**
8360993 AAATTGTACCAAAAACAGAGTCCACGTCACGACATTGAGCAATGGTCGTCACTATCAGCTTTGGG
196 AAATTGTACCAAAAACAGAGTCCACGTCACGACATTGAGCAATGGTCGTTGCTATCAGCTTTGGG
*
8361058 CTTCAAGCCACGGTATGACAAGAAACCCTGTTGCCACAACGAGACCAAATCAGTATGTCACGTTA
261 CTTCAGGCCACGGTATGACAAGAAACCCTGTTGCCACAACGAGACCAAATCAGTATGTCACGTTA
*
8361123 CGACGAGAAAATCCTTATGCCGTGACA
326 CGACGAGGAAATCCTTATGCCGTGACA
8361150 TTG
1 TTG
8361153 ACCCAAAATT
Statistics
Matches: 695, Mismatches: 12, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
352 695 1.00
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (352 bp):
TTGGTATGCTTGAATAACATTGAAATGGATAAGTATGATTGATGAATTTGAATTGAATATCTTAT
AAGAAAGTTAAGTTGAATGTTTAAGCTTATTTGGTACGGTTTGGATATGTTTTCAAACCATTTGA
AATTGATGTTTGATGTATAAAATGTTAGGTGTGATGGAAGCATTGAAATTGGTATAAAATGACTT
AAATTGTACCAAAAACAGAGTCCACGTCACGACATTGAGCAATGGTCGTTGCTATCAGCTTTGGG
CTTCAGGCCACGGTATGACAAGAAACCCTGTTGCCACAACGAGACCAAATCAGTATGTCACGTTA
CGACGAGGAAATCCTTATGCCGTGACA
Found at i:8363495 original size:40 final size:40
Alignment explanation
Indices: 8363428--8363715 Score: 454
Period size: 40 Copynumber: 7.2 Consensus size: 40
8363418 CCTTCAGAAT
* *
8363428 TTAG-CCGGATATAGCT-ACTTGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGAC
**
8363467 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGACAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* **
8363507 TTAGCCCAGATATAGTAACTCGCACAAATGCCTTCGACAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* **
8363547 TTAGCCCAGATATAGTAACTCGCACAAATGCCTTCGACAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
*
8363587 TTAGCCCAGATATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
8363627 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
8363667 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
8363707 TTAGCCCGG
1 TTAGCCCGG
8363716 TTATCATCCG
Statistics
Matches: 239, Mismatches: 8, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
39 5 0.02
40 234 0.98
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:8365956 original size:15 final size:15
Alignment explanation
Indices: 8365936--8365968 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
8365926 GCTAAATCTT
8365936 AGCCATCGATAACTA
1 AGCCATCGATAACTA
8365951 AGCCATCGATAACTA
1 AGCCATCGATAACTA
8365966 AGC
1 AGC
8365969 TCTTGACTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.39, C:0.27, G:0.15, T:0.18
Consensus pattern (15 bp):
AGCCATCGATAACTA
Found at i:8367221 original size:18 final size:19
Alignment explanation
Indices: 8367195--8367233 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
8367185 AGTTAATGCG
* *
8367195 ATAATAGAAGTTTTAATTA
1 ATAATAGAAATTTCAATTA
8367214 ATAA-AGAAATTTCAATTA
1 ATAATAGAAATTTCAATTA
8367232 AT
1 AT
8367234 CAACTTAGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.51, C:0.03, G:0.08, T:0.38
Consensus pattern (19 bp):
ATAATAGAAATTTCAATTA
Found at i:8386773 original size:61 final size:58
Alignment explanation
Indices: 8386708--8386819 Score: 143
Period size: 61 Copynumber: 1.9 Consensus size: 58
8386698 TGTGATTTTC
* *
8386708 TTAATATTAAATTAAATAAAATATTTATTTTGTAGATAAGTATTCTATTAATTTGATAGAT
1 TTAATATTAAATTAAATAAAATATTT-GTCT-T-GATAAGTATTCTATTAATTTGATAGAT
* ** *
8386769 TTAATATTAAATTTAATCTAATATTTGTCTTGATAAGTATTTTATTAATTT
1 TTAATATTAAATTAAATAAAATATTTGTCTTGATAAGTATTCTATTAATTT
8386820 AATATTAAAG
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
58 19 0.42
59 1 0.02
60 2 0.04
61 23 0.51
ACGTcount: A:0.39, C:0.03, G:0.07, T:0.51
Consensus pattern (58 bp):
TTAATATTAAATTAAATAAAATATTTGTCTTGATAAGTATTCTATTAATTTGATAGAT
Found at i:8392537 original size:15 final size:16
Alignment explanation
Indices: 8392508--8392540 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
8392498 ACTTGTTCCA
8392508 AACATGAGTTATTCTC
1 AACATGAGTTATTCTC
*
8392524 AACAT-AGTTGTTCTC
1 AACATGAGTTATTCTC
8392539 AA
1 AA
8392541 TGTAGAGGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.36
Consensus pattern (16 bp):
AACATGAGTTATTCTC
Found at i:8398272 original size:21 final size:21
Alignment explanation
Indices: 8398247--8398287 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
8398237 GGAGTTATCA
8398247 AAAAGAAAAAGAAAAAGAACC
1 AAAAGAAAAAGAAAAAGAACC
** *
8398268 AAAAGAGGAAGAAGAAGAAC
1 AAAAGAAAAAGAAAAAGAAC
8398288 AGATGTTCCC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.71, C:0.07, G:0.22, T:0.00
Consensus pattern (21 bp):
AAAAGAAAAAGAAAAAGAACC
Found at i:8401084 original size:35 final size:35
Alignment explanation
Indices: 8401045--8401239 Score: 250
Period size: 35 Copynumber: 5.6 Consensus size: 35
8401035 CATGGCAAAG
*
8401045 TGTGAAACGTAGGTGTGGTATCATCCATACCGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACCGAGT
* * *
8401080 TGTGAAACGTAGGTATGGTATTAACCATACCAAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACCGAGT
8401115 TGTGAAACGTAGGTATGGTATCATCCATACCGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACCGAGT
* *
8401150 TGTGAAACGTAGGTATGGTATTATCCATACTGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACCGAGT
** ** *
8401185 TAAG-AACGTAGGTATGACAT-TTCCCATACCGAGT
1 TGTGAAACGTAGGTATGGTATCAT-CCATACCGAGT
* *
8401219 TGTGAAATGTAGATATGGTAT
1 TGTGAAACGTAGGTATGGTAT
8401240 TTCAATAAGG
Statistics
Matches: 137, Mismatches: 21, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
33 1 0.01
34 26 0.19
35 110 0.80
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.30
Consensus pattern (35 bp):
TGTGAAACGTAGGTATGGTATCATCCATACCGAGT
Found at i:8405916 original size:42 final size:42
Alignment explanation
Indices: 8405896--8406004 Score: 155
Period size: 42 Copynumber: 2.6 Consensus size: 42
8405886 TCACATCGAA
* * *
8405896 GCCATATCCCAGATATGGTCTTATACGAAATCTCATTTCAAT
1 GCCATATCCCAGATATGGTCTTACACGAAATCTCATATCAAC
* * *
8405938 GCCATGTCCCAAACATGGTCTTACACGAAATCTCATATCAAC
1 GCCATATCCCAGATATGGTCTTACACGAAATCTCATATCAAC
*
8405980 ACCATATCCCAGATATGGTCTTACA
1 GCCATATCCCAGATATGGTCTTACA
8406005 TGATAACATA
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 57 1.00
ACGTcount: A:0.32, C:0.28, G:0.12, T:0.28
Consensus pattern (42 bp):
GCCATATCCCAGATATGGTCTTACACGAAATCTCATATCAAC
Found at i:8409872 original size:15 final size:15
Alignment explanation
Indices: 8409852--8409882 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
8409842 TACCTGGAAC
8409852 TAGATTAATGCTGAA
1 TAGATTAATGCTGAA
8409867 TAGATTAATGCTGAA
1 TAGATTAATGCTGAA
8409882 T
1 T
8409883 TCCACTTCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.19, T:0.35
Consensus pattern (15 bp):
TAGATTAATGCTGAA
Found at i:8417145 original size:42 final size:42
Alignment explanation
Indices: 8417099--8417209 Score: 123
Period size: 42 Copynumber: 2.6 Consensus size: 42
8417089 TTTCACATCG
* * *
8417099 ATGCCATATCCTAGATATGGTATTATACGAAATCTCATTTCA
1 ATGCCATATCCCAGATATGGTATTACACGAAATCTCATATCA
* * ** *
8417141 ATGCCATGTCCCACACGTGGTCTTACACGAAATCTCATATCA
1 ATGCCATATCCCAGATATGGTATTACACGAAATCTCATATCA
** *
8417183 ACACCATATCCCAGATATGGTCTTACA
1 ATGCCATATCCCAGATATGGTATTACA
8417210 TGATAACATA
Statistics
Matches: 55, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTATTACACGAAATCTCATATCA
Found at i:8420590 original size:12 final size:12
Alignment explanation
Indices: 8420573--8420602 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
8420563 ATAGTGAGTT
8420573 ACACGGCCTACC
1 ACACGGCCTACC
8420585 ACACGGCCTACC
1 ACACGGCCTACC
8420597 ACACGG
1 ACACGG
8420603 TCATGTGGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.27, C:0.47, G:0.20, T:0.07
Consensus pattern (12 bp):
ACACGGCCTACC
Done.