Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 253 of 310
Found at i:83431174 original size:25 final size:24
Alignment explanation
Indices: 83431136--83431202 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 24
83431126 AGGAAGTGCT
* *
83431136 AAAAGGGCTCTGCCCCAATTTACTG
1 AAAAGGGCTTTGCCCCAATTTA-TC
* *
83431161 AAAAGGGCTTTGCCCTAGTTTATC
1 AAAAGGGCTTTGCCCCAATTTATC
*
83431185 AGAAAGGGCTTTACCCCA
1 A-AAAGGGCTTTGCCCCA
83431203 GTTATTAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
24 2 0.06
25 33 0.94
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.25
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAATTTATC
Found at i:83431218 original size:24 final size:24
Alignment explanation
Indices: 83431136--83431218 Score: 69
Period size: 25 Copynumber: 3.4 Consensus size: 24
83431126 AGGAAGTGCT
* * * *
83431136 AAAAGGGCTCTGCCCCAATTTACTG
1 AAAAGGGCTTTACCCCAGTTTA-TC
* *
83431161 AAAAGGGCTTTGCCCTAGTTTATC
1 AAAAGGGCTTTACCCCAGTTTATC
*
83431185 AGAAAGGGCTTTACCCCAG-TTATT
1 A-AAAGGGCTTTACCCCAGTTTATC
83431209 AAAAGAGGCT
1 AAAAG-GGCT
83431219 AGGCCTCTAG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
23 4 0.08
24 11 0.22
25 34 0.69
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTTACCCCAGTTTATC
Found at i:83431412 original size:42 final size:42
Alignment explanation
Indices: 83431353--83431444 Score: 175
Period size: 42 Copynumber: 2.2 Consensus size: 42
83431343 TAGTCTCCCC
*
83431353 AAATGGGCTTGCATACATTTATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCTATTGACATTACATGTGATATTG
83431395 AAATGGGCTTGCATACATCTATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCTATTGACATTACATGTGATATTG
83431437 AAATGGGC
1 AAATGGGC
83431445 CTAAGGGCCA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCTATTGACATTACATGTGATATTG
Found at i:83431503 original size:31 final size:31
Alignment explanation
Indices: 83431468--83431551 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
83431458 CATTTACAGT
83431468 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
83431499 AAAGGCTTCAGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
83431530 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
83431552 CCAAGACTAA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
30 5 0.10
31 45 0.90
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:83432772 original size:31 final size:31
Alignment explanation
Indices: 83432731--83432790 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
83432721 CCTTTTCATA
*
83432731 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAGATTTCATAACACTGGGCCGAAGCCT
**
83432762 TTTCAGATTTCATATTACTGGGCCGAAGC
1 TTTCAGATTTCATAACACTGGGCCGAAGC
83432791 ATTTACTGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.33
Consensus pattern (31 bp):
TTTCAGATTTCATAACACTGGGCCGAAGCCT
Found at i:83433094 original size:46 final size:46
Alignment explanation
Indices: 83433012--83433793 Score: 1530
Period size: 46 Copynumber: 17.0 Consensus size: 46
83433002 AGCCTCTTTT
*
83433012 AATAACTAG-GGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCCTTC
1 AATAACT-GTGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTC
83433059 AATAACTGTGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTC
1 AATAACTGTGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTC
83433105 AATAACTGTGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTC
1 AATAACTGTGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTC
83433151 AATAACTGTGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTC
1 AATAACTGTGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTC
83433197 AATAACTGTGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTC
1 AATAACTGTGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTC
83433243 AATAACTGTGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTC
1 AATAACTGTGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTC
83433289 AATAACTGTGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTC
1 AATAACTGTGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTC
83433335 AATAACTGTGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTC
1 AATAACTGTGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTC
83433381 AATAACTGTGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTC
1 AATAACTGTGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTC
83433427 AATAACTGTGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTC
1 AATAACTGTGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTC
83433473 AATAACTGTGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTC
1 AATAACTGTGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTC
83433519 AATAACTGTGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTC
1 AATAACTGTGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTC
83433565 AATAACTGTGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTC
1 AATAACTGTGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTC
83433611 AATAACTGTGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTC
1 AATAACTGTGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTC
83433657 AATAACTGTGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTC
1 AATAACTGTGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTC
83433703 AATAACTGTGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTC
1 AATAACTGTGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTC
83433749 AATAACTGTGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTT
1 AATAACTGTGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTT
83433794 TTGCACTTCC
Statistics
Matches: 733, Mismatches: 1, Indels: 3
0.99 0.00 0.00
Matches are distributed among these distances:
46 716 0.98
47 17 0.02
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.26
Consensus pattern (46 bp):
AATAACTGTGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTC
Found at i:83433870 original size:20 final size:20
Alignment explanation
Indices: 83433843--83433889 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
83433833 TTATGAATAA
83433843 ACCATGTGCATATCATACAT
1 ACCATGTGCATATCATACAT
*
83433863 ATCATGTGCATATCATACAT
1 ACCATGTGCATATCATACAT
83433883 ACCATGT
1 ACCATGT
83433890 TTATCAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (20 bp):
ACCATGTGCATATCATACAT
Found at i:83436561 original size:8 final size:8
Alignment explanation
Indices: 83436548--83436573 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
83436538 AAGTCAAACC
83436548 ACTATGCT
1 ACTATGCT
83436556 ACTATGCT
1 ACTATGCT
83436564 ACTATGCT
1 ACTATGCT
83436572 AC
1 AC
83436574 CGCTGCGCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (8 bp):
ACTATGCT
Found at i:83438333 original size:31 final size:31
Alignment explanation
Indices: 83438295--83438358 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
83438285 CCTTTTCATA
*
83438295 TTTCATATTTCATAACACTGGGTCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
83438326 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
83438357 TT
1 TT
83438359 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:83438627 original size:23 final size:23
Alignment explanation
Indices: 83438573--83438691 Score: 202
Period size: 23 Copynumber: 5.1 Consensus size: 23
83438563 CCTAGCCTCT
*
83438573 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
83438596 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
83438620 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
* *
83438643 TTCAATAACTGCGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
83438666 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
83438689 TTT
1 TTT
83438692 TGCACTTCCT
Statistics
Matches: 90, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
23 68 0.76
24 22 0.24
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:83438768 original size:20 final size:20
Alignment explanation
Indices: 83438742--83438806 Score: 103
Period size: 20 Copynumber: 3.2 Consensus size: 20
83438732 ATGAATACAC
83438742 CATGTGCATATCATACATAT
1 CATGTGCATATCATACATAT
* *
83438762 TATGTGCATATCATACATGT
1 CATGTGCATATCATACATAT
*
83438782 CATGTGCATATCATACATAC
1 CATGTGCATATCATACATAT
83438802 CATGT
1 CATGT
83438807 TTATCAAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
CATGTGCATATCATACATAT
Found at i:83443119 original size:63 final size:63
Alignment explanation
Indices: 83443020--83443144 Score: 223
Period size: 63 Copynumber: 2.0 Consensus size: 63
83443010 TTAAGGAAAT
*
83443020 GGGGGTGAGTTTGGAAACTCAATGTACAACAAGCCCCTTTCAGAGCCCAAAACAATAACAGCG
1 GGGGGTGAGTTTGCAAACTCAATGTACAACAAGCCCCTTTCAGAGCCCAAAACAATAACAGCG
* *
83443083 GGGGGTGAGTTTGCAAACTCAGTGTGCAACAAGCCCCTTTCAGAGCCCAAAACAATAACAGC
1 GGGGGTGAGTTTGCAAACTCAATGTACAACAAGCCCCTTTCAGAGCCCAAAACAATAACAGC
83443145 CTGTTGGGTC
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 59 1.00
ACGTcount: A:0.34, C:0.25, G:0.24, T:0.18
Consensus pattern (63 bp):
GGGGGTGAGTTTGCAAACTCAATGTACAACAAGCCCCTTTCAGAGCCCAAAACAATAACAGCG
Found at i:83443583 original size:20 final size:20
Alignment explanation
Indices: 83443556--83443602 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
83443546 TTATGATTAC
83443556 ACCATGTGCATATCATACAT
1 ACCATGTGCATATCATACAT
*
83443576 ATCATGTGCATATCATACAT
1 ACCATGTGCATATCATACAT
83443596 ACCATGT
1 ACCATGT
83443603 TTATCAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (20 bp):
ACCATGTGCATATCATACAT
Found at i:83443681 original size:25 final size:25
Alignment explanation
Indices: 83443639--83443686 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
83443629 ATATTTAAAC
* * *
83443639 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
83443664 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
83443687 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:83451725 original size:39 final size:39
Alignment explanation
Indices: 83451681--83451824 Score: 225
Period size: 39 Copynumber: 3.7 Consensus size: 39
83451671 TGTGTGAGAT
*
83451681 TTATATTCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
83451720 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
83451759 TTATATCCGGGCTAAATCCCAAAGGCATTCGTGCTAGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* **
83451798 TTATATCCGGGCAAAGTTTCGAAGGCA
1 TTATATCCGGGCTAAGTCCCGAAGGCA
83451825 ATTATGTTGG
Statistics
Matches: 96, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 96 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:83469311 original size:29 final size:29
Alignment explanation
Indices: 83469277--83469342 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 29
83469267 ATCAACCGCG
83469277 CACACTTAGTGCCATGCACTTT-AAACTCA
1 CACACTTAGTGCCATGCA-TTTCAAACTCA
**
83469306 CACACTTAGTGCCATGCATTTCAAGTTCA
1 CACACTTAGTGCCATGCATTTCAAACTCA
83469335 CACACTTA
1 CACACTTA
83469343 CCTTTTTCCG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.30, C:0.30, G:0.11, T:0.29
Consensus pattern (29 bp):
CACACTTAGTGCCATGCATTTCAAACTCA
Found at i:83469462 original size:175 final size:174
Alignment explanation
Indices: 83469164--83469492 Score: 568
Period size: 175 Copynumber: 1.9 Consensus size: 174
83469154 TACTCAAGGT
* * *
83469164 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCGTTCATATAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATATAAATAATTTATA
*
83469229 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
83469294 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCACAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCACAC
* *
83469338 ACTTACCTTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTAT
1 ACTTACC-TTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATATAAATAATTTAT
*
83469403 AGAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCATGCACACTTAGTGCCATG
65 AGAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATG
* *
83469468 TACTTTAAACTCGCACACTTAGTGC
130 CACTTTAAACTCACACACTTAGTGC
83469493 TGTACAATTT
Statistics
Matches: 145, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
174 7 0.05
175 138 0.95
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATATAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCACAC
Found at i:83469485 original size:29 final size:30
Alignment explanation
Indices: 83469451--83469523 Score: 107
Period size: 29 Copynumber: 2.5 Consensus size: 30
83469441 AATCAACCAT
*
83469451 GCACACTTAGTGCCATGTAC-TTTAAACTC
1 GCACACTTAGTGCCATGTACATTTAAACCC
83469480 GCACACTTAGTG-C-TGTACAATTTAAACCC
1 GCACACTTAGTGCCATGTAC-ATTTAAACCC
83469509 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
83469524 ATCTCATGAC
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
27 5 0.13
28 1 0.03
29 32 0.82
30 1 0.03
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (30 bp):
GCACACTTAGTGCCATGTACATTTAAACCC
Found at i:83477900 original size:28 final size:28
Alignment explanation
Indices: 83477860--83477938 Score: 113
Period size: 28 Copynumber: 2.8 Consensus size: 28
83477850 GCAATCCAAT
* * *
83477860 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
83477888 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
83477916 ATGGCACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
83477939 CGAATGATTC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.33, C:0.11, G:0.27, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:83486910 original size:17 final size:16
Alignment explanation
Indices: 83486888--83486921 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
83486878 GGGGATGGTG
83486888 TTTGTTTGATGTTTATT
1 TTTGTTTG-TGTTTATT
*
83486905 TTTGTTTGTTTTTATT
1 TTTGTTTGTGTTTATT
83486921 T
1 T
83486922 CATAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.09, C:0.00, G:0.15, T:0.76
Consensus pattern (16 bp):
TTTGTTTGTGTTTATT
Found at i:83488887 original size:79 final size:81
Alignment explanation
Indices: 83488743--83488960 Score: 238
Period size: 79 Copynumber: 2.7 Consensus size: 81
83488733 GAATCACGTA
* * * *
83488743 CCTTCGGAAT-TTAA-CCGGATATAGCAACTCATTCA-AATGCCTTCGGGACATT-GCCCGG-TT
1 CCTTCGG-ATCTTAACCCGGATATAGTAACTTA-GCACAATGCCTTCGGGAC-TTAGCCCGGAAT
83488803 ATAGTAACTCGCACAAATG
63 ATAGTAACTCGCACAAATG
* *
83488822 CCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCACCAATGCCTTCGGG-CTTAGCCCGGAAT-
1 CCTTC-GGATCTTAACCCGGATATAGTAACTTAGCA-CAATGCCTTCGGGACTTAGCCCGGAATA
83488883 TAGTAACTCGCACAAATG
64 TAGTAACTCGCACAAATG
** * *
83488901 CCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGATCTTAACCCGGATATAGTAACTTAGCACAATGCCTTCGGGACTTAGCCCGGA
83488961 CATCATTCGA
Statistics
Matches: 117, Mismatches: 12, Indels: 19
0.79 0.08 0.13
Matches are distributed among these distances:
78 7 0.06
79 68 0.58
80 42 0.36
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (81 bp):
CCTTCGGATCTTAACCCGGATATAGTAACTTAGCACAATGCCTTCGGGACTTAGCCCGGAATATA
GTAACTCGCACAAATG
Found at i:83488960 original size:40 final size:40
Alignment explanation
Indices: 83488757--83488960 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
83488747 CGGAATTTAA
* ***
83488757 CCGGATATAGCAACTCATTCAAATGCCTTCGGGACATT-GC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGAC-TTAGC
* *
83488797 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
83488837 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
83488876 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
83488916 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
83488956 CCGGA
1 CCGGA
83488961 CATCATTCGA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 34 0.24
40 93 0.66
41 12 0.09
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:83496322 original size:25 final size:25
Alignment explanation
Indices: 83496284--83496353 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
83496274 AGGAAGTGCT
* *
83496284 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
83496309 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
83496334 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
83496354 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:83496366 original size:24 final size:24
Alignment explanation
Indices: 83496283--83496366 Score: 98
Period size: 25 Copynumber: 3.4 Consensus size: 24
83496273 GAGGAAGTGC
* *
83496283 TAAAAGGGCTATGCCCCAGTTTACC
1 TAAAAGGGCTTTGCCCCAGTTTA-T
*
83496308 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
*
83496332 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTTTGCCCCAGTTTAT
83496356 TAAAAGAGGCT
1 TAAAAG-GGCT
83496367 AGGCCTCTAG
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
23 5 0.10
24 8 0.15
25 39 0.75
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (24 bp):
TAAAAGGGCTTTGCCCCAGTTTAT
Found at i:83496609 original size:30 final size:31
Alignment explanation
Indices: 83496573--83496655 Score: 125
Period size: 31 Copynumber: 2.7 Consensus size: 31
83496563 CGCTTACAGT
*
83496573 AAAGGCTTC-GGCCAGTGATATGATTTATGA
1 AAAGGCTTCAGCCCAGTGATATGATTTATGA
*
83496603 AAAGGCTTCAACCCAGTGATATGATTTATGA
1 AAAGGCTTCAGCCCAGTGATATGATTTATGA
*
83496634 AAAGACTTCAGCCCAGT-ATATG
1 AAAGGCTTCAGCCCAGTGATATG
83496656 TTGAGACTGA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 14 0.29
31 34 0.71
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTGATATGATTTATGA
Found at i:83499804 original size:46 final size:44
Alignment explanation
Indices: 83499715--83499834 Score: 143
Period size: 46 Copynumber: 2.6 Consensus size: 44
83499705 TATGTGTGCT
* *
83499715 AGTGTAAGACATGTCTGGGACATGCACCGGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-C-CATTACGAGAGCC
* *
83499761 AGTGTAAGACATGTCTGGGACATGCATTGG-CATTGAGACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCATT---ACGAGAGCC
*
83499807 AGTGTAAGACATGTTTGGGACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
83499835 AGCCTCGAGA
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
43 4 0.06
46 61 0.94
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.23
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCATTACGAGAGCC
Found at i:83499966 original size:49 final size:49
Alignment explanation
Indices: 83499888--83500007 Score: 143
Period size: 49 Copynumber: 2.4 Consensus size: 49
83499878 GATGTGTGTT
* * * *
83499888 AGTGTAAGACCTGTCTAGGACATGGCATCGACACT-GATAGATGAGAGCC
1 AGTGTAAGACCTGTCTAGGACACGACATCGAC-CTCGATAGATAAAAGCC
* * **
83499937 AGTGTAAGACCTGTCTAGGACACGACATCGGCCTCGATATATAAAAGTT
1 AGTGTAAGACCTGTCTAGGACACGACATCGACCTCGATAGATAAAAGCC
*
83499986 AGTGTGAGACCTGTCTAGGACA
1 AGTGTAAGACCTGTCTAGGACA
83500008 TGGCATCAAC
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
48 2 0.03
49 59 0.97
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.23
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTAGGACACGACATCGACCTCGATAGATAAAAGCC
Found at i:83506791 original size:27 final size:27
Alignment explanation
Indices: 83506761--83507009 Score: 181
Period size: 27 Copynumber: 9.4 Consensus size: 27
83506751 TTGAGCCCGT
* *
83506761 ACACTCAGTGCTATATAATCAACTCGC
1 ACACTTAGTGCTACATAATCAACTCGC
* * *
83506788 ACACTTAGTGCCACGTAATCAAATCGC
1 ACACTTAGTGCTACATAATCAACTCGC
*
83506815 ACACTTAGTGCTACATAGTCAGACTCGC
1 ACACTTAGTGCTACATAATCA-ACTCGC
*
83506843 ACACTTAGTGC--C----GC--CTCGC
1 ACACTTAGTGCTACATAATCAACTCGC
* * * * *
83506862 ACACTTAGTGCCACGTAATCAAATTGT
1 ACACTTAGTGCTACATAATCAACTCGC
*
83506889 ACACTTAGTGCTACATAGTCAGACTCGC
1 ACACTTAGTGCTACATAATCA-ACTCGC
** ** *
83506917 ACACTTAGTGCCGCATGGTCAATTCGC
1 ACACTTAGTGCTACATAATCAACTCGC
* * **
83506944 ACACTTAGTGCAACATATTCATTTCGC
1 ACACTTAGTGCTACATAATCAACTCGC
* * * *
83506971 ACACTTAGGGCAACATAGTCAAATCGC
1 ACACTTAGTGCTACATAATCAACTCGC
*
83506998 ACCCTTAGTGCT
1 ACACTTAGTGCT
83507010 GTACAATTTA
Statistics
Matches: 176, Mismatches: 36, Indels: 20
0.76 0.16 0.09
Matches are distributed among these distances:
19 16 0.09
21 1 0.01
22 1 0.01
25 1 0.01
26 1 0.01
27 119 0.68
28 37 0.21
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
ACACTTAGTGCTACATAATCAACTCGC
Found at i:83506904 original size:74 final size:74
Alignment explanation
Indices: 83506783--83506930 Score: 278
Period size: 74 Copynumber: 2.0 Consensus size: 74
83506773 ATATAATCAA
83506783 CTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCACACT
1 CTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCACACT
83506848 TAGTGCCGC
66 TAGTGCCGC
* *
83506857 CTCGCACACTTAGTGCCACGTAATCAAATTGTACACTTAGTGCTACATAGTCAGACTCGCACACT
1 CTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCACACT
83506922 TAGTGCCGC
66 TAGTGCCGC
83506931 ATGGTCAATT
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 72 1.00
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (74 bp):
CTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCACACT
TAGTGCCGC
Found at i:83514343 original size:23 final size:22
Alignment explanation
Indices: 83514292--83514343 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
83514282 CCTCGTCTTT
*
83514292 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
83514314 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
83514337 TTCTTTT
1 TTCTTTT
83514344 TCAAATTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:83514358 original size:18 final size:18
Alignment explanation
Indices: 83514337--83514375 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
83514327 TTTCTTCAAC
* *
83514337 TTCTTTTTCAAATTTCTT
1 TTCTGTTTCAAATTCCTT
*
83514355 TTCTGTTTCACATTCCTT
1 TTCTGTTTCAAATTCCTT
83514373 TTC
1 TTC
83514376 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.23, G:0.03, T:0.62
Consensus pattern (18 bp):
TTCTGTTTCAAATTCCTT
Found at i:83523337 original size:28 final size:29
Alignment explanation
Indices: 83523305--83523368 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
83523295 TCGATAAAAA
* *
83523305 TCATTTT-TCGAGCCTAAGGGTAAAATGG
1 TCATTTTGTCAAGCCTAAGGGCAAAATGG
** *
83523333 TCATTTTGTCAAGGTTAGGGGCAAAATGG
1 TCATTTTGTCAAGCCTAAGGGCAAAATGG
83523362 TCATTTT
1 TCATTTT
83523369 ACCAAAAAAG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 7 0.23
29 23 0.77
ACGTcount: A:0.27, C:0.12, G:0.25, T:0.36
Consensus pattern (29 bp):
TCATTTTGTCAAGCCTAAGGGCAAAATGG
Found at i:83529604 original size:27 final size:27
Alignment explanation
Indices: 83529573--83529750 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
83529563 TAAATTGTAC
83529573 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
83529600 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
83529626 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
83529654 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
83529682 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
83529709 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
83529736 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
83529751 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:83529687 original size:82 final size:81
Alignment explanation
Indices: 83529574--83529729 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
83529564 AAATTGTACA
* *
83529574 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
83529638 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
83529655 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
83529720 TGCGAGTTGA
65 TGCGAATTGA
83529730 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:83529741 original size:82 final size:81
Alignment explanation
Indices: 83529570--83529750 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
83529560 GATTAAATTG
* *
83529570 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
83529635 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
83529651 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
83529715 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
83529733 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
83529751 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:83533421 original size:8 final size:8
Alignment explanation
Indices: 83533408--83533439 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
83533398 CTAGATCGGC
83533408 AAAAGCCG
1 AAAAGCCG
83533416 AAAAGCCG
1 AAAAGCCG
*
83533424 AAATGCCG
1 AAAAGCCG
83533432 AAAAGCCG
1 AAAAGCCG
83533440 GTATTTGGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.47, C:0.25, G:0.25, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:83533722 original size:28 final size:28
Alignment explanation
Indices: 83533690--83533750 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 28
83533680 GCTAGAATAA
*
83533690 CCCTATGTATGCAAAATTACCATCATAC
1 CCCTATGTATGCAAAATGACCATCATAC
* * *
83533718 CCCTATGTGTGCAAAATGACCTTTATAC
1 CCCTATGTATGCAAAATGACCATCATAC
83533746 CCCTA
1 CCCTA
83533751 GGGTTAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.31, C:0.30, G:0.10, T:0.30
Consensus pattern (28 bp):
CCCTATGTATGCAAAATGACCATCATAC
Found at i:83533956 original size:29 final size:28
Alignment explanation
Indices: 83533866--83533956 Score: 67
Period size: 27 Copynumber: 3.2 Consensus size: 28
83533856 CTAGTGGCTA
* * * * *
83533866 TGCCACAAATTACCTATTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
** * *
83533894 TGCCAC-GTATATTTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
83533921 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
83533950 TGTCACA
1 TGCCACA
83533957 TTTTCTGTAT
Statistics
Matches: 48, Mismatches: 13, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
27 20 0.42
28 13 0.27
29 15 0.31
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:83541579 original size:28 final size:28
Alignment explanation
Indices: 83541547--83541611 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
83541537 ATTTACTAGA
*
83541547 ATACCCCTATGTATGCAAAATTACCATC
1 ATACCCCTATGTATGCAAAATGACCATC
* * *
83541575 ATACCCCTATGTGTGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATC
83541603 ATACCCCTA
1 ATACCCCTA
83541612 GGGTTAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.32, C:0.29, G:0.09, T:0.29
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATC
Found at i:83541775 original size:27 final size:28
Alignment explanation
Indices: 83541717--83541806 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 28
83541707 AGGAAGCGTC
*
83541717 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* **
83541745 CTGGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
83541772 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
83541801 CTGGTG
1 CTGGTG
83541807 ACTCTGTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:83541817 original size:29 final size:28
Alignment explanation
Indices: 83541727--83541817 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 28
83541717 CTGGTGGCTA
* * *
83541727 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
** *
83541755 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
83541782 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
83541811 TGTCACA
1 TGCCACA
83541818 TTTTCTGTAT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
27 23 0.44
28 14 0.27
29 15 0.29
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:83541825 original size:55 final size:56
Alignment explanation
Indices: 83541717--83541831 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
83541707 AGGAAGCGTC
* * *
83541717 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACGTATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
83541772 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
83541828 CTGG
1 CTGG
83541832 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.59
56 20 0.39
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:83552132 original size:246 final size:246
Alignment explanation
Indices: 83551698--83552406 Score: 1391
Period size: 246 Copynumber: 2.9 Consensus size: 246
83551688 TAAAATGCCC
83551698 TAAATGTGTGTTTTTGGATTGATTTGAATGAATGTGAGTTTGAATAAGTTAAATTTGAATTTATA
1 TAAATGTGTGTTTTTGGATTGATTTGAATGAATGTGAGTTTGAATAAGTTAAATTTGAATTTATA
*
83551763 TAGATCAAGAATTTGAAAAAGTAGAATTAGATCGGGGGAAAGTTGAAAGTCGTTGAGTACCTGAT
66 TAGATCAAGAATTTGAAAAAGTAGAATTAGATCGGGGGAAAGTTGAAAGTCGTCGAGTACCTGAT
83551828 TCCATCTATCCGAATTAGTACGAGGTACGCCTATATACAAATAAATGTATTTGAAATGGTTTATT
131 TCCATCTATCCGAATTAGTACGAGGTACGCCTATATACAAATAAATGTATTTGAAATGGTTTATT
*
83551893 TGTGCTTATATGCTATTTAATAATGATAAATGGCTTTATATTGAATAATGA
196 TGTGCTTATATGCTATTGAATAATGATAAATGGCTTTATATTGAATAATGA
83551944 TAAATGTGTGTTTTTGGATTGATTTGAATGAATGTGAGTTTGAATAAGTTAAATTTGAATTTATA
1 TAAATGTGTGTTTTTGGATTGATTTGAATGAATGTGAGTTTGAATAAGTTAAATTTGAATTTATA
83552009 TAGATCAAGAATTTGAAAAAGTAGAATTAGATCGGGGGAAAGTTGAAAGTCGTCGAGTACCTGAT
66 TAGATCAAGAATTTGAAAAAGTAGAATTAGATCGGGGGAAAGTTGAAAGTCGTCGAGTACCTGAT
83552074 TCCATCTATCCGAATTAGTACGAGGTACGCCTATATACAAATAAATGTATTTGAAATGGTTTATT
131 TCCATCTATCCGAATTAGTACGAGGTACGCCTATATACAAATAAATGTATTTGAAATGGTTTATT
83552139 TGTGCTTATATGCTATTGAATAATGATAAATGGCTTTATATTGAATAATGA
196 TGTGCTTATATGCTATTGAATAATGATAAATGGCTTTATATTGAATAATGA
83552190 TAAATGTGTGTTTTTGGATTGATTTGAATGAATGTGAGTTTGAATAAGTTAAATTTGAATTTATA
1 TAAATGTGTGTTTTTGGATTGATTTGAATGAATGTGAGTTTGAATAAGTTAAATTTGAATTTATA
83552255 TAGATCAAGAATTTGAAAAAGTAGAATTAGATCGGGGGAAAGTTGAAAGTCGTCGAGTACCTGAT
66 TAGATCAAGAATTTGAAAAAGTAGAATTAGATCGGGGGAAAGTTGAAAGTCGTCGAGTACCTGAT
83552320 TCCATCTATCCGAATTAGTACGAGGTACGCCTATATACAAATAAATGTATTTGAAATGGTTTATT
131 TCCATCTATCCGAATTAGTACGAGGTACGCCTATATACAAATAAATGTATTTGAAATGGTTTATT
*
83552385 TATGCTTATATGCTATTGAATA
196 TGTGCTTATATGCTATTGAATA
83552407 TGAGATATCT
Statistics
Matches: 460, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
246 460 1.00
ACGTcount: A:0.35, C:0.08, G:0.21, T:0.37
Consensus pattern (246 bp):
TAAATGTGTGTTTTTGGATTGATTTGAATGAATGTGAGTTTGAATAAGTTAAATTTGAATTTATA
TAGATCAAGAATTTGAAAAAGTAGAATTAGATCGGGGGAAAGTTGAAAGTCGTCGAGTACCTGAT
TCCATCTATCCGAATTAGTACGAGGTACGCCTATATACAAATAAATGTATTTGAAATGGTTTATT
TGTGCTTATATGCTATTGAATAATGATAAATGGCTTTATATTGAATAATGA
Found at i:83554175 original size:27 final size:27
Alignment explanation
Indices: 83554145--83554231 Score: 88
Period size: 27 Copynumber: 3.2 Consensus size: 27
83554135 GATTCAAAAG
83554145 TATATATTAAGTCCGCACACTCAGTGC
1 TATATATTAAGTCCGCACACTCAGTGC
* *
83554172 TATATAATCAACT-CGCACACTCAGTGC
1 TATAT-ATTAAGTCCGCACACTCAGTGC
* * * *
83554199 TATATAAT-CGACTCGCACACTTAGTGC
1 TATATATTAAGTC-CGCACACTCAGTGC
83554226 TATATA
1 TATATA
83554232 ATCAAACTCG
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
26 1 0.02
27 43 0.88
28 5 0.10
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.30
Consensus pattern (27 bp):
TATATATTAAGTCCGCACACTCAGTGC
Found at i:83554232 original size:27 final size:27
Alignment explanation
Indices: 83554158--83554254 Score: 158
Period size: 27 Copynumber: 3.6 Consensus size: 27
83554148 ATATTAAGTC
83554158 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
83554185 CGCACACTCAGTGCTATATAATCGACT
1 CGCACACTCAGTGCTATATAATCAACT
*
83554212 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
83554240 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
83554255 GTACAATTTA
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
27 48 0.73
28 18 0.27
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:83554277 original size:29 final size:28
Alignment explanation
Indices: 83554157--83554282 Score: 130
Period size: 27 Copynumber: 4.5 Consensus size: 28
83554147 TATATTAAGT
* *
83554157 CCGCACACTCAGTGCTATATAATC-AAC
1 CCGCACACTTAGTGCTATACAATCAAAC
* * * *
83554184 TCGCACACTCAGTGCTATATAATC-GAC
1 CCGCACACTTAGTGCTATACAATCAAAC
* *
83554211 TCGCACACTTAGTGCTATATAATCAAAC
1 CCGCACACTTAGTGCTATACAATCAAAC
* * *
83554239 TCGCACACTTAGTGCTGTACAATTTAAAC
1 CCGCACACTTAGTGCTATACAA-TCAAAC
83554268 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
83554283 CAATCTCATG
Statistics
Matches: 89, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
27 48 0.54
28 22 0.25
29 19 0.21
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CCGCACACTTAGTGCTATACAATCAAAC
Found at i:83554746 original size:12 final size:12
Alignment explanation
Indices: 83554729--83554755 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
83554719 TGGGCATACT
83554729 TATGTATATATA
1 TATGTATATATA
83554741 TATGTATATATA
1 TATGTATATATA
83554753 TAT
1 TAT
83554756 ATACTTCGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATGTATATATA
Found at i:83555354 original size:61 final size:61
Alignment explanation
Indices: 83555278--83555417 Score: 280
Period size: 61 Copynumber: 2.3 Consensus size: 61
83555268 AGAAAGATGG
83555278 ACACTTTTTTTTTGTTTTTTTTCTTTCTAGTTTCGGCCAAATGGGGGGGGGGAACAACCAC
1 ACACTTTTTTTTTGTTTTTTTTCTTTCTAGTTTCGGCCAAATGGGGGGGGGGAACAACCAC
83555339 ACACTTTTTTTTTGTTTTTTTTCTTTCTAGTTTCGGCCAAATGGGGGGGGGGAACAACCAC
1 ACACTTTTTTTTTGTTTTTTTTCTTTCTAGTTTCGGCCAAATGGGGGGGGGGAACAACCAC
83555400 ACACTTTTTTTTTGTTTT
1 ACACTTTTTTTTTGTTTT
83555418 CATCATATTC
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 79 1.00
ACGTcount: A:0.17, C:0.17, G:0.21, T:0.45
Consensus pattern (61 bp):
ACACTTTTTTTTTGTTTTTTTTCTTTCTAGTTTCGGCCAAATGGGGGGGGGGAACAACCAC
Found at i:83561596 original size:44 final size:44
Alignment explanation
Indices: 83561513--83561596 Score: 114
Period size: 44 Copynumber: 1.9 Consensus size: 44
83561503 CATGTATCGT
* * * * *
83561513 ATCCATTATGAACTCGGACCAATTCAATGAGTTCGGATGCTCGC
1 ATCCATAATGAACTCGGACCAACTCAAAGAGCTCAGATGCTCGC
*
83561557 ATCCATAATGAACTCTGACCAACTCAAAGAGCTCAGATGC
1 ATCCATAATGAACTCGGACCAACTCAAAGAGCTCAGATGC
83561597 CTCATATATA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 34 1.00
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (44 bp):
ATCCATAATGAACTCGGACCAACTCAAAGAGCTCAGATGCTCGC
Found at i:83580460 original size:40 final size:39
Alignment explanation
Indices: 83580429--83580638 Score: 233
Period size: 40 Copynumber: 5.3 Consensus size: 39
83580419 GGACTAAGAT
* *
83580429 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
83580469 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
83580509 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* ** *
83580549 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGAT-ACAAATCCGGGTTAAGTC
* * * * *
83580589 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
83580628 CCGAAGGCATT
1 CCGAAGGCATT
83580639 TGAACGAGGA
Statistics
Matches: 153, Mismatches: 13, Indels: 9
0.87 0.07 0.05
Matches are distributed among these distances:
39 33 0.22
40 117 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:83580592 original size:120 final size:120
Alignment explanation
Indices: 83580376--83580638 Score: 300
Period size: 120 Copynumber: 2.2 Consensus size: 120
83580366 TTGAATGCTG
* *
83580376 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
83580440 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
83580496 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * * * *
83580559 TCGTGCGAGTTGTTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
83580615 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
83580639 TGAACGAGGA
Statistics
Matches: 120, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
119 38 0.32
120 73 0.61
121 9 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:83580658 original size:79 final size:80
Alignment explanation
Indices: 83580429--83580673 Score: 228
Period size: 80 Copynumber: 3.1 Consensus size: 80
83580419 GGACTAAGAT
* * * * * * * ** *
83580429 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGA-GATAC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGA-GC
83580492 TAAATCCGGGTTAAGTC
64 TAAATCCGGGTTAAGTC
* * * ** ** *
83580509 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
83580574 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
83580589 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
83580653 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
83580667 CCGAAGG
1 CCGAAGG
83580674 TACGTGATTT
Statistics
Matches: 138, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
78 14 0.10
79 46 0.33
80 75 0.54
81 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:83588411 original size:40 final size:40
Alignment explanation
Indices: 83588367--83588590 Score: 308
Period size: 40 Copynumber: 5.6 Consensus size: 40
83588357 AAGTGAATAT
* * * * **
83588367 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAA
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTGTTAA
83588407 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
83588447 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
83588487 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * **
83588527 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * *
83588566 AACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATT
83588591 TGAACGAGGA
Statistics
Matches: 171, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 35 0.20
40 136 0.80
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
Found at i:83588465 original size:80 final size:80
Alignment explanation
Indices: 83588328--83588590 Score: 318
Period size: 80 Copynumber: 3.3 Consensus size: 80
83588318 TTGAATGCTG
* * * * *
83588328 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGAATATATCCGGATTAAGAT-CCGAAGGCC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCC
*
83588390 TTTGTGCGAGATACTAAA
63 TTTGTGCGAGTTACTAAA
* * *
83588408 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
**
83588473 GTGCGAGTTGTTAAA
66 GTGCGAGTTACTAAA
* * *
83588488 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
83588552 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* *
83588567 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
83588591 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
79 35 0.22
80 116 0.73
81 8 0.05
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
GTGCGAGTTACTAAA
Found at i:83588542 original size:120 final size:120
Alignment explanation
Indices: 83588328--83588590 Score: 318
Period size: 120 Copynumber: 2.2 Consensus size: 120
83588318 TTGAATGCTG
* * *
83588328 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
* **
83588392 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
66 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* * * *
83588448 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAG-TGAATAAATCCGGATTAAGAT-CCGAAGGCA
* ** * *
83588510 TTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
64 TTCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
83588567 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
83588591 TGAACGAGGA
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
119 34 0.28
120 80 0.66
121 8 0.07
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:83596110 original size:42 final size:42
Alignment explanation
Indices: 83596051--83596255 Score: 279
Period size: 42 Copynumber: 4.9 Consensus size: 42
83596041 TCAGCCTCGG
83596051 TATGTGATTTCATGTAAGACCATATCTGGGATATGGCATTGA
1 TATGTGATTTCATGTAAGACCATATCTGGGATATGGCATTGA
83596093 TATGTGATTTCATGTAAGACCATATCTGGGATATGGCATTGA
1 TATGTGATTTCATGTAAGACCATATCTGGGATATGGCATTGA
*
83596135 TATGTGATTTCATGTAAGACTATATCTGGGATATGGCATTGA
1 TATGTGATTTCATGTAAGACCATATCTGGGATATGGCATTGA
* * * * * *
83596177 TATGAGATTTCGTGTAAGACCATGTTTGGGACATGGCATCG-
1 TATGTGATTTCATGTAAGACCATATCTGGGATATGGCATTGA
* * * *
83596218 -ATGTGAAGTCTCGTGTAAGACCATGTCTGGGACATGGC
1 TATGTG-A-TTTCATGTAAGACCATATCTGGGATATGGC
83596256 TTTGGATTTC
Statistics
Matches: 150, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
40 4 0.03
41 1 0.01
42 145 0.97
ACGTcount: A:0.27, C:0.13, G:0.26, T:0.34
Consensus pattern (42 bp):
TATGTGATTTCATGTAAGACCATATCTGGGATATGGCATTGA
Found at i:83600476 original size:40 final size:39
Alignment explanation
Indices: 83600445--83600654 Score: 233
Period size: 40 Copynumber: 5.3 Consensus size: 39
83600435 GGACTAAGAT
* *
83600445 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
83600485 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
83600525 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* ** *
83600565 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGAT-ACAAATCCGGGTTAAGTC
* * * * *
83600605 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
83600644 CCGAAGGCATT
1 CCGAAGGCATT
83600655 TGAACGAGGA
Statistics
Matches: 153, Mismatches: 13, Indels: 9
0.87 0.07 0.05
Matches are distributed among these distances:
39 33 0.22
40 117 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:83600608 original size:120 final size:120
Alignment explanation
Indices: 83600392--83600654 Score: 300
Period size: 120 Copynumber: 2.2 Consensus size: 120
83600382 TTGAATGCTG
* *
83600392 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
83600456 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
83600512 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * * * *
83600575 TCGTGCGAGTTGTTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
83600631 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
83600655 TGAACGAGGA
Statistics
Matches: 120, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
119 38 0.32
120 73 0.61
121 9 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:83600674 original size:79 final size:80
Alignment explanation
Indices: 83600445--83600689 Score: 228
Period size: 80 Copynumber: 3.1 Consensus size: 80
83600435 GGACTAAGAT
* * * * * * * ** *
83600445 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGA-GATAC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGA-GC
83600508 TAAATCCGGGTTAAGTC
64 TAAATCCGGGTTAAGTC
* * * ** ** *
83600525 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
83600590 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
83600605 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
83600669 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
83600683 CCGAAGG
1 CCGAAGG
83600690 TACGTGATTT
Statistics
Matches: 138, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
78 14 0.10
79 46 0.33
80 75 0.54
81 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:83603188 original size:45 final size:46
Alignment explanation
Indices: 83603111--83603237 Score: 132
Period size: 45 Copynumber: 2.7 Consensus size: 46
83603101 ATATCAATTC
* * * *
83603111 ATAAGAGCTTACTGTTTTCAGCTCATTGGAGCTTATC-GTTTTAGCTCG
1 ATAA-AGCTTACT-ATTTCAGCTCAATAGAGCTTA-CAGTTTTAGCTCA
* ** **
83603159 TTTGAGCTTACTA-TTCAGCTTGATAGAGCTTACAGTTTTAGCTCA
1 ATAAAGCTTACTATTTCAGCTCAATAGAGCTTACAGTTTTAGCTCA
83603204 ATAAAGCTTACTATTTCAGCTCAATAGAGCTTAC
1 ATAAAGCTTACTATTTCAGCTCAATAGAGCTTAC
83603238 TATTCATCAG
Statistics
Matches: 63, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
44 1 0.02
45 35 0.56
46 18 0.29
47 8 0.13
48 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (46 bp):
ATAAAGCTTACTATTTCAGCTCAATAGAGCTTACAGTTTTAGCTCA
Found at i:83603225 original size:68 final size:69
Alignment explanation
Indices: 83603114--83603243 Score: 158
Period size: 68 Copynumber: 1.9 Consensus size: 69
83603104 TCAATTCATA
* * ** ** *
83603114 AGAGCTTACTGTTTTCAGCTCATTGGAGCTTATCGTTTTAGCTCGTTTGAGCTTACTATTCAGCT
1 AGAGCTTACAGTTTTCAGCTCAATAAAGCTTATCGTTTTAGCTCAATAGAGCTTACTATTCAGCT
83603179 TGAT
66 TGAT
83603183 AGAGCTTACAGTTTT-AGCTCAATAAAGCTTA-C-TATTTCAGCTCAATAGAGCTTACTATTCA
1 AGAGCTTACAGTTTTCAGCTCAATAAAGCTTATCGT-TTT-AGCTCAATAGAGCTTACTATTCA
83603244 TCAGCTCAGG
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
66 1 0.02
67 4 0.08
68 33 0.63
69 14 0.27
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.38
Consensus pattern (69 bp):
AGAGCTTACAGTTTTCAGCTCAATAAAGCTTATCGTTTTAGCTCAATAGAGCTTACTATTCAGCT
TGAT
Found at i:83603239 original size:23 final size:23
Alignment explanation
Indices: 83603114--83603251 Score: 104
Period size: 23 Copynumber: 5.9 Consensus size: 23
83603104 TCAATTCATA
* *
83603114 AGAGCTTACTGTTTTCAGCTCATT
1 AGAGCTTACT-ATTTCAGCTCAAT
* **
83603138 GGAGCTTATCGT-TTT-AGCTCGTT
1 AGAGCTTA-C-TATTTCAGCTCAAT
* **
83603161 TGAGCTTACTA-TTCAGCTTGAT
1 AGAGCTTACTATTTCAGCTCAAT
*
83603183 AGAGCTTAC-AGTTTTAGCTCAAT
1 AGAGCTTACTA-TTTCAGCTCAAT
*
83603206 AAAGCTTACTATTTCAGCTCAAT
1 AGAGCTTACTATTTCAGCTCAAT
83603229 AGAGCTTACTATTCATCAGCTCA
1 AGAGCTTACTATT--TCAGCTCA
83603252 GGAGGATCTT
Statistics
Matches: 93, Mismatches: 12, Indels: 17
0.76 0.10 0.14
Matches are distributed among these distances:
21 4 0.04
22 15 0.16
23 53 0.57
24 11 0.12
25 9 0.10
26 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (23 bp):
AGAGCTTACTATTTCAGCTCAAT
Found at i:83604612 original size:43 final size:43
Alignment explanation
Indices: 83604563--83604644 Score: 146
Period size: 43 Copynumber: 1.9 Consensus size: 43
83604553 ATGGGCCTTT
*
83604563 CTACTAGCCGTGTGAGGCACACGGCCTGTTCACACAGGCATGG
1 CTACTAGCCGTGTGAGGCACACGGCCTGTTCACAAAGGCATGG
*
83604606 CTACTAGCTGTGTGAGGCACACGGCCTGTTCACAAAGGC
1 CTACTAGCCGTGTGAGGCACACGGCCTGTTCACAAAGGC
83604645 GTGTGACTCT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.22, C:0.29, G:0.29, T:0.20
Consensus pattern (43 bp):
CTACTAGCCGTGTGAGGCACACGGCCTGTTCACAAAGGCATGG
Found at i:83607644 original size:43 final size:43
Alignment explanation
Indices: 83607588--83607747 Score: 130
Period size: 43 Copynumber: 3.7 Consensus size: 43
83607578 ACATAGGATT
* *
83607588 TCGATATGTGATTTCGTGTAAGACCACGTCTGGGACATTGGCA
1 TCGATTTGTGATTTCATGTAAGACCACGTCTGGGACATTGGCA
* * * * * * *
83607631 TCGATTTGAGATTT-ACGTGCAGAACTATGTCTAGGACATTGACA
1 TCGATTTGTGATTTCATGT-AAG-ACCACGTCTGGGACATTGGCA
* * * *
83607675 TCG-TTTTTGATTTTATGTAAGACC-CTGTCTGGGATAGTGGCA
1 TCGATTTGTGATTTCATGTAAGACCAC-GTCTGGGACATTGGCA
*
83607717 TCGATATT-TGATTACATGTAAGACCACGTCT
1 TCGAT-TTGTGATTTCATGTAAGACCACGTCT
83607748 CGGATGTTGG
Statistics
Matches: 89, Mismatches: 21, Indels: 14
0.72 0.17 0.11
Matches are distributed among these distances:
42 19 0.21
43 44 0.49
44 26 0.29
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (43 bp):
TCGATTTGTGATTTCATGTAAGACCACGTCTGGGACATTGGCA
Found at i:83614658 original size:21 final size:21
Alignment explanation
Indices: 83614628--83614709 Score: 67
Period size: 21 Copynumber: 3.8 Consensus size: 21
83614618 TACATACATC
83614628 ATGAGCTCAGACCACAACTCA
1 ATGAGCTCAGACCACAACTCA
* *
83614649 ATGAGTTCAGATGTCACATACATC-
1 ATGAGCTCAGA--CCACA-AC-TCA
*
83614673 ATGAACTCAGACCACAACTCA
1 ATGAGCTCAGACCACAACTCA
* * *
83614694 ATAAGTTCAGATCACA
1 ATGAGCTCAGACCACA
83614710 TAGTTCCTAG
Statistics
Matches: 47, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
20 2 0.04
21 24 0.51
22 4 0.09
23 4 0.09
24 11 0.23
25 2 0.04
ACGTcount: A:0.39, C:0.27, G:0.13, T:0.21
Consensus pattern (21 bp):
ATGAGCTCAGACCACAACTCA
Found at i:83614669 original size:45 final size:45
Alignment explanation
Indices: 83614619--83614705 Score: 156
Period size: 45 Copynumber: 1.9 Consensus size: 45
83614609 AACATGTGCT
* *
83614619 ACATACATCATGAGCTCAGACCACAACTCAATGAGTTCAGATGTC
1 ACATACATCATGAACTCAGACCACAACTCAATAAGTTCAGATGTC
83614664 ACATACATCATGAACTCAGACCACAACTCAATAAGTTCAGAT
1 ACATACATCATGAACTCAGACCACAACTCAATAAGTTCAGAT
83614706 CACATAGTTC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.39, C:0.26, G:0.13, T:0.22
Consensus pattern (45 bp):
ACATACATCATGAACTCAGACCACAACTCAATAAGTTCAGATGTC
Found at i:83617294 original size:30 final size:30
Alignment explanation
Indices: 83617260--83617320 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
83617250 TTCCCGAGCC
*
83617260 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATCCAAAAGTT
* * *
83617290 TAGGGGCAAAATTGTAATTTTCCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATCCAAAAGTT
83617320 T
1 T
83617321 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATCCAAAAGTT
Found at i:83618024 original size:751 final size:751
Alignment explanation
Indices: 83616583--83618084 Score: 2977
Period size: 751 Copynumber: 2.0 Consensus size: 751
83616573 TTGAATGTAT
83616583 AATGATATTTGGCTTTGAAAGTTGAATGACAATTTGTAAAATGTTAACCTTATAAATATTCGACC
1 AATGATATTTGGCTTTGAAAGTTGAATGACAATTTGTAAAATGTTAACCTTATAAATATTCGACC
83616648 AAAGTTATAGTTATGTTGAACATGTGTGGCTATGGATTGAATAAGTTGAAATTAAATGAGACATT
66 AAAGTTATAGTTATGTTGAACATGTGTGGCTATGGATTGAATAAGTTGAAATTAAATGAGACATT
83616713 GATATAGTAAATTAGTTGAGTTTAAATTTTAAGGAGTTGAATAATTTATTGAGTTGATATTTGCT
131 GATATAGTAAATTAGTTGAGTTTAAATTTTAAGGAGTTGAATAATTTATTGAGTTGATATTTGCT
83616778 TACGACTTACTAAGCTATAAAAGCTTACTCTGTGTATATATGTGTTTCTGTTTTTGTAATAGCCC
196 TACGACTTACTAAGCTATAAAAGCTTACTCTGTGTATATATGTGTTTCTGTTTTTGTAATAGCCC
83616843 AAAATTGGGTCTAGTTGGAACAGAGGTTTCGGGACCACAAAATATGAGATAAAAATAATTATTTT
261 AAAATTGGGTCTAGTTGGAACAGAGGTTTCGGGACCACAAAATATGAGATAAAAATAATTATTTT
83616908 ATGATTATTTTGAGGTCTATGATATGATTGCATGATTGTGTGAAAATTTCGTGAAGAAATTCTAT
326 ATGATTATTTTGAGGTCTATGATATGATTGCATGATTGTGTGAAAATTTCGTGAAGAAATTCTAT
83616973 GCATAAAGTGCTCAATTTGAAGTTAGGGACTAAATTGAATAAGTTGCAAAACTTGCATTCTAGAA
391 GCATAAAGTGCTCAATTTGAAGTTAGGGACTAAATTGAATAAGTTGCAAAACTTGCATTCTAGAA
83617038 GTTTATTTTTCTGTTTTATGATAGAATATGAGGTTTTAGATTATGTTAGACAACTTGTGCTACTC
456 GTTTATTTTTCTGTTTTATGATAGAATATGAGGTTTTAGATTATGTTAGACAACTTGTGCTACTC
83617103 GGTTTTGAGTGAAAACGAGTAAAAGGGCTTAATCGGTAAAAATACCTAATAGTCATAAGTATATG
521 GGTTTTGAGTGAAAACGAGTAAAAGGGCTTAATCGGTAAAAATACCTAATAGTCATAAGTATATG
* * *
83617168 TTAGAGTGAGAATTTGATGTTGCCATAGAAGGGAAAAGTGATCAGCATGTCATAAAACATAAGAA
586 TTAGAGTGAGAATTTGATGTTGACATAGAAAGGAAAAGTGATCACCATGTCATAAAACATAAGAA
83617233 TAAGGGATGAAGTTTAATTCCCGAGCCTAGGGGCAAAAGTGTAAATATGCAAAAGTTTAGGGGCA
651 TAAGGGATGAAGTTTAATTCCCGAGCCTAGGGGCAAAAGTGTAAATATGCAAAAGTTTAGGGGCA
83617298 AAATTGTAATTTTCCAAAAGTTTGAGTTAAGGATTG
716 AAATTGTAATTTTCCAAAAGTTTGAGTTAAGGATTG
83617334 AATGATATTTGGCTTTGAAAGTTGAATGACAATTTGTAAAATGTTAACCTTATAAATATTCGACC
1 AATGATATTTGGCTTTGAAAGTTGAATGACAATTTGTAAAATGTTAACCTTATAAATATTCGACC
83617399 AAAGTTATAGTTATGTTGAACATGTGTGGCTATGGATTGAATAAGTTGAAATTAAATGAGACATT
66 AAAGTTATAGTTATGTTGAACATGTGTGGCTATGGATTGAATAAGTTGAAATTAAATGAGACATT
83617464 GATATAGTAAATTAGTTGAGTTTAAATTTTAAGGAGTTGAATAATTTATTGAGTTGATATTTGCT
131 GATATAGTAAATTAGTTGAGTTTAAATTTTAAGGAGTTGAATAATTTATTGAGTTGATATTTGCT
83617529 TACGACTTACTAAGCTATAAAAGCTTACTCTGTGTATATATGTGTTTCTGTTTTTGTAATAGCCC
196 TACGACTTACTAAGCTATAAAAGCTTACTCTGTGTATATATGTGTTTCTGTTTTTGTAATAGCCC
83617594 AAAATTGGGTCTAGTTGGAACAGAGGTTTCGGGACCACAAAATATGAGATAAAAATAATTATTTT
261 AAAATTGGGTCTAGTTGGAACAGAGGTTTCGGGACCACAAAATATGAGATAAAAATAATTATTTT
83617659 ATGATTATTTTGAGGTCTATGATATGATTGCATGATTGTGTGAAAATTTCGTGAAGAAATTCTAT
326 ATGATTATTTTGAGGTCTATGATATGATTGCATGATTGTGTGAAAATTTCGTGAAGAAATTCTAT
83617724 GCATAAAGTGCTCAATTTGAAGTTAGGGACTAAATTGAATAAGTTGCAAAACTTGCATTCTAGAA
391 GCATAAAGTGCTCAATTTGAAGTTAGGGACTAAATTGAATAAGTTGCAAAACTTGCATTCTAGAA
83617789 GTTTATTTTTCTGTTTTATGATAGAATATGAGGTTTTAGATTATGTTAGACAACTTGTGCTACTC
456 GTTTATTTTTCTGTTTTATGATAGAATATGAGGTTTTAGATTATGTTAGACAACTTGTGCTACTC
83617854 GGTTTTGAGTGAAAACGAGTAAAAGGGCTTAATCGGTAAAAATACCTAATAGTCATAAGTATATG
521 GGTTTTGAGTGAAAACGAGTAAAAGGGCTTAATCGGTAAAAATACCTAATAGTCATAAGTATATG
83617919 TTAGAGTGAGAATTTGATGTTGACATAGAAAGGAAAAGTGATCACCATGTCATAAAACATAAGAA
586 TTAGAGTGAGAATTTGATGTTGACATAGAAAGGAAAAGTGATCACCATGTCATAAAACATAAGAA
83617984 TAAGGGATGAAGTTTAATTCCCGAGCCTAGGGGCAAAAGTGTAAATATGCAAAAGTTTAGGGGCA
651 TAAGGGATGAAGTTTAATTCCCGAGCCTAGGGGCAAAAGTGTAAATATGCAAAAGTTTAGGGGCA
83618049 AAATTGTAATTTTCCAAAAGTTTGAGTTAAGGATTG
716 AAATTGTAATTTTCCAAAAGTTTGAGTTAAGGATTG
83618085 TTTTTGAATA
Statistics
Matches: 748, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
751 748 1.00
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (751 bp):
AATGATATTTGGCTTTGAAAGTTGAATGACAATTTGTAAAATGTTAACCTTATAAATATTCGACC
AAAGTTATAGTTATGTTGAACATGTGTGGCTATGGATTGAATAAGTTGAAATTAAATGAGACATT
GATATAGTAAATTAGTTGAGTTTAAATTTTAAGGAGTTGAATAATTTATTGAGTTGATATTTGCT
TACGACTTACTAAGCTATAAAAGCTTACTCTGTGTATATATGTGTTTCTGTTTTTGTAATAGCCC
AAAATTGGGTCTAGTTGGAACAGAGGTTTCGGGACCACAAAATATGAGATAAAAATAATTATTTT
ATGATTATTTTGAGGTCTATGATATGATTGCATGATTGTGTGAAAATTTCGTGAAGAAATTCTAT
GCATAAAGTGCTCAATTTGAAGTTAGGGACTAAATTGAATAAGTTGCAAAACTTGCATTCTAGAA
GTTTATTTTTCTGTTTTATGATAGAATATGAGGTTTTAGATTATGTTAGACAACTTGTGCTACTC
GGTTTTGAGTGAAAACGAGTAAAAGGGCTTAATCGGTAAAAATACCTAATAGTCATAAGTATATG
TTAGAGTGAGAATTTGATGTTGACATAGAAAGGAAAAGTGATCACCATGTCATAAAACATAAGAA
TAAGGGATGAAGTTTAATTCCCGAGCCTAGGGGCAAAAGTGTAAATATGCAAAAGTTTAGGGGCA
AAATTGTAATTTTCCAAAAGTTTGAGTTAAGGATTG
Found at i:83618045 original size:30 final size:30
Alignment explanation
Indices: 83618011--83618071 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
83618001 TTCCCGAGCC
*
83618011 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATCCAAAAGTT
* * *
83618041 TAGGGGCAAAATTGTAATTTTCCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATCCAAAAGTT
83618071 T
1 T
83618072 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATCCAAAAGTT
Found at i:83639312 original size:92 final size:93
Alignment explanation
Indices: 83639190--83639364 Score: 230
Period size: 94 Copynumber: 1.9 Consensus size: 93
83639180 CCTCTATACG
*
83639190 TGTCGATACCATGTCTAAGACATGGTCTTACACTAACACATC-T-CGTAGCCGATGCATGTCCTA
1 TGTCGATACCATGTCTAAGACATGGCCTTACACTAACAC-TCATACGTAGCCGATGCATGTCCTA
83639253 GACATGTCTTACACTAGCTCTTGTCTCAA
65 GACATGTCTTACACTAGCTCTTGTCTCAA
* * * * * *
83639282 TGTCGATGCCATGTCCT-AGACATGGCCTTACACTAGCTCTCATAATGTGGCCGATGCATGTCTT
1 TGTCGATACCATGT-CTAAGACATGGCCTTACACTAACACTCAT-ACGTAGCCGATGCATGTCCT
*
83639346 AGACATGTCTTACATTAGC
64 AGACATGTCTTACACTAGC
83639365 ACACAAATAA
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
91 2 0.03
92 33 0.46
93 2 0.03
94 34 0.48
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (93 bp):
TGTCGATACCATGTCTAAGACATGGCCTTACACTAACACTCATACGTAGCCGATGCATGTCCTAG
ACATGTCTTACACTAGCTCTTGTCTCAA
Found at i:83639342 original size:47 final size:47
Alignment explanation
Indices: 83639237--83639352 Score: 134
Period size: 47 Copynumber: 2.5 Consensus size: 47
83639227 ACATCTCGTA
*
83639237 GCCGATGCATGTCCTAGACAT-GTCTTACACTAGCTCTTGTCTCAATGT
1 GCCGATGCATGTCCTAGACATGGCCTTACACTAGCTC-T-TCTCAATGT
83639285 --CGATGCCATGTCCTAGACATGGCCTTACACTAGCTC-TCAT-AATGT
1 GCCGATG-CATGTCCTAGACATGGCCTTACACTAGCTCTTC-TCAATGT
*
83639330 GGCCGATGCATGTCTTAGACATG
1 -GCCGATGCATGTCCTAGACATG
83639353 TCTTACATTA
Statistics
Matches: 60, Mismatches: 2, Indels: 13
0.80 0.03 0.17
Matches are distributed among these distances:
45 7 0.12
46 6 0.10
47 28 0.47
48 19 0.32
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (47 bp):
GCCGATGCATGTCCTAGACATGGCCTTACACTAGCTCTTCTCAATGT
Found at i:83645057 original size:8 final size:8
Alignment explanation
Indices: 83645044--83645074 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
83645034 ATTAGGGATT
*
83645044 AAAATGTA
1 AAAATGTC
83645052 AAAATGTC
1 AAAATGTC
83645060 AAAATGTC
1 AAAATGTC
83645068 AAAATGT
1 AAAATGT
83645075 GAGGGTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.55, C:0.06, G:0.13, T:0.26
Consensus pattern (8 bp):
AAAATGTC
Found at i:83645555 original size:42 final size:42
Alignment explanation
Indices: 83645449--83645605 Score: 156
Period size: 43 Copynumber: 3.7 Consensus size: 42
83645439 TGTGTTTCCG
* * * *
83645449 TGTAAGACCACATTTGGGATATTGGCATCG-ACTAATGATTTACC
1 TGTAAGACCACATCTGGGACATTGGCATCGTA-T-TTGATTT-CA
** *
83645493 TGTAAGACCATGTCTTGGACATTGGCATCGTATTTGATTTCA
1 TGTAAGACCACATCTGGGACATTGGCATCGTATTTGATTTCA
* *
83645535 TGTAAGACC-CTATCTGGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCAC-ATCTGGGACATTGGCATCG-TATTTGATTTCA
* *
83645578 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACATCTGGGACATTGGCAT
83645606 TGTACAAGAT
Statistics
Matches: 94, Mismatches: 15, Indels: 9
0.80 0.13 0.08
Matches are distributed among these distances:
42 26 0.28
43 40 0.43
44 27 0.29
45 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (42 bp):
TGTAAGACCACATCTGGGACATTGGCATCGTATTTGATTTCA
Found at i:83646147 original size:23 final size:24
Alignment explanation
Indices: 83646121--83646166 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
83646111 AGCCATGTGA
*
83646121 TATGGCTTGGTTCTGGT-TATGAT
1 TATGGCTTGATTCTGGTATATGAT
* *
83646144 TATGGTTTGATTTTGGTATATGA
1 TATGGCTTGATTCTGGTATATGA
83646167 AATGTGATGC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.17, C:0.04, G:0.28, T:0.50
Consensus pattern (24 bp):
TATGGCTTGATTCTGGTATATGAT
Found at i:83647739 original size:58 final size:58
Alignment explanation
Indices: 83647649--83647764 Score: 205
Period size: 58 Copynumber: 2.0 Consensus size: 58
83647639 AACGAGACAC
* * *
83647649 CTAGGATTTCTTTCAAGTTGAATTTCGAAAGAAATGCATCAATTAGAGATTTATCGAT
1 CTAGGATTTCTTTCAAGATGAATTTCAAAAGAAATGCATCAATCAGAGATTTATCGAT
83647707 CTAGGATTTCTTTCAAGATGAATTTCAAAAGAAATGCATCAATCAGAGATTTATCGAT
1 CTAGGATTTCTTTCAAGATGAATTTCAAAAGAAATGCATCAATCAGAGATTTATCGAT
83647765 GAGAAACACA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.34
Consensus pattern (58 bp):
CTAGGATTTCTTTCAAGATGAATTTCAAAAGAAATGCATCAATCAGAGATTTATCGAT
Found at i:83650490 original size:15 final size:15
Alignment explanation
Indices: 83650470--83650499 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
83650460 TGATAATAAG
83650470 ATAAAAGTAGAACGA
1 ATAAAAGTAGAACGA
83650485 ATAAAAGTAGAACGA
1 ATAAAAGTAGAACGA
83650500 GCTCAGTGTG
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:0.60, C:0.07, G:0.20, T:0.13
Consensus pattern (15 bp):
ATAAAAGTAGAACGA
Found at i:83653222 original size:42 final size:43
Alignment explanation
Indices: 83653161--83653260 Score: 125
Period size: 42 Copynumber: 2.3 Consensus size: 43
83653151 GACTGATGAT
*
83653161 TTACCTGTAAGACCATGTCT-AGGA-AATTGGCATCG-TATTCGA
1 TTACATGTAAGACCATGTCTGA-GACAA-TGGCATCGATATTCGA
* * *
83653203 TTTCATGTAAGACCCTGTCTGAGACAATGGCATCGATATTTGA
1 TTACATGTAAGACCATGTCTGAGACAATGGCATCGATATTCGA
83653246 TTACATGTAAGACCA
1 TTACATGTAAGACCA
83653261 CGTCCGGGAC
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
42 27 0.55
43 22 0.45
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (43 bp):
TTACATGTAAGACCATGTCTGAGACAATGGCATCGATATTCGA
Found at i:83653277 original size:43 final size:43
Alignment explanation
Indices: 83653122--83653278 Score: 133
Period size: 43 Copynumber: 3.7 Consensus size: 43
83653112 TGTGTTTCCG
* ** *
83653122 TGTAAGACCACATCTGGGATGTTGGCATCGACTGA--TGATTTACC
1 TGTAAGACCACGTCTGGGACATTGGCATCGA-T-ATTTGA-TTACA
* * * * *
83653166 TGTAAGACCATGTCTAGGAAATTGGCATCG-TATTCGATTTCA
1 TGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTACA
* *
83653208 TGTAAGACC-CTGTCTGAGACAATGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGACATTGGCATCGATATTTGATTACA
* *
83653251 TGTAAGACCACGTCCGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACATTGGCAT
83653279 TGTACGAGCT
Statistics
Matches: 89, Mismatches: 19, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
41 1 0.01
42 28 0.31
43 34 0.38
44 26 0.29
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTACA
Found at i:83653819 original size:23 final size:24
Alignment explanation
Indices: 83653793--83653837 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
83653783 AGCCATGTGA
*
83653793 TATGGCTTGGTTTTGGT-TATGAT
1 TATGGCTTGATTTTGGTATATGAT
*
83653816 TATGGTTTGATTTTGGTATATG
1 TATGGCTTGATTTTGGTATATG
83653838 GAATGTGATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.16, C:0.02, G:0.29, T:0.53
Consensus pattern (24 bp):
TATGGCTTGATTTTGGTATATGAT
Found at i:83655794 original size:27 final size:26
Alignment explanation
Indices: 83655746--83655805 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
83655736 GCGAGGCTGC
* *
83655746 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCA-AAA
* * *
83655773 CAGATATTGTGGCTAGGCCACCAAAA
1 CAGATATTGTGACGAAGCCACCAAAA
83655799 CAGATAT
1 CAGATAT
83655806 ATATATGTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 9 0.32
27 19 0.68
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAAAA
Found at i:83656577 original size:27 final size:27
Alignment explanation
Indices: 83656547--83656664 Score: 155
Period size: 27 Copynumber: 4.4 Consensus size: 27
83656537 GGGCAAAATG
* * * *
83656547 GTAATTTTACCCCACAAGGGTATCTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
83656574 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
83656601 ATAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
** *
83656628 GTAATTCTACTTTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
83656655 GTAATTCTAC
1 GTAATTCTAC
83656665 AACTTATCCA
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 82 1.00
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:83661735 original size:93 final size:93
Alignment explanation
Indices: 83661623--83661794 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
83661613 CGCCCATAAG
*
83661623 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
83661687 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
83661716 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
83661781 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
83661795 TCAATCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:83661789 original size:46 final size:46
Alignment explanation
Indices: 83661616--83661791 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
83661606 TGTAACCCGC
* *
83661616 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
83661662 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
83661712 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
83661755 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
83661792 TGCTCAATCA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 61 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:83664866 original size:69 final size:67
Alignment explanation
Indices: 83664789--83664928 Score: 199
Period size: 67 Copynumber: 2.1 Consensus size: 67
83664779 TCACTAGATA
* * * * *
83664789 CAGATATTGTGGCTAGGCCACCAGAACATATATATATGTGGCGAAGCCACCAGATTGCAGCGAGG
1 CAGATATTGTGACGAAGCCACCAG-A-ATAGATATATGTGGCGAAGCCACCAGATTGCAGCAAGG
83664854 CTGC
64 CTGC
* *
83664858 CAGATATTGTGACGAAGTCACCAGAATAGATATATGTGGCGAGGCCACCAGATTGCAGCAAGGCT
1 CAGATATTGTGACGAAGCCACCAGAATAGATATATGTGGCGAAGCCACCAGATTGCAGCAAGGCT
83664923 GC
66 GC
83664925 CAGA
1 CAGA
83664929 ATGCTTCCTC
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
67 43 0.67
68 1 0.02
69 20 0.31
ACGTcount: A:0.31, C:0.22, G:0.28, T:0.19
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAGAATAGATATATGTGGCGAAGCCACCAGATTGCAGCAAGGCT
GC
Found at i:83664906 original size:27 final size:26
Alignment explanation
Indices: 83664859--83664909 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
83664849 CGAGGCTGCC
*
83664859 AGATATTGTGACGAAGTCACCAGAAT
1 AGATATTGTGACGAAGCCACCAGAAT
* *
83664885 AGATATATGTGGCGAGGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
83664910 TTGCAGCAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.20
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAT
Found at i:83665597 original size:54 final size:54
Alignment explanation
Indices: 83665539--83665651 Score: 118
Period size: 54 Copynumber: 2.1 Consensus size: 54
83665529 TTAACACCCT
* * ** *
83665539 AGGGGCAAAATGGTAATTTTACCCCACATGGGTATCTCTGTAATTTTACCCTAC
1 AGGGGCAAAATGGTAATTCTACCCCACAGGGGTATCTCAATAATTCTACCCTAC
* *** * * *
83665593 AGGGGTATTTTGGTAATTCTACCCTATAGGGGTATTTCAATAATTCTACCCTAC
1 AGGGGCAAAATGGTAATTCTACCCCACAGGGGTATCTCAATAATTCTACCCTAC
83665647 AGGGG
1 AGGGG
83665652 TATTTCAGTA
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (54 bp):
AGGGGCAAAATGGTAATTCTACCCCACAGGGGTATCTCAATAATTCTACCCTAC
Found at i:83665684 original size:27 final size:27
Alignment explanation
Indices: 83665551--83665694 Score: 164
Period size: 27 Copynumber: 5.3 Consensus size: 27
83665541 GGGCAAAATG
* * * * *
83665551 GTAATTTTACCCCACATGGGTATCTCT
1 GTAATTCTACCCTACAGGGGTATTTCA
* **
83665578 GTAATTTTACCCTACAGGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
83665605 GTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
83665632 ATAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
83665659 GTAATTCTACCTTACAAGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
83665685 GATAATTCTA
1 G-TAATTCTA
83665695 TAACTTATCC
Statistics
Matches: 102, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
26 1 0.01
27 101 0.99
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:83668731 original size:56 final size:56
Alignment explanation
Indices: 83668670--83668803 Score: 223
Period size: 56 Copynumber: 2.4 Consensus size: 56
83668660 GACCATGGCA
*
83668670 TCGATATATGTGTGCGAGTAAGACCACGTTTAATATGTTGGAATCGATATGTGATT
1 TCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGAATCGATATGTGATT
* *
83668726 TCGATATATGTGTGCGAGTAAGACCACTTTTAATACGTTGGCATCGATATGTGATT
1 TCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGAATCGATATGTGATT
* *
83668782 CCGATATATTTGTGCGAGTAAG
1 TCGATATATGTGTGCGAGTAAG
83668804 TCCCTGTCTG
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 73 1.00
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.35
Consensus pattern (56 bp):
TCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGAATCGATATGTGATT
Found at i:83668824 original size:56 final size:56
Alignment explanation
Indices: 83668671--83668837 Score: 187
Period size: 56 Copynumber: 3.0 Consensus size: 56
83668661 ACCATGGCAT
* * * *
83668671 CGATATATGTGTGCGAGTAAGACCACGTT-TAATATGTTGGAATCGATATGTGATTT
1 CGATATATGTGTGCGAGTAAGACCAC-TTCTAAGACGTTGGCATCGATATGTGATTC
* *
83668727 CGATATATGTGTGCGAGTAAGACCACTTTTAATACGTTGGCATCGATATGTGATTC
1 CGATATATGTGTGCGAGTAAGACCACTTCTAAGACGTTGGCATCGATATGTGATTC
* * ** *
83668783 CGATATATTTGTGCGAGTAAGTCC-CTGTCTGGGACAG-TGGCATTGATATGTGATT
1 CGATATATGTGTGCGAGTAAGACCACT-TCTAAGAC-GTTGGCATCGATATGTGATT
83668838 ACATGTAAGA
Statistics
Matches: 98, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
55 4 0.04
56 93 0.95
57 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.35
Consensus pattern (56 bp):
CGATATATGTGTGCGAGTAAGACCACTTCTAAGACGTTGGCATCGATATGTGATTC
Found at i:83672501 original size:23 final size:24
Alignment explanation
Indices: 83672475--83672520 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
83672465 AGCCATGTGA
*
83672475 TATGGCTTGGTTTTGGT-TATGAT
1 TATGGCTTGATTTTGGTATATGAT
*
83672498 TATGGTTTGATTTTGGTATATGA
1 TATGGCTTGATTTTGGTATATGA
83672521 AATGTGATGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.17, C:0.02, G:0.28, T:0.52
Consensus pattern (24 bp):
TATGGCTTGATTTTGGTATATGAT
Found at i:83674244 original size:55 final size:53
Alignment explanation
Indices: 83674113--83674308 Score: 200
Period size: 55 Copynumber: 3.6 Consensus size: 53
83674103 CTTACCATTT
*
83674113 CCATGTCTCGACATGGTCTTACATGGTAACCTTGCCTTATGAACTCACCAATG
1 CCATGTCTTGACATGGTCTTACATGGTAACCTTGCCTTATGAACTCACCAATG
* * * * *
83674166 CCATGCCTTGGCATGGTCTTACATGG-GACCTTTGCCTTATAGTAACTTATCAATG
1 CCATGTCTTGACATGGTCTTACATGGTAACC-TTGCCTTAT-G-AACTCACCAATG
* * * *
83674221 CCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTTACCAATTT
1 CCATGTCTTGACATGGTCTTACATGGTAACCTTGCCTTATG-AA-CTCACCAA-TG
* *
83674276 CCATGCCTT-AGCATGGTCTTACATGGTATCCTT
1 CCATGTCTTGA-CATGGTCTTACATGGTAACCTT
83674309 ATACCTTAAT
Statistics
Matches: 120, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
52 3 0.03
53 35 0.29
54 9 0.08
55 71 0.59
56 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (53 bp):
CCATGTCTTGACATGGTCTTACATGGTAACCTTGCCTTATGAACTCACCAATG
Found at i:83674693 original size:30 final size:30
Alignment explanation
Indices: 83674645--83674703 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
83674635 TCCTTGACTC
*
83674645 AAACTTTGACAAAATTACATTTTTACCCCT
1 AAACTTTGACAAAATTACACTTTTACCCCT
* * * *
83674675 AAACTTTTACATATTTACACTTTTGCCCC
1 AAACTTTGACAAAATTACACTTTTACCCC
83674704 AAGGCTCGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.32, C:0.25, G:0.03, T:0.39
Consensus pattern (30 bp):
AAACTTTGACAAAATTACACTTTTACCCCT
Found at i:83678410 original size:37 final size:37
Alignment explanation
Indices: 83678351--83678452 Score: 168
Period size: 37 Copynumber: 2.8 Consensus size: 37
83678341 AGCTCAGACG
* *
83678351 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
83678388 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
83678425 TAATCTCCAGACGTAGTCATCGGGTCTT
1 AAATCTCCACACGTAGTCATCGGGTCTT
83678453 TAGAGCTCGG
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:83678649 original size:47 final size:47
Alignment explanation
Indices: 83678571--83679362 Score: 1206
Period size: 47 Copynumber: 16.6 Consensus size: 47
83678561 CCCTTCGGGA
* * * * *
83678571 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
* * *
83678618 CTTGTCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
83678665 CTTATCACATATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTCGGC
* *
83678714 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
* * *
83678761 CTTATCACATATATACACTTTCACATTTATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
* * * *
83678808 CTTATCACATATATACACTTTCACATTCATCAGATCAGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
* *
83678855 CTTATCACATATATACACTTTCACATTCATCATATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
83678902 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTCGGC
* *
83678951 CTTATCACATATATACACTTTCACATTCATCATATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
* *
83678998 CTTATCACATATATATACACTTTCACATTAATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTCGGC
* * *
83679047 CTTATCACATATACACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
83679094 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
83679145 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
83679192 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
83679239 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
83679286 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
83679333 CTTATCACATATATACACTTTCACATTCAT
1 CTTATCACATATATACACTTTCACATTCAT
83679363 TCAAATATAC
Statistics
Matches: 692, Mismatches: 43, Indels: 20
0.92 0.06 0.03
Matches are distributed among these distances:
47 517 0.75
49 131 0.19
51 44 0.06
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
Found at i:83681681 original size:85 final size:85
Alignment explanation
Indices: 83681560--83682407 Score: 1696
Period size: 85 Copynumber: 10.0 Consensus size: 85
83681550 TGCCCATGCC
83681560 CTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGCCATA
1 CTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGCCATA
83681625 ACATCTTGTCCACCCATGTT
66 ACATCTTGTCCACCCATGTT
83681645 CTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGCCATA
1 CTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGCCATA
83681710 ACATCTTGTCCACCCATGTT
66 ACATCTTGTCCACCCATGTT
83681730 CTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGCCATA
1 CTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGCCATA
83681795 ACATCTTGTCCACCCATGTT
66 ACATCTTGTCCACCCATGTT
83681815 CTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGCCATA
1 CTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGCCATA
83681880 ACATCTTGTCCACCCATGTT
66 ACATCTTGTCCACCCATGTT
83681900 CTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGCCATA
1 CTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGCCATA
83681965 ACATCTTGTCCACCCATGTT
66 ACATCTTGTCCACCCATGTT
83681985 CTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGCCATA
1 CTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGCCATA
83682050 ACATCTTGTCCACCCATGTT
66 ACATCTTGTCCACCCATGTT
83682070 CTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGCCATA
1 CTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGCCATA
83682135 ACATCTTGTCCACCCATGTT
66 ACATCTTGTCCACCCATGTT
83682155 CTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGCCATA
1 CTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGCCATA
83682220 ACATCTTGTCCACCCATGTT
66 ACATCTTGTCCACCCATGTT
83682240 CTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGCCATA
1 CTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGCCATA
83682305 ACATCTTGTCCACCCATGTT
66 ACATCTTGTCCACCCATGTT
83682325 CTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGCCATA
1 CTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGCCATA
83682390 ACATCTTGTCCACCCATG
66 ACATCTTGTCCACCCATG
83682408 CTCATGGCCG
Statistics
Matches: 763, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 763 1.00
ACGTcount: A:0.27, C:0.25, G:0.08, T:0.40
Consensus pattern (85 bp):
CTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGCCATA
ACATCTTGTCCACCCATGTT
Found at i:83684105 original size:40 final size:40
Alignment explanation
Indices: 83684075--83684384 Score: 469
Period size: 40 Copynumber: 7.8 Consensus size: 40
83684065 AGCATGATTA
* * *
83684075 CTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
* ** *
83684115 CTCTTTGGGGTTTAGCACGGATATATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
** *
83684155 CTCTTCGAAACTTAGCCCGGATACATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
* *
83684195 CTCCTCGGGACTTAGCTCGGATATATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
* *
83684235 CTCCTCGGGACTTAGCCCGGATATATTACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
*
83684275 CTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
83684315 CTCCTT-GGGACTTAGCCCGGATATATCACTAGCACGAATG
1 CT-CTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
83684355 CTCTTCGGGACTTAGCCCGGATATATCACT
1 CTCTTCGGGACTTAGCCCGGATATATCACT
83684385 CTCAATTCTC
Statistics
Matches: 245, Mismatches: 23, Indels: 4
0.90 0.08 0.01
Matches are distributed among these distances:
39 3 0.01
40 240 0.98
41 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
Found at i:83684250 original size:23 final size:23
Alignment explanation
Indices: 83684184--83684250 Score: 56
Period size: 23 Copynumber: 3.2 Consensus size: 23
83684174 GATACATCAC
83684184 TAGCACGAATGCTCCTCGGGACT
1 TAGCACGAATGCTCCTCGGGACT
* * * *
83684207 TAGCTCGGAT-AT-ATC---AC-
1 TAGCACGAATGCTCCTCGGGACT
83684224 TAGCACGAATGCTCCTCGGGACT
1 TAGCACGAATGCTCCTCGGGACT
83684247 TAGC
1 TAGC
83684251 CCGGATATAT
Statistics
Matches: 30, Mismatches: 8, Indels: 12
0.60 0.16 0.24
Matches are distributed among these distances:
17 8 0.27
18 3 0.10
19 2 0.07
21 2 0.07
22 3 0.10
23 12 0.40
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (23 bp):
TAGCACGAATGCTCCTCGGGACT
Found at i:83688653 original size:235 final size:235
Alignment explanation
Indices: 83688242--83688708 Score: 774
Period size: 235 Copynumber: 2.0 Consensus size: 235
83688232 TGAGTAAGTC
* * *
83688242 ACAATCATTTACTTCTAAGAAATTAAATGTGACAGCTCTAACCCATATCAGTTGCTGGAATAAGG
1 ACAATCATTTACTTCTAAGAAATTAAATGTGACAACCCTAACCCATATAAGTTGCTGGAATAAGG
* * *
83688307 TTATGAGGGATTACCGGACATATCGGAACATTCAGATATACTTCAACATAACATAATCAAAACAT
66 TTACGAGGGATTACCGGACATATCGGAACATTCACATACACTTCAACATAACATAATCAAAACAT
*
83688372 ATAATAATCGTTCACAATTGTCCGTTATATAAGTCTAAGAGACCTTAAACATGCTTTAGAAAGGG
131 ATAATAATCATTCACAATTGTCCGTTATATAAGTCTAAGAGACCTTAAACATGCTTTAGAAAGGG
*
83688437 GTTGGGACTAAACTGAGCTCATACAAAATTTTTCAAAACT
196 GTTGGGACTAAACCGAGCTCATACAAAATTTTTCAAAACT
*
83688477 ACAATCATTTACTTCTAAGAAATTAAATGTGACAACCCTAACCCATATAAGTTGCTGGAATAGGG
1 ACAATCATTTACTTCTAAGAAATTAAATGTGACAACCCTAACCCATATAAGTTGCTGGAATAAGG
* * *
83688542 TTACGATGGATTACTGGACATATCGGAACATTCACATACACTT-AAGCATAACATAGTCAAAACA
66 TTACGAGGGATTACCGGACATATCGGAACATTCACATACACTTCAA-CATAACATAATCAAAACA
* * *
83688606 TATAATAATCATTCACAATTTTCCGTTATATAGGTCTAGGAGACCTTAAACATGCTTTAGAAAGG
130 TATAATAATCATTCACAATTGTCCGTTATATAAGTCTAAGAGACCTTAAACATGCTTTAGAAAGG
*
83688671 GGTTGGGACTAAACCGAGCTCATACAAATTTTTTCAAA
195 GGTTGGGACTAAACCGAGCTCATACAAAATTTTTCAAA
83688709 GTTATAAAGG
Statistics
Matches: 215, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
234 2 0.01
235 213 0.99
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (235 bp):
ACAATCATTTACTTCTAAGAAATTAAATGTGACAACCCTAACCCATATAAGTTGCTGGAATAAGG
TTACGAGGGATTACCGGACATATCGGAACATTCACATACACTTCAACATAACATAATCAAAACAT
ATAATAATCATTCACAATTGTCCGTTATATAAGTCTAAGAGACCTTAAACATGCTTTAGAAAGGG
GTTGGGACTAAACCGAGCTCATACAAAATTTTTCAAAACT
Found at i:83690161 original size:44 final size:42
Alignment explanation
Indices: 83690013--83690179 Score: 120
Period size: 42 Copynumber: 3.9 Consensus size: 42
83690003 TGGAAAGCTC
* * * ** ** *
83690013 ATACAATGCTAATGTCCTAGATGTGGTCTTACATGTAATCAA
1 ATACGATGCCAATGTCCCAGACATGGTCTTACATAAAATAAA
** * * * *
83690055 ATATTATGCCACTGTCCCAGACAGGGTCTTACAGAAAATCAA
1 ATACGATGCCAATGTCCCAGACATGGTCTTACATAAAATAAA
* * * *
83690097 ATACGATGTCGATGACCCAGACATGATCTTACATATAAATAATA
1 ATACGATGCCAATGTCCCAGACATGGTCTTACATA-AAATAA-A
*
83690141 AGT-CGATGCCAATGTCCCAGACGTGGTCTTACATGAAAA
1 A-TACGATGCCAATGTCCCAGACATGGTCTTACAT-AAAA
83690180 CACATATCGG
Statistics
Matches: 95, Mismatches: 26, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
42 57 0.60
43 5 0.05
44 31 0.33
45 2 0.02
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.27
Consensus pattern (42 bp):
ATACGATGCCAATGTCCCAGACATGGTCTTACATAAAATAAA
Found at i:83693962 original size:43 final size:43
Alignment explanation
Indices: 83693864--83694013 Score: 130
Period size: 42 Copynumber: 3.5 Consensus size: 43
83693854 TAGAGGTTGT
* * * * *
83693864 CTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAGGGG
1 CTTACACGAAATCAAATATCGATGCCAATGTCCCAGACACGAG
*
83693907 CTTACACGAAATCAAATA-CGATGCCAATGTCCCAGACACGAT
1 CTTACACGAAATCAAATATCGATGCCAATGTCCCAGACACGAG
* *
83693949 CTTACACATAAATCATAAGT-T-GATGCCAACGTCCCA-A-ACGTAG
1 CTTACAC-GAAATCA-AA-TATCGATGCCAATGTCCCAGACACG-AG
* *
83693992 TCTTACACGAAAACACATATCG
1 -CTTACACGAAATCAAATATCG
83694014 GATCCTATGT
Statistics
Matches: 87, Mismatches: 12, Indels: 16
0.76 0.10 0.14
Matches are distributed among these distances:
41 1 0.01
42 32 0.37
43 30 0.34
44 23 0.26
45 1 0.01
ACGTcount: A:0.36, C:0.27, G:0.15, T:0.22
Consensus pattern (43 bp):
CTTACACGAAATCAAATATCGATGCCAATGTCCCAGACACGAG
Found at i:83695298 original size:24 final size:24
Alignment explanation
Indices: 83695271--83695368 Score: 133
Period size: 24 Copynumber: 4.0 Consensus size: 24
83695261 AAGGCTGTCA
*
83695271 GGAGAAGATTTAGGAGCTAATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
*
83695295 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* * *
83695319 GGAGAGGATTTAGGATCTGATAAA
1 GGAGAAGATTTAGGAGCTGATAAG
*
83695343 GGAGAAGGTTTAGGAGCTGATCAAG
1 GGAGAAGATTTAGGAGCTGAT-AAG
83695368 G
1 G
83695369 AGTGGGAGTT
Statistics
Matches: 65, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
24 62 0.95
25 3 0.05
ACGTcount: A:0.36, C:0.05, G:0.38, T:0.21
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:83697084 original size:32 final size:32
Alignment explanation
Indices: 83696992--83697084 Score: 91
Period size: 32 Copynumber: 2.8 Consensus size: 32
83696982 TATAGGCCAT
* *
83696992 ACTGTTATCTGAATAGGGGGCTAAGGCCCAGTTT
1 ACTGTTATCTGAATA--GGGCTTAGGCCCAGTTC
* * *
83697026 AATGTAATCTGAAAAGGGCTCT-GGCCCAGTATC
1 ACTGTTATCTGAATAGGGCT-TAGGCCCAGT-TC
83697059 ACTGTTATCTGAATA-GGCTTAGGCCC
1 ACTGTTATCTGAATAGGGCTTAGGCCC
83697085 GATAGGCTTA
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
31 1 0.02
32 22 0.46
33 13 0.27
34 12 0.25
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (32 bp):
ACTGTTATCTGAATAGGGCTTAGGCCCAGTTC
Found at i:83697924 original size:22 final size:22
Alignment explanation
Indices: 83697896--83697946 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
83697886 ACTTGTTTTT
83697896 TTTCAAACGTTTGAAAAATGGA
1 TTTCAAACGTTTGAAAAATGGA
*
83697918 TTTCAAAGGTTTGAAAAATGGA
1 TTTCAAACGTTTGAAAAATGGA
83697940 TTTCAAA
1 TTTCAAA
83697947 AAGCCTAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.33
Consensus pattern (22 bp):
TTTCAAACGTTTGAAAAATGGA
Found at i:83699696 original size:24 final size:25
Alignment explanation
Indices: 83699660--83699706 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
83699650 AGAGGATGGT
83699660 GTTAAGGACTATTGAGG-ATGAAGA
1 GTTAAGGACTATTGAGGAATGAAGA
* * *
83699684 GTTAATGATTATTGGGGAATGAA
1 GTTAAGGACTATTGAGGAATGAA
83699707 TAGATTACTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.36, C:0.02, G:0.32, T:0.30
Consensus pattern (25 bp):
GTTAAGGACTATTGAGGAATGAAGA
Found at i:83703108 original size:24 final size:24
Alignment explanation
Indices: 83703081--83703178 Score: 142
Period size: 24 Copynumber: 4.0 Consensus size: 24
83703071 AAGGCTGTCA
*
83703081 GGAGAAGATTTAGAAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
*
83703105 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* * *
83703129 GGAGAGGATTTAGGAGCTGGTAAA
1 GGAGAAGATTTAGGAGCTGATAAG
83703153 GGAGAAGATTTAGGAGCTGATCAAG
1 GGAGAAGATTTAGGAGCTGAT-AAG
83703178 G
1 G
83703179 AGCAGGAGTT
Statistics
Matches: 66, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
24 63 0.95
25 3 0.05
ACGTcount: A:0.36, C:0.05, G:0.39, T:0.20
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:83710680 original size:25 final size:25
Alignment explanation
Indices: 83710652--83710721 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
83710642 CTCTTTTAAT
*
83710652 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
83710677 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
83710702 AACTAGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
83710722 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:83711661 original size:27 final size:27
Alignment explanation
Indices: 83711631--83711738 Score: 103
Period size: 27 Copynumber: 3.9 Consensus size: 27
83711621 GTAAATCTAC
83711631 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
83711658 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* *
83711684 AGAAAGTCAAGGGTATTTCTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
* * **
83711714 AAATCAGGGGTATTTTGGTAATTTT
1 AAACCAAGGGTATTTCAGTAATTTT
83711739 ACAAATTGAG
Statistics
Matches: 68, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
26 1 0.01
27 41 0.60
28 7 0.10
29 18 0.26
30 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:83711736 original size:56 final size:54
Alignment explanation
Indices: 83711628--83711797 Score: 175
Period size: 54 Copynumber: 3.1 Consensus size: 54
83711618 TTGGTAAATC
* * *
83711628 TACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCT-ATAATTTT
1 TACAAATCAAGGGTATTTC-GTAATTTTGTAAACCAGTGGTATTT-TGGTAATTTT
* * *
83711683 TAGAAAGTCAAGGGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAA-TTT
1 TACAAA-TCAAGGGTATTTC-GTAATTTTGTAAACCAGTGGTATTTTGGTAATTTT
** ***
83711738 TACAAATTGAGGGTATTTCGATAATTTCACAAACCAGTGGTATTTTGGTAA-TTT
1 TACAAATCAAGGGTATTTCG-TAATTTTGTAAACCAGTGGTATTTTGGTAATTTT
83711792 TACAAA
1 TACAAA
83711798 CTAGGGGTAT
Statistics
Matches: 97, Mismatches: 15, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
53 1 0.01
54 45 0.46
55 14 0.14
56 37 0.38
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (54 bp):
TACAAATCAAGGGTATTTCGTAATTTTGTAAACCAGTGGTATTTTGGTAATTTT
Found at i:83711744 original size:27 final size:27
Alignment explanation
Indices: 83711680--83711817 Score: 129
Period size: 27 Copynumber: 5.1 Consensus size: 27
83711670 TTTCTATAAT
* *
83711680 TTTTAGAAAGTCAAGGGTATTTCT-GTAA
1 TTTTACAAA-TCAGGGGTATTT-TGGTAA
**
83711708 TTTTGTAAATCAGGGGTATTTTGGTAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
* * *
83711735 TTTTACAAAT-TGAGGGTATTTCGATAA
1 TTTTACAAATCAG-GGGTATTTTGGTAA
* * *
83711762 TTTCACAAACCAGTGGTATTTTGGTAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
83711789 TTTTACAAA-CTAGGGGTATTTTGGTAA
1 TTTTACAAATC-AGGGGTATTTTGGTAA
83711816 TT
1 TT
83711818 CTATCCTACA
Statistics
Matches: 90, Mismatches: 16, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
26 3 0.03
27 79 0.88
28 8 0.09
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (27 bp):
TTTTACAAATCAGGGGTATTTTGGTAA
Found at i:83712005 original size:27 final size:27
Alignment explanation
Indices: 83711849--83711994 Score: 222
Period size: 27 Copynumber: 5.4 Consensus size: 27
83711839 GTAATTTCAC
*
83711849 AATCAAGGGTAAAACGGTAACTT-TGTA
1 AATCGAGGGTAAAACGGTAA-TTCTGTA
* *
83711876 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
83711903 AATCGAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
83711930 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
83711957 AATCGAAGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
83711984 AATCGAGGGTA
1 AATCGAGGGTA
83711995 CTTTGGTAAT
Statistics
Matches: 107, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
26 2 0.02
27 105 0.98
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.26
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:83712017 original size:81 final size:80
Alignment explanation
Indices: 83711839--83712019 Score: 213
Period size: 81 Copynumber: 2.2 Consensus size: 80
83711829 GGGTATTTCA
* * * * *
83711839 GTAATTTCACAATCAAGGGTAAAACGGTAACTTTGTAAATCGAGGGTAAAATGGTAATTCTATAA
1 GTAATTTTACAATCGAGGGTAAAACGGTAACTTTATAAATCGAAGGTAAAACGGTAATTCTATAA
83711904 ATCGAGGGTAAAACG
66 ATCGAGGGTAAAACG
* *
83711919 ATAATTCTGTA-AATCGAGGGTAAAACGGTAA-TTCTATAAATCGAAGGTAAAACGGTAATTCTG
1 GTAATT-T-TACAATCGAGGGTAAAACGGTAACTT-TATAAATCGAAGGTAAAACGGTAATTCTA
****
83711982 TAAATCGAGGGTACTTTG
63 TAAATCGAGGGTAAAACG
83712000 GTAATTTTACAAGTCGAGGG
1 GTAATTTTACAA-TCGAGGG
83712020 CATTTCAATA
Statistics
Matches: 84, Mismatches: 12, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
79 2 0.02
80 10 0.12
81 71 0.85
82 1 0.01
ACGTcount: A:0.38, C:0.11, G:0.23, T:0.28
Consensus pattern (80 bp):
GTAATTTTACAATCGAGGGTAAAACGGTAACTTTATAAATCGAAGGTAAAACGGTAATTCTATAA
ATCGAGGGTAAAACG
Found at i:83715727 original size:15 final size:15
Alignment explanation
Indices: 83715707--83715743 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
83715697 GAGCACGGGC
83715707 GTGTCCCCTAGCCGT
1 GTGTCCCCTAGCCGT
83715722 GTGTCCCCTAGCCGT
1 GTGTCCCCTAGCCGT
83715737 GTGTCCC
1 GTGTCCC
83715744 AAAATCTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.05, C:0.41, G:0.27, T:0.27
Consensus pattern (15 bp):
GTGTCCCCTAGCCGT
Found at i:83721382 original size:15 final size:14
Alignment explanation
Indices: 83721362--83721413 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
83721352 ATGTTTATTA
83721362 TTTTGGATTTAGAGT
1 TTTTGG-TTTAGAGT
*
83721377 TTTTGGTTTAGGGT
1 TTTTGGTTTAGAGT
* * *
83721391 TTATAGTTTATAGT
1 TTTTGGTTTAGAGT
*
83721405 TTGTGGTTT
1 TTTTGGTTT
83721414 TTTGTTTTAT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
14 24 0.80
15 6 0.20
ACGTcount: A:0.15, C:0.00, G:0.27, T:0.58
Consensus pattern (14 bp):
TTTTGGTTTAGAGT
Found at i:83721406 original size:21 final size:22
Alignment explanation
Indices: 83721369--83721432 Score: 55
Period size: 21 Copynumber: 3.0 Consensus size: 22
83721359 TTATTTTGGA
* *
83721369 TTTAGAGTTTT-TGGTTTAGGG
1 TTTATAGTTTTATAGTTTAGGG
83721390 TTTATAG-TTTATAGTTT-GTGG
1 TTTATAGTTTTATAGTTTAG-GG
* *
83721411 TTTTTTGTTTTATAG-TTAGGG
1 TTTATAGTTTTATAGTTTAGGG
83721432 T
1 T
83721433 CGTGGTACTG
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
20 4 0.11
21 23 0.66
22 8 0.23
ACGTcount: A:0.16, C:0.00, G:0.27, T:0.58
Consensus pattern (22 bp):
TTTATAGTTTTATAGTTTAGGG
Found at i:83721593 original size:7 final size:7
Alignment explanation
Indices: 83721581--83721653 Score: 53
Period size: 7 Copynumber: 10.6 Consensus size: 7
83721571 AATATATATA
83721581 TTTAGGG
1 TTTAGGG
83721588 TTTAGGG
1 TTTAGGG
* *
83721595 TGT-CGG
1 TTTAGGG
83721601 TTT-GTGG
1 TTTAG-GG
*
83721608 TTTATGG
1 TTTAGGG
*
83721615 TTTATGG
1 TTTAGGG
*
83721622 TTTATGG
1 TTTAGGG
83721629 TTT-GAGG
1 TTTAG-GG
*
83721636 TTTAAGG
1 TTTAGGG
83721643 TTTAGGG
1 TTTAGGG
83721650 TTTA
1 TTTA
83721654 CTGTTGGAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
6 4 0.07
7 50 0.93
ACGTcount: A:0.14, C:0.01, G:0.36, T:0.49
Consensus pattern (7 bp):
TTTAGGG
Found at i:83721622 original size:14 final size:14
Alignment explanation
Indices: 83721599--83721653 Score: 67
Period size: 14 Copynumber: 3.9 Consensus size: 14
83721589 TTAGGGTGTC
*
83721599 GGTTTGTGGTTTAT
1 GGTTTATGGTTTAT
83721613 GGTTTATGGTTTAT
1 GGTTTATGGTTTAT
*
83721627 GGTTTGA-GGTTTAA
1 GGTTT-ATGGTTTAT
*
83721641 GGTTTAGGGTTTA
1 GGTTTATGGTTTA
83721654 CTGTTGGAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
13 1 0.03
14 35 0.95
15 1 0.03
ACGTcount: A:0.15, C:0.00, G:0.35, T:0.51
Consensus pattern (14 bp):
GGTTTATGGTTTAT
Found at i:83721629 original size:21 final size:20
Alignment explanation
Indices: 83721599--83721653 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
83721589 TTAGGGTGTC
* *
83721599 GGTTTGTGGTTTATGGTTTAT
1 GGTTTATGGTTTA-GGTTTAA
83721620 GGTTTATGGTTTGAGGTTTAA
1 GGTTTATGGTTT-AGGTTTAA
*
83721641 GGTTTAGGGTTTA
1 GGTTTATGGTTTA
83721654 CTGTTGGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 1 0.03
21 28 0.93
22 1 0.03
ACGTcount: A:0.15, C:0.00, G:0.35, T:0.51
Consensus pattern (20 bp):
GGTTTATGGTTTAGGTTTAA
Found at i:83721878 original size:18 final size:17
Alignment explanation
Indices: 83721846--83721879 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
83721836 TATTTATTTT
83721846 AATATATTAAAATTATC
1 AATATATTAAAATTATC
*
83721863 AATATAATTTAAATTAT
1 AATAT-ATTAAAATTAT
83721880 TTAAGAGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
AATATATTAAAATTATC
Found at i:83724401 original size:29 final size:29
Alignment explanation
Indices: 83724330--83724434 Score: 88
Period size: 29 Copynumber: 3.7 Consensus size: 29
83724320 CATATAACCC
* *
83724330 ACTAGGCCCAA-TCTTATTCAAATGGCCT
1 ACTAGGCCCAATTCATATTCATATGGCCT
* * * *
83724358 ATCT-GGCCTAGTTCATATTCTTATGGTCT
1 A-CTAGGCCCAATTCATATTCATATGGCCT
** *
83724387 ACTAGGCCCAATTCACCTTCATATGGCCC
1 ACTAGGCCCAATTCATATTCATATGGCCT
* *
83724416 ATTAGGCCCAAATCATATT
1 ACTAGGCCCAATTCATATT
83724435 ATACTCATGC
Statistics
Matches: 57, Mismatches: 17, Indels: 5
0.72 0.22 0.06
Matches are distributed among these distances:
28 8 0.14
29 49 0.86
ACGTcount: A:0.26, C:0.28, G:0.14, T:0.32
Consensus pattern (29 bp):
ACTAGGCCCAATTCATATTCATATGGCCT
Found at i:83724540 original size:19 final size:19
Alignment explanation
Indices: 83724507--83724553 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
83724497 TGGGCCCAAC
*
83724507 AGCCCA-TCAGGCCCATTT
1 AGCCCATTCTGGCCCATTT
83724525 AGCCCATTCTGGCCCATTT
1 AGCCCATTCTGGCCCATTT
* *
83724544 GGCCAATTCT
1 AGCCCATTCT
83724554 CAACCCAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.19, C:0.36, G:0.17, T:0.28
Consensus pattern (19 bp):
AGCCCATTCTGGCCCATTT
Done.