Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 11160956
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 40 of 55
Found at i:8002766 original size:14 final size:15
Alignment explanation
Indices: 8002739--8002767 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
8002729 ATATCATATA
8002739 TCTTATGTTTTATGC
1 TCTTATGTTTTATGC
8002754 TCTTATG-TTTATGC
1 TCTTATGTTTTATGC
8002768 ATATCATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.14, C:0.14, G:0.14, T:0.59
Consensus pattern (15 bp):
TCTTATGTTTTATGC
Found at i:8003149 original size:19 final size:20
Alignment explanation
Indices: 8003112--8003150 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
8003102 TTTTTCATTT
8003112 AGGGGGAATCAATACCCCCC
1 AGGGGGAATCAATACCCCCC
**
8003132 AGGGGGAATTGATACCCCC
1 AGGGGGAATCAATACCCCC
8003151 TGGACATTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.31, G:0.28, T:0.13
Consensus pattern (20 bp):
AGGGGGAATCAATACCCCCC
Found at i:8004188 original size:19 final size:19
Alignment explanation
Indices: 8004140--8004189 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
8004130 ATTATTGTTG
8004140 TTGTGGTTTATGTTCATTTA
1 TTGT-GTTTATGTTCATTTA
* *
8004160 TGTTTGTTTATGTTCATTTC
1 T-TGTGTTTATGTTCATTTA
8004180 TTGTGTTTAT
1 TTGTGTTTAT
8004190 TTATGTTCGT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 8 0.31
20 16 0.62
21 2 0.08
ACGTcount: A:0.12, C:0.06, G:0.18, T:0.64
Consensus pattern (19 bp):
TTGTGTTTATGTTCATTTA
Found at i:8004213 original size:14 final size:14
Alignment explanation
Indices: 8004203--8004238 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
8004193 TGTTCGTTAA
8004203 TGTTCGTTCGTTTG
1 TGTTCGTTCGTTTG
8004217 TGTTCGTTCGTTTG
1 TGTTCGTTCGTTTG
8004231 TGTTCGTT
1 TGTTCGTT
8004239 TACATCCGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.00, C:0.14, G:0.28, T:0.58
Consensus pattern (14 bp):
TGTTCGTTCGTTTG
Found at i:8010588 original size:17 final size:17
Alignment explanation
Indices: 8010550--8010591 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
8010540 AAGGATTTTG
8010550 GTAAAAATGATTAAATA
1 GTAAAAATGATTAAATA
* *
8010567 ATAAAAAGTGATTTAA-A
1 GTAAAAA-TGATTAAATA
8010584 GTAAAAAT
1 GTAAAAAT
8010592 AAAAATAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
16 1 0.05
17 13 0.62
18 7 0.33
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.29
Consensus pattern (17 bp):
GTAAAAATGATTAAATA
Found at i:8011980 original size:31 final size:31
Alignment explanation
Indices: 8011937--8012047 Score: 168
Period size: 31 Copynumber: 3.6 Consensus size: 31
8011927 AGGGTCGAGG
8011937 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
8011968 ATTTACCGATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
8011999 GTTTACCTATGTTCTTCGAGACAAATGGAAT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
8012030 GTTTACCTAGGTTCTTCG
1 GTTTACCTATGTTCTTCG
8012048 AAATCTATGG
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 72 1.00
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.38
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:8012048 original size:31 final size:31
Alignment explanation
Indices: 8011937--8012061 Score: 162
Period size: 31 Copynumber: 4.0 Consensus size: 31
8011927 AGGGTCGAGG
*
8011937 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGAGACATATGGACT
* * *
8011968 ATTTACCGATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGAGACATATGGACT
* *
8011999 GTTTACCTATGTTCTTCGAGACAAATGGAAT
1 GTTTACCTATGTTCTTCGAGACATATGGACT
* *
8012030 GTTTACCTAGGTTCTTCGAAATC-TATGGACT
1 GTTTACCTATGTTCTTCGAGA-CATATGGACT
8012061 G
1 G
8012062 GTCTTTCGGG
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
31 81 0.99
32 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.37
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGAGACATATGGACT
Found at i:8014227 original size:24 final size:24
Alignment explanation
Indices: 8014191--8014243 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
8014181 TTAGCATATT
*
8014191 TAAAAATAAAACTT-AAAATAAAA
1 TAAAAATAAAACTTGAAAAGAAAA
*
8014214 TAAAAATGATAACTTGAAAAGAAAA
1 TAAAAAT-AAAACTTGAAAAGAAAA
*
8014239 GAAAA
1 TAAAA
8014244 GAAAGAACTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 7 0.28
24 6 0.24
25 12 0.48
ACGTcount: A:0.70, C:0.04, G:0.08, T:0.19
Consensus pattern (24 bp):
TAAAAATAAAACTTGAAAAGAAAA
Found at i:8016086 original size:26 final size:26
Alignment explanation
Indices: 8016052--8016103 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
8016042 ACTTATATTT
8016052 AAAACATTAATGGTTGTATTGATGTA
1 AAAACATTAATGGTTGTATTGATGTA
8016078 AAAACATTAATGGTTGTATTGATGTA
1 AAAACATTAATGGTTGTATTGATGTA
8016104 TCATCATAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.04, G:0.19, T:0.38
Consensus pattern (26 bp):
AAAACATTAATGGTTGTATTGATGTA
Found at i:8019742 original size:289 final size:290
Alignment explanation
Indices: 8019190--8019771 Score: 1069
Period size: 289 Copynumber: 2.0 Consensus size: 290
8019180 TAAGGAAACA
8019190 TTTTAGTCTTTTAAGATTCAAGAAAAGTGGCTGAGCAGGATTGCCAGCAACCGGGGACAACCATG
1 TTTTAGTCTTTTAAGATTCAAGAAAAGTGGCTGAGCAGGATTGCCAGCAACCGGGGACAACCATG
**
8019255 ATTCTTTGACAATAGACATAAAGTCTGGATGCATTGCCCAGAAGTTAAAAAACTTGAAAGGCTTT
66 ATTCTTTGACAATAGACATAAAGTCAAGATGCATTGCCCAGAAGTTAAAAAACTTGAAAGGCTTT
* * *
8019320 GGCTTGTCATTGGGAGCATCCTTGTATAGCCAGACTAAAGCTAGGCAGTGATTCGAATCACCAGG
131 GGCTTGTCATTGGGAGCATCCTTATATAGCCAGACTAAAGCTAGGCAGTGATCCGAATCACCAAG
*
8019385 GGCGTGAAATTCCACCACTGAAGAAGGAAAAGCCACGATCCAACTAGGATTGATAAGAGCACGTC
196 GGCGTGAAATTCCACCACTCAAGAAGGAAAAGCCACGATCCAACTAGGATTGATAAGAGCACGTC
8019450 CAACTTACGAGCTAGGTAAG-ATCCTACTG
261 CAACTTACGAGCTAGGTAAGAATCCTACTG
8019479 TTTTAGTCTTTTAAGATTCAAGAAAAGTGGCTGAGCAGGATTGCCAGCAACCGGGGACAACCATG
1 TTTTAGTCTTTTAAGATTCAAGAAAAGTGGCTGAGCAGGATTGCCAGCAACCGGGGACAACCATG
8019544 ATTCTTTGACAATAGACATAAAGTCAAGATGCATTGCCCAGAAGTTAAAAAACTTGAAAGGCTTT
66 ATTCTTTGACAATAGACATAAAGTCAAGATGCATTGCCCAGAAGTTAAAAAACTTGAAAGGCTTT
* *
8019609 GGCTTGTCATTGGGAGCATCCTTATGTAGCCAGACTAAAGCTTGGCAGTGATCCGAATCACCAAG
131 GGCTTGTCATTGGGAGCATCCTTATATAGCCAGACTAAAGCTAGGCAGTGATCCGAATCACCAAG
8019674 GGCGTGAAATTCCACCAC-CAAGAAGGAAAAGCCACGATCCAACTAGGATTGATAAGAGCACAGT
196 GGCGTGAAATTCCACCACTCAAGAAGGAAAAGCCACGATCCAACTAGGATTGATAAGAGCAC-GT
8019738 CCAACTTACGAGCTAGGTAAGAATCCTACTG
260 CCAACTTACGAGCTAGGTAAGAATCCTACTG
8019769 TTT
1 TTT
8019772 GTTTGACCAG
Statistics
Matches: 283, Mismatches: 8, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
288 42 0.15
289 229 0.81
290 12 0.04
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (290 bp):
TTTTAGTCTTTTAAGATTCAAGAAAAGTGGCTGAGCAGGATTGCCAGCAACCGGGGACAACCATG
ATTCTTTGACAATAGACATAAAGTCAAGATGCATTGCCCAGAAGTTAAAAAACTTGAAAGGCTTT
GGCTTGTCATTGGGAGCATCCTTATATAGCCAGACTAAAGCTAGGCAGTGATCCGAATCACCAAG
GGCGTGAAATTCCACCACTCAAGAAGGAAAAGCCACGATCCAACTAGGATTGATAAGAGCACGTC
CAACTTACGAGCTAGGTAAGAATCCTACTG
Found at i:8027997 original size:19 final size:18
Alignment explanation
Indices: 8027975--8028017 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
8027965 GTATTAAGCC
*
8027975 TATATTTAATATTTTTTAT
1 TATATTTAATA-CTTTTAT
8027994 TATATTTAATACTTTTAT
1 TATATTTAATACTTTTAT
8028012 TA-ATTT
1 TATATTT
8028018 GGTTAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 4 0.17
18 8 0.35
19 11 0.48
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (18 bp):
TATATTTAATACTTTTAT
Found at i:8028478 original size:131 final size:131
Alignment explanation
Indices: 8028268--8028530 Score: 510
Period size: 131 Copynumber: 2.0 Consensus size: 131
8028258 TATTAAACAA
8028268 TGAAAACAAATATTTAATATATTTACATAAACATTAATTTGTATAATTACAAAACTGATAAGAAC
1 TGAAAACAAATATTTAATATATTTACATAAACATTAATTTGTATAATTACAAAACTGATAAGAAC
8028333 ATTTGCAATTTAAACATTTGCAGTACATGCCAACAAAACTTC-AAAATAAACAAAATCACATAAT
66 ATTTGCAATTTAAACATTTGCAGTACATGCCAACAAAACTTCAAAAAT-AACAAAATCACATAAT
8028397 GT
130 GT
8028399 TGAAAACAAATATTTAATATATTTACATAAACATTAATTTGTATAATTACAAAACTGATAAGAAC
1 TGAAAACAAATATTTAATATATTTACATAAACATTAATTTGTATAATTACAAAACTGATAAGAAC
8028464 ATTTGCAATTTAAACATTTGCAGTACATGCCAACAAAACTTCAAAAATAACAAAATCACATAATG
66 ATTTGCAATTTAAACATTTGCAGTACATGCCAACAAAACTTCAAAAATAACAAAATCACATAATG
8028529 T
131 T
8028530 T
1 T
8028531 CAAATCAACC
Statistics
Matches: 131, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
131 126 0.96
132 5 0.04
ACGTcount: A:0.49, C:0.14, G:0.07, T:0.31
Consensus pattern (131 bp):
TGAAAACAAATATTTAATATATTTACATAAACATTAATTTGTATAATTACAAAACTGATAAGAAC
ATTTGCAATTTAAACATTTGCAGTACATGCCAACAAAACTTCAAAAATAACAAAATCACATAATG
T
Found at i:8028966 original size:23 final size:23
Alignment explanation
Indices: 8028913--8028982 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 23
8028903 CCCGAAGTGT
* *
8028913 CACATAGATTTGTCTC-AAAGGAA
1 CACATAGAATTGTCTCGAAA-GAC
* *
8028936 CGCGTAGAATTGTCTCGAAAGAC
1 CACATAGAATTGTCTCGAAAGAC
* *
8028959 CACATAGAATTGTCCCGAAGGAC
1 CACATAGAATTGTCTCGAAAGAC
8028982 C
1 C
8028983 GCGTAGACTC
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
23 35 0.92
24 3 0.08
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.21
Consensus pattern (23 bp):
CACATAGAATTGTCTCGAAAGAC
Found at i:8028989 original size:23 final size:23
Alignment explanation
Indices: 8028930--8028989 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
8028920 ATTTGTCTCA
* *
8028930 AAGGAACGCGTAGAATTGTCTCG
1 AAGGACCGCGTAGAATTGTCCCG
* * *
8028953 AAAGACCACATAGAATTGTCCCG
1 AAGGACCGCGTAGAATTGTCCCG
8028976 AAGGACCGCGTAGA
1 AAGGACCGCGTAGA
8028990 CTCAACCCTT
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.35, C:0.22, G:0.27, T:0.17
Consensus pattern (23 bp):
AAGGACCGCGTAGAATTGTCCCG
Found at i:8029710 original size:24 final size:24
Alignment explanation
Indices: 8029662--8029711 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
8029652 TAGTTAGTAT
* *
8029662 AAATTGCACCGAAGTGTCGCGTAG
1 AAATTGCACCGAAGTGTCACATAG
8029686 AAATTGCACCGAAGTGTCACATAG
1 AAATTGCACCGAAGTGTCACATAG
8029710 AA
1 AA
8029712 TTGTCCCGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.20
Consensus pattern (24 bp):
AAATTGCACCGAAGTGTCACATAG
Found at i:8029720 original size:23 final size:23
Alignment explanation
Indices: 8029670--8029745 Score: 75
Period size: 23 Copynumber: 3.3 Consensus size: 23
8029660 ATAAATTGCA
* *
8029670 CCGAAGTGTCGCGTAGAAATTG-C
1 CCGAAGTGTCACATAG-AATTGTC
8029693 ACCGAAGTGTCACATAGAATTGTC
1 -CCGAAGTGTCACATAGAATTGTC
* *
8029717 CCGAAG-GACCACATAGTATTGTC
1 CCGAAGTG-TCACATAGAATTGTC
8029740 CCGAAG
1 CCGAAG
8029746 GACCACGTAG
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
22 1 0.02
23 30 0.65
24 15 0.33
ACGTcount: A:0.30, C:0.24, G:0.25, T:0.21
Consensus pattern (23 bp):
CCGAAGTGTCACATAGAATTGTC
Found at i:8029746 original size:23 final size:23
Alignment explanation
Indices: 8029707--8029826 Score: 159
Period size: 23 Copynumber: 5.2 Consensus size: 23
8029697 AAGTGTCACA
*
8029707 TAGAATTGTCCCGAAGGACCACA
1 TAGAATTGTCCCGAAGGACCACG
*
8029730 TAGTATTGTCCCGAAGGACCACG
1 TAGAATTGTCCCGAAGGACCACG
* * *
8029753 TAGAAATGTCCCAAAAGACCACG
1 TAGAATTGTCCCGAAGGACCACG
* * *
8029776 TAGAAATGTCCCAAAAGACCACG
1 TAGAATTGTCCCGAAGGACCACG
*
8029799 TAGAATTGTCCCGAAGGACCGCG
1 TAGAATTGTCCCGAAGGACCACG
8029822 TAGAA
1 TAGAA
8029827 CCCTCGACTT
Statistics
Matches: 87, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 87 1.00
ACGTcount: A:0.36, C:0.25, G:0.23, T:0.17
Consensus pattern (23 bp):
TAGAATTGTCCCGAAGGACCACG
Found at i:8029906 original size:16 final size:18
Alignment explanation
Indices: 8029885--8029925 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
8029875 CTCATATATC
8029885 CACATAGG-T-CATGTAA
1 CACATAGGATACATGTAA
8029901 CACATAGGATGACATGTAA
1 CACATAGGAT-ACATGTAA
8029920 CACATA
1 CACATA
8029926 ACTCATGTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 8 0.36
17 1 0.05
19 13 0.59
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (18 bp):
CACATAGGATACATGTAA
Found at i:8031736 original size:26 final size:26
Alignment explanation
Indices: 8031701--8031779 Score: 115
Period size: 26 Copynumber: 3.1 Consensus size: 26
8031691 CAAATTTCGC
* **
8031701 TTCAA-AATTCATTCACTAACTCTTT
1 TTCAATAATTCACTCAAAAACTCTTT
8031726 TTCAATAATTCACTCAAAAACTCTTT
1 TTCAATAATTCACTCAAAAACTCTTT
*
8031752 TTCAATAATTCACTCAAAAACCCTTT
1 TTCAATAATTCACTCAAAAACTCTTT
8031778 TT
1 TT
8031780 ACTTAATCAC
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
25 5 0.10
26 44 0.90
ACGTcount: A:0.35, C:0.24, G:0.00, T:0.41
Consensus pattern (26 bp):
TTCAATAATTCACTCAAAAACTCTTT
Found at i:8032834 original size:559 final size:560
Alignment explanation
Indices: 8031776--8032897 Score: 2228
Period size: 559 Copynumber: 2.0 Consensus size: 560
8031766 CAAAAACCCT
8031776 TTTTACTTAATCACCCATAACTTGAAATTCTTTCTTTAAGCTTTCTCAAGCTTTCCTAACACTCC
1 TTTTACTTAATCACCCATAACTTGAAATTCTTTCTTTAAGCTTTCTCAAGCTTTCCTAACACTCC
8031841 AAGAATCATAACCAACTTAAAAATGAAAGGAATAATCAACTTGAAACCAACTCACCTTACCAATG
66 AAGAATCATAACCAACTTAAAAATGAAAGGAATAATCAACTTGAAACCAACTCACCTTACCAATG
8031906 GAGTCACGAGAAGAAAATAAGAAGATAGCTGAAACAAGTCTCCAAATTTTTCTTTCATTTCCTCT
131 GAGTCACGAGAAGAAAATAAGAAGATAGCTGAAACAAGTCTCCAAATTTTTCTTTCATTTCCTCT
8031971 CATTCTCCACGTGTATATAATACCTCCACTAATGAATTTTTAATTCATTCTTAAACATTATGCCC
196 CATTCTCCACGTGTATATAATACCTCCACTAATGAATTTTTAATTCATTCTTAAACATTATGCCC
*
8032036 TTACATCTCTCAATATTTATTAAACAATCATATATAAAGAAATTCTAATTAAGTCCCTGAACTTT
261 TTACATCTCTCAATATTTATTAAACAATCATATATAAAGAAATTCTAATTAAGTCCCTCAACTTT
8032101 TCAATTTATCATAATTTAACCACCAAGTTTTAAAATCTTACACTTTAGTCACTAACCCGGTTTTT
326 TCAATTTATCATAATTTAACCACCAAGTTTTAAAATCTTACACTTTAGTCACTAACCCGGTTTTT
8032166 GGGATGTTATAGCACATACTTTGAGCTTTAACCATATAATTATTAACATAAAATTATTCCAATAA
391 GGGATGTTATAGCACATACTTTGAGCTTTAACCATATAATTATTAACATAAAATTATTCCAATAA
8032231 TCATTCATTCACATAGAACACATATACACATAGCAATGAAATCAAAAACATTATAAATACATTTC
456 TCATTCATTCACATAGAACACATATACACATAGCAATGAAATCAAAAACATTATAAATACATTTC
8032296 AGAAAATAATGAAAATTGTTTTCGATCGAAAACCTTTGAG
521 AGAAAATAATGAAAATTGTTTTCGATCGAAAACCTTTGAG
8032336 TTTTACTTAATCACCCATAACTTGAAATTCTTTCTTTAAGCTTTCTCAAGCTTTCCTAACACTCC
1 TTTTACTTAATCACCCATAACTTGAAATTCTTTCTTTAAGCTTTCTCAAGCTTTCCTAACACTCC
8032401 AAGAATCATAACCAACTTAAAAATGAAAGGAATAATCAACTTGAAACCAACTCACCTTACCAATG
66 AAGAATCATAACCAACTTAAAAATGAAAGGAATAATCAACTTGAAACCAACTCACCTTACCAATG
8032466 GAGTCACGAGAAGAAAATAAGAAGATAGCTGAAACAAGTCTCCAAATTTTTCTTTCATTTCCTCT
131 GAGTCACGAGAAGAAAATAAGAAGATAGCTGAAACAAGTCTCCAAATTTTTCTTTCATTTCCTCT
8032531 CATTCTCCACGT-TATATAATACCTCCACTAATGAATTTTTAATTCATTCTTAAACATTATGCCC
196 CATTCTCCACGTGTATATAATACCTCCACTAATGAATTTTTAATTCATTCTTAAACATTATGCCC
8032595 TTACATCTCTCAATATTTATTAAACAATCATATATAAAGAAATTCTAATTAAGTCCCTCAACTTT
261 TTACATCTCTCAATATTTATTAAACAATCATATATAAAGAAATTCTAATTAAGTCCCTCAACTTT
8032660 TCAATTTATCATAATTTAACCACCAAGTTTTAAAATCTTACACTTTAGTCACTAACCCGGTTTTT
326 TCAATTTATCATAATTTAACCACCAAGTTTTAAAATCTTACACTTTAGTCACTAACCCGGTTTTT
8032725 GGGATGTTATAGCACATACTTTGAGCTTTAACCATATAATTATTAACATAAAATTATTCCAATAA
391 GGGATGTTATAGCACATACTTTGAGCTTTAACCATATAATTATTAACATAAAATTATTCCAATAA
8032790 TCATTCATTCACATAGAACACATATACACATAGCAATGAAATCAAAAACATTATAAATACATTTC
456 TCATTCATTCACATAGAACACATATACACATAGCAATGAAATCAAAAACATTATAAATACATTTC
8032855 AGAAAATAATGAAAATTGTTTTCGATCGAAAACCTTTGAG
521 AGAAAATAATGAAAATTGTTTTCGATCGAAAACCTTTGAG
8032895 TTT
1 TTT
8032898 GGCTTATTGT
Statistics
Matches: 561, Mismatches: 1, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
559 354 0.63
560 207 0.37
ACGTcount: A:0.38, C:0.20, G:0.08, T:0.34
Consensus pattern (560 bp):
TTTTACTTAATCACCCATAACTTGAAATTCTTTCTTTAAGCTTTCTCAAGCTTTCCTAACACTCC
AAGAATCATAACCAACTTAAAAATGAAAGGAATAATCAACTTGAAACCAACTCACCTTACCAATG
GAGTCACGAGAAGAAAATAAGAAGATAGCTGAAACAAGTCTCCAAATTTTTCTTTCATTTCCTCT
CATTCTCCACGTGTATATAATACCTCCACTAATGAATTTTTAATTCATTCTTAAACATTATGCCC
TTACATCTCTCAATATTTATTAAACAATCATATATAAAGAAATTCTAATTAAGTCCCTCAACTTT
TCAATTTATCATAATTTAACCACCAAGTTTTAAAATCTTACACTTTAGTCACTAACCCGGTTTTT
GGGATGTTATAGCACATACTTTGAGCTTTAACCATATAATTATTAACATAAAATTATTCCAATAA
TCATTCATTCACATAGAACACATATACACATAGCAATGAAATCAAAAACATTATAAATACATTTC
AGAAAATAATGAAAATTGTTTTCGATCGAAAACCTTTGAG
Found at i:8038188 original size:7 final size:7
Alignment explanation
Indices: 8038176--8038201 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
8038166 AATAATTTGT
8038176 GTTTAGG
1 GTTTAGG
8038183 GTTTAGG
1 GTTTAGG
8038190 GTTTAGG
1 GTTTAGG
8038197 GTTTA
1 GTTTA
8038202 TCCAATCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.38, T:0.46
Consensus pattern (7 bp):
GTTTAGG
Found at i:8038522 original size:20 final size:20
Alignment explanation
Indices: 8038497--8038534 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
8038487 TTTTAATTTA
8038497 TGTTAAAAATGATATATTGC
1 TGTTAAAAATGATATATTGC
8038517 TGTTAAAAATGATATATT
1 TGTTAAAAATGATATATT
8038535 AAATTATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.03, G:0.13, T:0.42
Consensus pattern (20 bp):
TGTTAAAAATGATATATTGC
Found at i:8038917 original size:10 final size:10
Alignment explanation
Indices: 8038821--8038919 Score: 54
Period size: 10 Copynumber: 9.3 Consensus size: 10
8038811 AATGGATGTT
8038821 AACGAACATA
1 AACGAACATA
8038831 AACGACCACAATA
1 AACGA--AC-ATA
* *
8038844 AACCAACGTA
1 AACGAACATA
*
8038854 AACGAACACA
1 AACGAACATA
* *
8038864 AACAAACAAA
1 AACGAACATA
* *
8038874 AATGAACGTA
1 AACGAACATA
* *
8038884 AATGAATATA
1 AACGAACATA
*
8038894 AATGAACAAAATA
1 AACGAAC---ATA
8038907 AACGAACATA
1 AACGAACATA
8038917 AAC
1 AAC
8038920 TACAACAATA
Statistics
Matches: 68, Mismatches: 15, Indels: 12
0.72 0.16 0.13
Matches are distributed among these distances:
10 48 0.71
11 2 0.03
12 2 0.03
13 16 0.24
ACGTcount: A:0.61, C:0.19, G:0.09, T:0.11
Consensus pattern (10 bp):
AACGAACATA
Found at i:8040713 original size:13 final size:13
Alignment explanation
Indices: 8040682--8040714 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
8040672 ATTCCTTCAA
*
8040682 AATATGCCTTTAT
1 AATATGTCTTTAT
8040695 -ATATGTCTTTAT
1 AATATGTCTTTAT
8040707 AATATGTC
1 AATATGTC
8040715 ATGGTTTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.30, C:0.12, G:0.09, T:0.48
Consensus pattern (13 bp):
AATATGTCTTTAT
Found at i:8040994 original size:15 final size:15
Alignment explanation
Indices: 8040974--8041007 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
8040964 TTGGATTGCT
8040974 TTTGTAATCCATATG
1 TTTGTAATCCATATG
*
8040989 TTTGTAATCTATATG
1 TTTGTAATCCATATG
8041004 TTTG
1 TTTG
8041008 AAAATGAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.24, C:0.09, G:0.15, T:0.53
Consensus pattern (15 bp):
TTTGTAATCCATATG
Found at i:8046386 original size:64 final size:63
Alignment explanation
Indices: 8046253--8046414 Score: 168
Period size: 64 Copynumber: 2.5 Consensus size: 63
8046243 AAAAAGCCTA
* * * * *
8046253 GGTGCATCGATGCATGGCTTGTGCATCGGTGCATAAAATCAATTCGATGTTTTAATATATATG
1 GGTGCATCGATGCATGGCTTGTGCATCGGTACAAAAAAGCAATTCGATGTTTTAATATACAAG
*
8046316 GAGTGCATCGATGCATGG-TATGTGCATCGGTACAAAAAAGCCATTCGATGTTCAATTAA-A-AC
1 G-GTGCATCGATGCATGGCT-TGTGCATCGGTACAAAAAAGCAATTCGATGTT---TTAATATAC
8046378 AAG
61 AAG
* * *
8046381 GGTGCATCGATGCATTGATTCATGCATCGGTACA
1 GGTGCATCGATGCATGGCTT-GTGCATCGGTACA
8046415 CTTACTTGAA
Statistics
Matches: 84, Mismatches: 8, Indels: 12
0.81 0.08 0.12
Matches are distributed among these distances:
63 2 0.02
64 60 0.71
65 17 0.20
66 1 0.01
67 4 0.05
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.30
Consensus pattern (63 bp):
GGTGCATCGATGCATGGCTTGTGCATCGGTACAAAAAAGCAATTCGATGTTTTAATATACAAG
Found at i:8046763 original size:17 final size:17
Alignment explanation
Indices: 8046737--8046770 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
8046727 CCCTTACTTC
*
8046737 AACACTTCTCCCCCTTT
1 AACACGTCTCCCCCTTT
8046754 AACACGTCTCCCCCTTT
1 AACACGTCTCCCCCTTT
8046771 TTGTTAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.47, G:0.03, T:0.32
Consensus pattern (17 bp):
AACACGTCTCCCCCTTT
Found at i:8049062 original size:44 final size:45
Alignment explanation
Indices: 8048981--8049104 Score: 132
Period size: 45 Copynumber: 2.8 Consensus size: 45
8048971 AAACCCCGAC
** * * *
8048981 GGATGCATCGATGCA-TGGCCTTGTGCATCGATGCACATTC-AA-
1 GGATGCATCGATGCACTTTCATAGTGTATCGATGCACATTCAAAG
*
8049023 GGAGTGCATCGGTGCA-TCTTCAT-GATGTATCGATGCACATTCAAAG
1 GGA-TGCATCGATGCACT-TTCATAG-TGTATCGATGCACATTCAAAG
8049069 GGATGCATCGATGCACTTTCATAGTGTATCGATGCA
1 GGATGCATCGATGCACTTTCATAGTGTATCGATGCA
8049105 TTATGCACAA
Statistics
Matches: 69, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
42 3 0.04
43 13 0.19
44 18 0.26
45 30 0.43
46 5 0.07
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (45 bp):
GGATGCATCGATGCACTTTCATAGTGTATCGATGCACATTCAAAG
Found at i:8049065 original size:21 final size:23
Alignment explanation
Indices: 8049003--8049089 Score: 83
Period size: 23 Copynumber: 3.8 Consensus size: 23
8048993 GCATGGCCTT
8049003 GTGCATCGATGCACATTCAAGGA
1 GTGCATCGATGCACATTCAAGGA
* *
8049026 GTGCATCGGTGCATC-TTC-ATGA
1 GTGCATCGATGCA-CATTCAAGGA
*
8049048 -TGTATCGATGCACATTCAAAGG-
1 GTGCATCGATGCACATTC-AAGGA
*
8049070 GATGCATCGATGCACTTTCA
1 G-TGCATCGATGCACATTCA
8049090 TAGTGTATCG
Statistics
Matches: 51, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
20 1 0.02
21 13 0.25
22 3 0.06
23 18 0.35
24 16 0.31
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (23 bp):
GTGCATCGATGCACATTCAAGGA
Found at i:8049101 original size:21 final size:23
Alignment explanation
Indices: 8049007--8049104 Score: 73
Period size: 21 Copynumber: 4.4 Consensus size: 23
8048997 GGCCTTGTGC
*
8049007 ATCGATGCACATTC-AAGGAGTGC
1 ATCGATGCACATTCAAAGGA-TGT
* *
8049030 ATCGGTGCATC-TTC--ATGATGT
1 ATCGATGCA-CATTCAAAGGATGT
*
8049051 ATCGATGCACATTCAAAGGGATGC
1 ATCGATGCACATTCAAA-GGATGT
* *
8049075 ATCGATGCACTTTCATA-G-TGT
1 ATCGATGCACATTCAAAGGATGT
8049096 ATCGATGCA
1 ATCGATGCA
8049105 TTATGCACAA
Statistics
Matches: 61, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
20 1 0.02
21 24 0.39
22 4 0.07
23 12 0.20
24 20 0.33
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (23 bp):
ATCGATGCACATTCAAAGGATGT
Found at i:8054972 original size:64 final size:64
Alignment explanation
Indices: 8054882--8055023 Score: 168
Period size: 64 Copynumber: 2.2 Consensus size: 64
8054872 TACATTGATA
*
8054882 GTGCATCGATGCATAAATATGCTTCGATGTTTTGAA-AAAGCCTGG-GTGCATCGATGCATGGCT
1 GTGCATCGATGCATAAATATGCTTCGATGTTTT-AATAAA-CATGGAGTGCATCGATGCATGG-T
8054945 -T
63 AT
* * *
8054946 GTGCATCGGTGCATAAA-AT-CAATTCGATGTTTTAATATATATGGAGTGCATCGATGCATGGTA
1 GTGCATCGATGCATAAATATGC--TTCGATGTTTTAATAAACATGGAGTGCATCGATGCATGGTA
8055009 T
64 T
8055010 GTGCATCGATGCAT
1 GTGCATCGATGCAT
8055024 GGTATGTGCA
Statistics
Matches: 68, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
62 1 0.01
63 8 0.12
64 59 0.87
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.32
Consensus pattern (64 bp):
GTGCATCGATGCATAAATATGCTTCGATGTTTTAATAAACATGGAGTGCATCGATGCATGGTAT
Found at i:8055015 original size:19 final size:19
Alignment explanation
Indices: 8054991--8055036 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
8054981 TATATATGGA
8054991 GTGCATCGATGCATGGTAT
1 GTGCATCGATGCATGGTAT
8055010 GTGCATCGATGCATGGTAT
1 GTGCATCGATGCATGGTAT
8055029 GTGCATCG
1 GTGCATCG
8055037 GTACATAAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.20, C:0.17, G:0.33, T:0.30
Consensus pattern (19 bp):
GTGCATCGATGCATGGTAT
Found at i:8056076 original size:16 final size:17
Alignment explanation
Indices: 8056055--8056088 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
8056045 TGAATTTATT
*
8056055 AAATT-ATTTTTAATTA
1 AAATTAATTTTAAATTA
8056071 AAATTAATTTTAAATTA
1 AAATTAATTTTAAATTA
8056088 A
1 A
8056089 TAAAATATGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AAATTAATTTTAAATTA
Found at i:8057873 original size:21 final size:21
Alignment explanation
Indices: 8057847--8057905 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
8057837 ATTTACCGTG
*
8057847 ATTGCGGCCGTCGCGGGGGCT
1 ATTGCGGCCGTCGCGGGCGCT
* *
8057868 ATTGCGGTCGTCGCGGACGCT
1 ATTGCGGCCGTCGCGGGCGCT
8057889 ATTGCGGCCGTCGCGGG
1 ATTGCGGCCGTCGCGGG
8057906 TAACTCGGAC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.07, C:0.29, G:0.44, T:0.20
Consensus pattern (21 bp):
ATTGCGGCCGTCGCGGGCGCT
Found at i:8061027 original size:15 final size:15
Alignment explanation
Indices: 8061009--8061080 Score: 62
Period size: 15 Copynumber: 5.0 Consensus size: 15
8060999 AAATTTTAAA
8061009 TATTTAAATAAAAAT
1 TATTTAAATAAAAAT
*
8061024 TATTTATATAAAAAT
1 TATTTAAATAAAAAT
** *
8061039 TCA--TCGAT-AATA-
1 T-ATTTAAATAAAAAT
8061051 TATTTAAATAAAAAT
1 TATTTAAATAAAAAT
*
8061066 TATTTATATAAAAAT
1 TATTTAAATAAAAAT
8061081 CATCGATAAT
Statistics
Matches: 44, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
11 1 0.02
12 1 0.02
13 6 0.14
14 6 0.14
15 29 0.66
16 1 0.02
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (15 bp):
TATTTAAATAAAAAT
Found at i:8061059 original size:42 final size:41
Alignment explanation
Indices: 8061008--8061095 Score: 167
Period size: 42 Copynumber: 2.1 Consensus size: 41
8060998 GAAATTTTAA
8061008 ATATTTAAATAAAAATTATTTATATAAAAATTCATCGATAAT
1 ATATTTAAATAAAAATTATTTATATAAAAA-TCATCGATAAT
8061050 ATATTTAAATAAAAATTATTTATATAAAAATCATCGATAAT
1 ATATTTAAATAAAAATTATTTATATAAAAATCATCGATAAT
8061091 ATATT
1 ATATT
8061096 ATTTTATTAT
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
41 16 0.35
42 30 0.65
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (41 bp):
ATATTTAAATAAAAATTATTTATATAAAAATCATCGATAAT
Found at i:8063575 original size:37 final size:36
Alignment explanation
Indices: 8063516--8063635 Score: 181
Period size: 35 Copynumber: 3.3 Consensus size: 36
8063506 ATCCCATTAT
* *
8063516 CATTTTTC-AACAAACATCTACCAAACTTTGAAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTG-AAAAC
*
8063552 TATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
8063588 CA-TTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
8063623 CATTTTTTCAAAG
1 CA-TTTTTCAAAG
8063636 TTGGTTACCA
Statistics
Matches: 77, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
35 35 0.45
36 13 0.17
37 29 0.38
ACGTcount: A:0.43, C:0.20, G:0.05, T:0.32
Consensus pattern (36 bp):
CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
Found at i:8063591 original size:21 final size:21
Alignment explanation
Indices: 8063567--8063627 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
8063557 TTCAAAGAAA
8063567 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
8063588 CATTT-TCAAA----G-AAA-
1 CATTTACCAAACTTTGAAAAC
8063602 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
8063623 CATTT
1 CATTT
8063628 TTTCAAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 7 0.23
16 1 0.03
19 1 0.03
20 7 0.23
21 10 0.32
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:8063644 original size:35 final size:36
Alignment explanation
Indices: 8063518--8063662 Score: 142
Period size: 35 Copynumber: 4.1 Consensus size: 36
8063508 CCCATTATCA
*
8063518 TTTTTCAACA-AACA-TCTACCAAACTTTGAAAAAC-T
1 TTTTTCAA-AGAACAGT-TACCAAACTTTGAAAACCAT
*
8063553 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACCA-
1 -TTTTTCAAAG-AACAGTTACCAAACTTTGAAAACCAT
*
8063590 -TTTTCAAAGAAACATTTACCAAACTTTGAAAACCAT
1 TTTTTCAAAG-AACAGTTACCAAACTTTGAAAACCAT
***
8063626 TTTTTCAAAG-TTGGTTACCAAAC-TTGAAAACCAT
1 TTTTTCAAAGAACAGTTACCAAACTTTGAAAACCAT
8063660 TTT
1 TTT
8063663 AATAATTTCA
Statistics
Matches: 98, Mismatches: 5, Indels: 14
0.84 0.04 0.12
Matches are distributed among these distances:
34 14 0.14
35 45 0.46
36 8 0.08
37 30 0.31
38 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.06, T:0.33
Consensus pattern (36 bp):
TTTTTCAAAGAACAGTTACCAAACTTTGAAAACCAT
Found at i:8067719 original size:16 final size:16
Alignment explanation
Indices: 8067695--8067728 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
8067685 TATCGCCGAC
*
8067695 CGAATTTCACTATTCA
1 CGAAATTCACTATTCA
8067711 CGAAATTCACTATTCA
1 CGAAATTCACTATTCA
8067727 CG
1 CG
8067729 TGAATAGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.26, G:0.09, T:0.32
Consensus pattern (16 bp):
CGAAATTCACTATTCA
Found at i:8068205 original size:36 final size:37
Alignment explanation
Indices: 8068134--8068218 Score: 120
Period size: 37 Copynumber: 2.3 Consensus size: 37
8068124 ATCCCATTAT
*
8068134 CATTTTTC-AACAAACATCTACCAAACTTTGAAAAAC
1 CATTTTTCAAAGAAACATCTACCAAACTTTGAAAAAC
* *
8068170 TATTTTTCAAAGAAACATTTACCAAACTTTG-AAAAC
1 CATTTTTCAAAGAAACATCTACCAAACTTTGAAAAAC
8068206 CATTTTTTCAAAG
1 CA-TTTTTCAAAG
8068219 TTGGTTACCA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
36 13 0.30
37 30 0.70
ACGTcount: A:0.42, C:0.20, G:0.05, T:0.33
Consensus pattern (37 bp):
CATTTTTCAAAGAAACATCTACCAAACTTTGAAAAAC
Found at i:8069697 original size:2 final size:2
Alignment explanation
Indices: 8069690--8069719 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
8069680 TTTACATTAT
8069690 TA TA TA TA TA TA TA TA TA TA TA -A TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8069720 TAAAAACCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8078745 original size:22 final size:23
Alignment explanation
Indices: 8078717--8078766 Score: 84
Period size: 22 Copynumber: 2.2 Consensus size: 23
8078707 TTTTATGAAT
8078717 AGTGATGAACAATACC-GTAAAC
1 AGTGATGAACAATACCTGTAAAC
*
8078739 AGTGATGAACAATACCTGTGAAC
1 AGTGATGAACAATACCTGTAAAC
8078762 AGTGA
1 AGTGA
8078767 ACAGTGTACC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 16 0.62
23 10 0.38
ACGTcount: A:0.42, C:0.16, G:0.22, T:0.20
Consensus pattern (23 bp):
AGTGATGAACAATACCTGTAAAC
Found at i:8079305 original size:47 final size:46
Alignment explanation
Indices: 8079231--8079402 Score: 224
Period size: 47 Copynumber: 3.8 Consensus size: 46
8079221 ATAAAATCTT
*
8079231 TTACCATTT-ATCCCATAAGCTCGTAAGCTTATTTTACCAAAATAC
1 TTACCATTTAATTCCATAAGCTCGTAAGCTTATTTTACCAAAATAC
* * *
8079276 TTACCATTTAAATTCTATAAGCTCATAAGCTTATTTTATACAAAATAC
1 TTACCATTT-AATTCCATAAGCTCGTAAGCTTATTTTA-CCAAAATAC
* * *
8079324 TTACCATTTAATCCCATAAGCTCGTAAGCTTATTTTACCCATATAC
1 TTACCATTTAATTCCATAAGCTCGTAAGCTTATTTTACCAAAATAC
* *
8079370 TTGCCA-TT-ATTCCAAAAGCTCGTAAGCTTATTT
1 TTACCATTTAATTCCATAAGCTCGTAAGCTTATTT
8079403 GTATGCTTAC
Statistics
Matches: 111, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
44 23 0.21
45 11 0.10
46 11 0.10
47 49 0.44
48 17 0.15
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.38
Consensus pattern (46 bp):
TTACCATTTAATTCCATAAGCTCGTAAGCTTATTTTACCAAAATAC
Found at i:8080472 original size:29 final size:29
Alignment explanation
Indices: 8080429--8080492 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
8080419 AACCCATCAA
* *
8080429 TTTTCCAAAATTTATGAATTGATCCCCAAC
1 TTTT-CAAAACTTATGAAATGATCCCCAAC
* *
8080459 TTTTCAAAACTTATGAAATGGTCCCCAAT
1 TTTTCAAAACTTATGAAATGATCCCCAAC
8080488 TTTTC
1 TTTTC
8080493 TAAGGCTTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 26 0.87
30 4 0.13
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (29 bp):
TTTTCAAAACTTATGAAATGATCCCCAAC
Found at i:8091163 original size:13 final size:13
Alignment explanation
Indices: 8091145--8091169 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8091135 ATCAGATTTT
8091145 TTTTAACCGGTTA
1 TTTTAACCGGTTA
8091158 TTTTAACCGGTT
1 TTTTAACCGGTT
8091170 TGGAAAAAAA
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:0.20, C:0.16, G:0.16, T:0.48
Consensus pattern (13 bp):
TTTTAACCGGTTA
Found at i:8091225 original size:15 final size:13
Alignment explanation
Indices: 8091204--8091244 Score: 57
Period size: 12 Copynumber: 3.1 Consensus size: 13
8091194 TTTTACCGGA
8091204 TAAAAAACCGGTT
1 TAAAAAACCGGTT
8091217 TGAAAAAAACCGG-T
1 T--AAAAAACCGGTT
8091231 TAAAAAACCGGTT
1 TAAAAAACCGGTT
8091244 T
1 T
8091245 TTATCCGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 10 0.40
13 3 0.12
14 2 0.08
15 10 0.40
ACGTcount: A:0.46, C:0.15, G:0.17, T:0.22
Consensus pattern (13 bp):
TAAAAAACCGGTT
Found at i:8091235 original size:12 final size:12
Alignment explanation
Indices: 8091198--8091243 Score: 56
Period size: 12 Copynumber: 3.6 Consensus size: 12
8091188 AGGTTTTTTT
*
8091198 ACCGGATAAAAA
1 ACCGGTTAAAAA
8091210 ACCGGTTTGAAAAAA
1 ACCGG-TT--AAAAA
8091225 ACCGGTTAAAAA
1 ACCGGTTAAAAA
8091237 ACCGGTT
1 ACCGGTT
8091244 TTTATCCGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
12 17 0.57
13 1 0.03
14 2 0.07
15 10 0.33
ACGTcount: A:0.46, C:0.17, G:0.20, T:0.17
Consensus pattern (12 bp):
ACCGGTTAAAAA
Found at i:8091480 original size:21 final size:22
Alignment explanation
Indices: 8091456--8091496 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
8091446 GGGAAAAAAT
8091456 CGGATCGGA-TAAAAACCGATC
1 CGGATCGGATTAAAAACCGATC
*
8091477 CGGATCGGATTAAAATCCGA
1 CGGATCGGATTAAAAACCGA
8091497 CTTCTGTGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (22 bp):
CGGATCGGATTAAAAACCGATC
Found at i:8093528 original size:32 final size:32
Alignment explanation
Indices: 8093491--8093552 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
8093481 TTTCACATGT
*
8093491 ACTAAC-TAATTTATTTTCTTTTGTTTGTGTAC
1 ACTAACAT-ATTTATTTTCTTTTGCTTGTGTAC
*
8093523 ACTAACATATTTCTTTTCTTTTGCTTGTGT
1 ACTAACATATTTATTTTCTTTTGCTTGTGT
8093553 TATTTTTCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 26 0.96
33 1 0.04
ACGTcount: A:0.19, C:0.15, G:0.10, T:0.56
Consensus pattern (32 bp):
ACTAACATATTTATTTTCTTTTGCTTGTGTAC
Found at i:8100687 original size:21 final size:21
Alignment explanation
Indices: 8100605--8100688 Score: 80
Period size: 21 Copynumber: 3.9 Consensus size: 21
8100595 CAGAACCCCA
* *
8100605 GGGGGGTATCGATTCCC-CTG
1 GGGGGGAATCGATTCCCTCAG
* *
8100625 TGGGGGGAATCGGTTCCCCTTCAA
1 -GGGGGGAATCGATT-CCC-TCAG
* *
8100649 AGGGGGAATCGGTTCCCTCAG
1 GGGGGGAATCGATTCCCTCAG
8100670 GGGGGGAATCGATTCCCTC
1 GGGGGGAATCGATTCCCTC
8100689 TGCACCAAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
21 32 0.62
22 6 0.12
23 13 0.25
24 1 0.02
ACGTcount: A:0.15, C:0.25, G:0.37, T:0.23
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCTCAG
Found at i:8104487 original size:22 final size:21
Alignment explanation
Indices: 8104445--8104484 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
8104435 GAGTTTGTTT
*
8104445 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
8104466 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
8104485 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:8110482 original size:32 final size:32
Alignment explanation
Indices: 8110408--8110483 Score: 98
Period size: 32 Copynumber: 2.4 Consensus size: 32
8110398 GCATATTTAA
* * * *
8110408 AGATTCAACAGCGAATGTTGAGGTATCTTTGG
1 AGATTCAACATCGAATATTGAGGCATCTTCGG
*
8110440 AGATTCAACATCGAATATTGGGGCATCTTCGG
1 AGATTCAACATCGAATATTGAGGCATCTTCGG
*
8110472 GGATTCAACATC
1 AGATTCAACATC
8110484 CTGATGTGAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (32 bp):
AGATTCAACATCGAATATTGAGGCATCTTCGG
Found at i:8110633 original size:37 final size:38
Alignment explanation
Indices: 8110564--8110636 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 38
8110554 TTTGATGTTG
* *
8110564 TTTCTCTCGAAACAAAATGTTGTCTCGCTTGAGACAAT
1 TTTCTCTCAAAACAAAATGTTGTCTCACTTGAGACAAT
* * *
8110602 TTTCTTTCAAAAC-AAATTTTGTCTCATTTGAGACA
1 TTTCTCTCAAAACAAAATGTTGTCTCACTTGAGACA
8110637 TAAAAAAATC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
37 19 0.63
38 11 0.37
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.38
Consensus pattern (38 bp):
TTTCTCTCAAAACAAAATGTTGTCTCACTTGAGACAAT
Found at i:8110858 original size:88 final size:87
Alignment explanation
Indices: 8110746--8110922 Score: 282
Period size: 88 Copynumber: 2.0 Consensus size: 87
8110736 CAAAATCACC
* *
8110746 TGACTAGATCTCCTCATTATGTAGGAGATGTGTCAACTTAGATAACCAACCGTCCCCATCAGAGT
1 TGACCAGATCTCCTCATTATGTAGGAGATGTGTCAAATTAGATAACCAACCGTCCCCATCAGAGT
8110811 AGAACCGTGTTATCACCTTTAGA
66 AGAACCGTGTTATCACC-TTAGA
* * * *
8110834 TGACCAGATTTCCTCATTATGTAGGAGTTGTGTCAAATTAGATAACCAGCCGTTCCCATCAGAGT
1 TGACCAGATCTCCTCATTATGTAGGAGATGTGTCAAATTAGATAACCAACCGTCCCCATCAGAGT
*
8110899 GGAACCGTGTTATCACCTTAGA
66 AGAACCGTGTTATCACCTTAGA
8110921 TG
1 TG
8110923 GCCAAGACTC
Statistics
Matches: 82, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
87 7 0.09
88 75 0.91
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (87 bp):
TGACCAGATCTCCTCATTATGTAGGAGATGTGTCAAATTAGATAACCAACCGTCCCCATCAGAGT
AGAACCGTGTTATCACCTTAGA
Found at i:8111316 original size:88 final size:87
Alignment explanation
Indices: 8111049--8111475 Score: 351
Period size: 88 Copynumber: 4.9 Consensus size: 87
8111039 ATTTAGATGT
* * * **
8111049 CCAGAACTCTTCATCACGTATGAGTCGTGTCATCACCTGACTAGAT-T-TTTTTTATGTAGGAAT
1 CCAGAACTCTTCATCACGTATGAGCCGTGTCATCACCAGACTAGATGTCCTCATTATGTAGGAAT
8111112 CGTGTCAATCCTTCATCATCCGA
66 CGTGTCAATCCTTCATCAT-CGA
* * * *
8111135 CCAGAACTCTTCATCACGTATGAGTCGTGTCA-C-CCAAGA-TAAACAGTCGTCCTCATCACGTA
1 CCAGAACTCTTCATCACGTATGAGCCGTGTCATCACC-AGACT--AGA-T-GTCCTCATTATGTA
* * * * * *
8111197 GGAACCATGT-TATCACTT-TTAGATGGA
61 GGAATCGTGTCAATC-CTTCAT-CATCGA
* *
8111224 -CAGAACTCTTCATCACGTATGAGCCGTGTCATCACCCGACTAGATTTCCTCATTATGTAGGAAT
1 CCAGAACTCTTCATCACGTATGAGCCGTGTCATCACCAGACTAGATGTCCTCATTATGTAGGAAT
8111288 CGTGTCAATCCTTCATCATCCGA
66 CGTGTCAATCCTTCATCAT-CGA
* * *
8111311 CCAGAACTCTTCATCACGTATGAGCCGTGTCA-C-CCAAGA-TAACCAGTCGTCCTCATCACGTA
1 CCAGAACTCTTCATCACGTATGAGCCGTGTCATCACC-AGACT-A-GA-T-GTCCTCATTATGTA
* * * *
8111373 GGAATCGTGT-TATCACCTTTA-GAT-GG
61 GGAATCGTGTCAAT--CCTTCATCATCGA
* * * *
8111399 CCAGAACTCTTCATCACGTATGAGCCGTGTCATCACCCGACTTGATCTCCTCATTATGTAGGAGT
1 CCAGAACTCTTCATCACGTATGAGCCGTGTCATCACCAGACTAGATGTCCTCATTATGTAGGAAT
*
8111464 CGTGACAATCCT
66 CGTGTCAATCCT
8111476 AGATAATCAG
Statistics
Matches: 271, Mismatches: 43, Indels: 55
0.73 0.12 0.15
Matches are distributed among these distances:
84 3 0.01
85 6 0.02
86 80 0.30
87 15 0.06
88 98 0.36
89 16 0.06
90 48 0.18
91 5 0.02
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (87 bp):
CCAGAACTCTTCATCACGTATGAGCCGTGTCATCACCAGACTAGATGTCCTCATTATGTAGGAAT
CGTGTCAATCCTTCATCATCGA
Found at i:8111362 original size:176 final size:176
Alignment explanation
Indices: 8110967--8111475 Score: 781
Period size: 176 Copynumber: 2.9 Consensus size: 176
8110957 CTGACCATAT
* * * * **
8110967 CTCTTCATTATGTAGGAGCTGTGTCAACCC-AGATAGTCAGTCGTCCTCATCACGTAGGAACCGT
1 CTCTTCATCACGTATGAGCCGTGTC-ACCCAAGATAAACAGTCGTCCTCATCACGTAGGAACCGT
* * * *
8111031 GTTATCTCATTTAGATGTCCAGAACTCTTCATCACGTATGAGTCGTGTCATCACCTGACTAGATT
65 GTTATCACATTTAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCACCCGACTAGATT
**
8111096 T--TTTTTATGTAGGAATCGTGTCAATCCTTCATCATCCGACCAGAA
130 TCCTCATTATGTAGGAATCGTGTCAATCCTTCATCATCCGACCAGAA
* *
8111141 CTCTTCATCACGTATGAGTCGTGTCACCCAAGATAAACAGTCGTCCTCATCACGTAGGAACCATG
1 CTCTTCATCACGTATGAGCCGTGTCACCCAAGATAAACAGTCGTCCTCATCACGTAGGAACCGTG
* *
8111206 TTATCACTTTTAGATGGACAGAACTCTTCATCACGTATGAGCCGTGTCATCACCCGACTAGATTT
66 TTATCACATTTAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCACCCGACTAGATTT
8111271 CCTCATTATGTAGGAATCGTGTCAATCCTTCATCATCCGACCAGAA
131 CCTCATTATGTAGGAATCGTGTCAATCCTTCATCATCCGACCAGAA
* *
8111317 CTCTTCATCACGTATGAGCCGTGTCACCCAAGATAACCAGTCGTCCTCATCACGTAGGAATCGTG
1 CTCTTCATCACGTATGAGCCGTGTCACCCAAGATAAACAGTCGTCCTCATCACGTAGGAACCGTG
* * *
8111382 TTATCACCTTTAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCACCCGACTTGATCT
66 TTATCACATTTAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCACCCGACTAGATTT
* *
8111447 CCTCATTATGTAGGAGTCGTGACAATCCT
131 CCTCATTATGTAGGAATCGTGTCAATCCT
8111476 AGATAATCAG
Statistics
Matches: 306, Mismatches: 26, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
173 4 0.01
174 111 0.36
176 191 0.62
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (176 bp):
CTCTTCATCACGTATGAGCCGTGTCACCCAAGATAAACAGTCGTCCTCATCACGTAGGAACCGTG
TTATCACATTTAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCACCCGACTAGATTT
CCTCATTATGTAGGAATCGTGTCAATCCTTCATCATCCGACCAGAA
Found at i:8111428 original size:46 final size:44
Alignment explanation
Indices: 8111310--8111436 Score: 116
Period size: 46 Copynumber: 2.9 Consensus size: 44
8111300 TCATCATCCG
8111310 ACCAGAACTCTTCATCACGTATGAGCCGTG--TCACCCAAGATA
1 ACCAGAACTCTTCATCACGTATGAGCCGTGTATCACCCAAGATA
* * * ** ** *
8111352 ACCAG-TCGTCCTCATCACGTAGGAATCGTGTTATCACCTTTAGATG
1 ACCAGAAC-TCTTCATCACGTATGAGCCGTG-TATCACC-CAAGATA
*
8111398 GCCAGAACTCTTCATCACGTATGAGCCGTGTCATCACCC
1 ACCAGAACTCTTCATCACGTATGAGCCGTGT-ATCACCC
8111437 GACTTGATCT
Statistics
Matches: 63, Mismatches: 15, Indels: 11
0.71 0.17 0.12
Matches are distributed among these distances:
41 1 0.02
42 23 0.37
45 6 0.10
46 32 0.51
47 1 0.02
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (44 bp):
ACCAGAACTCTTCATCACGTATGAGCCGTGTATCACCCAAGATA
Found at i:8111501 original size:129 final size:131
Alignment explanation
Indices: 8111347--8111599 Score: 359
Period size: 135 Copynumber: 1.9 Consensus size: 131
8111337 GTGTCACCCA
* * *
8111347 AGATAACCAGTCGTCCTCATCACGTAGGAATCGTGTTATCACCTTT-AGATGGCC-AGAACTCTT
1 AGATAACCAGCCGTCCTCATCACGTAGGAACCGAGTTATCACCTTTAAGATGGCCAAGAACTCTT
* *
8111410 CATCACGTATGAGCCGTGTCA-TCACCCGACTTGATCTCCTCATTATGTAGGAGTCGTGACAATC
66 CATCACGTATGAGCAGTGTCATTC-CCCGACTAGATCTCCTCATTATGTAGGAGTCGTGACAATC
8111474 CT
130 CT
* *
8111476 AGATAATCAGCCGTCCTCATCACGTAGGAACCGAGTTATCACTTTTCCGAAAGATGGCCAAGAAC
1 AGATAACCAGCCGTCCTCATCACGTAGGAACCGAGTTATCACCTTT----AAGATGGCCAAGAAC
* *
8111541 TCTTCATCACGTATGAGCAGTGTCATTCCCTGACTAGATCTTCTCATTATGTAGGAGTC
62 TCTTCATCACGTATGAGCAGTGTCATTCCCCGACTAGATCTCCTCATTATGTAGGAGTC
8111600 TTTTCACCCT
Statistics
Matches: 108, Mismatches: 9, Indels: 8
0.86 0.07 0.06
Matches are distributed among these distances:
129 41 0.38
134 8 0.07
135 57 0.53
136 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (131 bp):
AGATAACCAGCCGTCCTCATCACGTAGGAACCGAGTTATCACCTTTAAGATGGCCAAGAACTCTT
CATCACGTATGAGCAGTGTCATTCCCCGACTAGATCTCCTCATTATGTAGGAGTCGTGACAATCC
T
Found at i:8111826 original size:3 final size:3
Alignment explanation
Indices: 8111820--8111853 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
8111810 AATAATAATA
8111820 ATT ATT ATT ATT ATT ATT ATT ATT AGTT -TT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT A
8111854 ATGTTAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 25 0.86
4 2 0.07
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:8114535 original size:15 final size:16
Alignment explanation
Indices: 8114500--8114542 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
8114490 GCAGATAAGT
8114500 TTTTGTCTTAAAAATGA
1 TTTT-TCTTAAAAATGA
*
8114517 TTTTTCTTAAAATTG-
1 TTTTTCTTAAAAATGA
8114532 TTTTT-TTAAAA
1 TTTTTCTTAAAA
8114543 GGCGTTTTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 6 0.24
15 5 0.20
16 10 0.40
17 4 0.16
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.56
Consensus pattern (16 bp):
TTTTTCTTAAAAATGA
Found at i:8115871 original size:24 final size:24
Alignment explanation
Indices: 8115844--8115903 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
8115834 ACTTTATGTT
8115844 TCACCATTAATTGAACAATTACAA
1 TCACCATTAATTGAACAATTACAA
* * **
8115868 TCACCATT-ATCTGAATATTTACCT
1 TCACCATTAAT-TGAACAATTACAA
8115892 TCACCATTAATT
1 TCACCATTAATT
8115904 TCACCATTAC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
23 2 0.07
24 26 0.87
25 2 0.07
ACGTcount: A:0.37, C:0.23, G:0.03, T:0.37
Consensus pattern (24 bp):
TCACCATTAATTGAACAATTACAA
Found at i:8115941 original size:36 final size:36
Alignment explanation
Indices: 8115868--8115951 Score: 98
Period size: 36 Copynumber: 2.3 Consensus size: 36
8115858 ACAATTACAA
* * *
8115868 TCACCATTATCTGAATATTTACCTTCACCATTAATT
1 TCACCATTATCTGAACATTCACCTTCACCAATAATT
*
8115904 TCACCATTA-CTTGAACATTCACCTTCACCAATGATT
1 TCACCATTATC-TGAACATTCACCTTCACCAATAATT
* *
8115940 TCTCCTTTATCT
1 TCACCATTATCT
8115952 TCTTCTACCC
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
35 1 0.03
36 38 0.95
37 1 0.03
ACGTcount: A:0.27, C:0.29, G:0.04, T:0.40
Consensus pattern (36 bp):
TCACCATTATCTGAACATTCACCTTCACCAATAATT
Found at i:8122597 original size:65 final size:65
Alignment explanation
Indices: 8122493--8122631 Score: 269
Period size: 65 Copynumber: 2.1 Consensus size: 65
8122483 CGATGACCCT
8122493 TTTGCAGAAATGGCCCCATTATATTGGCTAACTTGGTATCATCAATGAGGACCTACACTTGAAGC
1 TTTGCAGAAATGGCCCCATTATATTGGCTAACTTGGTATCATCAATGAGGACCTACACTTGAAGC
*
8122558 TTTGCAGAAATGGCCTCATTATATTGGCTAACTTGGTATCATCAATGAGGACCTACACTTGAAGC
1 TTTGCAGAAATGGCCCCATTATATTGGCTAACTTGGTATCATCAATGAGGACCTACACTTGAAGC
8122623 TTTGCAGAA
1 TTTGCAGAA
8122632 GCCTTGCAAT
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 73 1.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.30
Consensus pattern (65 bp):
TTTGCAGAAATGGCCCCATTATATTGGCTAACTTGGTATCATCAATGAGGACCTACACTTGAAGC
Found at i:8124618 original size:22 final size:22
Alignment explanation
Indices: 8124577--8124643 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 22
8124567 CTCGTATAAA
8124577 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTG-CCCGTAGAAT
8124600 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
*
8124622 TGCACCGTAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
8124644 GATGTCCATA
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
22 31 0.72
23 12 0.28
ACGTcount: A:0.25, C:0.28, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:8126352 original size:21 final size:21
Alignment explanation
Indices: 8126328--8126372 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
8126318 TCTTGTTCGT
* *
8126328 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
8126349 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
8126370 TTG
1 TTG
8126373 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:8138856 original size:19 final size:19
Alignment explanation
Indices: 8138832--8138898 Score: 62
Period size: 19 Copynumber: 3.3 Consensus size: 19
8138822 TCGTTGCGAT
*
8138832 TTTGGACTATCACAACGAA
1 TTTGGACTATCGCAACGAA
*
8138851 TTTGGAATAAATCGCAACGCGAA
1 TTTGGACT--ATCGCAA--CGAA
* *
8138874 CTTGTACTATCGCAACGAA
1 TTTGGACTATCGCAACGAA
8138893 TTTGGA
1 TTTGGA
8138899 AAATAGCATT
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
19 15 0.41
21 13 0.35
23 9 0.24
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.27
Consensus pattern (19 bp):
TTTGGACTATCGCAACGAA
Found at i:8139998 original size:33 final size:33
Alignment explanation
Indices: 8139961--8140044 Score: 102
Period size: 33 Copynumber: 2.6 Consensus size: 33
8139951 AAATTTCGGG
* *
8139961 TTCGGGTTC-GTTCGGGTTTTTATAAGTTTGATA
1 TTCGGGTTCGGGTCGGGTTTTT-TAAGTGTGATA
8139994 TTCGGG-TCGGGTCGGGTTTTTTAAGTGTGATA
1 TTCGGGTTCGGGTCGGGTTTTTTAAGTGTGATA
*
8140026 TTTGGG-TCGGGGTCGGGTT
1 TTCGGGTTC-GGGTCGGGTT
8140045 GGGGTTTTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
32 19 0.41
33 27 0.59
ACGTcount: A:0.11, C:0.10, G:0.37, T:0.43
Consensus pattern (33 bp):
TTCGGGTTCGGGTCGGGTTTTTTAAGTGTGATA
Found at i:8140025 original size:32 final size:34
Alignment explanation
Indices: 8139972--8140044 Score: 114
Period size: 33 Copynumber: 2.2 Consensus size: 34
8139962 TCGGGTTCGT
*
8139972 TCGGGTTTTTATAAGTTTGATATTCGGGTC-GGG
1 TCGGGTTTTTATAAGTGTGATATTCGGGTCGGGG
*
8140005 TCGGGTTTTT-TAAGTGTGATATTTGGGTCGGGG
1 TCGGGTTTTTATAAGTGTGATATTCGGGTCGGGG
8140038 TCGGGTT
1 TCGGGTT
8140045 GGGGTTTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
32 17 0.46
33 20 0.54
ACGTcount: A:0.12, C:0.08, G:0.37, T:0.42
Consensus pattern (34 bp):
TCGGGTTTTTATAAGTGTGATATTCGGGTCGGGG
Found at i:8140148 original size:33 final size:33
Alignment explanation
Indices: 8140101--8140173 Score: 101
Period size: 33 Copynumber: 2.2 Consensus size: 33
8140091 AAATTTAGGT
* * *
8140101 TCGGGTCGGGTTTTTTAAAGTTTGATATTCGGG
1 TCGGGTTGGATTTTTTAAAGTGTGATATTCGGG
* *
8140134 TCGGGTTGGATTTTTTTAAGTGTGATATTCTGG
1 TCGGGTTGGATTTTTTAAAGTGTGATATTCGGG
8140167 TCGGGTT
1 TCGGGTT
8140174 CGGGTTTAGG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.14, C:0.08, G:0.33, T:0.45
Consensus pattern (33 bp):
TCGGGTTGGATTTTTTAAAGTGTGATATTCGGG
Found at i:8140719 original size:45 final size:45
Alignment explanation
Indices: 8140678--8140799 Score: 165
Period size: 45 Copynumber: 2.7 Consensus size: 45
8140668 GCATTTTATG
8140678 CATCG-ATGCACAAGACATGCATCGATGCACTCAGGCTATTTTGAAA
1 CATCGAATGCAC--GACATGCATCGATGCACTCAGGCTATTTTGAAA
**
8140724 CATCGAATGCACTTCATGCATCGATGCACTCAGGCTATTTTGAAA
1 CATCGAATGCACGACATGCATCGATGCACTCAGGCTATTTTGAAA
** **
8140769 CATTTAATGCACTTCATGCATCGATGCACTC
1 CATCGAATGCACGACATGCATCGATGCACTC
8140800 TTAGTGCACC
Statistics
Matches: 71, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
45 60 0.85
46 5 0.07
47 6 0.08
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (45 bp):
CATCGAATGCACGACATGCATCGATGCACTCAGGCTATTTTGAAA
Found at i:8140797 original size:17 final size:19
Alignment explanation
Indices: 8140775--8140817 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
8140765 GAAACATTTA
*
8140775 ATGCACT-TCA-TGCATCG
1 ATGCACTCTCAGTGCACCG
*
8140792 ATGCACTCTTAGTGCACCG
1 ATGCACTCTCAGTGCACCG
8140811 ATGCACT
1 ATGCACT
8140818 AAGGGTCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 2 0.09
19 13 0.59
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (19 bp):
ATGCACTCTCAGTGCACCG
Found at i:8142834 original size:22 final size:21
Alignment explanation
Indices: 8142791--8142835 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
8142781 TGAAAGTAAG
* **
8142791 ATTAAAGATTTGTAAATCAAA
1 ATTAAAGATTTGAAAAGAAAA
8142812 ATTAAAGATTTTGAAAAGAAAA
1 ATTAAAGA-TTTGAAAAGAAAA
8142834 AT
1 AT
8142836 ACTGATTTGC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.56, C:0.02, G:0.11, T:0.31
Consensus pattern (21 bp):
ATTAAAGATTTGAAAAGAAAA
Found at i:8146654 original size:23 final size:22
Alignment explanation
Indices: 8146601--8146660 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 22
8146591 ATGCATCCCT
8146601 TTGAATGTGCATCGA-TACACC
1 TTGAATGTGCATCGATTACACC
* * *
8146622 ATGAAGGTGCATCGATTCACTCC
1 TTGAATGTGCATCGATT-ACACC
8146645 TTGAATGTGCATCGAT
1 TTGAATGTGCATCGAT
8146661 GCTCAAGGTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
21 13 0.41
22 1 0.03
23 18 0.56
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (22 bp):
TTGAATGTGCATCGATTACACC
Found at i:8147948 original size:15 final size:15
Alignment explanation
Indices: 8147928--8147957 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
8147918 GGATTTATGG
8147928 TGGATGTATTGTATC
1 TGGATGTATTGTATC
8147943 TGGATGTATTGTATC
1 TGGATGTATTGTATC
8147958 CAACATAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.07, G:0.27, T:0.47
Consensus pattern (15 bp):
TGGATGTATTGTATC
Found at i:8150473 original size:16 final size:18
Alignment explanation
Indices: 8150452--8150499 Score: 64
Period size: 16 Copynumber: 2.8 Consensus size: 18
8150442 GATTCAGATT
8150452 CAGATTCCAATTCC-T-A
1 CAGATTCCAATTCCTTCA
*
8150468 CAGATTTCAATTCCTTCA
1 CAGATTCCAATTCCTTCA
*
8150486 CAGATTCTAATTCC
1 CAGATTCCAATTCC
8150500 CTCAAAAACA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
16 13 0.48
17 1 0.04
18 13 0.48
ACGTcount: A:0.29, C:0.29, G:0.06, T:0.35
Consensus pattern (18 bp):
CAGATTCCAATTCCTTCA
Found at i:8161367 original size:31 final size:32
Alignment explanation
Indices: 8161327--8161394 Score: 95
Period size: 31 Copynumber: 2.2 Consensus size: 32
8161317 TGTATGTAAT
*
8161327 TTATATATTATA-ATGTATTTTTATAATAAAA-
1 TTATATATTATATATATATTTTT-TAATAAAAG
*
8161358 TTATCTATTATATATATATTTTTTAATAAAAG
1 TTATATATTATATATATATTTTTTAATAAAAG
8161390 TTATA
1 TTATA
8161395 ATTGATACTA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 19 0.59
32 13 0.41
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (32 bp):
TTATATATTATATATATATTTTTTAATAAAAG
Found at i:8164053 original size:32 final size:32
Alignment explanation
Indices: 8163972--8164143 Score: 105
Period size: 32 Copynumber: 5.1 Consensus size: 32
8163962 GATGTAACAT
* * *
8163972 ATATCATATCATCATATTTAATAATGTGATAC
1 ATATCATATCATCATTTTTAATAACGTGACAC
* *
8164004 ATATCACATCATCATTTTTAATGACGTGACAC
1 ATATCATATCATCATTTTTAATAACGTGACAC
* * **
8164036 ATATCATGTCATAATTTTAGGTGACATAATAATATGACAC
1 ATATCATATCATCA-TTT---T----TAATAACGTGACAC
* * *
8164076 ATATCATATCATCA-TTTTAGGTAATGTAACAC
1 ATATCATATCATCATTTTTA-ATAACGTGACAC
** *
8164108 ATATCACGTCAT-AATTTTAGATAACGTGACAC
1 ATATCATATCATCATTTTTA-ATAACGTGACAC
8164140 ATAT
1 ATAT
8164144 TACGTCATCA
Statistics
Matches: 109, Mismatches: 21, Indels: 20
0.73 0.14 0.13
Matches are distributed among these distances:
31 3 0.03
32 76 0.70
33 3 0.03
35 1 0.01
36 1 0.01
38 2 0.02
40 23 0.21
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (32 bp):
ATATCATATCATCATTTTTAATAACGTGACAC
Found at i:8164078 original size:72 final size:72
Alignment explanation
Indices: 8163990--8164127 Score: 188
Period size: 72 Copynumber: 1.9 Consensus size: 72
8163980 TCATCATATT
* * * * *
8163990 TAATAATGTGATACATATCACATCATCATTTTTA-ATGACGTGACACATATCATGTCATAATTTT
1 TAATAATATGACACATATCACATCATCA-TTTTAGATAACGTAACACATATCACGTCATAATTTT
8164054 AGGTGACA
65 AGGTGACA
* * *
8164062 TAATAATATGACACATATCATATCATCATTTTAGGTAATGTAACACATATCACGTCATAATTTTA
1 TAATAATATGACACATATCACATCATCATTTTAGATAACGTAACACATATCACGTCATAATTTTA
8164127 G
66 G
8164128 ATAACGTGAC
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
71 5 0.09
72 52 0.91
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (72 bp):
TAATAATATGACACATATCACATCATCATTTTAGATAACGTAACACATATCACGTCATAATTTTA
GGTGACA
Found at i:8164149 original size:32 final size:32
Alignment explanation
Indices: 8164070--8164157 Score: 104
Period size: 32 Copynumber: 2.7 Consensus size: 32
8164060 CATAATAATA
** * * *
8164070 TGACACATATCATATCATCATTTTAGGTAATG
1 TGACACATATCACGTCATAATTTTAGATAACG
*
8164102 TAACACATATCACGTCATAATTTTAGATAACG
1 TGACACATATCACGTCATAATTTTAGATAACG
*
8164134 TGACACATATTACGTCATCAATTT
1 TGACACATATCACGTCAT-AATTT
8164158 AGACGACACG
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
32 42 0.89
33 5 0.11
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.35
Consensus pattern (32 bp):
TGACACATATCACGTCATAATTTTAGATAACG
Found at i:8165423 original size:29 final size:29
Alignment explanation
Indices: 8165357--8165424 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
8165347 ACCCAAAAAT
*
8165357 CACCCTTTCTCTAAATATTACATGTCAGA
1 CACCCTTTCTCTAAATATTACATCTCAGA
**
8165386 CACTATTTCTCTAAATATTATCAATCT-AG-
1 CACCCTTTCTCTAAATATTA-C-ATCTCAGA
8165415 CACCCTTTCT
1 CACCCTTTCT
8165425 AACAAATAGA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
29 26 0.81
30 3 0.09
31 3 0.09
ACGTcount: A:0.29, C:0.28, G:0.04, T:0.38
Consensus pattern (29 bp):
CACCCTTTCTCTAAATATTACATCTCAGA
Found at i:8168503 original size:20 final size:20
Alignment explanation
Indices: 8168478--8168552 Score: 62
Period size: 20 Copynumber: 3.7 Consensus size: 20
8168468 GCGAAATAAA
8168478 AATCGCAACGCGATCTCAAG
1 AATCGCAACGCGATCTCAAG
** * *
8168498 AATCGCAAATCAGTTC-CCAG
1 AATCGCAACGC-GATCTCAAG
* *
8168518 AATCGCAACGCGATTATGAAG
1 AATCGCAACGCGA-TCTCAAG
*
8168539 AATCGCAATGCGAT
1 AATCGCAACGCGAT
8168553 AGTATAAATT
Statistics
Matches: 41, Mismatches: 11, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
19 1 0.02
20 23 0.56
21 17 0.41
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGATCTCAAG
Found at i:8168542 original size:21 final size:19
Alignment explanation
Indices: 8168518--8168635 Score: 74
Period size: 21 Copynumber: 5.8 Consensus size: 19
8168508 CAGTTCCCAG
8168518 AATCGCAACGCGATTATGAA
1 AATCGCAACGCGATTAT-AA
*
8168538 GAATCGCAATGCGATAGTATAA
1 -AATCGCAACGCGAT--TATAA
* ** * *
8168560 ATTCGCATTGCGATTTTCCAG
1 AATCGCAACGCGATTAT--AA
* *
8168581 AATTGCAACGCGAATATGAA
1 AATCGCAACGCGATTAT-AA
**
8168601 AATCGCAACGCGAACATATA
1 AATCGCAACGCGATTATA-A
8168621 AATCGCAACGCGATT
1 AATCGCAACGCGATT
8168636 CTGACTATCG
Statistics
Matches: 75, Mismatches: 17, Indels: 11
0.73 0.17 0.11
Matches are distributed among these distances:
19 3 0.04
20 30 0.40
21 37 0.49
22 2 0.03
23 3 0.04
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.23
Consensus pattern (19 bp):
AATCGCAACGCGATTATAA
Found at i:8168610 original size:20 final size:20
Alignment explanation
Indices: 8168585--8168876 Score: 180
Period size: 20 Copynumber: 14.4 Consensus size: 20
8168575 TTCCAGAATT
*
8168585 GCAACGCGAATATGAAAATC
1 GCAACGCGAATACGAAAATC
* *
8168605 GCAACGCGAACA-TATAAATC
1 GCAACGCGAATACGA-AAATC
* **
8168625 GCAACGCG-ATTCTGACTATC
1 GCAACGCGAATAC-GAAAATC
* * *
8168645 GCAACGAGTATCCGTAAAATC
1 GCAACGCGAATACG-AAAATC
* * *
8168666 GCAACGCGTATCCGTAAATC
1 GCAACGCGAATACGAAAATC
8168686 GCAACGAC-AATACGTAAAATC
1 GCAACG-CGAATACG-AAAATC
* * * *
8168707 GCAACGTGTATCCGTAAATC
1 GCAACGCGAATACGAAAATC
* *
8168727 GCAACGAGAATACGTAAATC
1 GCAACGCGAATACGAAAATC
* *
8168747 GCAACGCGTATACGTAAATC
1 GCAACGCGAATACGAAAATC
* * *
8168767 GCAATGCGTAT-CTGTAAATC
1 GCAACGCGAATAC-GAAAATC
* *
8168787 GCAACGAGAATACGTAAATC
1 GCAACGCGAATACGAAAATC
* * * *
8168807 GCAATGCGTATCCGTAAATC
1 GCAACGCGAATACGAAAATC
8168827 GCAACGAC-AATACGTAAAATC
1 GCAACG-CGAATACG-AAAATC
* * *
8168848 GCAACGCGTATCCGTAAATC
1 GCAACGCGAATACGAAAATC
*
8168868 ACAACGCGA
1 GCAACGCGA
8168877 TCGATAATTC
Statistics
Matches: 217, Mismatches: 42, Indels: 26
0.76 0.15 0.09
Matches are distributed among these distances:
19 3 0.01
20 160 0.74
21 54 0.25
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.19
Consensus pattern (20 bp):
GCAACGCGAATACGAAAATC
Found at i:8168664 original size:61 final size:61
Alignment explanation
Indices: 8168599--8168877 Score: 257
Period size: 61 Copynumber: 4.6 Consensus size: 61
8168589 CGCGAATATG
** * **
8168599 AAAATCGCAACGCGAACATATAAATCGCAACGCGATTC-TGACTATCGCAACGAGTATCCGT
1 AAAATCGCAACGCGAACACGTAAATCGCAACGCGATACGT-AAAATCGCAACGAGTATCCGT
* * *
8168660 AAAATCGCAACGCGTATC-CGTAAATCGCAACGACAATACGTAAAATCGCAACGTGTATCCGT
1 AAAATCGCAACGCG-AACACGTAAATCGCAACG-CGATACGTAAAATCGCAACGAGTATCCGT
* * * * *
8168722 -AAATCGCAACGAGAATACGTAAATCGCAACGCGTATACGT-AAATCGCAATGCGTATCTGT
1 AAAATCGCAACGCGAACACGTAAATCGCAACGCG-ATACGTAAAATCGCAACGAGTATCCGT
* * * * ** *
8168782 -AAATCGCAACGAGAATACGTAAATCGCAATGCGTATCCGT-AAATCGCAACGACAATACGT
1 AAAATCGCAACGCGAACACGTAAATCGCAACGCG-ATACGTAAAATCGCAACGAGTATCCGT
* *
8168842 AAAATCGCAACGCGTATC-CGTAAATCACAACGCGAT
1 AAAATCGCAACGCG-AACACGTAAATCGCAACGCGAT
8168878 CGATAATTCA
Statistics
Matches: 183, Mismatches: 28, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
60 73 0.40
61 84 0.46
62 25 0.14
63 1 0.01
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.19
Consensus pattern (61 bp):
AAAATCGCAACGCGAACACGTAAATCGCAACGCGATACGTAAAATCGCAACGAGTATCCGT
Found at i:8168673 original size:41 final size:41
Alignment explanation
Indices: 8168642--8168875 Score: 210
Period size: 40 Copynumber: 5.8 Consensus size: 41
8168632 GATTCTGACT
* *
8168642 ATCGCAACGAGTATCCGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* *
8168683 ATCGCAACGACAATACGTAAAATCGCAACGTGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
*
8168724 ATCGCAACGAGAATACGT-AAATCGCAACGCGTATACGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* * * * * *
8168764 ATCGCAATGCGTAT-CTGT-AAATCGCAACGAGAATACGTAA
1 ATCGCAACGAGAATAC-GTAAAATCGCAACGCGTATCCGTAA
* * * * * *
8168804 ATCGCAATGCGTATCCGT-AAATCGCAACGAC-AATACGTAAA
1 ATCGCAACGAGAATACGTAAAATCGCAACG-CGTATCCGT-AA
* * * *
8168845 ATCGCAACGCGTATCCGT-AAATCACAACGCG
1 ATCGCAACGAGAATACGTAAAATCGCAACGCG
8168876 ATCGATAATT
Statistics
Matches: 173, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.01
40 88 0.51
41 84 0.49
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.19
Consensus pattern (41 bp):
ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
Found at i:8168793 original size:60 final size:60
Alignment explanation
Indices: 8168642--8168875 Score: 272
Period size: 60 Copynumber: 3.9 Consensus size: 60
8168632 GATTCTGACT
* * * *
8168642 ATCGCAACGAGTATCCGTAAAATCGCAACGCGTATCCGTAAATCGCAACGAC-AATACGTAAA
1 ATCGCAACGAGTATCCGT-AAATCGCAACGAGAATACGTAAATCGCAACG-CGTATACGT-AA
*
8168704 ATCGCAACGTGTATCCGTAAATCGCAACGAGAATACGTAAATCGCAACGCGTATACGTAA
1 ATCGCAACGAGTATCCGTAAATCGCAACGAGAATACGTAAATCGCAACGCGTATACGTAA
* * * * *
8168764 ATCGCAATGCGTATCTGTAAATCGCAACGAGAATACGTAAATCGCAATGCGTATCCGTAA
1 ATCGCAACGAGTATCCGTAAATCGCAACGAGAATACGTAAATCGCAACGCGTATACGTAA
** * * * * *
8168824 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAAATCACAACGCG
1 ATCGCAACGAGTATCCGT-AAATCGCAACGAGAATACGTAAATCGCAACGCG
8168876 ATCGATAATT
Statistics
Matches: 149, Mismatches: 21, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
60 70 0.47
61 62 0.42
62 17 0.11
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.19
Consensus pattern (60 bp):
ATCGCAACGAGTATCCGTAAATCGCAACGAGAATACGTAAATCGCAACGCGTATACGTAA
Found at i:8168996 original size:21 final size:21
Alignment explanation
Indices: 8168945--8168997 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
8168935 ATTCTGACTA
*
8168945 TCGCATTGCAATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * *
8168966 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
*
8168987 TCGCAATGCGA
1 TCGCATTGCGA
8168998 ATACGTAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:8169012 original size:20 final size:20
Alignment explanation
Indices: 8168987--8169088 Score: 152
Period size: 20 Copynumber: 5.1 Consensus size: 20
8168977 TTTTCCTAAT
8168987 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
8169007 TCGCAATTCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* * *
8169027 TCGTAACGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
8169047 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
8169067 TCGCAATGCGAAT-CTGTAAA
1 TCGCAATGCGAATAC-GTAAA
8169087 TC
1 TC
8169089 AATGCCTGTA
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
19 1 0.01
20 72 0.99
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.24
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:8170000 original size:24 final size:23
Alignment explanation
Indices: 8169968--8170019 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 23
8169958 AGTATTCGAA
*
8169968 ATTTGATCTTGGTCAATACCCGG
1 ATTTTATCTTGGTCAATACCCGG
*
8169991 ACTTTTATCTTGGTCAATACTCGG
1 A-TTTTATCTTGGTCAATACCCGG
8170015 ATTTT
1 ATTTT
8170020 GATGATTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 5 0.19
24 21 0.81
ACGTcount: A:0.21, C:0.19, G:0.17, T:0.42
Consensus pattern (23 bp):
ATTTTATCTTGGTCAATACCCGG
Found at i:8172464 original size:20 final size:20
Alignment explanation
Indices: 8172439--8172491 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
8172429 GACATTCATT
8172439 TGACTATCGCAACACAGAAA
1 TGACTATCGCAACACAGAAA
** * *
8172459 TGACTATCGCAATGCGGAAT
1 TGACTATCGCAACACAGAAA
8172479 TGACTATCGCAAC
1 TGACTATCGCAAC
8172492 GAGAGAATCA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.21
Consensus pattern (20 bp):
TGACTATCGCAACACAGAAA
Found at i:8172552 original size:34 final size:33
Alignment explanation
Indices: 8172464--8172559 Score: 129
Period size: 33 Copynumber: 2.8 Consensus size: 33
8172454 AGAAATGACT
* **
8172464 ATCGCAATGCGGAATTGACTATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
* *
8172498 ATCACAATGCGAAATGAAAATCGCAACGAGTGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
8172531 ATCGCAATGCGAAAATGAAAATCGCAACG
1 ATCGCAATGCG-AAATGAAAATCGCAACG
8172560 CGAAATTAGT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
33 29 0.53
34 26 0.47
ACGTcount: A:0.42, C:0.20, G:0.23, T:0.16
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:8172618 original size:34 final size:34
Alignment explanation
Indices: 8172574--8172669 Score: 131
Period size: 33 Copynumber: 2.9 Consensus size: 34
8172564 ATTAGTTTCG
*
8172574 CGTTGTGATTTTCATTTTCGCATTGCGATTCACT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
*
8172608 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
** * *
8172641 CGTTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTTTCGCATTGCGAT
8172670 AGTCTGTTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
33 30 0.55
34 25 0.45
ACGTcount: A:0.14, C:0.23, G:0.21, T:0.43
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
Found at i:8172790 original size:14 final size:14
Alignment explanation
Indices: 8172771--8172807 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
8172761 CATCAATTAA
8172771 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
8172785 ACAAATCATCTTTT
1 ACAAATCAACATTT
8172799 ACAAATCAA
1 ACAAATCAA
8172808 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:8174248 original size:18 final size:20
Alignment explanation
Indices: 8174225--8174264 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
8174215 CTCTTGAGGG
8174225 ATGAT-AGG-GGCCTCTTGA
1 ATGATAAGGAGGCCTCTTGA
8174243 ATGATAGAGGAGGCCTCTTGA
1 ATGATA-AGGAGGCCTCTTGA
8174264 A
1 A
8174265 CGATGACAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.26
20 3 0.16
21 11 0.58
ACGTcount: A:0.28, C:0.15, G:0.33, T:0.25
Consensus pattern (20 bp):
ATGATAAGGAGGCCTCTTGA
Found at i:8174777 original size:20 final size:20
Alignment explanation
Indices: 8174754--8174822 Score: 102
Period size: 20 Copynumber: 3.5 Consensus size: 20
8174744 GAAACTTAAA
8174754 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
8174774 ATCGCAATGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* **
8174794 ATCGCAATGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
8174814 ATCGCAACG
1 ATCGCAACG
8174823 AGAGAATCGC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:8174878 original size:19 final size:19
Alignment explanation
Indices: 8174856--8174898 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
8174846 AATCGCAACG
8174856 CGATTATAGTTTCGCGTTA
1 CGATTATAGTTTCGCGTTA
* * *
8174875 CGATTTTGGTTTCGCGTTG
1 CGATTATAGTTTCGCGTTA
8174894 CGATT
1 CGATT
8174899 CACTCGTTGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.14, C:0.16, G:0.26, T:0.44
Consensus pattern (19 bp):
CGATTATAGTTTCGCGTTA
Found at i:8174926 original size:33 final size:33
Alignment explanation
Indices: 8174870--8174933 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
8174860 TATAGTTTCG
**
8174870 CGTTACGATTTTGGTTTCGCGTTGCGATTCACT
1 CGTTACGATTTTCATTTCGCGTTGCGATTCACT
* *
8174903 CGTTGCGATTTTCATTTCTCGTTGCGATTCA
1 CGTTACGATTTTCATTTCGCGTTGCGATTCA
8174934 TTTCGCGTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.44
Consensus pattern (33 bp):
CGTTACGATTTTCATTTCGCGTTGCGATTCACT
Found at i:8174955 original size:19 final size:17
Alignment explanation
Indices: 8174884--8174947 Score: 71
Period size: 17 Copynumber: 3.8 Consensus size: 17
8174874 ACGATTTTGG
8174884 TTTCGCGTTGCGATTCA
1 TTTCGCGTTGCGATTCA
*
8174901 ---CTCGTTGCGATTTTCA
1 TTTCGCGTTGCGA--TTCA
*
8174917 TTTCTCGTTGCGATTCA
1 TTTCGCGTTGCGATTCA
8174934 TTTCGCGTTGCGAT
1 TTTCGCGTTGCGAT
8174948 AGTCATTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
14 9 0.22
16 4 0.10
17 17 0.43
19 10 0.25
ACGTcount: A:0.11, C:0.23, G:0.22, T:0.44
Consensus pattern (17 bp):
TTTCGCGTTGCGATTCA
Found at i:8175181 original size:94 final size:94
Alignment explanation
Indices: 8175035--8175414 Score: 638
Period size: 94 Copynumber: 4.1 Consensus size: 94
8175025 ATGGATTGCA
* * *
8175035 TTAC-TTCAACCAAAAGATAAAACAAAGACAAATACTAACTTCAGAGTATTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
8175099 TTAGCAGAATTGGCAGCAACCGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
8175128 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
8175193 TTAGCATAATTGGCAGCAACCGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
8175222 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
* *
8175287 TTAGCAGAATTGACAGCAACCGAATAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
* *
8175316 TTAC-TTCAACCAAAAGACAAAACAAAAGACAAATATTAACTTCACAGTGTTAAAGAATAAACAG
1 TTACTTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAG
* * *
8175380 TTTAGCAGTATTGGTAGCAACCGAATAAAT
65 TTTAGCAGAATTGGCAGCAACCGAACAAAT
8175410 TTACT
1 TTACT
8175415 AAGTAATCTA
Statistics
Matches: 272, Mismatches: 12, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
93 23 0.08
94 249 0.92
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.22
Consensus pattern (94 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
TTAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:8177136 original size:20 final size:20
Alignment explanation
Indices: 8177113--8177168 Score: 87
Period size: 20 Copynumber: 2.8 Consensus size: 20
8177103 TGAAATGAAA
8177113 ATCGCAACGAGAGAATGACT
1 ATCGCAACGAGAGAATGACT
*
8177133 ATCGCAACGCG-GAAATGACT
1 ATCGCAACGAGAG-AATGACT
8177153 ATCGCAACGAGAGAAT
1 ATCGCAACGAGAGAAT
8177169 CGCAACGCGA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.39, C:0.21, G:0.25, T:0.14
Consensus pattern (20 bp):
ATCGCAACGAGAGAATGACT
Found at i:8177172 original size:14 final size:14
Alignment explanation
Indices: 8177153--8177241 Score: 52
Period size: 14 Copynumber: 5.6 Consensus size: 14
8177143 GGAAATGACT
8177153 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
8177167 ATCGCAACGCGAAATGAAA
1 ATCGCAA--CG--A-GAGA
*
8177186 ATCGCAACAAGAGA
1 ATCGCAACGAGAGA
* *
8177200 ATCGCAACGCGAAATTAAA
1 ATCGCAA--CG--A-GAGA
8177219 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
8177233 ATCGCAACG
1 ATCGCAACG
8177242 CGAAATGAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 20
0.67 0.09 0.24
Matches are distributed among these distances:
14 28 0.49
15 2 0.04
16 3 0.05
17 3 0.05
18 2 0.04
19 19 0.33
ACGTcount: A:0.45, C:0.22, G:0.22, T:0.10
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:8177190 original size:33 final size:33
Alignment explanation
Indices: 8177104--8177256 Score: 207
Period size: 33 Copynumber: 4.4 Consensus size: 33
8177094 TCTTTTGGTT
8177104 GAAATGAAAATCGCAACGAGAGAATGACTATCGCAACGC
1 GAAATGAAAATCGCAAC--GAG-A-GA--ATCGCAACGC
**
8177143 GGAAATGACTATCGCAACGAGAGAATCGCAACGC
1 -GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
8177177 GAAATGAAAATCGCAACAAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
8177210 GAAATTAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
8177243 GAAATGAAAATCGC
1 GAAATGAAAATCGC
8177257 GTTGCGATTT
Statistics
Matches: 105, Mismatches: 8, Indels: 7
0.88 0.07 0.06
Matches are distributed among these distances:
33 74 0.70
34 10 0.10
36 2 0.02
37 1 0.01
38 3 0.03
40 15 0.14
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:8177240 original size:66 final size:72
Alignment explanation
Indices: 8177104--8177256 Score: 228
Period size: 66 Copynumber: 2.2 Consensus size: 72
8177094 TCTTTTGGTT
**
8177104 GAAATGAAAATCGCAACGAGAGAATGACTATCGCAACGCGGAAATGACTATCGCAACGAGAGAAT
1 GAAATGAAAATCGCAACGAGAGAATGAC-ATCGCAACGCGGAAATGAAAATCGCAACGAGAGAAT
8177169 CGCAACGC
65 CGCAACGC
*
8177177 GAAATGAAAATCGCAAC-A-AG-A-GA-ATCGCAACGC-GAAATTAAAATCGCAACGAGAGAATC
1 GAAATGAAAATCGCAACGAGAGAATGACATCGCAACGCGGAAATGAAAATCGCAACGAGAGAATC
8177236 GCAACGC
66 GCAACGC
8177243 GAAATGAAAATCGC
1 GAAATGAAAATCGC
8177257 GTTGCGATTT
Statistics
Matches: 77, Mismatches: 3, Indels: 7
0.89 0.03 0.08
Matches are distributed among these distances:
66 44 0.57
67 10 0.13
69 2 0.03
70 1 0.01
71 2 0.03
72 1 0.01
73 17 0.22
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (72 bp):
GAAATGAAAATCGCAACGAGAGAATGACATCGCAACGCGGAAATGAAAATCGCAACGAGAGAATC
GCAACGC
Found at i:8177292 original size:19 final size:19
Alignment explanation
Indices: 8177253--8177292 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
8177243 GAAATGAAAA
* **
8177253 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTCTCATT
8177272 TCGCGTTGCGATTCTCATT
1 TCGCGTTGCGATTCTCATT
8177291 TC
1 TC
8177293 TCTCGTTACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.07, C:0.23, G:0.25, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTCTCATT
Found at i:8177330 original size:20 final size:20
Alignment explanation
Indices: 8177257--8177347 Score: 69
Period size: 20 Copynumber: 4.5 Consensus size: 20
8177247 TGAAAATCGC
** *
8177257 GTTGCGATTTT-GGTTTCGC
1 GTTGCGATTTTCATTTTCGT
*
8177276 GTTGCGATTCTCATTTCTC-T
1 GTTGCGATTTTCATTT-TCGT
* **
8177296 CGTTACGATAGTCATTTTCGT
1 -GTTGCGATTTTCATTTTCGT
*
8177317 GTTGCGATTTTCATTTTCAT
1 GTTGCGATTTTCATTTTCGT
*
8177337 GTTGCAATTTT
1 GTTGCGATTTT
8177348 AAGTTTAGAA
Statistics
Matches: 56, Mismatches: 12, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
19 10 0.18
20 30 0.54
21 16 0.29
ACGTcount: A:0.13, C:0.18, G:0.20, T:0.49
Consensus pattern (20 bp):
GTTGCGATTTTCATTTTCGT
Found at i:8177931 original size:20 final size:20
Alignment explanation
Indices: 8177906--8178138 Score: 245
Period size: 20 Copynumber: 11.5 Consensus size: 20
8177896 TTTAAAAATT
8177906 GCGTTGCGATTTACGGATAC
1 GCGTTGCGATTTACGGATAC
* *
8177926 GCGTTGCGATTTTACGTAT-T
1 GCGTTGCGA-TTTACGGATAC
8177946 GTCGTTGCGATTTACGGATAC
1 G-CGTTGCGATTTACGGATAC
*
8177967 GCATTGCGATTTACGGATAC
1 GCGTTGCGATTTACGGATAC
* * *
8177987 GCATTGCGATTTACGTATTC
1 GCGTTGCGATTTACGGATAC
* *
8178007 TCGTTGCGATTTACAGATAC
1 GCGTTGCGATTTACGGATAC
* * *
8178027 GCGTTGTGATTTACGTATTC
1 GCGTTGCGATTTACGGATAC
*
8178047 TCGTTGCGATTTACGGATAC
1 GCGTTGCGATTTACGGATAC
* * *
8178067 GCATTGCGATTTTACGTAT-T
1 GCGTTGCGA-TTTACGGATAC
* *
8178087 GTCATTGCGATTTACAGATAC
1 G-CGTTGCGATTTACGGATAC
8178108 GCGTTGCGATTTTACGGATAC
1 GCGTTGCGA-TTTACGGATAC
*
8178129 TCGTTGCGAT
1 GCGTTGCGAT
8178139 AGTCAGAATC
Statistics
Matches: 175, Mismatches: 31, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
20 123 0.70
21 52 0.30
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.37
Consensus pattern (20 bp):
GCGTTGCGATTTACGGATAC
Found at i:8178152 original size:41 final size:40
Alignment explanation
Indices: 8177906--8178161 Score: 220
Period size: 41 Copynumber: 6.3 Consensus size: 40
8177896 TTTAAAAATT
* * *
8177906 GCGTTGCGATTTACGGATACGCGTTGCGATTTTACG-TATT
1 GCGTTGCGATTTACGGATACTCGTTGCGATTTCACGATA-C
* *
8177946 GTCGTTGCGATTTACGGATACGCATTGCGATTT-ACGGATAC
1 G-CGTTGCGATTTACGGATACTCGTTGCGATTTCAC-GATAC
* * *
8177987 GCATTGCGATTTACGTATTCTCGTTGCGATTT-ACAGATAC
1 GCGTTGCGATTTACGGATACTCGTTGCGATTTCAC-GATAC
* * *
8178027 GCGTTGTGATTTACGTATTCTCGTTGCGATTT-ACGGATAC
1 GCGTTGCGATTTACGGATACTCGTTGCGATTTCAC-GATAC
* * ** *
8178067 GCATTGCGATTTTACGTATTGTCATTGCGATTT-ACAGATAC
1 GCGTTGCGA-TTTACGGATACTCGTTGCGATTTCAC-GATAC
*
8178108 GCGTTGCGATTTTACGGATACTCGTTGCGATAGTCA-GA-ATC
1 GCGTTGCGA-TTTACGGATACTCGTTGCGAT-TTCACGATA-C
8178149 GCGTTGCGATTTA
1 GCGTTGCGATTTA
8178162 TATATTCGCG
Statistics
Matches: 187, Mismatches: 22, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
40 85 0.45
41 98 0.52
42 3 0.02
43 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (40 bp):
GCGTTGCGATTTACGGATACTCGTTGCGATTTCACGATAC
Found at i:8179938 original size:13 final size:14
Alignment explanation
Indices: 8179911--8179962 Score: 59
Period size: 14 Copynumber: 3.4 Consensus size: 14
8179901 TTTAAACTAT
*
8179911 AATAAAAATATAAAA
1 AATATAAATA-AAAA
8179926 AATATAAATAAAAA
1 AATATAAATAAAAA
8179940 AATATAATTATAATAAA
1 AATATAA--ATAA-AAA
8179957 AATATA
1 AATATA
8179963 TTTTATAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
14 11 0.33
15 9 0.27
16 4 0.12
17 9 0.27
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
AATATAAATAAAAA
Found at i:8179968 original size:18 final size:17
Alignment explanation
Indices: 8179923--8179973 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 17
8179913 TAAAAATATA
8179923 AAAAATATAA--ATAA-
1 AAAAATATAATTATAAT
8179937 AAAAATATAATTATAAT
1 AAAAATATAATTATAAT
*
8179954 AAAAATATATTTTATAAT
1 AAAAATATA-ATTATAAT
8179972 AA
1 AA
8179974 CTCACTCTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
14 10 0.31
16 4 0.12
17 9 0.28
18 9 0.28
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAAATATAATTATAAT
Found at i:8181803 original size:21 final size:22
Alignment explanation
Indices: 8181754--8181806 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
8181744 TATATATATA
**
8181754 TATTTTCTTTTTTTGTTTCAAT
1 TATTTTCTTTTTTCCTTTCAAT
* *
8181776 TAATTTCTTTTTTCCTTT-ATT
1 TATTTTCTTTTTTCCTTTCAAT
8181797 TATTTTCTTT
1 TATTTTCTTT
8181807 AATCTAATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.13, C:0.11, G:0.02, T:0.74
Consensus pattern (22 bp):
TATTTTCTTTTTTCCTTTCAAT
Found at i:8181998 original size:2 final size:2
Alignment explanation
Indices: 8181991--8182039 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
8181981 TTTTAAACAT
8181991 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8182033 TA TA TA T
1 TA TA TA T
8182040 TTGCTGGTCA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8182191 original size:3 final size:3
Alignment explanation
Indices: 8182183--8182211 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
8182173 TCTAAAATTG
8182183 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
8182212 ATATATTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:8192644 original size:7 final size:7
Alignment explanation
Indices: 8192619--8192656 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
8192609 ATCTGTAACC
8192619 CAAAAG-
1 CAAAAGT
8192625 CAAAAGT
1 CAAAAGT
8192632 -AAAAGT
1 CAAAAGT
8192638 CAAAAGT
1 CAAAAGT
8192645 CAAAAGT
1 CAAAAGT
8192652 CAAAA
1 CAAAA
8192657 AAATATATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 12 0.40
7 18 0.60
ACGTcount: A:0.63, C:0.13, G:0.13, T:0.11
Consensus pattern (7 bp):
CAAAAGT
Found at i:8193176 original size:19 final size:19
Alignment explanation
Indices: 8193152--8193200 Score: 98
Period size: 19 Copynumber: 2.6 Consensus size: 19
8193142 AGCCATGATA
8193152 GAAAAGAAACTGTTAAAAT
1 GAAAAGAAACTGTTAAAAT
8193171 GAAAAGAAACTGTTAAAAT
1 GAAAAGAAACTGTTAAAAT
8193190 GAAAAGAAACT
1 GAAAAGAAACT
8193201 AACAGTCGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.59, C:0.06, G:0.16, T:0.18
Consensus pattern (19 bp):
GAAAAGAAACTGTTAAAAT
Found at i:8198580 original size:20 final size:20
Alignment explanation
Indices: 8198555--8198624 Score: 113
Period size: 20 Copynumber: 3.5 Consensus size: 20
8198545 AGAGATGTAC
* *
8198555 CGATGCATTAGTCCATGCAT
1 CGATGCACTCGTCCATGCAT
8198575 CGATGCACTCGTCCATGCAT
1 CGATGCACTCGTCCATGCAT
*
8198595 TGATGCACTCGTCCATGCAT
1 CGATGCACTCGTCCATGCAT
8198615 CGATGCACTC
1 CGATGCACTC
8198625 TCAATTAAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.21, C:0.31, G:0.20, T:0.27
Consensus pattern (20 bp):
CGATGCACTCGTCCATGCAT
Found at i:8198637 original size:40 final size:40
Alignment explanation
Indices: 8198556--8198637 Score: 103
Period size: 40 Copynumber: 2.0 Consensus size: 40
8198546 GAGATGTACC
* * **
8198556 GATGCATTAGTCCATGCATCGATGCACTCGTCCATGCATT
1 GATGCACTAGTCCATGCATCGATGCACTCGTCAATAAATT
*
8198596 GATGCACTCGTCCATGCATCGATGCACTC-TCAATTAAATT
1 GATGCACTAGTCCATGCATCGATGCACTCGTCAA-TAAATT
8198636 GA
1 GA
8198638 ATTTCGAATG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
39 3 0.08
40 33 0.92
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (40 bp):
GATGCACTAGTCCATGCATCGATGCACTCGTCAATAAATT
Found at i:8201906 original size:20 final size:19
Alignment explanation
Indices: 8201848--8201916 Score: 59
Period size: 22 Copynumber: 3.4 Consensus size: 19
8201838 GAATGGTACT
*
8201848 GATACCCCTCATA-GGTATC
1 GATA-CCCTCAGATGGTATC
8201867 GATACCCTCATGCAATGGTATC
1 GATACCCTCA-G--ATGGTATC
*
8201889 GATACTCCTCAGATGGTACC
1 GATAC-CCTCAGATGGTATC
*
8201909 AATACCCT
1 GATACCCT
8201917 AAGGCATATA
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
18 6 0.14
19 7 0.17
20 11 0.26
21 1 0.02
22 12 0.29
23 5 0.12
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (19 bp):
GATACCCTCAGATGGTATC
Found at i:8212192 original size:21 final size:20
Alignment explanation
Indices: 8212158--8212280 Score: 90
Period size: 21 Copynumber: 5.8 Consensus size: 20
8212148 ATTTTTGTGC
*
8212158 ATAGAGTATAGATACCCCTAAG
1 ATAG-GTATCGATACCCCT-AG
*
8212180 ACT-GGTATCGATACCCCTTTG
1 A-TAGGTATCGATACCCC-TAG
* *
8212201 AATAGGTATCGATACCTCTACA
1 -ATAGGTATCGATACCCCTA-G
*
8212223 ATAGGTATCGATACCATCCTTG
1 ATAGGTATCGATACC--CCTAG
8212245 AATAGGTATCGATACCCCCT-G
1 -ATAGGTATCGATA-CCCCTAG
8212266 AT-GGTATCGATACCC
1 ATAGGTATCGATACCC
8212281 TCTACGGGGT
Statistics
Matches: 84, Mismatches: 8, Indels: 22
0.74 0.07 0.19
Matches are distributed among these distances:
18 3 0.04
19 10 0.12
20 2 0.02
21 31 0.37
22 20 0.24
23 16 0.19
24 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (20 bp):
ATAGGTATCGATACCCCTAG
Found at i:8212252 original size:23 final size:21
Alignment explanation
Indices: 8212183--8212280 Score: 119
Period size: 21 Copynumber: 4.6 Consensus size: 21
8212173 CCCTAAGACT
8212183 GGTATCGATACCCCTTTGAATA
1 GGTATCGATACCCC-TTGAATA
* **
8212205 GGTATCGATACCTCTACAATA
1 GGTATCGATACCCCTTGAATA
8212226 GGTATCGATACCATCCTTGAATA
1 GGTATCGATACC--CCTTGAATA
*
8212249 GGTATCGATACCCCCTG-AT-
1 GGTATCGATACCCCTTGAATA
8212268 GGTATCGATACCC
1 GGTATCGATACCC
8212281 TCTACGGGGT
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
19 13 0.19
20 2 0.03
21 21 0.31
22 13 0.19
23 18 0.27
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.29
Consensus pattern (21 bp):
GGTATCGATACCCCTTGAATA
Done.