Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 93 of 222
Found at i:29016044 original size:9 final size:9
Alignment explanation
Indices: 29016030--29016055 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
29016020 AAATAGGGTT
29016030 TTTTAAGGA
1 TTTTAAGGA
29016039 TTTTAAGGA
1 TTTTAAGGA
29016048 TTTTAAGG
1 TTTTAAGG
29016056 GTTTAGGAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (9 bp):
TTTTAAGGA
Found at i:29018865 original size:40 final size:39
Alignment explanation
Indices: 29018795--29018966 Score: 202
Period size: 40 Copynumber: 4.3 Consensus size: 39
29018785 GTCTGCAAAT
* *
29018795 CTGGTGACTTGTCCACAATATTGGCAGTTTATCTCCATTA
1 CTGGTGGCTTGTCCAC-ATTTTGGCAGTTTATCTCCATTA
* * *
29018835 CTAGTGGCTTGTCCACATTTCTGGCGGTTTATCTACATTA
1 CTGGTGGCTTGTCCACATTT-TGGCAGTTTATCTCCATTA
* * * *
29018875 CTGGTGGCTTGTCCACATTATTAGCAGCTTGTCTGCAATT-
1 CTGGTGGCTTGTCCACATT-TTGGCAGTTTATCT-CCATTA
*
29018915 CTGGTGGTTTGTCCACATTTTTGGCAGTTTATCTCCATTA
1 CTGGTGGCTTGTCCACA-TTTTGGCAGTTTATCTCCATTA
29018955 CTGGTGGCTTGT
1 CTGGTGGCTTGT
29018967 TCGCAAAATA
Statistics
Matches: 109, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
39 7 0.06
40 96 0.88
41 6 0.06
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.40
Consensus pattern (39 bp):
CTGGTGGCTTGTCCACATTTTGGCAGTTTATCTCCATTA
Found at i:29018892 original size:20 final size:20
Alignment explanation
Indices: 29018830--29018933 Score: 77
Period size: 20 Copynumber: 5.2 Consensus size: 20
29018820 AGTTTATCTC
*
29018830 CATTACTAGTGGCTTGTCCA
1 CATTACTGGTGGCTTGTCCA
* * * * *
29018850 CATTTCTGGCGGTTTATCTA
1 CATTACTGGTGGCTTGTCCA
29018870 CATTACTGGTGGCTTGTCCA
1 CATTACTGGTGGCTTGTCCA
* * **
29018890 CATTATTAGCAGCTTGTCTGCA
1 CATTACTGGTGGCTTGTC--CA
*
29018912 -ATT-CTGGTGGTTTGTCCA
1 CATTACTGGTGGCTTGTCCA
29018930 CATT
1 CATT
29018934 TTTGGCAGTT
Statistics
Matches: 61, Mismatches: 20, Indels: 7
0.69 0.23 0.08
Matches are distributed among these distances:
18 2 0.03
19 3 0.05
20 51 0.84
21 3 0.05
22 2 0.03
ACGTcount: A:0.17, C:0.22, G:0.21, T:0.39
Consensus pattern (20 bp):
CATTACTGGTGGCTTGTCCA
Found at i:29018945 original size:80 final size:80
Alignment explanation
Indices: 29018795--29018966 Score: 229
Period size: 80 Copynumber: 2.1 Consensus size: 80
29018785 GTCTGCAAAT
* * * *
29018795 CTGGTGACTTGTCCACAATATTGGCAGTTTATCTCCATTACTAGTGGCTTGTCCACATTTCTGGC
1 CTGGTGGCTTGTCCACAATATTAGCAGCTTATCTCAATTACTAGTGGCTTGTCCACATTTCTGGC
*
29018860 GGTTTATCTACATTA
66 AGTTTATCTACATTA
* * * * *
29018875 CTGGTGGCTTGTCCACATTATTAGCAGCTTGTCTGCAATT-CTGGTGGTTTGTCCACATTTTTGG
1 CTGGTGGCTTGTCCACAATATTAGCAGCTTATCT-CAATTACTAGTGGCTTGTCCACATTTCTGG
*
29018939 CAGTTTATCTCCATTA
65 CAGTTTATCTACATTA
29018955 CTGGTGGCTTGT
1 CTGGTGGCTTGT
29018967 TCGCAAAATA
Statistics
Matches: 80, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
80 76 0.95
81 4 0.05
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.40
Consensus pattern (80 bp):
CTGGTGGCTTGTCCACAATATTAGCAGCTTATCTCAATTACTAGTGGCTTGTCCACATTTCTGGC
AGTTTATCTACATTA
Found at i:29027579 original size:29 final size:29
Alignment explanation
Indices: 29027535--29027600 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
29027525 ATTTGACCTT
* *
29027535 ATTGATTCTTTTTAATAATATAGAGACTAA
1 ATTGA-TCTATTTAATAATAGAGAGACTAA
* *
29027565 ATTGATCTATTTAATAATGGAGGGACTAA
1 ATTGATCTATTTAATAATAGAGAGACTAA
*
29027594 TTTGATC
1 ATTGATC
29027601 CGGTCTCTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
29 26 0.84
30 5 0.16
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.41
Consensus pattern (29 bp):
ATTGATCTATTTAATAATAGAGAGACTAA
Found at i:29034874 original size:25 final size:25
Alignment explanation
Indices: 29034840--29034891 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
29034830 GGACAAGGTT
29034840 TAATCTTACAACTTCTTAAGATTTC
1 TAATCTTACAACTTCTTAAGATTTC
29034865 TAATCTTACAACTTCTTAAGATTTC
1 TAATCTTACAACTTCTTAAGATTTC
29034890 TA
1 TA
29034892 CCCCAAATCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.33, C:0.19, G:0.04, T:0.44
Consensus pattern (25 bp):
TAATCTTACAACTTCTTAAGATTTC
Found at i:29037821 original size:20 final size:20
Alignment explanation
Indices: 29037787--29037839 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
29037777 AAGCCCCATG
**
29037787 GTATCGATA-TTTTACACGA
1 GTATCGATATTTTTACAAAA
29037806 GTATCGATATTTTTACAAAA
1 GTATCGATATTTTTACAAAA
*
29037826 GTACCGATATTTTT
1 GTATCGATATTTTT
29037840 TAGTTGGTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 9 0.30
20 21 0.70
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (20 bp):
GTATCGATATTTTTACAAAA
Found at i:29070812 original size:11 final size:11
Alignment explanation
Indices: 29070798--29070824 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
29070788 TTTTTTTAAC
29070798 TTTTTATAAAT
1 TTTTTATAAAT
29070809 TTTTTATAAAT
1 TTTTTATAAAT
29070820 TTTTT
1 TTTTT
29070825 GAATTTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTTTATAAAT
Found at i:29076503 original size:35 final size:35
Alignment explanation
Indices: 29076457--29076528 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
29076447 CAGCGAAGCC
29076457 AAAAACAATACCCAAGATGATGGCGTTAACTGACT
1 AAAAACAATACCCAAGATGATGGCGTTAACTGACT
29076492 AAAAACAATACCCAAGATGATGGCGTTAACTGACT
1 AAAAACAATACCCAAGATGATGGCGTTAACTGACT
29076527 AA
1 AA
29076529 GGGTGTTGTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.19
Consensus pattern (35 bp):
AAAAACAATACCCAAGATGATGGCGTTAACTGACT
Found at i:29077333 original size:66 final size:65
Alignment explanation
Indices: 29077244--29077410 Score: 176
Period size: 66 Copynumber: 2.6 Consensus size: 65
29077234 ATCCATGTTA
* * * * *
29077244 AAAAAGAAATGGTGTGGCT-AATTCACTAGGGAAGTTCATTCGTTACACCAAGATTAATTCATAC
1 AAAAAGAAATGGTGTAG-TGAATTCACTAAGGAAGTTCATCCGCTACACCAAGATTAATCCATAC
29077308 C
65 C
* * * *
29077309 AAACAAGAAATGGTGTAGTGAATTCACAAAGGAAGTTCATCCGCTACATCAGGATTAATCCATGC
1 AAA-AAGAAATGGTGTAGTGAATTCACTAAGGAAGTTCATCCGCTACACCAAGATTAATCCATAC
29077374 C
65 C
* * * *
29077375 AAAAA-AAAGTGATGTAGCGAATTTACTAAAGAAGTT
1 AAAAAGAAA-TGGTGTAGTGAATTCACTAAGGAAGTT
29077411 AATATGATAA
Statistics
Matches: 85, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
64 3 0.04
65 28 0.33
66 54 0.64
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.25
Consensus pattern (65 bp):
AAAAAGAAATGGTGTAGTGAATTCACTAAGGAAGTTCATCCGCTACACCAAGATTAATCCATACC
Found at i:29077623 original size:130 final size:125
Alignment explanation
Indices: 29077313--29077667 Score: 311
Period size: 130 Copynumber: 2.8 Consensus size: 125
29077303 CATACCAAAC
* * *
29077313 AAGAAATGGTGTAGTGAATTCACAAAGGAAGTTCATCCGCTACATCAGGATTAATCCATGCCAAA
1 AAGAAATGGTGTAGTGAATTCACAAAGGAAGCTCATCCGCTACATCGGGATTAATCTATGCCAAA
* * *
29077378 AA-AAAGTGATGTAGCGAATTTACTAAAGAAGTTAATATGATAAACTAGAGTGATCCATGTTA
66 AAGAAA--GATGTAGC-AATTTACTAAAGAAGTTAATACGATAAACTAGAGTGAACCATGTAA
* * * * * * * * *
29077440 AAGAAACGATATAGTGAATTCACTAAGGAAGCCCATTCGTTACATTGGTATTAATCTATGCCAAA
1 AAGAAATGGTGTAGTGAATTCACAAAGGAAGCTCATCCGCTACATCGGGATTAATCTATGCCAAA
** * * * * * *
29077505 GAAGAAACGATGTAGCAAATTTACTATGGACGTTCATCCGATACA-TCGGGTGAACCATGTAAAA
66 -AAGAAA-GATGTAGC-AATTTACTAAAGAAGTTAATACGATAAACTAGAGTGAACCATGT--AA
** * * *
29077569 GAAGAAATGGTGTAGAAAATTCAAAAAGGAAGCTCATCCGCTACACCGGGATTAAT-TCATGCAA
1 -AAGAAATGGTGTAGTGAATTCACAAAGGAAGCTCATCCGCTACATCGGGATTAATCT-ATGC-C
*
29077633 AAAAAGAAAGAATGTAGCAATTTCACTAAGGAAGT
63 AAAAAGAAAG-ATGTAGCAATTT-ACTAAAGAAGT
29077668 ACATGTAATG
Statistics
Matches: 178, Mismatches: 41, Indels: 15
0.76 0.18 0.06
Matches are distributed among these distances:
127 65 0.37
128 31 0.17
129 11 0.06
130 68 0.38
131 3 0.02
ACGTcount: A:0.41, C:0.15, G:0.20, T:0.24
Consensus pattern (125 bp):
AAGAAATGGTGTAGTGAATTCACAAAGGAAGCTCATCCGCTACATCGGGATTAATCTATGCCAAA
AAGAAAGATGTAGCAATTTACTAAAGAAGTTAATACGATAAACTAGAGTGAACCATGTAA
Found at i:29080532 original size:22 final size:22
Alignment explanation
Indices: 29080495--29080537 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
29080485 TTATCAAGAT
29080495 AAATATTAGATTAAATTTAATATA
1 AAATATTA-ATTAAA-TTAATATA
29080519 AAATATT-ATTAAATTAATA
1 AAATATTAATTAAATTAATA
29080538 GAATATTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 6 0.32
24 7 0.37
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (22 bp):
AAATATTAATTAAATTAATATA
Found at i:29080574 original size:62 final size:59
Alignment explanation
Indices: 29080466--29080579 Score: 165
Period size: 62 Copynumber: 1.9 Consensus size: 59
29080456 ATCACTTTAA
* * *
29080466 TATTAAATTAATATAATAGTTATCAAGATAAATATTAGATTAAATTTAATATAAAATAT
1 TATTAAATTAATAGAATAGTTATCAAGATAAACATTAAATTAAATTTAATATAAAATAT
*
29080525 TATTAAATTAATAGAATATTTATCTACAAGATAAACATTAAATTAAATTTAATAT
1 TATTAAATTAATAGAATAGTTA--T-CAAGATAAACATTAAATTAAATTTAATAT
29080580 TAAGACAATT
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
59 20 0.42
61 1 0.02
62 27 0.56
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (59 bp):
TATTAAATTAATAGAATAGTTATCAAGATAAACATTAAATTAAATTTAATATAAAATAT
Found at i:29080621 original size:25 final size:26
Alignment explanation
Indices: 29080573--29080621 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
29080563 TAAATTAAAT
*
29080573 TTAATATTAAGACAATTACTTTAACA
1 TTAATATTAAGACAAATACTTTAACA
29080599 TTAA-ATTAAGA-AAATACTATTAA
1 TTAATATTAAGACAAATACT-TTAA
29080622 GATAAATGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 6 0.29
25 11 0.52
26 4 0.19
ACGTcount: A:0.51, C:0.08, G:0.04, T:0.37
Consensus pattern (26 bp):
TTAATATTAAGACAAATACTTTAACA
Found at i:29082454 original size:7 final size:8
Alignment explanation
Indices: 29082433--29082462 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
29082423 AATATGAAAG
29082433 ACAAAAAT
1 ACAAAAAT
29082441 ACAAAAAT
1 ACAAAAAT
29082449 ACAAAAAT
1 ACAAAAAT
29082457 ACAAAA
1 ACAAAA
29082463 GACATAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.77, C:0.13, G:0.00, T:0.10
Consensus pattern (8 bp):
ACAAAAAT
Found at i:29087239 original size:3 final size:3
Alignment explanation
Indices: 29087231--29087288 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
29087221 AATTACTTGG
29087231 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
29087279 TTC TTC TTC T
1 TTC TTC TTC T
29087289 ATTCAATATC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:29095112 original size:62 final size:62
Alignment explanation
Indices: 29094979--29095257 Score: 522
Period size: 62 Copynumber: 4.5 Consensus size: 62
29094969 AAAGTAGTAG
*
29094979 TAAGCAGATAAGGAGGAATCTGCTTTTTCAAACATAAAGGACATGACTCATACATAAAGGACA
1 TAAGCAGATAAGGAGGAATCTGCTTTTACAAACAT-AAGGACATGACTCATACATAAAGGACA
*
29095042 TAAGCAGATAAGGAGGAATCTGCTTTTACAAACATAAGGACATGACTCGTACATAAAGGACA
1 TAAGCAGATAAGGAGGAATCTGCTTTTACAAACATAAGGACATGACTCATACATAAAGGACA
*
29095104 TAAGCAGATAAGGAGGAATATGCTTTTACAAACATAAGGACATGACTCATACATAAAGGACA
1 TAAGCAGATAAGGAGGAATCTGCTTTTACAAACATAAGGACATGACTCATACATAAAGGACA
29095166 TAAGCAGATAAGGAGGAATCTGCTTTTACAAACATAAGGACATGACTCATACATAAAGGACA
1 TAAGCAGATAAGGAGGAATCTGCTTTTACAAACATAAGGACATGACTCATACATAAAGGACA
29095228 TAAGCAGATAAGGAGGAATCTGCTTTTACA
1 TAAGCAGATAAGGAGGAATCTGCTTTTACA
29095258 TTAATTTATC
Statistics
Matches: 211, Mismatches: 5, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
62 177 0.84
63 34 0.16
ACGTcount: A:0.43, C:0.15, G:0.20, T:0.22
Consensus pattern (62 bp):
TAAGCAGATAAGGAGGAATCTGCTTTTACAAACATAAGGACATGACTCATACATAAAGGACA
Found at i:29099246 original size:29 final size:29
Alignment explanation
Indices: 29099183--29099250 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
29099173 TAATCAACCG
29099183 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
29099212 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
29099241 CGCACACTTA
1 CGCACACTTA
29099251 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:29099363 original size:174 final size:174
Alignment explanation
Indices: 29099072--29099399 Score: 584
Period size: 174 Copynumber: 1.9 Consensus size: 174
29099062 AACTCAAGGT
* *
29099072 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTAGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTAGCACCCTTAATGTAAATAATTTATA
*
29099137 GAAAATATATATTGGGTTCACACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCACACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
29099202 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
* *
29099246 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTAGCACCCTTAATGTAAATAATTTATA
* *
29099311 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCACACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
29099376 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
29099400 TGTACAATTT
Statistics
Matches: 146, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 146 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTAGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCACACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:29099391 original size:29 final size:29
Alignment explanation
Indices: 29099357--29099430 Score: 100
Period size: 29 Copynumber: 2.6 Consensus size: 29
29099347 TAATCAACCA
29099357 CGCACACTTAGTGCCATGTAC-TTTAAAC
1 CGCACACTTAGTGCCATGTACATTTAAAC
29099385 TCGCACACTTAGTG-C-TGTACAATTTAAAC
1 -CGCACACTTAGTGCCATGTAC-ATTTAAAC
29099414 CTGCACACTTAGTGCCA
1 C-GCACACTTAGTGCCA
29099431 ATCTCATGAC
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
27 5 0.12
28 2 0.05
29 32 0.80
30 1 0.03
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGTACATTTAAAC
Found at i:29103099 original size:47 final size:47
Alignment explanation
Indices: 29103036--29103414 Score: 598
Period size: 47 Copynumber: 8.1 Consensus size: 47
29103026 GAAATGATAG
*
29103036 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
29103083 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
29103130 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
29103177 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAGGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
29103224 TAAGGCCTAATAGCTGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
29103271 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
29103318 TAAGGCCTAATGGCCGATGTG-TGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * *
29103364 CAGGGCCGAGTGGCCAACGTGATGAATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
29103411 TAAG
1 TAAG
29103415 TCCCGAAGGG
Statistics
Matches: 311, Mismatches: 20, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
46 40 0.13
47 271 0.87
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:29103589 original size:37 final size:37
Alignment explanation
Indices: 29103533--29103611 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
29103523 CCGAGCTCTA
* * * *
29103533 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGAGT
*
29103570 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGAGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGAGT
29103607 AAGAC
1 AAGAC
29103612 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGAGT
Found at i:29111594 original size:29 final size:29
Alignment explanation
Indices: 29111531--29111598 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
29111521 TAATCAACCG
29111531 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
29111560 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
29111589 CGCACACTTA
1 CGCACACTTA
29111599 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:29111711 original size:174 final size:174
Alignment explanation
Indices: 29111420--29111747 Score: 593
Period size: 174 Copynumber: 1.9 Consensus size: 174
29111410 AACTCAAGGT
* *
29111420 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
29111485 GAAAATATATATTGGGTTCGTACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
29111550 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
29111594 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
29111659 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
29111724 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
29111748 TGTACAATTT
Statistics
Matches: 147, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 147 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:29111739 original size:29 final size:29
Alignment explanation
Indices: 29111705--29111778 Score: 100
Period size: 29 Copynumber: 2.6 Consensus size: 29
29111695 TAATCAACCA
29111705 CGCACACTTAGTGCCATGTAC-TTTAAAC
1 CGCACACTTAGTGCCATGTACATTTAAAC
29111733 TCGCACACTTAGTG-C-TGTACAATTTAAAC
1 -CGCACACTTAGTGCCATGTAC-ATTTAAAC
29111762 CTGCACACTTAGTGCCA
1 C-GCACACTTAGTGCCA
29111779 ATCTCATGAC
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
27 5 0.12
28 2 0.05
29 32 0.80
30 1 0.03
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGTACATTTAAAC
Found at i:29119397 original size:32 final size:32
Alignment explanation
Indices: 29119361--29119423 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
29119351 TATGGCTTTT
29119361 ATATTATTATTGGATGTAATTATAATATTATA
1 ATATTATTATTGGATGTAATTATAATATTATA
29119393 ATATTATTATTGGATGTAATTATAATATTAT
1 ATATTATTATTGGATGTAATTATAATATTAT
29119424 TCTATCTGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.51
Consensus pattern (32 bp):
ATATTATTATTGGATGTAATTATAATATTATA
Found at i:29121782 original size:16 final size:16
Alignment explanation
Indices: 29121761--29121796 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
29121751 TTTTACATAA
*
29121761 ATATAAATATTTGTTT
1 ATATAAATATTTGCTT
29121777 ATATAAATATTTGCTT
1 ATATAAATATTTGCTT
29121793 ATAT
1 ATAT
29121797 TAATTTGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.53
Consensus pattern (16 bp):
ATATAAATATTTGCTT
Found at i:29121827 original size:16 final size:16
Alignment explanation
Indices: 29121806--29121836 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
29121796 TTAATTTGTT
29121806 TTATTTATATATATAA
1 TTATTTATATATATAA
*
29121822 TTATTTATATTTATA
1 TTATTTATATATATA
29121837 TTGTTCACTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTATTTATATATATAA
Found at i:29122089 original size:82 final size:84
Alignment explanation
Indices: 29121972--29122338 Score: 302
Period size: 82 Copynumber: 4.4 Consensus size: 84
29121962 AAATAAAATC
* * *
29121972 TGTTTCGGGATTTATTCCTGCCATTCAACAGATTTTATTC-ATTTTTTGA-TTTGTTCCCAAATA
1 TGTTTCGGGATTTATTCCCGCCATTCAACAGATTTTATTCGATTTTTTGATTTTGTTTCCAAACA
29122035 AGAATTAAATTGAATAA-TA
66 AGAATT-AATTGAATAATTA
* * * *
29122054 TGTTTCGGGATTTATTCCCGTCGTTTAACATATTTTATT---TTATTTTGATTTTGTTTCCAAAC
1 TGTTTCGGGATTTATTCCCGCCATTCAACAGATTTTATTCGATT-TTTTGATTTTGTTTCCAAAC
** * *
29122116 GTGAAATAATTGAATAATTC
65 AAGAATTAATTGAATAATTA
* * * * *
29122136 TATTTCAGGATTCATTCCCGCCATTCAACAGATTTTATTCGA--TTGTGATTTTGTTTCTAAACA
1 TGTTTCGGGATTTATTCCCGCCATTCAACAGATTTTATTCGATTTTTTGATTTTGTTTCCAAACA
* * *
29122199 ATGATTTAATTAAATAATTT
66 A-GAATTAATTGAATAATTA
* * * * * * *
29122219 TGTTTCGGGATTTATTCCCACCGTTTAACATATTTAATTCGATTTTGATTTTGATTTTTTTTGCA
1 TGTTTCGGGATTTATTCCCGCCATTCAACAGATTTTATTCGA--TT--TTTTGATTTTGTTTCCA
* *
29122284 AACGAAGATTTAATTAAATAATT-
62 AAC-AAGAATTAATTGAATAATTA
* * * * *
29122307 TTTTTCGGGATTTAATCCTGCCGTTCAGCAGA
1 TGTTTCGGGATTTATTCCCGCCATTCAACAGA
29122339 ATTGATTTTG
Statistics
Matches: 226, Mismatches: 45, Indels: 22
0.77 0.15 0.08
Matches are distributed among these distances:
80 2 0.01
81 16 0.07
82 100 0.44
83 48 0.21
88 25 0.11
89 33 0.15
90 2 0.01
ACGTcount: A:0.28, C:0.14, G:0.13, T:0.46
Consensus pattern (84 bp):
TGTTTCGGGATTTATTCCCGCCATTCAACAGATTTTATTCGATTTTTTGATTTTGTTTCCAAACA
AGAATTAATTGAATAATTA
Found at i:29122165 original size:164 final size:165
Alignment explanation
Indices: 29121974--29122271 Score: 406
Period size: 164 Copynumber: 1.8 Consensus size: 165
29121964 ATAAAATCTG
* * * * *
29121974 TTTCGGGATTTATTCCTGCCATTCAACAGATTTTATTC-ATTTTTTGA-TTTGTTCCCAAATAA-
1 TTTCAGGATTCATTCCCGCCATTCAACAGATTTTATTCGA--TTGTGATTTTGTTCCCAAACAAT
* ** * **
29122036 GAATTAAATTGAATAA-TATGTTTCGGGATTTATTCCCGTCGTTTAACATATTTTATTTTATTTT
64 G-ATTAAATTAAATAATTATGTTTCGGGATTTATTCCCACCGTTTAACATATTTAATTCGATTTT
29122100 GATTTTGTTTCCAAACGTGAAATAATTGAATAATTCTA
128 GATTTTGTTTCCAAACGTGAAATAATTGAATAATTCTA
* *
29122138 TTTCAGGATTCATTCCCGCCATTCAACAGATTTTATTCGATTGTGATTTTGTTTCTAAACAATGA
1 TTTCAGGATTCATTCCCGCCATTCAACAGATTTTATTCGATTGTGATTTTGTTCCCAAACAATGA
* *
29122203 TTTAATTAAATAATTTTGTTTCGGGATTTATTCCCACCGTTTAACATATTTAATTCGATTTTGAT
66 TTAAATTAAATAATTATGTTTCGGGATTTATTCCCACCGTTTAACATATTTAATTCGATTTTGAT
29122268 TTTG
131 TTTG
29122272 ATTTTTTTTG
Statistics
Matches: 115, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
163 5 0.04
164 59 0.51
165 51 0.44
ACGTcount: A:0.28, C:0.14, G:0.12, T:0.46
Consensus pattern (165 bp):
TTTCAGGATTCATTCCCGCCATTCAACAGATTTTATTCGATTGTGATTTTGTTCCCAAACAATGA
TTAAATTAAATAATTATGTTTCGGGATTTATTCCCACCGTTTAACATATTTAATTCGATTTTGAT
TTTGTTTCCAAACGTGAAATAATTGAATAATTCTA
Found at i:29122352 original size:89 final size:89
Alignment explanation
Indices: 29122176--29122354 Score: 211
Period size: 89 Copynumber: 2.0 Consensus size: 89
29122166 GATTTTATTC
*
29122176 GATTGTGATTTTGTTTCTAAACAATGATTTAATTAAATAATTTTGTTTCGGGATTTATTCCCACC
1 GATTGTGATTTTGTTTCTAAACAATGATTTAATTAAATAATTTTGTTTCGGGATTTAATCCCACC
* * *
29122241 GTTTAACATATTTAATTCGATTTT
66 GTTCAACAAATTGAATTCGATTTT
* * **
29122265 GATTTTGATTTTTTTTGC-AAACGAA-GATTTAATTAAATAATTTT-TTTCGGGATTTAATCCTG
1 GATTGTGATTTTGTTT-CTAAAC-AATGATTTAATTAAATAATTTTGTTTCGGGATTTAATCCCA
* * *
29122327 CCGTTCAGCAGAATTGATTTTGATTTT
64 CCGTTCAACA-AATTGAATTCGATTTT
29122354 G
1 G
29122355 TTTCAGAATT
Statistics
Matches: 76, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
88 23 0.30
89 50 0.66
90 3 0.04
ACGTcount: A:0.27, C:0.11, G:0.15, T:0.47
Consensus pattern (89 bp):
GATTGTGATTTTGTTTCTAAACAATGATTTAATTAAATAATTTTGTTTCGGGATTTAATCCCACC
GTTCAACAAATTGAATTCGATTTT
Found at i:29127399 original size:22 final size:24
Alignment explanation
Indices: 29127357--29127403 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 24
29127347 ATTTTTTATT
29127357 TAAATATTGTGTTTTACATAAATA
1 TAAATATTGTGTTTTACATAAATA
*
29127381 TAAATATT-TG-TTTATATAAATA
1 TAAATATTGTGTTTTACATAAATA
29127403 T
1 T
29127404 TTACTTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 12 0.55
23 2 0.09
24 8 0.36
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (24 bp):
TAAATATTGTGTTTTACATAAATA
Found at i:29127411 original size:16 final size:16
Alignment explanation
Indices: 29127378--29127413 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
29127368 TTTTACATAA
**
29127378 ATATAAATATTTGTTT
1 ATATAAATATTTACTT
29127394 ATATAAATATTTACTT
1 ATATAAATATTTACTT
29127410 ATAT
1 ATAT
29127414 TAATTTATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (16 bp):
ATATAAATATTTACTT
Found at i:29127427 original size:6 final size:6
Alignment explanation
Indices: 29127408--29127451 Score: 74
Period size: 6 Copynumber: 7.7 Consensus size: 6
29127398 AAATATTTAC
29127408 TTATA- TTA-AT TTATAT TTATAT TTATAT TTATAT TTATAT TTAT
1 TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TTAT
29127452 TTGCTAACAT
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
4 1 0.03
5 6 0.16
6 30 0.81
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
TTATAT
Found at i:29128878 original size:9 final size:9
Alignment explanation
Indices: 29128864--29128927 Score: 51
Period size: 9 Copynumber: 7.0 Consensus size: 9
29128854 GAAATTATAA
29128864 AAAAATTAT
1 AAAAATTAT
*
29128873 AAAAATTACA
1 AAAAATTA-T
*
29128883 AAGAAATCAT
1 AA-AAATTAT
*
29128893 TAAAATTAT
1 AAAAATTAT
29128902 -AAAATTAT
1 AAAAATTAT
*
29128910 TAAAATT-T
1 AAAAATTAT
29128918 ATAAAATTAT
1 A-AAAATTAT
29128928 TAGAAAGTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
8 9 0.20
9 26 0.59
10 4 0.09
11 5 0.11
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (9 bp):
AAAAATTAT
Found at i:29128880 original size:20 final size:20
Alignment explanation
Indices: 29128855--29128905 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
29128845 GTTTATTATG
*
29128855 AAATTATAAAAAAATTATAA
1 AAATTATAAAAAAATCATAA
* * *
29128875 AAATTACAAAGAAATCATTA
1 AAATTATAAAAAAATCATAA
29128895 AAATTATAAAA
1 AAATTATAAAA
29128906 TTATTAAAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (20 bp):
AAATTATAAAAAAATCATAA
Found at i:29128906 original size:8 final size:8
Alignment explanation
Indices: 29128893--29128927 Score: 52
Period size: 8 Copynumber: 4.1 Consensus size: 8
29128883 AAGAAATCAT
29128893 TAAAATTA
1 TAAAATTA
29128901 TAAAATTA
1 TAAAATTA
29128909 TTAAAATTTA
1 -TAAAA-TTA
29128919 TAAAATTA
1 TAAAATTA
29128927 T
1 T
29128928 TAGAAAGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 12 0.48
9 10 0.40
10 3 0.12
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (8 bp):
TAAAATTA
Found at i:29128921 original size:18 final size:17
Alignment explanation
Indices: 29128886--29128929 Score: 70
Period size: 18 Copynumber: 2.5 Consensus size: 17
29128876 AATTACAAAG
*
29128886 AAATCATTAAAATTATA
1 AAATTATTAAAATTATA
29128903 AAATTATTAAAATTTATA
1 AAATTATTAAAA-TTATA
29128921 AAATTATTA
1 AAATTATTA
29128930 GAAAGTAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATTATTAAAATTATA
Found at i:29132996 original size:20 final size:21
Alignment explanation
Indices: 29132949--29132999 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
29132939 ATAAAGTTTT
29132949 GGTATCGATAAAATTTTAATA
1 GGTATCGATAAAATTTTAATA
* * *
29132970 AGTATCGATATAATTTTCA-A
1 GGTATCGATAAAATTTTAATA
29132990 GGTATCGATA
1 GGTATCGATA
29133000 CTTATTATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 10 0.38
21 16 0.62
ACGTcount: A:0.39, C:0.08, G:0.16, T:0.37
Consensus pattern (21 bp):
GGTATCGATAAAATTTTAATA
Found at i:29137890 original size:18 final size:18
Alignment explanation
Indices: 29137859--29137895 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
29137849 ACAAACAAAA
* *
29137859 ATAAACACAGAAATAAAC
1 ATAAAAACAAAAATAAAC
29137877 ATAAAAACAAAAATAAAC
1 ATAAAAACAAAAATAAAC
29137895 A
1 A
29137896 CACATAAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.73, C:0.14, G:0.03, T:0.11
Consensus pattern (18 bp):
ATAAAAACAAAAATAAAC
Found at i:29142299 original size:16 final size:16
Alignment explanation
Indices: 29142278--29142319 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
29142268 GAATTTAGAA
29142278 GAATTTTTGAATTAGT
1 GAATTTTTGAATTAGT
* *
29142294 GAATTTTGCGATTTAGT
1 GAATTTT-TGAATTAGT
29142311 GAATTTTTG
1 GAATTTTTG
29142320 CGATTTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.26, C:0.02, G:0.21, T:0.50
Consensus pattern (16 bp):
GAATTTTTGAATTAGT
Found at i:29142309 original size:17 final size:18
Alignment explanation
Indices: 29142289--29142326 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
29142279 AATTTTTGAA
29142289 TTAGTGAA-TTTTGCGAT
1 TTAGTGAATTTTTGCGAT
29142306 TTAGTGAATTTTTGCGAT
1 TTAGTGAATTTTTGCGAT
29142324 TTA
1 TTA
29142327 AAAAGAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.24, C:0.05, G:0.21, T:0.50
Consensus pattern (18 bp):
TTAGTGAATTTTTGCGAT
Found at i:29143618 original size:46 final size:46
Alignment explanation
Indices: 29143547--29143731 Score: 291
Period size: 46 Copynumber: 4.0 Consensus size: 46
29143537 CATGGCAAAG
*
29143547 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGATTCGGTGAAGAAAACCATACTGAGT
29143593 TGTGAAAAGTAGGTATGGTGATTCGGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGATTCGGTGAAGAAAACCATACTGAGT
* * *
29143639 TATGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGATTCGGTGAAGAAAACCATACTGAGT
* * *
29143685 TGTGAAAACTAGGTATGGT-ATTTCCGTGAAGAAAGCCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGA-TTCGGTGAAGAAAACCATACTGAGT
29143731 T
1 T
29143732 ATAGCAATGT
Statistics
Matches: 129, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
46 129 1.00
ACGTcount: A:0.34, C:0.10, G:0.28, T:0.28
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTGATTCGGTGAAGAAAACCATACTGAGT
Found at i:29145794 original size:29 final size:29
Alignment explanation
Indices: 29145757--29145865 Score: 94
Period size: 29 Copynumber: 3.8 Consensus size: 29
29145747 CAATCAGAGA
*
29145757 TAGATAGCCAGTAAGGCATCCACGGATAG
1 TAGATAGCCAGTAAGACATCCACGGATAG
* * ** *
29145786 TAGATAGCCAATAAGGCATCCATAGATAA
1 TAGATAGCCAGTAAGACATCCACGGATAG
** ** *
29145815 TAGATAGTAAGTAAGATGTCCACGAAT-G
1 TAGATAGCCAGTAAGACATCCACGGATAG
*
29145843 ATAGATAGCTAGTAAGACATCCA
1 -TAGATAGCCAGTAAGACATCCA
29145866 TTCACAAATA
Statistics
Matches: 61, Mismatches: 18, Indels: 2
0.75 0.22 0.02
Matches are distributed among these distances:
29 61 1.00
ACGTcount: A:0.40, C:0.17, G:0.22, T:0.21
Consensus pattern (29 bp):
TAGATAGCCAGTAAGACATCCACGGATAG
Found at i:29146080 original size:26 final size:26
Alignment explanation
Indices: 29146051--29146136 Score: 82
Period size: 26 Copynumber: 3.3 Consensus size: 26
29146041 GCCACAGAGG
*
29146051 CTCTTTAATAGAATCAGCTAAAAAAA
1 CTCTTTAATAGAATCAGCCAAAAAAA
* * * **
29146077 CTCTTTAATAGGATTAGCCAGAAAGG
1 CTCTTTAATAGAATCAGCCAAAAAAA
* * **
29146103 CTCTTTAATAGAATAAGCCACAAAGG
1 CTCTTTAATAGAATCAGCCAAAAAAA
29146129 CTCTTTAA
1 CTCTTTAA
29146137 CAGGAAATGG
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 51 1.00
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (26 bp):
CTCTTTAATAGAATCAGCCAAAAAAA
Found at i:29146133 original size:52 final size:52
Alignment explanation
Indices: 29146038--29146141 Score: 136
Period size: 52 Copynumber: 2.0 Consensus size: 52
29146028 TATAACATAG
* * * *
29146038 TTAGCCACAGAGGCTCTTTAATAGAATCAGCTAAAAAAACTCTTTAATAGGA
1 TTAGCCACAAAGGCTCTTTAATAGAATAAGCCAAAAAAACTCTTTAACAGGA
* * **
29146090 TTAGCCAGAAAGGCTCTTTAATAGAATAAGCCACAAAGGCTCTTTAACAGGA
1 TTAGCCACAAAGGCTCTTTAATAGAATAAGCCAAAAAAACTCTTTAACAGGA
29146142 AATGGTGTTT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.25
Consensus pattern (52 bp):
TTAGCCACAAAGGCTCTTTAATAGAATAAGCCAAAAAAACTCTTTAACAGGA
Found at i:29149287 original size:26 final size:26
Alignment explanation
Indices: 29149235--29149328 Score: 125
Period size: 26 Copynumber: 3.6 Consensus size: 26
29149225 ACACTATTTC
* * * *
29149235 CTATTAAATAGCCTTTGTGGCTAATT
1 CTATTAAAGAGCCTTTGTTGTTGATT
* *
29149261 CTGTCAAAGAGCCTTTGTTGTTGATT
1 CTATTAAAGAGCCTTTGTTGTTGATT
29149287 CTATTAAAGAGCCTTTGTTGTTGATT
1 CTATTAAAGAGCCTTTGTTGTTGATT
*
29149313 CTATTAAAAAGCCTTT
1 CTATTAAAGAGCCTTT
29149329 ATGACTAACT
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 59 1.00
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.43
Consensus pattern (26 bp):
CTATTAAAGAGCCTTTGTTGTTGATT
Found at i:29155684 original size:18 final size:18
Alignment explanation
Indices: 29155661--29155695 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
29155651 CAAAAGTAGT
*
29155661 AAGCATCAAAATAGTTTC
1 AAGCATAAAAATAGTTTC
29155679 AAGCATAAAAATAGTTT
1 AAGCATAAAAATAGTTT
29155696 GGAGCGTCGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.29
Consensus pattern (18 bp):
AAGCATAAAAATAGTTTC
Found at i:29160467 original size:34 final size:35
Alignment explanation
Indices: 29160423--29160489 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
29160413 CAGTAAAATA
29160423 TTTTCCGTAAAATGATTT-CGGGAAAATATTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* *
29160457 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
29160490 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:29163148 original size:56 final size:50
Alignment explanation
Indices: 29163083--29163260 Score: 191
Period size: 50 Copynumber: 3.5 Consensus size: 50
29163073 GGTAAAGAGA
* **
29163083 CCCATGTAAGACCATGTCTGGGATATGGCATTGGCATCATTGAAGTTATGAGAGGT
1 CCCATGTAAGACCATGTCTGGGATATGGCATTGGCA-C--CG-A--TATGAGAACT
* *
29163139 CCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACT
1 CCCATGTAAGACCATGTCTGGGATATGGCATTGGCACCGATATGAGAACT
* **
29163189 CCCATGTAAGACCATATCTGGGATATGGCATTGGCA---ATACAAGAAACAT
1 CCCATGTAAGACCATGTCTGGGATATGGCATTGGCACCGATATGAG-AAC-T
29163238 CCCATGTAAGACCATGTCTGGGA
1 CCCATGTAAGACCATGTCTGGGA
29163261 CATGAATTTG
Statistics
Matches: 109, Mismatches: 11, Indels: 11
0.83 0.08 0.08
Matches are distributed among these distances:
47 5 0.05
48 3 0.03
49 23 0.21
50 41 0.38
52 1 0.01
53 1 0.01
55 1 0.01
56 34 0.31
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.24
Consensus pattern (50 bp):
CCCATGTAAGACCATGTCTGGGATATGGCATTGGCACCGATATGAGAACT
Found at i:29169295 original size:40 final size:40
Alignment explanation
Indices: 29169251--29169475 Score: 242
Period size: 40 Copynumber: 5.7 Consensus size: 40
29169241 GCTCCTCGTT
* * * *
29169251 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGTA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
29169291 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
29169331 CAAATGCCTTCGGGACTTAACCCGGATTTAGAAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
29169371 GAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
29169410 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
* *
29169451 TAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
29169476 CATCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
38 2 0.01
39 31 0.19
40 115 0.72
41 12 0.08
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:29169392 original size:119 final size:120
Alignment explanation
Indices: 29169252--29169475 Score: 278
Period size: 119 Copynumber: 1.9 Consensus size: 120
29169242 CTCCTCGTTC
* *
29169252 AAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGTACAAATGCCTTCGGGA-CTTAACCC
1 AAATGCCTTCGGGACATAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACCC
* *
29169314 GGATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGAAACTCGCAG
63 GGATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGAAACTCGCAG
* **
29169372 AAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AAATGCCTTCGGGACATAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGGA
* * * *
29169436 TATGGTCACTTAGCATAAAGCCTTCGGGACTTAGCCCGGA
66 TATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
29169476 CATCATTCAA
Statistics
Matches: 89, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
118 5 0.06
119 63 0.71
120 21 0.24
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.25
Consensus pattern (120 bp):
AAATGCCTTCGGGACATAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGAAACTCGCAG
Found at i:29177206 original size:40 final size:40
Alignment explanation
Indices: 29177162--29177384 Score: 262
Period size: 40 Copynumber: 5.7 Consensus size: 40
29177152 GCTCCTCGTT
* *
29177162 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAATTCGCA
* * *
29177202 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAATTCGCA
* *
29177242 CAAATGCCTTCGGGACTTAACCCGGAT-TAGT-ACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAATTCGCA
29177280 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAAT-TCGCA
* * * *
29177319 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGT-AATTCGCA
29177360 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
29177385 CATCATTCAA
Statistics
Matches: 162, Mismatches: 12, Indels: 18
0.84 0.06 0.09
Matches are distributed among these distances:
37 10 0.06
38 28 0.17
39 20 0.12
40 91 0.56
41 12 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAATTCGCA
Found at i:29177344 original size:117 final size:118
Alignment explanation
Indices: 29177162--29177384 Score: 294
Period size: 117 Copynumber: 1.9 Consensus size: 118
29177152 GCTCCTCGTT
*
29177162 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
29177227 ATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTAGTACTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTAGTACTCGCA
* **
29177280 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGT-ATCTCGCACAAATGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
* * *
29177341 CGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
63 CGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
29177385 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
116 6 0.07
117 64 0.70
118 22 0.24
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (118 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTAGTACTCGCA
Found at i:29181084 original size:50 final size:50
Alignment explanation
Indices: 29180934--29181126 Score: 138
Period size: 50 Copynumber: 3.7 Consensus size: 50
29180924 ATTTGGGTAA
* * * **
29180934 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAAGTTATG
1 AGAGGTCCCCTGTAAGACCATGTCTGAGACATGGCA-TGG-A-CACCG-AG--ATG
* ** *
29180990 AGAGG-CCCCATGTAAGACCATGTCTGGGACATGGTGTTGACACCGAGATG
1 AGAGGTCCCC-TGTAAGACCATGTCTGAGACATGGCATGGACACCGAGATG
* * *
29181040 AGAGGTCCCCCGTAAGACCATG-CTTGAGACATGGCATGGGCACCGATATG
1 AGAGGTCCCCTGTAAGACCATGTC-TGAGACATGGCATGGACACCGAGATG
** * * * *
29181090 AGAACTCCCATGTAAGACCATATCTGGGATATGGCAT
1 AGAGGTCCCCTGTAAGACCATGTCTGAGACATGGCAT
29181127 TGATAGTAAA
Statistics
Matches: 112, Mismatches: 21, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
49 1 0.01
50 67 0.60
51 5 0.04
52 2 0.02
53 3 0.03
54 1 0.01
55 5 0.04
56 28 0.25
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCCTGTAAGACCATGTCTGAGACATGGCATGGACACCGAGATG
Found at i:29181303 original size:25 final size:25
Alignment explanation
Indices: 29181261--29181322 Score: 99
Period size: 25 Copynumber: 2.5 Consensus size: 25
29181251 TATGTTCCAT
*
29181261 GAAAGTTCAGGTAAAAGCATAAATA
1 GAAATTTCAGGTAAAAGCATAAATA
29181286 GCAAATTT-AGGTAAAAGCATAAATA
1 G-AAATTTCAGGTAAAAGCATAAATA
29181311 GAAATTTCAGGT
1 GAAATTTCAGGT
29181323 GAGTTATAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
24 6 0.18
25 23 0.68
26 5 0.15
ACGTcount: A:0.48, C:0.08, G:0.19, T:0.24
Consensus pattern (25 bp):
GAAATTTCAGGTAAAAGCATAAATA
Found at i:29190188 original size:16 final size:17
Alignment explanation
Indices: 29190161--29190192 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
29190151 AGTATAGGGG
29190161 CAAAATAGTAATTTTTC
1 CAAAATAGTAATTTTTC
29190178 CAAAATA-TAATTTTT
1 CAAAATAGTAATTTTT
29190193 GTTAAATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.44
Consensus pattern (17 bp):
CAAAATAGTAATTTTTC
Found at i:29190639 original size:24 final size:24
Alignment explanation
Indices: 29190607--29190700 Score: 145
Period size: 24 Copynumber: 3.9 Consensus size: 24
29190597 TCCGACCCAC
*
29190607 AGCTTGTGAGAGCATACCA-ATTAT
1 AGCTCGTGAGAGCATA-CAGATTAT
29190631 AGCTCGTGAGAGCATACAGATTAT
1 AGCTCGTGAGAGCATACAGATTAT
*
29190655 AGCTCATGAGAGCATACAGATTAT
1 AGCTCGTGAGAGCATACAGATTAT
*
29190679 AGCTCGTGAGAGCATACTGATT
1 AGCTCGTGAGAGCATACAGATT
29190701 TATGACTTGT
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
23 2 0.03
24 63 0.97
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (24 bp):
AGCTCGTGAGAGCATACAGATTAT
Found at i:29195717 original size:15 final size:15
Alignment explanation
Indices: 29195672--29195710 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
29195662 ATTGACAATG
29195672 TTCTCAGTAGATTCT
1 TTCTCAGTAGATTCT
* *
29195687 TTCTCAGCAGCTTCT
1 TTCTCAGTAGATTCT
29195702 TTCTCAGTA
1 TTCTCAGTA
29195711 TTTTCTTCCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.18, C:0.26, G:0.13, T:0.44
Consensus pattern (15 bp):
TTCTCAGTAGATTCT
Found at i:29200033 original size:17 final size:17
Alignment explanation
Indices: 29200003--29200039 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
29199993 ATGCACTAAC
* *
29200003 ATGAATATGTAATGACA
1 ATGAAAATGCAATGACA
29200020 ATGAAAATGCAATGACA
1 ATGAAAATGCAATGACA
29200037 ATG
1 ATG
29200040 TATACTTATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.08, G:0.19, T:0.24
Consensus pattern (17 bp):
ATGAAAATGCAATGACA
Found at i:29211121 original size:24 final size:21
Alignment explanation
Indices: 29211058--29211112 Score: 87
Period size: 19 Copynumber: 2.7 Consensus size: 21
29211048 ATCTTCAAGG
*
29211058 ATATGTAATCTTAGATAT--T
1 ATATGCAATCTTAGATATGAT
29211077 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
29211098 ATATGCAATCTTAGA
1 ATATGCAATCTTAGA
29211113 AGATATGATT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
19 17 0.52
21 16 0.48
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:29212143 original size:22 final size:23
Alignment explanation
Indices: 29212109--29212152 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
29212099 TATTTACTAT
*
29212109 TTGTATTATTTA-TATGCCATTG
1 TTGTATTATTTATTATGACATTG
29212131 TTGTATT-TGTTATTATGACATT
1 TTGTATTAT-TTATTATGACATT
29212153 CATACATACA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 1 0.05
22 10 0.53
23 8 0.42
ACGTcount: A:0.23, C:0.07, G:0.14, T:0.57
Consensus pattern (23 bp):
TTGTATTATTTATTATGACATTG
Found at i:29215796 original size:26 final size:26
Alignment explanation
Indices: 29215761--29215827 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 26
29215751 ATAAAATACA
**
29215761 TCTTTGCATTCATTTTTGAGCTAA-TAT
1 TCTTT-CATTC-TTTTTGAAATAATTAT
* *
29215788 TTTTTCATTCCTTTTGAAATAATTAT
1 TCTTTCATTCTTTTTGAAATAATTAT
29215814 TCTTTCATTCTTTT
1 TCTTTCATTCTTTT
29215828 GGATTTTCTT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
25 9 0.27
26 20 0.61
27 4 0.12
ACGTcount: A:0.21, C:0.15, G:0.06, T:0.58
Consensus pattern (26 bp):
TCTTTCATTCTTTTTGAAATAATTAT
Found at i:29218138 original size:44 final size:43
Alignment explanation
Indices: 29218090--29218233 Score: 101
Period size: 44 Copynumber: 3.3 Consensus size: 43
29218080 AATAGCAGAT
*
29218090 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGATACTAGC
1 CTTGCCTCCCTGCACCGACAGCGAAGCAGATCGAAGATAC-AGC
**** * * ** * *
29218134 CTTGCCTCCCTGGGTTG-CAGCGGAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTCCCTGCACCGACAGCGAAGCAGATCGAAGATA-CAG-C
* * * * *
29218178 CTTGCCTTCCTGCACCGAAAGCAAAGCAAATCGAAGACACCAGC
1 CTTGCCTCCCTGCACCGACAGCGAAGCAGATCGAAGATA-CAGC
29218222 CTTGCCTCCCTG
1 CTTGCCTCCCTG
29218234 GGTTGTAACA
Statistics
Matches: 69, Mismatches: 28, Indels: 6
0.67 0.27 0.06
Matches are distributed among these distances:
43 18 0.26
44 36 0.52
45 15 0.22
ACGTcount: A:0.26, C:0.31, G:0.23, T:0.19
Consensus pattern (43 bp):
CTTGCCTCCCTGCACCGACAGCGAAGCAGATCGAAGATACAGC
Found at i:29218213 original size:88 final size:88
Alignment explanation
Indices: 29217999--29218649 Score: 901
Period size: 88 Copynumber: 7.4 Consensus size: 88
29217989 TGAAGATAAT
* * * * *
29217999 AGATCTTTCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACATCAACCTTGCCTCCCTGGGTTG
1 AGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTG
*
29218064 TAGCGGAGCAGGTT-AAAATAGC
66 CAGCGGAGCAGGTTAAAAATAGC
* *
29218086 AGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGATACTAGCCTTGCCTCCCTGGGTTG
1 AGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTG
29218151 CAGCGGAGCAGGTTAAAAATAGC
66 CAGCGGAGCAGGTTAAAAATAGC
* * *
29218174 AGATCTTGCCTTCCTGCACCGAAAGCAAAGCAAATCGAAGACACCAGCCTTGCCTCCCTGGGTTG
1 AGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTG
* * * *
29218239 TAACAGAGTAGGTTAAAAATAGC
66 CAGCGGAGCAGGTTAAAAATAGC
* * * * * *
29218262 AGATTTTG-CTTGCCTGCACCGACAGCAAAGTAGATCAAAGACACCAACTTTGCCTCCCTGGGTT
1 AGATCTTGCCTT-CCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* *
29218326 GTAGCGGAGCAGGTTAAAAATAGT
65 GCAGCGGAGCAGGTTAAAAATAGC
* * * *
29218350 AGATCTTGCCTTCCTGCACCAACAGCGAAGTAGATCGAAAACACCAGCCTTGCCTCCCTAGGTTG
1 AGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTG
*
29218415 CAGCAGAGCAGGTTAAAAATAGC
66 CAGCGGAGCAGGTTAAAAATAGC
* ** * *
29218438 AGATCTTGCCTTCTTGCACCGACAATGAAGCAGATCGAAGACACCATCCTTGCCTCCTTGGGTTG
1 AGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTG
* *
29218503 CAGCGAAACAGGTTAAAAATAGC
66 CAGCGGAGCAGGTTAAAAATAGC
* * *
29218526 AGAGCTTGCCTTCGTGTACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTG
1 AGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTG
*
29218591 CAGCGAAGCAGGTTAAAAATAGC
66 CAGCGGAGCAGGTTAAAAATAGC
* * *
29218614 ATATCTTGCGTTCCTGCACCGACAGTGAAGCAGATC
1 AGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATC
29218650 AATGACCCCA
Statistics
Matches: 496, Mismatches: 65, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
87 74 0.15
88 419 0.84
89 3 0.01
ACGTcount: A:0.29, C:0.26, G:0.24, T:0.22
Consensus pattern (88 bp):
AGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTG
CAGCGGAGCAGGTTAAAAATAGC
Found at i:29218597 original size:43 final size:43
Alignment explanation
Indices: 29218464--29218601 Score: 114
Period size: 43 Copynumber: 3.2 Consensus size: 43
29218454 CACCGACAAT
* *
29218464 GAAGCAGATCGAAGACACCATCCTTGCCTCCTTGGGTTGCAGC
1 GAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGC
* * ** * * * * * * ****
29218507 GAAACAGGTTAAAAATAGCAGAGCTTGCCTTCGTGTACCGACAGC
1 GAAGCAGATCGAAGACACCAG-CCTTGCCTCCCTGGGTTG-CAGC
29218552 GAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGC
1 GAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGC
29218595 GAAGCAG
1 GAAGCAG
29218602 GTTAAAAATA
Statistics
Matches: 64, Mismatches: 29, Indels: 4
0.66 0.30 0.04
Matches are distributed among these distances:
43 24 0.38
44 22 0.34
45 18 0.28
ACGTcount: A:0.28, C:0.28, G:0.27, T:0.18
Consensus pattern (43 bp):
GAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGC
Found at i:29219158 original size:44 final size:44
Alignment explanation
Indices: 29219103--29219214 Score: 172
Period size: 44 Copynumber: 2.5 Consensus size: 44
29219093 GAAGATGGCG
*
29219103 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-A
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACA
*
29219146 TAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACA
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACA
* *
29219191 GATCTTATCTCTCTGAAGTTGCAG
1 AATCTTATCTCCCTGAAGTTGCAG
29219215 CAGAGTAGAT
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
44 61 0.98
45 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACA
Found at i:29219706 original size:21 final size:21
Alignment explanation
Indices: 29219658--29219733 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
29219648 ATCTTCAAGG
*
29219658 ATATGTAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
*
29219677 ATATCCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
29219698 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
*
29219719 TTATGCAATCTTAGA
1 ATATGCAATCTTAGA
29219734 AGATATGATT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
19 17 0.33
21 34 0.67
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:29219755 original size:23 final size:24
Alignment explanation
Indices: 29219689--29219756 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 24
29219679 ATCCAATCTT
*
29219689 AGATATGATATATGCAATCTT---
1 AGATATGATTTATGCAATCTTAGA
29219710 AGATATGATTTATGCAATCTTAGA
1 AGATATGATTTATGCAATCTTAGA
*
29219734 AGATATGATTT-TGTAATCTTAGA
1 AGATATGATTTATGCAATCTTAGA
29219757 GATTTAATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.48
23 11 0.26
24 11 0.26
ACGTcount: A:0.37, C:0.07, G:0.16, T:0.40
Consensus pattern (24 bp):
AGATATGATTTATGCAATCTTAGA
Found at i:29226196 original size:18 final size:18
Alignment explanation
Indices: 29226175--29226214 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
29226165 ACATGCATTT
*
29226175 CATGAATTCCATGCAACC
1 CATGAATTCCATGCAAAC
* *
29226193 CATGGATTTCATGCAAAC
1 CATGAATTCCATGCAAAC
29226211 CATG
1 CATG
29226215 CATCTCATGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.25
Consensus pattern (18 bp):
CATGAATTCCATGCAAAC
Found at i:29226222 original size:18 final size:18
Alignment explanation
Indices: 29226184--29226226 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
29226174 TCATGAATTC
* * *
29226184 CATGCAACCCATGGATTT
1 CATGCAAACCATGCATCT
29226202 CATGCAAACCATGCATCT
1 CATGCAAACCATGCATCT
29226220 CATGCAA
1 CATGCAA
29226227 TATGATGCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.33, C:0.30, G:0.14, T:0.23
Consensus pattern (18 bp):
CATGCAAACCATGCATCT
Found at i:29226223 original size:27 final size:27
Alignment explanation
Indices: 29226166--29226225 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
29226156 TTATGCAAAA
*
29226166 CATGCATTTCATGAATTCCATGCAACC
1 CATGCATTTCATGAATACCATGCAACC
* * *
29226193 CATGGATTTCATGCAA-ACCATGCATCT
1 CATGCATTTCATG-AATACCATGCAACC
29226220 CATGCA
1 CATGCA
29226226 ATATGATGCA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
27 25 0.93
28 2 0.07
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.28
Consensus pattern (27 bp):
CATGCATTTCATGAATACCATGCAACC
Found at i:29232725 original size:18 final size:18
Alignment explanation
Indices: 29232640--29232728 Score: 88
Period size: 18 Copynumber: 4.9 Consensus size: 18
29232630 GGCATGCACT
*
29232640 CCATGCATTCCATACAAA
1 CCATGCATTCCATGCAAA
* ** *
29232658 ACATGTGTTCCATGTAAA
1 CCATGCATTCCATGCAAA
* * *
29232676 ACATGCATTTCATGCAAC
1 CCATGCATTCCATGCAAA
*
29232694 CCATGCATTTCATGCAAA
1 CCATGCATTCCATGCAAA
*
29232712 CCATGCATCCCATGCAA
1 CCATGCATTCCATGCAA
29232729 TATGCTGCAT
Statistics
Matches: 57, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 57 1.00
ACGTcount: A:0.34, C:0.29, G:0.11, T:0.26
Consensus pattern (18 bp):
CCATGCATTCCATGCAAA
Found at i:29245589 original size:26 final size:27
Alignment explanation
Indices: 29245546--29245614 Score: 81
Period size: 25 Copynumber: 2.6 Consensus size: 27
29245536 ATCAACGGTG
* *
29245546 ATGAAAAAATTATAAAAAATTATA-AA
1 ATGAAAAAATTATTAAAAATTACATAA
29245572 AT-AAAAAATTAATT-AAAATTACATAA
1 ATGAAAAAATT-ATTAAAAATTACATAA
*
29245598 ATGAAAAAAATATTAAA
1 ATGAAAAAATTATTAAA
29245615 TAATATTCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
25 16 0.44
26 11 0.31
27 9 0.25
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.28
Consensus pattern (27 bp):
ATGAAAAAATTATTAAAAATTACATAA
Found at i:29245615 original size:25 final size:25
Alignment explanation
Indices: 29245561--29245614 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
29245551 AAAATTATAA
* *
29245561 AAAATTATAAAATAAAAAATTAATT
1 AAAATTACAAAATAAAAAAATAATT
29245586 AAAATTACATAAATGAAAAAAAT-ATT
1 AAAATTACA-AAAT-AAAAAAATAATT
29245612 AAA
1 AAA
29245615 TAATATTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 8 0.32
26 10 0.40
27 7 0.28
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.28
Consensus pattern (25 bp):
AAAATTACAAAATAAAAAAATAATT
Found at i:29245633 original size:30 final size:29
Alignment explanation
Indices: 29245574--29245633 Score: 68
Period size: 30 Copynumber: 2.0 Consensus size: 29
29245564 ATTATAAAAT
* *
29245574 AAAAAATTAATTAAAATTACATAAATGAA
1 AAAAAATTAAATAAAATTACAAAAATGAA
*
29245603 AAAAATATTAAATAATATT-CAAAAATTGAA
1 AAAAA-ATTAAATAAAATTACAAAAA-TGAA
29245633 A
1 A
29245634 TTAACCCTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
29 10 0.38
30 16 0.62
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.28
Consensus pattern (29 bp):
AAAAAATTAAATAAAATTACAAAAATGAA
Found at i:29246340 original size:24 final size:24
Alignment explanation
Indices: 29246304--29246356 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
29246294 TCTTAATATA
* *
29246304 ATTTCAATTTGTTATGAAACATT-T
1 ATTTTAATGTGTT-TGAAACATTAT
*
29246328 ATTTTAATGTGTTTGATACATTAT
1 ATTTTAATGTGTTTGAAACATTAT
29246352 ATTTT
1 ATTTT
29246357 TTTAATTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 8 0.32
24 17 0.68
ACGTcount: A:0.30, C:0.06, G:0.09, T:0.55
Consensus pattern (24 bp):
ATTTTAATGTGTTTGAAACATTAT
Found at i:29257198 original size:13 final size:13
Alignment explanation
Indices: 29257182--29257234 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 13
29257172 TTTTAAAAAT
*
29257182 ACTTATCAAAAGC
1 ACTTTTCAAAAGC
*
29257195 ACTTTTCCACAA-C
1 ACTTTT-CAAAAGC
* *
29257208 ACCTTTCAAAAAC
1 ACTTTTCAAAAGC
29257221 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
29257234 A
1 A
29257235 TTGTTAAACT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
12 4 0.12
13 24 0.75
14 4 0.12
ACGTcount: A:0.42, C:0.28, G:0.04, T:0.26
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:29258715 original size:40 final size:40
Alignment explanation
Indices: 29258671--29258764 Score: 100
Period size: 40 Copynumber: 2.4 Consensus size: 40
29258661 GTAATTCTGA
* * * * **
29258671 TGGCTTGTCCACAATA-TTGCTAGCTTGTTTGCAATTTTGG
1 TGGCTTGTCCACAACACTAGC-AGCTTATTTACAATACTGG
* *
29258711 TGGCTTATCCACAACACTAGCAGTTTATTTACAATACTGG
1 TGGCTTGTCCACAACACTAGCAGCTTATTTACAATACTGG
29258751 TGGCTTGTCCACAA
1 TGGCTTGTCCACAA
29258765 AATGGTGTGT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
40 41 0.93
41 3 0.07
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.36
Consensus pattern (40 bp):
TGGCTTGTCCACAACACTAGCAGCTTATTTACAATACTGG
Found at i:29274489 original size:24 final size:24
Alignment explanation
Indices: 29274457--29274530 Score: 94
Period size: 24 Copynumber: 3.1 Consensus size: 24
29274447 ATGATATAAT
* *
29274457 AACCATTTCAATGATATCATTTTC
1 AACCATTTCAATGGTATCCTTTTC
* *
29274481 AACCTTTTCAATGGTATCCTTTTT
1 AACCATTTCAATGGTATCCTTTTC
* *
29274505 GACCATTTCATTGGTATCCTTTTC
1 AACCATTTCAATGGTATCCTTTTC
29274529 AA
1 AA
29274531 ACTTTTCCTT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.26, C:0.22, G:0.08, T:0.45
Consensus pattern (24 bp):
AACCATTTCAATGGTATCCTTTTC
Found at i:29275158 original size:23 final size:24
Alignment explanation
Indices: 29275127--29275183 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
29275117 ATGATATAAT
*
29275127 AACCATTTCAATGATAT-CATTTC
1 AACCTTTTCAATGATATCCATTTC
* *
29275150 AACCTTTTCAATGGTATCCTTTTC
1 AACCTTTTCAATGATATCCATTTC
*
29275174 GACCTTTTCA
1 AACCTTTTCA
29275184 TTGTTTCGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 15 0.52
24 14 0.48
ACGTcount: A:0.26, C:0.25, G:0.07, T:0.42
Consensus pattern (24 bp):
AACCTTTTCAATGATATCCATTTC
Found at i:29287765 original size:56 final size:52
Alignment explanation
Indices: 29287698--29287833 Score: 161
Period size: 50 Copynumber: 2.6 Consensus size: 52
29287688 AGAACCCATT
*
29287698 TAAGACCATGTCTGGGACATGGCATTGGCATTATTAAGGTTATAAGAGGTC-CCACG
1 TAAGACCATGTCTGGGACATGGCATTGGCA-TATCAA-G--ATAAGAGGTCTCC-CG
* * *
29287754 TAAGACCATGTCTGGGACATGGCGTTGG--TATCGAGATGAGAGGTCTCCCG
1 TAAGACCATGTCTGGGACATGGCATTGGCATATCAAGATAAGAGGTCTCCCG
*
29287804 TAAGACCATGTCTGGGACATGGCATGGGCA
1 TAAGACCATGTCTGGGACATGGCATTGGCA
29287834 CCGATATGAG
Statistics
Matches: 71, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
50 37 0.52
51 2 0.03
52 1 0.01
53 4 0.06
56 27 0.38
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (52 bp):
TAAGACCATGTCTGGGACATGGCATTGGCATATCAAGATAAGAGGTCTCCCG
Found at i:29287843 original size:50 final size:50
Alignment explanation
Indices: 29287742--29287878 Score: 150
Period size: 50 Copynumber: 2.7 Consensus size: 50
29287732 TAAGGTTATA
* * * *
29287742 AGAGGTC-CCACGTAAGACCATGTCTGGGACATGGCGTTGGTATCGAGATG
1 AGAGGTCTCC-CGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
*
29287792 AGAGGTCTCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCTCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
** ** * * *
29287842 AGAACTCTCATGTAAGACCATATTTGGGATATGGCAT
1 AGAGGTCTCCCGTAAGACCATGTCTGGGACATGGCAT
29287879 TTGCAGTACA
Statistics
Matches: 74, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
50 72 0.97
51 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.23
Consensus pattern (50 bp):
AGAGGTCTCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
Found at i:29288151 original size:12 final size:12
Alignment explanation
Indices: 29288134--29288184 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
29288124 ATGAGTTATT
29288134 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
29288146 TAAGTAAACAAG
1 TAAGTAAGCAAG
*
29288158 TAAG-AGAGTAAG
1 TAAGTA-AGCAAG
* *
29288170 TAAATAAGAAAG
1 TAAGTAAGCAAG
29288182 TAA
1 TAA
29288185 AGATCATGAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
11 1 0.03
12 30 0.94
13 1 0.03
ACGTcount: A:0.57, C:0.04, G:0.22, T:0.18
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:29288160 original size:20 final size:20
Alignment explanation
Indices: 29288135--29288173 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
29288125 TGAGTTATTT
29288135 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
29288155 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
29288174 TAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:29301060 original size:25 final size:25
Alignment explanation
Indices: 29301024--29301084 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
29301014 CTCCTAAATT
*
29301024 TTAATTTAATTATCTAAT-TTTTCA-A
1 TTAATTAAATTAT-TAATATTTT-ATA
*
29301049 TTTATTAAATTATTAATATTTTATA
1 TTAATTAAATTATTAATATTTTATA
29301074 TTAATTAAATT
1 TTAATTAAATT
29301085 TTTGAGAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
24 5 0.16
25 26 0.84
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.57
Consensus pattern (25 bp):
TTAATTAAATTATTAATATTTTATA
Found at i:29301980 original size:3 final size:3
Alignment explanation
Indices: 29301972--29301996 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
29301962 GATCCCAAAA
29301972 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
29301997 TCCCGTAGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:29315924 original size:40 final size:40
Alignment explanation
Indices: 29315873--29316337 Score: 770
Period size: 40 Copynumber: 11.6 Consensus size: 40
29315863 CATTTGAATG
29315873 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
29315913 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
29315953 ATATCCGGGCTAAGACCTGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
29315993 ATATCCGGGCTAAGACCTGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
29316033 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
29316073 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
29316113 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* * *
29316153 ATATCCGGGATAAGACCCGAAGGCATTTGTGCAAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
29316193 ATATCCGGGCTAAGACCCGACGGCGTTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
29316233 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAA-TTGAT
* * *
29316273 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
29316313 ATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
29316338 ATTGAGCTTG
Statistics
Matches: 400, Mismatches: 23, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
39 2 0.00
40 397 0.99
41 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
Found at i:29319076 original size:27 final size:27
Alignment explanation
Indices: 29319046--29319116 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
29319036 CTAGCTAACA
* * *
29319046 CCCATGTCTAGTGTC-CCAACGGAGTTC
1 CCCATGTATAATGTCTCCAA-GGACTTC
*
29319073 CCCATGTATAATGTCTCGAAGGACTTC
1 CCCATGTATAATGTCTCCAAGGACTTC
*
29319100 CCCATGTTTAATGTCTC
1 CCCATGTATAATGTCTC
29319117 AGTGGACTTC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
27 35 0.92
28 3 0.08
ACGTcount: A:0.21, C:0.30, G:0.18, T:0.31
Consensus pattern (27 bp):
CCCATGTATAATGTCTCCAAGGACTTC
Found at i:29319123 original size:27 final size:27
Alignment explanation
Indices: 29319070--29319153 Score: 91
Period size: 27 Copynumber: 3.1 Consensus size: 27
29319060 CCCAACGGAG
*
29319070 TTCCCCATGTATAATGTCTCGAAGGAC
1 TTCCCCATGTTTAATGTCTCGAAGGAC
*
29319097 TTCCCCATGTTTAATGTCTC-AGTGGAC
1 TTCCCCATGTTTAATGTCTCGA-AGGAC
* * *
29319124 TTCCTCGTGTTTAGTGTCTCGATAGG-C
1 TTCCCCATGTTTAATGTCTCGA-AGGAC
29319151 TTC
1 TTC
29319154 TAAAGGATGT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
26 1 0.02
27 44 0.92
28 3 0.06
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.37
Consensus pattern (27 bp):
TTCCCCATGTTTAATGTCTCGAAGGAC
Found at i:29319330 original size:40 final size:43
Alignment explanation
Indices: 29319228--29319343 Score: 139
Period size: 40 Copynumber: 2.7 Consensus size: 43
29319218 CACATGACGC
* *
29319228 CATAGCATCTTTCAACTATGGTCTTACTCATTTCTATCATGATGT
1 CATAACATCTTTCAGCTATGGTCTTACTCA--TCTATCATGATGT
* * *
29319273 CATAACATATTTTAGCTATGATCTTACTCAT-T-T-ATGATGT
1 CATAACATCTTTCAGCTATGGTCTTACTCATCTATCATGATGT
*
29319313 CATAACATCTTTCAGCTATGGCCTTACTCAT
1 CATAACATCTTTCAGCTATGGTCTTACTCAT
29319344 AATTGGCTTA
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
40 34 0.55
41 1 0.02
42 1 0.02
43 1 0.02
45 25 0.40
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.41
Consensus pattern (43 bp):
CATAACATCTTTCAGCTATGGTCTTACTCATCTATCATGATGT
Found at i:29323654 original size:62 final size:62
Alignment explanation
Indices: 29323580--29323704 Score: 223
Period size: 62 Copynumber: 2.0 Consensus size: 62
29323570 CCGCTATAAG
* *
29323580 TAAGTGTCTACATCCATAAACAAGCCTGAAAGCATGATAGGGTCTCTACATGAATAAGTCTC
1 TAAGTGTCTACATCCATAAAAAAGCCTGAAAGCATGATAGAGTCTCTACATGAATAAGTCTC
*
29323642 TAAGTGTGTACATCCATAAAAAAGCCTGAAAGCATGATAGAGTCTCTACATGAATAAGTCTC
1 TAAGTGTCTACATCCATAAAAAAGCCTGAAAGCATGATAGAGTCTCTACATGAATAAGTCTC
29323704 T
1 T
29323705 GCATGAGGAG
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (62 bp):
TAAGTGTCTACATCCATAAAAAAGCCTGAAAGCATGATAGAGTCTCTACATGAATAAGTCTC
Found at i:29324131 original size:61 final size:61
Alignment explanation
Indices: 29324044--29324197 Score: 222
Period size: 61 Copynumber: 2.5 Consensus size: 61
29324034 TAAAAGTGAT
* * * *
29324044 GCCTTTGTAGTT-TTTTTTGTTACATGTAAGCCCTAGTGGCAAAACCTTTTGTATGTGGAA
1 GCCTTTGTGGTTGTTCTTTGTTACATGTAAGCCCTAGTGGCAAAACCTGTTATATGTGGAA
* *
29324104 GCCTTTGTGGTTGTTCTTTATTACATGTGAGCCCTAGTGGCAAAACCTGTTATATGTGGAA
1 GCCTTTGTGGTTGTTCTTTGTTACATGTAAGCCCTAGTGGCAAAACCTGTTATATGTGGAA
*
29324165 GCCTTT-TAGGTTGTTCTTTGTTACATGTCAGCC
1 GCCTTTGT-GGTTGTTCTTTGTTACATGTAAGCC
29324198 TTTATGGCTA
Statistics
Matches: 84, Mismatches: 8, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
60 12 0.14
61 72 0.86
ACGTcount: A:0.19, C:0.17, G:0.23, T:0.41
Consensus pattern (61 bp):
GCCTTTGTGGTTGTTCTTTGTTACATGTAAGCCCTAGTGGCAAAACCTGTTATATGTGGAA
Found at i:29324373 original size:30 final size:30
Alignment explanation
Indices: 29324317--29324394 Score: 97
Period size: 30 Copynumber: 2.6 Consensus size: 30
29324307 TCATCTGGTG
*
29324317 GCCCTTGTGGCTATCTAATATTGTATGGAT
1 GCCCTTGTGGCTATCTAATATCGTATGGAT
*
29324347 GCCCTTGTGGCTATCTAAT-TACGTATGGGT
1 GCCCTTGTGGCTATCTAATAT-CGTATGGAT
*
29324377 G-CTTCTGTGGCTATCTAA
1 GCCCT-TGTGGCTATCTAA
29324395 GTCAAGTGGA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
29 3 0.07
30 40 0.93
ACGTcount: A:0.18, C:0.19, G:0.24, T:0.38
Consensus pattern (30 bp):
GCCCTTGTGGCTATCTAATATCGTATGGAT
Found at i:29329514 original size:42 final size:42
Alignment explanation
Indices: 29329382--29330001 Score: 332
Period size: 42 Copynumber: 14.7 Consensus size: 42
29329372 ATCTGTTTAA
* * *
29329382 TGCAACTTCAGAGAGATAAGATCTATAATTTTTAATCCACTCCAC
1 TGCAACTTCAGGGAGATAAGATC--TGA-TTTTAATCCGCTCCAC
* * *** * **
29329427 TGCAACCTCAGGGAGATAGGA-CTAGA-TGCGATCTGCTCTTC
1 TGCAACTTCAGGGAGATAAGATCT-GATTTTAATCCGCTCCAC
* * *
29329468 TGCAACTTTAGAGAGATAAGATCTGATTTTAATCCGCTTCAC
1 TGCAACTTCAGGGAGATAAGATCTGATTTTAATCCGCTCCAC
* * ** * **
29329510 TGCAACTTCAGGGAGACAA-AACTGGA-TGCAATCTGCTCTTC
1 TGCAACTTCAGGGAGATAAGATCT-GATTTTAATCCGCTCCAC
* *
29329551 TGCAACTTCAGAGAGATAAGATCTTATTTTAATCCGCTCCAC
1 TGCAACTTCAGGGAGATAAGATCTGATTTTAATCCGCTCCAC
* * ** *
29329593 TGTAACTTCAGGGAGATAGGAT-TGATTTCTTCTGTCTGCTCCAC
1 TGCAACTTCAGGGAGATAAGATCTGA-TT-TT-AATCCGCTCCAC
* *** * * *
29329637 TACAACTTCAGGGAGATAAGA-CTGGA-TGCGATCTGCACTAC
1 TGCAACTTCAGGGAGATAAGATCT-GATTTTAATCCGCTCCAC
* * *
29329678 TACAACTTCAGAGAGATAAGATCTAATTTTAATCCGCTCCAC
1 TGCAACTTCAGGGAGATAAGATCTGATTTTAATCCGCTCCAC
* * ** **
29329720 TGAAACTTCAGGGAGATAGGAT-TGATTTCTTCTGTCTTCTCCAC
1 TGCAACTTCAGGGAGATAAGATCTGA-TT-TT-AATCCGCTCCAC
* * ** ** *
29329764 TACAACTTCAGGGAAATAAGA-CTAGA-TGCAATCTACTCTAC
1 TGCAACTTCAGGGAGATAAGATCT-GATTTTAATCCGCTCCAC
* * * *
29329805 TGCAACTTCAGAGAGGTAAGATCTAATTTTAATCCACTCCAC
1 TGCAACTTCAGGGAGATAAGATCTGATTTTAATCCGCTCCAC
* * ** * *
29329847 TGCAACTTCAGGGAGATAGGAT-TTATTTCTTTTGTCTGCTCTAC
1 TGCAACTTCAGGGAGATAAGATCTGA--T-TTTAATCCGCTCCAC
* * *** * **
29329891 TACAACTTCAGGGAGATAA-AACTGGA-TACGATCTGCTCTTC
1 TGCAACTTCAGGGAGATAAGATCT-GATTTTAATCCGCTCCAC
* *
29329932 TGCAACTTCAGAGAGATAAGATCTGATTTTAATCCACTCCAC
1 TGCAACTTCAGGGAGATAAGATCTGATTTTAATCCGCTCCAC
* *
29329974 TGCAACTTCAGGGGGATAGGAT-TGATTT
1 TGCAACTTCAGGGAGATAAGATCTGATTT
29330002 AACCGGTTTG
Statistics
Matches: 424, Mismatches: 124, Indels: 58
0.70 0.20 0.10
Matches are distributed among these distances:
41 153 0.36
42 156 0.37
43 9 0.02
44 83 0.20
45 23 0.05
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (42 bp):
TGCAACTTCAGGGAGATAAGATCTGATTTTAATCCGCTCCAC
Found at i:29329521 original size:83 final size:83
Alignment explanation
Indices: 29329336--29329864 Score: 381
Period size: 83 Copynumber: 6.3 Consensus size: 83
29329326 CTCTAGTCTA
* * *
29329336 CTCCACTACAACTTCAGAGAGATAAGACTGGATGCGATCTG-T-TTAATGCAACTTCAGAGAGAT
1 CTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTT-CTGCAACTTCAGAGAGAT
*
29329399 AAGATCTATAATTTTTAATCCA
65 AAGATC--TAA-TTTTAATCCG
* * * *
29329421 CTCCACTGCAACCTCAGGGAGATAGGACTAGATGCGATCTGCTCTTCTGCAACTTTAGAGAGATA
1 CTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTTCTGCAACTTCAGAGAGATA
*
29329486 AGATCTGATTTTAATCCG
66 AGATCTAATTTTAATCCG
* * * *
29329504 CTTCACTGCAACTTCAGGGAGACAAAACTGGATGCAATCTGCTCTTCTGCAACTTCAGAGAGATA
1 CTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTTCTGCAACTTCAGAGAGATA
*
29329569 AGATCTTATTTTAATCCG
66 AGATCTAATTTTAATCCG
* * * * ** * *
29329587 CTCCACTGTAACTTCAGGGAGATAGGA-TTGATTTCTTCTG-TCTGCTCCACTACAACTTCAGGG
1 CTCCACTGCAACTTCAGGGAGATAAGACTGGA----TGC-GATCTGCTCTTCTGCAACTTCAGAG
* *** *
29329650 AGATAAGA-CTGGA-TGCGATCTG
61 AGATAAGATCT-AATTTTAATCCG
* * * * * *** * ** * *
29329672 CACTACTACAACTTCAGAGAGATAAGATCT-AATTTTAATCCGCTCCACTGAAACTTCAGGGAGA
1 CTCCACTGCAACTTCAGGGAGATAAGA-CTGGA-TGCGATCTGCTCTTCTGCAACTTCAGAGAGA
* * ** **
29329736 TAGGAT-TGATTTCTTCTGTCTT
64 TAAGATCT-AATT-TT-AATCCG
* * * * * * *
29329758 CTCCACTACAACTTCAGGGAAATAAGACTAGATGCAATCTACTCTACTGCAACTTCAGAGAGGTA
1 CTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTTCTGCAACTTCAGAGAGATA
*
29329823 AGATCTAATTTTAATCCA
66 AGATCTAATTTTAATCCG
29329841 CTCCACTGCAACTTCAGGGAGATA
1 CTCCACTGCAACTTCAGGGAGATA
29329865 GGATTTATTT
Statistics
Matches: 350, Mismatches: 77, Indels: 36
0.76 0.17 0.08
Matches are distributed among these distances:
82 3 0.01
83 160 0.46
84 5 0.01
85 97 0.28
86 82 0.23
87 3 0.01
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.29
Consensus pattern (83 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTTCTGCAACTTCAGAGAGATA
AGATCTAATTTTAATCCG
Found at i:29329633 original size:169 final size:168
Alignment explanation
Indices: 29329339--29329657 Score: 389
Period size: 169 Copynumber: 1.9 Consensus size: 168
29329329 TAGTCTACTC
* * *
29329339 CACTACAACTTCAGAGAGATAAGACTGGATGCGATCTGTTTAATGCAACTTCAGAGAGATAAGAT
1 CACTACAACTTCAGAGAGACAAAACTGGATGCAATCTGTTTAATGCAACTTCAGAGAGATAAGAT
**
29329404 CTATAATTTTTAATCCACTCCACTGCAACCTCAGGGAGATAGGACTAGATGCGATCTGCTCTTCT
66 CTATAATTTTTAATCCACTCCACTGCAACCTCAGGGAGATAGGACTAGATGCGATCTGCTCCACT
* *
29329469 GCAACTTTAGAGAGATAAGATCTGATTTTAATCCGCTT
131 ACAACTTCAGAGAGATAAGATCTGATTTTAATCCGCTT
* * *
29329507 CACTGCAACTTCAGGGAGACAAAACTGGATGCAATCTGCTCTT-CTGCAACTTCAGAGAGATAAG
1 CACTACAACTTCAGAGAGACAAAACTGGATGCAATCTG-T-TTAATGCAACTTCAGAGAGATAAG
* * * * *
29329571 ATCT-T-A-TTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGA-TTGATTTCTTCTG-TCTG
64 ATCTATAATTTTTAATCCACTCCACTGCAACCTCAGGGAGATAGGACTAGA----TGC-GATCTG
*
29329631 CTCCACTACAACTTCAGGGAGATAAGA
124 CTCCACTACAACTTCAGAGAGATAAGA
29329658 CTGGATGCGA
Statistics
Matches: 128, Mismatches: 16, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
165 3 0.02
166 34 0.27
167 1 0.01
168 34 0.27
169 53 0.41
170 3 0.02
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.29
Consensus pattern (168 bp):
CACTACAACTTCAGAGAGACAAAACTGGATGCAATCTGTTTAATGCAACTTCAGAGAGATAAGAT
CTATAATTTTTAATCCACTCCACTGCAACCTCAGGGAGATAGGACTAGATGCGATCTGCTCCACT
ACAACTTCAGAGAGATAAGATCTGATTTTAATCCGCTT
Found at i:29329645 original size:44 final size:44
Alignment explanation
Indices: 29329586--29329909 Score: 178
Period size: 44 Copynumber: 7.6 Consensus size: 44
29329576 ATTTTAATCC
** *
29329586 GCTCCACTGTAACTTCAGGGAGATAGGATTGATTTCTTCTGTCT
1 GCTCCACTACAACTTCAGGGAGATAAGATTGATTTCTTCTGTCT
* *
29329630 GCTCCACTACAACTTCAGGGAGATAAGACTGGA----TGC-GATCT
1 GCTCCACTACAACTTCAGGGAGATAAGA-TTGATTTCTTCTG-TCT
* * * * ** *
29329671 GCACTACTACAACTTCAGAGAGATAAGATCT-AATT-TT-AATCC
1 GCTCCACTACAACTTCAGGGAGATAAGAT-TGATTTCTTCTGTCT
*
29329713 GCTCCACTGA-AACTTCAGGGAGATAGGATTGATTTCTTCTGTCT
1 GCTCCACT-ACAACTTCAGGGAGATAAGATTGATTTCTTCTGTCT
* * * * * *
29329757 TCTCCACTACAACTTCAGGGAAATAAGACTAGA-TGCAATCT-ACT
1 GCTCCACTACAACTTCAGGGAGATAAGA-TTGATTTC-TTCTGTCT
* * * * ** *
29329801 -CT--ACTGCAACTTCAGAGAGGTAAGATCT-AATT-TT-AATCC
1 GCTCCACTACAACTTCAGGGAGATAAGAT-TGATTTCTTCTGTCT
* * * * *
29329840 ACTCCACTGCAACTTCAGGGAGATAGGATTTATTTCTTTTGTCT
1 GCTCCACTACAACTTCAGGGAGATAAGATTGATTTCTTCTGTCT
*
29329884 GCTCTACTACAACTTCAGGGAGATAA
1 GCTCCACTACAACTTCAGGGAGATAA
29329910 AACTGGATAC
Statistics
Matches: 209, Mismatches: 48, Indels: 46
0.69 0.16 0.15
Matches are distributed among these distances:
39 2 0.01
40 7 0.03
41 52 0.25
42 52 0.25
43 9 0.04
44 78 0.37
45 9 0.04
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (44 bp):
GCTCCACTACAACTTCAGGGAGATAAGATTGATTTCTTCTGTCT
Found at i:29329664 original size:127 final size:127
Alignment explanation
Indices: 29329507--29330001 Score: 756
Period size: 127 Copynumber: 3.9 Consensus size: 127
29329497 TAATCCGCTT
* * *
29329507 CACTGCAACTTCAGGGAGACAAAACTGGATGCAATCTGCTCTTCTGCAACTTCAGAGAGATAAGA
1 CACTACAACTTCAGGGAGATAAAACTGGATGCAATCTGCTCTACTGCAACTTCAGAGAGATAAGA
* * *
29329572 TCTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTC
66 TCTAATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTC
* * * *
29329634 CACTACAACTTCAGGGAGATAAGACTGGATGCGATCTGCACTACTACAACTTCAGAGAGATAAGA
1 CACTACAACTTCAGGGAGATAAAACTGGATGCAATCTGCTCTACTGCAACTTCAGAGAGATAAGA
* * *
29329699 TCTAATTTTAATCCGCTCCACTGAAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTTCTC
66 TCTAATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTC
* * * * *
29329761 CACTACAACTTCAGGGAAATAAGACTAGATGCAATCTACTCTACTGCAACTTCAGAGAGGTAAGA
1 CACTACAACTTCAGGGAGATAAAACTGGATGCAATCTGCTCTACTGCAACTTCAGAGAGATAAGA
* *
29329826 TCTAATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTTATTTCTTTTGTCTGCTC
66 TCTAATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTC
* * * *
29329888 TACTACAACTTCAGGGAGATAAAACTGGATACGATCTGCTCTTCTGCAACTTCAGAGAGATAAGA
1 CACTACAACTTCAGGGAGATAAAACTGGATGCAATCTGCTCTACTGCAACTTCAGAGAGATAAGA
* *
29329953 TCTGATTTTAATCCACTCCACTGCAACTTCAGGGGGATAGGATTGATTT
66 TCTAATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTGATTT
29330002 AACCGGTTTG
Statistics
Matches: 334, Mismatches: 34, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
127 334 1.00
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (127 bp):
CACTACAACTTCAGGGAGATAAAACTGGATGCAATCTGCTCTACTGCAACTTCAGAGAGATAAGA
TCTAATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTC
Found at i:29329847 original size:210 final size:210
Alignment explanation
Indices: 29329331--29329864 Score: 544
Period size: 210 Copynumber: 2.5 Consensus size: 210
29329321 GCTATCTCTA
* * * * * *
29329331 GTCTACTCCACTACAACTTCAGAGAGATAAGACTGGATGCGATCTGTTTAATGCAACTTCAGAGA
1 GTCTTCTCCACTACAACTTCAGAGAGATAAGACTAGATGCAATCTCTCTACTGCAACTTCAGAGA
* *
29329396 GATAAGATCTATAATTTTTAATCCACTCCACTGCAACCTCAGGGAGATAGGACTAGATGCGATCT
66 GATAAGATC--TAA-TTTTAATCCACTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCT
* * * * * * *
29329461 GCTCTTCTGCAACTTTAGAGAGATAAGATCTGATTTTAATCCGCTTCACTGCAACTTCAGGGAGA
128 GCACTACTACAACTTCAGAGAGATAAGATCTAATTTTAATCCGCTCCACTGAAACTTCAGGGAGA
29329526 CAAAACTGGATGCAATCT
193 CAAAACTGGATGCAATCT
* * * ** * * *
29329544 G-C-TCT--TCTGCAACTTCAGAGAGATAAGATCTTA-TTTTAATCCGCTCCACTGTAACTTCAG
1 GTCTTCTCCACTACAACTTCAGAGAGATAAGA-C-TAGATGCAAT-CTCTCTACTGCAACTTCAG
* * * ** ** * *
29329604 GGAGATAGGAT-TGATTTCTTCTGTCTGCTCCACTACAACTTCAGGGAGATAAGACTGGATGCGA
63 AGAGATAAGATCT-AATT-TT-AATCCACTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGA
29329668 TCTGCACTACTACAACTTCAGAGAGATAAGATCTAATTTTAATCCGCTCCACTGAAACTTCAGGG
125 TCTGCACTACTACAACTTCAGAGAGATAAGATCTAATTTTAATCCGCTCCACTGAAACTTCAGGG
* ** * * *
29329733 AGATAGGA-TTGATTTC-TTCT
190 AGACAAAACTGGA-TGCAATCT
* *
29329753 GTCTTCTCCACTACAACTTCAGGGAAATAAGACTAGATGCAATCTACTCTACTGCAACTTCAGAG
1 GTCTTCTCCACTACAACTTCAGAGAGATAAGACTAGATGCAATCT-CTCTACTGCAACTTCAGAG
*
29329818 AGGTAAGATCTAATTTTAATCCACTCCACTGCAACTTCAGGGAGATA
65 AGATAAGATCTAATTTTAATCCACTCCACTGCAACTTCAGGGAGATA
29329865 GGATTTATTT
Statistics
Matches: 250, Mismatches: 57, Indels: 31
0.74 0.17 0.09
Matches are distributed among these distances:
208 3 0.01
209 31 0.12
210 130 0.52
211 33 0.13
212 32 0.13
213 21 0.08
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.29
Consensus pattern (210 bp):
GTCTTCTCCACTACAACTTCAGAGAGATAAGACTAGATGCAATCTCTCTACTGCAACTTCAGAGA
GATAAGATCTAATTTTAATCCACTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCA
CTACTACAACTTCAGAGAGATAAGATCTAATTTTAATCCGCTCCACTGAAACTTCAGGGAGACAA
AACTGGATGCAATCT
Found at i:29330918 original size:15 final size:16
Alignment explanation
Indices: 29330887--29330919 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
29330877 TATCTTAAAA
*
29330887 AAGAATGAAGTATTCC
1 AAGAATGAAGTAATCC
29330903 AAGAAT-AAGTAATCC
1 AAGAATGAAGTAATCC
29330918 AA
1 AA
29330920 TATAAATAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.52, C:0.12, G:0.15, T:0.21
Consensus pattern (16 bp):
AAGAATGAAGTAATCC
Found at i:29334725 original size:16 final size:16
Alignment explanation
Indices: 29334700--29334734 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
29334690 TTCTATAATG
29334700 AAATGCCATGCAGTCA
1 AAATGCCATGCAGTCA
*
29334716 AAATGTCATGCAGTCA
1 AAATGCCATGCAGTCA
29334732 AAA
1 AAA
29334735 CAAAACACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (16 bp):
AAATGCCATGCAGTCA
Found at i:29336542 original size:22 final size:23
Alignment explanation
Indices: 29336517--29336561 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
29336507 TGAATAGTGT
*
29336517 AAGAATATATATACATAT-TATA
1 AAGAATATATAAACATATATATA
*
29336539 AAGAATGTATAAACATATATATA
1 AAGAATATATAAACATATATATA
29336562 GATTATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (23 bp):
AAGAATATATAAACATATATATA
Found at i:29336616 original size:61 final size:61
Alignment explanation
Indices: 29336536--29336696 Score: 161
Period size: 61 Copynumber: 2.6 Consensus size: 61
29336526 TATACATATT
* * *
29336536 ATAAAGAATGTATAAACATATATATAGAT-TAT-AAAA-TATGAAAAATGTATAGATATTATAA-
1 ATAAA-AATGTATATACATATATATA-ATATATAAAAACTATG-AAAAT-AATA-ATATAATAAT
29336597 A
61 A
*
29336598 ATATAAATGTATATACATATATA-AATATATAAAAACTATGAAAATAATAATATAATAATA
1 ATAAAAATGTATATACATATATATAATATATAAAAACTATGAAAATAATAATATAATAATA
**
29336658 ATAAAAGATGTATATGTATATATATACATATTATAAAAA
1 ATAAAA-ATGTATATACATATATATA-ATA-TATAAAAA
29336697 ATATATAAAC
Statistics
Matches: 84, Mismatches: 7, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
59 10 0.12
60 13 0.15
61 41 0.49
62 9 0.11
63 3 0.04
64 8 0.10
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.34
Consensus pattern (61 bp):
ATAAAAATGTATATACATATATATAATATATAAAAACTATGAAAATAATAATATAATAATA
Found at i:29336704 original size:154 final size:156
Alignment explanation
Indices: 29336521--29336832 Score: 488
Period size: 154 Copynumber: 2.0 Consensus size: 156
29336511 TAGTGTAAGA
* *
29336521 ATATATATACATATTATAAAGAATGTATAAACATATATATAGATTATAAAATATGAAAAATGTAT
1 ATATATATACATATTATAAAAAATATATAAACATATATATAGATTATAAAATATGAAAAATGTAT
* * *
29336586 AGATATTATAAAATATAAATGTATATACATATATA-A-ATA-TATAAAAACTATGAA-AATAATA
66 AAATATTATAAAATATAAATGTATATACATATATATATAAACTATAAAAA-TA-AAATAATAATA
29336647 ATATAATAATAATAAAAGATGTATATGT
129 ATATAATAATAATAAAAGATGTATATGT
* *
29336675 ATATATATACATATTATAAAAAATATATAAACATATATATAGATTATATAATATGGAAAATGTAT
1 ATATATATACATATTATAAAAAATATATAAACATATATATAGATTATAAAATATGAAAAATGTAT
*
29336740 AAATATTATAAAATATAAATGTATATACATATATATATAAACTATGAAAATAAAATAATAATAAT
66 AAATATTATAAAATATAAATGTATATACATATATATATAAACTATAAAAATAAAATAATAATAAT
* *
29336805 ATGATAATAATAAAATATGTATATGT
131 ATAATAATAATAAAAGATGTATATGT
29336831 AT
1 AT
29336833 TTAAAAAACA
Statistics
Matches: 144, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
154 95 0.66
155 3 0.02
156 39 0.27
157 7 0.05
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.35
Consensus pattern (156 bp):
ATATATATACATATTATAAAAAATATATAAACATATATATAGATTATAAAATATGAAAAATGTAT
AAATATTATAAAATATAAATGTATATACATATATATATAAACTATAAAAATAAAATAATAATAAT
ATAATAATAATAAAAGATGTATATGT
Found at i:29336895 original size:3 final size:3
Alignment explanation
Indices: 29336887--29336921 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
29336877 ATGCGTAAGT
29336887 ATA ATA ATA ATA ATAA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA A
29336922 AAGTGTAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:29336908 original size:16 final size:16
Alignment explanation
Indices: 29336887--29336918 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
29336877 ATGCGTAAGT
29336887 ATAATAATAATAATAA
1 ATAATAATAATAATAA
29336903 ATAATAATAATAATAA
1 ATAATAATAATAATAA
29336919 TAAAAGTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
ATAATAATAATAATAA
Found at i:29337528 original size:16 final size:17
Alignment explanation
Indices: 29337509--29337540 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
29337499 AAACAGGAAG
29337509 AAAAATAAAA-AAAATT
1 AAAAATAAAACAAAATT
29337525 AAAAATAAAACAAAAT
1 AAAAATAAAACAAAAT
29337541 AATCACCTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (17 bp):
AAAAATAAAACAAAATT
Found at i:29341773 original size:10 final size:10
Alignment explanation
Indices: 29341758--29341800 Score: 61
Period size: 10 Copynumber: 4.3 Consensus size: 10
29341748 TTAAAATATT
29341758 AAAAATTATA
1 AAAAATTATA
29341768 AAAAA-TATA
1 AAAAATTATA
*
29341777 TAAAAATTGTA
1 -AAAAATTATA
29341788 AAAAATTATA
1 AAAAATTATA
29341798 AAA
1 AAA
29341801 GTTTATAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 4 0.14
10 22 0.76
11 3 0.10
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (10 bp):
AAAAATTATA
Found at i:29341809 original size:20 final size:20
Alignment explanation
Indices: 29341750--29341800 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
29341740 ATAAAAAATT
29341750 AAAATAT-TAAAAATTATAA
1 AAAATATATAAAAATTATAA
*
29341769 AAAATATATAAAAATTGTAA
1 AAAATATATAAAAATTATAA
29341789 AAAAT-TATAAAA
1 AAAATATATAAAA
29341801 GTTTATAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (20 bp):
AAAATATATAAAAATTATAA
Found at i:29342162 original size:7 final size:7
Alignment explanation
Indices: 29342126--29342150 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
29342116 TTCTAAAAAA
29342126 TTTTATT
1 TTTTATT
29342133 TTTTATT
1 TTTTATT
29342140 TTTTATT
1 TTTTATT
29342147 TTTT
1 TTTT
29342151 CTAATTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTATT
Found at i:29342356 original size:89 final size:89
Alignment explanation
Indices: 29342166--29342366 Score: 235
Period size: 89 Copynumber: 2.3 Consensus size: 89
29342156 TTTTAATAAG
* * * *
29342166 AGCAGGGGCTTAATTGC-TTTTTTGAAAAATTTTGAGGGACTTTTTGATGTATTTTGAAAGTTCA
1 AGCAGGGGATTAATTGCTTTTTTTGAAAAAGTTTGAAGGACTTTTTGATGCATTTTGAAAGTTCA
* *
29342230 AGTACCCAATTGAGTGACAAAAAA
66 AGTACCCAATTGAGTCAAAAAAAA
* * * * ** *
29342254 GGCAAGGGTTTAATTGCTTTTTTTGAATAAGTTTGAAGTCCTTTTTTATGCATTTTGAAAGTTCA
1 AGCAGGGGATTAATTGCTTTTTTTGAAAAAGTTTGAAGGACTTTTTGATGCATTTTGAAAGTTCA
**
29342319 AGTATTCAATTGAGTCCAAAAAAAA
66 AGTACCCAATTGAGT-CAAAAAAAA
*
29342344 AG-AGGGGATTAATTGTTTTTTTT
1 AGCAGGGGATTAATTGCTTTTTTT
29342367 TAATTAAATG
Statistics
Matches: 93, Mismatches: 18, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
88 14 0.15
89 71 0.76
90 8 0.09
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.39
Consensus pattern (89 bp):
AGCAGGGGATTAATTGCTTTTTTTGAAAAAGTTTGAAGGACTTTTTGATGCATTTTGAAAGTTCA
AGTACCCAATTGAGTCAAAAAAAA
Found at i:29345066 original size:34 final size:34
Alignment explanation
Indices: 29345028--29345134 Score: 78
Period size: 34 Copynumber: 3.1 Consensus size: 34
29345018 TCCACTCAAG
*
29345028 ATTAATGTATGTCACACTATGAACATCACAAGTA
1 ATTAATGTATGACACACTATGAACATCACAAGTA
** * * * *
29345062 ATTAAATCCAT-ACATAGTCTATCATCCA-CTCAAG--
1 ATT-AATGTATGACACA--CTATGA-ACATCACAAGTA
*
29345096 ATTAATGTATGCCACACTATGAACATCACAAGTA
1 ATTAATGTATGACACACTATGAACATCACAAGTA
29345130 ATTAA
1 ATTAA
29345135 ATCCATAAAC
Statistics
Matches: 51, Mismatches: 14, Indels: 16
0.63 0.17 0.20
Matches are distributed among these distances:
31 2 0.04
32 10 0.20
33 5 0.10
34 17 0.33
35 5 0.10
36 10 0.20
37 2 0.04
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (34 bp):
ATTAATGTATGACACACTATGAACATCACAAGTA
Found at i:29345112 original size:68 final size:68
Alignment explanation
Indices: 29345003--29345141 Score: 260
Period size: 68 Copynumber: 2.0 Consensus size: 68
29344993 CGAGTGACGA
*
29345003 ATACATAGTCCATCATCCACTCAAGATTAATGTATGTCACACTATGAACATCACAAGTAATTAAA
1 ATACATAGTCCATCATCCACTCAAGATTAATGTATGCCACACTATGAACATCACAAGTAATTAAA
29345068 TCC
66 TCC
*
29345071 ATACATAGTCTATCATCCACTCAAGATTAATGTATGCCACACTATGAACATCACAAGTAATTAAA
1 ATACATAGTCCATCATCCACTCAAGATTAATGTATGCCACACTATGAACATCACAAGTAATTAAA
29345136 TCC
66 TCC
29345139 ATA
1 ATA
29345142 AACCAATCTA
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 69 1.00
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.28
Consensus pattern (68 bp):
ATACATAGTCCATCATCCACTCAAGATTAATGTATGCCACACTATGAACATCACAAGTAATTAAA
TCC
Found at i:29345999 original size:5 final size:5
Alignment explanation
Indices: 29345989--29346024 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
29345979 AATTAGAATC
29345989 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT A
29346025 TTTAAAGTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:29351937 original size:24 final size:26
Alignment explanation
Indices: 29351891--29351938 Score: 73
Period size: 24 Copynumber: 1.9 Consensus size: 26
29351881 AACTGGGTAC
*
29351891 AGTTTCATTTGAATTTTTTACTTTAT
1 AGTTACATTTGAATTTTTTACTTTAT
29351917 AGTTACATTTG-A-TTTTTACTTT
1 AGTTACATTTGAATTTTTTACTTT
29351939 TGGCTATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 10 0.48
25 1 0.05
26 10 0.48
ACGTcount: A:0.23, C:0.08, G:0.08, T:0.60
Consensus pattern (26 bp):
AGTTACATTTGAATTTTTTACTTTAT
Found at i:29353518 original size:19 final size:19
Alignment explanation
Indices: 29353494--29353539 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
29353484 CTCTCTTAGG
29353494 GTTAGGGTTT-TTAAAGTTT
1 GTTAGGGTTTATT-AAGTTT
*
29353513 GTTA-GGTTTATTAATTTT
1 GTTAGGGTTTATTAAGTTT
29353531 GTTAGGGTT
1 GTTAGGGTT
29353540 AGGGTTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.20, C:0.00, G:0.26, T:0.54
Consensus pattern (19 bp):
GTTAGGGTTTATTAAGTTT
Found at i:29356101 original size:9 final size:9
Alignment explanation
Indices: 29356063--29356120 Score: 55
Period size: 9 Copynumber: 6.4 Consensus size: 9
29356053 TTTGGTTAAA
*
29356063 AATTAATCG
1 AATTAACCG
*
29356072 AATTAACCA
1 AATTAACCG
* **
29356081 AACTGCCCG
1 AATTAACCG
29356090 AATTAACCG
1 AATTAACCG
29356099 AATT-ACCTG
1 AATTAACC-G
29356108 AATTAACCG
1 AATTAACCG
29356117 AATT
1 AATT
29356121 GAATCCCTAC
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
8 3 0.08
9 32 0.84
10 3 0.08
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:29361715 original size:117 final size:118
Alignment explanation
Indices: 29361503--29361729 Score: 402
Period size: 117 Copynumber: 1.9 Consensus size: 118
29361493 AATTATGTGT
* *
29361503 TTGAATCGAAATGAACGAAACGGATAGAATTAGAGAAGTGAGAAACATTCAGGAATGATTATGGT
1 TTGAATCGAAATGAACGAAACGAATAGAAATAGAGAAGTGAGAAACATTCAGGAATGATTATGGT
*
29361568 TTTCTCTGAAATGGAGAAATTGAATCATTTGGAAATGAATGTAGGTTTCTCAA
66 TTTCTCTGAAATGGAGAAATTGAATCATTTGGAAATGAATATAGGTTTCTCAA
* *
29361621 TTGAA-CGAAATGAATGAAATGAATAGAAATAGAGAAGTGAGAAACATTCAGGAATGATTATGGT
1 TTGAATCGAAATGAACGAAACGAATAGAAATAGAGAAGTGAGAAACATTCAGGAATGATTATGGT
29361685 TTTCTCTGAAATGGAGAAATTGAATCATTTGGAAATGAATATAGG
66 TTTCTCTGAAATGGAGAAATTGAATCATTTGGAAATGAATATAGG
29361730 AATGATAATG
Statistics
Matches: 104, Mismatches: 5, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
117 99 0.95
118 5 0.05
ACGTcount: A:0.41, C:0.07, G:0.24, T:0.28
Consensus pattern (118 bp):
TTGAATCGAAATGAACGAAACGAATAGAAATAGAGAAGTGAGAAACATTCAGGAATGATTATGGT
TTTCTCTGAAATGGAGAAATTGAATCATTTGGAAATGAATATAGGTTTCTCAA
Found at i:29361733 original size:57 final size:57
Alignment explanation
Indices: 29361670--29361786 Score: 189
Period size: 57 Copynumber: 2.1 Consensus size: 57
29361660 AGAAACATTC
* * * *
29361670 AGGAATGATTATGGTTTTCTCTGAAATGGAGAAATTGAATCATTTGGAAATGAATAT
1 AGGAATGATAATGGTTCTCTCTGAAATAGAGAAATTGAATCATTTGGAAATAAATAT
*
29361727 AGGAATGATAATGGTTCTCTCTGAAATAGAGAAATTGAATCATTTGGAAATAAATGT
1 AGGAATGATAATGGTTCTCTCTGAAATAGAGAAATTGAATCATTTGGAAATAAATAT
29361784 AGG
1 AGG
29361787 TTTTCTCTGA
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.38, C:0.06, G:0.23, T:0.32
Consensus pattern (57 bp):
AGGAATGATAATGGTTCTCTCTGAAATAGAGAAATTGAATCATTTGGAAATAAATAT
Done.