Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 136 of 208
Found at i:44358782 original size:83 final size:83
Alignment explanation
Indices: 44358641--44358793 Score: 236
Period size: 83 Copynumber: 1.8 Consensus size: 83
44358631 ATATTAAGTC
* *
44358641 CGCACACTCAGTGCTATATAATCAGCTCGCACACCTAGTGCTACATAATCAAACTCGCACACTTA
1 CGCACACTCAGTGCTACATAATCAACTCGCACACCTAGTGCTACATAATCAAACTCGCACACTTA
44358706 GTGCTACATAGTCAAACT
66 GTGCTACATAGTCAAACT
* * * *
44358724 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACATAGTC-AATTCGCACACTT
1 CGCACACTCAGTGCTACATAATC-AACTCGCACACCTAGTGCTACATAATCAAACTCGCACACTT
44358788 AGTGCT
65 AGTGCT
44358794 GCACAATTTA
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
83 39 0.62
84 24 0.38
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.25
Consensus pattern (83 bp):
CGCACACTCAGTGCTACATAATCAACTCGCACACCTAGTGCTACATAATCAAACTCGCACACTTA
GTGCTACATAGTCAAACT
Found at i:44358812 original size:56 final size:55
Alignment explanation
Indices: 44358640--44358814 Score: 233
Period size: 56 Copynumber: 3.1 Consensus size: 55
44358630 CATATTAAGT
* * * * *
44358640 CCGCACACTCAGTGCTATATAATCAGCTCGCACACCTAGTGCTACATAATCAAAC
1 CCGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAAC
*
44358695 TCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAATCAAAC
1 CCGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAATCAAAC
* * * * *
44358751 TCGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTGCACAATTTAAAC
1 CCGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAA-TCAAAC
44358807 CCGCACAC
1 CCGCACAC
44358815 GTAGCGCCAA
Statistics
Matches: 107, Mismatches: 11, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
55 42 0.39
56 65 0.61
ACGTcount: A:0.32, C:0.31, G:0.13, T:0.24
Consensus pattern (55 bp):
CCGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAAC
Found at i:44373106 original size:26 final size:28
Alignment explanation
Indices: 44373077--44373133 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
44373067 CACTCCCTCA
44373077 CTTTTTCCTT-TCTTTTT-ATCGTTTTT
1 CTTTTTCCTTCTCTTTTTAATCGTTTTT
* *
44373103 C-TTTTCTTTCTCTTTTTCAATCTTTTTT
1 CTTTTTCCTTCTCTTTTT-AATCGTTTTT
44373131 CTT
1 CTT
44373134 GTACTTTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
25 7 0.28
26 8 0.32
28 9 0.36
29 1 0.04
ACGTcount: A:0.05, C:0.21, G:0.02, T:0.72
Consensus pattern (28 bp):
CTTTTTCCTTCTCTTTTTAATCGTTTTT
Found at i:44376361 original size:12 final size:10
Alignment explanation
Indices: 44376334--44376365 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
44376324 ATTTATTAAC
44376334 AAACACATTA
1 AAACACATTA
44376344 AAACACATTA
1 AAACACATTA
*
44376354 AAACACACTA
1 AAACACATTA
44376364 AA
1 AA
44376366 TAAGCGTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.62, C:0.22, G:0.00, T:0.16
Consensus pattern (10 bp):
AAACACATTA
Found at i:44386869 original size:20 final size:20
Alignment explanation
Indices: 44386844--44386886 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
44386834 ACATTTGATC
44386844 GATGAATGACAAAGGGAAAT
1 GATGAATGACAAAGGGAAAT
44386864 GATGAATGACAAAGGGAAAT
1 GATGAATGACAAAGGGAAAT
44386884 GAT
1 GAT
44386887 CCTTCCTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.49, C:0.05, G:0.30, T:0.16
Consensus pattern (20 bp):
GATGAATGACAAAGGGAAAT
Found at i:44391238 original size:27 final size:27
Alignment explanation
Indices: 44391208--44391385 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
44391198 ATATTGAGCC
* *
44391208 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
44391235 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
44391262 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
44391290 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
44391317 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
44391344 CGCACACTTAGTGCAACATAGTCAAAC-
1 CGCACACTTAGTGCTACATAATC-AACT
44391371 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
44391386 GTACAATTTA
Statistics
Matches: 128, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 103 0.80
28 25 0.20
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:44391347 original size:82 final size:81
Alignment explanation
Indices: 44391229--44391384 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
44391219 TGCTATATAA
* *
44391229 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAAC-CGCA
44391294 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
44391311 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAACCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAACCGCA
44391375 CACTTAGTGC
65 CACTTAGTGC
44391385 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.78
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAACCGCAC
ACTTAGTGCCGCATGG
Found at i:44393943 original size:20 final size:22
Alignment explanation
Indices: 44393905--44393944 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
44393895 ATGCAATATT
44393905 TAAAATGCTAACTAAAATGTCC
1 TAAAATGCTAACTAAAATGTCC
44393927 TAAAATGC-AAC-AAAATGT
1 TAAAATGCTAACTAAAATGT
44393945 ACTTGTTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 3 0.17
22 8 0.44
ACGTcount: A:0.50, C:0.15, G:0.10, T:0.25
Consensus pattern (22 bp):
TAAAATGCTAACTAAAATGTCC
Found at i:44397706 original size:40 final size:39
Alignment explanation
Indices: 44397642--44397853 Score: 228
Period size: 40 Copynumber: 5.3 Consensus size: 39
44397632 TCTTCGGAAT
* * *
44397642 TTAG-CCGGATATAACCACAAGCACAAATGCCCTCGGGTC
1 TTAGCCCGGATAT-ATCACTAGCACAAATGCCTTCGGGTC
*
44397681 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* *
44397721 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
* * * * *
44397761 TTATCCCGGGTATAGCAACTCGCACAAATGCCTTTGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* * * * *
44397801 TTGGCCCGGATAAAATCACTAGCACAATTGCCTTCGAGAC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
44397841 TTAGCCCGGATAT
1 TTAGCCCGGATAT
44397854 CATTCAAATG
Statistics
Matches: 142, Mismatches: 26, Indels: 10
0.80 0.15 0.06
Matches are distributed among these distances:
39 10 0.07
40 125 0.88
41 7 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
TTAGCCCGGATATATCACTAGCACAAATGCCTTCGGGTC
Found at i:44397769 original size:80 final size:80
Alignment explanation
Indices: 44397642--44397853 Score: 309
Period size: 80 Copynumber: 2.7 Consensus size: 80
44397632 TCTTCGGAAT
* * * * * *
44397642 TTAG-CCGGATATAACCACAAGCACAAATGCCCTCGGGTCTTAGCCCGGATATATCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
44397706 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
* *
44397721 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTATCCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
*
44397786 AAATGCCTTTGGGTC
66 AAATGCCTTCGGGTC
* * *
44397801 TTGGCCCGGATAAAATCACTAGCACAATTGCCTTCGAGACTTAGCCCGGATAT
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATAT
44397854 CATTCAAATG
Statistics
Matches: 118, Mismatches: 14, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
79 4 0.03
80 114 0.97
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
AAATGCCTTCGGGTC
Found at i:44405603 original size:15 final size:15
Alignment explanation
Indices: 44405583--44405612 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
44405573 TAGTCGATTG
44405583 AACGAATACTATTAA
1 AACGAATACTATTAA
44405598 AACGAATACTATTAA
1 AACGAATACTATTAA
44405613 TTGAATGTAT
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:0.53, C:0.13, G:0.07, T:0.27
Consensus pattern (15 bp):
AACGAATACTATTAA
Found at i:44405731 original size:40 final size:39
Alignment explanation
Indices: 44405667--44405878 Score: 246
Period size: 40 Copynumber: 5.3 Consensus size: 39
44405657 TCTTCGGAAT
* * *
44405667 TTAG-CCGGATATAACCACAAGCACAAATGCCCTCGGGTC
1 TTAGCCCGGATAT-ATCACTAGCACAAATGCCTTCGGGTC
*
44405706 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* *
44405746 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
* * * *
44405786 TTATCCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* * * *
44405826 TTGGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGAC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
44405866 TTAGCCCGGATAT
1 TTAGCCCGGATAT
44405879 CATTCAAATG
Statistics
Matches: 145, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
39 10 0.07
40 128 0.88
41 7 0.05
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (39 bp):
TTAGCCCGGATATATCACTAGCACAAATGCCTTCGGGTC
Found at i:44405794 original size:80 final size:80
Alignment explanation
Indices: 44405667--44405878 Score: 327
Period size: 80 Copynumber: 2.7 Consensus size: 80
44405657 TCTTCGGAAT
* * * * * *
44405667 TTAG-CCGGATATAACCACAAGCACAAATGCCCTCGGGTCTTAGCCCGGATATATCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
44405731 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
* *
44405746 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTATCCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
44405811 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
* *
44405826 TTGGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAGCCCGGATAT
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATAT
44405879 CATTCAAATG
Statistics
Matches: 120, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
79 4 0.03
80 116 0.97
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (80 bp):
TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
AAATGCCTTCGGGTC
Found at i:44414015 original size:30 final size:30
Alignment explanation
Indices: 44413979--44414050 Score: 144
Period size: 30 Copynumber: 2.4 Consensus size: 30
44413969 CAAAAATAAT
44413979 AAAATTAAATATAAAAATAAACAAAAACTG
1 AAAATTAAATATAAAAATAAACAAAAACTG
44414009 AAAATTAAATATAAAAATAAACAAAAACTG
1 AAAATTAAATATAAAAATAAACAAAAACTG
44414039 AAAATTAAATAT
1 AAAATTAAATAT
44414051 CTTCACAAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.69, C:0.06, G:0.03, T:0.22
Consensus pattern (30 bp):
AAAATTAAATATAAAAATAAACAAAAACTG
Found at i:44421676 original size:20 final size:22
Alignment explanation
Indices: 44421605--44421699 Score: 72
Period size: 20 Copynumber: 4.5 Consensus size: 22
44421595 AAAGATTTTG
**
44421605 GTAGTTTATCTGTA-ATTT-TA
1 GTAGTTTATCTACATATTTCTA
* * *
44421625 GTGGTTTATCCACATATTTCTT
1 GTAGTTTATCTACATATTTCTA
* *
44421647 GCACTTTATCTACA-ATTT-TA
1 GTAGTTTATCTACATATTTCTA
* * *
44421667 GTGGTTTATCAACATATTTCTG
1 GTAGTTTATCTACATATTTCTA
44421689 GTAGTTTATCT
1 GTAGTTTATCT
44421700 GCAAATACTG
Statistics
Matches: 54, Mismatches: 17, Indels: 6
0.70 0.22 0.08
Matches are distributed among these distances:
20 21 0.39
21 12 0.22
22 21 0.39
ACGTcount: A:0.23, C:0.14, G:0.14, T:0.49
Consensus pattern (22 bp):
GTAGTTTATCTACATATTTCTA
Found at i:44421696 original size:22 final size:22
Alignment explanation
Indices: 44421619--44421698 Score: 67
Period size: 22 Copynumber: 3.8 Consensus size: 22
44421609 TTTATCTGTA
* *
44421619 ATTT-TAGTGGTTTATCCACAT
1 ATTTCTAGTAGTTTATCAACAT
* * * *
44421640 ATTTCTTGCACTTTATCTACA-
1 ATTTCTAGTAGTTTATCAACAT
*
44421661 ATTT-TAGTGGTTTATCAACAT
1 ATTTCTAGTAGTTTATCAACAT
*
44421682 ATTTCTGGTAGTTTATC
1 ATTTCTAGTAGTTTATC
44421699 TGCAAATACT
Statistics
Matches: 44, Mismatches: 12, Indels: 5
0.72 0.20 0.08
Matches are distributed among these distances:
20 11 0.25
21 12 0.27
22 21 0.48
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.49
Consensus pattern (22 bp):
ATTTCTAGTAGTTTATCAACAT
Found at i:44421697 original size:42 final size:42
Alignment explanation
Indices: 44421599--44421699 Score: 141
Period size: 42 Copynumber: 2.4 Consensus size: 42
44421589 AAGGAGAAAG
** *
44421599 ATTT-TGGTAGTTTATCTGTAATTTTAGTGGTTTATCCACAT
1 ATTTCTGGTAGTTTATCTACAATTTTAGTGGTTTATCAACAT
* * *
44421640 ATTTCTTGCACTTTATCTACAATTTTAGTGGTTTATCAACAT
1 ATTTCTGGTAGTTTATCTACAATTTTAGTGGTTTATCAACAT
44421682 ATTTCTGGTAGTTTATCT
1 ATTTCTGGTAGTTTATCT
44421700 GCAAATACTG
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 4 0.08
42 46 0.92
ACGTcount: A:0.23, C:0.13, G:0.14, T:0.50
Consensus pattern (42 bp):
ATTTCTGGTAGTTTATCTACAATTTTAGTGGTTTATCAACAT
Found at i:44435022 original size:46 final size:46
Alignment explanation
Indices: 44434970--44435064 Score: 181
Period size: 46 Copynumber: 2.1 Consensus size: 46
44434960 ACAAAGATAG
44434970 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
*
44435016 AAACCAAAATATTATCTCCTAAACTTTAGGATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
44435062 AAA
1 AAA
44435065 AGAAAAGAGA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.41, C:0.22, G:0.03, T:0.34
Consensus pattern (46 bp):
AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
Found at i:44442867 original size:17 final size:17
Alignment explanation
Indices: 44442847--44442880 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
44442837 GATGACAAAT
44442847 TGTTGTCATTGACATAG
1 TGTTGTCATTGACATAG
44442864 TGTTGTCATTGACATAG
1 TGTTGTCATTGACATAG
44442881 AGATGTCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.41
Consensus pattern (17 bp):
TGTTGTCATTGACATAG
Found at i:44442887 original size:17 final size:17
Alignment explanation
Indices: 44442850--44442888 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
44442840 GACAAATTGT
* *
44442850 TGTCATTGACATAGTGT
1 TGTCATTGACATAGAGA
44442867 TGTCATTGACATAGAGA
1 TGTCATTGACATAGAGA
44442884 TGTCA
1 TGTCA
44442889 AAATCAATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (17 bp):
TGTCATTGACATAGAGA
Found at i:44451132 original size:20 final size:20
Alignment explanation
Indices: 44451109--44451149 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
44451099 TCCAATAAGA
*
44451109 TCATTTGAGCTCAATTTAGC
1 TCATTCGAGCTCAATTTAGC
44451129 TCATTCGAGCTCAATTTAGC
1 TCATTCGAGCTCAATTTAGC
44451149 T
1 T
44451150 TTCTATCAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.39
Consensus pattern (20 bp):
TCATTCGAGCTCAATTTAGC
Found at i:44460306 original size:30 final size:30
Alignment explanation
Indices: 44460250--44460306 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
44460240 CTAAGCAAAT
**
44460250 TTAGCTGATGATAGCGAATCGGTTAAGTGA
1 TTAGCTGATGATAGCGAATCAATTAAGTGA
*
44460280 TTAGTTGATGATAGCGAATCAATTAAG
1 TTAGCTGATGATAGCGAATCAATTAAG
44460307 CATATATGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.33, C:0.09, G:0.26, T:0.32
Consensus pattern (30 bp):
TTAGCTGATGATAGCGAATCAATTAAGTGA
Found at i:44462637 original size:17 final size:17
Alignment explanation
Indices: 44462615--44462666 Score: 86
Period size: 17 Copynumber: 3.1 Consensus size: 17
44462605 AGCTGATTGA
*
44462615 TGACAAATTGTTGTCAT
1 TGACAAAGTGTTGTCAT
44462632 TGACAAAGTGTTGTCAT
1 TGACAAAGTGTTGTCAT
*
44462649 TGACATAGTGTTGTCAT
1 TGACAAAGTGTTGTCAT
44462666 T
1 T
44462667 AACATAGGGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 33 1.00
ACGTcount: A:0.27, C:0.12, G:0.21, T:0.40
Consensus pattern (17 bp):
TGACAAAGTGTTGTCAT
Found at i:44462671 original size:17 final size:17
Alignment explanation
Indices: 44462623--44462673 Score: 84
Period size: 17 Copynumber: 3.0 Consensus size: 17
44462613 GATGACAAAT
*
44462623 TGTTGTCATTGACAAAG
1 TGTTGTCATTGACATAG
44462640 TGTTGTCATTGACATAG
1 TGTTGTCATTGACATAG
*
44462657 TGTTGTCATTAACATAG
1 TGTTGTCATTGACATAG
44462674 GGATGTCAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.39
Consensus pattern (17 bp):
TGTTGTCATTGACATAG
Found at i:44462680 original size:17 final size:17
Alignment explanation
Indices: 44462643--44462681 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
44462633 GACAAAGTGT
* * *
44462643 TGTCATTGACATAGTGT
1 TGTCATTAACATAGGGA
44462660 TGTCATTAACATAGGGA
1 TGTCATTAACATAGGGA
44462677 TGTCA
1 TGTCA
44462682 AAATCAATAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (17 bp):
TGTCATTAACATAGGGA
Found at i:44466892 original size:25 final size:26
Alignment explanation
Indices: 44466862--44466910 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
44466852 AGCCCAATGA
* *
44466862 TCCCATT-GAATTCCTTTGGCCAAAT
1 TCCCATTAAAATTCCTTTGCCCAAAT
44466887 TCCCATTAAAATTCCTTTGCCCAA
1 TCCCATTAAAATTCCTTTGCCCAA
44466911 TTTTTTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.27, C:0.31, G:0.08, T:0.35
Consensus pattern (26 bp):
TCCCATTAAAATTCCTTTGCCCAAAT
Found at i:44466912 original size:25 final size:25
Alignment explanation
Indices: 44466853--44466912 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 25
44466843 TAAGAATTCA
*
44466853 GCCCAATGATCCCATTGAATTCCTTTG
1 GCCCAAT--TCCCATTAAATTCCTTTG
*
44466880 GCCAAATTCCCATTAAAATTCCTTT-
1 GCCCAATTCCCATT-AAATTCCTTTG
44466905 GCCCAATT
1 GCCCAATT
44466913 TTTTATTTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 14 0.48
26 9 0.31
27 6 0.21
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.33
Consensus pattern (25 bp):
GCCCAATTCCCATTAAATTCCTTTG
Found at i:44475517 original size:27 final size:27
Alignment explanation
Indices: 44475483--44475548 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
44475473 CGTAAAGGTT
* *
44475483 GTAAAATTATTGGAATACCATCGAAGG
1 GTAAAATTATCGAAATACCATCGAAGG
*
44475510 GTAAAATTATCGAAATACCCTCGAAGG
1 GTAAAATTATCGAAATACCATCGAAGG
*
44475537 GTAAAATGATCG
1 GTAAAATTATCG
44475549 TGATGCCCCT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.41, C:0.14, G:0.21, T:0.24
Consensus pattern (27 bp):
GTAAAATTATCGAAATACCATCGAAGG
Found at i:44475564 original size:27 final size:27
Alignment explanation
Indices: 44475534--44475758 Score: 251
Period size: 27 Copynumber: 8.5 Consensus size: 27
44475524 ATACCCTCGA
* * *
44475534 AGGGTAAAATGATCGTGATGCCCCTAT
1 AGGGTAAAATGACCGTAATGCCCCTGT
* *
44475561 AGGGTAAAATGACCGTGATGCCCTTGT
1 AGGGTAAAATGACCGTAATGCCCCTGT
* * * *
44475588 AAGGTAAAATGATCGTAATTCCCCTAT
1 AGGGTAAAATGACCGTAATGCCCCTGT
*
44475615 AGGGTAAAATGACCGTAATG-CCCTTT
1 AGGGTAAAATGACCGTAATGCCCCTGT
*
44475641 ATGGTAAAAT-ACCGTAATGCCCCTGT
1 AGGGTAAAATGACCGTAATGCCCCTGT
* * *
44475667 AGGATACAATGACCGTAATG--CCTCT
1 AGGGTAAAATGACCGTAATGCCCCTGT
* *
44475692 AGGGTAAAATAACCGTAGTGCCCCTGT
1 AGGGTAAAATGACCGTAATGCCCCTGT
* * *
44475719 AGGGTAAAATGAACGTAATTCCCTTGT
1 AGGGTAAAATGACCGTAATGCCCCTGT
44475746 AGGGTAAAATGAC
1 AGGGTAAAATGAC
44475759 TATTTTGTCT
Statistics
Matches: 164, Mismatches: 30, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
25 29 0.18
26 26 0.16
27 109 0.66
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (27 bp):
AGGGTAAAATGACCGTAATGCCCCTGT
Found at i:44475679 original size:52 final size:54
Alignment explanation
Indices: 44475507--44475758 Score: 278
Period size: 54 Copynumber: 4.7 Consensus size: 54
44475497 ATACCATCGA
* * * * * * * *
44475507 AGGGTAAAATTATCGAAATACCCTCGAAGGGTAAAATGATCGTGATGCCCCTAT
1 AGGGTAAAATGACCGTAATGCCCTTGTAGGGTAAAATGACCGTAATGCCCCTAT
* * * *
44475561 AGGGTAAAATGACCGTGATGCCCTTGTAAGGTAAAATGATCGTAATTCCCCTAT
1 AGGGTAAAATGACCGTAATGCCCTTGTAGGGTAAAATGACCGTAATGCCCCTAT
* *
44475615 AGGGTAAAATGACCGTAATGCCCTT-TATGGTAAAAT-ACCGTAATGCCCCTGT
1 AGGGTAAAATGACCGTAATGCCCTTGTAGGGTAAAATGACCGTAATGCCCCTAT
* * * * * *
44475667 AGGATACAATGACCGTAATG-CC-TCTAGGGTAAAATAACCGTAGTGCCCCTGT
1 AGGGTAAAATGACCGTAATGCCCTTGTAGGGTAAAATGACCGTAATGCCCCTAT
* *
44475719 AGGGTAAAATGAACGTAATTCCCTTGTAGGGTAAAATGAC
1 AGGGTAAAATGACCGTAATGCCCTTGTAGGGTAAAATGAC
44475759 TATTTTGTCT
Statistics
Matches: 169, Mismatches: 25, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
50 1 0.01
51 12 0.07
52 62 0.37
53 12 0.07
54 82 0.49
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (54 bp):
AGGGTAAAATGACCGTAATGCCCTTGTAGGGTAAAATGACCGTAATGCCCCTAT
Found at i:44475840 original size:24 final size:24
Alignment explanation
Indices: 44475776--44475933 Score: 190
Period size: 24 Copynumber: 6.6 Consensus size: 24
44475766 TCTCTCGTGG
* *
44475776 TTAAATGATTGATTTGCCTGTGAT
1 TTAAATGACTGATTTGTCTGTGAT
* * * * * *
44475800 GTAAATAAATGACTTGTCCGAGAT
1 TTAAATGACTGATTTGTCTGTGAT
*
44475824 GTAAATGACTGATTTGTCTGTGAT
1 TTAAATGACTGATTTGTCTGTGAT
* *
44475848 TTAAATGACTAATTTGTTTGTGAT
1 TTAAATGACTGATTTGTCTGTGAT
*
44475872 TTAAATGACTGATTTATCTGTGAT
1 TTAAATGACTGATTTGTCTGTGAT
*
44475896 TTAAATGACTGATTTATCTGTGAT
1 TTAAATGACTGATTTGTCTGTGAT
*
44475920 TTATATGACTGATT
1 TTAAATGACTGATT
44475934 CTGTGCATGG
Statistics
Matches: 115, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 115 1.00
ACGTcount: A:0.29, C:0.08, G:0.19, T:0.44
Consensus pattern (24 bp):
TTAAATGACTGATTTGTCTGTGAT
Found at i:44475886 original size:13 final size:13
Alignment explanation
Indices: 44475868--44475933 Score: 68
Period size: 13 Copynumber: 5.4 Consensus size: 13
44475858 AATTTGTTTG
*
44475868 TGATTTAAATGAC
1 TGATTTATATGAC
*
44475881 TGATTTATCTG--
1 TGATTTATATGAC
*
44475892 TGATTTAAATGAC
1 TGATTTATATGAC
*
44475905 TGATTTATCTG--
1 TGATTTATATGAC
44475916 TGATTTATATGAC
1 TGATTTATATGAC
44475929 TGATT
1 TGATT
44475934 CTGTGCATGG
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
11 19 0.45
13 23 0.55
ACGTcount: A:0.29, C:0.08, G:0.17, T:0.47
Consensus pattern (13 bp):
TGATTTATATGAC
Found at i:44475897 original size:11 final size:11
Alignment explanation
Indices: 44475881--44475923 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
44475871 TTTAAATGAC
44475881 TGATTTATCTG
1 TGATTTATCTG
**
44475892 TGATTTAAATG
1 TGATTTATCTG
44475903 ACTGATTTATCTG
1 --TGATTTATCTG
44475916 TGATTTAT
1 TGATTTAT
44475924 ATGACTGATT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
11 17 0.65
13 9 0.35
ACGTcount: A:0.26, C:0.07, G:0.16, T:0.51
Consensus pattern (11 bp):
TGATTTATCTG
Found at i:44476045 original size:27 final size:27
Alignment explanation
Indices: 44476002--44476061 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 27
44475992 GGAAGTACTG
44476002 TACTGGTGGCTCTGCCACA-ATCACTAT
1 TACTGGTGGCTCTGCCACATAT-ACTAT
*
44476029 TACTGGTGGCT-TGGCCACATATACTGT
1 TACTGGTGGCTCT-GCCACATATACTAT
44476056 TACTGG
1 TACTGG
44476062 CAGCTTTGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 1 0.03
27 27 0.90
28 2 0.07
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (27 bp):
TACTGGTGGCTCTGCCACATATACTAT
Found at i:44476067 original size:27 final size:27
Alignment explanation
Indices: 44476015--44476067 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
44476005 TGGTGGCTCT
**
44476015 GCCACAATCACTATTACTGGTGGCTTG
1 GCCACAATCACTATTACTGGCAGCTTG
*
44476042 GCCACATAT-ACTGTTACTGGCAGCTT
1 GCCACA-ATCACTATTACTGGCAGCTT
44476068 TGCTGCGATG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 20 0.91
28 2 0.09
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (27 bp):
GCCACAATCACTATTACTGGCAGCTTG
Found at i:44476127 original size:32 final size:32
Alignment explanation
Indices: 44476082--44476202 Score: 172
Period size: 32 Copynumber: 3.8 Consensus size: 32
44476072 GCGATGCTAT
* *
44476082 TGATGGCTTTGTGCCGATCATATTACCATTAT
1 TGATGGCTTTGTGCCGATCATATTACTATTAC
*
44476114 TGATGG-TTGTGTGCCGATCATATTACTACTAC
1 TGATGGCTT-TGTGCCGATCATATTACTATTAC
*
44476146 TGATGGCTTTGTGCCGATCATACTACTATTAC
1 TGATGGCTTTGTGCCGATCATATTACTATTAC
* *
44476178 TGATGGCTTTATGCCAATCATATTA
1 TGATGGCTTTGTGCCGATCATATTA
44476203 TTGTACTTAT
Statistics
Matches: 79, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
31 2 0.03
32 75 0.95
33 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (32 bp):
TGATGGCTTTGTGCCGATCATATTACTATTAC
Found at i:44482356 original size:9 final size:9
Alignment explanation
Indices: 44482337--44482394 Score: 80
Period size: 9 Copynumber: 6.4 Consensus size: 9
44482327 AAATTAATCA
*
44482337 AATTAATCG
1 AATTAACCG
*
44482346 AATTACCCG
1 AATTAACCG
44482355 AATTAACCG
1 AATTAACCG
*
44482364 AATTAACTG
1 AATTAACCG
*
44482373 AATTACCCG
1 AATTAACCG
44482382 AATTAACCG
1 AATTAACCG
44482391 AATT
1 AATT
44482395 GAATCACTAC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 42 1.00
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:44482360 original size:27 final size:27
Alignment explanation
Indices: 44482328--44482394 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
44482318 TTTGATTAAA
*
44482328 AATTAATCAAATTAA-TCGAATTACCCG
1 AATTAACCAAATTAACT-GAATTACCCG
*
44482355 AATTAACCGAATTAACTGAATTACCCG
1 AATTAACCAAATTAACTGAATTACCCG
*
44482382 AATTAACCGAATT
1 AATTAACCAAATT
44482395 GAATCACTAC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 36 0.97
28 1 0.03
ACGTcount: A:0.43, C:0.19, G:0.09, T:0.28
Consensus pattern (27 bp):
AATTAACCAAATTAACTGAATTACCCG
Found at i:44495485 original size:50 final size:49
Alignment explanation
Indices: 44495426--44495563 Score: 136
Period size: 47 Copynumber: 2.8 Consensus size: 49
44495416 CGAAACACCT
* * * * *
44495426 TTTGTGGACAAGCCACCATTGATTTTTAGATAAATTGCCACTAATAACAC
1 TTTGGGGACAAGCCACCA-TAATTTATAGATAAACTGCCACTAACAACAC
* * * * * *
44495476 TTTGGGGACAAGCCGCCA-CATATGTAGATATACTGCCA-TTACAACAC
1 TTTGGGGACAAGCCACCATAATTTATAGATAAACTGCCACTAACAACAC
*
44495523 TTTGGGGACAAGCCACCACTAATTTACAGATAAACTGCCAC
1 TTTGGGGACAAGCCACCA-TAATTTATAGATAAACTGCCAC
44495564 ATACTTCCAC
Statistics
Matches: 70, Mismatches: 15, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
47 24 0.34
48 15 0.21
49 15 0.21
50 16 0.23
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (49 bp):
TTTGGGGACAAGCCACCATAATTTATAGATAAACTGCCACTAACAACAC
Found at i:44498073 original size:20 final size:18
Alignment explanation
Indices: 44498018--44498066 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
44498008 TTCAAAAATT
*
44498018 TATAAAAAAACTAAAGAA
1 TATAAAAAAACTAAAAAA
*
44498036 TATATAATAAACTTAAAAAA
1 TATA-AAAAAAC-TAAAAAA
44498056 TATAAAAAAAC
1 TATAAAAAAAC
44498067 CTCAAAACCC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 4 0.15
19 12 0.46
20 10 0.38
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.22
Consensus pattern (18 bp):
TATAAAAAAACTAAAAAA
Found at i:44500394 original size:26 final size:26
Alignment explanation
Indices: 44500365--44500417 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
44500355 TGTTGTTATA
44500365 GGCCTCAGTAAGATGTTTGATTAAGT
1 GGCCTCAGTAAGATGTTTGATTAAGT
44500391 GGCCTCAGTAAGATGTTTGATTAAGT
1 GGCCTCAGTAAGATGTTTGATTAAGT
44500417 G
1 G
44500418 AAACCATGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.26, C:0.11, G:0.28, T:0.34
Consensus pattern (26 bp):
GGCCTCAGTAAGATGTTTGATTAAGT
Found at i:44504925 original size:10 final size:9
Alignment explanation
Indices: 44504881--44504931 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
44504871 TAAAAAGACC
44504881 AAAAAATAT
1 AAAAAATAT
* *
44504890 AAAAATTTT
1 AAAAAATAT
*
44504899 GAAAAAT-T
1 AAAAAATAT
44504907 CAAAAAATAT
1 -AAAAAATAT
44504917 AAAAGAATAT
1 AAAA-AATAT
44504927 AAAAA
1 AAAAA
44504932 TTTATAAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
8 1 0.03
9 23 0.68
10 10 0.29
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.24
Consensus pattern (9 bp):
AAAAAATAT
Found at i:44504930 original size:27 final size:27
Alignment explanation
Indices: 44504880--44504933 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
44504870 TTAAAAAGAC
* *
44504880 CAAAAAATATAAAAATTTTGAAAAATT
1 CAAAAAATATAAAAAATATGAAAAATT
44504907 CAAAAAATATAAAAGAATAT-AAAAATT
1 CAAAAAATATAAAA-AATATGAAAAATT
44504934 TATAAATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 21 0.88
28 3 0.12
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.26
Consensus pattern (27 bp):
CAAAAAATATAAAAAATATGAAAAATT
Found at i:44505788 original size:16 final size:15
Alignment explanation
Indices: 44505767--44505818 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
44505757 TTTTTTGAGA
*
44505767 ATTTTAAAATTTTTG
1 ATTTTAAAATTTATG
*
44505782 TATTTTACAATTTATG
1 -ATTTTAAAATTTATG
* *
44505798 AATTTAAAATGTTAGG
1 ATTTTAAAAT-TTATG
44505814 ATTTT
1 ATTTT
44505819 TAATTGCTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
15 8 0.28
16 21 0.72
ACGTcount: A:0.35, C:0.02, G:0.10, T:0.54
Consensus pattern (15 bp):
ATTTTAAAATTTATG
Found at i:44507310 original size:32 final size:31
Alignment explanation
Indices: 44507265--44507360 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
44507255 CTTAGATAAT
44507265 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
44507296 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
44507328 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
44507359 TT
1 TT
44507361 GTAATTTGCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:44507941 original size:43 final size:44
Alignment explanation
Indices: 44507873--44507994 Score: 180
Period size: 47 Copynumber: 2.8 Consensus size: 44
44507863 AATTAGTTAA
44507873 TAAAAAAAAAGC-AACAAGCGC-AAAAAAAAGTTGAGAAAAATC-
1 TAAAAAAAAAGCAAAC-AGCGCAAAAAAAAAGTTGAGAAAAATCT
44507915 T-AAAAAAAAGCAAACAGCGCAAAAAAAAGAGTTGAGAAAAATCTT
1 TAAAAAAAAAGCAAACAGCGCAAAAAAAA-AGTTGAGAAAAATC-T
44507960 TAAAAAAAAAAGCAAACAGCGCAAAAAAAAAGTTG
1 T-AAAAAAAAAGCAAACAGCGCAAAAAAAAAGTTG
44507995 CCTACCTCTC
Statistics
Matches: 73, Mismatches: 0, Indels: 10
0.88 0.00 0.12
Matches are distributed among these distances:
41 15 0.21
42 11 0.15
43 14 0.19
45 1 0.01
46 5 0.07
47 27 0.37
ACGTcount: A:0.63, C:0.11, G:0.15, T:0.11
Consensus pattern (44 bp):
TAAAAAAAAAGCAAACAGCGCAAAAAAAAAGTTGAGAAAAATCT
Found at i:44513567 original size:32 final size:31
Alignment explanation
Indices: 44513522--44513617 Score: 156
Period size: 31 Copynumber: 3.1 Consensus size: 31
44513512 CTTAGATAAT
*
44513522 TTTAAAGAGTTTTATTAGAATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
*
44513553 TTTAAAGGGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
44513585 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
44513616 TT
1 TT
44513618 GTAATTTGCC
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
31 32 0.53
32 28 0.47
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:44513967 original size:4 final size:4
Alignment explanation
Indices: 44513921--44513951 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
44513911 ATCTATCCTT
44513921 TTTA TTTA TTTA TTTA TTTA TTTA -TTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
44513952 ACTAATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:44521660 original size:91 final size:91
Alignment explanation
Indices: 44521505--44521688 Score: 368
Period size: 91 Copynumber: 2.0 Consensus size: 91
44521495 ACAACATGAA
44521505 AAGATTGTTAAAACCCTTTTAAAAGACAACTCAAGAACAATTCTTGAAACAAAAACTCAAAGAGA
1 AAGATTGTTAAAACCCTTTTAAAAGACAACTCAAGAACAATTCTTGAAACAAAAACTCAAAGAGA
44521570 ATTTATTAACTCAAAAGAGAATTGTT
66 ATTTATTAACTCAAAAGAGAATTGTT
44521596 AAGATTGTTAAAACCCTTTTAAAAGACAACTCAAGAACAATTCTTGAAACAAAAACTCAAAGAGA
1 AAGATTGTTAAAACCCTTTTAAAAGACAACTCAAGAACAATTCTTGAAACAAAAACTCAAAGAGA
44521661 ATTTATTAACTCAAAAGAGAATTGTT
66 ATTTATTAACTCAAAAGAGAATTGTT
44521687 AA
1 AA
44521689 ATAATAATGA
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
91 93 1.00
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.26
Consensus pattern (91 bp):
AAGATTGTTAAAACCCTTTTAAAAGACAACTCAAGAACAATTCTTGAAACAAAAACTCAAAGAGA
ATTTATTAACTCAAAAGAGAATTGTT
Found at i:44523484 original size:28 final size:29
Alignment explanation
Indices: 44523451--44523530 Score: 99
Period size: 28 Copynumber: 2.8 Consensus size: 29
44523441 TCAAAGATTG
* *
44523451 CCACAAAGGCTTCCATTTAATAGAGG-CA
1 CCACAAAGGCTTCCATTTAACAAAGGTCA
*
44523479 CCACAAAGGCTTCCATTTAACAAAGGTCG
1 CCACAAAGGCTTCCATTTAACAAAGGTCA
* *
44523508 CCATAAAGACTTCCATTTTAACA
1 CCACAAAGGCTTCCA-TTTAACA
44523531 GAGATCGCTG
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
28 24 0.53
29 14 0.31
30 7 0.16
ACGTcount: A:0.36, C:0.26, G:0.14, T:0.24
Consensus pattern (29 bp):
CCACAAAGGCTTCCATTTAACAAAGGTCA
Found at i:44523626 original size:29 final size:30
Alignment explanation
Indices: 44523593--44523663 Score: 78
Period size: 29 Copynumber: 2.4 Consensus size: 30
44523583 TACGAAAATT
*
44523593 GCCACAAAGGCATTTA-TTTAA-TAGAGATA
1 GCCACAAAGGCATTCACTTTAACTA-AGATA
*
44523622 GCCACTAAGGC--TCACTTTTAACTAAGATA
1 GCCACAAAGGCATTCAC-TTTAACTAAGATA
44523651 GCCACAAAGGCAT
1 GCCACAAAGGCAT
44523664 CCTTTTACGA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
27 2 0.06
29 30 0.88
30 2 0.06
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (30 bp):
GCCACAAAGGCATTCACTTTAACTAAGATA
Found at i:44523668 original size:29 final size:29
Alignment explanation
Indices: 44523397--44523670 Score: 96
Period size: 30 Copynumber: 9.5 Consensus size: 29
44523387 AGTGTTACCA
* * * *
44523397 AAAGGCATCCTTCT-ATAGAGAGAACCAT
1 AAAGGCATCCTTTTAATAGAGATAGCCAC
* * * *
44523425 AAAGGCATTCTTTTTATCAAAGATTGCCAC
1 AAAGGCATCCTTTTAAT-AGAGATAGCCAC
* * **
44523455 AAAGGCTTCCATTTAATAGAGGCA-CCAC
1 AAAGGCATCCTTTTAATAGAGATAGCCAC
* * * * * * *
44523483 AAAGGCTTCCATTTAACAAAGGTCGCCAT
1 AAAGGCATCCTTTTAATAGAGATAGCCAC
* * * * **
44523512 AAAGACTTCCATTTTAACAGAGATCGCTGC
1 AAAGGCATCC-TTTTAATAGAGATAGCCAC
** * * *
44523542 AAAGGCTATTATTTTAATAGAGTTTGCCAT
1 AAAGGC-ATCCTTTTAATAGAGATAGCCAC
* * ** * *
44523572 AACGGC-T-TTTTTACGA-AAATTGCCAC
1 AAAGGCATCCTTTTAATAGAGATAGCCAC
*
44523598 AAAGGCAT-TTATTTAATAGAGATAGCCAC
1 AAAGGCATCCT-TTTAATAGAGATAGCCAC
*
44523627 TAAGGC-TCACTTTTAACTA-AGATAGCCAC
1 AAAGGCATC-CTTTTAA-TAGAGATAGCCAC
44523656 AAAGGCATCCTTTTA
1 AAAGGCATCCTTTTA
44523671 CGAAAATTGT
Statistics
Matches: 182, Mismatches: 52, Indels: 23
0.71 0.20 0.09
Matches are distributed among these distances:
26 12 0.07
27 9 0.05
28 43 0.24
29 56 0.31
30 61 0.34
31 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.28
Consensus pattern (29 bp):
AAAGGCATCCTTTTAATAGAGATAGCCAC
Found at i:44531718 original size:23 final size:23
Alignment explanation
Indices: 44531682--44531728 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
44531672 CAACAAAAGC
44531682 ATATTTTTATAAAAAAAGTAAAA
1 ATATTTTTATAAAAAAAGTAAAA
*
44531705 ATATTTCTTA-AAAAAGAGTAAAA
1 ATATTT-TTATAAAAAAAGTAAAA
44531728 A
1 A
44531729 CATATAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 19 0.86
24 3 0.14
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (23 bp):
ATATTTTTATAAAAAAAGTAAAA
Found at i:44539211 original size:15 final size:15
Alignment explanation
Indices: 44539158--44539214 Score: 51
Period size: 15 Copynumber: 3.6 Consensus size: 15
44539148 TTAATAAGAT
*
44539158 TTAATATTAAATTTAA
1 TTAATATTATA-TTAA
* *
44539174 TCTAATATTTATCTTGA
1 T-TAATA-TTATATTAA
*
44539191 TAAATATTATATTAA
1 TTAATATTATATTAA
44539206 TTAATATTA
1 TTAATATTA
44539215 AAGTTGTAAC
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
15 15 0.47
16 5 0.16
17 9 0.28
18 3 0.09
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.51
Consensus pattern (15 bp):
TTAATATTATATTAA
Found at i:44542693 original size:25 final size:26
Alignment explanation
Indices: 44542643--44542694 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
44542633 AGTTTTAGAG
44542643 AGAAAATTTTCTAAAGAGATTATTCT
1 AGAAAATTTTCTAAAGAGATTATTCT
* * *
44542669 AGAAAA-TTTCTAGAGATATTTTTCT
1 AGAAAATTTTCTAAAGAGATTATTCT
44542694 A
1 A
44542695 ATTTACAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 17 0.74
26 6 0.26
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (26 bp):
AGAAAATTTTCTAAAGAGATTATTCT
Found at i:44545023 original size:50 final size:50
Alignment explanation
Indices: 44544964--44545107 Score: 155
Period size: 50 Copynumber: 2.9 Consensus size: 50
44544954 CATTGAGATT
* * *
44544964 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGACATGGGCACCGAG
*** * *
44545014 ATGAGAGGTCCCCCATAAGACCATGTCTTGGACATGACATGGGCACCGAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGACATGGGCACCGAG
* * * * * *
44545064 ATGAGA-CTCCTATGTAAGACCATATCTAGGATATGACATTGGCA
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGACATGGGCA
44545108 GTATAGAAAA
Statistics
Matches: 77, Mismatches: 17, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
49 29 0.38
50 48 0.62
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.22
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGACATGGGCACCGAG
Found at i:44549726 original size:12 final size:12
Alignment explanation
Indices: 44549709--44549733 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
44549699 AGTTTACGAA
44549709 AACTCAGTGTGT
1 AACTCAGTGTGT
44549721 AACTCAGTGTGT
1 AACTCAGTGTGT
44549733 A
1 A
44549734 CTGGCCCTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (12 bp):
AACTCAGTGTGT
Found at i:44550129 original size:27 final size:27
Alignment explanation
Indices: 44550095--44550160 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
44550085 TAGAGCATAT
44550095 AGTCATTTTATAACATAGGGGCATAAC
1 AGTCATTTTATAACATAGGGGCATAAC
** **
44550122 AGTCATTTTACCATGTAGGGGCATAAC
1 AGTCATTTTATAACATAGGGGCATAAC
44550149 AGTCATTTTATA
1 AGTCATTTTATA
44550161 TTAGTTTGGG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.33
Consensus pattern (27 bp):
AGTCATTTTATAACATAGGGGCATAAC
Found at i:44551318 original size:5 final size:5
Alignment explanation
Indices: 44551308--44551336 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
44551298 AAGAAAAGCA
44551308 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
44551337 AGTATTCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:44553972 original size:18 final size:18
Alignment explanation
Indices: 44553951--44554010 Score: 120
Period size: 18 Copynumber: 3.3 Consensus size: 18
44553941 AGATAAGTGG
44553951 CATTGTAAAGAATGTTTA
1 CATTGTAAAGAATGTTTA
44553969 CATTGTAAAGAATGTTTA
1 CATTGTAAAGAATGTTTA
44553987 CATTGTAAAGAATGTTTA
1 CATTGTAAAGAATGTTTA
44554005 CATTGT
1 CATTGT
44554011 GAGAAAGACA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 42 1.00
ACGTcount: A:0.37, C:0.07, G:0.17, T:0.40
Consensus pattern (18 bp):
CATTGTAAAGAATGTTTA
Found at i:44553978 original size:36 final size:36
Alignment explanation
Indices: 44553938--44554010 Score: 103
Period size: 36 Copynumber: 2.0 Consensus size: 36
44553928 AAGTTCAAAC
*
44553938 TAAAGATAAG-TGGCATTGTAAAGAATGTTTACATTG
1 TAAAGA-AAGTTGACATTGTAAAGAATGTTTACATTG
* *
44553974 TAAAGAATGTTTACATTGTAAAGAATGTTTACATTG
1 TAAAGAAAGTTGACATTGTAAAGAATGTTTACATTG
44554010 T
1 T
44554011 GAGAAAGACA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 2 0.06
36 31 0.94
ACGTcount: A:0.38, C:0.05, G:0.19, T:0.37
Consensus pattern (36 bp):
TAAAGAAAGTTGACATTGTAAAGAATGTTTACATTG
Found at i:44555370 original size:62 final size:59
Alignment explanation
Indices: 44555298--44555414 Score: 153
Period size: 62 Copynumber: 1.9 Consensus size: 59
44555288 AGTGATTATC
* * * *
44555298 TTAATATTAAATTTAATTTAATGTTTATCTATAAGATAAACATTCTATTATTTTAATAAGAT
1 TTAATATTAAATTTAATCTAATATTTATCT-T--GATAAACATTATATTAATTTAATAAGAT
* *
44555360 TTAATTTTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATA
1 TTAATATTAAATTTAATCTAATATTTATCTTGATAAACATTATATTAATTTAATA
44555415 TTAAAGTGAT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
59 21 0.43
61 1 0.02
62 27 0.55
ACGTcount: A:0.42, C:0.04, G:0.03, T:0.50
Consensus pattern (59 bp):
TTAATATTAAATTTAATCTAATATTTATCTTGATAAACATTATATTAATTTAATAAGAT
Found at i:44568458 original size:25 final size:25
Alignment explanation
Indices: 44568424--44568474 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
44568414 TAAGTGCATG
44568424 TTAGAGCAAGAATTTGATGTTGCTA
1 TTAGAGCAAGAATTTGATGTTGCTA
44568449 TTAGAGCAAGAATTTGATGTTGCTA
1 TTAGAGCAAGAATTTGATGTTGCTA
44568474 T
1 T
44568475 AGAAGGGGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.08, G:0.24, T:0.37
Consensus pattern (25 bp):
TTAGAGCAAGAATTTGATGTTGCTA
Found at i:44569037 original size:48 final size:48
Alignment explanation
Indices: 44568961--44569174 Score: 335
Period size: 48 Copynumber: 4.5 Consensus size: 48
44568951 GGCCGCATAT
* *
44568961 GTGGCACGGACTGTGTGTAGGCCGCCAATATTCTGTTAAGATACAAGG
1 GTGGCACGGACTGTGTGCAGGCCACCAATATTCTGTTAAGATACAAGG
**
44569009 GTGGCATAGACTGTGTGCAGGCCACCAATATTCTGTTAAGATACAAGG
1 GTGGCACGGACTGTGTGCAGGCCACCAATATTCTGTTAAGATACAAGG
44569057 GTGGCACGGACTGTGTGCAGGCCACCAATATTCTGTTAAGATACAAGG
1 GTGGCACGGACTGTGTGCAGGCCACCAATATTCTGTTAAGATACAAGG
* * *
44569105 GTGGCACGGACTATTTGCAGACCACCAATATTC---TAAGATACAAGG
1 GTGGCACGGACTGTGTGCAGGCCACCAATATTCTGTTAAGATACAAGG
*
44569150 GTGGCACGGACTATGTGCAGGCCAC
1 GTGGCACGGACTGTGTGCAGGCCAC
44569175 TGAGAGTCTG
Statistics
Matches: 155, Mismatches: 11, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
45 35 0.23
48 120 0.77
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.23
Consensus pattern (48 bp):
GTGGCACGGACTGTGTGCAGGCCACCAATATTCTGTTAAGATACAAGG
Found at i:44569201 original size:141 final size:142
Alignment explanation
Indices: 44568961--44569223 Score: 330
Period size: 141 Copynumber: 1.8 Consensus size: 142
44568951 GGCCGCATAT
* * * * * *
44568961 GTGGCACGGACTGTGTGTAGGCCGCCAATATTCTGTTAAGATACAAGGGTGGCATAGACTGTGTG
1 GTGGCACGGACTATGTGCAGACCACCAATATTC--TTAAGATACAAGGGTGGCACAGACTATGTG
* * * *
44569026 CAGGCCACCAATATTCTGTTAAGATACAAGGGTGGCACGGACTGTGTGCAGGCCACCAATATTCT
64 CAGGCCACCAAGAGTCTGTTAAGACACAAAGGTGGCACGGACTGTGTGCAGGCCACCAATATTCT
44569091 GTTAAGATACAAGG
129 GTTAAGATACAAGG
* *
44569105 GTGGCACGGACTATTTGCAGACCACCAATATTC-TAAGATACAAGGGTGGCACGGACTATGTGCA
1 GTGGCACGGACTATGTGCAGACCACCAATATTCTTAAGATACAAGGGTGGCACAGACTATGTGCA
** ** ** *
44569169 GGCCACTGAGAGTCTGTTATTACACAAAGGTGGTGCGGACTGTGTGTAGGCCACC
66 GGCCACCAAGAGTCTGTTAAGACACAAAGGTGGCACGGACTGTGTGCAGGCCACC
44569224 GAGAAATCTA
Statistics
Matches: 100, Mismatches: 19, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
141 72 0.72
144 28 0.28
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.24
Consensus pattern (142 bp):
GTGGCACGGACTATGTGCAGACCACCAATATTCTTAAGATACAAGGGTGGCACAGACTATGTGCA
GGCCACCAAGAGTCTGTTAAGACACAAAGGTGGCACGGACTGTGTGCAGGCCACCAATATTCTGT
TAAGATACAAGG
Found at i:44569223 original size:93 final size:94
Alignment explanation
Indices: 44568961--44569223 Score: 285
Period size: 96 Copynumber: 2.8 Consensus size: 94
44568951 GGCCGCATAT
* * * * * * * **
44568961 GTGGCACGGACTGTGTGTAGGCCGCCAATATTCTGTTAAGATACAAGGGTGGCATAGACTGTGTG
1 GTGGCACGGACTATGTGCAGGCCACCAAGAGTCTGTTAAGACACAAAGGTGGCACGGACTGTGTG
44569026 CAGGCCACCAATATTCTGTTAAGATACAAGG
66 CAGGCCACCAATATTC--TTAAGATACAAGG
* * * * * * *
44569057 GTGGCACGGACTGTGTGCAGGCCACCAATATTCTGTTAAGATACAAGGGTGGCACGGACTATTTG
1 GTGGCACGGACTATGTGCAGGCCACCAAGAGTCTGTTAAGACACAAAGGTGGCACGGACTGTGTG
*
44569122 CAGACCACCAATATTC-TAAGATACAAGG
66 CAGGCCACCAATATTCTTAAGATACAAGG
** ** **
44569150 GTGGCACGGACTATGTGCAGGCCACTGAGAGTCTGTTATTACACAAAGGTGGTGCGGACTGTGTG
1 GTGGCACGGACTATGTGCAGGCCACCAAGAGTCTGTTAAGACACAAAGGTGGCACGGACTGTGTG
*
44569215 TAGGCCACC
66 CAGGCCACC
44569224 GAGAAATCTA
Statistics
Matches: 145, Mismatches: 22, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
93 71 0.49
96 74 0.51
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.24
Consensus pattern (94 bp):
GTGGCACGGACTATGTGCAGGCCACCAAGAGTCTGTTAAGACACAAAGGTGGCACGGACTGTGTG
CAGGCCACCAATATTCTTAAGATACAAGG
Found at i:44571578 original size:64 final size:63
Alignment explanation
Indices: 44571476--44571646 Score: 162
Period size: 64 Copynumber: 2.7 Consensus size: 63
44571466 GTGGAAACTT
* * * * * ** ** *
44571476 TGGCTTTGCGAAGGTTCGATAGATTAGAATGGTGTTTCAGTATTGAATATTGTTAAGTAAATTA
1 TGGCTTTACAAAGGTTCGGTGGATGAGAATGG-GTTTCAGTATCAAATATCATGAAGTAAATTA
* * *
44571540 TGGCTTTACAAAGGTTTGGTGGATGAGAATGGGATTTCAATATCAAATATCATGCAGTAAATTA
1 TGGCTTTACAAAGGTTCGGTGGATGAGAATGGG-TTTCAGTATCAAATATCATGAAGTAAATTA
* * * *
44571604 TGGCTTTGCAGAGGTTCGGTGGATGAGAACGGGGTTTTAGTAT
1 TGGCTTTACAAAGGTTCGGTGGATGAGAA-TGGGTTTCAGTAT
44571647 AAGAAGAACA
Statistics
Matches: 86, Mismatches: 19, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
63 1 0.01
64 82 0.95
65 3 0.03
ACGTcount: A:0.29, C:0.08, G:0.28, T:0.35
Consensus pattern (63 bp):
TGGCTTTACAAAGGTTCGGTGGATGAGAATGGGTTTCAGTATCAAATATCATGAAGTAAATTA
Found at i:44573368 original size:46 final size:46
Alignment explanation
Indices: 44573318--44573406 Score: 153
Period size: 46 Copynumber: 1.9 Consensus size: 46
44573308 ATTACTATAA
44573318 GTTTTAATTGCT-AAATGATTAAAATGATAATTAATACAAAGCTTAG
1 GTTTTAATTGCTAAAAT-ATTAAAATGATAATTAATACAAAGCTTAG
*
44573364 GTTTTAATTGCTAAAATATTAAAATGGTAATTAATACAAAGCT
1 GTTTTAATTGCTAAAATATTAAAATGATAATTAATACAAAGCT
44573407 CAAATTGGTA
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
46 37 0.90
47 4 0.10
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.37
Consensus pattern (46 bp):
GTTTTAATTGCTAAAATATTAAAATGATAATTAATACAAAGCTTAG
Found at i:44573727 original size:16 final size:16
Alignment explanation
Indices: 44573705--44573741 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
44573695 GCTAATCAGT
44573705 ATGTTAAA-TTTCAAA
1 ATGTTAAAGTTTCAAA
44573720 ACTGTTAAAGTTTCAAA
1 A-TGTTAAAGTTTCAAA
44573737 ATGTT
1 ATGTT
44573742 TCCATTGATG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 1 0.05
16 11 0.55
17 8 0.40
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.41
Consensus pattern (16 bp):
ATGTTAAAGTTTCAAA
Found at i:44580759 original size:18 final size:19
Alignment explanation
Indices: 44580736--44580771 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
44580726 AACAAAAATA
*
44580736 TTTTTGAATAAA-AATTTG
1 TTTTTGAACAAAGAATTTG
44580754 TTTTTGAACAAAGAATTT
1 TTTTTGAACAAAGAATTT
44580772 ATAAATTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.39, C:0.03, G:0.11, T:0.47
Consensus pattern (19 bp):
TTTTTGAACAAAGAATTTG
Found at i:44581085 original size:17 final size:17
Alignment explanation
Indices: 44581063--44581101 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 17
44581053 TACCTATTGA
44581063 TTTTT-ATCGATACCAT
1 TTTTTAATCGATACCAT
44581079 CTTTTTACATCGATACCAT
1 -TTTTTA-ATCGATACCAT
44581098 TTTT
1 TTTT
44581102 GCATTTTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 4 0.20
19 11 0.55
ACGTcount: A:0.23, C:0.21, G:0.05, T:0.51
Consensus pattern (17 bp):
TTTTTAATCGATACCAT
Found at i:44587380 original size:33 final size:34
Alignment explanation
Indices: 44587284--44587386 Score: 109
Period size: 35 Copynumber: 3.0 Consensus size: 34
44587274 TGTTTTGGAA
*
44587284 TGTTTCGGTTGGACTAGCTCTTATGAGCATTGGTG
1 TGTTTCGGATGGACTAG-TCTTATGAGCATTGGTG
* * * * *
44587319 TATTTTGGAGGGATTAACTCTTATGAGCATTGGTG
1 TGTTTCGGATGGACT-AGTCTTATGAGCATTGGTG
*
44587354 TGTTTCGGATGGACT-GGCTTATGAGCAATTGGT
1 TGTTTCGGATGGACTAGTCTTATGAGC-ATTGGT
44587387 TTTTTGGGTG
Statistics
Matches: 54, Mismatches: 12, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
33 9 0.17
34 6 0.11
35 38 0.70
36 1 0.02
ACGTcount: A:0.18, C:0.12, G:0.31, T:0.39
Consensus pattern (34 bp):
TGTTTCGGATGGACTAGTCTTATGAGCATTGGTG
Found at i:44591886 original size:9 final size:9
Alignment explanation
Indices: 44591872--44591898 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
44591862 GTTTCTTGGA
44591872 CCAAGATTT
1 CCAAGATTT
44591881 CCAAGATTT
1 CCAAGATTT
44591890 CCAAGATTT
1 CCAAGATTT
44591899 GAAATCTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.33
Consensus pattern (9 bp):
CCAAGATTT
Found at i:44593966 original size:13 final size:13
Alignment explanation
Indices: 44593948--44593972 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44593938 CAGACTATCA
44593948 TCTTTTTTTTTTC
1 TCTTTTTTTTTTC
44593961 TCTTTTTTTTTT
1 TCTTTTTTTTTT
44593973 TGAAATACCT
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:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TCTTTTTTTTTTC
Found at i:44597870 original size:50 final size:50
Alignment explanation
Indices: 44597746--44597987 Score: 184
Period size: 50 Copynumber: 4.7 Consensus size: 50
44597736 GATAATAACA
* * * *
44597746 TGCCAAAGCCATGTCCCAGACATGGTCTTACACGGGATGTTTCCTGTA-C--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-G-TTCTTATATCGG
* * *
44597795 TGCCAATGACATATCCCAGATATGGTCTTACATGGGAGTTCTTATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTTATATCGG
* ** ** * *
44597845 TGCCAATGCCATGTCCCAAACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTTATATCGG
* * * ** * **
44597895 CGCCAAGGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTAATAACCTCAATAA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTTAT-A--TC---GG
*
44597951 TGCCAATGCCATGTCTCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
44597988 TCTCATTCCC
Statistics
Matches: 155, Mismatches: 29, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
47 6 0.04
48 2 0.01
49 32 0.21
50 80 0.52
53 2 0.01
56 33 0.21
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTTATATCGG
Found at i:44604123 original size:43 final size:42
Alignment explanation
Indices: 44604094--44604212 Score: 179
Period size: 41 Copynumber: 2.8 Consensus size: 42
44604084 CAAACAATAT
*
44604094 GTCCCTCAAAAGGACATATTTAATACTCACATTCATTAAAACA
1 GTCCCTGAAAAGGACATATTTAATACTCACATTCA-TAAAACA
*
44604137 GTCCCTGAAAAAGAC--ATTTAATACTCACATTCATTAAAACA
1 GTCCCTGAAAAGGACATATTTAATACTCACATTCA-TAAAACA
*
44604178 GTCCCTGAAAAGGACATATTTAATACTCACGTTCA
1 GTCCCTGAAAAGGACATATTTAATACTCACATTCA
44604213 AACAAAATAC
Statistics
Matches: 70, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
41 40 0.57
43 30 0.43
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.28
Consensus pattern (42 bp):
GTCCCTGAAAAGGACATATTTAATACTCACATTCATAAAACA
Found at i:44605417 original size:21 final size:21
Alignment explanation
Indices: 44605378--44605418 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
44605368 CCAAAGTACA
*
44605378 CGGGCATGTGGAGTAGCCACT
1 CGGGCATGTGGAATAGCCACT
* *
44605399 CGGGCGTGTGGAATGGCCAC
1 CGGGCATGTGGAATAGCCAC
44605419 ACAGCCATGT
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:0.17, C:0.24, G:0.41, T:0.17
Consensus pattern (21 bp):
CGGGCATGTGGAATAGCCACT
Found at i:44606160 original size:24 final size:24
Alignment explanation
Indices: 44606128--44606174 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
44606118 ATGTTATAAC
44606128 TTTTTTATTTAACAAAAAATATAT
1 TTTTTTATTTAACAAAAAATATAT
* *
44606152 TTTTTTATTTACCAAAATATATA
1 TTTTTTATTTAACAAAAAATATA
44606175 AAAAAAACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (24 bp):
TTTTTTATTTAACAAAAAATATAT
Found at i:44606260 original size:27 final size:27
Alignment explanation
Indices: 44606230--44606296 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
44606220 CGCCAATGGT
44606230 ATTGGCGGCACCAAAGGTGCCAAAACC
1 ATTGGCGGCACCAAAGGTGCCAAAACC
* *
44606257 ATTGGCGGCACCAATGGTGCCAATACC
1 ATTGGCGGCACCAAAGGTGCCAAAACC
*
44606284 ATTGGCAGCACCA
1 ATTGGCGGCACCA
44606297 GTTAATAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.30, C:0.30, G:0.25, T:0.15
Consensus pattern (27 bp):
ATTGGCGGCACCAAAGGTGCCAAAACC
Found at i:44606348 original size:4 final size:4
Alignment explanation
Indices: 44606339--44606467 Score: 85
Period size: 4 Copynumber: 32.0 Consensus size: 4
44606329 GAAGGAGAGG
* *
44606339 GAAA GAAA GAAA GAAA GAAA GAAA TGAGAG GAAA GAAA G-AA -AAA GAAG
1 GAAA GAAA GAAA GAAA GAAA GAAA -GA-AA GAAA GAAA GAAA GAAA GAAA
*
44606387 GAAA GAAAA GGAAA G-GA GAAGA GAAA -AAA -AAA G-AA G-AA GAAAA
1 GAAA G-AAA -GAAA GAAA GAA-A GAAA GAAA GAAA GAAA GAAA G-AAA
*
44606430 GGAAAA GAGAA GAAA -AAA GAAA GAAA GAAG GAAA GAAA
1 -G-AAA GA-AA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
44606468 AGGAAAGGAG
Statistics
Matches: 103, Mismatches: 8, Indels: 28
0.74 0.06 0.20
Matches are distributed among these distances:
3 21 0.20
4 54 0.52
5 21 0.20
6 7 0.07
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.01
Consensus pattern (4 bp):
GAAA
Found at i:44606427 original size:34 final size:34
Alignment explanation
Indices: 44606372--44606537 Score: 167
Period size: 34 Copynumber: 4.7 Consensus size: 34
44606362 ATGAGAGGAA
*
44606372 AGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAG
1 AGAAAAAAAAAGAA-G-AAGAAAAGGAAAGGAGAAG
*
44606408 AGAAAAAAAAAGAAGAAGAAAAGGAAAAGAGAAG
1 AGAAAAAAAAAGAAGAAGAAAAGGAAAGGAGAAG
*
44606442 AAAAAAGAAAGAAAGAAGGAAAGAAAAGGAAAGGAGAAG
1 -AGAAA-AAA-AAAGAA-G-AAGAAAAGGAAAGGAGAAG
* * *
44606481 AGAAAAAAGAAGAAGAAGAAGAGGGAAGGAAGGAAG
1 AGAAAAAAAAAGAAGAAGAAAAGGAAAGG-A-GAAG
*
44606517 -G-AAAAAAAAGAA-AAAAAAAGG
1 AGAAAAAAAAAGAAGAAGAAAAGG
44606538 TAATTTTATT
Statistics
Matches: 112, Mismatches: 11, Indels: 17
0.80 0.08 0.12
Matches are distributed among these distances:
33 7 0.06
34 40 0.36
35 8 0.07
36 25 0.22
37 9 0.08
38 5 0.04
39 18 0.16
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (34 bp):
AGAAAAAAAAAGAAGAAGAAAAGGAAAGGAGAAG
Found at i:44606437 original size:29 final size:29
Alignment explanation
Indices: 44606388--44606463 Score: 93
Period size: 29 Copynumber: 2.7 Consensus size: 29
44606378 AAAAAGAAGG
* *
44606388 AAAGAA-AAGGAAAGGAGAAGAGAAAAAA
1 AAAGAAGAAGAAAAGGAAAAGAGAAAAAA
*
44606416 AAAGAAGAAGAAAAGGAAAAGAGAAGAAA
1 AAAGAAGAAGAAAAGGAAAAGAGAAAAAA
*
44606445 AAAGAAAGAA-AGAAGGAAA
1 AAAG-AAGAAGAAAAGGAAA
44606464 GAAAAGGAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 6 0.14
29 31 0.74
30 5 0.12
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (29 bp):
AAAGAAGAAGAAAAGGAAAAGAGAAAAAA
Found at i:44606473 original size:18 final size:18
Alignment explanation
Indices: 44606343--44606474 Score: 87
Period size: 18 Copynumber: 7.3 Consensus size: 18
44606333 GAGAGGGAAA
*
44606343 GAAAGAAAGAAAG-AAA-
1 GAAAGAAGGAAAGAAAAG
44606359 GAAATGAGAGGAAAG-AAAG
1 GAAA-GA-AGGAAAGAAAAG
*
44606378 AAAAAGAAGGAAAGAAAAG
1 -GAAAGAAGGAAAGAAAAG
* *
44606397 GAAAGGA-GAAGAGAAAAA
1 GAAAGAAGGAA-AGAAAAG
*
44606415 AAAAGAA-G-AAGAAAAG
1 GAAAGAAGGAAAGAAAAG
* * *
44606431 GAAAAGAGAAGAAAAAAGAAA
1 G-AAAGA-AGGAAAGAA-AAG
44606452 GAAAGAAGGAAAGAAAAG
1 GAAAGAAGGAAAGAAAAG
44606470 GAAAG
1 GAAAG
44606475 GAGAAGAGAA
Statistics
Matches: 91, Mismatches: 14, Indels: 20
0.73 0.11 0.16
Matches are distributed among these distances:
16 10 0.11
17 11 0.12
18 41 0.45
19 14 0.15
20 12 0.13
21 3 0.03
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.01
Consensus pattern (18 bp):
GAAAGAAGGAAAGAAAAG
Found at i:44606484 original size:18 final size:18
Alignment explanation
Indices: 44606390--44606486 Score: 85
Period size: 18 Copynumber: 5.3 Consensus size: 18
44606380 AAAGAAGGAA
44606390 AGAAAAGGAAAGGAGAAG
1 AGAAAAGGAAAGGAGAAG
*
44606408 AGAAAA--AAA-AAGAAG
1 AGAAAAGGAAAGGAGAAG
*
44606423 AAGAAAAGGAAAAGAGAAG
1 -AGAAAAGGAAAGGAGAAG
* *
44606442 A-AAAAAGAAAGAAAGAAGG
1 AGAAAAGGAAAG-GAGAA-G
44606461 AAAGAAAAGGAAAGGAGAAG
1 --AGAAAAGGAAAGGAGAAG
44606481 AGAAAA
1 AGAAAA
44606487 AAGAAGAAGA
Statistics
Matches: 63, Mismatches: 7, Indels: 18
0.72 0.08 0.20
Matches are distributed among these distances:
15 5 0.08
16 9 0.14
17 8 0.13
18 20 0.32
19 6 0.10
20 1 0.02
21 5 0.08
22 9 0.14
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (18 bp):
AGAAAAGGAAAGGAGAAG
Found at i:44606497 original size:18 final size:18
Alignment explanation
Indices: 44606403--44606499 Score: 69
Period size: 18 Copynumber: 5.3 Consensus size: 18
44606393 AAAGGAAAGG
*
44606403 AGAAGAGAAAAAAAAAGA
1 AGAAGAGAAAAAAGAAGA
*
44606421 AGAAGAAAAGGAAAAG-AGA
1 AGAAGAGAA--AAAAGAAGA
44606440 AGAA-A-AAAGAAAGAAAGA
1 AGAAGAGAAA-AAAG-AAGA
* *
44606458 AGGAA-AG-AAAAGGAAAGG
1 A-GAAGAGAAAAAAG-AAGA
44606476 AGAAGAGAAAAAAGAAGA
1 AGAAGAGAAAAAAGAAGA
44606494 AGAAGA
1 AGAAGA
44606500 AGAGGGAAGG
Statistics
Matches: 64, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
15 1 0.02
16 4 0.06
17 5 0.08
18 32 0.50
19 18 0.28
20 4 0.06
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (18 bp):
AGAAGAGAAAAAAGAAGA
Found at i:44613054 original size:19 final size:21
Alignment explanation
Indices: 44613030--44613071 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
44613020 AAACTAAAAC
*
44613030 AAAAAAT-ATTACAA-AATAT
1 AAAAAATAATAACAACAATAT
44613049 AAAAAATAATAACAACAATAT
1 AAAAAATAATAACAACAATAT
44613070 AA
1 AA
44613072 TCAAAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 7 0.35
20 6 0.30
21 7 0.35
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.21
Consensus pattern (21 bp):
AAAAAATAATAACAACAATAT
Found at i:44613106 original size:11 final size:11
Alignment explanation
Indices: 44613092--44613131 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
44613082 AAAAAAATAC
44613092 CTTCTTTTTCT
1 CTTCTTTTTCT
*
44613103 CTTCTTTCTCT
1 CTTCTTTTTCT
44613114 CTTC-TTTTCT
1 CTTCTTTTTCT
44613124 CTTCTTTT
1 CTTCTTTT
44613132 CCGCAACAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 9 0.35
11 17 0.65
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (11 bp):
CTTCTTTTTCT
Found at i:44613126 original size:10 final size:10
Alignment explanation
Indices: 44613092--44613132 Score: 64
Period size: 10 Copynumber: 3.9 Consensus size: 10
44613082 AAAAAAATAC
44613092 CTTCTTTTTCT
1 CTTC-TTTTCT
44613103 CTTCTTTCTCT
1 CTTCTTT-TCT
44613114 CTTCTTTTCT
1 CTTCTTTTCT
44613124 CTTCTTTTC
1 CTTCTTTTC
44613133 CGCAACAACT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
10 15 0.52
11 14 0.48
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (10 bp):
CTTCTTTTCT
Found at i:44613148 original size:3 final size:3
Alignment explanation
Indices: 44613142--44613181 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
44613132 CCGCAACAAC
44613142 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
44613182 TTTTGATTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:44613278 original size:27 final size:27
Alignment explanation
Indices: 44613248--44613305 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
44613238 ACAATCAATA
*
44613248 TGGCACCATTGGTGCCGCCAATGGCAT
1 TGGCACCATTGGTGCCGCCAATGCCAT
44613275 TGGCACCATTGGTGCCGCCAATGCCAT
1 TGGCACCATTGGTGCCGCCAATGCCAT
44613302 TGGC
1 TGGC
44613306 GTGACCAAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.17, C:0.31, G:0.29, T:0.22
Consensus pattern (27 bp):
TGGCACCATTGGTGCCGCCAATGCCAT
Found at i:44613392 original size:28 final size:28
Alignment explanation
Indices: 44613355--44613426 Score: 119
Period size: 28 Copynumber: 2.6 Consensus size: 28
44613345 CAAGTTTTTT
44613355 TATATATTTTGGTAAATAAAAAAAATTA
1 TATATATTTTGGTAAATAAAAAAAATTA
* *
44613383 TATATATTTTGGTAACTAAAAAAAGTTA
1 TATATATTTTGGTAAATAAAAAAAATTA
44613411 TA-ATATTTTGGTAAAT
1 TATATATTTTGGTAAAT
44613427 TTTTATTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 13 0.32
28 28 0.68
ACGTcount: A:0.47, C:0.01, G:0.10, T:0.42
Consensus pattern (28 bp):
TATATATTTTGGTAAATAAAAAAAATTA
Found at i:44620596 original size:16 final size:17
Alignment explanation
Indices: 44620563--44620596 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
44620553 TTTACTTTCT
*
44620563 TTTTTAAAATATTTTAA
1 TTTTTAAAATATTGTAA
44620580 TTTTTAAAAT-TTGTAA
1 TTTTTAAAATATTGTAA
44620596 T
1 T
44620597 ATATTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (17 bp):
TTTTTAAAATATTGTAA
Found at i:44623033 original size:51 final size:49
Alignment explanation
Indices: 44622900--44623084 Score: 196
Period size: 51 Copynumber: 3.7 Consensus size: 49
44622890 AGTGAAAGTG
*
44622900 ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGGATG-
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GGATGT
* * **
44622949 ATAGGTCGCATGTGTAGTAC--TGTGCAGGCTACTATGCATACCGGATAGT
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAT-GT
* * * * *
44622998 TTCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATGGT
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAT-GT
*
44623049 AATGGCCACATGTGTAGTACTATGTGCAGGCTACTA
1 -ATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
44623085 TGTGAACCAA
Statistics
Matches: 110, Mismatches: 20, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
47 4 0.04
48 20 0.18
49 17 0.15
50 15 0.14
51 53 0.48
52 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (49 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGT
Found at i:44623088 original size:26 final size:26
Alignment explanation
Indices: 44623008--44623088 Score: 71
Period size: 26 Copynumber: 3.2 Consensus size: 26
44622998 TTCGATCACG
44623008 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* * * *
44623034 CGTGTA-T-CAGATG-GTAATGGCCAC-A
1 TGTGTAGTAC-TATGTG-CA-GGCTACTA
44623059 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
44623085 TGTG
1 TGTG
44623089 AACCAAATAT
Statistics
Matches: 40, Mismatches: 8, Indels: 14
0.65 0.13 0.23
Matches are distributed among these distances:
24 2 0.05
25 16 0.40
26 20 0.50
27 2 0.05
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.32
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:44625415 original size:8 final size:8
Alignment explanation
Indices: 44625402--44625428 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
44625392 CAATAATTAT
44625402 AATAATAA
1 AATAATAA
44625410 AATAATAA
1 AATAATAA
44625418 AATAATAA
1 AATAATAA
44625426 AAT
1 AAT
44625429 TCAATAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (8 bp):
AATAATAA
Found at i:44630618 original size:20 final size:20
Alignment explanation
Indices: 44630593--44630642 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
44630583 TGCATTCTTT
44630593 TCTGTGGCTTTCTGTTGTTC
1 TCTGTGGCTTTCTGTTGTTC
44630613 TCTGTGGCTTTCTGTTGTTC
1 TCTGTGGCTTTCTGTTGTTC
*
44630633 TTTGTGGCTT
1 TCTGTGGCTT
44630643 CTTTTGACAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.00, C:0.18, G:0.26, T:0.56
Consensus pattern (20 bp):
TCTGTGGCTTTCTGTTGTTC
Found at i:44635078 original size:40 final size:40
Alignment explanation
Indices: 44634978--44635146 Score: 225
Period size: 40 Copynumber: 4.2 Consensus size: 40
44634968 GCTCCTCGTT
* *
44634978 CAAATGCCTTCGGGACATAACCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
44635018 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
44635057 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
44635097 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
44635137 CAAATGCCTT
1 CAAATGCCTT
44635147 TGGATCTTAG
Statistics
Matches: 117, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 36 0.31
40 77 0.66
41 4 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:44635162 original size:80 final size:79
Alignment explanation
Indices: 44634978--44635202 Score: 231
Period size: 80 Copynumber: 2.8 Consensus size: 79
44634968 GCTCCTCGTT
* * * * *
44634978 CAAATGCCTTCGGGACATAACCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
44635042 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* *
44635057 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
44635122 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* ** * * * *
44635137 CAAATGCCTT-TGGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
44635201 GA
63 GA
44635203 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 40 0.33
80 68 0.56
81 13 0.11
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:44642245 original size:40 final size:40
Alignment explanation
Indices: 44642160--44642331 Score: 197
Period size: 40 Copynumber: 4.3 Consensus size: 40
44642150 GCTCCTCGTT
* *
44642160 CAAATGCCTTCGGGACATAGCCC-GATTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGA-TTTAGTAACTCGCA
*
44642200 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
44642239 CGAATGCCTTCGGGACTTAACTCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * * *
44642279 CAAAGGCCTTTGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
44642319 CAAATGCCTTCGG
1 CAAATGCCTTCGG
44642332 ATCTTAGTCC
Statistics
Matches: 115, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
39 33 0.29
40 78 0.68
41 4 0.03
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:44642345 original size:80 final size:78
Alignment explanation
Indices: 44642160--44642384 Score: 202
Period size: 80 Copynumber: 2.8 Consensus size: 78
44642150 GCTCCTCGTT
* * *
44642160 CAAATGCCTTCGGGACATAGCCCGATTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCGGA-TTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGA
44642225 TTTAATAACTCGCA
65 TTTAATAACTCGCA
* * * * * * *
44642239 CGAATGCCTTCGGGACTTAACTCGGATTTAGTATCTCGCACAAAGGCCTTTGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGC-CGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG
* *
44642304 AATTT-GTATCTCGCA
64 -ATTTAATAACTCGCA
* * * * * * *
44642319 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAG-CCGGATTTAGTAACTCA-CACAAGGCCTTCGGGACATAACCCG
44642383 GA
63 GA
44642385 CAGCATTCAA
Statistics
Matches: 116, Mismatches: 24, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
79 35 0.30
80 73 0.63
81 8 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAGCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGAT
TTAATAACTCGCA
Found at i:44642393 original size:41 final size:41
Alignment explanation
Indices: 44642316--44642393 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
44642306 TTTGTATCTC
* * *
44642316 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
44642357 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
44642394 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:44647916 original size:51 final size:49
Alignment explanation
Indices: 44647804--44648438 Score: 992
Period size: 47 Copynumber: 13.1 Consensus size: 49
44647794 GAAATGATAG
44647804 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
44647853 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATATGTGA
44647904 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATATGTGA
*
44647955 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
44648002 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
44648049 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
44648096 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
44648143 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATATGTGA
44648194 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
44648243 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATATGTGA
*
44648294 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
44648341 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * * *
44648388 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
44648435 TAAG
1 TAAG
44648439 TCCCGAAGGG
Statistics
Matches: 557, Mismatches: 19, Indels: 22
0.93 0.03 0.04
Matches are distributed among these distances:
47 275 0.49
48 1 0.00
49 87 0.16
51 194 0.35
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (49 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:44648424 original size:339 final size:338
Alignment explanation
Indices: 44647804--44648438 Score: 1128
Period size: 339 Copynumber: 1.9 Consensus size: 338
44647794 GAAATGATAG
44647804 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
44647869 ATGTGATGAATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
66 ATGTGATGAATGTGAAAGTG-ATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
44647934 AAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACG
130 AAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACG
* *
44647999 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAAGGCCTAATGGCC
195 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGACAAGGCCGAATGGCC
* * *
44648064 GATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
260 AACGTGATGAATGTGAAAGTGTATAAACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
44648129 GTGTATATATGAGA
325 GTGTATATATGAGA
44648143 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGC
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATATGTGATAAGGCCTAATGGC
44648208 CGATGTGATGAATGTGAAAGTG-TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
64 CGATGTGATGAATGTGAAAGTGATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
44648272 GAAAGTGTATATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
129 GAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAC
* * *
44648337 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGC
194 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGACAAGGCCGAATGGC
* *
44648402 CAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
259 CAACGTGATGAATGTGAAAGTGTATAAACGTGATAAG
44648439 TCCCGAAGGG
Statistics
Matches: 282, Mismatches: 12, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
339 233 0.83
341 49 0.17
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (338 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
ATGTGATGAATGTGAAAGTGATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
AAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGT
GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGACAAGGCCGAATGGCCA
ACGTGATGAATGTGAAAGTGTATAAACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGAGA
Found at i:44648613 original size:37 final size:37
Alignment explanation
Indices: 44648557--44648635 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
44648547 CTGAGCTCTA
* * * *
44648557 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCAATAACTACGTGTGGAGATTATGTCCGGGT
*
44648594 AAGACCCAATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCAATAACTACGTGTGGAGATTATGTCCGGGT
44648631 AAGAC
1 AAGAC
44648636 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCAATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:44650973 original size:13 final size:13
Alignment explanation
Indices: 44650955--44650984 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
44650945 TTAAGGGCTT
44650955 GTCTGAGGTGTGG
1 GTCTGAGGTGTGG
44650968 GTCTGAGGTGTGG
1 GTCTGAGGTGTGG
44650981 GTCT
1 GTCT
44650985 TTAGATGCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.07, C:0.10, G:0.50, T:0.33
Consensus pattern (13 bp):
GTCTGAGGTGTGG
Found at i:44661870 original size:16 final size:16
Alignment explanation
Indices: 44661849--44661886 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
44661839 TTTGGTTCGC
*
44661849 TGTAATGGGATAGAGG
1 TGTAATGGAATAGAGG
44661865 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
*
44661881 CGTAAT
1 TGTAAT
44661887 AGGTAATTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.34, C:0.03, G:0.37, T:0.26
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:44661955 original size:44 final size:46
Alignment explanation
Indices: 44661868--44661956 Score: 137
Period size: 44 Copynumber: 2.0 Consensus size: 46
44661858 ATAGAGGTGT
*
44661868 AATGGAATAGAGGCGTAATAGGTAATTCTTCTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTCTGCTTGGTTGAATGG
* *
44661914 AATGGAATAGAGGTGTAATA-GT-ATTCTTGTGCTTGGTTGAATG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTCTGCTTGGTTGAATG
44661957 AAATAGAGGT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 19 0.47
45 2 0.05
46 19 0.47
ACGTcount: A:0.28, C:0.06, G:0.30, T:0.36
Consensus pattern (46 bp):
AATGGAATAGAGGCGTAATAGGTAATTCTTCTGCTTGGTTGAATGG
Found at i:44661956 original size:39 final size:43
Alignment explanation
Indices: 44661868--44661973 Score: 121
Period size: 39 Copynumber: 2.5 Consensus size: 43
44661858 ATAGAGGTGT
* *
44661868 AATGGAATAGAGGCGTAATAGGTAATTCTTCTGTTTGGTTGAATGG
1 AATGGAATAGAGGTGTAATA-GTAATTCTTCTGCTTGGTT--ATGG
*
44661914 AATGGAATAGAGGTGTAATAGT-ATTCTTGTGCTTGG-T-T-G
1 AATGGAATAGAGGTGTAATAGTAATTCTTCTGCTTGGTTATGG
*
44661953 AATGAAATAGAGGTGTAATAG
1 AATGGAATAGAGGTGTAATAG
44661974 CATAAGGAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
39 21 0.38
40 1 0.02
43 1 0.02
44 12 0.21
45 2 0.04
46 19 0.34
ACGTcount: A:0.31, C:0.05, G:0.30, T:0.34
Consensus pattern (43 bp):
AATGGAATAGAGGTGTAATAGTAATTCTTCTGCTTGGTTATGG
Found at i:44662141 original size:18 final size:17
Alignment explanation
Indices: 44662118--44662154 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
44662108 AATTATTATT
44662118 AAATATAT-A-TTAATTA
1 AAATATATAATTTAA-TA
44662134 AAATATATAATTTAATA
1 AAATATATAATTTAATA
44662151 AAAT
1 AAAT
44662155 TCTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 7 0.37
18 4 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATATATAATTTAATA
Found at i:44662148 original size:14 final size:15
Alignment explanation
Indices: 44662111--44662150 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
44662101 TTAACATAAT
44662111 TATT-ATTAAATATA
1 TATTAATTAAATATA
44662125 TATTAATTAAA-ATA
1 TATTAATTAAATATA
*
44662139 TA-TAATTTAATA
1 TATTAATTAAATA
44662151 AAATTCTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 7 0.30
14 10 0.43
15 6 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TATTAATTAAATATA
Found at i:44662166 original size:15 final size:16
Alignment explanation
Indices: 44662146--44662175 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
44662136 ATATATAATT
44662146 TAATAAA-ATTCTTAA
1 TAATAAATATTCTTAA
44662161 TAATAAATATTCTTA
1 TAATAAATATTCTTA
44662176 TATGAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATAAATATTCTTAA
Found at i:44662261 original size:18 final size:17
Alignment explanation
Indices: 44662240--44662274 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
44662230 TTATTATTAA
*
44662240 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
44662258 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
44662275 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:44662286 original size:15 final size:16
Alignment explanation
Indices: 44662266--44662295 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
44662256 ATATATAATT
44662266 TAATAAA-ATTCTTAA
1 TAATAAATATTCTTAA
44662281 TAATAAATATTCTTA
1 TAATAAATATTCTTA
44662296 TATGAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATAAATATTCTTAA
Found at i:44662380 original size:18 final size:17
Alignment explanation
Indices: 44662359--44662393 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
44662349 TTATTATTAA
*
44662359 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
44662377 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
44662394 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:44662403 original size:119 final size:120
Alignment explanation
Indices: 44662106--44662456 Score: 677
Period size: 119 Copynumber: 2.9 Consensus size: 120
44662096 ATATTTTAAC
*
44662106 ATAATTATTATTAAATATATATTAATTAAAATATATAATTTAATAAAATTCTTAATAATAAATAT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATAAATAT
*
44662171 TCTTATATGAATTTACTAAAATCATAATATATGGTACTATAAAATATAATTTGAA
66 TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
44662226 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATAAATAT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATAAATAT
44662291 TCTTATATGAATTTACTAAAATCATAATATATGATA-TATAAAATATAATTTGAA
66 TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
44662345 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATAAATAT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATAAATAT
44662410 TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATAT
66 TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATAT
44662457 TTTTAATTAA
Statistics
Matches: 228, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
119 119 0.52
120 109 0.48
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (120 bp):
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATAAATAT
TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
Found at i:44662405 original size:15 final size:16
Alignment explanation
Indices: 44662385--44662414 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
44662375 ATATATAATT
44662385 TAATAAA-ATTCTTAA
1 TAATAAATATTCTTAA
44662400 TAATAAATATTCTTA
1 TAATAAATATTCTTA
44662415 TATGAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATAAATATTCTTAA
Found at i:44663583 original size:13 final size:13
Alignment explanation
Indices: 44663565--44663589 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44663555 GCTGTCTCAG
44663565 TTTTTGTGCCCAC
1 TTTTTGTGCCCAC
44663578 TTTTTGTGCCCA
1 TTTTTGTGCCCA
44663590 ACCTAGCATT
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:0.08, C:0.28, G:0.16, T:0.48
Consensus pattern (13 bp):
TTTTTGTGCCCAC
Found at i:44692063 original size:109 final size:109
Alignment explanation
Indices: 44691911--44692182 Score: 350
Period size: 109 Copynumber: 2.5 Consensus size: 109
44691901 TAATCAAGGT
** * * **
44691911 CAACATTTAAAAAAATTGGGATAAACCCATCTGAGGCAACCTTAAAAAGGTTGGGATAGACTTTG
1 CAACA-TTAAAAAGGTTGAGATAAACCCATCTAAGGCAACCTTAAAAAGGTTGGGATAGACCGTG
*
44691976 TCTAAGACAACCTTTAAA-AAAGGTTGTGATAGACC-CATCTAAGA
65 TCTAAGACAACCTTTAAATAAA-GTTGGGATAGACCTCATCTAAGA
* * * *
44692020 CAACCTTATAAAAGGTTGAGATAAACCCATCTAAGACAACCTTAGAAAGGTTGGGATAGGCCGTG
1 CAACATTA-AAAAGGTTGAGATAAACCCATCTAAGGCAACCTTAAAAAGGTTGGGATAGACCGTG
* * * *
44692085 TTTAAGGCAACCTTTAAATAAAGTTGGGATAGACCTTATCTAAGG
65 TCTAAGACAACCTTTAAATAAAGTTGGGATAGACCTCATCTAAGA
* *
44692130 CAACATTAAAAAGGTTGGGATAGACCCATCTAAGGCAACCTTAAAAAGGTTGG
1 CAACATTAAAAAGGTTGAGATAAACCCATCTAAGGCAACCTTAAAAAGGTTGG
44692183 ATTAGACACA
Statistics
Matches: 140, Mismatches: 20, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
108 3 0.02
109 120 0.86
110 17 0.12
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.24
Consensus pattern (109 bp):
CAACATTAAAAAGGTTGAGATAAACCCATCTAAGGCAACCTTAAAAAGGTTGGGATAGACCGTGT
CTAAGACAACCTTTAAATAAAGTTGGGATAGACCTCATCTAAGA
Found at i:44692143 original size:74 final size:71
Alignment explanation
Indices: 44691911--44692182 Score: 294
Period size: 73 Copynumber: 3.7 Consensus size: 71
44691901 TAATCAAGGT
** * * * *
44691911 CAACATTTAAAAAAATTGGGATAAACCCATCTGAGGCAACCTTAAAAAGGTTGGGATAGACTTTG
1 CAACA-TTAAAAAGGTTGGGATAGACCCATCTAAGGCAACCTTAAAAAGGTTGGGATAGACCTTA
44691976 TCTAAGA
65 TCTAAGA
* * * * *
44691983 CAACCTTTAAAAAAGGTTGTGATAGACCCATCTAAGACAACCTTATAAAAGGTTGAGATAAACC-
1 CAA-CATT-AAAAAGGTTGGGATAGACCCATCTAAGGCAACCTTA-AAAAGGTTGGGATAGACCT
*
44692047 CATCTAAGA
63 TATCTAAGA
* * * ** * *
44692056 CAACCTTAGAAAGGTTGGGATAGGCCGTGTTTAAGGCAACCTTTAAATAAAGTTGGGATAGACCT
1 CAACATTAAAAAGGTTGGGATAGACC-CATCTAAGGCAACC-TTAAA-AAGGTTGGGATAGACCT
*
44692121 TATCTAAGG
63 TATCTAAGA
44692130 CAACATTAAAAAGGTTGGGATAGACCCATCTAAGGCAACCTTAAAAAGGTTGG
1 CAACATTAAAAAGGTTGGGATAGACCCATCTAAGGCAACCTTAAAAAGGTTGG
44692183 ATTAGACACA
Statistics
Matches: 161, Mismatches: 32, Indels: 15
0.77 0.15 0.07
Matches are distributed among these distances:
71 23 0.14
72 25 0.16
73 68 0.42
74 45 0.28
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.24
Consensus pattern (71 bp):
CAACATTAAAAAGGTTGGGATAGACCCATCTAAGGCAACCTTAAAAAGGTTGGGATAGACCTTAT
CTAAGA
Found at i:44692177 original size:35 final size:35
Alignment explanation
Indices: 44691917--44692199 Score: 280
Period size: 36 Copynumber: 7.9 Consensus size: 35
44691907 AGGTCAACAT
** * *
44691917 TTAAAAAAATTGGGATAAACCCATCTGAGGCAACC
1 TTAAAAAGGTTGGGATAGACCCATCTAAGGCAACC
*** *
44691952 TTAAAAAGGTTGGGATAGACTTTGTCTAAGACAACC
1 TTAAAAAGGTTGGGATAGAC-CCATCTAAGGCAACC
* *
44691988 TTTAAAAAAGGTTGTGATAGACCCATCTAAGACAACC
1 -TT-AAAAAGGTTGGGATAGACCCATCTAAGGCAACC
* * *
44692025 TTATAAAAGGTTGAGATAAACCCATCTAAGACAACC
1 TTA-AAAAGGTTGGGATAGACCCATCTAAGGCAACC
* * ** *
44692061 TTAGAAAGGTTGGGATAGGCCGTGTTTAAGGCAACC
1 TTAAAAAGGTTGGGATAGACC-CATCTAAGGCAACC
* * *
44692097 TTTAAATAAAGTTGGGATAGACCTTATCTAAGGCAACA
1 -TTAAA-AAGGTTGGGATAGACC-CATCTAAGGCAACC
44692135 TTAAAAAGGTTGGGATAGACCCATCTAAGGCAACC
1 TTAAAAAGGTTGGGATAGACCCATCTAAGGCAACC
*
44692170 TTAAAAAGGTT-GGATTAGACACATCTAAGG
1 TTAAAAAGGTTGGGA-TAGACCCATCTAAGG
44692200 TAATTTTTTT
Statistics
Matches: 207, Mismatches: 33, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
34 3 0.01
35 69 0.33
36 70 0.34
37 23 0.11
38 42 0.20
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (35 bp):
TTAAAAAGGTTGGGATAGACCCATCTAAGGCAACC
Done.